Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 108 of 145
Found at i:36348056 original size:21 final size:21
Alignment explanation
Indices: 36348030--36348091 Score: 124
Period size: 21 Copynumber: 3.0 Consensus size: 21
36348020 TCTATCATTA
36348030 AACTGCAAGAACATAAAAAAG
1 AACTGCAAGAACATAAAAAAG
36348051 AACTGCAAGAACATAAAAAAG
1 AACTGCAAGAACATAAAAAAG
36348072 AACTGCAAGAACATAAAAAA
1 AACTGCAAGAACATAAAAAA
36348092 TTCATCAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.63, C:0.15, G:0.13, T:0.10
Consensus pattern (21 bp):
AACTGCAAGAACATAAAAAAG
Found at i:36348392 original size:12 final size:12
Alignment explanation
Indices: 36348375--36348401 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36348365 TTAATTAATA
36348375 AAAAATTCAACT
1 AAAAATTCAACT
36348387 AAAAATTCAACT
1 AAAAATTCAACT
36348399 AAA
1 AAA
36348402 TCATGGTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAATTCAACT
Found at i:36352267 original size:17 final size:17
Alignment explanation
Indices: 36352232--36352274 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
36352222 CTCTTTTAGG
*
36352232 ATATTGTAATTGACGAA
1 ATATTATAATTGACGAA
36352249 ATATTATAATTGAAC-AA
1 ATATTATAATTG-ACGAA
36352266 ATAGTTATA
1 ATA-TTATA
36352275 TATATTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.37
Consensus pattern (17 bp):
ATATTATAATTGACGAA
Found at i:36357268 original size:28 final size:28
Alignment explanation
Indices: 36357236--36358283 Score: 2087
Period size: 28 Copynumber: 37.4 Consensus size: 28
36357226 GAATATTACA
36357236 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357264 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357292 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357320 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357348 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357376 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357404 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357432 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357460 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357488 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357516 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357544 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357572 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357600 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357628 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357656 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357684 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357712 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357740 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357768 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357796 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357824 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357852 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357880 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357908 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357936 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357964 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36357992 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36358020 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36358048 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36358076 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36358104 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36358132 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36358160 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36358188 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36358216 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
36358244 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
1 GTTTTGGGTTTAGGGTTTAGGGTTTAGG
*
36358272 GTTTAGGGTTTA
1 GTTTTGGGTTTA
36358284 AAGTGATATA
Statistics
Matches: 1019, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 1019 1.00
ACGTcount: A:0.11, C:0.00, G:0.43, T:0.46
Consensus pattern (28 bp):
GTTTTGGGTTTAGGGTTTAGGGTTTAGG
Found at i:36379424 original size:25 final size:26
Alignment explanation
Indices: 36379395--36379443 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
36379385 TGGAAACGGC
*
36379395 AATTA-ACAAAAATTCATAATTCTTT
1 AATTATACAAAAAGTCATAATTCTTT
**
36379420 AATTATGGAAAAAGTCATAATTCT
1 AATTATACAAAAAGTCATAATTCT
36379444 GGTAATAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (26 bp):
AATTATACAAAAAGTCATAATTCTTT
Found at i:36388703 original size:35 final size:35
Alignment explanation
Indices: 36388664--36388787 Score: 108
Period size: 35 Copynumber: 3.4 Consensus size: 35
36388654 AGCTCTATTT
36388664 GGATAAACCAACAATATTTGCACCCAGTGCTAGTC
1 GGATAAACCAACAATATTTGCACCCAGTGCTAGTC
* * *
36388699 GGATAAATCGATGA-AATAATTAGTGAACCCAGCT-CTAGTT
1 GGATAAA-CCA--ACAAT-ATT--TGCACCCAG-TGCTAGTC
* * *
36388739 GGATAAACCAACGATATTTGCACCTAGCGCTAGTC
1 GGATAAACCAACAATATTTGCACCCAGTGCTAGTC
*
36388774 GGATAAACCGACAA
1 GGATAAACCAACAA
36388788 ATGTGTGCCC
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
35 31 0.45
36 2 0.03
37 7 0.10
38 6 0.09
39 2 0.03
40 20 0.29
41 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (35 bp):
GGATAAACCAACAATATTTGCACCCAGTGCTAGTC
Found at i:36388724 original size:75 final size:74
Alignment explanation
Indices: 36388608--36388789 Score: 276
Period size: 75 Copynumber: 2.5 Consensus size: 74
36388598 ATGGCGGAAG
* * *
36388608 TTGCGCCC-GCGCTAGTCGGATAAACCGAGAAATAATTAGTGAGCCCAGCTCTATTTGGATAAAC
1 TTGCACCCAGCGCTAGTCGGATAAACCGAGAAATAATTAGTGAACCCAGCTCTAGTTGGATAAAC
36388672 CAACAATAT
66 CAACAATAT
* *
36388681 TTGCACCCAGTGCTAGTCGGATAAATCGATGAAATAATTAGTGAACCCAGCTCTAGTTGGATAAA
1 TTGCACCCAGCGCTAGTCGGATAAACCGA-GAAATAATTAGTGAACCCAGCTCTAGTTGGATAAA
*
36388746 CCAACGATAT
65 CCAACAATAT
* *
36388756 TTGCACCTAGCGCTAGTCGGATAAACCGACAAAT
1 TTGCACCCAGCGCTAGTCGGATAAACCGAGAAAT
36388790 GTGTGCCCAA
Statistics
Matches: 97, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
73 7 0.07
74 22 0.23
75 68 0.70
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (74 bp):
TTGCACCCAGCGCTAGTCGGATAAACCGAGAAATAATTAGTGAACCCAGCTCTAGTTGGATAAAC
CAACAATAT
Found at i:36388743 original size:40 final size:38
Alignment explanation
Indices: 36388619--36388746 Score: 122
Period size: 40 Copynumber: 3.4 Consensus size: 38
36388609 TGCGCCCGCG
*
36388619 CTAGTCGGATAAACCGAGAAATAATTAGTGAGCCCAGCT
1 CTAGTCGGATAAA-CGAGAAATAATTAGTGAACCCAGCT
* * * *
36388658 CTATTTGGATAAACCA-ACAAT-ATT--TGCACCCAG-T
1 CTAGTCGGATAAACGAGA-AATAATTAGTGAACCCAGCT
36388692 GCTAGTCGGATAAATCGATGAAATAATTAGTGAACCCAGCT
1 -CTAGTCGGATAAA-CGA-GAAATAATTAGTGAACCCAGCT
*
36388733 CTAGTTGGATAAAC
1 CTAGTCGGATAAAC
36388747 CAACGATATT
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
34 1 0.01
35 18 0.26
36 2 0.03
37 7 0.10
38 9 0.13
39 12 0.17
40 20 0.29
41 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (38 bp):
CTAGTCGGATAAACGAGAAATAATTAGTGAACCCAGCT
Found at i:36388841 original size:35 final size:34
Alignment explanation
Indices: 36388764--36388843 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
36388754 ATTTGCACCT
* * *
36388764 AGCGCTAGTCGGATAAACCGACAAATGTGTGCCC
1 AGCGCTAGTCAGATAAACCGACAAAAGTGCGCCC
* * * *
36388798 AACACTAGTCAGATAAACTGATAAAAGTTGCGCCC
1 AGCGCTAGTCAGATAAACCGACAAAAG-TGCGCCC
36388833 AGCGCTAGTCA
1 AGCGCTAGTCA
36388844 AACGAATTGG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
34 21 0.58
35 15 0.42
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.19
Consensus pattern (34 bp):
AGCGCTAGTCAGATAAACCGACAAAAGTGCGCCC
Found at i:36391302 original size:25 final size:26
Alignment explanation
Indices: 36391274--36391334 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
36391264 CATAGCTCTT
36391274 ATGAGCTTCCT-AATACTCAGCTCGC
1 ATGAGCTTCCTCAATACTCAGCTCGC
* * *
36391299 ATGAGCTT-CTCGATACTCTGCTTGC
1 ATGAGCTTCCTCAATACTCAGCTCGC
36391324 ATGAGCTTCCT
1 ATGAGCTTCCT
36391335 GTTATTCAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.06
25 27 0.87
26 2 0.06
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.33
Consensus pattern (26 bp):
ATGAGCTTCCTCAATACTCAGCTCGC
Found at i:36391378 original size:24 final size:25
Alignment explanation
Indices: 36391324--36391378 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
36391314 CTCTGCTTGC
*
36391324 ATGAGCTTCCTGTTATTCAGCTCGA
1 ATGAGCTTACTGTTATTCAGCTCGA
* *
36391349 AAGAGCTTACTGTT-TAT-AGCTCGT
1 ATGAGCTTACTGTTAT-TCAGCTCGA
36391373 ATGAGC
1 ATGAGC
36391379 ATATATGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (25 bp):
ATGAGCTTACTGTTATTCAGCTCGA
Found at i:36393927 original size:25 final size:26
Alignment explanation
Indices: 36393899--36393959 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
36393889 CATAGCTCTT
36393899 ATGAGCTTCCT-AATACTCAGCTCGC
1 ATGAGCTTCCTCAATACTCAGCTCGC
* * *
36393924 ATGAGCTT-CTCGATACTCTGCTTGC
1 ATGAGCTTCCTCAATACTCAGCTCGC
36393949 ATGAGCTTCCT
1 ATGAGCTTCCT
36393960 GTTATTCAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.06
25 27 0.87
26 2 0.06
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.33
Consensus pattern (26 bp):
ATGAGCTTCCTCAATACTCAGCTCGC
Found at i:36394003 original size:24 final size:25
Alignment explanation
Indices: 36393949--36394003 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
36393939 CTCTGCTTGC
*
36393949 ATGAGCTTCCTGTTATTCAGCTCGA
1 ATGAGCTTACTGTTATTCAGCTCGA
* *
36393974 AAGAGCTTACTGTT-TAT-AGCTCGT
1 ATGAGCTTACTGTTAT-TCAGCTCGA
36393998 ATGAGC
1 ATGAGC
36394004 ATATATGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (25 bp):
ATGAGCTTACTGTTATTCAGCTCGA
Found at i:36401331 original size:236 final size:230
Alignment explanation
Indices: 36400917--36401387 Score: 665
Period size: 236 Copynumber: 2.0 Consensus size: 230
36400907 TTGTCTTAAC
* * *
36400917 CTTTGGTTTTTGGTATATCTGTCAAAGGAATGTGGAAATTAGATGATGCATGTATTGTTATGGCG
1 CTTTGGTTTTTGGTACATCTGTCAAAGGAATGTGGAAATTAGATGATGCATGTATTGTTATGACA
* * * * *
36400982 GTAAATCATAGACATGAGTCTTGCATGTGCATCAGTATGGAAACTTCTTCCTTGGTGCATAAGCT
66 GTAAATCATAAACATGAGTCCTGCATGTGCATCAGTACGAAAACTCCTTCCTTGGTGCATAAGCT
*
36401047 CTGTATCCGGAACATCGTAAAGATGTATCGGAGCATTGATACGTATGATGGTGAAAAGAAAAAAA
131 CTGTATCCGGAACATCGTAAAGATGTATCGGAGCATTGATACGTATGATGATG-AAAG-----AA
36401112 AAAAGAGAAACGTTATTATAGGTTTCCCCTCTAGTACAACA
190 AAAAGAGAAACGTTATTATAGGTTTCCCCTCTAGTACAACA
36401153 CTTTGGTTTTTGGTACAT-TGTCAAAGGAATGTGGAAATTAGATGATGCATGTATTGTTGATGAC
1 CTTTGGTTTTTGGTACATCTGTCAAAGGAATGTGGAAATTAGATGATGCATGTATTGTT-ATGAC
* *
36401217 AGTAAATCATAAACGTGAGTCCTGCATGTGCATCAGTACGAAAACTCCTTCCTTGTTGCATAAGC
65 AGTAAATCATAAACATGAGTCCTGCATGTGCATCAGTACGAAAACTCCTTCCTTGGTGCATAAGC
** * * ** * *
36401282 TCTGTATTTGGAACATCGTAAGGATGTATTGGAGGGTTGATATGTATGATGATGAAAGAAAAAGG
130 TCTGTATCCGGAACATCGTAAAGATGTATCGGAGCATTGATACGTATGATGATGAAAGAAAAAAG
* * * *
36401347 AGAAACGTTATTATATGTTTGCCCTCTGGTACAATA
195 AGAAACGTTATTATAGGTTTCCCCTCTAGTACAACA
36401383 CTTTG
1 CTTTG
36401388 ATATAAATCG
Statistics
Matches: 211, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
230 43 0.20
235 44 0.21
236 124 0.59
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (230 bp):
CTTTGGTTTTTGGTACATCTGTCAAAGGAATGTGGAAATTAGATGATGCATGTATTGTTATGACA
GTAAATCATAAACATGAGTCCTGCATGTGCATCAGTACGAAAACTCCTTCCTTGGTGCATAAGCT
CTGTATCCGGAACATCGTAAAGATGTATCGGAGCATTGATACGTATGATGATGAAAGAAAAAAGA
GAAACGTTATTATAGGTTTCCCCTCTAGTACAACA
Found at i:36408049 original size:6 final size:6
Alignment explanation
Indices: 36408038--36408071 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
36408028 GACTTCTTTC
*
36408038 AAAAAT AAAAAT GAAAATT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT AAA
36408072 TAAATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:36408469 original size:40 final size:40
Alignment explanation
Indices: 36408424--36408500 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
36408414 AATTATTGTA
*
36408424 TGAATGCACATACGTTCCCATGTTTGTACTTCGGTACCCT
1 TGAATGCACATACGTACCCATGTTTGTACTTCGGTACCCT
*
36408464 TGAATGCACATACGTACCCTTGTTTGTACTTCGGTAC
1 TGAATGCACATACGTACCCATGTTTGTACTTCGGTAC
36408501 TCCTGAAGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (40 bp):
TGAATGCACATACGTACCCATGTTTGTACTTCGGTACCCT
Found at i:36408500 original size:20 final size:20
Alignment explanation
Indices: 36408444--36408500 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
36408434 TACGTTCCCA
36408444 TGTTTGTACTTCGGTACCCT
1 TGTTTGTACTTCGGTACCCT
** * *
36408464 TGAATGCACATAC-GTACCCT
1 TGTTTGTAC-TTCGGTACCCT
36408484 TGTTTGTACTTCGGTAC
1 TGTTTGTACTTCGGTAC
36408501 TCCTGAAGGC
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.39
Consensus pattern (20 bp):
TGTTTGTACTTCGGTACCCT
Found at i:36408964 original size:50 final size:51
Alignment explanation
Indices: 36408909--36409013 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 51
36408899 AGATGAACAC
36408909 CTTGATGTTTAGTTGTTGAATGAAGTGGTTTTAATCATAGTGCAATGCTT-
1 CTTGATGTTTAGTTGTTGAATGAAGTGGTTTTAATCATAGTGCAATGCTTA
36408959 CTTGATGTTTAGTTGTTGAATGAAGTGGTTTTAATCATAGTGCAATGCTTA
1 CTTGATGTTTAGTTGTTGAATGAAGTGGTTTTAATCATAGTGCAATGCTTA
36409010 CTTG
1 CTTG
36409014 CTTAATGTCT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 50 0.93
51 4 0.07
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.44
Consensus pattern (51 bp):
CTTGATGTTTAGTTGTTGAATGAAGTGGTTTTAATCATAGTGCAATGCTTA
Found at i:36409365 original size:42 final size:42
Alignment explanation
Indices: 36409302--36409381 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
36409292 CTAGTGTTTT
* * *
36409302 AAGTCAGTGAGTTACACGGCCTGGCACATGACCGTGTGTGGC
1 AAGTCAGAGAGTTACAAGGCCTGGAACATGACCGTGTGTGGC
*
36409344 AAGTCAGAGAGTTACAAGGCCTGGAACATGGCCGTGTG
1 AAGTCAGAGAGTTACAAGGCCTGGAACATGACCGTGTG
36409382 ACCCTACTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.25, C:0.21, G:0.34, T:0.20
Consensus pattern (42 bp):
AAGTCAGAGAGTTACAAGGCCTGGAACATGACCGTGTGTGGC
Found at i:36409398 original size:42 final size:42
Alignment explanation
Indices: 36409305--36409398 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
36409295 GTGTTTTAAG
* * *** *
36409305 TCAGTGAGTTACACGGCCTGGCACATGACCGTGTGTGGCAAG
1 TCAGTGAGTTACAAGGCCTGGAACATGACCGTGTGACCCAAC
* * *
36409347 TCAGAGAGTTACAAGGCCTGGAACATGGCCGTGTGACCCTAC
1 TCAGTGAGTTACAAGGCCTGGAACATGACCGTGTGACCCAAC
36409389 TCAGTGAGTT
1 TCAGTGAGTT
36409399 GCATGGGTGA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.22
Consensus pattern (42 bp):
TCAGTGAGTTACAAGGCCTGGAACATGACCGTGTGACCCAAC
Found at i:36410070 original size:45 final size:45
Alignment explanation
Indices: 36410003--36410089 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
36409993 TAGCCCTATT
* * * * *
36410003 TATCATGATGCCATGGCTTCTTTCAGCCATGGTTTTACTCATTTA
1 TATCATGAGGCCATAGCATCTTTCAACCATGGTCTTACTCATTTA
* *
36410048 TATCATGGGGCCATAGCATCTTTCAACTATGGTCTTACTCAT
1 TATCATGAGGCCATAGCATCTTTCAACCATGGTCTTACTCAT
36410090 CTCTAGTGTG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (45 bp):
TATCATGAGGCCATAGCATCTTTCAACCATGGTCTTACTCATTTA
Found at i:36411953 original size:18 final size:16
Alignment explanation
Indices: 36411924--36411966 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
36411914 ACATATTCGT
*
36411924 TTTTCATGTTTAATTTA
1 TTTTCATATTT-ATTTA
36411941 TTTTGCATATTTATTTA
1 TTTT-CATATTTATTTA
36411958 TTTTCATAT
1 TTTTCATAT
36411967 AAAACACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 5 0.21
17 13 0.54
18 6 0.25
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (16 bp):
TTTTCATATTTATTTA
Found at i:36413419 original size:24 final size:23
Alignment explanation
Indices: 36413375--36413421 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
36413365 TTTCATTATA
36413375 ATAATTAACTAAATATAATAATT
1 ATAATTAACTAAATATAATAATT
* *
36413398 ATAATTACCGTAATTATAATAATT
1 ATAATTAAC-TAAATATAATAATT
36413422 TTTGATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (23 bp):
ATAATTAACTAAATATAATAATT
Found at i:36413451 original size:39 final size:38
Alignment explanation
Indices: 36413394--36413493 Score: 128
Period size: 39 Copynumber: 2.6 Consensus size: 38
36413384 TAAATATAAT
** * *
36413394 AATTATAATTACCGTAATTATAATAATTTTTGATCAAAA
1 AATTATAATTACAATAATTATAATAATATTCGATC-AAA
* **
36413433 AATTACAATTACAATAATTATAATAATATTCGATCGTA
1 AATTATAATTACAATAATTATAATAATATTCGATCAAA
36413471 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
36413494 CAAGGATTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 23 0.43
39 30 0.57
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCGATCAAA
Found at i:36414248 original size:34 final size:33
Alignment explanation
Indices: 36414202--36414314 Score: 93
Period size: 33 Copynumber: 3.4 Consensus size: 33
36414192 GACTTACGTC
* * * *
36414202 GTGTTTACTGTCCT-GCTGGACTTACCTTTGTTCT
1 GTGTTTATTGTCCTAGC-AGACTT-CCTCTGGTCT
*
36414236 GTGTTTATTGTCCTAGCAGACTTTCTCTGGTCT
1 GTGTTTATTGTCCTAGCAGACTTCCTCTGGTCT
* * * * *
36414269 GTGTTTATTGTCCCAACAAACTTTCTCTGTTCT
1 GTGTTTATTGTCCTAGCAGACTTCCTCTGGTCT
* *
36414302 ATGTTTAGTGTCC
1 GTGTTTATTGTCC
36414315 CAACCGACTT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
33 47 0.70
34 18 0.27
35 2 0.03
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (33 bp):
GTGTTTATTGTCCTAGCAGACTTCCTCTGGTCT
Found at i:36414275 original size:33 final size:33
Alignment explanation
Indices: 36414233--36414318 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
36414223 TTACCTTTGT
* * *
36414233 TCTGTGTTTATTGTCCTAGCAGACTTTCTCTGG
1 TCTGTGTTTATTGTCCCAACAAACTTTCTCTGG
*
36414266 TCTGTGTTTATTGTCCCAACAAACTTTCTCTGT
1 TCTGTGTTTATTGTCCCAACAAACTTTCTCTGG
* *
36414299 TCTATGTTTAGTGTCCCAAC
1 TCTGTGTTTATTGTCCCAAC
36414319 CGACTTCTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.44
Consensus pattern (33 bp):
TCTGTGTTTATTGTCCCAACAAACTTTCTCTGG
Found at i:36416825 original size:26 final size:26
Alignment explanation
Indices: 36416796--36416847 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
36416786 AAAAAACATA
36416796 ATTATTTTTGTACAATTTTTAGTGAT
1 ATTATTTTTGTACAATTTTTAGTGAT
36416822 ATTATTTTTGTACAATTTTTAGTGAT
1 ATTATTTTTGTACAATTTTTAGTGAT
36416848 TTTCCAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.12, T:0.58
Consensus pattern (26 bp):
ATTATTTTTGTACAATTTTTAGTGAT
Found at i:36417397 original size:49 final size:49
Alignment explanation
Indices: 36417341--36417465 Score: 144
Period size: 51 Copynumber: 2.5 Consensus size: 49
36417331 TTGGTTCACG
*
36417341 TAGTAGCCTCCACATAGTACTACACGTGA-CCATAAATATCCAATACACA
1 TAGTAGCCTGCACATAGTACTACACGTGATCCA-AAATATCCAATACACA
* * ** ** *
36417390 TAGTAGCCTGCACATAGTACTAAACATGTGATCGAAGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACT--ACACGTGATCCAAAATATCCAATACACA
36417441 TAGTAGCCTGCACATAGTACTACAC
1 TAGTAGCCTGCACATAGTACTACAC
36417466 ATGCGACCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
49 23 0.36
51 39 0.61
52 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACGTGATCCAAAATATCCAATACACA
Found at i:36419884 original size:43 final size:43
Alignment explanation
Indices: 36419835--36420098 Score: 230
Period size: 43 Copynumber: 6.2 Consensus size: 43
36419825 GAAAAAATGG
* ** *
36419835 CGCTAAATACCAAGACCTTTAGCGACGCTTTTTTCACAAACAC
1 CGCTAAAGACCAAGACCTTTAGCGACGCTTTTGCCACAAACGC
* *
36419878 CGCTAAAGACCAAGACCTTTAGCGACGCTTTT-CCTGCAAATGC
1 CGCTAAAGACCAAGACCTTTAGCGACGCTTTTGCC-ACAAACGC
* * * *
36419921 CGCTATAGACCACGACCTTTAGCGCCGCTTTTGCCACAAACGT
1 CGCTAAAGACCAAGACCTTTAGCGACGCTTTTGCCACAAACGC
** * ** *
36419964 CGCTAAAGGTCATGGTCTTTAGTGACGCTTTTAG-CACAAACGC
1 CGCTAAAGACCAAGACCTTTAGCGACGCTTTT-GCCACAAACGC
* * * **
36420007 CGCTAAAGATCATGACCTTTAGCGACGCTTTTGTCACAAGTGC
1 CGCTAAAGACCAAGACCTTTAGCGACGCTTTTGCCACAAACGC
* * * * * *
36420050 CCCTAAAGAACAA-ACCTTTAGCGGCACTTCT-CGCAAAAACGC
1 CGCTAAAGACCAAGACCTTTAGCGACGCTTTTGC-CACAAACGC
36420092 CGCTAAA
1 CGCTAAA
36420099 AATATAACCT
Statistics
Matches: 179, Mismatches: 37, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
42 29 0.16
43 147 0.82
44 3 0.02
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
CGCTAAAGACCAAGACCTTTAGCGACGCTTTTGCCACAAACGC
Found at i:36423394 original size:20 final size:20
Alignment explanation
Indices: 36423337--36423396 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
36423327 ATCCCTAAAA
*
36423337 TTAAGGATAGAAATCTGCTG
1 TTAAGGATAGAAATCTGTTG
36423357 TTAAGGATAGAAATCTGTTG
1 TTAAGGATAGAAATCTGTTG
36423377 TTAAGGATAGAAATCTGTTG
1 TTAAGGATAGAAATCTGTTG
36423397 GATTCACTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (20 bp):
TTAAGGATAGAAATCTGTTG
Found at i:36428718 original size:20 final size:20
Alignment explanation
Indices: 36428661--36428720 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
36428651 ATCCCTAAAA
*
36428661 TTAAGGATAGAAATCTGCTG
1 TTAAGGATAGAAATCTGTTG
36428681 TTAAGGATAGAAATCTGTTG
1 TTAAGGATAGAAATCTGTTG
36428701 TTAAGGATAGAAATCTGTTG
1 TTAAGGATAGAAATCTGTTG
36428721 GATTCACTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (20 bp):
TTAAGGATAGAAATCTGTTG
Found at i:36431074 original size:33 final size:33
Alignment explanation
Indices: 36431037--36431108 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
36431027 AATCTAAATT
* * *
36431037 CTAAACCCTAACCCGACCCTAAATCTCTAATCC
1 CTAAACCCTAACCCGACCCCAAATCCCTAACCC
* *
36431070 CTAAACCCTAACTCGACCCCGAATCCCTAACCC
1 CTAAACCCTAACCCGACCCCAAATCCCTAACCC
36431103 CTAAAC
1 CTAAAC
36431109 ATTATTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.33, C:0.44, G:0.04, T:0.18
Consensus pattern (33 bp):
CTAAACCCTAACCCGACCCCAAATCCCTAACCC
Found at i:36431226 original size:14 final size:14
Alignment explanation
Indices: 36431199--36431232 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
36431189 TAACTGATCT
*
36431199 TAACCTCTAACCCC
1 TAACCCCTAACCCC
*
36431213 TAACCCCTAGCCCC
1 TAACCCCTAACCCC
36431227 TAACCC
1 TAACCC
36431233 ATAAACCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.53, G:0.03, T:0.18
Consensus pattern (14 bp):
TAACCCCTAACCCC
Found at i:36432577 original size:41 final size:41
Alignment explanation
Indices: 36432515--36432881 Score: 520
Period size: 41 Copynumber: 8.9 Consensus size: 41
36432505 TTTTATCATT
* *
36432515 ATTAGTGGCGCATTTTT-AAAAACGCCGCTAAAGGCCTGAGC
1 ATTAGCGGCGC-TTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
36432556 ATTAGCGGCACTTTTTCAAAAACGTCGCTAAAGGCTCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
** * *
36432597 ATTAGCGGTTCTTTTCCAAAAACGCCGCTAAAGGCCTGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
36432638 GTTAGCGGCGCTTTTCCAAAAACACCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* *
36432679 ATTAGCGGCGCTTCTTCAAAATCGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
*
36432720 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* *
36432761 ATTAGTGGCGCTTTTTCAAAAACGCCGTTAAAGGCCTCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCC-CGAGC
*
36432803 ATTAGCGGCGCTTTTTCAAAAAACGCCGCTAAAGGCCCGAGA
1 ATTAGCGGCGCTTTTTC-AAAAACGCCGCTAAAGGCCCGAGC
* *
36432845 ATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGGCCC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCC
36432882 AAAAAACTCA
Statistics
Matches: 293, Mismatches: 30, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
40 5 0.02
41 229 0.78
42 41 0.14
43 18 0.06
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:36433041 original size:40 final size:40
Alignment explanation
Indices: 36432941--36433041 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 40
36432931 TTCAAGAAAT
* *
36432941 GCCGCTAATGCTT-ATTTTTAGCTGTGTTTTCCAGAAAGC
1 GCCGCTAATGCTTGATTTTTAGCGGTGTTTTCCAAAAAGC
* ** *
36432980 GCCGCTAATGCTCGACCTTTAGCGGTGTTTT-TATAAAAGC
1 GCCGCTAATGCTTGATTTTTAGCGGTGTTTTCCA-AAAAGC
36433020 GCCGCTAATGCTTGATTTTTAG
1 GCCGCTAATGCTTGATTTTTAG
36433042 TGGCATTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 13 0.25
40 38 0.75
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (40 bp):
GCCGCTAATGCTTGATTTTTAGCGGTGTTTTCCAAAAAGC
Found at i:36433051 original size:40 final size:40
Alignment explanation
Indices: 36432975--36433051 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
36432965 TGTTTTCCAG
**
36432975 AAAGCGCCGCTAATGCTCGACCTTTAGCGGTGTTTTTATA
1 AAAGCGCCGCTAATGCTCGACCTTTAGCGGCATTTTTATA
* ** *
36433015 AAAGCGCCGCTAATGCTTGATTTTTAGTGGCATTTTT
1 AAAGCGCCGCTAATGCTCGACCTTTAGCGGCATTTTT
36433052 TGTCCAAACA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCTCGACCTTTAGCGGCATTTTTATA
Found at i:36433986 original size:15 final size:15
Alignment explanation
Indices: 36433968--36434026 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
36433958 TCAACTTAAA
36433968 TTTATAATAATTTAT
1 TTTATAATAATTTAT
*
36433983 TTTA-AAAAATATT-T
1 TTTATAATAAT-TTAT
* * *
36433997 TTGATAATTATTAAT
1 TTTATAATAATTTAT
36434012 TTTATAATAGATTTA
1 TTTATAATA-ATTTA
36434027 ATCAATTAAG
Statistics
Matches: 32, Mismatches: 8, Indels: 7
0.68 0.17 0.15
Matches are distributed among these distances:
14 10 0.31
15 18 0.56
16 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TTTATAATAATTTAT
Found at i:36438228 original size:29 final size:28
Alignment explanation
Indices: 36438169--36438848 Score: 492
Period size: 29 Copynumber: 24.4 Consensus size: 28
36438159 TTTTGACATT
* **
36438169 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTACCCTAACCTA
*
36438197 ATTTAATTAAAAACCCGTACCCCAACC--
1 ATTTAATTAAAAACCC-TACCCTAACCTA
* **
36438224 ---TAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTACCCTAACCTA
*
36438249 ATTTAAGTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCT-ACCCTAACCTA
* * *
36438278 TTTTACA-TGAAAACCCTAACCCTAACATA
1 ATTTA-ATTAAAAACCCT-ACCCTAACCTA
* * * *
36438307 TTTTAATTAAAATCCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTACCCTAACCTA
*
36438335 ATTTAATTAAAACCCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCT-ACCCTAACCTA
* * *
36438364 TTTTACA-TGAAAACCCTAACCCTAACATA
1 ATTTA-ATTAAAAACCCT-ACCCTAACCTA
* *
36438393 TTTTAATT-TAAA---T-CCCTAACCTA
1 ATTTAATTAAAAACCCTACCCTAACCTA
* * *
36438416 ACTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTACCCTAACCTA
36438444 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCT-ACCCTAACCTA
*
36438473 TTTTACA-TAAAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCT-ACCCTAACCTA
* * * * **
36438502 TTTTAATTTAAATCCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTACCCTAACCTA
36438530 ATTTAATT-AAAA----ACCCTAACCTA
1 ATTTAATTAAAAACCCTACCCTAACCTA
* * **
36438553 ACTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTACCCTAACCTA
36438581 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCT-ACCCTAACCTA
* * *
36438610 TTTTACA-TGAAAACCCTAGCCCTAACATA
1 ATTTA-ATTAAAAACCCTA-CCCTAACCTA
*
36438639 TTTTAATT-AAAA---T-CCCTAACCTA
1 ATTTAATTAAAAACCCTACCCTAACCTA
* *** *
36438662 ACTTAATTAAAAACCCTAATATAACTTA
1 ATTTAATTAAAAACCCTACCCTAACCTA
36438690 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCT-ACCCTAACCTA
* *
36438719 TTTTACA-TGAAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCT-ACCCTAACCTA
* *
36438748 TTTTAATTCAAAATCCCTAACCCTAACCTA
1 ATTTAATT-AAAAACCCT-ACCCTAACCTA
* **
36438778 ATTTAATTAAAAACCCTTACCCTGATTTA
1 ATTTAATTAAAAACCC-TACCCTAACCTA
* * *
36438807 TCATTTTATTTGAAATCCCTAACCCTAACCTA
1 --A-TTTAATTAAAAACCCT-ACCCTAACCTA
36438839 ATTTAATTAA
1 ATTTAATTAA
36438849 TGTAAAAACC
Statistics
Matches: 521, Mismatches: 88, Indels: 85
0.75 0.13 0.12
Matches are distributed among these distances:
23 51 0.10
24 24 0.05
25 2 0.00
27 5 0.01
28 151 0.29
29 233 0.45
30 33 0.06
31 2 0.00
32 20 0.04
ACGTcount: A:0.42, C:0.25, G:0.01, T:0.32
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTACCCTAACCTA
Found at i:36438317 original size:86 final size:86
Alignment explanation
Indices: 36438169--36438848 Score: 648
Period size: 86 Copynumber: 8.1 Consensus size: 86
36438159 TTTTGACATT
** **
36438169 ATTTAATTAAAAACCCTAA-CCTAATTTAATTTAATTAAAAACCCGT-ACCC---CA-A-CCTAA
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCC-TAACCCTAACATATTTTAA
*
36438227 TTAAAAACCCTAACCTAATTTA
65 TTAAAAACCCTAACCTAACTTA
* * *
36438249 ATTTAAGTAAAAACCCTAACCCTAACCTATTTTACA-TGAAAACCCTAACCCTAACATATTTTAA
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTA-ATTAAAAACCCTAACCCTAACATATTTTAA
*
36438313 TTAAAATCCCTAACCTAACTTA
65 TTAAAAACCCTAACCTAACTTA
* * *
36438335 ATTTAATTAAAACCCCTAACCCTAACCTATTTTACA-TGAAAACCCTAACCCTAACATATTTTAA
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTA-ATTAAAAACCCTAACCCTAACATATTTTAA
* *
36438399 TTTAAATCCCTAACCTAAC---
65 TTAAAAACCCTAACCTAACTTA
* *
36438418 --TTAATTAAAAACCCTAA-CCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTATTTTACA
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACATATTTTA-A
*
36438480 -TAAAAACCCTAACCCTAACCTA
65 TTAAAAACCCTAA-CCTAACTTA
* * * **
36438502 TTTTAATTTAAATCCCTAA-CCTAATTTAATTTAATTAAAAACCCTAA-CCTAAC-----TTAAT
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACATATTTTAAT
*
36438560 TAAAAACCCTAACCTAATTTA
66 TAAAAACCCTAACCTAACTTA
* * *
36438581 ATTTAATTAAAAACCCTAACCCTAACCTATTTTACA-TGAAAACCCTAGCCCTAACATATTTTAA
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTA-ATTAAAAACCCTAACCCTAACATATTTTAA
*
36438645 TTAAAATCCCTAACCTAAC---
65 TTAAAAACCCTAACCTAACTTA
** * *
36438664 --TTAATTAAAAACCCTAA-TATAACTTAATTTAATTAAAAACCCTAACCCTAACCTATTTTACA
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACATATTTTA-A
* *
36438726 -TGAAAACCCTAACCCTAACCTA
65 TTAAAAACCCTAA-CCTAACTTA
* * * **
36438748 TTTTAATTCAAAATCCCTAACCCTAACCTAATTTAATTAAAAACCCTTACCCTGATTTATCATTT
1 ATTTAATT-AAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT-A-ACAT-ATTT
* * * *
36438813 TATTTGAAATCCCTAACCCTAACCTA
62 TAATTAAAAACCCTAA-CCTAACTTA
36438839 ATTTAATTAA
1 ATTTAATTAA
36438849 TGTAAAAACC
Statistics
Matches: 507, Mismatches: 54, Indels: 68
0.81 0.09 0.11
Matches are distributed among these distances:
79 26 0.05
80 146 0.29
81 77 0.15
82 1 0.00
84 2 0.00
85 7 0.01
86 172 0.34
87 10 0.02
88 28 0.06
89 1 0.00
90 3 0.01
91 34 0.07
ACGTcount: A:0.42, C:0.25, G:0.01, T:0.32
Consensus pattern (86 bp):
ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACATATTTTAAT
TAAAAACCCTAACCTAACTTA
Found at i:36438337 original size:109 final size:107
Alignment explanation
Indices: 36438178--36438780 Score: 671
Period size: 109 Copynumber: 5.5 Consensus size: 107
36438168 TATTTAATTA
** * * * *
36438178 AAAACCCTAACCTAATTTAATTTAATTAAAAACCCGTACCCCAACCTAATTAAAAACCCTAACCT
1 AAAACCCTAACCTAACATATTTTAATTAAAAACCC-TAACCTAACTTAATTAAAAACCCTAACCT
*
36438243 AATTTAATTTAAGTAAAAACCCTAACCCTAACCTATTTTACATG
65 AACTTAATTTAA-TAAAAACCCTAACCCTAACCTATTTTACATG
*
36438287 AAAACCCTAACCCTAACATATTTTAATTAAAATCCCTAACCTAACTTAATTTAATTAAAACCCCT
1 AAAACCCTAA-CCTAACATATTTTAATTAAAAACCCTAACCTAACTTAA-TT-A--AAAA-CCCT
* * * * *
36438352 AACCCTAACCTATTTTACATGAAAACCCTAACCCTAACATATTTTA-ATTT
60 AA-CCTAACTTAATTTA-ATAAAAACCCTAACCCTAACCTATTTTACA-TG
*
36438402 AAATCCCTAACCTAAC-----TTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTA
1 AAAACCCTAACCTAACATATTTTAATTAAAAACCCTAACCTAAC-----TTAATTAAAAACCCTA
* * *
36438462 ACCCTAACCTATTTTACATAAAAACCCTAACCCTAACCTATTTTA-ATTT
61 A-CCTAACTTAATTTA-ATAAAAACCCTAACCCTAACCTATTTTACA-TG
* ** *
36438511 AAATCCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTA
1 AAAACCCTAACCTAACATATTTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTA
*
36438576 ATTTAATTTAATTAAAAACCCTAACCCTAACCTATTTTACATG
66 ACTTAATTTAA-TAAAAACCCTAACCCTAACCTATTTTACATG
* * **
36438619 AAAACCCTAGCCCTAACATATTTTAATTAAAATCCCTAACCTAACTTAATTAAAAACCCTAATAT
1 AAAACCCTA-ACCTAACATATTTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCT
36438684 AACTTAATTTAATTAAAAACCCTAACCCTAACCTATTTTACATG
65 AACTTAATTTAA-TAAAAACCCTAACCCTAACCTATTTTACATG
* * *
36438728 AAAACCCTAACCCTAACCTATTTTAATTCAAAATCCCTAACCCTAACCTAATT
1 AAAACCCTAA-CCTAACATATTTTAATT-AAAAACCCTAA-CCTAACTTAATT
36438781 TAATTAAAAA
Statistics
Matches: 435, Mismatches: 34, Indels: 48
0.84 0.07 0.09
Matches are distributed among these distances:
107 1 0.00
108 47 0.11
109 243 0.56
110 38 0.09
111 12 0.03
112 1 0.00
113 6 0.01
114 40 0.09
115 46 0.11
116 1 0.00
ACGTcount: A:0.42, C:0.26, G:0.01, T:0.31
Consensus pattern (107 bp):
AAAACCCTAACCTAACATATTTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTA
ACTTAATTTAATAAAAACCCTAACCCTAACCTATTTTACATG
Found at i:36438409 original size:23 final size:23
Alignment explanation
Indices: 36438381--36438586 Score: 115
Period size: 23 Copynumber: 8.0 Consensus size: 23
36438371 TGAAAACCCT
* **
36438381 AACCCTAACATATTTTAATTTAA
1 AACCCTAACCTAACTTAATTTAA
* *
36438404 ATCCCTAACCTAACTTAATTAAA
1 AACCCTAACCTAACTTAATTTAA
36438427 AACCCTAACCTAACTTAATTTAATTAAA
1 AACCCTAACCTAACTTAA--T--TT-AA
* *
36438455 AACCCTAACCCTAACCTATTTTACATAAA
1 AACCCTAA-CCTAACTTA-ATT---T-AA
36438484 AACCCTAACCCTAACCTATTTTAATTTAA
1 AACCCTAA-CCTAA-C----TTAATTTAA
* *
36438513 ATCCCTAACCTAATTTAATTTAATTAAA
1 AACCCTAACCTAACTTAA--T--TT-AA
*
36438541 AACCCTAACCTAACTTAATTAAA
1 AACCCTAACCTAACTTAATTTAA
*
36438564 AACCCTAACCTAATTTAATTTAA
1 AACCCTAACCTAACTTAATTTAA
36438587 TTAAAAACCC
Statistics
Matches: 145, Mismatches: 18, Indels: 40
0.71 0.09 0.20
Matches are distributed among these distances:
23 62 0.43
24 1 0.01
25 2 0.01
26 2 0.01
27 3 0.02
28 34 0.23
29 35 0.24
30 2 0.01
33 2 0.01
34 2 0.01
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (23 bp):
AACCCTAACCTAACTTAATTTAA
Found at i:36438606 original size:246 final size:249
Alignment explanation
Indices: 36438171--36438800 Score: 922
Period size: 246 Copynumber: 2.5 Consensus size: 249
36438161 TTGACATTAT
* * *
36438171 TTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCGT-ACCCCAACCTA----A-TTA
1 TTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCC-TAACCCTAACCTATTTTACATA
** * * * * *
36438230 AAAACCCTAA-CCTAATTTAATTTAAGTAAAAACCCTAACCCTAACCTATTTTACA-TGAAAACC
65 AAAACCCTAACCCTAACCTATTTTAATTAAAATCCCTAACCCTAACCTAATTTA-ATTAAAAACC
* *
36438293 CTAACCCTAACATATTTTAATTAAAATCCCTAACCTAACTTAATTTAATTAAAACCCCTAACCCT
129 CTAACCCTAAC----TTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCCT
*
36438358 AACCTATTTTACATGAAAACCCTAACCCTAACATATTTTAATTTAAATCCCTAACCTAAC
190 AACCTATTTTACATGAAAACCCTAACCCTAACATATTTTAATTAAAATCCCTAACCTAAC
36438418 TTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTATTTTACATAA
1 TTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTATTTTACATAA
* **
36438483 AAACCCTAACCCTAACCTATTTTAATTTAAATCCCTAA-CCTAATTTAATTTAATTAAAAACCCT
66 AAACCCTAACCCTAACCTATTTTAATTAAAATCCCTAACCCTAACCTAATTTAATTAAAAACCCT
*
36438547 AA-CCTAAC-TTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTA
131 AACCCTAACTTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTA
*
36438610 TTTTACATGAAAACCCTAGCCCTAACATATTTTAATTAAAATCCCTAACCTAAC
196 TTTTACATGAAAACCCTAACCCTAACATATTTTAATTAAAATCCCTAACCTAAC
** *
36438664 TTAATTAAAAACCCTAATATAACTTAATTTAATTAAAAACCCTAACCCTAACCTATTTTACATGA
1 TTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTATTTTACATAA
36438729 AAACCCTAACCCTAACCTATTTTAATTCAAAATCCCTAACCCTAACCTAATTTAATTAAAAACCC
66 AAACCCTAACCCTAACCTATTTTAATT-AAAATCCCTAACCCTAACCTAATTTAATTAAAAACCC
*
36438794 TTACCCT
130 TAACCCT
36438801 GATTTATCAT
Statistics
Matches: 347, Mismatches: 25, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
246 194 0.56
247 61 0.18
248 25 0.07
249 3 0.01
251 8 0.02
252 34 0.10
253 22 0.06
ACGTcount: A:0.42, C:0.26, G:0.01, T:0.31
Consensus pattern (249 bp):
TTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTATTTTACATAA
AAACCCTAACCCTAACCTATTTTAATTAAAATCCCTAACCCTAACCTAATTTAATTAAAAACCCT
AACCCTAACTTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTA
TTTTACATGAAAACCCTAACCCTAACATATTTTAATTAAAATCCCTAACCTAAC
Found at i:36438709 original size:23 final size:23
Alignment explanation
Indices: 36438521--36438709 Score: 90
Period size: 23 Copynumber: 7.3 Consensus size: 23
36438511 AAATCCCTAA
*
36438521 CCTAATTTAATTTAATTAAAAAC
1 CCTAACTTAATTTAATTAAAAAC
* *
36438544 CCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTTAATTAAAAAC
36438567 CCTAACCTAATTTAATTTAATTAAAAAC
1 CCTAA-C----TTAATTTAATTAAAAAC
* *
36438595 CCTAACCCTAACCTATTTTACATGAAAACCCTAGC
1 CCTAA--CT----TAATTTA-ATTAAAA----A-C
* * *
36438630 CCTAACATATTTTAATTAAAATC
1 CCTAACTTAATTTAATTAAAAAC
* *
36438653 CCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTTAATTAAAAAC
36438676 CCTAATATAACTTAATTTAATTAAAAAC
1 CC-----TAACTTAATTTAATTAAAAAC
36438704 CCTAAC
1 CCTAAC
36438710 CCTAACCTAT
Statistics
Matches: 129, Mismatches: 16, Indels: 42
0.69 0.09 0.22
Matches are distributed among these distances:
23 51 0.40
24 1 0.01
25 1 0.01
28 47 0.36
29 15 0.12
30 6 0.05
33 1 0.01
34 1 0.01
35 6 0.05
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (23 bp):
CCTAACTTAATTTAATTAAAAAC
Found at i:36439904 original size:9 final size:9
Alignment explanation
Indices: 36439887--36439917 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
36439877 TCGAGTTGAT
36439887 TCGAATAAC
1 TCGAATAAC
*
36439896 TCGATTAAC
1 TCGAATAAC
36439905 TCGAATAAC
1 TCGAATAAC
36439914 TCGA
1 TCGA
36439918 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:36442705 original size:20 final size:19
Alignment explanation
Indices: 36442680--36442723 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
36442670 ATTTTAAAAA
*
36442680 ATATATAATTTAGAATTTTT
1 ATATAT-ATTTAGAAATTTT
*
36442700 ATATATTTTTAGAAATTTT
1 ATATATATTTAGAAATTTT
36442719 A-ATAT
1 ATATAT
36442724 TTTGAATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 12 0.55
20 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
ATATATATTTAGAAATTTT
Found at i:36442712 original size:19 final size:18
Alignment explanation
Indices: 36442688--36442726 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
36442678 AAATATATAA
*
36442688 TTTAGAATTTTTATATATT
1 TTTAGAAATTTTA-ATATT
36442707 TTTAGAAATTTTAATATT
1 TTTAGAAATTTTAATATT
36442725 TT
1 TT
36442727 GAATACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTAGAAATTTTAATATT
Found at i:36461617 original size:50 final size:50
Alignment explanation
Indices: 36461537--36461722 Score: 273
Period size: 50 Copynumber: 3.7 Consensus size: 50
36461527 ATTTGGGTAA
*
36461537 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * *
36461587 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * * * *
36461637 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
*
36461687 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGC
36461723 TTTGGCATGT
Statistics
Matches: 121, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 92 0.76
51 29 0.24
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.18
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:36463935 original size:12 final size:12
Alignment explanation
Indices: 36463918--36463977 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
36463908 CTTATTCTAA
36463918 AAAAATAAAAAG
1 AAAAATAAAAAG
36463930 AAAAATAAAGAA-
1 AAAAATAAA-AAG
* *
36463942 AAAAAGAAAAAT
1 AAAAATAAAAAG
* *
36463954 AAAGAGAAAAGAG
1 AAAAATAAAA-AG
*
36463967 AAAATTAAAAA
1 AAAAATAAAAA
36463978 AATTTTATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 2 0.05
12 27 0.69
13 10 0.26
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (12 bp):
AAAAATAAAAAG
Found at i:36463941 original size:10 final size:10
Alignment explanation
Indices: 36463926--36463963 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
36463916 AAAAAAATAA
36463926 AAAGAAAAAT
1 AAAGAAAAAT
36463936 AAAG-AAAA-
1 AAAGAAAAAT
36463944 AAAGAAAAAT
1 AAAGAAAAAT
36463954 AAAGAGAAAA
1 AAAGA-AAAA
36463964 GAGAAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 4 0.16
9 8 0.32
10 9 0.36
11 4 0.16
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (10 bp):
AAAGAAAAAT
Found at i:36463952 original size:19 final size:19
Alignment explanation
Indices: 36463924--36463975 Score: 79
Period size: 18 Copynumber: 2.8 Consensus size: 19
36463914 CTAAAAAAAT
36463924 AAAAAGAAAAATAAAGA-A
1 AAAAAGAAAAATAAAGAGA
36463942 AAAAAGAAAAATAAAGAGA
1 AAAAAGAAAAATAAAGAGA
* *
36463961 AAAGAGAAAATTAAA
1 AAAAAGAAAAATAAA
36463976 AAAATTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 17 0.55
19 14 0.45
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (19 bp):
AAAAAGAAAAATAAAGAGA
Found at i:36465015 original size:17 final size:17
Alignment explanation
Indices: 36464993--36465025 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36464983 TGAATGAAAA
36464993 AAATGCTAG-GGCAATTG
1 AAATGCT-GTGGCAATTG
36465010 AAATGCTGTGGCAATT
1 AAATGCTGTGGCAATT
36465026 CTCAAAGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (17 bp):
AAATGCTGTGGCAATTG
Found at i:36468603 original size:45 final size:44
Alignment explanation
Indices: 36468546--36468635 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 44
36468536 TAAATTTGTC
* *
36468546 AAAAATTGGTTGAGTCCTTTAGTTGTCATTATCTTGGCAAATTG
1 AAAAATTGGTTGAGTCCTTCAGTTGTCATTATCTTGACAAATTG
36468590 AAAAACTTGGTTGAGTCCTTCAGTTGTCATTATCTTGACAAATTG
1 AAAAA-TTGGTTGAGTCCTTCAGTTGTCATTATCTTGACAAATTG
36468635 A
1 A
36468636 GAGTGTTCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 5 0.12
45 38 0.88
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (44 bp):
AAAAATTGGTTGAGTCCTTCAGTTGTCATTATCTTGACAAATTG
Found at i:36478142 original size:20 final size:19
Alignment explanation
Indices: 36478113--36478150 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
36478103 TGCTCCACCT
36478113 GCAAAACAAAGAACAACAC
1 GCAAAACAAAGAACAACAC
*
36478132 GCAACAACAAAGGACAACA
1 GCAA-AACAAAGAACAACA
36478151 GAGAGAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.61, C:0.26, G:0.13, T:0.00
Consensus pattern (19 bp):
GCAAAACAAAGAACAACAC
Found at i:36479114 original size:4 final size:4
Alignment explanation
Indices: 36479090--36479154 Score: 51
Period size: 4 Copynumber: 16.0 Consensus size: 4
36479080 ACCCTTTTTT
* * * *
36479090 TTTA TCTTA TTT- TTGTA TTTA TTTA TTTA TTTA GTTA TTTG TTTG CTTA
1 TTTA T-TTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
36479139 TTTA TATC TTTA TTTA
1 TTTA TTTA TTTA TTTA
36479155 AAACTTTGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
3 2 0.04
4 40 0.83
5 6 0.12
ACGTcount: A:0.20, C:0.05, G:0.06, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:36480353 original size:22 final size:22
Alignment explanation
Indices: 36480310--36480354 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
36480300 TCGTGGACCA
* *
36480310 AAATCGTTGTTTTAATAAAATC
1 AAATCGTTGTATTAAAAAAATC
36480332 AAATCGTT-TATTAAAAACAATC
1 AAATCGTTGTATTAAAAA-AATC
36480354 A
1 A
36480355 CTTTTTAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.36
Consensus pattern (22 bp):
AAATCGTTGTATTAAAAAAATC
Found at i:36482747 original size:198 final size:191
Alignment explanation
Indices: 36482416--36482804 Score: 706
Period size: 198 Copynumber: 2.0 Consensus size: 191
36482406 TAACAAAGGT
36482416 GGTTCTCATGCTCGACAGCAACTCGGTTTCGTTGCCGCAACCTCAGAAACCGGCATATTTAGCAG
1 GGTTCTCATGCTCGACAGCAACTCGGTTTCGTTGCCGCAACCTCAGAAACCGGCATATTTAGCAG
*
36482481 AAATGAGTGGAGTCCTCCAGGAGCAAAGGGGCTTGAAGAAGTGTCTGTCAATGAAGTGTCGATAA
66 AAATGAGTCGAGTCCTCCAGGAGCAAAGGGGCTTGAAGAAGTGTCTGTCAATGAAGTGTCGATAA
36482546 CTGAAATAGAGCCTCAATAGAGGAACTCTGGATTGTACAAAATACGTACAAATTGGCAATG
131 CTGAAATAGAGCCTCAATAGAGGAACTCTGGATTGTACAAAATACGTACAAATTGGCAATG
36482607 GGTTCTCATGCTCGACAGCAACTCGGTTTCGTTGCCGCAACCTCAGAAACCGGCATATTTCCTTA
1 GGTTCTCATGCTCGACAGCAACTCGGTTTCGTTGCCGCAACCTCAGAAACCGGCATA-----TT-
36482672 GTAGCAGAAATGAGTCGAGTCCTCCAGGAGCAAAGGGGCTTGAAGAAGTGTCTGTCAATGAAGTG
60 -TAGCAGAAATGAGTCGAGTCCTCCAGGAGCAAAGGGGCTTGAAGAAGTGTCTGTCAATGAAGTG
36482737 TCGATAACTGAAATAGAGCCTCAATAGAGGAACTCTGGATTGTACAAAATACGTACAAATTGGCA
124 TCGATAACTGAAATAGAGCCTCAATAGAGGAACTCTGGATTGTACAAAATACGTACAAATTGGCA
36482802 ATG
189 ATG
36482805 TTTCTGGGTC
Statistics
Matches: 190, Mismatches: 1, Indels: 7
0.96 0.01 0.04
Matches are distributed among these distances:
191 57 0.30
196 2 0.01
198 131 0.69
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (191 bp):
GGTTCTCATGCTCGACAGCAACTCGGTTTCGTTGCCGCAACCTCAGAAACCGGCATATTTAGCAG
AAATGAGTCGAGTCCTCCAGGAGCAAAGGGGCTTGAAGAAGTGTCTGTCAATGAAGTGTCGATAA
CTGAAATAGAGCCTCAATAGAGGAACTCTGGATTGTACAAAATACGTACAAATTGGCAATG
Found at i:36484334 original size:18 final size:18
Alignment explanation
Indices: 36484311--36484350 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
36484301 AGATAAATAA
*
36484311 TTTA-TTTAATATTTAAAT
1 TTTATTTTAATA-GTAAAT
36484329 TTTATTTTAATAGTAAAT
1 TTTATTTTAATAGTAAAT
36484347 TTTA
1 TTTA
36484351 AAAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTATTTTAATAGTAAAT
Found at i:36484945 original size:14 final size:14
Alignment explanation
Indices: 36484926--36484961 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
36484916 GAAAAGTAAG
36484926 TCATTTTCCAGAAA
1 TCATTTTCCAGAAA
*
36484940 TCATTTTCCAGAAG
1 TCATTTTCCAGAAA
36484954 TCATTTTC
1 TCATTTTC
36484962 AGTGAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (14 bp):
TCATTTTCCAGAAA
Found at i:36486960 original size:14 final size:14
Alignment explanation
Indices: 36486943--36486979 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
36486933 ATAAAGAAAA
36486943 ATATATAAATATAC
1 ATATATAAATATAC
*
36486957 ATATATATATATAC
1 ATATATAAATATAC
36486971 ATATTATAA
1 ATA-TATAA
36486980 CATAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATATAAATATAC
Found at i:36487131 original size:10 final size:9
Alignment explanation
Indices: 36487116--36487140 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
36487106 TTAATTAATG
36487116 AAAAAAATA
1 AAAAAAATA
36487125 AAAAAAATA
1 AAAAAAATA
36487134 AAAAAAA
1 AAAAAAA
36487141 CTAAGTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:36488711 original size:44 final size:44
Alignment explanation
Indices: 36488649--36488760 Score: 118
Period size: 44 Copynumber: 2.5 Consensus size: 44
36488639 GATCTGTTCT
**
36488649 CTACAACTTCAAAAAGATAAGATCT-GTGCCGTTAATCCACTCCA
1 CTACAACTTCAGGAAGATAAGAT-TAGTGCCGTTAATCCACTCCA
* * * * * * **
36488693 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCA
1 CTACAACTTCAGGAAGATAAGATTAGTGCCGTTAATCCACTCCA
36488737 CTACAACTTCAGGAAGATAAGATT
1 CTACAACTTCAGGAAGATAAGATT
36488761 CGCCATCTTC
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
43 1 0.02
44 53 0.98
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (44 bp):
CTACAACTTCAGGAAGATAAGATTAGTGCCGTTAATCCACTCCA
Found at i:36489291 original size:267 final size:267
Alignment explanation
Indices: 36488788--36489291 Score: 830
Period size: 267 Copynumber: 1.9 Consensus size: 267
36488778 TAAATTCCAA
* * *
36488788 GATTCGCTGTCGTAGCTTCAATCTGTTCCACTACACCGTCTGGGGAGTAAGATTCACCGTCGTGG
1 GATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCACCGTCGTGG
36488853 TTTCAATCTGCTCCACTGTAATGCTAAAAAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCC
66 TTTCAATCTGCTCCACTGTAATGCTAAAAAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCC
* *
36488918 ACTTCAGCTAATCCAAGCCTTAAATCTAGGGAGATAAGATTCTCCGTCGTGGCTTCAATCTACTC
131 ACTTCAGCTAATCCAAGCCTTAAATCTAGGGAGATAAGATTCACCATCGTGGCTTCAATCTACTC
* *
36488983 CGCTACAATGCCAGGGAAGTAAGACTCGCCGTCGCGGCTTCAGTCTTTTAAATTGCAATGTTGAG
196 CGCTACAATGCCAGGGAAATAAGACTCACCGTCGCGGCTTCAGTCTTTTAAATTGCAATGTTGAG
36489048 GAAATGT
261 GAAATGT
*
36489055 GATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGGAGTAAGATTCACCGTCGTGG
1 GATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCACCGTCGTGG
* *
36489120 TTTCAATCTGCTCTACTGTAATGCTAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCC
66 TTTCAATCTGCTCCACTGTAATGCTAAAAAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCC
* * *
36489185 ACTTCAGCTACTTCAAGCCTTAACA-CTAGGGAGATAAGATTCACCATCGTGGCTTCAATCTGCT
131 ACTTCAGCTAATCCAAGCCTTAA-ATCTAGGGAGATAAGATTCACCATCGTGGCTTCAATCTACT
* * * * *
36489249 CTGCTACAATGCTAGGGAAATAAGATTCACCGTTGTGGCTTCA
195 CCGCTACAATGCCAGGGAAATAAGACTCACCGTCGCGGCTTCA
36489292 ATATTTTCCA
Statistics
Matches: 218, Mismatches: 18, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
267 217 1.00
268 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (267 bp):
GATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCACCGTCGTGG
TTTCAATCTGCTCCACTGTAATGCTAAAAAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCC
ACTTCAGCTAATCCAAGCCTTAAATCTAGGGAGATAAGATTCACCATCGTGGCTTCAATCTACTC
CGCTACAATGCCAGGGAAATAAGACTCACCGTCGCGGCTTCAGTCTTTTAAATTGCAATGTTGAG
GAAATGT
Found at i:36501674 original size:55 final size:56
Alignment explanation
Indices: 36501615--36501738 Score: 214
Period size: 55 Copynumber: 2.2 Consensus size: 56
36501605 AAAAATAGAT
*
36501615 ATATACATATATATATAAATGAAAAAACATTCGTTTTAAAAAATAAATAT-TATAC
1 ATATACATATATATATAAATGAAAAAACATTCGTTTTAAAAAATAAATATATACAC
*
36501670 ATATATATATATATATAAATGAAAAAACATTCGTTTTAAAAAATAAATATATACAC
1 ATATACATATATATATAAATGAAAAAACATTCGTTTTAAAAAATAAATATATACAC
*
36501726 ATATACATTTATA
1 ATATACATATATA
36501739 CAAATATATA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
55 49 0.77
56 15 0.23
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.35
Consensus pattern (56 bp):
ATATACATATATATATAAATGAAAAAACATTCGTTTTAAAAAATAAATATATACAC
Found at i:36503078 original size:86 final size:87
Alignment explanation
Indices: 36502933--36503105 Score: 303
Period size: 86 Copynumber: 2.0 Consensus size: 87
36502923 GAAACCCTAG
* * *
36502933 GGTTTCTGCCATTGTTTTGGGCCACTAGATTTGGGTCTCTGCTTTATTTCATTTTGGGCCATGTA
1 GGTTTCTGCCATTGTTTTAGGCCACTAGATTTGGGCCTCTGCTTTATTTCAATTTGGGCCATGTA
36502998 TTCTGGGCCCA-TATTTGTTTT
66 TTCTGGGCCCATTATTTGTTTT
*
36503019 GGTTTCTGCCATTGTTTTAGGCCACTAGATTTGGGCCTTTGCTTTATTTCAATTTGGGCCATGTA
1 GGTTTCTGCCATTGTTTTAGGCCACTAGATTTGGGCCTCTGCTTTATTTCAATTTGGGCCATGTA
36503084 TTCTGGGCCCATTATTTGTTTT
66 TTCTGGGCCCATTATTTGTTTT
36503106 AGATTCAGCT
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
86 72 0.88
87 10 0.12
ACGTcount: A:0.13, C:0.18, G:0.23, T:0.46
Consensus pattern (87 bp):
GGTTTCTGCCATTGTTTTAGGCCACTAGATTTGGGCCTCTGCTTTATTTCAATTTGGGCCATGTA
TTCTGGGCCCATTATTTGTTTT
Found at i:36504108 original size:36 final size:36
Alignment explanation
Indices: 36504068--36504136 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
36504058 GATTATGTAA
36504068 TCTTAGAGTTCTAATTGTATACAACTTCTAATTTTC
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTTTC
* *
36504104 TCTTAGAGTTCTAATTGTATACAGCTTTTAATT
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATT
36504137 GTAGCCCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAACTTCTAATTTTC
Found at i:36509165 original size:17 final size:17
Alignment explanation
Indices: 36509143--36509205 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
36509133 AATCTTAGAG
36509143 TTCTAATTGTTTACAGC
1 TTCTAATTGTTTACAGC
*
36509160 TTCTAATTTTGTCTTAGAG-
1 TTCTAA--TTGT-TTACAGC
*
36509179 TTCTAATTGTATACAGC
1 TTCTAATTGTTTACAGC
*
36509196 TTTTAATTGT
1 TTCTAATTGT
36509206 AGTCCTTGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 4 0.11
17 19 0.50
19 10 0.26
20 5 0.13
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.51
Consensus pattern (17 bp):
TTCTAATTGTTTACAGC
Found at i:36509175 original size:36 final size:36
Alignment explanation
Indices: 36509135--36509203 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
36509125 GATTATGTAA
*
36509135 TCTTAGAGTTCTAATTGTTTACAGCTTCTAATTTTG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTTTG
*
36509171 TCTTAGAGTTCTAATTGTATACAGCTTTTAATT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATT
36509204 GTAGTCCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTTTG
Found at i:36509182 original size:19 final size:19
Alignment explanation
Indices: 36509135--36509186 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
36509125 GATTATGTAA
36509135 TCTTAGAGTTCTAA--TTG
1 TCTTAGAGTTCTAATTTTG
*
36509152 T-TTACAGCTTCTAATTTTG
1 TCTTAGAG-TTCTAATTTTG
36509171 TCTTAGAGTTCTAATT
1 TCTTAGAGTTCTAATT
36509187 GTATACAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 5 0.17
17 7 0.24
19 12 0.41
20 5 0.17
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.50
Consensus pattern (19 bp):
TCTTAGAGTTCTAATTTTG
Found at i:36512341 original size:18 final size:18
Alignment explanation
Indices: 36512309--36512343 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36512299 CGTTTTGGAT
**
36512309 TTAAAATTTTCTATTTTA
1 TTAAAATTTAATATTTTA
36512327 TTAAAATTTAATATTTT
1 TTAAAATTTAATATTTT
36512344 GGCCACTCAT
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:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAAAATTTAATATTTTA
Found at i:36512679 original size:21 final size:21
Alignment explanation
Indices: 36512655--36512706 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
36512645 GAATTTATTT
*
36512655 ATAAAAACAATAATTTTATAA
1 ATAAAAACAATAATCTTATAA
**
36512676 ATAAAATTAATAATCTTATAA
1 ATAAAAACAATAATCTTATAA
36512697 AT-AAAACAAT
1 ATAAAAACAAT
36512707 TCAAGAGACA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAAACAATAATCTTATAA
Found at i:36513942 original size:13 final size:13
Alignment explanation
Indices: 36513924--36513969 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
36513914 ATTCTCTCTC
36513924 TATAATTTTTTTT
1 TATAATTTTTTTT
* **
36513937 TATAATTATAGTT
1 TATAATTTTTTTT
36513950 TATAA--TTTTTT
1 TATAATTTTTTTT
36513961 TATAATTTT
1 TATAATTTT
36513970 AAAGAGGGTC
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
11 8 0.32
13 17 0.68
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (13 bp):
TATAATTTTTTTT
Found at i:36513964 original size:11 final size:11
Alignment explanation
Indices: 36513931--36513969 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
36513921 CTCTATAATT
36513931 TTTTTTTATAA
1 TTTTTTTATAA
*
36513942 TTATAGTTTATAA
1 TT-T-TTTTATAA
36513955 TTTTTTTATAA
1 TTTTTTTATAA
36513966 TTTT
1 TTTT
36513970 AAAGAGGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 13 0.54
12 2 0.08
13 9 0.38
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (11 bp):
TTTTTTTATAA
Found at i:36532617 original size:44 final size:44
Alignment explanation
Indices: 36532559--36532862 Score: 410
Period size: 44 Copynumber: 6.9 Consensus size: 44
36532549 AATCACAAAA
* * *
36532559 CCTAGCTCTCTGACCAGCATTGGAATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGT
* * *
36532603 CCTATCTCCCTGACCAGCAGAGGAATAGGTAGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGT
**
36532647 CCTATCTCCCTGACCAGCAGTGTTATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGT
* ** * *
36532691 CCTATCTCCCTGACCAGCAGAGGAAGGGGTAGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGT
* *
36532735 CCTAACTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGT
* * *
36532779 CCTAACTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTATGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGT
** **
36532823 CCTATCTCCCTGAATAATAGTGGAATAGGTTGAAGATTGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGT
36532863 GGATCCTGTC
Statistics
Matches: 228, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 228 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (44 bp):
CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGT
Found at i:36535130 original size:115 final size:115
Alignment explanation
Indices: 36534999--36535230 Score: 455
Period size: 115 Copynumber: 2.0 Consensus size: 115
36534989 TTTCGCATTG
36534999 TACCATTGTTTTTATATATGCATTCAAAAGATTATAAATCTCAAAGTTATTTCATACAAAGGTTT
1 TACCATTGTTTTTATATATGCATTCAAAAGATTATAAATCTCAAAGTTATTTCATACAAAGGTTT
*
36535064 TCAAAATAATGCAATACTCGAAATTTGGAATCCTCGAGAGAATGAAGCCC
66 TCAAAATAATGCAATACTCAAAATTTGGAATCCTCGAGAGAATGAAGCCC
36535114 TACCATTGTTTTTATATATGCATTCAAAAGATTATAAATCTCAAAGTTATTTCATACAAAGGTTT
1 TACCATTGTTTTTATATATGCATTCAAAAGATTATAAATCTCAAAGTTATTTCATACAAAGGTTT
36535179 TCAAAATAATGCAATACTCAAAATTTGGAATCCTCGAGAGAATGAAGCCC
66 TCAAAATAATGCAATACTCAAAATTTGGAATCCTCGAGAGAATGAAGCCC
36535229 TA
1 TA
36535231 ACGTATTGGG
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 116 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (115 bp):
TACCATTGTTTTTATATATGCATTCAAAAGATTATAAATCTCAAAGTTATTTCATACAAAGGTTT
TCAAAATAATGCAATACTCAAAATTTGGAATCCTCGAGAGAATGAAGCCC
Found at i:36538594 original size:25 final size:24
Alignment explanation
Indices: 36538554--36538632 Score: 90
Period size: 25 Copynumber: 3.3 Consensus size: 24
36538544 ATTAGGGATA
*
36538554 ATCGATTTCAGATCGTGAGAGCTT
1 ATCGATTTCAGCTCGTGAGAGCTT
*
36538578 ATCGATTCTCAGCTCGT-ATAGGCTT
1 ATCGATT-TCAGCTCGTGAGA-GCTT
*
36538603 ATCGATTTCAGCTTGTGAGAG-TT
1 ATCGATTTCAGCTCGTGAGAGCTT
*
36538626 ACCGATT
1 ATCGATT
36538633 CCCACCTCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
23 8 0.17
24 18 0.38
25 21 0.45
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (24 bp):
ATCGATTTCAGCTCGTGAGAGCTT
Found at i:36538657 original size:48 final size:49
Alignment explanation
Indices: 36538556--36538671 Score: 128
Period size: 48 Copynumber: 2.4 Consensus size: 49
36538546 TAGGGATAAT
* * * * * *
36538556 CGATTTCAGATCGTGAGAGCTTATCGATTCTCAGCTCGTATAGGCTTAT
1 CGATTTCAGATCGTGAGAGCTTACCGATTCCCACCTCATATAAGCTTAA
* *
36538605 CGATTTCAGCTTGTGAGAG-TTACCGATTCCCACCTCATATAAGCTTAA
1 CGATTTCAGATCGTGAGAGCTTACCGATTCCCACCTCATATAAGCTTAA
36538653 CGATTTACA-ACTCGTGAGA
1 CGATTT-CAGA-TCGTGAGA
36538672 ACATATTAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
48 29 0.53
49 26 0.47
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (49 bp):
CGATTTCAGATCGTGAGAGCTTACCGATTCCCACCTCATATAAGCTTAA
Found at i:36539843 original size:15 final size:16
Alignment explanation
Indices: 36539823--36539852 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36539813 TGGTGCCTTG
36539823 TTGATA-TGTGTTAAT
1 TTGATAGTGTGTTAAT
36539838 TTGATAGTGTGTTAA
1 TTGATAGTGTGTTAA
36539853 ACCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (16 bp):
TTGATAGTGTGTTAAT
Found at i:36550645 original size:30 final size:30
Alignment explanation
Indices: 36550611--36550668 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
36550601 CACGGGCTGG
36550611 CACAT-AGCCGTGTGTCCAGCCCATGTGGCT
1 CACATGAG-CGTGTGTCCAGCCCATGTGGCT
*
36550641 CACATGAGCGTGTGTCCAGCCCGTGTGG
1 CACATGAGCGTGTGTCCAGCCCATGTGG
36550669 ATCCTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.16, C:0.31, G:0.31, T:0.22
Consensus pattern (30 bp):
CACATGAGCGTGTGTCCAGCCCATGTGGCT
Found at i:36553865 original size:38 final size:38
Alignment explanation
Indices: 36553809--36553886 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
36553799 ACAACTTTAG
36553809 ACAATACTAAATACGGTCTAAATTTATCGAATGCAAAA
1 ACAATACTAAATACGGTCTAAATTTATCGAATGCAAAA
*
36553847 ACAATACTAAATATGGTCTAAATTTATCGAATGCAAAA
1 ACAATACTAAATACGGTCTAAATTTATCGAATGCAAAA
36553885 AC
1 AC
36553887 CACAGCTAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.27
Consensus pattern (38 bp):
ACAATACTAAATACGGTCTAAATTTATCGAATGCAAAA
Found at i:36557700 original size:19 final size:17
Alignment explanation
Indices: 36557660--36557702 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
36557650 AATTAGAATG
*
36557660 TAAAAATTAAACTAAAA
1 TAAAAATTAAAATAAAA
*
36557677 CAAAAATATAAAAATAAAA
1 TAAAAAT-T-AAAATAAAA
36557696 TAAAAAT
1 TAAAAAT
36557703 GGCTAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 1 0.05
19 14 0.67
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAAATTAAAATAAAA
Found at i:36558201 original size:21 final size:21
Alignment explanation
Indices: 36558177--36558217 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
36558167 AATTGAAATC
36558177 TCTTTCTAATTAAAACCCCTA
1 TCTTTCTAATTAAAACCCCTA
* *
36558198 TCTTTCTAATTGAAATCCCT
1 TCTTTCTAATTAAAACCCCT
36558218 TATTAGATTT
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:0.29, C:0.27, G:0.02, T:0.41
Consensus pattern (21 bp):
TCTTTCTAATTAAAACCCCTA
Found at i:36567580 original size:31 final size:31
Alignment explanation
Indices: 36567542--36567633 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
36567532 TATAACCTAG
36567542 TTTTTATAATCATTAACCTTTTTATTTTACC
1 TTTTTATAATCATTAACCTTTTTATTTTACC
* * ** *
36567573 TTTTTAT-A-C-CT-A---TTATAACTTA-G
1 TTTTTATAATCATTAACCTTTTTATTTTACC
36567596 TTTTTATAATCATTAACCTTTTTATTTTACC
1 TTTTTATAATCATTAACCTTTTTATTTTACC
36567627 TTTTTAT
1 TTTTTAT
36567634 GCCCAAAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 16
0.62 0.14 0.23
Matches are distributed among these distances:
23 7 0.16
24 8 0.19
25 1 0.02
26 1 0.02
27 2 0.05
28 1 0.02
29 1 0.02
30 8 0.19
31 14 0.33
ACGTcount: A:0.26, C:0.14, G:0.01, T:0.59
Consensus pattern (31 bp):
TTTTTATAATCATTAACCTTTTTATTTTACC
Found at i:36567597 original size:54 final size:54
Alignment explanation
Indices: 36567525--36567633 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
36567515 ATTTTTCTTT
36567525 TACCTATTATAACCTAGTTTTTATAATCATTAACCTTTTTATTTTACCTTTTTA
1 TACCTATTATAACCTAGTTTTTATAATCATTAACCTTTTTATTTTACCTTTTTA
*
36567579 TACCTATTATAACTTAGTTTTTATAATCATTAACCTTTTTATTTTACCTTTTTA
1 TACCTATTATAACCTAGTTTTTATAATCATTAACCTTTTTATTTTACCTTTTTA
36567633 T
1 T
36567634 GCCCAAAATT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.28, C:0.16, G:0.02, T:0.55
Consensus pattern (54 bp):
TACCTATTATAACCTAGTTTTTATAATCATTAACCTTTTTATTTTACCTTTTTA
Found at i:36568785 original size:17 final size:18
Alignment explanation
Indices: 36568763--36568796 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36568753 TTTTTCTAAT
36568763 ATTTAAA-ATATATTTTA
1 ATTTAAATATATATTTTA
*
36568780 ATTTAAATGTATATTTT
1 ATTTAAATATATATTTT
36568797 TTATTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
ATTTAAATATATATTTTA
Found at i:36569555 original size:21 final size:20
Alignment explanation
Indices: 36569529--36569579 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
36569519 TAATTTTTAT
* *
36569529 TTTTTTAATTAATTTCTAATA
1 TTTTTTAATAAATTT-TAAAA
36569550 TTTTTT-ATAAATTTTAAAA
1 TTTTTTAATAAATTTTAAAA
36569569 TTTTTATAATA
1 TTTTT-TAATA
36569580 TTCTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 9 0.35
20 8 0.31
21 9 0.35
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTAATAAATTTTAAAA
Found at i:36569562 original size:20 final size:18
Alignment explanation
Indices: 36569516--36569577 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
36569506 TAATTAATTG
* *
36569516 TTAT-AATTTTTATTTTT
1 TTATAAATTTTAAATTTT
*
36569533 TTAATTAATTTCTAATATTTT
1 TT-ATAAATTT-TAA-ATTTT
*
36569554 TTATAAATTTTAAAATTT
1 TTATAAATTTTAAATTTT
36569572 TTATAA
1 TTATAA
36569578 TATTCTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
17 2 0.05
18 12 0.32
19 8 0.22
20 9 0.24
21 6 0.16
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATAAATTTTAAATTTT
Found at i:36569571 original size:19 final size:20
Alignment explanation
Indices: 36569529--36569577 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
36569519 TAATTTTTAT
* *
36569529 TTTTTTAATTAATTTCTAATA
1 TTTTTT-ATAAATTTCTAAAA
36569550 TTTTTTATAAATTT-TAAAA
1 TTTTTTATAAATTTCTAAAA
36569569 -TTTTTATAA
1 TTTTTTATAA
36569578 TATTCTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 9 0.35
19 4 0.15
20 7 0.27
21 6 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTATAAATTTCTAAAA
Found at i:36569908 original size:22 final size:21
Alignment explanation
Indices: 36569875--36569920 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
36569865 TTCAACTAAT
*
36569875 TATCTATTGTAGCAATATATA
1 TATCTATTGTAGCAAAATATA
*
36569896 TATCTACTTGTAGCAAAATGTA
1 TATCTA-TTGTAGCAAAATATA
36569918 TAT
1 TAT
36569921 ATCCACTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (21 bp):
TATCTATTGTAGCAAAATATA
Found at i:36579231 original size:18 final size:19
Alignment explanation
Indices: 36579208--36579243 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
36579198 TCCAGTTACT
36579208 TAAAGAGCTCAA-AACAAA
1 TAAAGAGCTCAAGAACAAA
*
36579226 TAAAGAGTTCAAGAACAA
1 TAAAGAGCTCAAGAACAA
36579244 TACCAAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.14
Consensus pattern (19 bp):
TAAAGAGCTCAAGAACAAA
Found at i:36581500 original size:17 final size:17
Alignment explanation
Indices: 36581478--36581512 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
36581468 ATGAATAAAA
* *
36581478 AAATAATATTTTTTTTT
1 AAATAAAATATTTTTTT
36581495 AAATAAAATATTTTTTT
1 AAATAAAATATTTTTTT
36581512 A
1 A
36581513 TATTTTCTAA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AAATAAAATATTTTTTT
Found at i:36581627 original size:27 final size:27
Alignment explanation
Indices: 36581597--36581690 Score: 170
Period size: 27 Copynumber: 3.5 Consensus size: 27
36581587 CCTATCAGGT
36581597 AGGCGCCAATGAAGGTGCCTCACAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
36581624 AGGCGCCAATGAAGGTGCCTCACAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
* *
36581651 AGGCGCCAATGAAGGTGCCTCATATAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
36581678 AGGCGCCAATGAA
1 AGGCGCCAATGAA
36581691 TATTGTAATT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.31, C:0.24, G:0.32, T:0.13
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCACAGAG
Found at i:36581789 original size:21 final size:21
Alignment explanation
Indices: 36581760--36581803 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
36581750 TGGATTAGTA
*
36581760 TTTTGTATGAATATTGTAATT
1 TTTTATATGAATATTGTAATT
36581781 TTTTATATGAATATTGTAATT
1 TTTTATATGAATATTGTAATT
36581802 TT
1 TT
36581804 GTGTTTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (21 bp):
TTTTATATGAATATTGTAATT
Found at i:36583041 original size:28 final size:28
Alignment explanation
Indices: 36582978--36583033 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
36582968 TTTATATTTT
* * * *
36582978 CATATTTTATAATCTATATATGTTTATA
1 CATACTTTATAATATATATATATATATA
*
36583006 CATTCTTTATAATATATATATATATATA
1 CATACTTTATAATATATATATATATATA
36583034 TGTACTTTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (28 bp):
CATACTTTATAATATATATATATATATA
Found at i:36584926 original size:27 final size:27
Alignment explanation
Indices: 36584896--36584989 Score: 170
Period size: 27 Copynumber: 3.5 Consensus size: 27
36584886 CCTATCAGGT
36584896 AGGCGCCAATGAAGGTGCCTCACAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
36584923 AGGCGCCAATGAAGGTGCCTCACAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
*
36584950 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
*
36584977 AGACGCCAATGAA
1 AGGCGCCAATGAA
36584990 TATTGTAATT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.32, C:0.24, G:0.32, T:0.12
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCACAGAG
Found at i:36585027 original size:19 final size:19
Alignment explanation
Indices: 36584985--36585054 Score: 104
Period size: 19 Copynumber: 3.6 Consensus size: 19
36584975 AGAGACGCCA
*
36584985 ATGAATATTGTAATTTTTTAT
1 ATGAATATTGTAA--TTTTGT
36585006 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
*
36585025 ATGAATATTCTAATTTTGT
1 ATGAATATTGTAATTTTGT
36585044 ATGAATATTGT
1 ATGAATATTGT
36585055 TGTAATACCC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 33 0.72
21 13 0.28
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (19 bp):
ATGAATATTGTAATTTTGT
Found at i:36585318 original size:20 final size:20
Alignment explanation
Indices: 36585293--36585357 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
36585283 AATGGAAAGG
*
36585293 AATCAAAGGATTGAGAATCA
1 AATCAAAGGATTGAGAATAA
* * *
36585313 AATCAATGTAATG-GAA-AGA
1 AATCAAAGGATTGAGAATA-A
*
36585332 AATCAAAAGATTGAGAATAA
1 AATCAAAGGATTGAGAATAA
36585352 AATCAA
1 AATCAA
36585358 TGTAAACAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
19 13 0.38
20 20 0.59
21 1 0.03
ACGTcount: A:0.55, C:0.08, G:0.17, T:0.20
Consensus pattern (20 bp):
AATCAAAGGATTGAGAATAA
Found at i:36585325 original size:39 final size:39
Alignment explanation
Indices: 36585282--36585362 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
36585272 AGCAAAACAA
* * *
36585282 TAATGGAAAGGAATCAAAGGATTGAGAATCAAATCAATG
1 TAATGGAAAGAAATCAAAAGATTGAGAATAAAATCAATG
36585321 TAATGGAAAGAAATCAAAAGATTGAGAATAAAATCAATG
1 TAATGGAAAGAAATCAAAAGATTGAGAATAAAATCAATG
36585360 TAA
1 TAA
36585363 ACAAGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.53, C:0.06, G:0.20, T:0.21
Consensus pattern (39 bp):
TAATGGAAAGAAATCAAAAGATTGAGAATAAAATCAATG
Found at i:36590981 original size:20 final size:20
Alignment explanation
Indices: 36590956--36591020 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
36590946 AATGGAAAGG
*
36590956 AATCAAAGGATTGAGAATCA
1 AATCAAAGGATTGAGAATAA
* * *
36590976 AATCAATGTAATG-GAA-AGA
1 AATCAAAGGATTGAGAATA-A
*
36590995 AATCAAAAGATTGAGAATAA
1 AATCAAAGGATTGAGAATAA
36591015 AATCAA
1 AATCAA
36591021 TGTAAACAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
19 13 0.38
20 20 0.59
21 1 0.03
ACGTcount: A:0.55, C:0.08, G:0.17, T:0.20
Consensus pattern (20 bp):
AATCAAAGGATTGAGAATAA
Found at i:36590988 original size:39 final size:39
Alignment explanation
Indices: 36590945--36591025 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
36590935 AGCAAAACAA
* * *
36590945 TAATGGAAAGGAATCAAAGGATTGAGAATCAAATCAATG
1 TAATGGAAAGAAATCAAAAGATTGAGAATAAAATCAATG
36590984 TAATGGAAAGAAATCAAAAGATTGAGAATAAAATCAATG
1 TAATGGAAAGAAATCAAAAGATTGAGAATAAAATCAATG
36591023 TAA
1 TAA
36591026 ACAAGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.53, C:0.06, G:0.20, T:0.21
Consensus pattern (39 bp):
TAATGGAAAGAAATCAAAAGATTGAGAATAAAATCAATG
Found at i:36591426 original size:11 final size:11
Alignment explanation
Indices: 36591395--36591428 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
36591385 GAGCCTTTGT
*
36591395 TTTTTTTTTTG
1 TTTTTTTTTTC
*
36591406 TTTTTGTTTTC
1 TTTTTTTTTTC
36591417 TTTTTTTTTTC
1 TTTTTTTTTTC
36591428 T
1 T
36591429 ATGCTGCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:36593194 original size:60 final size:60
Alignment explanation
Indices: 36593112--36593233 Score: 167
Period size: 60 Copynumber: 2.0 Consensus size: 60
36593102 TGTATGAATA
* * * *
36593112 TTGTAATTATTTTATAAATAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTATAAATAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
36593172 TTGTAATTA-TTTA-AAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTATAAA--TAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
36593232 TT
1 TT
36593234 AGTTTAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
58 3 0.05
59 4 0.07
60 48 0.87
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (60 bp):
TTGTAATTATTTTATAAATAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:36593386 original size:15 final size:15
Alignment explanation
Indices: 36593345--36593386 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
36593335 GTTAACTAAT
*
36593345 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
36593360 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
36593376 TTAAATTTTAT
1 TTAAATTTTAT
36593387 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:36593500 original size:21 final size:21
Alignment explanation
Indices: 36593455--36593517 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
36593445 CATTTTTTTG
* * *
36593455 ATTACAAAATTACAAACACAAA
1 ATTACAATATT-CATACAAAAA
*
36593477 ATTACAATATTCATATAAAAA
1 ATTACAATATTCATACAAAAA
36593498 ATTACAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
36593518 TACTAATCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 26 0.72
22 10 0.28
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (21 bp):
ATTACAATATTCATACAAAAA
Found at i:36593570 original size:19 final size:19
Alignment explanation
Indices: 36593551--36593588 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
36593541 AAATTTAATT
36593551 ATAAAATAATTACAATATTA
1 ATAAAA-AATTACAATATTA
*
36593571 ATACAAAATTACAATATT
1 ATAAAAAATTACAATATT
36593589 CATTGGTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAAAAATTACAATATTA
Found at i:36593626 original size:27 final size:27
Alignment explanation
Indices: 36593587--36593651 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
36593577 AATTACAATA
* *
36593587 TTCATTGGTGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGACACC
*
36593614 TTCATTGGCGCCTCTCTGTGAGACACC
1 TTCATTGGCGCCTCTCTATGAGACACC
36593641 TTCATTGGCGC
1 TTCATTGGCGC
36593652 ATACCTGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.14, C:0.31, G:0.23, T:0.32
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATGAGACACC
Found at i:36593730 original size:11 final size:11
Alignment explanation
Indices: 36593714--36593756 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
36593704 TCGTATTTTT
36593714 TTAAAAAATTA
1 TTAAAAAATTA
*
36593725 TTAAAAAAATA
1 TTAAAAAATTA
*
36593736 TAAAAAAATTTA
1 TTAAAAAA-TTA
36593748 TTCAAAAAA
1 TT-AAAAAA
36593757 AAATATTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 17 0.65
12 3 0.12
13 6 0.23
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (11 bp):
TTAAAAAATTA
Found at i:36593731 original size:12 final size:12
Alignment explanation
Indices: 36593716--36593757 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 12
36593706 GTATTTTTTT
36593716 AAAAAATTATTA
1 AAAAAATTATTA
36593728 AAAAAA-TA-TA
1 AAAAAATTATTA
36593738 AAAAAATTTATTCA
1 AAAAAA-TTATT-A
36593752 AAAAAA
1 AAAAAA
36593758 AATATTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 8 0.31
11 2 0.08
12 8 0.31
13 1 0.04
14 7 0.27
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAAAATTATTA
Found at i:36596987 original size:20 final size:21
Alignment explanation
Indices: 36596950--36596989 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36596940 TGGTTGTTGT
*
36596950 TGGTTTTCCACTTCTCATTTA
1 TGGTTTCCCACTTCTCATTTA
*
36596971 TGGTTTCCCA-TTGTCATTT
1 TGGTTTCCCACTTCTCATTT
36596990 TTGCCACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.23, G:0.12, T:0.53
Consensus pattern (21 bp):
TGGTTTCCCACTTCTCATTTA
Found at i:36599367 original size:6 final size:6
Alignment explanation
Indices: 36599358--36599382 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
36599348 AAGATTAATA
36599358 TGGATT TGGATT TGGATT TGGATT T
1 TGGATT TGGATT TGGATT TGGATT T
36599383 TTTTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (6 bp):
TGGATT
Found at i:36609768 original size:101 final size:102
Alignment explanation
Indices: 36609626--36609824 Score: 355
Period size: 101 Copynumber: 2.0 Consensus size: 102
36609616 TCAATGCGAG
* * * *
36609626 GACCATCAAATACAATTTTTTTTATTATCGTGGTAGACAATCATTGGATGAATTTTATGAAGCTT
1 GACCAGCAAATACAATTTTTTTTATGATCATGGTAGACAATCATTGGATGAACTTTATGAAGCTT
36609691 AATTTTTCATTAAATTGGACCTTTGTTCTAGATGTTT
66 AATTTTTCATTAAATTGGACCTTTGTTCTAGATGTTT
36609728 GACCAGCAAATACAA-TTTTTTTATGATCATGGTAGACAATCATTGGATGAACTTTATGAAGCTT
1 GACCAGCAAATACAATTTTTTTTATGATCATGGTAGACAATCATTGGATGAACTTTATGAAGCTT
36609792 AATTTTTCATTAAATTGGACCTTTGTTCTAGAT
66 AATTTTTCATTAAATTGGACCTTTGTTCTAGAT
36609825 TTTTCCTAAA
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
101 79 0.85
102 14 0.15
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (102 bp):
GACCAGCAAATACAATTTTTTTTATGATCATGGTAGACAATCATTGGATGAACTTTATGAAGCTT
AATTTTTCATTAAATTGGACCTTTGTTCTAGATGTTT
Found at i:36616465 original size:13 final size:13
Alignment explanation
Indices: 36616447--36616472 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36616437 TAATTTACAC
36616447 GTGTGAAAATTTT
1 GTGTGAAAATTTT
36616460 GTGTGAAAATTTT
1 GTGTGAAAATTTT
36616473 ATCGTTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
GTGTGAAAATTTT
Found at i:36618828 original size:43 final size:43
Alignment explanation
Indices: 36618764--36618905 Score: 187
Period size: 43 Copynumber: 3.3 Consensus size: 43
36618754 AAATAAACAT
* * *
36618764 CGCTAAAGGTCATGACCTTTAGCGGCGCTTCTCCCACAAACGC
1 CGCTATAGATCATGACTTTTAGCGGCGCTTCTCCCACAAACGC
* * * *
36618807 CGCTATAGATCCTGACTTTTAGCAGTGCTTTTCCCACAAACGC
1 CGCTATAGATCATGACTTTTAGCGGCGCTTCTCCCACAAACGC
*
36618850 CGCTATAGAACATGA-TCTTTAGCGGCGCTTCTCCCACAAACGC
1 CGCTATAGATCATGACT-TTTAGCGGCGCTTCTCCCACAAACGC
*
36618893 CGCTAAAGATCAT
1 CGCTATAGATCAT
36618906 AGTCTTTAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 1 0.01
43 83 0.99
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (43 bp):
CGCTATAGATCATGACTTTTAGCGGCGCTTCTCCCACAAACGC
Found at i:36618924 original size:86 final size:84
Alignment explanation
Indices: 36618774--36618965 Score: 215
Period size: 86 Copynumber: 2.2 Consensus size: 84
36618764 CGCTAAAGGT
* * * *
36618774 CATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCCTGACTTTTAGCAGTGCTTTT
1 CATGATCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGATCATGACTTTAAGCA--GCTTTT
*
36618839 CCCACAAACGCCGCTATAGAA
64 ACCACAAACGCCGCTATAGAA
*
36618860 CATGATCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGATCATAGTCTTTAATGACA-CTTT
1 CATGATCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGATCAT-GACTTTAA-G-CAGCTTT
* * * * *
36618924 TATCACAAATGTCTCTGTAGAA
63 TACCACAAACGCCGCTATAGAA
* *
36618946 CATGATTTTTAACGGCGCTT
1 CATGATCTTTAGCGGCGCTT
36618966 TTATCACAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
86 81 0.90
87 6 0.07
88 1 0.01
89 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (84 bp):
CATGATCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGATCATGACTTTAAGCAGCTTTTAC
CACAAACGCCGCTATAGAA
Found at i:36618991 original size:43 final size:43
Alignment explanation
Indices: 36618841--36619026 Score: 142
Period size: 43 Copynumber: 4.3 Consensus size: 43
36618831 GTGCTTTTCC
* * * * * **
36618841 CACAAACGCCGCTATAGAACATGATCTTTAGCGGCGCTTCTCC
1 CACAAATGCCACTATAAAACATGATCTTTAACGGCGCTTTTAT
* * * * * *
36618884 CACAAACGCCGCTA-AAGATCAT-AGTCTTTAATGACACTTTTAT
1 CACAAATGCCACTATAA-AACATGA-TCTTTAACGGCGCTTTTAT
* * * * *
36618927 CACAAATGTCTCTGTAGAACATGATTTTTAACGGCGCTTTTAT
1 CACAAATGCCACTATAAAACATGATCTTTAACGGCGCTTTTAT
*
36618970 CACAAATGCCACTATAAAACATGATCTTTAGCGGCGCTTTTAT
1 CACAAATGCCACTATAAAACATGATCTTTAACGGCGCTTTTAT
* * *
36619013 AATAAACGCCACTA
1 CACAAATGCCACTA
36619027 AAAGTACCGT
Statistics
Matches: 111, Mismatches: 28, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
42 2 0.02
43 107 0.96
44 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
CACAAATGCCACTATAAAACATGATCTTTAACGGCGCTTTTAT
Found at i:36621355 original size:21 final size:21
Alignment explanation
Indices: 36621331--36621373 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
36621321 TAAATTATTT
36621331 AAAACCTCAAAATATTTCAAG
1 AAAACCTCAAAATATTTCAAG
* *
36621352 AAAACCTTAAAATGTTTCAAG
1 AAAACCTCAAAATATTTCAAG
36621373 A
1 A
36621374 CAGACAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAACCTCAAAATATTTCAAG
Found at i:36621368 original size:68 final size:68
Alignment explanation
Indices: 36621284--36621418 Score: 225
Period size: 68 Copynumber: 2.0 Consensus size: 68
36621274 CGAAGACCAT
*
36621284 AAAACCTAAAAATGTTTCAAGAAAGATAAAGAGATAATAAATTATTTAAAACCTCAAAATATTTC
1 AAAACCTAAAAATGTTTCAAGAAAGACAAAGAGATAATAAATTATTTAAAACCTCAAAATATTTC
36621349 AAG
66 AAG
* * * *
36621352 AAAACCTTAAAATGTTTCAAGACAGACAAAGATATAGTAAATTATTTAAAACCTCAAAATATTTC
1 AAAACCTAAAAATGTTTCAAGAAAGACAAAGAGATAATAAATTATTTAAAACCTCAAAATATTTC
36621417 AA
66 AA
36621419 AACAAACAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (68 bp):
AAAACCTAAAAATGTTTCAAGAAAGACAAAGAGATAATAAATTATTTAAAACCTCAAAATATTTC
AAG
Found at i:36621417 original size:47 final size:47
Alignment explanation
Indices: 36621352--36621445 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
36621342 ATATTTCAAG
* * * * *
36621352 AAAACCTTAAAATGTTTCAAGACAGACAAAGATATAGTAAATTATTT
1 AAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGTAAATTATTT
36621399 AAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGTAAATTATTT
1 AAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGTAAATTATTT
36621446 CAAGACAACC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.28
Consensus pattern (47 bp):
AAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGTAAATTATTT
Found at i:36621445 original size:30 final size:30
Alignment explanation
Indices: 36621411--36621503 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 30
36621401 AACCTCAAAA
*
36621411 TATTTCAAAACAAACAAAGAGATAGTAAAT
1 TATTTCAAAACAAACAAAGACATAGTAAAT
* * *
36621441 TATTTCAAGACAACCAAAGATATAGTAAAT
1 TATTTCAAAACAAACAAAGACATAGTAAAT
*
36621471 TA-TT-AAAACAGAGACAAAGACTTAGTAAAT
1 TATTTCAAAACA-A-ACAAAGACATAGTAAAT
36621501 TAT
1 TAT
36621504 AAAAAAACCT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
28 5 0.09
29 3 0.06
30 45 0.85
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (30 bp):
TATTTCAAAACAAACAAAGACATAGTAAAT
Found at i:36621531 original size:21 final size:21
Alignment explanation
Indices: 36621507--36621549 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
36621497 AAATTATAAA
36621507 AAAACCTCAAAATATTTCAAG
1 AAAACCTCAAAATATTTCAAG
* *
36621528 AAAACCTTAAAATGTTTCAAG
1 AAAACCTCAAAATATTTCAAG
36621549 A
1 A
36621550 CTGATAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAACCTCAAAATATTTCAAG
Found at i:36621589 original size:47 final size:47
Alignment explanation
Indices: 36621528--36621658 Score: 165
Period size: 47 Copynumber: 2.8 Consensus size: 47
36621518 ATATTTCAAG
* * *
36621528 AAAACCTTAAAATGTTTCAAGACTGATAAAGAGATAGTAAATTATTT
1 AAAACCTTAAAATGTTTCAAGACTAATAAAGAGATAGTAAAATATTA
* * * *
36621575 AAAATCTTAAAATGTTTCAAGACAAACAAAGAGAGAGTAAAATATTA
1 AAAACCTTAAAATGTTTCAAGACTAATAAAGAGATAGTAAAATATTA
* *
36621622 AAAACCTTAACATGTCTCAAGA-TAATCAAAGAGATAG
1 AAAACCTTAAAATGTTTCAAGACTAAT-AAAGAGATAG
36621659 AGATAAGGAA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
46 2 0.03
47 68 0.97
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (47 bp):
AAAACCTTAAAATGTTTCAAGACTAATAAAGAGATAGTAAAATATTA
Done.