Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 371 of 438
Found at i:115479718 original size:18 final size:19
Alignment explanation
Indices: 115479683--115479718 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
115479673 ATGGTATTAA
115479683 TGATATACCTACAAGGTAG
1 TGATATACCTACAAGGTAG
115479702 TGATATACCTA-AAGGTA
1 TGATATACCTACAAGGTA
115479719 TGAAAACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (19 bp):
TGATATACCTACAAGGTAG
Found at i:115480094 original size:72 final size:71
Alignment explanation
Indices: 115479944--115480129 Score: 300
Period size: 72 Copynumber: 2.6 Consensus size: 71
115479934 TCTATAACAG
* *
115479944 AACTCAGATCAAAAGAAATTATTAAGCTGAAACCTATAAAAAACACTAAAGAGTTTTCCAAACTC
1 AACTCAGATCAAAAGACATTATTGAGCTGAAACCTATAAAAAACACTAAAGAGTTTTCCAAACTC
115480009 AGATCA
66 AGATCA
* * * *
115480015 AACTCAGATTAAAAGACATTATTGAGCTGAAACCTATAAAAAAGCAGTAAAGAGTTTTTCGAACT
1 AACTCAGATCAAAAGACATTATTGAGCTGAAACCTATAAAAAA-CACTAAAGAGTTTTCCAAACT
115480080 CAGATCA
65 CAGATCA
*
115480087 AACTCAGATCAAAAGACATTATTGAGCTGGAACCTATAAAAAA
1 AACTCAGATCAAAAGACATTATTGAGCTGAAACCTATAAAAAA
115480130 AGCACTAATA
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 40 0.38
72 66 0.62
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (71 bp):
AACTCAGATCAAAAGACATTATTGAGCTGAAACCTATAAAAAACACTAAAGAGTTTTCCAAACTC
AGATCA
Found at i:115483152 original size:16 final size:17
Alignment explanation
Indices: 115483121--115483153 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
115483111 TTCATAAACA
115483121 TAAATCAGATAATTCAT
1 TAAATCAGATAATTCAT
*
115483138 TAAATC-GATATTTCAT
1 TAAATCAGATAATTCAT
115483154 GCATTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (17 bp):
TAAATCAGATAATTCAT
Found at i:115484854 original size:2 final size:2
Alignment explanation
Indices: 115484849--115484878 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
115484839 TGTTTTTTTC
115484849 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
115484879 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:115484883 original size:2 final size:2
Alignment explanation
Indices: 115484878--115484904 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
115484868 ACACACACAC
115484878 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
115484905 GACTAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:115490938 original size:40 final size:39
Alignment explanation
Indices: 115490893--115491100 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
115490883 CGGAATACAA
*
115490893 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
115490933 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
115490973 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
115491013 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
115491053 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
115491093 CCGGATAT
1 CCGGATAT
115491101 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:115491040 original size:80 final size:81
Alignment explanation
Indices: 115490893--115491098 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
115490883 CGGAATACAA
* * * *
115490893 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
115490957 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
115490973 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
115491036 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
115491053 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
115491099 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:115498918 original size:40 final size:39
Alignment explanation
Indices: 115498873--115499080 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
115498863 CGGAATACAA
*
115498873 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
115498913 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
115498953 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
115498993 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
115499033 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
115499073 CCGGATAT
1 CCGGATAT
115499081 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:115499020 original size:80 final size:81
Alignment explanation
Indices: 115498873--115499078 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
115498863 CGGAATACAA
* * * *
115498873 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
115498937 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
115498953 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
115499016 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
115499033 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
115499079 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:115502203 original size:13 final size:13
Alignment explanation
Indices: 115502187--115502239 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
115502177 TTTAAACCAA
115502187 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
115502200 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
115502213 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
115502226 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
115502239 A
1 A
115502240 TTGCCAAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:115502662 original size:25 final size:24
Alignment explanation
Indices: 115502621--115502667 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
115502611 AACAATAGGC
115502621 TTTTATATATTTTTAATTGTATATT
1 TTTTATATATTTTTAATT-TATATT
115502646 TTTTATAT-TTTTATAATTTATA
1 TTTTATATATTTT-TAATTTATA
115502668 AATTTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTATATATTTTTAATTTATATT
Found at i:115502665 original size:15 final size:15
Alignment explanation
Indices: 115502647--115502698 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
115502637 TTGTATATTT
115502647 TTTATATTTTTATAA
1 TTTATATTTTTATAA
**
115502662 TTTATAAATTTATAA
1 TTTATATTTTTATAA
*
115502677 ATTATAACTTTTTATATA
1 TTTAT-A-TTTTTATA-A
115502695 TTTA
1 TTTA
115502699 AAATAATAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 17 0.61
16 1 0.04
17 6 0.21
18 4 0.14
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTATATTTTTATAA
Found at i:115502707 original size:24 final size:25
Alignment explanation
Indices: 115502662--115502708 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
115502652 ATTTTTATAA
*
115502662 TTTATAAATTTATAAATTATAACTT
1 TTTATAAATTTATAAATAATAACTT
*
115502687 TTTATATATTTA-AAATAATAAC
1 TTTATAAATTTATAAATAATAAC
115502709 CTAAAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (25 bp):
TTTATAAATTTATAAATAATAACTT
Found at i:115508591 original size:21 final size:22
Alignment explanation
Indices: 115508565--115508618 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
115508555 TAGCCTCCAG
**
115508565 CACGGGCGTGTCC-TAGGGTCA
1 CACGGGCGTGTCCTTAGGACCA
* *
115508586 CACGGGCATGTCCTTTGGACCA
1 CACGGGCGTGTCCTTAGGACCA
115508608 CACGGGCGTGT
1 CACGGGCGTGT
115508619 GAGCCTTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.15, C:0.30, G:0.35, T:0.20
Consensus pattern (22 bp):
CACGGGCGTGTCCTTAGGACCA
Found at i:115522083 original size:13 final size:14
Alignment explanation
Indices: 115522057--115522089 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
115522047 ATAAAATATA
115522057 AATTTATATTTAAT
1 AATTTATATTTAAT
115522071 AATTTAT-TTTAAT
1 AATTTATATTTAAT
115522084 ATATTT
1 A-ATTT
115522090 CATTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTTATATTTAAT
Found at i:115529058 original size:2 final size:2
Alignment explanation
Indices: 115529051--115529088 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
115529041 AGTATAGTTG
* *
115529051 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115529089 TCGGCCATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:115529763 original size:29 final size:29
Alignment explanation
Indices: 115529728--115529801 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
115529718 GTTGTGAGAT
* *
115529728 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
115529757 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
115529786 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
115529802 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:115541706 original size:14 final size:15
Alignment explanation
Indices: 115541687--115541719 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
115541677 CAAGAAAATG
115541687 ATGATACATGAAAA-
1 ATGATACATGAAAAC
*
115541701 ATGATATATGAAAAC
1 ATGATACATGAAAAC
115541716 ATGA
1 ATGA
115541720 GACGATGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.55, C:0.06, G:0.15, T:0.24
Consensus pattern (15 bp):
ATGATACATGAAAAC
Found at i:115547552 original size:27 final size:28
Alignment explanation
Indices: 115547522--115547595 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 28
115547512 AAGTATTGTA
115547522 CTAGTGGCTTTGCCACGTTTTACT-A-AT
1 CTAGTGGCTTTGCCACGTTTT-CTGACAT
*
115547549 CTAGTGGCCTTT-CCACGTATTCTGACAT
1 CTAGTGG-CTTTGCCACGTTTTCTGACAT
*
115547577 -TAGTGGCTATGCCACGTTT
1 CTAGTGGCTTTGCCACGTTT
115547596 ATTACTACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
26 5 0.12
27 29 0.73
28 6 0.15
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (28 bp):
CTAGTGGCTTTGCCACGTTTTCTGACAT
Found at i:115550693 original size:16 final size:16
Alignment explanation
Indices: 115550672--115550703 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
115550662 TAAAACTCGA
115550672 TATATATTTACTTATT
1 TATATATTTACTTATT
*
115550688 TATATATTTATTTATT
1 TATATATTTACTTATT
115550704 GAAAGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATATTTACTTATT
Found at i:115559714 original size:14 final size:14
Alignment explanation
Indices: 115559702--115559748 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
115559692 ATCTTATTTG
115559702 TTTATTT-TTATTTA
1 TTTATTTATT-TTTA
115559716 TTTATTTATTTTCATTA
1 TTTATTTA-TTT--TTA
115559733 TTTATTTATTTTTA
1 TTTATTTATTTTTA
115559747 TT
1 TT
115559749 CTTCTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.41
15 1 0.03
16 5 0.17
17 11 0.38
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTATTTTTA
Found at i:115559717 original size:4 final size:4
Alignment explanation
Indices: 115559695--115559743 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
115559685 TCGATTGATC
*
115559695 TTAT TTGT TTA- TT-T TTAT TTAT TTAT TTAT TT-T CATTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT --TTAT TTAT TTAT
115559742 TT
1 TT
115559744 TTATTCTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
3 5 0.13
4 30 0.79
5 2 0.05
6 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:115559733 original size:17 final size:18
Alignment explanation
Indices: 115559695--115559744 Score: 75
Period size: 17 Copynumber: 2.8 Consensus size: 18
115559685 TCGATTGATC
* *
115559695 TTATTTGTTTATTTTTAT
1 TTATTTATTTATTTTCAT
115559713 TTATTTATTTATTTTCA-
1 TTATTTATTTATTTTCAT
115559730 TTATTTATTTATTTT
1 TTATTTATTTATTTT
115559745 TATTCTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (18 bp):
TTATTTATTTATTTTCAT
Found at i:115564656 original size:38 final size:38
Alignment explanation
Indices: 115564605--115564766 Score: 243
Period size: 38 Copynumber: 4.3 Consensus size: 38
115564595 ATATTCGATG
* *
115564605 TATATCCGGGTTAAATCCCACAGGCTTCGTGATGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
115564643 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
115564681 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAC
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
115564719 TATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
115564757 TATATTCGGG
1 TATATCCGGG
115564767 CCTTCGTGCC
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 113 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:115564807 original size:43 final size:43
Alignment explanation
Indices: 115564759--115564883 Score: 205
Period size: 43 Copynumber: 2.9 Consensus size: 43
115564749 GCTGGTATTA
115564759 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* *
115564802 TATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* * *
115564845 GATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGA
115564884 AATGATATGT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.12, C:0.25, G:0.34, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
Found at i:115565276 original size:45 final size:45
Alignment explanation
Indices: 115565202--115565328 Score: 113
Period size: 45 Copynumber: 2.9 Consensus size: 45
115565192 TTGATTTGAT
* **
115565202 TATTCGGGCCTTT-GAGCTTAGCAAACTATAATGTCGGT-AAGAT-A
1 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGTCGGTGAA-ATGA
* *
115565246 CTATTCGGGCTTTCGAGCCTAGCAGGCTATAAAGCCGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGTCGGTGAAATGA
* * *
115565292 TA-TCGGGC-CTCGAGCCTAGTAGGCGA-AATGTCGGTGA
1 TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGTCGGTGA
115565329 TTTGAGAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
42 9 0.13
43 15 0.22
44 10 0.14
45 32 0.46
46 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGTCGGTGAAATGA
Found at i:115566483 original size:27 final size:27
Alignment explanation
Indices: 115566444--115566513 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
115566434 CTTTTTTATC
*
115566444 TTGTCC-AATGGACTTA-CCCGTGTTT
1 TTGTCCTAACGGACTTATCCCGTGTTT
* *
115566469 ATTGTCCTGACGGACTTATCTCGTGTTT
1 -TTGTCCTAACGGACTTATCCCGTGTTT
*
115566497 TTGTCCTAATGGACTTA
1 TTGTCCTAACGGACTTA
115566514 ATATCGGTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 6 0.16
27 23 0.62
28 8 0.22
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.41
Consensus pattern (27 bp):
TTGTCCTAACGGACTTATCCCGTGTTT
Found at i:115566703 original size:44 final size:42
Alignment explanation
Indices: 115566623--115566705 Score: 112
Period size: 44 Copynumber: 1.9 Consensus size: 42
115566613 TATTAGATGG
* *
115566623 TGCCATAGTCTTTCATCCATGGTCTTACTCATTATACCTGGC
1 TGCCATAGTCTTTCATCCATGGTCTTACACAGTATACCTGGC
* *
115566665 TGCCATAACGTCTTTCATCTATGGTCTTACACCGTATACCT
1 TGCCAT-A-GTCTTTCATCCATGGTCTTACACAGTATACCT
115566706 TATATTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 6 0.17
43 1 0.03
44 28 0.80
ACGTcount: A:0.20, C:0.29, G:0.13, T:0.37
Consensus pattern (42 bp):
TGCCATAGTCTTTCATCCATGGTCTTACACAGTATACCTGGC
Found at i:115572092 original size:50 final size:50
Alignment explanation
Indices: 115572013--115572112 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 50
115572003 ATGTTTTCGG
*
115572013 AATGTTTGAACCTTTTACTCACAAATGATAATAACCTGATATCAGATCTA
1 AATGTCTGAACCTTTTACTCACAAATGATAATAACCTGATATCAGATCTA
* * *
115572063 AATGTCTGAATCC-TTTACTCGCAACTGATAATAACCTGATCTCAGATCTA
1 AATGTCTGAA-CCTTTTACTCACAAATGATAATAACCTGATATCAGATCTA
115572113 TCTTTGAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 43 0.96
51 2 0.04
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (50 bp):
AATGTCTGAACCTTTTACTCACAAATGATAATAACCTGATATCAGATCTA
Found at i:115576629 original size:17 final size:17
Alignment explanation
Indices: 115576607--115576642 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
115576597 GATAGAATTT
115576607 AATGTA-AAGATCATAAA
1 AATGTAGAA-ATCATAAA
115576624 AATGTAGAAATCATAAA
1 AATGTAGAAATCATAAA
115576641 AA
1 AA
115576643 ACTGAGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.61, C:0.06, G:0.11, T:0.22
Consensus pattern (17 bp):
AATGTAGAAATCATAAA
Found at i:115583432 original size:12 final size:12
Alignment explanation
Indices: 115583415--115583467 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
115583405 CCAACAATTT
115583415 TCTCCTAAAATC
1 TCTCCTAAAATC
* *
115583427 TCTCCTCATATC
1 TCTCCTAAAATC
*
115583439 TCTCCTTAAATC
1 TCTCCTAAAATC
* *
115583451 CCTCCTACAATC
1 TCTCCTAAAATC
*
115583463 CCTCC
1 TCTCC
115583468 ATGACCAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.34
Consensus pattern (12 bp):
TCTCCTAAAATC
Found at i:115583467 original size:24 final size:24
Alignment explanation
Indices: 115583416--115583467 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
115583406 CAACAATTTT
* *
115583416 CTCCTAAAATCTCTCCTCATATCT
1 CTCCTAAAATCCCTCCTCATATCC
*
115583440 CTCCTTAAATCCCTCCTACA-ATCC
1 CTCCTAAAATCCCTCCT-CATATCC
115583464 CTCC
1 CTCC
115583468 ATGACCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.23, C:0.44, G:0.00, T:0.33
Consensus pattern (24 bp):
CTCCTAAAATCCCTCCTCATATCC
Found at i:115584819 original size:23 final size:22
Alignment explanation
Indices: 115584793--115584835 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
115584783 CCAATGCAAT
115584793 GCAACATA-ATATTATACATGGAG
1 GCAACATACATA-TA-ACATGGAG
115584816 GCAACATACATATAACATGG
1 GCAACATACATATAACATGG
115584836 CATGCTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 10 0.53
24 3 0.16
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.23
Consensus pattern (22 bp):
GCAACATACATATAACATGGAG
Found at i:115584930 original size:27 final size:27
Alignment explanation
Indices: 115584900--115584973 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
115584890 ACCCTACAGG
* * *
115584900 GGTATTTCGGTCATTCTATCTTATGGA
1 GGTATTTCGGTCATTTTATCCTATGAA
** *
115584927 GGTATTTTAGTCATTTTACCCTATGAA
1 GGTATTTCGGTCATTTTATCCTATGAA
115584954 GGTATTTCGGTCATTTTATC
1 GGTATTTCGGTCATTTTATC
115584974 ACATAAAGGC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.20, C:0.15, G:0.19, T:0.46
Consensus pattern (27 bp):
GGTATTTCGGTCATTTTATCCTATGAA
Found at i:115584982 original size:27 final size:26
Alignment explanation
Indices: 115584926--115585060 Score: 85
Period size: 27 Copynumber: 5.0 Consensus size: 26
115584916 TATCTTATGG
* * *
115584926 AGGTATTTTAGTCATTTTA-CCCTATGA
1 AGGTA-TTTCGTCATTTTATCAC-ATAA
115584953 AGGTATTTCGGTCATTTTATCACATAA
1 AGGTATTTC-GTCATTTTATCACATAA
* ** *
115584980 AGGCAAAATCGCCATTTTATCACATAA
1 AGG-TATTTCGTCATTTTATCACATAA
* **
115585007 AGGCAAAATCGTCATTTTATCACATAA
1 AGG-TATTTCGTCATTTTATCACATAA
* *
115585034 AGGTAAAATT-GTCATTTTATCATATAA
1 AGGT--ATTTCGTCATTTTATCACATAA
115585061 GGGCAAAATT
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
26 3 0.03
27 81 0.88
28 8 0.09
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (26 bp):
AGGTATTTCGTCATTTTATCACATAA
Found at i:115585068 original size:27 final size:27
Alignment explanation
Indices: 115584963--115585117 Score: 220
Period size: 27 Copynumber: 5.7 Consensus size: 27
115584953 AGGTATTTCG
115584963 GTCATTTTATCACATAAAGGCAAAATC
1 GTCATTTTATCACATAAAGGCAAAATC
*
115584990 GCCATTTTATCACATAAAGGCAAAATC
1 GTCATTTTATCACATAAAGGCAAAATC
* *
115585017 GTCATTTTATCACATAAAGGTAAAATT
1 GTCATTTTATCACATAAAGGCAAAATC
* * *
115585044 GTCATTTTATCATATAAGGGCAAAATT
1 GTCATTTTATCACATAAAGGCAAAATC
* *
115585071 GTCATTTTATCACACAAGGGCAAAATC
1 GTCATTTTATCACATAAAGGCAAAATC
* *
115585098 GTCCTTTTATCACATGAAGG
1 GTCATTTTATCACATAAAGG
115585118 TTCAAGTACG
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (27 bp):
GTCATTTTATCACATAAAGGCAAAATC
Found at i:115603617 original size:20 final size:17
Alignment explanation
Indices: 115603581--115603619 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 17
115603571 ATCCAAGTGA
115603581 AATAAAAATAAATAAAT
1 AATAAAAATAAATAAAT
115603598 AATAAATAACTAAGATAAAT
1 AATAAA-AA-TAA-ATAAAT
115603618 AA
1 AA
115603620 ATCAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 3 0.16
20 8 0.42
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (17 bp):
AATAAAAATAAATAAAT
Found at i:115608125 original size:5 final size:5
Alignment explanation
Indices: 115608110--115608150 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
115608100 TATAAATATT
*
115608110 TTTTA -TTTA TTTTA TTTTA TTTTG TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
115608151 ATTTTAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 4 0.12
5 29 0.88
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:115608222 original size:16 final size:17
Alignment explanation
Indices: 115608197--115608232 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
115608187 TAAACAAAAA
115608197 AGAATGGAAAA-GAAAC
1 AGAATGGAAAACGAAAC
*
115608213 AGAATTGAAAACGAAAC
1 AGAATGGAAAACGAAAC
115608230 AGA
1 AGA
115608233 GAAGGATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.61, C:0.08, G:0.22, T:0.08
Consensus pattern (17 bp):
AGAATGGAAAACGAAAC
Found at i:115611859 original size:50 final size:50
Alignment explanation
Indices: 115611732--115611982 Score: 236
Period size: 50 Copynumber: 5.0 Consensus size: 50
115611722 GAATGATCCG
* * * * ** *
115611732 TTGTGAGAACACATGTGTAGTACTATGTACAGGCTACTATGTGTTTAAGACGG
1 TTGTTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTG--TACCA-GA
* * *
115611785 TT-TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
1 TTGTTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
* **
115611834 TTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACTC-GA
1 TTGTTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC-CAGA
* * * * * *
115611884 TATCTTCGATCACGTGTGTAGTACTACGTACAGGCTACTACGTGTACCAGA
1 T-TGTTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
* * * *
115611935 ATGTTAGATCGCATGTGTAGTACTAAGCGCATGCTACTATGTGTACCA
1 TTGTTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
115611983 AAGAGCTTTG
Statistics
Matches: 161, Mismatches: 33, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
49 3 0.02
50 84 0.52
51 39 0.24
52 33 0.20
53 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (50 bp):
TTGTTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
Found at i:115611924 original size:101 final size:101
Alignment explanation
Indices: 115611792--115611975 Score: 305
Period size: 101 Copynumber: 1.8 Consensus size: 101
115611782 CGGTTTTAGG
* * *
115611792 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGAATGTTAGATCACATGTGTAGTAC
*
115611857 TAAGTGCAGGCTACTATGCATACTCGATATCTTCGA
66 TAAGCGCAGGCTACTATGCATACTCGATATCTTCGA
* *
115611893 TCACGTGTGTAGTACTACGTACAGGCTACTACGTGTACCAGAATGTTAGATCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGAATGTTAGATCACATGTGTAGTAC
*
115611958 TAAGCGCATGCTACTATG
66 TAAGCGCAGGCTACTATG
115611976 TGTACCAAAG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 76 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGAATGTTAGATCACATGTGTAGTAC
TAAGCGCAGGCTACTATGCATACTCGATATCTTCGA
Found at i:115612016 original size:101 final size:101
Alignment explanation
Indices: 115611813--115612019 Score: 227
Period size: 101 Copynumber: 2.0 Consensus size: 101
115611803 GTACTAAGTG
* * *
115611813 CAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCAT
1 CAGGCTACTACGTGTACCAGAATGTTAGATCACATGTGTAGTACTAAGCGCAGGCTACTATGCAT
* * * ** * *
115611878 ACTCGATATCTTCGATCACGTGTGTAGTACTACGTA
66 ACTCAAGAGCTTCGATCACAAGGGTAGTAATACGTA
* * **
115611914 CAGGCTACTACGTGTACCAGAATGTTAGATCGCATGTGTAGTACTAAGCGCATGCTACTATGTGT
1 CAGGCTACTACGTGTACCAGAATGTTAGATCACATGTGTAGTACTAAGCGCAGGCTACTATGCAT
* * * * *
115611979 AC-CAAAGAGCTTTGGTTACAAGGGTGGTAATATGTA
66 ACTC-AAGAGCTTCGATCACAAGGGTAGTAATACGTA
115612015 CAGGC
1 CAGGC
115612020 CACTGGGTAT
Statistics
Matches: 86, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
100 1 0.01
101 85 0.99
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (101 bp):
CAGGCTACTACGTGTACCAGAATGTTAGATCACATGTGTAGTACTAAGCGCAGGCTACTATGCAT
ACTCAAGAGCTTCGATCACAAGGGTAGTAATACGTA
Found at i:115629842 original size:172 final size:173
Alignment explanation
Indices: 115629551--115629900 Score: 614
Period size: 172 Copynumber: 2.0 Consensus size: 173
115629541 AATGCTTAGG
* * *
115629551 ATTGAGAGTGTTGGGTTTTTACTTTTCCTCATTGCTATTGTCTTCCTACTGTGTGAGTTAAAACA
1 ATTGGGAGTGTTGGGTCTTTACTTTTCCTCATTGCTATTGTCTTCCTACTGTGTGAGTCAAAACA
*
115629616 TTTTTTGTGCATTGGACTTAGGTTGTTGTTTAGCTTGATTTAAGTTTTTGCATGCGATAATTGAC
66 TTTTTTGTGCATTGGACTTAGGTTGTTGTTTAGCTTGATTTAAGTTGTTGCATGCGATAATTGAC
* *
115629681 CTTTTTTTTTTTAA-ATCAATCCTCTTTCCAACTGAGT-GAGTC
131 C-TTTTTTTTTCAAGATCAATCCTCTTTCCAACGGAGTGGAGTC
115629723 ATTGGGAGTGTTGGGTCTTTACTTTTCCTCATTGCTATTGTCTTCCTACTGTGTGAGTCAAAACA
1 ATTGGGAGTGTTGGGTCTTTACTTTTCCTCATTGCTATTGTCTTCCTACTGTGTGAGTCAAAACA
*
115629788 TTTTTTGTGCATTGGACTTAGGTTGTTGTTTGGCTTGATTTAAGTTGTTGCATGCGATAATTGAC
66 TTTTTTGTGCATTGGACTTAGGTTGTTGTTTAGCTTGATTTAAGTTGTTGCATGCGATAATTGAC
115629853 CTTTTTTTTTCAAGATCAATCCTCTTTCCAACGGAGTGGAGTC
131 CTTTTTTTTTCAAGATCAATCCTCTTTCCAACGGAGTGGAGTC
115629896 ATTGG
1 ATTGG
115629901 TGGCCATGGT
Statistics
Matches: 169, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
171 11 0.07
172 148 0.88
173 10 0.06
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (173 bp):
ATTGGGAGTGTTGGGTCTTTACTTTTCCTCATTGCTATTGTCTTCCTACTGTGTGAGTCAAAACA
TTTTTTGTGCATTGGACTTAGGTTGTTGTTTAGCTTGATTTAAGTTGTTGCATGCGATAATTGAC
CTTTTTTTTTCAAGATCAATCCTCTTTCCAACGGAGTGGAGTC
Found at i:115632631 original size:11 final size:11
Alignment explanation
Indices: 115632615--115632657 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
115632605 GTAGGTTAGA
115632615 AATAAAATATT
1 AATAAAATATT
**
115632626 AATAAAATTAGA
1 AATAAAA-TATT
115632638 AATAAAATATT
1 AATAAAATATT
115632649 AATAAAATA
1 AATAAAATA
115632658 AATGTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:115632637 original size:23 final size:23
Alignment explanation
Indices: 115632610--115632656 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
115632600 TATTAGTAGG
115632610 TTAGAAATAAAATATTAATAAAA
1 TTAGAAATAAAATATTAATAAAA
115632633 TTAGAAATAAAATATTAATAAAA
1 TTAGAAATAAAATATTAATAAAA
115632656 T
1 T
115632657 AAATGTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (23 bp):
TTAGAAATAAAATATTAATAAAA
Found at i:115636072 original size:27 final size:27
Alignment explanation
Indices: 115636042--115636095 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
115636032 ATTATGATTG
115636042 AATTTTGGTATTGCTTAACATGTTCAA
1 AATTTTGGTATTGCTTAACATGTTCAA
115636069 AATTTTGGTATTGCTTAACATGTTCAA
1 AATTTTGGTATTGCTTAACATGTTCAA
115636096 TTAAAAATTA
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:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (27 bp):
AATTTTGGTATTGCTTAACATGTTCAA
Found at i:115637260 original size:27 final size:27
Alignment explanation
Indices: 115637222--115637301 Score: 151
Period size: 27 Copynumber: 3.0 Consensus size: 27
115637212 CCGAACAAGT
*
115637222 ATACCATCTAAAATAAATTAGACTTGC
1 ATACCATCTAAAATAAATTAAACTTGC
115637249 ATACCATCTAAAATAAATTAAACTTGC
1 ATACCATCTAAAATAAATTAAACTTGC
115637276 ATACCATCTAAAATAAATTAAACTTG
1 ATACCATCTAAAATAAATTAAACTTG
115637302 TTATAACGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.30
Consensus pattern (27 bp):
ATACCATCTAAAATAAATTAAACTTGC
Found at i:115638574 original size:23 final size:23
Alignment explanation
Indices: 115638548--115638592 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
115638538 CTATTTAATT
*
115638548 GATTTAGGGTTAGGGTTTTTTAG
1 GATTTAGAGTTAGGGTTTTTTAG
115638571 GATTTAGAGTTAGGGTTTTTTA
1 GATTTAGAGTTAGGGTTTTTTA
115638593 AGTTAAGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (23 bp):
GATTTAGAGTTAGGGTTTTTTAG
Found at i:115638602 original size:15 final size:15
Alignment explanation
Indices: 115638573--115638609 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
115638563 TTTTTTAGGA
*
115638573 TTTAGAGTTAGGGTTT
1 TTTA-AGTTAAGGTTT
115638589 TTTAAGTTAAGGTTT
1 TTTAAGTTAAGGTTT
115638604 TTTAAG
1 TTTAAG
115638610 GTTTTAGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (15 bp):
TTTAAGTTAAGGTTT
Found at i:115639509 original size:126 final size:127
Alignment explanation
Indices: 115639283--115639538 Score: 442
Period size: 126 Copynumber: 2.0 Consensus size: 127
115639273 TTTCTATAAG
* *
115639283 AATAATTCTGAACAGCCATTTCTGAACAAATAGTGTCGAAAAATGCTTCAAGCAGGACGCACTGT
1 AATAATTCTGAACAGACATTTCTGAACAAATAGTGTCGAAAAACGCTTCAAGCAGGACGCACTGT
*
115639348 CAGCAAAATTTTTGGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 CAGCAAAATTTCTGGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
** *
115639410 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCG-AAAACGCTTCAAGCAGGATGCACTGT
1 AATAATTCTGAACAGACATTTCTGAACAAATAGTGTCGAAAAACGCTTCAAGCAGGACGCACTGT
*
115639474 CAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 CAGCAAAATTTCTGGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
115639536 AAT
1 AAT
115639539 GATGCTATAA
Statistics
Matches: 122, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
126 87 0.71
127 35 0.29
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (127 bp):
AATAATTCTGAACAGACATTTCTGAACAAATAGTGTCGAAAAACGCTTCAAGCAGGACGCACTGT
CAGCAAAATTTCTGGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:115643056 original size:18 final size:18
Alignment explanation
Indices: 115643030--115643072 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
115643020 GGTTAGGAAA
* *
115643030 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
115643048 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
115643066 AGGATAC
1 AGGATAC
115643073 GCACCTGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:115644726 original size:48 final size:46
Alignment explanation
Indices: 115644652--115644784 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 46
115644642 ATGCAAACAT
* **
115644652 CATAAATGAAAAAAAATCAAGCAGTATTGAAATTGTAATTATAA-TTG
1 CATAAATGAAAAAATATCAAATAGTATTGAAATT-TAATTA-AATTTG
*
115644699 TATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAA-AAAATATCAAATAGTATTG-AAATTTAATTAAATTTG
*
115644747 CATAAATTAAAAAAATATC-AATAGTATTGAAAATTTAA
1 CATAAA-TGAAAAAATATCAAATAGTATTG-AAATTTAA
115644785 AATTATCACT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
47 29 0.39
48 38 0.51
49 8 0.11
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (46 bp):
CATAAATGAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTG
Found at i:115646028 original size:70 final size:70
Alignment explanation
Indices: 115645891--115646110 Score: 246
Period size: 70 Copynumber: 3.1 Consensus size: 70
115645881 AACTCTTCTC
* * *
115645891 CCAAAAATACTAAACTGCTTTAATCAAGAAAA-AATATTATAAAAATAAAATTATTATTTTATTA
1 CCAAAAATACTAAATTGTTTTAATCAA-AAAATATTATTATAAAAATAAAATTATTATTTTATTA
115645955 TACATA
65 TACATA
* * * *
115645961 CCAAAAACACTAAATTGTTTTATTCACAAAAATATTATTATAAAACTAAAATTATT-TTTTGTTA
1 CCAAAAATACTAAATTGTTTTAATCA-AAAAATATTATTATAAAAATAAAATTATTATTTTATTA
115646025 TACATA
65 TACATA
* * * * * * *
115646031 CCACAAATATTAAATTGTTTTACTGAAAAACCATTATTATTATAAAAATAAAAATATTATCTTAC
1 CCAAAAATACTAAATTGTTTTAATCAAAAA--A-TATTATTATAAAAATAAAATTATTATTTTAT
115646096 TATACATA
63 TATACATA
*
115646104 CAAAAAA
1 CCAAAAA
115646111 ATTCAACATA
Statistics
Matches: 125, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
69 4 0.03
70 60 0.48
71 23 0.18
72 22 0.18
73 16 0.13
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (70 bp):
CCAAAAATACTAAATTGTTTTAATCAAAAAATATTATTATAAAAATAAAATTATTATTTTATTAT
ACATA
Found at i:115647039 original size:21 final size:22
Alignment explanation
Indices: 115646995--115647053 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
115646985 TTTTATTTGA
*
115646995 AAATAA-AAAGTACATTTGAATT
1 AAATAATAAAGT-TATTTGAATT
115647017 AAATAATAAAGTTATTT-AATT
1 AAATAATAAAGTTATTTGAATT
*
115647038 AAA-AATTAAAGCTATT
1 AAATAA-TAAAGTTATT
115647054 CTGTATGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 10 0.30
23 5 0.15
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (22 bp):
AAATAATAAAGTTATTTGAATT
Found at i:115649649 original size:19 final size:18
Alignment explanation
Indices: 115649610--115649651 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
115649600 TGAATCACCG
*
115649610 AATTTTTAAAATATATCA
1 AATTTTTAAAATACATCA
115649628 AATTTTTGAAGAATACAT-A
1 AATTTTT-AA-AATACATCA
115649647 AATTT
1 AATTT
115649652 ATAATTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 8 0.38
20 6 0.29
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
AATTTTTAAAATACATCA
Found at i:115650756 original size:21 final size:21
Alignment explanation
Indices: 115650726--115650794 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
115650716 CTCACAAAGA
* *
115650726 AAAAAG-GAAGTAAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
115650746 AAAAAGAGAAGAAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
*
115650767 AAAAAGAGAAGTACCTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
115650788 AAAAAGA
1 AAAAAGA
115650795 AATAAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.57, C:0.09, G:0.23, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:115653462 original size:15 final size:16
Alignment explanation
Indices: 115653433--115653462 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
115653423 ATACTAAACG
115653433 ATTTAATATAAAGATA
1 ATTTAATATAAAGATA
115653449 ATTTAATA-AAAGAT
1 ATTTAATATAAAGAT
115653463 TTTTTTTTGT
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:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (16 bp):
ATTTAATATAAAGATA
Found at i:115667250 original size:40 final size:40
Alignment explanation
Indices: 115667128--115667265 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 40
115667118 GGAATGATAC
* *
115667128 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCAATT-GTGCAAGTTGTTATAT
* ** *
115667168 CTGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTGTTATAT
** *
115667208 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTGTTATAT
115667248 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
115667266 TACGTGACTC
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.17
40 65 0.78
41 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTGTTATAT
Found at i:115680480 original size:46 final size:46
Alignment explanation
Indices: 115680330--115680549 Score: 198
Period size: 46 Copynumber: 4.7 Consensus size: 46
115680320 TTATTTGTGT
* * *
115680330 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGTAA
* * *
115680376 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGA-CTAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGTA-A
* * *
115680424 GCTAGTGTAAGATATGTCTGGGACATGCATCGGCCTCGAGATGTAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAA
* * * * *
115680470 GCCAGTGTAAGACATGTTTGAGACATGCGTC-GGCTACGAGAGGT--
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGATGTAA
* *
115680514 GTCAATGTAAGACCATGTCTGGGACATGGCATCAGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC
115680550 ATTATACCTT
Statistics
Matches: 140, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 62 0.44
47 31 0.22
48 21 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAA
Found at i:115681634 original size:21 final size:20
Alignment explanation
Indices: 115681608--115681647 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
115681598 GTTATAATGA
*
115681608 TCACACGGGCGTGTTGCCCTT
1 TCACACAGGCGTG-TGCCCTT
115681629 TCACACAGGCGTGTGCCCT
1 TCACACAGGCGTGTGCCCT
115681648 GTTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.35, G:0.28, T:0.25
Consensus pattern (20 bp):
TCACACAGGCGTGTGCCCTT
Found at i:115685731 original size:17 final size:17
Alignment explanation
Indices: 115685711--115685743 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
115685701 ACTTATGAAC
115685711 ATTATGTAT-TTTTACTG
1 ATTATGT-TGTTTTACTG
115685728 ATTATGTTGTTTTACT
1 ATTATGTTGTTTTACT
115685744 CGTTTTCACG
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:0.21, C:0.06, G:0.12, T:0.61
Consensus pattern (17 bp):
ATTATGTTGTTTTACTG
Found at i:115695836 original size:48 final size:48
Alignment explanation
Indices: 115695784--115695881 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
115695774 AAAATATTTT
* *
115695784 TTTCAATTAAAATTATTCATTTGTTTTTGTCAAAAACTAAAATATCCA
1 TTTCAATTAAAATTATTCATTTGTTTTTGTAAAAAACTAAAATACCCA
** *
115695832 TTTCAATTAAAATTATTTGTTTGTTTTTGTAAAAAACTAAACTACCCA
1 TTTCAATTAAAATTATTCATTTGTTTTTGTAAAAAACTAAAATACCCA
115695880 TT
1 TT
115695882 ATTATTCATG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (48 bp):
TTTCAATTAAAATTATTCATTTGTTTTTGTAAAAAACTAAAATACCCA
Found at i:115698477 original size:39 final size:39
Alignment explanation
Indices: 115698434--115698572 Score: 165
Period size: 39 Copynumber: 3.6 Consensus size: 39
115698424 TATCCACTTT
* *
115698434 TAAGCATATATCACATTACACATATAATCACATAACATC
1 TAAGCATATATCACAATACTCATATAATCACATAACATC
* * *
115698473 TAAGCATATATCAAAATACTCATATAATTACATAACGGTC
1 TAAGCATATATCACAATACTCATATAATCACATAAC-ATC
* *
115698513 -AAGCACATATCACAATACTTATATAATCACATAACAT-
1 TAAGCATATATCACAATACTCATATAATCACATAACATC
* *
115698550 TCAAGCATATGTCGCAATACTCA
1 T-AAGCATATATCACAATACTCA
115698573 AAAACATGTT
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
38 1 0.01
39 80 0.96
40 2 0.02
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.28
Consensus pattern (39 bp):
TAAGCATATATCACAATACTCATATAATCACATAACATC
Found at i:115701967 original size:26 final size:26
Alignment explanation
Indices: 115701928--115702035 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
115701918 TGGTACAAAT
115701928 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
115701954 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
115701980 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
115702006 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
115702032 TGAT
1 TGAT
115702036 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:115703505 original size:28 final size:26
Alignment explanation
Indices: 115703474--115703537 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
115703464 AATTACTTGA
* **
115703474 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCATT
*
115703502 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
115703528 ATACCCCTAG
1 ATACCCCTAG
115703538 GGTTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:115703708 original size:27 final size:27
Alignment explanation
Indices: 115703642--115703781 Score: 171
Period size: 27 Copynumber: 5.2 Consensus size: 27
115703632 AGGAAGCGTC
* *
115703642 CTGGTGGCTATGCCACA-ATTAT-TGAT
1 CTGGTGGCTCTGCCACATA-TATCTGTT
115703668 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
* * **
115703695 CTGGTGGTTATGCCACGAT-TATCTAAT
1 CTGGTGGCTCTGCCAC-ATATATCTGTT
115703722 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
115703749 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTGT-T
115703776 CTGGTG
1 CTGGTG
115703782 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
26 29 0.29
27 68 0.69
28 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:115703739 original size:54 final size:53
Alignment explanation
Indices: 115703642--115703781 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 53
115703632 AGGAAGCGTC
*
115703642 CTGGTGGCTATGCCACAATTAT-TGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
*
115703695 CTGGTGGTTATGCCACGATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
* * *
115703749 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCT-AATCTGGTG
115703782 ACTTCGTCAC
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 26 0.33
54 52 0.67
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.36
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:115703792 original size:27 final size:26
Alignment explanation
Indices: 115703642--115703799 Score: 131
Period size: 27 Copynumber: 5.9 Consensus size: 26
115703632 AGGAAGCGTC
* * *
115703642 CTGGTGGCTATGCCACAATTAT-TGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
*
115703668 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
** * * **
115703695 CTGGTGGTTATGCCACGATTATCTAAT
1 CTGGTGACTCTGCCAC-AATATCTGTT
*
115703722 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
115703749 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
115703776 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
115703800 GCAGCCTCGC
Statistics
Matches: 112, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
26 29 0.26
27 82 0.73
28 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:115706215 original size:24 final size:25
Alignment explanation
Indices: 115706188--115706234 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
115706178 GTATTATGTA
115706188 TATTATAATTAT-TTACTT-ATATTT
1 TATTAT-ATTATATTACTTCATATTT
115706212 TATTATATTATATTACTTCATAT
1 TATTATATTATATTACTTCATAT
115706235 CTTTCAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTATATTATATTACTTCATATTT
Found at i:115706378 original size:13 final size:12
Alignment explanation
Indices: 115706358--115706491 Score: 63
Period size: 12 Copynumber: 11.2 Consensus size: 12
115706348 ATTTTAACAA
115706358 TATATTATTTCA-
1 TATATTATTT-AT
115706370 TATTATTATTTAT
1 TA-TATTATTTAT
115706383 TATATTATTT-T
1 TATATTATTTAT
* *
115706394 TCACA--AATTAT
1 T-ATATTATTTAT
115706405 TATTATTA-TT-T
1 TA-TATTATTTAT
*
115706416 TACATTA-TTAT
1 TATATTATTTAT
*
115706427 T-TATATAATTAT
1 TATAT-TATTTAT
115706439 TATATT-TTTACT
1 TATATTATTTA-T
*
115706451 TGTATTATATTTAT
1 TATA-T-TATTTAT
115706465 TA-ATTATTTAT
1 TATATTATTTAT
*
115706476 ATATATTATATAT
1 -TATATTATTTAT
115706489 TAT
1 TAT
115706492 TTTTACATAT
Statistics
Matches: 96, Mismatches: 9, Indels: 34
0.69 0.06 0.24
Matches are distributed among these distances:
10 12 0.12
11 22 0.23
12 31 0.32
13 24 0.25
14 3 0.03
15 4 0.04
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:115706425 original size:22 final size:21
Alignment explanation
Indices: 115706379--115706427 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
115706369 ATATTATTAT
115706379 TTATTA-TATTATTTTTCACAAA
1 TTATTATTATTATTTTTCAC--A
115706401 TTATTATTATTA-TTTT-ACA
1 TTATTATTATTATTTTTCACA
115706420 TTATTATT
1 TTATTATT
115706428 TATATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.35
21 2 0.08
22 10 0.38
23 5 0.19
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTATTATTATTTTTCACA
Found at i:115706444 original size:17 final size:17
Alignment explanation
Indices: 115706419--115706496 Score: 56
Period size: 17 Copynumber: 4.6 Consensus size: 17
115706409 ATTATTTTAC
115706419 ATTATTATTTATATAAT-T
1 ATTA-TATTTAT-TAATAT
* *
115706437 ATTATATTT-TTACTTGT
1 ATTATATTTATTA-ATAT
115706454 ATTATATTTATTAAT-T
1 ATTATATTTATTAATAT
*
115706470 ATTTATATATATT-ATAT
1 A-TTATATTTATTAATAT
*
115706487 ATTATTTTTA
1 ATTATATTTA
115706497 CATATATACA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
15 2 0.04
16 13 0.26
17 28 0.56
18 7 0.14
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (17 bp):
ATTATATTTATTAATAT
Found at i:115718423 original size:206 final size:206
Alignment explanation
Indices: 115718061--115718851 Score: 1133
Period size: 206 Copynumber: 3.8 Consensus size: 206
115718051 TAGGCCACGG
* * *
115718061 CATAACAGATCTGGCCTTCAGATGCTTGTAT--TGAAGCAGATCCAAGATGGTTTGGCATCCTTG
1 CATAGCAGATCTGACCTTCAGATG-TT-TATGCTGAAGCAGATCCAAGATGATTTGGCATCCTTG
* * * * * *
115718124 TACTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCATGTGTTTACGTTGAAGCAAAT
64 TGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAAT
* * * *
115718189 CTAAGATAATTTGGCATCTCTATATTGTCAGAGAACAAATCAAAGTTTGGAGTCTCCATATTCGA
129 CTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTTGA
*
115718254 CGGAGGGCAGACA
194 CGGAGAGCAGACA
* * *
115718267 CATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGTAGATCCAAGATGATTTGGCATCCTGGTG
1 CATAGCAGATCTGACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
* * *
115718332 CTTATAAGAAACAAATCAAAGACATAACTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCT
66 CTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCT
* *
115718397 AAGATGATTTGGCATCTCTGTATTGTCAGAGAAAAAATCGAAGTTTGGCGTCTCCATATTTGACG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTTGACG
115718462 GAGAGCAGACA
196 GAGAGCAGACA
* * * *
115718473 CATAGCAGATCTGGCTTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTGACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
* * *
115718538 CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGAAAATCT
66 CTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCT
* * *
115718603 AAGATGATTTGGCATCTTTGTATTGTTAGAGAACAAATCGAAGTTTGGCGTCTCCATATTTGACG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTTGACG
115718668 GAGAGCAGACA
196 GAGAGCAGACA
* * *
115718679 CATAGCAGATCTAACCTTCAGATGATTA-GACTGAAGCAGATCCAAGATGATTTGGCATCATTGT
1 CATAGCAGATCTGACCTTCAGATGTTTATG-CTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
* * *
115718743 GCTTACAAGGAGCAAAT-AGAA-ATCATAGCTGATTTAGCTTTCACGTGCTTACGCTAAAGCAAA
65 GCTTACAAGGAACAAATCA-AAGA-CATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAA
* * *
115718806 TCTAAGATGATTTGGCATTTCTGTATTGTCAAAGAATAAATCAAAG
128 TCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAG
115718852 AAGCAGATTT
Statistics
Matches: 525, Mismatches: 55, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
204 3 0.01
205 3 0.01
206 519 0.99
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (206 bp):
CATAGCAGATCTGACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
CTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTTGACG
GAGAGCAGACA
Found at i:115720687 original size:24 final size:24
Alignment explanation
Indices: 115720592--115720696 Score: 67
Period size: 24 Copynumber: 4.4 Consensus size: 24
115720582 TCTTTATATC
* * *
115720592 TTTATAT-TATTTTACATTA-TTA
1 TTTATATATATTATATATTATTTT
115720614 TTTATATATAATTAT-TA-TATTTT
1 TTTATATAT-ATTATATATTATTTT
* * *
115720637 TACTTGTAT-TATATATTTATTAATTT
1 T--TTATATATAT-TATATATTATTTT
115720663 TTTATATATATTATATATTATTTT
1 TTTATATATATTATATATTATTTT
**
115720687 TACATATATA
1 TTTATATATA
115720697 CACTTTCATA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
22 9 0.14
23 7 0.11
24 32 0.50
25 10 0.16
26 6 0.09
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (24 bp):
TTTATATATATTATATATTATTTT
Found at i:115721066 original size:15 final size:16
Alignment explanation
Indices: 115721023--115721088 Score: 50
Period size: 15 Copynumber: 4.2 Consensus size: 16
115721013 CAATATGTTT
*
115721023 TATATT-TTTCATATAA
1 TATATTATTTTATA-AA
115721039 T-TATTATTCTTATAAA
1 TATATTATT-TTATAAA
*
115721055 TATATT-TTTTAT-TA
1 TATATTATTTTATAAA
*
115721069 TATATTATATTATTAAA
1 TATATTATTTTA-TAAA
115721086 TAT
1 TAT
115721089 CACATTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
14 7 0.17
15 12 0.30
16 9 0.22
17 12 0.30
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TATATTATTTTATAAA
Found at i:115725612 original size:21 final size:21
Alignment explanation
Indices: 115725587--115725663 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
115725577 AATAACAGGC
*
115725587 CATACTTATCATATTGCAGAT
1 CATACTTATCATATTACAGAT
* * * *
115725608 TATACATGTCATATTACAAAT
1 CATACTTATCATATTACAGAT
**
115725629 CATACTTATCATATTTTAGAT
1 CATACTTATCATATTACAGAT
*
115725650 CATACTGATCATAT
1 CATACTTATCATAT
115725664 AACATATTAT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.40
Consensus pattern (21 bp):
CATACTTATCATATTACAGAT
Found at i:115734714 original size:28 final size:28
Alignment explanation
Indices: 115734682--115734744 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
115734672 TTGACAAAAC
115734682 AAGGTTTATAGGTAGATTTTTTTTAATT
1 AAGGTTTATAGGTAGATTTTTTTTAATT
115734710 AAGGTTTATAGGTAGATTTTTTTTAATT
1 AAGGTTTATAGGTAGATTTTTTTTAATT
*
115734738 AATGTTT
1 AAGGTTT
115734745 TACATTGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (28 bp):
AAGGTTTATAGGTAGATTTTTTTTAATT
Found at i:115743019 original size:17 final size:18
Alignment explanation
Indices: 115742977--115743025 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
115742967 AGTTGAAAAG
115742977 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
115742996 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
115743013 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
115743026 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:115743914 original size:40 final size:40
Alignment explanation
Indices: 115743848--115744014 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
115743838 AAATTGAATG
* * *
115743848 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
115743887 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
115743927 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
115743967 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
115744007 ATATCCGG
1 ATATCCGG
115744015 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:115746700 original size:49 final size:49
Alignment explanation
Indices: 115746610--115746706 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
115746600 GGTGGATATC
* ** *
115746610 GCGATACCATTGAAGGGTGGTCTCCAATCTTGGGTTCGTTGGAGGTATA
1 GCGATACCATTGAAGGGTGGTCTCCAATCTAGGACTCGTTGGACGTATA
115746659 GCGATACCATTGAAGGGTGGTCTCCAATCTCAGGACT-GTTGGACGTAT
1 GCGATACCATTGAAGGGTGGTCTCCAATCT-AGGACTCGTTGGACGTAT
115746707 TGTGATTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 40 0.93
50 3 0.07
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.29
Consensus pattern (49 bp):
GCGATACCATTGAAGGGTGGTCTCCAATCTAGGACTCGTTGGACGTATA
Found at i:115750586 original size:22 final size:23
Alignment explanation
Indices: 115750560--115750613 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
115750550 CATATTCTCA
*
115750560 ATACCAAAGGGTCGAT-ATTGCG
1 ATACCAAAGAGTCGATAATTGCG
*
115750582 ATACCAAAGAGTCGATAATTGTG
1 ATACCAAAGAGTCGATAATTGCG
115750605 ATACACAAA
1 ATAC-CAAA
115750614 TATTAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 15 0.54
23 9 0.32
24 4 0.14
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (23 bp):
ATACCAAAGAGTCGATAATTGCG
Found at i:115756288 original size:28 final size:30
Alignment explanation
Indices: 115756227--115756289 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 30
115756217 AGTAAGTTAC
**
115756227 AACATTTAGGGACCAAATAAGAAAAATTTGA
1 AACATTTAGGGA-CAAATAAGAAAAATTCAA
*
115756258 AACATTTATGGA-AAATAA-AAAAATTCAA
1 AACATTTAGGGACAAATAAGAAAAATTCAA
115756286 AACA
1 AACA
115756290 GGGGTCATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 12 0.41
29 6 0.21
31 11 0.38
ACGTcount: A:0.57, C:0.10, G:0.11, T:0.22
Consensus pattern (30 bp):
AACATTTAGGGACAAATAAGAAAAATTCAA
Found at i:115759175 original size:26 final size:26
Alignment explanation
Indices: 115759139--115759273 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
115759129 ACATGAATTC
*
115759139 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
115759165 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
115759191 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
115759217 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
115759243 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
115759268 TTATCA
1 TTATCA
115759274 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:115763375 original size:26 final size:26
Alignment explanation
Indices: 115763339--115763500 Score: 279
Period size: 26 Copynumber: 6.2 Consensus size: 26
115763329 CATGATATTC
115763339 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
115763365 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
115763391 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
115763417 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
115763443 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
115763469 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
115763495 TTATCA
1 TTATCA
115763501 ATTTGTATCA
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 133 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:115764599 original size:39 final size:38
Alignment explanation
Indices: 115764523--115764727 Score: 261
Period size: 39 Copynumber: 5.3 Consensus size: 38
115764513 TAATGCTTGT
*
115764523 TTGAGCA-ACTTTCAGTAGAATCAGT-GGTTATAGCTCGA
1 TTGAGCATACTTTTAGTAGAATCAGTAGG-TAT-GCTCGA
*
115764561 TTGAGCATACTTTTAGTAGAATCGGTAGGTATGCCTCGA
1 TTGAGCATACTTTTAGTAGAATCAGTAGGTATG-CTCGA
* *
115764600 TTGAGCATACTTTTAGTAGAATTAGTAGGTATGGCTCGT
1 TTGAGCATACTTTTAGTAGAATCAGTAGGTAT-GCTCGA
* *
115764639 TTGAGCATACTTTTAGTAGAATCAGTGGGTATGGCTTGA
1 TTGAGCATACTTTTAGTAGAATCAGTAGGTAT-GCTCGA
* * *
115764678 TTGAGCATACTTTGAATAGAATCAGTAGGTATAGCTTGA
1 TTGAGCATACTTTTAGTAGAATCAGTAGGTAT-GCTCGA
115764717 TTGAGCATACT
1 TTGAGCATACT
115764728 ATCATACATT
Statistics
Matches: 150, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 8 0.05
39 139 0.93
40 3 0.02
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.35
Consensus pattern (38 bp):
TTGAGCATACTTTTAGTAGAATCAGTAGGTATGCTCGA
Found at i:115764659 original size:78 final size:78
Alignment explanation
Indices: 115764523--115764727 Score: 288
Period size: 78 Copynumber: 2.6 Consensus size: 78
115764513 TAATGCTTGT
*
115764523 TTGAGCA-ACTTTCAGTAGAATCAGT-GGTTATAGCTCGATTGAGCATACTTTTAGTAGAATCGG
1 TTGAGCATACTTTCAGTAGAATCAGTAGG-TATAGCTCGATTGAGCATACTTTTAGTAGAATCAG
115764586 TAGGTATGCCTCGA
65 TAGGTATGCCTCGA
* * * *
115764600 TTGAGCATACTTTTAGTAGAATTAGTAGGTATGGCTCGTTTGAGCATACTTTTAGTAGAATCAGT
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATAGCTCGATTGAGCATACTTTTAGTAGAATCAGT
* * *
115764665 GGGTATGGCTTGA
66 AGGTATGCCTCGA
* * *
115764678 TTGAGCATACTTTGAATAGAATCAGTAGGTATAGCTTGATTGAGCATACT
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATAGCTCGATTGAGCATACT
115764728 ATCATACATT
Statistics
Matches: 112, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
77 7 0.06
78 103 0.92
79 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.35
Consensus pattern (78 bp):
TTGAGCATACTTTCAGTAGAATCAGTAGGTATAGCTCGATTGAGCATACTTTTAGTAGAATCAGT
AGGTATGCCTCGA
Found at i:115767858 original size:43 final size:43
Alignment explanation
Indices: 115767774--115767860 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
115767764 ATAAAGAGGT
* * * *
115767774 CCCTTCAAAATAACTTCACCAAGCCTATGCTTGTATGTCCTAA
1 CCCTTCAAAATAACTTCACCAAGACTATGCCTGCATATCCTAA
*
115767817 CCCTTCAAAATAACTTCACCAAGACTATGCCTGCGTATCCTAA
1 CCCTTCAAAATAACTTCACCAAGACTATGCCTGCATATCCTAA
115767860 C
1 C
115767861 TTGTAACGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.31, C:0.32, G:0.09, T:0.28
Consensus pattern (43 bp):
CCCTTCAAAATAACTTCACCAAGACTATGCCTGCATATCCTAA
Found at i:115771777 original size:15 final size:15
Alignment explanation
Indices: 115771753--115771783 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
115771743 TTAAAAAAGA
*
115771753 AACATGTTATAATAT
1 AACATATTATAATAT
115771768 AACATATTATAATAT
1 AACATATTATAATAT
115771783 A
1 A
115771784 GTTAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (15 bp):
AACATATTATAATAT
Found at i:115774153 original size:18 final size:19
Alignment explanation
Indices: 115774113--115774156 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
115774103 TGCATGGCAA
* * *
115774113 TATAAATTCGTTAGATATT
1 TATAAATTCATTAAATATG
115774132 TATAAATT-ATTAAATATG
1 TATAAATTCATTAAATATG
115774150 TATAAAT
1 TATAAAT
115774157 AAGTTGAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (19 bp):
TATAAATTCATTAAATATG
Found at i:115775609 original size:10 final size:10
Alignment explanation
Indices: 115775594--115775642 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
115775584 TATTTTAGCT
115775594 TTTATCTTTA
1 TTTATCTTTA
115775604 TTTATCTTTA
1 TTTATCTTTA
*
115775614 ATTATCTTTA
1 TTTATCTTTA
115775624 TTTAT-TTGTA
1 TTTATCTT-TA
115775634 TTTATCTTT
1 TTTATCTTT
115775643 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:115777179 original size:43 final size:43
Alignment explanation
Indices: 115777100--115777248 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 43
115777090 CAATGTCATA
* * * * *
115777100 TCCTAGATATGGTCCTACATGT-TATCACATATCGATGCCAATG
1 TCCTAGACATGGTCTTACACGTAAATCA-ATAACGATGCCAATG
* * *
115777143 TCCCAAACATGGTCTTACACG-AAATCATATAACGATGTCAATG
1 TCCTAGACATGGTCTTACACGTAAATCA-ATAACGATGCCAATG
* * * *
115777186 TCCTAGACATGGTTTTACACGTAATTGCAAT-ATGATGCCGATG
1 TCCTAGACATGGTCTTACACGTAAAT-CAATAACGATGCCAATG
115777229 TCCTAGACATGGTCTTACAC
1 TCCTAGACATGGTCTTACAC
115777249 ATAATCACGT
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
43 79 0.92
44 5 0.06
45 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (43 bp):
TCCTAGACATGGTCTTACACGTAAATCAATAACGATGCCAATG
Found at i:115778849 original size:2 final size:2
Alignment explanation
Indices: 115778842--115778882 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
115778832 CATAATTTTC
115778842 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
115778883 GTTTTGCCTT
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:115780415 original size:41 final size:41
Alignment explanation
Indices: 115780358--115780439 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
115780348 CAGACCCAGT
*
115780358 TGTATTTTTTCCAGAAAATCTACCTTAAAAGAGGAGTTGAA
1 TGTATTTTTACCAGAAAATCTACCTTAAAAGAGGAGTTGAA
*
115780399 TGTATTTTTACTAGAAAATCTACCTTAAAAGAGGAGTTGAA
1 TGTATTTTTACCAGAAAATCTACCTTAAAAGAGGAGTTGAA
115780440 AAAGCATGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (41 bp):
TGTATTTTTACCAGAAAATCTACCTTAAAAGAGGAGTTGAA
Found at i:115785147 original size:27 final size:27
Alignment explanation
Indices: 115785050--115785154 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
115785040 AGGAAGCGAC
* *
115785050 CTGGTGGCTATGCCATAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
115785077 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
115785104 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
115785131 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
115785155 GCAGCCTCGC
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
26 9 0.13
27 60 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:115792980 original size:27 final size:27
Alignment explanation
Indices: 115792938--115792997 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
115792928 AGGAAGCGAC
*
115792938 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTATACCACAA-TATCTGTAT
*
115792965 CTGGTGGCTCTACCACAATATCTGTAT
1 CTGGTGGCTATACCACAATATCTGTAT
115792992 CTGGTG
1 CTGGTG
115792998 ACTTCGTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTATACCACAATATCTGTAT
Found at i:115795549 original size:57 final size:57
Alignment explanation
Indices: 115795419--115795566 Score: 181
Period size: 57 Copynumber: 2.6 Consensus size: 57
115795409 ATTGACCTCA
* *
115795419 TTATAGAAAGGATTTAGCCTGGACGGGTAATCCTGATATAAGCCCTCTCGAGCATATG
1 TTATA-AAAGGATTTAGCCTGGACGGGTAATCCAGATATAAGCCCTCTAGAGCATATG
* * ** * *
115795477 TTATAAATTGAATTTAGCCCAGACGGGTAATCCAGAT-TAAGCTCTTTAGAGCATATG
1 TTATAAA-AGGATTTAGCCTGGACGGGTAATCCAGATATAAGCCCTCTAGAGCATATG
*
115795534 TTACTAAAAGGATTTAGCCTGGACTGGTAATCC
1 TTA-TAAAAGGATTTAGCCTGGACGGGTAATCC
115795567 TGTTATATGA
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
57 42 0.56
58 33 0.44
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (57 bp):
TTATAAAAGGATTTAGCCTGGACGGGTAATCCAGATATAAGCCCTCTAGAGCATATG
Found at i:115797774 original size:184 final size:184
Alignment explanation
Indices: 115797462--115797826 Score: 486
Period size: 184 Copynumber: 2.0 Consensus size: 184
115797452 GAATGTGAAA
* *
115797462 ATGATTGTGTATTTATGATTTGGTATATTTATGTTAATCCGTAGCTAACATCGACCTGGATTCCT
1 ATGATTGTGTATTTATGATTTGGTATATTTATGTTAATCCATAGCTAACATCGACATGGATTCCT
* * * * * * *
115797527 CCAAATGGAAAGAAAGAGATATAATTATCGACAAATAGCTCTGAGTTTATGGTTTGTATTTCTAT
66 CAAAATGGAAAGAAAGAGATATAATCATCAACAAATAGCTCGGAGTTTACGATTTGCATTTCTAT
*
115797592 AACCTT-AACATTTTCATTTGTTGCATTAAGAACTGC-ATTGCATGGTAATAACAT
131 AA-CTTGAACATTTTCATTTGCTGCATTAAGAACTGCGATTG-ATGGTAATAACAT
* * * * *
115797646 ATGATTGTGTTTTTATGATTTTGTATATTTATGTTAATCTATAGCTAATATCGATATGGATTCCT
1 ATGATTGTGTATTTATGATTTGGTATATTTATGTTAATCCATAGCTAACATCGACATGGATTCCT
115797711 CAAAATGGAAAGGAAA-AGATA-AAGTCATCAACAAATAGCTCGGAGTTTACGATTTGCATTTCT
66 CAAAATGGAAA-GAAAGAGATATAA-TCATCAACAAATAGCTCGGAGTTTACGATTTGCATTTCT
* * * * *
115797774 ATAACTTGAACCTTTTCATTTGCTGTATTACGAATTGCGTTTGATGGTAATAA
129 ATAACTTGAACATTTTCATTTGCTGCATTAAGAACTGCGATTGATGGTAATAA
115797827 ATAAGGTAAG
Statistics
Matches: 157, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
183 5 0.03
184 145 0.92
185 7 0.04
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.39
Consensus pattern (184 bp):
ATGATTGTGTATTTATGATTTGGTATATTTATGTTAATCCATAGCTAACATCGACATGGATTCCT
CAAAATGGAAAGAAAGAGATATAATCATCAACAAATAGCTCGGAGTTTACGATTTGCATTTCTAT
AACTTGAACATTTTCATTTGCTGCATTAAGAACTGCGATTGATGGTAATAACAT
Found at i:115804577 original size:20 final size:20
Alignment explanation
Indices: 115804540--115804577 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
115804530 GACTAAACCG
*
115804540 AAAACTTTAGAAATTTTTAC
1 AAAACTTTAGAAACTTTTAC
115804560 AAAAC-TTAGAAAACTTTT
1 AAAACTTTAG-AAACTTTT
115804578 GCCATAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAACTTTAGAAACTTTTAC
Found at i:115819062 original size:29 final size:27
Alignment explanation
Indices: 115818987--115819068 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
115818977 GCGAGGCTGC
** *
115818987 CAGATATTGTGATGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
115819014 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGCCACCAGATA
115819040 CAGATATATATGTGGCGAAGCCACCAGAT
1 CAG--ATAT-TGTGGCGAAGCCACCAGAT
115819069 TGCAGTGAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.09
27 20 0.45
28 4 0.09
29 16 0.36
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGCCACCAGATA
Found at i:115819093 original size:69 final size:67
Alignment explanation
Indices: 115819014--115819153 Score: 163
Period size: 67 Copynumber: 2.1 Consensus size: 67
115819004 TCACCAGATA
* * * * **
115819014 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATGTGGCGAAGCCACCAGATTGCAGTGAGG
1 CAGATATTGTGACGAAGCCACCAGAACA-A-ATATATATGGCGAAGCCACCAGATTGCAACGAGG
115819079 CTGC
64 CTGC
* * * * *
115819083 CAGATTTTGTGACGAAGTCACCAGAGCAAATATATATGGCGAGGCCACTAGATTGCAACGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAAATATATATGGCGAAGCCACCAGATTGCAACGAGGCT
115819148 GC
66 GC
115819150 CAGA
1 CAGA
115819154 ACGTTTCCTC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
67 37 0.62
68 1 0.02
69 22 0.37
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAAATATATATGGCGAAGCCACCAGATTGCAACGAGGCT
GC
Found at i:115821656 original size:27 final size:27
Alignment explanation
Indices: 115821626--115822074 Score: 540
Period size: 27 Copynumber: 16.6 Consensus size: 27
115821616 TTAGTTTACC
115821626 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
115821653 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
115821680 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
115821707 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
115821734 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** **
115821761 AAATTACCAAAATACCCTTATTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
115821788 AAACTACAAAAAAACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
115821815 AAATCACAAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
115821842 AAACCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
115821869 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
115821896 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
115821923 AAATTACTAAAATTA-CCTTGGTTTATA
1 AAATTACCAAAA-TACCCCTGGTTTGTA
*
115821950 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
115821977 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
115822004 AAATTATCAAAATACCACTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
115822031 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
115822058 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
115822075 TCGACCTGTA
Statistics
Matches: 357, Mismatches: 63, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 2 0.01
27 353 0.99
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:115822073 original size:54 final size:54
Alignment explanation
Indices: 115821626--115822047 Score: 621
Period size: 54 Copynumber: 7.8 Consensus size: 54
115821616 TTAGTTTACC
* *
115821626 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
115821680 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * ** *
115821734 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTATTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * *
115821788 AAACTACAAAAAAACCCCTAGTTTGTAAAATCACAAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
** * *
115821842 AAACCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
115821896 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATTA-CCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA-TACCCTTGGTTTATA
* *
115821950 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
115822004 AAATTATCAAAATACCACTAGTTTGTAAAATTACCAAAATACCC
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
115822048 CTAATTTGTG
Statistics
Matches: 330, Mismatches: 36, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
53 2 0.01
54 326 0.99
55 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:115822129 original size:27 final size:28
Alignment explanation
Indices: 115821626--115822129 Score: 497
Period size: 27 Copynumber: 18.6 Consensus size: 28
115821616 TTAGTTTACC
115821626 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTCTGGTTTGTA
**
115821653 AAATTACCAAAATACCCT-TGGTTTACA
1 AAATTACCAAAATACCCTCTGGTTTGTA
*
115821680 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCTGGTTTGTA
* *
115821707 AAATTACTAAAATACCCT-TGGTTTATA
1 AAATTACCAAAATACCCTCTGGTTTGTA
*
115821734 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTCTGGTTTGTA
** **
115821761 AAATTACCAAAATACCCT-TATTTTACA
1 AAATTACCAAAATACCCTCTGGTTTGTA
* * * *
115821788 AAACTACAAAAAAACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCTGGTTTGTA
* * *
115821815 AAATCACAAAAATACCCT-TGGTTTATA
1 AAATTACCAAAATACCCTCTGGTTTGTA
**
115821842 AAACCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTCTGGTTTGTA
**
115821869 AAATTACCAAAATACCCT-TGGTTTACA
1 AAATTACCAAAATACCCTCTGGTTTGTA
115821896 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTCTGGTTTGTA
* *
115821923 AAATTACTAAAATTA-CCT-TGGTTTATA
1 AAATTACCAAAA-TACCCTCTGGTTTGTA
*
115821950 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCTGGTTTGTA
115821977 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTCTGGTTTGTA
* * *
115822004 AAATTATCAAAATA-CCACTAGTTTGTA
1 AAATTACCAAAATACCCTCTGGTTTGTA
** *
115822031 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTCTGGTTTGTA
** ***
115822058 AAATTACTGAAATACCCTC-GACCTGTA
1 AAATTACCAAAATACCCTCTGGTTTGTA
*** * *
115822085 AAATTATTGAAATGCCCTC-GGCTTGTA
1 AAATTACCAAAATACCCTCTGGTTTGTA
*
115822112 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
115822130 TGATTTACAG
Statistics
Matches: 398, Mismatches: 62, Indels: 34
0.81 0.13 0.07
Matches are distributed among these distances:
26 4 0.01
27 389 0.98
28 5 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (28 bp):
AAATTACCAAAATACCCTCTGGTTTGTA
Found at i:115822181 original size:27 final size:26
Alignment explanation
Indices: 115822058--115822183 Score: 63
Period size: 27 Copynumber: 4.7 Consensus size: 26
115822048 CTAATTTGTG
* **
115822058 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTAC-GAAATACCCTCGACTTACA
* * * **
115822085 AAATTATTGAAATGCCCTCGGCTTGTA
1 AAATTA-CGAAATACCCTCGACTTACA
* * *
115822112 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACGAAA-TACCCTCGACTTACA
* *** *
115822139 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTA-CGAAATACCCTCGACTTACA
115822166 AAATTATCGAAATACCCT
1 AAATTA-CGAAATACCCT
115822184 TGTAGGGTAA
Statistics
Matches: 73, Mismatches: 23, Indels: 6
0.72 0.23 0.06
Matches are distributed among these distances:
26 3 0.04
27 69 0.95
28 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATTACGAAATACCCTCGACTTACA
Found at i:115822497 original size:27 final size:26
Alignment explanation
Indices: 115822173--115822493 Score: 349
Period size: 27 Copynumber: 11.9 Consensus size: 26
115822163 ACAAAATTAT
*
115822173 CGAAATACCCTTGTAGGGTAAAAATGC
1 CGAAATACCCTTGTAGGGT-AAAATAC
115822200 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTA-AAATAC
*
115822227 CGAAATACCCTTGTAGGGTAGAAATGC
1 CGAAATACCCTTGTAGGGTA-AAATAC
*
115822254 CGAAATACCCTTGTAAGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTA-AAATAC
115822281 CGAAATACACC-TGTAGGGTAGAAATAC
1 CGAAATAC-CCTTGTAGGGTA-AAATAC
* * *
115822308 TGAAATACCCCTGTAGGGTAGAAATAT
1 CGAAATACCCTTGTAGGGTA-AAATAC
*
115822335 CGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTA-AAATAC
** * *
115822362 TAAAATACCCTTGTAGGGTAGAATTAT
1 CGAAATACCCTTGTAGGGTA-AAATAC
115822389 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTA-AAATAC
* *
115822416 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTA-AAATAC
* * *
115822443 TGAAATACTCC-TGTAAGGTAGAATTAC
1 CGAAATAC-CCTTGTAGGGTA-AAATAC
* *
115822470 CGAGATACCCTTGTGGGGTAAAAT
1 CGAAATACCCTTGTAGGGTAAAAT
115822494 TACCACTTTA
Statistics
Matches: 262, Mismatches: 27, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
26 8 0.03
27 250 0.95
28 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (26 bp):
CGAAATACCCTTGTAGGGTAAAATAC
Found at i:115822508 original size:81 final size:81
Alignment explanation
Indices: 115822173--115822493 Score: 432
Period size: 81 Copynumber: 4.0 Consensus size: 81
115822163 ACAAAATTAT
* *
115822173 CGAAATACCCTTGTAGGGTAAAAATGCCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCT
1 CGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCT
*
115822238 TGTAGGGTAGAAATGC
66 TGTAGGGTAGAAATAC
* *
115822254 CGAAATACCCTTGTAAGGTAGAAATACCGAAATACACC-TGTAGGGTAGAAATACTGAAATACCC
1 CGAAATACCCTTGTAGGGTAGAAATACCGAAATAC-CCTTGTAGGGTAGAAATACCGAAATACCC
* *
115822318 CTGTAGGGTAGAAATAT
65 TTGTAGGGTAGAAATAC
* ** * *
115822335 CGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCTTGTAGGGTAGAATTATCGAAATACCCT
1 CGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCT
115822400 TGTAGGGTAGAAATAC
66 TGTAGGGTAGAAATAC
* * * * * *
115822416 CGAAATACCCCTGTAGGGTAGAATTACTGAAATACTCC-TGTAAGGTAGAATTACCGAGATACCC
1 CGAAATACCCTTGTAGGGTAGAAATACCGAAATAC-CCTTGTAGGGTAGAAATACCGAAATACCC
*
115822480 TTGTGGGGTA-AAAT
65 TTGTAGGGTAGAAAT
115822494 TACCACTTTA
Statistics
Matches: 215, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
80 6 0.03
81 205 0.95
82 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (81 bp):
CGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCT
TGTAGGGTAGAAATAC
Found at i:115822921 original size:6 final size:6
Alignment explanation
Indices: 115822912--115823110 Score: 140
Period size: 6 Copynumber: 32.3 Consensus size: 6
115822902 TTGCATTCAC
*
115822912 ATTCTG ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * * * *
115822961 -TTACCTA ATTCTG ATTCTG GTTCTT ATTCTG ATTCTG -TTACCTA ATACTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* *
115823011 ATTCTG ATTCT- ATTACCTA ATTCTG ATTCTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
115823060 -TCACCTA ATTTTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
115823109 AT
1 AT
115823111 AATGTTTCTT
Statistics
Matches: 151, Mismatches: 25, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
5 11 0.07
6 120 0.79
7 12 0.08
8 8 0.05
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:115822943 original size:25 final size:25
Alignment explanation
Indices: 115822915--115823084 Score: 122
Period size: 25 Copynumber: 6.8 Consensus size: 25
115822905 CATTCACATT
115822915 CTGATTCTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTTAC
*
115822940 CTGATACTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTTAC
* * *
115822965 CTAATTCTGATTCTGGTTC--TTATT
1 CTGATTCTGATTCTGATTCTGTTA-C
* *
115822989 CTGATTCTG-TTACCTAATACTGATT--
1 CTGATTCTGATT--CTGATTCTG-TTAC
*
115823014 CTGATTCT-ATTACCTAATTCTGATT--
1 CTGATTCTGATT--CTGATTCTG-TTAC
* *
115823039 CTGATTCTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGTTAC
* *
115823064 CTAATTTTGATTCTGATTCTG
1 CTGATTCTGATTCTGATTCTG
115823085 ATTCTCATTT
Statistics
Matches: 119, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
23 6 0.05
24 15 0.13
25 93 0.78
26 3 0.03
28 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTTAC
Found at i:115822949 original size:19 final size:19
Alignment explanation
Indices: 115822949--115823078 Score: 106
Period size: 19 Copynumber: 6.6 Consensus size: 19
115822939 CCTGATACTG
115822949 ATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGTTACCTA
*
115822968 ATTCTGATTCTGGTT--CTT
1 ATTCTGATTCT-GTTACCTA
115822986 ATTCTGATTCTGTTACCTAATA
1 ATTCTGATTCTGTTACC---TA
*
115823008 CTGATTCTGATTCTATTACCTA
1 ---ATTCTGATTCTGTTACCTA
*
115823030 ATTCTGATTCTGATT--CTG
1 ATTCTGATTCTG-TTACCTA
* *
115823048 ATTTTGATTCTGTCACCTA
1 ATTCTGATTCTGTTACCTA
*
115823067 ATTTTGATTCTG
1 ATTCTGATTCTG
115823079 ATTCTGATTC
Statistics
Matches: 91, Mismatches: 8, Indels: 24
0.74 0.07 0.20
Matches are distributed among these distances:
17 4 0.04
18 26 0.29
19 37 0.41
20 5 0.05
22 3 0.03
25 16 0.18
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.49
Consensus pattern (19 bp):
ATTCTGATTCTGTTACCTA
Found at i:115822990 original size:37 final size:37
Alignment explanation
Indices: 115822940--115823021 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
115822930 ATTCTGTTAC
* * *
115822940 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTTATTCTGATTCTGTTACCTAATACTGATT
*
115822977 CTGGTTCTTATTCTGATTCTGTTACCTAATACTGATT
1 CTGATTCTTATTCTGATTCTGTTACCTAATACTGATT
115823014 CTGATTCT
1 CTGATTCT
115823022 ATTACCTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.48
Consensus pattern (37 bp):
CTGATTCTTATTCTGATTCTGTTACCTAATACTGATT
Found at i:115823009 original size:62 final size:62
Alignment explanation
Indices: 115822912--115823084 Score: 274
Period size: 62 Copynumber: 2.8 Consensus size: 62
115822902 TTGCATTCAC
*
115822912 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTTACCTAATACTGATTCTGATTCTGTTACCTAATTCTG
* * *
115822974 ATTCTGGTTCTTATTCTGATTCTGTTACCTAATACTGATTCTGATTCTATTACCTAATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTTACCTAATACTGATTCTGATTCTGTTACCTAATTCTG
* * **
115823036 ATTCTGATTCTGATTTTGATTCTGTCACCTAATTTTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTTACCTAATACTGATTCTGATTCTG
115823085 ATTCTCATTT
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 100 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGATTCTGTTACCTAATACTGATTCTGATTCTGTTACCTAATTCTG
Found at i:115823049 original size:37 final size:37
Alignment explanation
Indices: 115823008--115823089 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
115822998 TTACCTAATA
*
115823008 CTGATTCTGATTCTATTACCTAATTCTGATTCTGATT
1 CTGATTCTGATTCTATCACCTAATTCTGATTCTGATT
* * *
115823045 CTGATTTTGATTCTGTCACCTAATTTTGATTCTGATT
1 CTGATTCTGATTCTATCACCTAATTCTGATTCTGATT
115823082 CTGATTCT
1 CTGATTCT
115823090 CATTTTGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (37 bp):
CTGATTCTGATTCTATCACCTAATTCTGATTCTGATT
Found at i:115829496 original size:2 final size:2
Alignment explanation
Indices: 115829489--115829528 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
115829479 ACAGATACAG
115829489 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115829529 GTGGCGAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115829609 original size:27 final size:26
Alignment explanation
Indices: 115829561--115829612 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
115829551 GCGAGGCTGC
*
115829561 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
115829587 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
115829613 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:115847786 original size:23 final size:23
Alignment explanation
Indices: 115847755--115847801 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
115847745 TTCAACTGCT
* *
115847755 CCCCCTCTCCTTCATAGATAATG
1 CCCCATCTCCTTAATAGATAATG
115847778 CCCCATCTCCTTAATAGATAATG
1 CCCCATCTCCTTAATAGATAATG
115847801 C
1 C
115847802 TTTCTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.09, T:0.30
Consensus pattern (23 bp):
CCCCATCTCCTTAATAGATAATG
Found at i:115851032 original size:52 final size:53
Alignment explanation
Indices: 115850875--115851077 Score: 158
Period size: 54 Copynumber: 3.8 Consensus size: 53
115850865 AGGGTTTAAG
* * * * * * *
115850875 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGGAAATGGTAAG-TTCATAAGGCAAA
* * * * * * * * * *
115850929 GAAATCATGTAAGACCATGTCAAGACATAGCATTGATAAACTACGATAAGGCAAA
1 GATACCACGTAAGACCATGCCAAGACATGGAAATGGT-AAGTTC-ATAAGGCAAA
* * * *
115850984 GAT-CCTACGTAA-ACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACC-ACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCATAAGGCAAA
*
115851036 GATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 GATACCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTT
115851078 TAAAAAGGAA
Statistics
Matches: 116, Mismatches: 28, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
52 18 0.16
53 30 0.26
54 51 0.44
55 17 0.15
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
GATACCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCATAAGGCAAA
Found at i:115859082 original size:28 final size:28
Alignment explanation
Indices: 115859042--115859128 Score: 165
Period size: 28 Copynumber: 3.1 Consensus size: 28
115859032 GCTTGATAAC
115859042 ATGGTGATTGATAACACGTGTGTGAGGT
1 ATGGTGATTGATAACACGTGTGTGAGGT
115859070 ATGGTGATTGATAACACGTGTGTGAGGT
1 ATGGTGATTGATAACACGTGTGTGAGGT
*
115859098 ACGGTGATTGATAACACGTGTGTGAGGT
1 ATGGTGATTGATAACACGTGTGTGAGGT
115859126 ATG
1 ATG
115859129 AAATTTGTAC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.25, C:0.08, G:0.36, T:0.31
Consensus pattern (28 bp):
ATGGTGATTGATAACACGTGTGTGAGGT
Found at i:115864646 original size:30 final size:30
Alignment explanation
Indices: 115864603--115864660 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
115864593 TTTAACAAGC
*
115864603 AAATGCCTCTAAAATAATAATAAAATTAGA
1 AAATGCCTCTAAAATAATAAAAAAATTAGA
* *
115864633 AAATGTCTTTAAAATAATAAAAAAATTA
1 AAATGCCTCTAAAATAATAAAAAAATTA
115864661 ACAATAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAAAAAAATTAGA
Found at i:115875143 original size:14 final size:13
Alignment explanation
Indices: 115875115--115875153 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
115875105 TAAATTGGTT
*
115875115 AAGATAATAAAAA
1 AAGAAAATAAAAA
115875128 AAGAAAATATAAAA
1 AAGAAAATA-AAAA
*
115875142 AATAAAATAAAA
1 AAGAAAATAAAA
115875154 CAGAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (13 bp):
AAGAAAATAAAAA
Found at i:115875288 original size:13 final size:13
Alignment explanation
Indices: 115875270--115875324 Score: 80
Period size: 13 Copynumber: 4.5 Consensus size: 13
115875260 AGATTTTTCT
115875270 TAAATATTATCAC
1 TAAATATTATCAC
*
115875283 TAAATA--ATC-T
1 TAAATATTATCAC
115875293 TAAATATTATCAC
1 TAAATATTATCAC
115875306 TAAATATTATCAC
1 TAAATATTATCAC
115875319 TAAATA
1 TAAATA
115875325 ATTTAAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
10 6 0.16
11 3 0.08
12 3 0.08
13 25 0.68
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATATTATCAC
Done.