Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 31 of 344
Found at i:10750186 original size:33 final size:33
Alignment explanation
Indices: 10750149--10750226 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 33
10750139 TCCAGTTATC
* * *
10750149 CTGGCTCGTATCCACCTCAGTACTCCGCTCCTT
1 CTGGCCCGTATCCACCGCAGTACTCCACTCCTT
* * *
10750182 CTGGCCCGTATCCATCGCCGTACTCCACTCCTC
1 CTGGCCCGTATCCACCGCAGTACTCCACTCCTT
*
10750215 CCGGCCCGTATC
1 CTGGCCCGTATC
10750227 AATCATCGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.12, C:0.46, G:0.17, T:0.26
Consensus pattern (33 bp):
CTGGCCCGTATCCACCGCAGTACTCCACTCCTT
Found at i:10750237 original size:33 final size:33
Alignment explanation
Indices: 10750168--10750252 Score: 116
Period size: 33 Copynumber: 2.6 Consensus size: 33
10750158 ATCCACCTCA
* * * * *
10750168 GTACTCCGCTCCTTCTGGCCCGTATCCATCGCC
1 GTACTCCACTCCTCCCGGCCCGTATCAATCACC
*
10750201 GTACTCCACTCCTCCCGGCCCGTATCAATCATC
1 GTACTCCACTCCTCCCGGCCCGTATCAATCACC
10750234 GTACTCCACTCCTCCCGGC
1 GTACTCCACTCCTCCCGGC
10750253 TCAAGTTCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.13, C:0.47, G:0.15, T:0.25
Consensus pattern (33 bp):
GTACTCCACTCCTCCCGGCCCGTATCAATCACC
Found at i:10753824 original size:18 final size:18
Alignment explanation
Indices: 10753803--10753837 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10753793 ATACAAATAA
* *
10753803 TACAATTAATATTAACAT
1 TACAAATAATATAAACAT
10753821 TACAAATAATATAAACA
1 TACAAATAATATAAACA
10753838 ATAAAAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (18 bp):
TACAAATAATATAAACAT
Found at i:10753840 original size:27 final size:27
Alignment explanation
Indices: 10753789--10753840 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
10753779 ATAAGTAACC
**
10753789 AACAATACAAATAATACAATTAATATT
1 AACAATACAAATAATACAAACAATATT
* *
10753816 AACATTACAAATAATATAAACAATA
1 AACAATACAAATAATACAAACAATA
10753841 AAAAAATGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (27 bp):
AACAATACAAATAATACAAACAATATT
Found at i:10754579 original size:32 final size:35
Alignment explanation
Indices: 10754543--10754614 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 35
10754533 GACTACTAAG
10754543 GTAAAT-CCCTTC-T-TTTTATTTTAAAATTTCAT
1 GTAAATCCCCTTCTTCTTTTATTTTAAAATTTCAT
*
10754575 GTAAATCCCCTTCTTTCTTTTGTTTTAAAATTTCAT
1 GTAAATCCCCTTC-TTCTTTTATTTTAAAATTTCAT
10754611 GTAA
1 GTAA
10754615 TCCTAAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
32 6 0.17
33 6 0.17
35 1 0.03
36 22 0.63
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (35 bp):
GTAAATCCCCTTCTTCTTTTATTTTAAAATTTCAT
Found at i:10756782 original size:27 final size:27
Alignment explanation
Indices: 10756744--10756811 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
10756734 TGTGGGCCCC
* *
10756744 ACCATTTGCGCCTCTGGGATAGGCACA
1 ACCATTTGCGCCTCTGAGATAGGCAAA
10756771 ACCATTTGCGCCTCTGAGATAGGCAAA
1 ACCATTTGCGCCTCTGAGATAGGCAAA
*
10756798 ACCATTTGCACCTC
1 ACCATTTGCGCCTC
10756812 AAAGAAAGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.24
Consensus pattern (27 bp):
ACCATTTGCGCCTCTGAGATAGGCAAA
Found at i:10756821 original size:27 final size:27
Alignment explanation
Indices: 10756764--10756821 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
10756754 CCTCTGGGAT
* * ** *
10756764 AGGCACAACCATTTGCGCCTCTGAGAT
1 AGGCAAAACCATTTGCACCTCAAAGAA
10756791 AGGCAAAACCATTTGCACCTCAAAGAA
1 AGGCAAAACCATTTGCACCTCAAAGAA
10756818 AGGC
1 AGGC
10756822 TCGATTAGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (27 bp):
AGGCAAAACCATTTGCACCTCAAAGAA
Found at i:10757391 original size:30 final size:30
Alignment explanation
Indices: 10757356--10757415 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
10757346 TCATTTTCTA
10757356 AGAAAATAAAAAAGAAAATACCTTCTAATT
1 AGAAAATAAAAAAGAAAATACCTTCTAATT
10757386 AGAAAATAAAAAAGAAAATACCTTCTAATT
1 AGAAAATAAAAAAGAAAATACCTTCTAATT
10757416 CTTAAAACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (30 bp):
AGAAAATAAAAAAGAAAATACCTTCTAATT
Found at i:10768015 original size:19 final size:19
Alignment explanation
Indices: 10767991--10768030 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10767981 TAACCTTTCA
*
10767991 TAATAACTTT-ATTATTATT
1 TAATAA-TTTAATAATTATT
10768010 TAATAATTTAATAATTATT
1 TAATAATTTAATAATTATT
10768029 TA
1 TA
10768031 TAAATTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATAATTTAATAATTATT
Found at i:10768289 original size:10 final size:10
Alignment explanation
Indices: 10768276--10768421 Score: 50
Period size: 10 Copynumber: 14.3 Consensus size: 10
10768266 AAAAACTCTT
10768276 AAAAATTATA
1 AAAAATTATA
* *
10768286 AAAAATAAGA
1 AAAAATTATA
*
10768296 AAAAATTACA
1 AAAAATTATA
10768306 AAAATATTAAATA
1 AAAA-ATT--ATA
*
10768319 TTAAAAATGATA
1 --AAAAATTATA
** *
10768331 TCAACTTAT-
1 AAAAATTATA
*
10768340 TAAAATTATA
1 AAAAATTATA
*
10768350 ATAATAACTATA
1 A-AA-AATTATA
*
10768362 ATAAAAATATA
1 A-AAAATTATA
* *
10768373 AAAACTTGT-
1 AAAAATTATA
*
10768382 AAATATTAT-
1 AAAAATTATA
*
10768391 AAAAA-TAGA
1 AAAAATTATA
*
10768400 TAAAA-TATA
1 AAAAATTATA
10768409 AAAAATTATA
1 AAAAATTATA
10768419 AAA
1 AAA
10768422 TTAATAAAAC
Statistics
Matches: 100, Mismatches: 26, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
8 2 0.02
9 28 0.28
10 37 0.37
11 12 0.12
12 13 0.13
13 2 0.02
14 2 0.02
15 4 0.04
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:10768428 original size:9 final size:9
Alignment explanation
Indices: 10768389--10768451 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
10768379 TGTAAATATT
*
10768389 ATAAAAATA
1 ATAAAATTA
10768398 GATAAAATATA
1 -ATAAAAT-TA
10768409 A-AAAATT-
1 ATAAAATTA
10768416 ATAAAATTA
1 ATAAAATTA
10768425 ATAAAACTTA
1 ATAAAA-TTA
* *
10768435 TTTAAATTA
1 ATAAAATTA
10768444 A-AAAATTA
1 ATAAAATTA
10768452 TTAGAATTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
7 1 0.02
8 13 0.30
9 14 0.32
10 14 0.32
11 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
ATAAAATTA
Found at i:10768428 original size:19 final size:20
Alignment explanation
Indices: 10768406--10768496 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
10768396 TAGATAAAAT
10768406 ATAAAAAATTA-TAAAATTA
1 ATAAAAAATTATTAAAATTA
* *
10768425 AT-AAAACTTATTTAAA-T-
1 ATAAAAAATTATTAAAATTA
* *
10768442 -TAAAAAATTATTAGAATTC
1 ATAAAAAATTATTAAAATTA
* *
10768461 TTAAAAAATAATTAAAATGTA
1 ATAAAAAATTATTAAAAT-TA
10768482 A-AAAAAATTA-TAAAA
1 ATAAAAAATTATTAAAA
10768497 AAAATAAAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
16 1 0.02
17 11 0.20
18 9 0.16
19 11 0.20
20 23 0.41
21 1 0.02
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAAAAATTATTAAAATTA
Found at i:10771905 original size:20 final size:21
Alignment explanation
Indices: 10771859--10771908 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
10771849 TTTTAATTTT
*
10771859 TATGATTTTTATAGAATCTTAA
1 TATG-TTTTTATAAAATCTTAA
*
10771881 TATGTTTTTATAAAATTTTAA
1 TATGTTTTTATAAAATCTTAA
10771902 -ATGTTTT
1 TATGTTTT
10771909 AAATATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (21 bp):
TATGTTTTTATAAAATCTTAA
Found at i:10772075 original size:19 final size:20
Alignment explanation
Indices: 10772028--10772076 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
10772018 ATATTTCTAA
10772028 TATTTAATAA-TTTTTATAT
1 TATTTAATAATTTTTTATAT
* *
10772047 TATTTGATAATTTTTTTTAT
1 TATTTAATAATTTTTTATAT
10772067 T-TTTAATAAT
1 TATTTAATAAT
10772077 CCTTTTTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTTAATAATTTTTTATAT
Found at i:10772448 original size:19 final size:20
Alignment explanation
Indices: 10772420--10772464 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
10772410 GTTTTAAATT
10772420 ATTTTTAAT-ATATT-TATA
1 ATTTTTAATAATATTATATA
*
10772438 ATTTTTAAATAATTTTATATA
1 ATTTTT-AATAATATTATATA
10772459 ATTTTT
1 ATTTTT
10772465 TAGTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 3 0.13
20 4 0.17
21 10 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTAATAATATTATATA
Found at i:10774969 original size:29 final size:31
Alignment explanation
Indices: 10774913--10774973 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
10774903 TGGGTTAGGA
*
10774913 TGGGAGAGGAGTAAAAGTGTTAAGGGAAAAG
1 TGGGAGAGGAGTAAAAATGTTAAGGGAAAAG
**
10774944 TGGGAG-GGAGTAAAAAT-TTTGGGGAAAAG
1 TGGGAGAGGAGTAAAAATGTTAAGGGAAAAG
10774973 T
1 T
10774974 AAATAGGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 11 0.41
30 10 0.37
31 6 0.22
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (31 bp):
TGGGAGAGGAGTAAAAATGTTAAGGGAAAAG
Found at i:10775065 original size:124 final size:125
Alignment explanation
Indices: 10774940--10775167 Score: 345
Period size: 124 Copynumber: 1.8 Consensus size: 125
10774930 TGTTAAGGGA
* * * * *
10774940 AAAGTGGGAGGGAGTAAAAATTTTGG-GGAAAAGTAAATAGGGGAGTAACTTTTGGGGA-AAAAG
1 AAAGTGAGAGGGAGTAAAAATATTGGAGGAAAAGTAAATAGAGGAGTAAATTTTGGGAAGAAAAG
10775003 ATTCAAAAAA-AATTGGGGAGAAAATGGGTTTGAGGGTAGATGAGTAAACAATTTGTGAGG
66 ATTCAAAAAAGAATTGGGGAGAAAATGGGTTTG-GGGTAGATGAGTAAACAATTTGTGAGG
* *
10775063 AAAGTGATAGGGAGTAAAAATATTGGAGGAAAAGTAAATAGAGGAGTAAATTTTGGGAAGAAAAT
1 AAAGTGAGAGGGAGTAAAAATATTGGAGGAAAAGTAAATAGAGGAGTAAATTTTGGGAAGAAAAG
* *
10775128 ATTCAAAAAAGAATTTGGGAGAAAATTGGTTTGGGGTAGA
66 ATTCAAAAAAGAATTGGGGAGAAAATGGGTTTGGGGTAGA
10775168 AGAGGAGTTA
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
123 23 0.25
124 29 0.31
125 21 0.23
126 20 0.22
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.23
Consensus pattern (125 bp):
AAAGTGAGAGGGAGTAAAAATATTGGAGGAAAAGTAAATAGAGGAGTAAATTTTGGGAAGAAAAG
ATTCAAAAAAGAATTGGGGAGAAAATGGGTTTGGGGTAGATGAGTAAACAATTTGTGAGG
Found at i:10775094 original size:29 final size:33
Alignment explanation
Indices: 10775039--10775112 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 33
10775029 GGTTTGAGGG
* *
10775039 TAGATGAGTAAACAATTTGTGAGG-AAAGT-GA
1 TAGAGGAGTAAACAATTTGTGAGGAAAAGTAAA
10775070 TAG-GGAGTAAA-AATATTG-GAGGAAAAGTAAA
1 TAGAGGAGTAAACAAT-TTGTGAGGAAAAGTAAA
10775101 TAGAGGAGTAAA
1 TAGAGGAGTAAA
10775113 TTTTGGGAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
29 7 0.19
30 15 0.41
31 7 0.19
32 8 0.22
ACGTcount: A:0.47, C:0.01, G:0.30, T:0.22
Consensus pattern (33 bp):
TAGAGGAGTAAACAATTTGTGAGGAAAAGTAAA
Found at i:10775282 original size:98 final size:98
Alignment explanation
Indices: 10775180--10775360 Score: 242
Period size: 98 Copynumber: 1.8 Consensus size: 98
10775170 AGGAGTTAGG
*
10775180 ATAGGAGAGGAGT-AAAAGTTTTAAGGGAAAAGTAAAT-AATGGAGTAAATTTTAGAGAGAAAAT
1 ATAGGAGAGGAATAAAAAG-TTTAAGGGAAAAGTAAATAAAT-GAGTAAATTTTAGAGAGAAAAT
*
10775243 ATTCAATAAAATTTTG-GGGAAGATAAAGGGTTGGA
64 ATT-AAGAAAATTTTGAGGGAAGATAAAGGGTTGGA
* * * * *
10775278 ATAGGAGAGGAATAAAAAGTTTAGGGGGAAAGTAAATAAATGAGTAAATTTTGGGGGGAAAATAT
1 ATAGGAGAGGAATAAAAAGTTTAAGGGAAAAGTAAATAAATGAGTAAATTTTAGAGAGAAAATAT
*
10775343 TTAGAAAATTTTGAGGGA
66 TAAGAAAATTTTGAGGGA
10775361 GGAGATGGGT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
97 10 0.14
98 54 0.75
99 8 0.11
ACGTcount: A:0.45, C:0.01, G:0.29, T:0.25
Consensus pattern (98 bp):
ATAGGAGAGGAATAAAAAGTTTAAGGGAAAAGTAAATAAATGAGTAAATTTTAGAGAGAAAATAT
TAAGAAAATTTTGAGGGAAGATAAAGGGTTGGA
Found at i:10777151 original size:21 final size:23
Alignment explanation
Indices: 10777125--10777169 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
10777115 CTTTTCCACT
*
10777125 TAACAAAAT-ATTT-ATATAAAA
1 TAACAAAATAATTTGAAATAAAA
10777146 TAACAAAATAATTTGAAATAAAA
1 TAACAAAATAATTTGAAATAAAA
10777169 T
1 T
10777170 CTTCACTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 4 0.19
23 8 0.38
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (23 bp):
TAACAAAATAATTTGAAATAAAA
Found at i:10779383 original size:24 final size:24
Alignment explanation
Indices: 10779345--10779390 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10779335 GTACATCATT
** *
10779345 ATTAAAAATTGTAAATAAATTCTA
1 ATTAAAAATCATAAAAAAATTCTA
10779369 ATTAAAAATCATAAAAAAATTC
1 ATTAAAAATCATAAAAAAATTC
10779391 AGAACTCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (24 bp):
ATTAAAAATCATAAAAAAATTCTA
Found at i:10779818 original size:19 final size:20
Alignment explanation
Indices: 10779794--10779833 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
10779784 TTAAATTTCG
10779794 ATTTTCAAAATATAT-CATT
1 ATTTTCAAAATATATGCATT
* *
10779813 ATTTTCGAAATGTATGCATT
1 ATTTTCAAAATATATGCATT
10779833 A
1 A
10779834 GTGATGATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (20 bp):
ATTTTCAAAATATATGCATT
Found at i:10786966 original size:20 final size:20
Alignment explanation
Indices: 10786927--10786966 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10786917 GAATAAAGGT
** *
10786927 CATTTGTTCAAGTTTGGTAC
1 CATTTGTTCAAGGATAGTAC
10786947 CATTTGTTCAAGGATAGTAC
1 CATTTGTTCAAGGATAGTAC
10786967 ATCAACATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (20 bp):
CATTTGTTCAAGGATAGTAC
Found at i:10787316 original size:37 final size:37
Alignment explanation
Indices: 10787266--10787339 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
10787256 ATTTGGTTGT
*
10787266 TGCTTTTCTCCAATATCGCTTTATTGGTTGAAGTAAC
1 TGCTTTTCTCCAATATCGCTTTATTGATTGAAGTAAC
*
10787303 TGCTTTTCTCCAATATTGCTTTATTGATTGAAGTAAC
1 TGCTTTTCTCCAATATCGCTTTATTGATTGAAGTAAC
10787340 ACCATTTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.45
Consensus pattern (37 bp):
TGCTTTTCTCCAATATCGCTTTATTGATTGAAGTAAC
Found at i:10793316 original size:33 final size:33
Alignment explanation
Indices: 10793225--10793414 Score: 258
Period size: 33 Copynumber: 5.8 Consensus size: 33
10793215 TACCTAAATG
10793225 GTAC-ACTTG-AAAGGTTATGTACACTTTGTGT
1 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
* * *
10793256 GTACAATTTGAAAAGGGCTATGTACACTTTGTAT
1 GTACAACTTGAAAA-GGTTATGTACACTTTGTGT
10793290 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
*
10793323 GTACAACTTGAAAAGGTTATGTACACTTTGAGT
1 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
* * *
10793356 GTACAATTTGAAAAGGATATGTAAACTTTGTGT
1 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
* * **
10793389 GTACCACTTAAAAAGGGAATGTACAC
1 GTACAACTTGAAAAGGTTATGTACAC
10793415 CTCAAGTGTA
Statistics
Matches: 139, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
31 4 0.03
32 4 0.03
33 101 0.73
34 30 0.22
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (33 bp):
GTACAACTTGAAAAGGTTATGTACACTTTGTGT
Found at i:10793359 original size:66 final size:66
Alignment explanation
Indices: 10793225--10793440 Score: 267
Period size: 66 Copynumber: 3.3 Consensus size: 66
10793215 TACCTAAATG
*
10793225 GTAC-ACTTG-AAAGGTTATGTACACTTTGTGTGTACAATTTGAAAAGGGCTATGTACACTTTGT
1 GTACAACTTGAAAAGGTTATGTACACTTTGTGTGTACAACTTGAAAA-GGCTATGTACACTTTG-
10793288 A-T
64 AGT
*
10793290 GTACAACTTGAAAAGGTTATGTACACTTTGTGTGTACAACTTGAAAAGGTTATGTACACTTTGAG
1 GTACAACTTGAAAAGGTTATGTACACTTTGTGTGTACAACTTGAAAAGGCTATGTACACTTTGAG
10793355 T
66 T
* * * * * ** * **
10793356 GTACAATTTGAAAAGGATATGTAAACTTTGTGTGTACCACTTAAAAAGGGAATGTACACCTCAAG
1 GTACAACTTGAAAAGGTTATGTACACTTTGTGTGTACAACTTGAAAAGGCTATGTACACTTTGAG
10793421 T
66 T
* *
10793422 GTACGACTAGAAAAGGTTA
1 GTACAACTTGAAAAGGTTA
10793441 CGTCCAATGG
Statistics
Matches: 132, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
65 5 0.04
66 92 0.70
67 35 0.27
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (66 bp):
GTACAACTTGAAAAGGTTATGTACACTTTGTGTGTACAACTTGAAAAGGCTATGTACACTTTGAG
T
Found at i:10793424 original size:99 final size:99
Alignment explanation
Indices: 10793225--10793440 Score: 283
Period size: 99 Copynumber: 2.2 Consensus size: 99
10793215 TACCTAAATG
* * *
10793225 GTACACTTG-AAAGGTTATGTACACTTTGTGTGTACAATTTGAAAAGGGCTATGTACACTTTGTA
1 GTACACTTGAAAAGGTTATGTACACTTTGAGTGTACAATTTGAAAAGGGATATGTAAACTTTGTA
* ** * ***
10793289 TGTACAACTTGAAAAGGTTATGTACACTTTGTGT
66 TGTACAACTTAAAAAGGGAATGTACACCTCAAGT
10793323 GTACAACTTGAAAAGGTTATGTACACTTTGAGTGTACAATTTGAAAA-GGATATGTAAACTTTGT
1 GTAC-ACTTGAAAAGGTTATGTACACTTTGAGTGTACAATTTGAAAAGGGATATGTAAACTTTGT
* *
10793387 GTGTACCACTTAAAAAGGGAATGTACACCTCAAGT
65 ATGTACAACTTAAAAAGGGAATGTACACCTCAAGT
*
10793422 GTACGACTAGAAAAGGTTA
1 GTAC-ACTTGAAAAGGTTA
10793441 CGTCCAATGG
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
98 4 0.04
99 63 0.62
100 35 0.34
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (99 bp):
GTACACTTGAAAAGGTTATGTACACTTTGAGTGTACAATTTGAAAAGGGATATGTAAACTTTGTA
TGTACAACTTAAAAAGGGAATGTACACCTCAAGT
Found at i:10799471 original size:33 final size:33
Alignment explanation
Indices: 10799408--10799587 Score: 152
Period size: 33 Copynumber: 5.6 Consensus size: 33
10799398 TCGAAGGACG
* * * * *
10799408 TAACCTTTTCCAATCGTACACTCGAGGTGTATA
1 TAACCTTTTCAAATTGTACACACAAAGTGTATA
** * * * **
10799441 TTCCCTTTTCAAGTGGTACACTCAAAGTGTACG
1 TAACCTTTTCAAATTGTACACACAAAGTGTATA
* * * *
10799474 TATCCTTTTCAAGTTCTACACACAAA--GT-CA
1 TAACCTTTTCAAATTGTACACACAAAGTGTATA
* * *
10799504 TAGCCTTTTCAAATTGTACGCACAAAGTGTACA
1 TAACCTTTTCAAATTGTACACACAAAGTGTATA
*
10799537 TAACCTTTTCAAATTGTACACACAAAGTGTACA
1 TAACCTTTTCAAATTGTACACACAAAGTGTATA
10799570 TAACCTTTTCAAA-TGTAC
1 TAACCTTTTCAAATTGTAC
10799588 CATTTAGGTA
Statistics
Matches: 123, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
30 23 0.19
31 2 0.02
32 7 0.06
33 91 0.74
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (33 bp):
TAACCTTTTCAAATTGTACACACAAAGTGTATA
Found at i:10799533 original size:63 final size:65
Alignment explanation
Indices: 10799444--10799587 Score: 177
Period size: 63 Copynumber: 2.2 Consensus size: 65
10799434 GTGTATATTC
* * * * * * *
10799444 CCTTTTCAAGTGGTACACTCAAAGTGTACGTATCCTTTTCAAGTTCTACACACAAA-GT-CATAG
1 CCTTTTCAAATTGTACACACAAAGTGTACATAACCTTTTCAAATTCTACACACAAAGGTACATAA
* *
10799507 CCTTTTCAAATTGTACGCACAAAGTGTACATAACCTTTTCAAATTGTACACACAAAGTGTACATA
1 CCTTTTCAAATTGTACACACAAAGTGTACATAACCTTTTCAAATTCTACACACAAAG-GTACATA
10799572 A
65 A
10799573 CCTTTTCAAA-TGTAC
1 CCTTTTCAAATTGTAC
10799588 CATTTAGGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
63 48 0.70
65 7 0.10
66 14 0.20
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (65 bp):
CCTTTTCAAATTGTACACACAAAGTGTACATAACCTTTTCAAATTCTACACACAAAGGTACATAA
Found at i:10800736 original size:13 final size:13
Alignment explanation
Indices: 10800718--10800742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10800708 ATAATCGATA
10800718 AAAAATTTTCATT
1 AAAAATTTTCATT
10800731 AAAAATTTTCAT
1 AAAAATTTTCAT
10800743 GCAATTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAAATTTTCATT
Found at i:10800982 original size:27 final size:27
Alignment explanation
Indices: 10800926--10800982 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
10800916 TGTTTCCAAT
*
10800926 AATAAAGTCCTTAACAGAGTTCTTGGC
1 AATAAAGTCCTTAACAGAGTTCATGGC
* * *
10800953 AATAAGGTTCTTAACAGAGTTCATGTC
1 AATAAAGTCCTTAACAGAGTTCATGGC
10800980 AAT
1 AAT
10800983 CACAGTTCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (27 bp):
AATAAAGTCCTTAACAGAGTTCATGGC
Found at i:10802972 original size:40 final size:38
Alignment explanation
Indices: 10802869--10803063 Score: 219
Period size: 38 Copynumber: 5.1 Consensus size: 38
10802859 ATGTATATTA
* *
10802869 GGGTTAAATCCTGCAGGCTTTGTGCTGGTATTATATCC
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
*
10802907 GGGTTAAATCCCGCAGGCTTCGTGCTGGCATTATATCC
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
* * ** *
10802945 GGGCTTAAAGACCCACAGGCTTCGTGCTGGTAAAATATCT
1 GGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCC
* *
10802985 AGGTTAAATCCCGCAGGCTTCGTGCTAGTATTATATCC
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
* * * * * * *
10803023 AGGATAAATCCTGCAGGCCTAGTACTGGTATTATATTC
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
10803061 GGG
1 GGG
10803064 CCTTCGTGCC
Statistics
Matches: 131, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
38 95 0.73
39 10 0.08
40 26 0.20
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (38 bp):
GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
Found at i:10803180 original size:43 final size:43
Alignment explanation
Indices: 10803056--10803167 Score: 179
Period size: 43 Copynumber: 2.6 Consensus size: 43
10803046 ACTGGTATTA
* ***
10803056 TATTCGGGCCTTCGTGCCTCGCAGGCTTCGTGCTTATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
10803099 TATTCGGGCCTTCGTGCCTAGCAGGTTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
10803142 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
10803168 GTAATGCCGG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.10, C:0.26, G:0.32, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:10803564 original size:45 final size:42
Alignment explanation
Indices: 10803497--10803604 Score: 110
Period size: 45 Copynumber: 2.5 Consensus size: 42
10803487 TTGACTTGAT
* * * *
10803497 TATTCGGCCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCAGGT--GA-AC
**
10803542 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCAGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCAGGTGAAC
10803584 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
10803605 ACAGGCGAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.24
44 7 0.13
45 32 0.58
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCAGGTGAAC
Found at i:10806402 original size:21 final size:22
Alignment explanation
Indices: 10806376--10806416 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
10806366 ACACACACTC
10806376 AGCTTAATTGAGCT-ATTAATG
1 AGCTTAATTGAGCTAATTAATG
10806397 AGCTTAATTGAGCTAATTAA
1 AGCTTAATTGAGCTAATTAA
10806417 AAACTACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (22 bp):
AGCTTAATTGAGCTAATTAATG
Found at i:10812025 original size:13 final size:13
Alignment explanation
Indices: 10812002--10812082 Score: 81
Period size: 13 Copynumber: 6.2 Consensus size: 13
10811992 ATACATCTAT
10812002 TTTCATATAACCA
1 TTTCATATAACCA
* *
10812015 ATTCATTTAACCA
1 TTTCATATAACCA
* *
10812028 TTTCATGTAATCA
1 TTTCATATAACCA
*
10812041 TTTTATATAACCA
1 TTTCATATAACCA
* *
10812054 TTTCATCTAAACA
1 TTTCATATAACCA
* *
10812067 TTTCATTTTACCA
1 TTTCATATAACCA
10812080 TTT
1 TTT
10812083 TTGTAATGGT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 54 1.00
ACGTcount: A:0.33, C:0.20, G:0.01, T:0.46
Consensus pattern (13 bp):
TTTCATATAACCA
Found at i:10812079 original size:26 final size:26
Alignment explanation
Indices: 10812002--10812082 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 26
10811992 ATACATCTAT
* *
10812002 TTTCATATAACCAATTCATTTAACCA
1 TTTCATATAAACATTTCATTTAACCA
* * * *
10812028 TTTCATGTAATCATTTTATATAACCA
1 TTTCATATAAACATTTCATTTAACCA
* *
10812054 TTTCATCTAAACATTTCATTTTACCA
1 TTTCATATAAACATTTCATTTAACCA
10812080 TTT
1 TTT
10812083 TTGTAATGGT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.33, C:0.20, G:0.01, T:0.46
Consensus pattern (26 bp):
TTTCATATAAACATTTCATTTAACCA
Found at i:10812082 original size:39 final size:40
Alignment explanation
Indices: 10812000--10812083 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 40
10811990 TCATACATCT
* * *
10812000 ATTTTCATATAACCAATTCATTTAACCATTTCATGTAATC
1 ATTTTCATATAACCAATTCATCTAAACATTTCATGTAACC
* * *
10812040 ATTTT-ATATAACCATTTCATCTAAACATTTCATTTTACC
1 ATTTTCATATAACCAATTCATCTAAACATTTCATGTAACC
10812079 ATTTT
1 ATTTT
10812084 TGTAATGGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
39 33 0.87
40 5 0.13
ACGTcount: A:0.33, C:0.19, G:0.01, T:0.46
Consensus pattern (40 bp):
ATTTTCATATAACCAATTCATCTAAACATTTCATGTAACC
Found at i:10821181 original size:20 final size:22
Alignment explanation
Indices: 10821158--10821200 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
10821148 TAAAAAATAT
*
10821158 TTTTTA-ATTCTT-TTATTTTC
1 TTTTTACATTATTATTATTTTC
10821178 -TTTTACATTATTATTATTTTC
1 TTTTTACATTATTATTATTTTC
10821199 TT
1 TT
10821201 CTTTTTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
19 5 0.26
20 5 0.26
21 8 0.42
22 1 0.05
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTACATTATTATTATTTTC
Found at i:10830505 original size:47 final size:47
Alignment explanation
Indices: 10830433--10830604 Score: 157
Period size: 47 Copynumber: 3.8 Consensus size: 47
10830423 GATTTCTTGT
* *
10830433 GTGCCAGTGTAAAACATGTCTGGGACAT-TCATCGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGA
*
10830479 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG---C-GTA-GA
1 GTGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACATTATGA
* * * *
10830522 GATG-CAATGTAAGACATGTCTGGGACAT-GTATCAGCCACGATGATGA
1 G-TGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-ATTATGA
**
10830569 -TAGCCAGTGTAAGATGTGTCTGGGACAT-GCATCGGC
1 GT-GCCAGTGTAAGACATGTCTGGGACATGGCATCGGC
10830605 TAAGAGTCGT
Statistics
Matches: 102, Mismatches: 13, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
41 5 0.05
42 14 0.14
43 12 0.12
44 5 0.05
45 2 0.02
46 15 0.15
47 43 0.42
48 6 0.06
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (47 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGA
Found at i:10830640 original size:91 final size:90
Alignment explanation
Indices: 10830440--10830698 Score: 253
Period size: 89 Copynumber: 2.9 Consensus size: 90
10830430 TGTGTGCCAG
* * * * * *
10830440 TGTAAAACATGTCTGGGACATTCATCGGCCAC-ATTATGAGT-GCCAGTGTAAGACCATGTCTGG
1 TGTAAGACATGTCCGAGACATGCATCAGCCACGATGATGA-TAGCCAGTGTAAGACCATGTCTGG
10830503 GACATGGCATCGGCGTAGAGATGCAA
65 GACATGGCATCGGCGTAGAGATGCAA
* * * **
10830529 TGTAAGACATGTCTGGGACATGTATCAGCCACGATGATGATAGCCAGTGTAAGA-TGTGTCTGGG
1 TGTAAGACATGTCCGAGACATGCATCAGCCACGATGATGATAGCCAGTGTAAGACCATGTCTGGG
*
10830593 ACAT-GCATCGGC-TAAGAGTCGTGCTAA
66 ACATGGCATCGGCGT-AGAG--ATGC-AA
* * *
10830620 TGTAAGACATGTCCGAGACATGCATCAG-CACGTAT-ATACGAGAGCTAGTATAAGACCATGTCT
1 TGTAAGACATGTCCGAGACATGCATCAGCCACG-ATGAT--GATAGCCAGTGTAAGACCATGTCT
*
10830683 GAGACATGGCATCGGC
63 GGGACATGGCATCGGC
10830699 TTCGATAATG
Statistics
Matches: 142, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
87 1 0.01
88 12 0.08
89 41 0.29
90 27 0.19
91 29 0.20
92 13 0.09
93 11 0.08
94 8 0.06
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (90 bp):
TGTAAGACATGTCCGAGACATGCATCAGCCACGATGATGATAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCGGCGTAGAGATGCAA
Found at i:10831594 original size:55 final size:54
Alignment explanation
Indices: 10831506--10831627 Score: 183
Period size: 55 Copynumber: 2.2 Consensus size: 54
10831496 GCACTTAAAA
* *
10831506 TTTTAAGTCAGTTTAGTACACGGGTAGGCCACACAGGTGTGTGTCATGGTCGTG
1 TTTTAAGTCAGTTTAGTACACGGGCAGGCCACACAGGCGTGTGTCATGGTCGTG
*
10831560 TTTTGAAGTCAGTATT-GTACACGGGCAGGCCACACGGGCGTGTGTCATGGTCGTG
1 TTTT-AAGTCAGT-TTAGTACACGGGCAGGCCACACAGGCGTGTGTCATGGTCGTG
10831615 TTTTAAAGTCAGT
1 TTTT-AAGTCAGT
10831628 GTTGCATACG
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
54 4 0.06
55 56 0.90
56 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (54 bp):
TTTTAAGTCAGTTTAGTACACGGGCAGGCCACACAGGCGTGTGTCATGGTCGTG
Found at i:10841271 original size:46 final size:46
Alignment explanation
Indices: 10841221--10841396 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
10841211 TGGTTGAGCA
*
10841221 TCCGAATTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
10841267 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
10841312 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10841360 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10841397 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10841355 original size:93 final size:93
Alignment explanation
Indices: 10841218--10841389 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
10841208 GGATGGTTGA
* * *
10841218 GCATCCGAATTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10841283 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
*
10841311 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
10841376 TGAGTCCGAGTTCG
66 TGAGTCCAAGTTCG
10841390 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:10844925 original size:24 final size:24
Alignment explanation
Indices: 10844880--10844926 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
10844870 GTTGAAATCT
* **
10844880 AGAATAGAAAAAATAGTCGAGAAA
1 AGAAAAGAAAAAATAGAAGAGAAA
*
10844904 AGAAAAGAAAATATAGAAGAGAA
1 AGAAAAGAAAAAATAGAAGAGAA
10844927 TGATGAATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.66, C:0.02, G:0.21, T:0.11
Consensus pattern (24 bp):
AGAAAAGAAAAAATAGAAGAGAAA
Found at i:10847639 original size:28 final size:28
Alignment explanation
Indices: 10847584--10847653 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
10847574 AACAATCAAC
*
10847584 AGCCCATTTAATCAAACCCTTTAGGGCA
1 AGCCCATTTAATCAAACCCTTCAGGGCA
* *
10847612 AGTCCATTTAATCAAGCCCTTCCA-GGCA
1 AGCCCATTTAATCAAACCCTT-CAGGGCA
*
10847640 AGCCCGTTTAATCA
1 AGCCCATTTAATCA
10847654 GGTGGGTGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (28 bp):
AGCCCATTTAATCAAACCCTTCAGGGCA
Found at i:10854362 original size:15 final size:16
Alignment explanation
Indices: 10854344--10854374 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10854334 TTAAAAAAAA
10854344 GGAGAAATGGA-AGCG
1 GGAGAAATGGAGAGCG
10854359 GGAGAAATGGAGAGCG
1 GGAGAAATGGAGAGCG
10854375 AAGAAATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.39, C:0.06, G:0.48, T:0.06
Consensus pattern (16 bp):
GGAGAAATGGAGAGCG
Found at i:10855716 original size:23 final size:23
Alignment explanation
Indices: 10855690--10855770 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
10855680 ATTTTACAAA
10855690 AAATATATATTATATTTTTCTTT
1 AAATATATATTATATTTTTCTTT
* * * * *
10855713 AAATATTTTTTATGTATTTCTAT
1 AAATATATATTATATTTTTCTTT
* * *
10855736 AAAAAAATATTATATTTTTATATT
1 AAATATATATTATATTTTTCT-TT
10855760 AAATATGATAT
1 AAATAT-ATAT
10855771 ATTAATAATT
Statistics
Matches: 41, Mismatches: 15, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
23 32 0.78
24 5 0.12
25 4 0.10
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
AAATATATATTATATTTTTCTTT
Found at i:10860643 original size:36 final size:37
Alignment explanation
Indices: 10860582--10860654 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 37
10860572 ATTATTGTCT
10860582 TTGATTAGGTTTTGTTTCCCAACTCTGTTGAGTGGGA
1 TTGATTAGGTTTTGTTTCCCAACTCTGTTGAGTGGGA
*
10860619 TTGATTAGG-TTTGTTTCCCCACTCTGTTGAGTGGGA
1 TTGATTAGGTTTTGTTTCCCAACTCTGTTGAGTGGGA
10860655 ATATTTTGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.15, C:0.15, G:0.27, T:0.42
Consensus pattern (37 bp):
TTGATTAGGTTTTGTTTCCCAACTCTGTTGAGTGGGA
Found at i:10863329 original size:3 final size:3
Alignment explanation
Indices: 10863323--10863348 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10863313 GGGCTGCTGC
10863323 TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TG
10863349 ATTCTGATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:10866034 original size:21 final size:22
Alignment explanation
Indices: 10865995--10866063 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
10865985 TAAAATACTT
10865995 TTTTAAAAATATTTGTTATTATA
1 TTTTAAAAATATTT-TTATTATA
*
10866018 TTTTCAAAAT-TTTTTATATATA
1 TTTTAAAAATATTTTTAT-TATA
* *
10866040 TTTTTAAAATATATTTA-TATA
1 TTTTAAAAATATTTTTATTATA
10866061 TTT
1 TTT
10866064 CTTTAATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 11 0.27
22 16 0.39
23 14 0.34
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (22 bp):
TTTTAAAAATATTTTTATTATA
Found at i:10866042 original size:22 final size:23
Alignment explanation
Indices: 10865995--10866061 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
10865985 TAAAATACTT
10865995 TTTTAAAAATATTTGTTAT-TATA
1 TTTTAAAAATATTT-TTATATATA
*
10866018 TTTTCAAAAT-TTTTTATATATA
1 TTTTAAAAATATTTTTATATATA
* *
10866040 TTTTTAAAATATATTTATATAT
1 TTTTAAAAATATTTTTATATAT
10866062 TTCTTTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 4 0.10
22 16 0.41
23 19 0.49
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (23 bp):
TTTTAAAAATATTTTTATATATA
Found at i:10871187 original size:70 final size:70
Alignment explanation
Indices: 10871109--10871249 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
10871099 ATTCACATGT
*
10871109 TTAAAATACAAAAATGGTAATCATATTTCTTGAATCATAATCGCTATGAATATAAGATTCAACAA
1 TTAAAATACAAAAATGATAATCATATTTCTTGAATCATAATCGCTATGAATATAAGATTCAACAA
10871174 CACAA
66 CACAA
*
10871179 TTAAAATACAAAAATGATAATCATATTTCTTGAATCATAATCGCTATGAATATAAGATTCAACGA
1 TTAAAATACAAAAATGATAATCATATTTCTTGAATCATAATCGCTATGAATATAAGATTCAACAA
10871244 CACAA
66 CACAA
10871249 T
1 T
10871250 GTTTTTTTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (70 bp):
TTAAAATACAAAAATGATAATCATATTTCTTGAATCATAATCGCTATGAATATAAGATTCAACAA
CACAA
Found at i:10872632 original size:15 final size:15
Alignment explanation
Indices: 10872612--10872641 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10872602 AATTTTTACA
10872612 ATATTGAAGATAATT
1 ATATTGAAGATAATT
10872627 ATATTGAAGATAATT
1 ATATTGAAGATAATT
10872642 CAATGGTTTT
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:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
ATATTGAAGATAATT
Found at i:10874255 original size:5 final size:5
Alignment explanation
Indices: 10874239--10874270 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
10874229 CCCTTTACCA
10874239 AAAAT -AAA- AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
10874271 ACGAAGAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 6 0.24
5 19 0.76
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:10882283 original size:19 final size:19
Alignment explanation
Indices: 10882239--10882283 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
10882229 AAATAAAAAA
10882239 ATTATTTGAAAAAAAAACT
1 ATTATTTGAAAAAAAAACT
* *
10882258 ATAATTTGATAAAAAATA-T
1 ATTATTTGA-AAAAAAAACT
10882277 ATTATTT
1 ATTATTT
10882284 ACATTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (19 bp):
ATTATTTGAAAAAAAAACT
Found at i:10896368 original size:21 final size:21
Alignment explanation
Indices: 10896338--10896392 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
10896328 TAGGTACAGG
*
10896338 GGACACGCCCGTGTGG-TCAAA
1 GGACATGCCCGTGTGGCT-AAA
**
10896359 GGACATGCCCGTGTGGCTATT
1 GGACATGCCCGTGTGGCTAAA
10896380 GGACATGCCCGTG
1 GGACATGCCCGTG
10896393 CCTCAGGCCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (21 bp):
GGACATGCCCGTGTGGCTAAA
Found at i:10899351 original size:18 final size:18
Alignment explanation
Indices: 10899328--10899365 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
10899318 ATTTAATAGT
10899328 ATAAATTGAATGTAGTTG
1 ATAAATTGAATGTAGTTG
10899346 ATAAATTGAATGTAGTTG
1 ATAAATTGAATGTAGTTG
10899364 AT
1 AT
10899366 CGTAGTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (18 bp):
ATAAATTGAATGTAGTTG
Found at i:10900519 original size:23 final size:22
Alignment explanation
Indices: 10900482--10900535 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
10900472 CAGTTAAGAA
*
10900482 ATTTCCATTTGGCACAATAAAT
1 ATTTCCACTTGGCACAATAAAT
* *
10900504 ATTTCCCACTTGGCACGATAATT
1 ATTT-CCACTTGGCACAATAAAT
10900527 ATTTGCCAC
1 ATTT-CCAC
10900536 ATGTCTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (22 bp):
ATTTCCACTTGGCACAATAAAT
Found at i:10904313 original size:35 final size:34
Alignment explanation
Indices: 10904267--10904500 Score: 270
Period size: 35 Copynumber: 6.7 Consensus size: 34
10904257 TTTCCTCATT
* *
10904267 GAAATACCATACCTACATTTCACAACTCGGTATG
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
* **
10904301 AGAAATGCCATACCTACGTTTCTTAACTCAGTATG
1 -GAAATACCATACCTACGTTTCACAACTCAGTATG
10904336 GATAATACCATACCTACGTTTCACAACTCAGTATAG
1 GA-AATACCATACCTACGTTTCACAACTCAGTAT-G
** * **
10904372 TTAATACCATACCTACGTTTTACAACTTGGTATG
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
* * *
10904406 GATGATACCATACCTACGTTTCAGAACTCGGTATG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATG
* *
10904441 GTTAATACCATACTTACGTTTCACAACTCAGTATG
1 G-AAATACCATACCTACGTTTCACAACTCAGTATG
*
10904476 GTTAATACCATACCTACGTTTCACA
1 G-AAATACCATACCTACGTTTCACA
10904501 CTTTGCCGTG
Statistics
Matches: 170, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
34 3 0.02
35 166 0.98
36 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATG
Found at i:10904352 original size:70 final size:71
Alignment explanation
Indices: 10904269--10904500 Score: 319
Period size: 70 Copynumber: 3.3 Consensus size: 71
10904259 TCCTCATTGA
* * * *
10904269 AATACCATACCTACATTTCACAACTCGGTATGAG-AAATGCCATACCTACGTTTCTTAACTCAGT
1 AATACCATACCTACGTTTCACAACTCGGTATGAGTTAATACCATACCTACGTTTCTCAACTCAGT
10904333 ATGGAT
66 ATGGAT
* **
10904339 AATACCATACCTACGTTTCACAACTCAGTAT-AGTTAATACCATACCTACGTTT-TACAACTTGG
1 AATACCATACCTACGTTTCACAACTCGGTATGAGTTAATACCATACCTACGTTTCT-CAACTCAG
10904402 TATGGAT
65 TATGGAT
* * * *
10904409 GATACCATACCTACGTTTCAGAACTCGGTATG-GTTAATACCATACTTACGTTTCACAACTCAGT
1 AATACCATACCTACGTTTCACAACTCGGTATGAGTTAATACCATACCTACGTTTCTCAACTCAGT
*
10904473 ATGGTT
66 ATGGAT
10904479 AATACCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
10904501 CTTTGCCGTG
Statistics
Matches: 141, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
69 3 0.02
70 138 0.98
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (71 bp):
AATACCATACCTACGTTTCACAACTCGGTATGAGTTAATACCATACCTACGTTTCTCAACTCAGT
ATGGAT
Found at i:10904451 original size:105 final size:105
Alignment explanation
Indices: 10904269--10904500 Score: 349
Period size: 105 Copynumber: 2.2 Consensus size: 105
10904259 TCCTCATTGA
* * **
10904269 AATACCATACCTACATTTCACAACTCGGTATGAGAAATGCCATACCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCGGTATGAGAAATACCATACCTACGTTTCAGAACTCAGTA
10904334 TGGATAATACCATACCTACGTTTCACAACTCAGTATAGTT
66 TGGATAATACCATACCTACGTTTCACAACTCAGTATAGTT
* * * *
10904374 AATACCATACCTACGTTTTACAACTTGGTATG-GATGATACCATACCTACGTTTCAGAACTCGGT
1 AATACCATACCTACGTTTCACAACTCGGTATGAGA-AATACCATACCTACGTTTCAGAACTCAGT
* * *
10904438 ATGGTTAATACCATACTTACGTTTCACAACTCAGTATGGTT
65 ATGGATAATACCATACCTACGTTTCACAACTCAGTATAGTT
10904479 AATACCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
10904501 CTTTGCCGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
104 2 0.02
105 112 0.98
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (105 bp):
AATACCATACCTACGTTTCACAACTCGGTATGAGAAATACCATACCTACGTTTCAGAACTCAGTA
TGGATAATACCATACCTACGTTTCACAACTCAGTATAGTT
Found at i:10908155 original size:6 final size:6
Alignment explanation
Indices: 10908144--10908228 Score: 170
Period size: 6 Copynumber: 14.2 Consensus size: 6
10908134 AGAACATCTC
10908144 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
10908192 CATATA CATATA CATATA CATATA CATATA CATATA C
1 CATATA CATATA CATATA CATATA CATATA CATATA C
10908229 TACATTTTAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 79 1.00
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:10910927 original size:46 final size:46
Alignment explanation
Indices: 10910858--10910946 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
10910848 ATGAGTGCTA
* * * *
10910858 GAGCTTGGACACACTTGTTGTATGAGGTATTAAGATAATGAATATT
1 GAGCTTGAACACACTTGTGGTATGAGGTACTAAAATAATGAATATT
* *
10910904 GAGCTTGAATACACTTGTGGTATGAGGTACTAAAATAGTGAAT
1 GAGCTTGAACACACTTGTGGTATGAGGTACTAAAATAATGAAT
10910947 TCTCTTAAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.33
Consensus pattern (46 bp):
GAGCTTGAACACACTTGTGGTATGAGGTACTAAAATAATGAATATT
Found at i:10912574 original size:39 final size:39
Alignment explanation
Indices: 10912520--10912625 Score: 144
Period size: 39 Copynumber: 2.7 Consensus size: 39
10912510 AAATACAGTG
*
10912520 ATTATTCGGGCTATGTGCCTAGCAGG-TTGTGT-GTCGGTA
1 ATTATTCGGGCTATGTGCCTAGCAGGCTT-TGTACT-GGTA
* * *
10912559 ATTATTCGGGCTATGTGTCTTGCAGGCTTTGTACTGGTG
1 ATTATTCGGGCTATGTGCCTAGCAGGCTTTGTACTGGTA
10912598 ATTATTCGGGCTATGTGCCTAGCAGGCT
1 ATTATTCGGGCTATGTGCCTAGCAGGCT
10912626 ATGTGCCGGT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
39 56 0.95
40 3 0.05
ACGTcount: A:0.15, C:0.17, G:0.31, T:0.37
Consensus pattern (39 bp):
ATTATTCGGGCTATGTGCCTAGCAGGCTTTGTACTGGTA
Found at i:10913542 original size:43 final size:43
Alignment explanation
Indices: 10913481--10913582 Score: 150
Period size: 43 Copynumber: 2.4 Consensus size: 43
10913471 CATGGTTAGA
* *
10913481 GACACGGGCGGGTGTCTCAGCCGTGTGTGACACACGGCCAGAC
1 GACACGGGCGTGTGTCTCAGCCATGTGTGACACACGGCCAGAC
* **
10913524 GACACGGGCGTGTGTCTCAGCCATTTGTGACACACGGCCAGGT
1 GACACGGGCGTGTGTCTCAGCCATGTGTGACACACGGCCAGAC
*
10913567 GACACGGTCGTGTGTC
1 GACACGGGCGTGTGTC
10913583 CCTTGTAGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.18, C:0.28, G:0.35, T:0.19
Consensus pattern (43 bp):
GACACGGGCGTGTGTCTCAGCCATGTGTGACACACGGCCAGAC
Found at i:10919636 original size:24 final size:24
Alignment explanation
Indices: 10919602--10919652 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
10919592 AACCTGTATT
10919602 CATCGCCAGAACAGGGTTACGGAG
1 CATCGCCAGAACAGGGTTACGGAG
* *
10919626 CATCGCTAGAATAGGGTTACGGAG
1 CATCGCCAGAACAGGGTTACGGAG
10919650 CAT
1 CAT
10919653 TACCAAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.31, T:0.18
Consensus pattern (24 bp):
CATCGCCAGAACAGGGTTACGGAG
Found at i:10921100 original size:30 final size:30
Alignment explanation
Indices: 10921045--10921106 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
10921035 CACTAAGCAA
10921045 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
10921074 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
10921105 GT
1 GT
10921107 ATCTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:10921277 original size:25 final size:25
Alignment explanation
Indices: 10921249--10921312 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
10921239 GAATCGGTGT
10921249 GCTCTCACGAGCTGTA-AATCAGTAA
1 GCTCTCACGAGCTG-AGAATCAGTAA
* * **
10921274 GCTCAT-ATGTGCTGAGAATTGGTAA
1 GCTC-TCACGAGCTGAGAATCAGTAA
10921299 GCTCTCACGAGCTG
1 GCTCTCACGAGCTG
10921313 CAATCGGTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
24 2 0.07
25 27 0.90
26 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (25 bp):
GCTCTCACGAGCTGAGAATCAGTAA
Found at i:10921306 original size:50 final size:48
Alignment explanation
Indices: 10921239--10921346 Score: 126
Period size: 50 Copynumber: 2.2 Consensus size: 48
10921229 TACAAGCTAT
** *
10921239 GAATCGGTGTGCTCTCACGAGCTGTAAATCAGTAAGCTCATATGTGCTGA
1 GAATCGGTAAGCTCTCACGAGCTG-AAATCAGTAAGCTCATACG-GCTGA
* * * *
10921289 GAATTGGTAAGCTCTCACGAGCTGCAATCGGTAAGTTCATACGGCTGA
1 GAATCGGTAAGCTCTCACGAGCTGAAATCAGTAAGCTCATACGGCTGA
*
10921337 GGATCGGTAA
1 GAATCGGTAA
10921347 TCCTTAATGA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 13 0.27
49 15 0.31
50 21 0.43
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
GAATCGGTAAGCTCTCACGAGCTGAAATCAGTAAGCTCATACGGCTGA
Found at i:10924725 original size:17 final size:20
Alignment explanation
Indices: 10924687--10924735 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
10924677 TTTATTTATG
*
10924687 AATG-TTTTATATAACTATA
1 AATGATTTTATATAACTAAA
10924706 AAT-ATTTTATAT-A-TAAA
1 AATGATTTTATATAACTAAA
*
10924723 AATGATTTAATAT
1 AATGATTTTATAT
10924736 TATTTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 11 0.42
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (20 bp):
AATGATTTTATATAACTAAA
Found at i:10924758 original size:10 final size:10
Alignment explanation
Indices: 10924745--10924782 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 10
10924735 TTATTTATTT
10924745 AATATTTATA
1 AATATTTATA
10924755 AATATTTTTATA
1 AATA--TTTATA
10924767 AATATTT-TA
1 AATATTTATA
10924776 AATATTT
1 AATATTT
10924783 GTTAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.35
10 7 0.27
12 10 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
AATATTTATA
Found at i:10924760 original size:21 final size:21
Alignment explanation
Indices: 10924731--10924782 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 21
10924721 AAAATGATTT
*
10924731 AATATTATTTATTTAATATTTATA
1 AATATT-TTTA-TAAATATTT-TA
10924755 AATATTTTTATAAATATTTTA
1 AATATTTTTATAAATATTTTA
10924776 AATATTT
1 AATATTT
10924783 GTTAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 9 0.33
22 8 0.30
23 4 0.15
24 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
AATATTTTTATAAATATTTTA
Found at i:10924766 original size:12 final size:12
Alignment explanation
Indices: 10924749--10924774 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10924739 TTATTTAATA
10924749 TTTATAAATATT
1 TTTATAAATATT
10924761 TTTATAAATATT
1 TTTATAAATATT
10924773 TT
1 TT
10924775 AAATATTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTATAAATATT
Found at i:10925268 original size:61 final size:61
Alignment explanation
Indices: 10925173--10925295 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 61
10925163 TAAGTTAGTC
10925173 ATACTATTAAAAATTTCATCTACTTTTACTATTAAAAAATGGTCCTTATATATCAACATGA
1 ATACTATTAAAAATTTCATCTACTTTTACTATTAAAAAATGGTCCTTATATATCAACATGA
* *
10925234 ATACTATTAAAAATTTCAT-TCACTTTTACTATTAAAAATTGGTCCTTGTATATCAACATGA
1 ATACTATTAAAAATTTCATCT-ACTTTTACTATTAAAAAATGGTCCTTATATATCAACATGA
10925295 A
1 A
10925296 ATGTACATAG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 1 0.02
61 58 0.98
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (61 bp):
ATACTATTAAAAATTTCATCTACTTTTACTATTAAAAAATGGTCCTTATATATCAACATGA
Found at i:10926303 original size:13 final size:13
Alignment explanation
Indices: 10926285--10926313 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
10926275 TGCAAGGTTT
10926285 TATTAATATAACA
1 TATTAATATAACA
10926298 TATTAATATAACA
1 TATTAATATAACA
10926311 TAT
1 TAT
10926314 CAATCTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (13 bp):
TATTAATATAACA
Found at i:10930974 original size:23 final size:23
Alignment explanation
Indices: 10930930--10931058 Score: 109
Period size: 23 Copynumber: 5.6 Consensus size: 23
10930920 CTATCACCTA
* * *
10930930 CCAAACACAATCAT-TTTTCCCT
1 CCAAACACAACCATATGTACCCT
* *
10930952 CTAAAGACAACCATATGTACCCT
1 CCAAACACAACCATATGTACCCT
* * *
10930975 CCGAACACAACCAAATTTACCCT
1 CCAAACACAACCATATGTACCCT
* *
10930998 CCAAACACAACCATATATATAACCT
1 CCAAACACAACC--ATATGTACCCT
* *
10931023 TCAAACACAACCA-AGTATACCCT
1 CCAAACACAACCATA-TGTACCCT
10931046 CCAAACACAACCA
1 CCAAACACAACCA
10931059 ATATACCTTT
Statistics
Matches: 86, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
22 12 0.14
23 55 0.64
25 19 0.22
ACGTcount: A:0.42, C:0.36, G:0.03, T:0.19
Consensus pattern (23 bp):
CCAAACACAACCATATGTACCCT
Found at i:10931059 original size:23 final size:23
Alignment explanation
Indices: 10930948--10931065 Score: 130
Period size: 23 Copynumber: 5.1 Consensus size: 23
10930938 AATCATTTTT
* * * *
10930948 CCCTCTAAAGACAACCATATGTA
1 CCCTCCAAACACAACCAAATATA
* *
10930971 CCCTCCGAACACAACCAAATTTA
1 CCCTCCAAACACAACCAAATATA
10930994 CCCTCCAAACACAACCATATATATA
1 CCCTCCAAACACAACCA-A-ATATA
* * *
10931019 ACCTTCAAACACAACCAAGTATA
1 CCCTCCAAACACAACCAAATATA
10931042 CCCTCCAAACACAACC-AATATA
1 CCCTCCAAACACAACCAAATATA
10931064 CC
1 CC
10931066 TTTCAACATA
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
22 7 0.09
23 52 0.65
24 2 0.03
25 19 0.24
ACGTcount: A:0.42, C:0.36, G:0.03, T:0.18
Consensus pattern (23 bp):
CCCTCCAAACACAACCAAATATA
Found at i:10933837 original size:35 final size:35
Alignment explanation
Indices: 10933798--10933873 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
10933788 AATTTAATTT
* *
10933798 ATATTTT-ATTATTTGATT-TAAATATAATTTTTAAA
1 ATATTTTGA-TATTTGATTATAAATAT-AGTTTAAAA
* *
10933833 ATATTTTGATATTTTATTATGAATATAGTTTAAAA
1 ATATTTTGATATTTGATTATAAATATAGTTTAAAA
10933868 ATATTT
1 ATATTT
10933874 AAATTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
35 28 0.80
36 7 0.20
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (35 bp):
ATATTTTGATATTTGATTATAAATATAGTTTAAAA
Found at i:10934714 original size:40 final size:40
Alignment explanation
Indices: 10934656--10934731 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
10934646 GCACACCATG
*
10934656 TGGGGATAGAATCGACCCACCCAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
** * *
10934696 TGGGGATTTAATCAACCCATCCAGCCCTACACACCA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCA
10934732 TAAGGTACGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.33, C:0.36, G:0.16, T:0.16
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:10941240 original size:18 final size:19
Alignment explanation
Indices: 10941206--10941241 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10941196 ATTGCAATTT
10941206 AATTTTATTTTAATTACTA
1 AATTTTATTTTAATTACTA
*
10941225 AATTTT-TTTTATTTACT
1 AATTTTATTTTAATTACT
10941242 TCTGGTAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (19 bp):
AATTTTATTTTAATTACTA
Found at i:10947635 original size:33 final size:31
Alignment explanation
Indices: 10947584--10947668 Score: 77
Period size: 33 Copynumber: 2.7 Consensus size: 31
10947574 TCTTCTCCAT
*
10947584 TTTTCTTT-CTTTTCTTTCCTCTT-TCTCCTCTC
1 TTTTCTTTCCATTT-TTTCCTCTTGTCTCC-C-C
**
10947616 TTTCTCTTTTTATTTTTTCCT-TTGTCTCCCC
1 TTT-TCTTTCCATTTTTTCCTCTTGTCTCCCC
*
10947647 TTTTCTTTCCCTTTTTTCCTCT
1 TTTTCTTTCCATTTTTTCCTCT
10947669 CCTCCACTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
30 14 0.32
31 5 0.11
32 6 0.14
33 16 0.36
34 3 0.07
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.66
Consensus pattern (31 bp):
TTTTCTTTCCATTTTTTCCTCTTGTCTCCCC
Found at i:10947820 original size:11 final size:10
Alignment explanation
Indices: 10947804--10947862 Score: 50
Period size: 11 Copynumber: 5.6 Consensus size: 10
10947794 TTTTCTTTGA
10947804 TTTATTTTACT
1 TTTATTTTA-T
10947815 TTTA-TTT-T
1 TTTATTTTAT
10947823 TTTATTCTTTAT
1 TTTA-T-TTTAT
10947835 TTTATTTTAAT
1 TTTATTTT-AT
*
10947846 TTTATTTCTCT
1 TTTATTT-TAT
10947857 TTTATT
1 TTTATT
10947863 CATCATTTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
8 5 0.12
10 6 0.15
11 24 0.59
12 6 0.15
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:10947821 original size:15 final size:15
Alignment explanation
Indices: 10947794--10947852 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
10947784 CATCCTTTTC
*
10947794 TTTT-CTTTGATTTA
1 TTTTACTTTTATTTA
10947808 TTTTACTTTTATTT-
1 TTTTACTTTTATTTA
*
10947822 TTTTATTCTTTATTTTA
1 TTTTACT-TTTA-TTTA
*
10947839 TTTTAATTTTATTT
1 TTTTACTTTTATTT
10947853 CTCTTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 10 0.26
15 15 0.39
16 7 0.18
17 6 0.16
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTTACTTTTATTTA
Found at i:10947857 original size:26 final size:26
Alignment explanation
Indices: 10947804--10947858 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
10947794 TTTTCTTTGA
*
10947804 TTTATTTTACTTTTATTTTTTTATTC
1 TTTATTTTACTTTTATTTTTTTACTC
10947830 TTTATTTTA-TTTTAATTTTATTT-CTC
1 TTTATTTTACTTTT-ATTTT-TTTACTC
10947856 TTT
1 TTT
10947859 TATTCATCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 4 0.15
26 19 0.73
27 3 0.12
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.76
Consensus pattern (26 bp):
TTTATTTTACTTTTATTTTTTTACTC
Found at i:10952667 original size:114 final size:113
Alignment explanation
Indices: 10952347--10952900 Score: 894
Period size: 114 Copynumber: 4.9 Consensus size: 113
10952337 CAATAAGCAA
* * * *
10952347 TAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAATCCAAAACAATGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
10952412 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
10952460 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
*
10952525 GTGGATTTAGCGGCATTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
10952573 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTT
*
10952638 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTT
65 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* **
10952687 TAGCGGCGTTTTTGAGATAGCGCCGCAAAAAACCTAATGTAAAACGACGCAGTTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAG-TTTTGTGAGCTT
* *
10952752 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
65 T-GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* * *
10952802 TAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACAACGCCGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
* *
10952867 CG-GAGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
66 -GTG-GATTTAGCGGCGTTTTTAAGGAAGCGCCGC
10952901 AAAAAACCTA
Statistics
Matches: 413, Mismatches: 24, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
113 157 0.38
114 165 0.40
115 91 0.22
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (113 bp):
TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
Found at i:10952741 original size:227 final size:228
Alignment explanation
Indices: 10952347--10952900 Score: 916
Period size: 227 Copynumber: 2.4 Consensus size: 228
10952337 CAATAAGCAA
* *
10952347 TAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAATCCAAAACAATGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACAATGCAGTTTTGTGAGCTTT
*
10952412 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGA
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTGAGA
*
10952477 AAGCGCCGCAAAAAACATAATCCAAAACGACGCAG-TTTTGTGAGCTTT-GTGGATTTAGCGGCA
131 AAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTAGCGGCA
*
10952540 TTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
196 TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
*
10952573 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAATCCAAAACAATGCAGTTTTGTGAGCTT
10952638 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTGAG
65 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTGAG
* * **
10952703 ATAGCGCCGCAAAAAACCTAATGTAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTAGCGGC
130 AAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTAGCGGC
*
10952768 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
195 ATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
* * *
10952802 TAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACAACGCCGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACAATGCAGTTTTGTGAGCTTT
* *
10952867 CG-GAGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
66 -GTG-GATTTAGCGGCGTTTTTAAGGAAGCGCCGC
10952901 AAAAAACCTA
Statistics
Matches: 306, Mismatches: 17, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
226 24 0.08
227 133 0.43
228 50 0.16
229 99 0.32
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (228 bp):
TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACAATGCAGTTTTGTGAGCTTT
GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTGAGA
AAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTAGCGGCA
TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
Found at i:10952885 original size:73 final size:72
Alignment explanation
Indices: 10952800--10952957 Score: 226
Period size: 73 Copynumber: 2.2 Consensus size: 72
10952790 TGCTCAGGGC
* * *
10952800 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACAACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACACC-TTTTGTGAGCT
10952865 TTCGGAGA
65 TTCGGAGA
* * * *
10952873 TTTAGCGGCGTTTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACACCTTTTTTGCGCTT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACACCTTTTGTGAGCTT
*
10952938 TCGGGGA
66 TCGGAGA
*
10952945 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
10952958 AATTGATTTA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
72 28 0.37
73 48 0.63
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (72 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACACCTTTTGTGAGCTT
TCGGAGA
Found at i:10953342 original size:17 final size:17
Alignment explanation
Indices: 10953311--10953354 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
10953301 TAGGGAGTAT
10953311 TTATGGATT--TAGGGA
1 TTATGGATTAATAGGGA
10953326 TTATGGATTAATAGGGA
1 TTATGGATTAATAGGGA
*
10953343 TTATGGTTTAAT
1 TTATGGATTAAT
10953355 TAAGGGTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 9 0.35
17 17 0.65
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (17 bp):
TTATGGATTAATAGGGA
Found at i:10953665 original size:14 final size:15
Alignment explanation
Indices: 10953635--10953672 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
10953625 CTACTATATA
10953635 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
*
10953650 TATGGA-TTAGGTAT
1 TATGGATTTAGGGAT
10953664 TATGG-TTTA
1 TATGGATTTA
10953673 ATTAAGGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:10953720 original size:15 final size:14
Alignment explanation
Indices: 10953695--10953726 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
10953685 TGGTCGAGAT
10953695 TTAAGGTTTAGGGG
1 TTAAGGTTTAGGGG
10953709 TTAAGAGTTTAGGGG
1 TTAAG-GTTTAGGGG
10953724 TTA
1 TTA
10953727 GACGTTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:10953763 original size:29 final size:30
Alignment explanation
Indices: 10953692--10953763 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 30
10953682 CGTTGGTCGA
* *
10953692 GATTTAAGGTTTAGGGGTTAAGAGTTTAGG
1 GATTTAGGGTTTAGGGGCTAAGAGTTTAGG
* * *
10953722 G-GTTAGACG-TTAGTGGCTAAGAG-TTAGG
1 GATTTAG-GGTTTAGGGGCTAAGAGTTTAGG
10953750 GATTTAGGGTTTAG
1 GATTTAGGGTTTAG
10953764 AGTTTTAGGG
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
28 7 0.22
29 23 0.72
30 2 0.06
ACGTcount: A:0.25, C:0.03, G:0.38, T:0.35
Consensus pattern (30 bp):
GATTTAGGGTTTAGGGGCTAAGAGTTTAGG
Found at i:10954234 original size:47 final size:46
Alignment explanation
Indices: 10954169--10954269 Score: 157
Period size: 47 Copynumber: 2.2 Consensus size: 46
10954159 AATAATGAAA
* *
10954169 TAAAAACACTAAACTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAA-ACTAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
*
10954216 TAAAAAACTAAAATTTTTAAATTTATCTAATTTTTATAAATATAACT
1 TAAAAAACT-AAACTTTTAAATTTATCTAATTTTTATAAATATAACT
10954263 TAAAAAA
1 TAAAAAA
10954270 ACCTATGTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
46 3 0.06
47 47 0.94
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (46 bp):
TAAAAAACTAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
Found at i:10957393 original size:14 final size:14
Alignment explanation
Indices: 10957374--10957403 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10957364 ACATAAAGCA
10957374 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
10957388 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
10957402 AC
1 AC
10957404 ACCTAATCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.33
Consensus pattern (14 bp):
ACTAACCTTTTCCC
Found at i:10958586 original size:15 final size:15
Alignment explanation
Indices: 10958566--10958595 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10958556 GAGTTGAAAG
10958566 TGAAGAAGAAGATGA
1 TGAAGAAGAAGATGA
*
10958581 TGAAGATGAAGATGA
1 TGAAGAAGAAGATGA
10958596 AGATGATCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
TGAAGAAGAAGATGA
Found at i:10958840 original size:23 final size:23
Alignment explanation
Indices: 10958813--10958868 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
10958803 ACTAAAAGTA
*
10958813 TATATTTAATACTAATTAATTTT
1 TATATTTAATAATAATTAATTTT
** *
10958836 TATA-TTAATAATGTTTTATTTT
1 TATATTTAATAATAATTAATTTT
*
10958858 AATATTTAATA
1 TATATTTAATA
10958869 TTTCTAAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TATATTTAATAATAATTAATTTT
Found at i:10958847 original size:15 final size:16
Alignment explanation
Indices: 10958829--10958861 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10958819 TAATACTAAT
10958829 TAAT-TTTTATATTAA
1 TAATGTTTTATATTAA
*
10958844 TAATGTTTTATTTTAA
1 TAATGTTTTATATTAA
10958860 TA
1 TA
10958862 TTTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TAATGTTTTATATTAA
Found at i:10959040 original size:43 final size:43
Alignment explanation
Indices: 10958933--10959116 Score: 181
Period size: 43 Copynumber: 4.3 Consensus size: 43
10958923 ATGGTGTTTT
* ** * * * **
10958933 TAGCGGCGTTTGTAATCAAAGCGTCGCTAAAGGTCTTTGATATA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATC-CTGAGCTA
* * * * *
10958977 TAGTGGCGTTTG-TGGTAAAAGCGTCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTTAG-AAAAGCGCCGCTAAAGATCCTGAGCTA
* ** *
10959020 TAGTGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCCAAGTTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGAGCTA
*
10959063 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGATCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGAGCTA
10959106 TAGCGGCGTTT
1 TAGCGGCGTTT
10959117 ATTTCTAAAA
Statistics
Matches: 119, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
43 88 0.74
44 31 0.26
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGAGCTA
Found at i:10959877 original size:31 final size:31
Alignment explanation
Indices: 10959839--10959914 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
10959829 AAATTGGGTT
10959839 CACACGCCCGTGTGCCCT-ACCCGTGTGGGCC
1 CACACGCCCGTGTGCCCTGA-CCGTGTGGGCC
10959870 CACACGCCCGTGTGCCCTGACCGTGTGGGCC
1 CACACGCCCGTGTGCCCTGACCGTGTGGGCC
* * *
10959901 TACACACTCGTGTG
1 CACACGCCCGTGTG
10959915 GATCACATGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 40 0.98
32 1 0.02
ACGTcount: A:0.12, C:0.41, G:0.29, T:0.18
Consensus pattern (31 bp):
CACACGCCCGTGTGCCCTGACCGTGTGGGCC
Found at i:10961092 original size:21 final size:21
Alignment explanation
Indices: 10961066--10961115 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
10961056 GCGTTACACT
* *
10961066 AATCTCACCACTATAGTATCC
1 AATCTCACCACTACAGTAACC
* *
10961087 AATCTCACCGCTACAGTAACT
1 AATCTCACCACTACAGTAACC
10961108 AATCTCAC
1 AATCTCAC
10961116 TGCCACCGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.34, G:0.06, T:0.26
Consensus pattern (21 bp):
AATCTCACCACTACAGTAACC
Found at i:10962840 original size:42 final size:42
Alignment explanation
Indices: 10962791--10962900 Score: 148
Period size: 43 Copynumber: 2.6 Consensus size: 42
10962781 AGATTACGAG
* * *
10962791 TAAGACCATATCTGGGATATGGCATCGATATGAGATTTCATT
1 TAAGACCATATCTGGGATATGGCATCGATATGAGAATCCATA
* ** *
10962833 TAAGACCATAGCTGGTCTATTGGAATCGATATGAGAATCCATA
1 TAAGACCATATCTGGGATA-TGGCATCGATATGAGAATCCATA
10962876 TAAGACCATATCTGGGATATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
10962901 TGGTATGGTA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 21 0.38
43 35 0.62
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCGATATGAGAATCCATA
Found at i:10965984 original size:27 final size:26
Alignment explanation
Indices: 10965948--10966022 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
10965938 CCCGGACACA
*
10965948 TAATTTTAATTTCTTAACCTATTTT-TT
1 TAATTCTAATTTCTTAA--TATTTTATT
*
10965975 TAATTCTAATTTTTTAATATTTTATT
1 TAATTCTAATTTCTTAATATTTTATT
10966001 TAA-T-TAA-TTCTTAATTATTTTA
1 TAATTCTAATTTCTTAA-TATTTTA
10966023 ATTATCTAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 6 0.14
24 10 0.23
25 7 0.16
26 5 0.12
27 15 0.35
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.63
Consensus pattern (26 bp):
TAATTCTAATTTCTTAATATTTTATT
Found at i:10966023 original size:16 final size:16
Alignment explanation
Indices: 10965972--10966025 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
10965962 TAACCTATTT
10965972 TTTTAATTC-TAATT-
1 TTTTAATTCTTAATTA
* *
10965986 TTTTAATATTTTATTTA
1 TTTTAAT-TCTTAATTA
*
10966003 -ATTAATTCTTAATTA
1 TTTTAATTCTTAATTA
10966018 TTTTAATT
1 TTTTAATT
10966026 ATCTAACCCG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
14 7 0.23
15 8 0.27
16 15 0.50
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTAATTCTTAATTA
Found at i:10969742 original size:21 final size:21
Alignment explanation
Indices: 10969716--10969758 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
10969706 AATGAGTAAA
10969716 CCTATTTTTTTCTATTTACTT
1 CCTATTTTTTTCTATTTACTT
10969737 CCTATTTTTTTCTATTTACTT
1 CCTATTTTTTTCTATTTACTT
10969758 C
1 C
10969759 TAATCTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.65
Consensus pattern (21 bp):
CCTATTTTTTTCTATTTACTT
Found at i:10973257 original size:21 final size:22
Alignment explanation
Indices: 10973225--10973267 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10973215 TTAAAGATAT
*
10973225 AAATAAAGATAA-AAGTAAAAA
1 AAATAAAGATAATAAATAAAAA
10973246 AAATAGAA-ATAATAAATAAAAA
1 AAATA-AAGATAATAAATAAAAA
10973268 GTCTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (22 bp):
AAATAAAGATAATAAATAAAAA
Found at i:10981712 original size:48 final size:48
Alignment explanation
Indices: 10981392--10981715 Score: 283
Period size: 48 Copynumber: 6.8 Consensus size: 48
10981382 TATAATTCCA
*
10981392 ATGCCATGTCCCAGACATGGTCTTACACTGG--CTCATCCATCAA-GTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-C-TCAATGCCG
* * * ** * *
10981439 ATGTCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCTCAATGCCG
* * * **
10981488 AAGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCTGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--ATCTCAATGCCG
* * *
10981538 ATGCCATGTCCCAGACATGGTCTTACACTGACAC-C-TCT-ATACGTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA-A--TGCCG
* * *
10981586 ATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATCTC-ATAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAT-GCCG
* *
10981632 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATGCCG
* *
10981678 CTGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
10981716 AATGTGGCCG
Statistics
Matches: 224, Mismatches: 36, Indels: 33
0.76 0.12 0.11
Matches are distributed among these distances:
44 10 0.04
45 15 0.07
46 22 0.10
47 46 0.21
48 55 0.25
49 37 0.17
50 39 0.17
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATGCCG
Found at i:10984281 original size:27 final size:27
Alignment explanation
Indices: 10984251--10984304 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
10984241 TTATTAATAA
10984251 TTTTAA-AAATAAATAT-ACATAATTTAT
1 TTTTAATAAAT-AAT-TGACATAATTTAT
*
10984278 TTTTAATAAATCATTGACATAATTTAT
1 TTTTAATAAATAATTGACATAATTTAT
10984305 AAGTCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 1 0.04
27 19 0.79
28 4 0.17
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (27 bp):
TTTTAATAAATAATTGACATAATTTAT
Found at i:10990008 original size:54 final size:54
Alignment explanation
Indices: 10989944--10990054 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
10989934 ACAGAGCATA
10989944 AAAGGCACAGAAAATTATCAACTACAGATGTCACCAGATTTAGCAAATACCTTC
1 AAAGGCACAGAAAATTATCAACTACAGATGTCACCAGATTTAGCAAATACCTTC
10989998 AAAGGCACAGAAAATTATCAACTACAGATGTCACCAGATTTAGCAAATACCTTC
1 AAAGGCACAGAAAATTATCAACTACAGATGTCACCAGATTTAGCAAATACCTTC
10990052 AAA
1 AAA
10990055 TGAAGATTGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.22
Consensus pattern (54 bp):
AAAGGCACAGAAAATTATCAACTACAGATGTCACCAGATTTAGCAAATACCTTC
Found at i:10993617 original size:18 final size:18
Alignment explanation
Indices: 10993590--10993626 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10993580 ATATATTATT
10993590 TACTACCATAAAAAATTA
1 TACTACCATAAAAAATTA
*
10993608 TACTATCATAAAAAATTA
1 TACTACCATAAAAAATTA
10993626 T
1 T
10993627 TTTAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (18 bp):
TACTACCATAAAAAATTA
Found at i:10993888 original size:34 final size:34
Alignment explanation
Indices: 10993850--10993959 Score: 89
Period size: 34 Copynumber: 3.1 Consensus size: 34
10993840 AAAACCACAA
*
10993850 TAATTGAATATTCCAACACATCAGTATTAATGTC
1 TAATTGAATATTCCAACACATCAATATTAATGTC
** * * * *
10993884 TAATT-TTTATTCTTAATA-ATTTAATATTAATTTAC
1 TAATTGAATATTC-CAACACA-TCAATATTAATGT-C
*
10993919 AATAATTGAATATTCCAACACATCATTATTAATGTC
1 --TAATTGAATATTCCAACACATCAATATTAATGTC
10993955 TAATT
1 TAATT
10993960 TTTATTCTTA
Statistics
Matches: 55, Mismatches: 14, Indels: 14
0.66 0.17 0.17
Matches are distributed among these distances:
33 6 0.11
34 23 0.42
35 1 0.02
36 1 0.02
37 18 0.33
38 6 0.11
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.44
Consensus pattern (34 bp):
TAATTGAATATTCCAACACATCAATATTAATGTC
Found at i:10993924 original size:71 final size:71
Alignment explanation
Indices: 10993846--10993988 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
10993836 GATCAAAACC
*
10993846 ACAATAATTGAATATTCCAACACATCAGTATTAATGTCTAATTTTTATTCTTAATAATTTAATAT
1 ACAATAATTGAATATTCCAACACATCAGTATTAATGTCTAATTTTTATTCTTAATAATCTAATAT
10993911 TAATTT
66 TAATTT
*
10993917 ACAATAATTGAATATTCCAACACATCATTATTAATGTCTAATTTTTATTCTTAATAATCTAATAT
1 ACAATAATTGAATATTCCAACACATCAGTATTAATGTCTAATTTTTATTCTTAATAATCTAATAT
10993982 TAATTT
66 TAATTT
10993988 A
1 A
10993989 TTAATTTTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (71 bp):
ACAATAATTGAATATTCCAACACATCAGTATTAATGTCTAATTTTTATTCTTAATAATCTAATAT
TAATTT
Found at i:10993983 original size:34 final size:35
Alignment explanation
Indices: 10993874--10993999 Score: 107
Period size: 34 Copynumber: 3.6 Consensus size: 35
10993864 AACACATCAG
*
10993874 TATTAATGT-CTAATTTTTATTCTTAATAATTTAA
1 TATTAATGTACTAATTTTTATTCTTAATAATCTAA
* ** * * *
10993908 TATTAATTTACAATAATTGAATATTC-CAACACATC-AT
1 TATTAATGTAC--TAATT-TTTATTCTTAATA-ATCTAA
10993945 TATTAATGT-CTAATTTTTATTCTTAATAATCTAA
1 TATTAATGTACTAATTTTTATTCTTAATAATCTAA
* *
10993979 TATTAATTTATTAATTTTTAT
1 TATTAATGTACTAATTTTTAT
10994000 ATCAAAATTT
Statistics
Matches: 69, Mismatches: 15, Indels: 15
0.70 0.15 0.15
Matches are distributed among these distances:
33 8 0.12
34 25 0.36
35 11 0.16
36 1 0.01
37 17 0.25
38 7 0.10
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (35 bp):
TATTAATGTACTAATTTTTATTCTTAATAATCTAA
Found at i:10995707 original size:16 final size:15
Alignment explanation
Indices: 10995683--10995712 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10995673 TATATTGGAC
10995683 TTTTTTATATTTTCT
1 TTTTTTATATTTTCT
10995698 TTTTTATATATTTTC
1 TTTTT-TATATTTTC
10995713 AATCAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTATATTTTCT
Found at i:10996337 original size:27 final size:27
Alignment explanation
Indices: 10996284--10996337 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
10996274 GGTTTTCATC
* *
10996284 TTTTCAAACATTTGGAGTGTTAGAATA
1 TTTTCAAACATTTAGAGTGTTACAATA
* * *
10996311 TTTTCAAATATTTATAGTGTTTCAATA
1 TTTTCAAACATTTAGAGTGTTACAATA
10996338 ATCATAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.46
Consensus pattern (27 bp):
TTTTCAAACATTTAGAGTGTTACAATA
Found at i:10998954 original size:24 final size:24
Alignment explanation
Indices: 10998922--10998980 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 24
10998912 AAGTTGATTT
*
10998922 CTATTGTTTAAAAGTATTAAATAG
1 CTATGGTTTAAAAGTATTAAATAG
10998946 CTATGGTTTTAAAAGTATTAAATAG
1 CTATGG-TTTAAAAGTATTAAATAG
10998971 CTATGGTTTA
1 CTATGGTTTA
10998981 TTAAATGAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 9 0.27
25 24 0.73
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.42
Consensus pattern (24 bp):
CTATGGTTTAAAAGTATTAAATAG
Found at i:10998960 original size:25 final size:25
Alignment explanation
Indices: 10998928--10998979 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
10998918 ATTTCTATTG
10998928 TTTAAAAGTATTAAATAGCTATGGT
1 TTTAAAAGTATTAAATAGCTATGGT
10998953 TTTAAAAGTATTAAATAGCTATGGT
1 TTTAAAAGTATTAAATAGCTATGGT
10998978 TT
1 TT
10998980 ATTAAATGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.42
Consensus pattern (25 bp):
TTTAAAAGTATTAAATAGCTATGGT
Found at i:11000854 original size:23 final size:23
Alignment explanation
Indices: 11000827--11000932 Score: 119
Period size: 23 Copynumber: 4.6 Consensus size: 23
11000817 ACAGCTCGTA
* *
11000827 AGAGCTTACTGTTTCAGCTTATT
1 AGAGCTTACTGTTTCAGCTCAAT
* *
11000850 GGAGCTTATTGATTT-AGCTCGAA-
1 AGAGCTTACTG-TTTCAGCTC-AAT
11000873 AGAGCTTACTG-TTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
*
11000895 AGAGCTTACCTTTTTCAGCTCAAT
1 AGAGCTTA-CTGTTTCAGCTCAAT
11000919 AGAGCTTACTGTTT
1 AGAGCTTACTGTTT
11000933 ATCAGCTTAG
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
21 4 0.06
22 13 0.19
23 29 0.42
24 23 0.33
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:11004706 original size:38 final size:38
Alignment explanation
Indices: 11004655--11004746 Score: 166
Period size: 38 Copynumber: 2.4 Consensus size: 38
11004645 TCCACCCGTA
11004655 CCAGCCCTACACTCCATGTGGAGAATAACTCAACCCAC
1 CCAGCCCTACACTCCATGTGGAGAATAACTCAACCCAC
*
11004693 CCAGCCCTACACTCCATGTGGGGAATAACTCAACCCAC
1 CCAGCCCTACACTCCATGTGGAGAATAACTCAACCCAC
*
11004731 CCAGCCCAACACTCCA
1 CCAGCCCTACACTCCA
11004747 CAGTTGCAGC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.30, C:0.42, G:0.13, T:0.14
Consensus pattern (38 bp):
CCAGCCCTACACTCCATGTGGAGAATAACTCAACCCAC
Found at i:11006477 original size:26 final size:26
Alignment explanation
Indices: 11006441--11006548 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
11006431 TGAAATTCCA
11006441 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11006467 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
11006493 ATCATGAAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
11006519 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11006545 ATCA
1 ATCA
11006549 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11010679 original size:22 final size:22
Alignment explanation
Indices: 11010616--11010721 Score: 99
Period size: 22 Copynumber: 4.6 Consensus size: 22
11010606 ACAACTCGTA
* *
11010616 AGAGCTTACTGTTTTAGCTCATT
1 AGAGCTTACTG-TTCAGCTCAAT
*
11010639 GGAGCTTA-TCGATTCAGCTCGAA-
1 AGAGCTTACT-G-TTCAGCTC-AAT
11010662 AGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
*
11010684 AGAGCTTACTGTTTTCATCTCAAT
1 AGAGCTTACTG--TTCAGCTCAAT
*
11010708 AGAGTTTACTGTTC
1 AGAGCTTACTGTTC
11010722 GTCAGCTCAG
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.03
22 23 0.33
23 23 0.33
24 22 0.31
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Done.