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 126 of 438
Found at i:37329852 original size:40 final size:39
Alignment explanation
Indices: 37329816--37329922 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
37329806 ATATCCGGAC
*
37329816 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
37329856 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
37329895 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
37329923 CTATAACCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:37329923 original size:40 final size:40
Alignment explanation
Indices: 37329822--37329951 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
37329812 GGACTAAGAT
* * *
37329822 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
37329861 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
37329901 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
37329941 CCGAAGGCATT
1 CCGAAGGCATT
37329952 TGAGCTAGTC
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 34 0.41
40 39 0.48
41 9 0.11
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:37329984 original size:79 final size:79
Alignment explanation
Indices: 37329821--37329986 Score: 176
Period size: 79 Copynumber: 2.1 Consensus size: 79
37329811 CGGACTAAGA
* * *
37329821 TCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
*
37329886 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * * * *
37329900 CCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAGGCATTTGAGCTAGTCG
1 TCCGAAGGCATTCGTGCGAGTTAATA-AATCC-GGGTTAAG-CCCGAAGGCATTTGAGCGAGTCA
* * *
37329963 TTATATCC-GGTTAAAT
63 CTAAACCCGGGTTAAAT
37329979 TCCGAAGG
1 TCCGAAGG
37329987 TACGTGATTC
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
79 40 0.56
80 31 0.44
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
AACCCGGGTTAAAT
Found at i:37333769 original size:40 final size:40
Alignment explanation
Indices: 37333642--37333771 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
37333632 ATGCTGGAAA
* *
37333642 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
37333682 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
37333722 TTTTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
37333762 TTATATCCGG
1 TTATATCCGG
37333772 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:37335441 original size:154 final size:152
Alignment explanation
Indices: 37335150--37335528 Score: 447
Period size: 154 Copynumber: 2.5 Consensus size: 152
37335140 GGTGTTACAC
* * * * * * * *
37335150 CTATTGCTCACCAAAAG-ACGACGTCGTTTTGCTCAAAACTTTTGCGGCGTTTTTCAATAGCCGT
1 CTATAGCTCACC-AATGCACGACGTTGTTTTCCTCAAAACTTTTGCGGCATTTTT-AAAAACCGC
* * * *
37335214 CGCTATTTGCTTCACCTTTTGCGGCGTTTCAGGAAAACGCCGCTAATTCTCGATATATTGCGGCG
64 CGCTA-ATGCTTCACCTATTGCGGCATTTCAGAAAAACGCCGCTAATTCTCGATATATTGCGGCG
37335279 TTTACAGGAAGCGCCACTAAAGCCT
128 TTTACAGGAAGCGCCACTAAAGCCT
* *
37335304 CTATAGCTCACCAATGCACGACGTTGTATTT-CTCAAAACTTTTGTGGCATTTTTAAACAACTGC
1 CTATAGCTCACCAATGCACGACGTTGT-TTTCCTCAAAACTTTTGCGGCATTTTTAAA-AACCGC
* * * *
37335368 CGCTAATGCTTCACCTATTGTGGCATTTTAGAAAAAACGCCGCTAATTTTCGATATATTGCGGTG
64 CGCTAATGCTTCACCTATTGCGGCATTTCAG-AAAAACGCCGCTAATTCTCGATATATTGCGGCG
* * * *
37335433 TTTTCAGGAAGCGCCGCTAATGCTT
128 TTTACAGGAAGCGCCACTAAAGCCT
* * * *
37335458 CTATAGCTTACCAATACACGGCGTTGTTTTCCTCAACACTTTTGCGGCATTTTTACAAAACCGCC
1 CTATAGCTCACCAATGCACGACGTTGTTTTCCTCAAAACTTTTGCGGCATTTTTA-AAAACCGCC
37335523 GCTAAT
65 GCTAAT
37335529 AGCCCCTTTA
Statistics
Matches: 192, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
153 29 0.15
154 158 0.82
155 5 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (152 bp):
CTATAGCTCACCAATGCACGACGTTGTTTTCCTCAAAACTTTTGCGGCATTTTTAAAAACCGCCG
CTAATGCTTCACCTATTGCGGCATTTCAGAAAAACGCCGCTAATTCTCGATATATTGCGGCGTTT
ACAGGAAGCGCCACTAAAGCCT
Found at i:37335984 original size:17 final size:18
Alignment explanation
Indices: 37335962--37335995 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37335952 TGCCTATTAT
37335962 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
37335979 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
37335996 TTTGGCTCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:37357149 original size:17 final size:18
Alignment explanation
Indices: 37357113--37357149 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
37357103 AATCTCTCAA
37357113 ATTTTAGTTCTTTATATT
1 ATTTTAGTTCTTTATATT
37357131 ATTTTA-TT-TTTACTATT
1 ATTTTAGTTCTTTA-TATT
37357148 AT
1 AT
37357150 AAAAACCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.22
17 8 0.44
18 6 0.33
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTAGTTCTTTATATT
Found at i:37363473 original size:31 final size:32
Alignment explanation
Indices: 37363432--37363496 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
37363422 ATAAAATATT
* *
37363432 TTAAATATC-TTAATATAATTTTATATAAAAA
1 TTAAAAATCTTTAATATAATTTAATATAAAAA
37363463 TTAAAAATCTTTTAATATAATTTAATATAAAAA
1 TTAAAAATC-TTTAATATAATTTAATATAAAAA
37363496 T
1 T
37363497 AATTATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 8 0.27
33 22 0.73
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (32 bp):
TTAAAAATCTTTAATATAATTTAATATAAAAA
Found at i:37363591 original size:26 final size:27
Alignment explanation
Indices: 37363519--37363591 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 27
37363509 AATGTTATTA
* *
37363519 AATTATATATTATTTTTTATTAAAGTAT
1 AATTA-ATATTATTTATTATTAAAATAT
* * **
37363547 ATTTAATAATAACTA-TATTAAAATAT
1 AATTAATATTATTTATTATTAAAATAT
37363573 AATTAA-ATTATTTATTATT
1 AATTAATATTATTTATTATT
37363592 TATTATTTTT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
25 5 0.15
26 19 0.56
27 6 0.18
28 4 0.12
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (27 bp):
AATTAATATTATTTATTATTAAAATAT
Found at i:37363610 original size:14 final size:14
Alignment explanation
Indices: 37363574--37363616 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
37363564 TTAAAATATA
37363574 ATTAAATTATTTATT
1 ATTAAATTATTT-TT
*
37363589 ATT-TATTATTTTT
1 ATTAAATTATTTTT
*
37363602 ATTAAATTATATTT
1 ATTAAATTATTTTT
37363616 A
1 A
37363617 ATAGTAATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 5 0.21
14 16 0.67
15 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTAAATTATTTTT
Found at i:37363794 original size:32 final size:32
Alignment explanation
Indices: 37363753--37363817 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
37363743 CATTCCATTC
37363753 AACCAAACAATTAAATTACTGATTACAGCTCT
1 AACCAAACAATTAAATTACTGATTACAGCTCT
37363785 AACCAAACAATTAAATTACTGATTACAGCTCT
1 AACCAAACAATTAAATTACTGATTACAGCTCT
37363817 A
1 A
37363818 TTTAATTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.28
Consensus pattern (32 bp):
AACCAAACAATTAAATTACTGATTACAGCTCT
Found at i:37367697 original size:30 final size:30
Alignment explanation
Indices: 37367656--37367713 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37367646 AATTTCACAT
* * *
37367656 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATAACCATTTTACCCCTAGA
*
37367686 CTTTGGCAAAATAACTATTTTACCCCTA
1 CTTTGGCAAAATAACCATTTTACCCCTA
37367714 TGATCGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (30 bp):
CTTTGGCAAAATAACCATTTTACCCCTAGA
Found at i:37367870 original size:25 final size:25
Alignment explanation
Indices: 37367842--37367891 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
37367832 TTATGCAAAA
37367842 TAGTCCTTTTAAGTGTTTTCATGCT
1 TAGTCCTTTTAAGTGTTTTCATGCT
*
37367867 TAGTCCTTTTAGGTGTTTTCATGCT
1 TAGTCCTTTTAAGTGTTTTCATGCT
37367892 AACACCTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.14, C:0.16, G:0.18, T:0.52
Consensus pattern (25 bp):
TAGTCCTTTTAAGTGTTTTCATGCT
Found at i:37367899 original size:25 final size:25
Alignment explanation
Indices: 37367846--37367900 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
37367836 GCAAAATAGT
* **
37367846 CCTTTTAAGTGTTTTCATGCTTAGT
1 CCTTTTAAGTGTTTTCATGCTAACA
*
37367871 CCTTTTAGGTGTTTTCATGCTAACA
1 CCTTTTAAGTGTTTTCATGCTAACA
37367896 CCTTT
1 CCTTT
37367901 CACAAAAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.20, G:0.15, T:0.49
Consensus pattern (25 bp):
CCTTTTAAGTGTTTTCATGCTAACA
Found at i:37369967 original size:23 final size:23
Alignment explanation
Indices: 37369941--37369986 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
37369931 TTTTTAGAAG
* *
37369941 ATTTAATATTTATTAGTATAATA
1 ATTTAACATTTATTAGCATAATA
*
37369964 ATTTAGCATTTATTAGCATAATA
1 ATTTAACATTTATTAGCATAATA
37369987 TTTGGTATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (23 bp):
ATTTAACATTTATTAGCATAATA
Found at i:37370438 original size:16 final size:16
Alignment explanation
Indices: 37370394--37370438 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
37370384 ATCAATTTCA
37370394 CATTTTATTTTAAAAAT
1 CATTTT-TTTTAAAAAT
* * *
37370411 AAATTTTATTAAAAAT
1 CATTTTTTTTAAAAAT
37370427 CATTTTTTTTAA
1 CATTTTTTTTAA
37370439 TTTAATATAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (16 bp):
CATTTTTTTTAAAAAT
Found at i:37378550 original size:56 final size:54
Alignment explanation
Indices: 37378488--37378644 Score: 192
Period size: 56 Copynumber: 2.8 Consensus size: 54
37378478 GACATAGCAC
* * *
37378488 GCCTCTCAACAGGGCTACATATGAGCACCCGAACCTAGCATGCATCAC-ATTACCAT
1 GCCTCTCAACAGGGCTACATA--AGCTCCCGGACCTAGCATGTATCACAATTA-CAT
* *
37378544 GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCGTGTACCACATAATTACAT
1 GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTATCAC--AATTACAT
*
37378600 GCCTCTCAAC-GGAGCTACACAAGCTCCCGGACCTAGCATGTATCA
1 GCCTCTCAACAGG-GCTACATAAGCTCCCGGACCTAGCATGTATCA
37378645 TGTCATCAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
54 20 0.22
55 2 0.02
56 63 0.71
57 4 0.04
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.20
Consensus pattern (54 bp):
GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTATCACAATTACAT
Found at i:37380983 original size:2 final size:2
Alignment explanation
Indices: 37380976--37381012 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
37380966 CTATTAATGC
37380976 AT AT AT AT AT 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 AT AT AT AT AT A
37381013 CGTAGCATGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37382001 original size:10 final size:10
Alignment explanation
Indices: 37381973--37382002 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
37381963 ATACACAAAT
*
37381973 CACACACACA
1 CACACACATA
37381983 CACACACATA
1 CACACACATA
37381993 CACACACATA
1 CACACACATA
37382003 TATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.43, G:0.00, T:0.07
Consensus pattern (10 bp):
CACACACATA
Found at i:37388913 original size:40 final size:40
Alignment explanation
Indices: 37388858--37388968 Score: 159
Period size: 40 Copynumber: 2.8 Consensus size: 40
37388848 TACGCCAAAC
37388858 ATGAGTAAGACCATAACTAAAAGATGTTATGGAATCATAA
1 ATGAGTAAGACCATAACTAAAAGATGTTATGGAATCATAA
* * * *
37388898 ATGAGTAAGACCATAACTGAAATATATTATGGCATCATAA
1 ATGAGTAAGACCATAACTAAAAGATGTTATGGAATCATAA
* * *
37388938 ATGAGTAAGACCTTAGCTAAAAGACGTTATG
1 ATGAGTAAGACCATAACTAAAAGATGTTATG
37388969 ACATCATGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (40 bp):
ATGAGTAAGACCATAACTAAAAGATGTTATGGAATCATAA
Found at i:37390628 original size:25 final size:25
Alignment explanation
Indices: 37390600--37390653 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
37390590 CAACAAAACT
* *
37390600 AAAATCTAACCTATAAA-GAAAAGA
1 AAAATCTAAACTAAAAATGAAAAGA
37390624 GAAAATCTAAACTAAAAATGAAAAGA
1 -AAAATCTAAACTAAAAATGAAAAGA
37390650 AAAA
1 AAAA
37390654 GAAAAGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.67, C:0.09, G:0.09, T:0.15
Consensus pattern (25 bp):
AAAATCTAAACTAAAAATGAAAAGA
Found at i:37394692 original size:40 final size:40
Alignment explanation
Indices: 37394637--37394794 Score: 235
Period size: 40 Copynumber: 4.0 Consensus size: 40
37394627 TATGCCAAAT
* * *
37394637 ATGAGTAAGAACATAGCTGAAAGATTTTATGGCGTCATAA
1 ATGAGTAAGACCATAGCTGAAAGATCTTATGGCATCATAA
*
37394677 ATGAGTAAGGCCATAGCTGAAAGATCTTATGGCATCATAA
1 ATGAGTAAGACCATAGCTGAAAGATCTTATGGCATCATAA
37394717 ATGAGTAAGACCATAGCTGAAAGATCTTATGGCATCATAA
1 ATGAGTAAGACCATAGCTGAAAGATCTTATGGCATCATAA
* * * * *
37394757 ACGGGTAAGACCATAGTTGAAAGATGTTATGGTATCAT
1 ATGAGTAAGACCATAGCTGAAAGATCTTATGGCATCAT
37394795 GATAGAAGTG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 108 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (40 bp):
ATGAGTAAGACCATAGCTGAAAGATCTTATGGCATCATAA
Found at i:37398436 original size:17 final size:17
Alignment explanation
Indices: 37398410--37398442 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37398400 AAAAATTATT
37398410 TTTTCATATTTTATTTC
1 TTTTCATATTTTATTTC
*
37398427 TTTTCGTATTTTATTT
1 TTTTCATATTTTATTT
37398443 TTTCATTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTCATATTTTATTTC
Found at i:37398895 original size:9 final size:10
Alignment explanation
Indices: 37398872--37398901 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
37398862 AAATTACCCT
37398872 TTTTTCCTTC
1 TTTTTCCTTC
*
37398882 TTTTTCTTTC
1 TTTTTCCTTC
37398892 TTTTTCCTTC
1 TTTTTCCTTC
37398902 CCTCCCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTTCCTTC
Found at i:37398987 original size:3 final size:3
Alignment explanation
Indices: 37398970--37399017 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
37398960 TCTGCATCTC
*
37398970 CTT C-T CTT CTT -TT CTT CTT C-T CTT CTTT CTT -TT CTT CTT CTC
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT
37399012 CTT CTT
1 CTT CTT
37399018 TCTTTCCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 8 0.21
3 27 0.71
4 3 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:37399005 original size:12 final size:12
Alignment explanation
Indices: 37398974--37399021 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
37398964 CATCTCCTTC
*
37398974 TCTTCTTTTC-T
1 TCTTCTCTTCTT
37398985 TCTTCTCTTCTT
1 TCTTCTCTTCTT
*
37398997 TCTTTTCTTC-T
1 TCTTCTCTTCTT
37399008 TC-TC-CTTCTT
1 TCTTCTCTTCTT
37399018 TCTT
1 TCTT
37399022 TCCAAAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 4 0.13
10 4 0.13
11 13 0.42
12 10 0.32
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (12 bp):
TCTTCTCTTCTT
Found at i:37399023 original size:20 final size:21
Alignment explanation
Indices: 37398966--37399022 Score: 98
Period size: 21 Copynumber: 2.7 Consensus size: 21
37398956 GTCGTCTGCA
37398966 TCTCCTTCTCTTCTTTTCTTCT
1 TCTCCTTCT-TTCTTTTCTTCT
37398988 TCT-CTTCTTTCTTTTCTTCT
1 TCTCCTTCTTTCTTTTCTTCT
37399008 TCTCCTTCTTTCTTT
1 TCTCCTTCTTTCTTT
37399023 CCAAAATGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 15 0.44
21 16 0.47
22 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
TCTCCTTCTTTCTTTTCTTCT
Found at i:37402424 original size:40 final size:40
Alignment explanation
Indices: 37402322--37402489 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
37402312 AAATTGAATG
* * * * *
37402322 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* ***
37402362 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* *
37402402 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAATT
* * * *
37402442 CTATTCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTAATT
37402482 ATATCCGG
1 ATATCCGG
37402490 TTATATTCCG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 4 0.04
40 99 0.94
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
Found at i:37410510 original size:26 final size:25
Alignment explanation
Indices: 37410466--37410526 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
37410456 TTATTTCATT
* * *
37410466 AAATAAAAAAATTTAAAAAATATAA
1 AAATAAATATATTTAAAAAACATAA
37410491 TAAATCAAATATATTT-AAAAACATAA
1 -AAAT-AAATATATTTAAAAAACATAA
37410517 AAATAAATAT
1 AAATAAATAT
37410527 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 6 0.19
25 4 0.13
26 13 0.42
27 8 0.26
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (25 bp):
AAATAAATATATTTAAAAAACATAA
Found at i:37410538 original size:22 final size:22
Alignment explanation
Indices: 37410497--37410555 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
37410487 ATAATAAATC
* *
37410497 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
37410517 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
37410539 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
37410556 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:37410902 original size:19 final size:18
Alignment explanation
Indices: 37410861--37410935 Score: 53
Period size: 19 Copynumber: 4.0 Consensus size: 18
37410851 TAATTAATTA
* * *
37410861 AAATTTTTAAAAAATCTAA
1 AAATATTTAAAAAATAT-T
*
37410880 AAATATTATAAAAATTATT
1 AAATATT-TAAAAAATATT
* *
37410899 AAATAATTTAAAAAGTATG
1 AAAT-ATTTAAAAAATATT
37410918 AAA-ATTCTAAAAAATATT
1 AAATATT-TAAAAAATATT
37410936 TTTAATATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
17 3 0.07
18 9 0.20
19 22 0.49
20 11 0.24
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (18 bp):
AAATATTTAAAAAATATT
Found at i:37411540 original size:52 final size:52
Alignment explanation
Indices: 37411478--37411581 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
37411468 AGACTAAATC
37411478 AAGCGATGAGAATATGTATATTATTTAAATAAAGTTTTTAGTTCAAGTTTTT
1 AAGCGATGAGAATATGTATATTATTTAAATAAAGTTTTTAGTTCAAGTTTTT
37411530 AAGCGATGAGAATATGTATATTATTTAAATAAAGTTTTTAGTTCAAGTTTTT
1 AAGCGATGAGAATATGTATATTATTTAAATAAAGTTTTTAGTTCAAGTTTTT
37411582 GAGATAAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (52 bp):
AAGCGATGAGAATATGTATATTATTTAAATAAAGTTTTTAGTTCAAGTTTTT
Found at i:37411809 original size:24 final size:25
Alignment explanation
Indices: 37411764--37411826 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
37411754 CGCGCTTAAT
37411764 TTTTAATTAATTTTTAAATAATATCTTA
1 TTTTAATTAA-TTTT--ATAATATCTTA
* *
37411792 TTTTAATTAATTTT-TAATTTGTTA
1 TTTTAATTAATTTTATAATATCTTA
37411816 TTTTAA-TAATT
1 TTTTAATTAATT
37411827 AAATATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 5 0.15
24 14 0.42
27 4 0.12
28 10 0.30
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTAATTAATTTTATAATATCTTA
Found at i:37412259 original size:45 final size:45
Alignment explanation
Indices: 37412176--37412261 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 45
37412166 GTTATAATTA
**
37412176 TAAATTAAATTATATTTTTAAATGAATAGGTACCACAATTTCTAT
1 TAAATTAAATTATATTTTTAAATGAATAAATACCACAATTTCTAT
**
37412221 TAAATTATAATTAT-TTTTTAAAT-ATATAAATATTACAATTT
1 TAAATTA-AATTATATTTTTAAATGA-ATAAATACCACAATTT
37412262 AATTAATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
44 1 0.03
45 28 0.80
46 6 0.17
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (45 bp):
TAAATTAAATTATATTTTTAAATGAATAAATACCACAATTTCTAT
Found at i:37415414 original size:19 final size:21
Alignment explanation
Indices: 37415380--37415419 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
37415370 AGTTGTAAGT
37415380 ATATATATGTGAATTAATTTG
1 ATATATATGTGAATTAATTTG
*
37415401 ATAT-TATGTG-ATTATTTTG
1 ATATATATGTGAATTAATTTG
37415420 GTGATATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (21 bp):
ATATATATGTGAATTAATTTG
Found at i:37415857 original size:50 final size:50
Alignment explanation
Indices: 37415782--37416017 Score: 285
Period size: 50 Copynumber: 4.7 Consensus size: 50
37415772 GTGAGTTACG
* * *
37415782 TGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCACA
* * * * * *
37415832 TGTGTAGTACTAAGTGCTGGCTACTATGCGTACCAG-TTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAGGTCACA
* * * * * * *
37415883 TGTATAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCACA
*
37415933 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCACA
*
37415983 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
37416018 AAGAGCTTTG
Statistics
Matches: 154, Mismatches: 29, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
49 3 0.02
50 114 0.74
51 36 0.23
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCACA
Found at i:37415955 original size:101 final size:100
Alignment explanation
Indices: 37415779--37416017 Score: 300
Period size: 101 Copynumber: 2.4 Consensus size: 100
37415769 GTTGTGAGTT
* * * *
37415779 ACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTACTA
* *
37415844 AGTGCTGGCTACTATGCGTACCAG-TTAACTTCGATC
66 AGTGCAGGCTACTATGCGTACCAGATTAA--TAGATC
* * * *
37415880 ACGTGTATAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTACTA
* * *
37415945 AGTGCAGGCTACTATGTGTACCAGATTGATAGGTC
66 AGTGCAGGCTACTATGCGTACCAGATTAATAGATC
* * * *
37415980 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
37416018 AAGAGCTTTG
Statistics
Matches: 118, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
100 36 0.31
101 79 0.67
102 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTACTA
AGTGCAGGCTACTATGCGTACCAGATTAATAGATC
Found at i:37417920 original size:28 final size:28
Alignment explanation
Indices: 37417888--37417986 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
37417878 GCAATAAGCC
*
37417888 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
37417916 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
37417944 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
37417973 CGCACACTTAGTGC
1 CGCACACTTAGTGC
37417987 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:37422042 original size:48 final size:48
Alignment explanation
Indices: 37421982--37422094 Score: 131
Period size: 48 Copynumber: 2.3 Consensus size: 48
37421972 GTCCAACTAT
* * * *
37421982 GGTCTTATACTAGCTCTGCTCT-GCCTGTGCTGATGCCTATTCCC-GATA
1 GGTCTTACACTAGCACT-CACTGGCCTGTGCCGATGCCTA-TCCCAGATA
*
37422030 GGTCTTACACTAGCACTCACTGGGCTGTGCCGATGCCTATCCCAGATA
1 GGTCTTACACTAGCACTCACTGGCCTGTGCCGATGCCTATCCCAGATA
*
37422078 GGTCTTACGCTTAGCAC
1 GGTCTTACAC-TAGCAC
37422095 AAGTCGAGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
47 7 0.12
48 43 0.77
49 6 0.11
ACGTcount: A:0.18, C:0.30, G:0.22, T:0.30
Consensus pattern (48 bp):
GGTCTTACACTAGCACTCACTGGCCTGTGCCGATGCCTATCCCAGATA
Found at i:37423675 original size:43 final size:43
Alignment explanation
Indices: 37423614--37423767 Score: 211
Period size: 43 Copynumber: 3.6 Consensus size: 43
37423604 CCGGCATTAC
** * *
37423614 GCCTGCTAGGCACGAAGGCTTGAATACACATTACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
37423657 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * *
37423700 GCCTGGTAGGCATGAAGGCCCAAATACACATCACCGGCACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
37423743 GCCTACTAGGCACGAAGG-CCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
37423768 TAATACCAGC
Statistics
Matches: 97, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 6 0.06
43 91 0.94
ACGTcount: A:0.32, C:0.30, G:0.25, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:37423808 original size:38 final size:38
Alignment explanation
Indices: 37423765--37423867 Score: 143
Period size: 38 Copynumber: 2.7 Consensus size: 38
37423755 CGAAGGCCGA
* * *
37423765 ATATAATACCAGCACTAGGCCTACGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTACGGGATTTAACCCGG
*
37423803 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTACGGGATTTAACCCGG
** *
37423841 ATATTTTACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTACGGG
37423868 TCTTTAAGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTACGGGATTTAACCCGG
Found at i:37430674 original size:13 final size:13
Alignment explanation
Indices: 37430656--37430682 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37430646 ACATGTGATA
37430656 TGTGTGAAAATTT
1 TGTGTGAAAATTT
37430669 TGTGTGAAAATTT
1 TGTGTGAAAATTT
37430682 T
1 T
37430683 ATCGTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:37434028 original size:29 final size:29
Alignment explanation
Indices: 37433948--37434055 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 29
37433938 ACCCCTACAT
* * *
37433948 ACATGCATATGGCCCAATAGGCGCAA-TC
1 ACATTCATATGGCCCACTAGGCCCAATTC
*** * *
37433976 TTTTTCAAATGGCCCATCTA-GCCCAGTTC
1 ACATTCATATGGCCCA-CTAGGCCCAATTC
* *
37434005 ATATTCTTATGGCCCACTAGGCCCAATTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
*
37434034 ACATTCATATGGCCCATTAGGC
1 ACATTCATATGGCCCACTAGGC
37434056 TAGAATCATA
Statistics
Matches: 61, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
28 18 0.30
29 43 0.70
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:37434168 original size:18 final size:19
Alignment explanation
Indices: 37434145--37434182 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
37434135 TGTTGCCCAA
37434145 TAGCCCATT-AGGCCCATT
1 TAGCCCATTCAGGCCCATT
*
37434163 TAGCCCATTCCGGCCCATT
1 TAGCCCATTCAGGCCCATT
37434182 T
1 T
37434183 GGCCAATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.18, C:0.37, G:0.16, T:0.29
Consensus pattern (19 bp):
TAGCCCATTCAGGCCCATT
Found at i:37434191 original size:19 final size:19
Alignment explanation
Indices: 37434155--37434191 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37434145 TAGCCCATTA
*
37434155 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
37434174 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
37434192 TCAACCCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:37436740 original size:16 final size:16
Alignment explanation
Indices: 37436719--37436750 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37436709 GAAAAATTCA
*
37436719 AGATTTCGAGATTTTT
1 AGATTTCAAGATTTTT
37436735 AGATTTCAAGATTTTT
1 AGATTTCAAGATTTTT
37436751 GGGGCGTTAC
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:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (16 bp):
AGATTTCAAGATTTTT
Found at i:37440070 original size:27 final size:26
Alignment explanation
Indices: 37439986--37440087 Score: 80
Period size: 27 Copynumber: 3.8 Consensus size: 26
37439976 TTGGAGGAAG
** * *
37439986 TACTGTACTGGTGGCTTTTTTCACAAT
1 TACTGTACTGGTGGC-TTTGCCATATT
* *
37440013 TACTGCTACCGGTGGCTTTGCC-TCATA
1 TACTG-TACTGGTGGCTTTGCCAT-ATT
37440040 TACTGATACTGGTGGCTTTGCCATATT
1 TACTG-TACTGGTGGCTTTGCCATATT
**
37440067 TACTGTTACTGGCAGCTTTGC
1 TACTG-TACTGGTGGCTTTGC
37440088 TGCAATATTG
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
27 50 0.83
28 10 0.17
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (26 bp):
TACTGTACTGGTGGCTTTGCCATATT
Found at i:37440624 original size:15 final size:16
Alignment explanation
Indices: 37440592--37440624 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
37440582 GATTTATTGA
37440592 AAGAACACAAGCTTTC
1 AAGAACACAAGCTTTC
*
37440608 AAGAACA-AAGTTTTC
1 AAGAACACAAGCTTTC
37440623 AA
1 AA
37440625 AATGCTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.21
Consensus pattern (16 bp):
AAGAACACAAGCTTTC
Found at i:37446156 original size:46 final size:46
Alignment explanation
Indices: 37445988--37446156 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
37445978 CGCCCCTAAG
* * * * *
37445988 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCTCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAGA
*
37446034 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTCA-CGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATC-CATAGA
*
37446084 -G--CTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAGA
37446127 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
37446157 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 4 0.04
43 7 0.07
44 2 0.02
46 54 0.52
47 26 0.25
49 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAGA
Found at i:37450310 original size:27 final size:26
Alignment explanation
Indices: 37450221--37450321 Score: 85
Period size: 27 Copynumber: 3.8 Consensus size: 26
37450211 TTGGAGGAAG
* *
37450221 TACTATACTGGTGGCTCTGCCACAAT
1 TACTATACTGGTGGCTTTGCCACATT
* * * * *
37450247 TACTGCTACCGGTGGCATTGGCACATA
1 TACT-ATACTGGTGGCTTTGCCACATT
*
37450274 TACTGATACTTGTGGCTTTGCCACATT
1 TACT-ATACTGGTGGCTTTGCCACATT
**
37450301 TACTATTACTGGCAGCTTTGC
1 TACTA-TACTGGTGGCTTTGC
37450322 TGCAATATTG
Statistics
Matches: 57, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
26 5 0.09
27 52 0.91
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (26 bp):
TACTATACTGGTGGCTTTGCCACATT
Found at i:37450476 original size:28 final size:28
Alignment explanation
Indices: 37450430--37450484 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
37450420 TTTGCATTGT
*
37450430 ACTGATTCTGTATTAGGCTTAGGCCCAC
1 ACTGATTCTGTATTAGGCTAAGGCCCAC
*
37450458 ACTGTTTCTGT-TTAGGGCTAAGGCCCA
1 ACTGATTCTGTATTA-GGCTAAGGCCCA
37450485 GACAATACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (28 bp):
ACTGATTCTGTATTAGGCTAAGGCCCAC
Found at i:37451589 original size:29 final size:30
Alignment explanation
Indices: 37451523--37451635 Score: 130
Period size: 29 Copynumber: 3.9 Consensus size: 30
37451513 TAAATACATG
* *
37451523 CATATGGCCCA-ATAGGCCCAA-TCTTATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
*
37451551 CAAATGGCCCATCT-GGCCCAATTCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
37451580 CTTATGGCCCA-CTAGGCCCAATTCACATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
37451609 CATATGGCCCAT-TAGGCCCGAA-TCATA
1 CATATGGCCCATCTAGGCCC-AATTCATA
37451636 ATATATTCAT
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
28 19 0.26
29 51 0.71
30 2 0.03
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (30 bp):
CATATGGCCCATCTAGGCCCAATTCATATT
Found at i:37451627 original size:58 final size:57
Alignment explanation
Indices: 37451525--37451635 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 57
37451515 AATACATGCA
**
37451525 TATGGCCCAATAGGCCCAATCTTATTCAAATGGCCCATCTGGCCC-AATTCATATTCT
1 TATGGCCCAATAGGCCCAATCACATTCAAATGGCCCATCTGGCCCGAA-TCATATTCT
* *
37451582 TATGGCCCACTAGGCCCAATTCACATTCATATGGCCCAT-TAGGCCCGAATCATA
1 TATGGCCCAATAGGCCCAA-TCACATTCAAATGGCCCATCT-GGCCCGAATCATA
37451636 ATATATTCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 19 0.40
58 26 0.55
59 2 0.04
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (57 bp):
TATGGCCCAATAGGCCCAATCACATTCAAATGGCCCATCTGGCCCGAATCATATTCT
Found at i:37453521 original size:45 final size:42
Alignment explanation
Indices: 37453426--37453539 Score: 113
Period size: 45 Copynumber: 2.6 Consensus size: 42
37453416 TCGGCATTTC
*
37453426 GCCTGTTAGGCTCG-AGGCCCGATATCAGTTCACCGACATTATA
1 GCCTGCTAGGCTCGAAGGCCCGA-AT-AGTTCACCGACATTATA
*
37453469 GCCTGCTAGGCTCGAAGGCCCGAATAGTATCTTACCGGCATTATA
1 GCCTGCTAGGCTCGAAGGCCCGAATAGT-TC--ACCGACATTATA
** * * *
37453514 GTTTGCTAAGCTCAAAGGCCTGAATA
1 GCCTGCTAGGCTCGAAGGCCCGAATA
37453540 ATCAAGTCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 3 0.05
43 17 0.28
44 8 0.13
45 32 0.53
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (42 bp):
GCCTGCTAGGCTCGAAGGCCCGAATAGTTCACCGACATTATA
Found at i:37453917 original size:43 final size:43
Alignment explanation
Indices: 37453869--37454066 Score: 342
Period size: 43 Copynumber: 4.6 Consensus size: 43
37453859 TCGGCATTAC
*
37453869 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
37453912 GCCTGCTAGGCATGAAGGCCCGAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
37453955 GCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
37453998 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
37454041 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
37454067 TAATACCAGC
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 147 1.00
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:37454129 original size:38 final size:38
Alignment explanation
Indices: 37454059--37454142 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
37454049 GGCACGAAGG
* * *
37454059 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAT
* * *
37454097 CCCGGATATAATACCAGCACGAAGCTTACGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAT
*
37454135 CCTGAATA
1 CCCGAATA
37454143 CACATCAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAT
Found at i:37459635 original size:24 final size:26
Alignment explanation
Indices: 37459590--37459637 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
37459580 CTTAATTCAC
**
37459590 ATTCTATCAATCTCATTTAATTATCA
1 ATTCTATCAATCTCATCAAATTATCA
37459616 ATTC-ATCAAT-TCATCAAATTAT
1 ATTCTATCAATCTCATCAAATTAT
37459638 ACAACACATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 6 0.30
26 4 0.20
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (26 bp):
ATTCTATCAATCTCATCAAATTATCA
Found at i:37463568 original size:21 final size:21
Alignment explanation
Indices: 37463525--37463568 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
37463515 TAATAAAATA
****
37463525 AGTGTTTTTAACACATTTTTT
1 AGTGTTTTTAACACAGGCCTT
37463546 AGTGTTTTTAACACAGGCCTT
1 AGTGTTTTTAACACAGGCCTT
37463567 AG
1 AG
37463569 GTAGTTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (21 bp):
AGTGTTTTTAACACAGGCCTT
Found at i:37475803 original size:46 final size:48
Alignment explanation
Indices: 37475568--37475881 Score: 213
Period size: 46 Copynumber: 6.6 Consensus size: 48
37475558 GGGTTGGAAT
* * * * *
37475568 GCCGATGCCATGTCCCAGACATGGTTTTACATTAGCTCATATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGAG
* * * *
37475615 GTCGATGCCATGTCCCAGACATTGTCTTACACT-GAC-TATCGTTATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTTA-C-ATCTCGAG
* * * * *
37475664 GCCGACGCCATGTCCCTGACATGGTCTTACACTATCTCTCACATATCCG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-T-ACATCT-CGAG
** *
37475714 GCCGATGCCATGTCTTAGACATAGTCTTACACT-GAC--ACATCTCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTTACATCTCG-AG
* *
37475760 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGAG
* * * * *
37475806 GCCGATG-AATGTCCTAGACAT-GTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TACATCTCGAG
* * *
37475852 GTCGATGCTATGTCCCAAACATGGTCTTAC
1 GCCGATGCCATGTCCCAGACATGGTCTTAC
37475882 CAATGTCGAT
Statistics
Matches: 213, Mismatches: 35, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
44 11 0.05
45 16 0.08
46 66 0.31
47 42 0.20
48 10 0.05
49 31 0.15
50 32 0.15
51 4 0.02
52 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGAG
Found at i:37475890 original size:34 final size:34
Alignment explanation
Indices: 37475848--37475915 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
37475838 GCTCTCGTCT
*
37475848 CAATGTCGATGCTATGTCCCAAACATGGTCTTAC
1 CAATGTCGATGCTATGTCCCAAACATGATCTTAC
37475882 CAATGTCGATGCTATGTCCCAAACATGATCTTAC
1 CAATGTCGATGCTATGTCCCAAACATGATCTTAC
37475916 ACTGGCTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (34 bp):
CAATGTCGATGCTATGTCCCAAACATGATCTTAC
Found at i:37481974 original size:25 final size:25
Alignment explanation
Indices: 37481946--37481995 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
37481936 CGTGTGCATA
37481946 AATATTAGCAAGCTCATATCATATT
1 AATATTAGCAAGCTCATATCATATT
37481971 AATATTAGCAAGCTCATATCATATT
1 AATATTAGCAAGCTCATATCATATT
37481996 CAATCATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (25 bp):
AATATTAGCAAGCTCATATCATATT
Found at i:37483293 original size:38 final size:38
Alignment explanation
Indices: 37483242--37483535 Score: 183
Period size: 38 Copynumber: 7.0 Consensus size: 38
37483232 AATGAAAAAA
*
37483242 AACGTGGTGCTAAGTAGATATACCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
37483280 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGG---------TT-ATACATGT
* * *
37483328 AACGTGGTGCTAAGCGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* *
37483375 AATGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * *
37483413 AACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* * * *
37483460 AACATGGTGCTAAGTGAAAATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * * *
37483498 AACATGGGGCTAAGTGGATATGCCATGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
37483536 TAATTTGAAA
Statistics
Matches: 203, Mismatches: 26, Indels: 54
0.72 0.09 0.19
Matches are distributed among these distances:
38 88 0.43
39 2 0.01
40 7 0.03
41 4 0.02
44 4 0.02
45 6 0.03
47 58 0.29
48 34 0.17
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:37483401 original size:47 final size:47
Alignment explanation
Indices: 37483279--37483490 Score: 253
Period size: 47 Copynumber: 4.7 Consensus size: 47
37483269 GTTATACATG
* *
37483279 TAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
37483326 GTAACGTGGTGCTAAGCGGATATGCCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
37483374 TAATGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
37483412 TAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* * *
37483459 TAACATGGTGCTAAGTGAAAATACCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
37483491 AACATGTAAC
Statistics
Matches: 140, Mismatches: 15, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
38 29 0.21
39 1 0.01
40 2 0.01
41 2 0.01
44 2 0.01
45 2 0.01
46 1 0.01
47 58 0.41
48 43 0.31
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:37483432 original size:85 final size:85
Alignment explanation
Indices: 37483322--37483528 Score: 342
Period size: 85 Copynumber: 2.4 Consensus size: 85
37483312 ACATATTGAT
* * **
37483322 ACATGTAACGTGGTGCTAAGCGGATATGCCACGGTTACATATATTGATTCATTAATGTGGTGCTA
1 ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
* *
37483387 AGTGGATATACCACGGTTAA
66 AGTGAAAATACCACGGTTAA
37483407 ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
1 ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
37483472 AGTGAAAATACCACGGTTAA
66 AGTGAAAATACCACGGTTAA
* *
37483492 ACATGTAACATGGGGCTAAGTGGATATGCCATGGTTA
1 ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTA
37483529 TACATGTTAA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 114 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (85 bp):
ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
AGTGAAAATACCACGGTTAA
Found at i:37486661 original size:15 final size:15
Alignment explanation
Indices: 37486635--37486676 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
37486625 GCTGTAAATG
*
37486635 GGATTCCCTTATCAT
1 GGATTTCCTTATCAT
* *
37486650 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
37486665 GGATTTCCTTAT
1 GGATTTCCTTAT
37486677 TCTGGGCTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:37489039 original size:47 final size:47
Alignment explanation
Indices: 37488918--37489128 Score: 242
Period size: 47 Copynumber: 4.7 Consensus size: 47
37488908 AATGAAAAAA
* * *
37488918 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-T
* * *
37488966 AACGTGGTGCTAAGCGAATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
* *
37489013 AACGTGGTGCTAAGTGGAAATACCACGGTTA-A-ACA-TG------T
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
* * *
37489051 AATGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
*
37489098 AACGTGGTGCTAAGTGGATATACCATGGTTA
1 AACGTGGTGCTAAGTGGATATACCACGGTTA
37489129 AACATGTAAC
Statistics
Matches: 134, Mismatches: 20, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
38 28 0.21
39 1 0.01
40 2 0.01
41 2 0.01
44 2 0.01
45 2 0.01
46 1 0.01
47 56 0.42
48 40 0.30
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (47 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
Found at i:37489067 original size:38 final size:38
Alignment explanation
Indices: 37489012--37489173 Score: 153
Period size: 38 Copynumber: 4.0 Consensus size: 38
37489002 ATTGATTCAT
*
37489012 TAACGTGGTGCTAAGTGGAAATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * * *
37489050 TAATGTGGTGCTAAGTGGATATGCCACAGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
*
37489091 ATTCATTAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * * *
37489135 TAACGTGGTACTAAGTGGATATGCCACTGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
37489173 T
1 T
37489174 TAATTTGAAA
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
38 62 0.62
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 28 0.28
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:37489103 original size:85 final size:85
Alignment explanation
Indices: 37488960--37489166 Score: 342
Period size: 85 Copynumber: 2.4 Consensus size: 85
37488950 ACATATTGAT
* * *
37488960 ACATGTAACGTGGTGCTAAGCGAATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTA
37489025 AGTGGAAATACCACGGTTAA
66 AGTGGAAATACCACGGTTAA
*
37489045 ACATGTAATGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTA
* *
37489110 AGTGGATATACCATGGTTAA
66 AGTGGAAATACCACGGTTAA
* *
37489130 ACATGTAACGTGGTACTAAGTGGATATGCCACTGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTA
37489167 TACATGTTAA
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 113 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGAAATACCACGGTTAA
Found at i:37491873 original size:17 final size:18
Alignment explanation
Indices: 37491851--37491887 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
37491841 TTCTATTTAT
37491851 TTTATTT-TTAATT-TTTG
1 TTTATTTATT-ATTATTTG
37491868 TTTATTTATTATTATTTG
1 TTTATTTATTATTATTTG
37491886 TT
1 TT
37491888 GAATTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTATTTATTATTATTTG
Found at i:37494711 original size:28 final size:28
Alignment explanation
Indices: 37494664--37494760 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
37494654 ATTTAAACCC
*
37494664 TAGGGGT-ATATT-GGTAATTTTGCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
37494691 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
37494719 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
37494747 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
37494761 TGATCTACGC
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 9 0.14
28 56 0.86
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:37495411 original size:27 final size:27
Alignment explanation
Indices: 37495381--37495442 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
37495371 GGGCAAAATG
37495381 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
37495408 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
37495435 GTAATTTT
1 GTAATTTT
37495443 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:37495456 original size:54 final size:54
Alignment explanation
Indices: 37495398--37495548 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
37495388 TACCCCACAA
** * * *
37495398 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
37495452 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
37495506 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
37495549 CTGTAAATTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 83 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:37495514 original size:81 final size:81
Alignment explanation
Indices: 37495396--37495548 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
37495386 TTTACCCCAC
** *
37495396 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
37495460 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
37495477 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
37495541 TGGTAATT
65 TGGTAATT
37495549 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:37495555 original size:27 final size:27
Alignment explanation
Indices: 37495425--37495548 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
37495415 TACCCTACAG
* *
37495425 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
37495452 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
37495479 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
37495506 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
37495533 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
37495549 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:37495564 original size:54 final size:54
Alignment explanation
Indices: 37495425--37495548 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
37495415 TACCCTACAG
* *
37495425 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
37495479 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
37495533 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
37495549 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:37495591 original size:54 final size:54
Alignment explanation
Indices: 37495532--37495656 Score: 137
Period size: 54 Copynumber: 2.3 Consensus size: 54
37495522 TTATAAACCA
* * *
37495532 AGGGTATTTTGGTAATTCTGTAAATT-GAGGGTAAAACGATAATTATGTAAATC-
1 AGGGTAATTTGGTAATTATGTAAATTAG-GGGTAAAACAATAATTATGTAAATCG
*** * *
37495585 AGGGGTAAAACGATAATTATGTAAATTAGGGGTAAAACAATAATTCTGTAAATCG
1 A-GGGTAATTTGGTAATTATGTAAATTAGGGGTAAAACAATAATTATGTAAATCG
*
37495640 AGGGTACTTTGGTAATT
1 AGGGTAATTTGGTAATT
37495657 TTACAAGTCG
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
53 1 0.02
54 53 0.95
55 2 0.04
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (54 bp):
AGGGTAATTTGGTAATTATGTAAATTAGGGGTAAAACAATAATTATGTAAATCG
Found at i:37495645 original size:27 final size:28
Alignment explanation
Indices: 37495544--37495643 Score: 134
Period size: 27 Copynumber: 3.7 Consensus size: 28
37495534 GGTATTTTGG
* *
37495544 TAATTCTGTAAATTGA-GGGTAAAACGA
1 TAATTATGTAAATCGAGGGGTAAAACGA
37495571 TAATTATGTAAATC-AGGGGTAAAACGA
1 TAATTATGTAAATCGAGGGGTAAAACGA
* *
37495598 TAATTATGTAAAT-TAGGGGTAAAACAA
1 TAATTATGTAAATCGAGGGGTAAAACGA
*
37495625 TAATTCTGTAAATCGAGGG
1 TAATTATGTAAATCGAGGG
37495644 TACTTTGGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 60 0.92
28 4 0.06
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (28 bp):
TAATTATGTAAATCGAGGGGTAAAACGA
Found at i:37495700 original size:27 final size:27
Alignment explanation
Indices: 37495634--37495702 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
37495624 ATAATTCTGT
* *
37495634 AAATCGAGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAAATTTAC
* *
37495661 AAGTCGAAGGTATTTTGGTAAATTTAC
1 AAATCGAGGGTATTTTGGTAAATTTAC
37495688 AAATCGAGGGTATTT
1 AAATCGAGGGTATTT
37495703 CAGTAATTGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (27 bp):
AAATCGAGGGTATTTTGGTAAATTTAC
Found at i:37499065 original size:46 final size:46
Alignment explanation
Indices: 37498998--37499123 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 46
37498988 AACCCGCCCC
* * *
37498998 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
37499044 TAAGTGAACTCAGACTCAACTCAAGGAGTTTGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
37499090 TAACTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37499124 TGCTCAACCA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:37504633 original size:21 final size:20
Alignment explanation
Indices: 37504607--37504696 Score: 81
Period size: 20 Copynumber: 4.4 Consensus size: 20
37504597 TACGTGATTA
*
37504607 GCACTTTGGTGCCTCCTATTT
1 GCACTTCGGTGCC-CCTATTT
* *
37504628 GCACTTCGGTGCCCCTGTAT
1 GCACTTCGGTGCCCCTATTT
* * * *
37504648 ACACTTCAGTGTCCCTGTTT
1 GCACTTCGGTGCCCCTATTT
**
37504668 GCACTAAGGTGCCCCTATTT
1 GCACTTCGGTGCCCCTATTT
37504688 GCACATTCG
1 GCAC-TTCG
37504697 TGTCCTGCCA
Statistics
Matches: 53, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 39 0.74
21 14 0.26
ACGTcount: A:0.14, C:0.31, G:0.20, T:0.34
Consensus pattern (20 bp):
GCACTTCGGTGCCCCTATTT
Found at i:37505459 original size:17 final size:17
Alignment explanation
Indices: 37505437--37505477 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
37505427 GACCATCAAA
37505437 AAGCTCGATTTGGTTGG
1 AAGCTCGATTTGGTTGG
37505454 AAGCTCGATTTGGTTGG
1 AAGCTCGATTTGGTTGG
37505471 AAGCTCG
1 AAGCTCG
37505478 TTGGAGACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.34, T:0.32
Consensus pattern (17 bp):
AAGCTCGATTTGGTTGG
Found at i:37506898 original size:20 final size:20
Alignment explanation
Indices: 37506875--37506921 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
37506865 CCGTAATAAA
37506875 AGTAATTTATCTATATCAAC
1 AGTAATTTATCTATATCAAC
*
37506895 AGTAATTTATCTGTATCAAC
1 AGTAATTTATCTATATCAAC
37506915 AGTAATT
1 AGTAATT
37506922 CATTCATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (20 bp):
AGTAATTTATCTATATCAAC
Found at i:37507136 original size:23 final size:23
Alignment explanation
Indices: 37507079--37507205 Score: 82
Period size: 23 Copynumber: 5.4 Consensus size: 23
37507069 GTCATGGTCG
* *
37507079 GTAAGCTCCTCCTGAGCTGATAAACA
1 GTAAGCT-CTACTGAGCTG--AAATA
* *
37507105 ATAAGCTCTACTGAGCTGAAATG
1 GTAAGCTCTACTGAGCTGAAATA
*
37507128 GTAAGCTCTA-TCAAGCT-AAATA
1 GTAAGCTCTACT-GAGCTGAAATA
*
37507150 GCAAGCTCATAC-GAGCTG-AATCA
1 GTAAGCTC-TACTGAGCTGAAAT-A
* * *
37507173 GTAAGCTCCAATGAGCTGAAAACA
1 GTAAGCTCTACTGAGCTG-AAATA
37507197 GTAAGCTCT
1 GTAAGCTCT
37507206 TACGAGTTGA
Statistics
Matches: 79, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.25
23 32 0.41
24 9 0.11
25 12 0.15
26 6 0.08
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (23 bp):
GTAAGCTCTACTGAGCTGAAATA
Found at i:37508493 original size:41 final size:41
Alignment explanation
Indices: 37508436--37508533 Score: 187
Period size: 41 Copynumber: 2.4 Consensus size: 41
37508426 ATTCAAAATT
*
37508436 CAAATAACACCTTTTAGGACCCTCACTTTAAAATCCAAGGC
1 CAAATAACACCTTTTAGAACCCTCACTTTAAAATCCAAGGC
37508477 CAAATAACACCTTTTAGAACCCTCACTTTAAAATCCAAGGC
1 CAAATAACACCTTTTAGAACCCTCACTTTAAAATCCAAGGC
37508518 CAAATAACACCTTTTA
1 CAAATAACACCTTTTA
37508534 CTAAAAGCAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.39, C:0.29, G:0.07, T:0.26
Consensus pattern (41 bp):
CAAATAACACCTTTTAGAACCCTCACTTTAAAATCCAAGGC
Found at i:37512624 original size:21 final size:21
Alignment explanation
Indices: 37512588--37512632 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
37512578 CATATGTAAA
* *
37512588 AAAATACGAAATATAGGAGGAG
1 AAAATACGAAAAATA-GAGAAG
37512610 AAAATA-GAAAAATAGAGAAG
1 AAAATACGAAAAATAGAGAAG
37512630 AAA
1 AAA
37512633 GGTGGAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 7 0.33
22 6 0.29
ACGTcount: A:0.64, C:0.02, G:0.22, T:0.11
Consensus pattern (21 bp):
AAAATACGAAAAATAGAGAAG
Found at i:37515126 original size:27 final size:27
Alignment explanation
Indices: 37515092--37515195 Score: 93
Period size: 27 Copynumber: 3.9 Consensus size: 27
37515082 AAGACCCTGA
*
37515092 CTTGTAAAATTACTAAAATACCCCCAG
1 CTTGTAAAATTACTGAAATACCCCCAG
* * * * *
37515119 GTTATAAAACTACCGAAATACCCTC-G
1 CTTGTAAAATTACTGAAATACCCCCAG
* * * *
37515145 ATTTGTGAAATTACTGAAATACCCCTAA
1 -CTTGTAAAATTACTGAAATACCCCCAG
*
37515173 CTTGTAAAATTACTTAAATACCC
1 CTTGTAAAATTACTGAAATACCC
37515196 TTGTAGTGTG
Statistics
Matches: 58, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
26 1 0.02
27 57 0.98
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (27 bp):
CTTGTAAAATTACTGAAATACCCCCAG
Found at i:37515166 original size:54 final size:53
Alignment explanation
Indices: 37515085--37515223 Score: 145
Period size: 54 Copynumber: 2.6 Consensus size: 53
37515075 GGTCGTTAAG
* * * **
37515085 ACCCTGACTTGTAAAATTACTAAAATACCCCCAGGTTATAAAACTACCGAAAT
1 ACCCTGATTTGTGAAATTACTGAAATACCCCCAACTTATAAAACTACCGAAAT
* * * **
37515138 ACCCTCGATTTGTGAAATTACTGAAATACCCCTAACTTGTAAAATTACTTAAAT
1 ACCCT-GATTTGTGAAATTACTGAAATACCCCCAACTTATAAAACTACCGAAAT
*
37515192 ACCCTTG-TAGTGTGAAATTACTGAAATACCCC
1 ACCC-TGAT-TTGTGAAATTACTGAAATACCCC
37515224 TATAAGGTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
53 6 0.08
54 65 0.90
55 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (53 bp):
ACCCTGATTTGTGAAATTACTGAAATACCCCCAACTTATAAAACTACCGAAAT
Found at i:37515209 original size:27 final size:27
Alignment explanation
Indices: 37515148--37515225 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
37515138 ACCCTCGATT
*
37515148 TGTGAAATTACTGAAATACCCCTAACT
1 TGTGAAATTACTGAAATACCCCTAACG
* * * *
37515175 TGTAAAATTACTTAAATACCCTTGTA-G
1 TGTGAAATTACTGAAATACCCCT-AACG
37515202 TGTGAAATTACTGAAATACCCCTA
1 TGTGAAATTACTGAAATACCCCTA
37515226 TAAGGTAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (27 bp):
TGTGAAATTACTGAAATACCCCTAACG
Found at i:37515236 original size:27 final size:27
Alignment explanation
Indices: 37515152--37515236 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
37515142 TCGATTTGTG
**
37515152 AAATTACTGAAATACCCCTA-ACTTGTA
1 AAATTACTGAAATACCCCTATA-AGGTA
* * * *
37515179 AAATTACTTAAATACCCTTGT-AGTGTG
1 AAATTACTGAAATACCCCTATAAG-GTA
37515206 AAATTACTGAAATACCCCTATAAGGTA
1 AAATTACTGAAATACCCCTATAAGGTA
37515233 AAAT
1 AAAT
37515237 GAATGTTTTG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
27 43 0.96
28 2 0.04
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCCTATAAGGTA
Found at i:37517145 original size:27 final size:27
Alignment explanation
Indices: 37517105--37517275 Score: 218
Period size: 27 Copynumber: 6.4 Consensus size: 27
37517095 GGATAAGTTA
37517105 TAGAATTACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
**
37517132 TAGAATTATTGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
37517159 TAGAATTACTGAAATACCCCTGTAGGA
1 TAGAATTACCGAAATACCCCTGTAGGG
* * * *
37517186 TAGAATTACCAAAACACCCTTGTATGG
1 TAGAATTACCGAAATACCCCTGTAGGG
**
37517213 TAGAAACACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* * *
37517240 TAGAATTACCGAGATACCCTTGTGGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
37517267 TA-AATTACC
1 TAGAATTACC
37517276 ATTTTGCCCC
Statistics
Matches: 123, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 7 0.06
27 116 0.94
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAGGG
Found at i:37517943 original size:27 final size:26
Alignment explanation
Indices: 37517899--37517950 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
37517889 CTCGCTGCAA
*
37517899 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
37517926 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
37517951 GCAGCCTCGC
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:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:37517988 original size:67 final size:67
Alignment explanation
Indices: 37517880--37518055 Score: 307
Period size: 67 Copynumber: 2.6 Consensus size: 67
37517870 GAGGAAGCGT
37517880 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
37517945 TA
66 TA
* *
37517947 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATTTGTTCTGGTTACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
37518012 TA
66 TA
* * *
37518014 TCTGGAAGCCTCGCTGCAATCTGGTGGCTTCACCACATATAT
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATAT
37518056 ATATCTGTTC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 104 1.00
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:37518104 original size:98 final size:98
Alignment explanation
Indices: 37517970--37518153 Score: 262
Period size: 98 Copynumber: 1.9 Consensus size: 98
37517960 CTGCAATCTG
* * * * * *
37517970 GTGGCCTCGCCACATATATTTGTTCTGGTTACTTCGTCACAATATCTGGAAGCCTCGCTGCAATC
1 GTGGCCTAGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTGGAAGCCTCACTACAATC
*
37518035 TGGTGGCTTCACCACATATATATATCTGTTCTA
66 TGGTGGCCTCACCACATATATATATCTGTTCTA
*
37518068 GTGGCCTAGCCACA-ATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTACAAT
1 GTGGCCTAGCCACATATATCTAT-TCTGGTGACTTCGTCACAATATCTGGAAGCCTCACTACAAT
* *
37518132 CTGGTGGCCTCGCTACATATAT
65 CTGGTGGCCTCACCACATATAT
37518154 CTATTCTGGT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
97 6 0.08
98 69 0.92
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (98 bp):
GTGGCCTAGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTGGAAGCCTCACTACAATC
TGGTGGCCTCACCACATATATATATCTGTTCTA
Found at i:37518179 original size:67 final size:67
Alignment explanation
Indices: 37518068--37518206 Score: 181
Period size: 67 Copynumber: 2.1 Consensus size: 67
37518058 ATCTGTTCTA
*
37518068 GTGGCCTAGCCACAATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTACAATC
1 GTGGCCTAGCCACAATATCTATATCTGGTGACTTCGTCACAATATCTAGCAGCCTCACTACAATC
37518133 TG
66 TG
* * * * * * **
37518135 GTGGCCTCGCTACATATATCTAT-TCTGGTGACTTTGTCATAATATCTAGCAGTCTCGCTGTAAT
1 GTGGCCTAGCCACA-ATATCTATATCTGGTGACTTCGTCACAATATCTAGCAGCCTCACTACAAT
37518199 CTG
65 CTG
37518202 GTGGC
1 GTGGC
37518207 TAATTTCTGT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
67 54 0.87
68 8 0.13
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (67 bp):
GTGGCCTAGCCACAATATCTATATCTGGTGACTTCGTCACAATATCTAGCAGCCTCACTACAATC
TG
Found at i:37518181 original size:165 final size:165
Alignment explanation
Indices: 37517903--37518207 Score: 468
Period size: 165 Copynumber: 1.8 Consensus size: 165
37517893 CTGCAATCTG
* * * *
37517903 GTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAATC
1 GTGGCCTAGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTACAATC
* * * *
37517968 TGGTGGCCTCGCCACATATATTTGTTCTGGTTACTTCGTCACAATATCTGGAAGCCTCGCTGCAA
66 TGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTAGAAGCCTCGCTGCAA
37518033 TCTGGTGGCTTCACCACATATATATATCTGTTCTA
131 TCTGGTGGCTTCACCACATATATATATCTGTTCTA
37518068 GTGGCCTAGCCACA-ATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTACAAT
1 GTGGCCTAGCCACATATATCTAT-TCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTACAAT
* * * * * *
37518132 CTGGTGGCCTCGCTACATATATCTATTCTGGTGACTTTGTCATAATATCTAGCAGTCTCGCTGTA
65 CTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTAGAAGCCTCGCTGCA
37518197 ATCTGGTGGCT
130 ATCTGGTGGCT
37518208 AATTTCTGTA
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
164 7 0.06
165 118 0.94
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (165 bp):
GTGGCCTAGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTACAATC
TGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTAGAAGCCTCGCTGCAA
TCTGGTGGCTTCACCACATATATATATCTGTTCTA
Found at i:37524662 original size:27 final size:27
Alignment explanation
Indices: 37524628--37524827 Score: 267
Period size: 27 Copynumber: 7.4 Consensus size: 27
37524618 TGGATAAGTT
* *
37524628 GTAGAATTACCAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
37524655 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
37524682 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
37524709 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
37524736 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
37524763 GTAGAAATATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
37524790 GTA-AAGTTACCGAGATACCCTTGTGGG
1 GTAGAA-TTACCGAAATACCCCTGTAGG
*
37524817 GTAAAATTACC
1 GTAGAATTACC
37524828 ATTTTACCCC
Statistics
Matches: 152, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 148 0.97
28 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:37525566 original size:67 final size:67
Alignment explanation
Indices: 37525458--37525642 Score: 280
Period size: 67 Copynumber: 2.7 Consensus size: 67
37525448 GAGGAAGCGC
* * *
37525458 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCGACATATATCTATTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACTTCGACACAA
37525523 TA
66 TA
*
37525525 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTGTTCTGGTGACTTCGACACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACTTCGACACAA
37525590 TA
66 TA
* ** * *
37525592 TCTGGCAGCCTCGCTGCAATCAGGTGGATTTACCACATATATATATATCTG
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTAT-TCTG
37525643 TTCTGGTTGC
Statistics
Matches: 107, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
67 103 0.96
68 4 0.04
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACTTCGACACAA
TA
Found at i:37529496 original size:31 final size:31
Alignment explanation
Indices: 37529458--37529518 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
37529448 TATTAAGAAC
37529458 AAAACATAGCTAGGCAATCCATTCAACTCAT
1 AAAACATAGCTAGGCAATCCATTCAACTCAT
37529489 AAAACATAGCTAGGCAATCCATTCAACTCA
1 AAAACATAGCTAGGCAATCCATTCAACTCA
37529519 AATCTTGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.21
Consensus pattern (31 bp):
AAAACATAGCTAGGCAATCCATTCAACTCAT
Found at i:37546371 original size:46 final size:46
Alignment explanation
Indices: 37546304--37546432 Score: 188
Period size: 46 Copynumber: 2.8 Consensus size: 46
37546294 TGTAACCCGC
* * * *
37546304 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCACAT
*
37546350 CCATAAGTGAACTCGTACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
37546396 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37546433 TGCCCAAATA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
45 2 0.03
46 73 0.97
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:37548416 original size:15 final size:15
Alignment explanation
Indices: 37548360--37548439 Score: 69
Period size: 15 Copynumber: 5.4 Consensus size: 15
37548350 TAAAGATAAC
*
37548360 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
37548374 AAGAAATTCA-AGATA
1 AAGAAATCCAGA-ATA
*
37548389 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
37548404 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
37548419 AA-AAGATCCAGGATA
1 AAGAA-ATCCAGAATA
37548434 AAGAAA
1 AAGAAA
37548440 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
14 12 0.23
15 36 0.68
16 5 0.09
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:37548435 original size:30 final size:30
Alignment explanation
Indices: 37548369--37548448 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
37548359 CAAGAAAACC
*
37548369 GAATAAAGAAATTCAAGATAGAAAAACCCA
1 GAATAAAGAAATCCAAGATAGAAAAACCCA
*
37548399 GAATAAAGAAATCC-AGAATA-AAAAGATCCA
1 GAATAAAGAAATCCAAG-ATAGAAAA-ACCCA
* *
37548429 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
37548449 CGATACTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 6 0.14
30 35 0.81
31 2 0.05
ACGTcount: A:0.59, C:0.14, G:0.15, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAGAAAAACCCA
Found at i:37548448 original size:15 final size:15
Alignment explanation
Indices: 37548371--37548448 Score: 56
Period size: 15 Copynumber: 5.2 Consensus size: 15
37548361 AGAAAACCGA
*
37548371 ATAAAGAAATTCAAG
1 ATAAAGAAATCCAAG
*
37548386 ATAGAA-AAA-CCCAG
1 ATA-AAGAAATCCAAG
37548400 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
37548415 AATAAA-AAGATCCAGG
1 -ATAAAGAA-ATCCAAG
*
37548431 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
37548446 ATA
1 ATA
37548449 CGATACTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 7 0.14
15 37 0.73
16 7 0.14
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:37551241 original size:15 final size:15
Alignment explanation
Indices: 37551185--37551264 Score: 69
Period size: 15 Copynumber: 5.4 Consensus size: 15
37551175 TAAAGATAAC
*
37551185 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
37551199 AAGAAATTCA-AGATA
1 AAGAAATCCAGA-ATA
*
37551214 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
37551229 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
37551244 AA-AAGATCCAGGATA
1 AAGAA-ATCCAGAATA
37551259 AAGAAA
1 AAGAAA
37551265 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
14 12 0.23
15 36 0.68
16 5 0.09
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:37551260 original size:30 final size:30
Alignment explanation
Indices: 37551194--37551273 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
37551184 CAAGAAAACC
*
37551194 GAATAAAGAAATTCAAGATAGAAAAACCCA
1 GAATAAAGAAATCCAAGATAGAAAAACCCA
*
37551224 GAATAAAGAAATCC-AGAATA-AAAAGATCCA
1 GAATAAAGAAATCCAAG-ATAGAAAA-ACCCA
* *
37551254 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
37551274 CGATACTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 6 0.14
30 35 0.81
31 2 0.05
ACGTcount: A:0.59, C:0.14, G:0.15, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAGAAAAACCCA
Found at i:37551273 original size:15 final size:15
Alignment explanation
Indices: 37551196--37551273 Score: 56
Period size: 15 Copynumber: 5.2 Consensus size: 15
37551186 AGAAAACCGA
*
37551196 ATAAAGAAATTCAAG
1 ATAAAGAAATCCAAG
*
37551211 ATAGAA-AAA-CCCAG
1 ATA-AAGAAATCCAAG
37551225 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
37551240 AATAAA-AAGATCCAGG
1 -ATAAAGAA-ATCCAAG
*
37551256 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
37551271 ATA
1 ATA
37551274 CGATACTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 7 0.14
15 37 0.73
16 7 0.14
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:37554284 original size:45 final size:49
Alignment explanation
Indices: 37554166--37554297 Score: 172
Period size: 46 Copynumber: 2.8 Consensus size: 49
37554156 TGTAACCCGC
*
37554166 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCGTTCACAT
37554212 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGGATGCCAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCC-GTTCACAT
* *
37554260 -C-TCAG-GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCC
37554298 CAAATATCCC
Statistics
Matches: 79, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
45 27 0.34
46 43 0.54
47 2 0.03
48 4 0.05
49 3 0.04
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.20
Consensus pattern (49 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCGTTCACAT
Found at i:37556197 original size:14 final size:15
Alignment explanation
Indices: 37556178--37556255 Score: 58
Period size: 14 Copynumber: 5.4 Consensus size: 15
37556168 CAAAGATAAC
37556178 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
*
37556192 AAGAAATCCA-AGAT-
1 AAGAAAACCAGA-ATA
37556206 -AGAAAACCCAGAATA
1 AAGAAAA-CCAGAATA
*
37556221 AAGAAATCCAGAATA
1 AAGAAAACCAGAATA
* * *
37556236 AA-AGATCCAGGATA
1 AAGAAAACCAGAATA
37556250 AAGAAA
1 AAGAAA
37556256 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
13 5 0.10
14 26 0.51
15 15 0.29
16 5 0.10
ACGTcount: A:0.60, C:0.14, G:0.15, T:0.10
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:37556223 original size:29 final size:28
Alignment explanation
Indices: 37556179--37556264 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 28
37556169 AAAGATAACA
37556179 AGAAAACC-GAATAAAGAAATCCAAGAT
1 AGAAAACCAGAATAAAGAAATCCAAGAT
37556206 AGAAAACCCAGAATAAAGAAATCC-AGAAT
1 AGAAAA-CCAGAATAAAGAAATCCAAG-AT
* *
37556235 A-AAAGATCCAGGATAAAGAAACCCAAGAT
1 AGAAA-A-CCAGAATAAAGAAATCCAAGAT
37556264 A
1 A
37556265 CGATACTATG
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
27 6 0.12
28 7 0.14
29 36 0.71
30 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.15, T:0.10
Consensus pattern (28 bp):
AGAAAACCAGAATAAAGAAATCCAAGAT
Found at i:37561200 original size:14 final size:15
Alignment explanation
Indices: 37561181--37561257 Score: 56
Period size: 14 Copynumber: 5.4 Consensus size: 15
37561171 TAAAGATAAC
37561181 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
* *
37561195 AAGAAATCAAG-AT-
1 AAGAAAACCAGAATA
37561208 -AGAAAACCCAGAATA
1 AAGAAAA-CCAGAATA
*
37561223 AAGAAATCCAGAATA
1 AAGAAAACCAGAATA
* * *
37561238 AA-AGATCCAGGATA
1 AAGAAAACCAGAATA
37561252 AAGAAA
1 AAGAAA
37561258 CCCAAGATAC
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
12 5 0.10
13 3 0.06
14 23 0.47
15 13 0.27
16 5 0.10
ACGTcount: A:0.61, C:0.13, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:37561257 original size:29 final size:28
Alignment explanation
Indices: 37561182--37561266 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 28
37561172 AAAGATAACA
37561182 AGAAAA-CC-GAATAAAGAAATCAAGAT
1 AGAAAACCCAGAATAAAGAAATCAAGAT
*
37561208 AGAAAACCCAGAATAAAGAAATCCAGAAT
1 AGAAAACCCAGAATAAAGAAATCAAG-AT
* * *
37561237 A-AAAGATCCAGGATAAAGAAACCCAAGAT
1 AGAAA-ACCCAGAATAAAGAAA-TCAAGAT
37561266 A
1 A
37561267 CGATACTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
26 6 0.12
27 2 0.04
28 18 0.37
29 20 0.41
30 3 0.06
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.11
Consensus pattern (28 bp):
AGAAAACCCAGAATAAAGAAATCAAGAT
Found at i:37566248 original size:15 final size:15
Alignment explanation
Indices: 37566192--37566271 Score: 69
Period size: 15 Copynumber: 5.4 Consensus size: 15
37566182 TAAAGATAAC
*
37566192 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
37566206 AAGAAATTCA-AGATA
1 AAGAAATCCAGA-ATA
*
37566221 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
37566236 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
37566251 AA-AAGATCCAGGATA
1 AAGAA-ATCCAGAATA
37566266 AAGAAA
1 AAGAAA
37566272 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
14 12 0.23
15 36 0.68
16 5 0.09
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:37566267 original size:30 final size:30
Alignment explanation
Indices: 37566201--37566280 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
37566191 CAAGAAAACC
*
37566201 GAATAAAGAAATTCAAGATAGAAAAACCCA
1 GAATAAAGAAATCCAAGATAGAAAAACCCA
*
37566231 GAATAAAGAAATCC-AGAATA-AAAAGATCCA
1 GAATAAAGAAATCCAAG-ATAGAAAA-ACCCA
* *
37566261 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
37566281 CGATACTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 6 0.14
30 35 0.81
31 2 0.05
ACGTcount: A:0.59, C:0.14, G:0.15, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAGAAAAACCCA
Found at i:37566280 original size:15 final size:15
Alignment explanation
Indices: 37566203--37566280 Score: 56
Period size: 15 Copynumber: 5.2 Consensus size: 15
37566193 AGAAAACCGA
*
37566203 ATAAAGAAATTCAAG
1 ATAAAGAAATCCAAG
*
37566218 ATAGAA-AAA-CCCAG
1 ATA-AAGAAATCCAAG
37566232 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
37566247 AATAAA-AAGATCCAGG
1 -ATAAAGAA-ATCCAAG
*
37566263 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
37566278 ATA
1 ATA
37566281 CGATACTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 7 0.14
15 37 0.73
16 7 0.14
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:37571351 original size:15 final size:15
Alignment explanation
Indices: 37571295--37571374 Score: 69
Period size: 15 Copynumber: 5.4 Consensus size: 15
37571285 TAAAGATAAC
*
37571295 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
37571309 AAGAAATTCA-AGATA
1 AAGAAATCCAGA-ATA
*
37571324 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
37571339 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
37571354 AA-AAGATCCAGGATA
1 AAGAA-ATCCAGAATA
37571369 AAGAAA
1 AAGAAA
37571375 CCTAAGATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
14 12 0.23
15 36 0.68
16 5 0.09
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:37571370 original size:30 final size:30
Alignment explanation
Indices: 37571304--37571383 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
37571294 CAAGAAAACC
*
37571304 GAATAAAGAAATTCAAGATAGAAAAACCCA
1 GAATAAAGAAATCCAAGATAGAAAAACCCA
*
37571334 GAATAAAGAAATCC-AGAATA-AAAAGATCCA
1 GAATAAAGAAATCCAAG-ATAGAAAA-ACCCA
*
37571364 GGATAAAGAAA-CCTAAGATA
1 GAATAAAGAAATCC-AAGATA
37571384 CGATACTATG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
29 8 0.19
30 33 0.77
31 2 0.05
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.14
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAGAAAAACCCA
Found at i:37574472 original size:46 final size:46
Alignment explanation
Indices: 37574300--37574469 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
37574290 TGTAACCCGC
* * *
37574300 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCA-AGCGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGA-CATTCGCAT
* * *
37574346 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC--A-GAC-A-TTCGCAT
* * *
37574396 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
*
37574439 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
37574470 TTCGGATGCC
Statistics
Matches: 99, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 54 0.55
47 24 0.24
48 3 0.03
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
Found at i:37574494 original size:46 final size:45
Alignment explanation
Indices: 37574351--37574481 Score: 122
Period size: 47 Copynumber: 2.8 Consensus size: 45
37574341 CGTATCCATA
* *
37574351 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-C
* * * * * * *
37574399 A-CGAACTTGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCATACATCC
37574444 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
37574482 AATATCCCAG
Statistics
Matches: 66, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
44 5 0.08
45 2 0.03
46 25 0.38
47 28 0.42
48 2 0.03
49 4 0.06
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
Found at i:37580466 original size:55 final size:55
Alignment explanation
Indices: 37580387--37580497 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
37580377 AAGGGAAAAC
37580387 TAAACACCAAGTACCTTCGGGACTACTCCAGCCTATCATGGTTCCTGAATGGAAA
1 TAAACACCAAGTACCTTCGGGACTACTCCAGCCTATCATGGTTCCTGAATGGAAA
37580442 TAAACACCAAGTACCTTCGGGACTACTCCAGCCTATCATGGTTCCTGAATGGAAA
1 TAAACACCAAGTACCTTCGGGACTACTCCAGCCTATCATGGTTCCTGAATGGAAA
37580497 T
1 T
37580498 CGGATCGGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (55 bp):
TAAACACCAAGTACCTTCGGGACTACTCCAGCCTATCATGGTTCCTGAATGGAAA
Found at i:37592354 original size:58 final size:58
Alignment explanation
Indices: 37592264--37592379 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
37592254 CTCGATCAAG
37592264 ACCCATATCTCATTTTTCTTGATCTATAATGCCAAATTTAACTTGTTTAATAATCATA
1 ACCCATATCTCATTTTTCTTGATCTATAATGCCAAATTTAACTTGTTTAATAATCATA
37592322 ACCCATATCTCATTTTTCTTGATCTATAATGCCAAATTTAACTTGTTTAATAATCATA
1 ACCCATATCTCATTTTTCTTGATCTATAATGCCAAATTTAACTTGTTTAATAATCATA
37592380 TTGGCCAAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (58 bp):
ACCCATATCTCATTTTTCTTGATCTATAATGCCAAATTTAACTTGTTTAATAATCATA
Found at i:37596719 original size:40 final size:40
Alignment explanation
Indices: 37596674--37596840 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
37596664 CGGAATATAA
37596674 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
37596714 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
37596754 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
37596794 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
37596833 CCGGATAT
1 CCGGATAT
37596841 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Done.