Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 176 of 250
Found at i:56095000 original size:31 final size:32
Alignment explanation
Indices: 56094960--56095028 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
56094950 TTTTTTATCC
* * *
56094960 AATTAGGTACTTGAACTTGA-TTTCTTGGTTCA
1 AATTAGGTACCTAAACTTGACTTT-TTGGTCCA
56094992 AATT-GGTACCTAAACTTGACTTTTTGGTCCA
1 AATTAGGTACCTAAACTTGACTTTTTGGTCCA
56095023 AATTAG
1 AATTAG
56095029 TGCTTATAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 24 0.75
32 8 0.25
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (32 bp):
AATTAGGTACCTAAACTTGACTTTTTGGTCCA
Found at i:56095716 original size:21 final size:21
Alignment explanation
Indices: 56095690--56095756 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
56095680 TACAAAACCC
56095690 AAACATTGGGGGCCAATGTCT
1 AAACATTGGGGGCCAATGTCT
**** * * *
56095711 AAACATAACAGACCAA--CCC
1 AAACATTGGGGGCCAATGTCT
56095730 AAACATTGGGGGCCAATGTCT
1 AAACATTGGGGGCCAATGTCT
56095751 AAACAT
1 AAACAT
56095757 AACAGACCGA
Statistics
Matches: 30, Mismatches: 14, Indels: 4
0.62 0.29 0.08
Matches are distributed among these distances:
19 12 0.40
21 18 0.60
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (21 bp):
AAACATTGGGGGCCAATGTCT
Found at i:56095740 original size:40 final size:40
Alignment explanation
Indices: 56095685--56095773 Score: 169
Period size: 40 Copynumber: 2.2 Consensus size: 40
56095675 CAGGTTACAA
56095685 AACCCAAACATTGGGGGCCAATGTCTAAACATAACAGACC
1 AACCCAAACATTGGGGGCCAATGTCTAAACATAACAGACC
56095725 AACCCAAACATTGGGGGCCAATGTCTAAACATAACAGACC
1 AACCCAAACATTGGGGGCCAATGTCTAAACATAACAGACC
*
56095765 GACCCAAAC
1 AACCCAAAC
56095774 CCCACATCGG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.40, C:0.29, G:0.17, T:0.13
Consensus pattern (40 bp):
AACCCAAACATTGGGGGCCAATGTCTAAACATAACAGACC
Found at i:56097431 original size:34 final size:36
Alignment explanation
Indices: 56097388--56097462 Score: 113
Period size: 34 Copynumber: 2.2 Consensus size: 36
56097378 ACTTTTTGTA
56097388 TATATTATATTATATACA-TTATATTA-TATAT-TTT
1 TATATTATATTATATA-ATTTATATTACTATATATTT
56097422 TATATTATATTATATAATTTATATTACTATATATTT
1 TATATTATATTATATAATTTATATTACTATATATTT
56097458 T-TATT
1 TATATT
56097463 TGTAAATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
33 1 0.03
34 24 0.63
35 9 0.24
36 4 0.11
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (36 bp):
TATATTATATTATATAATTTATATTACTATATATTT
Found at i:56097494 original size:5 final size:5
Alignment explanation
Indices: 56097388--56097478 Score: 68
Period size: 5 Copynumber: 18.8 Consensus size: 5
56097378 ACTTTTTGTA
* *
56097388 TATAT TATAT TATA- TACAT TATAT TATA- TATTTT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT
* * *
56097437 AAT-T TATAT TACTA- TATAT T-T-T TATTT GTAAAT TATAT TATA
1 TATAT TATAT TA-TAT TATAT TATAT TATAT -TATAT TATAT TATA
56097479 CACTATATAT
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
3 2 0.03
4 12 0.18
5 47 0.69
6 7 0.10
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:56099043 original size:26 final size:26
Alignment explanation
Indices: 56099008--56099073 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
56098998 TATCACATTA
*
56099008 ATAAATAATTTAAAATCTATACAAAT
1 ATAAAAAATTTAAAATCTATACAAAT
56099034 ATAAAAAATTTAAAATCTATACAAAT
1 ATAAAAAATTTAAAATCTATACAAAT
*
56099060 ATTTAAAAATTTAA
1 A-TAAAAAATTTAA
56099074 TAAAAATCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
26 26 0.70
27 11 0.30
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAAAAAATTTAAAATCTATACAAAT
Found at i:56099534 original size:5 final size:5
Alignment explanation
Indices: 56099519--56099551 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
56099509 TGTGTGTTCT
56099519 TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
56099552 TTTACAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:56099542 original size:15 final size:14
Alignment explanation
Indices: 56099519--56099555 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
56099509 TGTGTGTTCT
56099519 TTTTATTTATTTTA
1 TTTTATTTATTTTA
56099533 TTTTATTTTATTTTA
1 TTTTA-TTTATTTTA
56099548 TTTT-TTTA
1 TTTTATTTA
56099556 CAAATTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 5 0.23
15 13 0.59
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:56111324 original size:16 final size:14
Alignment explanation
Indices: 56111304--56111340 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
56111294 TTTTTTAAAC
56111304 TTTTTTTCTTCCTTT
1 TTTTTTTCTT-CTTT
56111319 TATTTTTTCTTCTTT
1 T-TTTTTTCTTCTTT
56111334 TTTTTTT
1 TTTTTTT
56111341 GTGGAACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 9 0.43
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTTCTTCTTT
Found at i:56115748 original size:23 final size:23
Alignment explanation
Indices: 56115722--56115767 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
56115712 TGAAAAATGG
56115722 CCGAAATATTCTCGTTGAGGTTA
1 CCGAAATATTCTCGTTGAGGTTA
56115745 CCGAAATATTCTCGTTGAGGTTA
1 CCGAAATATTCTCGTTGAGGTTA
56115768 ACTCTTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (23 bp):
CCGAAATATTCTCGTTGAGGTTA
Found at i:56118463 original size:16 final size:16
Alignment explanation
Indices: 56118442--56118476 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
56118432 TAAAAAAATA
* *
56118442 AAATAAAATAAAGTAG
1 AAATAAAAAAAAGAAG
56118458 AAATAAAAAAAAGAAG
1 AAATAAAAAAAAGAAG
56118474 AAA
1 AAA
56118477 ATTTTATTAA
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:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AAATAAAAAAAAGAAG
Found at i:56132463 original size:13 final size:13
Alignment explanation
Indices: 56132445--56132471 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56132435 GGTCTTGACA
56132445 GGGACACGCCCGT
1 GGGACACGCCCGT
56132458 GGGACACGCCCGT
1 GGGACACGCCCGT
56132471 G
1 G
56132472 TGCGATTACT
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:0.15, C:0.37, G:0.41, T:0.07
Consensus pattern (13 bp):
GGGACACGCCCGT
Found at i:56136229 original size:20 final size:20
Alignment explanation
Indices: 56136201--56136239 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
56136191 CTGTATATGT
56136201 AATTCGTTTT-TATGTAAAGA
1 AATTCGTTTTCTA-GTAAAGA
*
56136221 AATTTGTTTTCTAGTAAAG
1 AATTCGTTTTCTAGTAAAG
56136240 TTGTTCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (20 bp):
AATTCGTTTTCTAGTAAAGA
Found at i:56142837 original size:15 final size:15
Alignment explanation
Indices: 56142817--56142845 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56142807 CAATCAAATC
56142817 TCAATAAAAAGGGAG
1 TCAATAAAAAGGGAG
56142832 TCAATAAAAAGGGA
1 TCAATAAAAAGGGA
56142846 AAAATTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.24, T:0.14
Consensus pattern (15 bp):
TCAATAAAAAGGGAG
Found at i:56145352 original size:3 final size:3
Alignment explanation
Indices: 56145344--56145389 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
56145334 AATGCATAAC
* * *
56145344 ATA ATA ATA ATA ATA ATA ATT ATA ATT ATA ATT ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
56145390 CAACAACAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:56150067 original size:30 final size:30
Alignment explanation
Indices: 56150032--56150088 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
56150022 TACAACCATG
56150032 ACACACGGACGTGTGGCCTACCCGTGTTTC
1 ACACACGGACGTGTGGCCTACCCGTGTTTC
* **
56150062 ACACACGGGCGTGTGGGTTACCCGTGT
1 ACACACGGACGTGTGGCCTACCCGTGT
56150089 GGAAGTGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.16, C:0.30, G:0.32, T:0.23
Consensus pattern (30 bp):
ACACACGGACGTGTGGCCTACCCGTGTTTC
Found at i:56151871 original size:11 final size:11
Alignment explanation
Indices: 56151855--56151879 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56151845 TTATATATAC
56151855 TAATAAAATAA
1 TAATAAAATAA
56151866 TAATAAAATAA
1 TAATAAAATAA
56151877 TAA
1 TAA
56151880 AATATCATAT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:56152707 original size:13 final size:13
Alignment explanation
Indices: 56152689--56152718 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
56152679 TTATTTTGAA
56152689 TGAAATGAATGAT
1 TGAAATGAATGAT
56152702 TGAAATGAATGAT
1 TGAAATGAATGAT
56152715 TGAA
1 TGAA
56152719 TGGTTGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (13 bp):
TGAAATGAATGAT
Found at i:56153106 original size:42 final size:43
Alignment explanation
Indices: 56153004--56153148 Score: 168
Period size: 42 Copynumber: 3.4 Consensus size: 43
56152994 TCTGAGATAT
** * * ** *
56153004 CGTGTAAGACTGTGTCTGGGACACAGGCCTCGATTAGAGATTTA
1 CGTGTAAGACCATGTCTGGGACAGAGGCATCGA-TACTGAATTA
* *
56153048 CGTGTAAGACCATGTCTGGGACATAGGCATCG-TATCTG-ATTG
1 CGTGTAAGACCATGTCTGGGACAGAGGCATCGATA-CTGAATTA
*
56153090 CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATACTGAATTA
1 CGTGTAAGACCATGTCTGGGACAGAGGCATCGATACTGAATTA
56153133 CGTGTAAGACCATGTC
1 CGTGTAAGACCATGTC
56153149 CGAGACGTCA
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
42 37 0.43
43 21 0.24
44 28 0.33
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACAGAGGCATCGATACTGAATTA
Found at i:56159622 original size:68 final size:63
Alignment explanation
Indices: 56159475--56159622 Score: 181
Period size: 63 Copynumber: 2.3 Consensus size: 63
56159465 CATAATTTTG
* * *
56159475 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAATTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACACATAGTACCACCCATGCGACCTAGCCAATATATCTCGTA
* * *
56159538 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGAACACATAGTACCACCCATGCGACCTAGC--CA--AT-ATATCT
56159602 CGTA
60 CGTA
56159606 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
56159623 ATGTGCACTC
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
62 1 0.01
63 43 0.60
65 2 0.03
67 2 0.03
68 23 0.32
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACACATAGTACCACCCATGCGACCTAGCCAATATATCTCGTA
Found at i:56161444 original size:44 final size:44
Alignment explanation
Indices: 56161380--56161805 Score: 332
Period size: 44 Copynumber: 9.5 Consensus size: 44
56161370 TGAAGAATTG
* * * ** *
56161380 TATCTCCTTGAAATTGCAGTGGAGTAGATTAAAGCCACAAATAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCT
* * * *
56161424 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAATCT
* * * * *
56161469 TATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCT
* *
56161513 TATCTCCCT-AGAGTTGCAGTGGAGCAGGTTAAAGTTACAAACCT
1 TATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAGTTACAAATCT
* * * * * * *
56161557 TATCCCCCCTGAAGTTGTAGTGGAGTAGGTTGAAGTTCCAAATTT
1 TAT-CTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCT
* * *
56161602 TATCTCCCTGAAGTTGAAGTGGAGCAGGTTGAAGTTACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCT
* * * * ** *
56161646 TATCTCCTTGAAGTTACAATGGAGCAAATTAAAAATAGCGAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAATCT
* * * *
56161691 TATTTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTGCAAACCGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-T---TA---CAAATCT
* * * **
56161742 TATCTTCCTGGAGTTGCAGTGGAGCAGATTAAAGCTACAAGCCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCT
* * *
56161786 AATCTCCCTAAAGTTACAGT
1 TATCTCCCTGAAGTTGCAGT
56161806 AAAGTAGATC
Statistics
Matches: 302, Mismatches: 69, Indels: 22
0.77 0.18 0.06
Matches are distributed among these distances:
43 1 0.00
44 157 0.52
45 105 0.35
46 1 0.00
47 1 0.00
49 1 0.00
51 36 0.12
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCT
Found at i:56161520 original size:89 final size:87
Alignment explanation
Indices: 56161380--56161660 Score: 287
Period size: 89 Copynumber: 3.2 Consensus size: 87
56161370 TGAAGAATTG
* * * * *
56161380 TATCTCCTTGAAATTGCAGTGGAGTAGATTAAAGCCACAAATATTATCTCCCTGAAGTTACAGTG
1 TATCTCC-TGAAGTTGTAGTAGAGCAGATTAAAGCTACAAATATTATCTCCCTGAAGTTACAGTG
* * *
56161445 GAGCAGATTGAAGATAGCAAATAT
65 GAGCAGGTTGAAGTTA-CAAATCT
* * *
56161469 TATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAATCTTATCTCCCT-AGAGTTGCAGT
1 TATCTC-CTGAAGTTGTAGTAGAGCAGATTAAAGCTACAAATATTATCTCCCTGA-AGTTACAGT
* *
56161533 GGAGCAGGTTAAAGTTACAAACCT
64 GGAGCAGGTTGAAGTTACAAATCT
* * * * * * * *
56161557 TATCCCCCCTGAAGTTGTAGTGGAGTAGGTTGAAGTTCCAAATTTTATCTCCCTGAAGTTGA-AG
1 TAT--CTCCTGAAGTTGTAGTAGAGCAGATTAAAGCTACAAATATTATCTCCCTGAAGTT-ACAG
56161621 TGGAGCAGGTTGAAGTTACAAATCT
63 TGGAGCAGGTTGAAGTTACAAATCT
56161646 TATCTCCTTGAAGTT
1 TATCTCC-TGAAGTT
56161661 ACAATGGAGC
Statistics
Matches: 159, Mismatches: 26, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
87 3 0.02
88 16 0.10
89 136 0.86
90 4 0.03
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (87 bp):
TATCTCCTGAAGTTGTAGTAGAGCAGATTAAAGCTACAAATATTATCTCCCTGAAGTTACAGTGG
AGCAGGTTGAAGTTACAAATCT
Found at i:56161599 original size:133 final size:133
Alignment explanation
Indices: 56161393--56161678 Score: 315
Period size: 133 Copynumber: 2.2 Consensus size: 133
56161383 CTCCTTGAAA
* * *
56161393 TTGCAGTGGAGTAGATTAAAGCCACAAATATTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAG
1 TTGCAGTGGAGCAGATTAAAGCCACAAACATTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAG
* * * *
56161458 ATAGCAAATATTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAATCTTATCTCCCTA
66 ATACCAAATATTATCTCCCTGAAGTTGAAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTA
56161523 GAG
131 GAG
* ** * ** * *
56161526 TTGCAGTGGAGCAGGTTAAAGTTACAAACCTTATCCCCCCTGAAGTTGTAGTGGAGTAGGTTGAA
1 TTGCAGTGGAGCAGATTAAAGCCACAAACATTAT-CCCCCTGAAGTTACAGTGGAGCAGATTGAA
* * * * * *
56161591 G-TTCCAAATTTTATCTCCCTGAAGTTGAAGTGGAGCAGGTTGAAGTTACAAATCTTATCT-CCT
65 GATACCAAATATTATCTCCCTGAAGTTGAAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCT
*
56161654 TGAAG
130 AG-AG
* * *
56161659 TTACAATGGAGCAAATTAAA
1 TTGCAGTGGAGCAGATTAAA
56161679 AATAGCGAAT
Statistics
Matches: 125, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
132 4 0.03
133 95 0.76
134 26 0.21
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (133 bp):
TTGCAGTGGAGCAGATTAAAGCCACAAACATTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAG
ATACCAAATATTATCTCCCTGAAGTTGAAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTA
GAG
Found at i:56161700 original size:133 final size:133
Alignment explanation
Indices: 56161423--56161803 Score: 327
Period size: 133 Copynumber: 2.8 Consensus size: 133
56161413 GCCACAAATA
* * *
56161423 TTATCTCCCTGAAGTT-ACAGTGGAGCAGATTGAAGATAGCAAATATTATCTCTCTGAAGTTGTA
1 TTATCTCCCTGAAGTTGA-AGTGGAGCAGATTGAAGATACCAAATATTATCTCCCTGAAGTTGAA
* * * ** **
56161487 GTAGAGCAGATTAAAGCTATAAATCTTATCTCCCTAGAGTTGCAGTGGAGCAGGTTAAAGTTACA
65 GTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTAGAGTTACAATGGAGCAAATTAAAAATACA
56161552 AACC
130 AACC
* * * * * *
56161556 TTATCCCCCCTGAAGTTGTAGTGGAGTAGGTTGAAG-TTCCAAATTTTATCTCCCTGAAGTTGAA
1 TTAT-CTCCCTGAAGTTGAAGTGGAGCAGATTGAAGATACCAAATATTATCTCCCTGAAGTTGAA
* * * * *
56161620 GTGGAGCAGGTTGAAGTTACAAATCTTATCT-CCTTGAAGTTACAATGGAGCAAATTAAAAATAG
65 GTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTAG-AGTTACAATGGAGCAAATTAAAAATA-
* *
56161684 CGAATC
128 CAAACC
* * * * * * *
56161690 TTATTTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTGCAAACCGCAAATCTTATCTTCCTGGAG
1 TTATCTCCCTGAAGTTGAAGTGGAGCAGATTGAA---G-ATA-C-CAAATATTATCTCCCTGAAG
* * ** * *
56161755 TTGCAGTGGAGCAGATTAAAGCTACAAGCCTAATCTCCCTAAAGTTACA
60 TTGAAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTAGAGTTACA
56161804 GTAAAGTAGA
Statistics
Matches: 192, Mismatches: 44, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
132 4 0.02
133 96 0.50
134 34 0.18
136 1 0.01
139 1 0.01
140 53 0.28
141 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (133 bp):
TTATCTCCCTGAAGTTGAAGTGGAGCAGATTGAAGATACCAAATATTATCTCCCTGAAGTTGAAG
TAGAGCAGATTAAAGCTACAAATCTTATCTCCCTAGAGTTACAATGGAGCAAATTAAAAATACAA
ACC
Found at i:56163427 original size:4 final size:4
Alignment explanation
Indices: 56163418--56163459 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
56163408 AAATTTCTTT
* *
56163418 TTTA TTTA TTTA TTTA TTTTG TTTA GTTA TTTA -TTA TTTA TT
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TT
56163460 AATTCTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 3 0.09
4 26 0.81
5 3 0.09
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:56163437 original size:17 final size:17
Alignment explanation
Indices: 56163417--56163452 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
56163407 CAAATTTCTT
*
56163417 TTTTATTTATTTATTTA
1 TTTTATTTAGTTATTTA
*
56163434 TTTTGTTTAGTTATTTA
1 TTTTATTTAGTTATTTA
56163451 TT
1 TT
56163453 ATTTATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (17 bp):
TTTTATTTAGTTATTTA
Found at i:56163447 original size:21 final size:20
Alignment explanation
Indices: 56163418--56163456 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
56163408 AAATTTCTTT
*
56163418 TTTATTTATTTATTTATTTTG
1 TTTAGTTATTTA-TTATTTTG
56163439 TTTAGTTATTTATTATTT
1 TTTAGTTATTTATTATTT
56163457 ATTAATTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTAGTTATTTATTATTTTG
Found at i:56166767 original size:29 final size:28
Alignment explanation
Indices: 56166734--56166789 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
56166724 TTTAAAATCT
56166734 TAAAAGTAAAAAAACTAAATTTCTAAAAA
1 TAAAAGTAAAAAAACTAAATTTC-AAAAA
* * * *
56166763 TAAAATTACAAAGACTATATTTCAAAA
1 TAAAAGTAAAAAAACTAAATTTCAAAA
56166790 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.27
Consensus pattern (28 bp):
TAAAAGTAAAAAAACTAAATTTCAAAAA
Found at i:56167863 original size:28 final size:28
Alignment explanation
Indices: 56167823--56167879 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
56167813 ATTTTTTTAA
56167823 CTTGAACCTTGGACCCTAGAA-CTTAGAC
1 CTTGAACCTTGGA-CCTAGAATCTTAGAC
* *
56167851 CTTGGACCTTGGACCTTGAATCTTAGAC
1 CTTGAACCTTGGACCTAGAATCTTAGAC
56167879 C
1 C
56167880 CCACACCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (28 bp):
CTTGAACCTTGGACCTAGAATCTTAGAC
Found at i:56167879 original size:14 final size:14
Alignment explanation
Indices: 56167823--56167879 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
56167813 ATTTTTTTAA
*
56167823 CTTGAACCTTGGACC
1 CTTGAACCTTAGA-C
*
56167838 CTAGAA-CTTAGAC
1 CTTGAACCTTAGAC
* *
56167851 CTTGGACCTTGGAC
1 CTTGAACCTTAGAC
*
56167865 CTTGAATCTTAGAC
1 CTTGAACCTTAGAC
56167879 C
1 C
56167880 CCACACCCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
13 5 0.15
14 23 0.70
15 5 0.15
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (14 bp):
CTTGAACCTTAGAC
Found at i:56177921 original size:10 final size:9
Alignment explanation
Indices: 56177880--56177930 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 9
56177870 TGGAATCAGG
56177880 TTTTATAATT
1 TTTTATAA-T
56177890 TTTAATATAAT
1 TTT--TATAAT
56177901 TTTTA-AAT
1 TTTTATAAT
56177909 TTTTATGAAT
1 TTTTAT-AAT
56177919 TTTTAATAAT
1 TTTT-ATAAT
56177929 TT
1 TT
56177931 ATTTAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 8 0.22
9 2 0.06
10 15 0.42
11 6 0.17
12 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:56177929 original size:20 final size:21
Alignment explanation
Indices: 56177880--56177930 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
56177870 TGGAATCAGG
*
56177880 TTTTATAATTTTTAATATAAT
1 TTTTATAATTTTTAATAGAAT
56177901 TTTTA-AATTTTT-AT-GAAT
1 TTTTATAATTTTTAATAGAAT
56177919 TTTTAATAATTT
1 TTTT-ATAATTT
56177931 ATTTAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.26
19 3 0.11
20 12 0.44
21 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTATAATTTTTAATAGAAT
Found at i:56184639 original size:18 final size:19
Alignment explanation
Indices: 56184618--56184654 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
56184608 TTTCTTTGCT
56184618 TTTTTTCCTTTTG-AATAA
1 TTTTTTCCTTTTGTAATAA
*
56184636 TTTTTTTCTTTTGTAATAA
1 TTTTTTCCTTTTGTAATAA
56184655 CCATATGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTTTCCTTTTGTAATAA
Found at i:56184639 original size:19 final size:19
Alignment explanation
Indices: 56184617--56184654 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
56184607 TTTTCTTTGC
56184617 TTTTTTTCCTTTTG-AATAA
1 TTTTTTT-CTTTTGTAATAA
56184636 TTTTTTTCTTTTGTAATAA
1 TTTTTTTCTTTTGTAATAA
56184655 CCATATGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTTTTCTTTTGTAATAA
Found at i:56185463 original size:29 final size:29
Alignment explanation
Indices: 56185431--56185498 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 29
56185421 AAAGTTTAAT
56185431 GTATATAATT-ACATCAAATCAAAATTCA
1 GTATATAATTCACATCAAATCAAAATTCA
56185459 CGTATCA-AATTGCACATCAAATCAAAATTCA
1 -GTAT-ATAATT-CACATCAAATCAAAATTCA
56185490 -TATATAATT
1 GTATATAATT
56185499 TCGGTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
28 1 0.03
29 15 0.43
30 1 0.03
31 18 0.51
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.32
Consensus pattern (29 bp):
GTATATAATTCACATCAAATCAAAATTCA
Found at i:56194818 original size:31 final size:30
Alignment explanation
Indices: 56194775--56194833 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
56194765 TAACAGTATT
*
56194775 TTTGGGTTAATATACAATTAGGTACCTATA
1 TTTGGCTTAATATACAATTAGGTACCTATA
* * *
56194805 TTTGGCTTCAATATTCAGTTTGGTACCTA
1 TTTGGCTT-AATATACAATTAGGTACCTA
56194834 AGTTTTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (30 bp):
TTTGGCTTAATATACAATTAGGTACCTATA
Found at i:56199648 original size:51 final size:51
Alignment explanation
Indices: 56199572--56199674 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 51
56199562 GATGCCCAAC
* *
56199572 ATAAGTCCTTAAACGATAAAGTTGACGAAAGATGCAAGTTGTTTGATACCA
1 ATAAGTCCTTAAACGATAAAGTTGACGAAAGATACAAGTTGCTTGATACCA
** **
56199623 ATAAGTCCTTAATTGATAAAGTTGACGATGGATACAAGTTGCTTGATACCA
1 ATAAGTCCTTAAACGATAAAGTTGACGAAAGATACAAGTTGCTTGATACCA
56199674 A
1 A
56199675 GCATGATACC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (51 bp):
ATAAGTCCTTAAACGATAAAGTTGACGAAAGATACAAGTTGCTTGATACCA
Found at i:56201047 original size:32 final size:32
Alignment explanation
Indices: 56201006--56201070 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
56200996 GGATCTCCTA
* *
56201006 TTTTTTTTTTTA-ATAAAATGATACCCTAAAC
1 TTTTTTTTTTTACAGAAAATGACACCCTAAAC
56201037 TTTTTTTTTTTACAGAAAATGACACCCTAAAC
1 TTTTTTTTTTTACAGAAAATGACACCCTAAAC
56201069 TT
1 TT
56201071 GATTATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (32 bp):
TTTTTTTTTTTACAGAAAATGACACCCTAAAC
Found at i:56203156 original size:31 final size:31
Alignment explanation
Indices: 56203101--56203178 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
56203091 TTTTCCTTAA
* *
56203101 TGGCTTGGATAAGCCTT--GATGCAATCGAGT
1 TGGCTT-GAGAAGCCTTGAGATGCAATCGAAT
* **
56203131 TGGCTTGAGTAGCCTTGAGATGCAATTTAAT
1 TGGCTTGAGAAGCCTTGAGATGCAATCGAAT
56203162 TGGCTTGAGAAGCCTTG
1 TGGCTTGAGAAGCCTTG
56203179 TGGCAAATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 8 0.20
30 6 0.15
31 26 0.65
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.32
Consensus pattern (31 bp):
TGGCTTGAGAAGCCTTGAGATGCAATCGAAT
Found at i:56205467 original size:163 final size:165
Alignment explanation
Indices: 56205190--56205496 Score: 433
Period size: 163 Copynumber: 1.9 Consensus size: 165
56205180 TTTCTCATAA
* ** ** * *
56205190 TTGCATTAGTGTACAAGTTTGTTGCTTGTGGGGAGTTTTTAACATAATTATTTAGTTGTTGAAAT
1 TTGCATTAGTGTACAAATCAGTTGCTTGTGGGGAGTTCATAACATAATTATGTAGTTGTTGAAAA
* *
56205255 TGTGAGTAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTACCAATGTATCTGGCTG
66 TGTGAATAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTACCAATGTATCTGACTG
56205320 AGAAATTCTCAACCGGAATCTGTTAACTCTCTTAG
131 AGAAATTCTCAACCGGAATCTGTTAACTCTCTTAG
*
56205355 TTGCATTAGTGTACAAATCAGTTGCTTGT-GGGAG-TCATAACATGCA-TATGTAGTTGTTGAAA
1 TTGCATTAGTGTACAAATCAGTTGCTTGTGGGGAGTTCATAACAT-AATTATGTAGTTGTTGAAA
* * * *
56205417 ATGCTGAAT-ATTAGGCTTTTGAAGAATATTGACTTATGTTTCTTGATTTACTAATGTGTCTGAC
65 ATG-TGAATAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTACCAATGTATCTGAC
*
56205481 TGAGAAATTCTTAACC
129 TGAGAAATTCTCAACC
56205497 AAAATGTGCT
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
163 89 0.71
164 10 0.08
165 26 0.21
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (165 bp):
TTGCATTAGTGTACAAATCAGTTGCTTGTGGGGAGTTCATAACATAATTATGTAGTTGTTGAAAA
TGTGAATAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTACCAATGTATCTGACTG
AGAAATTCTCAACCGGAATCTGTTAACTCTCTTAG
Found at i:56210842 original size:37 final size:38
Alignment explanation
Indices: 56210787--56210858 Score: 137
Period size: 37 Copynumber: 1.9 Consensus size: 38
56210777 AGTGAAACTA
56210787 TAGTAAAAAACAGAAAAAGAATGTGCTTAGATAAGCCT
1 TAGTAAAAAACAGAAAAAGAATGTGCTTAGATAAGCCT
56210825 TAGTAAAAAACAG-AAAAGAATGTGCTTAGATAAG
1 TAGTAAAAAACAGAAAAAGAATGTGCTTAGATAAG
56210859 ACTTCATAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 21 0.62
38 13 0.38
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.21
Consensus pattern (38 bp):
TAGTAAAAAACAGAAAAAGAATGTGCTTAGATAAGCCT
Found at i:56218898 original size:11 final size:12
Alignment explanation
Indices: 56218870--56218903 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
56218860 TTTTGAAACT
56218870 TTTTATATATTCA
1 TTTTA-ATATTCA
56218883 TTTTAATATT-A
1 TTTTAATATTCA
56218894 TTTTAATATT
1 TTTTAATATT
56218904 TACATTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 5 0.24
13 5 0.24
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTAATATTCA
Found at i:56221702 original size:26 final size:26
Alignment explanation
Indices: 56221673--56221724 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
56221663 CAGAACTGGT
56221673 GATCGATTCAACCAATATGTATTTAC
1 GATCGATTCAACCAATATGTATTTAC
56221699 GATCGATTCAACCAATATGTATTTAC
1 GATCGATTCAACCAATATGTATTTAC
56221725 AACTCAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (26 bp):
GATCGATTCAACCAATATGTATTTAC
Found at i:56226116 original size:18 final size:18
Alignment explanation
Indices: 56226095--56226129 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
56226085 CCATATTACA
56226095 ATCAGTTTAAACATTAGT
1 ATCAGTTTAAACATTAGT
56226113 ATCAGTTTAAACATTAG
1 ATCAGTTTAAACATTAG
56226130 ACAACCAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (18 bp):
ATCAGTTTAAACATTAGT
Found at i:56226521 original size:36 final size:36
Alignment explanation
Indices: 56226474--56226544 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
56226464 TAGGTAGAGA
56226474 AAGAGTCGGTATATCAGATACCTCGACATCTTTAAG
1 AAGAGTCGGTATATCAGATACCTCGACATCTTTAAG
56226510 AAGAGTCGGTATATCAGATACCTCGACATCTTTAA
1 AAGAGTCGGTATATCAGATACCTCGACATCTTTAA
56226545 CATTACAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (36 bp):
AAGAGTCGGTATATCAGATACCTCGACATCTTTAAG
Found at i:56226702 original size:14 final size:14
Alignment explanation
Indices: 56226683--56226710 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56226673 ATTAAAATTA
56226683 TAAAATATAGATAT
1 TAAAATATAGATAT
56226697 TAAAATATAGATAT
1 TAAAATATAGATAT
56226711 AGATTTGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
TAAAATATAGATAT
Found at i:56226710 original size:20 final size:20
Alignment explanation
Indices: 56226657--56226714 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
56226647 CAATTTAATA
*
56226657 TAAAGTATAGATAT--ATAT
1 TAAAATATAGATATAGATAT
*
56226675 TAAAATTATAAAATATAGATAT
1 TAAAA-TAT-AGATATAGATAT
56226697 TAAAATATAGATATAGAT
1 TAAAATATAGATATAGAT
56226715 TTGGTTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 4 0.12
19 3 0.09
20 14 0.42
21 3 0.09
22 9 0.27
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (20 bp):
TAAAATATAGATATAGATAT
Found at i:56227268 original size:19 final size:19
Alignment explanation
Indices: 56227246--56227282 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56227236 CACGTAAATT
56227246 GCATACTAGCACACAAAGC
1 GCATACTAGCACACAAAGC
* *
56227265 GCATATTGGCACACAAAG
1 GCATACTAGCACACAAAG
56227283 TGTATCCTGA
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:0.41, C:0.27, G:0.19, T:0.14
Consensus pattern (19 bp):
GCATACTAGCACACAAAGC
Found at i:56230168 original size:26 final size:26
Alignment explanation
Indices: 56230139--56230246 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
56230129 TGATACAAAT
56230139 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56230165 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56230191 TGATAATGGGTGAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56230217 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56230243 TGAT
1 TGAT
56230247 TGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56233014 original size:25 final size:21
Alignment explanation
Indices: 56232968--56233010 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
56232958 ATCGCAAAAG
56232968 TATGAAAGAACATATATTTCC
1 TATGAAAGAACATATATTTCC
56232989 TATGAAAGAACATATATTTCC
1 TATGAAAGAACATATATTTCC
56233010 T
1 T
56233011 TCCTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (21 bp):
TATGAAAGAACATATATTTCC
Found at i:56235363 original size:24 final size:24
Alignment explanation
Indices: 56235309--56235363 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
56235299 TATAATTACG
* * *
56235309 TTTTAAATATGATTTTTTTGCTAT
1 TTTTAATTATAATTTATTTGCTAT
56235333 TTTTAATTATAATTTATTTG-TAAT
1 TTTTAATTATAATTTATTTGCT-AT
56235357 TTTTAAT
1 TTTTAAT
56235364 GATGGTGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (24 bp):
TTTTAATTATAATTTATTTGCTAT
Found at i:56238143 original size:20 final size:20
Alignment explanation
Indices: 56238118--56238157 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
56238108 CGAAAAATAA
56238118 TTTCTGAAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
*
56238138 TTTCTGGAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
56238158 GAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:56238283 original size:20 final size:20
Alignment explanation
Indices: 56238258--56238296 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56238248 TTTATTACAT
56238258 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
56238278 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
56238297 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:56241618 original size:12 final size:12
Alignment explanation
Indices: 56241601--56241625 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56241591 ATATTTTCAC
56241601 AGCTCACACATT
1 AGCTCACACATT
56241613 AGCTCACACATT
1 AGCTCACACATT
56241625 A
1 A
56241626 CTACAGCTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.24
Consensus pattern (12 bp):
AGCTCACACATT
Found at i:56241656 original size:33 final size:33
Alignment explanation
Indices: 56241612--56241707 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 33
56241602 GCTCACACAT
*
56241612 TAGCTCACACATTACTACAGCTCACACATTA-CA
1 TAGCTCACACATTAC-ACAGCTCACACATCATCA
** * * **
56241645 TAGCTTGCACATTACACAACTCGCACATCATTG
1 TAGCTCACACATTACACAGCTCACACATCATCA
56241678 TAGCTCACACATTACACAGCTCACACATCA
1 TAGCTCACACATTACACAGCTCACACATCA
56241708 CTATGACTCG
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
32 12 0.24
33 39 0.76
ACGTcount: A:0.34, C:0.33, G:0.08, T:0.24
Consensus pattern (33 bp):
TAGCTCACACATTACACAGCTCACACATCATCA
Found at i:56241670 original size:16 final size:16
Alignment explanation
Indices: 56241613--56241705 Score: 69
Period size: 16 Copynumber: 5.7 Consensus size: 16
56241603 CTCACACATT
*
56241613 AGCTCACACATTACTAC
1 AGCTCGCACATTAC-AC
* *
56241630 AGCTCACACATTACAT
1 AGCTCGCACATTACAC
*
56241646 AGCTTGCACATTACAC
1 AGCTCGCACATTACAC
* * ***
56241662 AACTCGCACATCATTGT
1 AGCTCGCACATTA-CAC
*
56241679 AGCTCACACATTACAC
1 AGCTCGCACATTACAC
*
56241695 AGCTCACACAT
1 AGCTCGCACAT
56241706 CACTATGACT
Statistics
Matches: 59, Mismatches: 16, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
16 35 0.59
17 24 0.41
ACGTcount: A:0.34, C:0.33, G:0.09, T:0.24
Consensus pattern (16 bp):
AGCTCGCACATTACAC
Found at i:56252682 original size:24 final size:24
Alignment explanation
Indices: 56252652--56252701 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
56252642 GTAGTGAGTT
*
56252652 AAATTCAAAGTGATATTGAAGTAG
1 AAATTCAAAGTGATAATGAAGTAG
56252676 AAATTCAAAGTGATAATGAAGTAG
1 AAATTCAAAGTGATAATGAAGTAG
56252700 AA
1 AA
56252702 TCTATAGTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.04, G:0.20, T:0.26
Consensus pattern (24 bp):
AAATTCAAAGTGATAATGAAGTAG
Found at i:56256414 original size:24 final size:23
Alignment explanation
Indices: 56256382--56256534 Score: 80
Period size: 24 Copynumber: 6.4 Consensus size: 23
56256372 GCATTGTAAT
* *
56256382 GGGAAGCTCACACAGAGCCATTTC
1 GGGAAGCTCACAAAGAGCC-TATC
*
56256406 GGGAAGCTCATAAAGAGCCTATC
1 GGGAAGCTCACAAAGAGCCTATC
* * *
56256429 GGGAAGC-CTATC--CGGGCTATATAAC
1 GGGAAGCTC-A-CAAAGAGC-CTAT--C
* *
56256454 GGAAAGCTCA-TAAGAGCCATAATC
1 GGGAAGCTCACAAAGAGCC-T-ATC
* *
56256478 GGGAAGTTCACAAAGAACCTTATC
1 GGGAAGCTCACAAAGAGCC-TATC
* *
56256502 GGGAAGTTCACAAAGAACCATATC
1 GGGAAGCTCACAAAGAGCC-TATC
56256526 GGGAAGCTC
1 GGGAAGCTC
56256535 CGGATAGCCA
Statistics
Matches: 100, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
22 4 0.04
23 14 0.14
24 60 0.60
25 19 0.19
26 3 0.03
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (23 bp):
GGGAAGCTCACAAAGAGCCTATC
Found at i:56259956 original size:45 final size:45
Alignment explanation
Indices: 56259900--56260003 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
56259890 ACAAATCCGG
* ** * *
56259900 AACAGTAACAGTAATAATATTCAACATACAAAGTGTTGAATTGGT
1 AACAGTAACAGTAATAATATTCAACACACAAAGTGCCGAATCGAT
* *
56259945 AACGGTAACAGTAATAATATTCGACACACAAAGTGCCGAATCGAT
1 AACAGTAACAGTAATAATATTCAACACACAAAGTGCCGAATCGAT
56259990 AACAGTAACAGTAA
1 AACAGTAACAGTAA
56260004 CAGTAACAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.23
Consensus pattern (45 bp):
AACAGTAACAGTAATAATATTCAACACACAAAGTGCCGAATCGAT
Found at i:56260000 original size:6 final size:6
Alignment explanation
Indices: 56259989--56260020 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
56259979 GCCGAATCGA
56259989 TAACAG TAACAG TAACAG TAACAG TAACAG TA
1 TAACAG TAACAG TAACAG TAACAG TAACAG TA
56260021 TGGCACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
TAACAG
Found at i:56262897 original size:46 final size:46
Alignment explanation
Indices: 56262847--56263019 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
56262837 TGGTTGAGCA
* *
56262847 TCCGAACTCGTTGAGGTGAGTCAGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
56262893 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56262938 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56262986 CCCGAGCTCGTTGAGTTAAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56263020 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56263008 original size:93 final size:93
Alignment explanation
Indices: 56262844--56263014 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
56262834 GGATGGTTGA
* *
56262844 GCATCCGAACTCGTTGAGGTGAGTCAGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGGTGAGTCAGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
56262909 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TAAGTCCGAGTTCGTGAAATGTAACTAG
* * *
56262937 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGGTGAGTCAGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56263002 TAAGTCCGAGTTC
66 TAAGTCCGAGTTC
56263015 ACTTAGGGGC
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:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGGTGAGTCAGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TAAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:56263768 original size:14 final size:14
Alignment explanation
Indices: 56263749--56263776 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56263739 AAATAATGAG
56263749 TAAGTTATGAAATT
1 TAAGTTATGAAATT
56263763 TAAGTTATGAAATT
1 TAAGTTATGAAATT
56263777 GAAGCTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
TAAGTTATGAAATT
Found at i:56267631 original size:23 final size:23
Alignment explanation
Indices: 56267577--56267630 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
56267567 AAGAGTAAGA
56267577 TTCAAAAATCTTTTCCAACCATT
1 TTCAAAAATCTTTTCCAACCATT
56267600 TTCAAAAATCTTTTCCAACCATT
1 TTCAAAAATCTTTTCCAACCATT
56267623 TATCAAAA
1 T-TCAAAA
56267631 TACCAAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (23 bp):
TTCAAAAATCTTTTCCAACCATT
Found at i:56271287 original size:20 final size:20
Alignment explanation
Indices: 56271241--56271288 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
56271231 AGTCTTTTTT
*
56271241 CCTAATTACTCTTAATTAAG
1 CCTAATTACACTTAATTAAG
56271261 -CTAAATT-CACTTAATTAAAG
1 CCT-AATTACACTTAATT-AAG
56271281 CCTAATTA
1 CCTAATTA
56271289 ACCACTCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 10 0.43
20 11 0.48
21 2 0.09
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.38
Consensus pattern (20 bp):
CCTAATTACACTTAATTAAG
Found at i:56273576 original size:14 final size:14
Alignment explanation
Indices: 56273559--56273598 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
56273549 ATTTAAAATA
*
56273559 AATAATGTTATTTT
1 AATAATATTATTTT
*
56273573 AATATTATTATTTT
1 AATAATATTATTTT
56273587 AATAATATTATT
1 AATAATATTATT
56273599 ATTTAAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (14 bp):
AATAATATTATTTT
Found at i:56273835 original size:49 final size:49
Alignment explanation
Indices: 56273782--56273881 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
56273772 AATTCAACTG
56273782 AGTAATTGAGGGAAGTTAAAGTAGTATATATATGTTCACGAAAGGCTAT
1 AGTAATTGAGGGAAGTTAAAGTAGTATATATATGTTCACGAAAGGCTAT
56273831 AGTAATTGAGGGAAGTTAAAGTAGTATATATATGTTCACGAAAGGCTAT
1 AGTAATTGAGGGAAGTTAAAGTAGTATATATATGTTCACGAAAGGCTAT
56273880 AG
1 AG
56273882 GTAGTTTACT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (49 bp):
AGTAATTGAGGGAAGTTAAAGTAGTATATATATGTTCACGAAAGGCTAT
Found at i:56278973 original size:222 final size:221
Alignment explanation
Indices: 56278235--56279023 Score: 724
Period size: 222 Copynumber: 3.5 Consensus size: 221
56278225 ACATGATCAG
* *
56278235 TTTTTCTTTGCCTATATCTGGATATATAACTCTATTTGAGCCATGCTTATTACTATCGAATACTG
1 TTTTTCTTTGCATATATCTGG--ATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTG
* * * ** * * * *
56278300 TTGTT-CAGGATAGCTTAATGGGTGATATTTCTGTTTTCGGTATGATTTTTCCATACAATGGTTT
64 TTGTTCCGGGA-AGCTTAATAGATGATATTTCTGTTTTCCATACGGTTTTGCCATGCAATGGTTT
* * * *
56278364 TGGTATTAGCCCTGTGGCTATTATTGTATCGAAGTTTCCGATATGCTCTTTCTTTTGGGAATTCT
128 TGGTATTAACCC--T-G---TTATTGCATTGAAGCTTCCGATATGCTCTTTCTTTTGGG-A-TCT
56278429 TTTTTATGGTTATATGATATAATGATCTTTGGTTTCA
185 TTTTTATGGTTATATGATATAATGATCTTTGGTTTCA
** * *
56278466 TTTTTTCTTTGCATATATCTGGATATAACTCTATTTGAGCCATGCTTACCACGATCAAATACAGT
1 -TTTTTCTTTGCATATATCTGGATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTGT
* * ***
56278531 TGTTCGGGGTAGCTTAATAGATGATATTTCTGTTTTTTGGTACGGTTTTGCCATGCAA------T
65 TGTTCCGGGAAGCTTAATAGATGATATTTCTG-TTTTCCATACGGTTTTGCCATGCAATGGTTTT
* * * * * *
56278590 GGTATTAACTCTGTTATTGCATCT-AAGCTGCTGATATGCTCTTTCTTTCGGGATTTTTTTTTTT
129 GGTATTAACCCTGTTATTGCAT-TGAAGCTTCCGATATGCTCTTTCTTTTGGGA--TCTTTTTTA
* * *
56278654 TGGTTATATTATATAATGATCTTTGGATTCG
191 TGGTTATATGATATAATGATCTTTGGTTTCA
* * * * *
56278685 TTTTTCTTTGCAGAT-TGCTGGATATAACTCTATTAGAGCCTTGCTTATTACTATAAAATATTGT
1 TTTTTCTTTGCATATAT-CTGGATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTGT
** * * *
56278749 TGTTTGGGGAAGCTTAATTGATGATCTTTTTGTTTTCCATACGGTTTTGCCATGCAATGGTTTTG
65 TGTTCCGGGAAGCTTAATAGATGATATTTCTGTTTTCCATACGGTTTTGCCATGCAATGGTTTTG
* * *
56278814 GTATTAACCCTGTTACTGCATTGAAGCTTCCAATATGCTCTTTCTTTTAGGA-CTTTTTTATGGT
130 GTATTAACCCTGTTATTGCATTGAAGCTTCCGATATGCTCTTTCTTTTGGGATCTTTTTTATGGT
*
56278878 TGACTATGATATAATGATCTATGGGCTTTC-
195 T-A-TATGATATAATGATCT-TTGG-TTTCA
* * * * * * **
56278908 TTTTT-TATGCCTATATCTAGATATTACTCTATTTGAGCTATTCTTATTA-TGATCAAATTTTGT
1 TTTTTCTTTGCATATATCTGGATATAACTCTATTTGAGCCATGCTTATTACT-ATCAAATACTGT
* * * * * *
56278971 TGTTCCTGGTAGCTTAATCA-ATGATTTTTGTGTTTTCCATATGGTTTTTCCAT
65 TGTTCCGGGAAGCTTAAT-AGATGATATTTCTGTTTTCCATACGGTTTTGCCAT
56279024 TATACTTGCT
Statistics
Matches: 460, Mismatches: 78, Indels: 48
0.78 0.13 0.08
Matches are distributed among these distances:
217 23 0.05
218 81 0.18
219 68 0.15
220 11 0.02
221 2 0.00
222 103 0.22
223 55 0.12
224 3 0.01
225 10 0.02
230 62 0.13
231 22 0.05
232 20 0.04
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (221 bp):
TTTTTCTTTGCATATATCTGGATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTGTT
GTTCCGGGAAGCTTAATAGATGATATTTCTGTTTTCCATACGGTTTTGCCATGCAATGGTTTTGG
TATTAACCCTGTTATTGCATTGAAGCTTCCGATATGCTCTTTCTTTTGGGATCTTTTTTATGGTT
ATATGATATAATGATCTTTGGTTTCA
Found at i:56281367 original size:18 final size:19
Alignment explanation
Indices: 56281346--56281389 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
56281336 TAAAAAATTC
*
56281346 AAATTTTTA-TTTTGATAG
1 AAATTTTTATTTTTAATAG
*
56281364 AAA-TTTTATTTTTAATAT
1 AAATTTTTATTTTTAATAG
56281382 AAATTTTT
1 AAATTTTT
56281390 CATATTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 13 0.59
19 4 0.18
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
AAATTTTTATTTTTAATAG
Found at i:56281807 original size:22 final size:23
Alignment explanation
Indices: 56281760--56281807 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
56281750 TGGACACCTT
*
56281760 AAATAACTTCAATTTTCCATTAAAA
1 AAATAACTACAATTTT-C-TTAAAA
56281785 AAATAACTACAATTTT-TTAAAA
1 AAATAACTACAATTTTCTTAAAA
56281807 A
1 A
56281808 GAATTCAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
25 15 0.68
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATAACTACAATTTTCTTAAAA
Found at i:56292128 original size:40 final size:40
Alignment explanation
Indices: 56292084--56292165 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
56292074 CTGAAAAATG
*
56292084 ATTGTTTTTCTCTTATTCATGCTTGATTATAGGTTGTACA
1 ATTGTTTTTCTCTTATTAATGCTTGATTATAGGTTGTACA
56292124 ATTGTTTTTCTCTTATTAATGCTTGATTATAGGTTGTACA
1 ATTGTTTTTCTCTTATTAATGCTTGATTATAGGTTGTACA
56292164 AT
1 AT
56292166 GGGGTTGGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (40 bp):
ATTGTTTTTCTCTTATTAATGCTTGATTATAGGTTGTACA
Found at i:56295148 original size:32 final size:32
Alignment explanation
Indices: 56295107--56295168 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
56295097 TTTTATAGCT
56295107 TATAAAAATTATATTATAAGCATGAATATGAA
1 TATAAAAATTATATTATAAGCATGAATATGAA
56295139 TATAAAAATTATATTATAAGCATGAATATG
1 TATAAAAATTATATTATAAGCATGAATATG
56295169 GATGAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (32 bp):
TATAAAAATTATATTATAAGCATGAATATGAA
Found at i:56305834 original size:15 final size:15
Alignment explanation
Indices: 56305814--56305843 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56305804 ATTGATGGCT
*
56305814 AATATTTTTCTGAAA
1 AATATTTGTCTGAAA
56305829 AATATTTGTCTGAAA
1 AATATTTGTCTGAAA
56305844 TTCTGCTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (15 bp):
AATATTTGTCTGAAA
Found at i:56308650 original size:33 final size:33
Alignment explanation
Indices: 56308613--56308676 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
56308603 GGAACGGAGG
56308613 TATCTCCTCTGTTTTATTGCTCATGGATATTAA
1 TATCTCCTCTGTTTTATTGCTCATGGATATTAA
* *
56308646 TATCTTCTCTGTTTTATTGTTCATGGATATT
1 TATCTCCTCTGTTTTATTGCTCATGGATATT
56308677 TAAGATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (33 bp):
TATCTCCTCTGTTTTATTGCTCATGGATATTAA
Found at i:56309022 original size:17 final size:18
Alignment explanation
Indices: 56308985--56309026 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
56308975 AATCGGAGTT
56308985 TATTTTACAACAAAATAA
1 TATTTTACAACAAAATAA
* *
56309003 TATTTTACAA-TAACTAA
1 TATTTTACAACAAAATAA
56309020 TATTTTA
1 TATTTTA
56309027 TGTAAGCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (18 bp):
TATTTTACAACAAAATAA
Found at i:56309172 original size:21 final size:22
Alignment explanation
Indices: 56309147--56309194 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
56309137 GATTTAAACA
56309147 AAAATTT-ATATTTATATAAT-T
1 AAAATTTCATATTT-TATAATAT
*
56309168 AAAATTTCATATTTTGTAATAT
1 AAAATTTCATATTTTATAATAT
56309190 AAAAT
1 AAAAT
56309195 ATTAATTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAATTTCATATTTTATAATAT
Found at i:56312878 original size:11 final size:11
Alignment explanation
Indices: 56312862--56312896 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
56312852 CCGGATTCCC
56312862 CTCCCTTCTCT
1 CTCCCTTCTCT
56312873 CTCCCTTCTCT
1 CTCCCTTCTCT
56312884 CTTCCC-TCTCT
1 C-TCCCTTCTCT
56312895 CT
1 CT
56312897 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:56313388 original size:3 final size:3
Alignment explanation
Indices: 56313373--56313434 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
56313363 TTATTTCTTA
* * * *
56313373 TAT TAT TAG TAT TAT TAG TAT TAC TAT TAT TAT TAT TAT GTAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
*
56313419 TAT ATAT TTT TAT TAT
1 TAT -TAT TAT TAT TAT
56313435 GTACGTGTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
3 41 0.87
4 6 0.13
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:56313431 original size:23 final size:22
Alignment explanation
Indices: 56313376--56313437 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
56313366 TTTCTTATAT
*
56313376 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
56313397 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
56313419 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
56313438 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:56313444 original size:23 final size:23
Alignment explanation
Indices: 56313371--56313445 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
56313361 TGTTATTTCT
* *
56313371 TATATTATTAGTATTAT-TAGTAT
1 TATA-TATTATTATTATGTAGTAG
*
56313394 TACTATTATTATTATTATGTATTAG
1 TA-TA-TATTATTATTATGTAGTAG
*
56313419 TATATATTTTTATTATGTACGT-G
1 TATATATTATTATTATGTA-GTAG
56313442 TATA
1 TATA
56313446 CATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 21 0.48
24 17 0.39
25 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATTATTATTATGTAGTAG
Found at i:56316156 original size:17 final size:19
Alignment explanation
Indices: 56316110--56316158 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
56316100 AGTATTTTAT
56316110 TAATTTAATATTAAAGTGA
1 TAATTTAATATTAAAGTGA
* *
56316129 TTATCTTAATATTAAA-T-C
1 TAAT-TTAATATTAAAGTGA
56316147 TAATTTAATATT
1 TAATTTAATATT
56316159 TATCTTGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 8 0.31
18 3 0.12
19 4 0.15
20 11 0.42
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (19 bp):
TAATTTAATATTAAAGTGA
Found at i:56319361 original size:5 final size:5
Alignment explanation
Indices: 56319351--56319380 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
56319341 TGGATTAAAG
56319351 AATAA AATAA AATATA AATAA AATAA AATA
1 AATAA AATAA AATA-A AATAA AATAA AATA
56319381 CATAGTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:56320162 original size:31 final size:31
Alignment explanation
Indices: 56320103--56320163 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
56320093 AATTATACAA
* *
56320103 ATAAAAATTTAATTGTGGTTTAAATGTATAG
1 ATAAAAATTTAATTGTGATTCAAATGTATAG
* * *
56320134 ATAAAACTTTAATTTTGATTCAATTGTATA
1 ATAAAAATTTAATTGTGATTCAAATGTATA
56320164 CCTTTAAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.44
Consensus pattern (31 bp):
ATAAAAATTTAATTGTGATTCAAATGTATAG
Found at i:56320324 original size:30 final size:30
Alignment explanation
Indices: 56320289--56320362 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
56320279 AAAATTAAAT
56320289 TAAATCAAAATTTCATATATAAAATTACACA
1 TAAATCAAAATTT-ATATATAAAATTACACA
* * * *
56320320 -AAATCAAACTTTTTGTATAACATTACACA
1 TAAATCAAAATTTATATATAAAATTACACA
*
56320349 TTAAATAAAAATTT
1 -TAAATCAAAATTT
56320363 TTGCGCTGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 14 0.40
30 11 0.31
31 10 0.29
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.35
Consensus pattern (30 bp):
TAAATCAAAATTTATATATAAAATTACACA
Found at i:56322946 original size:21 final size:21
Alignment explanation
Indices: 56322917--56322963 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
56322907 ATTTTTACAT
* *
56322917 TTTTTACCTTATGCAATTATA
1 TTTTGACCTAATGCAATTATA
*
56322938 TTTTGACCTAATGGAATTATA
1 TTTTGACCTAATGCAATTATA
56322959 TTTTG
1 TTTTG
56322964 TCTTGTCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.51
Consensus pattern (21 bp):
TTTTGACCTAATGCAATTATA
Found at i:56331043 original size:31 final size:31
Alignment explanation
Indices: 56330985--56331043 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
56330975 GGTGCAATTA
*
56330985 TATACGTGAAACTTTAATTGCAGTTTAAATG
1 TATACGTGAAACTTTAATTGCAATTTAAATG
* **
56331016 TATACTTGAAACTTTAATTTTAATTTAA
1 TATACGTGAAACTTTAATTGCAATTTAA
56331044 CCATATACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.44
Consensus pattern (31 bp):
TATACGTGAAACTTTAATTGCAATTTAAATG
Found at i:56331051 original size:31 final size:31
Alignment explanation
Indices: 56330984--56331051 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
56330974 TGGTGCAATT
* *
56330984 ATATACGTGAAACTTTAATTGCAGTTTAAAT
1 ATATACGTGAAACTTTAATTGCAATTTAAAC
* * ** *
56331015 GTATACTTGAAACTTTAATTTTAATTTAACC
1 ATATACGTGAAACTTTAATTGCAATTTAAAC
56331046 ATATAC
1 ATATAC
56331052 ATTTAAAGAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (31 bp):
ATATACGTGAAACTTTAATTGCAATTTAAAC
Found at i:56331832 original size:17 final size:17
Alignment explanation
Indices: 56331810--56331844 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
56331800 TGCTTGCAAG
56331810 TCAAGTTGAAAAATATA
1 TCAAGTTGAAAAATATA
56331827 TCAAGTTGAAAAATATA
1 TCAAGTTGAAAAATATA
56331844 T
1 T
56331845 GTTTTCTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.31
Consensus pattern (17 bp):
TCAAGTTGAAAAATATA
Found at i:56335548 original size:38 final size:36
Alignment explanation
Indices: 56335480--56335552 Score: 92
Period size: 38 Copynumber: 2.0 Consensus size: 36
56335470 ATACATTCTA
*
56335480 AAATTATAAAAATTATAAAAAAAATCAAAATTTATG
1 AAATTATAAAAATTATAAAAAAAATAAAAATTTATG
* * *
56335516 AAATTATTATAAATTAATTAAAAACATAAAAATTTAT
1 AAATTA-TAAAAATT-ATAAAAAAAATAAAAATTTAT
56335553 AAAAAGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 6 0.19
37 7 0.23
38 18 0.58
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (36 bp):
AAATTATAAAAATTATAAAAAAAATAAAAATTTATG
Found at i:56338334 original size:88 final size:88
Alignment explanation
Indices: 56338204--56338527 Score: 488
Period size: 88 Copynumber: 3.7 Consensus size: 88
56338194 GCCACAGCAG
* * *
56338204 ATCTCCTTGAAGTTCCAGTAGAGTAAATCGAAGCTACAAATCTCTTCTCCCTAAAATGGCACTGG
1 ATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCTACCAATCTCTTCTCCCTAAAATGGCACTGG
*
56338269 AGAGGCTCGAAGCCAGCATTCGT
66 AGAGGCTCGAAGCCACCATTCGT
* * * * *
56338292 ATCTCCTTGAAGTTCCAGCGGAGTAGATCAAAGCTACCAATCTCTTCTCCCTGAAATGACACTAG
1 ATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCTACCAATCTCTTCTCCCTAAAATGGCACTGG
56338357 AGAGGCTCGAAGCCACCATTCGT
66 AGAGGCTCGAAGCCACCATTCGT
*
56338380 ATCTCTTTGAAGTTCCAGCAGAGTAGATCGAAGCTACCAATCTCTTCTCCCTAAAATGGCACTGG
1 ATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCTACCAATCTCTTCTCCCTAAAATGGCACTGG
* *
56338445 AAAGGCTTGAAGCCACCATTCGT
66 AGAGGCTCGAAGCCACCATTCGT
* * * * *
56338468 ATCTTCTTAAAGTT-TAGCGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTGAAATGGCA
1 ATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCTACCAATCTCTTCTCCCTAAAATGGCA
56338528 TAGGAGCGAT
Statistics
Matches: 213, Mismatches: 23, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
87 43 0.20
88 170 0.80
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (88 bp):
ATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCTACCAATCTCTTCTCCCTAAAATGGCACTGG
AGAGGCTCGAAGCCACCATTCGT
Found at i:56340452 original size:18 final size:16
Alignment explanation
Indices: 56340429--56340471 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
56340419 TGTCATTATT
*
56340429 CTTATTTTTTTCTCGTTG
1 CTTATTTTTTTCT--TTA
*
56340447 CTTATTTATTTCTTTA
1 CTTATTTTTTTCTTTA
56340463 CTTATTTTT
1 CTTATTTTT
56340472 ATACCTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 10 0.45
18 12 0.55
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.70
Consensus pattern (16 bp):
CTTATTTTTTTCTTTA
Found at i:56340557 original size:21 final size:21
Alignment explanation
Indices: 56340531--56340745 Score: 68
Period size: 21 Copynumber: 9.8 Consensus size: 21
56340521 TTTTAATCAT
56340531 TTATTATTACTATTACTTTTA
1 TTATTATTACTATTACTTTTA
* * *
56340552 TTATTATTACTGTTTCTATTA
1 TTATTATTACTATTACTTTTA
* * *
56340573 TTGTT-TTTCTATTATTATTTA
1 TTATTATTACTATTACT-TTTA
*
56340594 TGTTATTGTTGGCACTATT-C-TTTA
1 --TTATTATT---ACTATTACTTTTA
* *
56340618 TT-TTATTATTATTATTTTTTA
1 TTATTATTACTATTA-CTTTTA
56340639 TTATT-TTA-TCATTACTTTCTA
1 TTATTATTACT-ATTACTTT-TA
* * * *
56340660 TTATTGTTATTATTAATATACTA
1 TTATTATTACTATTACT-T-TTA
*
56340683 TTATTATT-CTTATTAACCTATTA
1 TTATTATTAC-TATT-A-CTTTTA
* *
56340706 TTATTATTATTATTTTCTACTTTA
1 TTATTATTACTA-TTACT--TTTA
*
56340730 TTATTA-TATTATTACT
1 TTATTATTACTATTACT
56340746 ATTGCTATCA
Statistics
Matches: 143, Mismatches: 27, Indels: 47
0.66 0.12 0.22
Matches are distributed among these distances:
18 5 0.03
20 11 0.08
21 49 0.34
22 18 0.13
23 36 0.25
24 18 0.13
25 1 0.01
27 5 0.03
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (21 bp):
TTATTATTACTATTACTTTTA
Found at i:56340628 original size:3 final size:3
Alignment explanation
Indices: 56340615--56340748 Score: 86
Period size: 3 Copynumber: 45.7 Consensus size: 3
56340605 GCACTATTCT
*
56340615 TTA TT- TTA TTA TTA TTA TT- TT- TTA TTA TT- TTA TCA TTA CTT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * *
56340656 TCTA TTA TTG TTA TTA TTA ATA -TA CTA TTA TTA TTC TTA TTAA CCTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA
* * *
56340703 TTA TTA TTA TTA TTA TTT TCTA CT- TTA TTA TTA -TA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
56340747 TT
1 TT
56340749 GCTATCATCA
Statistics
Matches: 103, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
2 14 0.14
3 82 0.80
4 6 0.06
5 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:56340639 original size:16 final size:15
Alignment explanation
Indices: 56340618--56340647 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
56340608 CTATTCTTTA
56340618 TTTTATTATTATTATT
1 TTTTATTATT-TTATT
56340634 TTTTATTATTTTAT
1 TTTTATTATTTTAT
56340648 CATTACTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTATTATTTTATT
Found at i:56340641 original size:13 final size:14
Alignment explanation
Indices: 56340615--56340748 Score: 71
Period size: 14 Copynumber: 9.4 Consensus size: 14
56340605 GCACTATTCT
56340615 TTATTTTATTATTA
1 TTATTTTATTATTA
56340629 TTATTTT-TTATTA
1 TTATTTTATTATTA
*
56340642 TT-TTATCATTACTT-
1 TTATT-TTATTA-TTA
*
56340656 TCTATTATTGTTATTA
1 T-TATT-TTATTATTA
* * *
56340672 TTAATATACTATTA
1 TTATTTTATTATTA
*
56340686 TTATTCTTATTAACCTA
1 TTATT-TTATT-A-TTA
56340703 TTATTATTATTATTA
1 TTATT-TTATTATTA
* *
56340718 TT-TTCTACT-TTA
1 TTATTTTATTATTA
*
56340730 TTATTATATTATTA
1 TTATTTTATTATTA
*
56340744 CTATT
1 TTATT
56340749 GCTATCATCA
Statistics
Matches: 91, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
12 7 0.08
13 17 0.19
14 30 0.33
15 15 0.16
16 10 0.11
17 12 0.13
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.63
Consensus pattern (14 bp):
TTATTTTATTATTA
Found at i:56340687 original size:23 final size:23
Alignment explanation
Indices: 56340657--56340740 Score: 84
Period size: 23 Copynumber: 3.8 Consensus size: 23
56340647 TCATTACTTT
* *
56340657 CTATTATTGTTATTATTAATATA
1 CTATTATTATTATTATTAACATA
* *
56340680 CTATTATTATTCTTATTAACCTA
1 CTATTATTATTATTATTAACATA
* **
56340703 TTATTATTATTATTATTTTC-TA
1 CTATTATTATTATTATTAACATA
56340725 CT-TTATTATTA-TATTA
1 CTATTATTATTATTATTA
56340741 TTACTATTGC
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
20 4 0.08
21 9 0.18
22 3 0.06
23 35 0.69
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (23 bp):
CTATTATTATTATTATTAACATA
Found at i:56340715 original size:20 final size:20
Alignment explanation
Indices: 56340621--56340718 Score: 76
Period size: 20 Copynumber: 4.9 Consensus size: 20
56340611 TTCTTTATTT
* *
56340621 TATTATTATTATT-TTTTAT
1 TATTATTATTATTATTATAC
* * *
56340640 TATT-TTATCATTACTTTCTAT
1 TATTATTATTATTA--TTATAC
* *
56340661 TATTGTTATTATTAATATAC
1 TATTATTATTATTATTATAC
*
56340681 TATTATTATTCTTATTA-ACC
1 TATTATTATTATTATTATA-C
56340701 TATTATTATTATTATTAT
1 TATTATTATTATTATTAT
56340719 TTTCTACTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.11
19 5 0.08
20 34 0.54
21 9 0.14
22 8 0.13
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (20 bp):
TATTATTATTATTATTATAC
Found at i:56340950 original size:26 final size:26
Alignment explanation
Indices: 56340893--56340988 Score: 79
Period size: 28 Copynumber: 3.6 Consensus size: 26
56340883 ATTATTATCA
*
56340893 ATTTTAAA-TATTTTACATATGTTATTT
1 ATTTTAAATTATTATACATA--TTATTT
* *
56340920 CTTTTAAATTATTATACGTATTATTT
1 ATTTTAAATTATTATACATATTATTT
* * *
56340946 ATTTTGAAATTTTTATATACATCTT-TGT
1 ATTTT-AAA-TTAT-TATACATATTATTT
56340974 ATTTTAAATTATTAT
1 ATTTTAAATTATTAT
56340989 GTATATATAC
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
25 3 0.05
26 13 0.23
27 13 0.23
28 19 0.34
29 8 0.14
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (26 bp):
ATTTTAAATTATTATACATATTATTT
Found at i:56343170 original size:15 final size:15
Alignment explanation
Indices: 56343146--56343175 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56343136 ATAGTTTCCC
*
56343146 TTTATTTTATTTTTA
1 TTTATGTTATTTTTA
56343161 TTTATGTTATTTTTA
1 TTTATGTTATTTTTA
56343176 ATAATTAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTATGTTATTTTTA
Found at i:56343412 original size:18 final size:19
Alignment explanation
Indices: 56343391--56343434 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
56343381 TAATTTTATA
56343391 ATTTATTTTAAT-TAAAAT
1 ATTTATTTTAATATAAAAT
* *
56343409 ATTTATTATAATATAAATT
1 ATTTATTTTAATATAAAAT
56343428 A-TTATTT
1 ATTTATTT
56343435 ATATTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTATTTTAATATAAAAT
Found at i:56343682 original size:19 final size:19
Alignment explanation
Indices: 56343658--56343705 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
56343648 TTTATATAAG
56343658 AAAATAAAGAA-TAAAAGAA
1 AAAATAAAGAATTAAAA-AA
*
56343677 AAAAT-AAGAATTGAAAAA
1 AAAATAAAGAATTAAAAAA
56343695 AAAATAAAGAA
1 AAAATAAAGAA
56343706 GTAGGCAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.12
Consensus pattern (19 bp):
AAAATAAAGAATTAAAAAA
Found at i:56343685 original size:18 final size:18
Alignment explanation
Indices: 56343658--56343701 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
56343648 TTTATATAAG
56343658 AAAATAAAGAA-TAAAAGAA
1 AAAAT-AAGAATTAAAA-AA
*
56343677 AAAATAAGAATTGAAAAA
1 AAAATAAGAATTAAAAAA
56343695 AAAATAA
1 AAAATAA
56343702 AGAAGTAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (18 bp):
AAAATAAGAATTAAAAAA
Found at i:56344472 original size:77 final size:77
Alignment explanation
Indices: 56344380--56344534 Score: 301
Period size: 77 Copynumber: 2.0 Consensus size: 77
56344370 CTCGAATTTC
*
56344380 ATCTGACTTTATTCAAATAAAAAAAATAAATCGAGTTAAAATAATTGAATACAACTCATTAATTC
1 ATCTGACTTTATTCAAATAAAAAAAATAAATCAAGTTAAAATAATTGAATACAACTCATTAATTC
56344445 GTTTAAGTCGGA
66 GTTTAAGTCGGA
56344457 ATCTGACTTTATTCAAATAAAAAAAATAAATCAAGTTAAAATAATTGAATACAACTCATTAATTC
1 ATCTGACTTTATTCAAATAAAAAAAATAAATCAAGTTAAAATAATTGAATACAACTCATTAATTC
56344522 GTTTAAGTCGGA
66 GTTTAAGTCGGA
56344534 A
1 A
56344535 ATTTCCCAAG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (77 bp):
ATCTGACTTTATTCAAATAAAAAAAATAAATCAAGTTAAAATAATTGAATACAACTCATTAATTC
GTTTAAGTCGGA
Found at i:56346331 original size:24 final size:24
Alignment explanation
Indices: 56346304--56346357 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
56346294 GTATTCCTCG
56346304 CTCGTTA-AGCGATGGTACTCCTTC
1 CTCGTTAGA-CGATGGTACTCCTTC
* *
56346328 CTCGTTAGACGTTGGTACTCTTTC
1 CTCGTTAGACGATGGTACTCCTTC
56346352 CTCGTT
1 CTCGTT
56346358 GATTGATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.13, C:0.28, G:0.20, T:0.39
Consensus pattern (24 bp):
CTCGTTAGACGATGGTACTCCTTC
Found at i:56346836 original size:21 final size:21
Alignment explanation
Indices: 56346812--56346854 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
56346802 TTTGTTGATT
56346812 TTTTAAAAATATTTATT-ATTA
1 TTTT-AAAATATTTATTAATTA
* *
56346833 TTTTTAAATTTTTATTAATTA
1 TTTTAAAATATTTATTAATTA
56346854 T
1 T
56346855 ATGTAGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTAAAATATTTATTAATTA
Found at i:56353043 original size:43 final size:43
Alignment explanation
Indices: 56352982--56353185 Score: 255
Period size: 43 Copynumber: 4.7 Consensus size: 43
56352972 GTTATAGATC
* * * *
56352982 ACGCCGCTAAAAGTCATGATCTTTAACGGCGCTTTATCCACAG
1 ACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTTTCCACAA
* *
56353025 ACGCCGCTAAAGGTCATGATCTTTAGCGGCGCTTTTTCCACAA
1 ACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTTTCCACAA
* * * * *
56353068 ACGGCGTTAAAATTCATGGCCTTTAGCGGCGCTTTTTCCATAA
1 ACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTTTCCACAA
* * * *
56353111 ACGCCGTTAAAAGTCATGGCCTTTAGCGGCACTTTTTTCACAA
1 ACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTTTCCACAA
* *
56353154 ACGCCGCTAAAAGTCATGGCCTTTAGTGGCGC
1 ACGCCGCTAAAAGTCATGACCTTTAGCGGCGC
56353186 ATTTAGCGGC
Statistics
Matches: 142, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 142 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (43 bp):
ACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTTTCCACAA
Found at i:56353380 original size:6 final size:6
Alignment explanation
Indices: 56353369--56353422 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
56353359 ATTCATTATT
* *
56353369 AAATAA AAATAA AAATAA AAATATA GAATCAA AACT-A AAATAA ATAATAA
1 AAATAA AAATAA AAATAA AAATA-A AAAT-AA AAATAA AAATAA A-AATAA
56353419 AAAT
1 AAAT
56353423 TAGATTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 4 0.10
6 22 0.55
7 13 0.32
8 1 0.03
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:56353446 original size:31 final size:32
Alignment explanation
Indices: 56353366--56353446 Score: 100
Period size: 31 Copynumber: 2.6 Consensus size: 32
56353356 AAAATTCATT
56353366 ATTAAATA-AAAATAAA-AATAAAAATATAGA
1 ATTAAATATAAAATAAATAATAAAAATATAGA
*
56353396 ATCAAA-ACTAAAATAAATAATAAAAAT-TAG-
1 ATTAAATA-TAAAATAAATAATAAAAATATAGA
56353426 ATTAAATATAAATATAAATAA
1 ATTAAATATAAA-ATAAATAA
56353447 AATACAACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
29 1 0.02
30 14 0.32
31 20 0.45
32 9 0.20
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (32 bp):
ATTAAATATAAAATAAATAATAAAAATATAGA
Found at i:56354393 original size:46 final size:46
Alignment explanation
Indices: 56354340--56354476 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
56354330 TATATATACA
* * *
56354340 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
* *
56354386 CATCTCATACACGTTTCGCATTAGCCATTTGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
* * **
56354432 CGTCTCATACACATTTCGCATTAGCCATTCGGCTTCGCCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATAT
56354477 ATACACTTCT
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
Found at i:56354677 original size:45 final size:45
Alignment explanation
Indices: 56354487--56354726 Score: 354
Period size: 47 Copynumber: 5.2 Consensus size: 45
56354477 ATACACTTCT
**
56354487 ACGTTCATCACATTGGCCATTCTACCTTATCACATGTATGCATGTTC
1 ACGTTCATCACATTGGCCATTCGGCCTTATCACA--TATGCATGTTC
*** *
56354534 GTATTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGCTC
1 ACGTTCATCACATTGGCCATTCGGCCTTATCACATA--TGCATGTTC
56354581 ACGTTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTC
1 ACGTTCATCACATTGGCCATTCGGCCTTAT--CACATATGCATGTTC
*
56354628 ACGTTCATCACATTGGCCATTCGACCTTATCACATATGCATGTTC
1 ACGTTCATCACATTGGCCATTCGGCCTTATCACATATGCATGTTC
56354673 ACGTTCATCACATTGGCCATTCGGCCTTATCACATATGCATGTTC
1 ACGTTCATCACATTGGCCATTCGGCCTTATCACATATGCATGTTC
*
56354718 ACATTCATC
1 ACGTTCATC
56354727 TCATACAATC
Statistics
Matches: 176, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
45 69 0.39
47 101 0.57
49 6 0.03
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (45 bp):
ACGTTCATCACATTGGCCATTCGGCCTTATCACATATGCATGTTC
Found at i:56357493 original size:12 final size:12
Alignment explanation
Indices: 56357476--56357504 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
56357466 TTAAAAATAA
56357476 CAATTTAACACT
1 CAATTTAACACT
56357488 CAATTTAACACT
1 CAATTTAACACT
56357500 -AATTT
1 CAATTT
56357505 GAAAAAAATG
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:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (12 bp):
CAATTTAACACT
Found at i:56360760 original size:7 final size:7
Alignment explanation
Indices: 56360750--56360789 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
56360740 ATATTTAAGT
56360750 TTTTTAA
1 TTTTTAA
56360757 TTTTTAA
1 TTTTTAA
56360764 TTTTTAA
1 TTTTTAA
56360771 TTTTTAA
1 TTTTTAA
56360778 TTTTTAA
1 TTTTTAA
56360785 TTTTT
1 TTTTT
56360790 TTTGAAGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTAA
Found at i:56361160 original size:37 final size:36
Alignment explanation
Indices: 56361102--56361232 Score: 199
Period size: 37 Copynumber: 3.6 Consensus size: 36
56361092 CTATGCAGCA
*
56361102 GATGCACAGGGCGAAGGCGATGGAGGAGATGGGTTGC
1 GATGCACGGGGCGAAGGCGATGGAGG-GATGGGTTGC
* *
56361139 GACGCACGGGGCGAAGGCGATGGAGGGGCTGGGTTGC
1 GATGCACGGGGCGAAGGCGATGGA-GGGATGGGTTGC
*
56361176 GATGCACGGGGCAAAGGCGATGGAGGGAATGGGTTGC
1 GATGCACGGGGCGAAGGCGATGGAGGG-ATGGGTTGC
56361213 GATGCACGGGGCGAAGGCGA
1 GATGCACGGGGCGAAGGCGA
56361233 CAAACGAAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
36 3 0.04
37 80 0.94
38 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.50, T:0.11
Consensus pattern (36 bp):
GATGCACGGGGCGAAGGCGATGGAGGGATGGGTTGC
Found at i:56361347 original size:15 final size:14
Alignment explanation
Indices: 56361328--56361390 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
56361318 CCATGGCCAT
56361328 TAAACCTTAAACCA
1 TAAACCTTAAACCA
*
56361342 TAAAACCCTAAACCA
1 T-AAACCTTAAACCA
* *
56361357 TAAACCTTAAATCT
1 TAAACCTTAAACCA
** *
56361371 TAAATATTAAACCC
1 TAAACCTTAAACCA
56361385 TAAACC
1 TAAACC
56361391 CAAAAATAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:56361391 original size:7 final size:7
Alignment explanation
Indices: 56361327--56361390 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
56361317 CCCATGGCCA
56361327 TTAAACC
1 TTAAACC
56361334 TTAAACC
1 TTAAACC
*
56361341 ATAAAACC
1 -TTAAACC
*
56361349 CTAAACC
1 TTAAACC
*
56361356 ATAAACC
1 TTAAACC
*
56361363 TTAAATC
1 TTAAACC
**
56361370 TTAAATA
1 TTAAACC
56361377 TTAAACC
1 TTAAACC
*
56361384 CTAAACC
1 TTAAACC
56361391 CAAAAATAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (7 bp):
TTAAACC
Found at i:56361620 original size:46 final size:46
Alignment explanation
Indices: 56361491--56361622 Score: 158
Period size: 48 Copynumber: 2.8 Consensus size: 46
56361481 TCAACATCCA
* ***
56361491 TATGATGTTTTTTGGGGTTTAGGGTTTTAAAAGTTATAGATTAGTGTT
1 TATGAT-TTTTTT-GGGTTTAGGATTTTAGGGGTTATAGATTAGTGTT
* *
56361539 TAGTG-TTTTTTAGAGGGTTAGGGATTTTAGGGGTTATAGATTAGTGTT
1 TA-TGATTTTTTTG-GGTTTA-GGATTTTAGGGGTTATAGATTAGTGTT
56361587 TATGATTTTTTTGGGTTTAGGATTTTAGGGGTTATA
1 TATGATTTTTTTGGGTTTAGGATTTTAGGGGTTATA
56361623 TGACTTTTTG
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
46 18 0.25
47 17 0.24
48 35 0.49
49 2 0.03
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (46 bp):
TATGATTTTTTTGGGTTTAGGATTTTAGGGGTTATAGATTAGTGTT
Found at i:56361672 original size:41 final size:41
Alignment explanation
Indices: 56361639--56361942 Score: 488
Period size: 41 Copynumber: 7.5 Consensus size: 41
56361629 TTTGCGGTGT
* * *
56361639 TTTGAGCAAAAACGTCGCTATTGCTCAGTTTTTTAGCGGCG
1 TTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCGGCG
*
56361680 TTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCGACG
1 TTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCGGCG
**
56361721 TTTGACCAAAAACGCCATTATTGCTCTG-TTTTTAGCGGCG
1 TTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCGGCG
* *
56361761 TTTGACCAAAAACGCTGCTATTGCTCTGTTTTTTAGGGGCG
1 TTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCGGCG
* *
56361802 TTTGACCAAAAACGCCGCTATTACTCTGTTTTTTAGCAGCG
1 TTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCGGCG
56361843 TTTGACCAAAAACGCCGCTATTGCTCTG-TTTTTAGCGGCG
1 TTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCGGCG
*
56361883 TTTGACCAAAAACGCCGCTATTGCTCT-ATTTTTAGCGGCG
1 TTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCGGCG
56361923 TTTGACCAAAAACGCCGCTA
1 TTTGACCAAAAACGCCGCTA
56361943 ACGTATAATT
Statistics
Matches: 244, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
40 106 0.43
41 138 0.57
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (41 bp):
TTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCGGCG
Found at i:56361771 original size:122 final size:120
Alignment explanation
Indices: 56361639--56361942 Score: 486
Period size: 122 Copynumber: 2.5 Consensus size: 120
56361629 TTTGCGGTGT
* *
56361639 TTTGAGCAAAAACGTCGCTATTGCTCAGTTTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGC
1 TTTGACCAAAAACG-CGCTATTGCTC-GTTTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTAC
*
56361704 TCTGTTTTTTAGC-GACGTTTGACCAAAAACGCCATTATTGCTCTGTTTTTAGCGGCG
64 TCTGTTTTTTAGCAG-CGTTTGACCAAAAACGCCACTATTGCTCTGTTTTTAGCGGCG
*
56361761 TTTGACCAAAAACGCTGCTATTGCTCTGTTTTTTAGGGGCGTTTGACCAAAAACGCCGCTATTAC
1 TTTGACCAAAAACGC-GCTATTGCTC-GTTTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTAC
*
56361826 TCTGTTTTTTAGCAGCGTTTGACCAAAAACGCCGCTATTGCTCTGTTTTTAGCGGCG
64 TCTGTTTTTTAGCAGCGTTTGACCAAAAACGCCACTATTGCTCTGTTTTTAGCGGCG
56361883 TTTGACCAAAAACGCCGCTATTGCTC-TATTTTTAGCGGCGTTTGACCAAAAACGCCGCTA
1 TTTGACCAAAAACG-CGCTATTGCTCGT-TTTTTAGCGGCGTTTGACCAAAAACGCCGCTA
56361943 ACGTATAATT
Statistics
Matches: 171, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
120 1 0.01
121 32 0.19
122 136 0.80
123 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (120 bp):
TTTGACCAAAAACGCGCTATTGCTCGTTTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTACTC
TGTTTTTTAGCAGCGTTTGACCAAAAACGCCACTATTGCTCTGTTTTTAGCGGCG
Found at i:56362616 original size:13 final size:12
Alignment explanation
Indices: 56362591--56362624 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
56362581 AAGGTCTATA
56362591 TTTT-TTTTCTT
1 TTTTCTTTTCTT
56362602 TTTTCTTTTCTTT
1 TTTTCTTTTC-TT
56362615 TTTTCTTTTC
1 TTTTCTTTTC
56362625 CGCATTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.19
12 5 0.24
13 12 0.57
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:56364618 original size:131 final size:131
Alignment explanation
Indices: 56364380--56364844 Score: 575
Period size: 131 Copynumber: 3.6 Consensus size: 131
56364370 TAATTATCTG
* * * *
56364380 TTTAAAGATTCCTTAAAATGAAAAAAATGTTTGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
1 TTTAAAAATTCCTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
*
56364445 GTGCTGGGTTGCAATTTCCTGTTTGCTCGAAACGATTGAATATTCCTTTGGTATTTCACTCATGT
66 GTGCTGGGTTGCAATTTCCTGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGT
56364510 C
131 C
* * * *
56364511 TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCAGGGAATCGTGCCCTACT
1 TTTAAAAATTCCTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
*
56364576 GTGCTGGGTTGCAATTTCCTGTTTGCTCGAAACGATCCAATATTCCTTTGGTATTTCACTCATGT
66 GTGCTGGGTTGCAATTTCCTGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGT
56364641 C
131 C
* * * * * * *
56364642 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGCTTAGCGATTCGGGGAATTGTGCCCTATC
1 TTTAAAAATTCCTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
* * * * * * * *
56364707 GTGTTGGGTTGCAATTTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCATTCGTA
66 GTGCTGGGTTGCAATTTCCT-GTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTC--A
56364772 T-TC
128 TGTC
* * * * *
56364775 TTT--AAATT-C-TAAAAC-AAAGCAATGTTCAATGTTTGG-AAGTTCGAGGAATCATGCCCAAC
1 TTTAAAAATTCCTTAAAACGAAAGAAATGTTCGATGTTTGGCAA-TTCGGGGAATCGTGCCCTAC
56364834 CGTGCTGGGTT
65 CGTGCTGGGTT
56364845 TCGGTTTTTT
Statistics
Matches: 289, Mismatches: 41, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
127 1 0.00
128 41 0.14
129 6 0.02
131 200 0.69
132 34 0.12
133 5 0.02
134 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (131 bp):
TTTAAAAATTCCTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
GTGCTGGGTTGCAATTTCCTGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGT
C
Done.