Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 56 of 147
Found at i:10814375 original size:3 final size:3
Alignment explanation
Indices: 10814367--10814395 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10814357 TCTAATTTAA
10814367 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10814396 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10815771 original size:40 final size:40
Alignment explanation
Indices: 10815683--10815758 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
10815673 AAAGAAATAC
* *
10815683 TATTATTTTATATTATTTAAAATATATATTTGATACATTA
1 TATTATTTTATATTATTTAAAATATATATTTAAGACATTA
10815723 TATTATTTTATATTATTTAAAA-AT-T-TTTAAGACATT
1 TATTATTTTATATTATTTAAAATATATATTTAAGACATT
10815759 TTAATTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 9 0.26
38 1 0.03
39 2 0.06
40 22 0.65
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (40 bp):
TATTATTTTATATTATTTAAAATATATATTTAAGACATTA
Found at i:10817314 original size:6 final size:6
Alignment explanation
Indices: 10817303--10817358 Score: 89
Period size: 6 Copynumber: 9.7 Consensus size: 6
10817293 AGCCACGGCA
*
10817303 ACCGCC ACCGCC ACCGCC ACCGCC ACCG-C ACCCCC ACCGCC ACC-CC
1 ACCGCC ACCGCC ACCGCC ACCGCC ACCGCC ACCGCC ACCGCC ACCGCC
10817349 ACCGCC ACCG
1 ACCGCC ACCG
10817359 GATAACATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 9 0.20
6 37 0.80
ACGTcount: A:0.18, C:0.68, G:0.14, T:0.00
Consensus pattern (6 bp):
ACCGCC
Found at i:10817318 original size:12 final size:12
Alignment explanation
Indices: 10817303--10817358 Score: 89
Period size: 11 Copynumber: 4.8 Consensus size: 12
10817293 AGCCACGGCA
10817303 ACCGCCACCGCC
1 ACCGCCACCGCC
10817315 ACCGCCACCGCC
1 ACCGCCACCGCC
*
10817327 ACCG-CACCCCC
1 ACCGCCACCGCC
10817338 ACCGCCACC-CC
1 ACCGCCACCGCC
10817349 ACCGCCACCG
1 ACCGCCACCG
10817359 GATAACATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
11 21 0.51
12 20 0.49
ACGTcount: A:0.18, C:0.68, G:0.14, T:0.00
Consensus pattern (12 bp):
ACCGCCACCGCC
Found at i:10817339 original size:17 final size:17
Alignment explanation
Indices: 10817303--10817358 Score: 85
Period size: 17 Copynumber: 3.2 Consensus size: 17
10817293 AGCCACGGCA
10817303 ACCGCCACCGCCACCGCC
1 ACCGCCACCG-CACCGCC
*
10817321 ACCGCCACCGCACCCCC
1 ACCGCCACCGCACCGCC
*
10817338 ACCGCCACCCCACCGCC
1 ACCGCCACCGCACCGCC
10817355 ACCG
1 ACCG
10817359 GATAACATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
17 25 0.71
18 10 0.29
ACGTcount: A:0.18, C:0.68, G:0.14, T:0.00
Consensus pattern (17 bp):
ACCGCCACCGCACCGCC
Found at i:10818752 original size:79 final size:79
Alignment explanation
Indices: 10818604--10818757 Score: 245
Period size: 79 Copynumber: 1.9 Consensus size: 79
10818594 TCAAATTACA
* * *
10818604 AAAATACTCTTAAAGGGTATTTTAATAATTTCACTCATTTTTAGGTGTCATCAAGATTAAGTTCA
1 AAAAGACTCTTAAAAGGTATTTTAATAATTTCACTCATTTTGAGGTGTCATCAAGATTAAGTTCA
*
10818669 AATATTAAATTATG
66 AATATGAAATTATG
* **
10818683 AAAAGACTCTTAAAAGGTATTTTAATAATTTCAGTCATTTTGAGGTGTCATCAAGATTAAGTTTG
1 AAAAGACTCTTAAAAGGTATTTTAATAATTTCACTCATTTTGAGGTGTCATCAAGATTAAGTTCA
10818748 AATATGAAAT
66 AATATGAAAT
10818758 GTATATATTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (79 bp):
AAAAGACTCTTAAAAGGTATTTTAATAATTTCACTCATTTTGAGGTGTCATCAAGATTAAGTTCA
AATATGAAATTATG
Found at i:10818867 original size:16 final size:18
Alignment explanation
Indices: 10818827--10818867 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
10818817 CCGAATCGAA
*
10818827 TTATATATATTTTAAGTT
1 TTATATATATTTTAAATT
10818845 TTATATAT-TTTTAAATT
1 TTATATATATTTTAAATT
10818862 TT-TATA
1 TTATATA
10818868 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 10 0.45
18 8 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTATATATATTTTAAATT
Found at i:10818908 original size:10 final size:10
Alignment explanation
Indices: 10818893--10818926 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
10818883 TTTTATATCC
10818893 AAATTTATTT
1 AAATTTATTT
10818903 AAATTTATTT
1 AAATTTATTT
10818913 AAATTTATATT
1 AAATTTAT-TT
10818924 AAA
1 AAA
10818927 ATAATACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 18 0.78
11 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
AAATTTATTT
Found at i:10819545 original size:21 final size:21
Alignment explanation
Indices: 10819488--10819545 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
10819478 AACTTGATAA
10819488 TATTCGAGC-CAAATTTAAGTTT
1 TATTCG-GCTCAAA-TTAAGTTT
** * *
10819510 TATTCGAATCGAATTGAGTTT
1 TATTCGGCTCAAATTAAGTTT
10819531 TATTCGGCTCAAATT
1 TATTCGGCTCAAATT
10819546 CGAATAATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (21 bp):
TATTCGGCTCAAATTAAGTTT
Found at i:10823064 original size:27 final size:26
Alignment explanation
Indices: 10823006--10823069 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
10822996 AAAAAATAAC
* *
10823006 TAATAAAAAAATGTACATATGTAAAA
1 TAATAAAAAAATCTACATATATAAAA
10823032 TTAATAAAAAAATCTACATTCATATAAAA
1 -TAATAAAAAAATCTACA-T-ATATAAAA
*
10823061 -AATATAAAA
1 TAATAAAAAA
10823070 GTGATTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 24 0.75
28 1 0.03
29 7 0.22
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.28
Consensus pattern (26 bp):
TAATAAAAAAATCTACATATATAAAA
Found at i:10824810 original size:19 final size:20
Alignment explanation
Indices: 10824782--10824819 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10824772 CACTAGGAAA
10824782 AAAGAAAAGGGAA-GAAAAG
1 AAAGAAAAGGGAATGAAAAG
*
10824801 AAAGAGAAGGGAATGAAAA
1 AAAGAAAAGGGAATGAAAA
10824820 AAAAATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.03
Consensus pattern (20 bp):
AAAGAAAAGGGAATGAAAAG
Found at i:10825283 original size:19 final size:20
Alignment explanation
Indices: 10825255--10825292 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10825245 CACTAGGAAA
10825255 AAAGAAAAGGGAA-GAAAAG
1 AAAGAAAAGGGAATGAAAAG
*
10825274 AAAGAGAAGGGAATGAAAA
1 AAAGAAAAGGGAATGAAAA
10825293 AAAAATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.03
Consensus pattern (20 bp):
AAAGAAAAGGGAATGAAAAG
Found at i:10825458 original size:473 final size:472
Alignment explanation
Indices: 10824571--10825519 Score: 1871
Period size: 473 Copynumber: 2.0 Consensus size: 472
10824561 AAAAAAAAAA
10824571 AACCATAGTCCTCTTCAAGGGGAAGAACCTCAATGCCAAACTACCTTATTTAACAAAAAAAAAGA
1 AACCATAGTCCTCTTCAAGGGGAAGAACCTCAATGCCAAACTACCTTATTTAACAAAAAAAAAGA
10824636 AAGTTCTTAAAAAAAAATTCAAGGGAAAAAAAAGCAGTGTTGGCTTCTAAAAGGGGAAGAACTAT
66 AAGTTCTTAAAAAAAAATTCAAGGGAAAAAAAAGCAGTGTTGGCTTCTAAAAGGGGAAGAACTAT
10824701 AGTGCACTGGTGGCAGCATTGATGACTAGCAGCTACAAAGAGGCTCAAGTTTCATTCAAAAGGAG
131 AGTGCACTGGTGGCAGCATTGATGACTAGCAGCTACAAAGAGGCTCAAGTTTCATTCAAAAGGAG
10824766 GGGTGCCACTAGGAAAAAAGAAAAGGGAAGAAAAGAAAGAGAAGGGAATGAAAAAAAAATAGATC
196 GGGTGCCACTAGGAAAAAAGAAAAGGGAAGAAAAGAAAGAGAAGGGAATGAAAAAAAAATAGATC
*
10824831 TATTCCCTAGTGATGGGCAGCAACGGCAAGATAGCCGATTGTCGGAATATGGGCTTGAAGGTGGC
261 TATACCCTAGTGATGGGCAGCAACGGCAAGATAGCCGATTGTCGGAATATGGGCTTGAAGGTGGC
10824896 CACGCATTTGGGTGTTTTTTCAAAGAATTTGGAGGTTTTTTTTTTTTTTGAAAAGAATGGTTGAA
326 CACGCATTTGGGTGTTTTTTCAAAGAATTTGGAGGTTTTTTTTTTTTTTGAAAAGAATGGTTGAA
*
10824961 TTGAAATAAAAAAAAAAGGGGTTTTATAGTTATAAAAAAAACAGAGAGAGAAAATTAGTAACCTG
391 TTGAAATAAAAAAAAAAAGGGTTTTATAGTTATAAAAAAAACAGAGAGAGAAAATTAGTAACCTG
10825026 CGCGTTGGTTTGGACCC
456 CGCGTTGGTTTGGACCC
10825043 AACCATAGTCCTCTTCAAGGGGAAGAACCTCAATGCCAAACTACCTTATTTAACAAAAAAAAAAG
1 AACCATAGTCCTCTTCAAGGGGAAGAACCTCAATGCCAAACTACCTTATTTAAC-AAAAAAAAAG
10825108 AAAGTTCTTAAAAAAAAATTCAAGGGAAAAAAAAGCAGTGTTGGCTTCTAAAAGGGGAAGAACTA
65 AAAGTTCTTAAAAAAAAATTCAAGGGAAAAAAAAGCAGTGTTGGCTTCTAAAAGGGGAAGAACTA
10825173 TAGTGCACTGGTGGCAGCATTGATGACTAGCAGCTACAAAGAGGCTCAAGTTTCATTCAAAAGGA
130 TAGTGCACTGGTGGCAGCATTGATGACTAGCAGCTACAAAGAGGCTCAAGTTTCATTCAAAAGGA
10825238 GGGGTGCCACTAGGAAAAAAGAAAAGGGAAGAAAAGAAAGAGAAGGGAATGAAAAAAAAATAGAT
195 GGGGTGCCACTAGGAAAAAAGAAAAGGGAAGAAAAGAAAGAGAAGGGAATGAAAAAAAAATAGAT
10825303 CTATACCCTAGTGATGGGCAGCAACGGCAAGATAGCCGATTGTCGGAATATGGGCTTGAAGGTGG
260 CTATACCCTAGTGATGGGCAGCAACGGCAAGATAGCCGATTGTCGGAATATGGGCTTGAAGGTGG
10825368 CCACGCATTTGGGTGTTTTTTCAAAGAATTTGGAGGTTTTTTTTTTTTTTGAAAAGAATGGTTGA
325 CCACGCATTTGGGTGTTTTTTCAAAGAATTTGGAGGTTTTTTTTTTTTTTGAAAAGAATGGTTGA
10825433 ATTGAAATAAAAAAAAAAAGGGTTTTATAGTTATAAAAAAAACAGAGAGAGAAAATTAGTAACCT
390 ATTGAAATAAAAAAAAAAAGGGTTTTATAGTTATAAAAAAAACAGAGAGAGAAAATTAGTAACCT
10825498 GCGCGTTGGTTTGGACCC
455 GCGCGTTGGTTTGGACCC
10825516 AACC
1 AACC
10825520 CTAGGTCCAC
Statistics
Matches: 474, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
472 54 0.11
473 420 0.89
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (472 bp):
AACCATAGTCCTCTTCAAGGGGAAGAACCTCAATGCCAAACTACCTTATTTAACAAAAAAAAAGA
AAGTTCTTAAAAAAAAATTCAAGGGAAAAAAAAGCAGTGTTGGCTTCTAAAAGGGGAAGAACTAT
AGTGCACTGGTGGCAGCATTGATGACTAGCAGCTACAAAGAGGCTCAAGTTTCATTCAAAAGGAG
GGGTGCCACTAGGAAAAAAGAAAAGGGAAGAAAAGAAAGAGAAGGGAATGAAAAAAAAATAGATC
TATACCCTAGTGATGGGCAGCAACGGCAAGATAGCCGATTGTCGGAATATGGGCTTGAAGGTGGC
CACGCATTTGGGTGTTTTTTCAAAGAATTTGGAGGTTTTTTTTTTTTTTGAAAAGAATGGTTGAA
TTGAAATAAAAAAAAAAAGGGTTTTATAGTTATAAAAAAAACAGAGAGAGAAAATTAGTAACCTG
CGCGTTGGTTTGGACCC
Found at i:10825875 original size:7 final size:7
Alignment explanation
Indices: 10825865--10825892 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
10825855 ATTTGAAGAA
10825865 AAATAAT
1 AAATAAT
10825872 AAATAAT
1 AAATAAT
10825879 AAATAAT
1 AAATAAT
10825886 AAATAAT
1 AAATAAT
10825893 GATAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAATAAT
Found at i:10827213 original size:20 final size:20
Alignment explanation
Indices: 10827188--10827231 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10827178 AATTATTTAT
10827188 TATATTACTAAA-ATATAAAA
1 TATATTACTAAATAT-TAAAA
* *
10827208 TATATTTCTAACTATTAAAA
1 TATATTACTAAATATTAAAA
10827228 TATA
1 TATA
10827232 AAATATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
TATATTACTAAATATTAAAA
Found at i:10832301 original size:23 final size:21
Alignment explanation
Indices: 10832254--10832312 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
10832244 TTGTAGGGAT
*
10832254 TTTTATTTATTTTTATTTTAGA
1 TTTT-TTTATTTTTATTTTACA
*
10832276 TTTTTTTATTTTTGTATTTATCA
1 TTTTTTTATTTTTAT-TTTA-CA
*
10832299 TTTTTAT-TTTTTAT
1 TTTTTTTATTTTTAT
10832313 GGTCTATCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 10 0.32
22 14 0.45
23 7 0.23
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (21 bp):
TTTTTTTATTTTTATTTTACA
Found at i:10835527 original size:56 final size:57
Alignment explanation
Indices: 10835441--10835604 Score: 251
Period size: 56 Copynumber: 2.9 Consensus size: 57
10835431 TTGAAGATAA
*
10835441 AAGTTTTCAAAAATAGATTTTTGAGAAAAAGTTGATAGTATCAA-TTTTCTTTAAAAAT
1 AAGTTTTCAAAAATA-ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC-TTAAAAAT
10835499 AAGTTTTCAAAAAT-ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
1 AAGTTTTCAAAAATAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
* * *
10835555 AAGCTTTCAAAAGTGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
1 AAGTTTTCAAAAAT-AATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC
10835605 CTGTACAAAA
Statistics
Matches: 99, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
56 47 0.47
57 5 0.05
58 47 0.47
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.38
Consensus pattern (57 bp):
AAGTTTTCAAAAATAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
Found at i:10838241 original size:134 final size:134
Alignment explanation
Indices: 10838000--10838268 Score: 511
Period size: 134 Copynumber: 2.0 Consensus size: 134
10837990 ATCAACCCTA
10838000 TCCACCCTAAGGTTACTCTTCATACTATCCTGCTGTGAACAATGCTTCATCTTATCCATACCAAC
1 TCCACCCTAAGGTTACTCTTCATACTATCCTGCTGTGAACAATGCTTCATCTTATCCATACCAAC
*
10838065 TAGCCCTACAACCACCTAATTCATCCACATACCAGCCCATTTTTATCCCCCAAGCTCTCACATAC
66 TAGCCCCACAACCACCTAATTCATCCACATACCAGCCCATTTTTATCCCCCAAGCTCTCACATAC
10838130 AGCC
131 AGCC
10838134 TCCACCCTAAGGTTACTCTTCATACTATCCTGCTGTGAACAATGCTTCATCTTATCCATACCAAC
1 TCCACCCTAAGGTTACTCTTCATACTATCCTGCTGTGAACAATGCTTCATCTTATCCATACCAAC
* *
10838199 TAGCCCCACAACCACCTAATTCATCCACATACCAGCCTATTTTTATCCCCTAAGCTCTCACATAC
66 TAGCCCCACAACCACCTAATTCATCCACATACCAGCCCATTTTTATCCCCCAAGCTCTCACATAC
10838264 AGCC
131 AGCC
10838268 T
1 T
10838269 TAACATTCAA
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 132 1.00
ACGTcount: A:0.28, C:0.37, G:0.07, T:0.28
Consensus pattern (134 bp):
TCCACCCTAAGGTTACTCTTCATACTATCCTGCTGTGAACAATGCTTCATCTTATCCATACCAAC
TAGCCCCACAACCACCTAATTCATCCACATACCAGCCCATTTTTATCCCCCAAGCTCTCACATAC
AGCC
Found at i:10839744 original size:32 final size:32
Alignment explanation
Indices: 10839693--10839789 Score: 108
Period size: 31 Copynumber: 3.0 Consensus size: 32
10839683 AGATATCAAC
* *
10839693 AATGGATGAAAGATGAAAAAAAAAGAA-AAGAA
1 AATGG-TGAAAGATGAAAAAAAAAAAAGAAAAA
*
10839725 AATGGTGAAAGGTGAAAAAAAGAAAAAGAAAAA
1 AATGGTGAAAGATGAAAAAAA-AAAAAGAAAAA
* * *
10839758 AAGGGGGAAA-ATGAAAAAAAAAAAAGATAAA
1 AATGGTGAAAGATGAAAAAAAAAAAAGAAAAA
10839789 A
1 A
10839790 GATAAAAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
31 26 0.46
32 18 0.32
33 12 0.21
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (32 bp):
AATGGTGAAAGATGAAAAAAAAAAAAGAAAAA
Found at i:10839745 original size:30 final size:32
Alignment explanation
Indices: 10839693--10839756 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
10839683 AGATATCAAC
10839693 AATGGATGAAAGATGAAAAAAAA-AGAAAAGAA
1 AATGGATGAAAGATGAAAAAAAAGA-AAAAGAA
*
10839725 AATGG-TGAAAGGTG-AAAAAAAGAAAAAGAA
1 AATGGATGAAAGATGAAAAAAAAGAAAAAGAA
10839755 AA
1 AA
10839757 AAAGGGGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 16 0.53
31 9 0.30
32 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.23, T:0.09
Consensus pattern (32 bp):
AATGGATGAAAGATGAAAAAAAAGAAAAAGAA
Found at i:10841639 original size:41 final size:41
Alignment explanation
Indices: 10841582--10841703 Score: 172
Period size: 41 Copynumber: 3.0 Consensus size: 41
10841572 TAAAGAGCAA
* *
10841582 TTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCCG
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCCG
* * *
10841623 TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAAAGGAGCCT
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCCG
* *
10841664 TTTATTTTCCAAAAGTCATTGAGCCTCTGTTTAGAGGAGC
1 TTTATTTTTC-AAAGTCGTTGAGCCTCTGTTTAGAGGAGC
10841704 TTTGTTTATT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 45 0.63
42 26 0.37
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (41 bp):
TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCCG
Found at i:10841990 original size:28 final size:29
Alignment explanation
Indices: 10841945--10842009 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
10841935 ATTGTAGGGA
* * *
10841945 TTTTTATTCATTTTTATTT-TAGATTTTTTT
1 TTTTTATT-ATTTGTATTTAT-CATTTTTAT
10841975 TTTTTATT-TTTGTATTTATCATTTTTAT
1 TTTTTATTATTTGTATTTATCATTTTTAT
10842003 TTTTTAT
1 TTTTTAT
10842010 GGTTTATCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 22 0.71
29 1 0.03
30 8 0.26
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (29 bp):
TTTTTATTATTTGTATTTATCATTTTTAT
Found at i:10841991 original size:21 final size:20
Alignment explanation
Indices: 10841947--10842006 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
10841937 TGTAGGGATT
*
10841947 TTTATTCATTTTTATTTTAGA
1 TTTA-TCATTTTTATTTTTGA
* **
10841968 TTTTTTTTTTTTATTTTTGTA
1 TTTATCATTTTTATTTTTG-A
10841989 TTTATCATTTTTATTTTT
1 TTTATCATTTTTATTTTT
10842007 TATGGTTTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 12 0.39
21 19 0.61
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTATCATTTTTATTTTTGA
Found at i:10842006 original size:7 final size:7
Alignment explanation
Indices: 10841955--10842009 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
10841945 TTTTTATTCA
10841955 TTTTTAT
1 TTTTTAT
**
10841962 TTTAGAT
1 TTTTTAT
10841969 TTTTT-T
1 TTTTTAT
10841975 TTTTTAT
1 TTTTTAT
10841982 TTTTGTAT
1 TTTT-TAT
* *
10841990 TTATCA-
1 TTTTTAT
10841996 TTTTTAT
1 TTTTTAT
10842003 TTTTTAT
1 TTTTTAT
10842010 GGTTTATCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
6 10 0.27
7 21 0.57
8 6 0.16
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (7 bp):
TTTTTAT
Found at i:10848145 original size:2 final size:2
Alignment explanation
Indices: 10848138--10848175 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10848128 GTACCAAATC
10848138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10848176 TACAATCTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10848566 original size:2 final size:2
Alignment explanation
Indices: 10848561--10848587 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10848551 TGTGTGTGTG
10848561 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10848588 TATTGAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10850401 original size:14 final size:15
Alignment explanation
Indices: 10850375--10850404 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
10850365 CATTTTTGCC
10850375 TTTATTATTCTTTTT
1 TTTATTATTCTTTTT
10850390 TTTATT-TTCTTTTT
1 TTTATTATTCTTTTT
10850404 T
1 T
10850405 ATTTGCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTATTATTCTTTTT
Found at i:10855642 original size:14 final size:14
Alignment explanation
Indices: 10855623--10855663 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
10855613 TACGTTATTT
*
10855623 TTAATTTTTTAATA
1 TTAATTTTTTAACA
10855637 TTAATTTTTTAACA
1 TTAATTTTTTAACA
*
10855651 TTAACTTTTTAAC
1 TTAATTTTTTAAC
10855664 CTTTAAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAATTTTTTAACA
Found at i:10859704 original size:23 final size:23
Alignment explanation
Indices: 10859677--10859744 Score: 84
Period size: 23 Copynumber: 2.9 Consensus size: 23
10859667 GTCTCATTTT
10859677 TTTTTTATATCTTAAAATTATGTA
1 TTTTTTATAT-TTAAAATTATGTA
* *
10859701 TTTTTTAATATTTAATATT-TTTA
1 TTTTTT-ATATTTAAAATTATGTA
10859724 TTTTTTATATTTTAAAATTAT
1 TTTTTTATA-TTTAAAATTAT
10859745 TTTTTATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
22 3 0.08
23 17 0.45
24 14 0.37
25 4 0.11
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (23 bp):
TTTTTTATATTTAAAATTATGTA
Found at i:10859738 original size:30 final size:31
Alignment explanation
Indices: 10859703--10859772 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 31
10859693 ATTATGTATT
10859703 TTTTAATATTTAATATTTT-T-ATTTTTTATA
1 TTTTAATATTT-ATATTTTATGATTTTTTATA
* * *
10859733 TTTTAA-AATTATTTTTTATGATTTTTTATT
1 TTTTAATATTTATATTTTATGATTTTTTATA
*
10859763 TTTTGATATT
1 TTTTAATATT
10859773 AAAAATTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 6 0.19
29 4 0.12
30 20 0.62
31 2 0.06
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (31 bp):
TTTTAATATTTATATTTTATGATTTTTTATA
Found at i:10863472 original size:15 final size:15
Alignment explanation
Indices: 10863452--10863484 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10863442 CTAACTAAAC
*
10863452 CTTGGTCAAAGATGT
1 CTTGGTCAAAGATCT
10863467 CTTGGTCAAAGATCT
1 CTTGGTCAAAGATCT
10863482 CTT
1 CTT
10863485 TGAGGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (15 bp):
CTTGGTCAAAGATCT
Found at i:10863518 original size:2 final size:2
Alignment explanation
Indices: 10863506--10863541 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
10863496 ACAAATATCA
* *
10863506 AT AT AT GT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10863542 GAGGAGTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10866980 original size:33 final size:32
Alignment explanation
Indices: 10866903--10866980 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 32
10866893 ATTAACTATT
* *
10866903 GCAACAAAACAAATAGTGTTGCAAAAATTTTAA
1 GCAACAAAA-TAATAGTGTTACAAAAATTTTAA
*
10866936 GCAACTAAAATAATATTGTTACATAAAAGTTTT-A
1 GCAAC-AAAATAATAGTGTTACA-AAAA-TTTTAA
10866970 GCAACAAAATA
1 GCAACAAAATA
10866981 TGTGGATGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
33 21 0.54
34 14 0.36
35 4 0.10
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (32 bp):
GCAACAAAATAATAGTGTTACAAAAATTTTAA
Found at i:10869413 original size:25 final size:25
Alignment explanation
Indices: 10869380--10869434 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
10869370 ATCACGCAAT
*
10869380 ATTTTTTGGATTCTCTTTTA-TTTA
1 ATTTTTTGGATTCTCTTTTACTGTA
10869404 ATTTCTTTGGATTCTCTTTTACTGTA
1 ATTT-TTTGGATTCTCTTTTACTGTA
10869430 ATTTT
1 ATTTT
10869435 ACTTAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 4 0.14
25 17 0.61
26 7 0.25
ACGTcount: A:0.16, C:0.11, G:0.09, T:0.64
Consensus pattern (25 bp):
ATTTTTTGGATTCTCTTTTACTGTA
Found at i:10869480 original size:22 final size:21
Alignment explanation
Indices: 10869428--10869480 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
10869418 TCTTTTACTG
*
10869428 TAATTTTACTTAAAATTTTCA
1 TAATTTTACTTAAAATTTACA
10869449 TAATTCTTTA-TTAAAATGTTACAA
1 TAA-T-TTTACTTAAAAT-TTAC-A
10869473 TAATTTTA
1 TAATTTTA
10869481 ACTCATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 3 0.11
22 12 0.44
23 8 0.30
24 4 0.15
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.51
Consensus pattern (21 bp):
TAATTTTACTTAAAATTTACA
Found at i:10871794 original size:3 final size:3
Alignment explanation
Indices: 10871786--10871847 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
10871776 TTTAGAGTCT
10871786 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10871834 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
10871848 CAAACCTTTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10873419 original size:26 final size:27
Alignment explanation
Indices: 10873362--10873419 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
10873352 TTAATTAAAA
*
10873362 TAAATACATTTTTATTAAAATATATAT
1 TAAATACATATTTATTAAAATATATAT
*
10873389 T-AATAGATATTTATTAAAA-AT-TATT
1 TAAATACATATTTATTAAAATATATA-T
10873414 TAAATA
1 TAAATA
10873420 TACAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.07
25 4 0.15
26 20 0.74
27 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
TAAATACATATTTATTAAAATATATAT
Found at i:10873543 original size:22 final size:23
Alignment explanation
Indices: 10873505--10873567 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 23
10873495 TATTTTAAAA
* *
10873505 AATA-AAATAAATTTAAAATATT
1 AATATAAATATATATAAAATATT
*
10873527 CAT-TAAATATATAT-AAATATT
1 AATATAAATATATATAAAATATT
*
10873548 AATATTAATATAATATAAAA
1 AATATAAATAT-ATATAAAA
10873568 AGTTTTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 9 0.28
22 16 0.50
23 4 0.12
24 3 0.09
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AATATAAATATATATAAAATATT
Found at i:10874231 original size:139 final size:138
Alignment explanation
Indices: 10873929--10874233 Score: 328
Period size: 140 Copynumber: 2.2 Consensus size: 138
10873919 TTGTTATTTT
* * ** * *
10873929 TTGTATGGATGATTTATGATTTGATTTTGGTTCCACTCACTTGAATGTCAAATATGTTTAAACAA
1 TTGTATAGATGATTTATGATTTAATTTTACTTCCACTCACTTGAATGTCAAACATGTTCAAACAA
* * * * *
10873994 TTAGTTGATTTTTTTCTCTCATCCGTGGATGTATGCTATTTTGGATTAGACTGAATTACGTTAAA
66 TTAATAGATTTTTATCTCTCATCCGTAGATGTATGCTATTTTGGATTAGACTGAATCACGTTAAA
10874059 TTATTGTC
131 TTATTGTC
* * *
10874067 TTTTATATGGATAATTTATGATTTAATTTTACTTCCGCTCACTTGAATGTCAAACATGTTCAAAC
1 TTGTATA--GATGATTTATGATTTAATTTTACTTCCACTCACTTGAATGTCAAACATGTTCAAAC
** * * * ** *
10874132 AATTAATAGATCTTTTATCT-T-ATTTGTATATGTGA-GTTGTTTTTTATTAGATTGAATCACGT
64 AATTAATAGAT-TTTTATCTCTCATCCGTAGATGT-ATGCTATTTTGGATTAGACTGAATCACGT
*
10874194 TTAATTATTATGTC
127 TAAATTA-T-TGTC
10874208 TTGTATAGATGATTTATGATTTAATT
1 TTGTATAGATGATTTATGATTTAATT
10874234 ATACATCGGT
Statistics
Matches: 136, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
138 5 0.04
139 53 0.39
140 61 0.45
141 17 0.12
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.48
Consensus pattern (138 bp):
TTGTATAGATGATTTATGATTTAATTTTACTTCCACTCACTTGAATGTCAAACATGTTCAAACAA
TTAATAGATTTTTATCTCTCATCCGTAGATGTATGCTATTTTGGATTAGACTGAATCACGTTAAA
TTATTGTC
Found at i:10878916 original size:18 final size:18
Alignment explanation
Indices: 10878893--10878934 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10878883 CCGAATCGAA
*
10878893 TTATATATATATTAAGTT
1 TTATATATATATTAAATT
*
10878911 TTATATATATTTTAAATT
1 TTATATATATATTAAATT
10878929 TT-TATA
1 TTATATA
10878935 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTATATATATATTAAATT
Found at i:10879607 original size:21 final size:21
Alignment explanation
Indices: 10879581--10879624 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
10879571 CAAGCCAAAT
*
10879581 TTAAGTTTTATTCGAATCGAA
1 TTAAGTTTTACTCGAATCGAA
*
10879602 TTAAGTTTTACTCGAGTCGAA
1 TTAAGTTTTACTCGAATCGAA
10879623 TT
1 TT
10879625 TGAATAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (21 bp):
TTAAGTTTTACTCGAATCGAA
Found at i:10882087 original size:25 final size:26
Alignment explanation
Indices: 10882045--10882100 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
10882035 TGAGCCTTTT
* *
10882045 TTTTTTCTTCTTTCTTTTCTCAA-TTA
1 TTTTTTCTTCATTATTTTCT-AATTTA
10882071 TTTTTT-TTCATTATTTTCTAATTTA
1 TTTTTTCTTCATTATTTTCTAATTTA
10882096 TTTTT
1 TTTTT
10882101 CGGTGACCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 19 0.70
26 6 0.22
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTTTCTTCATTATTTTCTAATTTA
Found at i:10883615 original size:24 final size:24
Alignment explanation
Indices: 10883583--10883632 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
10883573 GATAATCTAA
*
10883583 AATATGATACAATAATATGATATG
1 AATATGATACAAAAATATGATATG
*
10883607 AATATGATATAAAAATATGATATG
1 AATATGATACAAAAATATGATATG
10883631 AA
1 AA
10883633 GATCACACGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.32
Consensus pattern (24 bp):
AATATGATACAAAAATATGATATG
Found at i:10883623 original size:13 final size:13
Alignment explanation
Indices: 10883581--10883629 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
10883571 ATGATAATCT
*
10883581 AAAATATGATACA
1 AAAATATGATATA
*
10883594 ATAATATGATAT-
1 AAAATATGATATA
*
10883606 -GAATATGATATA
1 AAAATATGATATA
10883618 AAAATATGATAT
1 AAAATATGATAT
10883630 GAAGATCACA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 10 0.33
13 20 0.67
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (13 bp):
AAAATATGATATA
Found at i:10890730 original size:256 final size:253
Alignment explanation
Indices: 10890331--10890834 Score: 642
Period size: 256 Copynumber: 2.0 Consensus size: 253
10890321 TTTTTTTAAT
* *
10890331 AAAAATTTTAATTTAACTAAAACTTATTAAAAAGATTTTTTTGTATCCGAAAATGTATCTAGGTT
1 AAAAATTCTAATTTAACTAAAACTTATTAAAAAGATTTTTTTGTATCCGAAAAAGTATCTAGGTT
** ** * * * *
10890396 CGGAGTACGGTTACATGTGGAGAAAGATTAACACCGCATTATACCCGTTAAAAACCGGTATCAAT
66 AAGAGTACAATTACATGTGGAAAAAGATTAACACCGCATTATACCCATTAAAAAACGATATCAAT
* * *
10890461 TAATAATATGTTATCCTTTATTATTTATAAAAAA-GTACCTTTATTTTAAATTTT-AAATAATTT
131 TAATAACATGTTATCCTTTATTATTGATAAAAAATG-ACCTTAATTTTAAATTTTAAAATAATTT
* * * *
10890524 CTTAAATCCCGTTTATTATCATAAAACTCCTTTTTTTTTCTATCCTTTTTAGAATAACTTA
195 CTTAAATCCCATTTATTATCATAAAAC-CC-CTTTTTTCCCATCCTTTTTAGAATAACTTA
* * *
10890585 AAAAATTCTAATTTAATTAAAACTTATTAAAAATATTTTTTTGGTATGC-AAAAAGATATCTAGA
1 AAAAATTCTAATTTAACTAAAACTTATTAAAAAGATTTTTTT-GTATCCGAAAAAG-TATCTAG-
* * * *
10890649 TTTAAGAGTACAATTGCATGT-GAAAAAGTATTAACACCTCA-TAGTACCCATTAAAAAATGATA
63 GTTAAGAGTACAATTACATGTGGAAAAAG-ATTAACACCGCATTA-TACCCATTAAAAAACGATA
10890712 -CTAATTAATAACATGTTATCCTTTATTATTGATAAAAAATGACCTTAATTTTAAATTTTAAAAA
126 TC-AATTAATAACATGTTATCCTTTATTATTGATAAAAAATGACCTTAATTTTAAATTTT-AAAA
* *
10890776 TAATTTTTTGAATCCCATTTATTATCATAAAACCCCTTTTTTCCCATCCTTTTTAGAAT
189 TAATTTCTTAAATCCCATTTATTATCATAAAACCCCTTTTTTCCCATCCTTTTTAGAAT
10890835 CGCTTTATTT
Statistics
Matches: 215, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
254 44 0.20
255 21 0.10
256 114 0.53
257 3 0.01
258 33 0.15
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (253 bp):
AAAAATTCTAATTTAACTAAAACTTATTAAAAAGATTTTTTTGTATCCGAAAAAGTATCTAGGTT
AAGAGTACAATTACATGTGGAAAAAGATTAACACCGCATTATACCCATTAAAAAACGATATCAAT
TAATAACATGTTATCCTTTATTATTGATAAAAAATGACCTTAATTTTAAATTTTAAAATAATTTC
TTAAATCCCATTTATTATCATAAAACCCCTTTTTTCCCATCCTTTTTAGAATAACTTA
Found at i:10892855 original size:2 final size:2
Alignment explanation
Indices: 10892843--10892874 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
10892833 GTACCAAATC
*
10892843 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10892875 TACAATCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:10894295 original size:27 final size:27
Alignment explanation
Indices: 10894244--10894296 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
10894234 TAGATATTGA
*
10894244 TTTCAATTTAAATAATTATGCAAAATG
1 TTTCAATTTAAATAATTATGAAAAATG
*
10894271 TTTCAATTTAAATAATTATTAAAAAT
1 TTTCAATTTAAATAATTATGAAAAAT
10894297 TTTATTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (27 bp):
TTTCAATTTAAATAATTATGAAAAATG
Found at i:10895166 original size:14 final size:15
Alignment explanation
Indices: 10895140--10895169 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
10895130 CATTTTTGCC
10895140 TTTATTATTCTTTTT
1 TTTATTATTCTTTTT
10895155 TTTATT-TTCTTTTT
1 TTTATTATTCTTTTT
10895169 T
1 T
10895170 ATTTGCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTATTATTCTTTTT
Found at i:10898403 original size:38 final size:38
Alignment explanation
Indices: 10898352--10898425 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
10898342 ATCTTTGAAC
*
10898352 AAAGCCCATGCTTCACCTTCGGATAAGATGTCAAGTAA
1 AAAGCCCACGCTTCACCTTCGGATAAGATGTCAAGTAA
10898390 AAAGCCCACGCTTCACCTTCGGATAAGATGTCAAGT
1 AAAGCCCACGCTTCACCTTCGGATAAGATGTCAAGT
10898426 TTAAATTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (38 bp):
AAAGCCCACGCTTCACCTTCGGATAAGATGTCAAGTAA
Found at i:10899695 original size:10 final size:10
Alignment explanation
Indices: 10899682--10899708 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
10899672 TACTAATTTA
10899682 ATTAAAACTT
1 ATTAAAACTT
10899692 ATTAAAACTT
1 ATTAAAACTT
10899702 ATTAAAA
1 ATTAAAA
10899709 ATATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAACTT
Found at i:10903372 original size:39 final size:37
Alignment explanation
Indices: 10903313--10903431 Score: 94
Period size: 39 Copynumber: 2.9 Consensus size: 37
10903303 TTTTCTTTTG
* *
10903313 TATTTTATGTATTCTATTATTATTATTATTATTATGTA
1 TATTTTATTTATT-TATTATTATTATTATTATTATATA
* *
10903351 TATCTTTATTTATTTATTTATTTTTATTCAGATTAGATTTATATG
1 TAT-TTTATTTATTTA-TTATTATTATT---ATT--A-TTATATA
*
10903396 TATTTTATTTATATAGTTATATATTATTATTATTAT
1 TATTTTATTTATTTA-TTAT-TATTATTATTATTAT
10903432 TTTTTTTGTG
Statistics
Matches: 65, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
38 5 0.08
39 23 0.35
40 1 0.02
42 6 0.09
44 16 0.25
45 14 0.22
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (37 bp):
TATTTTATTTATTTATTATTATTATTATTATTATATA
Found at i:10903947 original size:31 final size:31
Alignment explanation
Indices: 10903912--10903981 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
10903902 AATTTCCAGA
* ** *
10903912 TTCCGGCAAAAATTCCGGCGAAGTTTGAATT
1 TTCCGGCAAAAATTCCGGCCAACCTTGAAGT
* *
10903943 TTCCGGCGATAATTCCGGCCAACCTTGAAGT
1 TTCCGGCAAAAATTCCGGCCAACCTTGAAGT
10903974 TTCCGGCA
1 TTCCGGCA
10903982 CCAGCCCAGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (31 bp):
TTCCGGCAAAAATTCCGGCCAACCTTGAAGT
Found at i:10904399 original size:1 final size:1
Alignment explanation
Indices: 10904393--10904460 Score: 91
Period size: 1 Copynumber: 68.0 Consensus size: 1
10904383 CCGCTCCAGG
* * * * *
10904393 TTTTTTTTTTTTTTTTTTTTTTTTTTTATTTCTTTTTTATTTTTTTTTTTTTATTTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10904458 TTT
1 TTT
10904461 ATTTATTAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.06, C:0.01, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:10904503 original size:9 final size:9
Alignment explanation
Indices: 10904485--10904521 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
10904475 GTTTATGTAA
*
10904485 TATTCTTTT
1 TATTATTTT
10904494 TATTTATTTT
1 TA-TTATTTT
10904504 TATTATTTT
1 TATTATTTT
10904513 TATTATTTT
1 TATTATTTT
10904522 ATTTTCTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (9 bp):
TATTATTTT
Found at i:10904754 original size:113 final size:113
Alignment explanation
Indices: 10904539--10905008 Score: 680
Period size: 113 Copynumber: 4.1 Consensus size: 113
10904529 TTAAATAAAT
*
10904539 AAAAAATTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAT
1 AAAAAATTTC-AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG-AAAT
*
10904604 AAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA
61 AAATTTCAAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-A
*
10904658 AATAAATTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATT
1 AAAAAATTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATT
10904722 TCAAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
66 TCAAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
10904770 AAAAAATTTC-AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATT
1 AAAAAATTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATT
10904834 TCAAAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
66 TCAAAAAAAA-ATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTT-AA
*
10904884 AACAAAATTTCAAAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-T-CGAAAT
1 AA-AAAATTTC-AAAAAAAT--ATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAA-
* * * *
10904947 TAAAATTTCAAGAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCTAA
60 T-AAATTTCAAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
10905002 ACAAAAA
1 A-AAAAA
10905009 AAAATCCTTC
Statistics
Matches: 329, Mismatches: 8, Indels: 29
0.90 0.02 0.08
Matches are distributed among these distances:
111 42 0.13
112 32 0.10
113 89 0.27
114 6 0.02
115 8 0.02
117 36 0.11
118 25 0.08
119 51 0.16
120 40 0.12
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.33
Consensus pattern (113 bp):
AAAAAATTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATT
TCAAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:10905046 original size:13 final size:13
Alignment explanation
Indices: 10905028--10905052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10905018 CTTTTCTTCT
10905028 ATTTTGATTTTTG
1 ATTTTGATTTTTG
10905041 ATTTTGATTTTT
1 ATTTTGATTTTT
10905053 TTTTCAAACA
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:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (13 bp):
ATTTTGATTTTTG
Found at i:10908886 original size:14 final size:12
Alignment explanation
Indices: 10908863--10908902 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 12
10908853 TGAAAAATGC
10908863 AAAAA-AAAAAA
1 AAAAAGAAAAAA
10908874 AAAAAGATGAAAAA
1 AAAAAGA--AAAAA
10908888 AAAAAGAAAAAA
1 AAAAAGAAAAAA
10908900 AAA
1 AAA
10908903 GGAAAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 5 0.19
12 9 0.35
14 12 0.46
ACGTcount: A:0.90, C:0.00, G:0.07, T:0.03
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:10908891 original size:22 final size:22
Alignment explanation
Indices: 10908863--10908910 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
10908853 TGAAAAATGC
* *
10908863 AAAAAAAAA-AAAAAAAGATGA
1 AAAAAAAAAGAAAAAAAAAGGA
10908884 AAAAAAAAAGAAAAAAAAAGGA
1 AAAAAAAAAGAAAAAAAAAGGA
10908906 AAAAA
1 AAAAA
10908911 TGAGAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAGAAAAAAAAAGGA
Found at i:10908902 original size:11 final size:11
Alignment explanation
Indices: 10908863--10908910 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
10908853 TGAAAAATGC
10908863 AAAAAAAAA-A
1 AAAAAAAAAGA
* *
10908873 AAAAAAGATGA
1 AAAAAAAAAGA
10908884 AAAAAAAAAGA
1 AAAAAAAAAGA
*
10908895 AAAAAAAAGGA
1 AAAAAAAAAGA
10908906 AAAAA
1 AAAAA
10908911 TGAGAAAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 7 0.22
11 25 0.78
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:10910260 original size:41 final size:41
Alignment explanation
Indices: 10910090--10910598 Score: 647
Period size: 42 Copynumber: 12.1 Consensus size: 41
10910080 ATGATTGTCA
*
10910090 AGGAGCAATTTACTTTCTCAAAGTTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTT-TCAAAG-T-CGTGGTGCCTCTGTTGAG
*
10910132 AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTGAG
* *
10910174 AGGAGCAATTTACTTTCCAAAGTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGT-CGTGGTGCCTCTGTTGAG
*
10910214 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
10910255 AGGAGCAATTTATTTTCCAATTTTCCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTA-----C--TTTT-CAAAGTCGTGGTGCCTCTGTTGAG
* *
10910304 AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTATTGAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTGAG
* *
10910346 AGGAGCAATTTATTTTTCAAAGTTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTGAG
*
10910387 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTGAG
* *
10910429 AGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
* *
10910470 AGGAGCAATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTGAG
10910512 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
* *
10910553 AGGAGCAATTTACTTTCCAAAGTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGT-CGTGGTGCCTCTGTTGAG
10910593 AGGAGC
1 AGGAGC
10910599 TTCGGTAAAA
Statistics
Matches: 423, Mismatches: 23, Indels: 44
0.86 0.05 0.09
Matches are distributed among these distances:
39 3 0.01
40 58 0.14
41 148 0.35
42 171 0.40
43 3 0.01
46 1 0.00
48 4 0.01
49 35 0.08
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
Found at i:10910413 original size:83 final size:83
Alignment explanation
Indices: 10910276--10910598 Score: 453
Period size: 83 Copynumber: 3.9 Consensus size: 83
10910266 ATTTTCCAAT
* *
10910276 TTTCCAAAGT-CGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCT
1 TTTCCAAAGTCCGT-GTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCT
* *
10910340 ATTGAGAGGAGCAATTTAT
65 GTTGAGAGGAGCAATTTAC
* *
10910359 TTTTCAAAGTTCCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCT
1 TTTCCAAAG-TCCGTGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCT
10910423 GTTGAGAGGAGCAATTTAC
65 GTTGAGAGGAGCAATTTAC
* *
10910442 TTTCCAAAGT-CGTGGTACCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTACCTCT
1 TTTCCAAAGTCCGT-GTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCT
10910506 GTTGAGAGGAGCAATTTAC
65 GTTGAGAGGAGCAATTTAC
* *
10910525 TTTTCAAAGT-CGTGGTGCCTCTGTTGAGAGGAGCAATTTAC-TTTCCAAAGTCCGT--TGCCTC
1 TTTCCAAAGTCCGT-GTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGT-CGTGGTACCTC
*
10910586 TGTTTAGAGGAGC
64 TGTTGAGAGGAGC
10910599 TTCGGTAAAA
Statistics
Matches: 220, Mismatches: 15, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
81 20 0.09
82 11 0.05
83 185 0.84
84 1 0.00
85 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.35
Consensus pattern (83 bp):
TTTCCAAAGTCCGTGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTG
TTGAGAGGAGCAATTTAC
Found at i:10910611 original size:1 final size:1
Alignment explanation
Indices: 10910605--10910762 Score: 64
Period size: 1 Copynumber: 158.0 Consensus size: 1
10910595 GAGCTTCGGT
* * * * * * * * *
10910605 AAAAAAAAAAATAAATAAATAAATAAAAACAAAAACAAAACAAAAACAAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * ** * ** ** *** * *
10910670 ATTAAAAAACAAATCAAAAACAAAAAAAATCAAAAAAATCAAAAAAAGTCAAAAAAATAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** *
10910735 AAAATAAAAAAAAATCAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
10910763 TGTTGAGTTG
Statistics
Matches: 109, Mismatches: 48, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 109 1.00
ACGTcount: A:0.82, C:0.08, G:0.01, T:0.09
Consensus pattern (1 bp):
A
Found at i:10910649 original size:17 final size:16
Alignment explanation
Indices: 10910607--10910755 Score: 94
Period size: 16 Copynumber: 8.9 Consensus size: 16
10910597 GCTTCGGTAA
*
10910607 AAAAAAAAATAAATAA-
1 AAAAAAAAACAAA-AAC
10910623 ATAAATAAAAACAAAAAC
1 A-AAA-AAAAACAAAAAC
10910641 AAAACAAAAACAAAAA-
1 AAAA-AAAAACAAAAAC
**
10910657 AAAAACAAAA-AAAATT
1 AAAAA-AAAACAAAAAC
10910673 AAAAAACAAATCAAAAAC
1 AAAAAA-AAA-CAAAAAC
*
10910691 AAAAAAAATCAAAAA-
1 AAAAAAAAACAAAAAC
10910706 AATCAAAAAAAGTC-AAAA-
1 AA--AAAAAAA--CAAAAAC
* *
10910724 AAATAAAAACAAAAAT
1 AAAAAAAAACAAAAAC
10910740 AAAAAAAAATCAAAAA
1 AAAAAAAAA-CAAAAA
10910756 ATAAAAATGT
Statistics
Matches: 109, Mismatches: 9, Indels: 29
0.74 0.06 0.20
Matches are distributed among these distances:
14 1 0.01
15 12 0.11
16 37 0.34
17 33 0.30
18 25 0.23
19 1 0.01
ACGTcount: A:0.82, C:0.09, G:0.01, T:0.09
Consensus pattern (16 bp):
AAAAAAAAACAAAAAC
Found at i:10910660 original size:28 final size:28
Alignment explanation
Indices: 10910608--10910756 Score: 112
Period size: 28 Copynumber: 5.2 Consensus size: 28
10910598 CTTCGGTAAA
* *
10910608 AAAAAAAATA-AATAAA-TAAATAAAAAC
1 AAAAAAAATACAA-AAACAAAAAAAAAAC
10910635 AAAAACAAA-ACAAAAACAAAAAAAAAAC
1 AAAAA-AAATACAAAAACAAAAAAAAAAC
**
10910663 AAAAAAAATTA-AAAAACAAATCAAAAAC
1 AAAAAAAA-TACAAAAACAAAAAAAAAAC
*
10910691 AAAAAAAATCAAAAAAATCAAAAAAAGTCAAA-
1 AAAAAAAAT-ACAAAAA-CAAAAAAA---AAAC
* *
10910723 AAAATAAAA-ACAAAAATAAAAAAAAATC
1 AAAA-AAAATACAAAAACAAAAAAAAAAC
10910751 AAAAAA
1 AAAAAA
10910757 TAAAAATGTT
Statistics
Matches: 100, Mismatches: 9, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
27 17 0.17
28 47 0.47
29 6 0.06
30 13 0.13
31 6 0.06
32 4 0.04
33 7 0.07
ACGTcount: A:0.82, C:0.09, G:0.01, T:0.09
Consensus pattern (28 bp):
AAAAAAAATACAAAAACAAAAAAAAAAC
Found at i:10910678 original size:39 final size:37
Alignment explanation
Indices: 10910635--10910761 Score: 123
Period size: 39 Copynumber: 3.3 Consensus size: 37
10910625 AAATAAAAAC
*
10910635 AAAAACAAAACAAAAACAAAAAAAAAACAAAAAAAATTA
1 AAAAACAAAACAAAAAC-AAAAAAAAAC-AAAAAAATCA
* *
10910674 AAAAACAAATCAAAAACAAAAAAAATCAAAAAAATCAA
1 AAAAACAAAACAAAAACAAAAAAAAACAAAAAAATC-A
*
10910712 AAAAAGTCAAAA-AAATAA-AAACAAAAATAAAAAAAAATCA
1 AAAAA--CAAAACAAA-AACAAA-AAAAA-ACAAAAAAATCA
*
10910752 AAAAATAAAA
1 AAAAACAAAA
10910762 ATGTTGAGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
37 8 0.11
38 19 0.25
39 22 0.29
40 17 0.23
41 9 0.12
ACGTcount: A:0.82, C:0.09, G:0.01, T:0.08
Consensus pattern (37 bp):
AAAAACAAAACAAAAACAAAAAAAAACAAAAAAATCA
Found at i:10910706 original size:11 final size:11
Alignment explanation
Indices: 10910607--10910756 Score: 100
Period size: 10 Copynumber: 13.5 Consensus size: 11
10910597 GCTTCGGTAA
10910607 AAAAAAAAAT-
1 AAAAAAAAATC
10910617 AAATAAATAAAT-
1 AAA-AAA-AAATC
*
10910629 AAAAACAAAAAC
1 AAAAA-AAAATC
10910641 AAAACAAAAA-C
1 AAAA-AAAAATC
*
10910652 AAAAAAAAAAC
1 AAAAAAAAATC
*
10910663 -AAAAAAAATT
1 AAAAAAAAATC
10910673 AAAAAACAAATC
1 AAAAAA-AAATC
**
10910685 AAAAACAAAAAA
1 AAAAA-AAAATC
10910697 AATCAAAAAAATC
1 AA--AAAAAAATC
*
10910710 -AAAAAAAGTC
1 AAAAAAAAATC
10910720 AAAAAAATAA--
1 AAAAAAA-AATC
*
10910730 AAACAAAAAT-
1 AAAAAAAAATC
10910740 AAAAAAAAATC
1 AAAAAAAAATC
10910751 AAAAAA
1 AAAAAA
10910757 TAAAAATGTT
Statistics
Matches: 113, Mismatches: 12, Indels: 29
0.73 0.08 0.19
Matches are distributed among these distances:
9 2 0.02
10 39 0.35
11 31 0.27
12 32 0.28
13 6 0.05
14 3 0.03
ACGTcount: A:0.82, C:0.09, G:0.01, T:0.09
Consensus pattern (11 bp):
AAAAAAAAATC
Found at i:10910754 original size:9 final size:9
Alignment explanation
Indices: 10910675--10910756 Score: 72
Period size: 9 Copynumber: 9.7 Consensus size: 9
10910665 AAAAAATTAA
10910675 AAAACAAATC
1 AAAA-AAATC
*
10910685 AAAAACA--
1 AAAAAAATC
10910692 AAAAAAATC
1 AAAAAAATC
10910701 AAAAAAATC
1 AAAAAAATC
10910710 AAAAAAAGTC
1 AAAAAAA-TC
10910720 AAAAAAAT-
1 AAAAAAATC
10910728 --AAAAA-C
1 AAAAAAATC
10910734 AAAAATAA--
1 AAAAA-AATC
10910742 AAAAAAATC
1 AAAAAAATC
10910751 AAAAAA
1 AAAAAA
10910757 TAAAAATGTT
Statistics
Matches: 61, Mismatches: 2, Indels: 19
0.74 0.02 0.23
Matches are distributed among these distances:
6 5 0.08
7 8 0.13
8 8 0.13
9 27 0.44
10 13 0.21
ACGTcount: A:0.80, C:0.10, G:0.01, T:0.09
Consensus pattern (9 bp):
AAAAAAATC
Found at i:10910761 original size:17 final size:17
Alignment explanation
Indices: 10910608--10910762 Score: 100
Period size: 17 Copynumber: 9.3 Consensus size: 17
10910598 CTTCGGTAAA
10910608 AAAAAAAAT-AAATAAAT
1 AAAAAAAATCAAA-AAAT
10910625 AAATAAAAA-CAAAAACA-
1 AAA-AAAAATCAAAAA-AT
10910642 AAACAAAAA-CAAAAAA-
1 AAA-AAAAATCAAAAAAT
* *
10910658 AAAACAAA--AAAAATT
1 AAAAAAAATCAAAAAAT
*
10910673 AAAAAACAAATC-AAAAAC
1 -AAAAA-AAATCAAAAAAT
10910691 AAAAAAAATCAAAAAAAT
1 AAAAAAAATC-AAAAAAT
*
10910709 CAAAAAAAGTC-AAAAA-
1 -AAAAAAAATCAAAAAAT
*
10910725 AATAAAAA-C-AAAAAT
1 AAAAAAAATCAAAAAAT
10910740 AAAAAAAAATCAAAAAAT
1 -AAAAAAAATCAAAAAAT
10910758 AAAAA
1 AAAAA
10910763 TGTTGAGTTG
Statistics
Matches: 112, Mismatches: 11, Indels: 30
0.73 0.07 0.20
Matches are distributed among these distances:
14 11 0.10
15 10 0.09
16 20 0.18
17 38 0.34
18 24 0.21
19 9 0.08
ACGTcount: A:0.82, C:0.08, G:0.01, T:0.09
Consensus pattern (17 bp):
AAAAAAAATCAAAAAAT
Found at i:10911592 original size:31 final size:31
Alignment explanation
Indices: 10911543--10911601 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
10911533 TTCCGACAAA
* ** *
10911543 AATTCCGGCGAAGTTTGAATTTTCCGGCGAT
1 AATTCCGGCCAACCTTGAAGTTTCCGGCGAT
10911574 AATTCCGGCCAACCTTGAAGTTTCCGGC
1 AATTCCGGCCAACCTTGAAGTTTCCGGC
10911602 ACCAGCCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (31 bp):
AATTCCGGCCAACCTTGAAGTTTCCGGCGAT
Found at i:10912257 original size:58 final size:58
Alignment explanation
Indices: 10912172--10912576 Score: 548
Period size: 58 Copynumber: 6.8 Consensus size: 58
10912162 GAATAAAAAA
*
10912172 TTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCC-AAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
*
10912232 TTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAAT
1 TTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* *
10912290 TTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAAT
1 TTC-CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAAT
*
10912349 TTCC-AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
1 TTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAAT
* *
10912411 TTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATT
1 TTC-CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-T
* * *
10912471 TTCAAAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-TCGAAATTAAAAT
1 TTCCAAAAAAAT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAA-T-AAAT
*
10912532 TT-CAAGAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
10912577 CTAAACAAAA
Statistics
Matches: 317, Mismatches: 13, Indels: 32
0.88 0.04 0.09
Matches are distributed among these distances:
57 43 0.14
58 83 0.26
59 75 0.24
60 21 0.07
61 40 0.13
62 13 0.04
63 1 0.00
64 41 0.13
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
TTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
Found at i:10912391 original size:27 final size:27
Alignment explanation
Indices: 10912303--10912391 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
10912293 AAAAAAAAAT
10912303 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * * **
10912330 ATTTTCCTTAAGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
10912360 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
10912387 ATTTT
1 ATTTT
10912392 CCTTAAAAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:10912625 original size:13 final size:13
Alignment explanation
Indices: 10912607--10912631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10912597 CTTTTCTTCT
10912607 ATTTTGATTTTTG
1 ATTTTGATTTTTG
10912620 ATTTTGATTTTT
1 ATTTTGATTTTT
10912632 TTTTCAAACA
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:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (13 bp):
ATTTTGATTTTTG
Found at i:10917327 original size:10 final size:10
Alignment explanation
Indices: 10917314--10917340 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
10917304 TACTAATTTA
10917314 ATTAAAACTT
1 ATTAAAACTT
10917324 ATTAAAACTT
1 ATTAAAACTT
10917334 ATTAAAA
1 ATTAAAA
10917341 ATATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAACTT
Found at i:10921560 original size:14 final size:15
Alignment explanation
Indices: 10921523--10921560 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
10921513 AAGTTATAAT
10921523 TAAATAATA-ATTTA
1 TAAATAATATATTTA
*
10921537 TATATAATATA-TTA
1 TAAATAATATATTTA
10921551 TAAATAATAT
1 TAAATAATAT
10921561 TGTTCACCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAATAATATATTTA
Found at i:10921774 original size:2 final size:2
Alignment explanation
Indices: 10921767--10921791 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10921757 TTAGGTGGTG
10921767 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10921792 TTGATTGAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10922252 original size:17 final size:17
Alignment explanation
Indices: 10922227--10922261 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10922217 AACATTGAAG
*
10922227 AAATTAATAAAACAAAA
1 AAATAAATAAAACAAAA
*
10922244 AAATAAATAATACAAAA
1 AAATAAATAAAACAAAA
10922261 A
1 A
10922262 TTTAATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (17 bp):
AAATAAATAAAACAAAA
Found at i:10927252 original size:6 final size:6
Alignment explanation
Indices: 10927243--10927316 Score: 57
Period size: 6 Copynumber: 12.5 Consensus size: 6
10927233 CATTTTCCCT
* * * *
10927243 TTTTTC -TTTTC TTTTTT TTTCCTTC TTTTTC TTTCTC TTTCTGC ATTTTC
1 TTTTTC TTTTTC TTTTTC TTT--TTC TTTTTC TTTTTC TTT-TTC TTTTTC
10927293 --TTTC TTTTT- TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTT
10927317 CTCATTCCTG
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
4 4 0.07
5 10 0.19
6 32 0.59
7 3 0.06
8 5 0.09
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:10927262 original size:10 final size:10
Alignment explanation
Indices: 10927243--10927318 Score: 53
Period size: 10 Copynumber: 7.1 Consensus size: 10
10927233 CATTTTCCCT
10927243 TTTTTCTTTTC
1 TTTTT-TTTTC
10927254 TTTTTTTTTC
1 TTTTTTTTTC
* *
10927264 CTTCTTTTTC
1 TTTTTTTTTC
*
10927274 TTTCTCTTTCTGC
1 TTT-T-TTT-TTC
* *
10927287 ATTTTCTTTC
1 TTTTTTTTTC
10927297 TTTTTTTTTTC
1 -TTTTTTTTTC
*
10927308 TTTTTCTTTC
1 TTTTTTTTTC
10927318 T
1 T
10927319 CATTCCTGTT
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
10 27 0.54
11 15 0.30
12 4 0.08
13 4 0.08
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.78
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:10927262 original size:24 final size:26
Alignment explanation
Indices: 10927235--10927282 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
10927225 AATAATTTCA
10927235 TTTTCCCT-TTTTTCTTT-TCTTTTT
1 TTTTCCCTCTTTTTCTTTCTCTTTTT
*
10927259 TTTTCCTTCTTTTTCTTTCTCTTT
1 TTTTCCCTCTTTTTCTTTCTCTTT
10927283 CTGCATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 9 0.43
26 5 0.24
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTTCCCTCTTTTTCTTTCTCTTTTT
Found at i:10927331 original size:34 final size:34
Alignment explanation
Indices: 10927268--10927332 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
10927258 TTTTTCCTTC
*
10927268 TTTTTCTTTCTCTTTCTGCATTTTCTTTCTTTTT
1 TTTTTCTTTCTCTTTCTGCATTCTCTTTCTTTTT
* *
10927302 TTTTTCTTTTTCTTTCT-CATTCCTGTTTCTT
1 TTTTTCTTTCTCTTTCTGCATT-CTCTTTCTT
10927333 ATTTCTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.03, C:0.22, G:0.03, T:0.72
Consensus pattern (34 bp):
TTTTTCTTTCTCTTTCTGCATTCTCTTTCTTTTT
Found at i:10927345 original size:40 final size:40
Alignment explanation
Indices: 10927265--10927352 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
10927255 TTTTTTTTCC
* * *
10927265 TTCTTTTTCTTTCTCTTTCTGCATTTTCTTTCTTTTTTTT
1 TTCTTTTTCTTTCTCTTCCTGCATTTTATTTCTTTATTTT
*
10927305 TTCTTTTTCTTTCTCATTCCTG-TTTCTTATTTC-TTATTTT
1 TTCTTTTTCTTTCTC-TTCCTGCATT-TTATTTCTTTATTTT
*
10927345 TTATTTTT
1 TTCTTTTT
10927353 GTTTTTTGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 30 0.73
41 11 0.27
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.74
Consensus pattern (40 bp):
TTCTTTTTCTTTCTCTTCCTGCATTTTATTTCTTTATTTT
Found at i:10941914 original size:15 final size:15
Alignment explanation
Indices: 10941896--10941949 Score: 76
Period size: 14 Copynumber: 3.7 Consensus size: 15
10941886 GTTTTTAGAA
10941896 TTTTGGATTTTAAGG
1 TTTTGGATTTTAAGG
10941911 TTTTGGATTTT-AGG
1 TTTTGGATTTTAAGG
*
10941925 ATTTGGA-TTTAAGG
1 TTTTGGATTTTAAGG
*
10941939 GTTTGGATTTT
1 TTTTGGATTTT
10941950 TGGCAGTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 3 0.09
14 18 0.51
15 14 0.40
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.54
Consensus pattern (15 bp):
TTTTGGATTTTAAGG
Found at i:10941944 original size:28 final size:30
Alignment explanation
Indices: 10941888--10941974 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 30
10941878 AATTTGAGGT
*
10941888 TTTTAGAATTTTGGATTTTAAGGTTTTGGA
1 TTTTAGAATTTTGGATTTTAAGGGTTTGGA
*
10941918 TTTTAGGA-TTTGGA-TTTAAGGGTTTGGA
1 TTTTAGAATTTTGGATTTTAAGGGTTTGGA
* * *
10941946 TTTTTGGCAGTTTTGGATTTTTAGGGTTT
1 -TTTTAG-AATTTTGGATTTTAAGGGTTT
10941975 TAAAATTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 13 0.28
29 11 0.23
30 7 0.15
31 6 0.13
32 10 0.21
ACGTcount: A:0.18, C:0.01, G:0.28, T:0.53
Consensus pattern (30 bp):
TTTTAGAATTTTGGATTTTAAGGGTTTGGA
Found at i:10942204 original size:3 final size:3
Alignment explanation
Indices: 10942196--10942237 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
10942186 TTATGAAAAT
* *
10942196 TTA TTA TTA TTA TTG TTA AT- TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10942238 ATCATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.03
3 33 0.97
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10944174 original size:22 final size:22
Alignment explanation
Indices: 10944114--10944178 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
10944104 GAGATTTTAT
10944114 AAATCATGC-CTGGAGGTCTTAA
1 AAATCATGCTC-GGAGGTCTTAA
* * *
10944136 AGATTATG-TCCGAAGGTCTTAA
1 AAATCATGCT-CGGAGGTCTTAA
10944158 AAATCATGCTCGGAGGTCTTA
1 AAATCATGCTCGGAGGTCTTA
10944179 TAGAATCGAC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 32 0.94
23 2 0.06
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (22 bp):
AAATCATGCTCGGAGGTCTTAA
Found at i:10944272 original size:154 final size:154
Alignment explanation
Indices: 10943984--10944305 Score: 385
Period size: 154 Copynumber: 2.1 Consensus size: 154
10943974 GCGAATCAAA
* * * * * *
10943984 ATTACGTCCGGAGGTCTTAAAGATTATGCCCGAAGGTCTTATAGAATCGACTGAGACAATACCGT
1 ATTATGTCCGAAGGTCTTAAAAATCATGCCCGAAGGTCTTATAGAATCGACTGAGACAACACCGC
* * * * * * * * *
10944049 AAGTTAAAAAATAAGGAATCGATTGGGATAACATCGCGAATCAAAATTATGCCCAGAGATTTTAT
66 AAGTCAAAAAATAAGAAATCAATTAGGACAACACCGCGAATCAAAATTATGCCCAAAGATCTTAG
*** *
10944114 AAATCATGCCTGGAGGTCTTAAAG
131 AAATCATGCCCAAAGATCTTAAAG
* * * *
10944138 ATTATGTCCGAAGGTCTTAAAAATCATGCTCGGAGGTCTTATAGAATCGACTGGGATAACACCGC
1 ATTATGTCCGAAGGTCTTAAAAATCATGCCCGAAGGTCTTATAGAATCGACTGAGACAACACCGC
* *
10944203 ATGTCAAAAAATAAGAAATTAATTAGGACAACACCGCGAATCAAAATTATGCCCAAA-AGTCTTA
66 AAGTCAAAAAATAAGAAATCAATTAGGACAACACCGCGAATCAAAATTATGCCCAAAGA-TCTTA
*
10944267 GAAATCATGCCCAAAGATCTTAGAG
130 GAAATCATGCCCAAAGATCTTAAAG
*
10944292 ATTATGGCCGAAGG
1 ATTATGTCCGAAGG
10944306 CAAGGATTCA
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
153 1 0.01
154 139 0.99
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (154 bp):
ATTATGTCCGAAGGTCTTAAAAATCATGCCCGAAGGTCTTATAGAATCGACTGAGACAACACCGC
AAGTCAAAAAATAAGAAATCAATTAGGACAACACCGCGAATCAAAATTATGCCCAAAGATCTTAG
AAATCATGCCCAAAGATCTTAAAG
Found at i:10944276 original size:22 final size:22
Alignment explanation
Indices: 10944246--10944290 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
10944236 CCGCGAATCA
*
10944246 AAATTATGCCCAAA-AGTCTTAG
1 AAATCATGCCCAAAGA-TCTTAG
10944268 AAATCATGCCCAAAGATCTTAG
1 AAATCATGCCCAAAGATCTTAG
10944290 A
1 A
10944291 GATTATGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.24
Consensus pattern (22 bp):
AAATCATGCCCAAAGATCTTAG
Found at i:10944837 original size:42 final size:42
Alignment explanation
Indices: 10944774--10944861 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
10944764 ATAAGCAAGC
* *
10944774 AAAGAACCCAACAAGTGATTCTTCTTGACCCGACAAAAAAAA
1 AAAGAACCCAACAAGTAATTCTCCTTGACCCGACAAAAAAAA
*
10944816 AAAGAA-CCAACCAAGTAATTCTCCTTGACCCGACAAAAAAAG
1 AAAGAACCCAA-CAAGTAATTCTCCTTGACCCGACAAAAAAAA
10944858 AAAG
1 AAAG
10944862 GAACGAACGG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
41 4 0.10
42 38 0.90
ACGTcount: A:0.49, C:0.24, G:0.12, T:0.15
Consensus pattern (42 bp):
AAAGAACCCAACAAGTAATTCTCCTTGACCCGACAAAAAAAA
Found at i:10945320 original size:22 final size:22
Alignment explanation
Indices: 10945295--10945336 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10945285 GCTCTGAGGT
*
10945295 CTTAGAAATCACGCTCGGAGAA
1 CTTAAAAATCACGCTCGGAGAA
* *
10945317 CTTAAAAATCATGTTCGGAG
1 CTTAAAAATCACGCTCGGAG
10945337 GTTTTACAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (22 bp):
CTTAAAAATCACGCTCGGAGAA
Found at i:10945440 original size:22 final size:22
Alignment explanation
Indices: 10945410--10945452 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10945400 TTGCGAATCG
*
10945410 AAATTATGCCCGAAGGACTTAA
1 AAATCATGCCCGAAGGACTTAA
*
10945432 AAATCATGCCCGAAGGTCTTA
1 AAATCATGCCCGAAGGACTTA
10945453 CAGAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (22 bp):
AAATCATGCCCGAAGGACTTAA
Found at i:10945553 original size:110 final size:110
Alignment explanation
Indices: 10945316--10945529 Score: 315
Period size: 110 Copynumber: 1.9 Consensus size: 110
10945306 CGCTCGGAGA
** * * *
10945316 ACTTAAAAATCATGTTCGGAGGTTTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAAATAA
1 ACTTAAAAATCATGCCCGAAGGTCTTACAGAATTGACTAGGATAACACCGCAAGTCAAAAAATAA
* *
10945381 AGAATCAATCGGGATAATATTGCGAATCGAAATTATGCCCGAAGG
66 AGAATCAATCGGGACAATACTGCGAATCGAAATTATGCCCGAAGG
* *
10945426 ACTTAAAAATCATGCCCGAAGGTCTTACAGAATTGATTAGGATAACATCGCAAGTCAAAAAATTA
1 ACTTAAAAATCATGCCCGAAGGTCTTACAGAATTGACTAGGATAACACCGCAAGTCAAAAAA-TA
10945491 AA-AATCAATCGGGACAATACCT-CGAATCGAAATTATGCC
65 AAGAATCAATCGGGACAATA-CTGCGAATCGAAATTATGCC
10945530 TTGAGGTCTT
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
110 88 0.95
111 5 0.05
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (110 bp):
ACTTAAAAATCATGCCCGAAGGTCTTACAGAATTGACTAGGATAACACCGCAAGTCAAAAAATAA
AGAATCAATCGGGACAATACTGCGAATCGAAATTATGCCCGAAGG
Found at i:10945751 original size:242 final size:243
Alignment explanation
Indices: 10945227--10945789 Score: 588
Period size: 242 Copynumber: 2.3 Consensus size: 243
10945217 TCATTGGGAT
*
10945227 AACATCGTAAGTCAAAAAATAAGGAATCAATCGAGACAATACTACGAATCAAAATTATG-CTCTG
1 AACATCGTAAGTCAAAAAATAAGAAATCAATCGAGACAATACTACGAATCAAAATTATGCCTCTG
* * *
10945291 AGGTCTTAGAAATCACGCTCGGAGAACTTAAAAATCATGTTCGGAGGTTTTACAGAATTGACTGG
66 AGGTCTTAGAAATCACGCCCGGAGAACTTAAAAATCATGCTCGGAGGTTTTACAGAATTAACTGG
* * * * * * *
10945356 GATAACACCGCAAGTCAAAAAATAAAGAATCAATCGGGATAATATTGCGAATCGAAATTATGCCC
131 GACAACACCACAAGTCAAAAAATAAAGAATCAATCGAGACAATACTGCGAACCCAAATTATGCCC
* * * *
10945421 GAAGGACTTAAAAATCATGCCCGAAGGTCTTACAGAATTGATTAGGAT
196 GAAGGACATAAAAATCATGCCCGAAGGTCTTACAGAATCGATGAGGAA
* * *
10945469 AACATCGCAAGTCAAAAAATTAA-AAATCAATCGGGACAATACCT-CGAATCGAAATTATGCCT-
1 AACATCGTAAGTCAAAAAA-TAAGAAATCAATCGAGACAATA-CTACGAATCAAAATTATGCCTC
* * * * *
10945531 TGAGGTCTTA-AAGATTATGCCCGGGGGACTTAGAAATCATGC-CTGGAGGTTTTACAG-ATTCA
64 TGAGGTCTTAGAA-ATCACGCCCGGAGAACTTAAAAATCATGCTC-GGAGGTTTTACAGAATT-A
* ** ** *
10945593 ATTGGGACAACATTACAAGT-AAAAAATAAAGAATCGGTTGAGACAATACTGCGAACCCAAATTA
126 ACTGGGACAACACCACAAGTCAAAAAATAAAGAATCAATCGAGACAATACTGCGAACCCAAATTA
** * * ** * *
10945657 TGCTTGGAGGTCATAAAGGTTATGCCGGAAGGTCTTACAGAATCGACTGA-GACA
191 TGCCCGAAGGACATAAAAATCATGCCCGAAGGTCTTACAGAATCGA-TGAGGA-A
* ** * * *
10945711 AACACCGTAAGTTGAAAAATAAGAAATCGATCGAGACAATACTGCGAATCAAAATTATGCC-CGG
1 AACATCGTAAGTCAAAAAATAAGAAATCAATCGAGACAATACTACGAATCAAAATTATGCCTCTG
* *
10945775 AGGTTTTAAAAATCA
66 AGGTCTTAGAAATCA
10945790 TGCTTGGAGG
Statistics
Matches: 262, Mismatches: 47, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
241 85 0.32
242 168 0.64
243 9 0.03
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (243 bp):
AACATCGTAAGTCAAAAAATAAGAAATCAATCGAGACAATACTACGAATCAAAATTATGCCTCTG
AGGTCTTAGAAATCACGCCCGGAGAACTTAAAAATCATGCTCGGAGGTTTTACAGAATTAACTGG
GACAACACCACAAGTCAAAAAATAAAGAATCAATCGAGACAATACTGCGAACCCAAATTATGCCC
GAAGGACATAAAAATCATGCCCGAAGGTCTTACAGAATCGATGAGGAA
Found at i:10945798 original size:22 final size:22
Alignment explanation
Indices: 10945761--10945848 Score: 104
Period size: 22 Copynumber: 4.0 Consensus size: 22
10945751 ACTGCGAATC
* *
10945761 AAAATTATGCCCGGAGGTTTTA
1 AAAATTATGCTCGGAGGTCTTA
* *
10945783 AAAATCATGCTTGGAGGTCTTA
1 AAAATTATGCTCGGAGGTCTTA
* * *
10945805 GAGATTATGCTCGGAGGCCTTA
1 AAAATTATGCTCGGAGGTCTTA
*
10945827 AAAATTATGCTCAGAGGTCTTA
1 AAAATTATGCTCGGAGGTCTTA
10945849 CAGAATCAAC
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (22 bp):
AAAATTATGCTCGGAGGTCTTA
Found at i:10945828 original size:44 final size:44
Alignment explanation
Indices: 10945764--10945848 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
10945754 GCGAATCAAA
** **
10945764 ATTATGCCCGGAGGTTTTAAAAATCATGCTTGGAGGTCTTAGAG
1 ATTATGCCCGGAGGCCTTAAAAATCATGCTCAGAGGTCTTAGAG
* *
10945808 ATTATGCTCGGAGGCCTTAAAAATTATGCTCAGAGGTCTTA
1 ATTATGCCCGGAGGCCTTAAAAATCATGCTCAGAGGTCTTA
10945849 CAGAATCAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (44 bp):
ATTATGCCCGGAGGCCTTAAAAATCATGCTCAGAGGTCTTAGAG
Found at i:10946096 original size:154 final size:154
Alignment explanation
Indices: 10945653--10946101 Score: 506
Period size: 154 Copynumber: 2.9 Consensus size: 154
10945643 GCGAACCCAA
* * ** * *
10945653 ATTATGCTTGGAGGTCATAAAGGTTATG-CCGGAAGGTCTTACAGAATCGACTGAGACAAACACC
1 ATTATGCTCGGAGGTCTTAAAAATTATGTCC-GAAGGTCTTACAGAATCGACTGGGA-TAACACC
* * * * * * *
10945717 GTAAGTTGAAAAATAAGAAATCGATCGAGACAATACTGCGAATCAAAATTATGCCCGGAGGTTTT
64 GTAAGTTAAAAAATAAGGAATCGATCGAGACAACACCGTGAATCAAAATTATGCCCAGAGGTCTT
* *
10945782 AAAAATCATGCTTGGAGGTCTTAGAG
129 AAAAATCATGCCTGGAGATCTTAGAG
* * * * *
10945808 ATTATGCTCGGAGGCCTTAAAAATTATGCTCAG-AGGTCTTACAGAATCAACTAGGATAACATCG
1 ATTATGCTCGGAGGTCTTAAAAATTATG-TCCGAAGGTCTTACAGAATCGACTGGGATAACACCG
* * * * * * * * * *
10945872 CAAGTCAAAAAATAAAGAATTGATCGTGACAACACCGTAAATCAAAATTAGGCCCAAAAGTCCTA
65 TAAGTTAAAAAATAAGGAATCGATCGAGACAACACCGTGAATCAAAATTATGCCCAGAGGTCTTA
10945937 AAAATCATGCCTGGAGATCTTAGAG
130 AAAATCATGCCTGGAGATCTTAGAG
* * *
10945962 ATTATGCTCGGAGGTCTTAAAAATTATGTCCGAAGGTCTTATAAAATTGACTGGGATAACACCGT
1 ATTATGCTCGGAGGTCTTAAAAATTATGTCCGAAGGTCTTACAGAATCGACTGGGATAACACCGT
* * *** *
10946027 AAGTTAAAAAATAAGGAATCAATCGAGACAACACCATGAATCAAAATTATGCTTTGAGGTCTTAG
66 AAGTTAAAAAATAAGGAATCGATCGAGACAACACCGTGAATCAAAATTATGCCCAGAGGTCTTAA
10946092 AAATCATGCC
131 AAATCATGCC
10946102 CGAAGGACTT
Statistics
Matches: 237, Mismatches: 54, Indels: 7
0.80 0.18 0.02
Matches are distributed among these distances:
153 3 0.01
154 189 0.80
155 43 0.18
156 1 0.00
157 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (154 bp):
ATTATGCTCGGAGGTCTTAAAAATTATGTCCGAAGGTCTTACAGAATCGACTGGGATAACACCGT
AAGTTAAAAAATAAGGAATCGATCGAGACAACACCGTGAATCAAAATTATGCCCAGAGGTCTTAA
AAATCATGCCTGGAGATCTTAGAG
Found at i:10946112 original size:22 final size:22
Alignment explanation
Indices: 10946087--10946165 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 22
10946077 GCTTTGAGGT
*
10946087 CTTAGAAATCATGCCCGAAGGA
1 CTTAAAAATCATGCCCGAAGGA
** *
10946109 CTTAAAAATCATGTTCGAAGGT
1 CTTAAAAATCATGCCCGAAGGA
* * *
10946131 CTTAAAAGTTATGCCCGGAGGA
1 CTTAAAAATCATGCCCGAAGGA
10946153 CTTAAAAATCATG
1 CTTAAAAATCATG
10946166 TCTAGAGGTC
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (22 bp):
CTTAAAAATCATGCCCGAAGGA
Found at i:10946131 original size:154 final size:154
Alignment explanation
Indices: 10945653--10946162 Score: 497
Period size: 154 Copynumber: 3.3 Consensus size: 154
10945643 GCGAACCCAA
* * ** * * *
10945653 ATTATGCTTGGAGGTCATAAAGGTTATG-CCGGAAGGTCTTACAGAATCGACTGAGACAAACACC
1 ATTATGCTCGGAGGTCTTAAAAATTATGTCC-GAAGGTCTTACAAAATCGACTGGGA-TAACACC
* * * * * * *
10945717 GTAAGTTGAAAAATAAGAAATCGATCGAGACAATACTGCGAATCAAAATTATGCCCGGAGGTTTT
64 GTAAGTTAAAAAATAAGGAATCGATCGAGACAACACCGTGAATCAAAATTATGCCCAGAGGTCTT
* *
10945782 AAAAATCATGCTTGGAGGTCTTAGAG
129 AAAAATCATGCCTGGAGGACTTAGAG
* * * * * *
10945808 ATTATGCTCGGAGGCCTTAAAAATTATGCTCAG-AGGTCTTACAGAATCAACTAGGATAACATCG
1 ATTATGCTCGGAGGTCTTAAAAATTATG-TCCGAAGGTCTTACAAAATCGACTGGGATAACACCG
* * * * * * * * * *
10945872 CAAGTCAAAAAATAAAGAATTGATCGTGACAACACCGTAAATCAAAATTAGGCCCAAAAGTCCTA
65 TAAGTTAAAAAATAAGGAATCGATCGAGACAACACCGTGAATCAAAATTATGCCCAGAGGTCTTA
10945937 AAAATCATGCCTGGA-GATCTTAGAG
130 AAAATCATGCCTGGAGGA-CTTAGAG
* *
10945962 ATTATGCTCGGAGGTCTTAAAAATTATGTCCGAAGGTCTTATAAAATTGACTGGGATAACACCGT
1 ATTATGCTCGGAGGTCTTAAAAATTATGTCCGAAGGTCTTACAAAATCGACTGGGATAACACCGT
* * *** *
10946027 AAGTTAAAAAATAAGGAATCAATCGAGACAACACCATGAATCAAAATTATGCTTTGAGGTCTTAG
66 AAGTTAAAAAATAAGGAATCGATCGAGACAACACCGTGAATCAAAATTATGCCCAGAGGTCTTAA
* * * *
10946092 AAATCATGCCCGAAGGACTTAAAA
131 AAATCATGCCTGGAGGACTTAGAG
* * * * * * *
10946116 ATCATGTTCGAAGGTCTTAAAAGTTATGCCCGGAGGACTTA-AAAATC
1 ATTATGCTCGGAGGTCTTAAAAATTATGTCCGAAGGTCTTACAAAATC
10946163 ATGTCTAGAG
Statistics
Matches: 284, Mismatches: 66, Indels: 12
0.78 0.18 0.03
Matches are distributed among these distances:
153 9 0.03
154 228 0.80
155 45 0.16
156 1 0.00
157 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (154 bp):
ATTATGCTCGGAGGTCTTAAAAATTATGTCCGAAGGTCTTACAAAATCGACTGGGATAACACCGT
AAGTTAAAAAATAAGGAATCGATCGAGACAACACCGTGAATCAAAATTATGCCCAGAGGTCTTAA
AAATCATGCCTGGAGGACTTAGAG
Found at i:10946133 original size:44 final size:44
Alignment explanation
Indices: 10946083--10946166 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
10946073 TTATGCTTTG
10946083 AGGTCTTAGAAA-TCATGCCCGAAGGACTTAAAAATCATGTTCGA
1 AGGTCTTA-AAAGTCATGCCCGAAGGACTTAAAAATCATGTTCGA
* *
10946127 AGGTCTTAAAAGTTATGCCCGGAGGACTTAAAAATCATGT
1 AGGTCTTAAAAGTCATGCCCGAAGGACTTAAAAATCATGT
10946167 CTAGAGGTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 3 0.08
44 34 0.92
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (44 bp):
AGGTCTTAAAAGTCATGCCCGAAGGACTTAAAAATCATGTTCGA
Found at i:10946173 original size:22 final size:22
Alignment explanation
Indices: 10946105--10946173 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
10946095 TCATGCCCGA
*
10946105 AGGACTTAAAAATCATGT-TCG
1 AGGACTTAAAAATCATGTCTAG
* * * * **
10946126 AAGGTCTTAAAAGTTATGCCCGG
1 -AGGACTTAAAAATCATGTCTAG
10946149 AGGACTTAAAAATCATGTCTAG
1 AGGACTTAAAAATCATGTCTAG
10946171 AGG
1 AGG
10946174 TCTTCCAGAA
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (22 bp):
AGGACTTAAAAATCATGTCTAG
Found at i:10946175 original size:44 final size:43
Alignment explanation
Indices: 10946082--10946177 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 43
10946072 ATTATGCTTT
*
10946082 GAGGTCTTAGAAATCATGCCCGAAGGACTTAAAAATCATGTTC
1 GAGGTCTTAGAAATCATGCCCGAAGGACTTAAAAATCATGTTA
* *
10946125 GAAGGTCTTA-AAAGTTATGCCCGGAGGACTTAAAAATCATGTCTA
1 G-AGGTCTTAGAAA-TCATGCCCGAAGGACTTAAAAATCATGT-TA
10946170 GAGGTCTT
1 GAGGTCTT
10946178 CCAGAATCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
43 4 0.09
44 41 0.87
45 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (43 bp):
GAGGTCTTAGAAATCATGCCCGAAGGACTTAAAAATCATGTTA
Found at i:10946789 original size:127 final size:125
Alignment explanation
Indices: 10946488--10946799 Score: 342
Period size: 126 Copynumber: 2.5 Consensus size: 125
10946478 ATATCTGGAG
* * * *** *
10946488 GTCTTAAAAA-TCAACATCTTTGAATGC-TCTTCTAATTAGAGGTTTGTGAACTTTGAAAATATA
1 GTCTTAAAAATTCAAAATCTTTGAATGCTTCTCCTAATCAGAGG-CAATGAACTTTAAAAATATA
* * *
10946551 AAAATCTTTTACCCAAAATCTTGAAAGTTGTGCCCAAAAGCTTTAGAGATTACACCCGGAG
65 AAAATCTTTTACCCAAAATCTTGAAAGTTATGCCCAAAAGCTTTAGAGATTACACCCAGAA
* * * * * * *
10946612 GTCTTACAAATTCAAATTCTTTGAATACTCCTCATAATCAGAGACAATGAACTTTAAAAATTTAA
1 GTCTTAAAAATTCAAAATCTTTGAATGCTTCTCCTAATCAGAGGCAATGAACTTTAAAAATATAA
* ** * ** *
10946677 AAATTTTTTACCCAGAGGTCTTGAAAGTTATG-CCAGAAGGCTTTAGAGATTATGCCCATAA
66 AAATCTTTTACCCA-AAATCTTGAAAGTTATGCCCA-AAAGCTTTAGAGATTACACCCAGAA
10946738 GTCTTAAAAATCTCAAAATCTTTGAATGCTTCTCCTAATCAGAGGCAATGAAACTTTAAAAA
1 GTCTTAAAAAT-TCAAAATCTTTGAATGCTTCTCCTAATCAGAGGCAATG-AACTTTAAAAA
10946800 ATGACTTTTG
Statistics
Matches: 152, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
124 9 0.06
125 46 0.30
126 53 0.35
127 33 0.22
128 11 0.07
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (125 bp):
GTCTTAAAAATTCAAAATCTTTGAATGCTTCTCCTAATCAGAGGCAATGAACTTTAAAAATATAA
AAATCTTTTACCCAAAATCTTGAAAGTTATGCCCAAAAGCTTTAGAGATTACACCCAGAA
Found at i:10947046 original size:12 final size:12
Alignment explanation
Indices: 10947026--10947059 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10947016 AAATGATGCT
*
10947026 AATGGAAATGTC
1 AATGCAAATGTC
10947038 AATGCAAATGTC
1 AATGCAAATGTC
*
10947050 AATGCCAATG
1 AATGCAAATG
10947060 CAAGAATGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.24
Consensus pattern (12 bp):
AATGCAAATGTC
Found at i:10947317 original size:15 final size:15
Alignment explanation
Indices: 10947297--10947333 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
10947287 ATCCATTTTA
10947297 TGATGCACAAACAAG
1 TGATGCACAAACAAG
*
10947312 TGATGCACAAATAAG
1 TGATGCACAAACAAG
10947327 TGATGCA
1 TGATGCA
10947334 AATATGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (15 bp):
TGATGCACAAACAAG
Found at i:10948342 original size:10 final size:9
Alignment explanation
Indices: 10948322--10948353 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
10948312 AAGGTACATA
*
10948322 TTTTTTCTT
1 TTTTTTATT
10948331 TTTTTTATT
1 TTTTTTATT
10948340 TTTTTTATT
1 TTTTTTATT
10948349 TTTTT
1 TTTTT
10948354 AATTCTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.06, C:0.03, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTATT
Found at i:10948342 original size:17 final size:17
Alignment explanation
Indices: 10948320--10948354 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
10948310 TTAAGGTACA
*
10948320 TATTTTTTCT-TTTTTT
1 TATTTTTTTTATTTTTT
10948336 TATTTTTTTTATTTTTT
1 TATTTTTTTTATTTTTT
10948353 TA
1 TA
10948355 ATTCTAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (17 bp):
TATTTTTTTTATTTTTT
Found at i:10948696 original size:30 final size:30
Alignment explanation
Indices: 10948660--10948722 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
10948650 TAGAGAAAGA
10948660 TGGCCATTCATCATTTCAAACATGATCACC
1 TGGCCATTCATCATTTCAAACATGATCACC
10948690 TGGCCATTCATCATTTCAAACATGATCACC
1 TGGCCATTCATCATTTCAAACATGATCACC
10948720 TGG
1 TGG
10948723 TTAAAAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.30
Consensus pattern (30 bp):
TGGCCATTCATCATTTCAAACATGATCACC
Found at i:10948777 original size:16 final size:16
Alignment explanation
Indices: 10948752--10948789 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
10948742 AAGATATCCC
* *
10948752 TTTTTCTTTTCTT-TT
1 TTTTTATTTTTTTGTT
10948767 TTTTTATTTTTTTGTT
1 TTTTTATTTTTTTGTT
10948783 TTTTTAT
1 TTTTTAT
10948790 ACCCTATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.05, C:0.05, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTTATTTTTTTGTT
Found at i:10955450 original size:15 final size:15
Alignment explanation
Indices: 10955432--10955485 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 15
10955422 GTTTTTAGAA
10955432 TTTTGGATTTTAAGG
1 TTTTGGATTTTAAGG
*
10955447 TTTTAGATTTT-AGG
1 TTTTGGATTTTAAGG
*
10955461 ATTTGGA-TTTAAGG
1 TTTTGGATTTTAAGG
*
10955475 GTTTGGATTTT
1 TTTTGGATTTT
10955486 TAATGTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 3 0.09
14 17 0.52
15 13 0.39
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (15 bp):
TTTTGGATTTTAAGG
Found at i:10955486 original size:29 final size:31
Alignment explanation
Indices: 10955423--10955487 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 31
10955413 GAATTTGAGG
*
10955423 TTTTTAGAATTTTGGATTTTAAGGTTTTAGA
1 TTTTTAGAATTTTGGATTTTAAGGGTTTAGA
* *
10955454 -TTTTAGGA-TTTGGA-TTTAAGGGTTTGGA
1 TTTTTAGAATTTTGGATTTTAAGGGTTTAGA
10955482 TTTTTA
1 TTTTTA
10955488 ATGTTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 12 0.40
29 11 0.37
30 7 0.23
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (31 bp):
TTTTTAGAATTTTGGATTTTAAGGGTTTAGA
Found at i:10955543 original size:14 final size:14
Alignment explanation
Indices: 10955521--10955573 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
10955511 GTTTCGAAAG
*
10955521 TTTTGGGGTTTGGA
1 TTTTAGGGTTTGGA
**
10955535 TTTTAGGGTTTTAA
1 TTTTAGGGTTTGGA
* *
10955549 TTTAAAGGTTTGGA
1 TTTTAGGGTTTGGA
10955563 TTTTAGGGTTT
1 TTTTAGGGTTT
10955574 AAGGTTTAGA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (14 bp):
TTTTAGGGTTTGGA
Found at i:10955726 original size:16 final size:17
Alignment explanation
Indices: 10955705--10955745 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
10955695 GAAAATTATA
* *
10955705 ATTATTTTTAAAT-TTT
1 ATTATTATTAAATATGT
10955721 ATTATTATTAAATATGT
1 ATTATTATTAAATATGT
10955738 ATTATTAT
1 ATTATTAT
10955746 ATTATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTATTATTAAATATGT
Found at i:10955982 original size:21 final size:21
Alignment explanation
Indices: 10955950--10955989 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10955940 ATTGTATTAT
*
10955950 TAAAACAATTAAATATTATTC
1 TAAAACAATTAAAAATTATTC
10955971 TAAAA-AATTTAAAAATTAT
1 TAAAACAA-TTAAAAATTAT
10955990 CGAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAACAATTAAAAATTATTC
Found at i:10957188 original size:21 final size:23
Alignment explanation
Indices: 10957162--10957203 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
10957152 AAAAATATAG
*
10957162 TTATTATTATTA-TTA-TATTTT
1 TTATTACTATTAGTTACTATTTT
10957183 TTATTACTATTAGTTACTATT
1 TTATTACTATTAGTTACTATT
10957204 ATAATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 3 0.17
23 4 0.22
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (23 bp):
TTATTACTATTAGTTACTATTTT
Found at i:10963041 original size:120 final size:121
Alignment explanation
Indices: 10962867--10963135 Score: 274
Period size: 120 Copynumber: 2.2 Consensus size: 121
10962857 CCGATTCATA
* * * * *
10962867 CAAAGTTTATTATTACTCTCACCTATTTAAGTGTATTTTTGCATTCCATAATGTTTAAAACTTT-
1 CAAATTTTATTATTACTCTCACATATTTAAGTGTACTCTTACATTCCATAATGTTTAAAA-TTTA
* * * * *
10962931 CATAACTTTTTAATAGGGTGTTACAATACTTCTAATCTATTTTATATTAACTGA-AT
65 CATAACTTTTTAATAGGATGTTACAATACTTCTAATCCATTTTACATAAAATGATAT
* * * * *
10962987 CAAATTTTATTATTACTCTCACATTTTTATGTTTACTCTTACCTTCCATTATGTTTAAAATTTAC
1 CAAATTTTATTATTACTCTCACATATTTAAGTGTACTCTTACATTCCATAATGTTTAAAATTTAC
** ** * * * *
10963052 ATAGTTTTTTCTTATGATGTTACAATACTTTTTATCCATTTTACATAAAATTATAT
66 ATAACTTTTTAATAGGATGTTACAATACTTCTAATCCATTTTACATAAAATGATAT
* * *
10963108 -GAATTTTATTATTTCTCTCACATGTTTA
1 CAAATTTTATTATTACTCTCACATATTTA
10963136 CATTAACAAT
Statistics
Matches: 121, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
119 3 0.02
120 116 0.96
121 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.06, T:0.49
Consensus pattern (121 bp):
CAAATTTTATTATTACTCTCACATATTTAAGTGTACTCTTACATTCCATAATGTTTAAAATTTAC
ATAACTTTTTAATAGGATGTTACAATACTTCTAATCCATTTTACATAAAATGATAT
Found at i:10967053 original size:3 final size:3
Alignment explanation
Indices: 10967045--10967097 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
10967035 TTAAAGTCTT
* *
10967045 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10967093 TTA TT
1 TTA TT
10967098 NNNNNNNNNN
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:10972565 original size:26 final size:25
Alignment explanation
Indices: 10972507--10972565 Score: 59
Period size: 26 Copynumber: 2.3 Consensus size: 25
10972497 TATATCATAT
10972507 AAAAT-TTAATAATTTATATAAAAA
1 AAAATATTAATAATTTATATAAAAA
*
10972531 ATTACATATT-ATAATTTATGATAATAAA
1 A--AAATATTAATAATTTAT-ATAA-AAA
10972559 AAAATAT
1 AAAATAT
10972566 GAAATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
24 1 0.04
26 17 0.61
27 6 0.21
28 4 0.14
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
AAAATATTAATAATTTATATAAAAA
Found at i:10976454 original size:22 final size:22
Alignment explanation
Indices: 10976428--10976469 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10976418 TGTATATTTA
* *
10976428 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
10976450 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
10976470 GAATAGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:10977766 original size:93 final size:93
Alignment explanation
Indices: 10977607--10977794 Score: 349
Period size: 93 Copynumber: 2.0 Consensus size: 93
10977597 AAATTGCAAT
*
10977607 TTGGCAGATCAATCACAAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
1 TTGGCAAATCAATCACAAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
10977672 TCTCTATAAATAATATCATCCCCATCAA
66 TCTCTATAAATAATATCATCCCCATCAA
*
10977700 TTGGCAAATCAATCAGAAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
1 TTGGCAAATCAATCACAAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
*
10977765 TCTCTATAAATAATATCATCCCCGTCAA
66 TCTCTATAAATAATATCATCCCCATCAA
10977793 TT
1 TT
10977795 ACGCATTTAC
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (93 bp):
TTGGCAAATCAATCACAAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
TCTCTATAAATAATATCATCCCCATCAA
Found at i:10981514 original size:31 final size:31
Alignment explanation
Indices: 10981474--10981552 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
10981464 GACACTGTGA
*
10981474 GCTTTGTTTGGGTTCGAAAATCT-AGATTTAG
1 GCTTCGTTTGGGTTCGAAAATCTAAG-TTTAG
* *
10981505 GCTTCGTTTGGGCTCAAAAATCTAATGTTTAG
1 GCTTCGTTTGGGTTCGAAAATCTAA-GTTTAG
*
10981537 GCTTCGTTTGGCTTCG
1 GCTTCGTTTGGGTTCG
10981553 TTTGGCTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
31 20 0.50
32 19 0.47
33 1 0.03
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.41
Consensus pattern (31 bp):
GCTTCGTTTGGGTTCGAAAATCTAAGTTTAG
Found at i:10981551 original size:10 final size:10
Alignment explanation
Indices: 10981531--10981560 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
10981521 AAAATCTAAT
10981531 GTTTAGGCTTC
1 GTTT-GGCTTC
10981542 GTTTGGCTTC
1 GTTTGGCTTC
10981552 GTTTGGCTT
1 GTTTGGCTT
10981561 TTATTTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.03, C:0.17, G:0.30, T:0.50
Consensus pattern (10 bp):
GTTTGGCTTC
Done.