Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 274 of 276
Found at i:90645586 original size:2 final size:2
Alignment explanation
Indices: 90645579--90645603 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
90645569 GAAAAACAAC
90645579 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
90645604 CCATTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90655567 original size:19 final size:18
Alignment explanation
Indices: 90655528--90655564 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
90655518 AAAAAGAACG
90655528 ATAAAACCCTCCACATCA
1 ATAAAACCCTCCACATCA
90655546 ATAAAACCC-CTCACATCA
1 ATAAAACCCTC-CACATCA
90655564 A
1 A
90655565 ATATTTTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (18 bp):
ATAAAACCCTCCACATCA
Found at i:90664514 original size:20 final size:20
Alignment explanation
Indices: 90664486--90664526 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
90664476 TATTTGACAC
* * *
90664486 TCACTCATATTTTTTAATAT
1 TCACCCATAATTTTAAATAT
90664506 TCACCCATAATTTTAAATAT
1 TCACCCATAATTTTAAATAT
90664526 T
1 T
90664527 TCTTTGTAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (20 bp):
TCACCCATAATTTTAAATAT
Found at i:90665133 original size:42 final size:42
Alignment explanation
Indices: 90665086--90665169 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
90665076 AGCAGTGGAC
*
90665086 CTATTAAAACTGAAAAATAATGTTTTTTTCAACCTTTTTCTA
1 CTATTAAAAATGAAAAATAATGTTTTTTTCAACCTTTTTCTA
90665128 CTATTAAAAATGAAAAATAATGTTTTTTTCAACCTTTTTCTA
1 CTATTAAAAATGAAAAATAATGTTTTTTTCAACCTTTTTCTA
90665170 ATTTTTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (42 bp):
CTATTAAAAATGAAAAATAATGTTTTTTTCAACCTTTTTCTA
Found at i:90678101 original size:23 final size:23
Alignment explanation
Indices: 90678073--90678145 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 23
90678063 AGTGCGACTA
90678073 TTTTTTTATATTAAAATATATTTC
1 TTTTTTT-TATTAAAATATATTTC
* *
90678097 TTTTTGTTTTTTAAAATAAAATATTTT
1 TTTTT-TTTATTAAAAT---ATATTTC
90678124 TTTATTTTTATTAAAA-ATATTT
1 TTT-TTTTTATTAAAATATATTT
90678146 AATTTTATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
23 6 0.15
24 13 0.32
25 2 0.05
27 18 0.44
28 2 0.05
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (23 bp):
TTTTTTTTATTAAAATATATTTC
Found at i:90678893 original size:27 final size:27
Alignment explanation
Indices: 90678863--90678930 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
90678853 CTACCATTTA
*
90678863 CGCCTCTGAGATAGGCAT-AATTAGTCG
1 CGCCTCTGAGATAGGC-TCAACTAGTCG
* *
90678890 CGCCTCTGAGAAAAGCTCAACTAGTCG
1 CGCCTCTGAGATAGGCTCAACTAGTCG
90678917 CGCCTCTGAGATAG
1 CGCCTCTGAGATAG
90678931 ACGCAACCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.22
Consensus pattern (27 bp):
CGCCTCTGAGATAGGCTCAACTAGTCG
Found at i:90679031 original size:27 final size:28
Alignment explanation
Indices: 90678974--90679036 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
90678964 TACTGATCCG
*
90678974 AAAAT-AAAAAATAATATTTTATTTTAA
1 AAAATAAAAAAATAATATTTTATTATAA
*
90679001 AAAATAAAAAAAT-ATATTTT-TTAATAT
1 AAAATAAAAAAATAATATTTTATT-ATAA
90679028 AAAATAAAA
1 AAAATAAAA
90679037 GAGTCGCTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.06
27 23 0.72
28 7 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAATAAAAAAATAATATTTTATTATAA
Found at i:90686105 original size:26 final size:27
Alignment explanation
Indices: 90686076--90686134 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
90686066 ATTATGGTTT
90686076 TGGT-CCTTTTACTCTATCCCTCCAAA
1 TGGTACCTTTTACTCTATCCCTCCAAA
**
90686102 TGGTAAGTTTTTACTCTATCCCTCCAAA
1 TGGT-ACCTTTTACTCTATCCCTCCAAA
90686130 TGGTA
1 TGGTA
90686135 AGTTTGTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 1 0.03
28 24 0.83
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (27 bp):
TGGTACCTTTTACTCTATCCCTCCAAA
Found at i:90686114 original size:28 final size:28
Alignment explanation
Indices: 90686082--90686139 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
90686072 GTTTTGGTCC
90686082 TTTTACTCTATCCCTCCAAATGGTAAGT
1 TTTTACTCTATCCCTCCAAATGGTAAGT
90686110 TTTTACTCTATCCCTCCAAATGGTAAGT
1 TTTTACTCTATCCCTCCAAATGGTAAGT
90686138 TT
1 TT
90686140 GTACATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.41
Consensus pattern (28 bp):
TTTTACTCTATCCCTCCAAATGGTAAGT
Found at i:90688663 original size:22 final size:22
Alignment explanation
Indices: 90688638--90688686 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
90688628 TTTTCTTGTT
*
90688638 ATTTT-CTACCTATTTTGCTACA
1 ATTTTACTA-CTATCTTGCTACA
* *
90688660 ATTTTACTATTATCTTGCTACT
1 ATTTTACTACTATCTTGCTACA
90688682 ATTTT
1 ATTTT
90688687 GTTGTTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.55
Consensus pattern (22 bp):
ATTTTACTACTATCTTGCTACA
Found at i:90688760 original size:30 final size:30
Alignment explanation
Indices: 90688724--90688786 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
90688714 ACTTATTTTA
90688724 TTGTTAATTTTGTTATTATTTTA-AAGACAT
1 TTGTTAATTTTGTTATTATTTTAGAA-ACAT
90688754 TTGTTAATTTTGTTATTATTTTAGAAACAT
1 TTGTTAATTTTGTTATTATTTTAGAAACAT
90688784 TTG
1 TTG
90688787 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAACAT
Found at i:90688940 original size:12 final size:12
Alignment explanation
Indices: 90688910--90688942 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
90688900 TATATATTTT
90688910 AAAATT-ATATA
1 AAAATTAATATA
90688921 AAAA-TAATATA
1 AAAATTAATATA
90688932 AAAATTAATAT
1 AAAATTAATAT
90688943 TATCAGGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:90691000 original size:40 final size:39
Alignment explanation
Indices: 90690950--90691037 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 39
90690940 CAAATCCAAT
*
90690950 CACCACCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACAAAGCATGCGGGACTTT-AGCCCGGATATAA
* * *
90690990 TACCAGCACAAAGCCTGCGGGACTTTAGCCTGGATATAA
1 CACCAGCACAAAGCATGCGGGACTTTAGCCCGGATATAA
*
90691029 CAGCAGCAC
1 CACCAGCAC
90691038 GAATGCCTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 19 0.45
40 23 0.55
ACGTcount: A:0.33, C:0.30, G:0.22, T:0.16
Consensus pattern (39 bp):
CACCAGCACAAAGCATGCGGGACTTTAGCCCGGATATAA
Found at i:90691036 original size:39 final size:40
Alignment explanation
Indices: 90690950--90691076 Score: 125
Period size: 39 Copynumber: 3.2 Consensus size: 40
90690940 CAAATCCAAT
*
90690950 CACCACCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
* * *
90690990 TACCAGCACAAAGCCTGCGGGACTTT-AGCCTGGATATAA
1 CACCAGCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
* * * * * * *
90691029 CAGCAGCACGAATGCCTTCGGGGC-TTAA-TCCAGATATAA
1 CACCAGCAC-AAAGCATGCGGGACTTTAAGCCCGGATATAA
90691068 CACCAGCAC
1 CACCAGCAC
90691077 GAATGCCTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
39 37 0.51
40 35 0.49
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.17
Consensus pattern (40 bp):
CACCAGCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
Found at i:90691104 original size:39 final size:39
Alignment explanation
Indices: 90690967--90691106 Score: 147
Period size: 39 Copynumber: 3.5 Consensus size: 39
90690957 ACAAAGCATG
* * *
90690967 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
90691007 CGGGACTTTAGCCTGGATATAACAGCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* ** *
90691047 CGGGGCTTAATCCAGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
**
90691086 TAGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
90691107 TTCTCCATTA
Statistics
Matches: 82, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
39 62 0.76
40 20 0.24
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.21
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:90695378 original size:137 final size:137
Alignment explanation
Indices: 90694531--90695357 Score: 1420
Period size: 137 Copynumber: 6.0 Consensus size: 137
90694521 AGATTAAAGT
*
90694531 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAGAGATAGCAAATCTTATTTCCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
* * *
90694596 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACATATCCCATCTCTCTAAAGTTGCAGTAGAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
90694661 AGATCAA
131 AGATCAA
* * *
90694668 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGTGTAGACTAAAGATAGCAAATTTTATTTCCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
* *
90694733 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTTTCTGAAGTTGCAGTAAAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
90694798 AGATCAA
131 AGATCAA
* * * *
90694805 TACAAGTCTTATCTCTCTGAACTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTAA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
90694870 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
*
90694935 AAATCAA
131 AGATCAA
* *
90694942 CACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGATAGCAAATTTTATTTCCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
*
90695007 AGTTGCAGTGGAACAGATTGAAGCTATAAATCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
90695072 AGATCAA
131 AGATCAA
* * * *
90695079 CACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGTAGACTAAAGATAGCAAATCTTATTTCCCTAA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
*
90695144 AGTTGCAGTGGAATAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
90695209 AGATCAA
131 AGATCAA
90695216 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
* * *
90695281 AGTTGCAGTGGAACAGATTGAAGCTATAAATCACAGATCTCATCTATCTAAAGTTGCAGTAGAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
90695346 AGATCAA
131 AGATCAA
*
90695353 AACAA
1 CACAA
90695358 ACCCTATTTC
Statistics
Matches: 646, Mismatches: 44, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 646 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (137 bp):
CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
AGATCAA
Found at i:90698024 original size:7 final size:7
Alignment explanation
Indices: 90698012--90698045 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
90698002 NNNTTAAGGT
90698012 TTATGGA
1 TTATGGA
90698019 TTATGGA
1 TTATGGA
*
90698026 TTATGGGT
1 TTAT-GGA
90698034 TTATGGA
1 TTATGGA
90698041 TTATG
1 TTATG
90698046 ATTTACAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (7 bp):
TTATGGA
Found at i:90698077 original size:21 final size:22
Alignment explanation
Indices: 90698053--90698098 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
90698043 ATGATTTACA
*
90698053 GTTTATGGTTTAAGG-GTT-GGG
1 GTTTAAGGTTT-AGGTGTTAGGG
90698074 GTTTAAGGTTTAGGTGTTAGGG
1 GTTTAAGGTTTAGGTGTTAGGG
90698096 GTT
1 GTT
90698099 AGGGGTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 13 0.59
22 6 0.27
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.43
Consensus pattern (22 bp):
GTTTAAGGTTTAGGTGTTAGGG
Found at i:90698093 original size:7 final size:7
Alignment explanation
Indices: 90698083--90698126 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
90698073 GGTTTAAGGT
*
90698083 TTAGGTG
1 TTAGGGG
90698090 TTAGGGG
1 TTAGGGG
90698097 TTAGGGG
1 TTAGGGG
*
90698104 TTATGGG
1 TTAGGGG
*
90698111 TTATGGG
1 TTAGGGG
*
90698118 TTACGGG
1 TTAGGGG
90698125 TT
1 TT
90698127 TAAGGGTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.14, C:0.02, G:0.45, T:0.39
Consensus pattern (7 bp):
TTAGGGG
Found at i:90698511 original size:22 final size:23
Alignment explanation
Indices: 90698486--90698549 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
90698476 AATTTTTTAA
*
90698486 AAAAATTATTTAAAATT-AATAT
1 AAAAATTATTAAAAATTCAATAT
90698508 AAAAGA-TA-TAAAAATTCAATAT
1 AAAA-ATTATTAAAAATTCAATAT
* *
90698530 AAAAATTATAAAAAAGTCAA
1 AAAAATTATTAAAAATTCAA
90698550 ACATTAGCGG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 8 0.23
22 17 0.49
23 10 0.29
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (23 bp):
AAAAATTATTAAAAATTCAATAT
Found at i:90698585 original size:40 final size:40
Alignment explanation
Indices: 90698541--90698663 Score: 167
Period size: 40 Copynumber: 3.1 Consensus size: 40
90698531 AAAATTATAA
* *
90698541 AAAAGTCAAACATTAGCGGCGTTTATGATAAAAATGCCGC
1 AAAAGACAAACAATAGCGGCGTTTATGATAAAAATGCCGC
* * *
90698581 AAAAGACAAGCAATAGCGGCGTTTAT-ATAAAAACGCTGC
1 AAAAGACAAACAATAGCGGCGTTTATGATAAAAATGCCGC
* * *
90698620 AAAAGGCAATCAATAGCAGCGTTTATGATAAAAATGCCGC
1 AAAAGACAAACAATAGCGGCGTTTATGATAAAAATGCCGC
90698660 AAAA
1 AAAA
90698664 AGTAATTTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.47
40 38 0.53
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.20
Consensus pattern (40 bp):
AAAAGACAAACAATAGCGGCGTTTATGATAAAAATGCCGC
Found at i:90698622 original size:39 final size:40
Alignment explanation
Indices: 90698554--90698663 Score: 168
Period size: 39 Copynumber: 2.8 Consensus size: 40
90698544 AGTCAAACAT
90698554 TAGCGGCGTTTATGATAAAAATGCCGCAAAAGACAAGCAA
1 TAGCGGCGTTTATGATAAAAATGCCGCAAAAGACAAGCAA
* * * *
90698594 TAGCGGCGTTTAT-ATAAAAACGCTGCAAAAGGCAATCAA
1 TAGCGGCGTTTATGATAAAAATGCCGCAAAAGACAAGCAA
*
90698633 TAGCAGCGTTTATGATAAAAATGCCGCAAAA
1 TAGCGGCGTTTATGATAAAAATGCCGCAAAA
90698664 AGTAATTTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.55
40 28 0.45
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.20
Consensus pattern (40 bp):
TAGCGGCGTTTATGATAAAAATGCCGCAAAAGACAAGCAA
Found at i:90699607 original size:132 final size:132
Alignment explanation
Indices: 90699366--90699623 Score: 313
Period size: 132 Copynumber: 2.0 Consensus size: 132
90699356 TTAAAAATTA
** * * *
90699366 TTTAAAACGAAGGCGATGTTCGATGTTTGGCAATTTGGGGAATCGTGCCCTACCGTACTGGGTTG
1 TTTAAAACGAAGGAAATGTTCGATGTTTAGCAATTCGGGGAATAGTGCCCTACCGTACTGGGTTG
* * * * * ** * * *
90699431 CAATTTCTCGTTTGCTCGAAATAATCGAGTGTCTCTTTAGAATTTCACTCATGTTTTCTAAAAAA
66 CAATCTCCCATTTGCTCAAAATAATCGAATACCCCTTGAGAATTTCACACATGTTTTCTAAAAAA
90699496 AT
131 AT
* * *
90699498 TTTAAAATGAAGGAAATGTTCGATGTTTAGCAATTCGGAGG-ATAGTGCCCTATCGTGCTGGGTT
1 TTTAAAACGAAGGAAATGTTCGATGTTTAGCAATTCGG-GGAATAGTGCCCTACCGTACTGGGTT
*
90699562 GCAATCTCCCATTTGCTCAAAATAATCGAATACCCCTTCGA-AATTTCACACGTGTTTTCTAA
65 GCAATCTCCCATTTGCTCAAAATAATCGAATACCCCTT-GAGAATTTCACACATGTTTTCTAA
90699624 GGAAGGCAAT
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
132 102 0.97
133 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (132 bp):
TTTAAAACGAAGGAAATGTTCGATGTTTAGCAATTCGGGGAATAGTGCCCTACCGTACTGGGTTG
CAATCTCCCATTTGCTCAAAATAATCGAATACCCCTTGAGAATTTCACACATGTTTTCTAAAAAA
AT
Found at i:90711482 original size:45 final size:44
Alignment explanation
Indices: 90711366--90711900 Score: 253
Period size: 41 Copynumber: 11.9 Consensus size: 44
90711356 AGCTATAAAC
* * * **
90711366 CACAGATCTCATCTCTCTGAAGTTGCAGTAAAGCAGATC--A-A
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGA
* * * *
90711407 CACAAGTCTTATATCTCTGAACTTGCAGTGGAGCAGA-CAAGAGA
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAA-AGA
* * *
90711451 CATCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAA-A
1 CA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T----C-A-AAGA
* * ** * *
90711502 CCACAGATCTCATCTCTGTGAAGTTGCAGTAGAGCAAATC--A-A
1 -CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGA
* * * *
90711544 CACAAGTCTTATCTCCCTAAAGTTACGGTGGAGCAGA-CTAAAGA
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-AAAGA
* * * *
90711588 TAGCAAATTTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA-A
1 CA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T----C-A-AAGA
* * *
90711639 TCACAGATCTCATCTCTCTGAAGTTGCAGTGGAGCAGATC--A-A
1 -CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGA
* * *
90711681 CACAAGTCTTATCTCCCTGAAGTTGCAATAGAGCAGA-CTAAAGA
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-AAAGA
* * *
90711725 TAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA-A
1 CA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T----C-A-AAGA
* * *
90711776 TCACAGATCTCATCTCTCTGAAGTTGCAGTGGAGCAGATC--A-A
1 -CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGA
* * *
90711818 CACAAGTCTTATCTCCCTGAAGTTGCAATAGAGCAGA-CTAAAGA
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-AAAGA
* * *
90711862 TAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGAT
1 CA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
90711901 TGAAGCTATA
Statistics
Matches: 371, Mismatches: 77, Indels: 87
0.69 0.14 0.16
Matches are distributed among these distances:
40 4 0.01
41 119 0.32
42 6 0.02
43 4 0.01
44 9 0.02
45 117 0.32
46 3 0.01
50 3 0.01
51 95 0.26
52 10 0.03
53 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (44 bp):
CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGA
Found at i:90711532 original size:137 final size:137
Alignment explanation
Indices: 90711280--90711959 Score: 1110
Period size: 137 Copynumber: 5.0 Consensus size: 137
90711270 CCCATAGCAG
* *
90711280 ATCTCCCTGAAGTTGCAGTGGTGTAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTG
* *
90711345 GAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAAAGCAGATCAACAC
66 GAACAGATTGAAGCTATAAATCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCAGATCAACAC
90711410 AAGTCTT
131 AAGTCTT
* * * * * *
90711417 ATATCTCTGAACTTGCAGTGGAGCAGAC-AAGAGACATCAAATCTTATTTCCCTGAAGTTGTAGT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAA-AGATAGCAAATCTTATTTCCCTGAAGTTGCAGT
* * *
90711481 GGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTGTGAAGTTGCAGTAGAGCAAATCAACA
65 GGAACAGATTGAAGCTATAAATCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCAGATCAACA
90711546 CAAGTCTT
130 CAAGTCTT
* * * *
90711554 ATCTCCCTAAAGTTACGGTGGAGCAGACTAAAGATAGCAAATTTTATTTCCCTGAAGTTGCAGTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTG
*
90711619 GAACAGATTGAAGCTATAAATCACAGATCTCATCTCTCTGAAGTTGCAGTGGAGCAGATCAACAC
66 GAACAGATTGAAGCTATAAATCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCAGATCAACAC
90711684 AAGTCTT
131 AAGTCTT
* *
90711691 ATCTCCCTGAAGTTGCAATAGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTG
*
90711756 GAACAGATTGAAGCTATAAATCACAGATCTCATCTCTCTGAAGTTGCAGTGGAGCAGATCAACAC
66 GAACAGATTGAAGCTATAAATCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCAGATCAACAC
90711821 AAGTCTT
131 AAGTCTT
* *
90711828 ATCTCCCTGAAGTTGCAATAGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTG
* * *
90711893 GAACAGATTGAAGCTATAAATCACAGATCTCATCTCTCTAAAGTTGCAGTAGTGCAGATCAAAAC
66 GAACAGATTGAAGCTATAAATCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCAGATCAACAC
90711958 AA
131 AA
90711960 ACCCTATTTC
Statistics
Matches: 506, Mismatches: 35, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
136 2 0.00
137 502 0.99
138 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (137 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTG
GAACAGATTGAAGCTATAAATCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCAGATCAACAC
AAGTCTT
Found at i:90712202 original size:25 final size:25
Alignment explanation
Indices: 90712172--90712220 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
90712162 ATTTGCCAGA
90712172 CCCGTTTACAACCCCTAAACCCAAT
1 CCCGTTTACAACCCCTAAACCCAAT
90712197 CCCGTTTACAACCCCTAAACCCAA
1 CCCGTTTACAACCCCTAAACCCAA
90712221 CACCTAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.45, G:0.04, T:0.18
Consensus pattern (25 bp):
CCCGTTTACAACCCCTAAACCCAAT
Found at i:90714122 original size:12 final size:12
Alignment explanation
Indices: 90714105--90714130 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
90714095 AAAATAGGGC
90714105 TTTAGCGGCGTT
1 TTTAGCGGCGTT
90714117 TTTAGCGGCGTT
1 TTTAGCGGCGTT
90714129 TT
1 TT
90714131 ATCAAAAAAC
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:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:90714276 original size:31 final size:32
Alignment explanation
Indices: 90714233--90714293 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
90714223 GTAAAACGCC
* *
90714233 GCTAAAATACAGATCTTTAGCGGCG-TTTTAA
1 GCTAAAAGACAGAGCTTTAGCGGCGCTTTTAA
90714264 GCTAAAAGACAGAGCTTTAGCGGCGCTTTT
1 GCTAAAAGACAGAGCTTTAGCGGCGCTTTT
90714294 GGTAAAACGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (32 bp):
GCTAAAAGACAGAGCTTTAGCGGCGCTTTTAA
Found at i:90714952 original size:24 final size:24
Alignment explanation
Indices: 90714925--90714973 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
90714915 CGTATATTTA
*
90714925 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
90714949 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
90714973 T
1 T
90714974 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:90715511 original size:20 final size:19
Alignment explanation
Indices: 90715490--90715527 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
90715480 TATTTCTCTC
*
90715490 CCCCGATTCCCTTTTCTTT
1 CCCCAATTCCCTTTTCTTT
90715509 -CCCAATTCCCTTTTCTTT
1 CCCCAATTCCCTTTTCTTT
90715527 C
1 C
90715528 TCAGCCTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.42, G:0.03, T:0.47
Consensus pattern (19 bp):
CCCCAATTCCCTTTTCTTT
Found at i:90715628 original size:35 final size:35
Alignment explanation
Indices: 90715558--90715633 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
90715548 CCATTTGCCT
* *
90715558 AAATCATAGTTCCCCCGAAACCCTCATTTTCCCCC
1 AAATCATAGTTCCCCCAAAACCCTCAATTTCCCCC
90715593 AAATCATAGTTCCCCCAAAACCC-CAAAATTT-CCCC
1 AAATCATAGTTCCCCCAAAACCCTC--AATTTCCCCC
90715628 AAATCA
1 AAATCA
90715634 AACCCATTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
34 1 0.03
35 32 0.86
36 4 0.11
ACGTcount: A:0.34, C:0.39, G:0.04, T:0.22
Consensus pattern (35 bp):
AAATCATAGTTCCCCCAAAACCCTCAATTTCCCCC
Found at i:90718937 original size:241 final size:241
Alignment explanation
Indices: 90718514--90718948 Score: 852
Period size: 241 Copynumber: 1.8 Consensus size: 241
90718504 ATGAATTAAT
*
90718514 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
*
90718579 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
90718644 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
90718709 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
90718755 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
90718820 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
90718885 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
90718949 ACTATATTCA
Statistics
Matches: 192, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 192 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:90719091 original size:9 final size:9
Alignment explanation
Indices: 90719068--90719186 Score: 94
Period size: 9 Copynumber: 12.6 Consensus size: 9
90719058 ATTGATCATT
*
90719068 ACTTAAATA
1 ACTTACATA
*
90719077 AATTACATA
1 ACTTACATA
*
90719086 ACTTACTTA
1 ACTTACATA
* *
90719095 ACTCATATA
1 ACTTACATA
90719104 ACTTACATA
1 ACTTACATA
*
90719113 ATTTACATAACA
1 ACTTACAT---A
90719125 ACTTACATA
1 ACTTACATA
*
90719134 ACTCACATA
1 ACTTACATA
*
90719143 ATTTACATA
1 ACTTACATA
*
90719152 ACTCACATA
1 ACTTACATA
*
90719161 ACGTACATAACA
1 ACTTACAT---A
90719173 ACTTACATA
1 ACTTACATA
90719182 ACTTA
1 ACTTA
90719187 ACTAATACAT
Statistics
Matches: 85, Mismatches: 19, Indels: 12
0.73 0.16 0.10
Matches are distributed among these distances:
9 69 0.81
12 16 0.19
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:90719138 original size:39 final size:39
Alignment explanation
Indices: 90719085--90719162 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
90719075 TAAATTACAT
* * * *
90719085 AACTTACTTAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAACTCACATAAC
*
90719124 AACTTACATAACTCACATAATTTACATAACTCACATAAC
1 AACTTACATAACTCACATAACTTACATAACTCACATAAC
90719163 GTACATAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAACTCACATAAC
Found at i:90726047 original size:132 final size:132
Alignment explanation
Indices: 90725801--90726071 Score: 350
Period size: 132 Copynumber: 2.1 Consensus size: 132
90725791 TTTTTTATAA
** * *
90725801 TTTT-TAAAAATTATTTAAAACGAAGGCGATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCT
1 TTTTCTAAAAATTATTTAAAACGAAGGAAATGTTCGATGTTTAGCAATTCGGGGAATAGTGCCCT
* * * * * * ** * *
90725865 ACCGTGCTGGGTTGCAATTTCTCGTTTGCTCGAAATAATCGAGTGTCTCTTTAGAATTTCACTCA
66 ACCATGCTGGGTTGCAATCTCCCATTTGCTCAAAATAATCGAATACCTCTTCAGAATTTCACACA
90725930 TG
131 TG
90725932 TTTTCTAAAAACTT-TTTAAAACGAAGGAAATGTTCGATGTTTAGCAATTCGGAGG-ATAGTGCC
1 TTTTCTAAAAA-TTATTTAAAACGAAGGAAATGTTCGATGTTTAGCAATTCGG-GGAATAGTGCC
* *
90725995 CTATCATGCTGGGTTGCAATCTCCCATTTGCTCAAAATAATCGAATACCTCTTCGGAATTTCACA
64 CTACCATGCTGGGTTGCAATCTCCCATTTGCTCAAAATAATCGAATACCTCTTCAGAATTTCACA
*
90726060 CGTG
129 CATG
90726064 TTTTCTAA
1 TTTTCTAA
90726072 GGCAAGGCAA
Statistics
Matches: 120, Mismatches: 17, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
131 4 0.03
132 112 0.93
133 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (132 bp):
TTTTCTAAAAATTATTTAAAACGAAGGAAATGTTCGATGTTTAGCAATTCGGGGAATAGTGCCCT
ACCATGCTGGGTTGCAATCTCCCATTTGCTCAAAATAATCGAATACCTCTTCAGAATTTCACACA
TG
Found at i:90727969 original size:4 final size:4
Alignment explanation
Indices: 90727960--90727990 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
90727950 TTTTAAGCAT
90727960 TATC TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TAT
90727991 ATATATAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:90730197 original size:38 final size:38
Alignment explanation
Indices: 90730146--90730218 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
90730136 TATAATCTCA
90730146 AATTTTCCATGCTAAGCTAAAAGCAAAAGAAAAATTCG
1 AATTTTCCATGCTAAGCTAAAAGCAAAAGAAAAATTCG
* *
90730184 AATTTTCCATGCTAAGCTTAAAGCAAAATAAAAAT
1 AATTTTCCATGCTAAGCTAAAAGCAAAAGAAAAAT
90730219 CATTGCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (38 bp):
AATTTTCCATGCTAAGCTAAAAGCAAAAGAAAAATTCG
Found at i:90740936 original size:20 final size:20
Alignment explanation
Indices: 90740911--90740954 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
90740901 ATAATTATTT
90740911 ATTT-AATTTTTTTACTTATA
1 ATTTAAATTTTTTTA-TTATA
*
90740931 ATTTAAATTTTTTTATTTTA
1 ATTTAAATTTTTTTATTATA
90740951 ATTT
1 ATTT
90740955 TGTACATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTAAATTTTTTTATTATA
Found at i:90745117 original size:17 final size:17
Alignment explanation
Indices: 90745095--90745128 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
90745085 TTATAATAAA
90745095 TTAAGCACTATTATTTT
1 TTAAGCACTATTATTTT
90745112 TTAAGCACTATTATTTT
1 TTAAGCACTATTATTTT
90745129 CTCTTCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
TTAAGCACTATTATTTT
Found at i:90746874 original size:13 final size:13
Alignment explanation
Indices: 90746858--90746897 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
90746848 CAATCTCATA
90746858 TCTCAATTTCAAT
1 TCTCAATTTCAAT
90746871 TCTCAA-TTCAATT
1 TCTCAATTTCAA-T
90746884 TCTC-ATTTC-AT
1 TCTCAATTTCAAT
90746895 TCT
1 TCT
90746898 AATAGTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.16
12 7 0.28
13 14 0.56
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (13 bp):
TCTCAATTTCAAT
Found at i:90746883 original size:18 final size:19
Alignment explanation
Indices: 90746845--90746885 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
90746835 TGGTTCATGT
90746845 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
90746864 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
90746882 TTTC
1 TTTC
90746886 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:90747078 original size:23 final size:21
Alignment explanation
Indices: 90747047--90747132 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
90747037 CCTGATCAGT
* *
90747047 ATACGACACATAAAGTGTCTG
1 ATACGACACACAAAGTGCCTG
* *
90747068 ATACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTG
* *
90747089 ATACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTG
* *
90747110 ATACGACACATAAAGTGCTTG
1 ATACGACACACAAAGTGCCTG
90747131 AT
1 AT
90747133 CGATAAAGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (21 bp):
ATACGACACACAAAGTGCCTG
Found at i:90755187 original size:278 final size:278
Alignment explanation
Indices: 90754690--90755239 Score: 1082
Period size: 278 Copynumber: 2.0 Consensus size: 278
90754680 TCCCGCAAGA
90754690 CTTTTGTCACCTGATGTCACACGTCCCCAAAGTTGCAAACAGAACTCTATTGGAAGGTCTTAGAA
1 CTTTTGTCACCTGATGTCACACGTCCCCAAAGTTGCAAACAGAACTCTATTGGAAGGTCTTAGAA
90754755 TCAAACCATACGAGGTGCATCTTCAGGTGATAGTTTTGAGAGATATATAGGTGTCTGAACAATAC
66 TCAAACCATACGAGGTGCATCTTCAGGTGATAGTTTTGAGAGATATATAGGTGTCTGAACAATAC
90754820 CGGATTATGAGCATGATGTGTGGTGCGGGGAAATGAGTGTGCCCAATCGGCCAGTCATGACATAT
131 CGGATTATGAGCATGATGTGTGGTGCGGGGAAATGAGTGTGCCCAATCGGCCAGTCATGACATAT
90754885 ATAGATGAAAGGAGTATAAATACTAGAACAATATATGGTAGATATCACCTTTACAGGTAGCTGAA
196 ATAGATGAAAGGAGTATAAATACTAGAACAATATATGGTAGATATCACCTTTACAGGTAGCTGAA
90754950 TTAAGCTTGAGTATTAAG
261 TTAAGCTTGAGTATTAAG
*
90754968 CTTTTGTCACCTGATGTCACACGTCCCCAAAGTTGCAAACAGAACTCTATTGGAAGGTCTTAGGA
1 CTTTTGTCACCTGATGTCACACGTCCCCAAAGTTGCAAACAGAACTCTATTGGAAGGTCTTAGAA
*
90755033 TCGAACCATACGAGGTGCATCTTCAGGTGATAGTTTTGAGAGATATATAGGTGTCTGAACAATAC
66 TCAAACCATACGAGGTGCATCTTCAGGTGATAGTTTTGAGAGATATATAGGTGTCTGAACAATAC
90755098 CGGATTATGAGCATGATGTGTGGTGCGGGGAAATGAGTGTGCCCAATCGGCCAGTCATGACATAT
131 CGGATTATGAGCATGATGTGTGGTGCGGGGAAATGAGTGTGCCCAATCGGCCAGTCATGACATAT
90755163 ATAGATGAAAGGAGTATAAATACTAGAACAATATATGGTAGATATCACCTTTACAGGTAGCTGAA
196 ATAGATGAAAGGAGTATAAATACTAGAACAATATATGGTAGATATCACCTTTACAGGTAGCTGAA
90755228 TTAAGCTTGAGT
261 TTAAGCTTGAGT
90755240 TCACATATGA
Statistics
Matches: 270, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
278 270 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (278 bp):
CTTTTGTCACCTGATGTCACACGTCCCCAAAGTTGCAAACAGAACTCTATTGGAAGGTCTTAGAA
TCAAACCATACGAGGTGCATCTTCAGGTGATAGTTTTGAGAGATATATAGGTGTCTGAACAATAC
CGGATTATGAGCATGATGTGTGGTGCGGGGAAATGAGTGTGCCCAATCGGCCAGTCATGACATAT
ATAGATGAAAGGAGTATAAATACTAGAACAATATATGGTAGATATCACCTTTACAGGTAGCTGAA
TTAAGCTTGAGTATTAAG
Found at i:90756474 original size:29 final size:30
Alignment explanation
Indices: 90756411--90756474 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 30
90756401 CATTCAATTA
*
90756411 ATTTTTAAAATTCAAAAAGATCATAAAAATT
1 ATTTTTAAAATT-AAAAAGATCATAAAAATC
*
90756442 ATTTTTAAAAATT-AAAA-ATCATTAAAATC
1 ATTTTT-AAAATTAAAAAGATCATAAAAATC
90756471 ATTT
1 ATTT
90756475 AAAAAGTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 14 0.47
30 4 0.13
31 6 0.20
32 6 0.20
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (30 bp):
ATTTTTAAAATTAAAAAGATCATAAAAATC
Found at i:90760572 original size:3 final size:3
Alignment explanation
Indices: 90760566--90760600 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
90760556 AGAAGAAGAA
*
90760566 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT AAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
90760601 AAAAGAGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:90765207 original size:10 final size:10
Alignment explanation
Indices: 90765192--90765237 Score: 51
Period size: 9 Copynumber: 4.8 Consensus size: 10
90765182 AAATATTAAT
90765192 TTTTTAATAA
1 TTTTTAATAA
*
90765202 TTTTT-ATAC
1 TTTTTAATAA
90765211 TTTTTAAT-A
1 TTTTTAATAA
* *
90765220 GTTTTAATGA
1 TTTTTAATAA
90765230 TTTTTAAT
1 TTTTTAAT
90765238 TTTAAGAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 15 0.50
10 15 0.50
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:90765216 original size:19 final size:19
Alignment explanation
Indices: 90765192--90765237 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
90765182 AAATATTAAT
*
90765192 TTTTTAATAATTTTTAT-A
1 TTTTTAATAATTTTAATGA
*
90765210 CTTTTTAATAGTTTTAATGA
1 -TTTTTAATAATTTTAATGA
90765230 TTTTTAAT
1 TTTTTAAT
90765238 TTTAAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTTAATAATTTTAATGA
Found at i:90777976 original size:16 final size:16
Alignment explanation
Indices: 90777955--90777986 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
90777945 TTTGATTCAC
90777955 AGAGAATGGAATTTAT
1 AGAGAATGGAATTTAT
90777971 AGAGAATGGAATTTAT
1 AGAGAATGGAATTTAT
90777987 CTTTTTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (16 bp):
AGAGAATGGAATTTAT
Found at i:90788368 original size:27 final size:27
Alignment explanation
Indices: 90788338--90788515 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90788328 ATATTGAGTC
* * * *
90788338 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
90788365 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90788392 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
90788420 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
90788447 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
90788474 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90788501 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
90788516 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:90788477 original size:82 final size:81
Alignment explanation
Indices: 90788359--90788514 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90788349 TGCTATATAA
* *
90788359 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
90788424 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
90788441 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
90788505 CACTTAGTGC
65 CACTTAGTGC
90788515 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:90791477 original size:5 final size:5
Alignment explanation
Indices: 90791467--90791494 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
90791457 AAAAAATCCT
90791467 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
90791495 GAGATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:90793474 original size:6 final size:6
Alignment explanation
Indices: 90793463--90793492 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
90793453 ATTTGCGAAT
90793463 AATTAA AATTAA AATTAA AATTAA AATTAA
1 AATTAA AATTAA AATTAA AATTAA AATTAA
90793493 TTTTGTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:90794414 original size:55 final size:55
Alignment explanation
Indices: 90794353--90794522 Score: 151
Period size: 55 Copynumber: 3.2 Consensus size: 55
90794343 TTTAATCATT
90794353 TAAAAATTATAAAAATATAGGCTATTAAATTAATAAAATTACATTTTTACGATAA
1 TAAAAATTATAAAAATATAGGCTATTAAATTAATAAAATTACATTTTTACGATAA
** * * * ** * ** *
90794408 TAAAAATTATAGTTTAATTTCGACCCTTAAAATAAT--TTTCTA-ACTTTT----T--
1 TAAAAATTATA--AAAATATAGGCTATTAAATTAATAAAAT-TACATTTTTACGATAA
90794457 TAAAAATTATAAAAATATAGGCTATTAAATTAATAAAATTACATTTTTACGATAA
1 TAAAAATTATAAAAATATAGGCTATTAAATTAATAAAATTACATTTTTACGATAA
90794512 TAAAAATTATA
1 TAAAAATTATA
90794523 GTTTAATTTC
Statistics
Matches: 81, Mismatches: 22, Indels: 24
0.64 0.17 0.19
Matches are distributed among these distances:
47 15 0.19
48 2 0.02
49 17 0.21
51 1 0.01
53 1 0.01
55 28 0.35
56 2 0.02
57 15 0.19
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (55 bp):
TAAAAATTATAAAAATATAGGCTATTAAATTAATAAAATTACATTTTTACGATAA
Found at i:90794446 original size:47 final size:49
Alignment explanation
Indices: 90794386--90794544 Score: 115
Period size: 49 Copynumber: 3.1 Consensus size: 49
90794376 ATTAAATTAA
90794386 TAAAATTACATTTTTACGATAATAAAAATTATAGTTTAATTTCGACCCT
1 TAAAATTACATTTTTACGATAATAAAAATTATAGTTTAATTTCGACCCT
** ** * * * ** ****
90794435 TAAAA-TA-ATTTTCTAACTTTTTTAAAAATTATAAAAATATAGGCTATTAAATTAA
1 TAAAATTACATTTT-T-ACGATAATAAAAATTAT---AGTTTA--AT-TTCGACCCT
90794490 TAAAATTACATTTTTACGATAATAAAAATTATAGTTTAATTTCGACCCT
1 TAAAATTACATTTTTACGATAATAAAAATTATAGTTTAATTTCGACCCT
90794539 TAAAAT
1 TAAAAT
90794545 AATTTTCTAA
Statistics
Matches: 74, Mismatches: 26, Indels: 20
0.62 0.22 0.17
Matches are distributed among these distances:
47 5 0.07
48 3 0.04
49 27 0.36
50 1 0.01
52 8 0.11
54 1 0.01
55 21 0.28
56 3 0.04
57 5 0.07
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (49 bp):
TAAAATTACATTTTTACGATAATAAAAATTATAGTTTAATTTCGACCCT
Found at i:90794458 original size:57 final size:57
Alignment explanation
Indices: 90794396--90794559 Score: 154
Period size: 57 Copynumber: 3.1 Consensus size: 57
90794386 TAAAATTACA
90794396 TTTTTACGATAATAAAAATTATAGTTTAATTTCGACCCTTAAAATAATTTTCTAACT
1 TTTTTACGATAATAAAAATTATAGTTTAATTTCGACCCTTAAAATAATTTTCTAACT
** * ** ** *
90794453 TTTTTAAAAATTATAAAAA-TATAGGCT-A-TT--A-AATTAATAA-AA---T-T-ACA
1 TTTTT-ACGATAATAAAAATTATAGTTTAATTTCGACCCTTAA-AATAATTTTCTAACT
90794500 TTTTTACGATAATAAAAATTATAGTTTAATTTCGACCCTTAAAATAATTTTCTAACT
1 TTTTTACGATAATAAAAATTATAGTTTAATTTCGACCCTTAAAATAATTTTCTAACT
90794557 TTT
1 TTT
90794560 CCCTTGATAA
Statistics
Matches: 77, Mismatches: 16, Indels: 28
0.64 0.13 0.23
Matches are distributed among these distances:
46 10 0.13
47 13 0.17
48 2 0.03
49 3 0.04
51 3 0.04
52 12 0.16
53 3 0.04
55 3 0.04
56 2 0.03
57 16 0.21
58 10 0.13
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (57 bp):
TTTTTACGATAATAAAAATTATAGTTTAATTTCGACCCTTAAAATAATTTTCTAACT
Found at i:90794470 original size:104 final size:104
Alignment explanation
Indices: 90794351--90794559 Score: 418
Period size: 104 Copynumber: 2.0 Consensus size: 104
90794341 AATTTAATCA
90794351 TTTAAAAATTATAAAAATATAGGCTATTAAATTAATAAAATTACATTTTTACGATAATAAAAATT
1 TTTAAAAATTATAAAAATATAGGCTATTAAATTAATAAAATTACATTTTTACGATAATAAAAATT
90794416 ATAGTTTAATTTCGACCCTTAAAATAATTTTCTAACTTT
66 ATAGTTTAATTTCGACCCTTAAAATAATTTTCTAACTTT
90794455 TTTAAAAATTATAAAAATATAGGCTATTAAATTAATAAAATTACATTTTTACGATAATAAAAATT
1 TTTAAAAATTATAAAAATATAGGCTATTAAATTAATAAAATTACATTTTTACGATAATAAAAATT
90794520 ATAGTTTAATTTCGACCCTTAAAATAATTTTCTAACTTT
66 ATAGTTTAATTTCGACCCTTAAAATAATTTTCTAACTTT
90794559 T
1 T
90794560 CCCTTGATAA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.42
Consensus pattern (104 bp):
TTTAAAAATTATAAAAATATAGGCTATTAAATTAATAAAATTACATTTTTACGATAATAAAAATT
ATAGTTTAATTTCGACCCTTAAAATAATTTTCTAACTTT
Found at i:90806103 original size:24 final size:24
Alignment explanation
Indices: 90806058--90806104 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
90806048 TCACATATAG
* *
90806058 AATTGGATGCATGATCAGATACAA
1 AATTAGATGCATGATCAAATACAA
90806082 AATTAGATGCAT-ACTCAAATACA
1 AATTAGATGCATGA-TCAAATACA
90806105 GAATCATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (24 bp):
AATTAGATGCATGATCAAATACAA
Found at i:90809063 original size:37 final size:36
Alignment explanation
Indices: 90809018--90809088 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 36
90809008 TTCCAACATG
*
90809018 TTTTACTCTCT-TCGTCTTGTACTTTTCTCTTATTTA
1 TTTTACTCTCTCT-ATCTTGTACTTTTCTCTTATTTA
90809054 TTTTGACTCTCTCTATCTTGTACTTTTCTCTTATT
1 TTTT-ACTCTCTCTATCTTGTACTTTTCTCTTATT
90809089 AGTGAAATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 4 0.12
37 27 0.84
38 1 0.03
ACGTcount: A:0.11, C:0.23, G:0.06, T:0.61
Consensus pattern (36 bp):
TTTTACTCTCTCTATCTTGTACTTTTCTCTTATTTA
Found at i:90810989 original size:43 final size:43
Alignment explanation
Indices: 90810925--90811042 Score: 191
Period size: 43 Copynumber: 2.7 Consensus size: 43
90810915 AATTATTTTC
90810925 AAGATCAAGTCTCGGTGACCCTTAAAGCAAACATCATTGATTT
1 AAGATCAAGTCTCGGTGACCCTTAAAGCAAACATCATTGATTT
* * **
90810968 AATATCAAGTCTCGGTAACCCTTAAAATAAACATCATTGATTT
1 AAGATCAAGTCTCGGTGACCCTTAAAGCAAACATCATTGATTT
*
90811011 AAGATCAAGTCTCGGTGACCCTTGAAGCAAAC
1 AAGATCAAGTCTCGGTGACCCTTAAAGCAAAC
90811043 CACATCCTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.27
Consensus pattern (43 bp):
AAGATCAAGTCTCGGTGACCCTTAAAGCAAACATCATTGATTT
Found at i:90812817 original size:18 final size:18
Alignment explanation
Indices: 90812777--90812828 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
90812767 CAATTTAATT
* *
90812777 TTTTCTTTTTATTTCTTTA
1 TTTTCATTTT-TTTCTTCA
* *
90812796 TTTTCCTTTTTTTCTTCC
1 TTTTCATTTTTTTCTTCA
*
90812814 TTTTTATTTTTTTCT
1 TTTTCATTTTTTTCT
90812829 CTCTTCTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 19 0.68
19 9 0.32
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCATTTTTTTCTTCA
Found at i:90818207 original size:20 final size:20
Alignment explanation
Indices: 90818184--90818221 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90818174 ATATATATAC
*
90818184 AATATAAAAATATATAAAAG
1 AATATAAAAATAAATAAAAG
*
90818204 AATATAAATATAAATAAA
1 AATATAAAAATAAATAAA
90818222 GTGAGTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (20 bp):
AATATAAAAATAAATAAAAG
Found at i:90818281 original size:12 final size:13
Alignment explanation
Indices: 90818263--90818311 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
90818253 TAAAAATATG
90818263 ATATTTAATAATA
1 ATATTTAATAATA
90818276 AT-TTTAA-AATA
1 ATATTTAATAATA
*
90818287 GTATTTAATATATA
1 ATATTTAATA-ATA
*
90818301 ATATATAATAA
1 ATATTTAATAA
90818312 CAAAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 5 0.17
12 10 0.33
13 4 0.13
14 11 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:90818310 original size:24 final size:24
Alignment explanation
Indices: 90818255--90818308 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
90818245 ACTTATAATA
*
90818255 AAAATATGATATTTAATAATAATTTT
1 AAAATA-G-TATTTAATAATAATTAT
90818281 AAAATAGTATTTAATATATAATATAT
1 AAAATAGTATTTAATA-ATAAT-TAT
90818307 AA
1 AA
90818309 TAACAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 9 0.36
25 6 0.24
26 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
AAAATAGTATTTAATAATAATTAT
Found at i:90818359 original size:17 final size:18
Alignment explanation
Indices: 90818300--90818360 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
90818290 TTTAATATAT
*
90818300 AATATATAATAACAAAAAA
1 AATATAT-ATAACAATAAA
* *
90818319 AAT-TATAAAAGAATAATA
1 AATATATATAACAATAA-A
*
90818337 ATTATATATAA-AATAAA
1 AATATATATAACAATAAA
90818354 AATATAT
1 AATATAT
90818361 TGGTTTAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 14 0.41
18 11 0.32
19 9 0.26
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AATATATATAACAATAAA
Found at i:90819805 original size:116 final size:116
Alignment explanation
Indices: 90819658--90819881 Score: 439
Period size: 116 Copynumber: 1.9 Consensus size: 116
90819648 TTTTATTTAT
90819658 CCTAATACTTTGTTTCAGTTTTGATTTAGTCCTTGCAATAGTAATTTTAAGTCCAGAATTAAAAC
1 CCTAATACTTTGTTTCAGTTTTGATTTAGTCCTTGCAATAGTAATTTTAAGTCCAGAATTAAAAC
90819723 GCTGCCGTTTTGGGAATAGGGCGATTTGCCCAATGGGTCCCTTGATTTAGC
66 GCTGCCGTTTTGGGAATAGGGCGATTTGCCCAATGGGTCCCTTGATTTAGC
*
90819774 CCTAATATTTTGTTTCAGTTTTGATTTAGTCCTTGCAATAGTAATTTTAAGTCCAGAATTAAAAC
1 CCTAATACTTTGTTTCAGTTTTGATTTAGTCCTTGCAATAGTAATTTTAAGTCCAGAATTAAAAC
90819839 GCTGCCGTTTTGGGAATAGGGCGATTTGCCCAATGGGTCCCTT
66 GCTGCCGTTTTGGGAATAGGGCGATTTGCCCAATGGGTCCCTT
90819882 TTGTTTTACA
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 107 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (116 bp):
CCTAATACTTTGTTTCAGTTTTGATTTAGTCCTTGCAATAGTAATTTTAAGTCCAGAATTAAAAC
GCTGCCGTTTTGGGAATAGGGCGATTTGCCCAATGGGTCCCTTGATTTAGC
Found at i:90820042 original size:7 final size:7
Alignment explanation
Indices: 90820030--90820144 Score: 72
Period size: 7 Copynumber: 17.1 Consensus size: 7
90820020 GCTTTATTTT
90820030 TATATTA
1 TATATTA
90820037 TATATTA
1 TATATTA
*
90820044 TATAATTG
1 TAT-ATTA
90820052 T-T-TTA
1 TATATTA
90820057 TATATTA
1 TATATTA
90820064 TTCATATTA
1 -T-ATATTA
*
90820073 TTTA-TA
1 TATATTA
90820079 TATATTA
1 TATATTA
90820086 TATATTA
1 TATATTA
90820093 T-T-TTCA
1 TATATT-A
*
90820099 CATA-TA
1 TATATTA
90820105 TACT-TT-
1 TA-TATTA
90820111 TATATTA
1 TATATTA
90820118 TATATTA
1 TATATTA
90820125 TAT-TTA
1 TATATTA
90820131 T-T-TTA
1 TATATTA
90820136 TATTATTA
1 TA-TATTA
90820144 T
1 T
90820145 GTCATTTTAT
Statistics
Matches: 86, Mismatches: 6, Indels: 31
0.70 0.05 0.25
Matches are distributed among these distances:
5 11 0.13
6 18 0.21
7 41 0.48
8 10 0.12
9 6 0.07
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (7 bp):
TATATTA
Found at i:90820059 original size:20 final size:21
Alignment explanation
Indices: 90820029--90820144 Score: 81
Period size: 20 Copynumber: 5.8 Consensus size: 21
90820019 TGCTTTATTT
*
90820029 TTATATTATATATTATATA-A
1 TTATTTTATATATTATATATA
*
90820049 TTGTTTTATATATTAT-TCATA
1 TTATTTTATATATTATAT-ATA
90820070 TTA-TTTATATA-TATTATATA
1 TTATTTTATATATTA-TATATA
*
90820090 TTATTTTCACATA-TATACT-T-
1 TTATTTT-ATATATTATA-TATA
*
90820110 TTATATTATATA-T-TATAT-
1 TTATTTTATATATTATATATA
90820128 TTATTTTATATTATTAT
1 TTATTTTATA-TATTAT
90820145 GTCATTTTAT
Statistics
Matches: 78, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
17 1 0.01
18 12 0.15
19 10 0.13
20 37 0.47
21 11 0.14
22 7 0.09
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (21 bp):
TTATTTTATATATTATATATA
Found at i:90820074 original size:47 final size:46
Alignment explanation
Indices: 90819976--90820093 Score: 125
Period size: 46 Copynumber: 2.5 Consensus size: 46
90819966 ACCCTATATA
* * * *
90819976 TTTATTTCTATTATTATATA-AATATAATTTTTTTATTGTTATTTGC
1 TTTATTTTTA-TATTATATATTATATAATTGTTTTATTATTATTTGC
90820022 TTTATTTTTATATTATATATTATATAATTGTTTTATATATTA-TT-C
1 TTTATTTTTATATTATATATTATATAATTGTTTTAT-TATTATTTGC
90820067 ATATTATTTATATATATTATATATTAT
1 -T-TTATTT-T-TATATTATATATTAT
90820094 TTTCACATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
45 10 0.16
46 26 0.42
47 10 0.16
48 1 0.02
49 15 0.24
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (46 bp):
TTTATTTTTATATTATATATTATATAATTGTTTTATTATTATTTGC
Found at i:90820077 original size:13 final size:12
Alignment explanation
Indices: 90820023--90820093 Score: 58
Period size: 13 Copynumber: 5.9 Consensus size: 12
90820013 GTTATTTGCT
90820023 TTATTT-TTATA
1 TTATTTATTATA
*
90820034 TTATATATTATA
1 TTATTTATTATA
* *
90820046 TAATTGTTTTATA
1 TTATT-TATTATA
90820059 -TA-TTATTCATA
1 TTATTTATT-ATA
90820070 TTATTTATATATA
1 TTATTTAT-TATA
*
90820083 TTATATATTAT
1 TTATTTATTAT
90820094 TTTCACATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
10 3 0.06
11 9 0.19
12 14 0.30
13 20 0.43
14 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (12 bp):
TTATTTATTATA
Found at i:90820151 original size:18 final size:17
Alignment explanation
Indices: 90820052--90820161 Score: 58
Period size: 16 Copynumber: 6.8 Consensus size: 17
90820042 TATATAATTG
90820052 TTTTATA-TATTATTCA
1 TTTTATATTATTATTCA
*
90820068 TATTAT-TTA-TATAT-A
1 TTTTATATTATTAT-TCA
*
90820083 TTATATATTATT-TTCA
1 TTTTATATTATTATTCA
* *
90820099 CATATATACTT-TTA-T-A
1 -TTTTATA-TTATTATTCA
* *
90820115 TTATATATTA-TATTTA
1 TTTTATATTATTATTCA
90820131 TTTTATATTATTATGTCA
1 TTTTATATTATTAT-TCA
*
90820149 TTTTATACTATTA
1 TTTTATATTATTA
90820162 AATATTTTTA
Statistics
Matches: 73, Mismatches: 8, Indels: 24
0.70 0.08 0.23
Matches are distributed among these distances:
14 4 0.05
15 16 0.22
16 24 0.33
17 13 0.18
18 16 0.22
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (17 bp):
TTTTATATTATTATTCA
Found at i:90820351 original size:21 final size:23
Alignment explanation
Indices: 90820325--90820383 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 23
90820315 ATCATTAATT
*
90820325 ACTTATTTCATAT-TATTCTA-A
1 ACTTATTTCATATATATTATATA
*
90820346 ACTTATGTTTATATATATTATATA
1 ACTTAT-TTCATATATATTATATA
90820370 A-TTATTTCAT-TATA
1 ACTTATTTCATATATA
90820384 AATATAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 10 0.31
22 10 0.31
23 10 0.31
24 2 0.06
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.54
Consensus pattern (23 bp):
ACTTATTTCATATATATTATATA
Found at i:90820467 original size:18 final size:17
Alignment explanation
Indices: 90820444--90820499 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
90820434 CAATATATTT
90820444 TTATTCTATATATAATTA
1 TTATTCT-TATATAATTA
*
90820462 TTATTCTTTTATAATT-
1 TTATTCTTATATAATTA
* *
90820478 TTTTTATTATAT-ATTA
1 TTATTCTTATATAATTA
90820494 TATATT
1 T-TATT
90820500 AAATACTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 3 0.10
16 10 0.32
17 11 0.35
18 7 0.23
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTCTTATATAATTA
Found at i:90820525 original size:12 final size:13
Alignment explanation
Indices: 90820481--90820529 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
90820471 TATAATTTTT
*
90820481 TTATTATATATTA
1 TTATTAAATATTA
*
90820494 TATATTAAATACTA
1 T-TATTAAATATTA
90820508 TT-TTAAA-ATTA
1 TTATTAAATATTA
90820519 TTATTAAATAT
1 TTATTAAATAT
90820530 CATATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 5 0.17
12 10 0.33
13 4 0.13
14 11 0.37
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (13 bp):
TTATTAAATATTA
Found at i:90820544 original size:26 final size:25
Alignment explanation
Indices: 90820488--90820546 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
90820478 TTTTTATTAT
90820488 ATATTATATATTAAATACTATTTTA
1 ATATTATATATTAAATACTATTTTA
* *
90820513 AAATTAT-TATTAAATATCATATTTTT
1 ATATTATATATTAAATA-C-TATTTTA
*
90820539 TTATTATA
1 ATATTATA
90820547 AGTATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 9 0.33
25 7 0.26
26 11 0.41
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (25 bp):
ATATTATATATTAAATACTATTTTA
Found at i:90821830 original size:18 final size:18
Alignment explanation
Indices: 90821799--90821864 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
90821789 AATGATAACA
90821799 ATAT-ATAG-ATAAAAAT
1 ATATAATAGTATAAAAAT
90821815 ATATAATAGTAT-AAAAT
1 ATATAATAGTATAAAAAT
* * *
90821832 GACATAATAATATAAAATAA
1 -ATATAATAGTATAAAA-AT
90821852 ATATAATA-TATAA
1 ATATAATAGTATAA
90821865 TATAAAAGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 4 0.10
17 9 0.22
18 17 0.41
19 10 0.24
20 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (18 bp):
ATATAATAGTATAAAAAT
Found at i:90821851 original size:13 final size:13
Alignment explanation
Indices: 90821835--90821951 Score: 59
Period size: 13 Copynumber: 9.1 Consensus size: 13
90821825 ATAAAATGAC
90821835 ATAATAATATAAA
1 ATAATAATATAAA
*
90821848 AT-A-AATATAAT
1 ATAATAATATAAA
90821859 AT-ATAATATAAA
1 ATAATAATATAAA
* *
90821871 AGT-ATTATGTGAAA
1 A-TAATAATAT-AAA
*
90821885 ATAAT-ATATAAT
1 ATAATAATATAAA
*
90821897 ATATATAA-ATAAT
1 ATA-ATAATATAAA
90821910 ATGAATAATATATAAA
1 AT-AAT-A-ATATAAA
* *
90821926 ATAATTATATAAC
1 ATAATAATATAAA
*
90821939 AT-ATAATACAAA
1 ATAATAATATAAA
90821951 A
1 A
90821952 ATAAAAATAA
Statistics
Matches: 82, Mismatches: 12, Indels: 21
0.71 0.10 0.18
Matches are distributed among these distances:
11 10 0.12
12 22 0.27
13 31 0.38
14 9 0.11
15 4 0.05
16 6 0.07
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (13 bp):
ATAATAATATAAA
Found at i:90821861 original size:42 final size:41
Alignment explanation
Indices: 90821793--90821871 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
90821783 ACTTTTAATG
* *
90821793 ATAACAATATATAGATAAAAATATATAATAGTATAAAATGAC
1 ATAACAATATATAAATAAAAATATAT-ATAATATAAAATGAC
* *
90821835 ATAATAATATA-AAATAAATATAATATATAATATAAAA
1 ATAACAATATATAAATAAAAAT-ATATATAATATAAAA
90821872 GTATTATGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 18 0.56
42 14 0.44
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (41 bp):
ATAACAATATATAAATAAAAATATATATAATATAAAATGAC
Found at i:90821944 original size:20 final size:19
Alignment explanation
Indices: 90821798--90821944 Score: 108
Period size: 20 Copynumber: 7.5 Consensus size: 19
90821788 TAATGATAAC
*
90821798 AATATATAGATAAAAATATAT
1 AATATATA-A-AATAATATAT
90821819 AATAGTATAAAATGACATA-AT
1 AATA-TATAAAAT-A-ATATAT
90821840 -A-ATATAAAATAA-ATAT
1 AATATATAAAATAATATAT
*
90821856 AATATATAATATAA-A-AGT
1 AATATATAAAATAATATA-T
* *
90821874 ATTATGTGAAAATAATATAT
1 AATATAT-AAAATAATATAT
90821894 AATATATATAAATAATATGAAT
1 AATATATA-AAATAATAT--AT
90821916 AATATATAAAATAATTATAT
1 AATATATAAAATAA-TATAT
*
90821936 AACATATAA
1 AATATATAA
90821945 TACAAAAATA
Statistics
Matches: 104, Mismatches: 8, Indels: 29
0.74 0.06 0.21
Matches are distributed among these distances:
15 1 0.01
16 3 0.03
17 3 0.03
18 25 0.24
19 8 0.08
20 29 0.28
21 15 0.14
22 20 0.19
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (19 bp):
AATATATAAAATAATATAT
Found at i:90825909 original size:13 final size:13
Alignment explanation
Indices: 90825891--90825918 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
90825881 TTTAAGTGTA
90825891 ATTGCTTGTAATT
1 ATTGCTTGTAATT
90825904 ATTGCTTGTAATT
1 ATTGCTTGTAATT
90825917 AT
1 AT
90825919 GCGCATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (13 bp):
ATTGCTTGTAATT
Found at i:90827136 original size:3 final size:3
Alignment explanation
Indices: 90827128--90827160 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
90827118 CTGATGTAAA
90827128 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
90827161 TGAGCTAGAT
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:90837153 original size:25 final size:25
Alignment explanation
Indices: 90837110--90837160 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
90837100 CAATTAACTA
*
90837110 TTTTTTTAGAATTTAAAAAATTGATT
1 TTTTTTTAAAATTTAAAAAATT-ATT
90837136 TTTTTTTAAAATTT-AAAAATTATT
1 TTTTTTTAAAATTTAAAAAATTATT
90837160 T
1 T
90837161 AAAAAGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 4 0.17
25 7 0.29
26 13 0.54
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (25 bp):
TTTTTTTAAAATTTAAAAAATTATT
Found at i:90855521 original size:25 final size:25
Alignment explanation
Indices: 90855493--90855543 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
90855483 AACTAGATTC
90855493 AAAACGTGCTATTAGAAGTAGACTA
1 AAAACGTGCTATTAGAAGTAGACTA
90855518 AAAACGTGCTATTAGAAGTAGACTA
1 AAAACGTGCTATTAGAAGTAGACTA
90855543 A
1 A
90855544 TATGCTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.24
Consensus pattern (25 bp):
AAAACGTGCTATTAGAAGTAGACTA
Found at i:90856966 original size:20 final size:20
Alignment explanation
Indices: 90856941--90856993 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
90856931 CATTTAAGCC
90856941 TATTTTAAAAAAAATTAAAA
1 TATTTTAAAAAAAATTAAAA
** *
90856961 TATTTTATAAAATTATTTAAA
1 TATTTTA-AAAAAAATTAAAA
90856982 -ATTTTAAAAAAA
1 TATTTTAAAAAAA
90856994 TAAAAAACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 4 0.15
20 13 0.48
21 10 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TATTTTAAAAAAAATTAAAA
Found at i:90857598 original size:21 final size:22
Alignment explanation
Indices: 90857559--90857606 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
90857549 TTTCCTTTAT
* *
90857559 TTTTATATATTTTTTTATAAAA
1 TTTTATATAATTTTCTATAAAA
90857581 TTTTAT-TAATTTTCTAT--AA
1 TTTTATATAATTTTCTATAAAA
90857600 TTTTATA
1 TTTTATA
90857607 GTTTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.35
21 9 0.39
22 6 0.26
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTATATAATTTTCTATAAAA
Found at i:90862744 original size:245 final size:244
Alignment explanation
Indices: 90862314--90862806 Score: 871
Period size: 245 Copynumber: 2.0 Consensus size: 244
90862304 TGTTTATTGT
90862314 ATTGTATTGAAAATATTAGGTAAGTATAATTCTTGTTACATGAGCTTACTAAGCACAAAGTGCTT
1 ATTGTATTGAAAATATTAGGTAAGTATAATTCTTGTTACATGAGCTTACTAAGCACAAAGTGCTT
* * *
90862379 ACCCTATTTCCTTTTTCCCTGTTTTGTAGTGTTAAGAGCTCGGAGGTCGGATTTGGTCGGAGACA
66 ACCCTATTTCCTTTTTCCCTGTTTTATAGTGTTAAGAGCTCGGAGGTCAGATTTGATCGGAGACA
*
90862444 CATCACACTATCAACCTCAGGATTTCGGTATATAAAGAAACTTTATTTTGGAAATCAATGGCATG
131 CATCACACTATCAACCTCAAGATTTCGGTATATAAAGAAACTTTATTTTGGAAATCAATGGCATG
90862509 TATAAGCTAATAAAGTAAATGTTAATGTGAAATGAATGTAAGGCCAGTGC
196 TATAAGCTAATAAAGTAAATGTTAATGTGAAATGAATGTAAGGCCAGT-C
* *
90862559 ATTGTATTGAAAATATTAGGTAAGTATAATTCTTGTTACATGAGCTTACTAAGCATAAGGTGCTT
1 ATTGTATTGAAAATATTAGGTAAGTATAATTCTTGTTACATGAGCTTACTAAGCACAAAGTGCTT
*
90862624 ACCCTATTTCCATTTTT-CCTGTTTTATAGTTTTAAGAGCTCGGAGGTCAGATTTGATCGGAGAC
66 ACCCTATTTCC-TTTTTCCCTGTTTTATAGTGTTAAGAGCTCGGAGGTCAGATTTGATCGGAGAC
* * *
90862688 ACATCACACTATCAACTTCAAGATTTTGGTATATCAAGAAACTTTATTTTGGAAATCAATGGCAT
130 ACATCACACTATCAACCTCAAGATTTCGGTATATAAAGAAACTTTATTTTGGAAATCAATGGCAT
90862753 GTATAAGCTAATAAAGTAAATGTTAATGTGAAATGAATGTAAGGCCAGTC
195 GTATAAGCTAATAAAGTAAATGTTAATGTGAAATGAATGTAAGGCCAGTC
90862803 ATTG
1 ATTG
90862807 GTATGGCTAA
Statistics
Matches: 237, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
244 5 0.02
245 227 0.96
246 5 0.02
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.34
Consensus pattern (244 bp):
ATTGTATTGAAAATATTAGGTAAGTATAATTCTTGTTACATGAGCTTACTAAGCACAAAGTGCTT
ACCCTATTTCCTTTTTCCCTGTTTTATAGTGTTAAGAGCTCGGAGGTCAGATTTGATCGGAGACA
CATCACACTATCAACCTCAAGATTTCGGTATATAAAGAAACTTTATTTTGGAAATCAATGGCATG
TATAAGCTAATAAAGTAAATGTTAATGTGAAATGAATGTAAGGCCAGTC
Found at i:90868709 original size:4 final size:4
Alignment explanation
Indices: 90868700--90868728 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
90868690 AGCAAACGTG
90868700 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
90868729 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:90869556 original size:47 final size:47
Alignment explanation
Indices: 90869492--90869602 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
90869482 GACATTGAGT
* *
90869492 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
90869539 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
90869586 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
90869603 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:90874111 original size:75 final size:75
Alignment explanation
Indices: 90873988--90874138 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
90873978 GTTTGCTTTA
90873988 CGAGCTATGAATACCCGGTTGTCACTAACTGATGATGGTTCAATCCTAGCTAAATTGAGAGCTAA
1 CGAGCTATGAATACCCGGTTGTCACTAACTGATGATGGTTCAATCCTAGCTAAATTGAGAGCTAA
90874053 ACCGACATTT
66 ACCGACATTT
90874063 CGAGCTATGAATACCCGGTTGTCACTAACTGATGATGGTTCAATCCTAGCTAAATTGAGAGCTAA
1 CGAGCTATGAATACCCGGTTGTCACTAACTGATGATGGTTCAATCCTAGCTAAATTGAGAGCTAA
90874128 ACCGACATTT
66 ACCGACATTT
90874138 C
1 C
90874139 TACAGTAAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (75 bp):
CGAGCTATGAATACCCGGTTGTCACTAACTGATGATGGTTCAATCCTAGCTAAATTGAGAGCTAA
ACCGACATTT
Found at i:90880597 original size:21 final size:21
Alignment explanation
Indices: 90880573--90880612 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
90880563 TTTCGAATTA
90880573 AATCGA-GTAAAATAAAATTTG
1 AATCGATGTAAAA-AAAATTTG
*
90880594 AATCGATTTAAAAAAAATT
1 AATCGATGTAAAAAAAATT
90880613 CAAATTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (21 bp):
AATCGATGTAAAAAAAATTTG
Found at i:90880895 original size:19 final size:21
Alignment explanation
Indices: 90880854--90880901 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
90880844 TAATTAAACA
90880854 TTTT-TAAAATTTATATATAT
1 TTTTATAAAATTTATATATAT
*
90880874 TTTTATAAAATTT-TA-ATTT
1 TTTTATAAAATTTATATATAT
90880893 TTTTATAAA
1 TTTTATAAA
90880902 TATGTTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 12 0.46
20 6 0.23
21 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTATAAAATTTATATATAT
Found at i:90880933 original size:19 final size:19
Alignment explanation
Indices: 90880874--90880937 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
90880864 TTATATATAT
* *
90880874 TTTTATAAA-ATTTTAATTT
1 TTTTA-AAATATTTTGATTG
* *
90880893 TTTTATAAATATGTTGAATG
1 TTTTA-AAATATTTTGATTG
*
90880913 TTTTAAATTATTTTGATTG
1 TTTTAAAATATTTTGATTG
90880932 TTTTAA
1 TTTTAA
90880938 TTTTTGGAGA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
19 26 0.70
20 11 0.30
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (19 bp):
TTTTAAAATATTTTGATTG
Found at i:90885679 original size:23 final size:24
Alignment explanation
Indices: 90885647--90885692 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
90885637 CATAGTAAGA
*
90885647 TTAGAACC-TTGACATGTTTCATT
1 TTAGAACCTTTAACATGTTTCATT
*
90885670 TTAGACCCTTTAACATGTTTCAT
1 TTAGAACCTTTAACATGTTTCAT
90885693 CTTCTTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (24 bp):
TTAGAACCTTTAACATGTTTCATT
Found at i:90899314 original size:29 final size:29
Alignment explanation
Indices: 90899282--90899343 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
90899272 TAAAAAACAT
*
90899282 TAATATTTTTTAATA-CAATTTAGACACAA
1 TAATATTTGTTAATATC-ATTTAGACACAA
* *
90899311 TAATATTTGTTAATATCGTTTGGACACAA
1 TAATATTTGTTAATATCATTTAGACACAA
90899340 TAAT
1 TAAT
90899344 TTTATATCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (29 bp):
TAATATTTGTTAATATCATTTAGACACAA
Found at i:90900171 original size:36 final size:36
Alignment explanation
Indices: 90900131--90900224 Score: 97
Period size: 36 Copynumber: 2.7 Consensus size: 36
90900121 TGCTACCGTT
*
90900131 TTGTTATCATTTTGCTATTATATTACTACTATTTTA
1 TTGTTATTATTTTGCTATTATATTACTACTATTTTA
* * * * *
90900167 TTGTTATTA-TTTGAATCTTGTATAACTATTATTTTA
1 TTGTTATTATTTTG-CTATTATATTACTACTATTTTA
90900203 ---TTATTATTTTGCTATTATATTA
1 TTGTTATTATTTTGCTATTATATTA
90900225 AAGGCATTTA
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
33 13 0.28
34 4 0.09
35 4 0.09
36 25 0.54
ACGTcount: A:0.27, C:0.07, G:0.06, T:0.60
Consensus pattern (36 bp):
TTGTTATTATTTTGCTATTATATTACTACTATTTTA
Found at i:90910227 original size:60 final size:60
Alignment explanation
Indices: 90910097--90910227 Score: 140
Period size: 60 Copynumber: 2.2 Consensus size: 60
90910087 AACCTACTTT
* * * * * *
90910097 TTAAAATTTTAGAGTTAGAATTAAATTGATAGATTTTATAAATATTAAAGGTTAAAGTTA
1 TTAAATTTTTAGAGTTAGAAGTAAAATGAAAAATTTTATAAATAGTAAAGGTTAAAGTTA
* * * *
90910157 TT-AATCTTTTAGAGTTAGAAGTAAAATGAAAAATTTTGA-AAATAGTGAGGGTTAAATTTG
1 TTAAAT-TTTTAGAGTTAGAAGTAAAATGAAAAATTTT-ATAAATAGTAAAGGTTAAAGTTA
90910217 TTAAATTTTTA
1 TTAAATTTTTA
90910228 TATTTTAGAT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
59 2 0.03
60 52 0.90
61 4 0.07
ACGTcount: A:0.43, C:0.01, G:0.15, T:0.41
Consensus pattern (60 bp):
TTAAATTTTTAGAGTTAGAAGTAAAATGAAAAATTTTATAAATAGTAAAGGTTAAAGTTA
Found at i:90912590 original size:52 final size:49
Alignment explanation
Indices: 90912412--90912603 Score: 207
Period size: 53 Copynumber: 3.9 Consensus size: 49
90912402 TACACATTGT
* * *
90912412 CACATATCACA-CACCGAAGCCATAGCCCTA-CTATGGTCTTACACGGAT
1 CACATATCACATCACCGATGCCATAGCCC-AGCTATGGTCTTATACGGAA
* *
90912460 CAC--ATCACA-CACCGATGCCATATCCCAGATATGGTCTTATACGGAA
1 CACATATCACATCACCGATGCCATAGCCCAGCTATGGTCTTATACGGAA
90912506 TCACATTATCATGTCA-CACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA
1 -CACA-TATCA---CATCACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAA
*
90912560 CACATATCACATTGCACCAATGCCATAGCCCAGCTATGGTCTTA
1 CACATATCACA-T-CACCGATGCCATAGCCCAGCTATGGTCTTA
90912604 AACAGGCGCA
Statistics
Matches: 124, Mismatches: 8, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
45 1 0.01
46 36 0.29
47 3 0.02
48 3 0.02
49 2 0.02
50 4 0.03
52 34 0.27
53 37 0.30
54 4 0.03
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (49 bp):
CACATATCACATCACCGATGCCATAGCCCAGCTATGGTCTTATACGGAA
Found at i:90912616 original size:52 final size:52
Alignment explanation
Indices: 90912430--90912620 Score: 164
Period size: 52 Copynumber: 3.8 Consensus size: 52
90912420 ACACACCGAA
* * *
90912430 GCCATAGCCCTA-CTATGGTCTTACAC-GGATCAC--ATCACA---CACCGAT
1 GCCATAGCCC-AGCTATGGTCTTAAACAGGAACACATATCACATTGCACCAAT
* * * ** ** *
90912476 GCCATATCCCAGATATGGTCTTATAC-GGAATCACATTATCATGTCACACCGAT
1 GCCATAGCCCAGCTATGGTCTTAAACAGGAA-CACA-TATCACATTGCACCAAT
* *
90912529 GCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACATTGCACCAAT
1 GCCATAGCCCAGCTATGGTCTTAAACAGGAACACATATCACATTGCACCAAT
**
90912581 GCCATAGCCCAGCTATGGTCTTAAACAGGCGCACATATCA
1 GCCATAGCCCAGCTATGGTCTTAAACAGGAACACATATCA
90912621 TATCTTTTTC
Statistics
Matches: 119, Mismatches: 17, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
45 1 0.01
46 24 0.20
47 3 0.03
50 4 0.03
52 48 0.40
53 35 0.29
54 4 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (52 bp):
GCCATAGCCCAGCTATGGTCTTAAACAGGAACACATATCACATTGCACCAAT
Found at i:90925508 original size:46 final size:46
Alignment explanation
Indices: 90925445--90925668 Score: 308
Period size: 46 Copynumber: 4.8 Consensus size: 46
90925435 TTCGACATGA
* * * * *
90925445 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTGTCACGT
* ** * *
90925491 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-TCTGTCACGT
90925538 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TGTCACGT
90925584 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TGTCACGT
*
90925630 TGCCATGGTATCTTTCAACCATGCTCTTACACATTTTCT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCT
90925669 ATCAGGGAGC
Statistics
Matches: 161, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 119 0.74
47 41 0.25
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTGTCACGT
Found at i:90925604 original size:93 final size:91
Alignment explanation
Indices: 90925445--90925665 Score: 316
Period size: 93 Copynumber: 2.4 Consensus size: 91
90925435 TTCGACATGA
* * * * *
90925445 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCATTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTGTCACGTTGCCATGGTATCATTCAAC
** *
90925510 CATGGTCTTATTCATTTCCCCGTCACGT
65 CATGGTCTTACACATTT-CACGTCACGT
*
90925538 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TGTCACGTTGCCATGGTATCATTCAAC
*
90925603 CATGGTCTTACACATTTCATGTCACGT
65 CATGGTCTTACACATTTCACGTCACGT
*
90925630 TGCCATGGTATCTTTCAACCATGCTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
90925666 TCTATCAGGG
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
92 47 0.41
93 69 0.59
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.39
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTGTCACGTTGCCATGGTATCATTCAACC
ATGGTCTTACACATTTCACGTCACGT
Found at i:90928863 original size:25 final size:25
Alignment explanation
Indices: 90928835--90928886 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
90928825 GAATTCTATA
90928835 AAATATCAAAATTTTTCACAATTTT
1 AAATATCAAAATTTTTCACAATTTT
90928860 AAATATCAAAATTTTTCACAATTTT
1 AAATATCAAAATTTTTCACAATTTT
90928885 AA
1 AA
90928887 CACTTTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATATCAAAATTTTTCACAATTTT
Found at i:90930262 original size:11 final size:11
Alignment explanation
Indices: 90930246--90930297 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
90930236 TATACTAAAT
90930246 AAATAATAATA
1 AAATAATAATA
*
90930257 AAATAAT-ATT
1 AAATAATAATA
* *
90930267 AAATATCTCATA
1 AAATA-ATAATA
*
90930279 AAATATTAATA
1 AAATAATAATA
90930290 AAATAATA
1 AAATAATA
90930298 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:90941384 original size:737 final size:737
Alignment explanation
Indices: 90939971--90941387 Score: 2834
Period size: 737 Copynumber: 1.9 Consensus size: 737
90939961 TATAAGTACT
90939971 AATGTTAGATCTTTATAGTTTGAAATTTCTCATATTACTACATCAGAATCATATTTTATCCGTGT
1 AATGTTAGATCTTTATAGTTTGAAATTTCTCATATTACTACATCAGAATCATATTTTATCCGTGT
90940036 AGGCGCTTACAAGCTAAGCTCATGAGATTGGTTTTTGAATATAGGCCGAAAGAGGCCTGATATTG
66 AGGCGCTTACAAGCTAAGCTCATGAGATTGGTTTTTGAATATAGGCCGAAAGAGGCCTGATATTG
90940101 ATACTGATATTTTTATTTCTTAGCCCAATATTATGATCCATAAGAAAACTTGATCTGAAAGAACC
131 ATACTGATATTTTTATTTCTTAGCCCAATATTATGATCCATAAGAAAACTTGATCTGAAAGAACC
90940166 CAAATCATCAAATTAATAGATTATTATTGTTTTCTTTAATTATATTCTTTATGTTCATGTTTGAG
196 CAAATCATCAAATTAATAGATTATTATTGTTTTCTTTAATTATATTCTTTATGTTCATGTTTGAG
90940231 GTTTATGACTATCTTGCTAACAATATCGTCTTTAAAGTTTGAACTTGGATCCTTCCTTTAGGAAT
261 GTTTATGACTATCTTGCTAACAATATCGTCTTTAAAGTTTGAACTTGGATCCTTCCTTTAGGAAT
90940296 GTAATGTATCTTACTATTACACCCAACTAGTTATTGATGTGTTAACTGAAAATTTTTATTTCTGA
326 GTAATGTATCTTACTATTACACCCAACTAGTTATTGATGTGTTAACTGAAAATTTTTATTTCTGA
90940361 TTCAACCGTTCTTACAATATTAAGTTCTAAGTTAATGGCGTTTGCACATTTAAAATTAACCTGGC
391 TTCAACCGTTCTTACAATATTAAGTTCTAAGTTAATGGCGTTTGCACATTTAAAATTAACCTGGC
90940426 TAAATAGGTAATCTTGTAGCATTATTGAAAGATATAGAAGAAAATACGAGCTTGAAGACGGTATT
456 TAAATAGGTAATCTTGTAGCATTATTGAAAGATATAGAAGAAAATACGAGCTTGAAGACGGTATT
90940491 ATTAAGAGGATTACATATCAAAAAAAAATAAAAAATTCATGAAATGTAAAATGGATTTAGAAAAT
521 ATTAAGAGGATTACATATCAAAAAAAAATAAAAAATTCATGAAATGTAAAATGGATTTAGAAAAT
90940556 ACCTTAATTGTATAAAAAAATTATAGTTTTATGTGTCTATTTTAAAAAGTTGAAATACTAAAATT
586 ACCTTAATTGTATAAAAAAATTATAGTTTTATGTGTCTATTTTAAAAAGTTGAAATACTAAAATT
90940621 AAAAAAAATTATAATTCAAGAAACCAATCAGCTATTGGTCAAAAAGCATCTTCTGTGGCTCAGGT
651 AAAAAAAATTATAATTCAAGAAACCAATCAGCTATTGGTCAAAAAGCATCTTCTGTGGCTCAGGT
90940686 AGTGACCACTTTCCAAGAAGGG
716 AGTGACCACTTTCCAAGAAGGG
90940708 AATGTTAGATCTTTATAGTTTGAAATTTCTCATATTACTACATCAGAATCATATTTTATCCGTGT
1 AATGTTAGATCTTTATAGTTTGAAATTTCTCATATTACTACATCAGAATCATATTTTATCCGTGT
90940773 AGGCGCTTACAAGCTAAGCTCATGAGATTGGTTTTTGAATATAGGCCGAAAGAGGCCTGATATTG
66 AGGCGCTTACAAGCTAAGCTCATGAGATTGGTTTTTGAATATAGGCCGAAAGAGGCCTGATATTG
90940838 ATACTGATATTTTTATTTCTTAGCCCAATATTATGATCCATAAGAAAACTTGATCTGAAAGAACC
131 ATACTGATATTTTTATTTCTTAGCCCAATATTATGATCCATAAGAAAACTTGATCTGAAAGAACC
90940903 CAAATCATCAAATTAATAGATTATTATTGTTTTCTTTAATTATATTCTTTATGTTCATGTTTGAG
196 CAAATCATCAAATTAATAGATTATTATTGTTTTCTTTAATTATATTCTTTATGTTCATGTTTGAG
90940968 GTTTATGACTATCTTGCTAACAATATCGTCTTTAAAGTTTGAACTTGGATCCTTCCTTTAGGAAT
261 GTTTATGACTATCTTGCTAACAATATCGTCTTTAAAGTTTGAACTTGGATCCTTCCTTTAGGAAT
90941033 GTAATGTATCTTACTATTACACCCAACTAGTTATTGATGTGTTAACTGAAAATTTTTATTTCTGA
326 GTAATGTATCTTACTATTACACCCAACTAGTTATTGATGTGTTAACTGAAAATTTTTATTTCTGA
90941098 TTCAACCGTTCTTACAATATTAAGTTCTAAGTTAATGGCGTTTGCACATTTAAAATTAACCTGGC
391 TTCAACCGTTCTTACAATATTAAGTTCTAAGTTAATGGCGTTTGCACATTTAAAATTAACCTGGC
90941163 TAAATAGGTAATCTTGTAGCATTATTGAAAGATATAGAAGAAAATACGAGCTTGAAGACGGTATT
456 TAAATAGGTAATCTTGTAGCATTATTGAAAGATATAGAAGAAAATACGAGCTTGAAGACGGTATT
90941228 ATTAAGAGGATTACATATCAAAAAAAAATAAAAAATTCATGAAATGTAAAATGGATTTAGAAAAT
521 ATTAAGAGGATTACATATCAAAAAAAAATAAAAAATTCATGAAATGTAAAATGGATTTAGAAAAT
90941293 ACCTTAATTGTATAAAAAAATTATAGTTTTATGTGTCTATTTTAAAAAGTTGAAATACTAAAATT
586 ACCTTAATTGTATAAAAAAATTATAGTTTTATGTGTCTATTTTAAAAAGTTGAAATACTAAAATT
90941358 AAAAAAAATTATAATTCAAGAAACCAATCA
651 AAAAAAAATTATAATTCAAGAAACCAATCA
90941388 TGCATTAAAG
Statistics
Matches: 680, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
737 680 1.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (737 bp):
AATGTTAGATCTTTATAGTTTGAAATTTCTCATATTACTACATCAGAATCATATTTTATCCGTGT
AGGCGCTTACAAGCTAAGCTCATGAGATTGGTTTTTGAATATAGGCCGAAAGAGGCCTGATATTG
ATACTGATATTTTTATTTCTTAGCCCAATATTATGATCCATAAGAAAACTTGATCTGAAAGAACC
CAAATCATCAAATTAATAGATTATTATTGTTTTCTTTAATTATATTCTTTATGTTCATGTTTGAG
GTTTATGACTATCTTGCTAACAATATCGTCTTTAAAGTTTGAACTTGGATCCTTCCTTTAGGAAT
GTAATGTATCTTACTATTACACCCAACTAGTTATTGATGTGTTAACTGAAAATTTTTATTTCTGA
TTCAACCGTTCTTACAATATTAAGTTCTAAGTTAATGGCGTTTGCACATTTAAAATTAACCTGGC
TAAATAGGTAATCTTGTAGCATTATTGAAAGATATAGAAGAAAATACGAGCTTGAAGACGGTATT
ATTAAGAGGATTACATATCAAAAAAAAATAAAAAATTCATGAAATGTAAAATGGATTTAGAAAAT
ACCTTAATTGTATAAAAAAATTATAGTTTTATGTGTCTATTTTAAAAAGTTGAAATACTAAAATT
AAAAAAAATTATAATTCAAGAAACCAATCAGCTATTGGTCAAAAAGCATCTTCTGTGGCTCAGGT
AGTGACCACTTTCCAAGAAGGG
Found at i:90941994 original size:9 final size:9
Alignment explanation
Indices: 90941980--90942008 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
90941970 GATTCTCACT
90941980 TTATCAAGA
1 TTATCAAGA
90941989 TTATCAAGA
1 TTATCAAGA
90941998 TTATCAAGA
1 TTATCAAGA
90942007 TT
1 TT
90942009 CGATAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (9 bp):
TTATCAAGA
Found at i:90946951 original size:38 final size:38
Alignment explanation
Indices: 90946908--90946982 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
90946898 TATAGAAAGA
*
90946908 GAGTTTGGGCATAGAATGATCAAGTGTTAGAAATGTGC
1 GAGTTTGGGCATAGAATGATAAAGTGTTAGAAATGTGC
*
90946946 GAGTTTGGGCATAGAATGATAAATTGTTAGAAATGTG
1 GAGTTTGGGCATAGAATGATAAAGTGTTAGAAATGTG
90946983 TTGTCCACGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.33, C:0.05, G:0.31, T:0.31
Consensus pattern (38 bp):
GAGTTTGGGCATAGAATGATAAAGTGTTAGAAATGTGC
Found at i:90952252 original size:120 final size:120
Alignment explanation
Indices: 90952039--90952279 Score: 455
Period size: 120 Copynumber: 2.0 Consensus size: 120
90952029 ATTCACATTG
*
90952039 TGTGGGCTATGATTGGAGCTTGAACCTTGTAAAAATATGGGCCCACGTAGATCCTGATTGACACT
1 TGTGGGCTATGATTAGAGCTTGAACCTTGTAAAAATATGGGCCCACGTAGATCCTGATTGACACT
90952104 TCGACCATTAATCAGTCTCCCAGGAAAAATGACATTTGCTGGCTCAATCCGCCTT
66 TCGACCATTAATCAGTCTCCCAGGAAAAATGACATTTGCTGGCTCAATCCGCCTT
*
90952159 TGTGGGCTATGATTAGAGCTTGAACCTTGTAAAAATATGGGCCCACGTAGATCCTGATTGACATT
1 TGTGGGCTATGATTAGAGCTTGAACCTTGTAAAAATATGGGCCCACGTAGATCCTGATTGACACT
*
90952224 TCGACCATTAGTCAGTCTCCCAGGAAAAATGACATTTGCTGGCTCAATCCGCCTT
66 TCGACCATTAATCAGTCTCCCAGGAAAAATGACATTTGCTGGCTCAATCCGCCTT
90952279 T
1 T
90952280 CTTCTGACCT
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (120 bp):
TGTGGGCTATGATTAGAGCTTGAACCTTGTAAAAATATGGGCCCACGTAGATCCTGATTGACACT
TCGACCATTAATCAGTCTCCCAGGAAAAATGACATTTGCTGGCTCAATCCGCCTT
Found at i:90955697 original size:28 final size:28
Alignment explanation
Indices: 90955666--90955724 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
90955656 TCCTACCTTG
90955666 ATTTAAAATATAAATTTTAAAATTATTA
1 ATTTAAAATATAAATTTTAAAATTATTA
** * *
90955694 ATTTTTACTCTAAATTTTAAAATTATTA
1 ATTTAAAATATAAATTTTAAAATTATTA
90955722 ATT
1 ATT
90955725 ATATTCAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTAAAATATAAATTTTAAAATTATTA
Found at i:90955698 original size:15 final size:15
Alignment explanation
Indices: 90955667--90955724 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
90955657 CCTACCTTGA
*
90955667 TTTAAAA-TATAAAT
1 TTTAAAATTATTAAT
90955681 TTTAAAATTATTAAT
1 TTTAAAATTATTAAT
* *
90955696 TTT-TACTCTA--AAT
1 TTTAAAAT-TATTAAT
90955709 TTTAAAATTATTAAT
1 TTTAAAATTATTAAT
90955724 T
1 T
90955725 ATATTCAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
13 8 0.24
14 11 0.32
15 15 0.44
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTAAAATTATTAAT
Found at i:90959421 original size:9 final size:10
Alignment explanation
Indices: 90959407--90959438 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
90959397 TTAAAAATAT
90959407 AATACA-TAA
1 AATACATTAA
90959416 AATACATTAA
1 AATACATTAA
90959426 AA-ACATTAA
1 AATACATTAA
90959435 AATA
1 AATA
90959439 AATATTTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 15 0.71
10 6 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (10 bp):
AATACATTAA
Found at i:90963313 original size:21 final size:21
Alignment explanation
Indices: 90963283--90963322 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
90963273 TAACGGGATT
90963283 GCTGACGTGGCAAGTTAACCA
1 GCTGACGTGGCAAGTTAACCA
*
90963304 GCTGATGTGGCAAGTTAAC
1 GCTGACGTGGCAAGTTAAC
90963323 TTGCCACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACCA
Found at i:90963786 original size:12 final size:12
Alignment explanation
Indices: 90963771--90963819 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
90963761 GGTTATTTCT
90963771 ATTTCAATTTTA
1 ATTTCAATTTTA
* *
90963783 ATTTCGATTCTA
1 ATTTCAATTTTA
* *
90963795 ATTTCGATTTTG
1 ATTTCAATTTTA
90963807 ATTTCAATTTTA
1 ATTTCAATTTTA
90963819 A
1 A
90963820 AACACTCATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.55
Consensus pattern (12 bp):
ATTTCAATTTTA
Found at i:90963815 original size:18 final size:18
Alignment explanation
Indices: 90963765--90963816 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
90963755 ATTTAGGGTT
* *
90963765 ATTTCTATTTCAATTTTA
1 ATTTCGATTTCAATTTCA
*
90963783 ATTTCGA-TTCTAATTTCG
1 ATTTCGATTTC-AATTTCA
*
90963801 ATTTTGATTTCAATTT
1 ATTTCGATTTCAATTT
90963817 TAAAACACTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 3 0.11
18 22 0.79
19 3 0.11
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.58
Consensus pattern (18 bp):
ATTTCGATTTCAATTTCA
Found at i:90963839 original size:6 final size:6
Alignment explanation
Indices: 90963828--90963888 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
90963818 AAAACACTCA
*** * * * * *
90963828 TTGATT TTGATT TTGATT CCAATT TTGATC TCGATT TAGATT TAGAAT
1 TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT
90963876 TTGATT TTGATT T
1 TTGATT TTGATT T
90963889 CGATATGGAT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.56
Consensus pattern (6 bp):
TTGATT
Found at i:90964106 original size:9 final size:10
Alignment explanation
Indices: 90964092--90964123 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
90964082 TTAAAAATAT
90964092 AATACA-TAA
1 AATACATTAA
90964101 AATACATTAA
1 AATACATTAA
90964111 AA-ACATTAA
1 AATACATTAA
90964120 AATA
1 AATA
90964124 AATATTTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 15 0.71
10 6 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (10 bp):
AATACATTAA
Found at i:90967998 original size:21 final size:21
Alignment explanation
Indices: 90967968--90968007 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
90967958 TAACGGGATT
90967968 GCTGACGTGGCAAGTTAACCA
1 GCTGACGTGGCAAGTTAACCA
*
90967989 GCTGATGTGGCAAGTTAAC
1 GCTGACGTGGCAAGTTAAC
90968008 TTGCCACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACCA
Found at i:90968471 original size:12 final size:12
Alignment explanation
Indices: 90968456--90968504 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
90968446 GGTTATTTCT
90968456 ATTTCAATTTTA
1 ATTTCAATTTTA
* *
90968468 ATTTCGATTCTA
1 ATTTCAATTTTA
* *
90968480 ATTTCGATTTTG
1 ATTTCAATTTTA
90968492 ATTTCAATTTTA
1 ATTTCAATTTTA
90968504 A
1 A
90968505 AACACTCATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.55
Consensus pattern (12 bp):
ATTTCAATTTTA
Found at i:90968500 original size:18 final size:18
Alignment explanation
Indices: 90968450--90968501 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
90968440 ATTTAGGGTT
* *
90968450 ATTTCTATTTCAATTTTA
1 ATTTCGATTTCAATTTCA
*
90968468 ATTTCGA-TTCTAATTTCG
1 ATTTCGATTTC-AATTTCA
*
90968486 ATTTTGATTTCAATTT
1 ATTTCGATTTCAATTT
90968502 TAAAACACTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 3 0.11
18 22 0.79
19 3 0.11
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.58
Consensus pattern (18 bp):
ATTTCGATTTCAATTTCA
Found at i:90968524 original size:6 final size:6
Alignment explanation
Indices: 90968513--90968573 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
90968503 AAAACACTCA
*** * * * * *
90968513 TTGATT TTGATT TTGATT CCAATT TTGATC TCGATT TAGATT TAGAAT
1 TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT
90968561 TTGATT TTGATT T
1 TTGATT TTGATT T
90968574 CGATATGGAT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.56
Consensus pattern (6 bp):
TTGATT
Found at i:90968782 original size:47 final size:48
Alignment explanation
Indices: 90968628--90968796 Score: 259
Period size: 48 Copynumber: 3.5 Consensus size: 48
90968618 GCCATGTGCA
* * * *
90968628 TGATGTTTATTGTTTGTTTCTGCCATTGTATGAATGCCATTATCAAAT
1 TGATGTGTATTGTGTATATCTGCCATTGTATGAATGCCATTATCAAAT
* *
90968676 TGATGTGTATTTTGTATATCTGCCATTATATGAATGCCATTATCAAAT
1 TGATGTGTATTGTGTATATCTGCCATTGTATGAATGCCATTATCAAAT
*
90968724 TGATGTGTATTGTGTATATCTGCCATTGTATGAATG-CATTATCAAAC
1 TGATGTGTATTGTGTATATCTGCCATTGTATGAATGCCATTATCAAAT
*
90968771 TGATGTTTATTGTGTATATCTGCCAT
1 TGATGTGTATTGTGTATATCTGCCAT
90968797 GATGTTTATT
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
47 35 0.32
48 76 0.68
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (48 bp):
TGATGTGTATTGTGTATATCTGCCATTGTATGAATGCCATTATCAAAT
Found at i:90970861 original size:43 final size:43
Alignment explanation
Indices: 90970770--90971076 Score: 514
Period size: 43 Copynumber: 7.2 Consensus size: 43
90970760 TTGCTGATCA
* * *
90970770 CATGCACTGATTTTTGGAAAGCTATTGACT-TTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
*
90970812 TATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
*
90970855 CATGCAATGATTGTTGGAAAGTTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
90970898 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
90970941 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
90970984 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
* * *
90971027 TATGCAATGATTGTTGG--TG-TGTTGCCTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
90971067 CATGCAATGA
1 CATGCAATGA
90971077 GTTTTTTTTT
Statistics
Matches: 253, Mismatches: 11, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
40 29 0.11
41 1 0.00
42 26 0.10
43 197 0.78
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (43 bp):
CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
Found at i:90971113 original size:29 final size:28
Alignment explanation
Indices: 90971055--90971115 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
90971045 GTGTTGCCTA
* **
90971055 TTTTTTAATATGCATGCAATGAGTTTTT
1 TTTTTTAATATGCATGCAATGACTACTT
* *
90971083 TTTTTATAATATGCATGTAGTGACTACTT
1 TTTTT-TAATATGCATGCAATGACTACTT
90971112 TTTT
1 TTTT
90971116 AGGGGGTGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.25, C:0.08, G:0.13, T:0.54
Consensus pattern (28 bp):
TTTTTTAATATGCATGCAATGACTACTT
Done.