Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 21 of 333
Found at i:6319851 original size:18 final size:19
Alignment explanation
Indices: 6319828--6319863 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6319818 TGTTTTCCTC
*
6319828 TTTTTTTATAT-ATTTTAA
1 TTTTTTTAAATAATTTTAA
6319846 TTTTTTTAAATAATTTTA
1 TTTTTTTAAATAATTTTA
6319864 GTATTATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTAAATAATTTTAA
Found at i:6321098 original size:22 final size:23
Alignment explanation
Indices: 6321050--6321098 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
6321040 GTAGCTTTTT
*
6321050 TATTTCTTTTAGGTTTGTCTTAC
1 TATTTCTTTTAGGTTTGCCTTAC
*
6321073 TATTT-TTTTAGTTTTAGCCTTA-
1 TATTTCTTTTAGGTTT-GCCTTAC
6321095 TATT
1 TATT
6321099 ATGCTGAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.16, C:0.10, G:0.10, T:0.63
Consensus pattern (23 bp):
TATTTCTTTTAGGTTTGCCTTAC
Found at i:6323660 original size:20 final size:20
Alignment explanation
Indices: 6323635--6323674 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6323625 TAAATTTAGG
6323635 ATTTATATT-TATTTATCTTT
1 ATTTAT-TTGTATTTATCTTT
6323655 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
6323675 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:6329044 original size:10 final size:10
Alignment explanation
Indices: 6329029--6329087 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
6329019 TAAATTTAGG
*
6329029 ATTTATATTT
1 ATTTATCTTT
6329039 ATTTATCTTT
1 ATTTATCTTT
*
6329049 AATTATCTTT
1 ATTTATCTTT
*
6329059 AATTATCTTT
1 ATTTATCTTT
6329069 A-TTAT-TTGT
1 ATTTATCTT-T
6329078 ATTTATCTTT
1 ATTTATCTTT
6329088 TAGAATTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
8 2 0.05
9 6 0.14
10 34 0.77
11 2 0.05
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:6340519 original size:55 final size:55
Alignment explanation
Indices: 6340401--6340520 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
6340391 GTTCAATCCC
* * * *
6340401 CACGCCCGTGTTATTTCAACAGGTTCGACCACAGGTGTTAGACACGGGCGTGTCA
1 CACGCCCGTGCTATTTCAACAGGTTCAACCACAGGTCTTACACACGGGCGTGTCA
* * * * * *
6340456 TACACCCGTGCTAGTTTC-TCAGTTTCAACCACAGGTCTTCCACACGGGCGTGTCG
1 CACGCCCGTGCTA-TTTCAACAGGTTCAACCACAGGTCTTACACACGGGCGTGTCA
6340511 CACGCCCGTG
1 CACGCCCGTG
6340521 TTGTTTTGGC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
55 48 0.92
56 4 0.08
ACGTcount: A:0.19, C:0.32, G:0.25, T:0.24
Consensus pattern (55 bp):
CACGCCCGTGCTATTTCAACAGGTTCAACCACAGGTCTTACACACGGGCGTGTCA
Found at i:6351721 original size:13 final size:13
Alignment explanation
Indices: 6351703--6351729 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6351693 CATTCGAAAG
6351703 CCTATAAATACAC
1 CCTATAAATACAC
6351716 CCTATAAATACAC
1 CCTATAAATACAC
6351729 C
1 C
6351730 GTCTCAGAAG
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:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (13 bp):
CCTATAAATACAC
Found at i:6353068 original size:44 final size:44
Alignment explanation
Indices: 6353005--6353095 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
6352995 AACTCTGTTT
* *
6353005 TTAGTTTCCCACTTAAACTCTAATTCGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAGTATAGGTTATTTTAATA
* *
6353049 TTAGTTTCCTATTTAAACTCTAATTAGTATAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAGTATAGGTTATTTTAATA
6353093 TTA
1 TTA
6353096 TTTGACCTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTAATTAGTATAGGTTATTTTAATA
Found at i:6356792 original size:28 final size:27
Alignment explanation
Indices: 6356746--6356807 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
6356736 TGATATTATA
6356746 TAGATCAAGAAAAACAAAGT-TTGGATC
1 TAGATCAAGAAAAACAAAGTATTGGA-C
* *
6356773 TAGATCGAGGAAAAATAAAGTATTGGAC
1 TAGATC-AAGAAAAACAAAGTATTGGAC
6356801 TAG-TCAA
1 TAGATCAA
6356808 AACATTTCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 1 0.03
27 8 0.27
28 16 0.53
29 5 0.17
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.23
Consensus pattern (27 bp):
TAGATCAAGAAAAACAAAGTATTGGAC
Found at i:6359333 original size:4 final size:4
Alignment explanation
Indices: 6359324--6359537 Score: 360
Period size: 4 Copynumber: 54.0 Consensus size: 4
6359314 TTACTACCAA
*
6359324 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
6359372 AATG AATG AATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
6359420 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
6359468 TATG --TG TGTG TGTG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
6359514 TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG
6359538 AACATAGTTA
Statistics
Matches: 203, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
2 2 0.01
4 201 0.99
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:6360506 original size:17 final size:18
Alignment explanation
Indices: 6360469--6360509 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6360459 ATAAGTCTTC
*
6360469 AAAAAT-AAATAAGAGAT
1 AAAAATAAAATAAGAAAT
6360486 -AAAATAAAATAA-AAAT
1 AAAAATAAAATAAGAAAT
6360502 AAAAATAA
1 AAAAATAA
6360510 TAGTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAAATAAAATAAGAAAT
Found at i:6362152 original size:17 final size:18
Alignment explanation
Indices: 6362103--6362164 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
6362093 CTCCAAATCA
*
6362103 AAATAATAAACATAAAT-G
1 AAATAAAAAACA-AAATAG
* *
6362121 AAAGAAAGTAAACAAAA-AT
1 AAATAAA--AAACAAAATAG
6362140 AAATAAAAAACAAAATAG
1 AAATAAAAAACAAAATAG
6362158 AAATAAA
1 AAATAAA
6362165 GTGAAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 8 0.23
18 13 0.37
19 9 0.26
20 5 0.14
ACGTcount: A:0.74, C:0.05, G:0.06, T:0.15
Consensus pattern (18 bp):
AAATAAAAAACAAAATAG
Found at i:6362163 original size:22 final size:23
Alignment explanation
Indices: 6362136--6362178 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6362126 AAGTAAACAA
6362136 AAATAAA-TAAAAAACAAAATAG
1 AAATAAAGTAAAAAACAAAATAG
* *
6362158 AAATAAAGTGAAAAATAAAAT
1 AAATAAAGTAAAAAACAAAAT
6362179 TTAAGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.16
Consensus pattern (23 bp):
AAATAAAGTAAAAAACAAAATAG
Found at i:6378413 original size:16 final size:16
Alignment explanation
Indices: 6378394--6378428 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6378384 CATGGAAAAG
6378394 AAAAGAAAAAATAATA
1 AAAAGAAAAAATAATA
* *
6378410 AAAATAAAATATAATA
1 AAAAGAAAAAATAATA
6378426 AAA
1 AAA
6378429 TAAATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAAGAAAAAATAATA
Found at i:6383395 original size:22 final size:21
Alignment explanation
Indices: 6383371--6383417 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
6383361 TTATTTTTAT
6383371 TTTTATC-TTATTATTAGTTCA
1 TTTTATCATTATTATTA-TTCA
*
6383392 TTTTCTCATTATTATTATTCA
1 TTTTATCATTATTATTATTCA
6383413 GTTTT
1 -TTTT
6383418 GGACTGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.21, C:0.11, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTTATCATTATTATTATTCA
Found at i:6393870 original size:31 final size:31
Alignment explanation
Indices: 6393825--6393883 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
6393815 CACATGGACG
*
6393825 TGGGAAAAGCGAACGAAGCTAGATACGGGCA
1 TGGGAAAAGCGAACGAAGCTAGACACGGGCA
* *
6393856 TGGGAGAAGTGAACGAAGCTAGACACGG
1 TGGGAAAAGCGAACGAAGCTAGACACGG
6393884 TTGTGCGGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.37, T:0.10
Consensus pattern (31 bp):
TGGGAAAAGCGAACGAAGCTAGACACGGGCA
Found at i:6398981 original size:40 final size:40
Alignment explanation
Indices: 6398898--6399043 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
6398888 TTGAATGATG
* * * *
6398898 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
6398938 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
6398978 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
6399019 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
6399044 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 80 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:6399061 original size:80 final size:81
Alignment explanation
Indices: 6398898--6399078 Score: 183
Period size: 80 Copynumber: 2.3 Consensus size: 81
6398888 TTGAATGATG
* * *
6398898 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGTATTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATT
** *
6398962 TGTGCGAGTTACTAAA
66 TGAACGAGTGACTAAA
* * * * *
6398978 TCCGGGTTAAGTCCCGAAGGTATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGTATTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
6399041 TTGAACGAG-GAGCTATA
65 TTGAACGAGTGA-CTAAA
* *
6399058 TCC-GGTTAAATTCCGAAGGTA
1 TCCGGGTTAAGTCCCGAAGGTA
6399079 CGTGATTTGG
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
79 18 0.21
80 59 0.70
81 7 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGTATTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATT
TGAACGAGTGACTAAA
Found at i:6401191 original size:25 final size:26
Alignment explanation
Indices: 6401163--6401211 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
6401153 TCTCATCCCA
6401163 ATTTTACCCCT-ATAAAATTTTGACG
1 ATTTTACCCCTGATAAAATTTTGACG
* *
6401188 ATTTTATCCCTGGTAAAATTTTGA
1 ATTTTACCCCTGATAAAATTTTGA
6401212 GAAAGTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (26 bp):
ATTTTACCCCTGATAAAATTTTGACG
Found at i:6405590 original size:16 final size:16
Alignment explanation
Indices: 6405569--6405599 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6405559 GTACCCAACA
6405569 GAAGAAAATATAAGGT
1 GAAGAAAATATAAGGT
6405585 GAAGAAAATATAAGG
1 GAAGAAAATATAAGG
6405600 ATCATACCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (16 bp):
GAAGAAAATATAAGGT
Found at i:6407711 original size:26 final size:26
Alignment explanation
Indices: 6407589--6407711 Score: 73
Period size: 26 Copynumber: 5.0 Consensus size: 26
6407579 AGTTAAAAGT
* *
6407589 TCTTTGTGAACTTCCTGAT-TATGGC
1 TCTTTGTGAGCTTCCTGTTATATGGC
* * *
6407614 TC-TTATGAGCTTCCTATTATATAGC
1 TCTTTGTGAGCTTCCTGTTATATGGC
** *
6407639 -C-CAGATAAGCTTCCTG--ATA-GGC
1 TCTTTG-TGAGCTTCCTGTTATATGGC
* * *
6407661 TTTTTGTGAGCTACCCGATTA-ATGGC
1 TCTTTGTGAGCTTCCTG-TTATATGGC
6407687 TCTTTGTGAGCTTCCTGTTATATGG
1 TCTTTGTGAGCTTCCTGTTATATGG
6407712 TTGAGAGAGG
Statistics
Matches: 69, Mismatches: 20, Indels: 17
0.65 0.19 0.16
Matches are distributed among these distances:
22 2 0.03
23 11 0.16
24 14 0.20
25 20 0.29
26 22 0.32
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (26 bp):
TCTTTGTGAGCTTCCTGTTATATGGC
Found at i:6411961 original size:22 final size:22
Alignment explanation
Indices: 6411933--6411977 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6411923 GGCCCAATGA
6411933 ACCATGGACTTAGTTTTCCTTT
1 ACCATGGACTTAGTTTTCCTTT
6411955 ACCATGGACTTAGTTTTCCTTT
1 ACCATGGACTTAGTTTTCCTTT
6411977 A
1 A
6411978 TGATCAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (22 bp):
ACCATGGACTTAGTTTTCCTTT
Found at i:6423685 original size:17 final size:18
Alignment explanation
Indices: 6423665--6423699 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6423655 TTCTTTTCAT
6423665 TTTGGT-TTTGCATGAGC
1 TTTGGTATTTGCATGAGC
6423682 TTTGGTAATTTGCATGAG
1 TTTGGT-ATTTGCATGAG
6423700 GTCGTGCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.17, C:0.09, G:0.29, T:0.46
Consensus pattern (18 bp):
TTTGGTATTTGCATGAGC
Found at i:6427615 original size:48 final size:48
Alignment explanation
Indices: 6427410--6427637 Score: 196
Period size: 48 Copynumber: 4.8 Consensus size: 48
6427400 TTTGGATGAT
* * ** *
6427410 ATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAC
* * * * *
6427458 ATGTGCA-CTAGTCTAAGACCATGTCTGAGACATGGCATCGGC--CACC
1 ATGAG-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAC
* * *
6427504 TTATGAGAGCCAATGTAAGACCATGTCTGGGACATGACATCGGCAATGAGAC
1 --ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATCA-AC
* ** *
6427556 --GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACCTCAAC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAC
* * *
6427602 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
6427638 TTTGGCAATT
Statistics
Matches: 141, Mismatches: 29, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
46 2 0.01
47 3 0.02
48 134 0.95
51 1 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAC
Found at i:6427645 original size:96 final size:96
Alignment explanation
Indices: 6427410--6427646 Score: 269
Period size: 96 Copynumber: 2.5 Consensus size: 96
6427400 TTTGGATGAT
* * * * * *
6427410 ATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGCACTAGTCTAAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGAGACGAGCACTAGTCTAAG
** ***
6427475 ACCATGTCTGAGACATGGCATCGGCCACCTT
66 ACCATGTCTGAGACATGGCATCAACCACAAC
* * *
6427506 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGACATCGGCAATGAGACGAG-AGCTAGTGTAA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGAGACGAGCA-CTAGTCTAA
* *
6427570 GACCATGTCTGGGACATGGCATCAACCTCAAC
65 GACCATGTCTGAGACATGGCATCAACCACAAC
* * * * *
6427602 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCTTTGGCAAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAAT
6427647 TCACCCTCTT
Statistics
Matches: 117, Mismatches: 23, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
95 1 0.01
96 116 0.99
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (96 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGAGACGAGCACTAGTCTAAG
ACCATGTCTGAGACATGGCATCAACCACAAC
Found at i:6428859 original size:20 final size:21
Alignment explanation
Indices: 6428820--6428859 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6428810 GTGAGTAAGA
6428820 CACACAGGCATGTCGCCCTTC
1 CACACAGGCATGTCGCCCTTC
*
6428841 CACACAGGCGTGT-GCCCTT
1 CACACAGGCATGTCGCCCTT
6428860 GTCAGCTTGA
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:0.17, C:0.40, G:0.23, T:0.20
Consensus pattern (21 bp):
CACACAGGCATGTCGCCCTTC
Found at i:6429156 original size:55 final size:55
Alignment explanation
Indices: 6429070--6429179 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
6429060 AAATTATAGA
*
6429070 TTGCAAATTAATTATTCATGAGCACTATTCAAATTAAAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATC
*
6429125 TTGCAAATTAATTATTCATAAGCACTGTTCAAATTAAAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATC
6429180 CAATGGATAC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (55 bp):
TTGCAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATC
Found at i:6431106 original size:77 final size:77
Alignment explanation
Indices: 6431014--6431167 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
6431004 TAACTTTTTG
6431014 ACATGATTTGGTACTTTAATTAATTTTTTATAATGTCACTAATTAGCTCAAATACATTATTTATT
1 ACATGATTTGGTACTTTAATTAATTTTTTATAATGTCACTAATTAGCTCAAATACATTATTTATT
6431079 AAAATGCTTATT
66 AAAATGCTTATT
6431091 ACATGATTTGGTACTTTAATTAATTTTTTATAATGTCACTAATTAGCTCAAATACATTATTTATT
1 ACATGATTTGGTACTTTAATTAATTTTTTATAATGTCACTAATTAGCTCAAATACATTATTTATT
6431156 AAAATGCTTATT
66 AAAATGCTTATT
6431168 TAACTTTTAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (77 bp):
ACATGATTTGGTACTTTAATTAATTTTTTATAATGTCACTAATTAGCTCAAATACATTATTTATT
AAAATGCTTATT
Found at i:6432629 original size:16 final size:17
Alignment explanation
Indices: 6432589--6432629 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
6432579 AAACCGAATG
*
6432589 ATCTGATTGTTTGACAT
1 ATCTGATTGTTGGACAT
6432606 ATCTGATTGTTGGACAT
1 ATCTGATTGTTGGACAT
6432623 A-CTGATT
1 ATCTGATT
6432630 TGATTAGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (17 bp):
ATCTGATTGTTGGACAT
Found at i:6447112 original size:11 final size:12
Alignment explanation
Indices: 6447075--6447104 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6447065 TTATAAATAA
6447075 AAAT-TAATAGC
1 AAATATAATAGC
6447086 AAATATAATAGC
1 AAATATAATAGC
6447098 AAATATA
1 AAATATA
6447105 TAGTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (12 bp):
AAATATAATAGC
Found at i:6447612 original size:25 final size:24
Alignment explanation
Indices: 6447573--6447620 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
6447563 AATTGAAATC
6447573 TATTTTTTTTATTTAAT-ATATAAT
1 TATTTTTTTTATTT-ATGATATAAT
*
6447597 TATTTTTTATTTTTTATGATATAA
1 TATTTTTT-TTATTTATGATATAA
6447621 AATAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TATTTTTTTTATTTATGATATAAT
Found at i:6449080 original size:17 final size:18
Alignment explanation
Indices: 6449054--6449122 Score: 74
Period size: 17 Copynumber: 4.1 Consensus size: 18
6449044 TCGCAGAGAG
*
6449054 TAACAGTTCATATGAA-A
1 TAACAGTTCATATCAATA
*
6449071 TAATAGTTCATA-CAATA
1 TAACAGTTCATATCAATA
*
6449088 TAACAGTTCATAT-AACA
1 TAACAGTTCATATCAATA
*
6449105 TAACATTTCATA-CAATA
1 TAACAGTTCATATCAATA
6449122 T
1 T
6449123 CATAACTCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
16 2 0.05
17 41 0.95
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (18 bp):
TAACAGTTCATATCAATA
Found at i:6449097 original size:34 final size:34
Alignment explanation
Indices: 6449054--6449122 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
6449044 TCGCAGAGAG
*
6449054 TAACAGTTCATATGAA-ATAATAGTTCATACAATA
1 TAACAGTTCATAT-AACATAACAGTTCATACAATA
*
6449088 TAACAGTTCATATAACATAACATTTCATACAATA
1 TAACAGTTCATATAACATAACAGTTCATACAATA
6449122 T
1 T
6449123 CATAACTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 2 0.06
34 30 0.94
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (34 bp):
TAACAGTTCATATAACATAACAGTTCATACAATA
Found at i:6449562 original size:14 final size:14
Alignment explanation
Indices: 6449524--6449568 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
6449514 GCATAATTTG
*
6449524 CAATTCATAATTCA
1 CAATTCATAGTTCA
*
6449538 CAACATCATAGTTCA
1 CAA-TTCATAGTTCA
6449553 CAATTCATAGTTCA
1 CAATTCATAGTTCA
6449567 CA
1 CA
6449569 TTAGCACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.31
Consensus pattern (14 bp):
CAATTCATAGTTCA
Found at i:6449985 original size:34 final size:34
Alignment explanation
Indices: 6449911--6450000 Score: 101
Period size: 34 Copynumber: 2.6 Consensus size: 34
6449901 GTTCGCACCA
* * * *
6449911 TGGTACGGTTCGCACAATGTTATGACTCGCACAC
1 TGGTAAGGTTCGCACTATGGTATGACTAGCACAC
* *
6449945 TAGTAAGGTTCGCACTATGGTATGGCTAGCACAAC
1 TGGTAAGGTTCGCACTATGGTATGACTAGCAC-AC
*
6449980 -GGTAAGGTTCACACTATGGTA
1 TGGTAAGGTTCGCACTATGGTA
6450001 GGGGTTAGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 45 0.96
35 2 0.04
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (34 bp):
TGGTAAGGTTCGCACTATGGTATGACTAGCACAC
Found at i:6450021 original size:19 final size:19
Alignment explanation
Indices: 6449991--6450039 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
6449981 GTAAGGTTCA
6449991 CACTAT-GGTAGGGGTTAG
1 CACTATAGGTAGGGGTTAG
*
6450009 CACTATAGGTA-GGGTTCG
1 CACTATAGGTAGGGGTTAG
*
6450027 CACTTTAGGTAGG
1 CACTATAGGTAGG
6450040 AGTTTGCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.22, C:0.14, G:0.35, T:0.29
Consensus pattern (19 bp):
CACTATAGGTAGGGGTTAG
Found at i:6450332 original size:22 final size:22
Alignment explanation
Indices: 6450306--6450413 Score: 137
Period size: 22 Copynumber: 4.8 Consensus size: 22
6450296 ACAAGGTTTG
6450306 CATATCATTCAACATAGGTTCA
1 CATATCATTCAACATAGGTTCA
* *
6450328 TATATCATTCAACATAGCATGTTCG
1 CATATCATTCAACATAG---GTTCA
* *
6450353 TATA-CAATTCAACATAAGTTCA
1 CATATC-ATTCAACATAGGTTCA
6450375 CATATCATTCAACATAGGTTCA
1 CATATCATTCAACATAGGTTCA
6450397 CATATCATTCAACATAG
1 CATATCATTCAACATAG
6450414 CATGTTCGTA
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
22 55 0.73
23 1 0.01
24 1 0.01
25 18 0.24
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (22 bp):
CATATCATTCAACATAGGTTCA
Found at i:6450343 original size:47 final size:46
Alignment explanation
Indices: 6450291--6450413 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 46
6450281 CTCGCATGCT
* *
6450291 AACATACAAGGTTTGCATATCATTCAACATAGGTTCATATATCATTC
1 AACATAC-AGGTTCGCATATCATTCAACATAGGTTCACATATCATTC
* * *
6450338 AACATAGCATGTTCGTATA-CAATTCAACATAAGTTCACATATCATTC
1 AACATA-CAGGTTCGCATATC-ATTCAACATAGGTTCACATATCATTC
*
6450385 AACAT--AGGTTCACATATCATTCAACATAG
1 AACATACAGGTTCGCATATCATTCAACATAG
6450414 CATGTTCGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
44 18 0.28
45 1 0.02
46 1 0.02
47 43 0.67
48 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (46 bp):
AACATACAGGTTCGCATATCATTCAACATAGGTTCACATATCATTC
Found at i:6450492 original size:18 final size:18
Alignment explanation
Indices: 6450471--6450517 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
6450461 AGGATTCGCA
6450471 TATTAACAAGGGGTTGCT
1 TATTAACAAGGGGTTGCT
6450489 TATTAACAAGGGGTTGCT
1 TATTAACAAGGGGTTGCT
6450507 TATTAACAAGG
1 TATTAACAAGG
6450518 CAGTGTTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (18 bp):
TATTAACAAGGGGTTGCT
Found at i:6455232 original size:3 final size:3
Alignment explanation
Indices: 6455224--6455256 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6455214 TCAAGTCATC
6455224 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6455257 GTTGTAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6456024 original size:22 final size:22
Alignment explanation
Indices: 6455980--6456032 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
6455970 AAACAATAAA
* * * *
6455980 AACAAAATAATAGTAATATAAT
1 AACAAAATGATAGCAAAACAAT
6456002 AACAAAATGATAGCAAAACAAT
1 AACAAAATGATAGCAAAACAAT
*
6456024 ATCAAAATG
1 AACAAAATG
6456033 GCAGCAAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.62, C:0.09, G:0.08, T:0.21
Consensus pattern (22 bp):
AACAAAATGATAGCAAAACAAT
Found at i:6456038 original size:22 final size:22
Alignment explanation
Indices: 6455999--6456040 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6455989 ATAGTAATAT
*
6455999 AATAACAAAATGATAGCAAAAC
1 AATAACAAAATGACAGCAAAAC
* *
6456021 AATATCAAAATGGCAGCAAA
1 AATAACAAAATGACAGCAAA
6456041 CAGCAGCTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.14, G:0.12, T:0.14
Consensus pattern (22 bp):
AATAACAAAATGACAGCAAAAC
Found at i:6456767 original size:13 final size:13
Alignment explanation
Indices: 6456751--6456794 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
6456741 AAAATCTATT
6456751 AAAAAAAGTTTAA
1 AAAAAAAGTTTAA
6456764 AAAAAAAGTTAATAA
1 AAAAAAAGTT--TAA
6456779 TAAAAAAA-TTTAA
1 -AAAAAAAGTTTAA
6456792 AAA
1 AAA
6456795 TATAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
15 5 0.18
16 7 0.25
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (13 bp):
AAAAAAAGTTTAA
Found at i:6460565 original size:5 final size:5
Alignment explanation
Indices: 6460555--6460588 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
6460545 AATATAAATT
6460555 TATTA TATTA TATTA TATTA TATTA TATTA TATT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATT
6460589 CATAATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:6465534 original size:25 final size:25
Alignment explanation
Indices: 6465505--6465592 Score: 63
Period size: 25 Copynumber: 3.5 Consensus size: 25
6465495 AAACGGCAAT
* *
6465505 CTCATGTGAGCTGGATAAT-GGGAAG
1 CTCATGCGAGCTGGA-AATCGGAAAG
* *
6465530 CTCATACGAGCTGTAAATCGGAAAG
1 CTCATGCGAGCTGGAAATCGGAAAG
* * * *
6465555 CTCATGCAATCT-TAATAACGGAAAG
1 CTCATGCGAGCTGGAA-ATCGGAAAG
*
6465580 CTCATACGAGCTG
1 CTCATGCGAGCTG
6465593 TGGTGTGTCT
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
24 6 0.12
25 43 0.88
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (25 bp):
CTCATGCGAGCTGGAAATCGGAAAG
Found at i:6473260 original size:12 final size:12
Alignment explanation
Indices: 6473243--6473269 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6473233 GTTTGAATAC
6473243 ATTAAAATTCTT
1 ATTAAAATTCTT
6473255 ATTAAAATTCTT
1 ATTAAAATTCTT
6473267 ATT
1 ATT
6473270 TGTCACGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTAAAATTCTT
Found at i:6475730 original size:27 final size:27
Alignment explanation
Indices: 6475690--6475742 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
6475680 TTGAAGTATA
* * *
6475690 TTTTTTTTCTCATTTTGATATCTAAAC
1 TTTTTTATCCCATTTTAATATCTAAAC
6475717 TTTTTTATCCCATTTTAATATCTAAA
1 TTTTTTATCCCATTTTAATATCTAAA
6475743 GTATCAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.15, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTTTTATCCCATTTTAATATCTAAAC
Found at i:6476041 original size:27 final size:27
Alignment explanation
Indices: 6476012--6476063 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
6476002 AAAATGTAAA
*
6476012 AAAATTATAT-ATAATATATAATTTTT
1 AAAATTATATAAAAATATATAATTTTT
* *
6476038 AAAATTTTTTAAAAATATATAATTTT
1 AAAATTATATAAAAATATATAATTTT
6476064 AAATTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
AAAATTATATAAAAATATATAATTTTT
Found at i:6476099 original size:20 final size:19
Alignment explanation
Indices: 6476070--6476114 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6476060 TTTTAAATTT
6476070 TAAAAA-TC-AAAATAATATA
1 TAAAAATTCAAAAAT-AT-TA
6476089 TAAAAATTCAAAAATATTA
1 TAAAAATTCAAAAATATTA
6476108 TAAAAAT
1 TAAAAAT
6476115 AAATTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 15 0.62
20 4 0.17
21 5 0.21
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAAAATTCAAAAATATTA
Found at i:6476143 original size:233 final size:240
Alignment explanation
Indices: 6475882--6476362 Score: 615
Period size: 233 Copynumber: 2.0 Consensus size: 240
6475872 AAAAAGTAGA
* *
6475882 AAATTATAATATTAAATATTTGAATATTAAAA-A-AATGATTTTGACTAATCAAT-CCCGGCCAC
1 AAATTATAATATTAAATATTTAAATATTAAAACACAATGATTTTGACAAATCAATGCCCGGCCAC
* * *
6475944 ATGGTGTTATTGTCTTTTTTTTTTAATTTTTTTAGTATTATATATATTATATTAATTAAAAATGT
66 ATGGCGCTATTGTC---CTTTTTTAATTTTTTTAGTATTATATATATTATATTAATTAAAAATGT
* *
6476009 AAAAAAATTATATATAATATAT-A-ATTTTT-AAAAT-T-T-TTTA-AAAATATATAATTTTAAA
128 -AAAAAATCATATATAATATATAATATTTTTAAAAATATATATTTATAAAATATATAATTTAAAA
*
6476067 TTTTAAAAA-TCAAAATAATATATAAAAATTCAAAAATATTATAAAAAT
192 TTTTAAAAAGTCAAAATAATATATAAAAATTAAAAAATATTATAAAAAT
** ***
6476115 AAATTATAATATTAAATATTTAAATATTAAAACACTTTTGATTTTGACAAATCAATGGTTGGCCA
1 AAATTATAATATTAAATATTTAAATATTAAAACAC-AATGATTTTGACAAATCAATGCCCGGCCA
* * *
6476180 CGTGGCGCTATTGTCCTTTTTTATTTTTTTTAGTATTATATATATTATATTGATTAAAAATGTAA
65 CATGGCGCTATTGTCCTTTTTTAATTTTTTTAGTATTATATATATTATATTAATTAAAAATGTAA
*
6476245 AATATCATATATAATATATAATATTTTTAAAAAATAAAAATAAAATATTTATAAAATATATAATT
130 AAAATCATATATAATATATAATATTTTT-AAAAAT----AT---ATATTTATAAAATATATAATT
6476310 TAAAATTTTAAAAAGTCAAAATAATATATAAAAATTAAAAAATATTATAAAAA
187 TAAAATTTTAAAAAGTCAAAATAATATATAAAAATTAAAAAATATTATAAAAA
6476363 AGTAATTAAA
Statistics
Matches: 211, Mismatches: 17, Indels: 24
0.84 0.07 0.10
Matches are distributed among these distances:
233 50 0.24
234 47 0.22
235 6 0.03
236 17 0.08
237 22 0.10
242 1 0.00
246 1 0.00
247 4 0.02
248 26 0.12
249 37 0.18
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (240 bp):
AAATTATAATATTAAATATTTAAATATTAAAACACAATGATTTTGACAAATCAATGCCCGGCCAC
ATGGCGCTATTGTCCTTTTTTAATTTTTTTAGTATTATATATATTATATTAATTAAAAATGTAAA
AAATCATATATAATATATAATATTTTTAAAAATATATATTTATAAAATATATAATTTAAAATTTT
AAAAAGTCAAAATAATATATAAAAATTAAAAAATATTATAAAAAT
Found at i:6476319 original size:24 final size:24
Alignment explanation
Indices: 6476251--6476323 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
6476241 GTAAAATATC
*
6476251 ATATATAATATATAATATTTT-TAAA
1 ATATATAAT-T-TAAAATTTTATAAA
* **
6476276 AAATA-AAAATAAAATATTTATAAA
1 ATATATAATTTAAAAT-TTTATAAA
6476300 ATATATAATTTAAAATTTTA-AAA
1 ATATATAATTTAAAATTTTATAAA
6476323 A
1 A
6476324 GTCAAAATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
22 5 0.13
23 7 0.18
24 14 0.37
25 12 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATATAATTTAAAATTTTATAAA
Found at i:6476343 original size:20 final size:19
Alignment explanation
Indices: 6476318--6476362 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
6476308 TTTAAAATTT
6476318 TAAAAAGTCAAAATAATA-TA
1 TAAAAA-TCAAAA-AATATTA
*
6476338 TAAAAATTAAAAAATATTA
1 TAAAAATCAAAAAATATTA
6476357 TAAAAA
1 TAAAAA
6476363 AGTAATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 13 0.57
20 6 0.26
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
TAAAAATCAAAAAATATTA
Found at i:6476479 original size:27 final size:30
Alignment explanation
Indices: 6476429--6476495 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 30
6476419 GAATTATGTA
*
6476429 TTTTAGAATTTTATATAAAAA-TTTA-ATT
1 TTTTATAATTTTATATAAAAATTTTATATT
6476457 TTTTATAATTTT-TA-AAAATATTTTATATT
1 TTTTATAATTTTATATAAAA-ATTTTATATT
6476486 TTTTAATAAT
1 TTTT-ATAAT
6476496 ATTGTTAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
26 4 0.12
27 3 0.09
28 15 0.44
29 7 0.21
30 5 0.15
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (30 bp):
TTTTATAATTTTATATAAAAATTTTATATT
Found at i:6476507 original size:19 final size:20
Alignment explanation
Indices: 6476460--6476507 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
6476450 TTTAATTTTT
* *
6476460 TATAATTTTTAAAAATATTT
1 TATAGTTTTTAAAAATATTG
* *
6476480 TATATTTTTTAATAATATTG
1 TATAGTTTTTAAAAATATTG
6476500 T-TAGTTTT
1 TATAGTTTT
6476508 AACTAATTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TATAGTTTTTAAAAATATTG
Found at i:6476507 original size:20 final size:20
Alignment explanation
Indices: 6476457--6476498 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
6476447 AAATTTAATT
*
6476457 TTTTATAATTTTTAAAAATA
1 TTTTATATTTTTTAAAAATA
*
6476477 TTTTATATTTTTTAATAATA
1 TTTTATATTTTTTAAAAATA
6476497 TT
1 TT
6476499 GTTAGTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTATATTTTTTAAAAATA
Found at i:6476611 original size:19 final size:19
Alignment explanation
Indices: 6476587--6476623 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6476577 TTATATATAT
6476587 TTTTATTTTTATACATTTA
1 TTTTATTTTTATACATTTA
*
6476606 TTTTATTTTTATATATTT
1 TTTTATTTTTATACATTT
6476624 TAATGTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTATTTTTATACATTTA
Found at i:6476640 original size:37 final size:36
Alignment explanation
Indices: 6476572--6476642 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 36
6476562 TATAAAAAAA
* * *
6476572 TTATTTTATATATATTTTTATTTTTATACATTTATT
1 TTATTTTATATATATTTTAATTTATAAACATTTATT
6476608 TTATTTT-TATATATTTTAATGTGTATAAACATTTA
1 TTATTTTATATATATTTTAAT-T-TATAAACATTTA
6476643 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 12 0.40
36 8 0.27
37 10 0.33
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (36 bp):
TTATTTTATATATATTTTAATTTATAAACATTTATT
Found at i:6479142 original size:18 final size:18
Alignment explanation
Indices: 6479119--6479154 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6479109 TACGAACACA
6479119 ACCCATTATTTTGTCAAT
1 ACCCATTATTTTGTCAAT
6479137 ACCCATTATTTTGTCAAT
1 ACCCATTATTTTGTCAAT
6479155 CCACTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (18 bp):
ACCCATTATTTTGTCAAT
Found at i:6480102 original size:18 final size:18
Alignment explanation
Indices: 6480079--6480116 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6480069 GCTTACACAT
6480079 ATATTT-CTTCATTTTCCA
1 ATATTTACTTC-TTTTCCA
*
6480097 ATATTTATTTCTTTTCCA
1 ATATTTACTTCTTTTCCA
6480115 AT
1 AT
6480117 TACCAAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATTTACTTCTTTTCCA
Found at i:6482111 original size:12 final size:12
Alignment explanation
Indices: 6482094--6482119 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6482084 ATTGTAACAA
6482094 CCCGATTTTGGG
1 CCCGATTTTGGG
6482106 CCCGATTTTGGG
1 CCCGATTTTGGG
6482118 CC
1 CC
6482120 TAATCGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.31, T:0.31
Consensus pattern (12 bp):
CCCGATTTTGGG
Found at i:6483376 original size:48 final size:47
Alignment explanation
Indices: 6483297--6483568 Score: 244
Period size: 48 Copynumber: 5.7 Consensus size: 47
6483287 TATGTATGCT
* * *
6483297 AGTGTAAGACCATGTTTGGAACATGGAATCGGCTATATTATGAGAGCA
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCTATA-TATGAGAGCC
* * * * *
6483345 AGTGCAAGACCATGTCTGGGACATGGCATCGGCGT-TGATATGTGCGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-TAT-ATATGAGAGCC
* * *
6483393 AGTGTAAGACCATGTTTGGGACATGGCGTCGGCCACAATATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCTA-TATATGAGAGCC
* * * * * * *
6483441 AGTGTATGACCATGTTTGGAACATGACATC-GATATTAAGACGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCTA-T-ATATGAGAGCC
** *
6483489 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTA-AGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGG-CTATATATG-AGAGCC
* *
6483537 AGTGTAAGACCATGTCTGAGACATGGCATCGG
1 AGTGTAAGACCATGTTTGGGACATGGCATCGG
6483569 TAATTTACTC
Statistics
Matches: 179, Mismatches: 37, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
47 2 0.01
48 172 0.96
49 4 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCTATATATGAGAGCC
Found at i:6483452 original size:96 final size:96
Alignment explanation
Indices: 6483284--6483568 Score: 322
Period size: 96 Copynumber: 3.0 Consensus size: 96
6483274 GACATTTGAG
* * * * * *
6483284 TGATATGT-ATGCTAGTGTAAGACCATGTTTGGAACATGGAATCGGCTATATTATGAGAGCAAGT
1 TGATATGTGA-GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAATATGAGAGCCAGT
* *
6483348 GCAAGACCATGTCTGGGACATGGCATCGGCGT
65 GTAAGACCATGTCTGGGACATGGCATCGGCAT
* *
6483380 TGATATGTGCGCTAGTGTAAGACCATGTTTGGGACATGGCGTCGGCCACAATATGAGAGCCAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAATATGAGAGCCAGTG
* * * * **
6483445 TATGACCATGTTTGGAACATGACATCGATAT
66 TAAGACCATGTCTGGGACATGGCATCGGCAT
* * * * * * *
6483476 TAAGACGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTA-AGCCAGT
1 TGATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAATATG-AGAGCCAGT
*
6483540 GTAAGACCATGTCTGAGACATGGCATCGG
65 GTAAGACCATGTCTGGGACATGGCATCGG
6483569 TAATTTACTC
Statistics
Matches: 156, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
96 155 0.99
97 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (96 bp):
TGATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAATATGAGAGCCAGTG
TAAGACCATGTCTGGGACATGGCATCGGCAT
Found at i:6483546 original size:144 final size:144
Alignment explanation
Indices: 6483297--6483568 Score: 359
Period size: 144 Copynumber: 1.9 Consensus size: 144
6483287 TATGTATGCT
* ** *
6483297 AGTGTAAGACCATGTTTGGAACATGGAATCGGCTATATTATGAGAGCAAGTGCAAGACCATGTCT
1 AGTGTAAGACCATGTTTGGAACATGGAATCGGATATAAGACGAGAGCAAGTGCAAGACCATGTCT
* * * ** * * * *
6483362 GGGACATGGCATCGGCGTTGATATGTGCGCTAGTGTAAGACCATGTTTGGGACATGGCGTCGGCC
66 GGGACATGGCATCGGCCTCGACATGTAAGCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCC
6483427 ACAATATGAGAGCC
131 ACAATATGAGAGCC
* * *
6483441 AGTGTATGACCATGTTTGGAACAT-GACATC-GATATTAAGACGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTTTGGAACATGGA-ATCGGATA-TAAGACGAGAGCAAGTGCAAGACCATGT
*
6483504 TTGGGACATGGCATCGGCCTCGACATGTAAGCCAGTGTAAGACCATGTCTGAGACATGGCATCGG
64 CTGGGACATGGCATCGGCCTCGACATGTAAGCCAGTGTAAGACCATGTCTGAGACATGGCATCGG
6483569 TAATTTACTC
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
143 5 0.05
144 104 0.95
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (144 bp):
AGTGTAAGACCATGTTTGGAACATGGAATCGGATATAAGACGAGAGCAAGTGCAAGACCATGTCT
GGGACATGGCATCGGCCTCGACATGTAAGCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCC
ACAATATGAGAGCC
Found at i:6492472 original size:48 final size:48
Alignment explanation
Indices: 6492420--6492686 Score: 277
Period size: 48 Copynumber: 5.6 Consensus size: 48
6492410 AGAGACAGTT
* *
6492420 TAAGATCATGT-TGAGGACATGGCATCGGTGTTGATATGTGCGCTAGTG
1 TAAGACCATGTCTG-GGACATGGCATCGGCGTTGATATGTGCGCTAGTG
* * *
6492468 TAAGACCATGTCTGGGACATGGCATTGGCGTTGATATGAGCGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAGTG
*
6492516 TAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGCGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAGTG
* * **** * * *
6492564 TAAGACCATGTCTGGGACATGGCGTCAGCCACAATATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAGTG
* * * * * * * * *
6492612 TAAGACCAT-TTTGGAACATGACATCGACATTGAGACGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAGTG
* *
6492659 TAAGACCATGTGTGGGGCATGGCATCGG
1 TAAGACCATGTCTGGGACATGGCATCGG
6492687 TAATTTACTC
Statistics
Matches: 182, Mismatches: 35, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
47 34 0.19
48 146 0.80
49 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAGTG
Found at i:6492520 original size:96 final size:96
Alignment explanation
Indices: 6492355--6492686 Score: 348
Period size: 96 Copynumber: 3.5 Consensus size: 96
6492345 GACATTTGAG
* * * * * *
6492355 TGATATGTGTGTTAGTGTAAGACCATGTTTGGAACATGACATCGGCCACATTATGAGAGACAGTT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGACAGTG
* * *
6492420 TAAGATCATGT-TGAGGACATGGCATCGGTGT
66 TAAGACCATGTCTG-GGACATGGCATCAGCGT
* *** * *
6492451 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCGTTGA-TATGAGCGCCAGT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGAGACAGT
6492515 GTAAGACCATGTCTGGGACATGGCATCAGCGT
65 GTAAGACCATGTCTGGGACATGGCATCAGCGT
* * * *
6492547 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCACAATATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGACAGTG
* * * *
6492612 TAAGACCAT-TTTGGAACATGACATC-GACAT
66 TAAGACCATGTCTGGGACATGGCATCAG-CGT
* * * * * *
6492642 TGAGACGAGAGCTAGTGTAAGACCATGTGTGGGGCATGGCATCGG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
6492687 TAATTTACTC
Statistics
Matches: 198, Mismatches: 34, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
94 1 0.01
95 53 0.27
96 141 0.71
97 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (96 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGACAGTG
TAAGACCATGTCTGGGACATGGCATCAGCGT
Found at i:6494747 original size:35 final size:35
Alignment explanation
Indices: 6494707--6494776 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
6494697 ACAACCCACA
6494707 CCACCCAATTATTCTTTGAAAGAGAATAAAGATGG
1 CCACCCAATTATTCTTTGAAAGAGAATAAAGATGG
6494742 CCACCCAATTATTCTTTGAAAGAGAATAAAGATGG
1 CCACCCAATTATTCTTTGAAAGAGAATAAAGATGG
6494777 TATTCTCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (35 bp):
CCACCCAATTATTCTTTGAAAGAGAATAAAGATGG
Found at i:6494848 original size:28 final size:29
Alignment explanation
Indices: 6494808--6494879 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
6494798 AAACGGTATT
* * * *
6494808 AAATGTAAAGAAAAGACATTAAGACA-TA
1 AAATGCAAGGAAAAAACATTAAAACATTA
* *
6494836 AAATGCATGGAAAAAACATTAAAACATTT
1 AAATGCAAGGAAAAAACATTAAAACATTA
6494865 AAATGCAAGGAAAAA
1 AAATGCAAGGAAAAA
6494880 GCTATTGTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 21 0.58
29 15 0.42
ACGTcount: A:0.60, C:0.08, G:0.14, T:0.18
Consensus pattern (29 bp):
AAATGCAAGGAAAAAACATTAAAACATTA
Found at i:6497747 original size:7 final size:7
Alignment explanation
Indices: 6497726--6497760 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
6497716 TATAGCTTCA
6497726 TATTACTT
1 TATTA-TT
6497734 T-TTATT
1 TATTATT
6497740 TATTATT
1 TATTATT
6497747 TATTATT
1 TATTATT
6497754 TATTATT
1 TATTATT
6497761 ACTCACGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 3 0.12
7 22 0.85
8 1 0.04
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (7 bp):
TATTATT
Found at i:6500413 original size:24 final size:25
Alignment explanation
Indices: 6500368--6500414 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
6500358 TATTTTTGAG
* *
6500368 TCTTTTTTTGCCATCAATTTTTTGT
1 TCTTTTTTTGCAATCAACTTTTTGT
*
6500393 TCTTTTTTT-CAATCTACTTTTT
1 TCTTTTTTTGCAATCAACTTTTT
6500415 CTAACAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.13, C:0.17, G:0.04, T:0.66
Consensus pattern (25 bp):
TCTTTTTTTGCAATCAACTTTTTGT
Found at i:6500601 original size:19 final size:19
Alignment explanation
Indices: 6500577--6500631 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
6500567 TTAGATTAAA
6500577 AAATAACTCATAATTATCT
1 AAATAACTCATAATTATCT
6500596 AAAT-A---A-AATTA---
1 AAATAACTCATAATTATCT
6500607 AAATAACTCATAATTATCT
1 AAATAACTCATAATTATCT
6500626 AAATAA
1 AAATAA
6500632 AATTAACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 4 0.14
12 1 0.04
14 5 0.18
15 2 0.07
16 5 0.18
18 1 0.04
19 10 0.36
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATAACTCATAATTATCT
Found at i:6500612 original size:30 final size:30
Alignment explanation
Indices: 6500576--6500637 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
6500566 ATTAGATTAA
6500576 AAAATAACTCATAATTATCTAAATAAAATT
1 AAAATAACTCATAATTATCTAAATAAAATT
6500606 AAAATAACTCATAATTATCTAAATAAAATT
1 AAAATAACTCATAATTATCTAAATAAAATT
6500636 AA
1 AA
6500638 CTCAGTAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAATAACTCATAATTATCTAAATAAAATT
Found at i:6503466 original size:44 final size:44
Alignment explanation
Indices: 6503367--6503527 Score: 214
Period size: 44 Copynumber: 3.5 Consensus size: 44
6503357 CTGATCACAT
6503367 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
6503411 TTATCACTTATCATTTGTCACTGATTAGATAAGTGTAGCTAAATCTACCAC
1 TTAT--C--A-C--TTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
6503462 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
6503506 TTATTACTTGTCACTGATCAGA
1 TTATCACTTGTCACTGATCAGA
6503528 AGTACTCAAA
Statistics
Matches: 103, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
44 58 0.56
46 2 0.02
47 1 0.01
48 1 0.01
49 2 0.02
51 39 0.38
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (44 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:6511213 original size:37 final size:37
Alignment explanation
Indices: 6511166--6511238 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
6511156 ATCACTTGTC
6511166 ACTGAGCAGATAAGTGTAGCTAAAGCTACCACTTATT
1 ACTGAGCAGATAAGTGTAGCTAAAGCTACCACTTATT
* *
6511203 ACTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 ACTGAGCAGATAAGTGTAGCTAAAGCTACCACTTAT
6511239 CACTTGTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (37 bp):
ACTGAGCAGATAAGTGTAGCTAAAGCTACCACTTATT
Found at i:6511241 original size:7 final size:7
Alignment explanation
Indices: 6511229--6511263 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
6511219 TAGCTAAAGC
6511229 TATCACT
1 TATCACT
6511236 TATCACT
1 TATCACT
*
6511243 TGTCACT
1 TATCACT
*
6511250 TGTCACT
1 TATCACT
6511257 TATCACT
1 TATCACT
6511264 GATTAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.43
Consensus pattern (7 bp):
TATCACT
Found at i:6511265 original size:58 final size:58
Alignment explanation
Indices: 6511195--6511307 Score: 181
Period size: 58 Copynumber: 1.9 Consensus size: 58
6511185 CTAAAGCTAC
* *
6511195 CACTTATTACTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTGTCACTTGT
1 CACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGT
* * *
6511253 CACTTATCACTGATTAGATAAGTGTAGCTGAGGCTACCACTTATCACTTGTCACT
1 CACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACT
6511308 GATCAGAAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (58 bp):
CACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGT
Found at i:6512818 original size:442 final size:442
Alignment explanation
Indices: 6511994--6512880 Score: 1774
Period size: 442 Copynumber: 2.0 Consensus size: 442
6511984 ATGGTTTTCC
6511994 AAAGTCAGAATAGGGGAACCCGAAATCATTCTGACATTGTCTCACAAAATCTATTATATCTCATG
1 AAAGTCAGAATAGGGGAACCCGAAATCATTCTGACATTGTCTCACAAAATCTATTATATCTCATG
6512059 ATCTACAATTTCATTGCTTACACTGTTTCTTCTATAAGAAACTAGACTCAATAAGCTTTAATTTC
66 ATCTACAATTTCATTGCTTACACTGTTTCTTCTATAAGAAACTAGACTCAATAAGCTTTAATTTC
6512124 ATATTTTGTTCATCTTCTAATTCGATTTTTACAATTTATGGTGATTTTTCAAAGTTAGACTACTG
131 ATATTTTGTTCATCTTCTAATTCGATTTTTACAATTTATGGTGATTTTTCAAAGTTAGACTACTG
6512189 TTGCTGTCCAAAACTGTTTTAGTGCAAATATTGATTTCGATTTTTTCCCCAAATTTCACAGTTCA
196 TTGCTGTCCAAAACTGTTTTAGTGCAAATATTGATTTCGATTTTTTCCCCAAATTTCACAGTTCA
6512254 TACAATTCAGTCCTTGCTCAATTAATTCCTCAATGAAGCTAAATTTTCCTAATTAATGCTTTACC
261 TACAATTCAGTCCTTGCTCAATTAATTCCTCAATGAAGCTAAATTTTCCTAATTAATGCTTTACC
6512319 TAGACATTATATGTTATTTCACAATTATTTAAATTCATAATTTCCACATAAAACCCTAACTTCAA
326 TAGACATTATATGTTATTTCACAATTATTTAAATTCATAATTTCCACATAAAACCCTAACTTCAA
6512384 ACTCTTTCACCATTAGGTCCCAAACATTCACTTTCTATTCAATTCTTTCAAT
391 ACTCTTTCACCATTAGGTCCCAAACATTCACTTTCTATTCAATTCTTTCAAT
6512436 AAAGTCAGAATAGGGGAACCCGAAATCATTCTGACATTGTCTCACAAAATCTATTATATCTCATG
1 AAAGTCAGAATAGGGGAACCCGAAATCATTCTGACATTGTCTCACAAAATCTATTATATCTCATG
6512501 ATCTACAATTTCATTGCTTACACTGTTTCTTCTATAAGAAACTAGACTCAATAAGCTTTAATTTC
66 ATCTACAATTTCATTGCTTACACTGTTTCTTCTATAAGAAACTAGACTCAATAAGCTTTAATTTC
6512566 ATATTTTGTTCATCTTCTAATTCGATTTTTACAATTTATGGTGATTTTTCAAAGTTAGACTACTG
131 ATATTTTGTTCATCTTCTAATTCGATTTTTACAATTTATGGTGATTTTTCAAAGTTAGACTACTG
6512631 TTGCTGTCCAAAACTGTTTTAGTGCAAATATTGATTTCGATTTTTTCCCCAAATTTCACAGTTCA
196 TTGCTGTCCAAAACTGTTTTAGTGCAAATATTGATTTCGATTTTTTCCCCAAATTTCACAGTTCA
6512696 TACAATTCAGTCCTTGCTCAATTAATTCCTCAATGAAGCTAAATTTTCCTAATTAATGCTTTACC
261 TACAATTCAGTCCTTGCTCAATTAATTCCTCAATGAAGCTAAATTTTCCTAATTAATGCTTTACC
6512761 TAGACATTATATGTTATTTCACAATTATTTAAATTCATAATTTCCACATAAAACCCTAACTTCAA
326 TAGACATTATATGTTATTTCACAATTATTTAAATTCATAATTTCCACATAAAACCCTAACTTCAA
6512826 ACTCTTTCACCATTAGGTCCCAAACATTCACTTTCTATTCAATTCTTTCAAT
391 ACTCTTTCACCATTAGGTCCCAAACATTCACTTTCTATTCAATTCTTTCAAT
6512878 AAA
1 AAA
6512881 ATCAACATAT
Statistics
Matches: 445, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
442 445 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (442 bp):
AAAGTCAGAATAGGGGAACCCGAAATCATTCTGACATTGTCTCACAAAATCTATTATATCTCATG
ATCTACAATTTCATTGCTTACACTGTTTCTTCTATAAGAAACTAGACTCAATAAGCTTTAATTTC
ATATTTTGTTCATCTTCTAATTCGATTTTTACAATTTATGGTGATTTTTCAAAGTTAGACTACTG
TTGCTGTCCAAAACTGTTTTAGTGCAAATATTGATTTCGATTTTTTCCCCAAATTTCACAGTTCA
TACAATTCAGTCCTTGCTCAATTAATTCCTCAATGAAGCTAAATTTTCCTAATTAATGCTTTACC
TAGACATTATATGTTATTTCACAATTATTTAAATTCATAATTTCCACATAAAACCCTAACTTCAA
ACTCTTTCACCATTAGGTCCCAAACATTCACTTTCTATTCAATTCTTTCAAT
Found at i:6513369 original size:17 final size:17
Alignment explanation
Indices: 6513319--6513369 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
6513309 CATTTAAGCT
6513319 ATTTAATCATTTTTCATA
1 ATTTAATCATTTTT-ATA
*
6513337 ATTTTA-CATTTGTTATA
1 ATTTAATCATTT-TTATA
*
6513354 ATTTAATCCTTTTTAT
1 ATTTAATCATTTTTAT
6513370 TCAATTAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTTAATCATTTTTATA
Found at i:6517794 original size:29 final size:30
Alignment explanation
Indices: 6517760--6517830 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
6517750 TATTATAGAG
* *
6517760 AATGAATCAAATTAG-TCTTTTTATTATT-A
1 AATGAATCAAATTAGTTC-TTATACTATTAA
* *
6517789 AATGAATTAATTTAGTTCTTATACTATTAA
1 AATGAATCAAATTAGTTCTTATACTATTAA
*
6517819 AAAGAATCAAAT
1 AATGAATCAAAT
6517831 ATGTTCAAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (30 bp):
AATGAATCAAATTAGTTCTTATACTATTAA
Found at i:6518359 original size:30 final size:30
Alignment explanation
Indices: 6518325--6518386 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
6518315 CTTAACAAGT
*
6518325 AAATGCCTCTAAAATAAAAATAAAATTAAC
1 AAATGCCTCTAAAATAAAAACAAAATTAAC
* * *
6518355 AAATGTCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAAAAACAAAATTAAC
6518385 AA
1 AA
6518387 CAAAATAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.11, G:0.03, T:0.26
Consensus pattern (30 bp):
AAATGCCTCTAAAATAAAAACAAAATTAAC
Found at i:6521230 original size:407 final size:407
Alignment explanation
Indices: 6520475--6521290 Score: 1623
Period size: 407 Copynumber: 2.0 Consensus size: 407
6520465 TCTCAGTCAT
6520475 TGTACTTTAGTGAAATGAGTCCATGACTAAATAAACATTATAATTGATAGACAAATAGTCAAAAC
1 TGTACTTTAGTGAAATGAGTCCATGACTAAATAAACATTATAATTGATAGACAAATAGTCAAAAC
6520540 TTAATTACAAATTATTTGAGTCCTAATTATATATATGTCCAATTGGTCCCTCCACTAGTTTAATA
66 TTAATTACAAATTATTTGAGTCCTAATTATATATATGTCCAATTGGTCCCTCCACTAGTTTAATA
6520605 CAACCTTGACGGTTTGCATTTGAATGGACGAGATGAATATAATGAAAATGATGAATTAGAGAAAT
131 CAACCTTGACGGTTTGCATTTGAATGGACGAGATGAATATAATGAAAATGATGAATTAGAGAAAT
6520670 AGATCGTGTGTATCATTATTCATAGTGAATGCATTTTCTCGCAATAAGTTAGAGATGGCTTAGAG
196 AGATCGTGTGTATCATTATTCATAGTGAATGCATTTTCTCGCAATAAGTTAGAGATGGCTTAGAG
6520735 ATTAAATTAATTTTTCAAACTACTATTTAATTGATTGTAATTAAATAATTGAAGTTCGAAGTTGA
261 ATTAAATTAATTTTTCAAACTACTATTTAATTGATTGTAATTAAATAATTGAAGTTCGAAGTTGA
6520800 AATTAAATTAATTAGTCATTGCTATTTTGTTGAACAAGATAATTAAATTTACTTACTTATAAATT
326 AATTAAATTAATTAGTCATTGCTATTTTGTTGAACAAGATAATTAAATTTACTTACTTATAAATT
6520865 CTAGTACGATAAAGTCG
391 CTAGTACGATAAAGTCG
6520882 TGTACTTTAGTGAAATGAGTCCATGACTAAATAAACATTATAATTGATAGACAAATAGTCAAAAC
1 TGTACTTTAGTGAAATGAGTCCATGACTAAATAAACATTATAATTGATAGACAAATAGTCAAAAC
*
6520947 TTAATTACAAATTATTTGAGTCCTGATTATATATATGTCCAATTGGTCCCTCCACTAGTTTAATA
66 TTAATTACAAATTATTTGAGTCCTAATTATATATATGTCCAATTGGTCCCTCCACTAGTTTAATA
6521012 CAACCTTGACGGTTTGCATTTGAATGGACGAGATGAATATAATGAAAATGATGAATTAGAGAAAT
131 CAACCTTGACGGTTTGCATTTGAATGGACGAGATGAATATAATGAAAATGATGAATTAGAGAAAT
6521077 AGATCGTGTGTATCATTATTCATAGTGAATGCATTTTCTCGCAATAAGTTAGAGATGGCTTAGAG
196 AGATCGTGTGTATCATTATTCATAGTGAATGCATTTTCTCGCAATAAGTTAGAGATGGCTTAGAG
6521142 ATTAAATTAATTTTTCAAACTACTATTTAATTGATTGTAATTAAATAATTGAAGTTCGAAGTTGA
261 ATTAAATTAATTTTTCAAACTACTATTTAATTGATTGTAATTAAATAATTGAAGTTCGAAGTTGA
6521207 AATTAAATTAATTAGTCATTGCTATTTTGTTGAACAAGATAATTAAATTTACTTACTTATAAATT
326 AATTAAATTAATTAGTCATTGCTATTTTGTTGAACAAGATAATTAAATTTACTTACTTATAAATT
6521272 CTAGTACGATAAAGTCG
391 CTAGTACGATAAAGTCG
6521289 TG
1 TG
6521291 ATGAATTTAA
Statistics
Matches: 408, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
407 408 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (407 bp):
TGTACTTTAGTGAAATGAGTCCATGACTAAATAAACATTATAATTGATAGACAAATAGTCAAAAC
TTAATTACAAATTATTTGAGTCCTAATTATATATATGTCCAATTGGTCCCTCCACTAGTTTAATA
CAACCTTGACGGTTTGCATTTGAATGGACGAGATGAATATAATGAAAATGATGAATTAGAGAAAT
AGATCGTGTGTATCATTATTCATAGTGAATGCATTTTCTCGCAATAAGTTAGAGATGGCTTAGAG
ATTAAATTAATTTTTCAAACTACTATTTAATTGATTGTAATTAAATAATTGAAGTTCGAAGTTGA
AATTAAATTAATTAGTCATTGCTATTTTGTTGAACAAGATAATTAAATTTACTTACTTATAAATT
CTAGTACGATAAAGTCG
Found at i:6521363 original size:23 final size:24
Alignment explanation
Indices: 6521337--6521381 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6521327 TAATTAGAAA
*
6521337 AATTAATTAA-ATTTATTTTAATT
1 AATTAAATAATATTTATTTTAATT
*
6521360 AATTAAATAATATTTTTTTTAA
1 AATTAAATAATATTTATTTTAA
6521382 ATAGAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
AATTAAATAATATTTATTTTAATT
Found at i:6523088 original size:116 final size:116
Alignment explanation
Indices: 6522884--6523113 Score: 442
Period size: 116 Copynumber: 2.0 Consensus size: 116
6522874 TTAAGGATCG
*
6522884 ACTTTTCGAATCTCAAAATACGAGATATTGCTTGTTTAAAACAACATTTTAGTGTGTCGGGTAAA
1 ACTTTTCGAATCTCAAAAGACGAGATATTGCTTGTTTAAAACAACATTTTAGTGTGTCGGGTAAA
*
6522949 ATGTAACACTATTTCGTAGTAAAATGGAAAATGGATTACGGTACCGATAAT
66 ATGTAACACTATTTCGTAGTAAAATGGAAAATGGATTACGGTAACGATAAT
6523000 ACTTTTCGAATCTCAAAAGACGAGATATTGCTTGTTTAAAACAACATTTTAGTGTGTCGGGTAAA
1 ACTTTTCGAATCTCAAAAGACGAGATATTGCTTGTTTAAAACAACATTTTAGTGTGTCGGGTAAA
6523065 ATGTAACACTATTTCGTAGTAAAATGGAAAATGGATTACGGTAACGATA
66 ATGTAACACTATTTCGTAGTAAAATGGAAAATGGATTACGGTAACGATA
6523114 TGCATAATCG
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 112 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (116 bp):
ACTTTTCGAATCTCAAAAGACGAGATATTGCTTGTTTAAAACAACATTTTAGTGTGTCGGGTAAA
ATGTAACACTATTTCGTAGTAAAATGGAAAATGGATTACGGTAACGATAAT
Found at i:6523354 original size:20 final size:21
Alignment explanation
Indices: 6523321--6523359 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
6523311 AATAATAGAA
* *
6523321 AATAATAATGGTAA-AAAAGT
1 AATAACAATAGTAATAAAAGT
6523341 AATAACAATAGTAATAAAA
1 AATAACAATAGTAATAAAA
6523360 ATAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (21 bp):
AATAACAATAGTAATAAAAGT
Found at i:6523595 original size:3 final size:3
Alignment explanation
Indices: 6523270--6523576 Score: 196
Period size: 3 Copynumber: 101.3 Consensus size: 3
6523260 AAAAATGATG
* * * *
6523270 ATA ATG ATA ATG ATA ATG ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
6523318 GAAA ATA ATA ATG GTA A-A A-A AGTA ATA ACA ATA GTA ATA AAA ATA
1 -ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
* * * ** * * *
6523363 AAA ATA AAA ACA GCA ATG ATA ATA ATA ATA TTG ATA ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * * *
6523409 ATA GTA A-A AAA ATA GTA ATA ATA GAAA ATA ATA ATA ATA A-A ATGA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA AT-A
* *
6523454 AGA ATA ATA ATA ATA CATTA ATA ATA A-A ATA AGGA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * *
6523501 ACA ACA ATA AT- ATAA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
6523546 GTA ATA GTGA A-A ATA ATA ATA GTG ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
6523577 ATTAATTAAT
Statistics
Matches: 232, Mismatches: 56, Indels: 32
0.73 0.17 0.10
Matches are distributed among these distances:
2 14 0.06
3 198 0.85
4 18 0.08
5 2 0.01
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:6524092 original size:21 final size:19
Alignment explanation
Indices: 6523935--6524101 Score: 76
Period size: 20 Copynumber: 8.7 Consensus size: 19
6523925 GAATACTAAT
* *
6523935 AATAGTAATAATAATAGAA
1 AATAATAATAATAAAAGAA
**
6523954 AATAATAATGGTAAAA-AA
1 AATAATAATAATAAAAGAA
* * *
6523972 GTAATAACAATAGTAATA-AA
1 --AATAATAATAATAAAAGAA
*
6523992 AATAAAAATAA-AAACAGCAA
1 AATAATAATAATAAA-AG-AA
* ** *
6524012 TGATAATAATAAT-ATTGAT
1 -AATAATAATAATAAAAGAA
*
6524031 AAT-A-AATAATAATAGTAA
1 AATAATAATAATAAAAG-AA
* * *
6524049 AAAAATAGTAATAATAGAA
1 AATAATAATAATAAAAGAA
6524068 AATAATAATAATAAAATGAA
1 AATAATAATAATAAAA-GAA
6524088 GAATAATAATAATA
1 -AATAATAATAATA
6524102 CATTAATAAT
Statistics
Matches: 112, Mismatches: 23, Indels: 24
0.70 0.14 0.15
Matches are distributed among these distances:
16 6 0.05
17 6 0.05
18 17 0.15
19 29 0.26
20 31 0.28
21 23 0.21
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (19 bp):
AATAATAATAATAAAAGAA
Found at i:6524163 original size:21 final size:21
Alignment explanation
Indices: 6524032--6524231 Score: 83
Period size: 21 Copynumber: 9.3 Consensus size: 21
6524022 AATATTGATA
* *
6524032 ATAAATAATAATAGTAAAAAA
1 ATAAATAATAATAGTAATAAT
* *
6524053 ATAGTAATAATAGAAAATAATAAT
1 ATA--AATAATA-ATAGTAATAAT
* *
6524077 AATAAAATGAAGAATAATAATAAT
1 -AT-AAAT-AATAATAGTAATAAT
* * *
6524101 A-CATTAATAATA-AAATAAGTT
1 ATAAATAATAATAGTAATAA--T
* **
6524122 ATAATAATAATAACAACAATAAT
1 AT-A-AATAATAATAGTAATAAT
6524145 ATAAATAATAATAGTAAT-A-
1 ATAAATAATAATAGTAATAAT
*
6524164 AT-AATAATAATAGTAATAGT
1 ATAAATAATAATAGTAATAAT
*
6524184 GA-AAATAATAATAGTGATAAT
1 -ATAAATAATAATAGTAATAAT
* **
6524205 A-AATTAATTAATTTTAATAAT
1 ATAAATAA-TAATAGTAATAAT
6524226 A-AAATA
1 ATAAATA
6524232 GCAAAATAAC
Statistics
Matches: 137, Mismatches: 25, Indels: 34
0.70 0.13 0.17
Matches are distributed among these distances:
18 15 0.11
19 7 0.05
20 13 0.09
21 51 0.37
22 1 0.01
23 11 0.08
24 28 0.20
25 10 0.07
26 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.30
Consensus pattern (21 bp):
ATAAATAATAATAGTAATAAT
Found at i:6524225 original size:3 final size:3
Alignment explanation
Indices: 6523897--6524206 Score: 184
Period size: 3 Copynumber: 102.3 Consensus size: 3
6523887 TAAAAAGATT
* * * * * *
6523897 ATA AAA ATA ATG ATA ATA ATA ATG ATA AGA ATA CTA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
6523945 ATA ATA GAAA ATA ATA ATG GTA A-A A-A AGTA ATA ACA ATA GTA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * * * ** * * *
6523990 AAA ATA AAA ATA AAA ACA GCA ATG ATA ATA ATA ATA TTG ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * *
6524036 ATA ATA ATA GTA A-A AAA ATA GTA ATA ATA GAAA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* *
6524081 A-A ATGA AGA ATA ATA ATA ATA CATTA ATA ATA A-A ATA AGTT ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA A-TA ATA ATA
* * *
6524128 ATA ATA ACA ACA ATA AT- ATAA ATA ATA ATA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
6524173 ATA GTA ATA GTGA A-A ATA ATA ATA GTG ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
6524207 ATTAATTAAT
Statistics
Matches: 231, Mismatches: 60, Indels: 32
0.72 0.19 0.10
Matches are distributed among these distances:
2 14 0.06
3 197 0.85
4 18 0.08
5 2 0.01
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:6524396 original size:630 final size:630
Alignment explanation
Indices: 6523185--6525090 Score: 3488
Period size: 630 Copynumber: 3.0 Consensus size: 630
6523175 AAATATGAAT
*
6523185 AAAATAAACGAATAAGATAAAACTAGCCAAAAAAGAATGATAAATGAATAAATAAATATTAAGTA
1 AAAATAAACGAATAAGATAAAACGAGCCAAAAAAGAATGATAAATGAATAAATAAATATTAAGTA
* *
6523250 AAAAGATTATAAAAATGATGATAATGATAATGATAATGATAATAATAATAATAATAGTAATAATA
66 AAAAGATTAT--AAA--A--ATAATGATAATAATAATGATAATAATACTAATAATAGTAATAATA
6523315 ATAGAAAATAATAATGGTAAAAAAGTAATAACAATAGTAATAAAAATAAAAATAAAAACAGCAAT
125 ATAGAAAATAATAATGGTAAAAAAGTAATAACAATAGTAATAAAAATAAAAATAAAAACAGCAAT
6523380 GATAATAATAATATTGATAATAAATAATAATAGTAAAAAAATAGTAATAATAGAAAATAATAATA
190 GATAATAATAATATTGATAATAAATAATAATAGTAAAAAAATAGTAATAATAGAAAATAATAATA
6523445 ATAAAATGAAGAATAATAATAATACATTAATAATAAAATAAGGAATAATAATAATAACAACAATA
255 ATAAAATGAAGAATAATAATAATACATTAATAATAAAATAAGGAATAATAATAATAACAACAATA
6523510 ATATAAATAATAATAATAGTAATAATAATAATAATAGTAATAGTGAAAATAATAATAGTGATAAT
320 ATAT--A-AATAATAATAGTAATAATAATAATAATAGTAATAGTGAAAATAATAATAGTGATAAT
6523575 AAATTAATTAATTTTAATAATAAAATAGCAAAATAACTAGAAAAAGGACTAAATTGAATTCAAAA
382 AAATTAATTAATTTTAATAATAAAATAGCAAAATAACTAGAAAAAGGACTAAATTGAATTCAAAA
6523640 TAGAAATTCGGGGCAAATTCGAAATAAAAATAAAAGAAAATGACCAATTTGCATGCGTGAATAAT
447 TAGAAATTCGGGGCAAATTCGAAATAAAAATAAAAGAAAATGACCAATTTGCATGCGTGAATAAT
6523705 AAGGAGGGACTAGAAAGGAAATTATTCCTCCCATCCAAAACGCACAGTTGCAGGAAGGACTAAAT
512 AAGGAGGGACTAGAAAGGAAATTATTCCTCCCATCCAAAACGCACAGTTGCAGGAAGGACTAAAT
6523770 TGGAAACGAAATAAATTAATGGGCGAAAATTTAAAAAATAAAAACTAATTTCAA
577 TGGAAACGAAATAAATTAATGGGCGAAAATTTAAAAAATAAAAACTAATTTCAA
6523824 AAAATAAACGAATAAGATAAAACGAGCCAAAAAAGAATGATAAATGAATAAATAAATATTAAGTA
1 AAAATAAACGAATAAGATAAAACGAGCCAAAAAAGAATGATAAATGAATAAATAAATATTAAGTA
*
6523889 AAAAGATTATAAAAATAATGATAATAATAATGATAAGAATACTAATAATAGTAATAATAATAGAA
66 AAAAGATTATAAAAATAATGATAATAATAATGATAATAATACTAATAATAGTAATAATAATAGAA
6523954 AATAATAATGGTAAAAAAGTAATAACAATAGTAATAAAAATAAAAATAAAAACAGCAATGATAAT
131 AATAATAATGGTAAAAAAGTAATAACAATAGTAATAAAAATAAAAATAAAAACAGCAATGATAAT
6524019 AATAATATTGATAATAAATAATAATAGTAAAAAAATAGTAATAATAGAAAATAATAATAATAAAA
196 AATAATATTGATAATAAATAATAATAGTAAAAAAATAGTAATAATAGAAAATAATAATAATAAAA
**
6524084 TGAAGAATAATAATAATACATTAATAATAAAATAAGTTATAATAATAATAACAACAATAATATAA
261 TGAAGAATAATAATAATACATTAATAATAAAATAAGGAATAATAATAATAACAACAATAATATAA
6524149 ATAATAATAGTAATAATAATAATAATAGTAATAGTGAAAATAATAATAGTGATAATAAATTAATT
326 ATAATAATAGTAATAATAATAATAATAGTAATAGTGAAAATAATAATAGTGATAATAAATTAATT
*
6524214 AATTTTAATAATAAAATAGCAAAATAACTAGAAAAAGGACAAAATTGAATTCAAAATAGAAATTC
391 AATTTTAATAATAAAATAGCAAAATAACTAGAAAAAGGACTAAATTGAATTCAAAATAGAAATTC
* *
6524279 GGGGCAAATTCGAAATAAAAATAAAAGAAAATGACCAATTTGCATGTGTGAATAATAAAGAGGGA
456 GGGGCAAATTCGAAATAAAAATAAAAGAAAATGACCAATTTGCATGCGTGAATAATAAGGAGGGA
6524344 CTAGAAAGGAAATTATTCCTCCCATCCAAAACGCACAGTTGCAGGAAGGACTAAATTGGAAACGA
521 CTAGAAAGGAAATTATTCCTCCCATCCAAAACGCACAGTTGCAGGAAGGACTAAATTGGAAACGA
*
6524409 ACTAAATTAATGGGCGAAAATTTAAAAAATAAAAACTAATTTCAA
586 AATAAATTAATGGGCGAAAATTTAAAAAATAAAAACTAATTTCAA
6524454 AAAATAAACGAATAAGATAAAACGAGCCAAAAAAGAATGATAAATGAATAAATAAATATTAAGTA
1 AAAATAAACGAATAAGATAAAACGAGCCAAAAAAGAATGATAAATGAATAAATAAATATTAAGTA
6524519 AAAAGATTATAAAAATAATGATAATAATAATGATAATAATACTAATAATAGTAATAATAATAGAA
66 AAAAGATTATAAAAATAATGATAATAATAATGATAATAATACTAATAATAGTAATAATAATAGAA
*
6524584 AATAATAATGGT-AAAAAGTAATAATAATAGTAATAAAAAT---AA-AAAAACAGCAATGATAAT
131 AATAATAATGGTAAAAAAGTAATAACAATAGTAATAAAAATAAAAATAAAAACAGCAATGATAAT
6524644 AATAATATTGATAATAAATAATAATAGTAAAAAAATAGTAATAATAG--AA-AATAATAATAAAA
196 AATAATATTGATAATAAATAATAATAGTAAAAAAATAGTAATAATAGAAAATAATAATAATAAAA
6524706 TGAAGAATAATAATAATACATTAATAATAAAATAAGGAATAATAATAATAACAACAATAATATAA
261 TGAAGAATAATAATAATACATTAATAATAAAATAAGGAATAATAATAATAACAACAATAATATAA
6524771 ATAATAATAGTAATAATAATAATAATAATAATAGTAATAGTGAAAATAATAATAGTGATAATAAA
326 ATAATAATAG------TAATAATAATAATAATAGTAATAGTGAAAATAATAATAGTGATAATAAA
6524836 TTAATTAATTTTAATAATAAAATAGCAAAATAACTAGAAAAAGGACTAAATTGAATTCAAAATAG
385 TTAATTAATTTTAATAATAAAATAGCAAAATAACTAGAAAAAGGACTAAATTGAATTCAAAATAG
*
6524901 AAATTCGGGGCAAATTCGAAATAAAAATAAAAGAAAA-GTACCAATTTGCATGCGTGAATAACAA
450 AAATTCGGGGCAAATTCGAAATAAAAATAAAAGAAAATG-ACCAATTTGCATGCGTGAATAATAA
6524965 GGAGGGACTAGAAAGGAAATTATTCCTCCCATCCAAAACGCACAGTTGCAGGAAGGACTAAATTG
514 GGAGGGACTAGAAAGGAAATTATTCCTCCCATCCAAAACGCACAGTTGCAGGAAGGACTAAATTG
6525030 GAAACGAAATAAATTAATGGGCGAAAATTTAAAAAATAAAAACTAATTTCAA
579 GAAACGAAATAAATTAATGGGCGAAAATTTAAAAAATAAAAACTAATTTCAA
6525082 AACAATAAA
1 AA-AATAAA
6525091 AAAGCGGAAG
Statistics
Matches: 1240, Mismatches: 19, Indels: 26
0.96 0.01 0.02
Matches are distributed among these distances:
622 86 0.07
623 2 0.00
625 65 0.05
626 2 0.00
627 1 0.00
628 290 0.23
629 33 0.03
630 443 0.36
631 1 0.00
633 239 0.19
635 1 0.00
637 3 0.00
639 74 0.06
ACGTcount: A:0.58, C:0.06, G:0.11, T:0.25
Consensus pattern (630 bp):
AAAATAAACGAATAAGATAAAACGAGCCAAAAAAGAATGATAAATGAATAAATAAATATTAAGTA
AAAAGATTATAAAAATAATGATAATAATAATGATAATAATACTAATAATAGTAATAATAATAGAA
AATAATAATGGTAAAAAAGTAATAACAATAGTAATAAAAATAAAAATAAAAACAGCAATGATAAT
AATAATATTGATAATAAATAATAATAGTAAAAAAATAGTAATAATAGAAAATAATAATAATAAAA
TGAAGAATAATAATAATACATTAATAATAAAATAAGGAATAATAATAATAACAACAATAATATAA
ATAATAATAGTAATAATAATAATAATAGTAATAGTGAAAATAATAATAGTGATAATAAATTAATT
AATTTTAATAATAAAATAGCAAAATAACTAGAAAAAGGACTAAATTGAATTCAAAATAGAAATTC
GGGGCAAATTCGAAATAAAAATAAAAGAAAATGACCAATTTGCATGCGTGAATAATAAGGAGGGA
CTAGAAAGGAAATTATTCCTCCCATCCAAAACGCACAGTTGCAGGAAGGACTAAATTGGAAACGA
AATAAATTAATGGGCGAAAATTTAAAAAATAAAAACTAATTTCAA
Found at i:6524687 original size:20 final size:19
Alignment explanation
Indices: 6524662--6524699 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
6524652 TGATAATAAA
6524662 TAATAATAGTAAAAAAATAG
1 TAATAATAG-AAAAAAATAG
*
6524682 TAATAATAGAAAATAATA
1 TAATAATAGAAAAAAATA
6524700 ATAAAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (19 bp):
TAATAATAGAAAAAAATAG
Found at i:6524853 original size:3 final size:3
Alignment explanation
Indices: 6524527--6524834 Score: 205
Period size: 3 Copynumber: 101.3 Consensus size: 3
6524517 TAAAAAGATT
* * * * *
6524527 ATA AAA ATA ATG ATA ATA ATA ATG ATA ATA ATA CTA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
6524575 ATA ATA GAAA ATA ATA ATG GTA AAA AGTA ATA ATA ATA GTA ATA AAA
1 ATA ATA -ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * ** * * *
6524622 ATA A-A AAA ACA GCA ATG ATA ATA ATA ATA TTG ATA ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * * * *
6524667 ATA GTA A-A AAA ATA GTA ATA ATA GAAA ATA ATA ATA A-A ATGA AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA AT-A ATA
* *
6524712 ATA ATA ATA ATA CATTA ATA ATA A-A ATA AGGA ATA ATA ATA ATA ACA
1 ATA ATA ATA ATA -A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* *
6524759 ACA ATA AT- ATAA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
6524804 GTA ATA GTGA A-A ATA ATA ATA GTG ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
6524835 ATTAATTAAT
Statistics
Matches: 234, Mismatches: 55, Indels: 32
0.73 0.17 0.10
Matches are distributed among these distances:
2 12 0.05
3 202 0.86
4 18 0.08
5 2 0.01
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:6526804 original size:141 final size:143
Alignment explanation
Indices: 6526606--6526887 Score: 453
Period size: 141 Copynumber: 2.0 Consensus size: 143
6526596 GGATTGTGAC
*
6526606 TTGTAGCTTCAATCTGTTCTACTACAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCT-T
1 TTGTAGCTTCAATCTGTTCTAATACAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCT
*
6526670 CGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATA
66 -GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTCCAACTTCAGGAAGATA
*
6526735 AGATTTGCCATAAT
130 AGATCTGCCATAAT
** * * *
6526749 TTGTAGCTTCAATCTGTTC-AATTGAA-TTTAGGGAAATGAGATTCGTTATTTTCAGTCTGCTCT
1 TTGTAGCTTCAATCTGTTCTAATACAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCT
*
6526812 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTCCAACTTCAGGAAGATAA
66 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTCCAACTTCAGGAAGATAA
6526877 GATCTGCCATA
131 GATCTGCCATA
6526888 CTAGATCTAC
Statistics
Matches: 129, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
141 105 0.81
142 5 0.04
143 19 0.15
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (143 bp):
TTGTAGCTTCAATCTGTTCTAATACAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCT
GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTCCAACTTCAGGAAGATAA
GATCTGCCATAAT
Found at i:6531214 original size:28 final size:28
Alignment explanation
Indices: 6531174--6531252 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
6531164 GCAATCAAAT
* * *
6531174 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
6531202 ATGGCACTTAGTGTGTGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
6531230 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
6531253 CGAATGATTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:6537148 original size:32 final size:32
Alignment explanation
Indices: 6537075--6537260 Score: 125
Period size: 32 Copynumber: 5.8 Consensus size: 32
6537065 AAATGATGAT
* * *
6537075 AATAATAATAAT-GATAATAATACTAAT-AAT
1 AATAATAATAATAGAAAATAATAATAATAAAA
* **
6537105 AGTAATAATAATAGAAAATAATAATGGTAAAA
1 AATAATAATAATAGAAAATAATAATAATAAAA
*
6537137 AATAATAATAATAGTAATAATAATAGTAAT-AAA
1 AATAATAATAATAG-AA-AATAATAATAATAAAA
** * * * *
6537170 AA-AATAGCAAT-GATAATAAATATTGATAATA
1 AATAATAATAATAGAAAAT-AATAATAATAAAA
*
6537201 AATAATAATAGT--AAAATAATAATAATAAAA
1 AATAATAATAATAGAAAATAATAATAATAAAA
* *
6537231 TGAAGAATAATAATACAATAATAATAATAA
1 --AATAATAATAATAGAA-AATAATAATAA
6537261 AATAGGGAAT
Statistics
Matches: 119, Mismatches: 25, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
29 3 0.03
30 29 0.24
31 20 0.17
32 38 0.32
33 7 0.06
34 11 0.09
35 11 0.09
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (32 bp):
AATAATAATAATAGAAAATAATAATAATAAAA
Found at i:6537186 original size:44 final size:44
Alignment explanation
Indices: 6537093--6537256 Score: 125
Period size: 44 Copynumber: 3.6 Consensus size: 44
6537083 TAATGATAAT
* * *
6537093 AATACTAATAATAGTAATAATAATAGAAAATAATAATGGTAAAA
1 AATAATAATAATAGTAATAATAATAGAAAATAAAAATAGTAAAA
* *
6537137 AATAATAATAATAGTAATAATAATAGTAATAA-AAAAATAGCAATGAT
1 AATAATAATAATAGTAATAATAATAG-AA-AATAAAAATAGTAA--AA
* * * * *
6537184 AATAAATATTGATAATAAATAATAATAGTAAAATAATAATAATAAAA
1 AAT-AATAATAATAGT-AATAATAATAG-AAAATAAAAATAGTAAAA
* *
6537231 TGAAGAATAATAATA-CAATAATAATA
1 --AATAATAATAATAGTAATAATAATA
6537257 ATAAAATAGG
Statistics
Matches: 95, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
44 25 0.26
45 10 0.11
46 12 0.13
47 5 0.05
48 19 0.20
49 24 0.25
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (44 bp):
AATAATAATAATAGTAATAATAATAGAAAATAAAAATAGTAAAA
Found at i:6537261 original size:32 final size:32
Alignment explanation
Indices: 6537204--6537332 Score: 114
Period size: 32 Copynumber: 3.8 Consensus size: 32
6537194 GATAATAAAT
* * *
6537204 AATAATAGTAAAATAATAATAATAAAATGAAG
1 AATAATAATACAATAATAATAATAAAATGAAA
*
6537236 AATAATAATACAATAATAATAATAAAATAGGGAAT
1 AATAATAATACAATAATAATAATAAAAT---GAAA
* *
6537271 AATAATAATAACAACAATAATGTAAAAATAATGTAAA
1 AATAATAAT-ACAATAATAA--TAATAA-AATG-AAA
*
6537308 AATAATAATAGTAATAATAATAATA
1 AATAATAATA-CAATAATAATAATA
6537333 GTGATAATAA
Statistics
Matches: 79, Mismatches: 9, Indels: 15
0.77 0.09 0.15
Matches are distributed among these distances:
32 26 0.33
35 16 0.20
36 11 0.14
37 18 0.23
38 5 0.06
39 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.26
Consensus pattern (32 bp):
AATAATAATACAATAATAATAATAAAATGAAA
Found at i:6537361 original size:3 final size:3
Alignment explanation
Indices: 6537073--6537342 Score: 180
Period size: 3 Copynumber: 91.3 Consensus size: 3
6537063 AAAAATGATG
* * * *
6537073 ATA ATA ATA ATA ATG ATA ATA ATA CTA ATA ATA GTA ATA ATA ATA GAAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * *
6537122 ATA ATA ATG GTA A-A A-A ATA ATA ATA ATA GTA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * * * *
6537168 A-A AAA ATA GCA ATG ATA ATAA ATA TTG ATA ATAA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA
* *
6537214 A-A ATA ATA ATA ATA A-A ATGA AGA ATA ATA AT- ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
** * * * *
6537257 ATA A-A ATA GGGA ATA ATA ATA ATA ACA ACA ATA AT- GTA AAA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
6537301 AT- GTA AAA ATA ATA ATA GTA ATA ATA ATA ATA GTG ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6537343 ATTAATTAAT
Statistics
Matches: 201, Mismatches: 53, Indels: 26
0.72 0.19 0.09
Matches are distributed among these distances:
2 15 0.07
3 175 0.87
4 11 0.05
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:6543980 original size:35 final size:35
Alignment explanation
Indices: 6543931--6544001 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
6543921 TCTAGGATCA
*
6543931 CATATATTTAAAGATCCCCTTCCATATTTGCCAAG
1 CATATATTTAAAGATCACCTTCCATATTTGCCAAG
* * * *
6543966 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATATTTAAAGATCACCTTCCATATTTGCCAAG
6544001 C
1 C
6544002 TCCGGAGATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.37
Consensus pattern (35 bp):
CATATATTTAAAGATCACCTTCCATATTTGCCAAG
Found at i:6544552 original size:10 final size:10
Alignment explanation
Indices: 6544537--6544569 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
6544527 TAATTAGAAA
6544537 AAATAATATT
1 AAATAATATT
6544547 AAATAATA-T
1 AAATAATATT
6544556 ATAATAATATT
1 A-AATAATATT
6544567 AAA
1 AAA
6544570 ATTAATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAATAATATT
Found at i:6545003 original size:16 final size:16
Alignment explanation
Indices: 6544970--6545003 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6544960 TGGCAGTGTT
* *
6544970 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
6544986 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
6545002 AA
1 AA
6545004 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:6547828 original size:21 final size:21
Alignment explanation
Indices: 6547802--6547842 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6547792 AGACGAGCAA
* *
6547802 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6547823 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6547843 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6549781 original size:16 final size:16
Alignment explanation
Indices: 6549748--6549781 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6549738 GGAGATTGTT
* *
6549748 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
6549764 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
6549780 AA
1 AA
6549782 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:6555638 original size:46 final size:45
Alignment explanation
Indices: 6555620--6555859 Score: 237
Period size: 46 Copynumber: 5.3 Consensus size: 45
6555610 TGACAAGTGG
* * *
6555620 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTT-AGCTACACTTATCTGATCAAGTGAC
*
6555666 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTT-AGCTACACTTATCTGATCAAGTGAC
* *
6555712 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATC-CTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTT-AGCTA-CACTTATCTGATCAAGTGAC
*
6555764 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT-AGCTACACTTATCTGATCAAGTGAC
**
6555810 AAAGTGATAA--G-T-G----GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGTGAC
6555847 AAAGTGATAAGTG
1 AAAGTGATAAGTG
6555860 GCTACACTTA
Statistics
Matches: 179, Mismatches: 5, Indels: 27
0.85 0.02 0.13
Matches are distributed among these distances:
37 33 0.18
39 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
46 97 0.54
52 43 0.24
53 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (45 bp):
AAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGTGAC
Found at i:6555639 original size:52 final size:48
Alignment explanation
Indices: 6555620--6555822 Score: 267
Period size: 46 Copynumber: 4.3 Consensus size: 48
6555610 TGACAAGTGG
* *
6555620 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
6555666 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
*
6555718 AAAGTGATAAGTGATAGCTTCGGCTATC-CTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTA-CACTTATCTGATCAAGTGACAA
* *
6555764 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
6555810 AAAGTGATAAGTG
1 AAAGTGATAAGTG
6555823 GCTACACTTA
Statistics
Matches: 145, Mismatches: 4, Indels: 16
0.88 0.02 0.10
Matches are distributed among these distances:
45 1 0.01
46 100 0.69
52 43 0.30
53 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:6555674 original size:98 final size:98
Alignment explanation
Indices: 6555554--6555822 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
6555544 TTTGAGTACT
* *
6555554 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
6555619 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
6555652 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
6555717 AAAAGTGATAAGTGATAGCTTCGGCTATCCTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
6555750 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
*
6555815 GATAAGTG
65 GAAAAGTG
6555823 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:6555830 original size:37 final size:37
Alignment explanation
Indices: 6555786--6555931 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
6555776 GATAGCTTCA
*
6555786 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6555823 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
6555860 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
6555897 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6555932 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:6561446 original size:11 final size:11
Alignment explanation
Indices: 6561430--6561454 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6561420 AGCCAGTAGA
6561430 CATGTATTTGC
1 CATGTATTTGC
6561441 CATGTATTTGC
1 CATGTATTTGC
6561452 CAT
1 CAT
6561455 TTGCCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (11 bp):
CATGTATTTGC
Found at i:6564831 original size:31 final size:31
Alignment explanation
Indices: 6564793--6564888 Score: 192
Period size: 31 Copynumber: 3.1 Consensus size: 31
6564783 AAAAAAGGAA
6564793 TGAAAGATAAGATCAAACGAATGTGCTTCAT
1 TGAAAGATAAGATCAAACGAATGTGCTTCAT
6564824 TGAAAGATAAGATCAAACGAATGTGCTTCAT
1 TGAAAGATAAGATCAAACGAATGTGCTTCAT
6564855 TGAAAGATAAGATCAAACGAATGTGCTTCAT
1 TGAAAGATAAGATCAAACGAATGTGCTTCAT
6564886 TGA
1 TGA
6564889 GTTAGCTTCT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (31 bp):
TGAAAGATAAGATCAAACGAATGTGCTTCAT
Found at i:6568947 original size:6 final size:6
Alignment explanation
Indices: 6568936--6568981 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
6568926 TTACTTAAAT
*
6568936 TTCCTA TTCCTA TTCCTA TTCCTA TTCCAA TTCCTA TTCCT- TTCCT
1 TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA TTCCT
6568982 TGCTTTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.15, C:0.35, G:0.00, T:0.50
Consensus pattern (6 bp):
TTCCTA
Found at i:6570817 original size:25 final size:26
Alignment explanation
Indices: 6570774--6570838 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
6570764 AAATAATAGT
6570774 AAAAATAACAAAAATAACAACAACAA
1 AAAAATAACAAAAATAACAACAACAA
* * * *
6570800 AAAAATAGCACAAA-AACACCAAGAA
1 AAAAATAACAAAAATAACAACAACAA
*
6570825 AAACAAAAACAAAA
1 AAA-AATAACAAAA
6570839 CAAATTTTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
25 12 0.39
26 19 0.61
ACGTcount: A:0.75, C:0.17, G:0.03, T:0.05
Consensus pattern (26 bp):
AAAAATAACAAAAATAACAACAACAA
Found at i:6575612 original size:31 final size:30
Alignment explanation
Indices: 6575577--6575673 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 30
6575567 GGGTTTAAAG
*
6575577 TATCAGGTACTATGTACCAATGATTATATT
1 TATCAGGTACTATGTACTAATGATTATATT
* * *
6575607 ATATCAGG-ACGTACGTATTAATGACTATA-T
1 -TATCAGGTAC-TATGTACTAATGATTATATT
* * *
6575637 TATCAGGTACTTTGTACTAGTGTTTATATT
1 TATCAGGTACTATGTACTAATGATTATATT
6575667 GTATCAG
1 -TATCAG
6575674 ACATTATGTG
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
29 19 0.37
30 6 0.12
31 27 0.52
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.40
Consensus pattern (30 bp):
TATCAGGTACTATGTACTAATGATTATATT
Found at i:6575711 original size:31 final size:30
Alignment explanation
Indices: 6575632--6575712 Score: 76
Period size: 31 Copynumber: 2.7 Consensus size: 30
6575622 TATTAATGAC
*
6575632 TATA-TTATCAGGTACTT-TGTACTAGTGTT
1 TATACTTATCAGGTA-TTATGTACCAGTGTT
* ** *
6575661 TATATTGTATCAGACATTATGTGCCAGTGTT
1 TATACT-TATCAGGTATTATGTACCAGTGTT
6575692 TATAGCTTATCAGGTATTATG
1 TATA-CTTATCAGGTATTATG
6575713 GACCGGCGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
29 4 0.10
30 3 0.07
31 33 0.80
32 1 0.02
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (30 bp):
TATACTTATCAGGTATTATGTACCAGTGTT
Found at i:6583953 original size:5 final size:5
Alignment explanation
Indices: 6583943--6583974 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
6583933 TTGAGTGTTC
6583943 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
6583975 TTCACACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:6583957 original size:9 final size:9
Alignment explanation
Indices: 6583943--6583973 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
6583933 TTGAGTGTTC
6583943 TTTATTTTA
1 TTTATTTTA
6583952 TTTATTTTA
1 TTTATTTTA
6583961 TTTTATTTTA
1 -TTTATTTTA
6583971 TTT
1 TTT
6583974 TTTCACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:6590611 original size:16 final size:16
Alignment explanation
Indices: 6590590--6590620 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6590580 TAATATAATA
6590590 AAATATTTTAAAAAAT
1 AAATATTTTAAAAAAT
6590606 AAATATTTTAAAAAA
1 AAATATTTTAAAAAA
6590621 GAGGTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATATTTTAAAAAAT
Found at i:6592957 original size:16 final size:16
Alignment explanation
Indices: 6592936--6592969 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6592926 CTTCAACCTC
*
6592936 TCATTTCCTTCTCATT
1 TCATTTCCTCCTCATT
6592952 TCATTTCCTCCTCATT
1 TCATTTCCTCCTCATT
6592968 TC
1 TC
6592970 CTCTCCGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (16 bp):
TCATTTCCTCCTCATT
Found at i:6593865 original size:13 final size:11
Alignment explanation
Indices: 6593837--6593870 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
6593827 ATTTTTTTCT
6593837 CATATATTGTA
1 CATATATTGTA
6593848 CATATATTGTA
1 CATATATTGTA
6593859 CATATATTGTA
1 CATATATTGTA
6593870 C
1 C
6593871 TAATTCCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (11 bp):
CATATATTGTA
Found at i:6595104 original size:20 final size:20
Alignment explanation
Indices: 6595079--6595118 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6595069 AATATTTTCC
* *
6595079 AGTAAATCATTTTACAGAAA
1 AGTAAAACACTTTACAGAAA
*
6595099 AGTAAAACACTTTCCAGAAA
1 AGTAAAACACTTTACAGAAA
6595119 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
AGTAAAACACTTTACAGAAA
Found at i:6596156 original size:26 final size:27
Alignment explanation
Indices: 6596120--6596170 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
6596110 CACAAAATTT
6596120 ATAAATTT-AAATAAATAAACACGAGC
1 ATAAATTTAAAATAAATAAACACGAGC
* *
6596146 ATAAATTTAAAATTAATGAACACGA
1 ATAAATTTAAAATAAATAAACACGA
6596171 ACAAAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.57, C:0.10, G:0.08, T:0.25
Consensus pattern (27 bp):
ATAAATTTAAAATAAATAAACACGAGC
Found at i:6596735 original size:16 final size:17
Alignment explanation
Indices: 6596714--6596751 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
6596704 CAATCAAGTC
*
6596714 ATTAGTT-TTTAATTTG
1 ATTAGTTGTCTAATTTG
6596730 ATTAGTTGGTCTAATTTG
1 ATTAGTT-GTCTAATTTG
6596748 ATTA
1 ATTA
6596752 AATATGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
18 12 0.63
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.55
Consensus pattern (17 bp):
ATTAGTTGTCTAATTTG
Found at i:6601374 original size:40 final size:40
Alignment explanation
Indices: 6601318--6601410 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 40
6601308 GGCGTTTGGA
* * *
6601318 TAAAAAACGCCCCTATAGATCGAGCATTAGCGGCGCTTTT
1 TAAAAAACGCCGCTATAGATCGAGCATTAGCGACGCTTTC
* *
6601358 TAAAAAATGCCGCTATAGATTGAGCATTAGCGACGCTTTC
1 TAAAAAACGCCGCTATAGATCGAGCATTAGCGACGCTTTC
*
6601398 TGAAAAACGCCGC
1 TAAAAAACGCCGC
6601411 AAAAAATATT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (40 bp):
TAAAAAACGCCGCTATAGATCGAGCATTAGCGACGCTTTC
Found at i:6601781 original size:64 final size:63
Alignment explanation
Indices: 6601713--6602045 Score: 238
Period size: 64 Copynumber: 5.2 Consensus size: 63
6601703 TAATTATCTG
*
6601713 TAAACCCTAAACCCGTAAACACTCCCTTAAACCCTTAAATACAAAATCTTAAATCCTAAAACTC
1 TAAACCCTAAACCC-TAAACACTCCCTTAAACCCTTAAATACAAAATCCTAAATCCTAAAACTC
* * *
6601777 TAAACCTTAAACCCTAAACCTAAATCAC-TAAACCCTTAAATA-AAAATCCTAAATCCTAAAACT
1 TAAACCCTAAACCCTAAA-C--ACTCCCTTAAACCCTTAAATACAAAATCCTAAATCCTAAAACT
6601840 C
63 C
* * *
6601841 TAAACCTTAAACCTTAAACTCAAATCACTAACCCTTAAGCCCTTAAATACGAAATCCTAAATCCT
1 TAAACCCTAAACC-----CT-AAA-CACT--CCCTTAAACCCTTAAATACAAAATCCTAAATCCT
6601906 -AAA-TC
57 AAAACTC
* * * * ** * ** *
6601911 ATAAAACTCTAAA-CCTTAA-A---CCATAAA-CCATAAACCCTAAATCCTAAATAAT-AAACCC
1 -T-AAACCCTAAACCCTAAACACTCCCTTAAACCCTTAAATACAAAATCCTAAATCCTAAAACTC
** *
6601969 TAAACCCTAAACTATAGACACTAAACCCTTAAACCCTTAAATACAAAATCCTAAATCCTAAAACT
1 TAAACCCTAAACCCTAAACACT---CCCTTAAACCCTTAAATACAAAATCCTAAATCCTAAAACT
6602034 C
63 C
*
6602035 TAAACCGTAAA
1 TAAACCCTAAA
6602046 AATAAATTTA
Statistics
Matches: 208, Mismatches: 35, Indels: 50
0.71 0.12 0.17
Matches are distributed among these distances:
56 9 0.04
57 25 0.12
58 7 0.03
63 5 0.02
64 54 0.26
65 35 0.17
66 21 0.10
68 2 0.01
69 2 0.01
70 8 0.04
71 18 0.09
72 22 0.11
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.23
Consensus pattern (63 bp):
TAAACCCTAAACCCTAAACACTCCCTTAAACCCTTAAATACAAAATCCTAAATCCTAAAACTC
Done.