Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 407 of 444
Found at i:118294397 original size:40 final size:40
Alignment explanation
Indices: 118294350--118294484 Score: 146
Period size: 40 Copynumber: 3.4 Consensus size: 40
118294340 TCAATATCTA
* *
118294350 GCACACTAAGTGTCATACATAGTCGAAGCTATCTCAAATC
1 GCACACTAAGTGCCATATATAGTCGAAGCTATCTCAAATC
* * * * *
118294390 AG-ACACTAAGTGCCATATATATTTGAAACTATGTCGAATC
1 -GCACACTAAGTGCCATATATAGTCGAAGCTATCTCAAATC
* * **
118294430 GCACACTAAGTGCCATATATAGCCGAAGCTATGTCGTATC
1 GCACACTAAGTGCCATATATAGTCGAAGCTATCTCAAATC
*
118294470 GCACACAAAGTGCCA
1 GCACACTAAGTGCCA
118294485 CAAATAACCG
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 78 0.98
41 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (40 bp):
GCACACTAAGTGCCATATATAGTCGAAGCTATCTCAAATC
Found at i:118296286 original size:27 final size:27
Alignment explanation
Indices: 118296246--118296361 Score: 101
Period size: 27 Copynumber: 4.3 Consensus size: 27
118296236 TCATAAACAC
* *
118296246 ATTAGGAAAGGAACGCCTTTGTGGCGA
1 ATTATGAAAGGAACGCCTTTATGGCGA
* **
118296273 ATTATGAAATGAACATCTTTATGGC-A
1 ATTATGAAAGGAACGCCTTTATGGCGA
* * * * *
118296299 CAATATAAAAAGAAAGCCTTTGTGGCGCA
1 -ATTATGAAAGGAACGCCTTTATGGCG-A
118296328 A-TATGAAAGGAACGCCTTTATGGCGA
1 ATTATGAAAGGAACGCCTTTATGGCGA
*
118296354 ATCATGAA
1 ATTATGAA
118296362 GGGATAGTCT
Statistics
Matches: 68, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
26 3 0.04
27 63 0.93
28 1 0.01
29 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (27 bp):
ATTATGAAAGGAACGCCTTTATGGCGA
Found at i:118316593 original size:18 final size:18
Alignment explanation
Indices: 118316570--118316610 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
118316560 TGCCAGGTGC
*
118316570 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
118316588 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
118316606 GTATC
1 GTATC
118316611 ATTTTCTCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:118318849 original size:27 final size:27
Alignment explanation
Indices: 118318811--118318864 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
118318801 GGATTAAATT
118318811 TATAAGGACATATTATTGTCTAGTATC
1 TATAAGGACATATTATTGTCTAGTATC
118318838 TATAAGGACATATTATTGTCTAGTATC
1 TATAAGGACATATTATTGTCTAGTATC
118318865 ATATGATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (27 bp):
TATAAGGACATATTATTGTCTAGTATC
Found at i:118320306 original size:21 final size:20
Alignment explanation
Indices: 118320272--118320329 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
118320262 GTTTTCTTTC
118320272 TTTATTTATTTATTTCATGT
1 TTTATTTATTTATTTCATGT
* *
118320292 TTTATTTCTTTTATTTTATGT
1 TTTATTT-ATTTATTTCATGT
118320313 TATTATATTATTATATT
1 T-TTAT-TTATT-TATT
118320330 ATATAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 7 0.23
21 12 0.39
22 6 0.19
23 6 0.19
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTATTTATTTATTTCATGT
Found at i:118322605 original size:125 final size:125
Alignment explanation
Indices: 118322373--118322888 Score: 630
Period size: 125 Copynumber: 4.1 Consensus size: 125
118322363 GCAAAGCAGA
* * * * *
118322373 AACTATTGTAGAAAAATAGCGTTCACGTGGGAGCTTTTTTCAGTAATTTTACTGATAGTGCATCA
1 AACTACTGTAGAAAAAGAGCGTTCACGTGAGAGC-TTTTTCAGTAATTTTGCTGACAGTGCATCA
* * * *
118322438 TGCTTAAAGCGTTTTTGACACTA-TTTTTCAGAACCGTTTTCTCAAAATTATTTTTTTAAG
65 TGCTTAAAGCGTTTTTGACACTATTTTTTCAGAATCATCTTCTCAAAATTATTTTTTCAAG
*
118322498 AACTACTGTAGAAAAAGAGCG-TCACGCGAGAGCCTTTTTCAGTAATTTTGCTGACAGTGCAT-A
1 AACTACTGTAGAAAAAGAGCGTTCACGTGAGAG-CTTTTTCAGTAATTTTGCTGACAGTGCATCA
* * * * *
118322561 CTGCCTT-AAGCATTTGTGATACTATTTTTTTAGAATCATCTTCTCAAAATTATTTTTTCAGG
65 -TG-CTTAAAGCGTTTTTGACACTATTTTTTCAGAATCATCTTCTCAAAATTATTTTTTCAAG
* * * * * *
118322623 AACTACTATAGAAAAAGAGCGTTTACATTAGAGCTTTTTCAGTAATTTTGCTGACAGTGGATCCT
1 AACTACTGTAGAAAAAGAGCGTTCACGTGAGAGCTTTTTCAGTAATTTTGCTGACAGTGCATCAT
* *
118322688 GCTTAAAGCGTTTTTGACACTATTTTTTTAGAATTATCTTCTCAAAATTATTTTTTCAAG
66 GCTTAAAGCGTTTTTGACACTATTTTTTCAGAATCATCTTCTCAAAATTATTTTTTCAAG
* * * *
118322748 AACTACTGTAGAAAAAGAGCGTCCACGTG-GAAGCTTTTTCAGTAATTTTGCTGAGAATGCATCT
1 AACTACTGTAGAAAAAGAGCGTTCACGTGAG-AGCTTTTTCAGTAATTTTGCTGACAGTGCATCA
* * * * * * *
118322812 TGCTTGAAGCGTTTTTTATATTATTTTTTCAGAATCGTCTTCTCAAAATTAATTTTTC-TG
65 TGCTTAAAGCGTTTTTGACACTATTTTTTCAGAATCATCTTCTCAAAATTATTTTTTCAAG
118322872 AAACTACTGTAGAAAAA
1 -AACTACTGTAGAAAAA
118322889 ACAAAATCCT
Statistics
Matches: 337, Mismatches: 45, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
123 1 0.00
124 56 0.17
125 273 0.81
126 7 0.02
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (125 bp):
AACTACTGTAGAAAAAGAGCGTTCACGTGAGAGCTTTTTCAGTAATTTTGCTGACAGTGCATCAT
GCTTAAAGCGTTTTTGACACTATTTTTTCAGAATCATCTTCTCAAAATTATTTTTTCAAG
Found at i:118323013 original size:35 final size:33
Alignment explanation
Indices: 118322973--118323088 Score: 117
Period size: 34 Copynumber: 3.4 Consensus size: 33
118322963 AACACAAAAA
* *
118322973 TTATTTATAAAAAATTAAACCTTAATTCAATTAAT
1 TTATTTA-AAAAACTTAAACC-TAATTTAATTAAT
* ** *
118323008 TTATTTAGAACCCTTAAACCCTAATTTAATTTAT
1 TTATTTAAAAAACTTAAA-CCTAATTTAATTAAT
**
118323042 TTATTTAAAACCCTTAAAACCTAATTTAATTAAT
1 TTATTTAAAAAACTT-AAACCTAATTTAATTAAT
118323076 TT-TTTAAAAAACT
1 TTATTTAAAAAACT
118323089 CTGAACCCAT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
33 9 0.13
34 48 0.70
35 12 0.17
ACGTcount: A:0.43, C:0.13, G:0.01, T:0.43
Consensus pattern (33 bp):
TTATTTAAAAAACTTAAACCTAATTTAATTAAT
Found at i:118323027 original size:34 final size:33
Alignment explanation
Indices: 118322987--118323084 Score: 135
Period size: 34 Copynumber: 2.9 Consensus size: 33
118322977 TTATAAAAAA
* *
118322987 TTAAACCTTAATTCAATTAATTTATTTAGAACCC
1 TTAAACC-TAATTTAATTAATTTATTTAAAACCC
*
118323021 TTAAACCCTAATTTAATTTATTTATTTAAAACCC
1 TTAAA-CCTAATTTAATTAATTTATTTAAAACCC
118323055 TTAAAACCTAATTTAATTAATTT-TTTAAAA
1 TT-AAACCTAATTTAATTAATTTATTTAAAA
118323085 AACTCTGAAC
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
33 7 0.12
34 46 0.79
35 5 0.09
ACGTcount: A:0.41, C:0.14, G:0.01, T:0.44
Consensus pattern (33 bp):
TTAAACCTAATTTAATTAATTTATTTAAAACCC
Found at i:118325897 original size:27 final size:27
Alignment explanation
Indices: 118325867--118325922 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
118325857 ATCCGAGCAA
118325867 CTCGAGGTAAGTTCGTATAATTAGAAT
1 CTCGAGGTAAGTTCGTATAATTAGAAT
118325894 CTCGAGGTAAGTTCGTATAATTAGAAT
1 CTCGAGGTAAGTTCGTATAATTAGAAT
118325921 CT
1 CT
118325923 AACTTTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (27 bp):
CTCGAGGTAAGTTCGTATAATTAGAAT
Found at i:118326198 original size:22 final size:22
Alignment explanation
Indices: 118326170--118326215 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
118326160 CCGTTTCTGT
118326170 TTCAGCTCTATAGAGCTTACCG
1 TTCAGCTCTATAGAGCTTACCG
* *
118326192 TTCAGCTCTTTGGAGCTTACCG
1 TTCAGCTCTATAGAGCTTACCG
118326214 TT
1 TT
118326216 TATCAGCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (22 bp):
TTCAGCTCTATAGAGCTTACCG
Found at i:118326674 original size:17 final size:17
Alignment explanation
Indices: 118326649--118326687 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
118326639 TCCGTTTATA
*
118326649 ATTCAGAAGCATGCTCG
1 ATTCGGAAGCATGCTCG
*
118326666 ATTCGGAAGCTTGCTCG
1 ATTCGGAAGCATGCTCG
118326683 ATTCG
1 ATTCG
118326688 AATAAAGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (17 bp):
ATTCGGAAGCATGCTCG
Found at i:118334804 original size:16 final size:16
Alignment explanation
Indices: 118334757--118334814 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
118334747 TAAATTATCA
* **
118334757 AAAAAGTAAATAAACC
1 AAAAATTAAATAAAAT
118334773 AAAAA-TAAATTAAAAT
1 AAAAATTAAA-TAAAAT
118334789 AAAAATTAAATAAAAT
1 AAAAATTAAATAAAAT
**
118334805 CCAAATTAAA
1 AAAAATTAAA
118334815 ACAGTCCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 4 0.11
16 28 0.78
17 4 0.11
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.21
Consensus pattern (16 bp):
AAAAATTAAATAAAAT
Found at i:118336190 original size:2 final size:2
Alignment explanation
Indices: 118336183--118336223 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
118336173 TATACAATTT
118336183 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
118336224 TATTGATTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:118336554 original size:29 final size:30
Alignment explanation
Indices: 118336522--118336586 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
118336512 TATGGTTTTA
*
118336522 TTTATATA-ATTCATT-TATATTTAAAACTT
1 TTTATATATATACATTATATATTTAAAA-TT
* *
118336551 TTTA-ATATATACATTATTTGTTTAAAATT
1 TTTATATATATACATTATATATTTAAAATT
118336580 TTTATAT
1 TTTATAT
118336587 GGGTACCCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 3 0.10
29 16 0.53
30 11 0.37
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (30 bp):
TTTATATATATACATTATATATTTAAAATT
Found at i:118349585 original size:9 final size:9
Alignment explanation
Indices: 118349571--118349602 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
118349561 ATTGTGCAGT
118349571 GCAGCAGCG
1 GCAGCAGCG
118349580 GCAGCAGCG
1 GCAGCAGCG
*
118349589 GCAGCAGCA
1 GCAGCAGCG
118349598 GCAGC
1 GCAGC
118349603 TGTTTGGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.25, C:0.34, G:0.41, T:0.00
Consensus pattern (9 bp):
GCAGCAGCG
Found at i:118350782 original size:20 final size:21
Alignment explanation
Indices: 118350753--118350792 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
118350743 TATTTTTTAA
*
118350753 TAATATTTTTATTA-TTAATG
1 TAATAGTTTTATTACTTAATG
*
118350773 TAATAGTTTTGTTACTTAAT
1 TAATAGTTTTATTACTTAAT
118350793 TAGACTTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (21 bp):
TAATAGTTTTATTACTTAATG
Found at i:118351021 original size:26 final size:25
Alignment explanation
Indices: 118350987--118351038 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
118350977 AATTTTTTAA
*
118350987 AAGGTTAAACTAG-AATTTTATCATTT
1 AAGGGTAAACT-GTAATTTT-TCATTT
*
118351013 AAGGGTAAAGTGTAATTTTTCATTT
1 AAGGGTAAACTGTAATTTTTCATTT
118351038 A
1 A
118351039 TTAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (25 bp):
AAGGGTAAACTGTAATTTTTCATTT
Found at i:118353926 original size:2 final size:2
Alignment explanation
Indices: 118353919--118353943 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
118353909 AGTACTAAGG
118353919 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
118353944 TTGTATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:118357601 original size:19 final size:19
Alignment explanation
Indices: 118357564--118357601 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
118357554 AAAATTAATT
*
118357564 TTTAATTAACTATACAAAA
1 TTTAATTAACTACACAAAA
118357583 TTTAA-TAACTACACTAAAA
1 TTTAATTAACTACAC-AAAA
118357602 AAATCAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (19 bp):
TTTAATTAACTACACAAAA
Found at i:118357613 original size:23 final size:23
Alignment explanation
Indices: 118357587--118357653 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
118357577 ACAAAATTTA
*
118357587 ATAACTACACTAAAAAAATCAAT
1 ATAACTACAATAAAAAAATCAAT
* *
118357610 ATAACTACAAT-AACAAATTAAT
1 ATAACTACAATAAAAAAATCAAT
*
118357632 ATAA-TGCAATAAAAAAAATCAA
1 ATAACTACAAT-AAAAAAATCAA
118357654 AAACCCAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 5 0.14
22 13 0.36
23 18 0.50
ACGTcount: A:0.63, C:0.13, G:0.01, T:0.22
Consensus pattern (23 bp):
ATAACTACAATAAAAAAATCAAT
Found at i:118359882 original size:22 final size:22
Alignment explanation
Indices: 118359848--118359892 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
118359838 TAGTATTAAT
* *
118359848 ATAATAGCAAAATGATAACAAA
1 ATAATAGCAAAATAACAACAAA
**
118359870 ATAATAGTGAAATAACAACAAA
1 ATAATAGCAAAATAACAACAAA
118359892 A
1 A
118359893 CAACTTATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (22 bp):
ATAATAGCAAAATAACAACAAA
Found at i:118359892 original size:33 final size:33
Alignment explanation
Indices: 118359829--118359892 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
118359819 CTAGATAATA
* * * *
118359829 ATAACAAAATAGTATTAATATAATAGCAAAATG
1 ATAACAAAATAATATGAATATAACAACAAAATG
118359862 ATAACAAAATAATAGTGAA-ATAACAACAAAA
1 ATAACAAAATAATA-TGAATATAACAACAAAA
118359893 CAACTTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 23 0.88
34 3 0.12
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (33 bp):
ATAACAAAATAATATGAATATAACAACAAAATG
Found at i:118365353 original size:64 final size:64
Alignment explanation
Indices: 118365277--118365404 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
118365267 ATTATTTTGA
118365277 CATAGTTACTTTTTTCTCCTCCAACTTTATAAAAAAATAATTTTAGTCCTCTATTTATTTTTTC
1 CATAGTTACTTTTTTCTCCTCCAACTTTATAAAAAAATAATTTTAGTCCTCTATTTATTTTTTC
118365341 CATAGTTACTTTTTTCTCCTCCAACTTTATAAAAAAATAATTTTAGTCCTCTATTTATTTTTTC
1 CATAGTTACTTTTTTCTCCTCCAACTTTATAAAAAAATAATTTTAGTCCTCTATTTATTTTTTC
118365405 TCTCTTTTAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.28, C:0.19, G:0.03, T:0.50
Consensus pattern (64 bp):
CATAGTTACTTTTTTCTCCTCCAACTTTATAAAAAAATAATTTTAGTCCTCTATTTATTTTTTC
Found at i:118369489 original size:24 final size:24
Alignment explanation
Indices: 118369474--118369525 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
118369464 AATCAAAGTC
118369474 AAATATATTACGCTAATAAATGCT
1 AAATATATTACGCTAATAAATGCT
** * *
118369498 AAATATATTATTCTCATAAATACT
1 AAATATATTACGCTAATAAATGCT
118369522 AAAT
1 AAAT
118369526 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTACGCTAATAAATGCT
Found at i:118370001 original size:13 final size:14
Alignment explanation
Indices: 118369976--118370004 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
118369966 TTCTCTTTCC
118369976 ATTTTTAAGTTTTT
1 ATTTTTAAGTTTTT
118369990 ATTTTTAA-TTTTT
1 ATTTTTAAGTTTTT
118370003 AT
1 AT
118370005 ACAATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (14 bp):
ATTTTTAAGTTTTT
Found at i:118371615 original size:18 final size:18
Alignment explanation
Indices: 118371592--118371672 Score: 58
Period size: 18 Copynumber: 4.5 Consensus size: 18
118371582 TCAAGCACTA
*
118371592 TTATTATTACTATTTCTG
1 TTATTATTACTATTACTG
* *
118371610 TTATTATTTCTATTAATG
1 TTATTATTACTATTACTG
** * *
118371628 TCGTTATTACTATT-TTT
1 TTATTATTACTATTACTG
*
118371645 TGTATTATTA-TCATTACTA
1 T-TATTATTACT-ATTACTG
118371664 TTATTATTA
1 TTATTATTA
118371673 TCTTAGTCTT
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
17 3 0.06
18 43 0.90
19 2 0.04
ACGTcount: A:0.26, C:0.09, G:0.05, T:0.60
Consensus pattern (18 bp):
TTATTATTACTATTACTG
Found at i:118371870 original size:47 final size:44
Alignment explanation
Indices: 118371781--118371870 Score: 101
Period size: 47 Copynumber: 2.0 Consensus size: 44
118371771 GTATTATTAA
*
118371781 TTATTAATTATTATTATTATCCTTATTAACATGTCATCATTTTG
1 TTATTAATTATTATTATTATCCTTATTAACATATCATCATTTTG
* * *
118371825 TTATTAATATATATGATTATTA-CTCTTGTTAACATATTATTATTTT
1 TTATTAAT-TAT-T-ATTATTATC-CTTATTAACATATCATCATTTT
118371871 CTACTTTGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
44 8 0.21
45 3 0.08
46 2 0.05
47 25 0.66
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.56
Consensus pattern (44 bp):
TTATTAATTATTATTATTATCCTTATTAACATATCATCATTTTG
Found at i:118371897 original size:3 final size:3
Alignment explanation
Indices: 118371889--118371925 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
118371879 ACTTGTTATG
*
118371889 TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
118371926 CACCATCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:118372103 original size:17 final size:17
Alignment explanation
Indices: 118372078--118372116 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
118372068 TTGATTTTCT
*
118372078 TATTACTTATCTATTTA
1 TATTTCTTATCTATTTA
118372095 TATTTCTTATCTATTTA
1 TATTTCTTATCTATTTA
118372112 TATTT
1 TATTT
118372117 TTGTTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTCTTATCTATTTA
Found at i:118372129 original size:17 final size:17
Alignment explanation
Indices: 118372109--118372147 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
118372099 TCTTATCTAT
* *
118372109 TTATATTTTTGTTATTA
1 TTATATTTTAGGTATTA
118372126 TTATATTTTAGGTATTA
1 TTATATTTTAGGTATTA
118372143 -TATAT
1 TTATAT
118372148 CTATTTGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (17 bp):
TTATATTTTAGGTATTA
Found at i:118372152 original size:25 final size:25
Alignment explanation
Indices: 118372124--118372177 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
118372114 TTTTTGTTAT
118372124 TATTATAT-TTTAGGTATTATATATC
1 TATTATATATTTAGGTATTA-ATATC
*
118372149 TATT-TGTATTTAGGTATTAATATC
1 TATTATATATTTAGGTATTAATATC
118372173 -ATTAT
1 TATTAT
118372178 TTTACTATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 8 0.31
25 15 0.58
ACGTcount: A:0.31, C:0.04, G:0.09, T:0.56
Consensus pattern (25 bp):
TATTATATATTTAGGTATTAATATC
Found at i:118375964 original size:19 final size:20
Alignment explanation
Indices: 118375940--118375977 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
118375930 GCCTATTCTA
118375940 AAATAATAAAA-TAAATAAT
1 AAATAATAAAACTAAATAAT
118375959 AAATAATAAAACTAAATAA
1 AAATAATAAAACTAAATAA
118375978 AACAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATAATAAAACTAAATAAT
Found at i:118375986 original size:20 final size:19
Alignment explanation
Indices: 118375938--118375987 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
118375928 TAGCCTATTC
118375938 TAAAATAATAAAATAAATAA
1 TAAAA-AATAAAATAAATAA
*
118375958 TAAATAATAAAACTAAATAA
1 TAAAAAATAAAA-TAAATAA
118375978 -AACAAAATAA
1 TAA-AAAATAA
118375988 TATCTTCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (19 bp):
TAAAAAATAAAATAAATAA
Found at i:118379475 original size:23 final size:23
Alignment explanation
Indices: 118379433--118379476 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
118379423 TGGGCTTTAG
* *
118379433 TGGGTAATTTGGTTTTTGGGTTT
1 TGGGTAATTTGGTGTGTGGGTTT
*
118379456 TGGGTATTTTGGTGTGTGGGT
1 TGGGTAATTTGGTGTGTGGGT
118379477 AAATGGGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.07, C:0.00, G:0.41, T:0.52
Consensus pattern (23 bp):
TGGGTAATTTGGTGTGTGGGTTT
Found at i:118379526 original size:15 final size:15
Alignment explanation
Indices: 118379508--118379537 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
118379498 TTAGTGGATG
*
118379508 TTTTTTTCTTCTTTT
1 TTTTTTTCTTATTTT
118379523 TTTTTTTCTTATTTT
1 TTTTTTTCTTATTTT
118379538 CCTATGGATT
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:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTTCTTATTTT
Found at i:118385773 original size:18 final size:18
Alignment explanation
Indices: 118385739--118385773 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
118385729 GTTACGTACG
*
118385739 TATATATTATATGTATTT
1 TATATATTATATATATTT
*
118385757 TATATATTATGTATATT
1 TATATATTATATATATT
118385774 ATTTTTTTTT
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:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TATATATTATATATATTT
Found at i:118386955 original size:46 final size:46
Alignment explanation
Indices: 118386905--118387077 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
118386895 TGGTTGAGCA
* *
118386905 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
118386951 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
118386998 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
118387044 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
118387078 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:118387061 original size:93 final size:93
Alignment explanation
Indices: 118386902--118387072 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
118386892 GGATGGTTGA
* *
118386902 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
118386967 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
118386995 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
118387060 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
118387073 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:118392039 original size:16 final size:16
Alignment explanation
Indices: 118391995--118392033 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
118391985 AGATAGCAGG
* *
118391995 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
118392011 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
118392027 GGAAAAA
1 GGAAAAA
118392034 GGGAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:118392969 original size:13 final size:13
Alignment explanation
Indices: 118392951--118392979 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
118392941 TAGCGAATCT
118392951 TAATTTATAATTC
1 TAATTTATAATTC
118392964 TAATTTATAATTC
1 TAATTTATAATTC
118392977 TAA
1 TAA
118392980 ACTCAAGATA
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:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATTTATAATTC
Found at i:118393318 original size:26 final size:26
Alignment explanation
Indices: 118393281--118393364 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
118393271 TGATACAAAT
* *
118393281 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
118393307 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
118393333 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
118393359 TGATAA
1 TGATAA
118393365 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:118395405 original size:137 final size:137
Alignment explanation
Indices: 118395148--118395433 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
118395138 GAGTAGTCTC
118395148 CCCAAATGGGC-TGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
118395212 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
118395277 ACTGTTA
131 ACTGTTA
*
118395284 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGTCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
118395349 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
118395414 ACTGTTA
131 ACTGTTA
**
118395421 CCTGAATGGGCTT
1 CCCAAATGGGCTT
118395434 AGGCCCAATG
Statistics
Matches: 145, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
136 11 0.08
137 134 0.92
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:118396836 original size:6 final size:6
Alignment explanation
Indices: 118396802--118396834 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
118396792 ATGTGCCGAC
*
118396802 TACTGT TACTGT TACTGT TACTGT TACCGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
118396835 CGATTCGGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:118396864 original size:45 final size:45
Alignment explanation
Indices: 118396814--118396918 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
118396804 CTGTTACTGT
* *
118396814 TACTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGTTACCAATTCAGCACTTTGTGTGTCGAA
* ** *
118396859 TACTGTTACTGTTATCGTTTTCAATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACCGTTACCAATTCAGCACTTTGTGTGTCGAA
*
118396904 TACTATTACTGTTAC
1 TACTGTTACTGTTAC
118396919 TATTACTGTT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACCGTTACCAATTCAGCACTTTGTGTGTCGAA
Found at i:118396866 original size:51 final size:50
Alignment explanation
Indices: 118396808--118396930 Score: 132
Period size: 45 Copynumber: 2.5 Consensus size: 50
118396798 CGACTACTGT
* *
118396808 TACTGTTACTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTA-CGTTACCAATTCAGCACTTTGTGTGTCGAA
*
118396859 TACTGTTACTGTTA-TCGTT---TT--CAATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACT-GTTACGTTACCAATTCAGCACTTTGTGTGTCGAA
* *
118396904 TACTATTACTGTTACTATTACTGTTAC
1 TACTGTTACTGTTACTGTTAC-GTTAC
118396931 TGTTACTGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
45 36 0.61
46 1 0.02
47 2 0.03
49 2 0.03
50 1 0.02
51 17 0.29
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (50 bp):
TACTGTTACTGTTACTGTTACGTTACCAATTCAGCACTTTGTGTGTCGAA
Found at i:118396918 original size:6 final size:6
Alignment explanation
Indices: 118396904--118396946 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
118396894 GTGTGTTGAA
* *
118396904 TACTAT TACTGT TACTAT TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT T
118396947 TCGAATTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (6 bp):
TACTGT
Found at i:118397144 original size:18 final size:18
Alignment explanation
Indices: 118397123--118397295 Score: 84
Period size: 18 Copynumber: 9.6 Consensus size: 18
118397113 TAACTGATTA
*
118397123 TTACTAAATAATTAACTG
1 TTACTGAATAATTAACTG
* * *
118397141 TTACCGGATAATTGACTG
1 TTACTGAATAATTAACTG
*
118397159 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATTA-ACTG
* *
118397177 TTACTGAATAACTGAA-TA
1 TTACTGAATAA-TTAACTG
* * *
118397195 TTACTGAATAACTGATTG
1 TTACTGAATAATTAACTG
* **
118397213 TCACTGAATGAA-TGGCTG
1 TTACTGAAT-AATTAACTG
* *
118397231 CTACTGAATAACTTAATTG
1 TTACTGAATAA-TTAACTG
** * *
118397250 TTACTGAATACCTGA-TT
1 TTACTGAATAATTAACTG
* *
118397267 TTACTGAATTATTGACTG
1 TTACTGAATAATTAACTG
*
118397285 TTACTGGATAA
1 TTACTGAATAA
118397296 CTGATCAATT
Statistics
Matches: 115, Mismatches: 32, Indels: 16
0.71 0.20 0.10
Matches are distributed among these distances:
17 19 0.17
18 78 0.68
19 16 0.14
20 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTAACTG
Found at i:118397199 original size:36 final size:36
Alignment explanation
Indices: 118397111--118397299 Score: 105
Period size: 36 Copynumber: 5.2 Consensus size: 36
118397101 AAAGGTATAA
* *
118397111 AATAACTGATTATTACTAAATAATTAACTGTTACCG
1 AATAACTGAATATTACTGAATAATTAACTGTTACCG
* * * * * *
118397147 GATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGAATATTACTGAATAATTA-ACTGTTACCG
* * * * *
118397183 AATAACTGAATATTACTGAATAACTGATTGTCACTG
1 AATAACTGAATATTACTGAATAATTAACTGTTACCG
** ** * *
118397219 AATGAA-TGGCTGCTACTGAATAACTTAATTGTTACTG
1 AAT-AACTGAATATTACTGAATAA-TTAACTGTTACCG
* * * * *
118397256 AATACCTG-ATTTTACTGAATTATTGACTGTTACTG
1 AATAACTGAATATTACTGAATAATTAACTGTTACCG
*
118397291 GATAACTGA
1 AATAACTGA
118397300 TCAATTGATC
Statistics
Matches: 115, Mismatches: 32, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
35 21 0.18
36 75 0.65
37 19 0.17
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (36 bp):
AATAACTGAATATTACTGAATAATTAACTGTTACCG
Found at i:118397236 original size:54 final size:54
Alignment explanation
Indices: 118397172--118397299 Score: 150
Period size: 54 Copynumber: 2.4 Consensus size: 54
118397162 CTGGATATTA
*
118397172 GACTGTTACTGAATAACTGAA-TATTACTGAATAACTGATTGTCACTGAATGAAT
1 GACTGCTACTGAATAACTGAATTATTACTGAATAACTGATT-TCACTGAATGAAT
* * * * * * *
118397226 GGCTGCTACTGAATAACTTAATTGTTACTGAATACCTGATTTTACTGAATTATT
1 GACTGCTACTGAATAACTGAATTATTACTGAATAACTGATTTCACTGAATGAAT
* *
118397280 GACTGTTACTGGATAACTGA
1 GACTGCTACTGAATAACTGA
118397300 TCAATTGATC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 44 0.72
55 17 0.28
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (54 bp):
GACTGCTACTGAATAACTGAATTATTACTGAATAACTGATTTCACTGAATGAAT
Found at i:118397384 original size:18 final size:18
Alignment explanation
Indices: 118397175--118397388 Score: 90
Period size: 18 Copynumber: 11.5 Consensus size: 18
118397165 GATATTAGAC
* *
118397175 TGTTACTGAATAACTGAA
1 TGTTACTGAATAAATGAT
* *
118397193 TATTACTGAATAACTGAT
1 TGTTACTGAATAAATGAT
* * **
118397211 TGTCACTGAATGAATGGC
1 TGTTACTGAATAAATGAT
* * *
118397229 TGCTACTGAATAACTTAAT
1 TGTTACTGAATAA-ATGAT
**
118397248 TGTTACTGAATACCTGAT
1 TGTTACTGAATAAATGAT
* * *
118397266 T-TTACTGAATTATTGAC
1 TGTTACTGAATAAATGAT
118397283 TGTTACTGGATAACTGATCAATTGAT
1 TGTTACT-G--AA-T-A--AA-TGAT
* * * *
118397309 CGATACTGAATAACTGGT
1 TGTTACTGAATAAATGAT
* * *
118397327 TATTATTGAATAATTGAT
1 TGTTACTGAATAAATGAT
* * *
118397345 TGTTACCGAATAACTGAC
1 TGTTACTGAATAAATGAT
*
118397363 TGTTACTGAATAAATAAT
1 TGTTACTGAATAAATGAT
118397381 TGTT-CTGA
1 TGTTACTGA
118397389 TTGTTAATGA
Statistics
Matches: 141, Mismatches: 45, Indels: 21
0.68 0.22 0.10
Matches are distributed among these distances:
17 17 0.12
18 93 0.66
19 14 0.10
21 3 0.02
22 2 0.01
23 2 0.01
25 2 0.01
26 8 0.06
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TGTTACTGAATAAATGAT
Found at i:118400433 original size:24 final size:20
Alignment explanation
Indices: 118400408--118400448 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
118400398 ACTGATAGGC
118400408 TTGCTTATATGAAATAACTA
1 TTGCTTATATGAAATAACTA
118400428 TTGCTTATATGAAATAACTA
1 TTGCTTATATGAAATAACTA
118400448 T
1 T
118400449 AATTTTACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TTGCTTATATGAAATAACTA
Found at i:118400592 original size:44 final size:44
Alignment explanation
Indices: 118400528--118400616 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
118400518 CTATGGATAT
* * *
118400528 TATTATAAGTGAAAAGTTGTTATAAAGGGTTAAAATCAAACATC
1 TATTATAAGTGAAAAATTGTTATAAAGAGTTAAAATAAAACATC
118400572 TATTATAAGTGAAAAATTGTTATAAAGAGTTAAAATAAAACATC
1 TATTATAAGTGAAAAATTGTTATAAAGAGTTAAAATAAAACATC
118400616 T
1 T
118400617 TCTAGAAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.33
Consensus pattern (44 bp):
TATTATAAGTGAAAAATTGTTATAAAGAGTTAAAATAAAACATC
Found at i:118416698 original size:17 final size:17
Alignment explanation
Indices: 118416677--118416714 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
118416667 AAGCACTTTC
*
118416677 TTATAT-TAT-TATTCT
1 TTATATATATATATTAT
118416692 TTATATATATATATTAT
1 TTATATATATATATTAT
118416709 TTATAT
1 TTATAT
118416715 TAAGTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 3 0.15
17 11 0.55
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATATATATATATTAT
Found at i:118418439 original size:42 final size:42
Alignment explanation
Indices: 118418354--118418475 Score: 109
Period size: 49 Copynumber: 2.7 Consensus size: 42
118418344 TTTCGTTTAC
** ** * *
118418354 TCGATGTCATAGTTCAACTATGGTCTTACACATCTTTATATA
1 TCGATGTCATAGCCCAACTATGGTCTTACACATAATCACATA
*
118418396 TCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGTCATAGCCCAACTATGGTCTTACAC---AT---A-ATCACATA
*
118418445 TCGATGCCATAGCCCAACTATGGTCTTACAC
1 TCGATGTCATAGCCCAACTATGGTCTTACAC
118418476 GGAAATCACT
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 28 0.44
45 2 0.03
49 34 0.53
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (42 bp):
TCGATGTCATAGCCCAACTATGGTCTTACACATAATCACATA
Found at i:118418529 original size:31 final size:31
Alignment explanation
Indices: 118418494--118418642 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
118418484 CTTGTCACTT
*
118418494 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
118418525 GTAGCCGGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
118418556 GTAGTCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
118418587 GTAGCATAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
118418618 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
118418643 TGTCATTTGT
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:118418720 original size:50 final size:50
Alignment explanation
Indices: 118418618--118418757 Score: 217
Period size: 50 Copynumber: 2.8 Consensus size: 50
118418608 CACTGATCAG
** * * *
118418618 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATTACTTATCACTT-TCACTTATCCTTGATCAGATAAGT
*
118418669 GTAGCCGAAGCTATTACTTATCACTTTTACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATTACTTATCACTTTCACTTATCCTTGATCAGATAAGT
118418719 GTAGCCGAAGCTATTACTTATCACTTTCACTTATCCTTG
1 GTAGCCGAAGCTATTACTTATCACTTTCACTTATCCTTG
118418758 TTGCCATGGT
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 59 0.72
51 23 0.28
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATTACTTATCACTTTCACTTATCCTTGATCAGATAAGT
Found at i:118419048 original size:21 final size:22
Alignment explanation
Indices: 118419008--118419049 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
118418998 TTCCACATAA
* *
118419008 AACATTATATCATTTCTAATCC
1 AACATTATATCAATTATAATCC
118419030 AACATT-TATCAATTATAATC
1 AACATTATATCAATTATAATC
118419050 GGGCATGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (22 bp):
AACATTATATCAATTATAATCC
Found at i:118422615 original size:32 final size:32
Alignment explanation
Indices: 118422547--118422627 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
118422537 AAATTTTAGT
* *
118422547 TTGTTGGATTTTGAAATTATTATGTCTTGAAT
1 TTGTTGGATATTGAAATTATTATGTCTTGAAC
* * *
118422579 TTGTTAGATATTGAATTTATTATGT-TTTAAGC
1 TTGTTGGATATTGAAATTATTATGTCTTGAA-C
*
118422611 TTGTTGGTTATTGAAAT
1 TTGTTGGATATTGAAAT
118422628 GATTGACAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 4 0.10
32 36 0.90
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.53
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGTCTTGAAC
Found at i:118424895 original size:21 final size:21
Alignment explanation
Indices: 118424871--118424911 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
118424861 AATTCAATTT
118424871 CAAATT-ATCTAAATTTAAATC
1 CAAATTAAT-TAAATTTAAATC
*
118424892 CAAATTAATTAGATTTAAAT
1 CAAATTAATTAAATTTAAAT
118424912 TTACTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (21 bp):
CAAATTAATTAAATTTAAATC
Found at i:118435291 original size:32 final size:31
Alignment explanation
Indices: 118435255--118435322 Score: 100
Period size: 32 Copynumber: 2.2 Consensus size: 31
118435245 TAATATTTTT
*
118435255 AATATAATTATTTTTATATTAAATTATATTAA
1 AATATAATTAGTTTTATATTAAATTATA-TAA
**
118435287 AATATTTTTAGTTTTATATTAAATTATATAA
1 AATATAATTAGTTTTATATTAAATTATATAA
118435318 AATAT
1 AATAT
118435323 TTTAAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 8 0.24
32 25 0.76
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (31 bp):
AATATAATTAGTTTTATATTAAATTATATAA
Found at i:118435335 original size:39 final size:42
Alignment explanation
Indices: 118435268--118435345 Score: 108
Period size: 39 Copynumber: 1.9 Consensus size: 42
118435258 ATAATTATTT
*
118435268 TTATATTAAATTATATTAAAATATTTTTAGTTTTATATTAAA
1 TTATATTAAAATATATTAAAATATTTTTAGTTTTATATTAAA
* *
118435310 TTATA-TAAAATAT-TTTAAATA-TTTTATTTTTATATT
1 TTATATTAAAATATATTAAAATATTTTTAGTTTTATATT
118435346 TTCTAAGTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 14 0.42
40 7 0.21
41 7 0.21
42 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (42 bp):
TTATATTAAAATATATTAAAATATTTTTAGTTTTATATTAAA
Found at i:118438891 original size:61 final size:58
Alignment explanation
Indices: 118438784--118438902 Score: 157
Period size: 61 Copynumber: 2.0 Consensus size: 58
118438774 ATCACTTTAA
* * *
118438784 TATTAAATTAATATAATAATTATCAAGATAAATATTAGATTAAATTTAATATTAAATT
1 TATTAAATTAATAAAACAATTATCAAGATAAATATTAGATTAAATTTAACATTAAATT
* * *
118438842 TATTAAATTAATAAAACATTTATCTACATGATAAGTATTAGATTTAATTTAACATTAAATT
1 TATTAAATTAATAAAACAATTATC-A-A-GATAAATATTAGATTAAATTTAACATTAAATT
118438903 AATAAAATAC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
58 21 0.40
59 1 0.02
60 1 0.02
61 29 0.56
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (58 bp):
TATTAAATTAATAAAACAATTATCAAGATAAATATTAGATTAAATTTAACATTAAATT
Found at i:118438935 original size:48 final size:52
Alignment explanation
Indices: 118438843--118438948 Score: 139
Period size: 48 Copynumber: 2.1 Consensus size: 52
118438833 TATTAAATTT
* * *
118438843 ATTAAATTAATAAAACATTTATCTACATGATAAGTATTAGATTTAATTTAAC
1 ATTAAATTAATAAAACATCTATCTACATGATAACTATTAAATTTAATTTAAC
* *
118438895 ATTAAATTAATAAAATA-CTAT-TA-A-GATAACTATTAAATTTAATTTAAT
1 ATTAAATTAATAAAACATCTATCTACATGATAACTATTAAATTTAATTTAAC
118438943 ATTAAA
1 ATTAAA
118438949 GCTATTAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
48 27 0.55
49 1 0.02
50 2 0.04
51 3 0.06
52 16 0.33
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (52 bp):
ATTAAATTAATAAAACATCTATCTACATGATAACTATTAAATTTAATTTAAC
Found at i:118441512 original size:21 final size:21
Alignment explanation
Indices: 118441478--118441533 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
118441468 TTTGAAGCTT
*
118441478 TGTATATA-TAGTGTATGGCA
1 TGTATAAACTAGTGTATGGCA
*
118441498 TGTATAGACTAGTGTATGGCA
1 TGTATAAACTAGTGTATGGCA
118441519 TGTATAAACTAGTGT
1 TGTATAAACTAGTGT
118441534 CATTTTGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 7 0.21
21 26 0.79
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (21 bp):
TGTATAAACTAGTGTATGGCA
Found at i:118442859 original size:155 final size:155
Alignment explanation
Indices: 118442577--118442894 Score: 564
Period size: 155 Copynumber: 2.1 Consensus size: 155
118442567 TATGTGAATG
*
118442577 ATGTGTATTATCCGATAATACATCATAACCCTATTCTGGCGACGAATACGAGTTAGGGGTGTTAC
1 ATGTGTATTATCCGATAATACATCATAACCCTATTCTGGCAACGAATACGAGTTAGGGGTGTTAC
118442642 AGTCTACAATAAGTACCATGATTGAAAACTCCTTATTATATACTCTTTATGTAAGTAATTCATCC
66 AGTCTACAATAAGTACCATGATTGAAAACTCCTTATTATATACTCTTTATGTAAGTAATTCATCC
*
118442707 AACTGCTTTATCCATTGACCTTGTC
131 AACTACTTTATCCATTGACCTTGTC
* * * *
118442732 ATGTGTATTATCCGGTAATACCTCGTAACCCTATTCTGGCAACGAATACGGGTTAGGGGTGTTAC
1 ATGTGTATTATCCGATAATACATCATAACCCTATTCTGGCAACGAATACGAGTTAGGGGTGTTAC
* *
118442797 AGTCTACAATAAGTATCATGATTGGAAACTCCTTATTATATACTCTTTATGTAAGTAATTCATCC
66 AGTCTACAATAAGTACCATGATTGAAAACTCCTTATTATATACTCTTTATGTAAGTAATTCATCC
118442862 AACTACTTTATCCATTGACCTTGTC
131 AACTACTTTATCCATTGACCTTGTC
118442887 ATGTGTAT
1 ATGTGTAT
118442895 GACCCTTATA
Statistics
Matches: 155, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
155 155 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (155 bp):
ATGTGTATTATCCGATAATACATCATAACCCTATTCTGGCAACGAATACGAGTTAGGGGTGTTAC
AGTCTACAATAAGTACCATGATTGAAAACTCCTTATTATATACTCTTTATGTAAGTAATTCATCC
AACTACTTTATCCATTGACCTTGTC
Found at i:118446558 original size:17 final size:18
Alignment explanation
Indices: 118446522--118446560 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
118446512 ATTGCTTCTT
*
118446522 AAAAACACTTTTGGGCCA
1 AAAAACACTTTTGAGCCA
118446540 AAAAACACTTTTGAG-CA
1 AAAAACACTTTTGAGCCA
118446557 AAAA
1 AAAA
118446561 TTAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.49, C:0.18, G:0.13, T:0.21
Consensus pattern (18 bp):
AAAAACACTTTTGAGCCA
Found at i:118446931 original size:6 final size:6
Alignment explanation
Indices: 118446920--118446964 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
118446910 CATTGAATTA
118446920 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATA
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATA
118446965 ATTATGTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (6 bp):
ATATGT
Found at i:118453882 original size:310 final size:310
Alignment explanation
Indices: 118453320--118453942 Score: 1147
Period size: 310 Copynumber: 2.0 Consensus size: 310
118453310 TGTTAGAAGA
*
118453320 AGGTTCATAAAAGATAAATCAAGATTGAAAAAGATTAGGGAGTGATGGAAAAAAGATAGGCATAA
1 AGGTTCATAAAAGAGAAATCAAGATTGAAAAAGATTAGGGAGTGATGGAAAAAAGATAGGCATAA
**
118453385 AGATGAATGAAAGGCGATGTTCGATGGAACCCTTTGAAGAAAGACTTCAACAAACTTTACCAAAG
66 AGATGAATGAAAGGCGATGTTCGATGGAACCCTTTGAAGAAAGACTTCAACAAACTCCACCAAAG
* *
118453450 GCTCTAACCGACCCTCCAAAAAAGGTTTCTTGGCAAATCGGAGTGTGAATAACAACCACCACGAT
131 GCTCTAACCGACCCTCCAAAAAAGGTTTATTGGCAAATCGGAGTGTGAAGAACAACCACCACGAT
118453515 TCTTGAAAAGAAATCAAGTTAAAAGCACTTGTAAGAAATTACAAGAAAATAATATTGAAAAGAGA
196 TCTTGAAAAGAAATCAAGTTAAAAGCACTTGTAAGAAATTACAAGAAAATAATATTGAAAAGAGA
*
118453580 GAAAACAAGTTTTCATTCATAAATGAATGAAACTGAATAATGTACATATG
261 GAAAACAAGTTTCCATTCATAAATGAATGAAACTGAATAATGTACATATG
118453630 AGGTTCATAAAAGAGAAATCAAGATTGAAAAAGATTAGGGAGTGATGGAAAAAAGATAGGCATAA
1 AGGTTCATAAAAGAGAAATCAAGATTGAAAAAGATTAGGGAGTGATGGAAAAAAGATAGGCATAA
*
118453695 AGATGAATGAAATGCGATGTTCGATGGAACCCTTTGAAGAAAGACTTCAACAAACTCCACCAAAG
66 AGATGAATGAAAGGCGATGTTCGATGGAACCCTTTGAAGAAAGACTTCAACAAACTCCACCAAAG
* * *
118453760 GCTTTAACCGACCCTCCAGAAAAGGTTTATTGGCAAATCGGAGTGTGAAGAACAACTACCACGAT
131 GCTCTAACCGACCCTCCAAAAAAGGTTTATTGGCAAATCGGAGTGTGAAGAACAACCACCACGAT
118453825 TCTTGAAAAGAAATCAAGTTAAAAGCACTTGTAAGAAATTACAAGAAAATAATATTGAAAAGAGA
196 TCTTGAAAAGAAATCAAGTTAAAAGCACTTGTAAGAAATTACAAGAAAATAATATTGAAAAGAGA
*
118453890 GAAAACAAGTTTCCATTCATAAATGAATGAAACTGAATGATGTACATATG
261 GAAAACAAGTTTCCATTCATAAATGAATGAAACTGAATAATGTACATATG
118453940 AGG
1 AGG
118453943 GGCGTGTATT
Statistics
Matches: 302, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
310 302 1.00
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (310 bp):
AGGTTCATAAAAGAGAAATCAAGATTGAAAAAGATTAGGGAGTGATGGAAAAAAGATAGGCATAA
AGATGAATGAAAGGCGATGTTCGATGGAACCCTTTGAAGAAAGACTTCAACAAACTCCACCAAAG
GCTCTAACCGACCCTCCAAAAAAGGTTTATTGGCAAATCGGAGTGTGAAGAACAACCACCACGAT
TCTTGAAAAGAAATCAAGTTAAAAGCACTTGTAAGAAATTACAAGAAAATAATATTGAAAAGAGA
GAAAACAAGTTTCCATTCATAAATGAATGAAACTGAATAATGTACATATG
Found at i:118463959 original size:2 final size:2
Alignment explanation
Indices: 118463952--118463993 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
118463942 ATGTGGTACT
* *
118463952 TC TC TC TC TC TC TC TC TC TC TC CC TC CC T- TC -C TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
118463992 TC
1 TC
118463994 ATTGTAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (2 bp):
TC
Found at i:118480566 original size:12 final size:12
Alignment explanation
Indices: 118480536--118480569 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
118480526 TATATATTTT
118480536 AAAATT-ATATA
1 AAAATTAATATA
118480547 AAAA-TAATATA
1 AAAATTAATATA
118480558 AAAATTAATATA
1 AAAATTAATATA
118480570 GGCCGGACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:118482875 original size:19 final size:20
Alignment explanation
Indices: 118482851--118482889 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
118482841 TCGTATAAGG
118482851 CATTTAA-TAAAAAAAAAGA
1 CATTTAATTAAAAAAAAAGA
118482870 CATTTAATTAAAAAAAAAGA
1 CATTTAATTAAAAAAAAAGA
118482890 AAAAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (20 bp):
CATTTAATTAAAAAAAAAGA
Found at i:118486864 original size:51 final size:51
Alignment explanation
Indices: 118486783--118486899 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
118486773 ACTTTTGATC
* *
118486783 AGTGACAAGGGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCACTGACA
* *
118486834 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCACTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCACTGACA
118486885 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
118486900 ATGTGATCCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCACTGACA
Found at i:118496169 original size:15 final size:16
Alignment explanation
Indices: 118496144--118496174 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
118496134 AATCTGTGTT
118496144 TTTTTATTTTATTTTA
1 TTTTTATTTTATTTTA
118496160 TTTTTA-TTTATTTTA
1 TTTTTATTTTATTTTA
118496175 ACAACTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:118496227 original size:31 final size:31
Alignment explanation
Indices: 118496187--118496249 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
118496177 AACTATAAAT
118496187 ATCAAAAATCAACCTGATTTTGAAAATTTTC
1 ATCAAAAATCAACCTGATTTTGAAAATTTTC
*
118496218 ATCACAAATCAACCTGATTTTGAAAATTTTC
1 ATCAAAAATCAACCTGATTTTGAAAATTTTC
118496249 A
1 A
118496250 GACTTTCTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.35
Consensus pattern (31 bp):
ATCAAAAATCAACCTGATTTTGAAAATTTTC
Found at i:118501039 original size:23 final size:23
Alignment explanation
Indices: 118501009--118501056 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
118500999 ACCCTAAAAA
*
118501009 GAGAATGAACAACATTATATAAT
1 GAGAATGAACAACATTACATAAT
118501032 GAGAATGAACAACATTACATAAT
1 GAGAATGAACAACATTACATAAT
118501055 GA
1 GA
118501057 TAAAGTCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.15, T:0.23
Consensus pattern (23 bp):
GAGAATGAACAACATTACATAAT
Found at i:118508694 original size:2 final size:2
Alignment explanation
Indices: 118508687--118508715 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
118508677 CACAAACCAC
118508687 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
118508716 TGTTGATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:118509452 original size:52 final size:52
Alignment explanation
Indices: 118509396--118509512 Score: 202
Period size: 52 Copynumber: 2.3 Consensus size: 52
118509386 AGGCCCCTTT
118509396 ATAATTTATAAAATTTTAAATTAGTAATGGTAAAATTATATTTCTCATCTAA
1 ATAATTTATAAAATTTTAAATTAGTAATGGTAAAATTATATTTCTCATCTAA
*
118509448 ATAATTTATAAAATTTTAAATTAGTAATGGTAAAATTATATTTTTCATCTAA
1 ATAATTTATAAAATTTTAAATTAGTAATGGTAAAATTATATTTCTCATCTAA
*
118509500 A-AA-TAATAAAATT
1 ATAATTTATAAAATT
118509513 ACATTTTGCC
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
50 9 0.14
51 2 0.03
52 52 0.83
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (52 bp):
ATAATTTATAAAATTTTAAATTAGTAATGGTAAAATTATATTTCTCATCTAA
Found at i:118509509 original size:28 final size:29
Alignment explanation
Indices: 118509478--118509541 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
118509468 TTAGTAATGG
* * *
118509478 TAAAATTATATTTT-TCATCTAAAAATAA
1 TAAAATTACATTTTGCCACCTAAAAATAA
*
118509506 TAAAATTACATTTTGCCCCCTAAAAATAA
1 TAAAATTACATTTTGCCACCTAAAAATAA
118509535 TAAAATT
1 TAAAATT
118509542 TTGGTTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 13 0.42
29 18 0.58
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (29 bp):
TAAAATTACATTTTGCCACCTAAAAATAA
Found at i:118513334 original size:21 final size:21
Alignment explanation
Indices: 118513310--118513349 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
118513300 AAGAAACAAA
**
118513310 CCCTATGTTGCAACACAGGGC
1 CCCTATGTCACAACACAGGGC
118513331 CCCTATGTCACAACACAGG
1 CCCTATGTCACAACACAGG
118513350 CTACTGTGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.35, G:0.20, T:0.17
Consensus pattern (21 bp):
CCCTATGTCACAACACAGGGC
Found at i:118515461 original size:21 final size:20
Alignment explanation
Indices: 118515433--118515477 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
118515423 GCTTTAACAG
118515433 AACTGCTGATGTGGCAAGTT
1 AACTGCTGATGTGGCAAGTT
*
118515453 AACTAGCTGATGTGGCCAGTT
1 AACT-GCTGATGTGGCAAGTT
118515474 AACT
1 AACT
118515478 TGCCATGTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (20 bp):
AACTGCTGATGTGGCAAGTT
Found at i:118519224 original size:14 final size:14
Alignment explanation
Indices: 118519201--118519230 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
118519191 CTAATAATGT
118519201 AATTAATTATTTTA
1 AATTAATTATTTTA
*
118519215 AATTATTTATTTTA
1 AATTAATTATTTTA
118519229 AA
1 AA
118519231 AATTAACAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTAATTATTTTA
Found at i:118519483 original size:6 final size:6
Alignment explanation
Indices: 118519472--118519497 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
118519462 ATTTTAATGT
118519472 ATATAA ATATAA ATATAA ATATAA AT
1 ATATAA ATATAA ATATAA ATATAA AT
118519498 TTAATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAA
Found at i:118519600 original size:17 final size:16
Alignment explanation
Indices: 118519554--118519602 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
118519544 AATATAAATA
118519554 TAAATATAATTTTAA-
1 TAAATATAATTTTAAT
* *
118519569 TAATTAATTATTTTAAT
1 TAAAT-ATAATTTTAAT
118519586 GTAAATATAATTTTAAT
1 -TAAATATAATTTTAAT
118519603 ATTTTAACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 4 0.15
16 9 0.33
17 10 0.37
18 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TAAATATAATTTTAAT
Found at i:118520940 original size:30 final size:30
Alignment explanation
Indices: 118520883--118520943 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
118520873 ATAATATATT
*
118520883 TTTTGATTTTGTATAATTATATAAATAAAA
1 TTTTGATTGTGTATAATTATATAAATAAAA
*
118520913 TTTTGATTGTGATTTAATTATAT-AATAAAA
1 TTTTGATTGTG-TATAATTATATAAATAAAA
118520943 T
1 T
118520944 AAAATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 18 0.64
31 10 0.36
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (30 bp):
TTTTGATTGTGTATAATTATATAAATAAAA
Found at i:118534234 original size:17 final size:18
Alignment explanation
Indices: 118534213--118534261 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 18
118534203 TCAATTGAAA
118534213 ATTAAAATATATAAAATT
1 ATTAAAATATATAAAATT
118534231 -TT-AAATCATAT-AAATT
1 ATTAAAAT-ATATAAAATT
*
118534247 AATAAAA-ATATAAAA
1 ATTAAAATATATAAAA
118534262 AATTTACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 9
0.72 0.03 0.25
Matches are distributed among these distances:
16 13 0.50
17 10 0.38
18 3 0.12
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTAAAATATATAAAATT
Found at i:118534407 original size:22 final size:21
Alignment explanation
Indices: 118534377--118534418 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
118534367 TTATAATTTT
*
118534377 TTATTAATTTTTATATTATATA
1 TTATAAATTTTTATA-TATATA
118534399 TTATAAATTTTTATATATAT
1 TTATAAATTTTTATATATAT
118534419 TTCAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATAAATTTTTATATATATA
Found at i:118534410 original size:32 final size:33
Alignment explanation
Indices: 118534351--118534412 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
118534341 ATAGACATGC
*
118534351 TTTTTAGTATATATATTTATAATTTTTTATTAA
1 TTTTTAGTATATATATTTATAAATTTTTATTAA
118534384 TTTTTA-TAT-TATATATTATAAATTTTTAT
1 TTTTTAGTATATATAT-TTATAAATTTTTAT
118534413 ATATATTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 5 0.19
32 16 0.59
33 6 0.22
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (33 bp):
TTTTTAGTATATATATTTATAAATTTTTATTAA
Found at i:118535076 original size:17 final size:17
Alignment explanation
Indices: 118535054--118535088 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
118535044 TGAACAAGGG
118535054 AGTGAATAGTAAACAAA
1 AGTGAATAGTAAACAAA
118535071 AGTGAATAGTAAACAAA
1 AGTGAATAGTAAACAAA
118535088 A
1 A
118535089 CAAATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (17 bp):
AGTGAATAGTAAACAAA
Found at i:118553102 original size:30 final size:30
Alignment explanation
Indices: 118553061--118553118 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
118553051 TTGGACATTT
*
118553061 CCACACGGGCTGGCCATACGCCCATGTGAG
1 CCACACGGGCTGGCCACACGCCCATGTGAG
*
118553091 CCACACTGGCTGGCCACACGCCCATGTG
1 CCACACGGGCTGGCCACACGCCCATGTG
118553119 CCAGTCTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.40, G:0.28, T:0.14
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCCCATGTGAG
Found at i:118554346 original size:114 final size:114
Alignment explanation
Indices: 118554171--118554399 Score: 406
Period size: 114 Copynumber: 2.0 Consensus size: 114
118554161 AAATATTAGG
*
118554171 AACACTAGATTTTTATTACTTTATCTATTTTTATTTTTATTTTATTTCATTTTTACTTTTAATTT
1 AACACTAGATTTTTATTACTTTAGCTATTTTTATTTTTATTTTATTTCATTTTTACTTTTAATTT
* *
118554236 ACTTACGTTTCTTTTATTTGCTTCTGGCAGGTTCCTTTAGTTTATGACT
66 ACTAACGTTTCTTTTATTTGCTTCTGGCAGGTGCCTTTAGTTTATGACT
*
118554285 AACACTAGATTTTTATTACTTTAGCTATTTTTATTTTTATTTTATTT-TTGTTTTACTTTTAATT
1 AACACTAGATTTTTATTACTTTAGCTATTTTTATTTTTATTTTATTTCAT-TTTTACTTTTAATT
118554349 TACTAACGTTTCTTTTATTTGCTTCTGGCAGGTGCCTTTAGTTTATGACT
65 TACTAACGTTTCTTTTATTTGCTTCTGGCAGGTGCCTTTAGTTTATGACT
118554399 A
1 A
118554400 GAAGAAACCC
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
113 1 0.01
114 109 0.99
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.58
Consensus pattern (114 bp):
AACACTAGATTTTTATTACTTTAGCTATTTTTATTTTTATTTTATTTCATTTTTACTTTTAATTT
ACTAACGTTTCTTTTATTTGCTTCTGGCAGGTGCCTTTAGTTTATGACT
Found at i:118554428 original size:114 final size:114
Alignment explanation
Indices: 118554195--118554428 Score: 296
Period size: 114 Copynumber: 2.1 Consensus size: 114
118554185 ATTACTTTAT
*
118554195 CTATTTTTATTTTTATTTTATTTCATTTTTACTTTTAATTTACTTACGTTTCTTTTATTTGCTTC
1 CTATTTTTATTTTTATTTTATTTCATTTTTACTTTTAATTTACTAACGTTTCTTTTATTTGCTTC
* * * *** * ** *
118554260 TGGCAGGTTCCTTTAGTTTATGACTAACACTAGATTTTTATTACTTTAG
66 TGGCAGGTGCCTTTAGTTTATGACTAACACGAAACCGTCAGGACTCTAG
*
118554309 CTATTTTTATTTTTATTTTATTT-TTGTTTTACTTTTAATTTACTAACGTTTCTTTTATTTGCTT
1 CTATTTTTATTTTTATTTTATTTCAT-TTTTACTTTTAATTTACTAACGTTTCTTTTATTTGCTT
118554373 CTGGCAGGTGCCTTTAGTTTATGACTAGA-A-GAAACCCGTCAGGACCTCTAG
65 CTGGCAGGTGCCTTTAGTTTATGACTA-ACACGAAA-CCGTCAGGA-CTCTAG
118554424 -TATTT
1 CTATTT
118554429 GACAGCGAGA
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
113 3 0.03
114 95 0.91
115 6 0.06
ACGTcount: A:0.21, C:0.14, G:0.11, T:0.54
Consensus pattern (114 bp):
CTATTTTTATTTTTATTTTATTTCATTTTTACTTTTAATTTACTAACGTTTCTTTTATTTGCTTC
TGGCAGGTGCCTTTAGTTTATGACTAACACGAAACCGTCAGGACTCTAG
Found at i:118557512 original size:5 final size:5
Alignment explanation
Indices: 118557502--118557555 Score: 56
Period size: 5 Copynumber: 10.2 Consensus size: 5
118557492 AATCACCCTA
*
118557502 ATTTT ATTTT ATTTT ATTTT ATTTTT AATTGTT ATATT A-TTT ATTTTT
1 ATTTT ATTTT ATTTT ATTTT A-TTTT -ATT-TT ATTTT ATTTT A-TTTT
118557550 ATTTT A
1 ATTTT A
118557556 ATAATTAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
4 3 0.07
5 24 0.57
6 12 0.29
7 3 0.07
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:118557541 original size:28 final size:27
Alignment explanation
Indices: 118557500--118557580 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 27
118557490 TTAATCACCC
*
118557500 TAATTTTATTTTATTT-TATTTTATTTT
1 TAATTTTATATTATTTAT-TTTTATTTT
118557527 TAATTGTTATATTATTTATTTTTA-TTT
1 TAATT-TTATATTATTTATTTTTATTTT
*
118557554 TAATAATTA-ATTAATTTATTTATTATT
1 TAAT-TTTATATT-ATTTATTT-TTATT
118557581 CTTATACTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
26 3 0.07
27 23 0.50
28 18 0.39
29 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (27 bp):
TAATTTTATATTATTTATTTTTATTTT
Found at i:118557606 original size:21 final size:22
Alignment explanation
Indices: 118557582--118557623 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
118557572 TTTATTATTC
*
118557582 TTATACTTA-TATTTTAATTTA
1 TTATAATTATTATTTTAATTTA
*
118557603 TTATAATTATTATTTTTATTT
1 TTATAATTATTATTTTAATTT
118557624 TGCTATTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATAATTATTATTTTAATTTA
Found at i:118558759 original size:12 final size:12
Alignment explanation
Indices: 118558742--118558771 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
118558732 TTCTCAAAAA
118558742 AAAAAAAAAGTG
1 AAAAAAAAAGTG
118558754 AAAAAAAAAGTG
1 AAAAAAAAAGTG
118558766 AAAAAA
1 AAAAAA
118558772 TACATTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (12 bp):
AAAAAAAAAGTG
Found at i:118562132 original size:161 final size:161
Alignment explanation
Indices: 118561849--118562163 Score: 513
Period size: 161 Copynumber: 2.0 Consensus size: 161
118561839 TGCCATTTTA
118561849 GAGTATTATCAAAAGGGTTTTGGTGTGGTAGATGAACAATGCCTTGTCGGAGCAACTCCCCGATT
1 GAGTATTATCAAAAGGGTTTTGGTGTGGTAGATGAACAATGCCTTGTCGGAGCAACTCCCCGATT
* * *
118561914 CGATCCACAACATGTTTGGCGATTAAACCCCTGCCCGGACTCAACTCAACTAACTCAATAGCTTT
66 CGATCCACAACATGTTTGGCGATTAAACCCCTGCCCGAACTCAACTCAACGAACTCAACAGCTTT
118561979 GTAAGTGGAAATTTTTTTCAATTCCTTGTCG
131 GTAAGTGGAAATTTTTTTCAATTCCTTGTCG
*
118562010 GAGTATTATCAAAAGGGTTTTGGTGTGGTAGATGAACAATGCCTTGTTGGAGCAACTCCCCGATT
1 GAGTATTATCAAAAGGGTTTTGGTGTGGTAGATGAACAATGCCTTGTCGGAGCAACTCCCCGATT
** * ** ** *
118562075 CGATCCATGACATGTTTGGCTATTGGACCTGTGCCCGAACTCATCTCAACGAACTCAACAGCTTT
66 CGATCCACAACATGTTTGGCGATTAAACCCCTGCCCGAACTCAACTCAACGAACTCAACAGCTTT
*
118562140 GTAAGTGGCAATTTTTTTCAATTC
131 GTAAGTGGAAATTTTTTTCAATTC
118562164 GTCTTGGGTT
Statistics
Matches: 141, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
161 141 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (161 bp):
GAGTATTATCAAAAGGGTTTTGGTGTGGTAGATGAACAATGCCTTGTCGGAGCAACTCCCCGATT
CGATCCACAACATGTTTGGCGATTAAACCCCTGCCCGAACTCAACTCAACGAACTCAACAGCTTT
GTAAGTGGAAATTTTTTTCAATTCCTTGTCG
Found at i:118565164 original size:30 final size:30
Alignment explanation
Indices: 118565128--118565185 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
118565118 CAAATTCCTT
*
118565128 AATATGGATTATATAAAAATCCTAAAATAG
1 AATATGGATTATAAAAAAATCCTAAAATAG
118565158 AATATGGATTATAAAAAAATCCTAAAAT
1 AATATGGATTATAAAAAAATCCTAAAAT
118565186 TGACATACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.29
Consensus pattern (30 bp):
AATATGGATTATAAAAAAATCCTAAAATAG
Found at i:118566307 original size:45 final size:45
Alignment explanation
Indices: 118566243--118566333 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
118566233 TTATAATTGT
118566243 TTTATTCATTAATAGAGCACAAAAAAAATCACTTAACAATTTTGA
1 TTTATTCATTAATAGAGCACAAAAAAAATCACTTAACAATTTTGA
118566288 TTTATTCATTAATAGAGCACAAAAAAAATCACTTAACAATTTTGA
1 TTTATTCATTAATAGAGCACAAAAAAAATCACTTAACAATTTTGA
118566333 T
1 T
118566334 ATATAAGTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (45 bp):
TTTATTCATTAATAGAGCACAAAAAAAATCACTTAACAATTTTGA
Found at i:118566345 original size:45 final size:45
Alignment explanation
Indices: 118566245--118566345 Score: 159
Period size: 45 Copynumber: 2.2 Consensus size: 45
118566235 ATAATTGTTT
* *
118566245 TATTCATTAATAGAGCACAAAAAAAATCACTTAACAATTTTGATT
1 TATTAATTAATAGAGCACAAAAAAAATCACTTAACAATTTTGATA
*
118566290 TATTCATTAATAGAGCACAAAAAAAATCACTTAACAATTTTGATA
1 TATTAATTAATAGAGCACAAAAAAAATCACTTAACAATTTTGATA
118566335 TA-TAAGTTAAT
1 TATTAA-TTAAT
118566346 CATAACTCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
44 2 0.04
45 51 0.96
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.34
Consensus pattern (45 bp):
TATTAATTAATAGAGCACAAAAAAAATCACTTAACAATTTTGATA
Found at i:118582063 original size:16 final size:16
Alignment explanation
Indices: 118582044--118582081 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
118582034 TTGAAAAGAA
118582044 GGAGATTGAAATAAGT
1 GGAGATTGAAATAAGT
118582060 GGAGATTGAAATAAGT
1 GGAGATTGAAATAAGT
118582076 GGAGAT
1 GGAGAT
118582082 AGATTTAGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.34, T:0.24
Consensus pattern (16 bp):
GGAGATTGAAATAAGT
Found at i:118586127 original size:30 final size:29
Alignment explanation
Indices: 118586056--118586132 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 29
118586046 AATTTGTTAC
*
118586056 TTTA-TTTACATTATGACTTTTGGTGACT
1 TTTATTTTATATTATGACTTTTGGTGACT
118586084 TTTAATATTTATATTATGACTTTTGGTGA-T
1 TTT-AT-TTTATATTATGACTTTTGGTGACT
118586114 GATTTATTTTATATTATGA
1 --TTTATTTTATATTATGA
118586133 GTTTGTACTT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
28 3 0.07
29 1 0.02
30 13 0.30
31 23 0.53
32 3 0.07
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (29 bp):
TTTATTTTATATTATGACTTTTGGTGACT
Found at i:118586419 original size:17 final size:18
Alignment explanation
Indices: 118586387--118586420 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
118586377 AATATAACAT
*
118586387 TTTTTGTGACATTTTAAC
1 TTTTTGTGACAGTTTAAC
118586405 TTTTTGTGAC-GTTTAA
1 TTTTTGTGACAGTTTAA
118586421 AATTGTCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.56
Consensus pattern (18 bp):
TTTTTGTGACAGTTTAAC
Found at i:118587104 original size:29 final size:29
Alignment explanation
Indices: 118587043--118587130 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 29
118587033 ATTCTTAAAT
*
118587043 AATTATAAAAATATTTAAAAATTATTATG
1 AATTATAAAAATATTTAAAAATTATTATA
118587072 AATTATAAGAAA-ATTTAAATAACTT-TTA-A
1 AATTATAA-AAATATTTAAA-AA-TTATTATA
* *
118587101 AATTTTTAAAAAT-TATAAAAATTATATATA
1 AA-TTATAAAAATATTTAAAAATTAT-TATA
118587131 CAAACGTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
27 2 0.04
28 3 0.06
29 27 0.56
30 14 0.29
31 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (29 bp):
AATTATAAAAATATTTAAAAATTATTATA
Found at i:118587119 original size:9 final size:9
Alignment explanation
Indices: 118587038--118587126 Score: 54
Period size: 9 Copynumber: 9.2 Consensus size: 9
118587028 AGTGGATTCT
118587038 TAAATAATTA
1 TAAA-AATTA
*
118587048 TAAAAATATT
1 TAAAAAT-TA
118587058 TAAAAATTA
1 TAAAAATTA
**
118587067 TTATGAATTA
1 -TAAAAATTA
118587077 TAAGAAAATT-
1 T-A-AAAATTA
*
118587087 TAAATAACTTT
1 TAAA-AA-TTA
* *
118587098 TAAAATTTT
1 TAAAAATTA
118587107 TAAAAATTA
1 TAAAAATTA
118587116 TAAAAATTA
1 TAAAAATTA
118587125 TA
1 TA
118587127 TATACAAACG
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
8 2 0.03
9 29 0.46
10 24 0.38
11 8 0.13
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (9 bp):
TAAAAATTA
Found at i:118592718 original size:3 final size:3
Alignment explanation
Indices: 118592710--118592737 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
118592700 CAATTATCAA
118592710 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
118592738 TCACATATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:118593190 original size:15 final size:16
Alignment explanation
Indices: 118593172--118593208 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
118593162 ATAATTAAAG
118593172 AATAAATATAAAT-AT
1 AATAAATATAAATGAT
118593187 AATAAA-ATAAATGAT
1 AATAAATATAAATGAT
118593202 AA-AAATA
1 AATAAATA
118593209 CAAAACAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
AATAAATATAAATGAT
Found at i:118593213 original size:20 final size:20
Alignment explanation
Indices: 118593172--118593213 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
118593162 ATAATTAAAG
* *
118593172 AATAAATATAAATATAATAA
1 AATAAATATAAAAATAACAA
118593192 AATAAATGATAAAAAT-ACAA
1 AATAAAT-ATAAAAATAACAA
118593212 AA
1 AA
118593214 CAAGAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AATAAATATAAAAATAACAA
Found at i:118593981 original size:21 final size:22
Alignment explanation
Indices: 118593957--118594001 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
118593947 TCATTACTTT
118593957 TACTT-AATAAT-ATTTATTAAA
1 TACTTAAATAATAATTT-TTAAA
*
118593978 TACTTAAATATTAATTTTTAAA
1 TACTTAAATAATAATTTTTAAA
118594000 TA
1 TA
118594002 TTTTTCTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 12 0.57
23 4 0.19
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TACTTAAATAATAATTTTTAAA
Found at i:118595829 original size:16 final size:16
Alignment explanation
Indices: 118595795--118595846 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
118595785 ATGGCATCAG
118595795 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
118595811 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* * *
118595827 TCATACCATACTTAAT
1 TCATGCAATACTCAAT
118595843 TCAT
1 TCAT
118595847 AAGTATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 5 0.17
16 20 0.69
17 4 0.14
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.37
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:118596083 original size:40 final size:38
Alignment explanation
Indices: 118596039--118596172 Score: 110
Period size: 40 Copynumber: 3.4 Consensus size: 38
118596029 CCAGCTTGGT
*
118596039 ACCCAGTACCTCATCGGATAATTCGAAGTAATAAGTTGAC
1 ACCCAGTGCCTCATCGGATAA-TCGAAGTAATAA-TTGAC
* * * *
118596079 ACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AATTGGC
1 ACCCAGTGCCTCATCGGAT-AATCGAAGTAATAATTGAC
**
118596116 ACCCAGTGCCTCATCAAATTAATCTGAAGTAATAATTTGAC
1 ACCCAGTGCCTCATCGGA-TAATC-GAAGTAATAA-TTGAC
* * *
118596157 ATCCAATGTCTCATCG
1 ACCCAGTGCCTCATCG
118596173 ACTTGAAGTC
Statistics
Matches: 73, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
37 21 0.29
38 8 0.11
39 2 0.03
40 24 0.33
41 18 0.25
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (38 bp):
ACCCAGTGCCTCATCGGATAATCGAAGTAATAATTGAC
Found at i:118599723 original size:46 final size:46
Alignment explanation
Indices: 118599671--118599763 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
118599661 CCGGGCCCGG
* *
118599671 CCCGGCCATATTAAAAATAATTTGCTTTTTTTTATTAAATAAAAAA
1 CCCGGCCATATTAAAAAAAAATTGCTTTTTTTTATTAAATAAAAAA
118599717 CCCGGCCATATTAAAAAAAAATTGCTTTTTTTTATTAAATAAAAAA
1 CCCGGCCATATTAAAAAAAAATTGCTTTTTTTTATTAAATAAAAAA
118599763 C
1 C
118599764 TTTAAAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (46 bp):
CCCGGCCATATTAAAAAAAAATTGCTTTTTTTTATTAAATAAAAAA
Found at i:118599779 original size:24 final size:25
Alignment explanation
Indices: 118599752--118599800 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
118599742 TTTTTTTTAT
118599752 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAATATAA
* *
118599776 TAAATCAAATACATTTAAAATATAA
1 TAAATAAAAAACATTTAAAATATAA
118599801 AAACAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAATATAA
Found at i:118599793 original size:25 final size:23
Alignment explanation
Indices: 118599764--118599828 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
118599754 AATAAAAAAC
118599764 TTTAAAATATAATAAATCAAATACA
1 TTTAAAATATAA-AAA-CAAATACA
118599789 TTTAAAATATAAAAACAAAT--A
1 TTTAAAATATAAAAACAAATACA
*
118599810 -TTAAAACA-AAAAACAAATA
1 TTTAAAATATAAAAACAAATA
118599829 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 7 0.18
21 1 0.03
23 5 0.13
24 3 0.08
25 12 0.32
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAATATAAAAACAAATACA
Found at i:118601132 original size:2 final size:2
Alignment explanation
Indices: 118601125--118601166 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
118601115 CTGTGAATAA
* *
118601125 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
118601167 CTCACTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118603409 original size:15 final size:15
Alignment explanation
Indices: 118603386--118603415 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
118603376 AATAGTGATG
118603386 TGATATCTTAAGATA
1 TGATATCTTAAGATA
*
118603401 TGATGTCTTAAGATA
1 TGATATCTTAAGATA
118603416 ATTAGTAATT
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:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (15 bp):
TGATATCTTAAGATA
Found at i:118607991 original size:16 final size:16
Alignment explanation
Indices: 118607960--118607996 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
118607950 ATGTGAATAA
118607960 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
118607976 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
118607992 TATTA
1 TATTA
118607997 AAATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:118608047 original size:22 final size:22
Alignment explanation
Indices: 118608007--118608062 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
118607997 AAATAAATTT
*
118608007 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
118608027 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
118608049 TATTAATAATTTAT
1 AAATAATAAATTAT
118608063 TATAAGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:118608821 original size:20 final size:20
Alignment explanation
Indices: 118608796--118608837 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
118608786 ACTAAATTTT
*
118608796 TAATATGAAATATCCATCAA
1 TAATATAAAATATCCATCAA
*
118608816 TAATATAAAATATTCATCAA
1 TAATATAAAATATCCATCAA
118608836 TA
1 TA
118608838 GACTCTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.33
Consensus pattern (20 bp):
TAATATAAAATATCCATCAA
Found at i:118619443 original size:14 final size:14
Alignment explanation
Indices: 118619426--118619461 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
118619416 TTAAATATTT
118619426 TATTTAAAATAAAA
1 TATTTAAAATAAAA
118619440 TATTT-AAATAAAA
1 TATTTAAAATAAAA
*
118619453 AATTTAAAA
1 TATTTAAAA
118619462 CATAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TATTTAAAATAAAA
Found at i:118621208 original size:11 final size:10
Alignment explanation
Indices: 118621163--118621214 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
118621153 AAGTTGCAAC
118621163 AAATTATTTAA
1 AAATTA-TTAA
118621174 AAA-TA-T-A
1 AAATTATTAA
*
118621181 AAATTATCAA
1 AAATTATTAA
118621191 AAATTATTAA
1 AAATTATTAA
118621201 ATAATTATTAA
1 A-AATTATTAA
118621212 AAA
1 AAA
118621215 ATCATAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
7 4 0.11
8 3 0.09
10 15 0.43
11 13 0.37
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
AAATTATTAA
Done.