Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chrUn_random
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10571689
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 1662808 characters in sequence are not A, C, G, or T
File 6 of 30
Found at i:1973237 original size:20 final size:20
Alignment explanation
Indices: 1973212--1973249 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1973202 TTTTAGCCCC
1973212 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
1973232 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
1973250 GGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:1973255 original size:20 final size:20
Alignment explanation
Indices: 1973212--1973257 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
1973202 TTTTAGCCCC
*
1973212 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTAGA
*
1973232 ATTTGACTTATTGGAGTAGG
1 ATTTGACTTATTGGAGTAGA
1973252 ATTTGA
1 ATTTGA
1973258 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTAGA
Found at i:1974877 original size:10 final size:10
Alignment explanation
Indices: 1974848--1974877 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1974838 CATATCATGT
*
1974848 TATTGAATTT
1 TATTGAATTG
1974858 TATTGAATTG
1 TATTGAATTG
1974868 TATTGAATTG
1 TATTGAATTG
1974878 GTGGATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (10 bp):
TATTGAATTG
Found at i:1976936 original size:21 final size:21
Alignment explanation
Indices: 1976907--1976947 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1976897 CTAAGAAACT
*
1976907 GAAAAAGAAAAAGAGAATGAA
1 GAAAAAGAAAAAGAAAATGAA
*
1976928 GAAATAGAAAAAGAAAATGA
1 GAAAAAGAAAAAGAAAATGA
1976948 TCAAGAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.07
Consensus pattern (21 bp):
GAAAAAGAAAAAGAAAATGAA
Found at i:1977663 original size:2 final size:2
Alignment explanation
Indices: 1977651--1977691 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
1977641 TTTTAATTAT
*
1977651 TA TA T- TA TA TA TA TA TT TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1977691 T
1 T
1977692 TTCATGATCG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:1977676 original size:21 final size:20
Alignment explanation
Indices: 1977647--1977692 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
1977637 TGCTTTTTAA
1977647 TTATTATATTATATATATAT
1 TTATTATATTATATATATAT
1977667 TTATATATATTATATATATAT
1 TTAT-TATATTATATATATAT
*
1977688 ATATT
1 TTATT
1977693 TCATGATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATTATATTATATATATAT
Found at i:1977979 original size:116 final size:114
Alignment explanation
Indices: 1977753--1977986 Score: 378
Period size: 116 Copynumber: 2.0 Consensus size: 114
1977743 TTTTCTTAGT
1977753 GCACATATTTAAGGAGAGCACATATCTAAAGGGAGAAATCCCCAAATCTGCACATAAATATTTTT
1 GCACATATTTAAGGAGAGCACATATCTAAAGGGAGAAATCCCCAAATCTGCACATAAATATTTTT
*
1977818 TATATAGACATTGCACTCTTAATCTAAAAGTGTTTTGTCATCATCAAAAA
66 TATATAAACATTGCACTCTTAATCTAAAAGTGTTTTG-CATCATCAAAAA
*
1977868 NGCACATATTTAAGGAGAGCACATATCTAAAGGGAGAAATCCCCAAATCTGCACATAGAGCTATT
1 -GCACATATTTAAGGAGAGCACATATCTAAAGGGAGAAATCCCCAAATCTGCACATA-A-ATATT
* *
1977933 TTCTTATATAAACATTGCACTTTTAATCTAGAAGTGTTTTGACATCATCAAAAA
63 TT-TTATATAAACATTGCACTCTTAATCTAAAAGTGTTTTG-CATCATCAAAAA
1977987 AAGAGGAAAA
Statistics
Matches: 110, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
116 56 0.51
117 1 0.01
118 6 0.05
119 47 0.43
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (114 bp):
GCACATATTTAAGGAGAGCACATATCTAAAGGGAGAAATCCCCAAATCTGCACATAAATATTTTT
TATATAAACATTGCACTCTTAATCTAAAAGTGTTTTGCATCATCAAAAA
Found at i:1980022 original size:27 final size:27
Alignment explanation
Indices: 1979985--1980044 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
1979975 CTTAGTTTTC
*
1979985 AGAAGAAGAGGATGAAGAAACT-GAAAA
1 AGAAAAAGAGGATGAAGAAA-TAGAAAA
1980012 AGAAAAAGAGGATGAAGAAATAGAAAA
1 AGAAAAAGAGGATGAAGAAATAGAAAA
*
1980039 GGAAAA
1 AGAAAA
1980045 TGATCTAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.63, C:0.02, G:0.28, T:0.07
Consensus pattern (27 bp):
AGAAAAAGAGGATGAAGAAATAGAAAA
Found at i:1980745 original size:2 final size:2
Alignment explanation
Indices: 1980738--1980766 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1980728 AAACAATGCT
1980738 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1980767 TATTTTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1984714 original size:19 final size:19
Alignment explanation
Indices: 1984690--1984727 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1984680 CTACCAAACC
*
1984690 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
1984709 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
1984728 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:1986141 original size:19 final size:18
Alignment explanation
Indices: 1986117--1986171 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
1986107 CGACCTTTCC
1986117 TTCTTTCTTTTTTTTTATT
1 TTCTTTCTTTTTTTTT-TT
1986136 TTCTTTACTTATTTTTATTTT
1 TTCTTT-CTT-TTTTT-TTTT
* *
1986157 TTATTTATTTTTTTT
1 TTCTTTCTTTTTTTT
1986172 ACGTAACCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 1 0.03
19 11 0.35
20 5 0.16
21 12 0.39
22 2 0.06
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (18 bp):
TTCTTTCTTTTTTTTTTT
Found at i:1986164 original size:17 final size:19
Alignment explanation
Indices: 1986128--1986168 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
1986118 TCTTTCTTTT
1986128 TTTTTATTTTCTTTACTTA
1 TTTTTATTTTCTTTACTTA
*
1986147 TTTTTA-TTT-TTTATTTA
1 TTTTTATTTTCTTTACTTA
1986164 TTTTT
1 TTTTT
1986169 TTTACGTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
18 3 0.14
19 6 0.29
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTATTTTCTTTACTTA
Found at i:1993296 original size:24 final size:25
Alignment explanation
Indices: 1993255--1993303 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
1993245 CAATTCTTAT
1993255 GATTTGTATATCTCTG-TTGGATTC
1 GATTTGTATATCTCTGTTTGGATTC
* * *
1993279 GATTTTTATTTCTTTGTTTGGATTC
1 GATTTGTATATCTCTGTTTGGATTC
1993304 TCTCCCCTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.14, C:0.10, G:0.18, T:0.57
Consensus pattern (25 bp):
GATTTGTATATCTCTGTTTGGATTC
Found at i:1994004 original size:2 final size:2
Alignment explanation
Indices: 1993997--1994077 Score: 104
Period size: 2 Copynumber: 43.5 Consensus size: 2
1993987 CAATGTGCTG
1993997 TA TA TA TA -A T- TA TA TA GTA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
1994038 TA -A TA T- TA TA TA TA TA T- TA TA TA -A TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1994075 TA T
1 TA T
1994078 CTTTTCATGA
Statistics
Matches: 71, Mismatches: 0, Indels: 16
0.82 0.00 0.18
Matches are distributed among these distances:
1 7 0.10
2 62 0.87
3 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1999472 original size:26 final size:23
Alignment explanation
Indices: 1999415--1999470 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
1999405 AGGTCTCACA
*
1999415 AGCTTCTTCTCACATTTTCCAGT
1 AGCTTCTTCTCACATTTTCCAGC
*
1999438 AGCTTCTTCTCATATTTTCCAGC
1 AGCTTCTTCTCACATTTTCCAGC
1999461 AGCTTCTTCT
1 AGCTTCTTCT
1999471 TCTTCTTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.16, C:0.30, G:0.09, T:0.45
Consensus pattern (23 bp):
AGCTTCTTCTCACATTTTCCAGC
Found at i:2000336 original size:42 final size:43
Alignment explanation
Indices: 2000290--2000371 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
2000280 ACGATGATCT
*
2000290 AGCTATATGCGTGT-GGGAGTGCACATGAGCTGATGATGACCC
1 AGCTATATGCGAGTAGGGAGTGCACATGAGCTGATGATGACCC
*
2000332 AGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATGATGA
1 AGCTATATGCGAGTAGGGAGTGCACATGAGCTGATGATGA
2000372 TGAGATGGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
42 12 0.32
43 25 0.68
ACGTcount: A:0.26, C:0.16, G:0.35, T:0.23
Consensus pattern (43 bp):
AGCTATATGCGAGTAGGGAGTGCACATGAGCTGATGATGACCC
Found at i:2000413 original size:2 final size:2
Alignment explanation
Indices: 2000408--2000434 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2000398 TATATATATA
2000408 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
2000435 TATAGAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2000688 original size:19 final size:20
Alignment explanation
Indices: 2000661--2000706 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
2000651 AAGAGACAAG
*
2000661 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
2000680 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
2000699 ATAATATT
1 ATAATATT
2000707 AAAATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:2007756 original size:30 final size:30
Alignment explanation
Indices: 2007722--2007789 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
2007712 CTTGATTACG
2007722 GATGAAGAAGATGACATGCAAAGAGATGAA
1 GATGAAGAAGATGACATGCAAAGAGATGAA
* *
2007752 GATGAAGAAGATGACATGGAAGGAGATGAA
1 GATGAAGAAGATGACATGCAAAGAGATGAA
*
2007782 AATGAAGA
1 GATGAAGA
2007790 TAAAGATGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.50, C:0.04, G:0.32, T:0.13
Consensus pattern (30 bp):
GATGAAGAAGATGACATGCAAAGAGATGAA
Found at i:2007790 original size:12 final size:12
Alignment explanation
Indices: 2007775--2007825 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
2007765 ACATGGAAGG
2007775 AGATGAAAATGA
1 AGATGAAAATGA
2007787 AGAT-AAAGATGA
1 AGATGAAA-ATGA
*
2007799 AGATGAAGATGA
1 AGATGAAAATGA
* * *
2007811 TGATCAAATTGA
1 AGATGAAAATGA
2007823 AGA
1 AGA
2007826 CGATGATTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 3 0.10
12 26 0.84
13 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.25, T:0.20
Consensus pattern (12 bp):
AGATGAAAATGA
Found at i:2007795 original size:6 final size:6
Alignment explanation
Indices: 2007775--2007810 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
2007765 ACATGGAAGG
* *
2007775 AGATGA AAATGA AGATAA AGATGA AGATGA AGATGA
1 AGATGA AGATGA AGATGA AGATGA AGATGA AGATGA
2007811 TGATCAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.17
Consensus pattern (6 bp):
AGATGA
Found at i:2010195 original size:25 final size:25
Alignment explanation
Indices: 2010166--2010224 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
2010156 ATGTTTATTA
*
2010166 TTCAATTAAATTATAAGTTTTTGTT
1 TTCAATTAAATTATAAGTTTTTCTT
2010191 TTCAATTAAATTATAAGTTTTTCTT
1 TTCAATTAAATTATAAGTTTTTCTT
2010216 TTCAATTAA
1 TTCAATTAA
2010225 TTTGTATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (25 bp):
TTCAATTAAATTATAAGTTTTTCTT
Found at i:2011811 original size:30 final size:29
Alignment explanation
Indices: 2011739--2011834 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 29
2011729 TCCAACTGAT
* * * *
2011739 TTTTTCGTTGAAAAGATATTTCCAACGGAC
1 TTTTTCGTTGGAAAGA-GTTTCCAACGAAA
* *
2011769 TTTTTAGGTGGAAATGAGTTTCCAACGAAA
1 TTTTTCGTTGGAAA-GAGTTTCCAACGAAA
** *
2011799 TTTTTCGTTGGAACACCGTTTCCAACAAAA
1 TTTTTCGTTGGAA-AGAGTTTCCAACGAAA
2011829 TTTTTC
1 TTTTTC
2011835 CCTCGATTTC
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
30 50 0.94
31 3 0.06
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (29 bp):
TTTTTCGTTGGAAAGAGTTTCCAACGAAA
Found at i:2021171 original size:12 final size:13
Alignment explanation
Indices: 2021131--2021192 Score: 53
Period size: 12 Copynumber: 5.1 Consensus size: 13
2021121 TAAAGGAGGG
* *
2021131 AGAAGGAAGGAAA
1 AGAAGAAAGGAGA
*
2021144 AG-AGAAAGGAGC
1 AGAAGAAAGGAGA
2021156 AGAAGAAA-GAGA
1 AGAAGAAAGGAGA
2021168 AGAAGAAACGG-G-
1 AGAAGAAA-GGAGA
2021180 A-AAGAAAGGAGA
1 AGAAGAAAGGAGA
2021192 A
1 A
2021193 AGAAAGGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
10 2 0.05
11 7 0.17
12 22 0.55
13 8 0.20
14 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.37, T:0.00
Consensus pattern (13 bp):
AGAAGAAAGGAGA
Found at i:2028133 original size:23 final size:21
Alignment explanation
Indices: 2028084--2028133 Score: 55
Period size: 23 Copynumber: 2.3 Consensus size: 21
2028074 TATTTTGAGA
*
2028084 AAATAAAATAAATAAATAATG
1 AAATAAAATAAATAAATAAAG
* *
2028105 AGATAAATGATAAATCAATAAAG
1 AAATAAA--ATAAATAAATAAAG
2028128 AAATAA
1 AAATAA
2028134 GAAGGAGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 6 0.26
23 17 0.74
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (21 bp):
AAATAAAATAAATAAATAAAG
Found at i:2029510 original size:79 final size:78
Alignment explanation
Indices: 2029418--2029577 Score: 293
Period size: 79 Copynumber: 2.0 Consensus size: 78
2029408 GATGAGTTTT
* *
2029418 GAGCTTGATTTTTGGTTGATTTTAATTGAATTAAGTGATTTTAGTTAGGTTATATTGAAATATAG
1 GAGCTTGAGTTTTGGTTGATTTTAATTGAATTAAGTGATTTTAGTTAGGTTATATCGAAATATAG
2029483 CAAAAATAAGCTA
66 CAAAAATAAGCTA
2029496 GANGCTTGAGTTTTGGTTGATTTTAATTGAATTAAGTGATTTTAGTTAGGTTATATCGAAATATA
1 GA-GCTTGAGTTTTGGTTGATTTTAATTGAATTAAGTGATTTTAGTTAGGTTATATCGAAATATA
2029561 GCAAAAATAAGCTA
65 GCAAAAATAAGCTA
2029575 GAG
1 GAG
2029578 ATATAACTTT
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
78 3 0.04
79 76 0.96
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.40
Consensus pattern (78 bp):
GAGCTTGAGTTTTGGTTGATTTTAATTGAATTAAGTGATTTTAGTTAGGTTATATCGAAATATAG
CAAAAATAAGCTA
Found at i:2031646 original size:11 final size:11
Alignment explanation
Indices: 2031630--2031657 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
2031620 AGTTTTTGGG
2031630 TTTAAAGTTAT
1 TTTAAAGTTAT
2031641 TTTAAAGTTAT
1 TTTAAAGTTAT
2031652 TTTAAA
1 TTTAAA
2031658 AATTTATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (11 bp):
TTTAAAGTTAT
Found at i:2032281 original size:28 final size:29
Alignment explanation
Indices: 2032240--2032304 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
2032230 GTCTATGGGC
* *
2032240 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAAGGGGCAAAAATGT
* *
2032268 AATTTTTGACTTTTACAGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-AGGGGCAAAAATGT
*
2032298 AAATTTT
1 AATTTTT
2032305 AAAAATTACT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 12 0.40
30 18 0.60
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (29 bp):
AATTTTTCACTTTTAAGGGGCAAAAATGT
Found at i:2039140 original size:19 final size:19
Alignment explanation
Indices: 2039116--2039153 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2039106 CCATTTGACT
*
2039116 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
2039135 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
2039154 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:2042296 original size:11 final size:11
Alignment explanation
Indices: 2042257--2042310 Score: 56
Period size: 11 Copynumber: 4.6 Consensus size: 11
2042247 GAAGGAAAAG
2042257 AGAAAGGAGCAGA
1 AGAAAGGAG-A-A
*
2042270 AGAAAGAGAAAA
1 AGAAAG-GAGAA
2042282 AGAAATGG-GAA
1 AGAAA-GGAGAA
2042293 AGAAAGGAGAA
1 AGAAAGGAGAA
2042304 AGAAAGG
1 AGAAAGG
2042311 TAAAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 2 0.06
11 17 0.47
12 7 0.19
13 8 0.22
14 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.35, T:0.02
Consensus pattern (11 bp):
AGAAAGGAGAA
Found at i:2042655 original size:2 final size:2
Alignment explanation
Indices: 2042648--2042681 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2042638 ATCGTTTTGA
*
2042648 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2042682 GTTATATGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2043545 original size:28 final size:28
Alignment explanation
Indices: 2043494--2043703 Score: 174
Period size: 28 Copynumber: 7.4 Consensus size: 28
2043484 TTATCTTTAG
* * *
2043494 TTAAGACAAAACACGTTATT-TTGTTTGAA
1 TTAAGAC-AAACAAGTT-TTCTTGTCTAAA
*
2043523 TTAAGACAAACAAGTTTTCTTGTCTAGA
1 TTAAGACAAACAAGTTTTCTTGTCTAAA
* *
2043551 TTAAGACAAAACATATTTTTCTTATCTTAAA
1 TTAAGAC-AAACA-AGTTTTCTTGTC-TAAA
* *
2043582 TTAAGACAAACATGGTTTT-TTGTTTAAA
1 TTAAGACAAACA-AGTTTTCTTGTCTAAA
* **
2043610 TTAAGAAAAACTTGTTTTCTTGTCTAAA
1 TTAAGACAAACAAGTTTTCTTGTCTAAA
** *
2043638 TTAAGGTAAATATA-TTTTCTTGTCTAAA
1 TTAAGACAAACA-AGTTTTCTTGTCTAAA
** * *
2043666 TTAAGGTAAATATGTTTTCTTGTCTAAA
1 TTAAGACAAACAAGTTTTCTTGTCTAAA
2043694 TTAAGACAAA
1 TTAAGACAAA
2043704 TATGTAAAAG
Statistics
Matches: 151, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
27 7 0.05
28 99 0.66
29 15 0.10
30 20 0.13
31 10 0.07
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (28 bp):
TTAAGACAAACAAGTTTTCTTGTCTAAA
Found at i:2043704 original size:28 final size:28
Alignment explanation
Indices: 2043521--2043708 Score: 193
Period size: 28 Copynumber: 6.6 Consensus size: 28
2043511 ATTTTGTTTG
* *
2043521 AATTAAGACAAACAAGTTTTCTTGTCTA
1 AATTAAGACAAATATGTTTTCTTGTCTA
* *
2043549 GATTAAGACAAAACATAT-TTTTCTTATCTTA
1 AATTAAGAC--AA-ATATGTTTTCTTGTC-TA
* *
2043580 AATTAAGACAAACATGGTTTT-TTGTTTA
1 AATTAAGACAAATAT-GTTTTCTTGTCTA
*
2043608 AATTAAGAAAAACT-TGTTTTCTTGTCTA
1 AATTAAGACAAA-TATGTTTTCTTGTCTA
** *
2043636 AATTAAGGTAAATATATTTTCTTGTCTA
1 AATTAAGACAAATATGTTTTCTTGTCTA
**
2043664 AATTAAGGTAAATATGTTTTCTTGTCTA
1 AATTAAGACAAATATGTTTTCTTGTCTA
2043692 AATTAAGACAAATATGT
1 AATTAAGACAAATATGT
2043709 AAAAGCTACC
Statistics
Matches: 134, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
27 6 0.04
28 96 0.72
29 5 0.04
30 15 0.11
31 12 0.09
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (28 bp):
AATTAAGACAAATATGTTTTCTTGTCTA
Found at i:2044312 original size:10 final size:10
Alignment explanation
Indices: 2044284--2044325 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
2044274 CCTTACCTCC
*
2044284 TTTATTTACT
1 TTTATTTATT
2044294 TTTATTTATT
1 TTTATTTATT
2044304 TTTATTTATT
1 TTTATTTATT
2044314 TAATTATTTATT
1 T--TTATTTATT
2044326 AACTAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
10 20 0.69
12 9 0.31
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTATTTATT
Found at i:2057149 original size:20 final size:21
Alignment explanation
Indices: 2057111--2057150 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2057101 TCTTCAGGCC
2057111 ATTCATGACAAAGACTGATGT
1 ATTCATGACAAAGACTGATGT
2057132 ATTCATGACAAA-ACTGATG
1 ATTCATGACAAAGACTGATG
2057151 CCTTCGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
ATTCATGACAAAGACTGATGT
Found at i:2059002 original size:17 final size:17
Alignment explanation
Indices: 2058980--2059014 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2058970 GTGAAGATTT
2058980 CTCCCCCTAAGTGTGTG
1 CTCCCCCTAAGTGTGTG
* *
2058997 CTCCCCTTTAGTGTGTG
1 CTCCCCCTAAGTGTGTG
2059014 C
1 C
2059015 ATATTTTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.34, G:0.23, T:0.34
Consensus pattern (17 bp):
CTCCCCCTAAGTGTGTG
Found at i:2059153 original size:2 final size:2
Alignment explanation
Indices: 2059090--2059142 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
2059080 CTATATTCAG
2059090 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2059131 AT AT AT AT AT AT
1 AT AT AT AT AT AT
2059143 GCAGATATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2059565 original size:29 final size:29
Alignment explanation
Indices: 2059533--2059590 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
2059523 CAGTAGGAAA
2059533 ATAAAAAACAAAAGTCAATATTCCTAAAT
1 ATAAAAAACAAAAGTCAATATTCCTAAAT
* * *
2059562 ATAAAAAATAGAAGTCAATATTCTTAAAT
1 ATAAAAAACAAAAGTCAATATTCCTAAAT
2059591 TACCCCTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (29 bp):
ATAAAAAACAAAAGTCAATATTCCTAAAT
Found at i:2072274 original size:21 final size:22
Alignment explanation
Indices: 2072241--2072281 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2072231 TACCTTTTTT
* *
2072241 CACTTGTTTCCTTGTATTTTGA
1 CACTTGTTCCCTTGAATTTTGA
2072263 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
2072282 TCCGCCTACG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.15, C:0.22, G:0.10, T:0.54
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTGA
Found at i:2077666 original size:15 final size:15
Alignment explanation
Indices: 2077648--2077677 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2077638 CAAATTTATG
2077648 TTGATGATATAGTAT
1 TTGATGATATAGTAT
2077663 TTGATGATATAGTAT
1 TTGATGATATAGTAT
2077678 ACCAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (15 bp):
TTGATGATATAGTAT
Found at i:2078633 original size:18 final size:19
Alignment explanation
Indices: 2078595--2078634 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2078585 AAAGTGAAAT
* *
2078595 TATAACTATTTGAATATAA
1 TATAAATATTTGAATAAAA
2078614 TATAAATATTT-AATAAAA
1 TATAAATATTTGAATAAAA
2078632 TAT
1 TAT
2078635 TCTATTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
TATAAATATTTGAATAAAA
Found at i:2086256 original size:38 final size:39
Alignment explanation
Indices: 2086212--2086300 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
2086202 AAAGAACAGG
* * *
2086212 AAAAGAAAACA-ACCAC-CCACTGAAGAGCATGAGGAAGA
1 AAAAGAAAA-AGACCACACCACAGAAGAGAATGAGAAAGA
*
2086250 AAAAGAAAAAGAGCACACCACAGAAGAGAATGAGAAAGA
1 AAAAGAAAAAGACCACACCACAGAAGAGAATGAGAAAGA
*
2086289 GAAAGAAAAAGA
1 AAAAGAAAAAGA
2086301 AAAAAAGAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
37 1 0.02
38 13 0.30
39 30 0.68
ACGTcount: A:0.60, C:0.15, G:0.22, T:0.03
Consensus pattern (39 bp):
AAAAGAAAAAGACCACACCACAGAAGAGAATGAGAAAGA
Found at i:2094139 original size:20 final size:20
Alignment explanation
Indices: 2094096--2094157 Score: 97
Period size: 20 Copynumber: 3.0 Consensus size: 20
2094086 ATACGTATAT
2094096 ACCCATCATCATCATCTTACCA
1 ACCCATCATCATCATC--ACCA
2094118 ACCCATCATCATCATCACCA
1 ACCCATCATCATCATCACCA
*
2094138 ACTCATCATCATCATCACCA
1 ACCCATCATCATCATCACCA
2094158 GCTCATGCGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
20 23 0.59
22 16 0.41
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.24
Consensus pattern (20 bp):
ACCCATCATCATCATCACCA
Found at i:2094210 original size:43 final size:43
Alignment explanation
Indices: 2094162--2094305 Score: 157
Period size: 43 Copynumber: 3.4 Consensus size: 43
2094152 TCACCAGCTC
* ** *
2094162 ATGCGCACTCCCTACTAAGACATGGCTGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTAACACATAACCGGGTCATCACCGGGTT
** *
2094205 ATGCGCACTCCCTACTCTCACATAACCGGTTCATCACCGGGTT
1 ATGCGCACTCCCTACTAACACATAACCGGGTCATCACCGGGTT
* * ** *
2094248 ATGCGCATTCCC-AATCGCACATAACCGGGTCATC-CTCGGCTT
1 ATGCGCACTCCCTACTAACACATAACCGGGTCATCAC-CGGGTT
2094290 ATGCGCACTCCCTACT
1 ATGCGCACTCCCTACT
2094306 CGCATATAGC
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 35 0.41
43 49 0.58
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTAACACATAACCGGGTCATCACCGGGTT
Found at i:2094292 original size:42 final size:43
Alignment explanation
Indices: 2094189--2094309 Score: 165
Period size: 42 Copynumber: 2.8 Consensus size: 43
2094179 AGACATGGCT
* *
2094189 GGGTCATCACCGGGTTATGCGCACTCCCTACTCTCACATAACC
1 GGGTCATCACCGGGTTATGCGCACTCCCTAATCGCACATAACC
* *
2094232 GGTTCATCACCGGGTTATGCGCATTCCC-AATCGCACATAACC
1 GGGTCATCACCGGGTTATGCGCACTCCCTAATCGCACATAACC
* *
2094274 GGGTCATC-CTCGGCTTATGCGCACTCCCTACTCGCA
1 GGGTCATCAC-CGGGTTATGCGCACTCCCTAATCGCA
2094310 TATAGCTGAG
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 35 0.51
43 32 0.47
ACGTcount: A:0.20, C:0.36, G:0.20, T:0.24
Consensus pattern (43 bp):
GGGTCATCACCGGGTTATGCGCACTCCCTAATCGCACATAACC
Found at i:2098585 original size:33 final size:33
Alignment explanation
Indices: 2098523--2098585 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
2098513 GGAGACATTG
* * *
2098523 AGGATGATGATATGCCTTCATATTTGAGATTTA
1 AGGATAATGATATGCCTGCATATTGGAGATTTA
2098556 AGGATAATGATATGCTCTGCAT-TTGGAGAT
1 AGGATAATGATATGC-CTGCATATTGGAGAT
2098586 GTTTGCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 21 0.81
34 5 0.19
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.37
Consensus pattern (33 bp):
AGGATAATGATATGCCTGCATATTGGAGATTTA
Found at i:2099692 original size:20 final size:20
Alignment explanation
Indices: 2099664--2099729 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
2099654 TTTTGACCCC
*
2099664 ATTTCACTTATTAGAGTATA
1 ATTTGACTTATTAGAGTATA
2099684 ATTTGACTTATTAGAGTATA
1 ATTTGACTTATTAGAGTATA
* *
2099704 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTAGAGTATA
2099724 ATTTGA
1 ATTTGA
2099730 GGTTTAGAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTAGAGTATA
Found at i:2106766 original size:38 final size:38
Alignment explanation
Indices: 2106693--2106767 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
2106683 TTTTTAATAG
*
2106693 AAAATCTTTAATAGTAGAAAAATATTTTTCATCAAAAC
1 AAAATCTTTAATAGTAGAAAAATATTTTCCATCAAAAC
* *
2106731 AAAAT-TTTAAT-GTAAGAAAAACTCTTTTCCTTCAAAA
1 AAAATCTTTAATAGT-AGAAAAA-TATTTTCCATCAAAA
2106768 AAATTTGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 2 0.06
37 13 0.41
38 17 0.53
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (38 bp):
AAAATCTTTAATAGTAGAAAAATATTTTCCATCAAAAC
Found at i:2108085 original size:29 final size:28
Alignment explanation
Indices: 2108041--2108203 Score: 179
Period size: 29 Copynumber: 5.7 Consensus size: 28
2108031 AACTCTTCTT
*
2108041 TAATTAAGA-AAAACATGTTATCTTGTC
1 TAATTAAGACAAAACATGTTTTCTTGTC
* **
2108068 TAGATTAAGACAAAACATATTTTTCTCATC
1 TA-ATTAAGACAAAACAT-GTTTTCTTGTC
2108098 TTAAATTAAGAC-AAACATGTTTTCTTGTC
1 -T-AATTAAGACAAAACATGTTTTCTTGTC
* *
2108127 TAAGTTCAGACAAAACATGTTTTCTTGTA
1 TAA-TTAAGACAAAACATGTTTTCTTGTC
*
2108156 TAAGTTAAGACAAAATATGTTTTCTTGTC
1 TAA-TTAAGACAAAACATGTTTTCTTGTC
2108185 TAAATTAAGAC-AAACATGT
1 T-AATTAAGACAAAACATGT
2108204 AAAACCTGCC
Statistics
Matches: 115, Mismatches: 13, Indels: 15
0.80 0.09 0.10
Matches are distributed among these distances:
27 4 0.03
28 21 0.18
29 65 0.57
30 15 0.13
31 9 0.08
32 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (28 bp):
TAATTAAGACAAAACATGTTTTCTTGTC
Found at i:2108183 original size:58 final size:58
Alignment explanation
Indices: 2108037--2108203 Score: 191
Period size: 59 Copynumber: 2.9 Consensus size: 58
2108027 AAAAAACTCT
* * *
2108037 TCTTTAATTAAGA-AAAACATGTTATCTTGTCT-AGATTAAGACAAAACATATTTTTCTCA
1 TCTTAAATTAAGACAAAACATGTTTTCTTGTCTAAG-TTAAGACAAAACAT-GTTTTCT-A
*
2108096 TCTTAAATTAAGAC-AAACATGTTTTCTTGTCTAAGTTCAGACAAAACATGTTTTCT-
1 TCTTAAATTAAGACAAAACATGTTTTCTTGTCTAAGTTAAGACAAAACATGTTTTCTA
* * * *
2108152 TGTATAAGTTAAGACAAAATATGTTTTCTTGTCTAAATTAAGAC-AAACATGT
1 TCT-TAAATTAAGACAAAACATGTTTTCTTGTCTAAGTTAAGACAAAACATGT
2108204 AAAACCTGCC
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
56 2 0.02
57 18 0.19
58 31 0.33
59 42 0.44
60 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (58 bp):
TCTTAAATTAAGACAAAACATGTTTTCTTGTCTAAGTTAAGACAAAACATGTTTTCTA
Found at i:2119326 original size:16 final size:17
Alignment explanation
Indices: 2119294--2119326 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2119284 ATTGTTTATG
*
2119294 AATATACTATGTATGTA
1 AATATACTATATATGTA
2119311 AATATACTA-ATATGTA
1 AATATACTATATATGTA
2119327 TTAGTTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (17 bp):
AATATACTATATATGTA
Found at i:2131792 original size:13 final size:13
Alignment explanation
Indices: 2131774--2131800 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2131764 TGGAAAGTAC
2131774 ATGTATTTTATAT
1 ATGTATTTTATAT
2131787 ATGTATTTTATAT
1 ATGTATTTTATAT
2131800 A
1 A
2131801 AACATGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
ATGTATTTTATAT
Found at i:2140402 original size:28 final size:28
Alignment explanation
Indices: 2140362--2140416 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
2140352 TTTACTTTGA
2140362 GTGAGATTTTGTTAGTTCTAGTAAGTGC
1 GTGAGATTTTGTTAGTTCTAGTAAGTGC
2140390 GTGAGATTTTGTTAGTTCTAGTAAGTG
1 GTGAGATTTTGTTAGTTCTAGTAAGTG
2140417 TAGTTTAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.05, G:0.29, T:0.44
Consensus pattern (28 bp):
GTGAGATTTTGTTAGTTCTAGTAAGTGC
Found at i:2142188 original size:42 final size:42
Alignment explanation
Indices: 2142136--2142218 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
2142126 CATCTCATAT
*
2142136 GCAATGGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCA
1 GCAACGGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCA
*
2142178 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTC
1 GCAACGGCTTATGCGCACTCCCACTCGCACATAGCCGGGTC
2142219 CACATCAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.20, C:0.36, G:0.24, T:0.19
Consensus pattern (42 bp):
GCAACGGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCA
Found at i:2151033 original size:11 final size:11
Alignment explanation
Indices: 2151017--2151044 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
2151007 AGCTTTTGGG
2151017 TTTAAAGTTGT
1 TTTAAAGTTGT
2151028 TTTAAAGTTGT
1 TTTAAAGTTGT
2151039 TTTAAA
1 TTTAAA
2151045 AACTACAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (11 bp):
TTTAAAGTTGT
Found at i:2157597 original size:52 final size:52
Alignment explanation
Indices: 2157541--2157703 Score: 242
Period size: 52 Copynumber: 3.2 Consensus size: 52
2157531 TAATCTTGTG
* *
2157541 TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGTGCATAAGCCGATGA
1 TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGCCGATGA
* *
2157593 TGATGATGATGATCCGGCTATGTGCGAGTAGAGAGTGCGCATAGGCC---GA
1 TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGCCGATGA
* * *
2157642 TGATCATGATGACCTGGCTATGTGCGAGTAGGGAGTGCACATAGGCCGATGA
1 TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGCCGATGA
2157694 TGATGATGAT
1 TGATGATGAT
2157704 CTGACTATGA
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
49 44 0.45
52 54 0.55
ACGTcount: A:0.25, C:0.15, G:0.36, T:0.24
Consensus pattern (52 bp):
TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGCCGATGA
Found at i:2157712 original size:49 final size:49
Alignment explanation
Indices: 2157541--2157702 Score: 234
Period size: 49 Copynumber: 3.2 Consensus size: 49
2157531 TAATCTTGTG
* *
2157541 TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGTGCATAAGCCGATGA
1 TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGCC---GA
* *
2157593 TGATGATGATGATCCGGCTATGTGCGAGTAGAGAGTGCGCATAGGCCGA
1 TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGCCGA
* * *
2157642 TGATCATGATGACCTGGCTATGTGCGAGTAGGGAGTGCACATAGGCCGA
1 TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGCCGA
2157691 TGATGATGATGA
1 TGATGATGATGA
2157703 TCTGACTATG
Statistics
Matches: 100, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
49 57 0.57
52 43 0.43
ACGTcount: A:0.25, C:0.15, G:0.36, T:0.23
Consensus pattern (49 bp):
TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGCCGA
Found at i:2164048 original size:20 final size:20
Alignment explanation
Indices: 2164022--2164067 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
2164012 AATCTTACCT
* *
2164022 TTTTTCACTTGTTTCCTTGAA
1 TTTTACACTT-TTCCCTTGAA
2164043 TTTTCACACTTTTCCCTTGAA
1 TTTT-ACACTTTTCCCTTGAA
2164064 TTTT
1 TTTT
2164068 TCCACCTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTACACTTTTCCCTTGAA
Found at i:2164069 original size:22 final size:22
Alignment explanation
Indices: 2164027--2164067 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2164017 TACCTTTTTT
*
2164027 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
2164049 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
2164068 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:2166123 original size:3 final size:3
Alignment explanation
Indices: 2166115--2166139 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2166105 CCAGTAGCTT
2166115 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
2166140 CTTTCACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:2166847 original size:2 final size:2
Alignment explanation
Indices: 2166840--2166865 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2166830 CATTATGTTG
2166840 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2166866 GAATAATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2167004 original size:42 final size:42
Alignment explanation
Indices: 2166896--2167004 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
2166886 ATTGACTCGG
* * * *
2166896 CTATGTGCGAGTAGGAGTGTACATAAGCCGATGTTGACCCGA
1 CTATGTGCGAGTGGGAGTGTGCATAAGCCAATGCTGACCCGA
*
2166938 CTATGTGCTAGTGGGAGTGTGCATAAGCCAATGCTGACCCAGA
1 CTATGTGCGAGTGGGAGTGTGCATAAGCCAATGCTGACCC-GA
* *
2166981 -TATGTACGAGTGGGAGTGCGCATA
1 CTATGTGCGAGTGGGAGTGTGCATA
2167005 TGTCATGACC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 56 0.97
43 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (42 bp):
CTATGTGCGAGTGGGAGTGTGCATAAGCCAATGCTGACCCGA
Found at i:2169346 original size:22 final size:22
Alignment explanation
Indices: 2169304--2169346 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2169294 GTGGAGAATT
* *
2169304 TCAAGAGAAAAAGTGTGAAAAA
1 TCAAGAAAAAAAGTGTAAAAAA
2169326 TCAAGAAAAACAAGTG-AAAAA
1 TCAAGAAAAA-AAGTGTAAAAA
2169347 GGTAGGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.63, C:0.07, G:0.19, T:0.12
Consensus pattern (22 bp):
TCAAGAAAAAAAGTGTAAAAAA
Found at i:2174243 original size:200 final size:199
Alignment explanation
Indices: 2173899--2174298 Score: 755
Period size: 200 Copynumber: 2.0 Consensus size: 199
2173889 GAATTACAAG
2173899 ACTGCTATAGAAAACCGGTTTATATAGAGTATCATTACGAGAATTTGTAATTTCTATCTTGATTC
1 ACTGCTATAGAAAACCGGTTTATATAGAGTATCATTACGAGAATTTGTAATTTCTATCTTGATTC
*
2173964 AGTTAAATGACAAGGGTTAGTATCAACATGAGGCCAATTGTGTGGCACCCTAGAAACCTATGAAG
66 AGTTAAATGACAAGGGTTAGTAACAACATGAGGCCAATTGTGTGGCACCCTAGAAACCTATGAAG
2174029 ATGAGTTGGGGATTGAATGGATGAGTACGTATTTATATACCTTAAAGATTAAGTGTTTTAGAAAT
131 ATGAGTTGGGGATTGAATGGATGAGTACGTATTTATATACCTTAAAGATTAAGTGTTTTAGAAAT
2174094 GCAT
196 GCAT
2174098 ANCTGCTATAGAAAACCGGTTTATATAGAGTATCATTACGAGAATTTGTAATTTCTATCTTGATT
1 A-CTGCTATAGAAAACCGGTTTATATAGAGTATCATTACGAGAATTTGTAATTTCTATCTTGATT
* * *
2174163 CAGTTAAATGACAAGGGTTAGTAACAACATGGGGCTAATTGTGTGGCACCCTAGAAACTTATGAA
65 CAGTTAAATGACAAGGGTTAGTAACAACATGAGGCCAATTGTGTGGCACCCTAGAAACCTATGAA
2174228 GATGAGTTGGGGATTGAATGGATGAGTACGTATTTATATACCTTAAAGATTAAGTGTTTTAGAAA
130 GATGAGTTGGGGATTGAATGGATGAGTACGTATTTATATACCTTAAAGATTAAGTGTTTTAGAAA
2174293 TGCAT
195 TGCAT
2174298 A
1 A
2174299 AACATCTTTG
Statistics
Matches: 196, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
199 1 0.01
200 195 0.99
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.33
Consensus pattern (199 bp):
ACTGCTATAGAAAACCGGTTTATATAGAGTATCATTACGAGAATTTGTAATTTCTATCTTGATTC
AGTTAAATGACAAGGGTTAGTAACAACATGAGGCCAATTGTGTGGCACCCTAGAAACCTATGAAG
ATGAGTTGGGGATTGAATGGATGAGTACGTATTTATATACCTTAAAGATTAAGTGTTTTAGAAAT
GCAT
Found at i:2178863 original size:33 final size:33
Alignment explanation
Indices: 2178821--2178890 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
2178811 GCTTTACCCC
2178821 AAGAGATACCCTACGCGCCTCTCCATTCGAGGT
1 AAGAGATACCCTACGCGCCTCTCCATTCGAGGT
2178854 AAGAGATACCCTACGCGCCTCTCCATTCGAGGT
1 AAGAGATACCCTACGCGCCTCTCCATTCGAGGT
2178887 AAGA
1 AAGA
2178891 ATATAATGGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.20
Consensus pattern (33 bp):
AAGAGATACCCTACGCGCCTCTCCATTCGAGGT
Found at i:2181442 original size:28 final size:29
Alignment explanation
Indices: 2181401--2181460 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
2181391 GTCTATGGGC
*
2181401 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
2181429 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
2181459 AA
1 AA
2181461 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:2192573 original size:5 final size:5
Alignment explanation
Indices: 2192559--2192595 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
2192549 ACGGTGGAAG
2192559 AAAG- AAAGA AAAGA AAAGA AAAGA ACAAG- AAAGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA A-AAGA AAAGA AAA
2192596 ATGGGCATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 7 0.23
5 20 0.67
6 3 0.10
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:2192646 original size:26 final size:27
Alignment explanation
Indices: 2192582--2192637 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
2192572 AAAAGAAAAG
2192582 AACAAGAAAGAAAAATGGGCATGACCC
1 AACAAGAAAGAAAAATGGGCATGACCC
*
2192609 AACAAGAAAGAAAAATGGGCATGGCCC
1 AACAAGAAAGAAAAATGGGCATGACCC
2192636 AA
1 AA
2192638 TAGATAGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.52, C:0.18, G:0.23, T:0.07
Consensus pattern (27 bp):
AACAAGAAAGAAAAATGGGCATGACCC
Found at i:2203709 original size:341 final size:337
Alignment explanation
Indices: 2203203--2204699 Score: 1382
Period size: 341 Copynumber: 4.4 Consensus size: 337
2203193 GTTTGTGTTG
* * * * * *
2203203 GGAAACATGAAGCGAACGCCATCAATTGACAAGAAATGCCCATTTATAGTCACTCATACCTTCGA
1 GGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC-CATGCCTTCAA
* * * * * *
2203268 TAGCCTTCTCACTC-CTTTAAGTGGTTTTATAACATTATAAATGATTTAAAATTGAATTTTTTTC
65 AAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTGATTTTTTTTC
* * * *
2203332 A-TTTACTATTAAAACAGATCATAATTTGATGTTTGCATTGGAAAACTTGAAATGAAAGCTATCC
130 ATTTTTC-ATTAAAACAGATCATAATTTGATGTTTGCATTGG-AAACATGAAGTGAAAGCCATCC
* * * * **
2203396 ATTGACAAGAAAAGTCCATTTATAGTCACTTATGCCTTTGAAAGCCTTGTTACTCGGTTTAAGTG
193 ATTAACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTG
* * * *** *
2203461 GTTTTATAACTTTATAATTAATTTTAAACTGATTTTTTTTTCAATTTAGGTTAAGTGAGTTCATA
258 GTTTTATAACTTCATAAATAATTTTAAA-TGATATTTTTTTCAATTTAGGTTAAAACAGATCATA
* * *
2203526 ATTTAATGTTAGCATCA
322 ATTTGATATTTGCAT-A
* * * * *
2203543 GGAAACATAAAGTGAAAGCCATCAATTGGCAAGAAAAGTCCATTTATAATCATCCATGCCTTCAA
1 GGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCA-CCATGCCTTCAA
* *
2203608 AAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAACAATTTTAAATTGATTTTTTTTA
65 AAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTGATTTTTTTTC
** * * *
2203673 ATTTTTCATTCCAATAGATCTTAATTTGATGTTTGCATTAGGAAACATGAAGTGAAAGCCATCCT
130 ATTTTTCATTAAAACAGATCATAATTTGATGTTTGCATT-GGAAACATGAAGTGAAAGCCATCCA
* * * *
2203738 TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGACAGCCTAGTCACTCACTTTAAATGG
194 TTAACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGG
* * * * * * * *
2203803 TTTAATAA-TCTCATAAATGATTCTAAGTTGA-ATTTGTTTCCATTTCTGGTTAAAACAAATCAT
259 TTTTATAACT-TCATAAATAATTTTAA-ATGATATTTTTTTCAATTT-AGGTTAAAACAGATCAT
* * *
2203866 AATTGGATATTTGCCTT
321 AATTTGATATTTGCATA
** * * * **
2203883 GTGAAACATGAAGCGAAAGTTATCCATTAACAAAAAAAGTTCATTTATAGTCATCCATATCTTCA
1 G-GAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCA-CCATGCCTTCA
* * * * * *
2203948 AAAGCCTTGTTACTCGCGTTAAGTTGTTTTATAACTTTATAAATAAGTTTAAATTAATTTTTTTT
64 AAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTGATTTTTTTT
* * * * * ** * *
2204013 CATTTATCGTTAAAACAGATAATGATTTGATGTTTGCATCTGAAAATGTGAAGCGAAACCCATCC
129 CATTTTTCATTAAAACAGATCATAATTTGATGTTTGCAT-TGGAAACATGAAGTGAAAGCCATCC
* *
2204078 ATTAATAAGAAAAGTCCATTTATAATCA-TCCATGCCTTCGAAAGCCTTGTCACTCACTTTAAGT
193 ATTAACAAGAAAAGTCCATTTATAGTCACT-CATGCCTTCGAAAGCCTTGTCACTCACTTTAAGT
* * * * * *** *** * *
2204142 GGTTATATAACTTTATAAACAATTTTAAAATGAT-TTTTTTTTATTTTTCATTCGTATAGATCTT
257 GGTTTTATAACTTCATAAATAATTTT-AAATGATATTTTTTTCAATTTAGGTTAAAACAGATCAT
2204206 AATTTGATATTTGCATTA
321 AATTTGATATTTGCA-TA
* * * * *
2204224 AGAAACATGAAGCGAAAGCCATCCATTGGCAAGAAAAGTCTATTTATAGTTACTCATGCCTTCGA
1 GGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC-CATGCCTTCAA
* * * * * * * * *
2204289 CAGCCTAGTTACTCACTTTAAATGATTTTATAA-TCTCATAAATGATTTTAAGTTGAATTTGTTT
65 AAGCCTTGTCACTCACTTTAAGTGGTTTTATAACT-TTATAAATAATTTTAAATTG-ATTTTTTT
* * * * * *
2204353 CCATTTCT-AGTTAAAAAAGATCATAATTCGATGTTTGTC-TAGTGAAACATGAAGTGAAAGTCA
128 TCATTTTTCA-TTAAAACAGATCATAATTTGATGTTTG-CATTG-GAAACATGAAGTGAAAGCCA
* * ** * * *
2204416 TTCATTAACAAGAAAAGTCCATTTGTAGTCA-TCCATATCTTCGAAAGCCTTGTTACTCGCGTTA
190 TCCATTAACAAGAAAAGTCCATTTATAGTCACT-CATGCCTTCGAAAGCCTTGTCACTCACTTTA
* * * * * * * * * *
2204480 AGTGATTTTGTAACCTCATAAATGAGTTTAAATTAAATTATTTTC-ATTTATTGTTAAAACATAT
254 AGTGGTTTTATAACTTCATAAATAATTTTAAATGATATTTTTTTCAATTTA-GGTTAAAACAGAT
* * **
2204544 CACAACTTGATGCTTGCAGTA
318 CATAATTTGATATTTGCA-TA
* * * *
2204565 GGAAACGTGAAGCGAAACCCATCCATTGACAAGTAAAGTTCATTTATAAG-CACCCATGCCTTCA
1 GGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTAT-AGTCA-CCATGCCTTCA
*
2204629 AAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTGAATTTTTTT
64 AAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTGATTTTTTTT
2204694 -ATTTTT
129 CATTTTT
2204700 TAATGTTTGC
Statistics
Matches: 919, Mismatches: 213, Indels: 51
0.78 0.18 0.04
Matches are distributed among these distances:
339 7 0.01
340 209 0.23
341 688 0.75
342 15 0.02
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (337 bp):
GGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACCATGCCTTCAAA
AGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTGATTTTTTTTCA
TTTTTCATTAAAACAGATCATAATTTGATGTTTGCATTGGAAACATGAAGTGAAAGCCATCCATT
AACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTT
TTATAACTTCATAAATAATTTTAAATGATATTTTTTTCAATTTAGGTTAAAACAGATCATAATTT
GATATTTGCATA
Found at i:2203775 original size:170 final size:170
Alignment explanation
Indices: 2203094--2204699 Score: 1390
Period size: 170 Copynumber: 9.5 Consensus size: 170
2203084 AGGAGGAATA
* ** * * *
2203094 ATGCCTTC-ATAAGCCTTGTTACTTGCTTTAAATGGTTTTATAA-TCTTATAAATGATTTTAAAC
1 ATGCCTTCGA-AAGCCTTGTCACTCACTTTAAGTGGTTTTATAACT-TTATAAATAATTTTAAAT
* * * * * ** *
2203157 TGA--ATTTTTC----TTCATTAAAATAGGTCGTACTTTGATGTTTGTGTTGGGAAACATGAAGC
64 TGATTTTTTTTCATTTTTCATTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACATGAAGC
* * * *
2203216 GAACGCCATCAATTGACAAGAAATGCCCATTTATAGTCACTC
129 GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * * *
2203258 ATACCTTCGATAGCCTTCTCACTC-CTTTAAGTGGTTTTATAACATTATAAATGATTTAAAATTG
1 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
* * * **
2203322 AATTTTTTTCA-TTTACTATTAAAACAGATCATAATTTGATGTTTGCATT-GGAAAACTTGAAAT
66 ATTTTTTTTCATTTTTC-ATTAAAACAGATCATAATTTGATGTTTGCATTAGG-AAACATGAAGC
* *
2203385 GAAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTT
129 GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * ** * *
2203427 ATGCCTTTGAAAGCCTTGTTACTCGGTTTAAGTGGTTTTATAACTTTATAATTAATTTTAAACTG
1 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
* *** *** * * * * * *
2203492 ATTTTTTTTTCAATTTAGGTTAAGTGAGTTCATAATTTAATGTTAGCATCAGGAAACATAAAGTG
66 A-TTTTTTTTCATTTTTCATTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACATGAAGCG
* * *
2203557 AAAGCCATCAATTGGCAAGAAAAGTCCATTTATAATCA-TCC
130 AAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT-C
* *
2203598 ATGCCTTCAAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAACAATTTTAAATTG
1 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
* ** * * *
2203663 ATTTTTTTTAATTTTTCATTCCAATAGATCTTAATTTGATGTTTGCATTAGGAAACATGAAGTGA
66 ATTTTTTTTCATTTTTCATTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACATGAAGCGA
*
2203728 AAGCCATCCTTTGACAAGAAAAGTCCATTTATAGTCACTC
131 AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * * * * *
2203768 ATGCCTTCGACAGCCTAGTCACTCACTTTAAATGGTTTAATAA-TCTCATAAATGATTCTAAGTT
1 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACT-TTATAAATAATTTTAAATT
* * * ** * * * *
2203832 GAATTTGTTTCCATTTCTGGTTAAAACAAATCATAATTGGATATTTGCCTT-GTGAAACATGAAG
65 G-ATTTTTTTTCATTTTTCATTAAAACAGATCATAATTTGATGTTTGCATTAG-GAAACATGAAG
** * * *
2203896 CGAAAGTTATCCATTAACAAAAAAAGTTCATTTATAGTCA-TCC
128 CGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT-C
** * * * * * * *
2203939 ATATCTTCAAAAGCCTTGTTACTCGCGTTAAGTTGTTTTATAACTTTATAAATAAGTTTAAATTA
1 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
* * * * * **
2204004 ATTTTTTTTCATTTATCGTTAAAACAGATAATGATTTGATGTTTGCATCT-GAAAATGTGAAGCG
66 ATTTTTTTTCATTTTTCATTAAAACAGATCATAATTTGATGTTTGCAT-TAGGAAACATGAAGCG
* * * *
2204068 AAACCCATCCATTAATAAGAAAAGTCCATTTATAATCA-TCC
130 AAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT-C
* * *
2204109 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTATATAACTTTATAAACAATTTTAAAATG
1 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
* *** * * * *
2204174 ATTTTTTTTTATTTTTCATTCGTATAGATCTTAATTTGATATTTGCATTAAGAAACATGAAGCGA
66 ATTTTTTTTCATTTTTCATTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACATGAAGCGA
* * *
2204239 AAGCCATCCATTGGCAAGAAAAGTCTATTTATAGTTACTC
131 AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * * * * *
2204279 ATGCCTTCGACAGCCTAGTTACTCACTTTAAATGATTTTATAA-TCTCATAAATGATTTTAAGTT
1 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACT-TTATAAATAATTTTAAATT
* * * * *
2204343 GAATTTGTTTCCATTTCT-AGTTAAAAAAGATCATAATTCGATGTTTG--TCTAGTGAAACATGA
65 G-ATTTTTTTTCATTTTTCA-TTAAAACAGATCATAATTTGATGTTTGCAT-TAG-GAAACATGA
* * * * *
2204405 AGTGAAAGTCATTCATTAACAAGAAAAGTCCATTTGTAGTCA-TCC
126 AGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT-C
** * * * * * * * * * *
2204450 ATATCTTCGAAAGCCTTGTTACTCGCGTTAAGTGATTTTGTAACCTCATAAATGAGTTTAAATTA
1 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
* * * * * * * * *
2204515 AATTATTTTCATTTATT-GTTAAAACATATCACAACTTGATGCTTGCAGTAGGAAACGTGAAGCG
66 ATTTTTTTTCATTT-TTCATTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACATGAAGCG
* * * *
2204579 AAACCCATCCATTGACAAGTAAAGTTCATTTATAAG-CACCC
130 AAAGCCATCCATTGACAAGAAAAGTCCATTTAT-AGTCACTC
*
2204620 ATGCCTTCAAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
1 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
*
2204685 AATTTTTTT-ATTTTT
66 ATTTTTTTTCATTTTT
2204700 TAATGTTTGC
Statistics
Matches: 1143, Mismatches: 264, Indels: 66
0.78 0.18 0.04
Matches are distributed among these distances:
163 36 0.03
164 17 0.01
165 7 0.01
168 6 0.01
169 97 0.08
170 575 0.50
171 398 0.35
172 7 0.01
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (170 bp):
ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
ATTTTTTTTCATTTTTCATTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACATGAAGCGA
AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
Found at i:2204142 original size:511 final size:508
Alignment explanation
Indices: 2203094--2206268 Score: 2921
Period size: 511 Copynumber: 6.3 Consensus size: 508
2203084 AGGAGGAATA
* ** * * *
2203094 ATGCCTTC-ATAAGCCTTGTTACTTGCTTTAAATGGTTTTATAA-TCTTATAAATGATTTTAAAC
1 ATGCCTTCGA-AAGCCTTGTCACTCACTTTAAGTGGTTTTATAACT-TTATAAATAATTTTAAAT
* * * * * ** *
2203157 TGA---ATTT--TTCTTCATTAAAATAGGTCGTACTTTGATGTTTGTGTTGGGAAACATGAAGCG
64 TGATTTTTTTAATTTTTCATTAAAATAGATCTTAATTTGATGTTTGCATTAGGAAACATGAAGCG
* * * * * * ** *
2203217 AACGCCATCAATTGACAAGAAATGCCCATTTATAGTCACTCATACCTTCGATAGCCTTCTCACTC
129 AAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGACAGCCTAGTTACTC
* * * *
2203282 -CTTTAAGTGGTTTTATAACATTATAAATGA-TTTAAAATTGAATTT-TTTTCATTTACTA-TTA
194 ACTTTAAATGGTTTTATAACATCATAAATGATTTTAAAGTTGAATTTGTTTCCATTT-CTAGTTA
* * ** *
2203343 AAACAGATCATAATTTGATGTTTGCATTGGAAAACTTGAAATGAAAG-CTATCCATTGACAAGAA
258 AAACAGATCATAATTTGATGTTTGCCTTGG-AAACATGAAGCGAAAGTC-ATCCATTAACAAGAA
* ** *
2203407 AAGTCCATTTATAGTCA-CTTATGCCTTTGAAAGCCTTGTTACTCG-GTTTAAGTGGTTTTATAA
321 AAGTCCATTTATAGTCACCATAT--CTTCAAAAGCCTTGTTACTCGCG-TTAAGTTGTTTTATAA
* * * * * *** * *
2203470 CTTTATAATTAATTTTAAACTGATTTTTTTTTCAATTTA-GGTTAAGTGAGTTCATAATTTAATG
383 CTTTATAAATGAGTTTAAA-TTAATTTTTTTTC-ATTTATGGTTAAAACAGATCATAATTTGATG
* * * * * * * * *
2203534 TTAGCATCAGGAAACATAAAGTGAAAGCCATCAATTGGCAAGAAAAGTCCATTTATAATCATCC
446 TTTGCATCTGAAAACGTGAAGCGAAACCCATCCATTGACAAGAAAAGTCCATTTATAATCA-CC
* *
2203598 ATGCCTTCAAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAACAATTTTAAATTG
1 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
** *
2203663 ATTTTTTTTAATTTTTCATTCCAATAGATCTTAATTTGATGTTTGCATTAGGAAACATGAAGTGA
66 A-TTTTTTTAATTTTTCATTAAAATAGATCTTAATTTGATGTTTGCATTAGGAAACATGAAGCGA
* *
2203728 AAGCCATCCTTTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGACAGCCTAGTCACTCA
130 AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGACAGCCTAGTTACTCA
* * *
2203793 CTTTAAATGGTTTAATAATC-TCATAAATGATTCT-AAGTTGAATTTGTTTCCATTTCTGGTTAA
195 CTTTAAATGGTTTTATAA-CATCATAAATGATTTTAAAGTTGAATTTGTTTCCATTTCTAGTTAA
* * * * *
2203856 AACAAATCATAATTGGATATTTGCCTTGTGAAACATGAAGCGAAAGTTATCCATTAACAAAAAAA
259 AACAGATCATAATTTGATGTTTGCCTTG-GAAACATGAAGCGAAAGTCATCCATTAACAAGAAAA
*
2203921 GTTCATTTATAGTCATCCATATCTTCAAAAGCCTTGTTACTCGCGTTAAGTTGTTTTATAACTTT
323 GTCCATTTATAGTCA-CCATATCTTCAAAAGCCTTGTTACTCGCGTTAAGTTGTTTTATAACTTT
* * * *
2203986 ATAAATAAGTTTAAATTAATTTTTTTTCATTTATCGTTAAAACAGATAATGATTTGATGTTTGCA
387 ATAAATGAGTTTAAATTAATTTTTTTTCATTTATGGTTAAAACAGATCATAATTTGATGTTTGCA
* * *
2204051 TCTGAAAATGTGAAGCGAAACCCATCCATTAATAAGAAAAGTCCATTTATAATCATCC
452 TCTGAAAACGTGAAGCGAAACCCATCCATTGACAAGAAAAGTCCATTTATAATCA-CC
* * *
2204109 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTATATAACTTTATAAACAATTTTAAAATG
1 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
* *** * *
2204174 ATTTTTTTTTATTTTTCATTCGTATAGATCTTAATTTGATATTTGCATTAAGAAACATGAAGCGA
66 A-TTTTTTTAATTTTTCATTAAAATAGATCTTAATTTGATGTTTGCATTAGGAAACATGAAGCGA
* * *
2204239 AAGCCATCCATTGGCAAGAAAAGTCTATTTATAGTTACTCATGCCTTCGACAGCCTAGTTACTCA
130 AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGACAGCCTAGTTACTCA
*
2204304 CTTTAAATGATTTTATAATC-TCATAAATGATTTT-AAGTTGAATTTGTTTCCATTTCTAGTTAA
195 CTTTAAATGGTTTTATAA-CATCATAAATGATTTTAAAGTTGAATTTGTTTCCATTTCTAGTTAA
* * * * * *
2204367 AAAAGATCATAATTCGATGTTTGTCTAGTGAAACATGAAGTGAAAGTCATTCATTAACAAGAAAA
259 AACAGATCATAATTTGATGTTTGCCTTG-GAAACATGAAGCGAAAGTCATCCATTAACAAGAAAA
* * * *
2204432 GTCCATTTGTAGTCATCCATATCTTCGAAAGCCTTGTTACTCGCGTTAAG-TGATTTTGTAACCT
323 GTCCATTTATAGTCA-CCATATCTTCAAAAGCCTTGTTACTCGCGTTAAGTTG-TTTTATAACTT
* * * * * * * *
2204496 CATAAATGAGTTTAAATTAAATTATTTTCATTTATTGTTAAAACATATCACAACTTGATGCTTGC
386 TATAAATGAGTTTAAATTAATTTTTTTTCATTTATGGTTAAAACAGATCATAATTTGATGTTTGC
* * * * *
2204561 AGT-AGGAAACGTGAAGCGAAACCCATCCATTGACAAGTAAAGTTCATTTATAAGCACCC
451 A-TCTGAAAACGTGAAGCGAAACCCATCCATTGACAAGAAAAGTCCATTTATAATCA-CC
*
2204620 ATGCCTTCAAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
1 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
*
2204685 --------AA-TTTT--TT----T--AT-TT--TTTAATGTTTGCATTAGGAAACATGAAGCGAA
66 ATTTTTTTAATTTTTCATTAAAATAGATCTTAATTTGATGTTTGCATTAGGAAACATGAAGCGAA
* * *
2204730 AGCCATCCATTGGCAAGAAAAGTCCA-TTATAGTCATTCATGCCTTCGACAACCTAGTTACTCAC
131 AGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGACAGCCTAGTTACTCAC
*
2204794 TTTAAATGGTTTTATAATC-TCATAAATGATTTT-AAGTTGAATTGGTTTCCATTTCTAGTTAAA
196 TTTAAATGGTTTTATAA-CATCATAAATGATTTTAAAGTTGAATTTGTTTCCATTTCTAGTTAAA
* * * * *
2204857 ACATATCCTAATTGGATGTTTG-CTATGTGAAACGTGAAGCAAAAGTCATCCATTAACAAGAAAA
260 ACAGATCATAATTTGATGTTTGCCT-TG-GAAACATGAAGCGAAAGTCATCCATTAACAAGAAAA
* * * *
2204921 GTCCATTTATAGTCATCTATATCTTCAAAAGCCTTGTTACACGCGTTAAGTGGTTTTACAACTTT
323 GTCCATTTATAGTCA-CCATATCTTCAAAAGCCTTGTTACTCGCGTTAAGTTGTTTTATAACTTT
* * *
2204986 -TTAATGAGTTTAAATTAATTTTTTTTCCATTTATCGTTAAAAC-GAATCATGATTTGATGTTTG
387 ATAAATGAGTTTAAATTAATTTTTTTT-CATTTATGGTTAAAACAG-ATCATAATTTGATGTTTG
* * * * *
2205049 CAT-TGGGAAACATGAAGCAAAACCCATCCATTGATAAGAAAAGTCCATTTATAGTCACTC
450 CATCT-GAAAACGTGAAGCGAAACCCATCCATTGACAAGAAAAGTCCATTTATAATCAC-C
* * * * * * *
2205109 ATGCGTTCGAAAGCCTTGGT-ACTCGCTTTAAATGATTTTATAA-TCTTACAAATGATTTTAAAC
1 ATGCCTTCGAAAGCCTT-GTCACTCACTTTAAGTGGTTTTATAACT-TTATAAATAATTTTAAAT
* * * * * * *
2205172 TGA----ATT--TTTTTCATTAAAATAGGTCATATTTTGATGTTTGCATTGGGAACCGTGAAGCG
64 TGATTTTTTTAATTTTTCATTAAAATAGATCTTAATTTGATGTTTGCATTAGGAAACATGAAGCG
* * ** * * **
2205231 AACA-ACATCAATTGACAAGAAAAGTTAATTTATAGTCACTCATGCCTTTGAAAGCCTTCTTACT
129 AA-AGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGACAGCCTAGTTACT
* * * * * * * *
2205295 CGCTTTAAGTGGTTTTATAACATTATAAATGATTTTCAA-CTGAA-TTGTTTTCATTTTTTGTTA
193 CACTTTAAATGGTTTTATAACATCATAAATGATTTTAAAGTTGAATTTGTTTCCATTTCTAGTTA
* * * * * * ** * * *
2205358 AAACGGATTATTATTTGATGTTTGCATTAGGAACCGTGCAA-TAAAAGACATCTATTGACAAGAA
258 AAACAGATCATAATTTGATGTTTGCCTT-GGAAACATG-AAGCGAAAGTCATCCATTAACAAGAA
* * *
2205422 AAGCCCATTTATAGTCACTCATACCTTCGAAAA-CCTTGTTACTCGC-TTGAA-ATG--TT-T--
321 AAGTCCATTTATAGTCAC-CATATCTTC-AAAAGCCTTGTTACTCGCGTT-AAGTTGTTTTATAA
* * * * * * * * *
2205479 -TGTGTAAATGATTTTAAGTTGAATTTATTTTCATTTTTGGTTAAAATAGATTATAATTGGATGT
383 CTTTATAAATGAGTTTAAATT-AATTTTTTTTCATTTATGGTTAAAACAGATCATAATTTGATGT
* * * * * * * **
2205543 TTACCTC-GAGAAGCGTTAAGTGAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGGCACTC
447 TTGCATCTGA-AAACGTGAAGCGAAACCCATCCATTGACAAGAAAAGTCCATTTATAATCAC-C
* ** * * * *
2205606 ATGCCTTCGAAAGCCTTGTTACTTGCTTTAAGTGGATTTATAATTTTATAAATGATTTGAAATTG
1 ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
* * * * *
2205671 AATTTTTT-CTTTTT-AGGTTAAAATAGAT-TACAATTTGATGTTTGCA-TAGGGAAACGTTAAG
66 ATTTTTTTAATTTTTCA--TTAAAATAGATCT-TAATTTGATGTTTGCATTA-GGAAACATGAAG
* * * * * * * * * *
2205732 CAAAAGCCATCCGTTGACATGAAAAGTCCACTTATAGCCATTCATGCCTTTGAAAGCGTTGTTAC
127 CGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGACAGCCTAGTTAC
* * * * * * * *
2205797 TCGCTTTAAGTGATTTTATAACATTATAAATGATTTTAAACTT--ATTT-TTTTCATTTATCGTT
192 TCACTTTAAATGGTTTTATAACATCATAAATGATTTTAAAGTTGAATTTGTTTCCATTTCTAGTT
* * ** * *
2205859 AAAACGGATCATAATTTTATGTTTGTGTTGGAAACATGAAGCGAAAGTCGTCCATTGACAAGAAA
257 AAAACAGATCATAATTTGATGTTTGCCTTGGAAACATGAAGCGAAAGTCATCCATTAACAAGAAA
** * * * * *
2205924 AGTTTATTTATAGTCACTAAAGCTTTCAAAAGCCTTGTTACTCGCTTTAAGTAGTTTTATAACTT
322 AGTCCATTTATAGTCACCATATC-TTCAAAAGCCTTGTTACTCGCGTTAAGTTGTTTTATAACTT
* * * * * * *
2205989 TATAAATGATTTTAAACTGATTTTTTGTCATTCTA-GGTTAAAAGAGTTCATACTTTGATGTTTG
386 TATAAATGAGTTTAAATTAATTTTTTTTCATT-TATGGTTAAAACAGATCATAATTTGATGTTTG
* * *
2206053 C-TTTGAGAAACGTGAAGCGAATCCCATCCATTGACAAGAAAAGTCCATTTATAGTCACC
450 CATCTGA-AAACGTGAAGCGAAACCCATCCATTGACAAGAAAAGTCCATTTATAATCACC
* * ** *
2206112 AATGCCTTC-AAAGGTCTTGTTACTCGTTTTAAGTGGTTTTATAACTTCATAAATAATTTTAAAT
1 -ATGCCTTCGAAA-GCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAAT
* * *
2206176 TGAATTTTTTTTACATTTTTTATTAAAATAGATCATAATTTGATGTTTGCATTGGGAAACATGAA
64 TG-A-TTTTTTTA-ATTTTTCATTAAAATAGATCTTAATTTGATGTTTGCATTAGGAAACATGAA
* **
2206241 GCGAAA-CTCATCGATTGATGAGAAAAGT
126 GCGAAAGC-CATCCATTGACAAGAAAAGT
2206269 GTAACACCCC
Statistics
Matches: 2228, Mismatches: 346, Indels: 188
0.81 0.13 0.07
Matches are distributed among these distances:
488 28 0.01
489 331 0.15
490 57 0.03
492 6 0.00
493 2 0.00
494 2 0.00
495 1 0.00
496 5 0.00
497 139 0.06
498 12 0.01
499 2 0.00
500 12 0.01
501 66 0.03
502 53 0.02
503 270 0.12
504 131 0.06
505 5 0.00
506 5 0.00
507 135 0.06
508 21 0.01
509 7 0.00
510 161 0.07
511 637 0.29
512 134 0.06
513 2 0.00
514 4 0.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (508 bp):
ATGCCTTCGAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTG
ATTTTTTTAATTTTTCATTAAAATAGATCTTAATTTGATGTTTGCATTAGGAAACATGAAGCGAA
AGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGACAGCCTAGTTACTCAC
TTTAAATGGTTTTATAACATCATAAATGATTTTAAAGTTGAATTTGTTTCCATTTCTAGTTAAAA
CAGATCATAATTTGATGTTTGCCTTGGAAACATGAAGCGAAAGTCATCCATTAACAAGAAAAGTC
CATTTATAGTCACCATATCTTCAAAAGCCTTGTTACTCGCGTTAAGTTGTTTTATAACTTTATAA
ATGAGTTTAAATTAATTTTTTTTCATTTATGGTTAAAACAGATCATAATTTGATGTTTGCATCTG
AAAACGTGAAGCGAAACCCATCCATTGACAAGAAAAGTCCATTTATAATCACC
Found at i:2204826 original size:148 final size:149
Alignment explanation
Indices: 2204557--2204836 Score: 370
Period size: 148 Copynumber: 1.9 Consensus size: 149
2204547 AACTTGATGC
* * *
2204557 TTGCAGTAGGAAACGTGAAGCGAAACCCATCCATTGACAAGTAAAGTTCATTTATAAGCACCCAT
1 TTGCAGTAGGAAACATGAAGCGAAACCCATCCATTGACAAGAAAAGTCCATTTATAAGCACCCAT
* * *
2204622 GCCTTCAAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATTGAA
66 GCCTTCAAAAGCCTAGTCACTCACTTTAAATGGTTTTATAACTTCATAAATAATTTTAAATTGAA
2204687 TTTTTTTATTTTTTAATGT
131 TTTTTTTATTTTTTAATGT
* * * **
2204706 TTGCATTAGGAAACATGAAGCGAAAGCCATCCATTGGCAAGAAAAGTCCA-TTAT-AGTCATTCA
1 TTGCAGTAGGAAACATGAAGCGAAACCCATCCATTGACAAGAAAAGTCCATTTATAAG-CACCCA
* * * *
2204769 TGCCTTCGACAA-CCTAGTTACTCACTTTAAATGGTTTTATAA-TCTCATAAATGATTTTAAGTT
65 TGCCTTC-AAAAGCCTAGTCACTCACTTTAAATGGTTTTATAACT-TCATAAATAATTTTAAATT
2204832 GAATT
128 GAATT
2204837 GGTTTCCATT
Statistics
Matches: 113, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
147 3 0.03
148 63 0.56
149 47 0.42
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (149 bp):
TTGCAGTAGGAAACATGAAGCGAAACCCATCCATTGACAAGAAAAGTCCATTTATAAGCACCCAT
GCCTTCAAAAGCCTAGTCACTCACTTTAAATGGTTTTATAACTTCATAAATAATTTTAAATTGAA
TTTTTTTATTTTTTAATGT
Found at i:2205015 original size:170 final size:167
Alignment explanation
Indices: 2204702--2206268 Score: 1309
Period size: 170 Copynumber: 9.3 Consensus size: 167
2204692 TTATTTTTTA
* * * * *
2204702 ATGTTTGCATTAGGAAACATGAAGCGAAAGCCATCCATTGGCAAGAAAAGTCCA-TTATAGTCAT
1 ATGTTTGCA-TGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC
* * * * * *
2204766 TCATGCCTTCGACAA-CCTAGTTACTCACTTTAAATGGTTTTATAATCTCATAAATGATTTTAAG
65 TCATGCCTTC-AAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAA-CTTATAAATGATTTTAAA
* * * * * *
2204830 TTGAATTGGTTTCCATTTCTAGTTAAAACATATCCTAATTGG
128 TT-AATT-TTTTTCATTTTTAGTTAAAACAGATCATAATTTG
* * *
2204872 ATGTTTGCTATGTGAAACGTGAAGCAAAAGTCATCCATTAACAAGAAAAGTCCATTTATAGTCA-
1 ATGTTTGC-ATGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC
** * * * * * *
2204936 TCTATATCTTCAAAAGCCTTGTTACACGCGTTAAGTGGTTTTACAACTTTTTAATGAGTTTAAAT
65 TC-ATGCCTTCAAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAACTTATAAATGATTTTAAAT
* * *
2205001 TAATTTTTTTTCCATTTATCGTTAAAAC-GAATCATGATTTG
129 TAA-TTTTTTT-CATTTTTAGTTAAAACAG-ATCATAATTTG
* * *
2205042 ATGTTTGCATTGGGAAACATGAAGCAAAACCCATCCATTGATAAGAAAAGTCCATTTATAGTCAC
1 ATGTTTGCA-TGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC
* * * * * *
2205107 TCATGCGTTCGAAAGCCTTGGTACTCGCTTTAAATGATTTTATAATCTTACAAATGATTTTAAAC
65 TCATGCCTTCAAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAA-CTTATAAATGATTTTAAA-
* * * *
2205172 TGAATTTTTTTC------A-TTAAAATAGGTCATATTTTG
128 TTAATTTTTTTCATTTTTAGTTAAAACAGATCATAATTTG
* * **
2205205 ATGTTTGCATTGGGAACCGTGAAGCGAACAA--CATCAATTGACAAGAAAAGTTAATTTATAGTC
1 ATGTTTGCA-TGGGAAACGTGAAGC-AA-AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTC
** *
2205268 ACTCATGCCTTTGAAAGCCTTCTTACTCGCTTTAAGTGGTTTTATAACATTATAAATGATTTTCA
63 ACTCATGCCTTCAAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAAC-TTATAAATGATTTT-A
* * * * * * *
2205333 ACTGAATTGTTTTCATTTTTTGTTAAAACGGATTATTATTTG
126 AATTAATTTTTTTCATTTTTAGTTAAAACAGATCATAATTTG
* * * * * *
2205375 ATGTTTGCATTAGGAACCGTGCAA-TAAAAGACATCTATTGACAAGAAAAGCCCATTTATAGTCA
1 ATGTTTGCA-TGGGAAACGTG-AAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCA
* * * * * *
2205439 CTCATACCTTCGAAAA-CCTTGTTACTCGCTTGAAAT-G-TTT-T---GTGTAAATGATTTTAAG
64 CTCATGCCTTC-AAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAACTTATAAATGATTTTAAA
* * * *
2205497 TTGAATTTATTTTCATTTTTGGTTAAAATAGATTATAATTGG
128 TT-AATTT-TTTTCATTTTTAGTTAAAACAGATCATAATTTG
* * * * * ** * *
2205539 ATGTTTACCTCGAGAAGCGTTAAGTGAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGGCAC
1 ATGTTTGCAT-GGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC
* * * * *
2205604 TCATGCCTTCGAAAGCCTTGTTACTTGCTTTAAGTGGATTTATAATTTTATAAATGATTTGAAAT
65 TCATGCCTTCAAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAA-CTTATAAATGATTTTAAAT
* * *
2205669 TGAA-TTTTTTC-TTTTTAGGTTAAAATAGATTACAATTTG
129 T-AATTTTTTTCATTTTTA-GTTAAAACAGATCATAATTTG
* * * * * *
2205708 ATGTTTGCATAGGGAAACGTTAAGCAAAAGCCATCCGTTGACATGAAAAGTCCACTTATAGCCAT
1 ATGTTTGCAT-GGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC
** * *
2205773 TCATGCCTTTGAAAGCGTTGTTACTCGCTTTAAGTGATTTTATAACATTATAAATGATTTTAAAC
65 TCATGCCTTCAAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAAC-TTATAAATGATTTTAAA-
* * * *
2205838 TT-ATTTTTTTCATTTATCGTTAAAACGGATCATAATTTT
128 TTAATTTTTTTCATTTTTAGTTAAAACAGATCATAATTTG
** * * * * * **
2205877 ATGTTTGTGTTGGAAACATGAAGCGAAAGTCGTCCATTGACAAGAAAAGTTTATTTATAGTCACT
1 ATGTTTGCATGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* * * * *
2205942 AAAGCTTTCAAAAGCCTTGTTACTCGCTTTAAGTAGTTTTATAACTTTATAAATGATTTTAAACT
66 CATGCCTTCAAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAAC-TTATAAATGATTTTAAATT
* * * * *
2206007 GATTTTTTGTCA-TTCTAGGTTAAAAGAGTTCATACTTTG
130 AATTTTTT-TCATTTTTA-GTTAAAACAGATCATAATTTG
* * * **
2206046 ATGTTTGCTTTGAGAAACGTGAAGCGAATCCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC
1 ATGTTTGC-ATGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC
* * * *
2206111 -CAATGCCTTCAAAGGTCTTGTTACTCGTTTTAAGTGGTTTTATAACTTCATAAATAATTTTAAA
65 TC-ATGCCTTCAAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAACTT-ATAAATGATTTTAAA
*
2206175 TTGAATTTTTTTTACATTTTTTA-TTAAAATAGATCATAATTTG
128 TT-AA-TTTTTTT-CA-TTTTTAGTTAAAACAGATCATAATTTG
* * * **
2206218 ATGTTTGCATTGGGAAACATGAAGCGAAA-CTCATCGATTGATGAGAAAAGT
1 ATGTTTGCA-TGGGAAACGTGAAGCAAAAGC-CATCCATTGACAAGAAAAGT
2206269 GTAACACCCC
Statistics
Matches: 1128, Mismatches: 212, Indels: 112
0.78 0.15 0.08
Matches are distributed among these distances:
162 4 0.00
163 152 0.13
164 107 0.09
165 3 0.00
166 3 0.00
167 3 0.00
168 117 0.10
169 202 0.18
170 375 0.33
171 89 0.08
172 69 0.06
174 4 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (167 bp):
ATGTTTGCATGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
CATGCCTTCAAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAACTTATAAATGATTTTAAATTA
ATTTTTTTCATTTTTAGTTAAAACAGATCATAATTTG
Found at i:2205438 original size:333 final size:334
Alignment explanation
Indices: 2204692--2206246 Score: 1374
Period size: 333 Copynumber: 4.6 Consensus size: 334
2204682 TTGAATTTTT
* * * * *
2204692 TTATTTTTTAATGTTTGCATTAGGAAACATGAAGCGAAAGCCATCCATTGGCAAGAAAAGTCCA-
1 TTATTATTTGATGTTTGCATTAGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCAT
* * * * *
2204756 TTATAGTCATTCATGCCTTCGACAA-CCTAGTTACTCACTTTAAATGGTTTTATAATCTCATAAA
66 TTATAGTCACTCATGCCTTCGA-AAGCCTTGTTACTCGCTTTAAATGATTTTATAATCTTATAAA
* * * * * *
2204820 TGATTTTAAGTTGAATTGGTTTCCATTTCTAGTTAAAACATATCCTAATTGGATGTTTGC-TATG
130 TGATTTTAAATTGAA-T--TTT---TTTC-ATTTAAAATAGATCATAATTTGATGTTTGCAT-TG
* * * * **
2204884 TGAAACGTGAAGCAAAAGTCATCCATTAACAAGAAAAGTCCATTTATAGTCA-TCTATATCTTCA
187 GGAAACGTGAAGCGAAAGACATCCATTGACAAGAAAAGTCCATTTATAGTCACTC-ATGCCTTCA
* * * * * *
2204948 AAAGCCTTGTTACACGCGTTAAGTGGTTTTACAACTTT-TTAATGAGTTTAAA-TTAATTTTTTT
251 AAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAACTGAA-TTTTTT
* * *
2205011 TCCATTTATCGTTAAAACGAA
315 T-CATTTTTGGTTAAAACGGA
* * * * * *
2205032 TCATGATTTGATGTTTGCATTGGGAAACATGAAGCAAAACCCATCCATTGATAAGAAAAGTCCAT
1 TTATTATTTGATGTTTGCATTAGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCAT
* * *
2205097 TTATAGTCACTCATGCGTTCGAAAGCCTTGGTACTCGCTTTAAATGATTTTATAATCTTACAAAT
66 TTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAATGATTTTATAATCTTATAAAT
* * * *
2205162 GATTTTAAACTGAATTTTTTTCA-TTAAAATAGGTCATATTTTGATGTTTGCATTGGGAACCGTG
131 GATTTTAAATTGAATTTTTTTCATTTAAAATAGATCATAATTTGATGTTTGCATTGGGAAACGTG
* ** ** *
2205226 AAGCGAACA-ACATCAATTGACAAGAAAAGTTAATTTATAGTCACTCATGCCTTTGAAAGCCTTC
196 AAGCGAA-AGACATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTG
* * * *
2205290 TTACTCGCTTTAAGTGGTTTTATAACATTATAAATGATTTTCAACTGAATTGTTTTCATTTTTTG
260 TTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAACTGAATTTTTTTCATTTTTGG
2205355 TTAAAACGGA
325 TTAAAACGGA
* * * * *
2205365 TTATTATTTGATGTTTGCATTAGGAACCGTGCAA-TAAAAGACATCTATTGACAAGAAAAGCCCA
1 TTATTATTTGATGTTTGCATTAGGAAACGTG-AAGCAAAAGCCATCCATTGACAAGAAAAGTCCA
* * * * *
2205429 TTTATAGTCACTCATACCTTCGAAAACCTTGTTACTCGCTTGAAATG---TT-T--T-GTGTAAA
65 TTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAATGATTTTATAATCTTATAAA
* * * * * * *
2205487 TGATTTTAAGTTGAATTTATTTTCATTTTTGGTTAAAATAGATTATAATTGGATGTTTACCTCGA
130 TGATTTTAAATTGAATTT-TTTTCA----T--TTAAAATAGATCATAATTTGATGTTTGCATTGG
* * * * * * *
2205552 GAAGCGTTAAGTGAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGGCACTCATGCCTTCGAA
188 GAAACGTGAAGCGAAAGACATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAA
* * * * *
2205617 AGCCTTGTTACTTGCTTTAAGTGGATTTATAATTTTATAAATGATTTGAAATTGAA-TTTTTTC-
253 AGCCTTGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAACTGAATTTTTTTCA
**
2205680 TTTTTAGGTTAAAATAGA
318 TTTTT-GGTTAAAACGGA
** * * *
2205698 TTACAATTTGATGTTTGCA-TAGGGAAACGTTAAGCAAAAGCCATCCGTTGACATGAAAAGTCCA
1 TTATTATTTGATGTTTGCATTA-GGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCA
* * * * * *
2205762 CTTATAGCCATTCATGCCTTTGAAAGCGTTGTTACTCGCTTTAAGTGATTTTATAA-CATTATAA
65 TTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAATGATTTTATAATC-TTATAA
* **
2205826 ATGATTTTAAACTT--ATTTTTTTCATTTATCGTTAAA-ACGGATCATAATTTTATGTTTGTGTT
129 ATGATTTTAAA-TTGAATTTTTTTCATTTA-----AAATA--GATCATAATTTGATGTTTGCATT
* * * ** * * *
2205888 -GGAAACATGAAGCGAAAGTCGTCCATTGACAAGAAAAGTTTATTTATAGTCACTAAAGCTTTCA
186 GGGAAACGTGAAGCGAAAGACATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCA
*
2205952 AAAGCCTTGTTACTCGCTTTAAGTAGTTTTATAACTTTATAAATGATTTTAAACTG-ATTTTTTG
251 AAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAACTGAATTTTTT-
* *
2206016 TCATTCTAGGTTAAAA--GA
315 TCATTTTTGGTTAAAACGGA
* * **
2206034 GTTCA-TACTTTGATGTTTGC-TTTGAGAAACGTGAAGCGAATCCCATCCATTGACAAGAAAAGT
1 -TT-ATTA-TTTGATGTTTGCATTAG-GAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGT
* * * *
2206097 CCATTTATAGTCAC-CAATGCCTTC-AAAGGTCTTGTTACTCGTTTTAAGTGGTTTTATAA-CTT
62 CCATTTATAGTCACTC-ATGCCTTCGAAA-GCCTTGTTACTCGCTTTAAATGATTTTATAATCTT
*
2206159 CATAAATAATTTTAAATTGAATTTTTTTTACATTTTTTATTAAAATAGATCATAATTTGATGTTT
125 -ATAAATGATTTTAAATTGAA-TTTTTTT-CA-----T-TTAAAATAGATCATAATTTGATGTTT
*
2206224 GCATTGGGAAACATGAAGCGAAA
181 GCATTGGGAAACGTGAAGCGAAA
2206247 CTCATCGATT
Statistics
Matches: 983, Mismatches: 173, Indels: 116
0.77 0.14 0.09
Matches are distributed among these distances:
326 20 0.02
327 7 0.01
329 1 0.00
330 2 0.00
332 12 0.01
333 314 0.32
334 151 0.15
335 7 0.01
336 6 0.01
337 120 0.12
338 141 0.14
339 8 0.01
340 79 0.08
341 90 0.09
342 20 0.02
343 1 0.00
346 1 0.00
347 3 0.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (334 bp):
TTATTATTTGATGTTTGCATTAGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCAT
TTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAATGATTTTATAATCTTATAAAT
GATTTTAAATTGAATTTTTTTCATTTAAAATAGATCATAATTTGATGTTTGCATTGGGAAACGTG
AAGCGAAAGACATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTGT
TACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAACTGAATTTTTTTCATTTTTGGT
TAAAACGGA
Found at i:2205615 original size:164 final size:165
Alignment explanation
Indices: 2205063--2206137 Score: 494
Period size: 169 Copynumber: 6.4 Consensus size: 165
2205053 GGGAAACATG
* * * * * *
2205063 AAGCAAAACCCATCCATTGATAAGAAAAGTCCATTTATAGTCACTCATGCGTTCGAAAGCCTTGG
1 AAGCAAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGCCACTCATGCCTTCGAAAGCCTTGT
* * * * * *
2205128 TACTCGCTTTAAATGATTTTATAATCT-TACAAATGATTTTAAACTGAA---TTT-TTTTCA--T
66 TACTCGC-TTGAA-GA-TGTAT-AT-TGTATAAATGATTTGAAATTGAATTTTTTCTTTTTAGGT
* * * * * * * * * *
2205186 TAAAATAGGTCATATTTTGATGTTTGCATTGGGAACCGTG
126 TAAAATAGATTACAATTGGATGTTTACATAGAGAAACGTT
** ** * *
2205226 AAGCGAACAA--CATCAATTGACAAGAAAAGTTAATTTATAGTCACTCATGCCTTTGAAAGCCTT
1 AAGC-AA-AAGCCATCCGTTGACAAGAAAAGTCCATTTATAGCCACTCATGCCTTCGAAAGCCTT
* * * ** *
2205289 CTTACTCGCTTTAAG-TGGTTTTATAACAT-TATAAATGATTTTCAACTGAATTGTTTTCATTTT
64 GTTACTCGCTTGAAGAT-G---TAT-A-TTGTATAAATGATTTGAAATTGAATT-TTTTC-TTTT
* ** ** * * * *
2205352 T-TGTTAAAACGGATTATTATTTGATGTTTGCATTAG-GAACCGTGC
121 TAGGTTAAAATAGATTACAATTGGATGTTTACA-TAGAGAAACGT-T
* * ** * * * *
2205397 AA-TAAAAGACATCTATTGACAAGAAAAGCCCATTTATAGTCACTCATACCTTCGAAAACCTTGT
1 AAGCAAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGCCACTCATGCCTTCGAAAGCCTTGT
* * *
2205461 TACTCGCTTGAA-ATGT-T-TTGTGTAAATGATTTTAAGTTGAATTTATTTTCATTTTT-GGTTA
66 TACTCGCTTGAAGATGTATATTGTATAAATGATTTGAAATTGAA-TT-TTTTC-TTTTTAGGTTA
* * * *
2205522 AAATAGATTATAATTGGATGTTTACCTCGAGAAGCGTT
128 AAATAGATTACAATTGGATGTTTACATAGAGAAACGTT
** *
2205560 AAGTGAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGGCACTCATGCCTTCGAAAGCCTTGT
1 AAGCAAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGCCACTCATGCCTTCGAAAGCCTTGT
* * * *
2205625 TACTTGCTTTAAGTGGATTTATAATTTTATAAATGATTTGAAATTGAATTTTTTCTTTTTAGGTT
66 TACTCGCTTGAA---GATGTAT-ATTGTATAAATGATTTGAAATTGAATTTTTTCTTTTTAGGTT
* * *
2205690 AAAATAGATTACAATTTGATGTTTGCATAGGGAAACGTT
127 AAAATAGATTACAATTGGATGTTTACATAGAGAAACGTT
* * * * *
2205729 AAGCAAAAGCCATCCGTTGACATGAAAAGTCCACTTATAGCCATTCATGCCTTTGAAAGCGTTGT
1 AAGCAAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGCCACTCATGCCTTCGAAAGCCTTGT
* * * * * * *
2205794 TACTCGCTTTAAGTGATTTTATAACAT-TATAAATGATTTTAAACTT-ATTTTTTTC-ATTTATC
66 TACTCGCTTGAA--GA-TGTAT-A-TTGTATAAATGATTTGAAA-TTGAATTTTTTCTTTTTA-G
** * * ** *** * * *
2205856 GTTAAAACGGATCATAATTTTATGTTTGTGTTG-GAAACATG
124 GTTAAAATAGATTACAATTGGATGTTTACATAGAGAAACGTT
* * * * ** * * * * *
2205897 AAGCGAAAGTCGTCCATTGACAAGAAAAGTTTATTTATAGTCACTAAAGCTTTCAAAAGCCTTGT
1 AAGCAAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGCCACTCATGCCTTCGAAAGCCTTGT
* * * * * * *
2205962 TACTCGCTTTAAGTAGTTTTATAACTT-TATAAATGATTTTAAACTGATTTTTTGTCATTCTAGG
66 TACTCGCTTGAAG-A--TGTAT-A-TTGTATAAATGATTTGAAATTGAATTTTT-TCTTTTTAGG
* * * * * *
2206026 TTAAAAGAG-TT-CATACTTTGATGTTTGCTTTGAGAAACGTG
125 TTAAAATAGATTACA-A-TTGGATGTTTACATAGAGAAACGTT
* ** * * *
2206067 AAGCGAATCCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC-CAATGCCTTC-AAAGGTCTT
1 AAGCAAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGCCACTC-ATGCCTTCGAAA-GCCTT
2206130 GTTACTCG
64 GTTACTCG
2206138 TTTTAAGTGG
Statistics
Matches: 731, Mismatches: 135, Indels: 85
0.77 0.14 0.09
Matches are distributed among these distances:
159 1 0.00
161 1 0.00
162 5 0.01
163 104 0.14
164 109 0.15
165 3 0.00
166 2 0.00
167 6 0.01
168 118 0.16
169 198 0.27
170 160 0.22
171 24 0.03
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (165 bp):
AAGCAAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGCCACTCATGCCTTCGAAAGCCTTGT
TACTCGCTTGAAGATGTATATTGTATAAATGATTTGAAATTGAATTTTTTCTTTTTAGGTTAAAA
TAGATTACAATTGGATGTTTACATAGAGAAACGTT
Found at i:2207842 original size:278 final size:277
Alignment explanation
Indices: 2207345--2207899 Score: 1074
Period size: 278 Copynumber: 2.0 Consensus size: 277
2207335 TGATGCTTAC
2207345 TTACCATTCAAAGTGTAGATTGGAAGCTTGAAAGAGATGTGTGGCATGGTTTCAAAATCCAAGTG
1 TTACCATTCAAAGTGTAGATTGGAAGCTTGAAAGAGATGTGTGGCATGGTTTCAAAATCCAAGTG
*
2207410 AGGAAAGGTAAGAATTGTGATTTTAGTTTGAATATGTTTTGAAAACCGGATGGTAACATAGGAAA
66 AGGAAAGGTAAGAATTGTGATTTTAGTTTGAATATGTTTTGAAAACCAGATGGTAACATAGGAAA
2207475 GTGTTTATGGCGGCAAAGTTCTCCAAGTGTTGAAAGACATAGATGCATGCATGCCATTGATCCTT
131 GTGTTTATGGCGGCAAAGTTCTCCAAGTGTTGAAAGACATAGATGCATGCATGCCATTGATCCTT
2207540 GGTTTGGTGATGGATTTAAGATAAAACGCAAGAAGGGGTAAGATGTTCTTAACCTTTAAATTCCT
196 GGTTTGGTGATGGATTTAAGATAAAACGCAAGAAGGGGTAAGATGTTCTTAACCTTTAAATTCCT
2207605 AAATGGTGGAAAAATGT
261 AAATGGTGGAAAAATGT
2207622 NTTACCATTCAAAGTGTAGATTGGAAGCTTGAAAGAGATGTGTGGCATGGTTTCAAAATCCAAGT
1 -TTACCATTCAAAGTGTAGATTGGAAGCTTGAAAGAGATGTGTGGCATGGTTTCAAAATCCAAGT
* *
2207687 GAGGAAAGGTAAGAATTGTGATTTTAGTTTGAATATGTTTTGAAAAGCAGTTGGTAACATAGGAA
65 GAGGAAAGGTAAGAATTGTGATTTTAGTTTGAATATGTTTTGAAAACCAGATGGTAACATAGGAA
2207752 AGTGTTTATGGCGGCAAAGTTCTCCAAGTGTTGAAAGACATAGATGCATGCATGCCATTGATCCT
130 AGTGTTTATGGCGGCAAAGTTCTCCAAGTGTTGAAAGACATAGATGCATGCATGCCATTGATCCT
2207817 TGGTTTGGTGATGGATTTAAGATAAAACGCAAGAAGGGGTAAGATGTTCTTAACCTTTAAATTCC
195 TGGTTTGGTGATGGATTTAAGATAAAACGCAAGAAGGGGTAAGATGTTCTTAACCTTTAAATTCC
2207882 TAAATGGTGGAAAAATGT
260 TAAATGGTGGAAAAATGT
2207900 GGGTGTTAAT
Statistics
Matches: 274, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
278 274 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (277 bp):
TTACCATTCAAAGTGTAGATTGGAAGCTTGAAAGAGATGTGTGGCATGGTTTCAAAATCCAAGTG
AGGAAAGGTAAGAATTGTGATTTTAGTTTGAATATGTTTTGAAAACCAGATGGTAACATAGGAAA
GTGTTTATGGCGGCAAAGTTCTCCAAGTGTTGAAAGACATAGATGCATGCATGCCATTGATCCTT
GGTTTGGTGATGGATTTAAGATAAAACGCAAGAAGGGGTAAGATGTTCTTAACCTTTAAATTCCT
AAATGGTGGAAAAATGT
Found at i:2210924 original size:171 final size:169
Alignment explanation
Indices: 2210377--2212654 Score: 1133
Period size: 171 Copynumber: 13.2 Consensus size: 169
2210367 GGTCATTACA
* * *
2210377 AAAAGTTCATTTATAGTCACTCATGCCTTCGAAAGCCTAGTTACTCACTTTAAATGGTTTTATAA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTC-GTTTAAATGGTTTTATAA
* * * *
2210442 TCTCATAAATAATTTTAAGTTGAATTTGTTTTCATTTTTTGTTAAAACAGCTCATAATTGGATGT
65 TCTTAT-AATGATTTTAAGTTGAATTGGTTTTCATTTTTTGTTAAAACAGATCATAATTGGATGT
* * * *
2210507 TTACCTTGGGAAA-AGTGAAGTGAAGGCCATCCATTGACAAG
129 TTGCCTTAGGAAACA-TGAAGCGAAAGCCATCCATTGACAAG
* * * * * * * * *
2210548 AAAAGTCTATATATAGTCACCCATACCTTCGAAAGCCTTGTTACTCGCTTTAAGTGCTTTTATGA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCG-TTTAAATGGTTTTATAA
* ** * * *
2210613 -CTTTATAAGTGATTTTAAATTGAATT--TTCATTCATTTTTCATT-AAATAGGTCATAATTTGA
65 TC-TTATAA-TGATTTTAAGTTGAATTGGTT--TTCATTTTTTGTTAAAACAGATCATAATTGGA
* * * * *
2210674 TGTTTGCATTGGGAAACATGAAGTGAACGCTATCCATTGACAAG
126 TGTTTGCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACAAG
* * *
2210718 AAAAGTCTATTTATAGTCACTCATGCCTACAAAAGCCTAGTTACTCAGTTTGAATGGTTTTATAA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTC-GTTTAAATGGTTTTATAA
* ** * * * *
2210783 TCTCATGAATGATTTTGGGTTGAATTGGTTTCCATTTTTGGTTAAAAAAGATCATAATTGGCTGT
65 TCTTAT-AATGATTTTAAGTTGAATTGGTTTTCATTTTTTGTTAAAACAGATCATAATTGGATGT
* * * *
2210848 TTGCCTTAGGAAACATGAAACAAAAGCCATCGATTGATAAG
129 TTGCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACAAG
* * * * *
2210889 AAAACTCCATTTATAGACACTTATGCCTTCAAAAGCC-ATGTTGCTCTCTTTAAATGGTTTTATA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTA-GTTACTC-GTTTAAATGGTTTTATA
* * *** * *
2210953 ATATTATAAATGATTTTAAGTTGAA-TGTTTTTTCATTTTCAATTAAAACATATCATAATTAGAT
64 ATCTTAT-AATGATTTTAAGTTGAATTG-GTTTTCATTTTTTGTTAAAACAGATCATAATTGGAT
* * * * *
2211017 GTTTGCCTTAGAAAACGTGAAACGAAAGCCATCCATTAAGAAG
127 GTTTGCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACAAG
* * * * *
2211060 AAAAGTCCATTTATAGTCACTCGTGCCTGCAAAAGCCTAATTGCTCGCTTTAAATGGTTTTGTAA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCG-TTTAAATGGTTTTATAA
* * * *
2211125 TCTTATAGATGATTTTAAGTTGAATTTGTTCTCATTTTTTGTTTAAATAGATCATAATTGGATGT
65 TCTTATA-ATGATTTTAAGTTGAATTGGTTTTCATTTTTTGTTAAAACAGATCATAATTGGATGT
* *
2211190 TTGCTTGTA-GAAACATGAAGCGAAAGCCATCCGTTGACAAG
129 TTGCCT-TAGGAAACATGAAGCGAAAGCCATCCATTGACAAG
* * * *
2211231 AAATGTCCATTTATAGTCACTCATGCCCTT-AAAAGCTTAGTTACTCGCTTCAAGTGGTTTTATA
1 AAAAGTCCATTTATAGTCACTCATG-CCTTCAAAAGCCTAGTTACTCG-TTTAAATGGTTTTATA
* * * * * ** * * * *
2211295 A-CTTTATAAATGACTATAAATTGAATT-TTTTTCATCTTTCATTAAAACATATCGTACTTTGAT
64 ATC-TTAT-AATGATTTTAAGTTGAATTGGTTTTCATTTTTTGTTAAAACAGATCATAATTGGAT
* * * * * * * *
2211358 GATTGCATTGGGAAACGTGAAGTGAAAGACGTCCTTTGACAAG
127 GTTTGCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACAAG
* * *
2211401 AAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCACTTTAAATGGTTTTATAA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTC-GTTTAAATGGTTTTATAA
* ** ** * * * * *
2211466 TCTTATAAATG-TGGTTAAGTTGTTTTTTTTTTTAATTTTTGTTTTACAATCTTATAAATTATTT
65 TCTTAT-AATGAT-TTTAAGTTG-AATTGGTTTTCATTTTT-TGTTA-AA----ACAGATCA---
* * * *** * * * ** *
2211530 TTAGTTGAATTTTTTTTATTTCTGGTTAAAACAT--ATC-ATAATTG-GAT-GTTTGCCTTAA-
118 -TAATTGGA--TGTTTGCCTT-AGG---AAACATGAAGCGA-AA--GCCATCCATTGAC--AAG
* ** * * * * * **
2211588 AAAACTTGAAGTGAAAGCCA-TCCATTG-ATAAGAAAAGTCCATTTTTAGTTACTCGTGTCTACG
1 AAAA-GTCCATTTATAGTCACT-CA-TGCCT-TCAAAAG-CC-----TAGTTACTCGT-T-TA--
** * * * * * * *
2211651 ATAGCCTAATTACTTGCTGTCAATGGTTTTATAAT-CTTATAAATGATTTTAAGTTGATTTTTTT
52 A-A---T-GGT--TT--TAT-AA---TCTTATAATGATT-TTAA-G--TTGAA-TTG--GTTTTC
* * * * * * *
2211715 ATTTTTGGTAAAAATAGATCATAATTGGATGTTTACCTT--G----A-GAAGCG--TG-GATCCG
97 ATTTTTTGTTAAAACAGATCATAATTGGATGTTTGCCTTAGGAAACATGAAGCGAAAGCCATCCA
2211770 TTGACAAG
162 TTGACAAG
* * * * * * * *
2211778 AAAATTTCATTTATAGTCACCCATGCATTCAAGAGCCTTA-TTATTGGCTTTAAGTGGTTTTATA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCC-TAGTTACTCG-TTTAAATGGTTTTATA
* * * * * *
2211842 A-CTTTACAAATGATATTAAATTGAATTTGTTTTCATTTTTAGTTAAAAC-GTATCATAATTTGA
64 ATC-TTA-TAATGATTTTAAGTTGAATTGGTTTTCATTTTTTGTTAAAACAG-ATCATAATTGGA
* * * * * **
2211905 TGTTTACATT-GGGAACGTGAAGCAAAAGCCATCTGTTGACAAG
126 TGTTTGCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACAAG
* ** * * * * * *
2211948 AAAATTATATTTATAGTCACGCTTGCCTT-GAAAGCCTTGTTACTCTCTTTAAGTGGTTTTATAA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTC-GTTTAAATGGTTTTATAA
* * ** * * * *
2212012 -CTTTATAAATAATTTTAAATTGAATTTTTTTCTCATTTATCGTTAAAAC-GAAACATAATTTGA
65 TC-TTAT-AATGATTTTAAGTTGAATTGGTTT-TCATTTTTTGTTAAAACAG-ATCATAATTGGA
*
2212075 TGTTT-CCATTA-GAAACATGAAGCGAAAGCCATCTATTGACAAG
126 TGTTTGCC-TTAGGAAACATGAAGCGAAAGCCATCCATTGACAAG
* *
2212118 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCG-TTTAAATGGTTTTAT-A
* ** * ** * * *
2212183 AT-TTATAAATGATTTTAAATT-AATTTTTTTTAATTTTAAGTTAAAAGAGTTCATAATTTGATG
64 ATCTTAT-AATGATTTTAAGTTGAATTGGTTTTCATTTTTTGTTAAAACAGATCATAATTGGATG
* * *
2212246 TTTGCATTAGGAAACGTGAAGCGAAAGCCATCCATTGAGAAG
128 TTTGCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACAAG
* * * * * *
2212288 AAAAGTCCATTTATAGTCACTCGTGCCTGCAAAAGCCTAATTGCTAAC-TTTAAATGGTTATGTA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACT--CGTTTAAATGGTTTTATA
* * *
2212352 ATCTTATAGATGATTTTAAGTTGAATTTGTTCTCATTTTTTGTTTAAAC-GTATCATAATTGGAT
64 ATCTTATA-ATGATTTTAAGTTGAATTGGTTTTCATTTTTTGTTAAAACAG-ATCATAATTGGAT
* * ** * *
2212416 GTTTGGC-TCGAGAAATGTGAAGCGAAAGCCATTCGTTGACAAG
127 GTTTGCCTTAG-GAAACATGAAGCGAAAGCCATCCATTGACAAG
* ** * * * *
2212459 AAAAGCCCATTTATAGTCACTCATGCCTTTGAAAGCTTAGTTACTCCCTTCAAGTGGTTTTATAA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACT-CGTTTAAATGGTTTTATAA
* * * * * ** * * * *
2212524 -CTTTAGAAATGATTATAAATTGAATT-TTTTTCATCTTTCATTAAAACATA-CTGTACTTTGAT
65 TC-TTA-TAATGATTTTAAGTTGAATTGGTTTTCATTTTTTGTTAAAACAGATC-ATAATTGGAT
* * * * * *
2212586 GATTGCATCAGGAAACGTGAAGTGAAAGCCATCCTTTGACAAG
127 GTTTGCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACAAG
*
2212629 AAAAGTCCATTTGTAGTCACTCATGC
1 AAAAGTCCATTTATAGTCACTCATGC
2212655 TGTAAAACTC
Statistics
Matches: 1619, Mismatches: 356, Indels: 265
0.72 0.16 0.12
Matches are distributed among these distances:
160 1 0.00
161 36 0.02
162 1 0.00
163 2 0.00
164 4 0.00
166 3 0.00
167 11 0.01
168 2 0.00
169 98 0.06
170 582 0.36
171 664 0.41
172 26 0.02
173 3 0.00
174 3 0.00
175 1 0.00
178 4 0.00
179 1 0.00
181 2 0.00
182 11 0.01
183 4 0.00
184 5 0.00
185 3 0.00
186 8 0.00
187 8 0.00
188 25 0.02
189 21 0.01
190 10 0.01
191 4 0.00
193 1 0.00
194 3 0.00
195 9 0.01
196 2 0.00
198 1 0.00
199 1 0.00
200 1 0.00
202 1 0.00
203 7 0.00
205 8 0.00
207 2 0.00
208 2 0.00
209 6 0.00
210 7 0.00
211 6 0.00
213 6 0.00
214 2 0.00
215 11 0.01
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (169 bp):
AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCGTTTAAATGGTTTTATAAT
CTTATAATGATTTTAAGTTGAATTGGTTTTCATTTTTTGTTAAAACAGATCATAATTGGATGTTT
GCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACAAG
Found at i:2211486 original size:341 final size:338
Alignment explanation
Indices: 2210377--2212654 Score: 1370
Period size: 341 Copynumber: 6.6 Consensus size: 338
2210367 GGTCATTACA
* *
2210377 AAAAGTTCATTTATAGTCACTCATGCCTTCGAAAGCCTAGTTACTCACTTTAAATGGTTTTATAA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCACTTTAAATGGTTTTATAA
* * *
2210442 TCTCATAAATAATTTTAAGTTGAATTTGTTTTCATTTTTTGTTAAAACAGCTCATAATTGGATGT
66 TCTCATAAATGATTTTAAGTTGAATTTG-TTTCATTTTTTGTTAAAAAAGATCATAATTGGATGT
* * * * * * * *
2210507 TTACCTTG-GGAAA-AGTGAAGTGAAGGCCATCCATTGACAAGAAAAGTCTATATATAGTCACCC
130 TT-GCTTGTAGAAACA-TGAAGCGAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * *
2210570 ATACCTTCGAAAGCCTT-GTTACTCGCTTTAAGTGCTTTTATGACTTTATAAGTGATTTTAAATT
193 ATGCCTTCAAAAG-CTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATT
* * ** *
2210634 GAATTTTCATTCATTTTTCATT-AAATAGGTCATAATTTGATGTTTGCATTGGGAAACATGAAGT
257 GAATTTT-TTTCA-TTTTCATTAAAACATATCATAATTTGATGTTTGCATTGGGAAACGTGAAGT
*
2210698 GAACGCTATCCATTGACAAG
320 GAAAGC-ATCCATTGACAAG
* * * *
2210718 AAAAGTCTATTTATAGTCACTCATGCCTACAAAAGCCTAGTTACTCAGTTTGAATGGTTTTATAA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCACTTTAAATGGTTTTATAA
* ** * * *
2210783 TCTCATGAATGATTTTGGGTTGAATTGGTTTCCATTTTTGGTTAAAAAAGATCATAATTGGCTGT
66 TCTCATAAATGATTTTAAGTTGAATTTGTTT-CATTTTTTGTTAAAAAAGATCATAATTGGATGT
* * * * * * *
2210848 TTGCCT-TAGGAAACATGAAACAAAAGCCAT-CGATTGATAAGAAAACTCCATTTATAGACACTT
130 TTGCTTGTA-GAAACATGAAGCGAAAGCCATCCG-TTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * *
2210911 ATGCCTTCAAAAGC-CATGTTGCTCTCTTTAAATGGTTTTATAA-TATTATAAATGATTTTAAGT
193 ATGCCTTCAAAAGCTTA-GTTACTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAAT
* * * * *
2210974 TGAATGTTTTTTCATTTTCAATTAAAACATATCATAATTAGATGTTTGCCTTAGAAAACGTGAAA
256 TGAAT-TTTTTTCATTTTC-ATTAAAACATATCATAATTTGATGTTTGCATTGGGAAACGTGAAG
* * *
2211039 CGAAAGCCATCCATTAAGAAG
319 TGAAAG-CATCCATTGACAAG
* * * * * *
2211060 AAAAGTCCATTTATAGTCACTCGTGCCTGCAAAAGCCTAATTGCTCGCTTTAAATGGTTTTGTAA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCACTTTAAATGGTTTTATAA
* * * *
2211125 TCTTATAGATGATTTTAAGTTGAATTTGTTCTCATTTTTTGTTTAAATAGATCATAATTGGATGT
66 TCTCATAAATGATTTTAAGTTGAATTTGTT-TCATTTTTTGTTAAAAAAGATCATAATTGGATGT
*
2211190 TTGCTTGTAGAAACATGAAGCGAAAGCCATCCGTTGACAAGAAATGTCCATTTATAGTCACTCAT
130 TTGCTTGTAGAAACATGAAGCGAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGTCACTCAT
* * *
2211255 GCCCTT-AAAAGCTTAGTTACTCGCTTCAAGTGGTTTTATAACTTTATAAATGACTATAAATTGA
195 G-CCTTCAAAAGCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGA
* * *
2211319 ATTTTTTTCATCTTTCATTAAAACATATCGTACTTTGATGATTGCATTGGGAAACGTGAAGTGAA
259 ATTTTTTTCAT-TTTCATTAAAACATATCATAATTTGATGTTTGCATTGGGAAACGTGAAGTGAA
* *
2211384 AGACGTCCTTTGACAAG
323 AG-CATCCATTGACAAG
* *
2211401 AAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCACTTTAAATGGTTTTATAA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCACTTTAAATGGTTTTATAA
* * ** * * * *
2211466 TCTTATAAATG-TGGTTAAGTTGTTTTTTTTTTTAATTTTTGTTTTACAATCTTATAA-ATTATT
66 TCTCATAAATGAT-TTTAAGTTG--AATTTGTTTCATTTTT-TGTTA-AA----A-AAGATCA--
* * * * * * ** * * ** *
2211529 TTTAGTTGAATTTTTTTTATTTCTGGTTA-AAACATATCATAATTGGATG-TTTGCC-TTAAAAA
119 --TAATTGGA-----TGT-TTGCTTG-TAGAAAC--AT--GAAGCGAAAGCCAT-CCGTT----G
* * * * * * *
2211591 ACTTGAAGTGAAAGCCATCCATTGATAAGAAAAGTCCATTTTTAGTTACTCGTGTCTACGATAGC
166 AC---AAG-AAAAG---TCCATT--T----ATAGT-CA--CTCA--TGCC--T-TC-A--AAAGC
* * * * *
2211656 CTAATTACTTGCTGTCAA-TGGTTTTATAA-TCTTATAAATGATTTTAAGTTG-ATTTTTTT-AT
207 TTAGTTACTCGCT-TTAAGTGGTTTTATAACT-TTATAAATGATTTTAAATTGAATTTTTTTCAT
*** * * * * * *
2211717 TTTTGGTAAAA-ATAGATCATAATTGGATGTTTACCTTGAG-AA---G-CGTG---G-ATCCGTT
270 TTTCATTAAAACAT--ATCATAATTTGATGTTTGCATTGGGAAACGTGAAGTGAAAGCATCCATT
2211772 GACAAG
333 GACAAG
* * * * * * ** *
2211778 AAAATTTCATTTATAGTCACCCATGCATTCAAGAGCCTTA-TTATTGGCTTTAAGTGGTTTTATA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCC-TAGTTACTCACTTTAAATGGTTTTATA
* * * * * * *
2211842 A-CTTTACAAATGATATTAAATTGAATTTGTTTTCATTTTTAGTT-AAAACGTATCATAATTTGA
65 ATC-TCATAAATGATTTTAAGTTGAATTTG-TTTCATTTTTTGTTAAAAAAG-ATCATAATTGGA
* * * * * * **
2211905 TGTTTACATTG--GGAACGTGAAGCAAAAGCCATCTGTTGACAAGAAAATTATATTTATAGTCAC
127 TGTTTGC-TTGTAGAAACATGAAGCGAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGTCAC
* * * * *
2211968 GCTTGCCTT-GAAAGCCTT-GTTACTCTCTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAA
191 TCATGCCTTCAAAAG-CTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAA
* * * * *
2212031 TTGAATTTTTTTCTCATTTATCGTTAAAACGA-AACATAATTTGATGTTTCCATT-AGAAACATG
255 TTGAA-TTTTTT-TCATTT-TCATTAAAAC-ATATCATAATTTGATGTTTGCATTGGGAAACGTG
* *
2212094 AAGCGAAAGCCATCTATTGACAAG
316 AAGTGAAAG-CATCCATTGACAAG
* * *
2212118 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCACTTTAAATGGTTTTAT-A
* * * * ** * * *
2212183 AT-TTATAAATGATTTTAAATT-AATTTTTTTTAATTTTAAGTTAAAAGAGTTCATAATTTGATG
65 ATCTCATAAATGATTTTAAGTTGAA-TTTGTTTCATTTTTTGTTAAAAAAGATCATAATTGGATG
* * * *
2212246 TTTGCAT-TAGGAAACGTGAAGCGAAAGCCATCCATTGAGAAGAAAAGTCCATTTATAGTCACTC
129 TTTGCTTGTA-GAAACATGAAGCGAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * * ** * * * * *
2212310 GTGCCTGCAAAAGCCTAATTGCTAACTTTAAATGGTTATGTAA-TCTTATAGATGATTTTAAGTT
193 ATGCCTTCAAAAGCTTAGTTACTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAATT
* ** * * * * * *
2212374 GAATTTGTTCTCATTTTTTGTTTAAACGTATCATAATTGGATGTTTGGC-TCGAGAAATGTGAAG
257 GAATTT-TTTTCA-TTTTCATTAAAACATATCATAATTTGATGTTT-GCATTGGGAAACGTGAAG
* * *
2212438 CGAAAGCCATTCGTTGACAAG
319 TGAAAG-CATCCATTGACAAG
* ** * * * *
2212459 AAAAGCCCATTTATAGTCACTCATGCCTTTGAAAGCTTAGTTACTCCCTTCAAGTGGTTTTATAA
1 AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCACTTTAAATGGTTTTATAA
* * * * * * ** * * * * *
2212524 -CTTTAGAAATGATTATAAATTGAATTTTTTTCATCTTTCATTAAAACATA-CTGTACTTTGATG
66 TC-TCATAAATGATTTTAAGTTGAATTTGTTTCATTTTTTGTTAAAAAAGATC-ATAATTGGATG
* * * * * * *
2212587 ATTGCAT-CAGGAAACGTGAAGTGAAAGCCATCCTTTGACAAGAAAAGTCCATTTGTAGTCACTC
129 TTTGCTTGTA-GAAACATGAAGCGAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGTCACTC
2212651 ATGC
193 ATGC
2212655 TGTAAAACTC
Statistics
Matches: 1498, Mismatches: 311, Indels: 256
0.73 0.15 0.12
Matches are distributed among these distances:
326 3 0.00
327 39 0.03
328 4 0.00
329 6 0.00
330 3 0.00
331 25 0.02
332 8 0.01
334 4 0.00
335 2 0.00
338 4 0.00
339 36 0.02
340 188 0.13
341 586 0.39
342 273 0.18
343 21 0.01
344 2 0.00
345 4 0.00
348 7 0.00
349 4 0.00
352 8 0.01
355 5 0.00
356 3 0.00
357 3 0.00
358 9 0.01
359 5 0.00
360 5 0.00
361 7 0.00
362 7 0.00
365 2 0.00
366 5 0.00
368 4 0.00
369 4 0.00
370 3 0.00
372 6 0.00
373 2 0.00
374 1 0.00
375 5 0.00
376 10 0.01
377 78 0.05
378 6 0.00
379 3 0.00
381 2 0.00
382 4 0.00
383 2 0.00
384 1 0.00
385 3 0.00
386 10 0.01
387 21 0.01
388 9 0.01
389 42 0.03
390 4 0.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (338 bp):
AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCACTTTAAATGGTTTTATAA
TCTCATAAATGATTTTAAGTTGAATTTGTTTCATTTTTTGTTAAAAAAGATCATAATTGGATGTT
TGCTTGTAGAAACATGAAGCGAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGTCACTCATG
CCTTCAAAAGCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAAT
TTTTTTCATTTTCATTAAAACATATCATAATTTGATGTTTGCATTGGGAAACGTGAAGTGAAAGC
ATCCATTGACAAG
Found at i:2212061 original size:170 final size:170
Alignment explanation
Indices: 2211517--2212654 Score: 938
Period size: 170 Copynumber: 6.8 Consensus size: 170
2211507 TTTTACAATC
* * * * * * *
2211517 TTATAAATTATTTTTAGTTGAATTTTTTT-T-ATTTCTGGTTAAAACATATCATAATTGGATGTT
1 TTATAAATGATTTTAAATTGAATTTTTTTCTCATTTTTAGTTAAAACGTATCATAATTTGATGTT
* ** * * ** * * * *
2211580 TGCCTTAAAAAACTTGAAGTGAAAGCCATCCATTGATAAGAAAAGTCCATTTTTAGTTACTCGTG
66 TGCATT-GGAAACGTGAAGCGAAAGCCATCTGTTGACAAGAAAAGTCCATTTATAGTCACTCATG
* * * ** * *
2211645 TCTACGATAGCCTAATTACTTGCTGTCAA-TGGTTTTATAA-T
130 CCT-TGAAAGCCTTGTTACTCGCT-TTAAGTGGTTTTATAACT
* * * * *
2211686 CTTATAAATGATTTTAAGTTG-A-TTTTTT-T-ATTTTTGGTAAAAATAG-ATCATAATTGGATG
1 -TTATAAATGATTTTAAATTGAATTTTTTTCTCATTTTTAGTTAAAA-CGTATCATAATTTGATG
* * * * * * * *
2211746 TTTACCTT-G--A---GAAGCG--TG-GATCCGTTGACAAGAAAATTTCATTTATAGTCACCCAT
64 TTTGCATTGGAAACGTGAAGCGAAAGCCATCTGTTGACAAGAAAAGTCCATTTATAGTCACTCAT
* * * * *
2211802 GCATTCAAGAGCCTTATTATTGGCTTTAAGTGGTTTTATAACT
129 GCCTTGAA-AGCCTTGTTACTCGCTTTAAGTGGTTTTATAACT
* * *
2211845 TTACAAATGATATTAAATTGAATTTGTTT-TCATTTTTAGTTAAAACGTATCATAATTTGATGTT
1 TTATAAATGATTTTAAATTGAATTTTTTTCTCATTTTTAGTTAAAACGTATCATAATTTGATGTT
* * * * ** * *
2211909 TACATTGGGAACGTGAAGCAAAAGCCATCTGTTGACAAGAAAATTATATTTATAGTCACGCTTGC
66 TGCATTGGAAACGTGAAGCGAAAGCCATCTGTTGACAAGAAAAGTCCATTTATAGTCACTCATGC
*
2211974 CTTGAAAGCCTTGTTACTCTCTTTAAGTGGTTTTATAACT
131 CTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAACT
* * * * *
2212014 TTATAAATAATTTTAAATTGAATTTTTTTCTCATTTATCGTTAAAACGAAACATAATTTGATGTT
1 TTATAAATGATTTTAAATTGAATTTTTTTCTCATTTTTAGTTAAAACGTATCATAATTTGATGTT
* * * *
2212079 TCCATTAGAAACATGAAGCGAAAGCCATCTATTGACAAGAAAAGTCCATTTATAGTCACTCATGC
66 TGCATTGGAAACGTGAAGCGAAAGCCATCTGTTGACAAGAAAAGTCCATTTATAGTCACTCATGC
* *
2212144 CTTCAAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAAAT
131 CTT-GAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAACT
* * *
2212185 TTATAAATGATTTTAAATT-AATTTTTTT-TAATTTTAAGTTAAAAGAGT-TCATAATTTGATGT
1 TTATAAATGATTTTAAATTGAATTTTTTTCTCATTTTTAGTTAAAA-CGTATCATAATTTGATGT
** * *
2212247 TTGCATTAGGAAACGTGAAGCGAAAGCCATCCATTGAGAAGAAAAGTCCATTTATAGTCACTCGT
65 TTGCATT-GGAAACGTGAAGCGAAAGCCATCTGTTGACAAGAAAAGTCCATTTATAGTCACTCAT
** * ** * * *
2212312 GCC-TGCAAAAGCCTAATTGCTAACTTTAAATGGTTATGTAA-T
129 GCCTTG--AAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAACT
* * * * * *
2212354 CTTATAGATGATTTTAAGTTGAA-TTTGTTCTCATTTTTTGTTTAAACGTATCATAATTGGATGT
1 -TTATAAATGATTTTAAATTGAATTTTTTTCTCATTTTTAGTTAAAACGTATCATAATTTGATGT
* * *
2212418 TTGGC-TCGAGAAATGTGAAGCGAAAGCCAT-TCGTTGACAAGAAAAGCCCATTTATAGTCACTC
65 TT-GCATTG-GAAACGTGAAGCGAAAGCCATCT-GTTGACAAGAAAAGTCCATTTATAGTCACTC
* *
2212481 ATGCCTTTGAAAG-CTTAGTTACTCCCTTCAAGTGGTTTTATAACT
127 ATGCC-TTGAAAGCCTT-GTTACTCGCTTTAAGTGGTTTTATAACT
* * * * * *
2212526 TTAGAAATGATTATAAATTGAA-TTTTTT-TCATCTTTCA-TTAAAACATA-CTGTACTTTGATG
1 TTATAAATGATTTTAAATTGAATTTTTTTCTCAT-TTTTAGTTAAAACGTATC-ATAATTTGATG
* * * *
2212587 ATTGCATCAGGAAACGTGAAGTGAAAGCCATCCT-TTGACAAGAAAAGTCCATTTGTAGTCACTC
64 TTTGCAT-TGGAAACGTGAAGCGAAAGCCAT-CTGTTGACAAGAAAAGTCCATTTATAGTCACTC
2212651 ATGC
127 ATGC
2212655 TGTAAAACTC
Statistics
Matches: 789, Mismatches: 139, Indels: 80
0.78 0.14 0.08
Matches are distributed among these distances:
157 4 0.01
158 72 0.09
159 3 0.00
160 7 0.01
161 37 0.05
162 1 0.00
164 2 0.00
167 5 0.01
168 40 0.05
169 93 0.12
170 336 0.43
171 183 0.23
172 4 0.01
173 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (170 bp):
TTATAAATGATTTTAAATTGAATTTTTTTCTCATTTTTAGTTAAAACGTATCATAATTTGATGTT
TGCATTGGAAACGTGAAGCGAAAGCCATCTGTTGACAAGAAAAGTCCATTTATAGTCACTCATGC
CTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAACT
Found at i:2213071 original size:28 final size:29
Alignment explanation
Indices: 2213030--2213094 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
2213020 GTCTATGGGC
*
2213030 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
2213058 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
*
2213088 AAATTTT
1 AATTTTT
2213095 AAAATTACTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 12 0.40
30 18 0.60
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:2218515 original size:28 final size:29
Alignment explanation
Indices: 2218467--2218528 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
2218457 GTAAAATTTT
* *
2218467 AAAAATTACACTTTTGCCCCCGT-AAAGTG
1 AAAAATTACACTTTTGACCCC-TAAAACTG
*
2218496 AAAAATTACA-TTTTTACCCCTAAAACTG
1 AAAAATTACACTTTTGACCCCTAAAACTG
2218524 AAAAA
1 AAAAA
2218529 ATTGCCCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 18 0.62
29 10 0.34
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (29 bp):
AAAAATTACACTTTTGACCCCTAAAACTG
Found at i:2218720 original size:19 final size:19
Alignment explanation
Indices: 2218696--2218733 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2218686 ACTTCTAAAC
2218696 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
2218715 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
2218734 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:2219501 original size:170 final size:172
Alignment explanation
Indices: 2219107--2222001 Score: 2332
Period size: 171 Copynumber: 17.2 Consensus size: 172
2219097 GGTCGTGACA
* * * *
2219107 CATGCCTTCGAAAGCCTTGTTACTTGAC-TTAAATGGTTTTATAATC-TTATAAATG-TGGTTAA
1 CATGCCTTTGAAAGCCTTGTTACTCG-CTTTAAGTGGTTTTATAATCTTTATAAATGAT-TTTAA
* * * * * * * * *
2219169 GTTGATTTTTTTTTTAATTTT-GTTTAAAACATATCATAATTTGTTGTTTGCCTTAGGAAACATT
64 ATTGAATTTTTTTTCATTTTTCG-TTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACGTG
* * ** * * *
2219233 TAGTGAAATTCGTCCATTGACAAGAAAAGTACATTTATAGCCACT
128 AAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* * *
2219278 CATACCTTTCGAAAGTCTTGTTACTCGCTTTAAGTGGTTTTATAA-ATTTATAAATGA-TTTAAA
1 CATGCCTTT-GAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAA
* * * * * *
2219341 TTGAATTTTTTTTTATTTTTTGTCAAAATAGATCATAATTTCATGTTTGCATTAGGAAATGTGAA
65 TTGAATTTTTTTTCATTTTTCGTTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACGTGAA
** *
2219406 GCGAAAGCCATCCATTGGTAAGGAAAGTCCATTTATAGTCACT
130 GCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* * * * * **
2219449 CATGCCTTCGAAACCCTTGTTACTTGCTTTAAATGATTTTATAATC-TTATAAATGATTTTTGAT
1 CATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAAT
* * * * * * *
2219513 TGAATTGTTTTTT-ATTTTTGGTTAAAACATATCATAATTGGATGTTTGCCTCA-AAAACTTGAA
66 TGAATT-TTTTTTCATTTTTCGTTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACGTGAA
** * *
2219576 GCGAAAGTGATCCATTGACAAGAAAAGTTCATTTTTAGTCACT
130 GCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
** ** * * * * *
2219619 TGTG-CTTGTGACAA-CCTAATTAATCACTGTAAATAGTTTTATAATC-TTATAAATGATTTTAA
1 CATGCCTT-TGA-AAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAA
* * * * * * * * * *
2219681 GTTG-A-TTTTTTT-ATTTTTGGTTAAAATAGATCATAATTGGATGTATACCTCAGGAAGCGTGG
64 ATTGAATTTTTTTTCATTTTTCGTTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACGTGA
* * *
2219743 AGCGAAAGCCATCCGTTGACAAGAAAATTTCATTTATAGTCACT
129 AGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* * * * * * * * *
2219787 CATGCGTTCGAGAGCTTTATTACTAGCTTTAAGTGGTTTTA-AAACTTTACAAATGATATTAAAT
1 CATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAAT
* * * *
2219851 TGAATTTGTTTTCATTTTTAGTTAAAA-TGTATCATAATTTGATGTTTGCATT-GGAAAATGTGA
66 TGAATTTTTTTTCATTTTTCGTTAAAACAG-ATCATAATTTGATGTTTGCATTAGG-AAACGTGA
* * ** * *
2219914 AGTGAAAACCATCTGTTGACAAGAAAATTACATTTATAGTCA-T
129 AGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* * * *
2219957 ACATACCTTTGAAAGCCTTGTTACTCTCTTTAAGTGGCTTTATGA-CTTTATAAATGATTTTAAA
1 -CATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAA
* * * * * * *
2220021 TTGAATTTGTTTCTCATTTATT-GTTAAAACATAACAGAATTTGATGTTTTCAGT-GGCAACGTG
65 TTGAATTT-TTTTTCATTT-TTCGTTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACGTG
*
2220084 AAGC-AGAAGCCATCCATTGACATGAAAAGTCCATTTATAGTCACT
128 AAGCGA-AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* * * *
2220129 CATGCCTTTAAAAGCCTTGTCACTCGCTTTAAGTGGTTTTTTAA-CTTTATAAATAATTTTAAAT
1 CATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAAT
* * ** * * * * * *
2220193 TG-ATTTTTTTTAATTTTTCATTGCAATAGATCATAGTTTGATGTTTTCATTGGGTAACATGAAG
66 TGAATTTTTTTTCATTTTTCGTTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACGTGAAG
* * *
2220257 CGAAAGTCATCCATTGACAA-AAACAGTCTATTTATAGTCCCT
131 CGAAAGCCATCCATTGACAAGAAA-AGTCCATTTATAGTCACT
* * * *
2220299 CATACCTTTGAAAG-ATAAGTTACTCGCTTTAAGTAGTTTTATAA-CTTTATAAATGATTTTAAA
1 CATGCCTTTGAAAGCCT-TGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAA
* ** * * *
2220362 TTGAATTTGCTTTTCATTTTAGGTTAAAATAGATCATAATTTGATGTTTGC-TTCAAGAAACATG
65 TTGAATTT-TTTTTCATTTTTCGTTAAAACAGATCATAATTTGATGTTTGCATT-AGGAAACGTG
* *
2220426 CATCGAAAGCCATCCATTGAC-----AAG----------G-C-C-
128 AAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
** * * * * * *
2220453 CATGCCTTCAAAAGCCTTATTACACGCTTTAAGTGGTTTCAT-AGCTTTATAAATAATTTGAAAT
1 CATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAAT
* * * * * * *
2220517 TG-ATTTTTTTTCTTTTTTCATTACAATAGATCATAATTTTATGTTTGCATTGGGTAACGTGAAG
66 TGAATTTTTTTTCATTTTTCGTTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACGTGAAG
* * * *
2220581 CAAAAGCTATCCATTGATAAGAAAAGTCTATTTATAGTCACT
131 CGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* *
2220623 CATGCCTTCGAAAG-CTTAGTTGCTCGCTTTAAGTGGTTTTATAA-CTTTATAAATGATTTTAAA
1 CATGCCTTTGAAAGCCTT-GTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAA
** * * * * * *
2220686 TTGAATTTTCTTTTCATTTTGGGTTAAAATAGATCATCATTTGATGTTTGCCTCAGGAAACATGC
65 TTGAATTTT-TTTTCATTTTTCGTTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACGTGA
* * *
2220751 ATCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACC
129 AGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* * ** * *
2220795 CATGCCTTTAAAAGCCTTATTACGAGCTTTAAGTAGTTTTATAA-CTTTACAAATGATTTTAAAT
1 CATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAAT
* * * *
2220859 TGAATTTGTTTTCATTTTTCATTAAAAC-GTATCATTATATGATGTTTGCATTAGGAAACGTGAA
66 TGAATTTTTTTTCATTTTTCGTTAAAACAG-ATCATAATTTGATGTTTGCATTAGGAAACGTGAA
* * * * ** * *
2220923 GCGAAAGCTATTCGTTAATGAGAAAACTCCATTAATAGTCACT
130 GCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* ** * * * *
2220966 CATTCCTTCAAAAGCCTTATTACTCGCATTAAGTTGTTTTATAA-CATTATAAATGATTTTAAAT
1 CATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAAT
* * * ** * *
2221030 TGAATTTTTTTT-GTTTATCGTAAAAATGGATCACAATTTGATGTTTGCATTGGGAAACGT----
66 TGAATTTTTTTTCATTTTTCGTTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACGTGAAG
*
2221090 -GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCATT
131 CGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* * *** * * *
2221131 CATGCCTTTAAAAGCCTAGTTACTTATTTTAAATGGTTTTATAATC-TCATAAATGATTTTAAGT
1 CATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAAT
* * * * *
2221195 TGGATTTGTTTTCATTTTTCATTAAAACAGATCATAATTAGATGTTTGC-TT-GGAAAACATGAA
66 TGAATTTTTTTTCATTTTTCGTTAAAACAGATCATAATTTGATGTTTGCATTAGG-AAACGTGAA
* *
2221258 GCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGCCACT
130 GCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* * * ** *
2221301 AATGCCTTTAAAAGCCTTGTTACTCACAGTAAGTGGTTTTAT-AGCTTTATAAATGATTTTAAAT
1 CATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAAT
* * * * * * ** *
2221365 TGATTTTTTTTTTATTTTTGGGTAGAACAGATCATAATTTGATGTTTTTC-TGGGGAAACTTGAA
66 TGAATTTTTTTTCATTTTTCGTTAAAACAGATCATAATTTGATG-TTTGCATTAGGAAACGTGAA
* *
2221429 GCAAAAGCCATCCATTGACAAGAAAAGTCCATTTTTAGTCACT
130 GCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
** * * *
2221472 CATG-C-TTGCAAAAGCCTAATTACTCGCTTTAAATGATTTTGTAATC-TT-TAAATGATTTTAA
1 CATGCCTTTG--AAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAA
* * * * * * *
2221533 GTTGAA--------C-TTCTT--TTAAAACAGAGT-ATAATTAGATGTTTGC-CTCGAAAAATGT
64 ATTGAATTTTTTTTCATTTTTCGTTAAAACAGA-TCATAATTTGATGTTTGCATTAG-GAAACGT
* *
2221585 GAAGTGAAAGCCATCCATTGACAAGAAAATTCCATTTATAGTCACT
127 GAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* * ** * *
2221631 CATGCCTTTAAAAGCCTTGTTACTCGCTTGAAAAGGTTTCAGAA-CTTTATAAATGATTTTAAAC
1 CATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAA-
* * * * * * **
2221695 TT-AA-CTTTTTTCATTTATCATTAAAACGGATCATAATTTGATGTTTGCGTT-GAAAACAAGAA
65 TTGAATTTTTTTTCATTTTTCGTTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACGTGAA
** * * * *
2221757 GCGAAAGCCATTTATTGTCAAGAAGAGTCAATTTATTGTCACT
130 GCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* ** * * *
2221800 CATGCCTTTGAAAGCCTAGTTACTAACTTTAAATGGTTTTATAATC-TCATAAATGATTTTAAGT
1 CATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAAT
* * * * * * * *
2221864 TGAATTTGTTTTCATTTTTGGTTAAAACATATCATAATTGGATGTTTGGC-TCAAGAAACATGAT
66 TGAATTTTTTTTCATTTTTCGTTAAAACAGATCATAATTTGATGTTT-GCATTAGGAAACGTGAA
* ** * * *
2221928 GCAAAAGCCATCCGCTGACAA-AAAAGCCCATTTATACTCATT
130 GCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* * * *
2221970 CATGCCTTCGGAAGCCTAGTTACTCACTTTAA
1 CATGCCTTTGAAAGCCTTGTTACTCGCTTTAA
2222002 AGCCACCCGT
Statistics
Matches: 2179, Mismatches: 445, Indels: 201
0.77 0.16 0.07
Matches are distributed among these distances:
152 57 0.03
153 7 0.00
154 51 0.02
155 2 0.00
156 1 0.00
157 4 0.00
158 6 0.00
159 96 0.04
160 17 0.01
161 8 0.00
164 2 0.00
165 99 0.05
166 29 0.01
167 50 0.02
168 94 0.04
169 146 0.07
170 579 0.27
171 641 0.29
172 285 0.13
173 5 0.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (172 bp):
CATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAATCTTTATAAATGATTTTAAAT
TGAATTTTTTTTCATTTTTCGTTAAAACAGATCATAATTTGATGTTTGCATTAGGAAACGTGAAG
CGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
Found at i:2220390 original size:341 final size:337
Alignment explanation
Indices: 2219107--2221911 Score: 2037
Period size: 341 Copynumber: 8.3 Consensus size: 337
2219097 GGTCGTGACA
* * * * *
2219107 CATGCCTTCGAAAGCCTTGTTACTTGAC-TTAAATGGTTTTATAA-TCTTATAAATG-TGGTTAA
1 CATGCCTTCAAAAGCCTTATTACTCG-CTTTAAGTGGTTTTATAACT-TTATAAATGAT-TTTAA
* * * * ** * * * * * *
2219169 GTTGATTTTTTTTTTAATTTTGTTTAAAACATATCATAATTTGTTGTTTGCCTTAGG-AAACATT
63 ATTGA-TTTGTTTTCATTTTTCATTAAAATAGATCATAATTTGATGTTTGCATT-GGAAAACGTG
* * * *
2219233 TAGTGAAATTCGTCCATTGACAAGAAAAGTAC-ATTTATAG-CCACTCATACCTTTCGAAAGTCT
126 AAGCGAAA-GCATCCATTGACAAGAAAAGT-CTATTTATAGTCC-CTCATACCTTT-GAAAG-CT
* *
2219296 T-GTTACTCGCTTTAAGTGGTTTTATAAATTTATAAATGA-TTTAAATTGAATTTTTTTTTATTT
186 TAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAA-TTTTTTTCATTT
** * * * *
2219359 TTTGTCAAAATAGATCATAATTTCATGTTTGCATTAGGAAATGTGAAGC-GAAAGCCATCCATTG
250 TAGGTTAAAATAGATCATAATTTGATGTTTTCA-T-GGAAACGTGAAGCAG-AAGCCATCCATTG
** *
2219423 GTAAGGAAAGTCCATTTATAGTCACT
312 ACAAGAAAAGTCCATTTATAGTCACT
* * * * * * **
2219449 CATGCCTTCGAAACCCTTGTTACTTGCTTTAAATGATTTTATAA-TCTTATAAATGATTTTTGAT
1 CATGCCTTCAAAAGCCTTATTACTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAAT
* * ** * * * * ** *
2219513 TGAATTGTTTTTTATTTTTGGTTAAAACATATCATAATTGGATGTTTGC-CTCAAAAACTTGAAG
65 TGATTTG-TTTTCATTTTTCATTAAAATAGATCATAATTTGATGTTTGCATTGGAAAACGTGAAG
* * * ** * * *
2219577 CGAAAGTGATCCATTGACAAGAAAAGT-TCATTTTTAGTCACTTGT-GCTTGTGACAA-CCTAAT
129 CGAAAG-CATCCATTGACAAGAAAAGTCT-ATTTATAGTCCCTCATACCTT-TGA-AAGCTTAGT
* * * * * * *
2219639 TAATCACTGTAAATAGTTTTATAA-TCTTATAAATGATTTTAAGTTG-ATTTTTTT-ATTTTTGG
190 TACTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAATTGAATTTTTTTCATTTTAGG
* * * * *
2219701 TTAAAATAGATCATAATTGGATGTATACCTCA-GGAAGCGTGGAGC-GAAAGCCATCCGTTGACA
254 TTAAAATAGATCATAATTTGATGT-T--TTCATGGAAACGTGAAGCAG-AAGCCATCCATTGACA
* *
2219764 AGAAAATTTCATTTATAGTCACT
315 AGAAAAGTCCATTTATAGTCACT
* * * * * * * *
2219787 CATGCGTTCGAGAGCTTTATTACTAGCTTTAAGTGGTTTTAAAACTTTACAAATGATATTAAATT
1 CATGCCTTCAAAAGCCTTATTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATT
*
2219852 GAATTTGTTTTCATTTTT-AGTTAAAAT-GTATCATAATTTGATGTTTGCATTGGAAAATGTGAA
66 G-ATTTGTTTTCATTTTTCA-TTAAAATAG-ATCATAATTTGATGTTTGCATTGGAAAACGTGAA
* * ** * *
2219915 GTGAAAACCATCTGTTGACAAGAAAATTAC-ATTTATAGT-CATACATACCTTTGAAAGCCTT-G
128 GCG-AAAGCATCCATTGACAAGAAAAGT-CTATTTATAGTCCCT-CATACCTTTGAAAG-CTTAG
* * *
2219977 TTACTCTCTTTAAGTGGCTTTATGACTTTATAAATGATTTTAAATTGAATTTGTTTCTCA-TTTA
189 TTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTT-TTT-TCATTTTA
* * * * * *
2220041 TTGTTAAAACATAACAGAATTTGATGTTTTCAGTGGCAACGTGAAGCAGAAGCCATCCATTGACA
252 -GGTTAAAATAGATCATAATTTGATGTTTTCA-TGGAAACGTGAAGCAGAAGCCATCCATTGACA
*
2220106 TGAAAAGTCCATTTATAGTCACT
315 AGAAAAGTCCATTTATAGTCACT
* * * * *
2220129 CATGCCTTTAAAAGCCTTGTCACTCGCTTTAAGTGGTTTTTTAACTTTATAAATAATTTTAAATT
1 CATGCCTTCAAAAGCCTTATTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATT
* * ** * * ** *
2220194 GATTTTTTTTAATTTTTCATTGCAATAGATCATAGTTTGATGTTTTCATTGGGTAACATGAAGCG
66 GATTTGTTTTCATTTTTCATTAAAATAGATCATAATTTGATGTTTGCATTGGAAAACGTGAAGCG
* *
2220259 AAAGTCATCCATTGACAA-AAACAGTCTATTTATAGTCCCTCATACCTTTGAAAGATAAGTTACT
131 AAAG-CATCCATTGACAAGAAA-AGTCTATTTATAGTCCCTCATACCTTTGAAAGCTTAGTTACT
*
2220323 CGCTTTAAGTAGTTTTATAACTTTATAAATGATTTTAAATTGAATTTGCTTTTCATTTTAGGTTA
194 CGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTT--TTTTCATTTTAGGTTA
* * * * **
2220388 AAATAGATCATAATTTGATG--TT--T-G---CTTCAAG-A-AA--CATGCATCGA-AAG-CCA-
257 AAATAGATCATAATTTGATGTTTTCATGGAAACGTGAAGCAGAAGCCATCCATTGACAAGAAAAG
* * *
2220438 TCCATTGACAAGGC-C-
322 TCCATTTA-TAGTCACT
* * * * *
2220453 CATGCCTTCAAAAGCCTTATTACACGCTTTAAGTGGTTTCATAGCTTTATAAATAATTTGAAATT
1 CATGCCTTCAAAAGCCTTATTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATT
* * * * ** *
2220518 GATTTTTTTTCTTTTTTCATTACAATAGATCATAATTTTATGTTTGCATTGGGTAACGTGAAGCA
66 GATTTGTTTTCATTTTTCATTAAAATAGATCATAATTTGATGTTTGCATTGGAAAACGTGAAGCG
* * * * *
2220583 AAAGCTATCCATTGATAAGAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAGCTTAGTTGCTC
131 AAAGC-ATCCATTGACAAGAAAAGTCTATTTATAGTCCCTCATACCTTTGAAAGCTTAGTTACTC
*
2220648 GCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTCTTTTCATTTTGGGTTAA
195 GCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAA-TTT-TTTTCATTTTAGGTTAA
* * * * *
2220713 AATAGATCATCATTTGATGTTTGCCTCA-GGAAACATGCATCAAAAGCCATCCATTGACAAGAAA
258 AATAGATCATAATTTGATGTTT---TCATGGAAACGTGAAGCAGAAGCCATCCATTGACAAGAAA
*
2220777 AGTCCATTTATAGTCACC
320 AGTCCATTTATAGTCACT
* ** * *
2220795 CATGCCTTTAAAAGCCTTATTACGAGCTTTAAGTAGTTTTATAACTTTACAAATGATTTTAAATT
1 CATGCCTTCAAAAGCCTTATTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATT
* * *
2220860 GAATTTGTTTTCATTTTTCATTAAAA-CGTATCATTATATGATGTTTGCATTAGG-AAACGTGAA
66 G-ATTTGTTTTCATTTTTCATTAAAATAG-ATCATAATTTGATGTTTGCATT-GGAAAACGTGAA
* * * ** * * * * * **
2220923 GCGAAAGCTATTCGTTAATGAGAAAACTCCATTAATAGTCACTCATTCCTTCAAAAGCCTTA-TT
128 GCGAAAGC-ATCCATTGACAAGAAAAGTCTATTTATAGTCCCTCATACCTTTGAAAG-CTTAGTT
* * * *
2220987 ACTCGCATTAAGTTGTTTTATAACATTATAAATGATTTTAAATTGAATTTTTTT--TGTTTATCG
191 ACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTTTTCAT-TTTA-GG
* * * *
2221050 TAAAAATGGATCACAATTTGATGTTTGCATTGGGAAACGT---G-A-AAGCCATCCATTGACAAG
254 TTAAAATAGATCATAATTTGATGTTTTCA-T-GGAAACGTGAAGCAGAAGCCATCCATTGACAAG
*
2221110 AAAAGTCCATTTATAGTCATT
317 AAAAGTCCATTTATAGTCACT
* *** * * *
2221131 CATGCCTTTAAAAGCC-TAGTTACTTATTTTAAATGGTTTTATAA-TCTCATAAATGATTTTAAG
1 CATGCCTTCAAAAGCCTTA-TTACTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAA
* * *
2221194 TTGGATTTGTTTTCATTTTTCATTAAAACAGATCATAATTAGATGTTTGC-TTGGAAAACATGAA
64 TT-GATTTGTTTTCATTTTTCATTAAAATAGATCATAATTTGATGTTTGCATTGGAAAACGTGAA
* * * * *
2221258 GCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAG-CCACTAATGCCTTTAAAAGCCTT-GT
128 GCGAAAG-CATCCATTGACAAGAAAAGTCTATTTATAGTCC-CTCATACCTTTGAAAG-CTTAGT
* ** * * * *
2221321 TACTCACAGTAAGTGGTTTTATAGCTTTATAAATGATTTTAAATTGATTTTTTTTTTATTTTTGG
190 TACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGA-ATTTTTTTCATTTTAGG
* * * * *
2221386 GTAGAACAGATCATAATTTGATGTTTTTC-TGGGGAAACTTGAAGCAAAAGCCATCCATTGACAA
254 TTAAAATAGATCATAATTTGATG-TTTTCAT--GGAAACGTGAAGCAGAAGCCATCCATTGACAA
*
2221450 GAAAAGTCCATTTTTAGTCACT
316 GAAAAGTCCATTTATAGTCACT
* * * *
2221472 CATG-CTTGCAAAAGCCTAATTACTCGCTTTAAATGATTTTGTAA-TCTT-TAAATGATTTT-AA
1 CATGCCTT-CAAAAGCCTTATTACTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAA
** * * * * * * *
2221533 --G--TTG--AAC-TTCTT--TTAAAACAGAGT-ATAATTAGATGTTTGCCTCGAAAAATGTGAA
64 TTGATTTGTTTTCATTTTTCATTAAAATAGA-TCATAATTTGATGTTTGCATTGGAAAACGTGAA
* * * * * *
2221588 GTGAAAGCCATCCATTGACAAGAAAATTCCATTTATAGTCACTCATGCCTTTAAAAGCCTT-GTT
128 GCGAAAG-CATCCATTGACAAGAAAAGTCTATTTATAGTCCCTCATACCTTTGAAAG-CTTAGTT
* ** * * *
2221652 ACTCGCTTGAAAAGGTTTCAGAACTTTATAAATGATTTTAAACTT-AACTTTTTTCATTTATCA-
191 ACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAA-TTGAATTTTTTTCATTT-T-AG
** * * * ** ** *
2221715 -TTAAAACGGATCATAATTTGATGTTTGCGTTGAAAACAAGAAGC-GAAAGCCATTTATTGTCAA
253 GTTAAAATAGATCATAATTTGATGTTTTC-ATGGAAACGTGAAGCAG-AAGCCATCCATTGACAA
* * *
2221778 GAAGAGTCAATTTATTGTCACT
316 GAAAAGTCCATTTATAGTCACT
** ** * * *
2221800 CATGCCTTTGAAAGCC-TAGTTACTAACTTTAAATGGTTTTATAA-TCTCATAAATGATTTTAAG
1 CATGCCTTCAAAAGCCTTA-TTACTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAA
** * * *
2221863 TTGAATTTGTTTTCATTTTTGGTTAAAACATATCATAATTGGATGTTTG
64 TTG-ATTTGTTTTCATTTTTCATTAAAATAGATCATAATTTGATGTTTG
2221912 GCTCAAGAAA
Statistics
Matches: 1992, Mismatches: 348, Indels: 248
0.77 0.13 0.10
Matches are distributed among these distances:
323 1 0.00
324 243 0.12
325 14 0.01
326 5 0.00
327 3 0.00
328 88 0.04
329 71 0.04
330 107 0.05
331 9 0.00
332 7 0.00
334 9 0.00
335 107 0.05
336 166 0.08
337 11 0.01
338 176 0.09
339 101 0.05
340 105 0.05
341 329 0.17
342 271 0.14
343 163 0.08
344 6 0.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (337 bp):
CATGCCTTCAAAAGCCTTATTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATT
GATTTGTTTTCATTTTTCATTAAAATAGATCATAATTTGATGTTTGCATTGGAAAACGTGAAGCG
AAAGCATCCATTGACAAGAAAAGTCTATTTATAGTCCCTCATACCTTTGAAAGCTTAGTTACTCG
CTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTTTTCATTTTAGGTTAAAAT
AGATCATAATTTGATGTTTTCATGGAAACGTGAAGCAGAAGCCATCCATTGACAAGAAAAGTCCA
TTTATAGTCACT
Found at i:2220718 original size:324 final size:325
Alignment explanation
Indices: 2220129--2221411 Score: 1198
Period size: 324 Copynumber: 3.9 Consensus size: 325
2220119 TATAGTCACT
* * * *
2220129 CATGCCTTTAAAAGCCTTGTCACTCGCTTTAAGTGGTTTTTTAACTTTATAAATAATTTTAAATT
1 CATGCCTTTAAAAGCCTTATTACACGCTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATT
* * * * * * *
2220194 GATTTTTTTTAATTTTTCATTGCAATAGATCATAGTTTGATGTTTTCATTGGGTAACATGAAGCG
66 GATTTGTTTTCATTTTTCATTACAATAGATCATAATTTGATGTTTGCATTGGGAAACATGAAGCA
* * * ** * *
2220259 AAAG-TCATCCATTGACAA-AAACAGTCTATTTATAGTCCCTCATACCTTTGAAAG-ATAAGTTA
131 AAAGCT-ATCCATTGACAAGAAA-AGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTAGTTA
* * * *
2220321 CTCGCTTTAAGTAGTTTTATAACTTTATAAATGATTTTAAATTGAATTTGCTTTTCATTTTAGGT
194 CTCGCATTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTCTTTTCATTTTGGGT
2220386 TAAAATAGATCATAATTTGATGTTTGCTTCAAGAAACATGCATCGAAAGCCATCCATTGACAAGG
259 TAAAATAGATCATAATTTGATGTTTGCTTCAAGAAACATGCATCGAAAGCCATCCATTGACAAGG
2220451 CC
324 CC
* * * *
2220453 CATGCCTTCAAAAGCCTTATTACACGCTTTAAGTGGTTTCATAGCTTTATAAATAATTTGAAATT
1 CATGCCTTTAAAAGCCTTATTACACGCTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATT
* * * * *
2220518 GATTTTTTTTCTTTTTTCATTACAATAGATCATAATTTTATGTTTGCATTGGGTAACGTGAAGCA
66 GATTTGTTTTCATTTTTCATTACAATAGATCATAATTTGATGTTTGCATTGGGAAACATGAAGCA
* * * *
2220583 AAAGCTATCCATTGATAAGAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAG-CTTAGTTGCT
131 AAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTAGTTACT
*
2220647 CGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTCTTTTCATTTTGGGTTA
196 CGCATTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTCTTTTCATTTTGGGTTA
* * * *
2220712 AAATAGATCATCATTTGATGTTTGCCTCAGGAAACATGCATCAAAAGCCATCCATTGACAAGAAA
261 AAATAGATCATAATTTGATGTTTGCTTCAAGAAACATGCATCGAAAGCCATCCATTGAC-----A
2220777 AGTCCATTTATAGTCACC
321 AG----------G---CC
* * *
2220795 CATGCCTTTAAAAGCCTTATTACGA-GCTTTAAGTAGTTTTATAACTTTACAAATGATTTTAAAT
1 CATGCCTTTAAAAGCCTTATTAC-ACGCTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAAT
* * * *
2220859 TGAATTTGTTTTCATTTTTCATTA-AA-ACGTATCATTATATGATGTTTGCATTAGGAAACGTGA
65 TG-ATTTGTTTTCATTTTTCATTACAATA-G-ATCATAATTTGATGTTTGCATTGGGAAACATGA
* * * * ** * * *
2220922 AGCGAAAGCTATTCGTTAATGAGAAAACTCCATTAATAGTCACTCATTCCTTCAAAAGCCTTA-T
127 AGCAAAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTAGT
* * *
2220986 TACTCGCATTAAGTTGTTTTATAACATTATAAATGATTTTAAATTGAATTTT-TTTT-GTTTAT-
192 TACTCGCATTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTCTTTTCATTT-TG
* * * * * * * **
2221048 CGTAAAAATGGATCACAATTTGATGTTTGCATTGGGAAACGTGAAAGCCATCCATTGACAAGAAA
256 GGTTAAAATAGATCATAATTTGATGTTTGC-TT---CAA---GAAA--CATGCATCGA-AAG-CC
* * * *
2221113 AGTCCATTTA-TAGTCATT
310 A-TCCATTGACAAGGC--C
**** * * * *
2221131 CATGCCTTTAAAAGCC-TAGTTACTTATTTTAAATGGTTTTATAA-TCTCATAAATGATTTTAAG
1 CATGCCTTTAAAAGCCTTA-TTACACGCTTTAAGTGGTTTTATAACT-TTATAAATAATTTTAAA
* * * *
2221194 TTGGATTTGTTTTCATTTTTCATTAAAACAGATCATAATTAGATGTTTGC-TTGGAAAACATGAA
64 TT-GATTTGTTTTCATTTTTCATTACAATAGATCATAATTTGATGTTTGCATTGGGAAACATGAA
* * * *
2221258 GCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGCCACTAATGCCTTTAAAAGCCTT-GTT
128 GCAAAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTAGTT
* * * * *
2221322 ACTCACAGTAAGTGGTTTTATAGCTTTATAAATGATTTTAAATTG-ATTTTTTTTTTATTTTTGG
193 ACTCGCATTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTCTTTTCA-TTTTGG
* *
2221386 G-TAGAACAGATCATAATTTGATGTTT
257 GTTAAAATAGATCATAATTTGATGTTT
2221412 TTCTGGGGAA
Statistics
Matches: 793, Mismatches: 115, Indels: 90
0.79 0.12 0.09
Matches are distributed among these distances:
324 282 0.36
325 4 0.01
329 3 0.00
334 6 0.01
335 108 0.14
336 109 0.14
337 8 0.01
338 1 0.00
339 1 0.00
341 29 0.04
342 68 0.09
343 145 0.18
344 4 0.01
345 1 0.00
347 2 0.00
348 4 0.01
350 7 0.01
351 3 0.00
352 1 0.00
353 7 0.01
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (325 bp):
CATGCCTTTAAAAGCCTTATTACACGCTTTAAGTGGTTTTATAACTTTATAAATAATTTTAAATT
GATTTGTTTTCATTTTTCATTACAATAGATCATAATTTGATGTTTGCATTGGGAAACATGAAGCA
AAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTAGTTACT
CGCATTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTCTTTTCATTTTGGGTTA
AAATAGATCATAATTTGATGTTTGCTTCAAGAAACATGCATCGAAAGCCATCCATTGACAAGGCC
Found at i:2221470 original size:506 final size:500
Alignment explanation
Indices: 2220457--2222001 Score: 1517
Period size: 506 Copynumber: 3.1 Consensus size: 500
2220447 AAGGCCCATG
* * * * * * *
2220457 CCTTCAAAAGCCTTATTACACGCTTTAAGTGGTTTCATAGCTTTATAAATAATTTGAAATTGATT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAGTTGTTTTATAAC-TTATAAATGATTTTAAATTGAAT
* * * * *
2220522 TTTTTTCTTTTTTCATTACAATAGATCATAATTTTATGTTTGCATTGGGTAACGTGAAGCAAAAG
65 TTTTTT-TTTTATC-TAAAAAT-GATCATAATTTGATGTTTGCATTGGGAAACGT---G--AAAG
* * * ** * *
2220587 CTATCCATTGATAAGAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAGCTTAGTTGCTCGCTT
122 CCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTAAAAGCCTAGTTACTCGCTT
* *** *
2220652 TAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTCTTTTCATTTTGGGTTAAAATA
187 TAAATGGTTTTATAACTTTATAAATGATTTTAAATTGAA-TTT-TTTTCATTTTTCATTAAAACA
* * * *
2220717 GATCATCATTTGATGTTTGCCTCAGG-AAACATGCATCAAAAGCCATCCATTGACAAGAAAAGTC
250 GATCATAATTTGATGTTTG-CT-TGGAAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTC
* * * * * *
2220781 CATTTATAGTCACCCATGCCTTTAAAAGCCTTATTACGAGCTTTAAGTAGTTTTATAACTTTACA
313 CATTTATAGTCACTCATGCCTTTAAAAGCCTTGTTACTAACTTTAAGTGGTTTTAT-ACTTTATA
** * *
2220846 AATGATTTTAAATTGAATTTGTTTTCATTTTTCATTAAAAC-GTATCATTATATGATG-TTTGCA
377 AATGATTTTAAATTGAATTTGTTTTCATTTTTGGTTAAAACAG-ATCATAATTTGATGTTTTGC-
* * * * * * ** * *
2220909 TTAGGAAACGTGAAGCGAAAGCTATTCGTTAATGAGAAAACTCCATTAATAGTCACTCATT
440 TCAGGAAACATGAAGCAAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGTCACTCATT
*
2220970 CCTTCAAAAGCCTTATTACTCGCATTAAGTTGTTTTATAACATTATAAATGATTTTAAATTGAAT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAGTTGTTTTATAAC-TTATAAATGATTTTAAATTGAAT
*
2221035 TTTTTTTGTTTATCGTAAAAATGGATCACAATTTGATGTTTGCATTGGGAAACGTGAAAGCCATC
65 TTTTTTT-TTTATC-TAAAAAT-GATCATAATTTGATGTTTGCATTGGGAAACGTGAAAGCCATC
* ***
2221100 CATTGACAAGAAAAGTCCATTTATAGTCATTCATGCCTTTAAAAGCCTAGTTACTTATTTTAAAT
127 CATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTAAAAGCCTAGTTACTCGCTTTAAAT
* * *
2221165 GGTTTTATAA-TCTCATAAATGATTTTAAGTTGGATTTGTTTTCATTTTTCATTAAAACAGATCA
192 GGTTTTATAACT-TTATAAATGATTTTAAATTGAATTT-TTTTCATTTTTCATTAAAACAGATCA
*
2221229 TAATTAGATGTTTGCTTGGAAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTAT
255 TAATTTGATGTTTGCTTGGAAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTAT
* * * **
2221294 AGCCACTAATGCCTTTAAAAGCCTTGTTACTCACAGTAAGTGGTTTTATAGCTTTATAAATGATT
320 AGTCACTCATGCCTTTAAAAGCCTTGTTACTAACTTTAAGTGGTTTTATA-CTTTATAAATGATT
* * * * * * **
2221359 TTAAATTGATTTTTTTTTTATTTTTGGGTAGAACAGATCATAATTTGATGTTTTTCTGGGGAAAC
384 TTAAATTGAATTTGTTTTCATTTTTGGTTAAAACAGATCATAATTTGATGTTTTGCTCAGGAAAC
* * *
2221424 TTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTTTAGTCACTCA-T
449 ATGAAGCAAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGTCACTCATT
* * * * *
2221475 GCTTGCAAAAGCCTAATTACTCGCTTTAA-ATGATTTTGTAATCTT-TAAATGATTTTAAGTTGA
1 CCTT-CAAAAGCCTTATTACTCGCTTTAAGTTG-TTTTATAA-CTTATAAATGATTTTAAATTGA
* * * * * * ** *
2221538 A---CTTCTTTTA---AAACA-GAGT-ATAATTAGATGTTTGCCTCGAAAAATGTGAAGTGAAAG
63 ATTTTTTTTTTTATCTAAAAATGA-TCATAATTTGATGTTTGCATTG-GGAA----ACGTGAAAG
* *
2221595 CCATCCATTGACAAGAAAATTCCATTTATAGTCACTCATGCCTTTAAAAGCCTTGTTACTCGCTT
122 CCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTAAAAGCCTAGTTACTCGCTT
* * * * * * *
2221660 GAAAAGGTTTCAGAACTTTATAAATGATTTTAAACTT-AACTTTTTTCATTTATCATTAAAACGG
187 TAAATGGTTTTATAACTTTATAAATGATTTTAAA-TTGAATTTTTTTCATTTTTCATTAAAACAG
* * ** * * *
2221724 ATCATAATTTGATGTTTGCGTT-GAAAACAAGAAGCGAAAGCCATTTATTGTCAAGAAGAGTCAA
251 ATCATAATTTGATGTTTGC-TTGGAAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCA
* * * * * *
2221788 TTTATTGTCACTCATGCCTTTGAAAGCCTAGTTACTAACTTTAAATGGTTTTATAATCTCATAAA
315 TTTATAGTCACTCATGCCTTTAAAAGCCTTGTTACTAACTTTAAGTGGTTTTATACT-TTATAAA
* * * * *
2221853 TGATTTTAAGTTGAATTTGTTTTCATTTTTGGTTAAAACATATCATAATTGGATGTTTGGCTCAA
379 TGATTTTAAATTGAATTTGTTTTCATTTTTGGTTAAAACAGATCATAATTTGATGTTTTGCTCAG
* * * * * *
2221918 GAAACATGATGCAAAAGCCATCCGCTGACAA-AAAAGCCCATTTATACTCATTCATG
444 GAAACATGAAGCAAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGTCACTCATT
** *
2221974 CCTTCGGAAGCC-TAGTTACTCACTTTAA
1 CCTTCAAAAGCCTTA-TTACTCGCTTTAA
2222002 AGCCACCCGT
Statistics
Matches: 857, Mismatches: 154, Indels: 57
0.80 0.14 0.05
Matches are distributed among these distances:
495 18 0.02
496 3 0.00
497 5 0.01
498 38 0.04
499 207 0.24
500 98 0.11
501 7 0.01
502 3 0.00
505 27 0.03
506 213 0.25
507 44 0.05
508 91 0.11
510 1 0.00
512 1 0.00
513 101 0.12
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (500 bp):
CCTTCAAAAGCCTTATTACTCGCTTTAAGTTGTTTTATAACTTATAAATGATTTTAAATTGAATT
TTTTTTTTTATCTAAAAATGATCATAATTTGATGTTTGCATTGGGAAACGTGAAAGCCATCCATT
GACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTAAAAGCCTAGTTACTCGCTTTAAATGGTT
TTATAACTTTATAAATGATTTTAAATTGAATTTTTTTCATTTTTCATTAAAACAGATCATAATTT
GATGTTTGCTTGGAAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC
TCATGCCTTTAAAAGCCTTGTTACTAACTTTAAGTGGTTTTATACTTTATAAATGATTTTAAATT
GAATTTGTTTTCATTTTTGGTTAAAACAGATCATAATTTGATGTTTTGCTCAGGAAACATGAAGC
AAAAGCCATCCGTTGACAAGAAAAGTCCATTTATAGTCACTCATT
Found at i:2223323 original size:81 final size:83
Alignment explanation
Indices: 2223224--2223394 Score: 292
Period size: 83 Copynumber: 2.1 Consensus size: 83
2223214 CACATTTCAA
** *
2223224 CATCATCATGTTTGTGTGCT-CCCC-CATCGCGCACAACTAATGCCATCATGTGCTCCCCCACAT
1 CATCATCATCATTGTGTGCTCCCCCACATCACGCACAACTAATGCCATCATGTGCTCCCCCACAT
2223287 CATGCACATAGGCAATAT
66 CATGCACATAGGCAATAT
2223305 CATCATCATCATTGTGTGCTCCCCCACATCACGCACAACTAATGCCATCATGTGCTCCCCCACAT
1 CATCATCATCATTGTGTGCTCCCCCACATCACGCACAACTAATGCCATCATGTGCTCCCCCACAT
*
2223370 CGTGCACATAGGCAATAT
66 CATGCACATAGGCAATAT
2223388 CATCATC
1 CATCATC
2223395 CACACTCCCG
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
81 18 0.21
82 4 0.05
83 62 0.74
ACGTcount: A:0.26, C:0.36, G:0.13, T:0.25
Consensus pattern (83 bp):
CATCATCATCATTGTGTGCTCCCCCACATCACGCACAACTAATGCCATCATGTGCTCCCCCACAT
CATGCACATAGGCAATAT
Found at i:2223333 original size:47 final size:44
Alignment explanation
Indices: 2223267--2223394 Score: 139
Period size: 47 Copynumber: 3.0 Consensus size: 44
2223257 CAACTAATGC
2223267 CATCATGTGCTCCCCCACATCATGCACATAGGCAATATCATCAT
1 CATCATGTGCTCCCCCACATCATGCACATAGGCAATATCATCAT
*
2223311 CATCATTGTGTGCTCCCCCACATCACGCACA-A--C--TA--ATGC--
1 CATCA---TGTGCTCCCCCACATCATGCACATAGGCAATATCAT-CAT
*
2223350 CATCATGTGCTCCCCCACATCGTGCACATAGGCAATATCATCAT
1 CATCATGTGCTCCCCCACATCATGCACATAGGCAATATCATCAT
2223394 C
1 C
2223395 CACACTCCCG
Statistics
Matches: 68, Mismatches: 3, Indels: 26
0.70 0.03 0.27
Matches are distributed among these distances:
36 21 0.31
37 1 0.01
39 6 0.09
40 2 0.03
41 3 0.04
42 3 0.04
43 2 0.03
44 7 0.10
46 1 0.01
47 22 0.32
ACGTcount: A:0.27, C:0.36, G:0.12, T:0.24
Consensus pattern (44 bp):
CATCATGTGCTCCCCCACATCATGCACATAGGCAATATCATCAT
Found at i:2224157 original size:20 final size:20
Alignment explanation
Indices: 2224132--2224171 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2224122 AGAAGAAAAA
2224132 GAAGCTACTGGAAAAATGAG
1 GAAGCTACTGGAAAAATGAG
* *
2224152 GAAGCTGCTGGAGAAATGAG
1 GAAGCTACTGGAAAAATGAG
2224172 ATATTTATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.35, T:0.15
Consensus pattern (20 bp):
GAAGCTACTGGAAAAATGAG
Found at i:2230973 original size:60 final size:59
Alignment explanation
Indices: 2230873--2231037 Score: 231
Period size: 60 Copynumber: 2.7 Consensus size: 59
2230863 ATAGGAGACA
* * * *
2230873 AAACAAAAAGTTTTTCGCTGCAGTGAGATTGAATCTCGCTGCAGCGAAATTGTAACCCAG
1 AAAC-AAAAGTTTCTCGCTGCAGCGAGAATGAATTTCGCTGCAGCGAAATTGTAACCCAG
* *
2230933 AAACGAAAAGTTTCTCGTTGCAACGAGAATGAATTTCGCTGCAGCGAAATTGTAACCCAG
1 AAAC-AAAAGTTTCTCGCTGCAGCGAGAATGAATTTCGCTGCAGCGAAATTGTAACCCAG
* *
2230993 AAACAGAAAGTTTCTAGCTGCAGCGAGAATGAATTTCGCTACAGC
1 AAACA-AAAGTTTCTCGCTGCAGCGAGAATGAATTTCGCTGCAGC
2231038 AAAAATGCAT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
59 1 0.01
60 92 0.99
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (59 bp):
AAACAAAAGTTTCTCGCTGCAGCGAGAATGAATTTCGCTGCAGCGAAATTGTAACCCAG
Found at i:2231481 original size:20 final size:21
Alignment explanation
Indices: 2231436--2231486 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
2231426 AGATGTCTAA
*
2231436 AATAATTATTTGAAATGAAAT
1 AATAATTATTTGAAATAAAAT
* *
2231457 TATAATTGTTTG-AATAAAAT
1 AATAATTATTTGAAATAAAAT
2231477 AATAA-TATTT
1 AATAATTATTT
2231487 TACTTTCTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (21 bp):
AATAATTATTTGAAATAAAAT
Found at i:2234310 original size:43 final size:43
Alignment explanation
Indices: 2234262--2234377 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
2234252 CCCATCATCA
* * ** *
2234262 TCATCACCAGCTCATGCGTACTCCCTACTCACACATGGCTGGG
1 TCATCACCAGCTTATGCGCACTCCCTACTCACACATAACCGGG
* * *
2234305 TCATCATCGAG-TTATGTGCACTCCCTACTCGCACATAACCGGG
1 TCATCA-CCAGCTTATGCGCACTCCCTACTCACACATAACCGGG
*
2234348 TCATC-CTCGGCTTATGCGCACTCCCTACTC
1 TCATCAC-CAGCTTATGCGCACTCCCTACTC
2234378 GTATATAGCC
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.02
42 1 0.02
43 54 0.92
44 3 0.05
ACGTcount: A:0.20, C:0.37, G:0.17, T:0.26
Consensus pattern (43 bp):
TCATCACCAGCTTATGCGCACTCCCTACTCACACATAACCGGG
Found at i:2234378 original size:43 final size:43
Alignment explanation
Indices: 2234275--2234378 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
2234265 TCACCAGCTC
* * ** *
2234275 ATGCGTACTCCCTACTCACACATGGCTGGGTCATCATCGAGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCATCGAGTT
* *
2234318 ATGTGCACTCCCTACTCGCACATAACCGGGTCATCCTCG-GCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCATCGAG-TT
2234361 ATGCGCACTCCCTACTCG
1 ATGCGCACTCCCTACTCG
2234379 TATATAGCCG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.02
43 51 0.98
ACGTcount: A:0.19, C:0.36, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCATCGAGTT
Found at i:2241005 original size:28 final size:29
Alignment explanation
Indices: 2240964--2241023 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
2240954 GTCTATGGGC
*
2240964 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
2240992 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
2241022 AA
1 AA
2241024 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:2245003 original size:171 final size:170
Alignment explanation
Indices: 2244718--2247160 Score: 2151
Period size: 171 Copynumber: 14.3 Consensus size: 170
2244708 AATCGTTACA
** * * * *
2244718 AAATGGTTTTATAATCTCGTGAATGATTTTAAGTAGAATTTGTTTTCATTTTTGGTTCAAACAGA
1 AAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACAGA
* * * *
2244783 TCGTAATTGGATGTTTACCTTGAGAAACA-TGAAGAGAAAACCATCCATTGACAAGAAAAGTCCA
66 TCATAATTGGATGTTTGCCTT-AGAAA-AGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCA
** * * *
2244847 TTTATTAGT-GTTTATGCCTTTGAAAGCCTTGTTACTCGCATT
129 TTTA-TAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTT
** * *
2244889 AAATGGTTTTATAATCTTATAAATGATTTTAAGTTTTATTTTTTTTCATTTGTGGTTAAAACGGA
1 AAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACAGA
*
2244954 TCATAATTGGATGTTTGCCTTAGAAAATGTGAAGCGAAAGCCATCCATTGACAAGAAAGGTCCAT
66 TCATAATTGGATGTTTGCCTTAGAAAA-GTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCAT
* * ** * *
2245019 TTATAGTCACTCGTGCCTACGAAAGCCTAATTGCTTGCTTT
130 TTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTT
** * * *
2245060 AAATAATTTTATAATCTTAAAAATGATTTTAAGTTGAATTTGTTTTCATTTTTGGTTAAAACATA
1 AAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACAGA
* ** **
2245125 TCGTAATTGGATGTTTGCCTTGAGAAACA-TGAAGC-AAAGGCCATCTGTTGACAAGAAAAGTTT
66 TCATAATTGGATGTTTGCCTT-AGAAA-AGTGAAGCGAAA-GCCATCCATTGACAAGAAAAGTCC
*
2245188 ATTTATAGTCACTCATGCCTTCGAAAGCTTTGTTA-TACGCTTT
128 ATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACT-CGCTTT
* * * *
2245231 AAGA-GGTTTTATAACCTTATAAATTATTTTAAATAGAATTTTTTTTCATTTTCT--TTAAAA-A
1 AA-ATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTT-TGGTTAAAACA
** * * * * * * *
2245292 CGATTGTAATTTGATGTTTGCTTTAGAAAATCTAAAGCAAAAGCCATCCATTGATAATAAAAGTC
64 -GATCATAATTGGATGTTTGCCTTAGAAAA-GTGAAGCGAAAGCCATCCATTGACAAGAAAAGTC
* * * *
2245357 CATTTATAGTCACTCATGCTTTTGAAAGCCTAGTTACTCACTTT
127 CATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTT
* * **
2245401 AAATGGTTTTATAATCTTATAAATGTTTTTAAGTTGAATTTTTTTT-ATTTTTGTTTAAAACATT
1 AAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACAGA
* * * * *
2245465 TCACAATTGGATGTTTGCCTTGGGAAATGTGAAGCAAAAGCTATCCATTGACAAGAAAAGTCCAT
66 TCATAATTGGATGTTTGCCTT-AGAAAAGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCAT
* * * *
2245530 TTATTGTCACTAATGCCTTTGAAAGCCTTGTTACTCACTTT
130 TTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTT
* ** * * * * * *
2245571 AAGTGGGCTTACAA-CTTTATAAATGATTTGAAATTTAAAGTTTTTTTTTTATTTTGGGTTAAAA
1 AAATGGTTTTATAATC-TTATAAATGATTT-TAAGTTGAA--TTTTTTTTCATTTTTGGTTAAAA
* * * * * *
2245635 TAGATCATAATTTGATGTTTGCTTTAGGAAACA-TGTA-CTGAAAGCCATCCATTTATAAGAAAA
62 CAGATCATAATTGGATGTTTGCCTTA-GAAA-AGTGAAGC-GAAAGCCATCCATTGACAAGAAAA
* * * ** ** * *
2245698 GTCTATTTATATTCACTCACGCCTTTTAGTGCCTTATTACTCACTTT
124 GTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTT
* * * ** *
2245745 AAGTGGTTTTATAA-CTTTATAAATGATTTTAAATTGAACTTTTTTTCATTTTTCATTAAAATAG
1 AAATGGTTTTATAATC-TTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACAG
* * * * * * * *
2245809 -GCAGTATTTTGATGTTTGACTTGGGAAACGTGAAAC-AAACGCCATCCATTGGCAAGAAAAGTC
65 ATCA-TAATTGGATGTTTGCCTT-AGAAAAGTGAAGCGAAA-GCCATCCATTGACAAGAAAAGTC
* * ** * * *
2245872 CATTTATAGTCAC-CTATACCTTTGAAAAACTAGTTGCTCACTTT
127 CATTTATAGTCACTC-ATGCCTTCGAAAGCCTTGTTACTCGCTTT
* * * *
2245916 AAATGGTTTTATAAACTTATTAATGATTTTAAGTTGAATTGTTTTTCATTTTTGGTTAAAACATA
1 AAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACAGA
* * * * *
2245981 TCATAATTTGATGTTTGTCTTAGAAAACATGAAGCGAAAGCCATCGATTGGCAAGAAAAGTCCAT
66 TCATAATTGGATGTTTGCCTTAGAAAA-GTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCAT
* * ** **
2246046 TTATAGTCAATCATGCCTTTGAACTCCTTGTTACTCAATTT
130 TTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTT
* *
2246087 AAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTGTTTTCATTTTTAGTTAAAACAGA
1 AAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACAGA
* * * * *
2246152 TCATAATTGGATGTTTGTCTCAAAAAACATGAAGCGAAAGCCATCCATTGA-TAGAAAAAGTCCA
66 TCATAATTGGATGTTTGCCTTAGAAAA-GTGAAGCGAAAGCCATCCATTGACAAG-AAAAGTCCA
* ** * * * *
2246216 TTTTTAGTCACTGGTGCTTGTTG-CAG-CTTAATTACTCGCTTT
129 TTTATAGTCACTCATGCCT-TCGAAAGCCTT-GTTACTCGCTTT
* *
2246258 AAATGGTTTTATAATCTTATAAATGATTTTAAGTAGAA-TTTTTTT-ATTTTTGGTTAAAACAAA
1 AAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACAGA
* * * * * * * **
2246321 TCATAATTGGATATTTGTCTTCAGAAACGTAAAGTGAAAGCCATCTATTGACAAGAAAATTTTAT
66 TCATAATTGGATGTTTGCCTT-AGAAAAGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCAT
* * *
2246386 TTATAGTCACT-ATGCGTTCGAGAGCCTTATTACT-GACTTT
130 TTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCG-CTTT
* * * * * * * *
2246426 AAGTGGTTTTATAA-CTTTACAAATGATTTCAAATTGAATTTGTTTTCATTTTTAGTTAGAACAT
1 AAATGGTTTTATAATC-TTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACAG
* * * * * * *** * *
2246490 ATCATAATTTGATGTTTTCATTGCGTAAAGTGAAGCAAAAGCCATCTGCTGACAAGAAAATTACA
65 ATCATAATTGGATGTTTGCCTT-AGAAAAGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCA
* * * *
2246555 TTTATAGTCACACATGCCTTCGAAAGCCCTGTTATTCACTTT
129 TTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTT
* * * * ** *
2246597 AAGTGCTTTTATAA-CTTTATAAATGATTTTAAATTGAATTTTTTTCTCATTTATCATTAAAACG
1 AAATGGTTTTATAATC-TTATAAATGATTTTAAGTTGAATTTTTTT-TCATTTTTGGTTAAAACA
** * * * * *
2246661 GATCATAATTTCATGTTTGCATTAGAAACA-TGAAGCAAAAGCCATCTATTGATAAGGAAAGTCC
64 GATCATAATTGGATGTTTGCCTTAGAAA-AGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCC
* *
2246725 ATTTATAGTCACTTATGCCTTCGAAAGCGTTGTTACTCGCTTT
128 ATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTT
* ** * * *
2246768 AAGTACTTTTATAA-CTTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTAGGTTAAAAGAG
1 AAATGGTTTTATAATC-TTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACAG
* * * * * *
2246832 TTCATAATTTGATGTTTGCATTGGAAACA-TGAAGCGAAAGCCATCCATTGACAACAAAAATCCA
65 ATCATAATTGGATGTTTGCCTTAGAAA-AGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCA
* * * ** *
2246896 TTTAAAGTCAC-CAATGCCTTCAAAAGTCTTGCCACTTGCTTT
129 TTTATAGTCACTC-ATGCCTTCGAAAGCCTTGTTACTCGCTTT
* * * * * *
2246938 AAGTGGTTTTATAACCTTATAAATAATTTTAAATTGAATTTCTCTTTCATTTTT--TTAAAATAG
1 AAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTT-TTTTTCATTTTTGGTTAAAACAG
* ** * ** * * * *
2247001 ATCATAATTGGATGTTTGCATCGGGAAATGTGAAGAAAAAGCCATCCATCGAAAAGAAATGTCTA
65 ATCATAATTGGATGTTTGCCT-TAGAAAAGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCA
* * * * *
2247066 TTTATAGTCACTCATGCGTTCGGAAGCCTAGCTACTCACTTT
129 TTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTT
* * * *
2247108 AAATGGTTTTATAATCTCATGAATAATTTTAAGTTGAATTTGTTTTCATTTTT
1 AAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTT
2247161 NNNNNNNNNN
Statistics
Matches: 1868, Mismatches: 345, Indels: 120
0.80 0.15 0.05
Matches are distributed among these distances:
167 4 0.00
168 49 0.03
169 131 0.07
170 586 0.31
171 908 0.49
172 52 0.03
173 16 0.01
174 122 0.07
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (170 bp):
AAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACAGA
TCATAATTGGATGTTTGCCTTAGAAAAGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATT
TATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTT
Found at i:2248051 original size:170 final size:169
Alignment explanation
Indices: 2247763--2250290 Score: 2093
Period size: 170 Copynumber: 14.9 Consensus size: 169
2247753 TAACTTAATA
* * *** ** * ** * * *
2247763 AAATGATTTTAAATTGATTTTTTTTCATTTTTAAATAAAATTGGTTGTAATTTGATGTTTACATT
1 AAATGATTTTAAGTTGAATTTTTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCTT
* * * * * *
2247828 GGGAAATGTAAAGCGAATGCCATCGATTGAGAAGAAAAGTCCATTTATAGTCACTCATGCCTTCG
66 GGAAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCG
* *
2247893 AAAGCCTAGTTACTTACTTTAAATAGTTTTATAATTTCAT
131 AAAGCCTAGTTACTCACTTTAAATGGTTTTATAATTT-AT
* * * * * *
2247933 GAATGATTATAAGTTGAATTTGTTTCATTTTTGGCTAAAACATATCACAATTGGATGTTTGCCTT
1 AAATGATTTTAAGTTGAATTTTTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCTT
* * * * * * * * *
2247998 AGAAAACGTGGAGTGAAAGACAACGATTAAAAAGAACAA-TCCATTTATAGTCACTCATGCCTTA
66 GGAAAACGTGAAGCGAAAGCCATCCATTGACAAGAA-AAGTCCATTTATAGTCACTCATGCCTTC
* * * * *
2248062 GAAAGCATTGTTACTCGCTTTAAATGGTTTTATAATCATAC
130 GAAAGCCTAGTTACTCACTTTAAATGGTTTTATAAT-TTAT
*
2248103 AAATGATTTTAAGTTTG-ATTTTTTT-ATTTTTGGTTAAAATAGATCATAATTGGATGTTTGCC-
1 AAATGATTTTAAG-TTGAATTTTTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCT
** * * * * * * *
2248165 TCAAAAGATGTTAAGCAAAAGCCATCCATTAACAAGAAAAGTTCATTTATAGACACTCGTG-CTT
65 TGGAAA-ACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTT
* * * ** * *
2248229 GAGAAAGCCTAATTACTCGCTTTAAATGGCCTTATAGTCCTAT
129 -CGAAAGCCTAGTTACTCACTTTAAATGGTTTTATAAT-TTAT
* * * *
2248272 AAATGATTTTAAGTTGAATTTTTTATTATTTGTGGTTAAGACAGATCATAATTGGATGTTTG-CG
1 AAATGATTTTAAGTTGAATTTTTT-TCATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCT
** * * * *
2248336 TCAAGAAACATGAAGCAAAAGCCATTCATTGACAAGAAAAGTCCA-TCAGTAGTCACTCATGCCT
65 TGGA-AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTA-TAGTCACTCATGCCT
* * * * *
2248400 TTGAAAGCTTAGTTACTCAATTTAAGTGCTTTTATAACTTTAT
128 TCGAAAGCCTAGTTACTCACTTTAAATGGTTTTATAA-TTTAT
* ** * * * *
2248443 AAATGATTTTAAATTGAAGTTTTTTTCATTTTTCATTAAAACAAATCGTAATTTGATGTTTGCAT
1 AAATGATTTTAAGTTGAA-TTTTTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCT
* * * * *
2248508 TGGGAAATGTGAAGCAAAAGCCAT-CATTTGACAAGAAAAGTCCATTTATATTCACTCATGTCTT
65 TGGAAAACGTGAAGCGAAAGCCATCCA-TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTT
** * * *
2248572 TAAAAGCCTAATTACTCGCTTTAAGTGGTTTTATAATCTTAT
129 CGAAAGCCTAGTTACTCACTTTAAATGGTTTTATAAT-TTAT
* * * * * *
2248614 AAATG-TTGTTAAGTTGAATTTTTTTTATTTTTGTTTAAAATAGATCATAATTAGTTATTTGCCT
1 AAATGATT-TTAAGTTGAATTTTTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCT
* * ** * * * *
2248678 CGGGAAACGTTTAGTGAAAACCATCCATTGACAAGAAAAGTCCATTTATAGTGAC-CTATACCTT
65 TGGAAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC-ATGCCTT
* * * *
2248742 CCGAAAGTCTTGTTACTCATTTTAAGTGGTTTTATAAATTTAT
129 -CGAAAGCCTAGTTACTCACTTTAAATGGTTTTAT-AATTTAT
* * ** * * * *
2248785 AAATGA-TTTAAATTGAATTTTTTTCATTTCTCATCAAAATAGATCATAATTTGATGTTTGCATT
1 AAATGATTTTAAGTTGAATTTTTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCTT
* * * * * * *
2248849 GGCACATGTGAAGTGAAAGCCATCCATTGACAAGGAAAGTCCATTTATAGTAACCCATGCCTTCG
66 GGAAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCG
* * * * *
2248914 CAAGCCTAGTTACTAACATTAAATGCTTTTATAATCTCAT
131 AAAGCCTAGTTACTCACTTTAAATGGTTTTATAAT-TTAT
* * *
2248954 AAATGATTTGAAGTTGAATTTGTTTTCATTTTTAGTTAAAACAGATCATAATTGGATGTTTACCT
1 AAATGATTTTAAGTTGAATTT-TTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCT
* * * * * ** ** *
2249019 TGGGAAACATCAAGCAAAAGCCATCAATTGTGAAGAAAAGTCTGTTTATAGTCAAC-CATGTCTT
65 TGGAAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTC-ACTCATGCCTT
* * * * * * *
2249083 GGAAAGCCTTGTTAATTACTTGAAGTGGTTTTATAGCTTTAT
129 CGAAAGCCTAGTTACTCACTTTAAATGGTTTTATA-ATTTAT
* * * * * * * * * ** *
2249125 AAATTATTTTAAATTGATTTTTTTTTATTTTTGATTAAAACATAGCATAATTTGATATTTTTCTA
1 AAATGATTTTAAGTTGAATTTTTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCTT
* * * * * * *
2249190 GTG-AAACTTGAAGCAAAAACCATCCATTGACAAGAAAAGTCTATTTACAGTTACCCATGCCTTC
66 G-GAAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTC
* * * * *
2249254 AAAAGCCTAATTACTCAGTTGAAATGGTTTTATAATCTCAT
130 GAAAGCCTAGTTACTCACTTTAAATGGTTTTATAAT-TTAT
* * ** * * * *
2249295 GATTGATTTTAAGTTGAATTTGTTTTCATTTTTTCTTAAAACAGGTCATGATTGGATCTTTGTCT
1 AAATGATTTTAAGTTGAATTT-TTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCT
* * * * **
2249360 TGGGAAACGTGAAGAGAAAGCCATCGATTGACAAGAAAAGTCCATTTACAACCAC-CTATGCCTT
65 TGGAAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC-ATGCCTT
* ** *
2249424 CGAAAGCCTTGTTACTCGTTTTAAATGGTTTTATAATCCTAT
129 CGAAAGCCTAGTTACTCACTTTAAATGGTTTTATAAT-TTAT
* * *
2249466 AAATGATTTTATGTTGAATTTGTTTTCATTTTTGGTTCAAACAAATCATAATTGGATGTTT-CCT
1 AAATGATTTTAAGTTGAATTT-TTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCT
** * *
2249530 CAGAAAACGTGAAGCGACAA-CCATCCATTCACAAGAAAAGTCCATTTATAGTCACTTATGCCTT
65 TGGAAAACGTGAAGCGA-AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTT
* * * *
2249594 TGAAAGCCTTGTCACTCACTTTAAATGGTTGTATAATCTTAT
129 CGAAAGCCTAGTTACTCACTTTAAATGGTTTTATAAT-TTAT
* * * **
2249636 AAATGATTTTAAGTTGATTTTTTTTCATATTTGG-TAAAAGCAAATCATAATTGGATGTTTTTCT
1 AAATGATTTTAAGTTGAATTTTTTTCATTTTTGGTTAAAA-CAGATCATAATTGGATGTTTGCCT
* * * * *
2249700 T-GAGAAACATGAAGCAAAAGCCATCCATTGATAAGAAAAGTCCATTTACAGTCACTCATGCTTT
65 TGGA-AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTT
* * * * *
2249764 CGAGAGCCTTGTTACTCGCTTTAAGTGATTTTATAACTTTAT
129 CGAAAGCCTAGTTACTCACTTTAAATGGTTTTATAA-TTTAT
* * * ** * * *
2249806 AAATGGTTTTAAATTGAAATGTTTTTC-TTTTTCATTAAAACATG-TCATAATTTGACGTTTGCA
1 AAATGATTTTAAGTTG-AATTTTTTTCATTTTTGGTTAAAACA-GATCATAATTGGATGTTTGCC
* * * * * *
2249869 TTGGGAAAA-ATGAAGCAAAAGCCATCCATTGAGAA-AATAAGTCCACTTATAGTCAATCATACC
64 TT-GGAAAACGTGAAGCGAAAGCCATCCATTGACAAGAA-AAGTCCATTTATAGTCACTCATGCC
** * * **
2249932 TTCGAAAGCCTTTTTACAT-GCTTTAAGTGGTTTTATAGCCTTAT
127 TTCGAAAGCCTAGTTAC-TCACTTTAAATGGTTTTATA-ATTTAT
* * * * * * * * *
2249976 AAATAATTTTAAATTG-ATTTTTTTTATTTTTTGTCAAAACATATCGTAATTTGATGTTTGTC-T
1 AAATGATTTTAAGTTGAATTTTTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCTT
* * * * * *
2250039 GAGAAAACCTAAAGCGAAAACCATCCATGGACAAGAATAGTCTATTTATAGTCACTCATGCCTTC
66 G-GAAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTC
* * * * *
2250104 GAAAGCTTAGTTACTCAATTTAAATAGTTTTATAATCTCAG
130 GAAAGCCTAGTTACTCACTTTAAATGGTTTTATAAT-TTAT
* * * *
2250145 GAATGATTTTAAGTTGAATTTGTTTCTATTTTTTGTTAAAACAGATCATAATTGGATGTTTGCTT
1 AAATGATTTTAAGTTGAATTTTTTTC-ATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCT
* * ** * *
2250210 TGGAAAATGTGAAGTGAAAGCTGTTCATTGACAAGAAAAGTCCATTTATAGTCACCCATGCCTTC
65 TGGAAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTC
2250275 GAAAGCCTTA-TTACTC
130 GAAAGCC-TAGTTACTC
2250291 GTATTTTGAT
Statistics
Matches: 1891, Mismatches: 404, Indels: 125
0.78 0.17 0.05
Matches are distributed among these distances:
167 1 0.00
168 33 0.02
169 313 0.17
170 811 0.43
171 706 0.37
172 27 0.01
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (169 bp):
AAATGATTTTAAGTTGAATTTTTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCTT
GGAAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCG
AAAGCCTAGTTACTCACTTTAAATGGTTTTATAATTTAT
Found at i:2248831 original size:511 final size:506
Alignment explanation
Indices: 2247763--2250290 Score: 2124
Period size: 511 Copynumber: 5.0 Consensus size: 506
2247753 TAACTTAATA
* * * ** * ** * *
2247763 AAATGATTTTAAATTGATTTTTTTTCATTTTTAAATAAAATTGGTTGTAATTTGATGTTTACATT
1 AAATGATTTTAAATTGAATTTTTTTCATTTTTCATTAAAACAGATCATAATTGGATGTTTGCATT
** * * * * *
2247828 GGGAAATGTAAAGCGAATGCCATCGATTGAGAAGAAAAGTCCATTTATAGTCACTCATGCCTTCG
66 GGGAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCG
* * * * * *
2247893 AAAGCCTAGTTACTTACTTTAAATAG-TTTTATAATTTCATGAATGATTATAAGTTGAATTTGTT
131 AAAGCTTAGTTACTCAATTTAAAT-GCTTTTATAATTT-ATAAATGATTTTAAGTTGAATTTTTT
* * * * * ** * *
2247957 TCATTTTTGGCTAAAACATATCACAATTGGATGTTTGCCTTAGAAAACGTGGAGTGAAAGACAAC
194 TCATTTTTGGTTAAAACAAATCATAATTGGATGTTTGCCTTGGAAAACGTGAAGCAAAAGCCATC
* * * * *
2248022 GATTAAAAAGAACAA-TCCATTTATAGTCACTCATGCCTTAGAAAGCATTGTTACTCGCTTTAAA
259 -ATTGACAAGAA-AAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTGTTACTCACTTTAAA
* * * *
2248086 TGGTTTTATAATCATACAAATGATTTTAAGTTTG-A-TTTTTTTATTTTTGGTTAAAATAGATCA
322 TGGTTTTATAATCTTATAAATGATTTTAAG-TTGAATTTTTTTTATTTTTGTTTAAAACAGATCA
* * * *
2248149 TAATTGGATGTTTGCCTC-AAAAGATGTTAAGCAAAAGCCATCCATTAACAAGAAAAGTTCATTT
386 TAATTGGATGTTTGCCTCGAGAA-ACGTTAAGCAAAA-CCATCCATTGACAAGAAAAGTCCATTT
* * * * * * ** * *
2248213 ATAGACA-CTCGTGCTTGAGAAAGCCTAATTACTCGCTTTAAATGGCCTTATAGTCCTAT
449 ATAGTCACCT-ATCCTT-CGAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTTAT
* * * ** * *
2248272 AAATGATTTTAAGTTGAATTTTTTATTATTTGTGGTTAAGACAGATCATAATTGGATGTTTGCGT
1 AAATGATTTTAAATTGAATTTTTT-TCATTTTTCATTAAAACAGATCATAATTGGATGTTTGCAT
*** * *
2248337 CAAGAAACATGAAGCAAAAGCCATTCATTGACAAGAAAAGTCCA-TCAGTAGTCACTCATGCCTT
65 TGGGAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTA-TAGTCACTCATGCCTT
* * *
2248401 TGAAAGCTTAGTTACTCAATTTAAGTGCTTTTATAACTTTATAAATGATTTTAAATTGAAGTTTT
129 CGAAAGCTTAGTTACTCAATTTAAATGCTTTTATAA-TTTATAAATGATTTTAAGTTGAA-TTTT
** * * * * *
2248466 TTTCATTTTTCATTAAAACAAATCGTAATTTGATGTTTGCATTGGGAAATGTGAAGCAAAAGCCA
192 TTTCATTTTTGGTTAAAACAAATCATAATTGGATGTTTGCCTTGGAAAACGTGAAGCAAAAGCCA
* * * ** *
2248531 TCATTTGACAAGAAAAGTCCATTTATATTCACTCATGTCTTTAAAAGCCTAATTACTCGCTTTAA
257 TCA-TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTGTTACTCACTTTAA
* *
2248596 GTGGTTTTATAATCTTATAAATG-TTGTTAAGTTGAATTTTTTTTATTTTTGTTTAAAATAGATC
321 ATGGTTTTATAATCTTATAAATGATT-TTAAGTTGAATTTTTTTTATTTTTGTTTAAAACAGATC
* * * * * *
2248660 ATAATTAGTTATTTGCCTCGGGAAACGTTTAGTGAAAACCATCCATTGACAAGAAAAGTCCATTT
385 ATAATTGGATGTTTGCCTCGAGAAACGTTAAG-CAAAACCATCCATTGACAAGAAAAGTCCATTT
* * * * *
2248725 ATAGTGACCTATACCTTCCGAAAGTCTTGTTACTCATTTTAAGTGGTTTTATAAAT-TTAT
449 ATAGTCACCTAT-CCTT-CGAAAGCCTTATTACTCACTTTAAATGGTTTTAT-AATCTTAT
* * * *
2248785 AAATGA-TTTAAATTGAATTTTTTTCATTTCTCATCAAAATAGATCATAATTTGATGTTTGCATT
1 AAATGATTTTAAATTGAATTTTTTTCATTTTTCATTAAAACAGATCATAATTGGATGTTTGCATT
* * ** ** * * *
2248849 GGCACATGTGAAGTGAAAGCCATCCATTGACAAGGAAAGTCCATTTATAGTAACCCATGCCTTCG
66 GGGAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCG
* * * * *
2248914 CAAGCCTAGTTACT-AACATTAAATGCTTTTATAATCTCATAAATGATTTGAAGTTGAATTTGTT
131 AAAGCTTAGTTACTCAA-TTTAAATGCTTTTATAAT-TTATAAATGATTTTAAGTTGAATTT-TT
* * * * * *
2248978 TTCATTTTTAGTTAAAACAGATCATAATTGGATGTTTACCTTGGGAAACATCAAGCAAAAGCCAT
193 TTCATTTTTGGTTAAAACAAATCATAATTGGATGTTTGCCTTGGAAAACGTGAAGCAAAAGCCAT
** ** * * * * *
2249043 CAATTGTGAAGAAAAGTCTGTTTATAGTCAAC-CATGTCTTGGAAAGCCTTGTTAATTACTTGAA
258 C-ATTGACAAGAAAAGTCCATTTATAGTC-ACTCATGCCTTTGAAAGCCTTGTTACTCACTTTAA
* * * * * * * *
2249107 GTGGTTTTAT-AGCTTTATAAATTATTTTAAATTGATTTTTTTTTATTTTTGATTAAAACATAGC
321 ATGGTTTTATAATC-TTATAAATGATTTTAAGTTGAATTTTTTTTATTTTTGTTTAAAACAGATC
* * ** * * *
2249171 ATAATTTGATATTTTTCTAGTGAAAC-TTGAAGCAAAAACCATCCATTGACAAGAAAAGTCTATT
385 ATAATTGGATGTTTGCCTCGAGAAACGTT-AAGC-AAAACCATCCATTGACAAGAAAAGTCCATT
* * * * * * * *
2249235 TACAGTTACCCATGCCTTCAAAAGCCTAATTACTCAGTTGAAATGGTTTTATAATCTCAT
448 TATAGTCACCTAT-CCTTCGAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTTAT
* * * * * *
2249295 GATTGATTTTAAGTTGAATTTGTTTTCATTTTTTC-TTAAAACAGGTCATGATTGGATCTTTGTC
1 AAATGATTTTAAATTGAATTT-TTTTCA-TTTTTCATTAAAACAGATCATAATTGGATGTTTG-C
* * * **
2249359 -TTGGGAAACGTGAAG-AGAAAGCCATCGATTGACAAGAAAAGTCCATTTACAACCAC-CTATGC
63 ATTGGGAAACATGAAGCA-AAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC-ATGC
** * * *
2249421 CTTCGAAAGCCTT-GTTACTCGTTTTAAATGGTTTTATAATCCTATAAATGATTTTATGTTGAAT
126 CTTCGAAAG-CTTAGTTACTCAATTTAAATGCTTTTATAAT-TTATAAATGATTTTAAGTTGAAT
* ** *
2249485 TTGTTTTCATTTTTGGTTCAAACAAATCATAATTGGATGTTT-CCTCAGAAAACGTGAAGCGACA
189 TT-TTTTCATTTTTGGTTAAAACAAATCATAATTGGATGTTTGCCTTGGAAAACGTGAAGC-AAA
* * *
2249549 A-CCATCCATTCACAAGAAAAGTCCATTTATAGTCACTTATGCCTTTGAAAGCCTTGTCACTCAC
252 AGCCAT-CATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTGTTACTCAC
* * *
2249613 TTTAAATGGTTGTATAATCTTATAAATGATTTTAAGTTG-ATTTTTTTTCATATTTG-GTAAAAG
316 TTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTT-ATTTTTGTTTAAAA-
* ** * * * *
2249676 CAAATCATAATTGGATGTTTTTCTTGAGAAACATGAAGCAAAAGCCATCCATTGATAAGAAAAGT
379 CAGATCATAATTGGATGTTTGCCTCGAGAAACGTTAAGCAAAA-CCATCCATTGACAAGAAAAGT
* * * * * * *
2249741 CCATTTACAGTCA-CTCATGCTTTCGAGAGCCTTGTTACTCGCTTTAAGTGATTTTATAA-CTTT
443 CCATTTATAGTCACCT-AT-CCTTCGAAAGCCTTATTACTCACTTTAAATGGTTTTATAATC-TT
2249804 AT
505 AT
* * * *
2249806 AAATGGTTTTAAATTGAAATGTTTTTC-TTTTTCATTAAAACATG-TCATAATTTGACGTTTGCA
1 AAATGATTTTAAATTG-AATTTTTTTCATTTTTCATTAAAACA-GATCATAATTGGATGTTTGCA
* * * * *
2249869 TTGGGAAAAATGAAGCAAAAGCCATCCATTGAGAA-AATAAGTCCACTTATAGTCAATCATACCT
64 TTGGGAAACATGAAGCAAAAGCCATCCATTGACAAGAA-AAGTCCATTTATAGTCACTCATGCCT
* * * ** * *
2249933 TCGAAAGCCTT-TTTACATGC--TTTAAGTGGTTTTATAGCCTTATAAATAATTTTAAATTG-AT
128 TCGAAAG-CTTAGTTAC-T-CAATTTAAATGCTTTTATA-ATTTATAAATGATTTTAAGTTGAAT
* * * * * * * * *
2249994 TTTTTTTATTTTTTGTCAAAACATATCGTAATTTGATGTTTGTC-TGAGAAAACCTAAAGCGAAA
189 TTTTTTCATTTTTGGTTAAAACAAATCATAATTGGATGTTTGCCTTG-GAAAACGTGAAGC-AAA
* * * *
2250058 A-CCATCCATGGACAAGAATAGTCTATTTATAGTCACTCATGCCTTCGAAAG-CTTAGTTACTCA
252 AGCCAT-CATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTT-GTTACTCA
* * * ** *
2250121 ATTTAAATAGTTTTATAATCTCAGGAATGATTTTAAGTTGAATTTGTTTCTATTTTT-TGTTAAA
315 CTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTT-TTTTTATTTTTGT-TTAAA
* * * * * * ** *
2250185 ACAGATCATAATTGGATGTTTGCTTTG-GAAAATGTGAAGTGAAAGCTGTTCATTGACAAGAAAA
378 ACAGATCATAATTGGATGTTTGCCTCGAG-AAACGTTAAG-CAAAACCATCCATTGACAAGAAAA
*
2250249 GTCCATTTATAGTCACCCATGCCTTCGAAAGCCTTATTACTC
441 GTCCATTTATAGTCACCTAT-CCTTCGAAAGCCTTATTACTC
2250291 GTATTTTGAT
Statistics
Matches: 1625, Mismatches: 330, Indels: 127
0.78 0.16 0.06
Matches are distributed among these distances:
508 35 0.02
509 143 0.09
510 397 0.24
511 716 0.44
512 279 0.17
513 53 0.03
514 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (506 bp):
AAATGATTTTAAATTGAATTTTTTTCATTTTTCATTAAAACAGATCATAATTGGATGTTTGCATT
GGGAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCG
AAAGCTTAGTTACTCAATTTAAATGCTTTTATAATTTATAAATGATTTTAAGTTGAATTTTTTTC
ATTTTTGGTTAAAACAAATCATAATTGGATGTTTGCCTTGGAAAACGTGAAGCAAAAGCCATCAT
TGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTGTTACTCACTTTAAATGGT
TTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTATTTTTGTTTAAAACAGATCATAATT
GGATGTTTGCCTCGAGAAACGTTAAGCAAAACCATCCATTGACAAGAAAAGTCCATTTATAGTCA
CCTATCCTTCGAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTTAT
Found at i:2250699 original size:170 final size:169
Alignment explanation
Indices: 2250331--2250996 Score: 648
Period size: 169 Copynumber: 3.9 Consensus size: 169
2250321 AGCAAACATT
* * * * * * * * *
2250331 ATCCATTGGCAAGAAAAGTCCACTTATCGTCAGTAATGTCTTCGAAAGTCTAGTTGCTCACTTTA
1 ATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCAAAAGCCTTGTTACTCACTTTA
* * *
2250396 AGTGGTTTTATAAAGTTATTT--AT-ATTTTAAGTTTAATTTTTTTCATTT-TTAGTTAAAACAA
66 AGTGGTTTTATAAA-TT-TTTAAATGATTTTAAATTGAATTTTTTTCATTTATCA-TTAAAACAA
* * * * *
2250457 ATCAAAATTGGATGTCTGCCCTGGGAAACAT-GAAGCGAAAGCC
128 ATCATAATTTGATGTTTG-CTTTGGAAACATGGAA-CGAAAGCC
*** * * * * *
2250500 ATTTGTTGATAAGAAAAGTTCATTTATAGTCACTCATACCTTCAAAAGCCTTGTTACTTACTTTA
1 ATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCAAAAGCCTTGTTACTCACTTTA
*
2250565 AGTGGTTTTATAAATTTTTAAATGATTCTAAATTGAATTTTTTTCTCATTTATCATTAAAACAAA
66 AGTGGTTTTATAAATTTTTAAATGATTTTAAATTGAA-TTTTTT-TCATTTATCATTAAAACAAA
* *
2250630 TCATAATTTGATATTTGCTTTGGAAACATGGAACAAAAGCC
129 TCATAATTTGATGTTTGCTTTGGAAACATGGAACGAAAGCC
* ** * *
2250671 ATCCATTGACAAG-AAAGTCCATTTATAGTCACTAATGCATTTGAAAGCCTTATTACTCACTTCA
1 ATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCAAAAGCCTTGTTACTCACTTTA
* * * * ** *
2250735 AGTGATTTTATAACA-TTATAAATTATTTTAAATTGATTTTTTTTCATTCTA-GGTTAAAACAAT
66 AGTGGTTTTATAA-ATTTTTAAATGATTTTAAATTGAATTTTTTTCATT-TATCATTAAAACAAA
* * **** *
2250798 TCTTACTTTGATGTTTGCATCACAAAACATGG-ATGAAAGCC
129 TCATAATTTGATGTTTGC-TTTGGAAACATGGAACGAAAGCC
* * * * * *
2250839 ATCTATTGAGAAGAAAAGTCCATTTATTGTCACTCATGCCTTCAAAGGCCTTGTTACTCGCTTTA
1 ATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCAAAAGCCTTGTTACTCACTTTA
* * * **
2250904 AGTGGTTTTATAACTTTCTAAATGATTTTAAATTGAATTTTTTTAATTTATCATTAAAACGGATC
66 AGTGGTTTTATAAATTTTTAAATGATTTTAAATTGAATTTTTTTCATTTATCATTAAAACAAATC
*
2250969 ATAATTTGATGTTTGCATTGGAAACATG
131 ATAATTTGATGTTTGCTTTGGAAACATG
2250997 AAGTGAATGT
Statistics
Matches: 397, Mismatches: 87, Indels: 27
0.78 0.17 0.05
Matches are distributed among these distances:
167 3 0.01
168 58 0.15
169 187 0.47
170 82 0.21
171 33 0.08
172 32 0.08
173 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (169 bp):
ATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCAAAAGCCTTGTTACTCACTTTA
AGTGGTTTTATAAATTTTTAAATGATTTTAAATTGAATTTTTTTCATTTATCATTAAAACAAATC
ATAATTTGATGTTTGCTTTGGAAACATGGAACGAAAGCC
Found at i:2252313 original size:107 final size:102
Alignment explanation
Indices: 2252131--2252351 Score: 289
Period size: 107 Copynumber: 2.1 Consensus size: 102
2252121 TCTCAAGCAC
* * *
2252131 TTGATTAAAATTGTTTAATTAAGTTGTGCCTAATTAATTAAATTATTTAATTAAGTTATTTGGCC
1 TTGATT-AAATTGTTTAATTAAGTTGGGCCTAATTAATTAAATTATTTAATTAAATTATTAGGCC
2252196 TAATTAATTAAATTAAACAATTAAGTTATTGGGCCTAA
65 TAATTAATTAAATTAAACAATTAAGTTATTGGGCCTAA
* *
2252234 TTGATTAAATTGGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTGTTTAATTAAATTATTA
1 TTGATTAAATT-GTTTAATTAAG---TTGGGCCTAATTAATT-AAATTATTTAATTAAATTATTA
* **** *
2252299 GGCTTAATTAATTAAATTGTTTAATTAAGTTATTGGGCCTTA
61 GGCCTAATTAATTAAATTAAACAATTAAGTTATTGGGCCTAA
2252341 TTGATTAAATT
1 TTGATTAAATT
2252352 AAACAATTAA
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
102 5 0.05
103 17 0.17
106 14 0.14
107 66 0.65
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (102 bp):
TTGATTAAATTGTTTAATTAAGTTGGGCCTAATTAATTAAATTATTTAATTAAATTATTAGGCCT
AATTAATTAAATTAAACAATTAAGTTATTGGGCCTAA
Found at i:2252365 original size:35 final size:35
Alignment explanation
Indices: 2252131--2252351 Score: 259
Period size: 35 Copynumber: 6.3 Consensus size: 35
2252121 TCTCAAGCAC
*
2252131 TTGATTAAAATTGTTTAATTAAG---TTGTGCCTAA
1 TTGATT-AAATTGTTTAATTAAGTTATTGGGCCTAA
* * *
2252164 TTAATTAAATTATTTAATTAAGTTATTTGGCCTAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
* ****
2252199 TTAATTAAATTAAACAATTAAGTTATTGGGCCTAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
*
2252234 TTGATTAAATTGGTTTAATTAAGTCATTGGGCCTAA
1 TTGATTAAATT-GTTTAATTAAGTTATTGGGCCTAA
* * *
2252270 TTGATTAAAATTGTTTAATTAAATTATTAGGCTTAA
1 TTGATT-AAATTGTTTAATTAAGTTATTGGGCCTAA
* *
2252306 TTAATTAAATTGTTTAATTAAGTTATTGGGCCTTA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
2252341 TTGATTAAATT
1 TTGATTAAATT
2252352 AAACAATTAA
Statistics
Matches: 159, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
32 15 0.09
33 5 0.03
35 84 0.53
36 50 0.31
37 5 0.03
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (35 bp):
TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
Found at i:2254615 original size:172 final size:169
Alignment explanation
Indices: 2254226--2255598 Score: 1233
Period size: 172 Copynumber: 8.0 Consensus size: 169
2254216 ACCTAGCAAT
*
2254226 GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC-CAATGCCTTCAAAAGCCTTATTAC
1 GAAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTC-ATGCCTTCAAAAGCCTTATTAC
* * * * * *
2254290 TCGGTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAACT-AAATTTTTTTCATTCTAGCTTA
65 TCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTT-AATTGAATTTTTTTTCATTTTTGATTA
* * * * * *
2254354 AAAGAGTTCATACTTTGATGTGTGCATCGGGAAACATGAAGC
129 AAATAGATCATAATTTGATGTTTGC-TTGAGAAACATGAAGC
* * *
2254396 GAAAGCTATCCATTGACAACAAAAGTCTATTTATAGTCACTCATGCCTTTAAAAGCCTTATTACT
1 GAAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACT
* * * *
2254461 CACTTTAAGTGGTTTTATAACTTTACAAATAATTTTAGATTGAATTTTTTTTGCTTTTTTGATTA
66 CGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTA-ATTGAATTTTTTTT-CATTTTTGATTA
** *
2254526 AAATAGATGGTAATTTGATGTTTGCAATGAGAAACATGAAGC
129 AAATAGATCATAATTTGATGTTTGC-TTGAGAAACATGAAGC
* * * * *
2254568 GAAAGGTATCCATTGACAAGAAAAATCCATTTGTAGTCACCCATGCCTTCAAAAGCCTTGTTACT
1 GAAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACT
** * * ** *
2254633 CTTTTTAAGTGGTTTTATAACTTTATAAGTGATTTTAAATTGGATTTGCTTTCATTTTTCATTAA
66 CGCTTTAAGTGGTTTTATAACTTTATAAATGATTTT-AATTGAATTTTTTTTCATTTTTGATTAA
* * *
2254698 AATAGGTCATAATTTGATGTTTGCATTGGGAAACGTGAAGC
130 AATAGATCATAATTTGATGTTTGC-TTGAGAAACATGAAGC
* * *
2254739 GAGCA-CTATCCATTGACAAGAAAAGTCCATTTATAGTCACTCGTG-CTTGCAAAA-CCTAATTA
1 GA-AAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTT-CAAAAGCCTTATTA
* * * * *
2254801 CTCGCTTTAAATGGTTTTGTAA-TCTTATAGATGATTTTAAGTTGAATTTGTTCTCATTTTT-AG
64 CTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAA-TTGAATTTTTTTTCATTTTTGA-
* * * ** * *
2254864 TTTAAATAGATCATAATTGGATGTATGCCTCAAGAAACGTGAAGT
126 TTAAAATAGATCATAATTTGATGTTTG-CTTGAGAAACATGAAGC
* ** * * *
2254909 GAAAGCCATCTGTTGACAAGAAAAGTCCAGTTATAGTCATTCATGCCTTCGAAAG-CTTAGTTAC
1 GAAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTA-TTAC
* * * *
2254973 TCGCTTCAAGTGGTTTTATAACTTTATAAATGATTATAAATTGAATTTTTTCATCATTTTTCATT
65 TCGCTTTAAGTGGTTTTATAACTTTATAAATGATT-TTAATTGAATTTTTT-TTCATTTTTGATT
* *
2255038 AAAATAGGTCATAATTTGATGTTTGCATTTG-GAAACATGAAGT
128 AAAATAGATCATAATTTGATGTTTGC--TTGAGAAACATGAAGC
* *
2255081 GAACA-CTATCCATTGACAAGAAAAGTCCAATTA-ACATCACTCATGCCTTCAAAAGCC-TAGTT
1 GAA-AGCTATCCATTGACAAGAAAAGTCCATTTATA-GTCACTCATGCCTTCAAAAGCCTTA-TT
** * * * * * * *
2255143 ACTCAATTTGATTGGTTTTATAA-TCTCATGAATGATTTTAAGTTGAATTTGTTCTCATTTTTGG
63 ACTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAA-TTGAATTTTTTTTCATTTTTGA
* * * *
2255207 TTAAAAAAGATCATAACTGGATG-TTGACCTTGGGAAACATGAAGC
126 TTAAAATAGATCATAATTTGATGTTTG--CTTGAGAAACATGAAGC
* * * ** ** *
2255252 GAAAGCCATCGATTGATAAGAAAAGTTTATTTATAGAGACTCAGGCCTTCGAAAAGCCTTATTAC
1 GAAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTC-AAAAGCCTTATTAC
** * * *
2255317 TCTTTTTCAGTGGTTTTATAA-TCTTATAAATGATTTTAAGTTG-A-TTTTTTCCCTTTTT-AGT
65 TCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAA-TTGAATTTTTTTTCATTTTTGA-T
* * * *
2255378 T-AAATCATATCATAATTGGATGTTTGCCTT-AGAAAACGTGAAAC
127 TAAAAT-AGATCATAATTTGATGTTTG-CTTGAG-AAACATGAAGC
* * * *
2255422 GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCGTGCATTCAAAAGCCTAATTACT
1 GAAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACT
* * * * * * *
2255487 CGCTTTAAATGGTTTTGTAA-TCTTATAGATGATTTTGAGTTGAACTTGTTATCATTTTT-AGTT
66 CGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTT-AATTGAATTTTTTTTCATTTTTGA-TT
* * * ** *
2255550 TAAACAGATCATAATTGGATGTTTGCCTCAAGAAACATGAAGT
128 AAAATAGATCATAATTTGATGTTTG-CTTGAGAAACATGAAGC
2255593 GAAAGC
1 GAAAGC
2255599 CATTCTATCA
Statistics
Matches: 988, Mismatches: 173, Indels: 83
0.79 0.14 0.07
Matches are distributed among these distances:
169 57 0.06
170 316 0.32
171 279 0.28
172 329 0.33
173 7 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (169 bp):
GAAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACT
CGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAATTGAATTTTTTTTCATTTTTGATTAAA
ATAGATCATAATTTGATGTTTGCTTGAGAAACATGAAGC
Found at i:2255203 original size:513 final size:509
Alignment explanation
Indices: 2254228--2255598 Score: 1495
Period size: 513 Copynumber: 2.7 Consensus size: 509
2254218 CTAGCAATGA
*
2254228 AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC-CAATGCCTTCAAAAGCCTTATTACTC
1 AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAGTGCCTTCAAAAGCCTTATTACTC
* ** * * *
2254292 GGTTTAAGTGGTTTTATAA-CTTTATAAATGATTTTAAACTAAATTTTTTTCA-TTCTAGCTTAA
66 GCTTTAAGTGGTTTTATAATC-TTATAAATGATTTTAAGTTGAATTTTTCTCATTTTTAG-TTAA
* * * * ** * * *
2254355 A-AGAGTTCATACTTTGATGTGTGCATCGGGAAACATGAAGCGAAAGCTATCCATTGACAACAAA
129 ATAGA--TCATAATTGGATGTATGCCTCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAA
* * *
2254419 AGTCTATTTATAGTCACTCATGCCTTTAAAAGCCTTATTACTCACTTTAAGTGGTTTTATAACTT
192 AGTCCATTTATAGTCACTCATGCCTTCAAAAG-CTTATTACTCGCTTTAAGTGGTTTTATAACTT
* * * * * **
2254484 TACAAATAATTTTAGATTGAATTTTTTTTGCTTTTTTGATTAAAATAGATGGTAATTTGATGTTT
256 TATAAATGATTTTAAATTGAATTTTTTAT-CATTTTT-ATTAAAATAGATCATAATTTGATGTTT
* * * * *
2254549 GCA-ATGAGAAACATGAAGCGAAAGGTATCCATTGACAAGAAAAATCCATTTGTAGTCACCCATG
319 GCATATG-GAAACATGAAGTGAAAGCTATCCATTGACAAGAAAAATCCAATTGAAATCACCCATG
* ** * *
2254613 CCTTCAAAAGCCTTGTTACTCTTTTTAAGTGGTTTTATAACTTTATAAGTGATTTTAAATTGGAT
383 CCTTCAAAAGCCTAGTTACTCAATTTAAGTGGTTTTATAACTTCATAAGTGATTTTAAATTGAAT
* * * * *
2254678 TTGCTTTCATTTTTCATTAAAATAGGTCATAATTTGATGTTTG-CATTGGGAAACGTGAAGCG
448 TTGCTTTCATTTTTCATTAAAAAAGATCATAACTGGATG-TTGACATTGGGAAACATGAAGCG
*
2254740 -AGCACTATCCATTGACAAGAAAAGTCCATTTATAGTCACTC-GTG-CTTGCAAAA-CCTAATTA
1 AAGC-C-ATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAGTGCCTT-CAAAAGCCTTATTA
* * *
2254801 CTCGCTTTAAATGGTTTTGTAATCTTATAGATGATTTTAAGTTGAATTTGTTCTCATTTTTAGTT
63 CTCGCTTTAAGTGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTT-TTCTCATTTTTAG-T
* **
2254866 TAAATAGATCATAATTGGATGTATGCCTCAAGAAACGTGAAGTGAAAGCCATCTGTTGACAAGAA
126 TAAATAGATCATAATTGGATGTATGCCTCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAA
* * * *
2254931 AAGTCCAGTTATAGTCATTCATGCCTTCGAAAGCTTAGTTACTCGCTTCAAGTGGTTTTATAACT
191 AAGTCCATTTATAGTCACTCATGCCTTCAAAAGCTTA-TTACTCGCTTTAAGTGGTTTTATAACT
* *
2254996 TTATAAATGATTATAAATTGAATTTTTTCATCATTTTTCATTAAAATAGGTCATAATTTGATGTT
255 TTATAAATGATTTTAAATTGAATTTTTT-ATCATTTTT-ATTAAAATAGATCATAATTTGATGTT
* * *
2255061 TGCATTTGGAAACATGAAGTGAACA-CTATCCATTGACAAGAAAAGTCCAATT-AACATCACTCA
318 TGCATATGGAAACATGAAGTGAA-AGCTATCCATTGACAAGAAAAATCCAATTGAA-ATCACCCA
* * *
2255124 TGCCTTCAAAAGCCTAGTTACTCAATTTGATTGGTTTTATAA-TCTCATGAA-TGATTTTAAGTT
381 TGCCTTCAAAAGCCTAGTTACTCAATTTAAGTGGTTTTATAACT-TCAT-AAGTGATTTTAAATT
** *
2255187 GAATTTG-TTCTCATTTTTGGTTAAAAAAGATCATAACTGGATGTTGACCTTGGGAAACATGAAG
444 GAATTTGCTT-TCATTTTTCATTAAAAAAGATCATAACTGGATGTTGACATTGGGAAACATGAAG
2255251 CG
508 CG
* * ** **
2255253 AAAGCCATCGATTGATAAGAAAAGTTTATTTATAGAGACTCAG-GCCTTCGAAAAGCCTTATTAC
1 -AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAGTGCCTTC-AAAAGCCTTATTAC
** * * *
2255317 TCTTTTTCAGTGGTTTTATAATCTTATAAATGATTTTAAGTTGATTTTTTC-CCTTTTTAGTTAA
64 TCGCTTTAAGTGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTCTCATTTTTAGTTAA
* * * *
2255381 ATCATATCATAATTGGATGTTTGCCT-TAGAAAACGTGAAACGAAAGCCATCCATTGACAAGAAA
129 AT-AGATCATAATTGGATGTATGCCTCAAG-AAACGTGAAGCGAAAGCCATCCATTGACAAGAAA
* * * * *
2255445 AGTCCATTTATAGTCACTCGTGCATTCAAAAGCCTAATTACTCGCTTTAAATGGTTTTGTAA-TC
192 AGTCCATTTATAGTCACTCATGCCTTCAAAAG-CTTATTACTCGCTTTAAGTGGTTTTATAACT-
* * * * * * * *
2255509 TTATAGATGATTTTGAGTTGAACTTGTTATCATTTTTAGTTTAAACAGATCATAATTGGATGTTT
255 TTATAAATGATTTTAAATTGAATTTTTTATCATTTTTA-TTAAAATAGATCATAATTTGATGTTT
* *
2255574 GCCTCA-AGAAACATGAAGTGAAAGC
319 GCAT-ATGGAAACATGAAGTGAAAGC
2255599 CATTCTATCA
Statistics
Matches: 720, Mismatches: 109, Indels: 60
0.81 0.12 0.07
Matches are distributed among these distances:
511 5 0.01
512 121 0.17
513 507 0.70
514 32 0.04
515 55 0.08
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (509 bp):
AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAGTGCCTTCAAAAGCCTTATTACTC
GCTTTAAGTGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTCTCATTTTTAGTTAAAT
AGATCATAATTGGATGTATGCCTCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTC
CATTTATAGTCACTCATGCCTTCAAAAGCTTATTACTCGCTTTAAGTGGTTTTATAACTTTATAA
ATGATTTTAAATTGAATTTTTTATCATTTTTATTAAAATAGATCATAATTTGATGTTTGCATATG
GAAACATGAAGTGAAAGCTATCCATTGACAAGAAAAATCCAATTGAAATCACCCATGCCTTCAAA
AGCCTAGTTACTCAATTTAAGTGGTTTTATAACTTCATAAGTGATTTTAAATTGAATTTGCTTTC
ATTTTTCATTAAAAAAGATCATAACTGGATGTTGACATTGGGAAACATGAAGCG
Found at i:2260376 original size:346 final size:339
Alignment explanation
Indices: 2259315--2260867 Score: 1182
Period size: 345 Copynumber: 4.5 Consensus size: 339
2259305 TTACAGTTAT
* * * * *
2259315 TCATACCTTCGAAAG-CTTAGTTACTCGCTTAAAGTGGTTTTATAA-CTTTATAAAAGATTATAA
1 TCATGCCTTCGAAAGCCTT-GTTACTCGCTTTAAGTAGTTTTATAATC-TTATAAATGATTTTAA
* * * * * * **
2259378 ATTCA--ATTTTTTTTCATTTTCA--TTAAAATAGGTCATAATTTGATGTTTGCATTGGGAAACA
64 GTTGATTTTTTTTTTTCATTTT-AGGTTAAAACA-TTCATAATTTGATGTTTGCATTAGGAAATG
** ** ** * * * * * * *
2259439 TGAAGCGATCGTTATCCATTAACAAGAAAAGTCGAATTA-ACATCAATTATG-CCTTCAAAAGCC
127 TGAAGTAAAAGCCATCCATTGACAAGAAAAGTCCATTTATA-GTCACTCATGACCTT-AAGAGCC
* * * * * * *
2259502 -TAGTTACTCATTTTGAA-TGGTTTTAT-ACTCTCATGAATGATTTTAAGTTGA-ATTTGTTCTC
190 TTA-TTACT-ACTTT-AAGTGGTTTTATAACT-T-ATAAATGATATTAAATTGATTTTTTTTTTC
* * ** * * * *
2259563 ATTTTTAGTTAAAAAAGGATCATAACTAGATGTTTTCCTTGGGAAACGTGAAGCAAAAGCTATCA
250 ATTTTCA-TT--AAAATGATCATAA-TTTATGTTTGCATTGGGAAACGTGAAGCAAAAGCCATCC
* * **
2259628 ATTGATAAGAAAA-GTCTATTTATAGAGAC
311 ATTGACAAGAAAATTTC-ATTTATAGTCAC
* *
2259657 TCATGCCTTCGAAAGCCTTGTTACTCTCTTTAAATAGTTTTATAATCTTATAAATGATTTTAAGT
1 TCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAGTAGTTTTATAATCTTATAAATGATTTTAAGT
* * * * * * * **
2259722 TGA-ATCTTTTTTTCATTTTCA-ATTAAAACATATCATAATTGGGTGTTTGCCTTAGAAAACATG
66 TGATTTTTTTTTTTCATTTT-AGGTTAAAACAT-TCATAATTTGATGTTTGCATTAGGAAATGTG
* * * ***
2259785 AAGCAAAAGCCATCCATTGACAAGAAAAGTTCATTTATAATCACTCATGTGTTTAAGAGCCTTAT
129 AAGTAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGACCTTAAGAGCCTTAT
* * * * * *
2259850 TACTAGCTTTAAGTGGTTGTATAAGTTTACAAATGATATTAAATTGA-ATTTGTTTTCATTTTTA
194 TACTA-CTTTAAGTGGTTTTATAA-CTTATAAATGATATTAAATTGATTTTTTTTTTCATTTTCA
* * * * *
2259914 GTTAAAACTTATCACAATTTGATGTTTGCATTGGGAAGCGTGAAGCGAAAGCCA-CCTGTTGACA
257 -TTAAAA-TGATCATAATTT-ATGTTTGCATTGGGAAACGTGAAGCAAAAGCCATCC-ATTGACA
* *
2259978 AGAAAATTACATTTGTAGTCAC
318 AGAAAATTTCATTTATAGTCAC
* *
2260000 GCATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTAGTTTTATAA-CTTTATAAATGATTTTAAG
1 TCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAGTAGTTTTATAATC-TTATAAATGATTTTAAG
* * * * * *
2260064 TTGAGTTTTTTTTTTTCATTTTAGGCTAAAAGAGTTCATAATTTGATCTATACATCAGGAAATGT
65 TTGA-TTTTTTTTTTTCATTTTAGGTTAAAACA-TTCATAATTTGATGTTTGCATTAGGAAATGT
* * * * * * *
2260129 GAAGTGAAAGCCATCTATTGATAACAAAAGTCCATTTATAGTCA-TCCATGCCCTTAAAAGACTT
128 GAAGTAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT-CATGACCTTAAGAGCCTT
* * * *
2260193 GTCACTCACTTTAAGTGGTTTTATAACTTAATAAATAATGTTAAATTGATTTTTTTTTTACATTT
192 ATTACT-ACTTTAAGTGGTTTTATAACTT-ATAAATGATATTAAATTGATTTTTTTTTT-CATTT
* * *
2260258 TCATTAAAATAGATCGTAATTCTATGTTTGCATTGGGTAACGTGAAGCAAAAGTCATCCATTGAC
254 TCATTAAAAT-GATCATAATT-TATGTTTGCATTGGGAAACGTGAAGCAAAAGCCATCCATTGAC
*
2260323 AAGAAATTTTCATTTATAGTCAC
317 AAGAAAATTTCATTTATAGTCAC
* *
2260346 TTATGCCTTCGAAAG-CTTAGTTACTCGCTTTAAGTGGTTTTATAA-CTTTATAAATGATTTTGA
1 TCATGCCTTCGAAAGCCTT-GTTACTCGCTTTAAGTAGTTTTATAATC-TTATAAATGATTTT-A
* * * *
2260409 A-TTGAATTTTTTTTTTCATTTTGGGTTAAAATACA-TCATAATTTCATGTTTGCTTTAGGAAAT
63 AGTTGATTTTTTTTTTTCATTTTAGGTT-AAA-ACATTCATAATTTGATGTTTGCATTAGGAAAT
* * *
2260472 GTGCA-TCAAAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTTAT-ACCTTCAAGAGC
126 GTGAAGT-AAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGACCTT-AAGAGC
* * *
2260535 CTTATTACTTGCTTTAAGTTGTTTTATAACATTATAAATGATTTTAAATTGAATTTTTTTTTTCA
189 CTTATTAC-TACTTTAAGTGGTTTTATAAC-TTATAAATGATATTAAATTG-ATTTTTTTTTTCA
* * * * *
2260600 TTTATCGTTAAAATGACTCATAATTTTATGTTTGCATTAGGAAACATGAAGTAAAAGCCATCTAT
251 TTT-TCATTAAAATGA-TCATAA-TTTATGTTTGCATTGGGAAACGTGAAGCAAAAGCCATCCAT
* * * *
2260665 TGATAAAAAAAGTCCATTTATAGTCAC
313 TGACAAGAAAATTTCATTTATAGTCAC
* * * * * * * * *
2260692 TCATACCTTTGAAAGCCTAGTTACTCACTTTAATTGGCTTTATAATCTCATAAATGGTTTTAAGT
1 TCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAGTAGTTTTATAATCTTATAAATGATTTTAAGT
* * * * * * * * * * *
2260757 TGA--ATTTGTTTTCATTTTTGGTTAAAATAGGTCATAATTGGGTGCTTGCCTTGGGAAACGTGA
66 TGATTTTTTTTTTTCATTTTAGGTTAAAACA-TTCATAATTTGATGTTTGCATTAGGAAATGTGA
** * * *
2260820 AGCGAAAGTCATCCATTGAC-AGAAAAAGTCTATTTATAGTCACCCATG
130 AGTAAAAGCCATCCATTGACAAG-AAAAGTCCATTTATAGTCACTCATG
2260868 CTGTAAAACC
Statistics
Matches: 980, Mismatches: 181, Indels: 97
0.78 0.14 0.08
Matches are distributed among these distances:
342 62 0.06
343 143 0.15
344 212 0.22
345 272 0.28
346 272 0.28
347 19 0.02
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.39
Consensus pattern (339 bp):
TCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAGTAGTTTTATAATCTTATAAATGATTTTAAGT
TGATTTTTTTTTTTCATTTTAGGTTAAAACATTCATAATTTGATGTTTGCATTAGGAAATGTGAA
GTAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGACCTTAAGAGCCTTATTA
CTACTTTAAGTGGTTTTATAACTTATAAATGATATTAAATTGATTTTTTTTTTCATTTTCATTAA
AATGATCATAATTTATGTTTGCATTGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAATT
TCATTTATAGTCAC
Found at i:2260403 original size:517 final size:507
Alignment explanation
Indices: 2259315--2260868 Score: 1521
Period size: 517 Copynumber: 3.0 Consensus size: 507
2259305 TTACAGTTAT
* * *
2259315 TCATACCTTCGAAAGCTTAGTTACTCGCTTAAAGTGGTTTTATAACTTTATAAAAGATTATAAAT
1 TCATGCCTTCGAAAGCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATT-TAAAT
* *
2259380 TCAATTTTTTTTCATTTTCA-TTAAAA-TAGGTCATAATTTGATGTTTGCATTGGGAAACATGAA
65 TGAATTTTTTTTCATTTTCAGTTAAAATTA--TCATAATTTGATGTTTGCATTGGGAAACGTGAA
** * * * * * * * *
2259443 GCGATCGTTATCCATTAACAAGAAAAGTCGAATTAACATCAATTATGCCTTCAAAAGCCTAGTTA
128 GCGAAAGCTATCCATTGACAAGAAAAGTC-ATTTTA-GTCACTTATGCCTTTAAAAGCCTTGTTA
** * * * * * *
2259508 CTCATTTTGAA-TGGTTTTAT-ACTCTCATGAATGATTTTAAGTTGA-ATTTGTTCTCATTTTTA
191 CTCGCTTT-AAGTAGTTTTATAACT-TTATAAATGATTTTAAGTTGATTTTTTTTTTCA-TTTTA
* * * * * * * * *
2259570 GTTAAAAAAGGATCATAACTAGATGTTTTCCTTGGGAAACGTGAAGCAAAAGCTATCAATTGATA
253 GTTAAAAGA-GATCATAATTTGATGTTTACATTAGGAAACGTGAAGTAAAAGCCATCTATTGATA
* * ** * *
2259635 AGAAAAGTCTATTTATAGAGACTCATG-CCTTCGAAAGCCTTGTTACTCTCTTTAAATAGTTTTA
317 AAAAAAGTCCATTTATAGTCACTCATGCCCTT-GAAAGCCTTGTTACTCACTTTAAATGGTTTTA
* * *
2259699 TAATCTTATAAATGATTTTAAGTTGAATCTTTTTTTCATTTTCAATTAAAACATATCATAATTGG
381 TAA-CTTATAAATGATTTTAAGTTG-ATTTTTTTTTCATTTTC-ATTAAAATAGATCATAATTGG
* * * * * *
2259764 GTGTTTGCCTTAGAAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTTCATTTATAATCAC
443 GTGTTTGCCTTGGGAAACGTGAAGCAAAAGTCATCCATTGACAAGAAAAATTCATTTATAGTCAC
** * * * * *
2259829 TCATGTGTT-TAAGAGCCTTA-TTACTAGCTTTAAGTGGTTGTATAAGTTTACAAATGATATTAA
1 TCATGCCTTCGAA-AG-CTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGAT-TTAA
* * * *
2259892 ATTGAATTTGTTTTCATTTTTAGTTAAAACTTATCACAATTTGATGTTTGCATTGGGAAGCGTGA
63 ATTGAATTTTTTTTCATTTTCAGTTAAAA-TTATCATAATTTGATGTTTGCATTGGGAAACGTGA
* * * ** *
2259957 AGCGAAAGCCA-CCTGTTGACAAGAAAATTACATTTGTAGTCACGCATGCCTTTGAAAGCCTTGT
127 AGCGAAAGCTATCC-ATTGACAAGAAAAGT-CATTT-TAGTCACTTATGCCTTTAAAAGCCTTGT
2260021 TACTCGCTTTAAGTAGTTTTATAACTTTATAAATGATTTTAAGTTGAGTTTTTTTTTTTCATTTT
189 TACTCGCTTTAAGTAGTTTTATAACTTTATAAATGATTTTAAGTTGA--TTTTTTTTTTCATTTT
* * * * * * *
2260086 AGGCTAAAAGAGTTCATAATTTGATCTATACATCAGGAAATGTGAAGTGAAAGCCATCTATTGAT
252 A-GTTAAAAGAGATCATAATTTGATGTTTACATTAGGAAACGTGAAGTAAAAGCCATCTATTGAT
* * * * *
2260151 AACAAAAGTCCATTTATAGTCA-TCCATGCCCTTAAAAGACTTGTCACTCACTTTAAGTGGTTTT
316 AAAAAAAGTCCATTTATAGTCACT-CATGCCCTTGAAAGCCTTGTTACTCACTTTAAATGGTTTT
* * * * *
2260215 ATAACTTAATAAATAATGTTAAATTGATTTTTTTTTTACATTTTCATTAAAATAGATCGTAATTC
380 ATAACTT-ATAAATGATTTTAAGTTGA-TTTTTTTTT-CATTTTCATTAAAATAGATCATAATTG
** * * **
2260280 TATGTTTGCATTGGGTAACGTGAAGCAAAAGTCATCCATTGACAAGAAATTTTCATTTATAGTCA
442 GGTGTTTGCCTTGGGAAACGTGAAGCAAAAGTCATCCATTGACAAGAAAAATTCATTTATAGTCA
2260345 C
507 C
* *
2260346 TTATGCCTTCGAAAGCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTGAAT
1 TCATGCCTTCGAAAGCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGA-TTTAAAT
** * * * * * *
2260411 TGAATTTTTTTTTTCATTTTGGGTTAAAATACATCATAATTTCATGTTTGCTTTAGGAAATGTGC
65 TGAA--TTTTTTTTCATTTTCAGTTAAAAT-TATCATAATTTGATGTTTGCATTGGGAAACGTGA
* * * * * *
2260476 ATCAAAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCACTTATACCTTCAAGAGCCTTATT
127 AGCGAAAGCTATCCATTGACAAGAAAAGT-CATTT-TAGTCACTTATGCCTTTAAAAGCCTTGTT
* * * * *
2260541 ACTTGCTTTAAGTTGTTTTATAACATTATAAATGATTTTAAATTGAATTTTTTTTTTCATTTATC
190 ACTCGCTTTAAGTAGTTTTATAACTTTATAAATGATTTTAAGTTG-ATTTTTTTTTTCATTT-TA
* * * *
2260606 GTTAAAATGA-CTCATAATTTTATGTTTGCATTAGGAAACATGAAGTAAAAGCCATCTATTGATA
253 GTTAAAA-GAGATCATAATTTGATGTTTACATTAGGAAACGTGAAGTAAAAGCCATCTATTGATA
* * * * *
2260670 AAAAAAGTCCATTTATAGTCACTCATACCTTTGAAAGCCTAGTTACTCACTTTAATTGGCTTTAT
317 AAAAAAGTCCATTTATAGTCACTCATGCCCTTGAAAGCCTTGTTACTCACTTTAAATGGTTTTAT
* * * * ** *
2260735 AATCTCATAAATGGTTTTAAGTTGAATTTGTTTTCATTTTTGGTTAAAATAGGTCATAATTGGGT
382 AA-CTTATAAATGATTTTAAGTTGATTTTTTTTTCA-TTTTCATTAAAATAGATCATAATTGGGT
* * *
2260800 GCTTGCCTTGGGAAACGTGAAGCGAAAGTCATCCATTGAC-AGAAAAAGTCTATTTATAGTCAC
445 GTTTGCCTTGGGAAACGTGAAGCAAAAGTCATCCATTGACAAGAAAAATTC-ATTTATAGTCAC
*
2260863 CCATGC
1 TCATGC
2260869 TGTAAAACCC
Statistics
Matches: 840, Mismatches: 166, Indels: 65
0.78 0.15 0.06
Matches are distributed among these distances:
513 2 0.00
514 66 0.08
515 116 0.14
516 23 0.03
517 322 0.38
518 167 0.20
519 141 0.17
520 3 0.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.39
Consensus pattern (507 bp):
TCATGCCTTCGAAAGCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTAAATT
GAATTTTTTTTCATTTTCAGTTAAAATTATCATAATTTGATGTTTGCATTGGGAAACGTGAAGCG
AAAGCTATCCATTGACAAGAAAAGTCATTTTAGTCACTTATGCCTTTAAAAGCCTTGTTACTCGC
TTTAAGTAGTTTTATAACTTTATAAATGATTTTAAGTTGATTTTTTTTTTCATTTTAGTTAAAAG
AGATCATAATTTGATGTTTACATTAGGAAACGTGAAGTAAAAGCCATCTATTGATAAAAAAAGTC
CATTTATAGTCACTCATGCCCTTGAAAGCCTTGTTACTCACTTTAAATGGTTTTATAACTTATAA
ATGATTTTAAGTTGATTTTTTTTTCATTTTCATTAAAATAGATCATAATTGGGTGTTTGCCTTGG
GAAACGTGAAGCAAAAGTCATCCATTGACAAGAAAAATTCATTTATAGTCAC
Found at i:2260420 original size:173 final size:170
Alignment explanation
Indices: 2259315--2260868 Score: 1208
Period size: 172 Copynumber: 9.0 Consensus size: 170
2259305 TTACAGTTAT
* * * *
2259315 TCATACCTTCGAAAG-CTTAGTTACTCGCTTAAAGTGGTTTTATAACTTTATAAAAGATTATAAA
1 TCATGCCTTCGAAAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATT-TTAA
* * *
2259379 TTCAA-TTTTTTTTCATTTTCATTAAAATAGGTCATAATTTGATGTTTGCATTGGGAAACATGAA
65 TTGAATTTTTTTTTCATTTTCATTAAAATAGATCATAATTT-ATGTTTGCATTGGGAAACGTGAA
* ** ** * * * *
2259443 GCGATCGTTATCCATTAACAAGAAAAG-TCGAATTA-ACATCAA
129 GCAAAAGCCATCCATTGACAAGAAAAGTTC-ATTTATA-GTCAC
* * ** * *
2259485 TTATGCCTTCAAAAGCC-TAGTTACTCATTTTGAA-TGGTTTTAT-ACTCTCATGAATGATTTTA
1 TCATGCCTTCGAAAGCCTTAGTTACTCGCTTT-AAGTGGTTTTATAACT-TTATAAATGATTTTA
* * * * ** * *
2259547 AGTTGAA-TTTGTTCTCATTTTTAGTTAAAAAAGGATCATAACTAGATGTTTTCCTTGGGAAACG
64 A-TTGAATTTTTTTTTCATTTTCA-TTAAAATA-GATCATAA-TTTATGTTTGCATTGGGAAACG
* * * **
2259611 TGAAGCAAAAGCTATCAATTGATAAGAAAAG-TCTATTTATAGAGAC
125 TGAAGCAAAAGCCATCCATTGACAAGAAAAGTTC-ATTTATAGTCAC
* * *
2259657 TCATGCCTTCGAAAGCCTT-GTTACTCTCTTTAAATAGTTTTATAA-TCTTATAAATGATTTTAA
1 TCATGCCTTCGAAAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAA
* * * ** * * * *
2259720 GTTGAATCTTTTTTTCATTTTCAATTAAAACATATCATAATTGGGTGTTTGCCTTAGAAAACATG
65 -TTGAATTTTTTTTTCATTTTC-ATTAAAATAGATCATAATT-TATGTTTGCATTGGGAAACGTG
*
2259785 AAGCAAAAGCCATCCATTGACAAGAAAAGTTCATTTATAATCAC
127 AAGCAAAAGCCATCCATTGACAAGAAAAGTTCATTTATAGTCAC
** * * * * * *
2259829 TCATGTGTT-TAAGAGCCTTA-TTACTAGCTTTAAGTGGTTGTATAAGTTTACAAATGATATTAA
1 TCATGCCTTCGAA-AGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGAT-TTTA
* * * * *
2259892 ATTGAA-TTTGTTTTCATTTTTAGTTAAAACT-TATCACAATTTGATGTTTGCATTGGGAAGCGT
64 ATTGAATTTTTTTTTCATTTTCA-TTAAAA-TAGATCATAATTT-ATGTTTGCATTGGGAAACGT
* * *
2259955 GAAGCGAAAGCCA-CCTGTTGACAAGAAAA-TTACATTTGTAGTCAC
126 GAAGCAAAAGCCATCC-ATTGACAAGAAAAGTT-CATTTATAGTCAC
* * *
2260000 GCATGCCTTTGAAAGCCTT-GTTACTCGCTTTAAGTAGTTTTATAACTTTATAAATGATTTTAAG
1 TCATGCCTTCGAAAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAA-
* * * * * * * ** *
2260064 TTGAGTTTTTTTTTTTCATTTT-AGGCTAAAAGAGTTCATAATTTGATCTATACATCAGGAAATG
65 TTGA--ATTTTTTTTTCATTTTCA--TTAAAATAGATCATAATTT-ATGTTTGCATTGGGAAACG
** * * * *
2260128 TGAAGTGAAAGCCATCTATTGATAACAAAAGTCCATTTATAGTCA-
125 TGAAGCAAAAGCCATCCATTGACAAGAAAAGTTCATTTATAGTCAC
* * * * * * *
2260173 TCCATGCCCTT-AAAAGACTT-GTCACTCACTTTAAGTGGTTTTATAACTTAATAAATAATGTTA
1 T-CATG-CCTTCGAAAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGAT-TTT
* * *
2260236 AATTGATTTTTTTTTTACATTTTCATTAAAATAGATCGTAATTCTATGTTTGCATTGGGTAACGT
63 AATTGAATTTTTTTTT-CATTTTCATTAAAATAGATCATAATT-TATGTTTGCATTGGGAAACGT
* **
2260301 GAAGCAAAAGTCATCCATTGACAAGAAATTTTCATTTATAGTCAC
126 GAAGCAAAAGCCATCCATTGACAAGAAAAGTTCATTTATAGTCAC
*
2260346 TTATGCCTTCGAAAG-CTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTGAA
1 TCATGCCTTCGAAAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTT-AA
** * * * *
2260410 TTGAATTTTTTTTTTCATTTTGGGTTAAAATACATCATAATTTCATGTTTGCTTTAGGAAATGTG
65 TTGAA-TTTTTTTTTCATTTT-CATTAAAATAGATCATAATTT-ATGTTTGCATTGGGAAACGTG
* * * *
2260475 CATCAAAAGCTATCCATTGACAAGAAAAGTCCATTTATAGTCAC
127 AAGCAAAAGCCATCCATTGACAAGAAAAGTTCATTTATAGTCAC
* * * * *
2260519 TTATACCTTC-AAGAGCCTTA-TTACTTGCTTTAAGTTGTTTTATAACATTATAAATGATTTTAA
1 TCATGCCTTCGAA-AGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTT-A
* * *
2260582 ATTGAATTTTTTTTTTCATTTATCGTTAAAAT-GACTCATAATTTTATGTTTGCATTAGGAAACA
64 ATTGAA-TTTTTTTTTCATTT-TCATTAAAATAGA-TCATAA-TTTATGTTTGCATTGGGAAACG
* * * * *
2260646 TGAAGTAAAAGCCATCTATTGATAAAAAAAGTCCATTTATAGTCAC
125 TGAAGCAAAAGCCATCCATTGACAAGAAAAGTTCATTTATAGTCAC
* * * * * * *
2260692 TCATACCTTTGAAAGCC-TAGTTACTCACTTTAATTGGCTTTATAA-TCTCATAAATGGTTTTAA
1 TCATGCCTTCGAAAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAA
* ** * ** * *
2260755 GTTGAA-TTTGTTTTCATTTTTGGTTAAAATAGGTCATAATTGGGTGCTTGCCTTGGGAAACGTG
65 -TTGAATTTTTTTTTCA-TTTTCATTAAAATAGATCATAATT-TATGTTTGCATTGGGAAACGTG
* *
2260819 AAGCGAAAGTCATCCATTGAC-AGAAAAAG-TCTATTTATAGTCAC
127 AAGCAAAAGCCATCCATTGACAAG-AAAAGTTC-ATTTATAGTCAC
*
2260863 CCATGC
1 TCATGC
2260869 TGTAAAACCC
Statistics
Matches: 1110, Mismatches: 213, Indels: 121
0.77 0.15 0.08
Matches are distributed among these distances:
169 6 0.01
170 71 0.06
171 226 0.20
172 356 0.32
173 306 0.28
174 135 0.12
175 10 0.01
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.39
Consensus pattern (170 bp):
TCATGCCTTCGAAAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAT
TGAATTTTTTTTTCATTTTCATTAAAATAGATCATAATTTATGTTTGCATTGGGAAACGTGAAGC
AAAAGCCATCCATTGACAAGAAAAGTTCATTTATAGTCAC
Found at i:2264389 original size:338 final size:335
Alignment explanation
Indices: 2263709--2268684 Score: 2365
Period size: 341 Copynumber: 14.8 Consensus size: 335
2263699 GTGACACATG
* * * * *
2263709 CCTTCGAAACCCTTGTTAGTCTCTTTAAGTA-GTTTTATAGCTTTATAAATGATTTCAAATTGAA
1 CCTTCGAAAGCCTTGTTACTCACTTTAAG-AGGTTTTATAACTTTATAAATGATTTTAAATTGAA
* * ** * * * * ** * * * *
2263773 T-TTTTCTTATTCTTGGTTAGAACAAG-TCGTAATTTGATGTAT-GTTTGGGGAACGTGAAAC-A
65 TCTTTT-TCATTTTTCATTA-AAAAAGATAGTAATTTTATGTTTACATTAGGAAATGTGAAGCGA
* ** * * * ** * **
2263834 AAGCCATCAATTGGTAAGAAAAGTTCATTTTTAGTCACTCGTTCTTGAGAAAGCCTAATTACTTG
128 AAGCCATCCATTGACAAG-AAAGTCCATTTATAGTCACTCATAATT-CGAAAGCCTAA-TACTCA
* * *
2263899 CTTTAAATGATTTTATAATCTTATAAATGATTTTAAGTTG-A-------ATTTTT--TTAAAACA
190 CTTTAAATGGTTTTATAA-CTTATAAATTATTTTAAGTTGAATTTTTTTATTTTTAGTTAAAATA
* ** * * * * *
2263954 GATCATAATTGGATGTTTGCCTCTG-GAAATGTGAAGTGAAAGTCATTCGTTGACAAGAAAATTT
254 GATCATAATTGGATGTTTGCCT-TGAGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTC
**
2264018 CATTTATAGTCACGCATA
318 CATTTATAGTCACTAATA
* * * *
2264036 TCTTCTAAAGCCTTGTTACTCACTTGAAGAGGTTTTAGAACTTTATAAATGATTTTAAATTGAAT
1 CCTTCGAAAGCCTTGTTACTCACTTTAAGAGGTTTTATAACTTTATAAATGATTTTAAATTGAAT
* * *
2264101 GCTTTTTCATTTCTCATTAAAATAGATCGTAATTTTATGTTTACATTAGGAAA-GATGAAGCGAA
66 -CTTTTTCATTTTTCATTAAAAAAGATAGTAATTTTATGTTTACATTAGGAAATG-TGAAGCGAA
* *
2264165 AGCAATCCATTGACAAGAATAGTCCATTTATAGTCACTTATAAGTTCGAAAGCCTTAATACTCAC
129 AGCCATCCATTGACAAGAA-AGTCCATTTATAGTCACTCATAA-TTCGAAAGCC-TAATACTCAC
* * * * ** * * *
2264230 TTTAAGTGGTTTTATAACATTATAAATTATTTAAACTT-CATTTTTTTCATTAATCGCT-AAATG
191 TTTAAATGGTTTTATAAC-TTATAAATTATTTTAAGTTGAATTTTTTT-ATTTTTAGTTAAAATA
** ** ** * *
2264293 GATCATAATTTAATGTTTGTATT-AGAAACAAGAAGCGAAAGCCATCCATTAACAAGAAAAGTCC
254 GATCATAATTGGATGTTTGCCTTGAGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCC
**
2264357 ATTTATAGTCACCCATA
319 ATTTATAGTCACTAATA
* ** * *
2264374 CCTTCAAAAGCCTTGTTACTCACTTTAA-ATGGTTTTATAA-TCACATAAATGATTTTAAGTTAA
1 CCTTCGAAAGCCTTGTTACTCACTTTAAGA-GGTTTTATAACT-TTATAAATGATTTTAAATTGA
* ** * * * * * *
2264437 ATTTGTTTTCATTTTTGGTTAAAACAA-ATTGCAATTATATGTTTACCTTAGAAAATGTGAAGCA
64 ATCT-TTTTCATTTTTCATTAAAA-AAGATAGTAATTTTATGTTTACATTAGGAAATGTGAAGCG
* ** * * *
2264501 AAAGCCATCCATTGACAACAAAGATTGATTTATAGTTACTCATGCATGCGAAAGCCTAATTACTC
127 AAAGCCATCCATTGACAAGAAAG-TCCATTTATAGTCACTCAT-AATTCGAAAGCCTAA-TACTC
* * *
2264566 GCTTTAAATGGTTTTATGATCTTATAAATGATTTTAAGTTGAATTTGTTTTTATTTTTAGTTAAA
189 ACTTTAAATGGTTTTAT-AACTTATAAATTATTTTAAGTTGAA-TT-TTTTTATTTTTAGTTAAA
* * * * * * * *
2264631 ACATATCATAATTGGATGTTTACCTTGGGAAGCGTGAAGTAAAAGCCATCCGTTGACAAGAGAAG
251 ATAGATCATAATTGGATGTTTGCCTTGAGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAG
*
2264696 TCCATTTATAGTCACTAATG
316 TCCATTTATAGTCACTAATA
* * * * * * *
2264716 CCTTTGAAAGCTTTATTGCTCACTTTAAGTGGTTTTATAACTTTATAAATAATTTGAAATTGAAT
1 CCTTCGAAAGCCTTGTTACTCACTTTAAGAGGTTTTATAACTTTATAAATGATTTTAAATTGAAT
* * * * *
2264781 TTTTTTCATTTTTCTTTAAAAAAGATAGTAATTTGATGTTTGCTTTAGGAAATGTGAAGCGAAAG
66 CTTTTTCATTTTTCATTAAAAAAGATAGTAATTTTATGTTTACATTAGGAAATGTGAAGCGAAAG
* * * ** * * *
2264846 CCGTCCACTAACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAATCCTAGTTACTCACTT
131 CCATCCATTGACAAG-AAAGTCCATTTATAGTCACTCAT-AATTCGAAAGCCTA-ATACTCACTT
* *
2264911 TAAATGGTTTTACAATCTTATAAATGT-TTTTAAGTTGAATTATTTTTATTTTTATTTAAAATAG
193 TAAATGGTTTTATAA-CTTATAAAT-TATTTTAAGTTGAATT-TTTTTATTTTTAGTTAAAATAG
* * * * *
2264975 ATCGTAATTGGATGTTTGGCTTGAGAAATGTGATGCAAAAGCTATCCATTGACAAGAAAAGTCCA
255 ATCATAATTGGATGTTTGCCTTGAGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCA
* * *
2265040 TTTATAATAACTAATG
320 TTTATAGTCACTAATA
* * * *
2265056 CCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTCAAATTGAAT
1 CCTTCGAAAGCCTTGTTACTCACTTTAAGAGGTTTTATAACTTTATAAATGATTTTAAATTGAA-
*** * * * * *
2265121 TTCTTTTTCATTTTGGGTTAAAATAA-ATCA-TAATTTGAT-ATTAGC-TTCAAGAAATGTGCAC
65 -TCTTTTTCATTTTTCATTAAAA-AAGAT-AGTAATTTTATGTTTA-CATT-AGGAAATGTGAAG
* *
2265182 CGAAAGCTATCCATTTACAAG--A----A---A-AGT--CT-AT--TT----A---T--TACTCA
125 CGAAAGCCATCCATTGACAAGAAAGTCCATTTATAGTCACTCATAATTCGAAAGCCTAATACTCA
* * * * * *
2265223 CTTTAAGTGGTTTTATAACTTTACAAATGATTTTAAATTGAATTTGTTTTCATTTTTTGCTAAAA
190 CTTTAAATGGTTTTATAAC-TTATAAATTATTTTAAGTTGAATTT-TTTT-ATTTTTAGTTAAAA
* * * * * * * *
2265288 -CGTATTATAATTTGATATTTGCATTGGGAAACATGAAGCAAAAGCCATCTATTGACAAGAAAAG
252 TAG-ATCATAATTGGATGTTTGCCTTGAGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAG
* * *
2265352 CCCATTTATAGTCACTCATG
316 TCCATTTATAGTCACTAATA
* ** * * * * *
2265372 CCTTTGAAAGCCTTGTTACTTGCTTTAAGTGGTTTGATAACTTTATAAATGATTTCAGACTGAAT
1 CCTTCGAAAGCCTTGTTACTCACTTTAAGAGGTTTTATAACTTTATAAATGATTTTAAATTGAAT
* **** * * * * ** ** * *
2265437 TTTTTTCATTTAAGGTTAAAAGAGTTCA-TAATTTGATGTTTGCATCGGGAAACATGATGCAAAA
66 CTTTTTCATTTTTCATTAAAAAAGAT-AGTAATTTTATGTTTACATTAGGAAATGTGAAGCGAAA
* * * ** * **
2265501 GCTATCAATTGACAAGAAAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTTGTCACTCACT
130 GCCATCCATTGACAAG-AAAGTCCATTTATAGTCACTCAT-AATTCGAAAGCCTAAT-ACTCACT
* * * * * * *
2265566 TTAAGTGGTTTTATAACTTCATAAATAAGTTTAAATTGAATTTTTTCA-TTTCA-TT----TTG-
192 TTAAATGGTTTTATAACTT-ATAAATTATTTTAAGTTGAATTTTTTTATTTTTAGTTAAAATAGA
* * * * *
2265624 -C---ATT--A----------G-GAAACATGAAGCGAAAGCCATCTATTGGCAAGAAAAGTTCAT
256 TCATAATTGGATGTTTGCCTTGAGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCAT
* *
2265672 TTATAGTCACTCATT
321 TTATAGTCACTAATA
* ** * *
2265687 CCTTTGAAAGCCTAATTACTCACTTTAA-ATGGTTTTATAA-TCTCATAAATGATTTTAAGTTGA
1 CCTTCGAAAGCCTTGTTACTCACTTTAAGA-GGTTTTATAACT-TTATAAATGATTTTAAATTGA
* * * ** * * ** * *
2265750 ATTTGTTTTGATTTCTGGTTAAAACATATCA-TAATTGGATGTTTGTC-TT-GCGAAACGTGAAG
64 ATCT-TTTTCATTTTTCATTAAAAAAGAT-AGTAATTTTATGTTT-ACATTAG-GAAATGTGAAG
* * * * **
2265812 CGAAAGCCATCCATTAACAAGAAAAGTCCATTTATAGTCACCCA-AGCCTTCGAAAGTCTTGTGA
125 CGAAAGCCATCCATTGACAAG-AAAGTCCATTTATAGTCACTCATA--ATTCGAAAGCCTAAT-A
* * * * * *
2265876 TTCACGTTAAGTGGTTTTATTACTTTATAAATAATTTTTAA-TTAAATTTTTTTCATTTTTCA-T
186 CTCACTTTAAATGGTTTTATAAC-TTATAAATTA-TTTTAAGTTGAATTTTTTT-ATTTTT-AGT
* * * * ** * ** * *
2265939 TAAAATAGGTCGTATTTTGATGTTTGCAATGGGAAACGTGAA-CTGGATGCCATCCATTGAAAAG
247 TAAAATAGATCATAATTGGATGTTTGCCTTGAGAAACGTGAAGC-AAAAGCCATCCATTGACAAG
*
2266003 AAAAGTCCATTTATAGTCATCT-ATG
311 AAAAGTCCATTTATAGTCA-CTAATA
* ** * * * *
2266028 CC-TCTGAAAACCTACTTGCTCACTTTAA-ATGATTTTATAAAC-TTATTAATGATTTTAAGTTG
1 CCTTC-GAAAGCCTTGTTACTCACTTTAAGA-GGTTTTAT-AACTTTATAAATGATTTTAAATTG
* ** * * * **
2266090 AATTGTTTTTCATTTTTGGTTAAAACAA-ATCA-TAATTTGATGTTTCCCTT-GAGAAACATGAA
63 AA-TCTTTTTCATTTTTCATTAAAA-AAGAT-AGTAATTTTATGTTTACATTAG-GAAATGTGAA
** ** * * * ** * **
2266152 GCGAAATTCATCTGTTTATAAGAAAAGTTCATTTATAGTCACTCATGCTTTTGAAAGCCTTGTTA
124 GCGAAAGCCATCCATTGACAAG-AAAGTCCATTTATAGTCACTCAT-AATTCGAAAGCC-TAATA
* * * * * *
2266217 CTCGCTTTAAGTGATTTTATAACCTTATAAATGATTTTAAATTGAATTTATTTTGATTTTTGGTT
186 CTCACTTTAAATGGTTTTATAA-CTTATAAATTATTTTAAGTTGAATTT-TTTT-ATTTTTAGTT
* * *
2266282 AAAATAGATCATAATTGGATGTTTACCTTTG-GAAACATGAAGCGAAAGCCATCCATTGACAAGA
248 AAAATAGATCATAATTGGATGTTTGCC-TTGAGAAACGTGAAGCAAAAGCCATCCATTGACAAGA
** *
2266346 AAAGTTTATTTATAGTCACTAATT
312 AAAGTCCATTTATAGTCACTAATA
* * * * **
2266370 CCTTCAAAAGCCTTGTTACTCTCTTTAAGTGATTTTATAACTTTATAAATGATTTTAAGCTGAAT
1 CCTTCGAAAGCCTTGTTACTCACTTTAAGAGGTTTTATAACTTTATAAATGATTTTAAATTGAAT
* ** * * * * **
2266435 TTTTTTCA-TTTGAAGTTAAAAAAGTTCA-TACTTTGATGTTTGCATTA-GACAATGTGAAGAAA
66 CTTTTTCATTTTTCA-TTAAAAAAGAT-AGTAATTTTATGTTTACATTAGGA-AATGTGAAGCGA
* * * * ** ** *
2266497 AAGCCATCCACTGAGAAGAAAAGTCTATTTATTGTCACTCATGCCTTC-AAAGGCCTTGTTACTG
128 AAGCCATCCATTGACAAG-AAAGTCCATTTATAGTCACTCAT-AATTCGAAA-GCC-TAATACTC
* * * * * *
2266561 GCTTTAAGTGGTTTTATAACTTTATAAATAATTTTGAA-TAGAGTTTTTTTTTCATTTTTCA-TG
189 ACTTTAAATGGTTTTATAAC-TTATAAATTATTTT-AAGTTGA--ATTTTTTT-ATTTTT-AGTT
* * * * * * * ** **
2266624 ACAATAGATCAAAATTTGATGTTTGCATTGGGAAACATGAAGCGAAAGCCATTGATTGATGA-AA
248 AAAATAGATCATAATTGGATGTTTGCCTTGAGAAACGTGAAGCAAAAGCCATCCATTGACAAGAA
* *
2266688 AAGTCCATTTATAGTCACTCATG
313 AAGTCCATTTATAGTCACTAATA
* * * * * *
2266711 CCTTCGAAAGCCTAGTTACTCACTTTAA-ATGCTTTTACAA-TCTCATAAATGATTTTCAGTTGA
1 CCTTCGAAAGCCTTGTTACTCACTTTAAGA-GGTTTTATAACT-TTATAAATGATTTTAAATTGA
* * ** * *
2266774 ATTTGTTTTCATTTTTGATTAAAACAA-ATCA-TAATTAGATGTTTGCCA-T-GGAAAACGTGAA
64 ATCT-TTTTCATTTTTCATTAAAA-AAGAT-AGTAATTTTATGTTT-ACATTAGG-AAATGTGAA
* * * * *** * *
2266835 GTGAAAGCCATCCATTGATAAGAAAAGTCAATTTATAGTCACCCACGCTTTCAAAAGCCTTATTA
124 GCGAAAGCCATCCATTGACAAG-AAAGTCCATTTATAGTCACTCA-TAATTCGAAAGCC-TAATA
* * * * * *
2266900 CTCACTTTAAGTGATTTTATAACTTTATAAATGATATGAAATTGAATTTATTTTTCATTTTTCA-
186 CTCACTTTAAATGGTTTTATAAC-TTATAAATTATTTTAAGTTGAA-TT-TTTTT-ATTTTT-AG
* * * ** ** * *
2266964 TTAAAATAGGTCATAATTTGATGTTGGAATT-AGAAAACGTGAAGGGAACGCCATTCATTGACAA
246 TTAAAATAGATCATAATTGGATGTTTGCCTTGAG-AAACGTGAAGCAAAAGCCATCCATTGACAA
*
2267028 GAAAAGTCCATTTATAGTCACTCATA
310 GAAAAGTCCATTTATAGTCACTAATA
* * * * * *
2267054 CCTTCGAAAGTCTAGTTACTCACTTTAA-ATGATTTTATAA-TCTCATGAATGATTTTAAGTTGA
1 CCTTCGAAAGCCTTGTTACTCACTTTAAGA-GGTTTTATAACT-TTATAAATGATTTTAAATTGA
* ** * * ** * * * * *
2267117 ATTTGTTTTCATTTTTGGTTCAAACAGATCA-TAATTGGATGTTTGCCTTAGAAAAGGTGAAGCA
64 ATCT-TTTTCATTTTTCATTAAAAAAGAT-AGTAATTTTATGTTTACATTAGGAAATGTGAAGCG
* * * * * ** * * * *
2267181 AAAGCCATCTATTGACAAGAAAATTTCATTTATCGTAACTCATGTGTTTGAGAGTCTTATTACT-
127 AAAGCCATCCATTGACAAG-AAAGTCCATTTATAGTCACTCAT-AATTCGAAAG-CCTAATACTC
* * * * **
2267245 AGCTTTAAGTGGTTTTAAAACTTTATAAATTATTTTAAATTGAATTTGCTTTCAAATTTAGTTAA
189 A-CTTTAAATGGTTTTATAAC-TTATAAATTATTTTAAGTTGAATTT--TTTTATTTTTAGTTAA
* * * * ** * **
2267310 AATATATCATAATTTGATGTTTGCATT-AGAAATGTGAAGTGAAAGTCATCTGTTGACAAGAAAA
250 AATAGATCATAATTGGATGTTTGCCTTGAGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAA
* * * *
2267374 TTACATTTATAGTTA-TGAATT
315 GTCCATTTATAGTCACT-AATA
** * * * * * * *
2267395 CC-TCTGAAAGCCTTACTACTCATTTTGAGTGGTTTTATAGCTTTATAAATAATTTAAAATTGAT
1 CCTTC-GAAAGCCTTGTTACTCACTTTAAGAGGTTTTATAACTTTATAAATGATTTTAAATTGAA
* * ** * * * *** * ** * *
2267459 TTTTTTTAATTTTTGGTTAAAATAGATCGTAATTTGATGTTTGTGTAAGGAAACCTAAAGCAAAA
65 TCTTTTTCATTTTTCATTAAAAAAGATAGTAATTTTATGTTTACATTAGGAAATGTGAAGCGAAA
* * * ** * * * *
2267524 ACTATCCATTGACAAGAAAAGTCCATTTACAGTCACTCATGCCTTTGAAAGCTTAATTACTTAGT
130 GCCATCCATTGACAAG-AAAGTCCATTTATAGTCACTCAT-AATTCGAAAGCCTAA-TACTCACT
* * * * * * * *
2267589 TTAAATAGTTTTATAATCTCATGAATCATTTGAAGTTCAATTTGTTTTCATTTTTTGTTAAAACA
192 TTAAATGGTTTTATAA-CTTATAAATTATTTTAAGTTGAATTT-TTTT-ATTTTTAGTTAAAATA
* * * * * * * * * *
2267654 GATCATAATTAGATATTTGTCTTGGGAAACATGAAGAAAAAGCCATCGATTGACAAGTAAACTCT
254 GATCATAATTGGATGTTTGCCTTGAGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCC
* ** *
2267719 ATTTATAGCCACCCATG
319 ATTTATAGTCACTAATA
** * * * * * *
2267736 CCTTTAAAAGCCTTGTTACTCTCTTTAA-ATGGTTGTATAA-TCCTGTAAATGATTTTTAGTTGA
1 CCTTCGAAAGCCTTGTTACTCACTTTAAGA-GGTTTTATAACT-TTATAAATGATTTTAAATTGA
* ** *** * * * *
2267799 ATTTTTTTCATTTTTGGTTAAAACAA-ATCA-TAATCAGATGTTTGCCTT-GTGAAACGTGAAGT
64 ATCTTTTTCATTTTTCATTAAAA-AAGAT-AGTAATTTTATGTTTACATTAG-GAAATGTGAAGC
** * * * ** **
2267861 GAAAGCCATTGATTGACAAGAAAAGTCCATTTTTATTCACTCGTGCTTGCGATTGCCTAATTACT
126 GAAAGCCATCCATTGACAAG-AAAGTCCATTTATAGTCACTCATAATT-CGAAAGCCTAA-TACT
* * * *
2267926 CACTTTAAATAGTTTTATAATCTTATAAATGATTTTAAGTCG-ATTTTTTTATTTTTGGTTAAAA
188 CACTTTAAATGGTTTTATAA-CTTATAAATTATTTTAAGTTGAATTTTTTTATTTTTAGTTAAAA
* * * * * * *
2267990 CAGATCATAATTGGATGTTTGTCTCGAGAAATGTGAAGCGAAAGCCATCTATTGACAAGAAAATT
252 TAGATCATAATTGGATGTTTGCCTTGAGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGT
* * * *
2268055 TCATTTATAGTAACTTATG
317 CCATTTATAGTCACTAATA
* * * * ** * *
2268074 CATTC-AAGCGCCTTATTGCTGGCTTTAA-ATGGTTTTAAAACTTTACAAATGATTTTAAATTGA
1 CCTTCGAA-AGCCTTGTTACTCACTTTAAGA-GGTTTTATAACTTTATAAATGATTTTAAATTGA
* * * * * * * *
2268137 ATTTTTTTTCATTTTT-AGTTAAAATATATCA-TAATTTGATGCTTGCATT-GAGAAACGTGAGG
64 A-TCTTTTTCATTTTTCA-TTAAAAAAGAT-AGTAATTTTATGTTTACATTAG-GAAATGTGAAG
* ** * * ** * * **
2268199 CAAAAGCCATCTGTTGACAAGAAAATTACATTTATAGTCA-TGCATGCCTTCAAAACCCTTGTTA
125 CGAAAGCCATCCATTGACAAG-AAAGTCCATTTATAGTCACT-CAT-AATTCGAAAGCC-TAATA
* * * *
2268263 CTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTTTCTCATTTATT-GT
186 CTCACTTTAAATGGTTTTATAAC-TTATAAATTATTTTAAGTTGAATTTTTT-T-ATTT-TTAGT
** * * * ** * *
2268327 TAAAACGGATCATAATTTGATGTCTGCATTG-GAAACACGAAGCGAAAGCCATCCATTGACAACA
247 TAAAATAGATCATAATTGGATGTTTGCCTTGAGAAACGTGAAGCAAAAGCCATCCATTGACAAGA
** *
2268391 AAAGTCCATTTATAGTCACCCATG
312 AAAGTCCATTTATAGTCACTAATA
* * * ** * * *
2268415 CCTTCAAAAGCCTTCTCT-TTTGCTTTAAGTGGCTTTATAACTTTATAAATAATTTTAAATTGAA
1 CCTTCGAAAGCCTTGT-TACTCACTTTAAGAGGTTTTATAACTTTATAAATGATTTTAAATTGAA
* * * * * * * **
2268479 TTTTTTTTCATTTCTCATTCAAATAGA-ATGTAATTTGATGTTTGCATT-GAAAACATGAAGCGA
65 -TCTTTTTCATTTTTCATTAAAAAAGATA-GTAATTTTATGTTTACATTAGGAAATGTGAAGCGA
* * * *
2268542 AAGCCATTCATTGACAAGAAAAGTCCATTTATAGTCACTCATACCTTCGAAAGCCTAGTTACTTA
128 AAGCCATCCATTGACAAG-AAAGTCCATTTATAGTCACTCATA-ATTCGAAAGCCTA-ATACTCA
* * * *
2268607 CTTTAAATAGTTTTAT-ACTCTCATTAATGATTTTAAGTTGAATTTGTTTTCATTTTTGGTTAAA
190 CTTTAAATGGTTTTATAACT-T-ATAAATTATTTTAAGTTGAATTT-TTTT-ATTTTTAGTTAAA
2268671 ATAGATCATAATTG
251 ATAGATCATAATTG
2268685 TATTGGCTCC
Statistics
Matches: 3677, Mismatches: 751, Indels: 429
0.76 0.15 0.09
Matches are distributed among these distances:
313 1 0.00
314 59 0.02
315 156 0.04
316 271 0.07
317 10 0.00
318 4 0.00
319 3 0.00
321 2 0.00
323 2 0.00
324 1 0.00
325 6 0.00
326 2 0.00
327 59 0.02
328 32 0.01
329 20 0.01
330 77 0.02
331 10 0.00
332 1 0.00
334 1 0.00
335 2 0.00
337 11 0.00
338 361 0.10
339 173 0.05
340 483 0.13
341 1071 0.29
342 615 0.17
343 242 0.07
344 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (335 bp):
CCTTCGAAAGCCTTGTTACTCACTTTAAGAGGTTTTATAACTTTATAAATGATTTTAAATTGAAT
CTTTTTCATTTTTCATTAAAAAAGATAGTAATTTTATGTTTACATTAGGAAATGTGAAGCGAAAG
CCATCCATTGACAAGAAAGTCCATTTATAGTCACTCATAATTCGAAAGCCTAATACTCACTTTAA
ATGGTTTTATAACTTATAAATTATTTTAAGTTGAATTTTTTTATTTTTAGTTAAAATAGATCATA
ATTGGATGTTTGCCTTGAGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATA
GTCACTAATA
Found at i:2264880 original size:170 final size:170
Alignment explanation
Indices: 2263946--2265216 Score: 1059
Period size: 171 Copynumber: 7.5 Consensus size: 170
2263936 TTGAATTTTT
* * * * * * *
2263946 TTAAAACAGATCATAATTGGATGTTTGCCTCT-GGAAATGTGAAGTGAAAGTCATTCGTTGACAA
1 TTAAAAAAGATCATAATTTGATGTTTG-CTTTAGGAAATGTGAAGCGAAAGCCATCCATTGACAA
* * * ** * * * *
2264010 GAAAATTTCATTTATAGTCACGCATATCTTCT-AAAGCCTTGTTACTCACTTGAAGAGGTTTTAG
65 GAAAAGTCCATTTATAGTCACTCATGCCTT-TGAAAGCCTTATTACTCACTTTAAGTGGTTTTAT
* * *
2264074 AACTTTATAAATGATTTTAAATTGAATGCTTTTTCATTTCTCA
129 AACTTTATAAATGATTTTAAATTGAAT-TTTTTTCATTTTTCG
* * * * * *
2264117 TTAAAATAGATCGTAATTTTATGTTTACATTAGGAAA-GATGAAGCGAAAGCAATCCATTGACAA
1 TTAAAAAAGATCATAATTTGATGTTTGCTTTAGGAAATG-TGAAGCGAAAGCCATCCATTGACAA
* * *** * *
2264181 GAATAGTCCATTTATAGTCACTTATAAGTTCGAAAGCCTTAATACTCACTTTAAGTGGTTTTATA
65 GAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTATTACTCACTTTAAGTGGTTTTATA
* * * **
2264246 ACATTATAAATTA-TTTAAACTT-CATTTTTTTCATTAATCG
130 ACTTTATAAATGATTTTAAA-TTGAATTTTTTTCATTTTTCG
* ** * *** *
2264286 CT-AAATGGATCATAATTTAATGTTTG-TATTA-GAAACAAGAAGCGAAAGCCATCCATTAACAA
1 TTAAAAAAGATCATAATTTGATGTTTGCT-TTAGGAAATGTGAAGCGAAAGCCATCCATTGACAA
* * ** * *
2264348 GAAAAGTCCATTTATAGTCACCCATACCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATA
65 GAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTATTACTCACTTTAAGTGGTTTTATA
** * * *
2264413 A-TCACATAAATGATTTTAAGTTAAATTTGTTTTCATTTTTGG
130 ACT-TTATAAATGATTTTAAATTGAATTT-TTTTCATTTTTCG
*** * * * *
2264455 TTAAAACAA-ATTGCAATTAT-ATGTTTACCTTAGAAAATGTGAAGCAAAAGCCATCCATTGACA
1 TTAAAA-AAGATCATAATT-TGATGTTTGCTTTAGGAAATGTGAAGCGAAAGCCATCCATTGACA
* ** * * ** * * *
2264518 A-CAAAGATTGATTTATAGTTACTCATGCATGCGAAAGCCTAATTACTCGCTTTAAATGGTTTTA
64 AGAAAAG-TCCATTTATAGTCACTCATGCCTTTGAAAGCCTTATTACTCACTTTAAGTGGTTTTA
* * * *
2264582 TGA-TCTTATAAATGATTTTAAGTTGAATTTGTTTTTATTTTTAG
128 TAACT-TTATAAATGATTTTAAATTGAATTT-TTTTCATTTTTCG
* * * * * * ** ** *
2264626 TTAAAACATATCATAATTGGATGTTTACCTTGGGAAGCGTGAAGTAAAAGCCATCCGTTGACAAG
1 TTAAAAAAGATCATAATTTGATGTTTGCTTTAGGAAATGTGAAGCGAAAGCCATCCATTGACAAG
* * * *
2264691 AGAAGTCCATTTATAGTCACTAATGCCTTTGAAAGCTTTATTGCTCACTTTAAGTGGTTTTATAA
66 AAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTATTACTCACTTTAAGTGGTTTTATAA
* * *
2264756 CTTTATAAATAATTTGAAATTGAATTTTTTTCATTTTTCT
131 CTTTATAAATGATTTTAAATTGAATTTTTTTCATTTTTCG
* * *
2264796 TTAAAAAAGAT-AGTAATTTGATGTTTGCTTTAGGAAATGTGAAGCGAAAGCCGTCCACTAACAA
1 TTAAAAAAGATCA-TAATTTGATGTTTGCTTTAGGAAATGTGAAGCGAAAGCCATCCATTGACAA
* * *
2264860 GAAAAGTCCATTTATAGTCACTCATGCCTTTGAAATCC-TAGTTACTCACTTTAAATGGTTTTAC
65 GAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTA-TTACTCACTTTAAGTGGTTTTAT
* * **
2264924 AA-TCTTATAAATGTTTTTAAGTTGAATTATTTTT-ATTTTTAT
129 AACT-TTATAAATGATTTTAAATTGAATT-TTTTTCATTTTTCG
* * * * * * *
2264966 TTAAAATAGATCGTAATTGGATGTTTGGCTTGA-GAAATGTGATGCAAAAGCTATCCATTGACAA
1 TTAAAAAAGATCATAATTTGATGTTT-GCTTTAGGAAATGTGAAGCGAAAGCCATCCATTGACAA
* * * * *
2265030 GAAAAGTCCATTTATAATAACTAATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATA
65 GAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTATTACTCACTTTAAGTGGTTTTATA
* **
2265095 ACTTTATAAATGATTTCAAATTGAATTTCTTTTTCATTTTGGG
130 ACTTTATAAATGATTTTAAATTGAA-TT-TTTTTCATTTTTCG
* * * * * * * *
2265138 TTAAAATAA-ATCATAATTTGATATTAGCTTCAAGAAATGTGCACCGAAAGCTATCCATTTACAA
1 TTAAAA-AAGATCATAATTTGATGTTTGCTTTAGGAAATGTGAAGCGAAAGCCATCCATTGACAA
*
2265202 GAAAAGTCTATTTAT
65 GAAAAGTCCATTTAT
2265217 TACTCACTTT
Statistics
Matches: 881, Mismatches: 187, Indels: 63
0.78 0.17 0.06
Matches are distributed among these distances:
167 92 0.10
168 32 0.04
169 27 0.03
170 297 0.34
171 364 0.41
172 68 0.08
173 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.38
Consensus pattern (170 bp):
TTAAAAAAGATCATAATTTGATGTTTGCTTTAGGAAATGTGAAGCGAAAGCCATCCATTGACAAG
AAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTATTACTCACTTTAAGTGGTTTTATAA
CTTTATAAATGATTTTAAATTGAATTTTTTTCATTTTTCG
Found at i:2265360 original size:144 final size:145
Alignment explanation
Indices: 2265071--2265360 Score: 341
Period size: 144 Copynumber: 2.0 Consensus size: 145
2265061 GAAAGCCTTG
* * *
2265071 TTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTCAAATTGAATTTCTTTTTCATTTTG
1 TTACTCACTTTAAGTGGTTTTATAACTTTACAAATGATTTCAAATTGAATTTCGTTTTCATTTTG
* * ** * * * *
2265136 GGTTAAAATAAATCATAATTTGATATTAGCTTCAAGAAATGTGCACCGAAAGCTATCCATTTACA
66 GGCTAAAACAAATCATAATTTGATATTAGCTTCAAGAAACATGAACCAAAAGCCATCCATTGACA
* *
2265201 AGAAAAGTCTATTTA
131 AGAAAAGCCCATTTA
* *
2265216 TTACTCACTTTAAGTGGTTTTATAACTTTACAAATGATTTTAAATTGAATTT-GTTTTCATTTTT
1 TTACTCACTTTAAGTGGTTTTATAACTTTACAAATGATTTCAAATTGAATTTCGTTTTCATTTTG
* ** * * ** * *
2265280 TGCTAAAACGTATTATAATTTGATATTTGCATT-GGGAAACATGAAGCAAAAGCCATCTATTGAC
66 GGCTAAAACAAATCATAATTTGATATTAGC-TTCAAGAAACATGAACCAAAAGCCATCCATTGAC
2265344 AAGAAAAGCCCATTTA
130 AAGAAAAGCCCATTTA
2265360 T
1 T
2265361 AGTCACTCAT
Statistics
Matches: 120, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
144 69 0.57
145 51 0.43
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (145 bp):
TTACTCACTTTAAGTGGTTTTATAACTTTACAAATGATTTCAAATTGAATTTCGTTTTCATTTTG
GGCTAAAACAAATCATAATTTGATATTAGCTTCAAGAAACATGAACCAAAAGCCATCCATTGACA
AGAAAAGCCCATTTA
Found at i:2265514 original size:170 final size:169
Alignment explanation
Indices: 2265218--2265616 Score: 525
Period size: 170 Copynumber: 2.3 Consensus size: 169
2265208 TCTATTTATT
* ***
2265218 ACTCACTTTAAGTGGTTTTATAACTTTACAAATGATTTTAAATTGAATTTGTTTTCATTTTTTGC
1 ACTCACTTTAAGTGGTTTTATAACTTTATAAATGA-TTTAAATTGAATTT-TTTTCATTTAAGGC
* *
2265283 TAAAACGTATTATAATTTGATATTTGCATTGGGAAACATGAAGCAAAAGCCATCTATTGACAAGA
64 TAAAACGTATTATAATTTGATATTTGCATCGGGAAACATGAAGCAAAAGCCATCAATTGACAAGA
* ** *
2265348 AAAGCCCATTTATAGTCACTCATGCCTTTGAAAGCCTTGTT
129 AAAGCCCATTTATAGTCACCCATGCCTTCAAAAGCCTTGTC
** * * * *
2265389 ACTTGCTTTAAGTGGTTTGATAACTTTATAAATGATTTCAGACTGAATTTTTTTCATTTAAGGTT
1 ACTCACTTTAAGTGGTTTTATAACTTTATAAATGATTT-AAATTGAATTTTTTTCATTTAAGGCT
* * *
2265454 AAAA-G-AGTTCATAATTTGATGTTTGCATCGGGAAACATGATGCAAAAGCTATCAATTGACAAG
65 AAAACGTA-TT-ATAATTTGATATTTGCATCGGGAAACATGAAGCAAAAGCCATCAATTGACAAG
*
2265517 AAAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTTGTC
128 AAAAGCCCATTTATAGTCACCCATGCCTTCAAAAGCCTTGTC
* *
2265559 ACTCACTTTAAGTGGTTTTATAACTTCATAAATAAGTTTAAATTGAA-TTTTTTCATTT
1 ACTCACTTTAAGTGGTTTTATAACTTTATAAATGA-TTTAAATTGAATTTTTTTCATTT
2265617 CATTTTGCAT
Statistics
Matches: 197, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
168 1 0.01
169 14 0.07
170 139 0.71
171 43 0.22
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (169 bp):
ACTCACTTTAAGTGGTTTTATAACTTTATAAATGATTTAAATTGAATTTTTTTCATTTAAGGCTA
AAACGTATTATAATTTGATATTTGCATCGGGAAACATGAAGCAAAAGCCATCAATTGACAAGAAA
AGCCCATTTATAGTCACCCATGCCTTCAAAAGCCTTGTC
Found at i:2265744 original size:145 final size:145
Alignment explanation
Indices: 2265475--2265753 Score: 371
Period size: 145 Copynumber: 1.9 Consensus size: 145
2265465 TAATTTGATG
* * *
2265475 TTTGCATCGGGAAACATGATGCAAAAGCTATCAATTGACAAGAAAAGTCCATTTATAGTCACCCA
1 TTTGCATCAGGAAACATGAAGCAAAAGCCATCAATTGACAAGAAAAGTCCATTTATAGTCACCCA
** *
2265540 TGCCTTCAAAAGCCTTGTCACTCACTTTAAGTGGTTTTATAACTTCATAAATAAGTTTAAATTGA
66 TGCCTTCAAAAGCCTAATCACTCACTTTAAATGGTTTTATAACTTCATAAATAAGTTTAAATTGA
2265605 ATTTTTTCATTTCAT
131 ATTTTTTCATTTCAT
* * * * * *
2265620 TTTGCATTAGGAAACATGAAGCGAAAGCCATCTATTGGCAAGAAAAGTTCATTTATAGTCACTCA
1 TTTGCATCAGGAAACATGAAGCAAAAGCCATCAATTGACAAGAAAAGTCCATTTATAGTCACCCA
* ** * * * *
2265685 TTCCTTTGAAAGCCTAATTACTCACTTTAAATGGTTTTATAA-TCTCATAAATGATTTTAAGTTG
66 TGCCTTCAAAAGCCTAATCACTCACTTTAAATGGTTTTATAACT-TCATAAATAAGTTTAAATTG
2265749 AATTT
130 AATTT
2265754 GTTTTGATTT
Statistics
Matches: 114, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
144 1 0.01
145 113 0.99
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (145 bp):
TTTGCATCAGGAAACATGAAGCAAAAGCCATCAATTGACAAGAAAAGTCCATTTATAGTCACCCA
TGCCTTCAAAAGCCTAATCACTCACTTTAAATGGTTTTATAACTTCATAAATAAGTTTAAATTGA
ATTTTTTCATTTCAT
Found at i:2266442 original size:341 final size:340
Alignment explanation
Indices: 2265620--2268683 Score: 2610
Period size: 341 Copynumber: 9.0 Consensus size: 340
2265610 TTCATTTCAT
* * * * *
2265620 TTTGCATTAGGAAACATGAAGCGAAAGCCATCTATTGGCAAGAAAAGTTCATTTATAGTCACTCA
1 TTTGCCTTGGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* ** ** *
2265685 TTCCTTTGAAAGCCTAATTACTCACTTTAAATGGTTTTATAA-TCTCATAAATGATTTTAAGTTG
66 TGCCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATAACT-TTATAAATGATTTTAAGTTG
* * * * * *
2265749 AATTTGTTTTGATTTCTGGTTAAAACATATCATAATTGGATGTTTGTCTTGCGAAACGTGAAGCG
130 AATTT-TTTTCATTTTTGGTTAAAACAAATCATAATTTGATGTTTGCCTTGAGAAACGTGAAGCG
* * * * * * * *
2265814 AAAGCCATCCATTAACAAGAAAAGTCCATTTATAGTCACCCAAGCCTTCGAAAGTCTTGTGATTC
194 AAAGCCATCTATTGACAAGAAAAGTTCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTC
* * * * * * * *
2265879 ACGTTAAGTGGTTTTATTACTTTATAAATAATTTTTAATTAAATTTTTTTCATTTTTCATTAAAA
259 GCTTTAAGTGATTTTATAACTTTATAAATGATTTTAAATTGAATTTTTTTCATTTTTCGTTAAAA
* * *
2265944 TAGGTCGTATTTTGATG
324 TAGATCATAATTTGATG
** * * * *
2265961 TTTGCAATGGGAAACGTGAA-CTGGATGCCATCCATTGAAAAGAAAAGTCCATTTATAGTCA-TC
1 TTTGCCTTGGGAAACATGAAGC-GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* ** * * *
2266024 TATGCCTCTGAAAA-CCTACTTGCTCACTTTAAATGATTTTATAAAC-TTATTAATGATTTTAAG
65 -ATGCCT-TCAAAAGCCTTGTTACTCACTTTAAATGGTTTTAT-AACTTTATAAATGATTTTAAG
* *
2266087 TTGAATTGTTTTTCATTTTTGGTTAAAACAAATCATAATTTGATGTTTCCCTTGAGAAACATGAA
127 TTGAATT-TTTTTCATTTTTGGTTAAAACAAATCATAATTTGATGTTTGCCTTGAGAAACGTGAA
** * * * * *
2266152 GCGAAATTCATCTGTTTATAAGAAAAGTTCATTTATAGTCACTCATGCTTTTGAAAGCCTTGTTA
191 GCGAAAGCCATCTATTGACAAGAAAAGTTCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTA
* * *
2266217 CTCGCTTTAAGTGATTTTATAACCTTATAAATGATTTTAAATTGAATTTATTTTGATTTTTGGTT
256 CTCGCTTTAAGTGATTTTATAACTTTATAAATGATTTTAAATTGAATTT-TTTTCATTTTTCGTT
*
2266282 AAAATAGATCATAATTGGATG
320 AAAATAGATCATAATTTGATG
* * ** *
2266303 TTTACCTTTGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTTTATTTATAGTCACTAA
1 TTTGCCTTGGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * *
2266368 TTCCTTCAAAAGCCTTGTTACTCTCTTTAAGTGATTTTATAACTTTATAAATGATTTTAAGCTGA
66 TGCCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAGTTGA
*** * * * * **
2266433 ATTTTTTTCATTTGAAGTTAAAA-AAGTTCATACTTTGATGTTTGCATT-AGACAATGTGAAGAA
131 ATTTTTTTCATTTTTGGTTAAAACAA-ATCATAATTTGATGTTTGCCTTGAGA-AACGTGAAGCG
* * * *
2266496 AAAGCCATCCACTGAGAAGAAAAG-TCTATTTATTGTCACTCATGCCTTC-AAAGGCCTTGTTAC
194 AAAGCCATCTATTGACAAGAAAAGTTC-ATTTATAGTCACTCATGCCTTCGAAA-GCCTTGTTAC
* * * * * * * *
2266559 TGGCTTTAAGTGGTTTTATAACTTTATAAATAATTTTGAATAGAGTTTTTTTTTCATTTTTCATG
257 TCGCTTTAAGTGATTTTATAACTTTATAAATGATTTTAAATTGA--ATTTTTTTCATTTTTCGTT
* *
2266624 ACAATAGATCAAAATTTGATG
320 AAAATAGATCATAATTTGATG
* ** **
2266645 TTTGCATTGGGAAACATGAAGCGAAAGCCATTGATTGATGA-AAAAGTCCATTTATAGTCACTCA
1 TTTGCCTTGGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * *
2266709 TGCCTTCGAAAGCCTAGTTACTCACTTTAAATGCTTTTACAA-TCTCATAAATGATTTTCAGTTG
66 TGCCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATAACT-TTATAAATGATTTTAAGTTG
* * * *
2266773 AATTTGTTTTCATTTTTGATTAAAACAAATCATAATTAGATGTTTGCCATG-GAAAACGTGAAGT
130 AATTT-TTTTCATTTTTGGTTAAAACAAATCATAATTTGATGTTTGCCTTGAG-AAACGTGAAGC
* * * * * * *
2266837 GAAAGCCATCCATTGATAAGAAAAG-TCAATTTATAGTCACCCACGCTTTCAAAAGCCTTATTAC
193 GAAAGCCATCTATTGACAAGAAAAGTTC-ATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTAC
* * * *
2266901 TCACTTTAAGTGATTTTATAACTTTATAAATGATATGAAATTGAATTTATTTTTCATTTTTCATT
257 TCGCTTTAAGTGATTTTATAACTTTATAAATGATTTTAAATTGAA-TT-TTTTTCATTTTTCGTT
*
2266966 AAAATAGGTCATAATTTGATG
320 AAAATAGATCATAATTTGATG
* ** * * * * * *
2266987 TTGGAATTAGAAAACGTGAAGGGAACGCCATTCATTGACAAGAAAAGTCCATTTATAGTCACTCA
1 TTTGCCTTGGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * * *
2267052 TACCTTCGAAAGTCTAGTTACTCACTTTAAATGATTTTATAA-TCTCATGAATGATTTTAAGTTG
66 TGCCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATAACT-TTATAAATGATTTTAAGTTG
* * * *
2267116 AATTTGTTTTCATTTTTGGTTCAAACAGATCATAATTGGATGTTTGCCTT-AGAAAAGGTGAAGC
130 AATTT-TTTTCATTTTTGGTTAAAACAAATCATAATTTGATGTTTGCCTTGAG-AAACGTGAAGC
* * * * ** * * * *
2267180 AAAAGCCATCTATTGACAAGAAAATTTCATTTATCGTAACTCATGTGTTTGAGAGTCTTATTACT
193 GAAAGCCATCTATTGACAAGAAAAGTTCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACT
* * * * * ** *
2267245 AGCTTTAAGTGGTTTTAAAACTTTATAAATTATTTTAAATTGAATTTGCTTTCAAATTTAGTTAA
258 CGCTTTAAGTGATTTTATAACTTTATAAATGATTTTAAATTGAATTT-TTTTCATTTTTCGTTAA
*
2267310 AATATATCATAATTTGATG
322 AATAGATCATAATTTGATG
* * ** * * ** * * * *
2267329 TTTGCATT-AGAAATGTGAAGTGAAAGTCATCTGTTGACAAGAAAATTACATTTATAGTTA-TGA
1 TTTGCCTTGGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT-C
* * ** * * * * * * *
2267392 ATTCC-TCTGAAAGCCTTACTACTCATTTTGAGTGGTTTTATAGCTTTATAAATAATTTAAAATT
65 ATGCCTTC-AAAAGCCTTGTTACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAGTT
* * * * * * * *
2267456 GATTTTTTTTAATTTTTGGTTAAAATAGATCGTAATTTGATGTTTG--TGTAAGGAAACCTAAAG
129 GAATTTTTTTCATTTTTGGTTAAAACAAATCATAATTTGATGTTTGCCT-TGA-GAAACGTGAAG
* * * * * * * *
2267519 CAAAAACTATCCATTGACAAGAAAAGTCCATTTACAGTCACTCATGCCTTTGAAAG-CTTAATTA
192 CGAAAGCCATCTATTGACAAGAAAAGTTCATTTATAGTCACTCATGCCTTCGAAAGCCTT-GTTA
* * * * * * * * *
2267583 CTTAG-TTTAAAT-AGTTTTATAA-TCTCATGAATCATTTGAAGTTCAATTTGTTTTCATTTTTT
256 C-TCGCTTTAAGTGA-TTTTATAACT-TTATAAATGATTTTAAATTGAATTT-TTTTCATTTTTC
* * *
2267645 GTTAAAACAGATCATAATTAGATA
317 GTTAAAATAGATCATAATTTGATG
* ** * * * * * *
2267669 TTTGTCTTGGGAAACATGAAGAAAAAGCCATCGATTGACAAGTAAACTCTATTTATAGCCACCCA
1 TTTGCCTTGGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * *
2267734 TGCCTTTAAAAGCCTTGTTACTCTCTTTAAATGGTTGTATAA-TCCTGTAAATGATTTTTAGTTG
66 TGCCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATAACT-TTATAAATGATTTTAAGTTG
** * *
2267798 AATTTTTTTCATTTTTGGTTAAAACAAATCATAATCAGATGTTTGCCTTGTGAAACGTGAAGTGA
130 AATTTTTTTCATTTTTGGTTAAAACAAATCATAATTTGATGTTTGCCTTGAGAAACGTGAAGCGA
* * * * ** **
2267863 AAGCCAT-TGATTGACAAGAAAAGTCCATTTTTATTCACTCGTG-CTTGCGATTGCCTAATTACT
195 AAGCCATCT-ATTGACAAGAAAAGTTCATTTATAGTCACTCATGCCTT-CGAAAGCCTTGTTACT
* * * * *
2267926 CACTTTAAAT-AGTTTTATAA-TCTTATAAATGATTTTAAGTCG-ATTTTTTT-ATTTTTGGTTA
258 CGCTTTAAGTGA-TTTTATAACT-TTATAAATGATTTTAAATTGAATTTTTTTCATTTTTCGTTA
* *
2267987 AAACAGATCATAATTGGATG
321 AAATAGATCATAATTTGATG
* * * ** * * * * *
2268007 TTTGTCTCGAGAAATGTGAAGCGAAAGCCATCTATTGACAAGAAAATTTCATTTATAGTAACTTA
1 TTTGCCTTGGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* ** * * ** * * *
2268072 TGCATTCAAGCGCCTTATTGCTGGCTTTAAATGGTTTTAAAACTTTACAAATGATTTTAAATTGA
66 TGCCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAGTTGA
* * * * * * *
2268137 ATTTTTTTTCATTTTTAGTTAAAATATATCATAATTTGATGCTTGCATTGAGAAACGTGAGGCAA
131 A-TTTTTTTCATTTTTGGTTAAAACAAATCATAATTTGATGTTTGCCTTGAGAAACGTGAAGCGA
* * *
2268202 AAGCCATCTGTTGACAAGAAAA-TTACATTTATAGTCA-TGCATGCCTTCAAAACCCTTGTTACT
195 AAGCCATCTATTGACAAGAAAAGTT-CATTTATAGTCACT-CATGCCTTCGAAAGCCTTGTTACT
*
2268265 CGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTTTCTCATTTATT-GTTA
258 CGCTTTAAGTGATTTTATAACTTTATAAATGATTTTAAATTGAATTTTTT-TCATTT-TTCGTTA
**
2268329 AAACGGATCATAATTTGATG
321 AAATAGATCATAATTTGATG
* * * * *
2268349 TCTGCATT-GGAAACACGAAGCGAAAGCCATCCATTGACAACAAAAGTCCATTTATAGTCACCCA
1 TTTGCCTTGGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * ** * * * *
2268413 TGCCTTCAAAAGCCTTCTCT-TTTGCTTTAAGTGGCTTTATAACTTTATAAATAATTTTAAATTG
66 TGCCTTCAAAAGCCTTGT-TACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAGTTG
* ** * * * * *
2268477 AATTTTTTTTCATTTCTCATTCAAATAGAAT-GTAATTTGATGTTTGCATTGA-AAACATGAAGC
130 AA-TTTTTTTCATTTTTGGTTAAAACA-AATCATAATTTGATGTTTGCCTTGAGAAACGTGAAGC
* * *
2268540 GAAAGCCAT-TCATTGACAAGAAAAGTCCATTTATAGTCACTCATACCTTCGAAAGCCTAGTTAC
193 GAAAGCCATCT-ATTGACAAGAAAAGTTCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTAC
** * * * * *
2268604 TTACTTTAAAT-AGTTTTAT-ACTCTCATTAATGATTTTAAGTTGAATTTGTTTTCATTTTTGGT
257 TCGCTTTAAGTGA-TTTTATAACT-TTATAAATGATTTTAAATTGAATTT-TTTTCATTTTTCGT
2268667 TAAAATAGATCATAATT
319 TAAAATAGATCATAATT
2268684 GTATTGGCTC
Statistics
Matches: 2193, Mismatches: 460, Indels: 141
0.78 0.16 0.05
Matches are distributed among these distances:
338 130 0.06
339 144 0.07
340 317 0.14
341 899 0.41
342 465 0.21
343 236 0.11
344 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (340 bp):
TTTGCCTTGGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
TGCCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAGTTGA
ATTTTTTTCATTTTTGGTTAAAACAAATCATAATTTGATGTTTGCCTTGAGAAACGTGAAGCGAA
AGCCATCTATTGACAAGAAAAGTTCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGC
TTTAAGTGATTTTATAACTTTATAAATGATTTTAAATTGAATTTTTTTCATTTTTCGTTAAAATA
GATCATAATTTGATG
Found at i:2267575 original size:170 final size:171
Alignment explanation
Indices: 2265620--2268683 Score: 2542
Period size: 171 Copynumber: 18.0 Consensus size: 171
2265610 TTCATTTCAT
* * * * *
2265620 TTTGCATTAGGAAACATGAAGCGAAAGCCATCTATTGGCAAGAAAAGTTCATTTATAGTCACTCA
1 TTTGCCTTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * *
2265685 TTCCTTTGAAAGCCTAATTACTCACTTTAAATGGTTTTATAA-TCTCATAAATGATTTTAAGTTG
66 TGCCTTTGAAAGCCTTATTACTCACTTTAAATGGTTTTATAACT-TTATAAATGATTTTAAATTG
* * * * * *
2265749 AATTTGTTTTGATTTCTGGTTAAAACATATCATAATTGGATG
130 AATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
* * *
2265791 TTTGTCTT-GCGAAACGTGAAGCGAAAGCCATCCATTAACAAGAAAAGTCCATTTATAGTCACCC
1 TTTGCCTTAG-GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * * * * * * * *
2265855 AAGCCTTCGAAAGTCTTGTGATTCACGTTAAGTGGTTTTATTACTTTATAAATAATTTTTAATT-
65 ATGCCTTTGAAAGCCTTATTACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAATTG
* ** * * *
2265919 AAATTTTTTTCATTTTTCATTAAAATAGGTCGTATTTTGATG
130 AATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
** * * * *
2265961 TTTGCAATGGGAAACGTGAA-CTGGATGCCATCCATTGAAAAGAAAAGTCCATTTATAGTCA-TC
1 TTTGCCTTAGGAAACGTGAAGC-GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * * *
2266024 TATGCCTCTGAAAACC-TACTTGCTCACTTTAAATGATTTTATAAAC-TTATTAATGATTTTAAG
65 -ATGCCTTTGAAAGCCTTA-TTACTCACTTTAAATGGTTTTAT-AACTTTATAAATGATTTTAAA
* * *
2266087 TTGAATTGTTTTTCATTTTTGGTTAAAACAAATCATAATTTGATG
127 TTGAATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
* * ** ** * * *
2266132 TTTCCCTT-GAGAAACATGAAGCGAAATTCATCTGTTTATAAGAAAAGTTCATTTATAGTCACTC
1 TTTGCCTTAG-GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * * *
2266196 ATGCTTTTGAAAGCCTTGTTACTCGCTTTAAGTGATTTTATAACCTTATAAATGATTTTAAATTG
65 ATGCCTTTGAAAGCCTTATTACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAATTG
* * *
2266261 AATTTATTTTGATTTTTGGTTAAAATAGATCATAATTGGATG
130 AATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
* * * ** *
2266303 TTTACCTTTGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTTTATTTATAGTCACTAA
1 TTTGCCTTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* ** * * * * **
2266368 TTCCTTCAAAAGCCTTGTTACTCTCTTTAAGTGATTTTATAACTTTATAAATGATTTTAAGCTGA
66 TGCCTTTGAAAGCCTTATTACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAATTGA
*** * * *
2266433 A-TTTTTTTCATTTGAAGTTAAAAAAGTTCATACTTTGATG
131 ATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
* * ** * * * *
2266473 TTTGCATTA-GACAATGTGAAGAAAAAGCCATCCACTGAGAAGAAAAGTCTATTTATTGTCACTC
1 TTTGCCTTAGGA-AACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * ** * * * *
2266537 ATGCC-TTCAAAGGCCTTGTTACTGGCTTTAAGTGGTTTTATAACTTTATAAATAATTTTGAATA
65 ATGCCTTTGAAA-GCCTTATTACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAATT
* ** * * *
2266601 GAGTTTTTTTTTCATTTTTCATGACAATAGATCAAAATTTGATG
129 GA-ATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
* * * ** **
2266645 TTTGCATTGGGAAACATGAAGCGAAAGCCATTGATTGATGA-AAAAGTCCATTTATAGTCACTCA
1 TTTGCCTTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * *
2266709 TGCCTTCGAAAGCC-TAGTTACTCACTTTAAATGCTTTTACAA-TCTCATAAATGATTTTCAGTT
66 TGCCTTTGAAAGCCTTA-TTACTCACTTTAAATGGTTTTATAACT-TTATAAATGATTTTAAATT
* * * * *
2266772 GAATTTGTTTTCATTTTTGATTAAAACAAATCATAATTAGATG
129 GAATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
* * * * *
2266815 TTTGCCAT-GGAAAACGTGAAGTGAAAGCCATCCATTGATAAGAAAAGTCAATTTATAGTCACCC
1 TTTGCCTTAGG-AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * * *
2266879 ACG-CTTTCAAAAGCCTTATTACTCACTTTAAGTGATTTTATAACTTTATAAATGATATGAAATT
65 ATGCCTTT-GAAAGCCTTATTACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAATT
** *
2266943 GAATTTATTTTTCATTTTTCATTAAAATAGGTCATAATTTGATG
129 GAATTT-TTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
* ** * * * *
2266987 TTGGAATTAGAAAACGTGAAGGGAACGCCATTCATTGACAAGAAAAGTCCATTTATAGTCACTCA
1 TTTGCCTTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * * *
2267052 TACCTTCGAAAGTC-TAGTTACTCACTTTAAATGATTTTATAA-TCTCATGAATGATTTTAAGTT
66 TGCCTTTGAAAGCCTTA-TTACTCACTTTAAATGGTTTTATAACT-TTATAAATGATTTTAAATT
* * * *
2267115 GAATTTGTTTTCATTTTTGGTTCAAACAGATCATAATTGGATG
129 GAATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
* * * * * * * *
2267158 TTTGCCTTAGAAAAGGTGAAGCAAAAGCCATCTATTGACAAGAAAATTTCATTTATCGTAACTCA
1 TTTGCCTTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
** * * * * *
2267223 TGTGTTTGAGAGTCTTATTACT-AGCTTTAAGTGGTTTTAAAACTTTATAAATTATTTTAAATTG
66 TGCCTTTGAAAGCCTTATTACTCA-CTTTAAATGGTTTTATAACTTTATAAATGATTTTAAATTG
** ** * *
2267287 AATTTGCTTTCAAATTTAGTTAAAATATATCATAATTTGATG
130 AATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
* * * * ** * * * *
2267329 TTTGCATTA-GAAATGTGAAGTGAAAGTCATCTGTTGACAAGAAAATTACATTTATAGTTA-TGA
1 TTTGCCTTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT-C
* * * * * * * * *
2267392 ATTCCTCTGAAAGCCTTACTACTCATTTTGAGTGGTTTTATAGCTTTATAAATAATTTAAAATTG
65 ATGCCTTTGAAAGCCTTATTACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAATTG
* *
2267457 -ATTTTTTTTAATTTTTGGTTAAAATAGATCGTAATTTGATG
130 AATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
** * * * * * * *
2267498 TTTGTGTAAGGAAACCTAAAGCAAAAACTATCCATTGACAAGAAAAGTCCATTTACAGTCACTCA
1 TTTGCCTTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * * * *
2267563 TGCCTTTGAAAG-CTTAATTACTTAGTTTAAATAGTTTTATAA-TCTCATGAATCATTTGAAGTT
66 TGCCTTTGAAAGCCTT-ATTACTCACTTTAAATGGTTTTATAACT-TTATAAATGATTTTAAATT
* * * * * *
2267626 CAATTTGTTTTCATTTTTTGTTAAAACAGATCATAATTAGATA
129 GAATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
* * * ** * * * * * *
2267669 TTTGTCTTGGGAAACATGAAGAAAAAGCCATCGATTGACAAGTAAACTCTATTTATAGCCACCCA
1 TTTGCCTTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * * * *
2267734 TGCCTTTAAAAGCCTTGTTACTCTCTTTAAATGGTTGTATAA-TCCTGTAAATGATTTTTAGTTG
66 TGCCTTTGAAAGCCTTATTACTCACTTTAAATGGTTTTATAACT-TTATAAATGATTTTAAATTG
* * **
2267798 AA-TTTTTTTCATTTTTGGTTAAAACAAATCATAATCAGATG
130 AATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
* ** * *
2267839 TTTGCCTT-GTGAAACGTGAAGTGAAAGCCATTGATTGACAAGAAAAGTCCATTTTTATTCACTC
1 TTTGCCTTAG-GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * ** * * *
2267903 GTG-CTTGCGATTGCCTAATTACTCACTTTAAATAGTTTTATAA-TCTTATAAATGATTTTAAGT
65 ATGCCTT-TGAAAGCCTTATTACTCACTTTAAATGGTTTTATAACT-TTATAAATGATTTTAAAT
* * *
2267966 CG-A-TTTTTTT-ATTTTTGGTTAAAACAGATCATAATTGGATG
128 TGAATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
* * * * * * * *
2268007 TTTGTC-TCGAGAAATGTGAAGCGAAAGCCATCTATTGACAAGAAAATTTCATTTATAGTAACTT
1 TTTGCCTTAG-GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * ** * *
2268071 ATG-CATTCAAGCGCCTTATTGCTGGCTTTAAATGGTTTTAAAACTTTACAAATGATTTTAAATT
65 ATGCCTTTGAA-AGCCTTATTACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAATT
* *
2268135 GAATTTTTTTTCATTTTTAGTTAAAATATATCATAATTTGATG
129 GAATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
* * * * ** * *
2268178 CTTGCATT-GAGAAACGTGAGGCAAAAGCCATCTGTTGACAAGAAAATTACATTTATAGTCA-TG
1 TTTGCCTTAG-GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT-
** * * * *
2268241 CATGCCTTCAAAACCCTTGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATT
64 CATGCCTTTGAAAGCCTTATTACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAATT
* **
2268306 GAATTTTTTCTCATTTATT-GTTAAAACGGATCATAATTTGATG
129 GAATTTTTTTTCATTT-TTGGTTAAAATAGATCATAATTTGATG
* * ** * *
2268349 TCTGCATT-GGAAACACGAAGCGAAAGCCATCCATTGACAACAAAAGTCCATTTATAGTCACCCA
1 TTTGCCTTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
** * * ** * * *
2268413 TGCCTTCAAAAGCCTTCTCT-TTTGCTTTAAGTGGCTTTATAACTTTATAAATAATTTTAAATTG
66 TGCCTTTGAAAGCCTTAT-TACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAATTG
* ** * *
2268477 AATTTTTTTTCATTTCTCATTCAAATAGAAT-GTAATTTGATG
130 AATTTTTTTTCATTTTTGGTTAAAATAG-ATCATAATTTGATG
* * * *
2268519 TTTGCATT-GAAAACATGAAGCGAAAGCCATTCATTGACAAGAAAAGTCCATTTATAGTCACTCA
1 TTTGCCTTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * * *
2268583 TACCTTCGAAAGCC-TAGTTACTTACTTTAAATAGTTTTAT-ACTCTCATTAATGATTTTAAGTT
66 TGCCTTTGAAAGCCTTA-TTACTCACTTTAAATGGTTTTATAACT-TTATAAATGATTTTAAATT
*
2268646 GAATTTGTTTTCATTTTTGGTTAAAATAGATCATAATT
129 GAATTTTTTTTCATTTTTGGTTAAAATAGATCATAATT
2268684 GTATTGGCTC
Statistics
Matches: 2310, Mismatches: 520, Indels: 127
0.78 0.18 0.04
Matches are distributed among these distances:
167 2 0.00
168 124 0.05
169 77 0.03
170 897 0.39
171 989 0.43
172 215 0.09
173 6 0.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (171 bp):
TTTGCCTTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
TGCCTTTGAAAGCCTTATTACTCACTTTAAATGGTTTTATAACTTTATAAATGATTTTAAATTGA
ATTTTTTTTCATTTTTGGTTAAAATAGATCATAATTTGATG
Found at i:2283065 original size:342 final size:335
Alignment explanation
Indices: 2282434--2283936 Score: 1189
Period size: 342 Copynumber: 4.4 Consensus size: 335
2282424 NNTTTTTTTT
* * * * * *
2282434 ATTTTAGGTTAAAGCAGATCATAATTTGATGTTTACATTGGGAAACGTGAAACGAAAGCCATCCA
1 ATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCATTAGGAAACGTGAAGCGAAAGCCATCCA
* * * * ** *
2282499 TTGACAAGAAAAGTCCATTTGTAGTAACTCATGCCTTTGAGAGCCTTAATACTAGCTTTAAGTGG
66 TTGACAAGAAAAGTCCATTTATAG-CACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAGTGG
* * * * * * *
2282564 TTTTATGACTCTATAAATAATTTCAAATTGAATTTGTTATCATTTTTTGTTAAAATAGATCCTAA
130 TTTTATAACTTTATAAATAATTTTAAATTGAATTT-TTTTCA-TTTTTGTTCAAACAGATCATAA
* ** ** * * *
2282629 TTTGATATTTGCGTTGGGATCTGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTTCACTTATAG
193 TTTGATATTTGCATTGCAAAATGTGAAGCAAAAGCAATCCATTGACAAGAAAAGTCCATTTATAG
* * * * *
2282694 TCACTCGTGCATTCGAAAGTC-GAGTTACTCACTTTACACGATTTTATAATCTCATAAATGATTT
258 TCACTCG-CCATTC-AAAGCCTG-GTTACTCGCTTTA-ATGGTTTTATAATCTCATAAATGATTT
**
2282758 TAGCTTGAAATTTTTTTT
319 TAGC-TGAAATTTTTTCC
* * *
2282776 ATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCCTTAGGAAACGTGAAGCTAAAATCCATCC
1 ATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCATTAGGAAACGTGAAGC-GAAAGCCATCC
* * *
2282841 CTTGAAAAGAAAAGTCCATTTATAGCGACTCATGCCTTCGAAAG-TTTAGTTACTCGCTTTAAGT
65 ATTGACAAGAAAAGTCCATTTATAGC-ACTCATGCCTTCGAAAGCCTT-GTTACTCGCTTTAAGT
* * * *
2282905 TGTTTTATTACTTTATAAATGATTTTAAATTGAATTTGTTTTCATTTTTGTTCAAACAAATCATA
128 GGTTTTATAACTTTATAAATAATTTTAAATTGAATTT-TTTTCATTTTTGTTCAAACAGATCATA
* * * * *
2282970 ATTTGATGTTTGCATTGCAAAATGTGAAGCAAAAGCTATCCATTGACAAGAAAAGCCCATTTTTT
192 ATTTGATATTTGCATTGCAAAATGTGAAGCAAAAGCAATCCATTGACAAGAAAAGTCCATTTATA
* *
2283035 GTCACTCGCACATTCAAGAGCCTGGTTACTCGCTTTAAATGGTTTTATAATCTTATCAATGATTT
257 GTCACTCGC-CATTCAA-AGCCTGGTTACTCGCTTT-AATGGTTTTATAATCTCATAAATGATTT
* *
2283100 TAAGCTGAACTTTTTCCC
319 T-AGCTGAAATTTTTTCC
** * * * * * * * * *
2283118 ATTTTTGGTTAAAATTGATCATAATTGAATGTTTGCCTCAAGAATCCTGTAGTGAAAGCCAACCA
1 ATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCATTAGGAAACGTGAAGCGAAAGCCATCCA
* * * *
2283183 TTGACAAGCAAAGTCCATTTATATTCACTCATGCCTTCAAAAGCCTTGTTACTTGCTTTAAGTGG
66 TTGACAAGAAAAGTCCATTTATA-GCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAGTGG
* * ** ** * * ** *
2283248 TTTTATAAATTTATGAATGGTCCTAAATT-AAATTTTGTCATTTAGGTTGAAACAGATCATAATT
130 TTTTATAACTTTATAAATAATTTTAAATTGAATTTTTTTCATTTTTGTTCAAACAGATCATAATT
* * * * *
2283312 TGATATTTGCA--CCAAGAA-GCCTGAAGCGAAACCAATCCATTGATAAGAAAAGTCCATATATA
195 TGATATTTGCATTGCAA-AATG--TGAAGCAAAAGCAATCCATTGACAAGAAAAGTCCATTTATA
* * * * *
2283374 GTCACTAATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAAGT-TCATAACTGATT
257 GTCACT--CGCCATTCAAAGCCTGGTTACTCGCTTTAA-TGGTTTTATAA-TCTCATAAATGATT
** * *
2283438 TTAAATCACATTGTATTTCC
318 TTAGCTGAAATT-T-TTTCC
* * * ** * *
2283458 ATTTTTTGTTAAAACATATCATAATTTGATGTTTGCATGGGGAAACGTGAAGCGAAAGCAATTCA
1 ATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCATTAGGAAACGTGAAGCGAAAGCCATCCA
* * * * * * *
2283523 TTGATAGGAAAAGTCCATTTATCATCACTCATGCCTTTGAAAGCCTTGTTACTCACCTTAAGTAG
66 TTGACAAGAAAAGTCCATTTAT-AGCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAGTGG
* * * * * *
2283588 TTTTATAACTTTATAAATAATTTTAGATTGCATTTTTTTTATTTTAG-GCAAAAACATATCATAA
130 TTTTATAACTTTATAAATAATTTTAAATTGAATTTTTTTCATTTTTGTTC--AAACAGATCATAA
* * * * * * *
2283652 TTTGATGTTTGCAATCGGAAACA--TGAAGTC-AAAGCCATCCATTGATAAGAAAAGTCTACTTA
193 TTTGATATTTGC-ATTGCAAA-ATGTGAAG-CAAAAGCAATCCATTGACAAGAAAAGTCCATTTA
* * * * * * * * * *
2283714 TAGTCATTCATGCC-TTCAAGAGACTCGTTCCCCACTTTAATTGGTTTTATAACCTTATAAGTAA
255 TAGTCACTC--GCCATTCAA-AGCCTGGTTACTCGCTTTAA-TGGTTTTATAATCTCATAAATGA
** *
2283778 TTTTAAAT-AGAATTTGTTTTC
316 TTTTAGCTGA-AATTT-TTTCC
* ** * * * * * * *
2283799 ATTTCTCATTAAAACATATCATAATTTGATGCTTGTATTGGGAAACATGAAGCAAAAGCCATCCA
1 ATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCATTAGGAAACGTGAAGCGAAAGCCATCCA
* * * * ** *
2283864 TTGACAGGAAAAGTCCATTTACT-GTCACTCATGCCTTTGAACGCCTAGTTACTTACTTTAAATG
66 TTGACAAGAAAAGTCCATTTA-TAG-CACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAGTG
2283928 GTTTTATAA
129 GTTTTATAA
2283937 TCTTATAGAC
Statistics
Matches: 935, Mismatches: 191, Indels: 71
0.78 0.16 0.06
Matches are distributed among these distances:
337 4 0.00
338 9 0.01
339 114 0.12
340 138 0.15
341 227 0.24
342 335 0.36
343 104 0.11
344 1 0.00
345 3 0.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (335 bp):
ATTTTTGGTTAAAACAGATCATAATTGGATGTTTGCATTAGGAAACGTGAAGCGAAAGCCATCCA
TTGACAAGAAAAGTCCATTTATAGCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAGTGGT
TTTATAACTTTATAAATAATTTTAAATTGAATTTTTTTCATTTTTGTTCAAACAGATCATAATTT
GATATTTGCATTGCAAAATGTGAAGCAAAAGCAATCCATTGACAAGAAAAGTCCATTTATAGTCA
CTCGCCATTCAAAGCCTGGTTACTCGCTTTAATGGTTTTATAATCTCATAAATGATTTTAGCTGA
AATTTTTTCC
Found at i:2283971 original size:171 final size:168
Alignment explanation
Indices: 2282442--2283974 Score: 853
Period size: 171 Copynumber: 9.0 Consensus size: 168
2282432 TTATTTTAGG
* * * * * *
2282442 TTAAAGCAGATCATAATTTGATGTTTACATTGGGAAACGTGAAACGAAAGCCATCCATTGACAAG
1 TTAAAACATATCATAATTTGATGTTTGCATTGGGAAACATGAAGCGAAAGCCATCCATTGATAAG
* * * ** *
2282507 AAAAGTCCATTTGTAGTAACTCATGCCTTTGAGAGCCTTAATACT-AGCTTTAAGTGGTTTTATG
66 AAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTGTTACTCA-CTTTAAGTGGTTTTATA
** * * * **
2282571 A-CTCTATAAATAATTTCAAATTGAATTTG-TTATCATTTTTTG
130 ATCT-TAT-AACGATTT-TAATT-CATTTGTTTTTCA-TTTTCA
* * * * * * * * *
2282613 TTAAAATAGATCCTAATTTGATATTTGCGTTGGG-ATCTGTGAAGCAAAAGCCATCCATTGACAA
1 TTAAAACATATCATAATTTGATGTTTGCATTGGGAAAC-ATGAAGCGAAAGCCATCCATTGATAA
* * * * * * ** * *
2282677 GAAAAGTTCACTTATAGTCACTCGTGCATTCGAAAGTCGAGTTACTCACTTTACA-CGATTTTAT
65 GAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTGTTACTCACTTTA-AGTGGTTTTAT
* * * * **
2282741 AATCTCATAAATGATTTTAGCTTGAAATTT-TTTTT-ATTTTTGG
129 AATCTTAT-AACGATTTTA-ATT--CATTTGTTTTTCA-TTTTCA
* * * * * * * * *
2282784 TTAAAACAGATCATAATTGGATGTTTGCCTTAGGAAACGTGAAGCTAAAATCCATCCCTTGAAAA
1 TTAAAACATATCATAATTTGATGTTTGCATTGGGAAACATGAAGC-GAAAGCCATCCATTGATAA
* * * *
2282849 GAAAAGTCCATTTATAG-CGACTCATGCCTTCGAAAG-TTTAGTTACTCGCTTTAAGTTGTTTTA
65 GAAAAGTCCATTTATAGTC-ACTCATGCCTTTGAAAGCCTT-GTTACTCACTTTAAGTGGTTTTA
* * * **
2282912 TTA-CTTTATAAATGATTTTAAATTGAATTTG-TTTTCATTTTTG
128 TAATC-TTAT-AACGATTTT-AATT-CATTTGTTTTTCATTTTCA
* * ** ** * * *
2282955 TTCAAACAAATCATAATTTGATGTTTGCATTGCAAAATGTGAAGCAAAAGCTATCCATTGACAAG
1 TTAAAACATATCATAATTTGATGTTTGCATTGGGAAACATGAAGCGAAAGCCATCCATTGATAAG
* * * * * * * *
2283020 AAAAGCCCATTTTTTGTCACTC--GCACATTCAAGAGCCTGGTTACTCGCTTTAAATGGTTTTAT
66 AAAAGTCCATTTATAGTCACTCATGC-CTTTGAA-AGCCTTGTTACTCACTTTAAGTGGTTTTAT
* ** * ** **
2283083 AATCTTATCAATGATTTTAAGCTGAACTT-TTTCCCATTTTTGG
129 AATCTTAT-AACGATTTTAA--TTCATTTGTTTTTCA-TTTTCA
* * *** * * * * * *
2283126 TTAAAA-TTGATCATAA-TTGAATGTTTGCCTCAAGAATCCTGTAGTGAAAGCCAACCATTGACA
1 TTAAAACAT-ATCATAATTTG-ATGTTTGCATTGGGAAACATGAAGCGAAAGCCATCCATTGATA
* * ** **
2283189 AGCAAAGTCCATTTATATTCACTCATGCCTTCAAAAGCCTTGTTACTTGCTTTAAGTGGTTTTAT
64 AGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTGTTACTCACTTTAAGTGGTTTTAT
* * * * ** * ***
2283254 AAAT-TTATGAATGGTCCTAAATT-AAAT-TTTGTCATTTAGG
129 -AATCTTAT-AACGAT-TTTAATTCATTTGTTTTTCATTTTCA
* * * **** * *
2283294 TTGAAACAGATCATAATTTGATATTTGCACCAAGAAGCCTGAAGCGAAA-CCAATCCATTGATAA
1 TTAAAACATATCATAATTTGATGTTTGCATTGGGAAACATGAAGCGAAAGCC-ATCCATTGATAA
* * *
2283358 GAAAAGTCCATATATAGTCACTAATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATA
65 GAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTGTTACTCACTTTAAGTGGTTTTATA
* * * * **
2283423 AGT-TCATAACTGATTTTAAATCACATTGTATTTCCATTTTTTG
130 A-TCTTATAAC-GATTTTAATTCA-TTTGT-TTTTCA-TTTTCA
* * * * *
2283466 TTAAAACATATCATAATTTGATGTTTGCATGGGGAAACGTGAAGCGAAAGCAATTCATTGATAGG
1 TTAAAACATATCATAATTTGATGTTTGCATTGGGAAACATGAAGCGAAAGCCATCCATTGATAAG
* *
2283531 AAAAGTCCATTTATCA-TCACTCATGCCTTTGAAAGCCTTGTTACTCACCTTAAGTAGTTTTATA
66 AAAAGTCCATTTAT-AGTCACTCATGCCTTTGAAAGCCTTGTTACTCACTTTAAGTGGTTTTATA
**
2283595 A-CTTTATAAATAATTTTAGATTGCATTT-TTTTT-ATTTTAGGCA
130 ATC-TTAT-AACGATTTTA-ATT-CATTTGTTTTTCATTTT---CA
* *
2283638 --AAAACATATCATAATTTGATGTTTGCAATCGGAAACATGAAGTC-AAAGCCATCCATTGATAA
1 TTAAAACATATCATAATTTGATGTTTGCATTGGGAAACATGAAG-CGAAAGCCATCCATTGATAA
* * * * * * * * *
2283700 GAAAAGTCTACTTATAGTCATTCATGCC-TTCAAGAGACTCGTTCCCCACTTTAATTGGTTTTAT
65 GAAAAGTCCATTTATAGTCACTCATGCCTTTGAA-AGCCTTGTTACTCACTTTAAGTGGTTTTAT
* **
2283764 AACCTTATAA-GTAATTTTAAATAGAATTTG-TTTTCATTTCTCA
129 AATCTTATAACG--ATTTT-AAT-TCATTTGTTTTTCATTT-TCA
* * * * *
2283807 TTAAAACATATCATAATTTGATGCTTGTATTGGGAAACATGAAGCAAAAGCCATCCATTGACAGG
1 TTAAAACATATCATAATTTGATGTTTGCATTGGGAAACATGAAGCGAAAGCCATCCATTGATAAG
* * * *
2283872 AAAAGTCCATTTACT-GTCACTCATGCCTTTGAACGCCTAGTTACTTACTTTAAATGGTTTTATA
66 AAAAGTCCATTTA-TAGTCACTCATGCCTTTGAAAGCCTTGTTACTCACTTTAAGTGGTTTTATA
* *
2283936 ATCTTATAGACGATTTCAATTTATTTTGTTTTTCATTTT
130 ATCTTATA-ACGATTTTAATTCA-TTTGTTTTTCATTTT
2283975 NNNNNNNNNN
Statistics
Matches: 1071, Mismatches: 220, Indels: 143
0.75 0.15 0.10
Matches are distributed among these distances:
167 10 0.01
168 116 0.11
169 32 0.03
170 217 0.20
171 447 0.42
172 235 0.22
173 12 0.01
174 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (168 bp):
TTAAAACATATCATAATTTGATGTTTGCATTGGGAAACATGAAGCGAAAGCCATCCATTGATAAG
AAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTGTTACTCACTTTAAGTGGTTTTATAA
TCTTATAACGATTTTAATTCATTTGTTTTTCATTTTCA
Found at i:2285569 original size:171 final size:170
Alignment explanation
Indices: 2285230--2288050 Score: 2028
Period size: 171 Copynumber: 16.6 Consensus size: 170
2285220 NNNNTTTTAG
* * * *
2285230 GTTAAAGCAGATCATAATTTGATGTTTACATTGGGAAAC-GTGAAACGAAAGCCATCCATTGACA
1 GTTAAAACAGATCATAATTTGATGTTTGCATT-GGAAACTGTGAAGCAAAAGCCATCCATTGACA
* * * * * * *** *
2285294 AGAAAAGTCCATTTGTAGTAACTCATGCCTTTGAGAGCCTTCATACTAGCTTTAAGTGGTTTTAT
65 AGAAAAGTCCATTTATAGTCACTCGTGCCTTCGAAAGTCTAGTTACTCGCTTTAAGTGGTTTTAT
* * * *
2285359 GACTCTATAAATAATTTCAAATTGAATTTGTTATCATTTTTT
130 AACT-TATAAATGATTTTAAATTGAATTTGTTTTCATTTTTT
* * * * *
2285401 GTTAAAACAGATCCTAATTTGATATTTGCGTTGGGATCTGTGAAGCAAAAGCCATCCATTGACAA
1 GTTAAAACAGATCATAATTTGATGTTTGCATTGGAAACTGTGAAGCAAAAGCCATCCATTGACAA
* * ** * * *
2285466 GAAAAGTTCACTTATAGTCACTCGTGTATTCGAAAGTCGAGTTACTCACTTTACA-CGGTTTTAT
66 GAAAAGTCCATTTATAGTCACTCGTGCCTTCGAAAGTCTAGTTACTCGCTTTA-AGTGGTTTTAT
* * * * *
2285530 GATCTCATAAATGATTTTAACTTGAAATTGTTTTCATTTTTC
130 -AACTTATAAATGATTTTAAATTGAATTTGTTTTCATTTTTT
* * * * * *
2285572 GTTAAAACAGATCATAATTGGATGTTTGCGTTAGGAAAC-GTGCAGCTAAAATCCATCCCTTGAA
1 GTTAAAACAGATCATAATTTGATGTTTGCATT-GGAAACTGTGAAGC-AAAAGCCATCCATTGAC
* * *
2285636 AAGAAAAGTCCATTTATAG-CGACTCATGCCTTCGAAAGTTTAGTTACTCGCTTTAAGTGGTCTT
64 AAGAAAAGTCCATTTATAGTC-ACTCGTGCCTTCGAAAGTCTAGTTACTCGCTTTAAGTGGTTTT
*
2285700 ATTACTTTATAAATGATTTTAAATTGAATTTGTTTTCA-TTTTT
128 ATAAC-TTATAAATGATTTTAAATTGAATTTGTTTTCATTTTTT
* * * * *
2285743 GTTCAAACAGAACATAATTTGATGTTTGCATTGGAAAATGTGAAGCGAAAGCTATCCATTGACAA
1 GTTAAAACAGATCATAATTTGATGTTTGCATTGGAAACTGTGAAGCAAAAGCCATCCATTGACAA
* * ** * * * *
2285808 GAAAAG-CCTATTTTTTGTCACTCGCACATTC-AAAATCCTAGTTACTTGCTTTAAATGGTTTTA
66 GAAAAGTCC-ATTTATAGTCACTCGTGCCTTCGAAAGT-CTAGTTACTCGCTTTAAGTGGTTTTA
* * * *
2285871 TAATCTTATCAATGATTTTAAGTTGAA--CGTTTTCTGATTTTTG
129 TAA-CTTATAAATGATTTTAAATTGAATTTGTTTTC--ATTTTTT
* ** * ** * * * * *
2285914 GTTGAAATTGATCATAA-TTGAATGTTTGCCTCAAGAATCCTGT--AGCGAAAGCCAACCTTTGG
1 GTTAAAACAGATCATAATTTG-ATGTTTGCAT-TGGAA-ACTGTGAAGCAAAAGCCATCCATTGA
* * * * * * *
2285976 CAAGCAAAGTCCATTTATA-TCACTCATGCCTTCAAAAGCCTTGTTATTCGCTCTAAGTGGTTTT
63 CAAGAAAAGTCCATTTATAGTCACTCGTGCCTTCGAAAGTCTAGTTACTCGCTTTAAGTGGTTTT
* * * * * * **
2286040 ATAAATTTATGAATGGTTCTAAATT-AAATT-TTGTCA-TTTAG
128 AT-AACTTATAAATGATTTTAAATTGAATTTGTTTTCATTTTTT
* * *** * * *
2286081 GTTGAAACAGATCATAATTTGATATTTGCACCAAGAAGC-CTGAAGCGAAA-CCAATCCATTGAC
1 GTTAAAACAGATCATAATTTGATGTTTGCA-TTGGAAACTGTGAAGCAAAAGCC-ATCCATTGAC
* * * *
2286144 AAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTA
64 AAGAAAAGTCCATTTATAGTCACTCGTGCCTTCGAAAGTCTAGTTACTCGCTTTAAGTGGTTTTA
*
2286209 CT-ACTTTATAAATGATTTTAAATTTAATTTGTTTTCA-TTTTT
129 -TAAC-TTATAAATGATTTTAAATTGAATTTGTTTTCATTTTTT
* * * *
2286251 GTTCAAACATATCATAATTTTATGTTTGCATTGGGAAAC-GTGAAGCAAAAGCTATCCATTGACA
1 GTTAAAACAGATCATAATTTGATGTTTGCATT-GGAAACTGTGAAGCAAAAGCCATCCATTGACA
* * * * * * *
2286315 AGAAAAGCCCATCTTCT-GTCACTCG-GACATTCAAAAGCCTGGTTACTCGCTTTAAATGGTTTT
65 AGAAAAGTCCAT-TTATAGTCACTCGTG-CCTTCGAAAGTCTAGTTACTCGCTTTAAGTGGTTTT
* * * * * **
2286378 ATAATCTTATAGACGATTTT-AATTTATTTTTCTTTTCATTTTAG
128 ATAA-CTTATAAATGATTTTAAATTGA-ATTTGTTTTCATTTTTT
** * *
2286422 GTTAAAACAGATCATAATTTGATGTTTATATTGGGAAA-TGTGAAACGAAAGCCATCCATTGACA
1 GTTAAAACAGATCATAATTTGATGTTTGCATT-GGAAACTGTGAAGCAAAAGCCATCCATTGACA
* * * * * * * *
2286486 AGAAAAGTCCATTTGTAGTAACTCATGCCTTTGAGAGCCTTGTTACTAGCTTTAAGTGGTTTTAT
65 AGAAAAGTCCATTTATAGTCACTCGTGCCTTCGAAAGTCTAGTTACTCGCTTTAAGTGGTTTTAT
* * * * *
2286551 GACTCTATAAATAATTTCAAATTGAATTTGCTATCATTTTTT
130 AACT-TATAAATGATTTTAAATTGAATTTGTTTTCATTTTTT
* * * * * * *
2286593 GTTAAATCAAATTC-TAATTTGATGTTTACATTGGGATCTGTGAAGCAAAAGCCATCCATTAACC
1 GTTAAAACAGA-TCATAATTTGATGTTTGCATTGGAAACTGTGAAGCAAAAGCCATCCATTGACA
* * * * * **
2286657 AGAAAAGTCCGCTTT-TAGTCGCTCGTGCATTCGAAAGTCGAGTTACTCACTTTAAACGGTTTTA
65 AGAAAAGTCC-ATTTATAGTCACTCGTGCCTTCGAAAGTCTAGTTACTCGCTTTAAGTGGTTTTA
** *
2286721 TAA-TGTCATAAATGATTTTACCTTGAAATTT-TTTTCATTTTTG
129 TAACT-T-ATAAATGATTTTAAATTG-AATTTGTTTTCATTTTTT
* * * * * *
2286764 GTTAAAA-AGATCAAAATTGGATGTTTGCCTTAGGAAACT-TGAAGCTAAAATCCATCCCTTGAA
1 GTTAAAACAGATCATAATTTGATGTTTGCATT-GGAAACTGTGAAGC-AAAAGCCATCCATTGAC
* * * *
2286827 AAGAAGAGTCCATTTATAG-CGA-TTGATGCCTTCGAAAGTTTAGTTACTCCCTTTAAGTGGTTT
64 AAGAAAAGTCCATTTATAGTC-ACTCG-TGCCTTCGAAAGTCTAGTTACTCGCTTTAAGTGGTTT
* *
2286890 TATGACTTTATAAATGATTTTAAATTGAATTTGCTTTCA-TTTTT
127 TATAAC-TTATAAATGATTTTAAATTGAATTTGTTTTCATTTTTT
* * * ** *
2286934 GTTCAAACAGATCATAATTTGATCTTTGCATTGGAAAAC-GTCAAGTGAAAGCTATCCATTGACA
1 GTTAAAACAGATCATAATTTGATGTTTGCATTGG-AAACTGTGAAGCAAAAGCCATCCATTGACA
* * * ** * * * * *
2286998 AGAAAAG-CTAATTTTTGGTCACTCGCACATTCAAAAGCCTGGTTACTCGCTTTAAATGGTTTTA
65 AGAAAAGTC-CATTTATAGTCACTCGTGCCTTCGAAAGTCTAGTTACTCGCTTTAAGTGGTTTTA
* * * ** *
2287062 TAATCTTATCAACGATTTTAAGTTGAACTTT-TTCCCATTTTTG
129 TAA-CTTATAAATGATTTTAAATTGAA-TTTGTTTTCATTTTTT
* ** * * ** * * *
2287105 GTTGAAATTGATCATTA-TTGAATGTTTGCCTCAAGAATC-GTGTAGCAAAAGCCAACCATTGAC
1 GTTAAAACAGATCATAATTTG-ATGTTTGCAT-TGGAAACTGTGAAGCAAAAGCCATCCATTGAC
* * * * * * *
2287168 AAGCAAAGTCCATTTATATTCACTCATGCCTTCAAAAGCCTTGTTACTCACTTTAAGTGGTTTTA
64 AAGAAAAGTCCATTTATAGTCACTCGTGCCTTCGAAAGTCTAGTTACTCGCTTTAAGTGGTTTTA
* * * * * **
2287233 TAAATTTATGAATGGTTTTAAATTAAATTTTTTTTCA-TTTAG
129 T-AACTTATAAATGATTTTAAATTGAATTTGTTTTCATTTTTT
* * * *** * * *
2287275 GTTGAAACAGATCATAATTTGATATTTTCACCAAGAAGC-CTAAAGCAAAA-CCAATCCATTGAC
1 GTTAAAACAGATCATAATTTGATGTTTGCA-TTGGAAACTGTGAAGCAAAAGCC-ATCCATTGAC
* * * * * *
2287338 AAGAAACGTCTATTTATAGTCACTCATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTA
64 AAGAAAAGTCCATTTATAGTCACTCGTGCCTTCGAAAGTCTAGTTACTCGCTTTAAGTGGTTTTA
* * * * *
2287403 TAAGTTTATAACTGATTTTAAATCGCATTGTATTTTCATTTTTT
129 TAA-CTTATAAATGATTTTAAATTGAATT-TGTTTTCATTTTTT
* * * * * * *
2287447 -TAAAAAACAGATCATAATTTTATGTTTGCATGGGGAAACT-TGAAGCGAAAGCAATTCATTGAT
1 GT-TAAAACAGATCATAATTTGATGTTTGCAT-TGGAAACTGTGAAGCAAAAGCCATCCATTGAC
* * * * * * * * * *
2287510 AGGAAAAGTCCATTTATCGTCACTCATACCTTCGGAAGTTTTGTTACTCACCTTAAGTAGTTTTA
64 AAGAAAAGTCCATTTATAGTCACTCGTGCCTTCGAAAGTCTAGTTACTCGCTTTAAGTGGTTTTA
* **
2287575 TAACTTTATAAATGATTTTAGATTGTAA-TT-TTTT-ATTTTAG
129 TAAC-TTATAAATGATTTTAAATTG-AATTTGTTTTCATTTTTT
** * * *
2287616 GCAAAAACAGATCATAATTTGATGTTTGCAATCGAAAAC-GTGAAGTC-AAAGCCATCCATTCAC
1 GTTAAAACAGATCATAATTTGATGTTTGC-ATTGGAAACTGTGAAG-CAAAAGCCATCCATTGAC
* * * * * * * * * *
2287679 AAGAAAAGTCTACTTATAGTCATTCATGCCTTC-AAGAGACTCGTTCCCCACTTTAATTGGTTTT
64 AAGAAAAGTCCATTTATAGTCACTCGTGCCTTCGAA-AGTCTAGTTACTCGCTTTAAGTGGTTTT
* * * * *
2287743 ATAACCGTATAAGTAATTTTAAATTGAATTTGTTTTCATTTCTC
128 ATAA-CTTATAAATGATTTTAAATTGAATTTGTTTTCATTTTTT
* * * * *
2287787 ATTAAAACATATCATAATTTGATGCTTGTATTGGAAAAC-ATGAAGCAAAAGCCATCCATTGACA
1 GTTAAAACAGATCATAATTTGATGTTTGCATTGG-AAACTGTGAAGCAAAAGCCATCCATTGACA
* * * * * ** *
2287851 GGAAAAGTCCATTTACT-GTCACTCATGCCTTTGAACGCCTAGTTACTTACTTTAAATGGTTTTA
65 AGAAAAGTCCATTTA-TAGTCACTCGTGCCTTCGAAAGTCTAGTTACTCGCTTTAAGTGGTTTTA
* * * **
2287915 TAATCTTATAGACGATTTT-AATT-TATTCT-TTTTCATTTTAG
129 TAA-CTTATAAATGATTTTAAATTGAATT-TGTTTTCATTTTTT
* * * *
2287956 GTTAAAGCAGATCATAATTTGATGTTTACATTGGGAAAC-GTGAAACGAAAGCCATCCATTGACA
1 GTTAAAACAGATCATAATTTGATGTTTGCATT-GGAAACTGTGAAGCAAAAGCCATCCATTGACA
* * *
2288020 AGAAAAGTCCATTTGTAGTAACTCATGCCTT
65 AGAAAAGTCCATTTATAGTCACTCGTGCCTT
2288051 TGAGAGCCTT
Statistics
Matches: 2081, Mismatches: 466, Indels: 208
0.76 0.17 0.08
Matches are distributed among these distances:
165 1 0.00
166 3 0.00
167 63 0.03
168 72 0.03
169 240 0.12
170 561 0.27
171 884 0.42
172 251 0.12
173 6 0.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (170 bp):
GTTAAAACAGATCATAATTTGATGTTTGCATTGGAAACTGTGAAGCAAAAGCCATCCATTGACAA
GAAAAGTCCATTTATAGTCACTCGTGCCTTCGAAAGTCTAGTTACTCGCTTTAAGTGGTTTTATA
ACTTATAAATGATTTTAAATTGAATTTGTTTTCATTTTTT
Found at i:2286512 original size:341 final size:338
Alignment explanation
Indices: 2285237--2288050 Score: 2129
Period size: 341 Copynumber: 8.3 Consensus size: 338
2285227 TAGGTTAAAG
* * *
2285237 CAGATCATAATTTGATGTTTACATTGGGAAACGTGAAACGAAAGCCATCCATTGACAAGAAAAGT
1 CAGATCATAATTTGATGTTTGCATTGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGT
* * ** * *** * * *
2285302 CCATTTGTAGTAACTCATGCCTTTGAGAGCCTTCATACTAGCTTTAAGTGGTTTTATGA-CTCTA
66 CCATTTATAGTCACTCATGCCTTCAAAAGCCTGGTTACTCGCTTTAAATGGTTTTATAATCT-TA
** * * ** * * *
2285366 TAAATAATTTCAAATTGAATTTGTTATCATTTTTTGTTAAAACAGATCCTAATTTGATATTTGCG
130 T-AACGATTT-TAATTGAATTT-TTTTCATTTTAGGTTAAAACAGATCATAATTTGATGTTTGCA
** * * * **
2285431 TTGGGATCTGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTTCACTTATAGTCACTCGTGTATT
192 TTGGGAAATGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTT
* ** * * * *
2285496 CGAAAGTCGAGTTACTCACTTTACA-CGGTTTTATGA-TCTCATAAATGATTTTAACTTGAAATT
257 CGAAAGCCTTGTTACTCACTTTA-AGTGGTTTTATGACT-TTATAAATGATTTTAAATTGAATTT
*
2285559 GTTTTCATTTTTCGTTAAAA
320 GTTTTCATTTTT-GTTCAAA
* * * * * * *
2285579 CAGATCATAATTGGATGTTTGCGTTAGGAAACGTGCAGCTAAAATCCATCCCTTGAAAAGAAAAG
1 CAGATCATAATTTGATGTTTGCATTGGGAAACGTGAAGC-AAAAGCCATCCATTGACAAGAAAAG
* ** * * * *
2285644 TCCATTTATAG-CGACTCATGCCTTCGAAAGTTTAGTTACTCGCTTTAAGTGGTCTTATTA-CTT
65 TCCATTTATAGTC-ACTCATGCCTTCAAAAGCCTGGTTACTCGCTTTAAATGGTTTTATAATC-T
* * * *
2285707 TATAAATGATTTTAAATTGAATTTGTTTTCATTTT-TGTTCAAACAGAACATAATTTGATGTTTG
128 TAT-AACGATTTT-AATTGAATTT-TTTTCATTTTAGGTTAAAACAGATCATAATTTGATGTTTG
* * * * *
2285771 CATTGGAAAATGTGAAGCGAAAGCTATCCATTGACAAGAAAAG-CCTATTTTTTGTCACTC--GC
190 CATTGGGAAATGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCC-ATTTATAGTCACTCATGC
* * * ** * * * *
2285833 ACATTCAAAATCCTAGTTACTTGCTTTAAATGGTTTTAT-AATCTTATCAATGATTTTAAGTTGA
254 -C-TTCGAAAGCCTTGTTACTCACTTTAAGTGGTTTTATGACT-TTATAAATGATTTTAAATTGA
* *
2285897 A--CGTTTTCTGATTTTTGGTTGAAA
316 ATTTGTTTTC--ATTTTT-GTTCAAA
** * *** * * * * * * * *
2285921 TTGATCATAA-TTGAATGTTTGCCTCAAGAATCCTGTAGCGAAAGCCAACCTTTGGCAAGCAAAG
1 CAGATCATAATTTG-ATGTTTGCATTGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAG
* * * *
2285985 TCCATTTATA-TCACTCATGCCTTCAAAAGCCTTGTTATTCGCTCTAAGTGGTTTTATAAAT-TT
65 TCCATTTATAGTCACTCATGCCTTCAAAAGCCTGGTTACTCGCTTTAAATGGTTTTAT-AATCTT
* * * * * * *
2286048 ATGAATGGTTCTAAATT-AAATTTTGTCA-TTTAGGTTGAAACAGATCATAATTTGATATTTGCA
129 AT-AACGATT-TTAATTGAATTTTTTTCATTTTAGGTTAAAACAGATCATAATTTGATGTTTGCA
**** *** *
2286111 CCAAGAAGCCTGAAGCGAAA-CCAATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCT
192 TTGGGAAATGTGAAGCAAAAGCC-ATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCT
* * *
2286175 TTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTACT-ACTTTATAAATGATTTTAAATTTAATTT
256 TCGAAAGCCTTGTTACTCACTTTAAGTGGTTTTA-TGACTTTATAAATGATTTTAAATTGAATTT
2286239 GTTTTCATTTTTGTTCAAA
320 GTTTTCATTTTTGTTCAAA
* * * *
2286258 CATATCATAATTTTATGTTTGCATTGGGAAACGTGAAGCAAAAGCTATCCATTGACAAGAAAAGC
1 CAGATCATAATTTGATGTTTGCATTGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGT
* * *
2286323 CCATCTTCT-GTCACTC-GGACATTCAAAAGCCTGGTTACTCGCTTTAAATGGTTTTATAATCTT
66 CCAT-TTATAGTCACTCATG-CCTTCAAAAGCCTGGTTACTCGCTTTAAATGGTTTTATAATCTT
* * **
2286386 ATAGACGATTTTAATTTATTTTTCTTTTCATTTTAGGTTAAAACAGATCATAATTTGATGTTTAT
129 ATA-ACGATTTTAATTGA-ATTT-TTTTCATTTTAGGTTAAAACAGATCATAATTTGATGTTTGC
* * * *
2286451 ATTGGGAAATGTGAAACGAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTAACTCATGCCT
191 ATTGGGAAATGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCT
* * * * *
2286516 TTGAGAGCCTTGTTACT-AGCTTTAAGTGGTTTTATGACTCTATAAATAATTTCAAATTGAATTT
256 TCGAAAGCCTTGTTACTCA-CTTTAAGTGGTTTTATGACTTTATAAATGATTTTAAATTGAATTT
* *
2286580 GCTATCATTTTTTGTT-AAA
320 GTTTTCA-TTTTTGTTCAAA
* * * * *
2286599 TCAAATTC-TAATTTGATGTTTACATTGGG-ATCTGTGAAGCAAAAGCCATCCATTAACCAGAAA
1 -CAGA-TCATAATTTGATGTTTGCATTGGGAAAC-GTGAAGCAAAAGCCATCCATTGACAAGAAA
* * * * * * * *
2286662 AGTCCGCTTT-TAGTCGCTCGTGCATTCGAAAGTC-GAGTTACTCACTTTAAACGGTTTTATAAT
63 AGTCC-ATTTATAGTCACTCATGCCTTCAAAAGCCTG-GTTACTCGCTTTAAATGGTTTTATAAT
* * * * * * *
2286725 GTCATAAATGATTTTACCTTGAAATTTTTTTCATTTTTGGTTAAAA-AGATCAAAATTGGATGTT
126 CTTAT-AACGATTTTA-ATTG-AATTTTTTTCATTTTAGGTTAAAACAGATCATAATTTGATGTT
* * * * * * * *
2286789 TGCCTTAGGAAACT-TGAAGCTAAAATCCATCCCTTGAAAAGAAGAGTCCATTTATAG-CGATTG
188 TGCATTGGGAAA-TGTGAAGC-AAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTC-ACTC
* *
2286852 ATGCCTTCGAAAG-TTTAGTTACTCCCTTTAAGTGGTTTTATGACTTTATAAATGATTTTAAATT
250 ATGCCTTCGAAAGCCTT-GTTACTCACTTTAAGTGGTTTTATGACTTTATAAATGATTTTAAATT
*
2286916 GAATTTGCTTTCATTTTTGTTCAAA
314 GAATTTGTTTTCATTTTTGTTCAAA
* * * ** *
2286941 CAGATCATAATTTGATCTTTGCATTGGAAAACGTCAAGTGAAAGCTATCCATTGACAAGAAAAG-
1 CAGATCATAATTTGATGTTTGCATTGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGT
* * *
2287005 CTAATTTTTGGTCACTC--GCACATTCAAAAGCCTGGTTACTCGCTTTAAATGGTTTTATAATCT
66 C-CATTTATAGTCACTCATGC-C-TTCAAAAGCCTGGTTACTCGCTTTAAATGGTTTTATAATCT
** * * ** *
2287068 TATCAACGATTTTAAGTTGAACTTTTTCCCATTTTTGGTTGAAATTGATCATTA-TTGAATGTTT
128 TAT-AACGATTTTAA-TTGAA-TTTTTTTCATTTTAGGTTAAAACAGATCATAATTTG-ATGTTT
* *** * * * *
2287132 GCCTCAAG-AATCGTGTAGCAAAAGCCAACCATTGACAAGCAAAGTCCATTTATATTCACTCATG
189 GCATTGGGAAAT-GTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATG
* * * * * *
2287196 CCTTCAAAAGCCTTGTTACTCACTTTAAGTGGTTTTATAAATTTATGAATGGTTTTAAATTAAAT
253 CCTTCGAAAGCCTTGTTACTCACTTTAAGTGGTTTTATGACTTTATAAATGATTTTAAATTGAAT
* ** *
2287261 TTTTTTTCATTTAGGTTGAAA
318 TTGTTTTCATTTTTGTTCAAA
* * **** * * * *
2287282 CAGATCATAATTTGATATTTTCACCAAGAAGCCTAAAGCAAAA-CCAATCCATTGACAAGAAACG
1 CAGATCATAATTTGATGTTTGCATTGGGAAACGTGAAGCAAAAGCC-ATCCATTGACAAGAAAAG
* ** * *
2287346 TCTATTTATAGTCACTCATGCCTTTGAAAGCCTTGTTACTCGCTTTAAGTGGTTTTATAAGT-TT
65 TCCATTTATAGTCACTCATGCCTTCAAAAGCCTGGTTACTCGCTTTAAATGGTTTTATAA-TCTT
* * * *
2287410 ATAACTGATTTTAAATCGCATTGTATTTTCATTTT--TTTAAAAAACAGATCATAATTTTATGTT
129 ATAAC-GATTTT-AATTGAATT-T-TTTTCATTTTAGGTT--AAAACAGATCATAATTTGATGTT
* * * * * * *
2287473 TGCATGGGGAAACT-TGAAGCGAAAGCAATTCATTGATAGGAAAAGTCCATTTATCGTCACTCAT
188 TGCATTGGGAAA-TGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
* * ** * * * *
2287537 ACCTTCGGAAGTTTTGTTACTCACCTTAAGTAGTTTTATAACTTTATAAATGATTTTAGATTGTA
252 GCCTTCGAAAGCCTTGTTACTCACTTTAAGTGGTTTTATGACTTTATAAATGATTTTAAATTG-A
* *
2287602 A-TT-TTTT-ATTTTAG-GCAAAAA
316 ATTTGTTTTCATTTTTGTTC--AAA
* * * *
2287623 CAGATCATAATTTGATGTTTGCAATCGAAAACGTGAAGTC-AAAGCCATCCATTCACAAGAAAAG
1 CAGATCATAATTTGATGTTTGCATTGGGAAACGTGAAG-CAAAAGCCATCCATTGACAAGAAAAG
* * * * * * * * * * * *
2287687 TCTACTTATAGTCATTCATGCCTTCAAGAGACTCGTTCCCCACTTTAATTGGTTTTATAACCGTA
65 TCCATTTATAGTCACTCATGCCTTCAAAAGCCTGGTTACTCGCTTTAAATGGTTTTATAATCTTA
* *
2287752 TAA-GTAATTTTAAATTGAATTTGTTTTCATTTCTCA--TTAAAACATATCATAATTTGATGCTT
130 TAACG--ATTTT-AATTGAATTT-TTTTCATTT-T-AGGTTAAAACAGATCATAATTTGATGTTT
* * ** *
2287814 GTATTGGAAAACATGAAGCAAAAGCCATCCATTGACAGGAAAAGTCCATTTACT-GTCACTCATG
189 GCATTGGGAAATGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTA-TAGTCACTCATG
* * * * * * * * *
2287878 CCTTTGAACGCCTAGTTACTTACTTTAAATGGTTTTAT-AATCTTATAGACGATTTT-AATT-TA
253 CCTTCGAAAGCCTTGTTACTCACTTTAAGTGGTTTTATGACT-TTATAAATGATTTTAAATTGAA
*
2287940 TTCT-TTTTCATTTTAGGTT-AAA
317 TT-TGTTTTCATTTT-TGTTCAAA
* * *
2287962 GCAGATCATAATTTGATGTTTACATTGGGAAACGTGAAACGAAAGCCATCCATTGACAAGAAAAG
1 -CAGATCATAATTTGATGTTTGCATTGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAG
* *
2288027 TCCATTTGTAGTAACTCATGCCTT
65 TCCATTTATAGTCACTCATGCCTT
2288051 TGAGAGCCTT
Statistics
Matches: 1973, Mismatches: 395, Indels: 210
0.77 0.15 0.08
Matches are distributed among these distances:
337 69 0.03
338 182 0.09
339 29 0.01
340 298 0.15
341 685 0.35
342 589 0.30
343 118 0.06
344 3 0.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (338 bp):
CAGATCATAATTTGATGTTTGCATTGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGT
CCATTTATAGTCACTCATGCCTTCAAAAGCCTGGTTACTCGCTTTAAATGGTTTTATAATCTTAT
AACGATTTTAATTGAATTTTTTTCATTTTAGGTTAAAACAGATCATAATTTGATGTTTGCATTGG
GAAATGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAA
AGCCTTGTTACTCACTTTAAGTGGTTTTATGACTTTATAAATGATTTTAAATTGAATTTGTTTTC
ATTTTTGTTCAAA
Found at i:2289333 original size:341 final size:341
Alignment explanation
Indices: 2288710--2292304 Score: 2873
Period size: 341 Copynumber: 10.5 Consensus size: 341
2288700 TTTGTCTTGA
* * *
2288710 GAAACGTGAAGCGAAAGCCATCCATTGACAA-AAAAGTACCATTTGTAGTAACTCATGCCTTTGA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGT-CCATTTATAGTCACTCATGCCTTCGA
* * * * * *
2288774 GAGCCTT-GTTACTAGCTTTAAGTTGTTTTATGACTCTATAAAT-AGTTTCAAATTGAATTTGTT
65 AAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGA-TTTTAAATTGAATTT-TT
* * * ** * *
2288837 ATCATTTTTTGTTAAAACAGATCCTAATTTGATGTTTGCATT-GGGATCTGTGAAGCAAAAGCCA
128 TTCA-TTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAGAAAAC-GTGAAGCGAAAGCCA
* * * * *
2288901 TCCATTGACAAGAAAAGTCGACTTATAGTCACTCGTGCATTCAAAAGTCGAGTTACTCACTTTAA
191 TCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGTCTAGTTACTCACTTTAA
** * * **
2288966 ACGGTTTTATAATATCATAAATGATTTTAGCTTGAAATTT-TTTT-ATTTTTGGTTAAAACAGAT
256 GTGGTTTTATAATCTTATAAATGATTTTAAATTG-AATTTATTTTCATTTTTGGTTAAAACAGAT
* * *
2289029 TATAATTGGATGTTTGCCTTAG
320 CATAATTTGATGTTTGCATTAG
* * * * *
2289051 GAAACGTGAAGCTAAAATCCATCCCTTGACAAGAAAAGTCCATTTATAGTGACTCATGCCTACGA
1 GAAACGTGAAGC-GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGA
* * *
2289116 AAG-TTTAGTTAGTCGCTTTAAGTGGTTTTATTACTTTATAAATGATTTTAAATTGAATTTGTTT
65 AAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTT-TTT
* * * * *
2289180 TCATTTTTGTTCAAACAGATCATGATTTGATGTTTGCATTAGAAAATGTGAAGCGAAAGCTATCC
129 TCATTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAGAAAACGTGAAGCGAAAGCCATCC
* * * ** * * * * *
2289245 ATTGACAAGAAAAGAT-CATTTTTTGTCACTTACACATTCAAAAGCCTGGTTACTCGCTTTAAAT
194 ATTGACAAGAAAAG-TCCATTTATAGTCACTCATGCCTTCAAAAGTCTAGTTACTCACTTTAAGT
* * * * ** * **
2289309 GGTTTTTTAATCTTCTCAATGATTTTAAGTTGAACTTT-TTCGCATTTTTGGTTGAAATTGATCA
258 GGTTTTATAATCTTATAAATGATTTTAAATTGAA-TTTATTTTCATTTTTGGTTAAAACAGATCA
* * *
2289373 TAA-TTGAATGTTTGCCTCAA
322 TAATTTG-ATGTTTGCATTAG
* * * * * *
2289393 GAATCCTGTAA-CGAAAGCCAACCATTGACAAGCAAAGTCCATTTATATTCACTCATGCCTTCAA
1 GAAACGTG-AAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGA
* * * * *
2289457 AAGCCTT-GTTACTCGCTTTAAGTGGTTTTATAAATCTATGAATGGTTCTAAATT-AATTTTTTT
65 AAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAA--TTTTT
* * * ** * *
2289520 TTCATTTAGGTTGAAACAGATCATAATTTGATATTTGCACCA-AGAAGCCTGAAGCGAAA-CCAA
128 TTCATTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAGA-AAACGTGAAGCGAAAGCC-A
* ** * **
2289583 TGCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTCTTACTCACTTTAA
191 TCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGTCTAGTTACTCACTTTAA
* * * * *
2289648 GTGGTTTTATAAAT-TTATAACTGATTTTAAATCGCATTGTATTTTCATTTTTTGCTAAAACAGA
256 GTGGTTTTAT-AATCTTATAAATGATTTTAAATTGAATT-TATTTTCATTTTTGGTTAAAACAGA
**
2289712 TCATAATTTGATGTTTGCATGGG
319 TCATAATTTGATGTTTGCATTAG
* * * * * * * * *
2289735 GAAACGTGAAGTGAAGGCAATTCATTGATAGGAAAAGTCCATTTATCGTCACTCATACCTTCGGA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAA
* * * * *
2289800 AGCCTT-GTTAGTCACCTTAAGTAGTTTTATAACTTTATAAATGATTTTAGATTGTAA-TTTTTT
66 AGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTG-AATTTTTTT
** * * *
2289863 -ATTTTAGGCAAAAACAGATCATAATTTGATGTTTGCAATCGAAAACGTGAAGTC-AAAGCTATC
130 CATTTT-GGTTAAAACAGATCATAATTTGATGTTTGCATTAGAAAACGTGAAG-CGAAAGCCATC
* * * * * * * * * *
2289926 CATTGACAAGAAAAGTCTACTTATAGTCATTCATGCCTTCAAGAGACTCGTTCCCCACTTCAATT
193 CATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGTCTAGTTACTCACTTTAAGT
* * * * * * * ** *
2289991 GCTTTTATAACCGTATAAGTAATTTTAAATTGAATTTGTTTTCATTTCTCATTAAAACATATCAT
258 GGTTTTATAATCTTATAAATGATTTTAAATTGAATTTATTTTCATTTTTGGTTAAAACAGATCAT
* * *
2290056 AATTTGATGCTTGTATTGG
323 AATTTGATGTTTGCATTAG
* * * * *
2290075 GAAACATGAAGCAAAAGCCATCCTTTGACAGGAAAAGTCCATTTACT-GTCACTCATGCCTTTGA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTA-TAGTCACTCATGCCTTCGA
* ** * * * * *
2290139 ACGCC-TAGTTACTTACTTTAAATGATTTTATAA-TCTTATAGACGATTTT-AATT--TTTGTTT
65 AAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAATTGAATT-TTT
* * * * * * *
2290199 TTCATTTTAGGTTAAAGCATATGATAATTTGATGTTTACATTAGGATACGTGAAACGAAAGCCAT
128 TTCATTTT-GGTTAAAACAGATCATAATTTGATGTTTGCATTAGAAAACGTGAAGCGAAAGCCAT
* * * ** * * *
2290264 CCATTGACAAGAAAAGTCCATTTGTAGTAACTTATGCCTTTGAGAGCCTTGTTACT-AGCTTTAA
192 CCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGTCTAGTTACTCA-CTTTAA
* * * * * * *
2290328 GTGTTTTTATGA-CTCTATAAATAATTTCAAATTGAATTTGTTATCATTTTT--TTAAAAAAATA
256 GTGGTTTTATAATCT-TATAAATGATTTTAAATTGAATTTATTTTCATTTTTGGTT---AAAACA
*
2290390 GATCCTAATTTGATGTTTGCATT-G
317 GATCATAATTTGATGTTTGCATTAG
* * * * * *
2290414 GGATCTGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTTCACTTATAGTCACT-AGTGCATTCG
1 GAAAC-GTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA-TGCCTTCG
* * * ** * **
2290478 AAAGTC-GAGTTACTCACTTTAAACGGTTTTATAA-TCTCATAAATGATTTTAGCTTGAAATTTT
64 AAAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAATTG-AATTTT
** * * * * * *
2290541 TTTCATTTTTGGTTAAAGTAGATGATAATTGGATGTTTGCCTTAGGAAACGTGAAGCTAAAATCC
127 TTTCA-TTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAGAAAACGTGAAGC-GAAAGCC
* * * * * * *
2290606 ATCCCTTGAAAAGAAAAGTCCATTTATAGTGACTCATGCCTTCGAAAGTTTATTTACTCGCTTTA
190 ATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGTCTAGTTACTCACTTTA
* * * *
2290671 AGTGGTTTTATTA-CTTTATAAATGATTTGAAATTGAATTTGTTTTCATTTTT-GTTCAAACAGA
255 AGTGGTTTTATAATC-TTATAAATGATTTTAAATTGAATTTATTTTCATTTTTGGTTAAAACAGA
*
2290734 TCGTAATTTGATGTTTGCATT-G
319 TCATAATTTGATGTTTGCATTAG
* * * *
2290756 GAAAACGTGAAGCGAAAGCTATCCATTGACAAGAAAGGCCCATTTTTTA-TCACTC--GCACATT
1 G-AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCA-TTTATAGTCACTCATGC-C-TT
* * * *
2290818 CAAAAGCC-TAGTTACTCGCTTTAAATGGTTTTATAA-TCTTATCAATGATTTTAAGTTGAACTT
62 CGAAAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAATTGAA-TT
* ** * * * * *
2290881 TTTCTT-ATTGTTGGTTGAAATTGATCA-AAATTGAATGTTTGCCTCA-AGAATCGTGTAGCGAA
125 TTT-TTCATT-TTGGTTAAAACAGATCATAATTTG-ATGTTTGCATTAGA-AAACGTGAAGCGAA
* * * * * *
2290943 AGCCAACCATGGACAAGCAAAGTCCATTTATATTCACTCATGCCTTCGAAAGTTTAGTTACTCAC
186 AGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGTCTAGTTACTCAC
* * **
2291008 TTTAAGTGGTTTTATTA-CTTTATAAATGATTGTAAATTGAATGTT-TTTTCATTTTTCATTAAA
251 TTTAAGTGGTTTTATAATC-TTATAAATGATTTTAAATTGAAT-TTATTTTCATTTTTGGTTAAA
* * * * *
2291071 ATAGGTCATAATTTGACGTTTGCCTTAA
314 ACAGATCATAATTTGATGTTTGCATTAG
* * * * * * * * *
2291099 GAAATGTGAAGTGAAAGCCATCCATTAATAAGAAAGGTCTATTTATAATCATTCATGGCTTC-AA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAA
* * * *
2291163 GAGCCTT-GTTACTCCCTTTAATTGGTTTTATAACCTTATAAATAATTTTAAATTGAATTTGTTT
66 -AGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTT-TTT
* * * *
2291227 TCATTTTTCAG-TAAAACATACCATAATTTGATGTTTG-----GGAAACGTGAAGCGAAAGCCAT
129 TCA-TTTT-GGTTAAAACAGATCATAATTTGATGTTTGCATTAGAAAACGTGAAGCGAAAGCCAT
* * * * * * * *
2291286 CCATTGATAAGAAAAG-CTTATTTTTTGTCACTCGTGCATTTGAAAAGCCTAGTTACTCACTTTA
192 CCATTGACAAGAAAAGTC-CATTTATAGTCACTCATGC-CTTCAAAAGTCTAGTTACTCACTTTA
* * * * * * * *
2291350 AATGGTTTTATAATCCTATAAATAATTTTAAGTTGAATTTCTTTTTCTTTTTTAGTTAAAACTGA
255 AGTGGTTTTATAATCTTATAAATGATTTTAAATTGAATTT-ATTTTCATTTTTGGTTAAAACAGA
* ** *
2291415 TCACAATAGGATGTTTTTC-TT-G
319 TCATAATTTGATG-TTTGCATTAG
* * * * **
2291437 AGAAACATGCAGTGAAAGCCATCCATTTG-CAAGAAAAGTCCATTTATAGTCACTCATGTCTTTA
1 -GAAACGTGAAGCGAAAGCCATCCA-TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCG
* * *
2291501 AAAG-CTTTGTTACTCGCTTTAAGTGGTTTTATAACCTTATAAATGATTTTAAGTT-AATTTTTT
64 AAAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAA---TTT
* * *
2291564 TTTTCATTTTAGGTTAAAACAGATCATAATTTGATGTTTGCATTA-AGAAACATGAAGCAAAAGT
126 TTTTCATTTT-GGTTAAAACAGATCATAATTTGATGTTTGCATTAGA-AAACGTGAAGCGAAAGC
* ** * ** * *
2291628 CATCCATTGACAAGAAAAGTCCATTTATTGTCACTTGTGCATTTGAAAGTCTAGTTGCTCGCTTT
189 CATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGTCTAGTTACTCACTTT
* * *
2291693 AAATGGTTTTATAATCTCATAAATGATTTTAAGTTGAATTTATTTTCATTTTTGGTTAAAACAGA
254 AAGTGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTATTTTCATTTTTGGTTAAAACAGA
* * * *
2291758 TCTTAATTGGATGTTT-AACTTGG
319 TCATAATTTGATGTTTGCA-TTAG
* * * * * * *
2291781 GAAACGTAAAGCTAAAAGTCATCCATTAAAAAGAAAAGTCCATTTATAGTGACTCATGCCTTTGA
1 GAAACGTGAAGC-GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGA
* * * * *
2291846 AAGTC-TAGTTGCTCGCTTTAAGTGGATTTATAACTTTATAAATGATTCTAAATTTAATTTTTTT
65 AAGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTTTT
* ** * * * * * ** * * * * * *
2291910 TATTTGTCATTATAGCATATCATGATTTAACATTTACATTGGGAAACGTTAGGCGAAAGCTATCC
130 CATTT-TGGTTAAAACAGATCATAATTTGATGTTTGCATTAGAAAACGTGAAGCGAAAGCCATCC
** * * * * **
2291975 ATTGACAA-AAAAGTGTATTTATAGTCACTCATTCCTTTAAAAGTATTGTTACTTGCTTTAAGTG
194 ATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGTCTAGTTACTCACTTTAAGTG
* * * *
2292039 GTTTTATAA-CTTTATAAATGATTTTAACTAGAATTTATTTTCATTTTAGGTTAAAACAAATCAT
259 GTTTTATAATC-TTATAAATGATTTTAAATTGAATTTATTTTCATTTTTGGTTAAAACAGATCAT
* *
2292103 AATTTGATGTTTGCATCAA
323 AATTTGATGTTTGCATTAG
* * * *
2292122 GAAACGTGAAGCAAAAGCCATCCATCGACAA-AAAACGTCCATTTATAGTCACTTATGCCTTTGA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAA-GTCCATTTATAGTCACTCATGCCTTCGA
*
2292186 AAGCCTTA-TTAC-CTGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGATTTTTTT
65 AAGCCTTAGTTACTC-GCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGA-ATTTTT
* * *
2292249 TCTCATTTTAGGTTAAAACATATCATAATTTGATGTTTGCATTAGGAAACTTGAAG
128 T-TCATTTT-GGTTAAAACAGATCATAATTTGATGTTTGCATTAGAAAACGTGAAG
2292305 TGGACGCCTT
Statistics
Matches: 2609, Mismatches: 530, Indels: 229
0.77 0.16 0.07
Matches are distributed among these distances:
336 1 0.00
337 49 0.02
338 64 0.02
339 281 0.11
340 381 0.15
341 748 0.29
342 652 0.25
343 121 0.05
344 257 0.10
345 54 0.02
346 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (341 bp):
GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAA
AGCCTTAGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTTTTC
ATTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAGAAAACGTGAAGCGAAAGCCATCCAT
TGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGTCTAGTTACTCACTTTAAGTGGT
TTTATAATCTTATAAATGATTTTAAATTGAATTTATTTTCATTTTTGGTTAAAACAGATCATAAT
TTGATGTTTGCATTAG
Found at i:2289788 original size:172 final size:170
Alignment explanation
Indices: 2288710--2292304 Score: 2914
Period size: 171 Copynumber: 21.1 Consensus size: 170
2288700 TTTGTCTTGA
* *
2288710 GAAACGTGAAGCGAAAGCCATCCATTGACAA-AAAAGTACCATTTGTAGTAACTCATGCCTTTGA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGT-CCATTTATAGTCACTCATGCCTTTGA
* * * * *
2288774 GAGCCTTGTTACT-AGCTTTAAGTTGTTTTATGACTCTATAAAT-AGTTTCAAATTGAATTTGTT
65 AAGCCTTGTTACTCA-CTTTAAGTGGTTTTATAACTTTATAAATGA-TTTTAAATTGAATTT-TT
* * *
2288837 ATCATTTTTTGTTAAAACAGATCCTAATTTGATGTTTGCATT-G
127 TTCATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * * * * * * **
2288880 GGATCTGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCGACTTATAGTCACTCGTGCATTCAA
1 GAAAC-GTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGA
* ** ** * **
2288945 AAGTCGAGTTACTCACTTTAAACGGTTTTATAA-TATCATAAATGATTTTAGCTTGAAATTTTTT
65 AAGCCTTGTTACTCACTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAATTG-AATTTTTT
* * *
2289009 T-ATTTTTGGTTAAAACAGATTATAATTGGATGTTTGCCTTAG
128 TCATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * * * **
2289051 GAAACGTGAAGCTAAAATCCATCCCTTGACAAGAAAAGTCCATTTATAGTGACTCATGCCTACGA
1 GAAACGTGAAGC-GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGA
* * * *
2289116 AAG-TTTAGTTAGTCGCTTTAAGTGGTTTTATTACTTTATAAATGATTTTAAATTGAATTTGTTT
65 AAGCCTT-GTTACTCACTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTT-TTT
* *
2289180 TCATTTTT-GTTCAAACAGATCATGATTTGATGTTTGCATTAG
128 TCATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * * * * * ** * **
2289222 AAAATGTGAAGCGAAAGCTATCCATTGACAAGAAAAGAT-CATTTTTTGTCACTTACACATTCAA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAG-TCCATTTATAGTCACTCATGCCTTTGA
* * * * * * * *
2289286 AAGCCTGGTTACTCGCTTTAAATGGTTTTTTAA-TCTTCTCAATGATTTTAAGTTGAACTTTTTC
65 AAGCCTTGTTACTCACTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAATTGAA-TTTTTT
* * ** * * *
2289350 GCATTTTTGGTTGAAATTGATCATAA-TTGAATGTTTGCCTCAA
128 TCATTTTTGGTTAAAACAGATCATAATTTG-ATGTTTGCATTAG
* * * * * **
2289393 GAATCCTGTAA-CGAAAGCCAACCATTGACAAGCAAAGTCCATTTATATTCACTCATGCCTTCAA
1 GAAACGTG-AAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGA
* * * * * *
2289457 AAGCCTTGTTACTCGCTTTAAGTGGTTTTATAAATCTATGAATGGTTCTAAATT-AATTTTTTTT
65 AAGCCTTGTTACTCACTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAA--TTTTTT
* * * ** *
2289521 TCA-TTTAGGTTGAAACAGATCATAATTTGATATTTGCACCAA
128 TCATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * *
2289563 GAAGCCTGAAGCGAAA-CCAATGCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGA
1 GAAACGTGAAGCGAAAGCC-ATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGA
* * * * *
2289627 AAGCCTTCTTACTCACTTTAAGTGGTTTTATAAATTTATAACTGATTTTAAATCGCATTGTATTT
65 AAGCCTTGTTACTCACTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATT-T-TTT
* * **
2289692 TCATTTTTTGCTAAAACAGATCATAATTTGATGTTTGCATGGG
128 TCATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * * * * * * * * *
2289735 GAAACGTGAAGTGAAGGCAATTCATTGATAGGAAAAGTCCATTTATCGTCACTCATACCTTCGGA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAA
* * * *
2289800 AGCCTTGTTAGTCACCTTAAGTAGTTTTATAACTTTATAAATGATTTTAGATTGTAA-TTTTTT-
66 AGCCTTGTTACTCACTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTG-AATTTTTTTC
* ** * *
2289863 ATTTTAGGCAAAAACAGATCATAATTTGATGTTTGCAATCG
130 ATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * * * * *
2289904 AAAACGTGAAGTC-AAAGCTATCCATTGACAAGAAAAGTCTACTTATAGTCATTCATGCC-TTCA
1 GAAACGTGAAG-CGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGA
* * * * * * * ** * *
2289967 AGAGACTCGTTCCCCACTTCAATTGCTTTTATAACCGTATAAGTAATTTTAAATTGAATTTGTTT
65 A-AGCCTTGTTACTCACTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTT-TTT
* ** * * * *
2290032 TCATTTCTCATTAAAACATATCATAATTTGATGCTTGTATTGG
128 TCATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * * *
2290075 GAAACATGAAGCAAAAGCCATCCTTTGACAGGAAAAGTCCATTTACT-GTCACTCATGCCTTTGA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTA-TAGTCACTCATGCCTTTGA
* * * * * * * *
2290139 ACGCCTAGTTACTTACTTTAAATGATTTTATAA-TCTTATAGACGATTTT-AATT--TTTGTTTT
65 AAGCCTTGTTACTCACTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAATTGAATT-TTTT
* * * * *
2290200 TCATTTTAGGTTAAAGCATATGATAATTTGATGTTTACATTAG
128 TCATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * * * * *
2290243 GATACGTGAAACGAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTAACTTATGCCTTTGAG
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAA
* * * * * *
2290308 AGCCTTGTTACT-AGCTTTAAGTGTTTTTATGACTCTATAAATAATTTCAAATTGAATTTGTTAT
66 AGCCTTGTTACTCA-CTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTT-TTTT
* *
2290372 CATTTTT--TTAAAAAAATAGATCCTAATTTGATGTTTGCATT-G
129 CATTTTTGGTT---AAAACAGATCATAATTTGATGTTTGCATTAG
* * * * * * *
2290414 GGATCTGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTTCACTTATAGTCACT-AGTGCATTCG
1 GAAAC-GTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA-TGCCTTTG
* ** ** * **
2290478 AAAGTCGAGTTACTCACTTTAAACGGTTTTATAA-TCTCATAAATGATTTTAGCTTGAAATTTTT
64 AAAGCCTTGTTACTCACTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAATTG-AATTTTT
** * * *
2290542 TTCATTTTTGGTTAAAGTAGATGATAATTGGATGTTTGCCTTAG
127 TTCATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * * * * *
2290586 GAAACGTGAAGCTAAAATCCATCCCTTGAAAAGAAAAGTCCATTTATAGTGACTCATGCCTTCGA
1 GAAACGTGAAGC-GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGA
* * * * *
2290651 AAG-TTTATTTACTCGCTTTAAGTGGTTTTATTACTTTATAAATGATTTGAAATTGAATTTGTTT
65 AAGCCTT-GTTACTCACTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTT-TTT
* *
2290715 TCATTTTT-GTTCAAACAGATCGTAATTTGATGTTTGCATT-G
128 TCATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * * *
2290756 GAAAACGTGAAGCGAAAGCTATCCATTGACAAGAAAGGCCCATTTTTTA-TCACTC--GCACATT
1 G-AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCA-TTTATAGTCACTCATGC-C-TT
** * * * * *
2290818 CAAAAGCCTAGTTACTCGCTTTAAATGGTTTTATAA-TCTTATCAATGATTTTAAGTTGAACTTT
62 TGAAAGCCTTGTTACTCACTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAATTGAA-TTT
* * ** * * * *
2290882 TTCTT-ATTGTTGGTTGAAATTGATCA-AAATTGAATGTTTGCCTCAA
125 TT-TTCATTTTTGGTTAAAACAGATCATAATTTG-ATGTTTGCATTAG
* * * * * * *
2290928 GAATCGTGTAGCGAAAGCCAACCATGGACAAGCAAAGTCCATTTATATTCACTCATGCCTTCGAA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAA
* * *
2290993 AG-TTTAGTTACTCACTTTAAGTGGTTTTATTACTTTATAAATGATTGTAAATTGAATGTTTTTT
66 AGCCTT-GTTACTCACTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAAT-TTTTTT
** * * * * *
2291057 CATTTTTCATTAAAATAGGTCATAATTTGACGTTTGCCTTAA
129 CATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * * * * * * * * *
2291099 GAAATGTGAAGTGAAAGCCATCCATTAATAAGAAAGGTCTATTTATAATCATTCATGGC-TTCAA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAA
* * * *
2291163 GAGCCTTGTTACTCCCTTTAATTGGTTTTATAACCTTATAAATAATTTTAAATTGAATTTGTTTT
66 -AGCCTTGTTACTCACTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTT-TTTT
* * *
2291228 CATTTTTCAG-TAAAACATACCATAATTTGATGTTTG-----G
129 CATTTTT-GGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * * * * *
2291265 GAAACGTGAAGCGAAAGCCATCCATTGATAAGAAAAG-CTTATTTTTTGTCACTCGTGCATTTGA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTC-CATTTATAGTCACTCATGCCTTTG-
* * * * *
2291329 AAAGCCTAGTTACTCACTTTAAATGGTTTTATAA-TCCTATAAATAATTTTAAGTTGAATTTCTT
64 AAAGCCTTGTTACTCACTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAATTGAA-TT-TT
* * * * ** *
2291393 TTTCTTTTTTAGTTAAAACTGATCACAATAGGATGTTTTTC-TT-G
126 TTTCATTTTTGGTTAAAACAGATCATAATTTGATG-TTTGCATTAG
* * * * *
2291437 AGAAACATGCAGTGAAAGCCATCCATTTG-CAAGAAAAGTCCATTTATAGTCACTCATGTCTTTA
1 -GAAACGTGAAGCGAAAGCCATCCA-TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTG
* * * *
2291501 AAAGCTTTGTTACTCGCTTTAAGTGGTTTTATAACCTTATAAATGATTTTAAGTT-AATTTTTTT
64 AAAGCCTTGTTACTCACTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAA---TTTT
* *
2291565 TTTCATTTTAGGTTAAAACAGATCATAATTTGATGTTTGCATTAA
126 TTTCATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * * * ** *
2291610 GAAACATGAAGCAAAAGTCATCCATTGACAAGAAAAGTCCATTTATTGTCACTTGTGCATTTGAA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAA
* * * * * * *
2291675 AGTCTAGTTGCTCGCTTTAAATGGTTTTATAA-TCTCATAAATGATTTTAAGTTGAATTTATTTT
66 AGCCTTGTTACTCACTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAATTGAATTT-TTTT
* * * *
2291739 CATTTTTGGTTAAAACAGATCTTAATTGGATGTTT-AACTTGG
129 CATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCA-TTAG
* * * * * *
2291781 GAAACGTAAAGCTAAAAGTCATCCATTAAAAAGAAAAGTCCATTTATAGTGACTCATGCCTTTGA
1 GAAACGTGAAGC-GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGA
* * * * * * * *
2291846 AAGTCTAGTTGCTCGCTTTAAGTGGATTTATAACTTTATAAATGATTCTAAATTTAATTTTTTTT
65 AAGCCTTGTTACTCACTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTTTTC
* ** * * * * * ** * *
2291911 ATTTGTCATTATAGCATATCATGATTTAACATTTACATTGG
130 ATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * * ** * *
2291952 GAAACGTTAGGCGAAAGCTATCCATTGACAA-AAAAGTGTATTTATAGTCACTCATTCCTTTAAA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAA
** ** * *
2292016 AGTATTGTTACTTGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAACTAGAATTTATTTTC
66 AGCCTTGTTACTCACTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTT-TTTTC
* * * *
2292081 ATTTTAGGTTAAAACAAATCATAATTTGATGTTTGCATCAA
130 ATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
* * *
2292122 GAAACGTGAAGCAAAAGCCATCCATCGACAA-AAAACGTCCATTTATAGTCACTTATGCCTTTGA
1 GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAA-GTCCATTTATAGTCACTCATGCCTTTGA
* * *
2292186 AAGCCTTATTAC-CTGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGATTTTTTTT
65 AAGCCTTGTTACTC-ACTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGA-ATTTTTT
* *
2292250 CTCATTTTAGGTTAAAACATATCATAATTTGATGTTTGCATTAG
128 -TCATTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
*
2292294 GAAACTTGAAG
1 GAAACGTGAAG
2292305 TGGACGCCTT
Statistics
Matches: 2720, Mismatches: 586, Indels: 236
0.77 0.17 0.07
Matches are distributed among these distances:
165 1 0.00
166 46 0.02
167 55 0.02
168 161 0.06
169 221 0.08
170 469 0.17
171 987 0.36
172 710 0.26
173 64 0.02
174 6 0.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (170 bp):
GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAA
AGCCTTGTTACTCACTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAATTGAATTTTTTTCA
TTTTTGGTTAAAACAGATCATAATTTGATGTTTGCATTAG
Found at i:2291977 original size:853 final size:845
Alignment explanation
Indices: 2288887--2292174 Score: 2418
Period size: 853 Copynumber: 3.9 Consensus size: 845
2288877 TTGGGATCTG
* * * * * * *
2288887 TGAAGC-AAAAGCCATCCATTGACAAGAAAAGTCGACTTATAGTCACTCGTGCATTCAAAAG-TC
1 TGAAGCTAAAAGCCATCCCTTGAAAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCT-
** * ** * *
2288950 GAGTTACTCACTTTAAACGGTTTTATAA-TATCATAAATGATTTT-AGCTTGAA--ATTTTTTT-
65 TTGTTACTCGCTTTAAGTGGTTTTATAACT-TTATAAATGATTTTAAG-TT-AATTTTTTTTTTC
* * * * * * *
2289010 ATTTTTGGTTAAAACAGATTATAATTGGATGTTTGCCTTAGGAAACGTGAAGCTAAAATCCATCC
127 ATTTTAGGTTAAAACAGATCATAATTTGATGTTTGCATTAGAAAACGTGAAGC--AAAGCTATCC
* * * ** * *** ** * *
2289075 CTTGACAAGAAAAGTCCATTTATAGTGACTCATGCCTACGAAAGTTTAGTTAGTCGCTTTAAGTG
190 ATTGACAAGAAAAGTCCATTTATTGTCACTTGTGCATTTAAAAGACTAGTTACTCGCTTTAAATG
* * * * *
2289140 GTTTTATTACTTTATAAATGATTTTAAATTGAATTTGTTTTCATTTTT-GTTCAAACAGATCATG
255 GTTTTA-TAATCTATAAATGATTTTAAGTTGAATTT-TTTTCATTTTTGGTTAAAACAGATCATA
* * * * * * * *
2289204 ATTTGATGTTTGCATTAGAAAATGTGAAGCGAAAGCTATCCATTGACAAGAAAAGAT-CATTTTT
318 ATTGGATGTTTAC-TTGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAG-TCCATTTAT
* * ** * ** * * * * * * * *
2289268 TGTCACTTACACATTCAAAAGCCTGGTTACTCGCTTTAAATGGTTTTTTAA-TCTTCTCAATGAT
381 AGTCACTCATGCCTTTGAAAGTCTAGTTACTCACTTTAAGTGGATTTATAACT-TTATAAATGA-
* * ** ** * * * * *
2289332 TTTAAGTTGAACTTTTTCGCATTTTTGGTTGAA--ATTGATCATAA-TTGAATGTTTGCCTCAAG
444 TTTAAATTTAA-TTTTTTTCA-TTTTCATT-AAGCA-T-ATCATAATTTG-ACGTTTACATTAGG
* * * * * * * * *
2289394 AATCCTGTAA-CGAAAGCCAACCATTGACAAGCAAAGTCCATTTATATTCACTCATGCCTTCAAA
503 AAACGTG-AAGCGAAAGCCATCCATTGACAAGAAAAGTCTATTTATAGTCATTCATGCCTTTAAG
* * * ** * *
2289458 AGCCTTGTTACTCGCTTTAAGTGGTTTTATAA-ATCTATGAATGGTTCTAAATT-AATTTTTTTT
567 AGCCTTGTTACTAGCTTTAAGTGGTTTTATAACCT-TATAAATAATTTTAAATTGAA-TTTGTTT
* * * * ** * * *
2289521 TCA--TTTAGGTTGAAACAGATCATAATTTGATATTTGCACCAAGAAGC-CTGAAGCGAAA-CCA
630 TCATTTTTA-G-TAAAACAAACCATAATTTGATGTTTG----TGGAAACTGTGAAGCAAAAGCC-
* * * * * ***
2289582 ATGCATTGACAAGAAAAGTCCATTTATAGTCACTCA-TGCCTTTGAAAGCCTTCTTACTCACTTT
688 ATCCATTGACAAGAAAAGTTCACTTATAGTCACT-AGTGCATTCGAAAGCCGAGTTACTCACTTT
** * * * ** * * * *
2289646 AAGTGGTTTTATAAAT-TTATAACTGATTTTAAATCG-CATTGTATTTTCATTTTTTGCTAAAAC
752 AAACGGTTTTAT-AATCTCATAAATAATTTTAGCTTGAAATT-T-TTTTCATTTTTAG-TTAAAC
* ** * ** *
2289709 -AGATCATAATTTGATGTTTGCATGGGGAAACG
813 TAGATCACAATAGGATGTTTGCCTTAGGAAACA
* * * * * * * * * * *
2289741 TGAAG-TGAAGGCAATTCATTGATAGGAAAAGTCCATTTATCGTCACTCATACCTTCGGAAGCCT
1 TGAAGCTAAAAGCCATCCCTTGAAAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCTT
* * * * *
2289805 TGTTAGTCACCTTAAGTAGTTTTATAACTTTATAAATGATTTT-AG---ATTGTAATTTTTT-AT
66 TGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAGTTAATT-T-TTTTTTTCAT
** * *
2289865 TTTAGGCAAAAACAGATCATAATTTGATGTTTGCAATCGAAAACGTGAAGTCAAAGCTATCCATT
129 TTTAGGTTAAAACAGATCATAATTTGATGTTTGCATTAGAAAACGTGAAG-CAAAGCTATCCATT
* * * * * * * * * * * * * *
2289930 GACAAGAAAAGTCTACTTATAGTCA-TTCATGCCTTCAAGAGACTCGTTCCCCACTTCAATTGCT
193 GACAAGAAAAGTCCATTTATTGTCACTT-GTGCATTTAAAAGACTAGTTACTCGCTTTAAATGGT
* * * * * ** *
2289994 TTTATAACCGTATAAGTAATTTTAAATTGAATTTGTTTTCATTTCTCATTAAAACATATCATAAT
257 TTTATAATC-TATAAATGATTTTAAGTTGAATTT-TTTTCATTTTTGGTTAAAACAGATCATAAT
* * * *
2290059 TTGATGCTTGTA-TTGGGAAACATGAAGCAAAAGCCATCCTTTGACAGGAAAAGTCCATTTACT-
320 TGGATG-TT-TACTTGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTA-TA
* * * * * *
2290122 GTCACTCATGCCTTTGAACGCCTAGTTACTTACTTTAAAT-GATTTTATAA-TCTTATAGACGAT
382 GTCACTCATGCCTTTGAAAGTCTAGTTACTCACTTTAAGTGGA-TTTATAACT-TTATAAATGAT
* * * *
2290185 TTTAATTT--TTGTTTTTCATTTT-AGGTTAAAGCATATGATAATTTGATGTTTACATTAGGATA
445 TTAAATTTAATT-TTTTTCATTTTCA--TT-AAGCATATCATAATTTGACGTTTACATTAGGAAA
* * * * *
2290247 CGTGAAACGAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTAACTT-ATGCCTTTGAGAGC
506 CGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCTATTTATAGTCA-TTCATGCCTTTAAGAGC
* * * *
2290311 CTTGTTACTAGCTTTAAGTGTTTTTATGA-CTCTATAAATAATTTCAAATTGAATTTGTTATCAT
570 CTTGTTACTAGCTTTAAGTGGTTTTATAACCT-TATAAATAATTTTAAATTGAATTTGTTTTCAT
* * * *
2290375 TTTT-TTAAAAAAATAGATCC-TAATTTGATGTTTGCATTGGGATCTGTGAAGCAAAAGCCATCC
634 TTTTAGT-AAAACA-A-A-CCATAATTTGATGTTTG---TGGAAACTGTGAAGCAAAAGCCATCC
*
2290438 ATTGACAAGAAAAGTTCACTTATAGTCACTAGTGCATTCGAAAGTCGAGTTACTCACTTTAAACG
692 ATTGACAAGAAAAGTTCACTTATAGTCACTAGTGCATTCGAAAGCCGAGTTACTCACTTTAAACG
* * * * *
2290503 GTTTTATAATCTCATAAATGATTTTAGCTTGAAATTTTTTTCATTTTTGGTTAAAGTAGATGATA
757 GTTTTATAATCTCATAAATAATTTTAGCTTGAAATTTTTTTCATTTTTAGTTAAACTAGATCACA
* *
2290568 ATTGGATGTTTGCCTTAGGAAACG
822 ATAGGATGTTTGCCTTAGGAAACA
* *
2290592 TGAAGCTAAAATCCATCCCTTGAAAAGAAAAGTCCATTTATAGTGACTCATGCCTTCGAAAG-TT
1 TGAAGCTAAAAGCCATCCCTTGAAAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCTT
* * * * *
2290656 TATTTACTCGCTTTAAGTGGTTTTATTACTTTATAAATGATTTGAAATTGAA--TTTGTTTTCAT
66 T-GTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAGTT-AATTTTTTTTTTCAT
* * * *
2290719 TTT-TGTTCAAACAGATCGTAATTTGATGTTTGCATTGGAAAACGTGAAGCGAAAGCTATCCATT
129 TTTAGGTTAAAACAGATCATAATTTGATGTTTGCATTAGAAAACGTGAAGC-AAAGCTATCCATT
* * * * * ** * *
2290783 GACAAGAAAGGCCCATTTTTTATCACTCGCACATTCAAAAGCCTAGTTACTCGCTTTAAATGGTT
193 GACAAGAAAAGTCCATTTATTGTCACTTGTGCATTTAAAAGACTAGTTACTCGCTTTAAATGGTT
* * * ** *
2290848 TTATAATCTTATCAATGATTTTAAGTTGAACTTTTTCTT-ATTGTTGGTTGAAATTGATCAAAAT
258 TTATAATC-TATAAATGATTTTAAGTTGAA-TTTTT-TTCATTTTTGGTTAAAACAGATCATAAT
* * *** * * * * * * *
2290912 TGAATGTTTGCCTCAAGAATCGTGTAGCGAAAGCCAACCATGGACAAGCAAAGTCCATTTATATT
320 TGGATGTTT-ACTTGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGT
* * * *
2290977 CACTCATGCCTTCGAAAGTTTAGTTACTCACTTTAAGTGGTTTTATTACTTTATAAATGATTGTA
384 CACTCATGCCTTTGAAAGTCTAGTTACTCACTTTAAGTGGATTTATAACTTTATAAATGATT-TA
* * * * * *
2291042 AATTGAATGTTTTTTCATTTTTCATTAA-AATAGGTCATAATTTGACGTTTGCCTTAAGAAATGT
448 AATTTAAT-TTTTTTCA-TTTTCATTAAGCATA--TCATAATTTGACGTTTACATTAGGAAACGT
* * * * * * *
2291106 GAAGTGAAAGCCATCCATTAATAAGAAAGGTCTATTTATAATCATTCATGGCTTCAAGAGCCTTG
509 GAAGCGAAAGCCATCCATTGACAAGAAAAGTCTATTTATAGTCATTCATGCCTTTAAGAGCCTTG
** *
2291171 TTACTCCCTTTAATTGGTTTTATAACCTTATAAATAATTTTAAATTGAATTTGTTTTCATTTTTC
574 TTACTAGCTTTAAGTGGTTTTATAACCTTATAAATAATTTTAAATTGAATTTGTTTTCATTTTT-
* * *
2291236 AGTAAAACATACCATAATTTGATGTTTG-GGAAAC-GTGAAGCGAAAGCCATCCATTGATAAGAA
638 AGTAAAACAAACCATAATTTGATGTTTGTGGAAACTGTGAAGCAAAAGCCATCCATTGACAAGAA
* * * * * * *
2291299 AAGCTT-ATTTTTTGTCACTCGTGCATTTGAAAAGCCTAGTTACTCACTTTAAATGGTTTTATAA
703 AAG-TTCACTTATAGTCACTAGTGCATTCG-AAAGCCGAGTTACTCACTTTAAACGGTTTTATAA
* *
2291363 TC-CTATAAATAATTTTAAG-TTGAATTTCTTTTTCTTTTTTAGTTAAAACT-GATCACAATAGG
766 TCTC-ATAAATAATTTT-AGCTTGAAATT-TTTTTCATTTTTAGTT-AAACTAGATCACAATAGG
**
2291425 ATGTTTTTCTT-GAGAAACA
827 ATGTTTGCCTTAG-GAAACA
* * * * * **
2291444 TGCAG-TGAAAGCCATCCATTTG-CAAGAAAAGTCCATTTATAGTCACTCATGTCTTTAAAAGCT
1 TGAAGCTAAAAGCCATCC-CTTGAAAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCT
*
2291507 TTGTTACTCGCTTTAAGTGGTTTTATAACCTTATAAATGATTTTAAGTTAATTTTTTTTTTCATT
65 TTGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAGTTAATTTTTTTTTTCATT
*
2291572 TTAGGTTAAAACAGATCATAATTTGATGTTTGCATTA-AGAAACATGAAGCAAAAG-TCATCCAT
130 TTAGGTTAAAACAGATCATAATTTGATGTTTGCATTAGA-AAACGTGAAGC-AAAGCT-ATCCAT
* * *
2291635 TGACAAGAAAAGTCCATTTATTGTCACTTGTGCATTTGAAAGTCTAGTTGCTCGCTTTAAATGGT
192 TGACAAGAAAAGTCCATTTATTGTCACTTGTGCATTTAAAAGACTAGTTACTCGCTTTAAATGGT
*
2291700 TTTATAATCTCATAAATGATTTTAAGTTGAATTTATTTTCATTTTTGGTTAAAACAGATCTTAAT
257 TTTATAATCT-ATAAATGATTTTAAGTTGAATTT-TTTTCATTTTTGGTTAAAACAGATCATAAT
* * * *
2291765 TGGATGTTTAACTTGGGAAACGTAAAGCTAAAAGTCATCCATTAAAAAGAAAAGTCCATTTATAG
320 TGGATGTTT-ACTTGGGAAACGTGAAGC-AAAAGCCATCCATTGACAAGAAAAGTCCATTTATAG
* * *
2291830 TGACTCATGCCTTTGAAAGTCTAGTTGCTCGCTTTAAGTGGATTTATAACTTTATAAATGATTCT
383 TCACTCATGCCTTTGAAAGTCTAGTTACTCACTTTAAGTGGATTTATAACTTTATAAATGATT-T
* * * * * *
2291895 AAATTTAATTTTTTTTATTTGTCATTATAGCATATCATGATTTAACATTTACATTGGGAAACGTT
447 AAATTTAATTTTTTTCATTT-TCATTA-AGCATATCATAATTTGACGTTTACATTAGGAAACGTG
* * * * * * **
2291960 AGGCGAAAGCTATCCATTGACAA-AAAAGTGTATTTATAGTCACTCATTCCTTTAAAAGTATTGT
510 AAGCGAAAGCCATCCATTGACAAGAAAAGTCTATTTATAGTCATTCATGCCTTTAAGAGCCTTGT
* * * * * *
2292024 TACTTGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAACTAGAATTTATTTTCA-TTTTAG
575 TACTAGCTTTAAGTGGTTTTATAACCTTATAAATAATTTTAAATTGAATTTGTTTTCATTTTTA-
* * *
2292088 GTTAAAACAAATCATAATTTGATGTTTGCATCAAGAAAC-GTGAAGCAAAAGCCATCCATCGACA
639 G-TAAAACAAACCATAATTTGATGTTTG--T--GGAAACTGTGAAGCAAAAGCCATCCATTGACA
* *
2292152 A-AAAACGTCCATTTATAGTCACT
699 AGAAAA-GTTCACTTATAGTCACT
2292175 TATGCCTTTG
Statistics
Matches: 1917, Mismatches: 420, Indels: 191
0.76 0.17 0.08
Matches are distributed among these distances:
849 10 0.01
850 184 0.10
851 213 0.11
852 467 0.24
853 618 0.32
854 204 0.11
855 24 0.01
856 142 0.07
857 53 0.03
858 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (845 bp):
TGAAGCTAAAAGCCATCCCTTGAAAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCTT
TGTTACTCGCTTTAAGTGGTTTTATAACTTTATAAATGATTTTAAGTTAATTTTTTTTTTCATTT
TAGGTTAAAACAGATCATAATTTGATGTTTGCATTAGAAAACGTGAAGCAAAGCTATCCATTGAC
AAGAAAAGTCCATTTATTGTCACTTGTGCATTTAAAAGACTAGTTACTCGCTTTAAATGGTTTTA
TAATCTATAAATGATTTTAAGTTGAATTTTTTTCATTTTTGGTTAAAACAGATCATAATTGGATG
TTTACTTGGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
GCCTTTGAAAGTCTAGTTACTCACTTTAAGTGGATTTATAACTTTATAAATGATTTAAATTTAAT
TTTTTTCATTTTCATTAAGCATATCATAATTTGACGTTTACATTAGGAAACGTGAAGCGAAAGCC
ATCCATTGACAAGAAAAGTCTATTTATAGTCATTCATGCCTTTAAGAGCCTTGTTACTAGCTTTA
AGTGGTTTTATAACCTTATAAATAATTTTAAATTGAATTTGTTTTCATTTTTAGTAAAACAAACC
ATAATTTGATGTTTGTGGAAACTGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTTCACTTATA
GTCACTAGTGCATTCGAAAGCCGAGTTACTCACTTTAAACGGTTTTATAATCTCATAAATAATTT
TAGCTTGAAATTTTTTTCATTTTTAGTTAAACTAGATCACAATAGGATGTTTGCCTTAGGAAACA
Found at i:2298172 original size:19 final size:19
Alignment explanation
Indices: 2298148--2298186 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2298138 ATTATTTTAA
2298148 TATTATTTTA-TCCAATAAT
1 TATTATTTTATTCCAA-AAT
2298167 TATTATTTTATTCCAAAAT
1 TATTATTTTATTCCAAAAT
2298186 T
1 T
2298187 TTCCTCTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTATTTTATTCCAAAAT
Done.