Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 120 of 185
Found at i:37159657 original size:20 final size:20
Alignment explanation
Indices: 37159607--37159672 Score: 71
Period size: 20 Copynumber: 3.1 Consensus size: 20
37159597 AGTTTAATTA
*
37159607 TTTACTTTTTTT-AGTTTAT
1 TTTAATTTTTTTAAGTTTAT
*
37159626 TTTAAAATATTTTTTTAAGTTTCT
1 TTT---A-ATTTTTTTAAGTTTAT
37159650 TTTAATTTTTTTAAGTTTAT
1 TTTAATTTTTTTAAGTTTAT
37159670 TTT
1 TTT
37159673 CGTTCTATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 3 0.08
20 18 0.46
21 1 0.03
22 1 0.03
23 7 0.18
24 9 0.23
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTAATTTTTTTAAGTTTAT
Found at i:37162771 original size:22 final size:21
Alignment explanation
Indices: 37162746--37162793 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
37162736 TATAAATTAA
37162746 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTAC-AAATCAT
* * *
37162768 ATCTTTTAAGATTGCATATCAT
1 ATC-TCTAAGATTACAAATCAT
37162790 ATCT
1 ATCT
37162794 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.05
22 12 0.55
23 9 0.41
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (21 bp):
ATCTCTAAGATTACAAATCAT
Found at i:37163534 original size:19 final size:19
Alignment explanation
Indices: 37163510--37163618 Score: 164
Period size: 19 Copynumber: 5.7 Consensus size: 19
37163500 AATCTTTAGG
37163510 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
37163529 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* ** *
37163548 AATATATAATCTTAGATAC
1 GATATGCAATCTTAGATAT
37163567 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
37163586 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
37163605 GATATGCAATCTTA
1 GATATGCAATCTTA
37163619 AAAGATATGA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 78 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:37163560 original size:38 final size:38
Alignment explanation
Indices: 37163517--37163618 Score: 186
Period size: 38 Copynumber: 2.7 Consensus size: 38
37163507 AGGGATATGC
37163517 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
* *
37163555 AATCTTAGATACGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
37163593 AATCTTAGATATGATATGCAATCTTA
1 AATCTTAGATATGATATGCAATCTTA
37163619 AAAGATATGA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:37163646 original size:22 final size:20
Alignment explanation
Indices: 37163510--37163646 Score: 122
Period size: 19 Copynumber: 6.9 Consensus size: 20
37163500 AATCTTTAGG
*
37163510 GATATGCAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
*
37163529 GATATGCAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
* * *
37163548 AATATATAATCTT-AGATAC
1 GATATGTAATCTTAAGATAT
*
37163567 GATATGCAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
*
37163586 GATATATAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
*
37163605 GATATGCAATCTTAAAAGATAT
1 GATATGTAATCTT--AAGATAT
*
37163627 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTA-AGAT
37163647 TTAATTTGTA
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
19 77 0.78
21 1 0.01
22 12 0.12
23 9 0.09
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (20 bp):
GATATGTAATCTTAAGATAT
Found at i:37168989 original size:12 final size:12
Alignment explanation
Indices: 37168973--37169021 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
37168963 AAAATATTTC
*
37168973 AAAAAAAAAGAGG
1 AAAAAGAAA-AGG
37168986 AAAAAGAAAAGG
1 AAAAAGAAAAGG
*
37168998 AAAAAGGAAAAAAG
1 AAAAA-G-AAAAGG
37169012 AAAAAGAAAA
1 AAAAAGAAAA
37169022 AGTAAAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 12 0.38
13 10 0.31
14 10 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGG
Found at i:37169004 original size:7 final size:7
Alignment explanation
Indices: 37168978--37169028 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
37168968 ATTTCAAAAA
37168978 AAAAGAGG
1 AAAA-AGG
37168986 AAAAA-G
1 AAAAAGG
37168992 -AAAAGG
1 AAAAAGG
37168998 AAAAAGG
1 AAAAAGG
*
37169005 AAAAAAG
1 AAAAAGG
37169012 AAAAA-G
1 AAAAAGG
*
37169018 AAAAAGT
1 AAAAAGG
37169025 AAAA
1 AAAA
37169029 TGAGAGGCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 4 0.11
6 8 0.21
7 22 0.58
8 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (7 bp):
AAAAAGG
Found at i:37169009 original size:20 final size:20
Alignment explanation
Indices: 37168973--37169028 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
37168963 AAAATATTTC
37168973 AAAAA-AAAAGAGG-AAAAAG
1 AAAAAGAAAA-AGGAAAAAAG
*
37168992 AAAAGGAAAAAGGAAAAAAG
1 AAAAAGAAAAAGGAAAAAAG
*
37169012 AAAAAGAAAAAGTAAAA
1 AAAAAGAAAAAGGAAAA
37169029 TGAGAGGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.22
20 25 0.78
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAGAAAAAGGAAAAAAG
Found at i:37169015 original size:6 final size:6
Alignment explanation
Indices: 37168985--37169028 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
37168975 AAAAAAAGAG
* *
37168985 GAAAAA GAAAAG GAAAAA GGAAAAAA GAAAAA GAAAAA GTAAAA
1 GAAAAA GAAAAA GAAAAA -G-AAAAA GAAAAA GAAAAA GAAAAA
37169029 TGAGAGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 26 0.79
7 2 0.06
8 5 0.15
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:37170312 original size:44 final size:44
Alignment explanation
Indices: 37170263--37170492 Score: 268
Period size: 44 Copynumber: 5.2 Consensus size: 44
37170253 TTAGTGAAAA
* * * *
37170263 AGCAGATATTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * *
37170307 AGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGATCGAATAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * *
37170351 -GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * *
37170395 AGCAGATCTTGTGTTCTTATATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
*
37170439 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
**
37170483 TTCAGATCTT
1 AGCAGATCTT
37170493 ATATCCCTAA
Statistics
Matches: 157, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
43 24 0.15
44 110 0.70
45 23 0.15
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
Found at i:37170520 original size:132 final size:132
Alignment explanation
Indices: 37170261--37170525 Score: 347
Period size: 132 Copynumber: 2.0 Consensus size: 132
37170251 GATTAGTGAA
*
37170261 AAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCATGTCTTCCTA
1 AAAGCAGATATTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCAGATCATGTCTTCCTA
* * * * * * *
37170326 TATTGGTAGGAAGTGGATCGAATATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCATCCCATATAGGTAGCGAAGCAGATCAA
37170391 AG
131 AG
* * * *
37170393 AAAGCAGATCTTGTGTTCTTATATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
1 AAAGCAGATATTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCAGATCATGTCTTCCTA
* * *
37170458 TATTGGTAGGAAGTGGATCGAAGATTTCAGATCTTAT-ATCCC-TA-AGCAGTAGTGGAGCAGAT
66 TATTGGTAGGAAGTGGATCGAAGA-TGCAGATCTTATCATCCCATATAG--GTAGCGAAGCAGAT
37170520 CAAAG
128 CAAAG
37170525 A
1 A
37170526 TGGCGGATTT
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
130 1 0.01
131 2 0.02
132 102 0.89
133 10 0.09
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATATTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCAGATCATGTCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCATCCCATATAGGTAGCGAAGCAGATCAA
AG
Found at i:37170639 original size:132 final size:132
Alignment explanation
Indices: 37170477--37171232 Score: 1199
Period size: 132 Copynumber: 5.8 Consensus size: 132
37170467 GAAGTGGATC
* *
37170477 GAAGATTTCAGATCTTATATCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTC
1 GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
* * * *
37170542 CTTATGGTTATAGTGGAGTACATTAAAGCCAGTAATTCTACTTCCCTGAACAACAGTGGAATAGA
66 CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGA
37170607 TT
131 TT
* *
37170609 GAAGATTTGAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGGATTTTACCTC
1 GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
*
37170674 CCTGTGGTTATAGTGGAGTACATTGAAACCAGTAATTCTACTT--C----C--C--TGGAATAGA
66 CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGA
37170729 TT
131 TT
* *
37170731 GAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTC
1 GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
* *
37170796 CCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATATA
66 CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGA
37170861 TT
131 TT
*
37170863 GAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
1 GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
* *
37170928 CCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAATGGAATAGA
66 CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGA
37170993 TT
131 TT
* * * *
37170995 GAAAATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGCAGATGACGGATTTTACCTC
1 GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
* * * *
37171060 CCTGTGGTTATAGTAGAGTACATTGAAGCCAGTAATTCTATTTTCCTGGACAACAGTGGAACAGA
66 CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGA
37171125 TT
131 TT
* *
37171127 GAAGATTTCAGATCTTATCTCCCTAAGCAATAGTGGAGCAAATCGAAGATGGCGGATTTTACCTC
1 GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
*
37171192 CCTGTGGTTATAGTGGAGTACATTGAAGCCAATAATTCTAC
66 CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTAC
37171233 NNNNNNNNNN
Statistics
Matches: 576, Mismatches: 38, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
122 113 0.20
124 2 0.00
126 1 0.00
128 1 0.00
130 2 0.00
132 457 0.79
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGA
TT
Found at i:37171841 original size:12 final size:12
Alignment explanation
Indices: 37171819--37171847 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37171809 GGGAAACTCA
37171819 AGCAA-ATATTG
1 AGCAATATATTG
37171830 AGCAATATATTG
1 AGCAATATATTG
37171842 AGCAAT
1 AGCAAT
37171848 GCTGTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (12 bp):
AGCAATATATTG
Found at i:37189171 original size:26 final size:26
Alignment explanation
Indices: 37189111--37189172 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
37189101 GTCTCTATAC
*
37189111 TTTTAATTTTTTGAACAATATTAGTT
1 TTTTATTTTTTTGAACAATATTAGTT
37189137 TTTTATTTTTTTGAACAATATTAGTT
1 TTTTATTTTTTTGAACAATATTAGTT
*
37189163 TTTTCTTTTT
1 TTTTATTTTT
37189173 ATTTCTTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.24, C:0.05, G:0.06, T:0.65
Consensus pattern (26 bp):
TTTTATTTTTTTGAACAATATTAGTT
Found at i:37190228 original size:2 final size:2
Alignment explanation
Indices: 37190221--37190253 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
37190211 TTCAAAATCT
37190221 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
37190254 TTAATTTGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:37192886 original size:22 final size:19
Alignment explanation
Indices: 37192843--37192894 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 19
37192833 TTCATAGCAT
37192843 AAATACATTTACGGGCCTAA
1 AAATA-ATTTACGGGCCTAA
*
37192863 AATTAAGTTTACGGAGCCCTAA
1 AAATAA-TTTACGG-G-CCTAA
37192885 AAATAATTTA
1 AAATAATTTA
37192895 GAAACAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 11 0.41
21 5 0.19
22 10 0.37
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (19 bp):
AAATAATTTACGGGCCTAA
Found at i:37196014 original size:251 final size:250
Alignment explanation
Indices: 37195693--37196778 Score: 888
Period size: 250 Copynumber: 4.3 Consensus size: 250
37195683 CAAAATCCAA
* * * * *
37195693 TTAAACAAAATCTAACTGCCTATT-AGGTTTGAGTTTTTTTTTTTTTTTTGCTATTTGTAACAAT
1 TTAAA-AAAATCTAACCG-CTATTGA-GTTTGAG-TTTTTTTTCTCTTTTGCCATTCGTAACAAT
* * * *
37195757 ATCCAATGCTACTAACGA-TTTAACTTGCTAGGTATATTTTTTTATCCGATCAATTAAAAAATTA
62 ATCCAATGCTACCAACGATTTTAACATGCTAGGCATA-TTTTTTATCCGATCAATTGAAAAATTA
*
37195821 GAA-TCCACTCGTCTAAAAGTAAATATTAATTTACTTACCTTGAATCCAACAAAAATAATAAAGT
126 -AATTCCACTCGCCTAAAAGTAAATATTAATTTACTTACCTTGAATCCAACAAAAA-AATAAAGT
* * * *
37195885 TATATTTGATTTTGAGT-CGATCAATTGAAAAACTAGATTTCACTCACCTTGAATCCCGA-T
189 TATATTCGATTTTGAGTCCGATCAATTGAAAAACTAGATTCCACTCGCCTTAAATCCCGATT
* *
37195945 TTAAAAAAATCTAACCGTCTATTGAGTTTGAGTTTTTATTTCTCTTTTGCCATTCGTGACAAAAT
1 TTAAAAAAATCTAACCG-CTATTGAGTTTGAGTTTTT-TTTCTCTTTTGCCATTCGTAACAATAT
* ** * * * *
37196010 CCAATGTTGTCAACAATTTTAACATGCTAGGCATATTTTTGATCCAATGAATTGAAAAATTAAAT
64 CCAATGCTACCAACGATTTTAACATGCTAGGCATATTTTTTATCCGATCAATTGAAAAATTAAAT
* * * *
37196075 TTCACTCGCCTAAAAGTAAATATTAATTAATTTCTTTACCCTAAATCCAAC--AAAAAT-AAGTT
129 TCCACTCGCCTAAAAGTAAATATTAA-T--TTAC-TTACCTTGAATCCAACAAAAAAATAAAGTT
* * * ** *
37196137 ATA-TCCATTTTG-GTCCAATCAATTG-AAAACTAGATTCCACTTGGTTTGAAAT-CTGATTTCT
190 ATATTCGATTTTGAGTCCGATCAATTGAAAAACTAGATTCCACTCGCCTT-AAATCCCGA----T
37196198 T
250 T
* * * * * * *
37196199 TTAAAAAGAATTTAACTGTCTATTG-GATTCGAATTTTTTTTTTCTTTTGCCATTCGTAGCAGTA
1 TTAAAAA-AATCTAACCG-CTATTGAG-TTTGAGTTTTTTTTCTCTTTTGCCATTCGTAACAATA
* * * * *
37196263 TCCAATGCTACCAACGATTTTAACGTGTTTGGCATATTTTTTATTCGATCGATTG-AAAATATAA
63 TCCAATGCTACCAACGATTTTAACATGCTAGGCATATTTTTTATCCGATCAATTGAAAAAT-TAA
* * * *
37196327 ATTCCACTTGCCTAAAAGTAAACATTAATTTACTTACCTTGAATCCAACGAAAAGAAAACAAAGC
127 ATTCCACTCGCCTAAAAGTAAATATTAATTTACTTACCTTGAATCCAAC--AAA-AAAATAAAGT
* * ** * * * * ***
37196392 TAAATT-TATTTTTGA-TTTGATCAATAGAAAAACTAGATTTCACTCGTCTCAAATTTTGACTT
189 TATATTCGA-TTTTGAGTCCGATCAATTGAAAAACTAGATTCCACTCGCCTTAAATCCCGA-TT
* * * *
37196454 TTTAAAAAACCTAACCGCTTACT-AGGTTTGAG--TTTTTT-T-TTTTGTCATAT-GTAACAATA
1 TTAAAAAAATCTAACCGC-TATTGA-GTTTGAGTTTTTTTTCTCTTTTGCCAT-TCGTAACAATA
* * * * * * * *
37196513 TCCAATGCTACCAACGATTTTAACATGATATGCATATTTTTAACCCCACCAATTGAAAAACTAGA
63 TCCAATGCTACCAACGATTTTAACATGCTAGGCATATTTTTTATCCGATCAATTGAAAAATTAAA
* * * * *
37196578 TTCCACCCGCCTAAAATTATATATTAATATACTTACCTTGAATCCAACAAAAAATATAAAATTAT
128 TTCCACTCGCCTAAAAGTAAATATTAATTTACTTACCTTGAATCCAACAAAAAA-ATAAAGTTAT
* * *
37196643 ATTCGATTTTGA-TCCGAAGATCAATTGTAAAACTAGATTCCACTCGCCTTAAAACCCG-GT
192 ATTCGATTTTGAGTCC---GATCAATTGAAAAACTAGATTCCACTCGCCTTAAATCCCGATT
* * * *
37196703 TTAAAAATAATCTAACCGCTTATTGGGTATGAGTTTTTCTTTCTTTCTTTTTGCCATCCATAACA
1 TTAAAAA-AATCTAACCGC-TATTGAGTTTGAGTTTTT-TTTC--TC-TTTTGCCATTCGTAACA
37196768 ATATCCAATGC
60 ATATCCAATGC
37196779 CAAGAGCTAT
Statistics
Matches: 656, Mismatches: 128, Indels: 94
0.75 0.15 0.11
Matches are distributed among these distances:
247 3 0.00
248 19 0.03
249 30 0.05
250 165 0.25
251 150 0.23
252 35 0.05
253 13 0.02
254 119 0.18
255 52 0.08
256 8 0.01
257 18 0.03
258 44 0.07
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.38
Consensus pattern (250 bp):
TTAAAAAAATCTAACCGCTATTGAGTTTGAGTTTTTTTTCTCTTTTGCCATTCGTAACAATATCC
AATGCTACCAACGATTTTAACATGCTAGGCATATTTTTTATCCGATCAATTGAAAAATTAAATTC
CACTCGCCTAAAAGTAAATATTAATTTACTTACCTTGAATCCAACAAAAAAATAAAGTTATATTC
GATTTTGAGTCCGATCAATTGAAAAACTAGATTCCACTCGCCTTAAATCCCGATT
Found at i:37197576 original size:18 final size:18
Alignment explanation
Indices: 37197548--37197588 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
37197538 TTCAAAATCG
*
37197548 TATAATAAATTA-AAGTT
1 TATAATAAATTAGAAATT
37197565 TATAAGTAAATTAGAAATT
1 TATAA-TAAATTAGAAATT
37197584 TATAA
1 TATAA
37197589 AATAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 7 0.33
19 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (18 bp):
TATAATAAATTAGAAATT
Found at i:37211332 original size:12 final size:12
Alignment explanation
Indices: 37211315--37211346 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
37211305 ATATGAATGG
37211315 AATAATAATAGT
1 AATAATAATAGT
*
37211327 AATAATAATATT
1 AATAATAATAGT
37211339 AATAATAA
1 AATAATAA
37211347 CAATAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:37213331 original size:3 final size:3
Alignment explanation
Indices: 37213325--37213383 Score: 64
Period size: 3 Copynumber: 19.7 Consensus size: 3
37213315 AAATTAATAA
* * * * *
37213325 ATT ATT ATT ATT GTT ATC ATT ATT AGT ATT ATT ATT AAT ATT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
37213373 ATT ATC ATT AT
1 ATT ATT ATT AT
37213384 ATTTCCATTT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:37213763 original size:4 final size:4
Alignment explanation
Indices: 37213754--37213816 Score: 126
Period size: 4 Copynumber: 15.8 Consensus size: 4
37213744 ACATATTTAT
37213754 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
37213802 ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
37213817 TCCTTTTGCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:37214722 original size:22 final size:22
Alignment explanation
Indices: 37214679--37214723 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
37214669 TTGTGGACCA
* *
37214679 AAATCGTTGTTTTAATAAAATC
1 AAATCGTTGTATTAAAAAAATC
37214701 AAATCGTT-TATTAAAAACAATC
1 AAATCGTTGTATTAAAAA-AATC
37214723 A
1 A
37214724 TTTTCGAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.36
Consensus pattern (22 bp):
AAATCGTTGTATTAAAAAAATC
Found at i:37215689 original size:21 final size:21
Alignment explanation
Indices: 37215642--37215696 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
37215632 ACCATTGTTT
* * *
37215642 CTAATCGCACTGCTACAGTAT
1 CTAATCTCACCGCTACAGTAA
*
37215663 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
37215684 CTAATCTCACCGC
1 CTAATCTCACCGC
37215697 CACCGCTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.36, G:0.11, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:37223924 original size:135 final size:138
Alignment explanation
Indices: 37223744--37224060 Score: 461
Period size: 135 Copynumber: 2.3 Consensus size: 138
37223734 CTTAAAAAGT
* *
37223744 TTTAATTTTGATATTTGATTTATA-ACGTGTTGCAATCGGAGTTAAAATATCAAATTTTGAATTT
1 TTTAATTTTGA-ATTTGATTTAGAGA-GTGTTGCAATCGGAGTTAAAATATCAAAATTTGAATTT
* * **
37223808 GA-TTTAGCTTCTTTTGTGCTGAATTTTGAACTTTTAATTTCAGTTCCAAGTTAGTATCTTT-TT
64 GATTTTAGCTTCTTTTGTGCCGAATTTTGAACTTTTAATTTCAGTTCCAAGTTAGTAACTTTAAA
*
37223871 TAAA-ATTAA
129 AAAATATTAA
37223880 TTTAATTTTGAATTTGATTTAGAGAGTGTTGCAATCGGAGTT-AAATATCAAAATTTGAATTTGA
1 TTTAATTTTGAATTTGATTTAGAGAGTGTTGCAATCGGAGTTAAAATATCAAAATTTGAATTTGA
*
37223944 TTTTAGTTTCTTTTGTGCCGAATTTTGAACTTTTAATTTCAGTTCCAAGTTAGTAACTTTGAAAA
66 TTTTAGCTTCTTTTGTGCCGAATTTTGAACTTTTAATTTCAGTTCCAAGTTAGTAACTTT--AAA
37224009 AAAATATTAA
129 AAAATATTAA
*
37224019 CTTAATTTTGAATTTGATTTAGAGAGTG-T--AATCGGAGTTAAA
1 TTTAATTTTGAATTTGATTTAGAGAGTGTTGCAATCGGAGTTAAA
37224061 TACCGTGTCC
Statistics
Matches: 165, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
134 21 0.13
135 84 0.51
136 22 0.13
137 2 0.01
138 4 0.02
139 32 0.19
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (138 bp):
TTTAATTTTGAATTTGATTTAGAGAGTGTTGCAATCGGAGTTAAAATATCAAAATTTGAATTTGA
TTTTAGCTTCTTTTGTGCCGAATTTTGAACTTTTAATTTCAGTTCCAAGTTAGTAACTTTAAAAA
AATATTAA
Found at i:37240968 original size:21 final size:20
Alignment explanation
Indices: 37240943--37240998 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 20
37240933 GATTGAATAC
37240943 AAAAAGAAGAAATCAAAAGGG
1 AAAAAGAAGAAATCAAAA-GG
37240964 AAAAATTGAAG--ATCAAAAGG
1 AAAAA--GAAGAAATCAAAAGG
*
37240984 ATAAAGAGAGAAATC
1 AAAAAGA-AGAAATC
37240999 CTAACTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
18 2 0.07
19 2 0.07
20 6 0.21
21 15 0.52
23 4 0.14
ACGTcount: A:0.62, C:0.05, G:0.21, T:0.11
Consensus pattern (20 bp):
AAAAAGAAGAAATCAAAAGG
Found at i:37241592 original size:39 final size:40
Alignment explanation
Indices: 37241533--37241622 Score: 137
Period size: 39 Copynumber: 2.2 Consensus size: 40
37241523 AAAATTTATA
* *
37241533 TTTAATACAATAAAACATTTATTATATTTAT-TTGTGTTT
1 TTTAATATAATAAAACATTTATTATATTTATATAGTGTTT
*
37241572 TTTAATATAATAAAATATTTATTATATTTATAATAGTGTTT
1 TTTAATATAATAAAACATTTATTATATTTAT-ATAGTGTTT
37241613 TTTAATATAA
1 TTTAATATAA
37241623 ATATTTTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 29 0.63
41 17 0.37
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (40 bp):
TTTAATATAATAAAACATTTATTATATTTATATAGTGTTT
Found at i:37241994 original size:23 final size:23
Alignment explanation
Indices: 37241974--37242018 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
37241964 TAAAATTTTG
37241974 AACTATTTAGTGATAATATTTAA
1 AACTATTTAGTGATAATATTTAA
*
37241997 AATTATTTAGTGATAATATTTA
1 AACTATTTAGTGATAATATTTA
37242019 GGAAAAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (23 bp):
AACTATTTAGTGATAATATTTAA
Found at i:37242233 original size:27 final size:29
Alignment explanation
Indices: 37242203--37242257 Score: 87
Period size: 27 Copynumber: 1.9 Consensus size: 29
37242193 GTCTCCTGTT
37242203 GTTAGGGTTTT-GGGTTTTT-GGTTTAGG
1 GTTAGGGTTTTAGGGTTTTTAGGTTTAGG
37242230 GTTAGGGTTTTGAGGGTTTTTAGGTTTA
1 GTTAGGGTTTT-AGGGTTTTTAGGTTTA
37242258 AGATTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 11 0.44
29 8 0.32
30 6 0.24
ACGTcount: A:0.11, C:0.00, G:0.38, T:0.51
Consensus pattern (29 bp):
GTTAGGGTTTTAGGGTTTTTAGGTTTAGG
Found at i:37242420 original size:96 final size:93
Alignment explanation
Indices: 37242298--37242591 Score: 345
Period size: 96 Copynumber: 3.1 Consensus size: 93
37242288 GGATTATGGT
* * * * *
37242298 TTAGGGTTTAAGGTTTCTCAATTAAATTAATTAAAAATTTTTCAAAATTAGATTAGGGTTTTGTA
1 TTAGGGTTTAAGGTTACTTAAGTAAATTAATTAAAAA-TTTT-AAAATTAGATTAGGGTTTAGTG
** *
37242363 TTTATAGTTTTTAAATAAAAAATCAATTAAA
64 TTTAGGGTTTTTAAA-AAAAAATCAAATAAA
* * *
37242394 TTAGGGTTTAGGGTTACTTAAGTAAATTAATTAAAAAAATTTTAAAATCATATTAGGGTTTAGTG
1 TTAGGGTTTAAGGTTACTTAAGTAAATTAATT--AAAAATTTTAAAATTAGATTAGGGTTTAGTG
* *
37242459 TTAAGGGTTTTTAAAGAAAAATCAAATAAA
64 TTTAGGGTTTTTAAAAAAAAATCAAATAAA
* * * ** * *
37242489 TTAGGGTTTAAGATTACTTGAGTAAATTAATTATAAATTAAAAAAATAGATTAGGGTTTAATGTT
1 TTAGGGTTTAAGGTTACTTAAGTAAATTAATTAAAAATTTTAAAATTAGATTAGGGTTTAGTGTT
*
37242554 TAGGGTTTTTAAGAAAAAACTCAAATAAA
66 TAGGGTTTTTAA-AAAAAAATCAAATAAA
37242583 TTAGGGTTT
1 TTAGGGTTT
37242592 GGGGTTTAGG
Statistics
Matches: 169, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
93 37 0.22
94 23 0.14
95 42 0.25
96 58 0.34
97 4 0.02
98 5 0.03
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (93 bp):
TTAGGGTTTAAGGTTACTTAAGTAAATTAATTAAAAATTTTAAAATTAGATTAGGGTTTAGTGTT
TAGGGTTTTTAAAAAAAAATCAAATAAA
Found at i:37242865 original size:125 final size:126
Alignment explanation
Indices: 37242629--37242924 Score: 411
Period size: 125 Copynumber: 2.4 Consensus size: 126
37242619 TTTGTTAATT
* * * *
37242629 TAAAA-AAGCTCCCACATGGACACTCTTTTACTACAGTAGCTCCTGAAAAAATAATTTCGAGAAG
1 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAACTCCTGAAAAAATAATTTCGAGAAG
* *
37242693 ACGTTTCTGAGCAAATAATGTCAAAAACGCTTTAAGCAGGATCCATTGTCAGCAAAA-TAC
66 ACATTTCTGAGCAAATAATGTCAAAAACGCTTTAAGCAGAATCCATTGTCAGCAAAAGTAC
*
37242753 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAACTCTTGAAAAAATAATTTCGAGAAG
1 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAACTCCTGAAAAAATAATTTCGAGAAG
* * * * *
37242818 ACATGTT-TGAGCAAATAGTGTTAAAAATGCTTTAAGTAGAATGCATTGTCAGCAAAAGTAC
66 ACAT-TTCTGAGCAAATAATGTCAAAAACGCTTTAAGCAGAATCCATTGTCAGCAAAAGTAC
* * *
37242879 TGAAAGAAGCTCTCACGTGGACGCGT-TTTTGCTACAGTAGCTCCTG
1 TAAAAGAAGCTCCCACGTGGACGC-TCTTTTGCTACAGTAACTCCTG
37242925 TTTGGCCTGA
Statistics
Matches: 152, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
124 5 0.03
125 101 0.66
126 45 0.30
127 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (126 bp):
TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAACTCCTGAAAAAATAATTTCGAGAAG
ACATTTCTGAGCAAATAATGTCAAAAACGCTTTAAGCAGAATCCATTGTCAGCAAAAGTAC
Found at i:37246279 original size:372 final size:373
Alignment explanation
Indices: 37245345--37246458 Score: 1829
Period size: 372 Copynumber: 3.0 Consensus size: 373
37245335 GTGAACACCA
* * * *
37245345 TGCACACAGTGTGTCACGATTGAGACAACTTATGGTTTTGTGTGACAGAGTTTGACAGATCAGAC
1 TGCACACAGTGTGTCACGATCGAGACAACTTATGGTTTCGTGTGACAGAGTTTAACAGATCGGAC
37245410 CAAGGTGTTATCGGCGAGCAATATCGTGTACACTTGCGAAATAGGACTAGCGACTGTGGGATGTT
66 CAAGGTGTTATCGGCGAGCAATATCGTGTACACTTGCGAAATAGGACTAGCGACTGTGGGATGTT
* * *
37245475 TGACGCACTTCGTTATCCATGCGCTCATGTAATTGCAGTTTGTCAGAATCTTCATCTGGATCCGA
131 TGACGCACTTCGTTATCCATGCGCTCATGTAATTGCAGCTTGTCAGAATCTCCGTCTGGATCCGA
* * * *
37245540 TGAGCTATGTCGACGATGTGTATAAATTAGAAAATATGTACAGCATCTGGAGACACGTATTCCCA
196 TGAGCTATGTCGACGAAGTGTACAAATTAGAAAACATGTACAACATCTGGAGACACGTATTCCCA
* * *
37245605 CCGGTCCCAGATGAACGTAAGTGGTCGTCTATATCGCTTGCTCACTTTAAGCTGTTACCAAATAG
261 CCGGTCCCAGATGAACGTAAGTGGTCGTCTGTATCGCTTGCTCGCTTTAAGCTGTTACCGAATAG
* *
37245670 AGAATTGCGTTGCAAACCAAAGGGTTGACGTTGTTCGACTAGAACAAC
326 AAAATTGCGTCGCAAACCAAAGGGTTGACGTTGTTCGACTAGAACAAC
* * *
37245718 TGTATC-GAGTGTGTCACGATCAAGACAACTTATGGTTTCGTGTGACAGAGTTTAACAGATCGGA
1 TGCA-CACAGTGTGTCACGATCGAGACAACTTATGGTTTCGTGTGACAGAGTTTAACAGATCGGA
* * *
37245782 CCAAGGTGTTATCGACGGGCAATATCGTGTACACTTGCAAAATAGGACTAGCGACTGTGGGATGT
65 CCAAGGTGTTATCGGCGAGCAATATCGTGTACACTTGCGAAATAGGACTAGCGACTGTGGGATGT
* * *
37245847 TTGACGCACTTCGTTATCCATGCGCTCGTGTAATTGTAGCTTGTTCAG-ATCTCTGTCTGGATCC
130 TTGACGCACTTCGTTATCCATGCGCTCATGTAATTGCAGCTTG-TCAGAATCTCCGTCTGGATCC
* * * *
37245911 GATGAGCTATGTCGACGAAGTGTACGAATTAGGAAACATGTGCAACGTCTGGAGACACGTATTCC
194 GATGAGCTATGTCGACGAAGTGTACAAATTAGAAAACATGTACAACATCTGGAGACACGTATTCC
37245976 CACCGGTCCCAGATGAACGTAAGTGGTCGTCTGTATCGCTTGCTCGCTTTAAGCTGTTACCGAAT
259 CACCGGTCCCAGATGAACGTAAGTGGTCGTCTGTATCGCTTGCTCGCTTTAAGCTGTTACCGAAT
37246041 AGAAAATTGCGTCGCAAACCAAAGGGTTGACGTTGTTCGACTAGAAC-AC
324 AGAAAATTGCGTCGCAAACCAAAGGGTTGACGTTGTTCGACTAGAACAAC
*
37246090 TGCACACAGTGTGTCACGATCGAGACAACTTATGGTTTCATGTGACAGAGTTTAACAGATCGGAC
1 TGCACACAGTGTGTCACGATCGAGACAACTTATGGTTTCGTGTGACAGAGTTTAACAGATCGGAC
* * * *
37246155 CAAGGTGTTATCGGCGAGTAATATCGTGTACACTTGTGAAATAAGAATAGCGACTGTGGGATGTT
66 CAAGGTGTTATCGGCGAGCAATATCGTGTACACTTGCGAAATAGGACTAGCGACTGTGGGATGTT
37246220 TGACGCACTTCGTTATCCATGCGCTCATGTAATTGCAGCTTGTCAGAATCTCCGTCTGGATCCGA
131 TGACGCACTTCGTTATCCATGCGCTCATGTAATTGCAGCTTGTCAGAATCTCCGTCTGGATCCGA
37246285 TGAGCTATGTCGACGAAGTGTACAAATTAGAAAACATGTACAACATCTGGAGACACGTATTCCCA
196 TGAGCTATGTCGACGAAGTGTACAAATTAGAAAACATGTACAACATCTGGAGACACGTATTCCCA
* * * *
37246350 ACGATCTCAGATGAACGTAAGTGGCCGTCTGTATCGCTTGCTCGCTTTAAGCTGTTACCGAATAG
261 CCGGTCCCAGATGAACGTAAGTGGTCGTCTGTATCGCTTGCTCGCTTTAAGCTGTTACCGAATAG
* *
37246415 AAAATTGCATCGCAAACCAAAGGGTTGACGTTGTTTGACTAGAA
326 AAAATTGCGTCGCAAACCAAAGGGTTGACGTTGTTCGACTAGAA
37246459 TACATAACAA
Statistics
Matches: 684, Mismatches: 53, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
371 5 0.01
372 340 0.50
373 334 0.49
374 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (373 bp):
TGCACACAGTGTGTCACGATCGAGACAACTTATGGTTTCGTGTGACAGAGTTTAACAGATCGGAC
CAAGGTGTTATCGGCGAGCAATATCGTGTACACTTGCGAAATAGGACTAGCGACTGTGGGATGTT
TGACGCACTTCGTTATCCATGCGCTCATGTAATTGCAGCTTGTCAGAATCTCCGTCTGGATCCGA
TGAGCTATGTCGACGAAGTGTACAAATTAGAAAACATGTACAACATCTGGAGACACGTATTCCCA
CCGGTCCCAGATGAACGTAAGTGGTCGTCTGTATCGCTTGCTCGCTTTAAGCTGTTACCGAATAG
AAAATTGCGTCGCAAACCAAAGGGTTGACGTTGTTCGACTAGAACAAC
Found at i:37246928 original size:21 final size:21
Alignment explanation
Indices: 37246895--37246951 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
37246885 CAGCTTCCGG
* *
37246895 AGGGGGTTATGGTTGCTCCGGC
1 AGGGGATT-TGGTTGCTCCAGC
* *
37246917 A-GGGATTCTGGTTCCTCCAGT
1 AGGGGATT-TGGTTGCTCCAGC
37246938 AGGGGATTTGGTTG
1 AGGGGATTTGGTTG
37246952 TCGATGTTGG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.12, C:0.16, G:0.40, T:0.32
Consensus pattern (21 bp):
AGGGGATTTGGTTGCTCCAGC
Found at i:37247376 original size:30 final size:30
Alignment explanation
Indices: 37247326--37247383 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37247316 GCTTGGCCTG
* *
37247326 GTGATTGTATGGGCGTTGTTGATAGGCCGA
1 GTGATTGTATGGACGCTGTTGATAGGCCGA
* *
37247356 GTGATTGTGTGGACGCTGTTGATGGGCC
1 GTGATTGTATGGACGCTGTTGATAGGCC
37247384 TGCATCGTCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.12, G:0.41, T:0.33
Consensus pattern (30 bp):
GTGATTGTATGGACGCTGTTGATAGGCCGA
Found at i:37247888 original size:7 final size:7
Alignment explanation
Indices: 37247876--37247907 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
37247866 TATTAGTTAT
*
37247876 ATACATA
1 ATACATG
37247883 ATACATG
1 ATACATG
37247890 ATACATG
1 ATACATG
37247897 ATACATG
1 ATACATG
37247904 ATAC
1 ATAC
37247908 TAAATACCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (7 bp):
ATACATG
Found at i:37249134 original size:22 final size:21
Alignment explanation
Indices: 37249081--37249145 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
37249071 TAAAGCTTTT
*
37249081 TTAAGAGGAATTTGAGAGGAAA
1 TTAAGAAGAATTTGAGA-GAAA
37249103 TTAAGAAGAATTTGAGAGAATA
1 TTAAGAAGAATTTGAGAGAA-A
* *
37249125 TT-GGAGAGAAATTGAGAGAAA
1 TTAAGA-AGAATTTGAGAGAAA
37249146 GGATTTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 6 0.16
22 32 0.84
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.23
Consensus pattern (21 bp):
TTAAGAAGAATTTGAGAGAAA
Found at i:37249145 original size:10 final size:10
Alignment explanation
Indices: 37249092--37249145 Score: 54
Period size: 11 Copynumber: 5.0 Consensus size: 10
37249082 TAAGAGGAAT
37249092 TTGAGAGGAAA
1 TTGAGA-GAAA
* *
37249103 TTAAGAAGAAT
1 TTGAG-AGAAA
37249114 TTGAGAGAATA
1 TTGAGAGAA-A
37249125 TTGGAGAGAAA
1 TT-GAGAGAAA
37249136 TTGAGAGAAA
1 TTGAGAGAAA
37249146 GGATTTAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
10 12 0.33
11 16 0.44
12 8 0.22
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.22
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:37253000 original size:29 final size:29
Alignment explanation
Indices: 37252931--37253000 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
37252921 GAGGGACACG
*
37252931 TCCAGCTGGAAGCGTTTTCCATAAATGTT
1 TCCAGCTGGAAGCGTTTTCCATAAACGTT
* *
37252960 TCTAGCTAGAAGCGTTTTCCATAAACGTT
1 TCCAGCTGGAAGCGTTTTCCATAAACGTT
*
37252989 TCCAACTGGAAG
1 TCCAGCTGGAAG
37253001 TGTTCTACTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (29 bp):
TCCAGCTGGAAGCGTTTTCCATAAACGTT
Found at i:37253919 original size:3 final size:3
Alignment explanation
Indices: 37253911--37253939 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
37253901 CAAAGCAAAC
37253911 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
37253940 CAAATTTCAA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:37254584 original size:27 final size:26
Alignment explanation
Indices: 37254546--37254617 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 26
37254536 AAAAACAAAA
37254546 ATTTACCAAAATATTATAACTTTTTTT
1 ATTTACCAAAATATTATAA-TTTTTTT
*
37254573 ATTTACTAAAATATATATAATTTTTTT
1 ATTTACCAAAATAT-TATAATTTTTTT
37254600 ATTTACCAAAATA-TATAA
1 ATTTACCAAAATATTATAA
37254618 AAAAACAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.12
27 32 0.76
28 5 0.12
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTTACCAAAATATTATAATTTTTTT
Found at i:37254703 original size:27 final size:27
Alignment explanation
Indices: 37254672--37254756 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
37254662 CCTTGGTCAC
* *
37254672 GCCAATGGCATTGGCGGCACCAAAGGT
1 GCCAATGCCATTGGCGGCACCAATGGT
**
37254699 GCCAAAACCATTGGCGGCACCAATGGT
1 GCCAATGCCATTGGCGGCACCAATGGT
37254726 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATGCCATTGGCGGCACCAATGGT
37254753 GCCA
1 GCCA
37254757 TATTGATTGG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.15
Consensus pattern (27 bp):
GCCAATGCCATTGGCGGCACCAATGGT
Found at i:37254765 original size:27 final size:25
Alignment explanation
Indices: 37254672--37254772 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 25
37254662 CCTTGGTCAC
*
37254672 GCCAATGGCATTGGCGGCACCAAAGGT
1 GCCAAT-G-ATTGGCGGCACCAATGGT
**
37254699 GCCAAAACCATTGGCGGCACCAATGGT
1 GCC--AATGATTGGCGGCACCAATGGT
37254726 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATG--ATTGGCGGCACCAATGGT
*
37254753 GCCATATTGATTGGTGGCAC
1 GCCA-A-TGATTGGCGGCAC
37254773 TATTCGTATT
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
25 2 0.03
27 55 0.89
28 1 0.02
29 4 0.06
ACGTcount: A:0.25, C:0.27, G:0.30, T:0.19
Consensus pattern (25 bp):
GCCAATGATTGGCGGCACCAATGGT
Found at i:37254949 original size:19 final size:21
Alignment explanation
Indices: 37254911--37254949 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
37254901 TTTTTTTGAT
*
37254911 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
37254932 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
37254950 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:37255834 original size:18 final size:18
Alignment explanation
Indices: 37255791--37255835 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
37255781 TTGACATGGT
*
37255791 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
**
37255809 TGCCGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
37255827 TGGTGGCGA
1 TGGTGGCGA
37255836 TCATTGGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.49, T:0.13
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:37257285 original size:106 final size:104
Alignment explanation
Indices: 37257089--37257372 Score: 345
Period size: 106 Copynumber: 2.7 Consensus size: 104
37257079 ATTTAGTCGG
* * *
37257089 ACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTCTCTCGAATTTCTAAACGCAAGACATTGCC
1 ACGAGAAATCGAAACCCAGCACGTTAGGGCACGTT-TCTCGAATTTCCAAACGCAAGATATTGCT
** *
37257154 TCGTTTTAAAATTTCGAAAGAATATTCGACTATTTGGCCAA
65 TC-TTTTAAAATTTAAAAAGAATATTCGACCATTTGGCCAA
* * * *
37257195 ACGAGTAATCGAAACCCAACACGTTAGGGCCCGTATTCTCGAATTTCCAAACGCAAAATATTGCA
1 ACGAGAAATCGAAACCCAGCACGTTAGGGCACGT-TTCTCGAATTTCCAAACGCAAGATATTGC-
* * * * *
37257260 TTCTTTTGAAAGTTTAAAAAG-ATATTTGGCCATTTGGTCGA
64 TTCTTTT-AAAATTTAAAAAGAATATTCGACCATTTGGCCAA
*
37257301 ACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAATTTTCCAAACGCGAGATATTGC
1 ACGAGAAATCGAAACCCAGCACGTTAGGGCACG-TTTCTCGAA-TTTCCAAACGCAAGATATTG-
37257366 CTTCTTT
63 CTTCTTT
37257373 AGGAAAAAAG
Statistics
Matches: 152, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
106 113 0.74
107 38 0.25
108 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (104 bp):
ACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCTCGAATTTCCAAACGCAAGATATTGCTT
CTTTTAAAATTTAAAAAGAATATTCGACCATTTGGCCAA
Found at i:37263220 original size:159 final size:159
Alignment explanation
Indices: 37262911--37263822 Score: 866
Period size: 159 Copynumber: 5.7 Consensus size: 159
37262901 CGGTCATTTA
*
37262911 TTCGTATTTTTTTCTCCGCA-TTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAATTT
1 TTCGTATTATTTTCT-CG-ATTTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAATTT
37262975 TACATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTATTTAAATTAATTTGAT
64 TACATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTATTTAAATTAATTTGAT
37263040 GTAAAAAAATAACCCTTACCCCTGCCCTTTG
129 GTAAAAAAATAACCCTTACCCCTGCCCTTTG
37263071 TTCGTATTATTTTCTCGATTTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTA
1 TTCGTATTATTTTCTCGATTTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTA
37263136 CATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTATTTAAATTAATTTGATGT
66 CATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTATTTAAATTAATTTGATGT
37263201 AAAAAAATAACCCTTACCCCTGCCCTTTG
131 AAAAAAATAACCCTTACCCCTGCCCTTTG
* **
37263230 TTCGTATTATTTTCTCGATTTTTATTACTTTAAATAAAAATAT-ATTATTCTCGT-ATTTTATTG
1 TTCGTATTATTTTCTCGATTTTTATTACTTT--A-AAAAATATCATAATT-TC-TAATTTTATAA
* * ** ** * * * * *
37263293 TTTTATATTATTTTAGTATATTTTCTTTGAAATATTTTGTA-T-TAAT-TGTT-TCTGAATT--T
61 TTTTACATTATTTCAGTGCATAATGTTTGAAAT-TTAT-TACTCTAGTGTGTTATTTAAATTAAT
* * * ** * *** *
37263352 TATAAAAGT-TAGTAATACACTCTTACTTTTGCCATTTG
124 T-T-GATGTAAAAAAATA-ACCCTTACCCCTGCCCTTTG
37263390 TTCGTATCT-TTTTCTCCGCA-TTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAATT
1 TTCGTAT-TATTTTCT-CG-ATTTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAATT
* *
37263453 TTACATTATTTCAGTGCATCATGTTTGAAATTTATTACTCTAGTGTGTTATTTAAATTAATTTTA
63 TTACATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTATTTAAATTAATTTGA
*
37263518 TGTAAAAAAATAACCCTT-CCCATGCCCTTTG
128 TGTAAAAAAATAACCCTTACCCCTGCCCTTTG
* * * *
37263549 CTCGTATTATTTTCTCGATTTTTATTACTTTAAATAAAAATAT-ATTATTCTCGT-ATTTTTTTA
1 TTCGTATTATTTTCTCGATTTTTATTACTTT--A-AAAAATATCATAATT-TC-TAATTTTATAA
* * ** * * * * * *
37263612 TTTTATATTATTTCAGTACATTTTCTTTGAAA--TATT-TTGTA-T-TAATTATTT--CTGAATT
61 TTTTACATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGT-GTTATTTAAATTAATT
* ** ** * *
37263670 T--TATAAAAGTTAGTAATACACTTTTACTTCTGTCATTTG
125 TGATGTAAAA---A--AATA-ACCCTTACCCCTGCCCTTTG
* * ** *
37263709 TTCGTATTTTTTTCTCCATATTTTATTACTTTAAAAAATATCATAAACT-TAGTCTTTTATAATT
1 TTCGTATTATTTTCTCGAT-TTTTATTACTTTAAAAAATATCATAATTTCTA--ATTTTATAATT
* * *
37263773 TTACATTATTTCAGTGCATCATGTTTGAAATTTATTAATTTAGTGTGTTA
63 TTACATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTA
37263823 AGGGGGAATA
Statistics
Matches: 616, Mismatches: 88, Indels: 93
0.77 0.11 0.12
Matches are distributed among these distances:
153 6 0.01
155 6 0.01
156 5 0.01
157 13 0.02
158 80 0.13
159 255 0.41
160 95 0.15
161 91 0.15
162 53 0.09
163 9 0.01
164 3 0.00
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (159 bp):
TTCGTATTATTTTCTCGATTTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTA
CATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTATTTAAATTAATTTGATGT
AAAAAAATAACCCTTACCCCTGCCCTTTG
Found at i:37263646 original size:319 final size:318
Alignment explanation
Indices: 37263061--37263822 Score: 1260
Period size: 319 Copynumber: 2.4 Consensus size: 318
37263051 ACCCTTACCC
*
37263061 CTGCCCTTTGTTCGTATTATTTTCT-CGATTTTTATTACTTTAAAAAATATCATAATTTCTAATT
1 CTGCCATTTGTTCGTATT-TTTTCTCCGA-TTTTATTACTTTAAAAAATATCATAATTTCTAATT
*
37263125 TTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTATTTAAAT
64 TTATAATTTTACATTATTTCAGTGCATCATGTTTGAAATTTATTACTCTAGTGTGTTATTTAAAT
* *
37263190 TAATTTGATGTAAAAAAATAACCCTTACCCCTGCCCTTTGTTCGTATTATTTTCTCGATTTTTAT
129 TAATTTGATGTAAAAAAATAACCCTTACCCATGCCCTTTGCTCGTATTATTTTCTCGATTTTTAT
* * *
37263255 TACTTTAAATAAAAATATATTATTCTCGTATTTTATTGTTTTATATTATTTTAGTATATTTTCTT
194 TACTTTAAATAAAAATATATTATTCTCGTATTTTATTATTTTATATTATTTCAGTACATTTTCTT
*
37263320 TGAAATATTTTGTATTAATTGTTTCTGAATTTTATAAAAGTTAGTAATACACTCTTACTT
259 TGAAATATTTTGTATTAATTATTTCTGAATTTTATAAAAGTTAGTAATACACTCTTACTT
*
37263380 TTGCCATTTGTTCGTATCTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTAATT
1 CTGCCATTTGTTCGTAT-TTTTTCTCCG-ATTTTATTACTTTAAAAAATATCATAATTTCTAATT
37263445 TTATAATTTTACATTATTTCAGTGCATCATGTTTGAAATTTATTACTCTAGTGTGTTATTTAAAT
64 TTATAATTTTACATTATTTCAGTGCATCATGTTTGAAATTTATTACTCTAGTGTGTTATTTAAAT
*
37263510 TAATTTTATGTAAAAAAATAACCCTT-CCCATGCCCTTTGCTCGTATTATTTTCTCGATTTTTAT
129 TAATTTGATGTAAAAAAATAACCCTTACCCATGCCCTTTGCTCGTATTATTTTCTCGATTTTTAT
*
37263574 TACTTTAAATAAAAATATATTATTCTCGTATTTTTTTATTTTATATTATTTCAGTACATTTTCTT
194 TACTTTAAATAAAAATATATTATTCTCGTATTTTATTATTTTATATTATTTCAGTACATTTTCTT
*
37263639 TGAAATATTTTGTATTAATTATTTCTGAATTTTATAAAAGTTAGTAATACACTTTTACTT
259 TGAAATATTTTGTATTAATTATTTCTGAATTTTATAAAAGTTAGTAATACACTCTTACTT
* * ** *
37263699 CTGTCATTTGTTCGTATTTTTTTCTCCATATTTTATTACTTTAAAAAATATCATAAACT-TAGTC
1 CTGCCATTTGTTCGTA-TTTTTTCTCC-GATTTTATTACTTTAAAAAATATCATAATTTCTA--A
* *
37263763 TTTTATAATTTTACATTATTTCAGTGCATCATGTTTGAAATTTATTAATTTAGTGTGTTA
62 TTTTATAATTTTACATTATTTCAGTGCATCATGTTTGAAATTTATTACTCTAGTGTGTTA
37263823 AGGGGGAATA
Statistics
Matches: 416, Mismatches: 20, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
318 2 0.00
319 227 0.55
320 186 0.45
321 1 0.00
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (318 bp):
CTGCCATTTGTTCGTATTTTTTCTCCGATTTTATTACTTTAAAAAATATCATAATTTCTAATTTT
ATAATTTTACATTATTTCAGTGCATCATGTTTGAAATTTATTACTCTAGTGTGTTATTTAAATTA
ATTTGATGTAAAAAAATAACCCTTACCCATGCCCTTTGCTCGTATTATTTTCTCGATTTTTATTA
CTTTAAATAAAAATATATTATTCTCGTATTTTATTATTTTATATTATTTCAGTACATTTTCTTTG
AAATATTTTGTATTAATTATTTCTGAATTTTATAAAAGTTAGTAATACACTCTTACTT
Found at i:37263735 original size:161 final size:160
Alignment explanation
Indices: 37263220--37263743 Score: 540
Period size: 161 Copynumber: 3.3 Consensus size: 160
37263210 ACCCTTACCC
* *
37263220 CTGCCCTTTGTTCGTATTATTTTCTCGATTTTTATTACTTTAAATAAAAATATATTATTCTCGTA
1 CTGCCATTTGTTCGTATTATTTTCTCCATTTTTATTACTTTAAATAAAAATATATTATTCTCGTA
* * * *
37263285 TTTTATTGTTTTATATTATTTTAGTATATTTTCTTTGAAATATTTTGTATTAATTGTTTCTGAAT
66 TTTTATTATTTTATATTATTTCAGTACATTTTCTTTGAAATATTTTGTATTAATTATTTCTGAAT
37263350 TTTATAAAAGTTAGTAATACACTCTTACTT
131 TTTATAAAAGTTAGTAATACACTCTTACTT
* *
37263380 TTGCCATTTGTTCGTATCT-TTTTCTCCGCA-TTTTATTACTTT--A-AAAAATATCATAATT-T
1 CTGCCATTTGTTCGTAT-TATTTTCT-C-CATTTTTATTACTTTAAATAAAAATAT-ATTATTCT
* * * ** * * * *
37263439 C-TAATTTTATAATTTTACATTATTTCAGTGCATCATGTTTGAAATTTATTACTCTAGTGT-GTT
62 CGT-ATTTTATTATTTTATATTATTTCAGTACATTTTCTTTGAAA--TATT-TTGTA-T-TAATT
* * * *
37263502 ATTTAAATTAATTTTATGTAAAA---A--AATA-ACCCTT-C-C
121 ATTT--CTGAATTTTA--TAAAAGTTAGTAATACACTCTTACTT
* * *
37263538 CATGCCCTTTGCTCGTATTATTTTCTCGATTTTTATTACTTTAAATAAAAATATATTATTCTCGT
1 C-TGCCATTTGTTCGTATTATTTTCTCCATTTTTATTACTTTAAATAAAAATATATTATTCTCGT
*
37263603 ATTTTTTTATTTTATATTATTTCAGTACATTTTCTTTGAAATATTTTGTATTAATTATTTCTGAA
65 ATTTTATTATTTTATATTATTTCAGTACATTTTCTTTGAAATATTTTGTATTAATTATTTCTGAA
*
37263668 TTTTATAAAAGTTAGTAATACACTTTTACTT
130 TTTTATAAAAGTTAGTAATACACTCTTACTT
* *
37263699 CTGTCATTTGTTCGTATTTTTTTCTCCATATTTTATTACTTTAAA
1 CTGCCATTTGTTCGTATTATTTTCTCCAT-TTTTATTACTTTAAA
37263744 AAATATCATA
Statistics
Matches: 286, Mismatches: 46, Indels: 63
0.72 0.12 0.16
Matches are distributed among these distances:
153 5 0.02
155 8 0.03
156 2 0.01
157 9 0.03
158 63 0.22
159 35 0.12
160 60 0.21
161 81 0.28
162 8 0.03
163 2 0.01
164 8 0.03
166 5 0.02
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.52
Consensus pattern (160 bp):
CTGCCATTTGTTCGTATTATTTTCTCCATTTTTATTACTTTAAATAAAAATATATTATTCTCGTA
TTTTATTATTTTATATTATTTCAGTACATTTTCTTTGAAATATTTTGTATTAATTATTTCTGAAT
TTTATAAAAGTTAGTAATACACTCTTACTT
Found at i:37264649 original size:26 final size:26
Alignment explanation
Indices: 37264612--37264685 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 26
37264602 TTACTTTTTT
37264612 TTTCTCTTTTTTTTCCTTC-CTTC-CC
1 TTTC-CTTTTTTTTCCTTCTCTTCTCC
*
37264637 TCTT-CTTCTTTTTT-TTTCTCTTCTCC
1 T-TTCCTT-TTTTTTCCTTCTCTTCTCC
37264663 TTTCCTTTTTTTTCCTTCT-TTCT
1 TTTCCTTTTTTTTCCTTCTCTTCT
37264686 TTCTTTTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
24 6 0.15
25 23 0.56
26 12 0.29
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTCCTTTTTTTTCCTTCTCTTCTCC
Found at i:37264659 original size:18 final size:18
Alignment explanation
Indices: 37264636--37264773 Score: 75
Period size: 18 Copynumber: 7.1 Consensus size: 18
37264626 CCTTCCTTCC
37264636 CTCTTCTTCTTTTTTTTT
1 CTCTTCTTCTTTTTTTTT
*
37264654 CTCTTCTCCTTTCCTTTTTT
1 CTCTTCTTCTTT--TTTTTT
*
37264674 TTCCTTCTTTCTTTCTTTTTT
1 CT-CTTC-TTCTTT-TTTTTT
*
37264695 CT-TCTCTT-TTCCTTTTCTT
1 CTCT-TCTTCTT--TTTTTTT
37264714 CTTCTTCTTTCTTTCTTTTTTT
1 C-TCTTC-TTC-TT-TTTTTTT
* **
37264736 CTCTTCTCCTTTCCTTTT
1 CTCTTCTTCTTTTTTTTT
*
37264754 CT-TTCCTTCTTTTTCTTT
1 CTCTT-CTTCTTTTTTTTT
37264772 CT
1 CT
37264774 TTCCTCTCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 26
0.71 0.10 0.20
Matches are distributed among these distances:
17 2 0.02
18 31 0.33
19 11 0.12
20 15 0.16
21 20 0.21
22 13 0.14
23 2 0.02
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
CTCTTCTTCTTTTTTTTT
Found at i:37264673 original size:21 final size:21
Alignment explanation
Indices: 37264647--37264763 Score: 111
Period size: 21 Copynumber: 5.7 Consensus size: 21
37264637 TCTTCTTCTT
37264647 TTTTTTTCTCTTCTCCTTTCC
1 TTTTTTTCTCTTCTCCTTTCC
*
37264668 TTTTTTT-TC--CTTCTTT-C
1 TTTTTTTCTCTTCTCCTTTCC
* *
37264685 TTTCTTTTTTCTTCTCTTTTCC
1 TTT-TTTTCTCTTCTCCTTTCC
* *
37264707 TTTTCTTCTTCTTCTTTCTTT-C
1 TTTTTTTC-TCTTC-TCCTTTCC
37264729 TTTTTTTCTCTTCTCCTTTCC
1 TTTTTTTCTCTTCTCCTTTCC
37264750 TTTTCTTTC-CTTCT
1 TTTT-TTTCTCTTCT
37264764 TTTTCTTTCT
Statistics
Matches: 78, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
17 4 0.05
18 10 0.13
19 2 0.03
20 7 0.09
21 30 0.38
22 21 0.27
23 4 0.05
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTTTCTCTTCTCCTTTCC
Found at i:37264674 original size:22 final size:22
Alignment explanation
Indices: 37264646--37264763 Score: 105
Period size: 22 Copynumber: 5.7 Consensus size: 22
37264636 CTCTTCTTCT
37264646 TTTTTTTTCTCTTCTCCTTTCC
1 TTTTTTTTCTCTTCTCCTTTCC
37264668 TTTTTTTTC-C-T-T-CTTT-C
1 TTTTTTTTCTCTTCTCCTTTCC
*
37264685 TTTCTTTTT-TCTTCTCTTTTCC
1 TTT-TTTTTCTCTTCTCCTTTCC
37264707 TTTTCTTCTTCTTCTT-T-CTTT-C
1 TTTT-TT-TTC-TCTTCTCCTTTCC
37264729 -TTTTTTTCTCTTCTCCTTTCC
1 TTTTTTTTCTCTTCTCCTTTCC
*
37264750 TTTTCTTTC-CTTCT
1 TTTTTTTTCTCTTCT
37264764 TTTTCTTTCT
Statistics
Matches: 79, Mismatches: 3, Indels: 29
0.71 0.03 0.26
Matches are distributed among these distances:
17 4 0.05
18 14 0.18
19 6 0.08
20 8 0.10
21 14 0.18
22 23 0.29
23 5 0.06
24 1 0.01
25 4 0.05
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTTTCTCTTCTCCTTTCC
Found at i:37264685 original size:4 final size:4
Alignment explanation
Indices: 37264673--37264806 Score: 93
Period size: 4 Copynumber: 33.0 Consensus size: 4
37264663 TTTCCTTTTT
*
37264673 TTTC CTTC TTTC TTTC TTT- TTTC TTCTC TTTTCC TTT- TCTTC -TTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTT-C TTTC T-TTC TTTC
* * *
37264718 -TTC TTTC TTTC TTTT TTTC TCTTC -TCC TTTCC TTTTC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC TTTC TTTC
*
37264765 TTTC TTTC TTTCC TCTC ATTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTT-C TTTC -TTTC TTTC TTTC TTTC TTTC TTTC
37264807 CCTCTCCTTC
Statistics
Matches: 106, Mismatches: 9, Indels: 30
0.73 0.06 0.21
Matches are distributed among these distances:
3 16 0.15
4 67 0.63
5 17 0.16
6 6 0.06
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:37264692 original size:44 final size:44
Alignment explanation
Indices: 37264642--37264775 Score: 163
Period size: 44 Copynumber: 3.1 Consensus size: 44
37264632 TTCCCTCTTC
37264642 TTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTTTTCCTTCTTTCT
1 TTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTTTTCCTTCTTTCT
* * * *
37264686 TTCTTTTTTCTTCTCTTTTCC-TT--TTCTTCTT-CTTCTTTCT
1 TTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTTTTCCTTCTTTCT
*
37264726 TTC--TTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCT
1 TTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTTTTCCTTC--TTTCT
37264770 TTCTTT
1 TTCTTT
37264776 CCTCTCATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
38 14 0.19
39 2 0.03
40 12 0.16
41 11 0.15
42 4 0.05
43 2 0.03
44 27 0.37
46 1 0.01
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (44 bp):
TTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTTTTCCTTCTTTCT
Found at i:37264704 original size:29 final size:28
Alignment explanation
Indices: 37264655--37264806 Score: 92
Period size: 28 Copynumber: 5.6 Consensus size: 28
37264645 TTTTTTTTTC
* *
37264655 TCTTCTCCTTTCCTTTTTTTTCCTTCT-T
1 TCTTCTTCTTT-CTTTCTTTTCCTTCTCT
* *
37264683 TCTTTCTTTTTTCTTCTCTTTTCCTTTTCT
1 TC-TTCTTCTTTCTT-TCTTTTCCTTCTCT
37264713 TCTTCTTCTTTCTTTCTTTT--TT-TC-
1 TCTTCTTCTTTCTTTCTTTTCCTTCTCT
*
37264737 TCTTCTCCTTTCCTTT-TCTTTCCTTCT-T
1 TCTTCTTCTTT-CTTTCT-TTTCCTTCTCT
* * *
37264765 T-TTCTTTCTTTCCTCTCATTTCTTTCT-T
1 TCTTC-TTCTTT-CTTTCTTTTCCTTCTCT
37264793 TC-T-TTCTTTCTTTC
1 TCTTCTTCTTTCTTTC
37264807 CCTCTCCTTC
Statistics
Matches: 101, Mismatches: 11, Indels: 27
0.73 0.08 0.19
Matches are distributed among these distances:
24 11 0.11
25 13 0.13
26 8 0.08
27 5 0.05
28 33 0.33
29 28 0.28
30 3 0.03
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.70
Consensus pattern (28 bp):
TCTTCTTCTTTCTTTCTTTTCCTTCTCT
Found at i:37264756 original size:40 final size:40
Alignment explanation
Indices: 37264608--37264806 Score: 155
Period size: 40 Copynumber: 5.0 Consensus size: 40
37264598 AAAATTACTT
** * * * *
37264608 TTTTTTTCTCTT-TTTTTTCCTTCCTTCCCTC-TTCTTCTT
1 TTTTTTTCTCTTCTCCTTTCTTTTCTTCCTTCTTTCTT-TC
*
37264647 TTTTTTTCTCTTCTCCTTTCCTTTTTTTTCCTTCTTTCTTTC
1 TTTTTTTCTCTTCTCCTTT-C-TTTTCTTCCTTCTTTCTTTC
* *
37264689 TTTTTTCTTCTCTTTTCCTTT-TCTTCTT-CTTCTTTCTTTC
1 -TTTTT-TTCTCTTCTCCTTTCTTTTCTTCCTTCTTTCTTTC
37264729 TTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTC-TT-TTTC
1 TTTTTTTCTCTTCTCCTTT-CTTTTC-TTCCTTCTTTCTTTC
* * *
37264769 TTTCTTTC-C-TCTCATTTC-TTTCTTTCTTTCTTTCTTTC
1 TTTTTTTCTCTTCTCCTTTCTTTTC-TTCCTTCTTTCTTTC
37264807 CCTCTCCTTC
Statistics
Matches: 133, Mismatches: 15, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
36 11 0.08
37 3 0.02
38 24 0.18
39 18 0.14
40 31 0.23
41 10 0.08
42 13 0.10
43 10 0.08
44 13 0.10
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (40 bp):
TTTTTTTCTCTTCTCCTTTCTTTTCTTCCTTCTTTCTTTC
Found at i:37264774 original size:18 final size:18
Alignment explanation
Indices: 37264662--37264801 Score: 85
Period size: 18 Copynumber: 7.7 Consensus size: 18
37264652 TTCTCTTCTC
* *
37264662 CTTTCCTTTTTTTTCCTT
1 CTTTCCTTCTTTTTCTTT
*
37264680 CTTTCTTTCTTTTTTCTTCT
1 CTTTCCTTC-TTTTTCTT-T
*
37264700 CTTTTCCTT-TTCTTCTTCTT
1 C-TTTCCTTCTTTTTC-T-TT
*
37264720 CTTTCTTTC-TTTT-TTT
1 CTTTCCTTCTTTTTCTTT
* *
37264736 CTCTT-C-TCCTTTCCTTTT
1 CT-TTCCTTCTTTTTC-TTT
37264754 CTTTCCTTCTTTTTCTTT
1 CTTTCCTTCTTTTTCTTT
*
37264772 CTTTCC-TCTCATTTCTTT
1 CTTTCCTTCT-TTTTCTTT
*
37264790 CTTTCTTTCTTT
1 CTTTCCTTCTTT
37264802 CTTTCCCTCT
Statistics
Matches: 94, Mismatches: 14, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
15 2 0.02
16 7 0.07
17 8 0.09
18 35 0.37
19 30 0.32
20 5 0.05
21 7 0.07
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
CTTTCCTTCTTTTTCTTT
Found at i:37264803 original size:48 final size:47
Alignment explanation
Indices: 37264685--37264817 Score: 128
Period size: 48 Copynumber: 2.8 Consensus size: 47
37264675 TCCTTCTTTC
* **
37264685 TTTCTTT-TTTCTTCTCTTTTCCTTTTCTTCTTCTTCTTTCTTTCTTTT
1 TTTCTTTCTTTCTT-TCTTTT-CTTTCCTTCTTCTTCTTTCTTTCTTCA
* *
37264733 TTTCTCTTC-TCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCA
1 TTTCT-TTCTTTCTTT-CTTTTCTTTCCTTCTTCTTCTTTCTTT-CT-TCA
* *
37264783 TTTCTTTCTTTCTTTC-TTTCTTTCCCTCTCCTTCT
1 TTTCTTTCTTTCTTTCTTTTCTTTCCTTCTTCTTCT
37264818 GCCCCCCACC
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
48 42 0.60
49 17 0.24
50 11 0.16
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (47 bp):
TTTCTTTCTTTCTTTCTTTTCTTTCCTTCTTCTTCTTTCTTTCTTCA
Found at i:37264879 original size:27 final size:27
Alignment explanation
Indices: 37264849--37264916 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
37264839 TATTATTAAG
37264849 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* * *
37264876 TGGTGCCGCCAATAGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
37264903 TGGTGCCGCCAATG
1 TGGTGCCGCCAATG
37264917 CCATTGGCGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Found at i:37265019 original size:27 final size:29
Alignment explanation
Indices: 37264989--37265060 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 29
37264979 TTTGTTTTTT
37264989 TATATATTTTGGTAAAT-AAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
*
37265016 TATATTTTTTGGTAAATAAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
37265045 TA-ATATTTTGGTAAAT
1 TATATATTTTGGTAAAT
37265061 TTTTATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 16 0.39
28 20 0.49
29 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (29 bp):
TATATATTTTGGTAAATAAAAAAAAGTTA
Found at i:37266081 original size:18 final size:17
Alignment explanation
Indices: 37266024--37266097 Score: 69
Period size: 18 Copynumber: 4.1 Consensus size: 17
37266014 ACACATAAAT
*
37266024 AAATAAATATCAAATAA
1 AAATAAATATAAAATAA
*
37266041 GACAAT-AATATCAATAATGA
1 -A-AATAAATAT-AA-AATAA
37266061 AAATAAATTATAAAACTAA
1 AAATAAA-TATAAAA-TAA
37266080 AAATAAATATAAAATAA
1 AAATAAATATAAAATAA
37266097 A
1 A
37266098 GATCTATGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
17 4 0.09
18 18 0.38
19 18 0.38
20 7 0.15
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (17 bp):
AAATAAATATAAAATAA
Found at i:37269421 original size:13 final size:13
Alignment explanation
Indices: 37269403--37269429 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37269393 ATAATATATT
37269403 TATTAATTAAAAA
1 TATTAATTAAAAA
37269416 TATTAATTAAAAA
1 TATTAATTAAAAA
37269429 T
1 T
37269430 TAAAAAAAAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:37269661 original size:137 final size:137
Alignment explanation
Indices: 37269427--37269742 Score: 524
Period size: 137 Copynumber: 2.3 Consensus size: 137
37269417 ATTAATTAAA
* *
37269427 AATTAAAAAAAAACTTGAAACAACATGAAATAAAAAAAAATACATTAATATGCTTATAAAAATAA
1 AATTAAAAAAAAGCTTGAAGCAACATGAAAT---AAAAAATACATTAATATGCTTATAAAAATAA
* * * *
37269492 TGGAACTTGAGACTTAAAGATGTAATCGCAATTATCTAACTATTTAATCAAATGAGTTAATATGT
63 TAGAACTTGAGACTCAAAGATGTAATCACAATTATCTAACCATTTAATCAAATGAGTTAATATGT
37269557 TAAAAATATT
128 TAAAAATATT
37269567 AATTAAAAAAAAGCTTGAAGCAACATGAAATAAAAAATACATTAATATGCTTATAAAAATAATAG
1 AATTAAAAAAAAGCTTGAAGCAACATGAAATAAAAAATACATTAATATGCTTATAAAAATAATAG
*
37269632 AACTTGAGACTCAAGGATGTAATCACAATTATCTAACCATTTAATCAAATGAGTTAATATGTTAA
66 AACTTGAGACTCAAAGATGTAATCACAATTATCTAACCATTTAATCAAATGAGTTAATATGTTAA
37269697 AAATATT
131 AAATATT
* *
37269704 AATTAAAAAAAAGGTTGAAGCAACATGAACTAAAAAATA
1 AATTAAAAAAAAGCTTGAAGCAACATGAAATAAAAAATA
37269743 TAAATGTGAG
Statistics
Matches: 167, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
137 138 0.83
140 29 0.17
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (137 bp):
AATTAAAAAAAAGCTTGAAGCAACATGAAATAAAAAATACATTAATATGCTTATAAAAATAATAG
AACTTGAGACTCAAAGATGTAATCACAATTATCTAACCATTTAATCAAATGAGTTAATATGTTAA
AAATATT
Found at i:37270091 original size:26 final size:26
Alignment explanation
Indices: 37270062--37270114 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
37270052 CTAGTTTTTT
* *
37270062 ATTGCTTTTGAAAAGT-ACTTTTGAAA
1 ATTGCTGTTAAAAAGTGA-TTTTGAAA
37270088 ATTGCTGTTAAAAAGTGATTTTGAAA
1 ATTGCTGTTAAAAAGTGATTTTGAAA
37270114 A
1 A
37270115 ATTTGATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (26 bp):
ATTGCTGTTAAAAAGTGATTTTGAAA
Found at i:37270355 original size:32 final size:34
Alignment explanation
Indices: 37270313--37270375 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 34
37270303 AACCATTAAA
* *
37270313 TATTTGTAATTAGT-ATTTTAA-AAAATATTTTT
1 TATTTATAATTAATGATTTTAACAAAATATTTTT
*
37270345 TATTTATAATTAATGATTTTAACACAATATT
1 TATTTATAATTAATGATTTTAACAAAATATT
37270376 GTAAATAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 12 0.46
33 7 0.27
34 7 0.27
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (34 bp):
TATTTATAATTAATGATTTTAACAAAATATTTTT
Found at i:37271503 original size:23 final size:23
Alignment explanation
Indices: 37271461--37271510 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
37271451 AATTTAAAGT
*
37271461 TTAAATAATATTCTTCAAATATTA
1 TTAAAAAATATTCTTCAAATA-TA
*
37271485 TTAAAAAATA-TCTTTAAATATA
1 TTAAAAAATATTCTTCAAATATA
37271507 TTAA
1 TTAA
37271511 CAATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.25
23 9 0.38
24 9 0.38
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (23 bp):
TTAAAAAATATTCTTCAAATATA
Found at i:37273349 original size:21 final size:25
Alignment explanation
Indices: 37273325--37273382 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
37273315 TTTTTCAATG
37273325 TATTTATTTTAAA-C-TT-TA-TAT
1 TATTTATTTTAAATCGTTCTATTAT
37273346 TATTTATTTTAAATCGTTCTATTAT
1 TATTTATTTTAAATCGTTCTATTAT
37273371 TATTTATTTTAA
1 TATTTATTTTAA
37273383 GTTTTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 13 0.39
22 1 0.03
23 2 0.06
24 2 0.06
25 15 0.45
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (25 bp):
TATTTATTTTAAATCGTTCTATTAT
Found at i:37273630 original size:28 final size:26
Alignment explanation
Indices: 37273593--37273777 Score: 124
Period size: 28 Copynumber: 7.3 Consensus size: 26
37273583 TTTTTACATA
37273593 TTATTTTAAATTGTTTTCTATGTTAT
1 TTATTTTAAATTGTTTTCTATGTTAT
* * *
37273619 TTATTTTTTAAATTGCTTT-GAAGATTAT
1 TTA--TTTTAAATTGTTTTCTATG-TTAT
* *
37273647 TCATTTTAACTTGTTTTAC-A---TA-
1 TTATTTTAAATTGTTTT-CTATGTTAT
37273669 TTATTTTAAATTGTTTTCTATGTTAT
1 TTATTTTAAATTGTTTTCTATGTTAT
* * *
37273695 TTATTTTTTAAATTGCTTT-GAAGATTAT
1 TTA--TTTTAAATTGTTTTCTATG-TTAT
* *
37273723 TCATTTTAACTTGTTTTAC-A---TA-
1 TTATTTTAAATTGTTTT-CTATGTTAT
37273745 TTATTTTAAATTGTTTTCTATGTTAT
1 TTATTTTAAATTGTTTTCTATGTTAT
37273771 TTATTTT
1 TTATTTT
37273778 TTAAATTGCT
Statistics
Matches: 123, Mismatches: 16, Indels: 40
0.69 0.09 0.22
Matches are distributed among these distances:
21 2 0.02
22 32 0.26
23 4 0.03
25 4 0.03
26 37 0.30
27 6 0.05
28 38 0.31
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.61
Consensus pattern (26 bp):
TTATTTTAAATTGTTTTCTATGTTAT
Found at i:37273639 original size:76 final size:76
Alignment explanation
Indices: 37273567--37273826 Score: 488
Period size: 76 Copynumber: 3.4 Consensus size: 76
37273557 CTTTTGACAT
*
37273567 ATTATTTATTTTAAAC-T-TTTTACATATTATTTTAAATTGTTTTCTATGTTATTTATTTTTTAA
1 ATTATTCATTTT-AACTTGTTTTACATATTATTTTAAATTGTTTTCTATGTTATTTATTTTTTAA
37273630 ATTGCTTTGAAG
65 ATTGCTTTGAAG
37273642 ATTATTCATTTTAACTTGTTTTACATATTATTTTAAATTGTTTTCTATGTTATTTATTTTTTAAA
1 ATTATTCATTTTAACTTGTTTTACATATTATTTTAAATTGTTTTCTATGTTATTTATTTTTTAAA
37273707 TTGCTTTGAAG
66 TTGCTTTGAAG
37273718 ATTATTCATTTTAACTTGTTTTACATATTATTTTAAATTGTTTTCTATGTTATTTATTTTTTAAA
1 ATTATTCATTTTAACTTGTTTTACATATTATTTTAAATTGTTTTCTATGTTATTTATTTTTTAAA
37273783 TTGCTTTGAAG
66 TTGCTTTGAAG
37273794 ATTATTCATTTTAACTTGTTTTACATATTATTT
1 ATTATTCATTTTAACTTGTTTTACATATTATTT
37273827 GCTTTAAATC
Statistics
Matches: 182, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
74 3 0.02
75 12 0.07
76 167 0.92
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (76 bp):
ATTATTCATTTTAACTTGTTTTACATATTATTTTAAATTGTTTTCTATGTTATTTATTTTTTAAA
TTGCTTTGAAG
Found at i:37273860 original size:152 final size:150
Alignment explanation
Indices: 37273567--37273861 Score: 445
Period size: 152 Copynumber: 1.9 Consensus size: 150
37273557 CTTTTGACAT
*
37273567 ATTATTTATTTTAAACTTTTTACATATTATTTTAAATTGTTTTCTATGTTATTTATTTTTTAAAT
1 ATTATTCATTTTAAACTTTTTACATATTATTTTAAATTGTTTTCTATGTTATTTATTTTTTAAAT
* **
37273632 TGCTTTGAAGATTATTCATTTTAACTTGTTTTACATATTATTTTAAATTGTTTTCTATGTTATTT
66 TGCTTTGAAGATTATTCATTTTAACTTGTTTTACATATTATTTTAAATCGTTTTCTATACTATTT
**
37273697 ATTTTTTAAATTGCTTTGAAG
131 A-TTTCCAAATTGCTTTGAAG
37273718 ATTATTCATTTT-AACTTGTTTTACATATTATTTTAAATTGTTTTCTATGTTATTTATTTTTTAA
1 ATTATTCATTTTAAAC-T-TTTTACATATTATTTTAAATTGTTTTCTATGTTATTTATTTTTTAA
37273782 ATTGCTTTGAAGATTATTCATTTTAACTTGTTTTACATATTATTTGCTTTAAATCG-TTT-TATA
64 ATTGCTTTGAAGATTATTCATTTTAACTTGTTTTACATATTA--T--TTTAAATCGTTTTCTATA
37273845 CTATTTA-TTCCAAATTG
125 CTATTTATTTCCAAATTG
37273862 TTCTATATAT
Statistics
Matches: 132, Mismatches: 6, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
150 3 0.02
151 12 0.09
152 96 0.73
154 10 0.08
155 3 0.02
156 8 0.06
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.58
Consensus pattern (150 bp):
ATTATTCATTTTAAACTTTTTACATATTATTTTAAATTGTTTTCTATGTTATTTATTTTTTAAAT
TGCTTTGAAGATTATTCATTTTAACTTGTTTTACATATTATTTTAAATCGTTTTCTATACTATTT
ATTTCCAAATTGCTTTGAAG
Found at i:37277707 original size:5 final size:5
Alignment explanation
Indices: 37277695--37277729 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
37277685 TTCACTTGAA
*
37277695 AAAAG AAATG AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
37277730 GAGAGGCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:37278489 original size:15 final size:15
Alignment explanation
Indices: 37278450--37278490 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
37278440 TGACATTCTA
*
37278450 CATTCATACAAATAT
1 CATTCATGCAAATAT
37278465 CATTCAATGCAAATAT
1 CATTC-ATGCAAATAT
37278481 CATTCATGCA
1 CATTCATGCA
37278491 CATCTAGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (15 bp):
CATTCATGCAAATAT
Found at i:37278716 original size:45 final size:45
Alignment explanation
Indices: 37278652--37279113 Score: 598
Period size: 45 Copynumber: 10.3 Consensus size: 45
37278642 TGAAGTCATT
* *
37278652 ATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGA-TCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-AAAG
*
37278697 ATAGCA-AGTCTTGTCTTCCTATATTGGCAGCGAAGTAGACTAAAG
1 ATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTAAAG
*
37278742 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-TCAAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-AAAG
* *
37278787 ATAGCA-AGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGACTGAAG
1 ATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTAAAG
*
37278832 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGACTAAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTAAAG
* * *
37278877 ATAGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGACTGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTAAAG
*
37278922 ATAGCAGATCTGGTCTTCCTGTATTGGCAGCGAAGTAGA-TCAAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-AAAG
* * *
37278967 ATAGCA-AGTCTTGTCTTCCTGTATTGGTAGTGAAGTAGACTGAAG
1 ATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTAAAG
* * *
37279012 ATAGCAGATCTTATCTTCCGGTATTGGCAGCGAAGTAGA-TCAAAT
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-AAAG
* * * *
37279057 ATAGCA-AGTCTTGTCTTTCTGTATTGACAGTGAAGTAGACTGAAG
1 ATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTAAAG
*
37279102 ATAACAGATCTT
1 ATAGCAGATCTT
37279114 ACTTTCCTGC
Statistics
Matches: 369, Mismatches: 33, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
44 7 0.02
45 354 0.96
46 8 0.02
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (45 bp):
ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTAAAG
Found at i:37279114 original size:90 final size:90
Alignment explanation
Indices: 37278652--37279113 Score: 730
Period size: 90 Copynumber: 5.1 Consensus size: 90
37278642 TGAAGTCATT
* *
37278652 ATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTCTTGTCTTCCT
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAGTCTTGTCTTCCT
* * *
37278717 ATATTGGCAGCGAAGTAGACTAAAG
66 GTATTGGCAGTGAAGTAGACTGAAG
*
37278742 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCAAAGATAGCAAGTCTTGTCTTCCT
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAGTCTTGTCTTCCT
**
37278807 GTATTGGCAGCAAAGTAGACTGAAG
66 GTATTGGCAGTGAAGTAGACTGAAG
* *
37278832 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-CTAAAGATAG-TAGATCTTGTCTTC
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-AAAGATAGCAAG-TCTTGTCTTC
37278895 CTGTATTGGCAGTGAAGTAGACTGAAG
64 CTGTATTGGCAGTGAAGTAGACTGAAG
*
37278922 ATAGCAGATCTGGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAGTCTTGTCTTCCT
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAGTCTTGTCTTCCT
*
37278987 GTATTGGTAGTGAAGTAGACTGAAG
66 GTATTGGCAGTGAAGTAGACTGAAG
* * * *
37279012 ATAGCAGATCTTATCTTCCGGTATTGGCAGCGAAGTAGATCAAATATAGCAAGTCTTGTCTTTCT
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAGTCTTGTCTTCCT
*
37279077 GTATTGACAGTGAAGTAGACTGAAG
66 GTATTGGCAGTGAAGTAGACTGAAG
*
37279102 ATAACAGATCTT
1 ATAGCAGATCTT
37279114 ACTTTCCTGC
Statistics
Matches: 347, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
89 3 0.01
90 341 0.98
91 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (90 bp):
ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAGTCTTGTCTTCCT
GTATTGGCAGTGAAGTAGACTGAAG
Found at i:37279227 original size:50 final size:50
Alignment explanation
Indices: 37279169--37279541 Score: 286
Period size: 50 Copynumber: 7.5 Consensus size: 50
37279159 ACAGCAAAGA
* * *
37279169 AGATTGAAGCCGCAATGGCGAATCTTACTCCCCTGGCGGTGCAGTGGAAC
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
*** * * * * * ** *
37279219 AGATTGAAGCTATAACGACGAATCTTGCTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* * * *
37279269 AGATTGAAGCCGCAACGGTGAATCTTACTCCCCTGGCGGTGCAGTGGAAT
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
** * * * * * *
37279319 AGATTGAAGCTACGACAGTGAATCTTATTTCCCTGACA-TCGCAGT-TAA-
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGT-GCAGTGGAAC
** * *
37279367 AGATTGAAGCCGCAACGGTAAATCTTACTTCCCTGGCAATGCAGTGGAGC
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
** * * ** * * ** *
37279417 AGATTGAAGCTACGACGGCGAATCTTACTTCCCCGATACTGCAATTAAAA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* *
37279467 AGATTGAAGTCGCAACGG-GAATCTTACTTCCCTGGCGGTGCAGTGGAAC
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* ** *
37279516 AAATTGAAGCTACAACGACGAATCTT
1 AGATTGAAGCCGCAACGGCGAATCTT
37279542 GTTCCCCGAC
Statistics
Matches: 240, Mismatches: 78, Indels: 10
0.73 0.24 0.03
Matches are distributed among these distances:
48 36 0.15
49 40 0.17
50 164 0.68
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
Found at i:37279342 original size:100 final size:100
Alignment explanation
Indices: 37279168--37279559 Score: 515
Period size: 100 Copynumber: 4.0 Consensus size: 100
37279158 TACAGCAAAG
* * *
37279168 AAGATTGAAGCCGCAATGGCGAATCTTACTCCCCTGGCGGTGCAGTGGAACAGATTGAAGCTATA
1 AAGATTGAAGCCGCAACGGTGAATCTTACTCCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACA
* *
37279233 ACGACGAATCTTGCTTCCCTGACATTGCAATTAAA
66 ACGACGAATCTTACTTCCCCGACATTGCAATTAAA
* *
37279268 AAGATTGAAGCCGCAACGGTGAATCTTACTCCCCTGGCGGTGCAGTGGAATAGATTGAAGCTACG
1 AAGATTGAAGCCGCAACGGTGAATCTTACTCCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACA
* * * * *
37279333 AC-AGTGAATCTTATTTCCCTGACATCGCAGTT--A
66 ACGA-CGAATCTTACTTCCCCGACATTGCAATTAAA
* * ** * *
37279366 AAGATTGAAGCCGCAACGGTAAATCTTACTTCCCTGGCAATGCAGTGGAGCAGATTGAAGCTACG
1 AAGATTGAAGCCGCAACGGTGAATCTTACTCCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACA
* * *
37279431 ACGGCGAATCTTACTTCCCCGATACTGCAATTAAA
66 ACGACGAATCTTACTTCCCCGACATTGCAATTAAA
* * *
37279466 AAGATTGAAGTCGCAACGG-GAATCTTACTTCCCTGGCGGTGCAGTGGAACAAATTGAAGCTACA
1 AAGATTGAAGCCGCAACGGTGAATCTTACTCCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACA
*
37279530 ACGACGAATCTT-GTTCCCCGACATTGCAAT
66 ACGACGAATCTTACTTCCCCGACATTGCAAT
37279560 CAATTTGAAA
Statistics
Matches: 253, Mismatches: 35, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
98 98 0.39
99 51 0.20
100 104 0.41
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (100 bp):
AAGATTGAAGCCGCAACGGTGAATCTTACTCCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACA
ACGACGAATCTTACTTCCCCGACATTGCAATTAAA
Found at i:37279805 original size:129 final size:127
Alignment explanation
Indices: 37279575--37279871 Score: 450
Period size: 129 Copynumber: 2.3 Consensus size: 127
37279565 TGAAAGAAAT
* * * *
37279575 CAATCATATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAACCACAAATCTTATCTCCTTAAATAG
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCACCCTAAATAG
* * *
37279640 TAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACAGAAAAAAAAC
66 TAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGCAGCAGAC--AAAAAAAAC
* * *
37279704 CAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCACCCTAAGTAG
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCACCCTAAATAG
* *
37279769 TAGTGGAGCAGATCACATCAAGTCTTATCTCTCTAAGCAGTAGTGCAGCAGACAAAAGAAAC
66 TAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGCAGCAGACAAAAAAAAC
* *
37279831 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
37279872 GATGAATCAT
Statistics
Matches: 153, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
127 46 0.30
129 107 0.70
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (127 bp):
CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCACCCTAAATAG
TAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGCAGCAGACAAAAAAAAC
Found at i:37281497 original size:21 final size:23
Alignment explanation
Indices: 37281468--37281531 Score: 89
Period size: 25 Copynumber: 2.8 Consensus size: 23
37281458 TTGCAATGTA
37281468 TTTAT-TTATTTATTTTAAA-C-
1 TTTATATTATTTATTTTAAATCG
37281488 TTTATATTATTTATTTTAAATCG
1 TTTATATTATTTATTTTAAATCG
37281511 TTCTATTATTATTTATTTTAA
1 TT-TA-TATTATTTATTTTAA
37281532 GTTTTTTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.13
21 14 0.36
22 1 0.03
23 2 0.05
24 2 0.05
25 15 0.38
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTATATTATTTATTTTAAATCG
Found at i:37286674 original size:15 final size:15
Alignment explanation
Indices: 37286654--37286723 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
37286644 ACTCCCTTAA
37286654 AAATAATAAAATTTT
1 AAATAATAAAATTTT
*
37286669 AAATAATCTATAATTTTT
1 AAATAA--TA-AAATTTT
** * *
37286687 TCATAACAAAATTTG
1 AAATAATAAAATTTT
**
37286702 ACCTAATAAAATTTT
1 AAATAATAAAATTTT
37286717 AAATAAT
1 AAATAAT
37286724 CATTTCGTCC
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
15 27 0.68
16 1 0.03
17 2 0.05
18 10 0.25
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.40
Consensus pattern (15 bp):
AAATAATAAAATTTT
Found at i:37291826 original size:62 final size:59
Alignment explanation
Indices: 37291712--37291827 Score: 144
Period size: 59 Copynumber: 1.9 Consensus size: 59
37291702 AAAAAATCAA
*
37291712 AAATAAATAATAAAAAGTAAATTAAAGTTAAAATATATTTAAAATTAATTTTTTGATAC
1 AAATAAATAATAAAAAGTAAATTAAAATTAAAATATATTTAAAATTAATTTTTTGATAC
* * * *
37291771 AAATAAATAATAAATATTCAAATTAAAAATTAAAA-ATTATTTTTAAATTTATTTTTT
1 AAATAAATAATAAAAAGT-AAATT-AAAATTAAAATA-TA-TTTAAAATTAATTTTTT
37291828 ATGGTACCGG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
59 16 0.33
60 6 0.12
61 11 0.23
62 15 0.31
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (59 bp):
AAATAAATAATAAAAAGTAAATTAAAATTAAAATATATTTAAAATTAATTTTTTGATAC
Found at i:37292280 original size:23 final size:23
Alignment explanation
Indices: 37292254--37292300 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
37292244 TGCCCTCATC
37292254 TCTGCCCTCTGCTGGTTCTTTGT
1 TCTGCCCTCTGCTGGTTCTTTGT
* *
37292277 TCTGCCCTTTGCTTGTTCTTTGT
1 TCTGCCCTCTGCTGGTTCTTTGT
37292300 T
1 T
37292301 TCTCTGCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.00, C:0.28, G:0.19, T:0.53
Consensus pattern (23 bp):
TCTGCCCTCTGCTGGTTCTTTGT
Found at i:37294114 original size:14 final size:14
Alignment explanation
Indices: 37294095--37294146 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
37294085 TACCATTTTG
37294095 AAACAATTATTGGC
1 AAACAATTATTGGC
37294109 AAACAATT-TT-G-
1 AAACAATTATTGGC
37294120 AAACAATTATTGGC
1 AAACAATTATTGGC
37294134 AAACAATTATTGG
1 AAACAATTATTGG
37294147 AACAAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 8 0.23
12 3 0.09
13 3 0.09
14 21 0.60
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (14 bp):
AAACAATTATTGGC
Found at i:37294117 original size:25 final size:25
Alignment explanation
Indices: 37294089--37294151 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
37294079 AGTTCATACC
37294089 ATTTTGAAACAATTATTGGCAAACA
1 ATTTTGAAACAATTATTGGCAAACA
37294114 ATTTTGAAACAATTATTGGCAAACA
1 ATTTTGAAACAATTATTGGCAAACA
*
37294139 ATTATTGGAACAA
1 ATT-TTGAAACAA
37294152 AAATATGACA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 28 0.78
26 8 0.22
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (25 bp):
ATTTTGAAACAATTATTGGCAAACA
Found at i:37294166 original size:27 final size:25
Alignment explanation
Indices: 37294089--37294167 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
37294079 AGTTCATACC
** *
37294089 ATTTTGAAACAATTATTGGCAAACA
1 ATTTTGAAACAAAAATTGACAAACA
** *
37294114 ATTTTGAAACAATTATTGGCAAACA
1 ATTTTGAAACAAAAATTGACAAACA
*
37294139 ATTATTGGAACAAAAATATGACAAACA
1 ATT-TTGAAACAAAAAT-TGACAAACA
37294166 AT
1 AT
37294168 GTGCATTGTC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 28 0.58
26 10 0.21
27 10 0.21
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.29
Consensus pattern (25 bp):
ATTTTGAAACAAAAATTGACAAACA
Found at i:37294614 original size:13 final size:13
Alignment explanation
Indices: 37294593--37294643 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
37294583 ATACTCAAAT
37294593 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
37294606 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
37294619 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
37294632 TTCTTAAAAGCA
1 TTCTCAAAAGCA
37294644 ATGAAGAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.25
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:37294622 original size:26 final size:26
Alignment explanation
Indices: 37294593--37294643 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
37294583 ATACTCAAAT
37294593 TTCTCAAAAGCACTTCTGAAAAGCAC
1 TTCTCAAAAGCACTTCTGAAAAGCAC
*
37294619 TTCTCAAAAGCACTTCTTAAAAGCA
1 TTCTCAAAAGCACTTCTGAAAAGCA
37294644 ATGAAGAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.25
Consensus pattern (26 bp):
TTCTCAAAAGCACTTCTGAAAAGCAC
Found at i:37295971 original size:20 final size:20
Alignment explanation
Indices: 37295948--37295993 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
37295938 CCAGCTCGAA
*
37295948 TTAGCTCACATGAGCTTAAT
1 TTAGCTCACATGAGCTCAAT
***
37295968 TTAGCTCGTTTGAGCTCAAT
1 TTAGCTCACATGAGCTCAAT
37295988 TTAGCT
1 TTAGCT
37295994 TACTTTAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
TTAGCTCACATGAGCTCAAT
Found at i:37295975 original size:30 final size:30
Alignment explanation
Indices: 37295940--37296013 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
37295930 AGTTTTTCCC
37295940 AGCTCGAATT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-ATTGAGCTCA-ATTGAGCTTAATTT
* * *
37295970 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGATTGAGCTCAATTGAGCTTAATTT
*
37296000 AGCTCGTTTGAGCT
1 AGCTCGATTGAGCT
37296014 TGGCTTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 36 0.92
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (30 bp):
AGCTCGATTGAGCTCAATTGAGCTTAATTT
Found at i:37296256 original size:20 final size:20
Alignment explanation
Indices: 37296210--37296256 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
37296200 AGCTCGTTTC
*
37296210 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
37296230 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
37296250 CAGCTCA
1 CAGCTCA
37296257 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:37299423 original size:57 final size:57
Alignment explanation
Indices: 37299335--37299450 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
37299325 AACATTCAAA
37299335 ACTTCACGTCATACTTTATTTACTTTTCAAATTAGTCGCTTTCTACTACTATAATAT
1 ACTTCACGTCATACTTTATTTACTTTTCAAATTAGTCGCTTTCTACTACTATAATAT
37299392 ACTTCACGTCATACTTTATTTACTTTTCAAATTAGTCGCTTTCTACTACTATAATAT
1 ACTTCACGTCATACTTTATTTACTTTTCAAATTAGTCGCTTTCTACTACTATAATAT
37299449 AC
1 AC
37299451 CATTTCAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.28, C:0.22, G:0.05, T:0.45
Consensus pattern (57 bp):
ACTTCACGTCATACTTTATTTACTTTTCAAATTAGTCGCTTTCTACTACTATAATAT
Found at i:37301501 original size:5 final size:5
Alignment explanation
Indices: 37301491--37301526 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
37301481 GAAGTACAAA
37301491 GATAT GATAT GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT G
37301527 CACATGTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (5 bp):
GATAT
Found at i:37305148 original size:19 final size:20
Alignment explanation
Indices: 37305111--37305150 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
37305101 CCCCATTCTT
37305111 TAAAAGAACATATAAAAAAA
1 TAAAAGAACATATAAAAAAA
37305131 TAAAA-AACAT-TAAGAAAAA
1 TAAAAGAACATATAA-AAAAA
37305150 T
1 T
37305151 TATCAATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 11 0.58
20 5 0.26
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.17
Consensus pattern (20 bp):
TAAAAGAACATATAAAAAAA
Found at i:37308122 original size:15 final size:15
Alignment explanation
Indices: 37308059--37308126 Score: 50
Period size: 15 Copynumber: 4.4 Consensus size: 15
37308049 ATATTATTAA
37308059 AAATAT-TCAAT-AT
1 AAATATATCAATAAT
* * *
37308072 TAATATTTTAATAAT
1 AAATATATCAATAAT
*
37308087 AAATACTTATTACAATTAT
1 AAATA--TA-T-CAATAAT
37308106 AAATATATCAATAAT
1 AAATATATCAATAAT
37308121 AAATAT
1 AAATAT
37308127 TTTGTAGTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
13 5 0.12
14 4 0.10
15 18 0.43
16 1 0.02
17 3 0.07
18 1 0.02
19 10 0.24
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATATATCAATAAT
Found at i:37308598 original size:31 final size:32
Alignment explanation
Indices: 37308521--37308601 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 32
37308511 GAAATCTATT
* *
37308521 AAACAATAGAAAATATTTTATACAGATTCATCC
1 AAACAACAAAAAATATTTTATA-AGATTCATCC
* *
37308554 AAATAACAGAAAATATTTTAT-AGACTT-ATCC
1 AAACAACAAAAAATATTTTATAAGA-TTCATCC
*
37308585 AAACACCAAAAAATATT
1 AAACAACAAAAAATATT
37308602 AACTTTTCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 21 0.50
32 2 0.05
33 19 0.45
ACGTcount: A:0.52, C:0.15, G:0.05, T:0.28
Consensus pattern (32 bp):
AAACAACAAAAAATATTTTATAAGATTCATCC
Found at i:37308648 original size:13 final size:14
Alignment explanation
Indices: 37308626--37308665 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
37308616 AGTAGGTCAT
37308626 TTTTCAGAAAAC-A
1 TTTTCAGAAAACTA
*
37308639 TTTTCCGAAAACTA
1 TTTTCAGAAAACTA
37308653 TTTTCAGTAAAAC
1 TTTTCAG-AAAAC
37308666 AAACAGACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 7 0.30
15 5 0.22
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (14 bp):
TTTTCAGAAAACTA
Found at i:37314295 original size:16 final size:16
Alignment explanation
Indices: 37314274--37314311 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
37314264 ATTTTATATA
*
37314274 ATTATATCACATA-ACC
1 ATTATATC-CATATAAC
37314290 ATTATATCCATATAAC
1 ATTATATCCATATAAC
37314306 ATTATA
1 ATTATA
37314312 ATGTAATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTATATCCATATAAC
Found at i:37316205 original size:21 final size:21
Alignment explanation
Indices: 37316180--37316236 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
37316170 AATAGTCATC
*
37316180 ATCAGGTGCCTCGGGTGTGGA
1 ATCAGGTGACTCGGGTGTGGA
*
37316201 ATCAGGTGATTCGGGTGTGGA
1 ATCAGGTGACTCGGGTGTGGA
*
37316222 ATCGGGTGACTCGGG
1 ATCAGGTGACTCGGG
37316237 CGTATCAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.16, C:0.16, G:0.44, T:0.25
Consensus pattern (21 bp):
ATCAGGTGACTCGGGTGTGGA
Found at i:37322193 original size:23 final size:23
Alignment explanation
Indices: 37322158--37322202 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
37322148 TGGAGTATAA
* *
37322158 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
37322181 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
37322203 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:37322973 original size:42 final size:42
Alignment explanation
Indices: 37322874--37322973 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
37322864 GGCTTAGCGC
* *
37322874 CTAGCAGGCTTATTGCCAGTGAAACAATATCAGACTTTACGT
1 CTAGCAGGCTTAATGTCAGTGAAACAATATCAGACTTTACGT
* * * *
37322916 CTAGCAGGCTTAATGTCGGTGAAATAATTTCAGAGTTTACGT
1 CTAGCAGGCTTAATGTCAGTGAAACAATATCAGACTTTACGT
37322958 CTAGCAGGCTTAATGT
1 CTAGCAGGCTTAATGT
37322974 ATCAGGCTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (42 bp):
CTAGCAGGCTTAATGTCAGTGAAACAATATCAGACTTTACGT
Found at i:37322984 original size:56 final size:56
Alignment explanation
Indices: 37322920--37323028 Score: 182
Period size: 56 Copynumber: 1.9 Consensus size: 56
37322910 TTACGTCTAG
* * * *
37322920 CAGGCTTAATGTCGGTGAAATAATTTCAGAGTTTACGTCTAGCAGGCTTAATGTAT
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGTAT
37322976 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATG
37323029 CCGGTGAAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (56 bp):
CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGTAT
Found at i:37323035 original size:42 final size:41
Alignment explanation
Indices: 37322976--37323118 Score: 150
Period size: 41 Copynumber: 3.5 Consensus size: 41
37322966 CTTAATGTAT
*
37322976 CAGGCTTAA-TGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGC-TAAGTGCCGGTGAAAC-ATATCAGACTTTAAGTCTAG
* * *
37323018 CAGGCTTAA-TGCCGGTGAAACATTTCAGACTATATGTCTAG
1 CAGGC-TAAGTGCCGGTGAAACATATCAGACTTTAAGTCTAG
* *
37323059 CAGGCTAAGTGCCGGTG-TAC-TGAATCAGGCTTTAAGTCTAG
1 CAGGCTAAGTGCCGGTGAAACAT--ATCAGACTTTAAGTCTAG
*
37323100 CAGGCTAAGTGCCAGTGAA
1 CAGGCTAAGTGCCGGTGAA
37323119 TCTGTTTAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
39 1 0.01
40 5 0.06
41 60 0.69
42 21 0.24
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (41 bp):
CAGGCTAAGTGCCGGTGAAACATATCAGACTTTAAGTCTAG
Found at i:37332065 original size:14 final size:13
Alignment explanation
Indices: 37332040--37332070 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
37332030 ACAAAAATTT
37332040 GAAAGAAAAGAAA
1 GAAAGAAAAGAAA
37332053 GAAAGATAAAGAAA
1 GAAAGA-AAAGAAA
37332067 GAAA
1 GAAA
37332071 AGGGAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (13 bp):
GAAAGAAAAGAAA
Found at i:37332078 original size:15 final size:14
Alignment explanation
Indices: 37332040--37332081 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
37332030 ACAAAAATTT
37332040 GAAAGA-AAAGAAA
1 GAAAGAGAAAGAAA
*
37332053 GAAAGATAAAGAAA
1 GAAAGAGAAAGAAA
*
37332067 GAAAAGGGAAAGAAA
1 G-AAAGAGAAAGAAA
37332082 CAGACGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 6 0.24
14 8 0.32
15 11 0.44
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.02
Consensus pattern (14 bp):
GAAAGAGAAAGAAA
Found at i:37332537 original size:13 final size:13
Alignment explanation
Indices: 37332519--37332546 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37332509 GATTTGAATG
37332519 ATGCTTTGATGAT
1 ATGCTTTGATGAT
37332532 ATGCTTTGATGAT
1 ATGCTTTGATGAT
37332545 AT
1 AT
37332547 AAATGAGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.46
Consensus pattern (13 bp):
ATGCTTTGATGAT
Found at i:37333751 original size:24 final size:24
Alignment explanation
Indices: 37333704--37333751 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
37333694 TTGTTCTGTG
** *
37333704 GCAAATGATGAATTGATGGTAAAT
1 GCAAATGATGAATTGACAGCAAAT
37333728 GCAAATGATGAATTGACAGCAAAT
1 GCAAATGATGAATTGACAGCAAAT
37333752 TACGCAAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.25
Consensus pattern (24 bp):
GCAAATGATGAATTGACAGCAAAT
Found at i:37333965 original size:42 final size:42
Alignment explanation
Indices: 37333823--37333954 Score: 160
Period size: 42 Copynumber: 3.2 Consensus size: 42
37333813 ACTCATGAGC
* * *
37333823 TTCTGTT-AACTCATATGAGTTTCCGTTTAACCTTAAGGGGT
1 TTCTGTTCAACTCTTATGAGCTTCCGTTTAACCTTAATGGGT
* *
37333864 TTCTGTTCAACTCTTTTGAGCTTCTGTTTAACCTTAATGGGT
1 TTCTGTTCAACTCTTATGAGCTTCCGTTTAACCTTAATGGGT
** * *
37333906 TTCCATTCAGCTCTTATGAGCTTCCGTTCAACCCTT-ATGGGT
1 TTCTGTTCAACTCTTATGAGCTTCCGTTTAA-CCTTAATGGGT
37333948 TTCTGTT
1 TTCTGTT
37333955 TATCACTTAT
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
41 7 0.09
42 65 0.86
43 4 0.05
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (42 bp):
TTCTGTTCAACTCTTATGAGCTTCCGTTTAACCTTAATGGGT
Found at i:37335165 original size:21 final size:20
Alignment explanation
Indices: 37335139--37335182 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
37335129 TGCAGCTTTG
37335139 AAAAAAATTT-TAATGTATTCC
1 AAAAAAATTTCTAA-GT-TTCC
*
37335160 AAAAAATTTTCTAAGTTTCC
1 AAAAAAATTTCTAAGTTTCC
37335180 AAA
1 AAA
37335183 TTAGTCCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 11 0.52
22 3 0.14
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAAAAATTTCTAAGTTTCC
Found at i:37339780 original size:8 final size:8
Alignment explanation
Indices: 37339767--37339793 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
37339757 TTACAATTTA
37339767 ATTTATAG
1 ATTTATAG
37339775 ATTTATAG
1 ATTTATAG
37339783 ATTTATAG
1 ATTTATAG
37339791 ATT
1 ATT
37339794 ATTGTTGATA
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:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (8 bp):
ATTTATAG
Found at i:37347208 original size:107 final size:101
Alignment explanation
Indices: 37347028--37347243 Score: 263
Period size: 107 Copynumber: 2.1 Consensus size: 101
37347018 TGACGGATAT
* * * *
37347028 GACCATGGTTGGACCATGGCAATATTTAAATGTAAGACCATAGCTAGGCTATGGCATTTTAATGA
1 GACCATGGTTAGACCATGACAATATTTAAATGTAAGACCATAGCTAGGCTATGACATTCTAATGA
* *
37347093 AAAGACCATAACTGGGTTATGGCA-TCATAAAGGTAA
66 AAAGACCATAACTAGGTTATGGCACT-ACAAAGGTAA
* * *
37347129 GACCATGGTTAGACCATGACAATATATATATACATGTGTAAGACTATAGTTGGGCTATGACATTC
1 GACCATGGTTAGACCATGACAATAT-T-TA-A-A--TGTAAGACCATAGCTAGGCTATGACATTC
* *
37347194 TAATGATAAGACCATAACTAGGTTATGGCACTACAAATGTAA
60 TAATGAAAAGACCATAACTAGGTTATGGCACTACAAAGGTAA
37347236 GACCATGG
1 GACCATGG
37347244 CAGGGCCATG
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
101 23 0.24
102 1 0.01
103 2 0.02
104 1 0.01
105 1 0.01
107 68 0.70
108 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (101 bp):
GACCATGGTTAGACCATGACAATATTTAAATGTAAGACCATAGCTAGGCTATGACATTCTAATGA
AAAGACCATAACTAGGTTATGGCACTACAAAGGTAA
Found at i:37354089 original size:4 final size:4
Alignment explanation
Indices: 37354080--37354106 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
37354070 TAGGAAGGTT
37354080 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
37354107 TCGTGTCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:37355347 original size:21 final size:21
Alignment explanation
Indices: 37355323--37355363 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
37355313 ACTTCTTCTA
*
37355323 AAGTTAAAAGTCAAAATTATT
1 AAGTTAAAAGGCAAAATTATT
37355344 AAGTTAAAAGGCAAAATTAT
1 AAGTTAAAAGGCAAAATTAT
37355364 GCCATTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.12, T:0.29
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAATTATT
Found at i:37358330 original size:21 final size:21
Alignment explanation
Indices: 37358300--37358345 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
37358290 ATTAGAATGT
*
37358300 AAAA-ATTAAATTAAAAACAA
1 AAAATATTAAAATAAAAACAA
*
37358320 AAAATATTAAAATAAAAATAA
1 AAAATATTAAAATAAAAACAA
37358341 AAAAT
1 AAAAT
37358346 GGCTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAATATTAAAATAAAAACAA
Found at i:37360016 original size:13 final size:13
Alignment explanation
Indices: 37359998--37360033 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
37359988 CTATAGTATG
37359998 ATAAAAATTTCGT
1 ATAAAAATTTCGT
37360011 ATAAAAATTTCGT
1 ATAAAAATTTCGT
37360024 -TAAGAAATTT
1 ATAA-AAATTT
37360034 TACTGTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (13 bp):
ATAAAAATTTCGT
Found at i:37361208 original size:50 final size:50
Alignment explanation
Indices: 37361129--37361292 Score: 240
Period size: 50 Copynumber: 3.3 Consensus size: 50
37361119 GGACACACCA
* ** * * *
37361129 CAGCTTGTATGAGCTTACCGATTTGCAGCTCGTGACAGCTTACCGATTCT
1 CAGCTCGTATGAGCTTACCGATTCACAGCTCATGAGAGCATACCGATTCT
* *
37361179 CAGCTCATATGAGCTTACCGATTCACAGCTCATGAGAGCATACCGATTTT
1 CAGCTCGTATGAGCTTACCGATTCACAGCTCATGAGAGCATACCGATTCT
37361229 CAGCTCGTATGAGCTTACCGATTCACAGCTCATGAGAGCATACCGATTCAT
1 CAGCTCGTATGAGCTTACCGATTCACAGCTCATGAGAGCATACCGATTC-T
37361280 -AGCTCGTATGAGC
1 CAGCTCGTATGAGC
37361293 ATACATGTAT
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
50 102 0.99
51 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCGATTCACAGCTCATGAGAGCATACCGATTCT
Found at i:37361277 original size:25 final size:25
Alignment explanation
Indices: 37361139--37361284 Score: 161
Period size: 25 Copynumber: 5.8 Consensus size: 25
37361129 CAGCTTGTAT
** *
37361139 GAGCTTACCGATTTGCAGCTCGTGA
1 GAGCTTACCGATTCACAGCTCATGA
* *
37361164 CAGCTTACCGATTCTCAGCTCAT-A
1 GAGCTTACCGATTCACAGCTCATGA
37361188 TGAGCTTACCGATTCACAGCTCATGA
1 -GAGCTTACCGATTCACAGCTCATGA
* ** *
37361214 GAGCATACCGATTTTCAGCTCGT-A
1 GAGCTTACCGATTCACAGCTCATGA
37361238 TGAGCTTACCGATTCACAGCTCATGA
1 -GAGCTTACCGATTCACAGCTCATGA
* *
37361264 GAGCATACCGATTCATAGCTC
1 GAGCTTACCGATTCACAGCTC
37361285 GTATGAGCAT
Statistics
Matches: 101, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
24 2 0.02
25 97 0.96
26 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (25 bp):
GAGCTTACCGATTCACAGCTCATGA
Found at i:37361293 original size:75 final size:75
Alignment explanation
Indices: 37361127--37361296 Score: 220
Period size: 75 Copynumber: 2.3 Consensus size: 75
37361117 GTGGACACAC
* * *
37361127 CACAGCTTGTATGAGCTTACCGATTTGCAGCTCGTGACAGCTTACCGATTCTCAGCTCATATGAG
1 CACAGCTCGTATGAGCATACCGATTTGCAGCTCGTGACAGCTTACCGATTCACAGCTCATATGAG
*
37361192 CTTACCGATT
66 CATACCGATT
* * *
37361202 CACAGCTCATGA-GAGCATACCGATTTTCAGCTCGT-ATGAGCTTACCGATTCACAGCTCATGA-
1 CACAGCTCGT-ATGAGCATACCGATTTGCAGCTCGTGA-CAGCTTACCGATTCACAGCTCAT-AT
37361264 GAGCATACCGATT
63 GAGCATACCGATT
*
37361277 CATAGCTCGTATGAGCATAC
1 CACAGCTCGTATGAGCATAC
37361297 ATGTATATGA
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
74 2 0.02
75 78 0.95
76 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (75 bp):
CACAGCTCGTATGAGCATACCGATTTGCAGCTCGTGACAGCTTACCGATTCACAGCTCATATGAG
CATACCGATT
Found at i:37369452 original size:13 final size:12
Alignment explanation
Indices: 37369434--37369515 Score: 69
Period size: 13 Copynumber: 6.7 Consensus size: 12
37369424 TATGATGATG
37369434 ATTATTATCATTT
1 ATTATTAT-ATTT
37369447 ATTATTATA-TT
1 ATTATTATATTT
37369458 ATTATTATATTT
1 ATTATTATATTT
*
37369470 ACTTATTTAAATTT
1 A-TTA-TTATATTT
* *
37369484 -TAAATATATTT
1 ATTATTATATTT
*
37369495 TTTATTATATATT
1 ATTATTATAT-TT
*
37369508 TTTATTAT
1 ATTATTAT
37369516 GTAATTACTT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
11 17 0.29
12 13 0.22
13 21 0.36
14 7 0.12
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
ATTATTATATTT
Found at i:37369461 original size:11 final size:11
Alignment explanation
Indices: 37369434--37369468 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
37369424 TATGATGATG
*
37369434 ATTATTATCAT
1 ATTATTATTAT
37369445 -TTATTATTAT
1 ATTATTATTAT
37369455 ATTATTATTAT
1 ATTATTATTAT
37369466 ATT
1 ATT
37369469 TACTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTATTATTAT
Found at i:37369465 original size:24 final size:24
Alignment explanation
Indices: 37369420--37369476 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
37369410 AAATTTGATG
*
37369420 TTATTATGATGATGATTATTATCAT
1 TTATTATTATGATGATTATTAT-AT
*
37369445 TTATTATTAT-ATTATTATTATAT
1 TTATTATTATGATGATTATTATAT
37369468 TTACTTATT
1 TTA-TTATT
37369477 TAAATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.17
24 15 0.52
25 9 0.31
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.60
Consensus pattern (24 bp):
TTATTATTATGATGATTATTATAT
Found at i:37369475 original size:21 final size:21
Alignment explanation
Indices: 37369434--37369475 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
37369424 TATGATGATG
*
37369434 ATTATTATCATTTATTATTAT
1 ATTATTATCATATATTATTAT
*
37369455 ATTATTATTATAT-TTACTTAT
1 ATTATTATCATATATTA-TTAT
37369476 TTAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTATTATCATATATTATTAT
Found at i:37370897 original size:16 final size:16
Alignment explanation
Indices: 37370876--37370910 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
37370866 TTGTGTTTTG
*
37370876 TTTTGACTGCATGGCA
1 TTTTGACTACATGGCA
*
37370892 TTTTGACTACATGGTA
1 TTTTGACTACATGGCA
37370908 TTT
1 TTT
37370911 CATTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.46
Consensus pattern (16 bp):
TTTTGACTACATGGCA
Done.