Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 34 of 378
Found at i:8428996 original size:30 final size:30
Alignment explanation
Indices: 8428962--8429022 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
8428952 TGTATATACA
8428962 TTACTTATTCTAGATTTTGTCATATATTAT
1 TTACTTATTCTAGATTTTGTCATATATTAT
8428992 TTACTTATTCTAGATTTTGTCATATATTAT
1 TTACTTATTCTAGATTTTGTCATATATTAT
8429022 T
1 T
8429023 ATTTTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.07, T:0.57
Consensus pattern (30 bp):
TTACTTATTCTAGATTTTGTCATATATTAT
Found at i:8433409 original size:51 final size:51
Alignment explanation
Indices: 8433331--8433494 Score: 274
Period size: 51 Copynumber: 3.2 Consensus size: 51
8433321 ACTTCTGATC
* *
8433331 AGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAATGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
** *
8433382 AGTGATAAATGATAAGTGGTACCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGATAAATGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
*
8433433 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAATGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
8433484 AGTGATAAATG
1 AGTGATAAATG
8433495 TGATCAGTGT
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 103 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.32
Consensus pattern (51 bp):
AGTGATAAATGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
Found at i:8436916 original size:23 final size:22
Alignment explanation
Indices: 8436889--8436932 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
8436879 GTGATGAGGT
8436889 TATCTT-ATAAATATGTATAAATC
1 TATCTTGA-AAATATGT-TAAATC
8436912 TATCTTGAAAATATGTTAAAT
1 TATCTTGAAAATATGTTAAAT
8436933 TGGATTGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 14 0.70
24 1 0.05
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (22 bp):
TATCTTGAAAATATGTTAAATC
Found at i:8441459 original size:22 final size:23
Alignment explanation
Indices: 8441434--8441479 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8441424 CAACCAAATC
8441434 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
8441456 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
8441479 A
1 A
8441480 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:8441485 original size:23 final size:23
Alignment explanation
Indices: 8441441--8441485 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8441431 ATCAATTCAA
*
8441441 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
8441464 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
8441486 CACATATCTA
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:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:8443031 original size:12 final size:12
Alignment explanation
Indices: 8443014--8443046 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
8443004 TGTTTTTACC
8443014 CAATTTCTTCAA
1 CAATTTCTTCAA
8443026 CAATTTCTTCAA
1 CAATTTCTTCAA
*
8443038 TAATTTCTT
1 CAATTTCTT
8443047 TTTCTATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (12 bp):
CAATTTCTTCAA
Found at i:8444352 original size:11 final size:11
Alignment explanation
Indices: 8444338--8444362 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8444328 GGCTGAAGTA
8444338 ACCCCGAAGGT
1 ACCCCGAAGGT
8444349 ACCCCGAAGGT
1 ACCCCGAAGGT
8444360 ACC
1 ACC
8444363 TGATGTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.40, G:0.24, T:0.08
Consensus pattern (11 bp):
ACCCCGAAGGT
Found at i:8448231 original size:23 final size:23
Alignment explanation
Indices: 8448187--8448231 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8448177 AATCAATTAA
*
8448187 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
8448210 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
8448232 CACATATCTA
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:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:8453822 original size:89 final size:88
Alignment explanation
Indices: 8453576--8453870 Score: 262
Period size: 87 Copynumber: 3.4 Consensus size: 88
8453566 AAAGACGCCG
* * * * *
8453576 AATCTTATCTCCATGTAGTGGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCCTTGAGGTTG
1 AATCTTATCTCCATGTAGTGGTAATGGAGCAGATTTAAGCCACCAGACTTATCTCCCTGAAGTTG
8453641 CAGTGGAGCAGGCTCAAGAT-AC
66 CAGTGGAGCAGGCTCAAGATGAC
* * * * * ** *** * *
8453663 AGTCTTATCTCCCTGAAGTTGTAACGGAGCAGACTGAAAG-TTGCAGATCTTATCT-CCTTAAGC
1 AATCTTATCTCCATGTAGTGGTAATGGAGCAGA-TTTAAGCCACCAGA-CTTATCTCCCTGAAGT
* * *
8453726 AGTAGTGGAGCAGG-TCGAAGATGGC
64 TGCAGTGGAGCAGGCTC-AAGATGAC
* * *
8453751 AAATCCTATCTCTATGTAGCGGTAATGGAGCAGATTTAAGCCACCAGACTTATCTCCCTGAAGTT
1 -AATCTTATCTCCATGTAGTGGTAATGGAGCAGATTTAAGCCACCAGACTTATCTCCCTGAAGTT
8453816 GCAGTGGAGCAGGCTCAAGAT-AC
65 GCAGTGGAGCAGGCTCAAGATGAC
* * *
8453839 AAGTCTTATC-CC-TGAAGTTGTAGTGGAGCAGA
1 AA-TCTTATCTCCATGTAGTGGTAATGGAGCAGA
8453871 CTGAAAATTG
Statistics
Matches: 155, Mismatches: 44, Indels: 19
0.71 0.20 0.09
Matches are distributed among these distances:
86 18 0.12
87 53 0.34
88 30 0.19
89 52 0.34
90 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (88 bp):
AATCTTATCTCCATGTAGTGGTAATGGAGCAGATTTAAGCCACCAGACTTATCTCCCTGAAGTTG
CAGTGGAGCAGGCTCAAGATGAC
Found at i:8453824 original size:44 final size:42
Alignment explanation
Indices: 8453776--8453872 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
8453766 GTAGCGGTAA
* * * *
8453776 TGGAGCAGATTTAAGCCACCAGACTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGACTCAAGACACAAGACTTA--TCCCTGAAGTTGCAG
* * * *
8453820 TGGAGCAGGCTCAAGATACAAGTCTTATCCCTGAAGTTGTAG
1 TGGAGCAGACTCAAGACACAAGACTTATCCCTGAAGTTGCAG
8453862 TGGAGCAGACT
1 TGGAGCAGACT
8453873 GAAAATTGCA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 24 0.55
44 20 0.45
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (42 bp):
TGGAGCAGACTCAAGACACAAGACTTATCCCTGAAGTTGCAG
Found at i:8453824 original size:176 final size:175
Alignment explanation
Indices: 8453530--8454013 Score: 628
Period size: 176 Copynumber: 2.8 Consensus size: 175
8453520 GGTGAATTCA
* * * *
8453530 CAGATCTTATCTCCATAAGCAGTAGTGAAGCAGGTCAAAGACGCCGAATCTTATCTCCATGTAGT
1 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGGTCGAAGACGGCGAATCTTATCTCCATGTAGC
* * * *
8453595 GGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCCTTGAGGTTGCAGTGGAGCAGGCTCAAGA
66 GGCAATGGAGCAGATTTAAGCCACAAGACTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTCAAGA
*
8453660 TAC-AGTCTTATCTCCCTGAAGTTGTAACGGAGCAGACTGAAAGTTG
131 TACAAGTCTTA--TCCCTGAAGTTGTAACGGAGCAGACTGAAAATTG
* * * * *
8453706 CAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAAATCCTATCTCTATGTAGC
1 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGGTCGAAGACGGCGAATCTTATCTCCATGTAGC
* *
8453771 GGTAATGGAGCAGATTTAAGCCACCAGACTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTCAAGA
66 GGCAATGGAGCAGATTTAAGCCACAAGACTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTCAAGA
**
8453836 TACAAGTCTTATCCCTGAAGTTGTAGTGGAGCAGACTGAAAATTG
131 TACAAGTCTTATCCCTGAAGTTGTAACGGAGCAGACTGAAAATTG
* * * * *
8453881 CAGATCTTATCTCCCTAAGCAGTAGTTGAGCAGATCGAAGACGGTGGATCTTATCTCCATGTAGC
1 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGGTCGAAGACGGCGAATCTTATCTCCATGTAGC
* * * * * * * * * * *
8453946 GACAATGAAGCAGATCTAAGCTACAAGTCTTATCTCTCTAAAAGTTGCGGTGAAGCAGACTGAAG
66 GGCAATGGAGCAGATTTAAGCCACAAGACTTATCTCCCT-GAAGTTGCAGTGGAGCAGGCTCAAG
8454011 ATA
130 ATA
8454014 GTGGATTTTA
Statistics
Matches: 267, Mismatches: 39, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
175 118 0.44
176 142 0.53
177 7 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (175 bp):
CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGGTCGAAGACGGCGAATCTTATCTCCATGTAGC
GGCAATGGAGCAGATTTAAGCCACAAGACTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTCAAGA
TACAAGTCTTATCCCTGAAGTTGTAACGGAGCAGACTGAAAATTG
Found at i:8455629 original size:3 final size:3
Alignment explanation
Indices: 8455621--8455733 Score: 70
Period size: 3 Copynumber: 37.3 Consensus size: 3
8455611 AGTCTTATAT
* *
8455621 TTA TTA TTA TTT TTA TTA TTA TT- TTGA GTA TTA TTA TT- TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA TTA
* * * * * * * * *
8455666 TTG CTA TTA CTA TTG TTT TTA TT- TGTA TTA TTA CTG TCA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
8455711 TTA TTA TTA TTA TTTA TTA TTA T
1 TTA TTA TTA TTA -TTA TTA TTA T
8455734 GTTTAAACTT
Statistics
Matches: 82, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
2 4 0.05
3 72 0.88
4 6 0.07
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:8455674 original size:36 final size:36
Alignment explanation
Indices: 8455602--8455679 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
8455592 TATACAATTA
* * * **
8455602 ATTAATTTGAGTCTTATATTTATTATTATTTTTATT
1 ATTATTTTGAGTATTATATTTACTATTATTGCTATT
8455638 ATTATTTTGAGTATTATTATTT-CTATTATTGCTATT
1 ATTATTTTGAGTATTA-TATTTACTATTATTGCTATT
*
8455674 ACTATT
1 ATTATT
8455680 GTTTTTATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 30 0.86
37 5 0.14
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.62
Consensus pattern (36 bp):
ATTATTTTGAGTATTATATTTACTATTATTGCTATT
Found at i:8457972 original size:14 final size:14
Alignment explanation
Indices: 8457953--8457983 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8457943 CTAAGAGCCT
8457953 TTATGTTCTTAAAA
1 TTATGTTCTTAAAA
8457967 TTATGTTCTTAAAA
1 TTATGTTCTTAAAA
8457981 TTA
1 TTA
8457984 CTAAACCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (14 bp):
TTATGTTCTTAAAA
Found at i:8475673 original size:24 final size:23
Alignment explanation
Indices: 8475621--8475675 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
8475611 TGTATTGAAT
*
8475621 TGAATTAAAATAAAAATAAAATC
1 TGAATTAAAATAAAAATAAAATA
* *
8475644 TTAATTATAAAT-AAATTATAAATA
1 TGAATTA-AAATAAAAATA-AAATA
8475668 TGAATTAA
1 TGAATTAA
8475676 GGTATTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
TGAATTAAAATAAAAATAAAATA
Found at i:8477522 original size:23 final size:26
Alignment explanation
Indices: 8477478--8477524 Score: 73
Period size: 23 Copynumber: 1.9 Consensus size: 26
8477468 GACTTAAAAT
8477478 AATAATAAATAACTTTTATTAAATGC
1 AATAATAAATAACTTTTATTAAATGC
8477504 AATAA-AAATAA-TTTT-TTAAAT
1 AATAATAAATAACTTTTATTAAAT
8477525 AATATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 4 0.19
25 6 0.29
26 5 0.24
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (26 bp):
AATAATAAATAACTTTTATTAAATGC
Found at i:8479699 original size:2 final size:2
Alignment explanation
Indices: 8479694--8479744 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
8479684 ATGTATATAT
* * *
8479694 AG AG AG AG AT AG AG GG A- AG AG AG AG AG AG AG AG AG AG -G GG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
8479734 AG GG AG AG AG A
1 AG AG AG AG AG A
8479745 TGGTGGGCTC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.45, C:0.00, G:0.53, T:0.02
Consensus pattern (2 bp):
AG
Found at i:8479724 original size:23 final size:23
Alignment explanation
Indices: 8479694--8479744 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
8479684 ATGTATATAT
*
8479694 AGAGAGAGATAGAGGGAAGAGAG
1 AGAGAGAGAGAGAGGGAAGAGAG
* *
8479717 AGAGAGAGAGAGAGGGGAGGGAG
1 AGAGAGAGAGAGAGGGAAGAGAG
8479740 AGAGA
1 AGAGA
8479745 TGGTGGGCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.53, T:0.02
Consensus pattern (23 bp):
AGAGAGAGAGAGAGGGAAGAGAG
Found at i:8484241 original size:2 final size:2
Alignment explanation
Indices: 8484234--8484258 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8484224 CAAAGTTTGG
8484234 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8484259 AAGAGGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8507689 original size:21 final size:21
Alignment explanation
Indices: 8507655--8507698 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8507645 TCACATTTAC
8507655 TTCATAAAAATTTTAAAAAAT
1 TTCATAAAAATTTTAAAAAAT
* *
8507676 TTCATTAAAGTTTTAAAAAAT
1 TTCATAAAAATTTTAAAAAAT
8507697 TT
1 TT
8507699 ACCCATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (21 bp):
TTCATAAAAATTTTAAAAAAT
Found at i:8508466 original size:20 final size:21
Alignment explanation
Indices: 8508427--8508470 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
8508417 TCTAAAATAA
*
8508427 TAAATATTAGTTAGATTTATT
1 TAAATATTAGTAAGATTTATT
*
8508448 TAAATATTAG-AATATTTATT
1 TAAATATTAGTAAGATTTATT
8508468 TAA
1 TAA
8508471 GCTCGAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
TAAATATTAGTAAGATTTATT
Found at i:8512663 original size:13 final size:13
Alignment explanation
Indices: 8512645--8512671 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8512635 CATTTGATGG
8512645 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
8512658 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
8512671 T
1 T
8512672 ATGTGGTTGA
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:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TTTTTTTTCTTTT
Found at i:8513268 original size:20 final size:21
Alignment explanation
Indices: 8513223--8513268 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
8513213 CTTATGACAT
*
8513223 TTTACTAAATTAATGACTTCA
1 TTTACTAAATTAATGAATTCA
* *
8513244 TTTACTAAATT-TTGAATTTA
1 TTTACTAAATTAATGAATTCA
8513264 TTTAC
1 TTTAC
8513269 ATTGTTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (21 bp):
TTTACTAAATTAATGAATTCA
Found at i:8517934 original size:130 final size:129
Alignment explanation
Indices: 8517774--8518088 Score: 331
Period size: 129 Copynumber: 2.4 Consensus size: 129
8517764 GTCGTTCGGT
* * * * *
8517774 CAAACGATAAATCG-AAACCCAGTACG-TAGGGCACAATTTCTCGAAATTTCCAAACACGAAATA
1 CAAACGAGAAATTGCAAA-CCAGCACGATAGGGCACGATTTCTCGAAATTTCCAAACACG-AACA
*
8517837 TTACCTT-ATTTT-AGAATTTAGAAAAAAAAATGAGTGAAA-TTCTAAAGGAATATTCGATTA-T
64 TTACCTTCATTTTAAGAATTT---AAAAAAAATGAGTGAAATTTC-AAAGAAATATTCGATTATT
8517898 TTGAA
125 TTGAA
* * * *
8517903 CAAACGGGAAATTGCAAACCAGCACGATAGGGCACGA-TTCCCCAAATTTCCAAACTTCGAACAT
1 CAAACGAGAAATTGCAAACCAGCACGATAGGGCACGATTTCTCGAAATTTCCAAAC-ACGAACAT
* * ** *
8517967 TGCCTTCGTTTTAAAGAATTTTTAAAACATGAGTGAAATTTCAAAGAAATATTCGATTATTTTGA
65 TACCTTCATTTT-AAGAATTTAAAAAAAATGAGTGAAATTTCAAAGAAATATTCGATTATTTTGA
8518032 A
129 A
* * * *
8518033 CAAACGAGAAATTGCAACCCAGCACAATAGGGCACGATTCCTCG-AATTTCTAAACA
1 CAAACGAGAAATTGCAAACCAGCACGATAGGGCACGATTTCTCGAAATTTCCAAACA
8518089 TCAAACATCG
Statistics
Matches: 154, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
129 73 0.47
130 71 0.46
131 3 0.02
132 7 0.05
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (129 bp):
CAAACGAGAAATTGCAAACCAGCACGATAGGGCACGATTTCTCGAAATTTCCAAACACGAACATT
ACCTTCATTTTAAGAATTTAAAAAAAATGAGTGAAATTTCAAAGAAATATTCGATTATTTTGAA
Found at i:8518001 original size:129 final size:130
Alignment explanation
Indices: 8517861--8518110 Score: 360
Period size: 130 Copynumber: 1.9 Consensus size: 130
8517851 AATTTAGAAA
* *
8517861 AAAAAATGAGTGAAA-TTCTAAAGGAATATTCGATTA-TTTGAACAAACGGGAAATTGCAAACCA
1 AAAAAATGAGTGAAATTTC-AAAGAAATATTCGATTATTTTGAACAAACGAGAAATTGCAAACCA
* * * *
8517924 GCACGATAGGGCACGATTCCCCAAATTTCCAAACTTCGAACATTGCCTTCGTTTTAAAGAATTTT
65 GCACAATAGGGCACGATTCCCCAAATTTCCAAACATCAAACATCGCCTTCGTTTTAAAGAATTTT
8517989 T
130 T
* *
8517990 AAAACATGAGTGAAATTTCAAAGAAATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAG
1 AAAAAATGAGTGAAATTTCAAAGAAATATTCGATTATTTTGAACAAACGAGAAATTGCAAACCAG
* * * * *
8518055 CACAATAGGGCACGATTCCTCGAATTTCTAAACATCAAACATCGCTTTTGTTTTAA
66 CACAATAGGGCACGATTCCCCAAATTTCCAAACATCAAACATCGCCTTCGTTTTAA
8518111 GGTTTAGAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
129 30 0.28
130 76 0.72
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (130 bp):
AAAAAATGAGTGAAATTTCAAAGAAATATTCGATTATTTTGAACAAACGAGAAATTGCAAACCAG
CACAATAGGGCACGATTCCCCAAATTTCCAAACATCAAACATCGCCTTCGTTTTAAAGAATTTTT
Found at i:8518145 original size:130 final size:131
Alignment explanation
Indices: 8517872--8518146 Score: 303
Period size: 130 Copynumber: 2.1 Consensus size: 131
8517862 AAAAATGAGT
* * *
8517872 GAAATTCTAAAG-G-AATATTCGATTATTTGAACAAACGGGAAATTGCAAACCAGCACGATAGGG
1 GAAATTTTAAAGAGAAATATTCGATTATTTGAACAAACGAGAAATTGCAAACCAGCACAATAGGG
* * * ** *
8517935 CACGATTCCCCAAATTTCCAAACTTCGAACATTGCCTTCGTTTTAAAGAATTTTTAAAACATGAG
66 CACGATTCCCCAAATTTCCAAACATCAAACATCGCCTTCGTTTTAAAGAATTTAGAAAACAGGAG
*
8518000 T
131 C
* *
8518001 GAAA-TTTCAA-AGAAATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACAATAGG
1 GAAATTTTAAAGAGAAATATTCGATTA-TTTGAACAAACGAGAAATTGCAAACCAGCACAATAGG
* * * * * * * *
8518064 GCACGATTCCTCGAATTTCTAAACATCAAACATCGCTTTTGTTTT-AAG-GTTTAGAAAGCGCGG
65 GCACGATTCCCCAAATTTCCAAACATCAAACATCGCCTTCGTTTTAAAGAATTTAGAAAAC-AGG
8518127 A-C
129 AGC
8518129 GAAATTTTAAAGAGAAAT
1 GAAATTTTAAAGAGAAAT
8518147 TAGACTATTT
Statistics
Matches: 119, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
128 16 0.13
129 26 0.22
130 77 0.65
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (131 bp):
GAAATTTTAAAGAGAAATATTCGATTATTTGAACAAACGAGAAATTGCAAACCAGCACAATAGGG
CACGATTCCCCAAATTTCCAAACATCAAACATCGCCTTCGTTTTAAAGAATTTAGAAAACAGGAG
C
Found at i:8519086 original size:16 final size:16
Alignment explanation
Indices: 8519065--8519100 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
8519055 AACTATGTAT
8519065 ATAATAATATATAA-AA
1 ATAATAATA-ATAACAA
8519081 ATAATAATAATAACAA
1 ATAATAATAATAACAA
8519097 ATAA
1 ATAA
8519101 ATGAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAATAATAATAACAA
Found at i:8524770 original size:46 final size:46
Alignment explanation
Indices: 8524720--8524884 Score: 185
Period size: 46 Copynumber: 3.6 Consensus size: 46
8524710 TGAGCATCCA
8524720 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
8524766 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* *
8524813 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
8524859 AGCTCATTGAGTTGAGTCTGAGTTCA
1 AACTCGTTGAGTTGAGTCCGAGTTCA
8524885 TTTAGGGGCG
Statistics
Matches: 99, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 51 0.52
47 29 0.29
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:8524872 original size:93 final size:93
Alignment explanation
Indices: 8524713--8524883 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
8524703 GGATGGTTGA
* * *
8524713 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
8524778 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
8524806 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
*
8524871 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
8524884 ATTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:8528149 original size:19 final size:18
Alignment explanation
Indices: 8528114--8528161 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
8528104 AATTCACATC
*
8528114 TCATTTCATCATTTCATATT
1 TCATTTC-TCATCTCATA-T
8528134 TCATTTCTCATCTCATAT
1 TCATTTCTCATCTCATAT
8528152 TCATTTCTCA
1 TCATTTCTCA
8528162 ACTTTGTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 11 0.41
19 9 0.33
20 7 0.26
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.52
Consensus pattern (18 bp):
TCATTTCTCATCTCATAT
Found at i:8530959 original size:27 final size:27
Alignment explanation
Indices: 8530918--8530973 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
8530908 AAAATATTAA
*
8530918 ATTAAATCTTGTTAAGTCTGGTTTCTT
1 ATTAAATCTTGTTAAGTCTAGTTTCTT
*
8530945 ATTAAATCTTTTTAAGTCTAGTTTCTT
1 ATTAAATCTTGTTAAGTCTAGTTTCTT
8530972 AT
1 AT
8530974 AAAAGAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.54
Consensus pattern (27 bp):
ATTAAATCTTGTTAAGTCTAGTTTCTT
Found at i:8532139 original size:51 final size:50
Alignment explanation
Indices: 8532068--8532227 Score: 239
Period size: 51 Copynumber: 3.2 Consensus size: 50
8532058 CTGATCACAT
8532068 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
8532119 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * * *
8532169 TTGTCACTTATCACTAATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
8532220 TTGTCACT
1 TTATCACT
8532228 GATCAGAAGT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 45 0.45
51 55 0.55
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:8537107 original size:20 final size:21
Alignment explanation
Indices: 8537063--8537108 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
8537053 AGATTTCAAG
* *
8537063 ATATACTCGTACAAGACTTTT
1 ATATTCTCGTACAAGAATTTT
8537084 -TATTCTCGTACAA-AATTTT
1 ATATTCTCGTACAAGAATTTT
8537103 ATATTC
1 ATATTC
8537109 GGGTCATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (21 bp):
ATATTCTCGTACAAGAATTTT
Found at i:8538138 original size:25 final size:23
Alignment explanation
Indices: 8538086--8538140 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
8538076 TATAAATAGT
8538086 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
8538109 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
8538134 AATAGTG
1 AATAGTG
8538141 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:8538260 original size:22 final size:24
Alignment explanation
Indices: 8538202--8538296 Score: 79
Period size: 25 Copynumber: 3.9 Consensus size: 24
8538192 ATAGATATAA
* *
8538202 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
8538226 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
8538250 -AAAATATATACATAAGATAACATGT
1 AAAAATATATACATAATAT-A-ATGT
* *
8538275 AGAAAAAATATATATAA-ATAAT
1 A-AAAATATATACATAATATAAT
8538297 ATAGTATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
22 16 0.28
23 1 0.02
24 5 0.09
25 21 0.36
26 2 0.03
27 13 0.22
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:8538280 original size:27 final size:28
Alignment explanation
Indices: 8538250--8538321 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
8538240 TAATATAATT
8538250 AAAATATATACATAAGATAACAT-GTA-G
1 AAAATATATACATAA-ATAACATAGTATG
* * * *
8538277 AAAAAATATATATAAATAATATAGTATT
1 AAAATATATACATAAATAACATAGTATG
8538305 AAAGATATATACATAAA
1 AAA-ATATATACATAAA
8538322 ATAGTATAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 6 0.17
27 16 0.44
28 3 0.08
29 11 0.31
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (28 bp):
AAAATATATACATAAATAACATAGTATG
Found at i:8538320 original size:25 final size:25
Alignment explanation
Indices: 8538206--8538412 Score: 98
Period size: 23 Copynumber: 8.6 Consensus size: 25
8538196 ATATAAAAAA
* * * *
8538206 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
8538231 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
* ** *
8538253 ATATATACATAAGATAACATGTAGAAAAAAT
1 ATATATACAT-A-AT-ATA-GT--ATTAAAG
*
8538284 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
8538309 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
* * *
8538332 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
8538356 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
8538378 A-ATATATATAATATAATATTAAA-
1 ATATATACATAATATAGTATTAAAG
8538401 A-ATATA-ATAATA
1 ATATATACATAATA
8538413 ACAAAAAAAG
Statistics
Matches: 141, Mismatches: 28, Indels: 29
0.71 0.14 0.15
Matches are distributed among these distances:
21 1 0.01
22 30 0.21
23 43 0.30
24 10 0.07
25 37 0.26
27 2 0.01
28 2 0.01
29 2 0.01
30 5 0.04
31 9 0.06
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:8538726 original size:16 final size:16
Alignment explanation
Indices: 8538688--8538726 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8538678 TCTCCAAAAA
*
8538688 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
8538704 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
8538720 AATAACT
1 AAAAACT
8538727 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:8538927 original size:30 final size:30
Alignment explanation
Indices: 8538893--8538978 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
8538883 GTGGTGGTGG
* *
8538893 AGTGTGGCTAGTGGAGTAGGTAGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
8538923 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
8538953 AGTGTGGCTAGTGGAGTTGGTGGTGG
1 AGTGTGGCTAGTGGAGTTGGTGGTGG
8538979 CAAAGGCTAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.17, C:0.06, G:0.50, T:0.27
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
Found at i:8538936 original size:18 final size:18
Alignment explanation
Indices: 8538913--8538968 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
8538903 GTGGAGTAGG
8538913 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
8538931 TAGT-G-G--AGT-TGG-
1 TAGTGGAGCAAGTGTGGC
*
8538943 TGGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
8538961 TAGTGGAG
1 TAGTGGAG
8538969 TTGGTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 3 0.10
13 4 0.13
14 4 0.13
16 4 0.13
17 4 0.13
18 11 0.37
ACGTcount: A:0.20, C:0.07, G:0.48, T:0.25
Consensus pattern (18 bp):
TAGTGGAGCAAGTGTGGC
Found at i:8539780 original size:87 final size:88
Alignment explanation
Indices: 8539689--8540176 Score: 356
Period size: 90 Copynumber: 5.5 Consensus size: 88
8539679 ACGTGAGCCA
* * * **
8539689 AGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTT-AAAATA-AAATTTGTAAAACAGATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAATACAAATTTGAAAAAAAGAAAT
8539751 TGAAAATATCCCGGTATGTGACCTG
66 TGAAAATATCCCGG--TGTGACCTG
* ** * * *
8539776 AGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTGCAAAGCATAAATTTTAAAAAAAAATC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAATACAAATTTGAAAAAAAGA--
*
8539840 AATTGAAAATA-CCTCGGCGTGTGAGCTG
63 AATTGAAAATATCC-C-G-GTGTGACCTG
* *
8539868 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA-ACATAAATTGAAAAAAAAAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAATACA-AATTTG--AAAAAAAG
* * * *
8539932 AAATTGAAAATATCTCAGCGTGTCCTG
62 AAATTGAAAATATCCCGGTGTGACCTG
* * *
8539959 AGGCTGAACTCACCT-TCGCAATATGAGTTGATTTTTTGGAAAA-ACAAATTTGAAAAACAGAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-GAAAATACAAATTTGAAAAAAAGAAA
* *
8540022 TTGAAAATA-CCTCAGCGTGTGA-GTCA
65 TTGAAAATATCC-C-G-GTGTGACCT-G
* * * * * * * *
8540048 AGGCTCAACTCACCACTCGCAATATGAGCTGTTTTTTTTGAACACAGAAA-TTGAAGAATAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAAATACAAATTTGAAAAAAAGAAA
* * * * *
8540112 TGGAAAACA-CCTCAGCGT--CTTG
65 TTGAAAATATCC-CGGTGTGACCTG
* *
8540134 AGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA
8540177 GACAGAAATT
Statistics
Matches: 324, Mismatches: 53, Indels: 49
0.76 0.12 0.12
Matches are distributed among these distances:
86 39 0.12
87 55 0.17
88 4 0.01
89 32 0.10
90 75 0.23
91 33 0.10
92 51 0.16
93 19 0.06
94 8 0.02
95 8 0.02
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAATACAAATTTGAAAAAAAGAAAT
TGAAAATATCCCGGTGTGACCTG
Found at i:8540004 original size:90 final size:92
Alignment explanation
Indices: 8539652--8540191 Score: 449
Period size: 87 Copynumber: 6.0 Consensus size: 92
8539642 ACTAGACATT
* * * * *
8539652 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGA
1 AAAAAAAGAAATTGAAAATACCTCAG--CGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
8539716 GTTGA--TTTTT-AAAATA-A-AATTTG--
64 GTTGATTTTTTTGAAAA-ACAGAAATTGAA
* * ** * ** *
8539739 TAAAACAGATTTTGAAAATATCC-CGGTATGTGACCTGAGGCTCAACTCACCTCTCGTAATATGA
1 AAAAAAAGAAATTGAAAATA-CCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
8539803 GTTGA--TTTTTGCAAAGCATAAATTTTAA
64 GTTGATTTTTTTGAAAAACAGAAA-TTGAA
** * *
8539831 AAAAAAATCAATTGAAAATACCTCGGCGTGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
8539896 TTGATTTTTTTGACAAACATAAATTGAA
65 TTGATTTTTTTGAAAAACAGAAATTGAA
* *
8539924 AAAAAAAGAAATTGAAAATATCTCAGCGTGT-CCTGAGGCTGAACTCACCT-TCGCAATATGAGT
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
8539987 TGATTTTTTGGAAAAACA-AATTTG--
66 TGATTTTTTTGAAAAACAGAAATTGAA
* * ** * *
8540011 AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAG
* * *
8540076 CTGTTTTTTTTG-AACACAGAAATTG--
65 TTGATTTTTTTGAAAAACAGAAATTGAA
* * * * * * *
8540101 AAGAATAGAAATGGAAAACACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGC
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
8540163 TGATTTTTTTGAAAGACAGAAATTGAA
66 TGATTTTTTTGAAAAACAGAAATTGAA
8540190 AA
1 AA
8540192 TACCTCAACG
Statistics
Matches: 371, Mismatches: 63, Indels: 36
0.79 0.13 0.08
Matches are distributed among these distances:
85 3 0.01
86 39 0.11
87 95 0.26
88 8 0.02
89 27 0.07
90 79 0.21
91 19 0.05
92 56 0.15
93 31 0.08
94 14 0.04
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (92 bp):
AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGAAAAACAGAAATTGAA
Found at i:8540015 original size:14 final size:14
Alignment explanation
Indices: 8539997--8540028 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
8539987 TGATTTTTTG
8539997 GAAAAACA-AATTT
1 GAAAAACAGAATTT
8540010 GAAAAACAGAATTT
1 GAAAAACAGAATTT
8540024 GAAAA
1 GAAAA
8540029 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (14 bp):
GAAAAACAGAATTT
Found at i:8540170 original size:86 final size:87
Alignment explanation
Indices: 8539774--8540191 Score: 378
Period size: 90 Copynumber: 4.7 Consensus size: 87
8539764 GTATGTGACC
* * * * * * * *
8539774 TGAGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTGCAAAGCATAAATTTTAAAAAAAA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAA-TTGAAAAATAG
* *
8539837 ATCAATTGAAAATACCTCGGCGTGT
65 A--AATTGAAAATACCTCAGCGTCT
* * *
8539862 GAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAA
1 ----TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTG--AAA
* * *
8539927 AAAAGAAATTGAAAATATCTCAGCGTGTCC
60 AATAGAAATTGAAAATACCTCAGC--GTCT
* * * * *
8539957 TGAGGCTGAACTCACCT-TCGCAATATGAGTTGATTTTTTGGAAAAACA-AATTTGAAAAACAGA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAAATAGA
* *
8540020 ATTTGAAAATACCTCAGCGTGT
66 AATTGAAAATACCTCAGCGTCT
* * * * *
8540042 GAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGTTTTTTTTG-AACACAGAAATTGAAGAA
1 ---T-GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAAA
* *
8540106 TAGAAATGGAAAACACCTCAGCGTCT
62 TAGAAATTGAAAATACCTCAGCGTCT
* *
8540132 TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAA
8540192 TACCTCAACG
Statistics
Matches: 274, Mismatches: 39, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
85 2 0.01
86 37 0.14
87 40 0.15
88 1 0.00
89 23 0.08
90 80 0.29
91 16 0.06
92 33 0.12
93 18 0.07
94 14 0.05
95 10 0.04
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (87 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAAATAGA
AATTGAAAATACCTCAGCGTCT
Found at i:8540390 original size:72 final size:72
Alignment explanation
Indices: 8540098--8540750 Score: 867
Period size: 72 Copynumber: 9.0 Consensus size: 72
8540088 AACACAGAAA
* * * * *
8540098 TTGAAGAATAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
8540161 GCTGATTTTT
65 GTTGA--TTT
8540171 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
8540236 GTTGATTT
65 GTTGATTT
* * *
8540244 TTGACAAACAAAAATTGAAATTACCTC-A-GTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
8540307 GCTGATTTTT
65 GTTGA--TTT
*
8540317 TTGAAAACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
8540382 TTGATTT
66 TTGATTT
* * * *
8540389 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTC-TGAGGCTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
8540453 GTTGATTTT
65 GTTGA-TTT
8540462 TTGAAAA-AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
8540526 TTGAGTT
66 TTGATTT
* * * * * *
8540533 TTGACAAACAAAAATTGAAATTACCTCAGCGT-TCCTGAGGCTCAACTCACCTATCACAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
8540597 GTTGATTTT
65 GTTGA-TTT
8540606 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACT-ACCTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
8540670 GTTGAGTT
65 GTTGATTT
* * * * *
8540678 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-CT-TCTCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
8540741 GTTGATTT
65 GTTGATTT
8540749 TT
1 TT
8540751 TTTAGAAACA
Statistics
Matches: 518, Mismatches: 44, Indels: 38
0.86 0.07 0.06
Matches are distributed among these distances:
71 87 0.17
72 181 0.35
73 157 0.30
74 56 0.11
75 37 0.07
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTT
Found at i:8540548 original size:144 final size:145
Alignment explanation
Indices: 8540120--8540751 Score: 1037
Period size: 145 Copynumber: 4.4 Consensus size: 145
8540110 AATGGAAAAC
* * * *
8540120 ACCTCAGCGTCT-TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAA
1 ACCTCAGCGTGTCTGAGGCTCAACTCACCTATCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAA
*
8540184 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
64 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGAC
8540249 AAACAAAAATTGAAATT
129 AAACAAAAATTGAAATT
* * *
8540266 ACCTCA--GTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAACAGAA
1 ACCTCAGCGTGTC-TGAGGCTCAACTCACCTATCGCAATATGAGTTGA-TTTTTTGAAAACAGAA
* *
8540329 ATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
64 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGAC
8540394 AAACAAAAATTGAAATT
129 AAACAAAAATTGAAATT
8540411 ACCTCAGCGTGTCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTGAAAA-AGAAAT
1 ACCTCAGCGTGTCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTGAAAACAGAAAT
8540475 TGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGACAA
66 TGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGACAA
8540540 ACAAAAATTGAAATT
131 ACAAAAATTGAAATT
*
8540555 ACCTCAGCGT-TCCTGAGGCTCAACTCACCTATCACAATATGAGTTGATTTTTTGAAAAACAGAA
1 ACCTCAGCGTGT-CTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTG-AAAACAGAA
8540619 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACT-ACCTCTCGCAATATGAGTTGAGTTTTGAC
64 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGAC
8540683 AAACAAAAATTGAAATT
129 AAACAAAAATTGAAATT
*
8540700 ACCTCAGCGTGTCCTGAGGCTCAACTCA-CT-TCTCAATATGAGTTGATTTTTT
1 ACCTCAGCGTGT-CTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTT
8540752 TTAGAAACAT
Statistics
Matches: 469, Mismatches: 9, Indels: 18
0.95 0.02 0.04
Matches are distributed among these distances:
143 1 0.00
144 159 0.34
145 166 0.35
146 138 0.29
147 5 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (145 bp):
ACCTCAGCGTGTCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTGAAAACAGAAAT
TGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGACAA
ACAAAAATTGAAATT
Found at i:8540980 original size:14 final size:13
Alignment explanation
Indices: 8540941--8540987 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
8540931 TTGATTTTTG
8540941 AAAAATAGAAATT
1 AAAAATAGAAATT
* *
8540954 AAAAGTAGTAATT
1 AAAAATAGAAATT
8540967 GAAAAATAGAAATT
1 -AAAAATAGAAATT
8540981 AAAAATA
1 AAAAATA
8540988 CCTTGGCGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (13 bp):
AAAAATAGAAATT
Found at i:8541008 original size:100 final size:99
Alignment explanation
Indices: 8540777--8541149 Score: 394
Period size: 100 Copynumber: 3.8 Consensus size: 99
8540767 AAAAAAACGA
* *
8540777 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTG
1 AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
** * * * * * *
8540840 AAAAGCAGAATTTGTAAGGCAAAAATTGAAAAACAG
66 AAAAATAGAAATT-AAAAG-TATAATTGAAAAATAG
* *
8540876 AAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
8540941 AAAAATAGAAATTAAAAGTAGTAATTGAAAAATAG
66 AAAAATAGAAATTAAAAGTA-TAATTGAAAAATAG
** * *
8540976 AAATTAAAAATACCTTGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *
8541041 --AAA-AG-CA-T-AAA-T-TGA---AAAAATAG
66 AAAAATAGAAATTAAAAGTATAATTGAAAAATAG
* *
8541064 AAATTAAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTAAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
* *
8541129 TTTGAAAGATAGAAATAAAAA
62 TTTGAAAAATAGAAATTAAAA
8541150 CATCAAAATA
Statistics
Matches: 234, Mismatches: 27, Indels: 27
0.81 0.09 0.09
Matches are distributed among these distances:
88 25 0.11
90 36 0.15
91 2 0.01
92 6 0.03
93 1 0.00
94 5 0.02
95 3 0.01
96 2 0.01
97 2 0.01
98 6 0.03
99 58 0.25
100 74 0.32
101 14 0.06
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (99 bp):
AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAATAGAAATTAAAAGTATAATTGAAAAATAG
Found at i:8541123 original size:90 final size:87
Alignment explanation
Indices: 8540963--8541129 Score: 253
Period size: 90 Copynumber: 1.9 Consensus size: 87
8540953 TAAAAGTAGT
* * * *
8540963 AATTGAAAAATAGAAATTAAAAATACCTTGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATAT
1 AATTGAAAAATAGAAATTAAAAATACCTAGGCGTGACCCGAGGCCCAACTCACCTCTCGCAATAT
8541028 GAGTTGATTTTTGAAAAGCATA
66 GAGTTGATTTTTGAAAAGCATA
* *
8541050 AATTGAAAAAATAGAAATTAAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAA
1 AATTG-AAAAATAGAAATTAAAAATACCT-AG-GCGTGACCCGAGGCCCAACTCACCTCTCGCAA
8541115 TATGAGTTGATTTTT
63 TATGAGTTGATTTTT
8541130 TTGAAAGATA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
87 5 0.07
88 23 0.32
89 1 0.01
90 42 0.59
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (87 bp):
AATTGAAAAATAGAAATTAAAAATACCTAGGCGTGACCCGAGGCCCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGAAAAGCATA
Found at i:8542006 original size:12 final size:12
Alignment explanation
Indices: 8541987--8542022 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
8541977 CTTGATCCTC
8541987 TCTCTTTTTTTT
1 TCTCTTTTTTTT
* *
8541999 TTTCTTTTCTTT
1 TCTCTTTTTTTT
8542011 TCTCTTTTTTTT
1 TCTCTTTTTTTT
8542023 AAGATGCCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TCTCTTTTTTTT
Found at i:8553133 original size:25 final size:23
Alignment explanation
Indices: 8553081--8553135 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
8553071 TATAAATAGT
8553081 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
8553104 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
8553129 AATAGTG
1 AATAGTG
8553136 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:8553255 original size:22 final size:24
Alignment explanation
Indices: 8553197--8553274 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
8553187 ATAGATATAA
* *
8553197 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
8553221 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
8553245 -AAAATATATACATAAGATAACATGT
1 AAAAATATATACATAATAT-A-ATGT
8553270 AAAAA
1 AAAAA
8553275 AAAATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 16 0.36
23 1 0.02
24 3 0.07
25 20 0.45
26 4 0.09
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.28
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:8553307 original size:15 final size:14
Alignment explanation
Indices: 8553276--8553340 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
8553266 ATGTAAAAAA
8553276 AAATATATATATAT
1 AAATATATATATAT
8553290 AAATA-ATATAGTATT
1 AAATATATATA-TA-T
* *
8553305 AAAGATATATACAT
1 AAATATATATATAT
8553319 AAA-ATAGTATA-AT
1 AAATATA-TATATAT
*
8553332 ATATATATA
1 AAATATATA
8553341 CGTAATATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
13 14 0.33
14 18 0.42
15 6 0.14
16 5 0.12
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:8553312 original size:25 final size:24
Alignment explanation
Indices: 8553286--8553415 Score: 108
Period size: 25 Copynumber: 5.5 Consensus size: 24
8553276 AAATATATAT
*
8553286 ATATAAATAATATAGTATTAAAGA
1 ATATACATAATATAGTATTAAAGA
* *
8553310 TATATACATAAAATAGTA-TAATATA
1 -ATATACATAATATAGTATTAA-AGA
* * *
8553335 TATATACGTAATATAGAATT-TAGA
1 -ATATACATAATATAGTATTAAAGA
* *
8553359 ATATACCTAATATA-T-TAAAAGA
1 ATATACATAATATAGTATTAAAGA
* *
8553381 ATATATATAATATAATATTAAAGA
1 ATATACATAATATAGTATTAAAGA
8553405 ATATA-ATAATA
1 ATATACATAATA
8553416 ACAAAAAAAA
Statistics
Matches: 85, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
21 1 0.01
22 15 0.18
23 20 0.24
24 16 0.19
25 32 0.38
26 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATACATAATATAGTATTAAAGA
Found at i:8553347 original size:50 final size:47
Alignment explanation
Indices: 8553282--8553413 Score: 135
Period size: 48 Copynumber: 2.8 Consensus size: 47
8553272 AAAAAAATAT
* *
8553282 ATATATATAAATAATATAGTATTAAAGATATATACATAAAATAGTATA
1 ATATATATATATAATATAGTATTAAAGA-ATATACATAAAATAGTAAA
* * * * *
8553330 ATATATATATACGTAATATAGAATT-TAGAATATACCTAATATATTAAA
1 ATATATATATA--TAATATAGTATTAAAGAATATACATAAAATAGTAAA
* *
8553378 AGA-ATATATATAATATAATATTAAAGAATATA-ATAA
1 ATATATATATATAATATAGTATTAAAGAATATACATAA
8553414 TAACAAAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
45 13 0.19
46 8 0.12
47 7 0.10
48 27 0.39
49 3 0.04
50 11 0.16
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (47 bp):
ATATATATATATAATATAGTATTAAAGAATATACATAAAATAGTAAA
Found at i:8553950 original size:29 final size:30
Alignment explanation
Indices: 8553874--8553957 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
8553864 GTGGTGGTGG
* * *
8553874 AGTGTGGCTAGTGGAGTAGGTAGTGGAGTA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
8553904 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
8553934 AGTG-GGCTAGTGGAGTTGGTGGTG
1 AGTGTGGCTAGTGGAGTTGGTGGTG
8553958 ACAAAAGGCT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 20 0.39
30 31 0.61
ACGTcount: A:0.18, C:0.05, G:0.50, T:0.27
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
Found at i:8553967 original size:26 final size:29
Alignment explanation
Indices: 8553879--8553969 Score: 89
Period size: 30 Copynumber: 3.2 Consensus size: 29
8553869 GGTGGAGTGT
* * * **
8553879 GGCTAGTGGAGTAGGTAGTGGAGTAAGTGT
1 GGCTAGTGGAGTTGGTGGTGGAGCAAG-AA
**
8553909 GGCTAGTGGAGTTGGTGGTGGAGCAAGTG
1 GGCTAGTGGAGTTGGTGGTGGAGCAAGAA
8553938 GGCTAGTGGAGTTGGTGGT-GA-CAA-AA
1 GGCTAGTGGAGTTGGTGGTGGAGCAAGAA
8553964 GGCTAG
1 GGCTAG
8553970 GATTTAGTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.11
27 3 0.06
28 2 0.04
29 19 0.35
30 24 0.44
ACGTcount: A:0.22, C:0.07, G:0.47, T:0.24
Consensus pattern (29 bp):
GGCTAGTGGAGTTGGTGGTGGAGCAAGAA
Found at i:8559007 original size:24 final size:25
Alignment explanation
Indices: 8558980--8559036 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
8558970 GAAGGATGAC
*
8558980 AAGGCTGAGACAAA-A-AAGGAAGTG
1 AAGGCTGAGA-AAAGAGAAGGAAGCG
8559004 AAGGCTGA-AAAAGAGAAGGAAGCG
1 AAGGCTGAGAAAAGAGAAGGAAGCG
8559028 AAGGCTGAG
1 AAGGCTGAG
8559037 TGAAAATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 3 0.10
23 2 0.07
24 24 0.83
ACGTcount: A:0.47, C:0.09, G:0.37, T:0.07
Consensus pattern (25 bp):
AAGGCTGAGAAAAGAGAAGGAAGCG
Found at i:8564600 original size:16 final size:15
Alignment explanation
Indices: 8564574--8564605 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
8564564 ATTAATTGAT
8564574 TAATATAAAATAATA
1 TAATATAAAATAATA
8564589 TAATACTAAAATAATA
1 TAATA-TAAAATAATA
8564605 T
1 T
8564606 TATTTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
TAATATAAAATAATA
Found at i:8566334 original size:36 final size:35
Alignment explanation
Indices: 8566257--8566345 Score: 99
Period size: 36 Copynumber: 2.5 Consensus size: 35
8566247 CGTTTATTTA
* * *
8566257 ATGTTCACGAACATGTTCATTTAACTTAATTGAAT
1 ATGTTCACGAATATGTTCATTGAACTTAATTAAAT
* *
8566292 ACGTTCACGAATATGTTCA-TGACCATATAATTAAAT
1 ATGTTCACGAATATGTTCATTGAAC-T-TAATTAAAT
8566328 ATGTTCACGAATAATGTT
1 ATGTTCACGAAT-ATGTT
8566346 AATAAATAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
34 3 0.07
35 18 0.40
36 19 0.42
37 5 0.11
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (35 bp):
ATGTTCACGAATATGTTCATTGAACTTAATTAAAT
Found at i:8571845 original size:23 final size:23
Alignment explanation
Indices: 8571785--8571846 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 23
8571775 AAAATTTTAA
8571785 AAATATTAATTCTATTAAATAAT
1 AAATATTAATTCTATTAAATAAT
*
8571808 AAATGATT--TT-T-TTAAGTAAT
1 AAAT-ATTAATTCTATTAAATAAT
8571828 AAATATTAATTCTATTAAA
1 AAATATTAATTCTATTAAA
8571847 ATTTAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
19 3 0.09
20 12 0.38
21 3 0.09
22 3 0.09
23 8 0.25
24 3 0.09
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (23 bp):
AAATATTAATTCTATTAAATAAT
Found at i:8581474 original size:19 final size:19
Alignment explanation
Indices: 8581450--8581487 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8581440 AGAGCCTAAA
8581450 TAATAATTTTACATTTTAG
1 TAATAATTTTACATTTTAG
8581469 TAATAATTTTACATTTTAG
1 TAATAATTTTACATTTTAG
8581488 GGGAGGGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
TAATAATTTTACATTTTAG
Found at i:8584456 original size:131 final size:130
Alignment explanation
Indices: 8584223--8584613 Score: 647
Period size: 131 Copynumber: 3.0 Consensus size: 130
8584213 TAATTATTCA
* * * *
8584223 TTTAAAAATTCTTTAAAACGAAGGCAATACTCGATGTTTGGCAATTCGGGAATCGTTCCCTATCG
1 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCG
*
8584288 TGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTC
66 TGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTC
* * *
8584353 TTTAAAAGCTCTTCAAAATGAAGGTAATACTCGATCTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATC
*
8584418 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
65 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
8584483 C
130 C
*
8584484 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTAGCAATTCAGGGAATCGTGCCCTATC
1 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATC
* * *
8584549 GTGCTGGGTTGCGATTTCCTGTTTGTTCGAAATAACCGAATATTCCTTTAGAATTTCACTCATGT
65 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
8584614 TCTCTAAATT
Statistics
Matches: 242, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
130 41 0.17
131 201 0.83
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (130 bp):
TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCG
TGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTC
Found at i:8585686 original size:22 final size:22
Alignment explanation
Indices: 8585659--8585700 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
8585649 TCATCATTCG
8585659 AAAAATTA-AAAAATCTAAAATA
1 AAAAATTATAAAAA-CTAAAATA
8585681 AAAAATTATAAAAACTAAAA
1 AAAAATTATAAAAACTAAAA
8585701 AATATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAAATTATAAAAACTAAAATA
Found at i:8585694 original size:16 final size:18
Alignment explanation
Indices: 8585675--8585711 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
8585665 TAAAAAATCT
8585675 AAAA-TAAAAAAT-TATA
1 AAAACTAAAAAATATATA
8585691 AAAACTAAAAAATATATA
1 AAAACTAAAAAATATATA
8585709 AAA
1 AAA
8585712 GTATAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 8 0.42
18 7 0.37
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAACTAAAAAATATATA
Found at i:8585759 original size:26 final size:26
Alignment explanation
Indices: 8585724--8585785 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 26
8585714 ATAAATATGT
8585724 ATTTTAAAAAATAA-AAATATGT-TAAA
1 ATTTT-AAAAATAATAAATAT-TATAAA
8585750 ATTTGTAAAAATAATAAATATTATAAA
1 ATTT-TAAAAATAATAAATATTATAAA
8585777 ATTTTAAAA
1 ATTTTAAAA
8585786 TTTGTAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (26 bp):
ATTTTAAAAATAATAAATATTATAAA
Found at i:8585767 original size:18 final size:18
Alignment explanation
Indices: 8585746--8585802 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
8585736 AAAAATATGT
8585746 TAAAATTTGTAAAAATAA
1 TAAAATTTGTAAAAATAA
* **
8585764 T-AAATAT-TATAAAATTT
1 TAAAATTTGTA-AAAATAA
8585781 TAAAATTTGTAAAAATAA
1 TAAAATTTGTAAAAATAA
8585799 TAAA
1 TAAA
8585803 TATTATAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
16 2 0.07
17 11 0.37
18 15 0.50
19 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (18 bp):
TAAAATTTGTAAAAATAA
Found at i:8585768 original size:17 final size:17
Alignment explanation
Indices: 8585748--8585803 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
8585738 AAATATGTTA
8585748 AAATTTGTAAAAATAAT
1 AAATTTGTAAAAATAAT
* **
8585765 AAATAT-TATAAAATTTT
1 AAATTTGTA-AAAATAAT
8585782 AAAATTTGTAAAAATAAT
1 -AAATTTGTAAAAATAAT
8585800 AAAT
1 AAAT
8585804 ATTATAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
16 2 0.07
17 15 0.50
18 11 0.37
19 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (17 bp):
AAATTTGTAAAAATAAT
Found at i:8585785 original size:35 final size:35
Alignment explanation
Indices: 8585745--8585811 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
8585735 TAAAAATATG
8585745 TTAAAATTTGTAAAAATAATAAATATTATAAAATT
1 TTAAAATTTGTAAAAATAATAAATATTATAAAATT
8585780 TTAAAATTTGTAAAAATAATAAATATTATAAA
1 TTAAAATTTGTAAAAATAATAAATATTATAAA
8585812 TAATTGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (35 bp):
TTAAAATTTGTAAAAATAATAAATATTATAAAATT
Found at i:8585811 original size:18 final size:18
Alignment explanation
Indices: 8585755--8585811 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
8585745 TTAAAATTTG
8585755 TAAAAATAATAAATATTA
1 TAAAAATAATAAATATTA
** *
8585773 T-AAAATTTTAAA-ATTTG
1 TAAAAATAATAAATA-TTA
8585790 TAAAAATAATAAATATTA
1 TAAAAATAATAAATATTA
8585808 TAAA
1 TAAA
8585812 TAATTGTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
16 1 0.03
17 12 0.40
18 16 0.53
19 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
TAAAAATAATAAATATTA
Found at i:8585837 original size:21 final size:20
Alignment explanation
Indices: 8585800--8585838 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
8585790 TAAAAATAAT
8585800 AAATATTATAAATAATTGTA
1 AAATATTATAAATAATTGTA
8585820 AAATAATTAATAAA-AATTG
1 AAAT-ATT-ATAAATAATTG
8585839 AGTAAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 8 0.47
22 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
AAATATTATAAATAATTGTA
Found at i:8590749 original size:21 final size:22
Alignment explanation
Indices: 8590713--8590753 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
8590703 ATCCCTATAT
8590713 TTTTTATATATTTAATATTTATC
1 TTTTTATATATTTAAT-TTTATC
8590736 TTTTTAT-T-TTTAATTTTA
1 TTTTTATATATTTAATTTTA
8590754 AGAATTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 1 0.06
23 7 0.39
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTATATATTTAATTTTATC
Found at i:8593036 original size:9 final size:9
Alignment explanation
Indices: 8593022--8593046 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8593012 AGTTGATCGT
8593022 TAATATACA
1 TAATATACA
8593031 TAATATACA
1 TAATATACA
8593040 TAATATA
1 TAATATA
8593047 TTAAAGCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (9 bp):
TAATATACA
Found at i:8593265 original size:21 final size:21
Alignment explanation
Indices: 8593241--8593281 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8593231 TAACAGAACC
*
8593241 GCTGATGTGACAAGTTAACTA
1 GCTGACGTGACAAGTTAACTA
* *
8593262 GCTGACGTGGCCAGTTAACT
1 GCTGACGTGACAAGTTAACT
8593282 TGCCACGTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (21 bp):
GCTGACGTGACAAGTTAACTA
Found at i:8596503 original size:21 final size:21
Alignment explanation
Indices: 8596477--8596517 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8596467 ATCTGCTCAA
* *
8596477 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
8596498 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
8596518 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:8599733 original size:30 final size:31
Alignment explanation
Indices: 8599668--8599734 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
8599658 ACCGTTAGTC
* *
8599668 AGTGACTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
8599699 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
8599728 GAGTGAC
1 -AGTGAC
8599735 AGAAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 5 0.16
30 12 0.38
31 15 0.47
ACGTcount: A:0.22, C:0.10, G:0.19, T:0.48
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:8608910 original size:13 final size:14
Alignment explanation
Indices: 8608884--8608914 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8608874 TTTCTATGTT
8608884 TTTCAAATTTTTTA
1 TTTCAAATTTTTTA
*
8608898 TTTCAAATTTTTAA
1 TTTCAAATTTTTTA
8608912 TTT
1 TTT
8608915 TGAAATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTCAAATTTTTTA
Found at i:8608920 original size:15 final size:15
Alignment explanation
Indices: 8608883--8608925 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
8608873 TTTTCTATGT
*
8608883 TTTTCAAATTTTTTA
1 TTTTCAAATTTTTAA
8608898 -TTTCAAATTTTTAA
1 TTTTCAAATTTTTAA
* *
8608912 TTTTGAAATGTTTA
1 TTTTCAAATTTTTA
8608926 TTGAATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (15 bp):
TTTTCAAATTTTTAA
Found at i:8610396 original size:6 final size:6
Alignment explanation
Indices: 8610381--8610414 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
8610371 TATTTTGGCC
8610381 CTTTTT -TTTTT CTTTTT CTTTTT C-TTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
8610415 GGATTTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
CTTTTT
Found at i:8610401 original size:17 final size:17
Alignment explanation
Indices: 8610381--8610414 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8610371 TATTTTGGCC
*
8610381 CTTTTTTTTTTCTTTTT
1 CTTTTTCTTTTCTTTTT
8610398 CTTTTTCTTTTCTTTTT
1 CTTTTTCTTTTCTTTTT
8610415 GGATTTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
CTTTTTCTTTTCTTTTT
Found at i:8616665 original size:26 final size:26
Alignment explanation
Indices: 8616609--8616658 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
8616599 AATTGTTTTG
* * *
8616609 AAAATTTTTAATTTTTAAATATTTAT
1 AAAATTTTTAAATATTAAAAATTTAT
*
8616635 TAAATTTTTAAATATTAAAAATTT
1 AAAATTTTTAAATATTAAAAATTT
8616659 CAAAAATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
AAAATTTTTAAATATTAAAAATTTAT
Found at i:8636759 original size:15 final size:14
Alignment explanation
Indices: 8636727--8636775 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 14
8636717 TTAGATATTC
*
8636727 TTTTACTTTTATGAT
1 TTTTAC-TTTAAGAT
*
8636742 TTTTAGTTTAAGAGT
1 TTTTACTTTAAGA-T
8636757 TTTTACTTTAAGAT
1 TTTTACTTTAAGAT
8636771 TTTTA
1 TTTTA
8636776 TTATTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.24, C:0.04, G:0.10, T:0.61
Consensus pattern (14 bp):
TTTTACTTTAAGAT
Found at i:8644425 original size:18 final size:19
Alignment explanation
Indices: 8644402--8644451 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
8644392 AAACTTTTTT
8644402 AAAAAATTATAAAATTAAA
1 AAAAAATTATAAAATTAAA
* *
8644421 AAAAAACTA-AAAATT-AC
1 AAAAAATTATAAAATTAAA
8644438 AAAAAATTATAAAA
1 AAAAAATTATAAAA
8644452 CTCTTAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.33
18 10 0.37
19 8 0.30
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAAATTATAAAATTAAA
Found at i:8644831 original size:15 final size:16
Alignment explanation
Indices: 8644794--8644826 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8644784 ATTTTTTATC
*
8644794 TTTCT-TAATTTAAAT
1 TTTCTATAATTCAAAT
8644809 TTTCTATAATTCAAAT
1 TTTCTATAATTCAAAT
8644825 TT
1 TT
8644827 GTATATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTCTATAATTCAAAT
Found at i:8651361 original size:49 final size:49
Alignment explanation
Indices: 8651299--8651399 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
8651289 GTATGAATTA
8651299 AGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGT
1 AGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGT
8651348 AGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGT
1 AGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGT
8651397 AGA
1 AGA
8651400 AAATCAACAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.30
Consensus pattern (49 bp):
AGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGT
Found at i:8653766 original size:13 final size:13
Alignment explanation
Indices: 8653748--8653773 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8653738 TTACAGTTAG
8653748 GTTCAATGGAAAT
1 GTTCAATGGAAAT
8653761 GTTCAATGGAAAT
1 GTTCAATGGAAAT
8653774 TACAAAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
GTTCAATGGAAAT
Found at i:8655440 original size:22 final size:22
Alignment explanation
Indices: 8655415--8655458 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8655405 TAGTCATATA
8655415 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
8655437 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
8655459 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:8655494 original size:13 final size:14
Alignment explanation
Indices: 8655478--8655519 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
8655468 TTTCAATTTT
8655478 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
8655491 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
8655506 ATTTTAAATAATAT
1 ATTTT-AATAATAT
8655520 TATTCACGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:8655504 original size:16 final size:16
Alignment explanation
Indices: 8655482--8655518 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
8655472 AATTTTATTT
8655482 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
8655499 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
8655514 TAATA
1 TAATA
8655519 TTATTCACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:8655580 original size:19 final size:19
Alignment explanation
Indices: 8655553--8655589 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8655543 TCAATATTAA
*
8655553 TATTTCAATAATAAATATT
1 TATTACAATAATAAATATT
*
8655572 TATTACAATTATAAATAT
1 TATTACAATAATAAATAT
8655590 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTACAATAATAAATATT
Found at i:8656099 original size:13 final size:14
Alignment explanation
Indices: 8656064--8656101 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
8656054 CCAAAAAAGT
8656064 AAATCATTTTCCAG
1 AAATCATTTTCCAG
8656078 AAATCATTTTCC-G
1 AAATCATTTTCCAG
*
8656091 AAGTCATTTTC
1 AAATCATTTTC
8656102 AGTGAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:8665281 original size:20 final size:20
Alignment explanation
Indices: 8665233--8665300 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 20
8665223 TTCTTACATT
*
8665233 GTAAATCATTAAAAATATTGG
1 GTAAATCATTAGAAATATT-G
8665254 TAGTAAAT-AGTTAGAAATATTG
1 --GTAAATCA-TTAGAAATATTG
* *
8665276 GTAAATCATTAGATATTTTG
1 GTAAATCATTAGAAATATTG
8665296 GTAAA
1 GTAAA
8665301 AGCTTTTCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 21 0.52
21 1 0.03
22 2 0.05
23 16 0.40
ACGTcount: A:0.44, C:0.03, G:0.16, T:0.37
Consensus pattern (20 bp):
GTAAATCATTAGAAATATTG
Found at i:8669860 original size:14 final size:14
Alignment explanation
Indices: 8669841--8669883 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
8669831 GAAAGATTTG
8669841 AAAAAAATATAGAT
1 AAAAAAATATAGAT
* *
8669855 AAAAAAATAAAAAT
1 AAAAAAATATAGAT
8669869 AAAAATAA-ATAGAT
1 AAAAA-AATATAGAT
8669883 A
1 A
8669884 TGCTTGAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 22 0.92
15 2 0.08
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (14 bp):
AAAAAAATATAGAT
Found at i:8670132 original size:19 final size:19
Alignment explanation
Indices: 8670108--8670147 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8670098 TAAGAATATA
*
8670108 ATCCAAACTAAATTAAAAT
1 ATCCAAACCAAATTAAAAT
*
8670127 ATCCAACCCAAATTAAAAT
1 ATCCAAACCAAATTAAAAT
8670146 AT
1 AT
8670148 TTTTTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (19 bp):
ATCCAAACCAAATTAAAAT
Found at i:8671312 original size:20 final size:22
Alignment explanation
Indices: 8671271--8671314 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
8671261 GTTTGTCATT
8671271 TTTTTTAATGTAATTTATGTAC
1 TTTTTTAATGTAATTTATGTAC
*
8671293 TTTTTT-ATTTAATTTA-GTAC
1 TTTTTTAATGTAATTTATGTAC
8671313 TT
1 TT
8671315 GCATTTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 9 0.43
22 6 0.29
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTTTTAATGTAATTTATGTAC
Found at i:8677299 original size:5 final size:5
Alignment explanation
Indices: 8677289--8677319 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
8677279 TTATGTTTTA
8677289 ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
8677320 AAACTAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:8677662 original size:15 final size:15
Alignment explanation
Indices: 8677642--8677698 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
8677632 CGATGAATTT
8677642 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
8677657 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
8677672 ATTGAATTTATATTG
1 ATTGAATTTATATTG
8677687 ATTGAA-TTATAT
1 ATTGAATTTATAT
8677699 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:8678108 original size:23 final size:23
Alignment explanation
Indices: 8678082--8678156 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
8678072 AGGCACTATA
8678082 TGTGTCGTATTTTAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
*
8678105 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
* **
8678126 TGTGTCG--TTTTAGGCACTTTA
1 TGTGTCGTATTTTAGGCACCTCG
8678147 TGTGTCGTAT
1 TGTGTCGTAT
8678157 ACTGATCAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 33 0.77
23 10 0.23
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (23 bp):
TGTGTCGTATTTTAGGCACCTCG
Found at i:8679506 original size:115 final size:115
Alignment explanation
Indices: 8679299--8679520 Score: 372
Period size: 115 Copynumber: 1.9 Consensus size: 115
8679289 TTAAGGTCGT
*
8679299 AAAAAAATTATTTATAAGCTAAATTTGTAAGTCAACTAATAATAAAATAATCTAGACTAATCAGA
1 AAAAAAATTATTTATAAGCTAAATTTGTAAGTCAAATAATAATAAAATAATCTAGACTAATCAGA
* *
8679364 GTTCGACTATAACAAATAAACAGAGTTTAACTGAGAGATTATCAGTCTTA
66 GTTCGACAATAACAAATAAACAAAGTTTAACTGAGAGATTATCAGTCTTA
* * *
8679414 AAAAAAATTATTTATAAGCTAAGTTTGTAAGTCAAATAATAATAAAATAATTTAGACTAATTAGA
1 AAAAAAATTATTTATAAGCTAAATTTGTAAGTCAAATAATAATAAAATAATCTAGACTAATCAGA
* *
8679479 GTTCGACAATAATAAATAAATAAAGTTTAACTGAGAGATTAT
66 GTTCGACAATAACAAATAAACAAAGTTTAACTGAGAGATTAT
8679521 ATTTTAAATT
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
115 99 1.00
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.32
Consensus pattern (115 bp):
AAAAAAATTATTTATAAGCTAAATTTGTAAGTCAAATAATAATAAAATAATCTAGACTAATCAGA
GTTCGACAATAACAAATAAACAAAGTTTAACTGAGAGATTATCAGTCTTA
Found at i:8681143 original size:2 final size:2
Alignment explanation
Indices: 8681108--8681132 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8681098 TTGCTCATAC
8681108 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8681133 CACTTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8681398 original size:24 final size:23
Alignment explanation
Indices: 8681363--8681415 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
8681353 ATTCTAATCA
*
8681363 TTAAATTAAATGTTAAATGTTATT
1 TTAAATTAAATGTGAAATGTT-TT
8681387 TTAAATCT-AATGTGAAATGTTTT
1 TTAAAT-TAAATGTGAAATGTTTT
*
8681410 TAAAAT
1 TTAAAT
8681416 ATATAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
24 18 0.69
25 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (23 bp):
TTAAATTAAATGTGAAATGTTTT
Found at i:8685437 original size:17 final size:18
Alignment explanation
Indices: 8685415--8685448 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8685405 ATAAATTTTA
8685415 AAAGTAAAAC-TAAAAAT
1 AAAGTAAAACTTAAAAAT
*
8685432 AAAGTAATACTTAAAAA
1 AAAGTAAAACTTAAAAA
8685449 GAGAGTGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (18 bp):
AAAGTAAAACTTAAAAAT
Found at i:8685652 original size:28 final size:28
Alignment explanation
Indices: 8685620--8685677 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
8685610 TAATTGATAT
*
8685620 AATA-TTGATAATTTTAAAATATAATTTA
1 AATATTTGAAAATTTTAAAA-ATAATTTA
* *
8685648 AATATTTTAAAATTTTAAAACTAATTTA
1 AATATTTGAAAATTTTAAAAATAATTTA
8685676 AA
1 AA
8685678 ATAATAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
AATATTTGAAAATTTTAAAAATAATTTA
Found at i:8686238 original size:23 final size:24
Alignment explanation
Indices: 8686194--8686240 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
8686184 ATTTTTTTTA
*
8686194 TACAAATTTTTTTTTGATGTATTT
1 TACAAATTTTTCTTTGATGTATTT
8686218 TACATAATTTTTCTTT-A-GTATTT
1 TACA-AATTTTTCTTTGATGTATTT
8686241 ATTAAAAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 5 0.24
25 10 0.48
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (24 bp):
TACAAATTTTTCTTTGATGTATTT
Found at i:8692735 original size:50 final size:49
Alignment explanation
Indices: 8692644--8692739 Score: 140
Period size: 49 Copynumber: 1.9 Consensus size: 49
8692634 ATTACTCAAT
* *
8692644 AGGCTTCCATCAATTCATAAAAAGACTTGTTTTTATCATTTCAGTTATC
1 AGGCTGCCATCAACTCATAAAAAGACTTGTTTTTATCATTTCAGTTATC
*
8692693 AGGCTGCCATCAACTCATGCAAACAGACTTG-TTTTATCATTTCAGTT
1 AGGCTGCCATCAACTCAT--AAAAAGACTTGTTTTTATCATTTCAGTT
8692740 GTTAAACTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 16 0.38
50 16 0.38
51 10 0.24
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (49 bp):
AGGCTGCCATCAACTCATAAAAAGACTTGTTTTTATCATTTCAGTTATC
Found at i:8692753 original size:50 final size:49
Alignment explanation
Indices: 8692647--8692792 Score: 143
Period size: 50 Copynumber: 3.0 Consensus size: 49
8692637 ACTCAATAGG
* **
8692647 CTTCCATCAATTCAT-AAAAAGACTTGTTTTTATCATTTCAGTTATCAGG
1 CTTCCATCAAATCATGAAAAAGACTTG-TTTTATCATTTCAGTTATCAAA
* * * * *
8692696 CTGCCATCAACTCATGCAAACAGACTTGTTTTATCATTTCAGTTGTTAAA
1 CTTCCATCAAATCATG-AAAAAGACTTGTTTTATCATTTCAGTTATCAAA
* * * * *
8692746 CTTCCATCAAATTATG-TAGAGACTTGTTTTATCATCTCAGTCATCAA
1 CTTCCATCAAATCATGAAAAAGACTTGTTTTATCATTTCAGTTATCAA
8692793 GCTTTTATCA
Statistics
Matches: 79, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
48 25 0.32
49 13 0.16
50 31 0.39
51 10 0.13
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (49 bp):
CTTCCATCAAATCATGAAAAAGACTTGTTTTATCATTTCAGTTATCAAA
Found at i:8693678 original size:28 final size:28
Alignment explanation
Indices: 8693642--8693737 Score: 106
Period size: 28 Copynumber: 3.3 Consensus size: 28
8693632 AATTAACTAA
8693642 AAAAAGAAAGAAAACAACTTACCAAACT
1 AAAAAGAAAGAAAACAACTTACCAAACT
***
8693670 AAAAAGAAATGTAGAAA-AAGGAAGACC-AACT
1 AAAAAGAAA-G-A-AAACAA--CTTACCAAACT
8693701 AAAAAGAAAGAAAACAACTTACCAAACT
1 AAAAAGAAAGAAAACAACTTACCAAACT
8693729 AAAAAGAAA
1 AAAAAGAAA
8693738 TTTAGAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
27 3 0.05
28 25 0.45
29 4 0.07
30 4 0.07
31 16 0.29
32 3 0.05
ACGTcount: A:0.66, C:0.14, G:0.11, T:0.09
Consensus pattern (28 bp):
AAAAAGAAAGAAAACAACTTACCAAACT
Found at i:8693698 original size:32 final size:31
Alignment explanation
Indices: 8693662--8693755 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 31
8693652 AAAACAACTT
8693662 ACCAAACTAAAAAGAAATGTAGAAAAAGGAAG
1 ACCAAACTAAAAAGAAATGTAGAAAAA-GAAG
***
8693694 ACC-AACTAAAAAGAAA-G-A-AAACAA-CTT
1 ACCAAACTAAAAAGAAATGTAGAAA-AAGAAG
*
8693721 ACCAAACTAAAAAGAAATTTAGAAAAAGCAAG
1 ACCAAACTAAAAAGAAATGTAGAAAAAG-AAG
8693753 ACC
1 ACC
8693756 GGGAAACAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
27 3 0.06
28 16 0.33
29 3 0.06
30 4 0.08
31 16 0.33
32 6 0.12
ACGTcount: A:0.62, C:0.15, G:0.13, T:0.11
Consensus pattern (31 bp):
ACCAAACTAAAAAGAAATGTAGAAAAAGAAG
Found at i:8693717 original size:59 final size:59
Alignment explanation
Indices: 8693642--8693755 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
8693632 AATTAACTAA
*
8693642 AAAAAGAAAGAAAACAACTTACCAAACTAAAAAGAAATGTAGAAAAAGGAAGACCAACT
1 AAAAAGAAAGAAAACAACTTACCAAACTAAAAAGAAATGTAGAAAAAGCAAGACCAACT
*
8693701 AAAAAGAAAGAAAACAACTTACCAAACTAAAAAGAAATTTAGAAAAAGCAAGACC
1 AAAAAGAAAGAAAACAACTTACCAAACTAAAAAGAAATGTAGAAAAAGCAAGACC
8693756 GGGAAACAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.63, C:0.14, G:0.12, T:0.11
Consensus pattern (59 bp):
AAAAAGAAAGAAAACAACTTACCAAACTAAAAAGAAATGTAGAAAAAGCAAGACCAACT
Found at i:8706043 original size:18 final size:18
Alignment explanation
Indices: 8706020--8706055 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8706010 TTTCACATAG
*
8706020 TGTTATATTATTTATGTA
1 TGTTATATTATTCATGTA
8706038 TGTTATATTATTCATGTA
1 TGTTATATTATTCATGTA
8706056 GACTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.58
Consensus pattern (18 bp):
TGTTATATTATTCATGTA
Found at i:8709519 original size:25 final size:25
Alignment explanation
Indices: 8709491--8709545 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
8709481 GATAAGCTCA
*
8709491 CAGCTCTCACTTCTAGCTAAGCTTG
1 CAGCTCTCACATCTAGCTAAGCTTG
* * * *
8709516 CAGCTTTGACATCTTGCTGAGCTTG
1 CAGCTCTCACATCTAGCTAAGCTTG
8709541 CAGCT
1 CAGCT
8709546 TGCACATTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.33
Consensus pattern (25 bp):
CAGCTCTCACATCTAGCTAAGCTTG
Found at i:8720540 original size:12 final size:13
Alignment explanation
Indices: 8720522--8720554 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8720512 TAAAAATTTA
8720522 AAAATAAAAAA-T
1 AAAATAAAAAACT
*
8720534 TAAATAAAAAACT
1 AAAATAAAAAACT
8720547 AAAATAAA
1 AAAATAAA
8720555 TTTTTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAATAAAAAACT
Found at i:8723096 original size:19 final size:17
Alignment explanation
Indices: 8723060--8723109 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
8723050 GTTTTTTTTT
8723060 TGTAATTATTAT-TATTA
1 TGTAA-TATTATATATTA
*
8723077 TTTTAATATGTATATATTA
1 -TGTAATAT-TATATATTA
8723096 TGTAATATTATATA
1 TGTAATATTATATA
8723110 CATGCTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 9 0.32
18 14 0.50
19 5 0.18
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
TGTAATATTATATATTA
Found at i:8723779 original size:30 final size:31
Alignment explanation
Indices: 8723715--8723784 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
8723705 TATTATTTTT
* *
8723715 TATATTATATATCATTATTTATCCTATGTTA
1 TATATTATATATCATTATATATCATATGTTA
8723746 TATA-TATATAT-ATATATATATCATAT-TTCA
1 TATATTATATATCAT-TATATATCATATGTT-A
8723776 TATATTATA
1 TATATTATA
8723785 CACGTATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 4 0.12
30 22 0.65
31 8 0.24
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (31 bp):
TATATTATATATCATTATATATCATATGTTA
Found at i:8737478 original size:17 final size:18
Alignment explanation
Indices: 8737458--8737496 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
8737448 ATTCATTGTA
*
8737458 TTATTTCAT-TAAAATTC
1 TTATTTAATGTAAAATTC
8737475 TTA-TTAATGTAAAATTC
1 TTATTTAATGTAAAATTC
8737492 TTATT
1 TTATT
8737497 ATTTAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 4 0.21
17 14 0.74
18 1 0.05
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (18 bp):
TTATTTAATGTAAAATTC
Found at i:8741974 original size:26 final size:24
Alignment explanation
Indices: 8741933--8741991 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
8741923 TTATTTTAGT
* *
8741933 AAATAAA-AAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
8741956 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
8741982 AAATAAATAT
1 AAATAAATAT
8741992 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.32
25 7 0.23
26 14 0.45
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:8742003 original size:22 final size:20
Alignment explanation
Indices: 8741962--8742007 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
8741952 ATAATAAATC
* *
8741962 AAATATATTTAAAAACATAA
1 AAATAAATTTAAAAAAATAA
8741982 AAATAAATATTAAAACAAATAA
1 AAATAAAT-TTAAAA-AAATAA
8742004 AAAT
1 AAAT
8742008 GATACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (20 bp):
AAATAAATTTAAAAAAATAA
Found at i:8742398 original size:3 final size:3
Alignment explanation
Indices: 8742390--8742469 Score: 78
Period size: 3 Copynumber: 27.7 Consensus size: 3
8742380 TGTTATCTTC
*
8742390 ATT ATT ATT GA-T ATT ATT ATT ATT ATT ATT ATT GTT -TT -TT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
8742433 ACT ATT ATC ATT ATT A-T ATT ATT ACT ATT AGT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8742470 ATTTATATTC
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
2 7 0.11
3 56 0.88
4 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:8742593 original size:3 final size:3
Alignment explanation
Indices: 8742585--8742614 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8742575 CTATTTATGT
8742585 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8742615 CTTTTTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8743224 original size:27 final size:26
Alignment explanation
Indices: 8743148--8743233 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 26
8743138 TACTTTGTGA
*
8743148 ATTATTTATCTT--AATTTATTTAACAT
1 ATTATTTAT-TTCAAATTTATTT-ATAT
*
8743174 ATTATTTATTTGAAATTTACTTTATAT
1 ATTATTTATTTCAAATTTA-TTTATAT
8743201 ATTATGTTATTTCAAATTGT-TTTATAT
1 ATTAT-TTATTTCAAATT-TATTTATAT
*
8743228 TTTATT
1 ATTATT
8743234 CATGTTAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
25 2 0.04
26 10 0.19
27 25 0.48
28 14 0.27
29 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.60
Consensus pattern (26 bp):
ATTATTTATTTCAAATTTATTTATAT
Done.