Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 164 of 185
Found at i:50395922 original size:13 final size:13
Alignment explanation
Indices: 50395904--50395929 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50395894 TCCGTTCTTC
50395904 ATTTTCATTTTCA
1 ATTTTCATTTTCA
50395917 ATTTTCATTTTCA
1 ATTTTCATTTTCA
50395930 TTTCATCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTCATTTTCA
Found at i:50398181 original size:21 final size:21
Alignment explanation
Indices: 50398155--50398203 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
50398145 GCCCTGAATT
50398155 TCTCCTCGAGCCATTTGCACC
1 TCTCCTCGAGCCATTTGCACC
50398176 TCTCCTCGAGCCATTTGCACC
1 TCTCCTCGAGCCATTTGCACC
*
50398197 TTTCCTC
1 TCTCCTC
50398204 TAGCTGCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.12, C:0.43, G:0.12, T:0.33
Consensus pattern (21 bp):
TCTCCTCGAGCCATTTGCACC
Found at i:50398830 original size:13 final size:13
Alignment explanation
Indices: 50398812--50398838 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50398802 TGGTTCAATT
50398812 CTTCACTAGAAAA
1 CTTCACTAGAAAA
50398825 CTTCACTAGAAAA
1 CTTCACTAGAAAA
50398838 C
1 C
50398839 AAATCTCTTT
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:0.26, G:0.07, T:0.22
Consensus pattern (13 bp):
CTTCACTAGAAAA
Found at i:50400757 original size:20 final size:20
Alignment explanation
Indices: 50400729--50400790 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
50400719 TTTTAAAAGA
* *
50400729 TATAAAAAATGTATGTATAT
1 TATAGAAAATGTATATATAT
*
50400749 TATAGAAAATGTATAAATAT
1 TATAGAAAATGTATATATAT
*
50400769 TAT-G-AAATGTATATATAC
1 TATAGAAAATGTATATATAT
50400787 TATA
1 TATA
50400791 AAATACATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.42
19 1 0.03
20 20 0.56
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.39
Consensus pattern (20 bp):
TATAGAAAATGTATATATAT
Found at i:50400794 original size:18 final size:18
Alignment explanation
Indices: 50400734--50400794 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
50400724 AAAGATATAA
*
50400734 AAAATGTATGTATATTAT
1 AAAATGTATATATATTAT
*
50400752 AGAAAATGTATAAATATTAT
1 --AAAATGTATATATATTAT
* *
50400772 GAAATGTATATATACTAT
1 AAAATGTATATATATTAT
50400790 AAAAT
1 AAAAT
50400795 ACATATGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 19 0.54
20 16 0.46
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.38
Consensus pattern (18 bp):
AAAATGTATATATATTAT
Found at i:50403578 original size:51 final size:51
Alignment explanation
Indices: 50403507--50403609 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
50403497 TGTAATTACC
50403507 ATTATTATATATGTAATGTCCATATTTTCCAACAACATGATCATCTTAATT
1 ATTATTATATATGTAATGTCCATATTTTCCAACAACATGATCATCTTAATT
50403558 ATTATTATATATGTAATGTCCATATTTTCCAACAACATGATCATCTTAATT
1 ATTATTATATATGTAATGTCCATATTTTCCAACAACATGATCATCTTAATT
50403609 A
1 A
50403610 GTCCTGTTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.36, C:0.16, G:0.06, T:0.43
Consensus pattern (51 bp):
ATTATTATATATGTAATGTCCATATTTTCCAACAACATGATCATCTTAATT
Found at i:50410158 original size:30 final size:30
Alignment explanation
Indices: 50410123--50410187 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 30
50410113 TCGGCCCATT
* *
50410123 TTTTAATTGTTTATTATT-TGTTTTATAATA
1 TTTTAAATGTATATT-TTATGTTTTATAATA
50410153 TTTTAAATGTATATTTTAAATGTTTTATAATA
1 TTTTAAATGTATATTTT--ATGTTTTATAATA
50410185 TTT
1 TTT
50410188 GTTTATTCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 2 0.07
30 13 0.43
32 15 0.50
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (30 bp):
TTTTAAATGTATATTTTATGTTTTATAATA
Found at i:50410168 original size:13 final size:13
Alignment explanation
Indices: 50410150--50410175 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50410140 TTGTTTTATA
50410150 ATATTTTAAATGT
1 ATATTTTAAATGT
50410163 ATATTTTAAATGT
1 ATATTTTAAATGT
50410176 TTTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
ATATTTTAAATGT
Found at i:50418293 original size:20 final size:22
Alignment explanation
Indices: 50418255--50418294 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
50418245 TGTTCATCAA
*
50418255 TTTTCTCTTCATTTTTCTTAGC
1 TTTTCTCTTCATTTCTCTTAGC
50418277 TTTTCT-TTC-TTTCTCTTA
1 TTTTCTCTTCATTTCTCTTA
50418295 CTCGAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.07, C:0.23, G:0.03, T:0.68
Consensus pattern (22 bp):
TTTTCTCTTCATTTCTCTTAGC
Found at i:50424219 original size:79 final size:79
Alignment explanation
Indices: 50424088--50424245 Score: 280
Period size: 79 Copynumber: 2.0 Consensus size: 79
50424078 ATGATGATTT
* * * *
50424088 AACTTTTCATGTGTATTGCAGTAGACTTATTGAATTGTATGCTTTGAAATGTTTATTTATTTTTT
1 AACTTTTCACGTGTATTGCAGTAGACTTATTGAATTATATGCTTTGAAATGTTTATTTATTTATG
50424153 ATTTTAAAAAATGC
66 ATTTTAAAAAATGC
50424167 AACTTTTCACGTGTATTGCAGTAGACTTATTGAATTATATGCTTTGAAATGTTTATTTATTTATG
1 AACTTTTCACGTGTATTGCAGTAGACTTATTGAATTATATGCTTTGAAATGTTTATTTATTTATG
50424232 ATTTTAAAAAATGC
66 ATTTTAAAAAATGC
50424246 TGGTATACTA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.47
Consensus pattern (79 bp):
AACTTTTCACGTGTATTGCAGTAGACTTATTGAATTATATGCTTTGAAATGTTTATTTATTTATG
ATTTTAAAAAATGC
Found at i:50426270 original size:70 final size:70
Alignment explanation
Indices: 50426156--50426512 Score: 426
Period size: 70 Copynumber: 5.1 Consensus size: 70
50426146 TGATATTATA
* * *
50426156 AAGGCTCGTATGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGTGTACGCTCCCAACTAGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCGTACGCTCCCAACTGGA
50426221 ATCTT
66 ATCTT
* * * * *
50426226 CAGGCTCGTAGGTTCCATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAACTGGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCGTACGCTCCCAACTGGA
*
50426291 ATCTC
66 ATCTT
* * ** *
50426296 AAGGCTCGTAGGTTCAATACCGCATCCTCCAAAATAGTTAGTACGAGCTTACGCTCCCAACTGGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCGTACGCTCCCAACTGGA
50426361 ATCTT
66 ATCTT
* * * * * * * * * *
50426366 AAGGCTCGCAGGTTCAATACCACAACCTTCAAAATAGTTAGCTCGAGCCTAAGCTCCCAGCCGGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCGTACGCTCCCAACTGGA
50426431 ATCTT
66 ATCTT
*** * * * **
50426436 AAGGCTCACGGGTTCAATATCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACACTCCCAGTTGGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCGTACGCTCCCAACTGGA
50426501 ATCTT
66 ATCTT
50426506 AAGGCTC
1 AAGGCTC
50426513 ACTGGTTTAA
Statistics
Matches: 244, Mismatches: 43, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 244 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (70 bp):
AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCGTACGCTCCCAACTGGA
ATCTT
Found at i:50426540 original size:140 final size:137
Alignment explanation
Indices: 50426167--50426556 Score: 410
Period size: 140 Copynumber: 2.8 Consensus size: 137
50426157 AGGCTCGTAT
* *
50426167 GTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAG-TGTACGCTCCCAACTAGAATCTTCAGGC
1 GTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCT-TACGCTCCCAACTGGAATCTTAAGGC
* * * * *
50426231 TCGTAGGTTCCATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAACTGGAATCTC
65 TCCT-GGTTCAATACCACA-CCT-CAAAATAGCTAGCGCGAGCCTACACTCCCAACCGGAATCTC
**
50426296 AAGGCTCGTAG
127 AAGGCTCACAG
* * **
50426307 GTTCAATACCGCATCCTCCAAAATAGTTAGTACGAGCTTACGCTCCCAACTGGAATCTTAAGGCT
1 GTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACGCTCCCAACTGGAATCTTAAGGCT
* * * * *
50426372 CGCAGGTTCAATACCACAACCTTCAAAATAGTTAGCTCGAGCCTA-AGCTCCCAGCCGGAATCTT
66 C-CTGGTTCAATACCAC-ACC-TCAAAATAGCTAGCGCGAGCCTACA-CTCCCAACCGGAATCTC
*
50426436 AAGGCTCACGG
127 AAGGCTCACAG
* * **
50426447 GTTCAATATCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACACTCCCAGTTGGAATCTTAAGGCT
1 GTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACGCTCCCAACTGGAATCTTAAGGCT
* * * *
50426512 CACTGGTTTAATATCGCGACCTCAAAAATAGCT-G-GCGAACCTACA
66 C-CTGGTTCAATACCAC-ACCTC-AAAATAGCTAGCGCGAGCCTACA
50426557 TTTCTGATTC
Statistics
Matches: 207, Mismatches: 36, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
138 7 0.03
139 5 0.02
140 192 0.93
141 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (137 bp):
GTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACGCTCCCAACTGGAATCTTAAGGCT
CCTGGTTCAATACCACACCTCAAAATAGCTAGCGCGAGCCTACACTCCCAACCGGAATCTCAAGG
CTCACAG
Found at i:50426542 original size:210 final size:210
Alignment explanation
Indices: 50426156--50426542 Score: 481
Period size: 210 Copynumber: 1.8 Consensus size: 210
50426146 TGATATTATA
* * * * ** * *
50426156 AAGGCTCGTATGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGTGTACGCTCCCAACTAGA
1 AAGGCTCGCAGGTTCAATACCACAACCTCCAAAACAGTTAGCGCGAGCCTAAGCTCCCAACCAGA
* ** *
50426221 ATCTTCAGGCTCGTAGGTTCCATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAA
66 ATCTTAAGGCTCACAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAA
* *
50426286 CTGGAATCTCAAGGCTCGTAGGTTCAATACCGCATCCTCCAAAATAGTTAGTACGAGCTTACGCT
131 CTGGAATCTCAAGGCTCCTAGGTTCAATACCGCATCCTCAAAAATAGTTAGTACGAGCTTACGCT
50426351 CCCAACTGGAATCTT
196 CCCAACTGGAATCTT
* * * * *
50426366 AAGGCTCGCAGGTTCAATACCACAACCTTCAAAATAGTTAGCTCGAGCCTAAGCTCCCAGCCGGA
1 AAGGCTCGCAGGTTCAATACCACAACCTCCAAAACAGTTAGCGCGAGCCTAAGCTCCCAACCAGA
* * * * * *
50426431 ATCTTAAGGCTCACGGGTTCAATATCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACACTCCCAG
66 ATCTTAAGGCTCACAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAA
* * * *
50426496 TTGGAATCTTAAGGCTCACT-GGTTTAATATCGCGA-CCTCAAAAATAG
131 CTGGAATCTCAAGGCTC-CTAGGTTCAATACCGC-ATCCTCAAAAATAG
50426543 CTGGCGAACC
Statistics
Matches: 146, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
210 144 0.99
211 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (210 bp):
AAGGCTCGCAGGTTCAATACCACAACCTCCAAAACAGTTAGCGCGAGCCTAAGCTCCCAACCAGA
ATCTTAAGGCTCACAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAA
CTGGAATCTCAAGGCTCCTAGGTTCAATACCGCATCCTCAAAAATAGTTAGTACGAGCTTACGCT
CCCAACTGGAATCTT
Found at i:50427012 original size:14 final size:15
Alignment explanation
Indices: 50426993--50427024 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
50426983 TTTGTAATAA
50426993 AAATTTT-AAAACTT
1 AAATTTTGAAAACTT
50427007 AAATTTTGAAAACTT
1 AAATTTTGAAAACTT
50427022 AAA
1 AAA
50427025 AATTTGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATTTTGAAAACTT
Found at i:50430255 original size:21 final size:23
Alignment explanation
Indices: 50430231--50430273 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
50430221 TTAATTTTTT
*
50430231 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
50430252 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
50430274 TGATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:50433432 original size:15 final size:16
Alignment explanation
Indices: 50433391--50433432 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
50433381 TCAAAGTTTC
*
50433391 TCCAAATTTTTAAGTT
1 TCCAAAATTTTAAGTT
50433407 TCCAAAA-TTTAAGTT
1 TCCAAAATTTTAAGTT
*
50433422 T-TAAAATTTTA
1 TCCAAAATTTTA
50433433 TTACAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 4 0.17
15 13 0.57
16 6 0.26
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (16 bp):
TCCAAAATTTTAAGTT
Found at i:50433543 original size:20 final size:20
Alignment explanation
Indices: 50433520--50433567 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
50433510 TAAATTTTTA
50433520 AATTTTTATTAAAATTTAAT
1 AATTTTTATTAAAATTTAAT
* *
50433540 AATTTTT-CTAAAATTTATT
1 AATTTTTATTAAAATTTAAT
*
50433559 ATTTTTTAT
1 AATTTTTAT
50433568 ATTTTTTCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTTTATTAAAATTTAAT
Found at i:50433765 original size:89 final size:86
Alignment explanation
Indices: 50433595--50433810 Score: 249
Period size: 89 Copynumber: 2.5 Consensus size: 86
50433585 ATAAAAGCAG
50433595 GGGCTTAATTGCTTTTTTAAAAAATTTTGAGTCTTTTTAATGCATTTTGAAAGTTCAAGTACTCA
1 GGGCTTAATTGCTTTTTTAAAAAATTTTGAGTCTTTTTAATGCATTTTGAAAGTTCAAGTACTCA
50433660 ATTGAATGAAAAAAAAATCAA
66 ATTGAATGAAAAAAAAATCAA
* * *
50433681 GGGCTTAATTGCTTTTTTTGAAGAAA-TTTGAGGGTCTTTTTAATGTATTTTGAAAGTTCAAGTG
1 GGGCTTAATTGC-TTTTTT-AAAAAATTTTGA--GTCTTTTTAATGCATTTTGAAAGTTCAAGTA
* * *
50433745 CTCAATTGAGTGTAAGAAAAAA--GA
62 CTCAATTGAATG-AAAAAAAAATCAA
* * * *
50433769 GAGACTTAATTGCTTATCTTAAAAAAGTTTGAGGGCTTTTTA
1 G-GGCTTAATTGCTT-TTTTAAAAAATTTTGA-GTCTTTTTA
50433811 CACCCTAAGC
Statistics
Matches: 112, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
86 12 0.11
87 11 0.10
88 23 0.21
89 58 0.52
90 8 0.07
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (86 bp):
GGGCTTAATTGCTTTTTTAAAAAATTTTGAGTCTTTTTAATGCATTTTGAAAGTTCAAGTACTCA
ATTGAATGAAAAAAAAATCAA
Found at i:50434507 original size:13 final size:13
Alignment explanation
Indices: 50434471--50434509 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
50434461 GATATATTTG
*
50434471 TAATTTGAAAGCT
1 TAATTTGAAAACT
50434484 TAAGTTTTGAAAACT
1 TAA--TTTGAAAACT
50434499 TAATTTGAAAA
1 TAATTTGAAAA
50434510 TTTGAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:50434810 original size:35 final size:35
Alignment explanation
Indices: 50434766--50434966 Score: 262
Period size: 35 Copynumber: 5.8 Consensus size: 35
50434756 TTCACTTGCC
* * * *
50434766 TTTTCTTGCAAGGAATATTTCCTGTTCACGCATTA
1 TTTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
* * *
50434801 TTTTGTTGCAGGGAATCTCTCATGTTCACACA-TC
1 TTTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
*
50434835 TTTTCTTGCAAGGAATCTCTCATGTTCACGCATTA
1 TTTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
* * * *
50434870 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 TTTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
50434905 -TTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
1 TTTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
* *
50434939 TGTTGTTGCAGGGAATCTCTCATGTTCA
1 TTTTCTTGCAGGGAATCTCTCATGTTCA
50434967 TGTATCATTT
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
34 60 0.42
35 82 0.58
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.39
Consensus pattern (35 bp):
TTTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
Found at i:50434867 original size:69 final size:69
Alignment explanation
Indices: 50434765--50434966 Score: 341
Period size: 69 Copynumber: 2.9 Consensus size: 69
50434755 ATTCACTTGC
* * *
50434765 CTTTTCTTGCAAGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCAC
1 CTTTTCTTGCAAGGAATCTCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCAC
50434830 ACAT
66 ACAT
*
50434834 CTTTTCTTGCAAGGAATCTCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCAC
1 CTTTTCTTGCAAGGAATCTCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCAC
50434899 ACAT
66 ACAT
* * *
50434903 CATTTCTTGCAGGGAATCTCTCATGTTCACGCATTATGTTGTTGCAGGGAATCTCTCATGTTCA
1 CTTTTCTTGCAAGGAATCTCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCA
50434967 TGTATCATTT
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 125 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (69 bp):
CTTTTCTTGCAAGGAATCTCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCAC
ACAT
Found at i:50442449 original size:3 final size:3
Alignment explanation
Indices: 50442441--50442465 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
50442431 GAGCAAAGAA
50442441 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
50442466 GTTCAGATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:50443864 original size:58 final size:58
Alignment explanation
Indices: 50443769--50443887 Score: 184
Period size: 58 Copynumber: 2.1 Consensus size: 58
50443759 GATTAGGGTC
* *
50443769 ATATCTAATAGGAAAGGAAAAAAGGACATCCTCATCCACTGGAGCATACATTGAGGAA
1 ATATCTAAGAGGAAAGGAAAAAAGGACATCCTCATCCACTGGAGCATACATTAAGGAA
* * * *
50443827 ATATCTAAGAGGAAAGGAAGAAAGGACATCCTTATCCATTGGAGCATCCATTAAGGAA
1 ATATCTAAGAGGAAAGGAAAAAAGGACATCCTCATCCACTGGAGCATACATTAAGGAA
50443885 ATA
1 ATA
50443888 GTTGCAATCT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (58 bp):
ATATCTAAGAGGAAAGGAAAAAAGGACATCCTCATCCACTGGAGCATACATTAAGGAA
Found at i:50444397 original size:34 final size:34
Alignment explanation
Indices: 50444291--50444397 Score: 94
Period size: 34 Copynumber: 3.1 Consensus size: 34
50444281 ACACAAGGAA
50444291 AAGTTGGTGCCAAAAGTGCAAGCATGGAGGACAC
1 AAGTTGGTGCCAAAAGTGCAAGCATGGAGGACAC
* * * * *
50444325 AAGGGTTGAAATG-CAAAA-AG-AAGAGATTGGTGGCCAC
1 AA--GTTG--GTGCCAAAAGTGCAAG-CA-TGGAGGACAC
50444362 AAGTTGGTGCCAAAAGTGCAAGCATGGAGGACAC
1 AAGTTGGTGCCAAAAGTGCAAGCATGGAGGACAC
50444396 AA
1 AA
50444398 CGTATGCAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 18
0.66 0.12 0.22
Matches are distributed among these distances:
33 2 0.04
34 17 0.31
35 9 0.17
36 9 0.17
37 15 0.28
38 2 0.04
ACGTcount: A:0.38, C:0.15, G:0.32, T:0.15
Consensus pattern (34 bp):
AAGTTGGTGCCAAAAGTGCAAGCATGGAGGACAC
Found at i:50447925 original size:17 final size:17
Alignment explanation
Indices: 50447900--50447986 Score: 63
Period size: 17 Copynumber: 4.9 Consensus size: 17
50447890 GAGGCAACCC
*
50447900 AATTTTTATTTTTATTT
1 AATTATTATTTTTATTT
50447917 AATTATTA-TTTTATTT
1 AATTATTATTTTTATTT
*
50447933 -ATTATTTTATTTTATTT
1 AATTATTAT-TTTTATTT
*
50447950 ACTTTATTTATTACTTTATTT
1 A-ATTA-TTATT--TTTATTT
*
50447971 TATT-TTATTATTTATT
1 AATTATTATT-TTTATT
50447987 ACTTATTTGG
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
15 6 0.11
16 8 0.14
17 21 0.38
18 5 0.09
19 4 0.07
20 5 0.09
21 7 0.12
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.72
Consensus pattern (17 bp):
AATTATTATTTTTATTT
Found at i:50447930 original size:5 final size:5
Alignment explanation
Indices: 50447903--50447979 Score: 66
Period size: 5 Copynumber: 14.4 Consensus size: 5
50447893 GCAACCCAAT
*
50447903 TTTTA TTTTTA TTTAA TTATTA TTTTA TTTATTA TTTTA TTTTA -TTTA
1 TTTTA -TTTTA TTTTA TT-TTA TTTTA -TT-TTA TTTTA TTTTA TTTTA
* *
50447951 CTTTA TTTATTA CTTTA TTTTA TTTTA TT
1 TTTTA -TT-TTA TTTTA TTTTA TTTTA TT
50447980 ATTTATTACT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
4 4 0.07
5 35 0.58
6 15 0.25
7 6 0.10
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:50447934 original size:26 final size:24
Alignment explanation
Indices: 50447904--50447986 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 24
50447894 CAACCCAATT
*
50447904 TTTATTTTTATTTAATTATTATTTTA
1 TTTATTTTTATTTTATT-TTA-TTTA
50447930 TTTATTATTTTATTTTA-TTTACTTTA
1 TTTA-T-TTTTATTTTATTTTA-TTTA
50447956 TTTATTACTTTATTTTATTTTA-TTA
1 TTTATT--TTTATTTTATTTTATTTA
50447981 TTTATT
1 TTTATT
50447987 ACTTATTTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
24 1 0.02
25 10 0.20
26 24 0.48
27 6 0.12
28 9 0.18
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTATTTTTATTTTATTTTATTTA
Found at i:50449008 original size:20 final size:19
Alignment explanation
Indices: 50448960--50449008 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
50448950 AAATATAAAT
*
50448960 AAAAAATAAATAGAAATCA
1 AAAAAATAAATAGAAAACA
*
50448979 AAATAAATAAATAGAAAAGA
1 AAA-AAATAAATAGAAAACA
50448999 AAAAATATAA
1 AAAAA-ATAA
50449009 TTTGGGGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (19 bp):
AAAAAATAAATAGAAAACA
Found at i:50449583 original size:15 final size:15
Alignment explanation
Indices: 50449558--50449592 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
50449548 GACTCTATTT
*
50449558 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
50449572 TAATTAATATTAAGA
1 TAATTAATATTAAGA
50449587 TAATTA
1 TAATTA
50449593 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:50452501 original size:94 final size:95
Alignment explanation
Indices: 50452376--50452677 Score: 279
Period size: 94 Copynumber: 3.2 Consensus size: 95
50452366 TAAATAAGGG
** * * * * *
50452376 ATTAGGGTTTAGGGTTTGTTAATTAAATTAATTATAAATTTTTCAAAATTGGATT-AGGTTTCGT
1 ATTAGGGTTTAGGGTTACTTGATTAAATTAATTATAAATTTTTAAAAATTAGATTAAGGTTTAGA
** * *
50452440 GTTTATTATTTTTTA-AGAAAAATCAATTAA
66 G-TTAAGAGTTTTTATAGAAAAATCAAATAA
* * * * *
50452470 ATTAGGGTTTAGGGGTACTTGAGTAATTTAATTAAAAAATTTTAAAAATTAGATTAAGGTTTAGA
1 ATTAGGGTTTAGGGTTACTTGATTAAATTAATTATAAATTTTTAAAAATTAGATTAAGGTTTAGA
* *
50452535 GTTAAGGGTTTTTATGGAAAAATCAAATAA
66 GTTAAGAGTTTTTATAGAAAAATCAAATAA
* * * * * *
50452565 ATTAGGGTTAAGTGTTACTTGATTAAATTAATTATAATTTTTTTAAAAAATAGATTAGGGCTTAG
1 ATTAGGGTTTAGGGTTACTTGATTAAATTAATTATAA-ATTTTTAAAAATTAGATTAAGGTTTAG
* *
50452630 TGTTTAAG-GTTTTTA-AGTAAAAACTTAAATAA
65 AG-TTAAGAGTTTTTATAG-AAAAA-TCAAATAA
* *
50452662 ATTAAGGTTTGGGGTT
1 ATTAGGGTTTAGGGTT
50452678 TAGGGTTACT
Statistics
Matches: 166, Mismatches: 36, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
94 54 0.33
95 53 0.32
96 35 0.21
97 24 0.14
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (95 bp):
ATTAGGGTTTAGGGTTACTTGATTAAATTAATTATAAATTTTTAAAAATTAGATTAAGGTTTAGA
GTTAAGAGTTTTTATAGAAAAATCAAATAA
Found at i:50452571 original size:95 final size:96
Alignment explanation
Indices: 50452449--50452676 Score: 257
Period size: 95 Copynumber: 2.4 Consensus size: 96
50452439 TGTTTATTAT
* *
50452449 TTTTTAA-GAAAAATCAATTAAATTAGGGTTTAGGGGTACTTGAGTAATTTAATTA-AAAAATTT
1 TTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGGTACTTGAGTAAATTAATTATAAAAATTT
* *
50452512 TAAAAATTAGATTAAGGTTTAGAG-TTAAGGG
66 TAAAAAATAGATTAAGGCTTAGAGTTTAA-GG
* * * * * ***
50452543 TTTTTATGGAAAAATCAAATAAATTAGGGTTAAGTGTTACTTGATTAAATTAATTATAATTTTTT
1 TTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGGTACTTGAGTAAATTAATTATAAAAATTT
* *
50452608 TAAAAAATAGATTAGGGCTTAGTGTTTAAGG
66 TAAAAAATAGATTAAGGCTTAGAGTTTAAGG
* * *
50452639 TTTTTAAGTAAAAACTTAAATAAATTAAGGTTT-GGGGT
1 TTTTTAAGGAAAAA-TCAAATAAATTAGGGTTTAGGGGT
50452677 TTAGGGTTAC
Statistics
Matches: 109, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
94 6 0.06
95 42 0.39
96 42 0.39
97 19 0.17
ACGTcount: A:0.40, C:0.03, G:0.18, T:0.39
Consensus pattern (96 bp):
TTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGGTACTTGAGTAAATTAATTATAAAAATTT
TAAAAAATAGATTAAGGCTTAGAGTTTAAGG
Found at i:50452935 original size:126 final size:126
Alignment explanation
Indices: 50452710--50453000 Score: 474
Period size: 126 Copynumber: 2.3 Consensus size: 126
50452700 TTGTTAATTT
* * *
50452710 AAAGAAGCTCTCACGTGGACGCGCTTTTACTACAGTAGCTCCTAAAAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
* * * *
50452775 GTTTCTGAGCAAATAGTGTTAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAACAAAAGTACTG
* * *
50452836 AAAGAAGCTCCCACGTGGACGCGCTATTGCTACAGTAGCTCCTGAACAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
*
50452901 GTTTCTGAGTAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAACAAAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAACAAAAGTACTG
*
50452962 AAAGAAGCTCCCACATGGACGCGCTTTTGCTACAGTAGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
50453001 GCATGTTTGG
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 152 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAACAAAAGTACTG
Found at i:50455461 original size:34 final size:35
Alignment explanation
Indices: 50455422--50455489 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
50455412 TGTAAAAGGA
*
50455422 AATTTCTATTTTATTACATGAAATAATAT-AAAAG
1 AATTTCTATTTTATTACATCAAATAATATCAAAAG
50455456 AATTTCTATTTTATTACATCAAATAATATCAAAA
1 AATTTCTATTTTATTACATCAAATAATATCAAAA
50455490 TATTCAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 28 0.88
35 4 0.12
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (35 bp):
AATTTCTATTTTATTACATCAAATAATATCAAAAG
Found at i:50455940 original size:18 final size:18
Alignment explanation
Indices: 50455913--50455951 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
50455903 GAAAAAGAAA
* *
50455913 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
50455931 ACATAAAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
50455949 ACA
1 ACA
50455952 CACCTAGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.21
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:50456050 original size:30 final size:30
Alignment explanation
Indices: 50456010--50456078 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
50456000 CTACTGGTCG
* * * **
50456010 GGTGACTGTGTCGGTGCTGTTGCTGGGCTT
1 GGTGATTGTGTCGGTGCTGATGATGGGCCA
*
50456040 GGTGATTGTGTGGGTGCTGATGATGGGCCA
1 GGTGATTGTGTCGGTGCTGATGATGGGCCA
50456070 GGTGATTGT
1 GGTGATTGT
50456079 CTGGGCCTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.09, C:0.12, G:0.45, T:0.35
Consensus pattern (30 bp):
GGTGATTGTGTCGGTGCTGATGATGGGCCA
Found at i:50457447 original size:110 final size:109
Alignment explanation
Indices: 50457274--50457662 Score: 618
Period size: 110 Copynumber: 3.6 Consensus size: 109
50457264 GCCAATCGAG
* * * * *
50457274 AAATCGAAACCCAGCACATTAGCGCATG-TTCCTCGAATTTCCAAACGCCAAACATTGACTTATT
1 AAATCGACACCCAGCACATTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
50457338 TTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
66 TTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
* * **
50457382 AAATCGACACCCAGCGCCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCGGAACATTGCCTTAT
1 AAATCGACACCCAGCACATTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTAT
50457447 TTTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
65 TTTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
*
50457492 AAATCGACACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACATTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* * *
50457557 TTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
* *
50457601 AAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCT
1 AAATCGACACCCAGCACATTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCT
50457663 CAATTAGAAA
Statistics
Matches: 259, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
108 24 0.09
109 112 0.43
110 123 0.47
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (109 bp):
AAATCGACACCCAGCACATTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
Found at i:50458182 original size:18 final size:18
Alignment explanation
Indices: 50458139--50458182 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
50458129 GTGGGTAAAT
**
50458139 AATAATAATAATAAGGAA
1 AATAATAATAATAAACAA
* *
50458157 AGTGATAATAATAAACAA
1 AATAATAATAATAAACAA
50458175 AATAATAA
1 AATAATAA
50458183 AACTACTGAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (18 bp):
AATAATAATAATAAACAA
Found at i:50459921 original size:95 final size:95
Alignment explanation
Indices: 50459750--50460748 Score: 1539
Period size: 95 Copynumber: 10.5 Consensus size: 95
50459740 AAGATCTGAA
* * *
50459750 ATCTTCAATCTATTCGACTACCAACCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
* *
50459815 GTCACAAGGAGGTAAAATTTGCCATCTTCG
66 GTCACAGGGAGGTAAAATCTGCCATCTTCG
* * *
50459845 ATCTTCAATCTATTCCACTGCCAACCAAGGAGATAGAATTATTGGCTTCAATGTACTCTACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
* *
50459910 GTTACAGGGAGGTAAAATCTGCCATCTTTG
66 GTCACAGGGAGGTAAAATCTGCCATCTTCG
* *
50459940 ATCTTCAATGTATTCCACTGCCAACCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
* *
50460005 GCCACAGGGAGGTAAAATCTTCCATCTTCG
66 GTCACAGGGAGGTAAAATCTGCCATCTTCG
* *
50460035 ATGTTCAATCTATTCCACTGCCAACCAGGGAAATAGAATTATCGGCTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
**
50460100 ACCACAGGGAGGTAAAATCTGCCATCTTCG
66 GTCACAGGGAGGTAAAATCTGCCATCTTCG
** *
50460130 ATCTTCAATCTATTTTACTGCCAACCAGGGAAATAGAATTATCGGCTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
*
50460195 GTCACAGGGAGGTAAAATCTGCCATCTTTG
66 GTCACAGGGAGGTAAAATCTGCCATCTTCG
*
50460225 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTATA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
* * * *
50460290 GTTACAAGGATGTAAAATCTGCCATCTTTG
66 GTCACAGGGAGGTAAAATCTGCCATCTTCG
* * *
50460320 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTATA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
*
50460385 GTCATAGGGAGGTAAAATCTGCCATCTTCG
66 GTCACAGGGAGGTAAAATCTGCCATCTTCG
* * * *
50460415 ATCTTCAATCTATTCCACTGCCAACCAAGGAAATAGAATTGTCGACTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
* *
50460480 GCCACAGGGAGGTAAAATCTGCTATCTTCG
66 GTCACAGGGAGGTAAAATCTGCCATCTTCG
* * * *
50460510 ATCTTCAATCTATTCCACTACCAACCAAGGAAATAGAATTATCGGCTTCAATGTACTCCGCTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
**
50460575 GTCACAGGGAGGTAAAATCTGCCATCTTTA
66 GTCACAGGGAGGTAAAATCTGCCATCTTCG
* *
50460605 ATCTTCAATCTATTCCACTACCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTATA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
* * **
50460670 GTCACAGGGAGGTAAAATCTTCCATTTTTT
66 GTCACAGGGAGGTAAAATCTGCCATCTTCG
* *
50460700 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCAGCTTC
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTC
50460749 GGTCTGCTTC
Statistics
Matches: 835, Mismatches: 69, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
95 835 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
GTCACAGGGAGGTAAAATCTGCCATCTTCG
Found at i:50460850 original size:88 final size:88
Alignment explanation
Indices: 50460745--50461146 Score: 651
Period size: 88 Copynumber: 4.6 Consensus size: 88
50460735 GAATTATCAG
* *
50460745 CTTCGGTCTGCTTCGCTGTCAATGCAGGAAGGCAAGATTTGTTGTCTTCAACCAGCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
* *
50460810 ACCGAGGGAGGCAAGGCTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
*
50460833 CTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
50460898 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * *
50460921 CTTCGATCTGCTTCGCTGTTAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAAA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
50460986 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * **
50461009 CTTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGTCGTCTTCAACCAGCTATACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
50461074 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * * *
50461097 CCTCGATCTACTTCGCTGTCAATGCAAGAAGGAAAGATCTATTGTCTTCA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
50461147 TTAATCTGTT
Statistics
Matches: 295, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 295 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (88 bp):
CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
ACCGAGAGAGGCAAGGTTTGTGT
Found at i:50460866 original size:44 final size:44
Alignment explanation
Indices: 50460745--50461044 Score: 175
Period size: 44 Copynumber: 6.8 Consensus size: 44
50460735 GAATTATCAG
* *
50460745 CTTCGGTCTGCTTCGCTGTCAATGCAGGAAGGCAAGATTTGTTGT
1 CTTCGATCTGCTTCGCTGTCAA-GCAGGAAGGCAAGGTTTGTTGT
* * * * * * * * *
50460790 CTTCAACCAGCTCCACT-ACAACCGAGGGAGGCAAGGCTTG-TGT
1 CTTCGATCTGCTTCGCTGTCAAGC-AGGAAGGCAAGGTTTGTTGT
* *
50460833 CTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGT
1 CTTCGATCTGCTTCGCTGTCAA-GCAGGAAGGCAAGGTTTGTTGT
* * * * * * *
50460878 CTTCAACCAGCTCCACT-ACAA-CCGAGAGAGGCAAGGTTTG-TGT
1 CTTCGATCTGCTTCGCTGTCAAGCAG-GA-AGGCAAGGTTTGTTGT
* * *
50460921 CTTCGATCTGCTTCGCTGTTAAGGCAGGAAGGCAAGATCTGTTGT
1 CTTCGATCTGCTTCGCTGTCAA-GCAGGAAGGCAAGGTTTGTTGT
* * * ** * * *
50460966 CTTCAACCAGC-TC-CACTAAAACCGAGAGAGGCAAGGTTTG-TGT
1 CTTCGATCTGCTTCGCTGTCAAGCAG-GA-AGGCAAGGTTTGTTGT
*
50461009 CTTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAG
1 CTTCGATCTGCTTCGCTGTCAA-GCAGGAAGGCAAG
50461045 ATCTGTCGTC
Statistics
Matches: 180, Mismatches: 60, Indels: 31
0.66 0.22 0.11
Matches are distributed among these distances:
42 4 0.02
43 49 0.27
44 77 0.43
45 46 0.26
46 4 0.02
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (44 bp):
CTTCGATCTGCTTCGCTGTCAAGCAGGAAGGCAAGGTTTGTTGT
Found at i:50461086 original size:44 final size:42
Alignment explanation
Indices: 50460774--50461097 Score: 115
Period size: 44 Copynumber: 7.4 Consensus size: 42
50460764 CAATGCAGGA
* * *
50460774 AGGCAAGATTTGTTGTCTTCAACCAGCTCCACTACAACCGAGGG
1 AGGCAAGATCTG-TGTCTTCAACCAGCT-TACTACAACCGAGAG
* * * * * * *
50460818 AGGCAAG-GCTTGTGTCTTCGATCTGCTTCGCTGTCAA-GGCAG-G
1 AGGCAAGATC-TGTGTCTTCAACCAGCTT-ACT-ACAACCG-AGAG
*
50460861 AAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAG
1 -AGGCAAGATCTG-TGTCTTCAACCAGCT-TACTACAACCGAGAG
* * * * * * ** *
50460906 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAA-GGCAG-G
1 AGGCAAGATCTGTGTCTTCAACCAGCTT-ACT-ACAACCG-AGAG
* *
50460949 AAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAAAACCGAGAG
1 -AGGCAAGATCTG-TGTCTTCAACCAGCT-TACTACAACCGAGAG
* * * * * * *
50460994 AGGCAAGGTTTGTGTCTTCGATCTA-CTTCGCTGTCAA-TGCAG-G
1 AGGCAAGATCTGTGTCTTC-AACCAGCTT-ACT-ACAACCG-AGAG
50461037 AAGGCAAGATCTGTCGTCTTCAACCAGCTATACTACAACCGAGAG
1 -AGGCAAGATCTGT-GTCTTCAACCAGCT-TACTACAACCGAGAG
* *
50461082 AGGCAAGGTTTGTGTC
1 AGGCAAGATCTGTGTC
50461098 CTCGATCTAC
Statistics
Matches: 197, Mismatches: 55, Indels: 57
0.64 0.18 0.18
Matches are distributed among these distances:
43 48 0.24
44 103 0.52
45 45 0.23
46 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (42 bp):
AGGCAAGATCTGTGTCTTCAACCAGCTTACTACAACCGAGAG
Found at i:50465983 original size:19 final size:19
Alignment explanation
Indices: 50465959--50465998 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
50465949 TGGCTGCACG
50465959 GAGATGAAAATCTCACGAA
1 GAGATGAAAATCTCACGAA
50465978 GAGATGAAAATCTCACGAA
1 GAGATGAAAATCTCACGAA
50465997 GA
1 GA
50465999 CATAGGTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (19 bp):
GAGATGAAAATCTCACGAA
Found at i:50466860 original size:110 final size:109
Alignment explanation
Indices: 50466725--50467082 Score: 617
Period size: 110 Copynumber: 3.3 Consensus size: 109
50466715 GGGCACGTTC
50466725 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTTAGCCATTTG
1 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTTAGCCATTTG
50466790 GTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
66 GTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
** *
50466834 CTCGAATTTCCCAAACGCGGAACATTGCCTTATTTTGAAATTTTTAAAATGATATTTAGCCATTT
1 CTCGAATTT-CCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTTAGCCATTT
* *
50466899 GGTTGAATGAGAAAAATCGACACCCAGCACATTAGGGCACGTTTT
65 GGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
* *
50466944 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCCATTTG
1 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTTAGCCATTTG
*
50467009 GTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
66 GTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
*
50467053 CCCGAATTTCCCAAACGCAAAACATTGCCT
1 CTCGAATTT-CCAAACGCAAAACATTGCCT
50467083 CAATTAAAAA
Statistics
Matches: 233, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
109 109 0.47
110 124 0.53
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (109 bp):
CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTTAGCCATTTG
GTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
Found at i:50467158 original size:21 final size:18
Alignment explanation
Indices: 50467126--50467165 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
50467116 ATTTATATGC
50467126 ATAATGGAATAATAAACATG
1 ATAATGGAATAA-AAA-ATG
50467146 ATAATGTGAATAAAAAATG
1 ATAATG-GAATAAAAAATG
50467165 A
1 A
50467166 ACAAAAACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.15, T:0.25
Consensus pattern (18 bp):
ATAATGGAATAAAAAATG
Found at i:50467619 original size:18 final size:18
Alignment explanation
Indices: 50467576--50467619 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
50467566 GGTAAATAAT
**
50467576 AATAATAATAATAAGGAA
1 AATAATAATAATAAACAA
* *
50467594 AGTGATAATAATAAACAA
1 AATAATAATAATAAACAA
50467612 AATAATAA
1 AATAATAA
50467620 AACTACTGAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (18 bp):
AATAATAATAATAAACAA
Found at i:50473202 original size:26 final size:26
Alignment explanation
Indices: 50473173--50473245 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
50473163 GTTGAGGCAC
50473173 TAAATTATAT-TAAAAATTAAAATATA
1 TAAATTATATCT-AAAATTAAAATATA
* *
50473199 TAAATTAAATCTCAAATTAAAATATA
1 TAAATTATATCTAAAATTAAAATATA
*
50473225 TAAATTATATACCAAAATTAA
1 TAAATTATAT-CTAAAATTAA
50473246 TATTTAATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 31 0.77
27 9 0.22
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (26 bp):
TAAATTATATCTAAAATTAAAATATA
Found at i:50473205 original size:14 final size:14
Alignment explanation
Indices: 50473186--50473231 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
50473176 ATTATATTAA
50473186 AAATTAAAATATAT
1 AAATTAAAATATAT
* *
50473200 AAATT-AAATCT-C
1 AAATTAAAATATAT
50473212 AAATTAAAATATAT
1 AAATTAAAATATAT
50473226 AAATTA
1 AAATTA
50473232 TATACCAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 5 0.19
13 10 0.38
14 11 0.42
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATTAAAATATAT
Found at i:50478170 original size:32 final size:32
Alignment explanation
Indices: 50478132--50478230 Score: 97
Period size: 31 Copynumber: 3.3 Consensus size: 32
50478122 AATAGATTAC
50478132 GTACCAAATTAAGAAAAAAGAATCAAGTTTAA
1 GTACCAAATTAAGAAAAAAGAATCAAGTTTAA
* *
50478164 GTACCAAATT-AGACAAAA-AA--AA-TCTAA
1 GTACCAAATTAAGAAAAAAGAATCAAGTTTAA
*
50478191 GTAACAAATTAAGAAAAAATG--TCAAGTTT-A
1 GTACCAAATTAAGAAAAAA-GAATCAAGTTTAA
50478221 GATACCAAAT
1 G-TACCAAAT
50478231 ATTACATTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
27 13 0.24
28 9 0.17
30 6 0.11
31 16 0.30
32 10 0.19
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (32 bp):
GTACCAAATTAAGAAAAAAGAATCAAGTTTAA
Found at i:50478681 original size:11 final size:11
Alignment explanation
Indices: 50478644--50478674 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
50478634 CCATCTTCAA
50478644 TCTCTCAAATT
1 TCTCTCAAATT
50478655 TCTCTCAAATT
1 TCTCTCAAATT
50478666 TCTCTCAAA
1 TCTCTCAAA
50478675 GCTCTCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:50480770 original size:21 final size:21
Alignment explanation
Indices: 50480736--50480797 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
50480726 CCAACACCGA
50480736 CAACCAG-ATCCCCTACCGGAG
1 CAACCAGAAT-CCCTACCGGAG
* **
50480757 GAACCAGAATCCCTGTCGGAG
1 CAACCAGAATCCCTACCGGAG
* * *
50480778 CAACCACAAACCCCACCGGA
1 CAACCAGAATCCCTACCGGA
50480798 AGCTGGACAA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.32, C:0.40, G:0.19, T:0.08
Consensus pattern (21 bp):
CAACCAGAATCCCTACCGGAG
Found at i:50480916 original size:21 final size:22
Alignment explanation
Indices: 50480881--50480929 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
50480871 CATTGATTTT
50480881 TATTTTAATATATTTGTATAAA
1 TATTTTAATATATTTGTATAAA
*
50480903 TATTTTGAATAT-TTT-TAT-AT
1 TATTTT-AATATATTTGTATAAA
50480923 TATTTTA
1 TATTTTA
50480930 TGTAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 7 0.28
21 3 0.12
22 9 0.36
23 5 0.20
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
TATTTTAATATATTTGTATAAA
Found at i:50481046 original size:52 final size:51
Alignment explanation
Indices: 50480910--50481053 Score: 139
Period size: 52 Copynumber: 2.7 Consensus size: 51
50480900 AAATATTTTG
* * *
50480910 AATATTTTTATATTATTTTATGTAATAAAATAAAAGATTGTTTTGAATAAAGT
1 AATATTTTTATATTA-TTTATTTAATAAAATAAAA-ATTCTTTTAAATAAAGT
* * *
50480963 AAT-TGTAATTTACTTTTATATT-TTTAATAAAATAGAAATTCTTTTAAATAAGGT
1 AATAT-T--TTTA-TATTAT-TTATTTAATAAAATAAAAATTCTTTTAAATAAAGT
*
50481017 AATATTTTTATATTATTTCATTTAATAAAATATAAAT
1 AATATTTTTATATTATTT-ATTTAATAAAATAAAAAT
50481054 AATACAACAT
Statistics
Matches: 75, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
50 2 0.03
51 5 0.07
52 21 0.28
53 4 0.05
54 18 0.24
55 19 0.25
56 6 0.08
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (51 bp):
AATATTTTTATATTATTTATTTAATAAAATAAAAATTCTTTTAAATAAAGT
Found at i:50484267 original size:126 final size:126
Alignment explanation
Indices: 50484042--50484309 Score: 491
Period size: 126 Copynumber: 2.1 Consensus size: 126
50484032 GCCAAATAGG
* *
50484042 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCATCC
1 AACTACTGTAGCAAAACAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACATTGCATCC
*
50484107 TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATATTCTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATATTCTCAAAATTATTTTTTCAAA
50484168 AACTACTGTAGCAAAACAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACATTGCATCC
1 AACTACTGTAGCAAAACAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACATTGCATCC
* *
50484233 TGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATTTTCTCAAAATTATTTTTTCAAA
66 TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATATTCTCAAAATTATTTTTTCAAA
50484294 AACTACTGTAGCAAAA
1 AACTACTGTAGCAAAA
50484310 GAGAATTTTA
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 137 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (126 bp):
AACTACTGTAGCAAAACAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACATTGCATCC
TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATATTCTCAAAATTATTTTTTCAAA
Found at i:50484947 original size:16 final size:17
Alignment explanation
Indices: 50484910--50484954 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
50484900 TTTTAGAAAT
*
50484910 TTAAATGTAATTTTATCA
1 TTAAAT-TAATTTTATAA
50484928 -TAAATTAA-TTTATAA
1 TTAAATTAATTTTATAA
50484943 TTAAATT-ATTTT
1 TTAAATTAATTTT
50484955 GAAGCGACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 7 0.29
16 12 0.50
17 5 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
TTAAATTAATTTTATAA
Found at i:50485354 original size:13 final size:13
Alignment explanation
Indices: 50485336--50485360 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50485326 TAGATAGAAG
50485336 TTGATTATGTAAA
1 TTGATTATGTAAA
50485349 TTGATTATGTAA
1 TTGATTATGTAA
50485361 TCTTGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:50485826 original size:17 final size:18
Alignment explanation
Indices: 50485804--50485837 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50485794 TAACAAATAT
50485804 TATTTTAAT-TTTTTATG
1 TATTTTAATATTTTTATG
*
50485821 TATTTTTATATTTTTAT
1 TATTTTAATATTTTTAT
50485838 ATTTTTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TATTTTAATATTTTTATG
Found at i:50485848 original size:10 final size:8
Alignment explanation
Indices: 50485821--50485847 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
50485811 ATTTTTTATG
50485821 TATTTTTA
1 TATTTTTA
50485829 TATTTTTA
1 TATTTTTA
50485837 TATTTTTA
1 TATTTTTA
50485845 TAT
1 TAT
50485848 ACAATCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TATTTTTA
Found at i:50485848 original size:18 final size:17
Alignment explanation
Indices: 50485806--50485847 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
50485796 ACAAATATTA
50485806 TTTTA-ATTTTTTATGTAT
1 TTTTATATTTTTTA--TAT
50485824 TTTTATA-TTTTTATAT
1 TTTTATATTTTTTATAT
50485840 TTTTATAT
1 TTTTATAT
50485848 ACAATCTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 10 0.45
18 11 0.50
19 1 0.05
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTATATTTTTTATAT
Found at i:50485929 original size:14 final size:14
Alignment explanation
Indices: 50485910--50485941 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
50485900 ATGTGAAAAG
50485910 TTTTACGAAAAATA
1 TTTTACGAAAAATA
50485924 TTTTACGAAAAATA
1 TTTTACGAAAAATA
50485938 TTTT
1 TTTT
50485942 CTGCATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (14 bp):
TTTTACGAAAAATA
Found at i:50486334 original size:13 final size:14
Alignment explanation
Indices: 50486318--50486359 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
50486308 CTTCAATTTT
50486318 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
50486331 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
50486346 ATTTTAAATAATAT
1 ATTTT-AATAATAT
50486360 TCTGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:50486344 original size:16 final size:16
Alignment explanation
Indices: 50486322--50486358 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
50486312 AATTTTATTT
50486322 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
50486339 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
50486354 TAATA
1 TAATA
50486359 TTCTGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:50486399 original size:15 final size:15
Alignment explanation
Indices: 50486379--50486444 Score: 53
Period size: 15 Copynumber: 4.1 Consensus size: 15
50486369 ATTCATTATT
50486379 AATATTTTAATAATA
1 AATATTTTAATAATA
*
50486394 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
50486413 AATATATTAATAATA
1 AATATTTTAATAATA
*
50486428 AATTTTTGTAAT-ATA
1 AATATTT-TAATAATA
50486443 AA
1 AA
50486445 GGTTAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
15 20 0.49
16 6 0.15
17 4 0.10
18 1 0.02
19 10 0.24
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:50487708 original size:39 final size:38
Alignment explanation
Indices: 50487634--50487712 Score: 113
Period size: 39 Copynumber: 2.1 Consensus size: 38
50487624 ATTTACTAAT
* * *
50487634 ATTTTGAGTAAAAGAGACAAAATACATTCTAACTTTTA
1 ATTTTGAGTAAAAAAAACAAAATACAATCTAACTTTTA
*
50487672 ATTTTGAGTAAAAAAAAACAAAATACAATCTGACTTTTA
1 ATTTTGAGT-AAAAAAAACAAAATACAATCTAACTTTTA
50487711 AT
1 AT
50487713 ACACCTTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 9 0.25
39 27 0.75
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (38 bp):
ATTTTGAGTAAAAAAAACAAAATACAATCTAACTTTTA
Found at i:50487780 original size:15 final size:16
Alignment explanation
Indices: 50487755--50487787 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
50487745 ATATTTTAAA
50487755 AATATTCCACAAGGGG
1 AATATTCCACAAGGGG
50487771 AATA-TCCACAAGGGG
1 AATATTCCACAAGGGG
50487786 AA
1 AA
50487788 GTACCAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.15
Consensus pattern (16 bp):
AATATTCCACAAGGGG
Found at i:50498689 original size:15 final size:16
Alignment explanation
Indices: 50498669--50498706 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
50498659 TTTTTACTTA
* *
50498669 TTTTTAAAT-GTCTTT
1 TTTTTAAATACTCTTC
50498684 TTTTTAAATACTCTTC
1 TTTTTAAATACTCTTC
50498700 TTTTTAA
1 TTTTTAA
50498707 TTTTAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.24, C:0.11, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTTTAAATACTCTTC
Found at i:50499843 original size:29 final size:29
Alignment explanation
Indices: 50499810--50499872 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
50499800 AATCTCTATT
50499810 TTTAAAT-TTTAAAAATATGTTAAT-TTTTA
1 TTTAAATATTTAAAAAT-T-TTAATATTTTA
*
50499839 TTT-AATATTTAAAAATTTTATTATTTTA
1 TTTAAATATTTAAAAATTTTAATATTTTA
50499867 TTTAAA
1 TTTAAA
50499873 GATTATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 4 0.13
28 12 0.40
29 14 0.47
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTAAATATTTAAAAATTTTAATATTTTA
Found at i:50499857 original size:21 final size:21
Alignment explanation
Indices: 50499831--50499890 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
50499821 AAAATATGTT
50499831 AATTTTTATTTAATATTTAAA
1 AATTTTTATTTAATATTTAAA
50499852 AATTTTATTATTT--TATTTAAA
1 AA-TTT-TTATTTAATATTTAAA
* *
50499873 GATTATTT-TTTAAAATTT
1 AATT-TTTATTTAATATTT
50499891 TAAACATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 16 0.50
22 3 0.09
23 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
AATTTTTATTTAATATTTAAA
Found at i:50499866 original size:28 final size:29
Alignment explanation
Indices: 50499817--50499871 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
50499807 ATTTTTAAAT
50499817 TTTAAAAATATGTTAATTTTTATTTAATA
1 TTTAAAAATATGTTAATTTTTATTTAATA
*
50499846 TTTAAAAAT-T-TTATTATTTTATTTAA
1 TTTAAAAATATGTTAAT-TTTTATTTAA
50499872 AGATTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 11 0.46
29 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTAAAAATATGTTAATTTTTATTTAATA
Found at i:50502803 original size:27 final size:29
Alignment explanation
Indices: 50502754--50502812 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
50502744 CGTACTTAGG
50502754 TTTCTCTTCTTCTTTTTTTTTTTGGT-TT
1 TTTCTCTTCTTCTTTTTTTTTTTGGTATT
*
50502782 TTTCTC-TCTT-TTTTTTTGTTTTTGTATT
1 TTTCTCTTCTTCTTTTTTT-TTTTGGTATT
50502810 TTT
1 TTT
50502813 TTTGGTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 7 0.25
27 10 0.36
28 11 0.39
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.80
Consensus pattern (29 bp):
TTTCTCTTCTTCTTTTTTTTTTTGGTATT
Found at i:50502814 original size:21 final size:20
Alignment explanation
Indices: 50502766--50502815 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
50502756 TCTCTTCTTC
*
50502766 TTTTTTTTTTTGGTTTTTTC
1 TTTTTTTTTTTGGTTTTTTA
50502786 TCTCTTTTTTTTT-GTTTTTGTA
1 T-T-TTTTTTTTTGGTTTTT-TA
50502808 TTTTTTTT
1 TTTTTTTT
50502816 GGTAATTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 7 0.27
21 8 0.31
22 11 0.42
ACGTcount: A:0.02, C:0.06, G:0.08, T:0.84
Consensus pattern (20 bp):
TTTTTTTTTTTGGTTTTTTA
Found at i:50504978 original size:22 final size:22
Alignment explanation
Indices: 50504933--50504979 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
50504923 TCTTTATTAG
*
50504933 TAATCTTTTTAATTATTTTAAT
1 TAATCTTTTTAATTATTTGAAT
*
50504955 TAATCTTTTTAATTATTTGCAT
1 TAATCTTTTTAATTATTTGAAT
50504977 TAA
1 TAA
50504980 CAAAAGGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (22 bp):
TAATCTTTTTAATTATTTGAAT
Found at i:50506324 original size:14 final size:13
Alignment explanation
Indices: 50506285--50506345 Score: 58
Period size: 12 Copynumber: 4.9 Consensus size: 13
50506275 AAAAATTGAG
50506285 TGTATTATATTAT
1 TGTATTATATTAT
*
50506298 T-TAGTAT-TT-T
1 TGTATTATATTAT
50506308 TGTAATTATATTAT
1 TGT-ATTATATTAT
* *
50506322 TGTATTAT-TGAA
1 TGTATTATATTAT
50506334 TGTATTATATTA
1 TGTATTATATTA
50506346 ATATGTTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
10 2 0.05
11 3 0.08
12 19 0.50
13 10 0.26
14 4 0.11
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (13 bp):
TGTATTATATTAT
Found at i:50506437 original size:29 final size:28
Alignment explanation
Indices: 50506383--50506478 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 28
50506373 TGAATTGAAC
*
50506383 TGATTTGGTGCAATTCGATACATGAACTT
1 TGATTTGGTGCAATTC-ATACATGAAATT
*
50506412 TGATTTGGTGTAATT-ATACATGTGAAATT
1 TGATTTGGTGCAATTCATACA--TGAAATT
* * *
50506441 TGAATTGTGATTCACATTTATACATGAAATT
1 TG-ATT-TGGTGCA-ATTCATACATGAAATT
50506472 TCGATTT
1 T-GATTT
50506479 TAATTCAACT
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
27 5 0.09
29 22 0.40
30 4 0.07
31 15 0.27
32 4 0.07
33 5 0.09
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (28 bp):
TGATTTGGTGCAATTCATACATGAAATT
Found at i:50509876 original size:28 final size:28
Alignment explanation
Indices: 50509835--50509909 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 28
50509825 TAAAAATCTC
*
50509835 AAACAAAAACCCTAAACCCTACTTTAAAT
1 AAAC-AAAACCCTAAACCCTAATTTAAAT
50509864 AAACAAAACCCTAACTTAAACCCTAATTTAAAT
1 AAACAAAA-CC---C-TAAACCCTAATTTAAAT
50509897 AAACAAAACCCTA
1 AAACAAAACCCTA
50509910 CCCTTTAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
28 6 0.15
29 7 0.17
32 3 0.08
33 24 0.60
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (28 bp):
AAACAAAACCCTAAACCCTAATTTAAAT
Found at i:50509887 original size:33 final size:33
Alignment explanation
Indices: 50509847--50509909 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
50509837 ACAAAAACCC
*
50509847 TAAACCCTACTTTAAATAAACAAAACCCTAACT
1 TAAACCCTAATTTAAATAAACAAAACCCTAACT
50509880 TAAACCCTAATTTAAATAAACAAAACCCTA
1 TAAACCCTAATTTAAATAAACAAAACCCTA
50509910 CCCTTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (33 bp):
TAAACCCTAATTTAAATAAACAAAACCCTAACT
Found at i:50516113 original size:30 final size:31
Alignment explanation
Indices: 50516079--50516143 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 31
50516069 TTTTTAAGTT
50516079 AAATTT-ACCATCAACATTTTAAAAAGAGT-A
1 AAATTTGACCATCAAC-TTTTAAAAAGAGTCA
**
50516109 AAATTTGACCATCAACTTTTTGAAAGAGTCA
1 AAATTTGACCATCAACTTTTAAAAAGAGTCA
50516140 AAAT
1 AAAT
50516144 GATGTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAATTTGACCATCAACTTTTAAAAAGAGTCA
Found at i:50518798 original size:25 final size:24
Alignment explanation
Indices: 50518761--50518876 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 24
50518751 CACAACTTTT
*
50518761 ATGAGCATCCCGATATTTGGCTCTC
1 ATGAGC-TTCCGATATTTGGCTCTC
* *
50518786 ACGAGCTTTCCGAT-TAATGGCTCTC
1 ATGAGC-TTCCGATAT-TTGGCTCTC
* * * *
50518811 TTGAACTTCCCGATAATTGGCTCGC
1 ATGAGCTT-CCGATATTTGGCTCTC
*
50518836 ATGAGCTTCTCGAT-TTATGGCTCTT
1 ATGAGCTTC-CGATATT-TGGCTCTC
50518861 ATGAGCTTCTCGATAT
1 ATGAGCTTC-CGATAT
50518877 ATAGCTTGAT
Statistics
Matches: 70, Mismatches: 15, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
24 5 0.07
25 64 0.91
26 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (24 bp):
ATGAGCTTCCGATATTTGGCTCTC
Found at i:50518875 original size:50 final size:50
Alignment explanation
Indices: 50518759--50518875 Score: 139
Period size: 50 Copynumber: 2.3 Consensus size: 50
50518749 ACCACAACTT
* * *
50518759 TTATGAGCATCCCGATATTTGGCTCTCACGAGCTTTCCGATTAATGGCTC
1 TTATGAGCTTCCCGATAATTGGCTCGCACGAGCTTTCCGATTAATGGCTC
* * *
50518809 TCT-TGAACTTCCCGATAATTGGCTCGCATGAGC-TTCTCGATTTATGGCTC
1 T-TATGAGCTTCCCGATAATTGGCTCGCACGAGCTTTC-CGATTAATGGCTC
*
50518859 TTATGAGCTTCTCGATA
1 TTATGAGCTTCCCGATA
50518876 TATAGCTTGA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
49 4 0.07
50 51 0.91
51 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (50 bp):
TTATGAGCTTCCCGATAATTGGCTCGCACGAGCTTTCCGATTAATGGCTC
Found at i:50518890 original size:25 final size:25
Alignment explanation
Indices: 50518836--50518894 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
50518826 ATTGGCTCGC
* * *
50518836 ATGAGCTTCTCGATTTATGGCTCTT
1 ATGAGCTTCTCGATATATAGCTCTG
50518861 ATGAGCTTCTCGATATATAGCT-TG
1 ATGAGCTTCTCGATATATAGCTCTG
50518885 ATTGAGCTTC
1 A-TGAGCTTC
50518895 CCATTATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (25 bp):
ATGAGCTTCTCGATATATAGCTCTG
Found at i:50518902 original size:25 final size:25
Alignment explanation
Indices: 50518861--50518946 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
50518851 TATGGCTCTT
*
50518861 ATGAGCTTCTCGA-TATATAGCTTGA
1 ATGAGCTTC-CCATTATATAGCTTGA
* * * *
50518886 TTGAGCTTCCCATTATACA-ATTTA
1 ATGAGCTTCCCATTATATAGCTTGA
* *
50518910 CATGAGCTTCCCATTATATGGCTCGA
1 -ATGAGCTTCCCATTATATAGCTTGA
*
50518936 AAGAGCTTCCC
1 ATGAGCTTCCC
50518947 GTTTACATAT
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
24 5 0.11
25 39 0.85
26 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCCCATTATATAGCTTGA
Found at i:50531225 original size:19 final size:19
Alignment explanation
Indices: 50531203--50531242 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
50531193 TTTTCTGCTT
*
50531203 TCCCATCTGTTTTGCTTTA
1 TCCCATCTGCTTTGCTTTA
* *
50531222 TCCCCTTTGCTTTGCTTTA
1 TCCCATCTGCTTTGCTTTA
50531241 TC
1 TC
50531243 TCAAAAATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.07, C:0.30, G:0.10, T:0.53
Consensus pattern (19 bp):
TCCCATCTGCTTTGCTTTA
Found at i:50536702 original size:23 final size:24
Alignment explanation
Indices: 50536666--50536713 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
50536656 AAAAAATAAT
50536666 AAATAATATATTAAAATTAAAAAA
1 AAATAATATATTAAAATTAAAAAA
* **
50536690 AAATAAT-TTTTAATTTTAAAAAA
1 AAATAATATATTAAAATTAAAAAA
50536713 A
1 A
50536714 TTAAACGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATAATATATTAAAATTAAAAAA
Found at i:50541020 original size:72 final size:72
Alignment explanation
Indices: 50540943--50541086 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
50540933 GATCAAAGTG
50540943 GATGATAATTGTAAGAAATATTTTAATATTACTTATTTTTATTTCTAGATGGTATCCCATAATAA
1 GATGATAATTGTAAGAAATATTTTAATATTACTTATTTTTATTTCTAGATGGTATCCCATAATAA
50541008 AGAAAAT
66 AGAAAAT
50541015 GATGATAATTGTAAGAAATATTTTAATATTACTTATTTTTATTTCTAGATGGTATCCCATAATAA
1 GATGATAATTGTAAGAAATATTTTAATATTACTTATTTTTATTTCTAGATGGTATCCCATAATAA
50541080 AGAAAAT
66 AGAAAAT
50541087 TGGTGAAACC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (72 bp):
GATGATAATTGTAAGAAATATTTTAATATTACTTATTTTTATTTCTAGATGGTATCCCATAATAA
AGAAAAT
Found at i:50543607 original size:28 final size:28
Alignment explanation
Indices: 50543575--50543632 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
50543565 ACTGGATACG
50543575 ATTTAGAGCCAAGTATTAAATTATCCCA
1 ATTTAGAGCCAAGTATTAAATTATCCCA
50543603 ATTTAGAGCCAAGTATTAAATTATCCCA
1 ATTTAGAGCCAAGTATTAAATTATCCCA
50543631 AT
1 AT
50543633 ACTTATGTAC
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:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (28 bp):
ATTTAGAGCCAAGTATTAAATTATCCCA
Found at i:50555522 original size:17 final size:17
Alignment explanation
Indices: 50555500--50555533 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
50555490 CTTTTCAAGA
50555500 TTATATATTTATCATGG
1 TTATATATTTATCATGG
50555517 TTATATATTTATCATGG
1 TTATATATTTATCATGG
50555534 AACGAGGTAA
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:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
TTATATATTTATCATGG
Found at i:50558678 original size:162 final size:162
Alignment explanation
Indices: 50558485--50558804 Score: 525
Period size: 162 Copynumber: 2.0 Consensus size: 162
50558475 CTATAACCTT
*
50558485 GGACCTTTCTCCTTAATCACCAAAGCTATACTCATCAGCTCTTGACACCACAATGCGAACAATCA
1 GGACCTTTCTCCTTAATCACCAAAGCTATACTCATCAGCTCTTGACACCACAATGCAAACAATCA
* * * *
50558550 TCAACCACCATT-ACTAGGTGAGAGTAATTGGTTTTTAGTTGGATTGGTCGATTTTCATGACTTA
66 TCAACCACCATTAAC-AGGGGAGAATAATTGGTTGTTAGTTAGATTGGTCGATTTTCATGACTTA
*
50558614 TCCGCCTTAACCAACCACCGCCAAATTTACATA
130 TCCGACTTAACCAACCACCGCCAAATTTACATA
*
50558647 GGACCTTTCTCCTTAATCACCAAAGCTATACTCATCGGCTCTTGACACCACAATGCAAACAATCA
1 GGACCTTTCTCCTTAATCACCAAAGCTATACTCATCAGCTCTTGACACCACAATGCAAACAATCA
* * *
50558712 TCAACCACCATTAACAGGGGAGAATACTTGGTTGTTAGTTAGTTTGGTCGATTTTCCTGACTTAT
66 TCAACCACCATTAACAGGGGAGAATAATTGGTTGTTAGTTAGATTGGTCGATTTTCATGACTTAT
*
50558777 CCGACTTAACCGACCACCGCCAAATTTA
131 CCGACTTAACCAACCACCGCCAAATTTA
50558805 ACCAACTAAC
Statistics
Matches: 146, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
162 144 0.99
163 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (162 bp):
GGACCTTTCTCCTTAATCACCAAAGCTATACTCATCAGCTCTTGACACCACAATGCAAACAATCA
TCAACCACCATTAACAGGGGAGAATAATTGGTTGTTAGTTAGATTGGTCGATTTTCATGACTTAT
CCGACTTAACCAACCACCGCCAAATTTACATA
Found at i:50561349 original size:16 final size:17
Alignment explanation
Indices: 50561328--50561361 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
50561318 TTTATGTGAG
50561328 TTTAATTTCTAT-TTTT
1 TTTAATTTCTATATTTT
*
50561344 TTTAATTTTTATATTTT
1 TTTAATTTCTATATTTT
50561361 T
1 T
50561362 GAGATTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTAATTTCTATATTTT
Found at i:50562168 original size:21 final size:21
Alignment explanation
Indices: 50562143--50562272 Score: 165
Period size: 21 Copynumber: 6.3 Consensus size: 21
50562133 GTGTTTTACT
* *
50562143 TTCTGTTTAGCTTTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
* *
50562164 TTCTGTTCAGCTTTTACGAGC
1 TTCTGTTCAGCTCTTATGAGC
* *
50562185 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAGCTCTTATGAGC
*
50562206 TTCTGTTCAGCTCTTATGAGT
1 TTCTGTTCAGCTCTTATGAGC
*
50562227 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTATGAGC
*
50562248 TTCTGTTCAGCT-TT-TAAGC
1 TTCTGTTCAGCTCTTATGAGC
50562267 TTCTGT
1 TTCTGT
50562273 CGGCTCATTT
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
19 9 0.09
20 2 0.02
21 87 0.89
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:50563882 original size:23 final size:23
Alignment explanation
Indices: 50563849--50563905 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
50563839 AATTAAAATA
* *
50563849 ATTTTCAAAAATTCAAAATATAT
1 ATTTTTAAAAATCCAAAATATAT
* *
50563872 ATTTTTTAAAATCCAAAATTTAT
1 ATTTTTAAAAATCCAAAATATAT
50563895 ATTTTTAAAAA
1 ATTTTTAAAAA
50563906 ATTTATAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTTAAAAATCCAAAATATAT
Found at i:50563906 original size:17 final size:17
Alignment explanation
Indices: 50563886--50563960 Score: 69
Period size: 17 Copynumber: 4.1 Consensus size: 17
50563876 TTTAAAATCC
**
50563886 AAAATTTATATTTTTAA
1 AAAATTTATAAATTTAA
50563903 AAAATTTATAAATTTAAA
1 AAAATTTATAAATTT-AA
*
50563921 AAAATTCTAAAGAATATATAAA
1 AAAATT-TATA-AAT-T-T-AA
50563943 AAAATTTATAAATTTAA
1 AAAATTTATAAATTTAA
50563960 A
1 A
50563961 TTTTTTTCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
17 16 0.33
18 9 0.18
19 4 0.08
20 6 0.12
21 4 0.08
22 10 0.20
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (17 bp):
AAAATTTATAAATTTAA
Found at i:50567681 original size:43 final size:42
Alignment explanation
Indices: 50567577--50567681 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
50567567 GATTTGAGAT
*
50567577 TTACGTGTAAGACCATGTCTAGGACATTGCCATCGTATATGA
1 TTACGTGTAAGACCATGTCTAGGACAGTGCCATCGTATATGA
* * * *
50567619 TTTCGTGTAAGACCCTGTCTAGGACAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCATGTCTAGGACAGTGCCATCG-TATATGA
* *
50567662 TTACATGTAAGATCATGTCT
1 TTACGTGTAAGACCATGTCT
50567682 GGGATGTTGG
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 31 0.58
43 22 0.42
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTAGGACAGTGCCATCGTATATGA
Found at i:50569685 original size:29 final size:29
Alignment explanation
Indices: 50569651--50569710 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
50569641 TCAAGCAATT
50569651 CCTCTCCC-AAATCAAGAAAAATCGTCCAC
1 CCTCTCCCTAAATCAAG-AAAATCGTCCAC
* *
50569680 CCTCTCCCTTGAATCAAGCAAATCGTCCAC
1 CCTCTCCC-TAAATCAAGAAAATCGTCCAC
50569710 C
1 C
50569711 TATAAGGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 8 0.30
30 12 0.44
31 7 0.26
ACGTcount: A:0.32, C:0.40, G:0.08, T:0.20
Consensus pattern (29 bp):
CCTCTCCCTAAATCAAGAAAATCGTCCAC
Found at i:50573695 original size:10 final size:10
Alignment explanation
Indices: 50573680--50573837 Score: 68
Period size: 10 Copynumber: 16.4 Consensus size: 10
50573670 CAGATGTGAC
50573680 AAAAAATTAT
1 AAAAAATTAT
50573690 -AAAAA--AT
1 AAAAAATTAT
*
50573697 -AAAAATCA-
1 AAAAAATTAT
50573705 ATAAAAATTAT
1 A-AAAAATTAT
50573716 -AAAAATTAT
1 AAAAAATTAT
* **
50573725 TAAACTTTAAT
1 AAAAAATT-AT
*
50573736 AAAAAAATAT
1 AAAAAATTAT
**
50573746 TTAAAATT-T
1 AAAAAATTAT
*
50573755 ACTAAAAATTAG
1 A--AAAAATTAT
*
50573767 AAAAAAATAT
1 AAAAAATTAT
*
50573777 -AAAAATTGT
1 AAAAAATTAT
50573786 AAAAAA-TAT
1 AAAAAATTAT
*
50573795 -AAAAATTGT
1 AAAAAATTAT
**
50573804 AAAATTTTAT
1 AAAAAATTAT
*
50573814 -AAAAATCAT
1 AAAAAATTAT
50573823 AAAAAAATTAT
1 -AAAAAATTAT
50573834 AAAA
1 AAAA
50573838 TCCATAAAAA
Statistics
Matches: 107, Mismatches: 26, Indels: 30
0.66 0.16 0.18
Matches are distributed among these distances:
7 7 0.07
8 5 0.05
9 33 0.31
10 41 0.38
11 20 0.19
12 1 0.01
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:50573719 original size:8 final size:9
Alignment explanation
Indices: 50573681--50573837 Score: 94
Period size: 9 Copynumber: 17.4 Consensus size: 9
50573671 AGATGTGACA
50573681 AAAAATTAT
1 AAAAATTAT
50573690 AAAAA--AT
1 AAAAATTAT
*
50573697 AAAAATCAAT
1 AAAAAT-TAT
50573707 AAAAATTAT
1 AAAAATTAT
50573716 AAAAATTAT
1 AAAAATTAT
* *
50573725 TAAACTT-T
1 AAAAATTAT
50573733 AATAAA--A-
1 AA-AAATTAT
*
50573740 AAATATT-T
1 AAAAATTAT
*
50573748 AAAATTTACT
1 AAAAATTA-T
*
50573758 AAAAATTAGA
1 AAAAATTA-T
*
50573768 AAAAAATAT
1 AAAAATTAT
*
50573777 AAAAATTGT
1 AAAAATTAT
*
50573786 AAAAAATAT
1 AAAAATTAT
*
50573795 AAAAATTGT
1 AAAAATTAT
*
50573804 AAAATTTTAT
1 AAAA-ATTAT
*
50573814 AAAAATCATAA
1 AAAAAT--TAT
50573825 AAAAATTAT
1 AAAAATTAT
50573834 AAAA
1 AAAA
50573838 TCCATAAAAA
Statistics
Matches: 111, Mismatches: 24, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
6 2 0.02
7 9 0.08
8 7 0.06
9 55 0.50
10 30 0.27
11 8 0.07
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:50573719 original size:19 final size:18
Alignment explanation
Indices: 50573681--50573827 Score: 65
Period size: 19 Copynumber: 8.3 Consensus size: 18
50573671 AGATGTGACA
*
50573681 AAAAATTATAAAAA--AT
1 AAAAATAATAAAAATTAT
50573697 AAAAATCAATAAAAATTAT
1 AAAAAT-AATAAAAATTAT
* * *
50573716 AAAAATTATTAAACTT-T
1 AAAAATAATAAAAATTAT
* *
50573733 AATAA-AA-AAATATT-T
1 AAAAATAATAAAAATTAT
* * *
50573748 AAAATTTACTAAAAATTAG
1 AAAA-ATAATAAAAATTAT
* *
50573767 AAAAAAATATAAAAATTGT
1 AAAAATA-ATAAAAATTAT
*
50573786 AAAAA-ATATAAAAATTGT
1 AAAAATA-ATAAAAATTAT
* * *
50573804 AAAATTTTATAAAAATCAT
1 AAAA-ATAATAAAAATTAT
50573823 AAAAA
1 AAAAA
50573828 AATTATAAAA
Statistics
Matches: 97, Mismatches: 24, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
15 8 0.08
16 7 0.07
17 13 0.13
18 31 0.32
19 38 0.39
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAAATAATAAAAATTAT
Found at i:50573746 original size:21 final size:22
Alignment explanation
Indices: 50573716--50573762 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
50573706 TAAAAATTAT
* *
50573716 AAAAATTA-TTAAACTTTAATA
1 AAAAAATATTTAAAATTTAATA
*
50573737 AAAAAATATTTAAAATTTACTA
1 AAAAAATATTTAAAATTTAATA
50573759 AAAA
1 AAAA
50573763 TTAGAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAAAATATTTAAAATTTAATA
Found at i:50573827 original size:20 final size:20
Alignment explanation
Indices: 50573810--50573848 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
50573800 TTGTAAAATT
50573810 TTATAAAAAT-CATAAAAAAA
1 TTAT-AAAATCCATAAAAAAA
50573830 TTATAAAATCCATAAAAAA
1 TTATAAAATCCATAAAAAA
50573849 TGCCCTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (20 bp):
TTATAAAATCCATAAAAAAA
Found at i:50573846 original size:57 final size:57
Alignment explanation
Indices: 50573733--50573849 Score: 132
Period size: 56 Copynumber: 2.1 Consensus size: 57
50573723 ATTAAACTTT
* * **
50573733 AATAAAAAAATATTTAAAATTTACTAAAAATTAGAAAAAAATATAAAAATTGTAAAA
1 AATAAAAAAATATGTAAAATTTACTAAAAATCAGAAAAAAATATAAAAATCATAAAA
* *
50573790 AATATAAAAAT-TGTAAAATTTTA-TAAAAATCATAAAAAAAT-TATAAAATCCATAAAA
1 AATAAAAAAATATGTAAAA-TTTACTAAAAATCAGAAAAAAATATA-AAAAT-CATAAAA
50573847 AAT
1 AAT
50573850 GCCCTTTAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
55 2 0.04
56 27 0.53
57 22 0.43
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (57 bp):
AATAAAAAAATATGTAAAATTTACTAAAAATCAGAAAAAAATATAAAAATCATAAAA
Found at i:50573977 original size:21 final size:23
Alignment explanation
Indices: 50573951--50573993 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
50573941 GATAGTGGCA
50573951 AAAAATAATA-AAAAAA-ACAAT
1 AAAAATAATAGAAAAAATACAAT
*
50573972 AAAAATTATAGAAAAAATACAA
1 AAAAATAATAGAAAAAATACAA
50573994 AATGTTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 6 0.32
23 4 0.21
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAAATAATAGAAAAAATACAAT
Found at i:50574128 original size:19 final size:19
Alignment explanation
Indices: 50574091--50574196 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 19
50574081 TAAAATTGTA
* *
50574091 TATATATTTTTCTATTTTTT
1 TATATA-TTTTATAATTTTT
50574111 TATATATTTTATAATTTTT
1 TATATATTTTATAATTTTT
**
50574130 TATCAT-TTTTATAA-AATT
1 TAT-ATATTTTATAATTTTT
*
50574148 TACA-ATTTTTATAATTTTT
1 TATATA-TTTTATAATTTTT
50574167 TATGAT-TTTTATAATCTTTT
1 TAT-ATATTTTATAAT-TTTT
*
50574187 TCTA-ATTTTA
1 TATATATTTTA
50574197 ATAAAATTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
17 1 0.01
18 12 0.17
19 41 0.59
20 15 0.22
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (19 bp):
TATATATTTTATAATTTTT
Found at i:50574175 original size:9 final size:9
Alignment explanation
Indices: 50574107--50574200 Score: 73
Period size: 9 Copynumber: 10.0 Consensus size: 9
50574097 TTTTTCTATT
50574107 TTTTTAT-A
1 TTTTTATAA
50574115 TATTTTATAA
1 T-TTTTATAA
*
50574125 TTTTTTATCA
1 -TTTTTATAA
50574135 TTTTTATAA
1 TTTTTATAA
** *
50574144 AATTTACAA
1 TTTTTATAA
50574153 TTTTTATAA
1 TTTTTATAA
*
50574162 TTTTTTATGA
1 -TTTTTATAA
50574172 TTTTTATAA
1 TTTTTATAA
*
50574181 TCTTTTTCTAA
1 --TTTTTATAA
*
50574192 TTTTAATAA
1 TTTTTATAA
50574201 AATTAAATAT
Statistics
Matches: 67, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
8 1 0.01
9 41 0.61
10 16 0.24
11 9 0.13
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:50574200 original size:20 final size:19
Alignment explanation
Indices: 50574012--50574200 Score: 107
Period size: 20 Copynumber: 9.7 Consensus size: 19
50574002 TTTTGGTATG
50574012 ATAATTTTTATAATTCTTTT
1 ATAATTTTTATAATT-TTTT
*
50574032 ACGAA-TTTTAT-ATTTCTTT
1 A-TAATTTTTATAATTT-TTT
* * *
50574051 ACATTTTTTTATCATTTTCTT
1 ATA-ATTTTTATAATTTT-TT
* * * * *
50574072 ACAACTTTATAAAATTGTAT
1 ATAA-TTTTTATAATTTTTT
* *
50574092 ATATATTTTTCTATTTTTTT
1 ATA-ATTTTTATAATTTTTT
50574112 AT-ATATTTTATAATTTTTT
1 ATAAT-TTTTATAATTTTTT
* **
50574131 ATCATTTTTATAA-AATTT
1 ATAATTTTTATAATTTTTT
*
50574149 ACAATTTTTATAATTTTTT
1 ATAATTTTTATAATTTTTT
*
50574168 ATGATTTTTATAATCTTTTT
1 ATAATTTTTATAAT-TTTTT
* *
50574188 CTAATTTTAATAA
1 ATAATTTTTATAA
50574201 AATTAAATAT
Statistics
Matches: 128, Mismatches: 29, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
18 18 0.14
19 44 0.34
20 45 0.35
21 21 0.16
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (19 bp):
ATAATTTTTATAATTTTTT
Found at i:50577964 original size:35 final size:35
Alignment explanation
Indices: 50577918--50577985 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
50577908 TTTTAGGTTT
* *
50577918 TTCCGAATCAAACTAAAAGTTTCGAGAATAATTCC
1 TTCCGAATCAAACTAAAAGATTCAAGAATAATTCC
50577953 TTCCGAATCAAACTAAAAGATTCAAGAATAATT
1 TTCCGAATCAAACTAAAAGATTCAAGAATAATT
50577986 ACTTTGAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (35 bp):
TTCCGAATCAAACTAAAAGATTCAAGAATAATTCC
Found at i:50578837 original size:31 final size:31
Alignment explanation
Indices: 50578802--50578862 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
50578792 TATTTAAATG
* *
50578802 TATACAATTGAATCCA-GATTAAAATTTTATA
1 TATACAATTGAA-CCACAATCAAAATTTTATA
*
50578833 TATACATTTGAACCACAATCAAAATTTTAT
1 TATACAATTGAACCACAATCAAAATTTTAT
50578863 TTGTATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (31 bp):
TATACAATTGAACCACAATCAAAATTTTATA
Found at i:50579024 original size:2 final size:2
Alignment explanation
Indices: 50579017--50579044 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50579007 ATTTACATAC
50579017 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50579045 TAAAAGGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50581549 original size:10 final size:9
Alignment explanation
Indices: 50581534--50581578 Score: 72
Period size: 9 Copynumber: 4.9 Consensus size: 9
50581524 TTTTTTTAAA
50581534 TTAAAAAAT
1 TTAAAAAAT
50581543 TTAAAAAAT
1 TTAAAAAAT
50581552 TTAAAAAATT
1 TTAAAAAA-T
*
50581562 TTAAAAATT
1 TTAAAAAAT
50581571 TTAAAAAA
1 TTAAAAAA
50581579 ATTATTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:50581555 original size:18 final size:19
Alignment explanation
Indices: 50581534--50581589 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
50581524 TTTTTTTAAA
50581534 TTAAAAAA-TTTAAAAAAT
1 TTAAAAAATTTTAAAAAAT
*
50581552 TTAAAAAATTTTAAAAATT
1 TTAAAAAATTTTAAAAAAT
50581571 TTAAAAAAATTATTAAAAA
1 TT-AAAAAATT-TTAAAAA
50581590 TATAAGAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 8 0.24
19 11 0.32
20 8 0.24
21 7 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAAAAAATTTTAAAAAAT
Found at i:50581586 original size:12 final size:11
Alignment explanation
Indices: 50581536--50581589 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 11
50581526 TTTTTAAATT
50581536 AAAAAA-TTT-
1 AAAAAATTTTA
50581545 AAAAAA-TTT-
1 AAAAAATTTTA
50581554 AAAAAATTTT-
1 AAAAAATTTTA
50581564 -AAAAATTTTA
1 AAAAAATTTTA
50581574 AAAAAATTATTA
1 AAAAAATT-TTA
50581586 AAAA
1 AAAA
50581590 TATAAGAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
9 24 0.59
10 3 0.07
11 7 0.17
12 7 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAAAATTTTA
Found at i:50585874 original size:20 final size:21
Alignment explanation
Indices: 50585836--50585876 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
50585826 TGTCCCAACA
50585836 AAACAGTTAGAACTATAAATC
1 AAACAGTTAGAACTATAAATC
*
50585857 AAACAGTTAGTA-TATAAATC
1 AAACAGTTAGAACTATAAATC
50585877 TCTGAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (21 bp):
AAACAGTTAGAACTATAAATC
Found at i:50587068 original size:121 final size:124
Alignment explanation
Indices: 50586910--50587177 Score: 299
Period size: 124 Copynumber: 2.2 Consensus size: 124
50586900 GAGAAAATTG
* * * * * * * *
50586910 ATAAATAGGATAATTGTCTTGTGCTTTTTATTATCTTCATAAAGATATTT-AAAGGAATGTTCA-
1 ATAATTAGAATAATTGTTTTGTTCTCTTTATCATCTTCATAAAGACATTTAAAAGGAAAGTTCAT
* * * * *
50586973 TAGGT-TATATGTCTTTCAGTGAAAGAGATGAACTTGACCGAGAGAAGAGAAGAAGTCA
66 TAGCTATATATATCTTCCAGTGAAAGAGATGAACTTGACCGAGAGAAGAAAAGAAATCA
* * * *
50587031 ATAGTTAGAATAATTGTTTTGTTCTCTTTATCGTCTTCATAATGACATTTAAAATGAAAGTTCAT
1 ATAATTAGAATAATTGTTTTGTTCTCTTTATCATCTTCATAAAGACATTTAAAAGGAAAGTTCAT
* * * * **
50587096 TAGCTATATATATCTTCCCGTGGAAGAGATGAAGTTGGCCGAGAGAAGAAAAGAAATTG
66 TAGCTATATATATCTTCCAGTGAAAGAGATGAACTTGACCGAGAGAAGAAAAGAAATCA
*
50587155 ATAATTAGGATAATTGTTTTGTT
1 ATAATTAGAATAATTGTTTTGTT
50587178 GTCTATGTTC
Statistics
Matches: 119, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
121 40 0.34
122 11 0.09
123 4 0.03
124 64 0.54
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (124 bp):
ATAATTAGAATAATTGTTTTGTTCTCTTTATCATCTTCATAAAGACATTTAAAAGGAAAGTTCAT
TAGCTATATATATCTTCCAGTGAAAGAGATGAACTTGACCGAGAGAAGAAAAGAAATCA
Found at i:50589877 original size:20 final size:21
Alignment explanation
Indices: 50589848--50589888 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
50589838 ATTAAACAAG
*
50589848 AAGAAAATAG-TAAGAAAATA
1 AAGAAAATAGATAAAAAAATA
*
50589868 AAGAAGATAGATAAAAAAATA
1 AAGAAAATAGATAAAAAAATA
50589889 TATGAATGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (21 bp):
AAGAAAATAGATAAAAAAATA
Found at i:50590183 original size:18 final size:19
Alignment explanation
Indices: 50590160--50590197 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
50590150 AACAAAAATG
50590160 AATGAAT-TG-ATTCTATAT
1 AATGAATATGCATT-TATAT
50590178 AATGAATATGCATTTATAT
1 AATGAATATGCATTTATAT
50590197 A
1 A
50590198 GGCAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 8 0.44
20 3 0.17
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (19 bp):
AATGAATATGCATTTATAT
Found at i:50592693 original size:17 final size:18
Alignment explanation
Indices: 50592663--50592708 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
50592653 ATTTAAATTG
50592663 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
50592681 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
50592697 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
50592709 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:50594710 original size:20 final size:20
Alignment explanation
Indices: 50594685--50594725 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
50594675 AATTCTTTGG
50594685 TATTTATAATGCATGGTCTT
1 TATTTATAATGCATGGTCTT
*
50594705 TATTTATAATGTATGGTCTT
1 TATTTATAATGCATGGTCTT
50594725 T
1 T
50594726 TATATGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.15, T:0.54
Consensus pattern (20 bp):
TATTTATAATGCATGGTCTT
Found at i:50598521 original size:3 final size:3
Alignment explanation
Indices: 50598504--50598553 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
50598494 AAATGACATT
* * * *
50598504 TTA TTA TT- TTG TTA TTA TTG TTA TTA TTA ATA TTA TTG TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50598550 TTA T
1 TTA T
50598554 GAAATAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:50598526 original size:9 final size:9
Alignment explanation
Indices: 50598507--50598548 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
50598497 TGACATTTTA
50598507 TTATT-TTG
1 TTATTATTG
50598515 TTATTATTG
1 TTATTATTG
*
50598524 TTATTATTA
1 TTATTATTG
*
50598533 ATATTATTG
1 TTATTATTG
50598542 TTATTAT
1 TTATTAT
50598549 ATTATGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 5 0.17
9 24 0.83
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (9 bp):
TTATTATTG
Found at i:50604374 original size:32 final size:32
Alignment explanation
Indices: 50604338--50604405 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
50604328 AAGCTTGTCC
50604338 AAAAGTATCTAGTTGATACCGGAACTTGTCAA
1 AAAAGTATCTAGTTGATACCGGAACTTGTCAA
* * *
50604370 AAAAGTATCTAGTTGGTTCCTGAACTTGTCAA
1 AAAAGTATCTAGTTGATACCGGAACTTGTCAA
50604402 AAAA
1 AAAA
50604406 ATATTATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (32 bp):
AAAAGTATCTAGTTGATACCGGAACTTGTCAA
Found at i:50605735 original size:28 final size:28
Alignment explanation
Indices: 50605704--50605772 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
50605694 TAGAGTTTAG
* *
50605704 GGTTAAGGTTTTTTAAAAAATAAATTAA
1 GGTTTAGGGTTTTTAAAAAATAAATTAA
* * *
50605732 GGTTTAGGGTTTTTAATAAATATATTAG
1 GGTTTAGGGTTTTTAAAAAATAAATTAA
50605760 GGTTTAGGGTTTT
1 GGTTTAGGGTTTT
50605773 AAGATTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (28 bp):
GGTTTAGGGTTTTTAAAAAATAAATTAA
Found at i:50605861 original size:28 final size:28
Alignment explanation
Indices: 50605795--50605863 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
50605785 TGGTAAGTTT
* *
50605795 TGTTCTGGAAAAAATAAATTTAGGGTTTAG
1 TGTTCT-G-AAAAATAAATTTAGGCTTGAG
* *
50605825 GGTTATGAAAAATAAATTT-GGCTTGATG
1 TGTTCTGAAAAATAAATTTAGGCTTGA-G
50605853 TGTTCTGAAAA
1 TGTTCTGAAAA
50605864 GATTATTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
27 5 0.16
28 22 0.69
29 1 0.03
30 4 0.12
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.36
Consensus pattern (28 bp):
TGTTCTGAAAAATAAATTTAGGCTTGAG
Found at i:50606092 original size:156 final size:156
Alignment explanation
Indices: 50605929--50606229 Score: 478
Period size: 156 Copynumber: 1.9 Consensus size: 156
50605919 CTTCTAGCTG
* *
50605929 GACGCTTTTTTTGTGCAATTGATTCTGAAAAAATAATTT-TAAGAAGATGGTTCTGAAAAAATAT
1 GACGCTTTTTTTGTACAATTGATTCTGAAAAAATAATTTCGAA-AAGATGGTTCTGAAAAAATAT
*
50605993 CTCGAAATTCACGGGAAATCTGATAGTTAGGGATGAAAAACGCTTCAAGCAGGATACACTGTCAG
65 CTCGAAATTCACGGGAAATCTGATAGTTAGGGATGAAAAACACTTCAAGCAGGATACACTGTCAG
50606058 CAAAAGTACTGAAAAAGCTCCCAGTTT
130 CAAAAGTACTGAAAAAGCTCCCAGTTT
*
50606085 GACGCTTTTTTTGTACAGTTGATTCTGAAAAAATAATTTCGAAAAGATGGTTCTGAAAAAATATC
1 GACGCTTTTTTTGTACAATTGATTCTGAAAAAATAATTTCGAAAAGATGGTTCTGAAAAAATATC
** * * * * *
50606150 TCGGGATTCATGGGAAATCTGATAGTTGGGGTTGAAAAACACTTCAAGTAGGATGCACTGTCAGC
66 TCGAAATTCACGGGAAATCTGATAGTTAGGGATGAAAAACACTTCAAGCAGGATACACTGTCAGC
*
50606215 AAATGTACTGAAAAA
131 AAAAGTACTGAAAAA
50606230 AAGCTCCTAA
Statistics
Matches: 132, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
156 130 0.98
157 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (156 bp):
GACGCTTTTTTTGTACAATTGATTCTGAAAAAATAATTTCGAAAAGATGGTTCTGAAAAAATATC
TCGAAATTCACGGGAAATCTGATAGTTAGGGATGAAAAACACTTCAAGCAGGATACACTGTCAGC
AAAAGTACTGAAAAAGCTCCCAGTTT
Done.