Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 56 of 106
Found at i:9862629 original size:18 final size:19
Alignment explanation
Indices: 9862580--9862629 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
9862570 ATTTTTATTT
9862580 TATA-AAAATTTAA-AAAA
1 TATATAAAATTTAATAAAA
**
9862597 TATATAAAAACTAATAAAA
1 TATATAAAATTTAATAAAA
*
9862616 -ATATATAATTTAAT
1 TATATAAAATTTAAT
9862630 TCAATTCATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 4 0.15
18 18 0.69
19 4 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
TATATAAAATTTAATAAAA
Found at i:9863178 original size:12 final size:12
Alignment explanation
Indices: 9863163--9863200 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
9863153 TCTATATAAA
9863163 TATATTAAAAAT
1 TATATTAAAAAT
9863175 TATATT-AAAAT
1 TATATTAAAAAT
*
9863186 AATATATAAAAAT
1 TATAT-TAAAAAT
9863199 TA
1 TA
9863201 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 9 0.41
12 7 0.32
13 6 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TATATTAAAAAT
Found at i:9863208 original size:25 final size:25
Alignment explanation
Indices: 9863161--9863209 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
9863151 TATCTATATA
* *
9863161 AATATATTAAAAATTATATTAAAAT
1 AATATATTAAAAATTAAAATAAAAT
9863186 AATATA-TAAAAATTAAAAATAAAA
1 AATATATTAAAAATT-AAAATAAAA
9863210 ATGATAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (25 bp):
AATATATTAAAAATTAAAATAAAAT
Found at i:9863376 original size:15 final size:15
Alignment explanation
Indices: 9863356--9863387 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9863346 GTTATCATTC
*
9863356 CTAAATAGTTAAAAT
1 CTAAATACTTAAAAT
9863371 CTAAATACTTAAAAT
1 CTAAATACTTAAAAT
9863386 CT
1 CT
9863388 TTCATGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.34
Consensus pattern (15 bp):
CTAAATACTTAAAAT
Found at i:9865853 original size:25 final size:25
Alignment explanation
Indices: 9865819--9865866 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
9865809 CTATTTCTGG
*
9865819 TTCTCTGCATCCATTTAGTGGTTGT
1 TTCTCTGCATCCATTCAGTGGTTGT
9865844 TTCTCTGCATCCATTCAGTGGTT
1 TTCTCTGCATCCATTCAGTGGTT
9865867 TACACATAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (25 bp):
TTCTCTGCATCCATTCAGTGGTTGT
Found at i:9867171 original size:3 final size:3
Alignment explanation
Indices: 9867163--9867202 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
9867153 TATCATATCA
9867163 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9867203 TTCTTTCTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9869783 original size:40 final size:40
Alignment explanation
Indices: 9869733--9869813 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
9869723 TTTGAAAGAC
9869733 AAGGATAGAATTATTTTATTCAAAAGAATGAAATGACAAT
1 AAGGATAGAATTATTTTATTCAAAAGAATGAAATGACAAT
*
9869773 AAGGATAGAATTATTTTATTCAAAAGAATGAAATGATAAT
1 AAGGATAGAATTATTTTATTCAAAAGAATGAAATGACAAT
9869813 A
1 A
9869814 GTATAAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.31
Consensus pattern (40 bp):
AAGGATAGAATTATTTTATTCAAAAGAATGAAATGACAAT
Found at i:9870982 original size:2 final size:2
Alignment explanation
Indices: 9870975--9871000 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9870965 GGTAATCATA
9870975 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9871001 TGTATCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9872686 original size:31 final size:31
Alignment explanation
Indices: 9872645--9872708 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
9872635 TTTAAACATA
*
9872645 TTATACAAGCTGTGTGATAGTCAACTCTAGG
1 TTATAAAAGCTGTGTGATAGTCAACTCTAGG
*
9872676 TTATAAAAGCTGTGTGATAGTCAACTCTGGG
1 TTATAAAAGCTGTGTGATAGTCAACTCTAGG
9872707 TT
1 TT
9872709 TTTCTTTCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.34
Consensus pattern (31 bp):
TTATAAAAGCTGTGTGATAGTCAACTCTAGG
Found at i:9873783 original size:43 final size:42
Alignment explanation
Indices: 9873734--9873818 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 42
9873724 TAACTTAATG
*
9873734 GTTAATATTATATTTTAACAATGCCGTGCATCACACTTCCGTT
1 GTTAATATTAGATTTTAACAATGCC-TGCATCACACTTCCGTT
* * *
9873777 GTTAATATTAGATTTTAGCAATGCCTGCATGACATTTCCGTT
1 GTTAATATTAGATTTTAACAATGCCTGCATCACACTTCCGTT
9873819 ATGGAGTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
42 15 0.39
43 23 0.61
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (42 bp):
GTTAATATTAGATTTTAACAATGCCTGCATCACACTTCCGTT
Found at i:9874297 original size:24 final size:22
Alignment explanation
Indices: 9874256--9874302 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
9874246 TTAAATGTGA
*
9874256 TTTTAAAAAATATATATTTATT
1 TTTTAAAAAATATATATTAATT
*
9874278 TTTTAAAAAAAGTATTTATTAATT
1 TTTT-AAAAAA-TATATATTAATT
9874302 T
1 T
9874303 GATGCCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 6 0.29
24 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTTAAAAAATATATATTAATT
Found at i:9879542 original size:85 final size:85
Alignment explanation
Indices: 9879399--9879571 Score: 328
Period size: 85 Copynumber: 2.0 Consensus size: 85
9879389 TGAGATGTCG
*
9879399 AAAGTAGGATTTTTAGACGCATACTAATGTTCAAGTCAGGAAAATATAGTATGTAAGATAAAATT
1 AAAGTAGGATTTTTAGACGCATACTAATGTTCAAGTCAGGAAAATACAGTATGTAAGATAAAATT
9879464 TAAATGAAATTTTTTATATA
66 TAAATGAAATTTTTTATATA
*
9879484 AAAGTAGGATTTTTAGACGCATACTAATGTTCAAGTCAGGAAAATACAGTATGTAAGATAAATTT
1 AAAGTAGGATTTTTAGACGCATACTAATGTTCAAGTCAGGAAAATACAGTATGTAAGATAAAATT
9879549 TAAATGAAATTTTTTATATA
66 TAAATGAAATTTTTTATATA
9879569 AAA
1 AAA
9879572 TTTATAAAAC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (85 bp):
AAAGTAGGATTTTTAGACGCATACTAATGTTCAAGTCAGGAAAATACAGTATGTAAGATAAAATT
TAAATGAAATTTTTTATATA
Found at i:9879590 original size:24 final size:25
Alignment explanation
Indices: 9879541--9879605 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
9879531 AGTATGTAAG
* *
9879541 ATAAATTTTAAATGAAA-TTTTTTAT
1 ATAAAATTT-AATAAAACTTTTTTAT
9879566 ATAAAATTT-ATAAAACTTTTTTAT
1 ATAAAATTTAATAAAACTTTTTTAT
*
9879590 ATATAATTTAATAAAA
1 ATAAAATTTAATAAAA
9879606 AATTTGAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.14
24 16 0.46
25 14 0.40
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
ATAAAATTTAATAAAACTTTTTTAT
Found at i:9884191 original size:11 final size:11
Alignment explanation
Indices: 9884175--9884200 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9884165 TCTTATAAAA
9884175 AAATATTTATT
1 AAATATTTATT
9884186 AAATATTTATT
1 AAATATTTATT
9884197 AAAT
1 AAAT
9884201 TAACAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATATTTATT
Found at i:9888240 original size:4 final size:4
Alignment explanation
Indices: 9888221--9888267 Score: 67
Period size: 4 Copynumber: 11.2 Consensus size: 4
9888211 GTTTCAATAA
*
9888221 TAAT TTAT TAAAT TAAT TAAT TAAT TAAT TAAT TAAT TCAAT TAAT T
1 TAAT TAAT T-AAT TAAT TAAT TAAT TAAT TAAT TAAT T-AAT TAAT T
9888268 TTTTGTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 32 0.82
5 7 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (4 bp):
TAAT
Found at i:9891911 original size:2 final size:2
Alignment explanation
Indices: 9891856--9891895 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
9891846 ACTTTCTCCA
* * *
9891856 AT AT AC AT AC AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9891896 TATTAGCCAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:9904387 original size:17 final size:18
Alignment explanation
Indices: 9904367--9904407 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
9904357 AAGAAATTTC
9904367 AAAGGAGAT-AAAAGAAA
1 AAAGGAGATGAAAAGAAA
* *
9904384 AAA-GAAATGAAAAGAGA
1 AAAGGAGATGAAAAGAAA
9904401 AAAGGAG
1 AAAGGAG
9904408 TAGAAATAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 4 0.21
17 13 0.68
18 2 0.11
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (18 bp):
AAAGGAGATGAAAAGAAA
Found at i:9904598 original size:18 final size:16
Alignment explanation
Indices: 9904556--9904599 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 16
9904546 ACCATAACAC
9904556 TTTTAAAAAATATATT
1 TTTTAAAAAATATATT
*
9904572 TTTGAAAAATATTATGATT
1 TTTTAAAAA-A-TAT-ATT
9904591 TTTTAAAAA
1 TTTTAAAAA
9904600 TAAAATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 8 0.35
17 1 0.04
18 3 0.13
19 11 0.48
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (16 bp):
TTTTAAAAAATATATT
Found at i:9906358 original size:17 final size:17
Alignment explanation
Indices: 9906313--9906361 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
9906303 TTTTTATTAT
9906313 AATTTTTATAATTA-A-A
1 AATTTTTAT-ATTATATA
*
9906329 AATTTTAAT-TTATATA
1 AATTTTTATATTATATA
9906345 AATTTTTATATTATATA
1 AATTTTTATATTATATA
9906362 TAGATAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 3 0.11
15 1 0.04
16 17 0.61
17 7 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTTTATATTATATA
Found at i:9907462 original size:32 final size:36
Alignment explanation
Indices: 9907421--9907498 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 36
9907411 TATTTAAATA
*
9907421 AAATTTAACTTT-GAT-TTGATT-ATT-ATCGAATT
1 AAATTTAACTTTAAATATTGATTCATTAATCGAATT
9907453 AAATTTAACTTTAAATAACTTGATTCATTAATCGAATT
1 AAATTTAACTTTAAAT-A-TTGATTCATTAATCGAATT
9907491 AAATTTAA
1 AAATTTAA
9907499 ATATTTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
32 12 0.31
33 2 0.05
36 6 0.15
37 3 0.08
38 16 0.41
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (36 bp):
AAATTTAACTTTAAATATTGATTCATTAATCGAATT
Found at i:9907757 original size:18 final size:18
Alignment explanation
Indices: 9907732--9907778 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
9907722 ATTAAAAAAA
*
9907732 TAAA-TTTAATTAAATTT
1 TAAATTTTAATTAAAATT
*
9907749 TAAATTTTAAATAAAATT
1 TAAATTTTAATTAAAATT
*
9907767 TAAATTTAAATT
1 TAAATTTTAATT
9907779 TAATATTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAATTTTAATTAAAATT
Found at i:9907773 original size:6 final size:6
Alignment explanation
Indices: 9907732--9907781 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
9907722 ATTAAAAAAA
*
9907732 TAAATT T-AA-T TAAATTT TAAATTT TAAA-T AAAATT TAAATT TAAATT
1 TAAATT TAAATT TAAA-TT TAAA-TT TAAATT TAAATT TAAATT TAAATT
9907779 TAA
1 TAA
9907782 TATTATATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 2 0.05
5 8 0.21
6 16 0.42
7 12 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAAATT
Found at i:9908770 original size:17 final size:17
Alignment explanation
Indices: 9908748--9908784 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9908738 CATTTTTTTT
*
9908748 ATGAGAATACAGCTTGG
1 ATGAGAACACAGCTTGG
*
9908765 ATGAGAACACGGCTTGG
1 ATGAGAACACAGCTTGG
9908782 ATG
1 ATG
9908785 GAGTTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.22
Consensus pattern (17 bp):
ATGAGAACACAGCTTGG
Found at i:9908870 original size:88 final size:89
Alignment explanation
Indices: 9908717--9908894 Score: 313
Period size: 88 Copynumber: 2.0 Consensus size: 89
9908707 AATCACTTGA
**
9908717 AATTTACTACATTTTCAAGTCCATTTTTTTTATGAGAATACAGCTTGGATGAGAACACGGCTTGG
1 AATTTACTACATTTTCAAGTCCATTGCTTTTATGAGAATACAGCTTGGATGAGAACACGGCTTGG
9908782 ATGGAGTTTTATAACAACAATGAT
66 ATGGAGTTTTATAACAACAATGAT
*
9908806 AATTTACTACATTTTCAAGTCCA-TGCTTTTATGAGAATACAGCTTGGATGAGAACACGGTTTGG
1 AATTTACTACATTTTCAAGTCCATTGCTTTTATGAGAATACAGCTTGGATGAGAACACGGCTTGG
*
9908870 ATGGAGTTTTATAACAACATTGAT
66 ATGGAGTTTTATAACAACAATGAT
9908894 A
1 A
9908895 GTAAGTTTGG
Statistics
Matches: 85, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
88 62 0.73
89 23 0.27
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (89 bp):
AATTTACTACATTTTCAAGTCCATTGCTTTTATGAGAATACAGCTTGGATGAGAACACGGCTTGG
ATGGAGTTTTATAACAACAATGAT
Found at i:9917103 original size:14 final size:15
Alignment explanation
Indices: 9917084--9917117 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
9917074 AATTTTTAAT
9917084 TTTAATTATT-AAAA
1 TTTAATTATTGAAAA
*
9917098 TTTAATTATTGACAA
1 TTTAATTATTGAAAA
9917113 TTTAA
1 TTTAA
9917118 AATATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (15 bp):
TTTAATTATTGAAAA
Found at i:9917457 original size:21 final size:23
Alignment explanation
Indices: 9917424--9917466 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
9917414 AACTAAAAAT
9917424 ATATATCATTTTATTTAATTTTA
1 ATATATCATTTTATTTAATTTTA
*
9917447 ATATAT-A-TTTATTTATTTTT
1 ATATATCATTTTATTTAATTTT
9917467 TAGCTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 1 0.05
23 6 0.32
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
ATATATCATTTTATTTAATTTTA
Found at i:9917467 original size:22 final size:22
Alignment explanation
Indices: 9917424--9917497 Score: 59
Period size: 22 Copynumber: 3.4 Consensus size: 22
9917414 AACTAAAAAT
*
9917424 ATATATCATTTTATTTA-ATTTTA
1 ATATAT-A-TTTATTTATTTTTTA
9917447 ATATATATTTATTTATTTTTTA
1 ATATATATTTATTTATTTTTTA
*
9917469 GCTA-ATTATTT-TTTATTTTTT-
1 -ATATA-TATTTATTTATTTTTTA
9917490 ATAT-TATT
1 ATATATATT
9917498 AATAGAGTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
19 4 0.09
20 2 0.05
21 8 0.18
22 17 0.39
23 13 0.30
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (22 bp):
ATATATATTTATTTATTTTTTA
Found at i:9917495 original size:19 final size:20
Alignment explanation
Indices: 9917433--9917497 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
9917423 TATATATCAT
* *
9917433 TTTATTTAATTTTAATATATA
1 TTTATTTATTTTTTATAT-TA
9917454 TTTATTTATTTTTTAGCTAATTA
1 TTTATTTATTTTTTA--T-ATTA
9917477 TTT-TTTATTTTTTATATTA
1 TTTATTTATTTTTTATATTA
9917496 TT
1 TT
9917498 AATAGAGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 6 0.15
20 1 0.03
21 13 0.33
22 11 0.28
23 6 0.15
24 2 0.05
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTATTTATTTTTTATATTA
Found at i:9918124 original size:3 final size:3
Alignment explanation
Indices: 9918118--9918146 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9918108 TGCTTTCTCT
9918118 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9918147 TGAAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9929375 original size:164 final size:164
Alignment explanation
Indices: 9929104--9929424 Score: 500
Period size: 164 Copynumber: 2.0 Consensus size: 164
9929094 CATGTTCGAG
* * * *
9929104 CTAAGTTTTGAGACTTGAATTTCGAATCTAGCTTGAGCTCAACTTAATACTGTATCAACTCAAAC
1 CTAAGTTTCGAGACTTGAATTTCGAATCTAGCTCGAGCTCAACTTAAGACTATATCAACTCAAAC
* * *
9929169 TCGATCGATTACATACCCTATTTATAATATTGCTACACAAGGAAGTGTATAGCAATTGCCAAAAA
66 TCGATCGATTACATACCCAAATTATAATATTACTACACAAGGAAGTGTATAGCAATTGCCAAAAA
9929234 AGATTTAGATTCATTTTCGGCCTGGGCTGTTAAT
131 AGATTTAGATTCATTTTCGGCCTGGGCTGTTAAT
* * **
9929268 CTAAGTTTCGAGACTTGAATTTCGAATCTAGCTCGAGCTCAAGTTTAAGATTATATTGACTCAAA
1 CTAAGTTTCGAGACTTGAATTTCGAATCTAGCTCGAGCTCAA-CTTAAGACTATATCAACTCAAA
* *
9929333 CTCGATCGATTACATA-CCAAATTATAATATTACTAGACAAGGAAGTGTATAGCAATTGCCAGAA
65 CTCGATCGATTACATACCCAAATTATAATATTACTACACAAGGAAGTGTATAGCAATTGCCAAAA
*
9929397 AAGATTTAGATTCATTTTTGGCCTGGGC
130 AAGATTTAGATTCATTTTCGGCCTGGGC
9929425 CTGCTAACTT
Statistics
Matches: 142, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
164 110 0.77
165 32 0.23
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (164 bp):
CTAAGTTTCGAGACTTGAATTTCGAATCTAGCTCGAGCTCAACTTAAGACTATATCAACTCAAAC
TCGATCGATTACATACCCAAATTATAATATTACTACACAAGGAAGTGTATAGCAATTGCCAAAAA
AGATTTAGATTCATTTTCGGCCTGGGCTGTTAAT
Found at i:9929553 original size:123 final size:123
Alignment explanation
Indices: 9929330--9929554 Score: 360
Period size: 123 Copynumber: 1.8 Consensus size: 123
9929320 ATATTGACTC
*
9929330 AAACTCGATCGATTACATACCAAATTATAATATTACTAGACAAGGAAGTGTATAGCAATTGCCAG
1 AAACTCGATCGATTACATACCAAATTATAATATTACTAGACAAGGAAGTGAATAGCAATTGCCAG
* *
9929395 AAAAGATTTAGATTCATTTTTGGCCTGGGCCTGCTAACTTGATTACATACCTAATTAT
66 AAAAGATTTAGATTCATTTTCGACCTGGGCCTGCTAACTTGATTACATACCTAATTAT
* * * * *
9929453 AAACTTGATTGATTACATACCTAATTATAATATTGCTAGACAAGGGAGTGAATAGCAATTGCCAG
1 AAACTCGATCGATTACATACCAAATTATAATATTACTAGACAAGGAAGTGAATAGCAATTGCCAG
* *
9929518 AAAAGATTTAGATTCATTTTCGACCTGTGCTTGCTAA
66 AAAAGATTTAGATTCATTTTCGACCTGGGCCTGCTAA
9929555 TCTGACATCC
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
123 92 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (123 bp):
AAACTCGATCGATTACATACCAAATTATAATATTACTAGACAAGGAAGTGAATAGCAATTGCCAG
AAAAGATTTAGATTCATTTTCGACCTGGGCCTGCTAACTTGATTACATACCTAATTAT
Found at i:9930886 original size:21 final size:22
Alignment explanation
Indices: 9930852--9930899 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
9930842 TAAATTTGAG
9930852 ATAT-ATATTAAAATGAAATAT
1 ATATAATATTAAAATGAAATAT
*
9930873 ATATAATATT-AAATGAGATAT
1 ATATAATATTAAAATGAAATAT
*
9930894 AAATAA
1 ATATAA
9930900 AATTCCCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (22 bp):
ATATAATATTAAAATGAAATAT
Found at i:9936834 original size:18 final size:18
Alignment explanation
Indices: 9936811--9936851 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9936801 ATAAAACTAT
9936811 TATTTTAAATATAAATTA
1 TATTTTAAATATAAATTA
* *
9936829 TATTTTAATTATATATTA
1 TATTTTAAATATAAATTA
9936847 T-TTTT
1 TATTTT
9936852 GTCATACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTTAAATATAAATTA
Found at i:9937643 original size:2 final size:2
Alignment explanation
Indices: 9937636--9937668 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9937626 AGAACAGGTT
9937636 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9937669 GTATGTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9938465 original size:2 final size:2
Alignment explanation
Indices: 9938453--9938490 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
9938443 TGCAATCAAC
*
9938453 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9938491 GTATCAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:9938987 original size:18 final size:16
Alignment explanation
Indices: 9938964--9939002 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
9938954 ATAAAATTAA
*
9938964 AATTTAATTTTCAAATAT
1 AATTTAAATTT-AAAT-T
9938982 AATTTAAATTTAAATT
1 AATTTAAATTTAAATT
9938998 AATTT
1 AATTT
9939003 TATTATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTTAAATTTAAATT
Found at i:9941880 original size:2 final size:2
Alignment explanation
Indices: 9941873--9941908 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
9941863 TGATCCCCTT
* *
9941873 TA TA TA TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9941909 ATACTAGCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:9941973 original size:27 final size:27
Alignment explanation
Indices: 9941943--9942004 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
9941933 ATTTTTAACA
9941943 TTATAAATATTATGAAA-ATACAATTTC
1 TTATAAATATTAT-AAATATACAATTTC
* *
9941970 TTATGAAA-ATTATAAATATACTATTTT
1 TTAT-AAATATTATAAATATACAATTTC
9941997 TTA-AAATA
1 TTATAAATA
9942005 AAATTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
25 3 0.10
26 4 0.13
27 20 0.67
28 3 0.10
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (27 bp):
TTATAAATATTATAAATATACAATTTC
Found at i:9942006 original size:21 final size:20
Alignment explanation
Indices: 9941981--9942020 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9941971 TATGAAAATT
9941981 ATAAATATACTATTTTTTAAA
1 ATAAA-ATACTATTTTTTAAA
**
9942002 ATAAAATTTTATTTTTTAA
1 ATAAAATACTATTTTTTAA
9942021 TAAATAATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAAAATACTATTTTTTAAA
Found at i:9951573 original size:16 final size:17
Alignment explanation
Indices: 9951552--9951585 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9951542 GAAAATAAAA
9951552 TATTTTA-AATTAAATT
1 TATTTTATAATTAAATT
*
9951568 TATTTTATCATTAAATT
1 TATTTTATAATTAAATT
9951585 T
1 T
9951586 TAAATTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTATAATTAAATT
Found at i:9952674 original size:11 final size:11
Alignment explanation
Indices: 9952658--9952696 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
9952648 AGTTTTATTA
*
9952658 ATATAATACAT
1 ATATAATAAAT
9952669 ATATAATTAAAT
1 ATATAA-TAAAT
*
9952681 AAATAATAAAT
1 ATATAATAAAT
9952692 ATATA
1 ATATA
9952697 TTTTTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATAATAAAT
Found at i:9957223 original size:20 final size:21
Alignment explanation
Indices: 9957182--9957232 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
9957172 TATAAAAAAG
**
9957182 TAAAATAAT-AATTTTTTAAT
1 TAAAATAATAAATCATTTAAT
9957202 TAAAATAATAAATCATTT-AT
1 TAAAATAATAAATCATTTAAT
9957222 TAAAAT-ATAAA
1 TAAAATAATAAA
9957233 AATTCGATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 5 0.18
20 17 0.61
21 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAATAATAAATCATTTAAT
Found at i:9958458 original size:21 final size:21
Alignment explanation
Indices: 9958434--9958475 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9958424 TAGCAAAAAA
*
9958434 GAAACTATAAGCATTGAGAAG
1 GAAACTATAAGCATGGAGAAG
9958455 GAAACTATAAGCATGGAGAAG
1 GAAACTATAAGCATGGAGAAG
9958476 ACACGTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.26, T:0.17
Consensus pattern (21 bp):
GAAACTATAAGCATGGAGAAG
Found at i:9962124 original size:2 final size:2
Alignment explanation
Indices: 9962117--9962152 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9962107 GAAACTGTTA
9962117 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9962153 GCCTTTGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9963082 original size:2 final size:2
Alignment explanation
Indices: 9963075--9963099 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9963065 CATTAAAAAT
9963075 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9963100 TTGTTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9963392 original size:21 final size:22
Alignment explanation
Indices: 9963354--9963394 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9963344 ATGTAATATC
9963354 TTAAAATATTAAATAAATAAAT
1 TTAAAATATTAAATAAATAAAT
9963376 TTAAAAGTA-TAAA-AAATAA
1 TTAAAA-TATTAAATAAATAA
9963395 TATCATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 10 0.56
23 2 0.11
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (22 bp):
TTAAAATATTAAATAAATAAAT
Found at i:9964931 original size:2 final size:2
Alignment explanation
Indices: 9964924--9964951 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9964914 ATCATAAATT
9964924 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9964952 AACAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9967234 original size:11 final size:11
Alignment explanation
Indices: 9967220--9967255 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
9967210 AATTTTTATT
9967220 TTTATTTTTAC
1 TTTATTTTTAC
9967231 TTTA-TTTTAC
1 TTTATTTTTAC
*
9967241 TTTATTTTTAA
1 TTTATTTTTAC
9967252 TTTA
1 TTTA
9967256 ATAATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTATTTTTAC
Found at i:9968051 original size:24 final size:23
Alignment explanation
Indices: 9968023--9968074 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 23
9968013 AGAAAAAGAT
9968023 AAAAAAAAAATAATAGATAAATA
1 AAAAAAAAAATAATAGATAAATA
*
9968046 ATAAAAAAAATTAATAGATAAATA
1 A-AAAAAAAAATAATAGATAAATA
9968070 AAAAA
1 AAAAA
9968075 TATTAACGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (23 bp):
AAAAAAAAAATAATAGATAAATA
Found at i:9968079 original size:21 final size:21
Alignment explanation
Indices: 9968019--9968080 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
9968009 ATCAAGAAAA
* *
9968019 AGATAAAAAAAAAATAATAGAT
1 AGATAAATAAAAAATATTA-AT
* *
9968041 AAAT-AATAAAAAAAATTAAT
1 AGATAAATAAAAAATATTAAT
9968061 AGATAAATAAAAAATATTAA
1 AGATAAATAAAAAATATTAA
9968081 CGATACATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 5 0.15
21 25 0.76
22 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
AGATAAATAAAAAATATTAAT
Found at i:9968085 original size:20 final size:21
Alignment explanation
Indices: 9968024--9968080 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 21
9968014 GAAAAAGATA
*
9968024 AAAAAAAAATAATAGATAAATAAT
1 AAAAAAAATTAATAGAT--A-AAT
9968048 AAAAAAAATTAATAGATAAAT
1 AAAAAAAATTAATAGATAAAT
*
9968069 AAAAAATATTAA
1 AAAAAAAATTAA
9968081 CGATACATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 14 0.45
22 1 0.03
24 16 0.52
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (21 bp):
AAAAAAAATTAATAGATAAAT
Found at i:9968101 original size:46 final size:44
Alignment explanation
Indices: 9968019--9968164 Score: 106
Period size: 46 Copynumber: 3.3 Consensus size: 44
9968009 ATCAAGAAAA
* * *
9968019 AGATAAAAAAAAAATAAT-AGATAAATAAT-AAAAAAAATTAAT
1 AGATAAATAAAAAATATTAAGATAAATAATAAAAAAAAAATAAT
* * *
9968061 AGATAAATAAAAAATATTAACGATACATGATAAAATAAAAAAATATT
1 AGATAAATAAAAAATATTAA-GATAAATAAT-AAA-AAAAAAATAAT
* *
9968108 A-ATAAATAAATAATATTAATAATAATATTAATAAATAAATAAAA-AAT
1 AGATAAATAAAAAATATTAA-GATAA-A-TAATAAA-AAA-AAAATAAT
9968155 A-A-AAATAAAA
1 AGATAAATAAAA
9968165 TGCAAATAGA
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
42 16 0.19
43 1 0.01
44 8 0.10
46 29 0.35
47 22 0.27
48 7 0.08
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.25
Consensus pattern (44 bp):
AGATAAATAAAAAATATTAAGATAAATAATAAAAAAAAAATAAT
Found at i:9968117 original size:4 final size:4
Alignment explanation
Indices: 9968093--9968157 Score: 53
Period size: 4 Copynumber: 15.8 Consensus size: 4
9968083 ATACATGATA
* * *
9968093 AAAT AAAA AAAT ATTAAT AAAT AAAT AATAT TAAT -AAT AATAT TAAT
1 AAAT AAAT AAAT A--AAT AAAT AAAT AA-AT AAAT AAAT AA-AT AAAT
9968140 AAAT AAAT AAA- AAAT AAA
1 AAAT AAAT AAAT AAAT AAA
9968158 AATAAAATGC
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
3 6 0.12
4 34 0.68
5 6 0.12
6 4 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:9968384 original size:20 final size:20
Alignment explanation
Indices: 9968356--9968398 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
9968346 AACTCAATAA
*
9968356 TTTTTTTTTGGTCTTT-TTTG
1 TTTTGTTTT-GTCTTTATTTG
*
9968376 TTTTGTTTTGTTTTTATTTG
1 TTTTGTTTTGTCTTTATTTG
9968396 TTT
1 TTT
9968399 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.81
Consensus pattern (20 bp):
TTTTGTTTTGTCTTTATTTG
Found at i:9968493 original size:44 final size:44
Alignment explanation
Indices: 9968425--9968664 Score: 234
Period size: 44 Copynumber: 5.5 Consensus size: 44
9968415 AAATTTTGAT
* * * *
9968425 CAAAGCTCCTCTAAGCAAAAGCTCAATGACTTTGGAAAGATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGGAAAAATAAA
* * ** *
9968469 CAAAGTTCCTCTAATCAGAGGCTCAACAACTTTCGAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGGAAAAATAAA
** ** *
9968513 CAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTTGG-AAAAT-GA
1 CAAAGCTCCTCTAAACAGAGGCTCAATGAC-TTTGGAAAAATAAA
** * *
9968556 -ATTGCTCCTCTAAACAGATGCTCAATGACTTTTGAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGGAAAAATAAA
* * * *
9968599 TAAAACTTCTCTAAACAGAGGCTCAATGACTTTTGAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGGAAAAATAAA
* *
9968643 TAAAGCTCCTATAAACAGAGGC
1 CAAAGCTCCTCTAAACAGAGGC
9968665 AACCACAACT
Statistics
Matches: 162, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
41 4 0.02
42 27 0.17
43 2 0.01
44 125 0.77
45 4 0.02
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (44 bp):
CAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGGAAAAATAAA
Found at i:9968595 original size:86 final size:86
Alignment explanation
Indices: 9968475--9968758 Score: 243
Period size: 86 Copynumber: 3.3 Consensus size: 86
9968465 TAAACAAAGT
* * **
9968475 TCCTCTAATCAGAGGCTCAACAACTTTCGAAAAATAAACAAAGCTCCTCTAAGTAGAGGCTCAAC
1 TCCTCTAAACAGAGGCTCAACAACTTTCGAAAAATAAACAAAACTCCTCTAAACAGAGGCTCAAC
*
9968540 AACTTTTGGAAAATGAATTGC
66 AACTTTTGAAAAATGAATTGC
* ** * * * *
9968561 TCCTCTAAACAGATGCTCAATGACTTTTGAAAAATAAATAAAACTTCTCTAAACAGAGGCTCAAT
1 TCCTCTAAACAGAGGCTCAACAACTTTCGAAAAATAAACAAAACTCCTCTAAACAGAGGCTCAAC
* * *
9968626 GACTTTTGAAAAATAAATAAAGC
66 AACTTTTGAAAAATGAAT--TGC
* * * ** * * *
9968649 TCCTATAAACAGAGGCAACCACAACTTT-GAAAAAGTAAAC--TGCCCCTCTAAACAGAGGCACC
1 TCCTCTAAACAGAGGC-TCAACAACTTTCGAAAAA-TAAACAAAACTCCTCTAAACAGAGGCTCA
* * *
9968711 ACAAC-TTTGAAAAGTAAATTAC
64 ACAACTTTTGAAAAATGAATTGC
* * *
9968733 TCCTCTAAATAGAGGCACCACAACTT
1 TCCTCTAAACAGAGGCTCAACAACTT
9968759 AAAAAAATAA
Statistics
Matches: 159, Mismatches: 35, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
83 10 0.06
84 15 0.09
86 82 0.52
87 19 0.12
88 22 0.14
89 11 0.07
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (86 bp):
TCCTCTAAACAGAGGCTCAACAACTTTCGAAAAATAAACAAAACTCCTCTAAACAGAGGCTCAAC
AACTTTTGAAAAATGAATTGC
Found at i:9968663 original size:130 final size:131
Alignment explanation
Indices: 9968429--9968704 Score: 324
Period size: 130 Copynumber: 2.1 Consensus size: 131
9968419 TTTGATCAAA
* * * * * *
9968429 GCTCCTCTAAGCAAAAGCTCAATGACTTTGGAAAGATAAACAAAGTTCCTCTAATCAGAGGCTCA
1 GCTCCTCTAAACAGAAGCTCAATGACTTTGGAAAAATAAAAAAACTTCCTCTAAACAGAGGCTCA
* ** * * *
9968494 ACAACTTTCGAAAAATAAACAAAGCTCCTCTAAGTAGAGGC-TCAACAACTTTTGGAAAA-TGAA
66 ACAACTTTCGAAAAATAAACAAAGCTCCTATAAACAGAGGCAACAACAAC-TTTGAAAAAGTAAA
*
9968557 TT
130 CT
* *
9968559 GCTCCTCTAAACAGATGCTCAATGACTTTTGAAAAATAAATAAAACTT-CTCTAAACAGAGGCTC
1 GCTCCTCTAAACAGAAGCTCAATGACTTTGGAAAAATAAA-AAAACTTCCTCTAAACAGAGGCTC
** * * *
9968623 AATGACTTTTGAAAAATAAATAAAGCTCCTATAAACAGAGGCAACCACAACTTTGAAAAAGTAAA
65 AACAACTTTCGAAAAATAAACAAAGCTCCTATAAACAGAGGCAACAACAACTTTGAAAAAGTAAA
9968688 CT
130 CT
*
9968690 GCCCCTCTAAACAGA
1 GCTCCTCTAAACAGA
9968705 GGCACCACAA
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
130 93 0.76
131 29 0.24
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.24
Consensus pattern (131 bp):
GCTCCTCTAAACAGAAGCTCAATGACTTTGGAAAAATAAAAAAACTTCCTCTAAACAGAGGCTCA
ACAACTTTCGAAAAATAAACAAAGCTCCTATAAACAGAGGCAACAACAACTTTGAAAAAGTAAAC
T
Found at i:9968738 original size:41 final size:41
Alignment explanation
Indices: 9968475--9968817 Score: 229
Period size: 44 Copynumber: 8.0 Consensus size: 41
9968465 TAAACAAAGT
* * **
9968475 TCCTCTAATCAGAGGCTCAACAACTTTCGAAAAATAAACAAAGC
1 TCCTCTAAACAGAGGCACAACAACTTT-GAAAAATAAA-TTA-C
** * * * *
9968519 TCCTCTAAGTAGAGGCTCAACAACTTTTGGAAAATGAATTGC
1 TCCTCTAAACAGAGGCACAACAAC-TTTGAAAAATAAATTAC
* * ** *
9968561 TCCTCTAAACAGATGCTCAATGACTTTTGAAAAATAAATAAAAC
1 TCCTCTAAACAGAGGCACAACAAC-TTTGAAAAATAAAT--TAC
* * ** *
9968605 TTCTCTAAACAGAGGCTCAATGACTTTTGAAAAATAAATAAAGC
1 TCCTCTAAACAGAGGCACAACAAC-TTTGAAAAATAAAT-TA-C
* * * *
9968649 TCCTATAAACAGAGGCAACCACAACTTTGAAAAAGTAAACTGC
1 TCCTCTAAACAGAGGC-ACAACAACTTTGAAAAA-TAAATTAC
* * *
9968692 CCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTAC
1 TCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAATTAC
* * ** *
9968733 TCCTCTAAATAGAGGCACCACAACTTAAAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAATTAC
* * * *
9968774 TCATATAAATAGAGGCA-ATAGAACTTTGAAAAAATAAATTAC
1 TCCTCTAAACAGAGGCACA-ACAACTTTG-AAAAATAAATTAC
9968816 TC
1 TC
9968818 ATTGACAATC
Statistics
Matches: 246, Mismatches: 45, Indels: 18
0.80 0.15 0.06
Matches are distributed among these distances:
41 62 0.25
42 63 0.26
43 18 0.07
44 92 0.37
45 11 0.04
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (41 bp):
TCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAATTAC
Found at i:9968799 original size:82 final size:84
Alignment explanation
Indices: 9968630--9968817 Score: 209
Period size: 82 Copynumber: 2.2 Consensus size: 84
9968620 CTCAATGACT
* * * *
9968630 TTTGAAAAATAAATAAAGCTCCTATAAACAGAGGCAACCACAACTTTGAAAAAGTAAACTGCCCC
1 TTTGAAAAATAAAT-TA-CTCCTATAAACAGAGGCAACCACAACTTTAAAAAAATAAACTGCCCA
* *
9968695 TCTAAACAGAGGCACCACAAC
64 TATAAACAGAGGCAACACAAC
* * * * *
9968716 TTTGAAAAGTAAATTACTCCTCTAAATAGAGGC-ACCACAAC-TTAAAAAAATAAATTGCTCATA
1 TTTGAAAAATAAATTACTCCTATAAACAGAGGCAACCACAACTTTAAAAAAATAAACTGCCCATA
* * *
9968779 TAAATAGAGGCAATAGAAC
66 TAAACAGAGGCAACACAAC
9968798 TTTGAAAAAATAAATTACTC
1 TTTG-AAAAATAAATTACTC
9968818 ATTGACAATC
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
82 35 0.41
83 22 0.26
84 15 0.17
85 1 0.01
86 13 0.15
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (84 bp):
TTTGAAAAATAAATTACTCCTATAAACAGAGGCAACCACAACTTTAAAAAAATAAACTGCCCATA
TAAACAGAGGCAACACAAC
Found at i:9968819 original size:42 final size:42
Alignment explanation
Indices: 9968630--9968819 Score: 161
Period size: 41 Copynumber: 4.5 Consensus size: 42
9968620 CTCAATGACT
* * *
9968630 TTTG-AAAAATAAATAAAGCTCCTATAAACAGAGGCAACCACAAC
1 TTTGAAAAAATAAAT-TA-CTCATATAAATAGAGGCAA-CACAAC
* * * * * * * *
9968674 TTTGAAAAAGTAAACTGCCCCTCTAAACAGAGGCACCACAAC
1 TTTGAAAAAATAAATTACTCATATAAATAGAGGCAACACAAC
* * * *
9968716 TTTG-AAAAGTAAATTACTCCTCTAAATAGAGGCACCACAAC
1 TTTGAAAAAATAAATTACTCATATAAATAGAGGCAACACAAC
* * * *
9968757 -TTAAAAAAATAAATTGCTCATATAAATAGAGGCAATAGAAC
1 TTTGAAAAAATAAATTACTCATATAAATAGAGGCAACACAAC
9968798 TTTGAAAAAATAAATTACTCAT
1 TTTGAAAAAATAAATTACTCAT
9968820 TGACAATCAT
Statistics
Matches: 122, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
40 2 0.02
41 63 0.52
42 29 0.24
43 16 0.13
44 4 0.03
45 8 0.07
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.23
Consensus pattern (42 bp):
TTTGAAAAAATAAATTACTCATATAAATAGAGGCAACACAAC
Found at i:9969171 original size:43 final size:42
Alignment explanation
Indices: 9969118--9969199 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 42
9969108 TTTGGCAAAC
9969118 TTGGGATTCACATCCAAAAATCT-AAAGCTTTTCATTTGAATT
1 TTGGGATTCACATCC-AAAATCTCAAAGCTTTTCATTTGAATT
*
9969160 TTGGAGATTCACATCCAAAATTTCAAAGCTTTTCATTTGA
1 TTGG-GATTCACATCCAAAATCTCAAAGCTTTTCATTTGA
9969200 GTTCAAAGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 10 0.27
43 27 0.73
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (42 bp):
TTGGGATTCACATCCAAAATCTCAAAGCTTTTCATTTGAATT
Found at i:9969410 original size:22 final size:23
Alignment explanation
Indices: 9969383--9969441 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
9969373 GGTTTCACTC
9969383 CTCAAAAATTCTCATTTTGA-AA
1 CTCAAAAATTCTCATTTTGAGAA
* **
9969405 CTCAAAGATTCTCA-TTTGAGTT
1 CTCAAAAATTCTCATTTTGAGAA
9969427 CTCAAAAATTCTCAT
1 CTCAAAAATTCTCAT
9969442 CAAAATATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (23 bp):
CTCAAAAATTCTCATTTTGAGAA
Found at i:9970660 original size:15 final size:15
Alignment explanation
Indices: 9970636--9970672 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
9970626 TTTTTCTTTT
*
9970636 TCTTTC-TTTTTTCA
1 TCTTTCATTTTCTCA
9970650 TCTTTCATTTTCTCA
1 TCTTTCATTTTCTCA
9970665 TCTTTCAT
1 TCTTTCAT
9970673 CCATTGTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.11, C:0.24, G:0.00, T:0.65
Consensus pattern (15 bp):
TCTTTCATTTTCTCA
Found at i:9977354 original size:26 final size:25
Alignment explanation
Indices: 9977300--9977354 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
9977290 TTCACTTAGG
*
9977300 AATTTTATAAAAATTTACCATTTGA
1 AATTTTATAAAAATTTACCATTGGA
* *
9977325 AATTTT-TATAAATTTCATCATTGGA
1 AATTTTATAAAAATTT-ACCATTGGA
9977350 TAATT
1 -AATT
9977355 AACATTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 8 0.32
25 13 0.52
26 4 0.16
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (25 bp):
AATTTTATAAAAATTTACCATTGGA
Found at i:9977946 original size:22 final size:22
Alignment explanation
Indices: 9977918--9977959 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9977908 AAAATTTTCA
9977918 AAAAAAAAACTTCAAAAAATTG
1 AAAAAAAAACTTCAAAAAATTG
* *
9977940 AAAAAAAATCTTCTAAAAAT
1 AAAAAAAAACTTCAAAAAAT
9977960 CCTATACTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAAAAAAACTTCAAAAAATTG
Found at i:9978258 original size:52 final size:52
Alignment explanation
Indices: 9978201--9978351 Score: 148
Period size: 52 Copynumber: 2.8 Consensus size: 52
9978191 ATCAAGAAAA
9978201 AGATAAA-AAATAAAATAATAATAATAGATAAATAATAAAAAAATATATTAAT
1 AGATAAATAAATAAAATAATAATAATAGATAAA-AATAAAAAAATATATTAAT
*
9978253 AGATAAATAAA-AAAAGTAACAGATAA-ATGAT-AAAATAAAAAAATATATTAAT
1 AGATAAATAAATAAAA-TAATA-ATAATA-GATAAAAATAAAAAAATATATTAAT
* * * * *
9978305 AAATAATATTAATAATAATATTAATAAATAAACAAAAAATAAAAAAA
1 AGATAA-ATAAATAA-AATAATAAT-AATAGA-TAAAAATAAAAAAA
9978352 ATAAAAAATA
Statistics
Matches: 81, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
52 35 0.43
53 16 0.20
54 15 0.19
55 3 0.04
56 12 0.15
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (52 bp):
AGATAAATAAATAAAATAATAATAATAGATAAAAATAAAAAAATATATTAAT
Found at i:9978261 original size:8 final size:7
Alignment explanation
Indices: 9978203--9978368 Score: 50
Period size: 7 Copynumber: 23.6 Consensus size: 7
9978193 CAAGAAAAAG
*
9978203 ATAAAAA
1 ATAATAA
*
9978210 ATAAAATA
1 ATAATA-A
9978218 ATAAT-A
1 ATAATAA
9978224 ATAGATAA
1 ATA-ATAA
9978232 ATAAT-A
1 ATAATAA
9978238 A-AA-AA
1 ATAATAA
*
9978243 ATATATTA
1 ATA-ATAA
9978251 ATAGATAA
1 ATA-ATAA
9978259 ATAA-AA
1 ATAATAA
9978265 A-AAGTAA
1 ATAA-TAA
*
9978272 CA-GATAA
1 -ATAATAA
*
9978279 ATGATAAA
1 ATAAT-AA
9978287 ATAA-AA
1 ATAATAA
9978293 A-AATATA
1 ATAATA-A
*
9978300 TTAATAA
1 ATAATAA
9978307 ATAATATTA
1 ATAATA--A
9978316 ATAATAA
1 ATAATAA
9978323 TATTAATAA
1 -A-TAATAA
*
9978332 ATAAACAA
1 AT-AATAA
*
9978340 AAAATAA
1 ATAATAA
9978347 A-AA-AA
1 ATAATAA
*
9978352 ATAAAAA
1 ATAATAA
9978359 ATAA-AA
1 ATAATAA
9978365 ATAA
1 ATAA
9978369 AATGCAAATG
Statistics
Matches: 126, Mismatches: 11, Indels: 45
0.69 0.06 0.25
Matches are distributed among these distances:
5 11 0.09
6 25 0.20
7 40 0.32
8 37 0.29
9 13 0.10
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (7 bp):
ATAATAA
Found at i:9978308 original size:12 final size:13
Alignment explanation
Indices: 9978293--9978335 Score: 72
Period size: 12 Copynumber: 3.5 Consensus size: 13
9978283 TAAAATAAAA
9978293 AAAT-ATATTAAT
1 AAATAATATTAAT
9978305 AAATAATATTAAT
1 AAATAATATTAAT
9978318 -AATAATATTAAT
1 AAATAATATTAAT
9978330 AAATAA
1 AAATAA
9978336 ACAAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 16 0.55
13 13 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATAATATTAAT
Found at i:9978356 original size:77 final size:78
Alignment explanation
Indices: 9978197--9978370 Score: 176
Period size: 77 Copynumber: 2.2 Consensus size: 78
9978187 ATCAATCAAG
* * *
9978197 AAAAAGATAAAAAATAAAATAATAATAATAGATAAATAATAAAAAAATATATTAATAGATAAATA
1 AAAAA-AT-AAAAATAAAAAAATAATAATAGATAAATAATAAAAAAATATATTAATAAATAAACA
* * *
9978262 AAAAAAGTAACAGAT
64 AAAAAAGAAAAAAAT
** * * *
9978277 AAATGAT-AAAATAAAAAAAT-ATATTA-ATAAATAATATTAATAATAATATTAATAAATAAACA
1 AAAAAATAAAAATAAAAAAATAATAATAGATAAATAATA-AAAAAAT-ATATTAATAAATAAACA
9978339 AAAAATA-AAAAAAAT
64 AAAAA-AGAAAAAAAT
9978354 AAAAAATAAAAATAAAA
1 AAAAAATAAAAATAAAA
9978371 TGCAAATGGG
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
75 10 0.13
76 10 0.13
77 42 0.55
78 10 0.13
79 2 0.03
80 3 0.04
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (78 bp):
AAAAAATAAAAATAAAAAAATAATAATAGATAAATAATAAAAAAATATATTAATAAATAAACAAA
AAAAGAAAAAAAT
Found at i:9980724 original size:8 final size:8
Alignment explanation
Indices: 9980700--9980740 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
9980690 AATTTGGGGT
*
9980700 TTTTAGAA
1 TTTTAGGA
9980708 TTTT-GGA
1 TTTTAGGA
*
9980715 TTTTAAGA
1 TTTTAGGA
9980723 TTTT-GGA
1 TTTTAGGA
9980730 TTTTAGGA
1 TTTTAGGA
9980738 TTT
1 TTT
9980741 GGATTTAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
7 12 0.43
8 16 0.57
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (8 bp):
TTTTAGGA
Found at i:9980725 original size:15 final size:15
Alignment explanation
Indices: 9980707--9980762 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
9980697 GGTTTTTAGA
9980707 ATTTTGGATTTTAAG
1 ATTTTGGATTTTAAG
*
9980722 ATTTTGGATTTTAGG
1 ATTTTGGATTTTAAG
9980737 A-TTTGGA-TTTAAG
1 ATTTTGGATTTTAAG
**
9980750 GGTTTGGATTTTA
1 ATTTTGGATTTTA
9980763 TGGGGTTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 5 0.14
14 12 0.33
15 19 0.53
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (15 bp):
ATTTTGGATTTTAAG
Found at i:9980743 original size:14 final size:14
Alignment explanation
Indices: 9980709--9980762 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
9980699 TTTTTAGAAT
*
9980709 TTTGGATTTTAAGA
1 TTTGGATTTTAGGA
9980723 TTTTGGATTTTAGGA
1 -TTTGGATTTTAGGA
* *
9980738 TTTGGATTTAAGGG
1 TTTGGATTTTAGGA
9980752 TTTGGATTTTA
1 TTTGGATTTTA
9980763 TGGGGTTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
14 22 0.63
15 13 0.37
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (14 bp):
TTTGGATTTTAGGA
Found at i:9998903 original size:35 final size:35
Alignment explanation
Indices: 9998834--9998903 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
9998824 TGTATATGTC
* *
9998834 AAGTCAGTTATAGGTTTATGCCCATAAAACATTTG
1 AAGTCAGTTATAGATTTATGCCCAGAAAACATTTG
* * * *
9998869 AAGTCAGTTGTATATTTATGCCTAGAAAATATTTG
1 AAGTCAGTTATAGATTTATGCCCAGAAAACATTTG
9998904 GTTTATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (35 bp):
AAGTCAGTTATAGATTTATGCCCAGAAAACATTTG
Found at i:10002121 original size:13 final size:12
Alignment explanation
Indices: 10002094--10002165 Score: 58
Period size: 12 Copynumber: 6.0 Consensus size: 12
10002084 ACTTTTTAGC
* *
10002094 AACCATTTAGAA
1 AACCATTCAGCA
10002106 ACACCATTCAGC-
1 A-ACCATTCAGCA
*
10002118 AA-CATTCAGAA
1 AACCATTCAGCA
10002129 ACACCATTCAGCA
1 A-ACCATTCAGCA
*
10002142 AATCATTCAGCA
1 AACCATTCAGCA
* *
10002154 TACTATTCAGCA
1 AACCATTCAGCA
10002166 TACGATTTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
10 7 0.15
11 2 0.04
12 22 0.46
13 17 0.35
ACGTcount: A:0.42, C:0.28, G:0.08, T:0.22
Consensus pattern (12 bp):
AACCATTCAGCA
Found at i:10002128 original size:23 final size:24
Alignment explanation
Indices: 10002091--10002151 Score: 88
Period size: 23 Copynumber: 2.5 Consensus size: 24
10002081 CACACTTTTT
*
10002091 AGCAACCATTTAGAAACACCATTC
1 AGCAACCATTCAGAAACACCATTC
10002115 AGCAA-CATTCAGAAACACCATTC
1 AGCAACCATTCAGAAACACCATTC
*
10002138 AGCAAATCATTCAG
1 AGC-AACCATTCAG
10002152 CATACTATTC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 20 0.59
24 7 0.21
25 7 0.21
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.20
Consensus pattern (24 bp):
AGCAACCATTCAGAAACACCATTC
Found at i:10002161 original size:12 final size:12
Alignment explanation
Indices: 10002146--10002180 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
10002136 TCAGCAAATC
*
10002146 ATTCAGCATACT
1 ATTCAGCATACG
10002158 ATTCAGCATACG
1 ATTCAGCATACG
*
10002170 ATTTAGCATAC
1 ATTCAGCATAC
10002181 CAATATCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.31
Consensus pattern (12 bp):
ATTCAGCATACG
Found at i:10002866 original size:13 final size:13
Alignment explanation
Indices: 10002844--10002877 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
10002834 GTGTATTATG
10002844 CAAAAAATACCTT
1 CAAAAAATACCTT
*
10002857 CAATAAATACCTT
1 CAAAAAATACCTT
10002870 CAAAAAAT
1 CAAAAAAT
10002878 TATAACAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.24
Consensus pattern (13 bp):
CAAAAAATACCTT
Found at i:10003212 original size:188 final size:187
Alignment explanation
Indices: 10002898--10003512 Score: 747
Period size: 188 Copynumber: 3.3 Consensus size: 187
10002888 TATTAAATGC
* * * * *
10002898 GTTTTTCAGTAGAAAATACCTTTAATAATCCT-AAAA--TTTAAAAAAAAATTATAGAAGGTGTT
1 GTTTTTCAGTAGAAGACACATTTAATAATCCTCAAAATTTTTTAAAAAAAATTATAGAAGGCGTT
* * * *
10002960 TGCTATCAAAAAACACCTTTAATAATTATGTACAAAAAGTAAAATGAATTAGTGAAGGCATTTTC
66 TGTTATCAAAAAATACCTTTAATAATTATGTACAAAAATTAAAAAGAATTAGTGAAGGCATTTTC
* * * * *
10003025 CTAAAATAAACGCCTTCACTAACTATCTTAAAATTTGAGTATTGATATATTGAAGGT
131 CTAGAATAAACGCATTCATTAACCATCTTAAAATTTGAGTATTGGTATATTGAAGGT
* * *
10003082 GTTTTTCAGTAGAAGACGCATTTAATAATCCT-ATAATTTTTTTTAAAAAAAATTATAGAAGACG
1 GTTTTTCAGTAGAAGACACATTTAATAATCCTCA-AA-ATTTTTTAAAAAAAATTATAGAAGGCG
* * *
10003146 TTTGTTATAAAAAAATACCTTTAATAATTATGTACAAAAATTAAAACGAATTAGTGAAGCCATTT
64 TTTGTTATCAAAAAATACCTTTAATAATTATGTACAAAAATTAAAAAGAATTAGTGAAGGCATTT
* * *
10003211 TCCTAGAATAAACACATTCATTAACCATATTAAAATTTGAGTATTGGTATATTGAATGT
129 TCCTAGAATAAACGCATTCATTAACCATCTTAAAATTTGAGTATTGGTATATTGAAGGT
* * * *
10003270 GGTTTTCAGTAGAAGACACATTTAATAAT-CTCAAAATTTTTTAAAAGAAAATTATTGATGGCTT
1 GTTTTTCAGTAGAAGACACATTTAATAATCCTCAAAATTTTTTAAAA-AAAATTATAGAAGGCGT
** * * * * *
10003334 TTGTTATCAAAAAATATATTCAATAATTATGTACAAAATTTTAAAAAAAATTATTGAAGGTATTT
65 TTGTTATCAAAAAATACCTTTAATAATTATGTACAAAA-ATTAAAAAGAATTAGTGAAGGCATTT
* * * * *
10003399 TCTTAGAATAAACGCTTTCATTAACCGTCTTAAAATTTAAGTATTGGTATATTTAAGGT
129 TCCTAGAATAAACGCATTCATTAACCATCTTAAAATTTGAGTATTGGTATATTGAAGGT
* * * * *
10003458 ATTTTTCACTAGAAAACACTTTTAATAATCC-CAAAAATTTTTAGAAAAAAATTAT
1 GTTTTTCAGTAGAAGACACATTTAATAATCCTCAAAATTTTTTA-AAAAAAATTAT
10003513 TATATGTACA
Statistics
Matches: 369, Mismatches: 53, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
184 29 0.08
185 2 0.01
186 10 0.03
187 51 0.14
188 273 0.74
189 4 0.01
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (187 bp):
GTTTTTCAGTAGAAGACACATTTAATAATCCTCAAAATTTTTTAAAAAAAATTATAGAAGGCGTT
TGTTATCAAAAAATACCTTTAATAATTATGTACAAAAATTAAAAAGAATTAGTGAAGGCATTTTC
CTAGAATAAACGCATTCATTAACCATCTTAAAATTTGAGTATTGGTATATTGAAGGT
Found at i:10003646 original size:154 final size:153
Alignment explanation
Indices: 10003361--10003666 Score: 404
Period size: 154 Copynumber: 2.0 Consensus size: 153
10003351 ATTCAATAAT
* * *
10003361 TATGTACAAAATTTTAAAAAAAATTATTGAAGGTATTTTCTTAGAATAAACGCTTTCATTAACCG
1 TATGTACAAAACTTTAAAAAAAATTATTGAAGGTATTTTCTTAGAATAAACGCTTTCACTAACCA
* *** * * *
10003426 TCTTAAAATTTAAGTATTGGTATATTTAAGGTATTTTTCACTAGAAAACACTTTTAATAATCCCA
66 TCTTAAAATTTAAGTAGTAAAAAATTAAAGGTATTTTTCACTAGAAAACACTTTTAATAATACCA
10003491 AAAATTTTTAGAAA-AAAATTATTA
131 AAAA-TTTTA-AAAGAAAATTATTA
*
10003515 TATGTACAAAACTTTAAAAGAAATTATTGAAGGTATTTT-TCTAGAATAAACG-TCTTCACTAAC
1 TATGTACAAAACTTTAAAAAAAATTATTGAAGGTATTTTCT-TAGAATAAACGCT-TTCACTAAC
* * * *
10003578 CATCTTAAAATTTCAA-TAGTAAAAAATTAAAGGTGTTTTTCATTAGAAGACGCTTTTAATAATA
64 CATCTTAAAATTT-AAGTAGTAAAAAATTAAAGGTATTTTTCACTAGAAAACACTTTTAATAATA
10003642 CCAAAAATTTTAAAAGAAAATTATT
128 CCAAAAATTTTAAAAGAAAATTATT
10003667 GAATGCGTTT
Statistics
Matches: 133, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
152 3 0.02
153 16 0.12
154 112 0.84
155 2 0.02
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.37
Consensus pattern (153 bp):
TATGTACAAAACTTTAAAAAAAATTATTGAAGGTATTTTCTTAGAATAAACGCTTTCACTAACCA
TCTTAAAATTTAAGTAGTAAAAAATTAAAGGTATTTTTCACTAGAAAACACTTTTAATAATACCA
AAAATTTTAAAAGAAAATTATTA
Found at i:10011814 original size:33 final size:33
Alignment explanation
Indices: 10011749--10011815 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
10011739 AGCGTTTTAA
* * *
10011749 AGATATAAACACCCTTAATATAGTGGCATTTTT
1 AGATACAAACACCATTAATATAGTGACATTTTT
* * *
10011782 AGATACAAACGCCATTAATATTGTGACTTTTTT
1 AGATACAAACACCATTAATATAGTGACATTTTT
10011815 A
1 A
10011816 TGAAAATATC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (33 bp):
AGATACAAACACCATTAATATAGTGACATTTTT
Found at i:10012243 original size:12 final size:12
Alignment explanation
Indices: 10012223--10012252 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10012213 AAATCTTTTA
*
10012223 ATATATATATAT
1 ATATGTATATAT
10012235 ATATGTATATAT
1 ATATGTATATAT
10012247 ATATGT
1 ATATGT
10012253 TATCCTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:10020087 original size:3 final size:3
Alignment explanation
Indices: 10020079--10020174 Score: 61
Period size: 3 Copynumber: 31.3 Consensus size: 3
10020069 TATAGTATCA
* * * * *
10020079 TAT TAT TAT TTT TAC TAT TAT TGT TAT TAG TAT AAT ATAT GGTAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT --TAT TAT
* * * *
10020126 TAT TA- CATT TAT TAT TAT TAT TAC TGT TAT TAT TAT CAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10020171 TAT T
1 TAT T
10020175 TTTTATTTTT
Statistics
Matches: 69, Mismatches: 19, Indels: 10
0.70 0.19 0.10
Matches are distributed among these distances:
2 3 0.04
3 60 0.87
4 3 0.04
5 3 0.04
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:10020554 original size:20 final size:19
Alignment explanation
Indices: 10020510--10020547 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
10020500 TTCTAGGATC
10020510 AATTTGAGATTTGTGGGTA
1 AATTTGAGATTTGTGGGTA
10020529 AGATTTGAAGA-TTGTGGGT
1 A-ATTTG-AGATTTGTGGGT
10020548 TTAATTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 13 0.76
21 3 0.18
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.39
Consensus pattern (19 bp):
AATTTGAGATTTGTGGGTA
Found at i:10024922 original size:57 final size:57
Alignment explanation
Indices: 10024836--10024947 Score: 147
Period size: 57 Copynumber: 2.0 Consensus size: 57
10024826 CCAACACAAC
* *
10024836 AAAAAAAAGAAAAAAAAAAAGAGAAATTGATGGGGCAAAATGTCAATGTGCTCCATA
1 AAAAAAAAGAAAAAAAAAAAGAGAAATTGATGGGACAAAATGTCAAAGTGCTCCATA
* * *
10024893 AAAAAAAAGCAAAAGAAGAAAA-A-AAATTGATGGGATAAAATGTCAAAGTGTTCCA
1 AAAAAAAAG-AAAA-AAAAAAAGAGAAATTGATGGGACAAAATGTCAAAGTGCTCCA
10024948 CATGAAGAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 37 0.77
58 5 0.10
59 6 0.12
ACGTcount: A:0.57, C:0.08, G:0.19, T:0.16
Consensus pattern (57 bp):
AAAAAAAAGAAAAAAAAAAAGAGAAATTGATGGGACAAAATGTCAAAGTGCTCCATA
Found at i:10025192 original size:10 final size:10
Alignment explanation
Indices: 10025177--10025202 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10025167 GGGGAAAAAT
10025177 AAAAAATATG
1 AAAAAATATG
10025187 AAAAAATATG
1 AAAAAATATG
10025197 AAAAAA
1 AAAAAA
10025203 AAAAACAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (10 bp):
AAAAAATATG
Found at i:10025244 original size:26 final size:25
Alignment explanation
Indices: 10025197--10025245 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
10025187 AAAAAATATG
*
10025197 AAAAAAAAAAACAAACAGAAAAGCA
1 AAAAAAAAAAACAAACAAAAAAGCA
10025222 AAAAAAAAAAAGCAAGA-AAAAAAG
1 AAAAAAAAAAA-CAA-ACAAAAAAG
10025246 AAGAAGACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 9 0.43
27 1 0.05
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAACAAACAAAAAAGCA
Found at i:10025252 original size:14 final size:15
Alignment explanation
Indices: 10025215--10025244 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
10025205 AAACAAACAG
10025215 AAAAGCAA-AAAAAA
1 AAAAGCAAGAAAAAA
10025229 AAAAGCAAGAAAAAA
1 AAAAGCAAGAAAAAA
10025244 A
1 A
10025245 GAAGAAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAGCAAGAAAAAA
Found at i:10026334 original size:51 final size:51
Alignment explanation
Indices: 10026271--10026371 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
10026261 AATCTTTATG
* * * **
10026271 AATCTTGTATCTTTGTGAATATAGAACTTTTGTAAAACTTGGAGTCTTACA
1 AATCTTGCATCTTTATGAATATAGAACCTTTGTAAAACTCAGAGTCTTACA
* *
10026322 AATCTTGCATCTTTATGAATCTAGAACCTTTGTGAAACTCAGAGTCTTAC
1 AATCTTGCATCTTTATGAATATAGAACCTTTGTAAAACTCAGAGTCTTAC
10026372 GAACCTATGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (51 bp):
AATCTTGCATCTTTATGAATATAGAACCTTTGTAAAACTCAGAGTCTTACA
Found at i:10026434 original size:137 final size:137
Alignment explanation
Indices: 10026183--10026439 Score: 304
Period size: 137 Copynumber: 1.9 Consensus size: 137
10026173 ACGAACCTAA
* ** *
10026183 AAATCCTTGCATCTTTGCGAATATAGAACCTTTGCAAAACTCAAAGTCTTGTGAACCTTTATTTC
1 AAATCCTTGCATCTTTACGAATATAGAACCTTTGCAAAACTCAAAGTCTTACGAACCTATATTTC
* * * *
10026248 TTGTGAACCTGAAAATCTTTATGAATCTTGTATCTTTGTGAATATAGAACTTTTGTAAAACTTGG
66 TTGTGAACC-GAAAATCTTTATGAATCTAGCATCTTTGTAAATATAGAACCTTTGTAAAACTTGG
10026313 AGTCTTAC
130 AGTCTTAC
* * ** * *
10026321 AAAT-CTTGCATCTTTATGAATCTAGAACCTTTGTGAAACTCAGAGTCTTACGAACCTATGTTTC
1 AAATCCTTGCATCTTTACGAATATAGAACCTTTGCAAAACTCAAAGTCTTACGAACCTATATTTC
* * *
10026385 TTGTGAA-C-AAAATTTTTTTTGTGAATCTAGCATCTTTGTAAATCTAGAACCTTTG
66 TTGTGAACCGAAAA---TCTTTATGAATCTAGCATCTTTGTAAATATAGAACCTTTG
10026440 AGAAGTTCAG
Statistics
Matches: 99, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
134 4 0.04
136 1 0.01
137 90 0.91
138 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (137 bp):
AAATCCTTGCATCTTTACGAATATAGAACCTTTGCAAAACTCAAAGTCTTACGAACCTATATTTC
TTGTGAACCGAAAATCTTTATGAATCTAGCATCTTTGTAAATATAGAACCTTTGTAAAACTTGGA
GTCTTAC
Found at i:10026484 original size:16 final size:17
Alignment explanation
Indices: 10026452--10026496 Score: 74
Period size: 16 Copynumber: 2.7 Consensus size: 17
10026442 AAGTTCAGAG
10026452 TCTTGCAAATCTTTTTT
1 TCTTGCAAATCTTTTTT
10026469 TCTTGCAAAT-TTTTTT
1 TCTTGCAAATCTTTTTT
*
10026485 TCTTACAAATCT
1 TCTTGCAAATCT
10026497 GAAAGTCCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (17 bp):
TCTTGCAAATCTTTTTT
Found at i:10026668 original size:69 final size:69
Alignment explanation
Indices: 10026538--10026670 Score: 160
Period size: 69 Copynumber: 1.9 Consensus size: 69
10026528 ATCTAGAACC
** *
10026538 TTTACGAAACTTAAAATCTTACAAATCTTTCTTTCTTATGAATCTGAAAGTCTTTATGAACCTTA
1 TTTACGAAACTTAAAATCTTACAAATCTTTCTTTCTTACAAATCTGAAAGTCTTTACGAACCTTA
10026603 CACA
66 CACA
* *** * * *
10026607 TTTACGAAACTTGAAATCTTGTTAATCTTTCTTTCTTGCAAATTTGAAAGT-TCTTGCGAACCTT
1 TTTACGAAACTTAAAATCTTACAAATCTTTCTTTCTTACAAATCTGAAAGTCT-TTACGAACCTT
10026671 GCATCTTTGC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
68 1 0.02
69 52 0.98
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (69 bp):
TTTACGAAACTTAAAATCTTACAAATCTTTCTTTCTTACAAATCTGAAAGTCTTTACGAACCTTA
CACA
Found at i:10026763 original size:86 final size:86
Alignment explanation
Indices: 10026630--10026827 Score: 207
Period size: 86 Copynumber: 2.3 Consensus size: 86
10026620 AAATCTTGTT
* * * * *** * *
10026630 AATCTTTCTTTCTTGCAAATTTGAAAGTTCTTGCGAACCTTGCATCTTTGCAAATCTAAAACCTT
1 AATCTTTCTTTCTTGCAAATCTGAAAGTCCTTACAAACCTAAAATCTTTACAAATCTAAAACCTC
* *
10026695 TGCAAAACTTGGAATCTTACA
66 TACAAAACTTAGAATCTTACA
* * **
10026716 AATCTTTCTTTCTTGCGAATCTGAAAGTCCTTACAAATCTAAAATCTTTATGAATCTAAAACCTC
1 AATCTTTCTTTCTTGCAAATCTGAAAGTCCTTACAAACCTAAAATCTTTACAAATCTAAAACCTC
* ** *
10026781 TACGAAGTTTAGAATCTTGCA
66 TACAAAACTTAGAATCTTACA
* *
10026802 AATCTTTCATTCTTACAAATCTGAAA
1 AATCTTTCTTTCTTGCAAATCTGAAA
10026828 ACCTTTGCAA
Statistics
Matches: 90, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
86 90 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (86 bp):
AATCTTTCTTTCTTGCAAATCTGAAAGTCCTTACAAACCTAAAATCTTTACAAATCTAAAACCTC
TACAAAACTTAGAATCTTACA
Found at i:10027368 original size:120 final size:118
Alignment explanation
Indices: 10027004--10027417 Score: 359
Period size: 119 Copynumber: 3.5 Consensus size: 118
10026994 CACTCATTTT
* * * * * *
10027004 GATCTTGGTTCAATCCAGATCATTTCTTATGACTCGTGATTTCAT-TCTGGTCATTTATTTTGAT
1 GATCTTGGCTCAGTCCAGATCATTTCTTATGACT-GTGGTTTCATCTC-GATCATTTA-TTTCAA
* * * * * * * ** * ** **
10027068 C-TCGACTCAATCCTAGTCGTTTCATCTTTAACTCATAGTTTCATCTCGGTCATTC
63 CATCGACTCAGTCCTGGTCATTTCACCCTTGACTCATGGTTTTGTTTCAATCACCC
* * * * * *
10027123 GATCTTGGTTCAGTCCAAATCATTTTTTATGACTTGTGATTTCATCCCGATCATTTATTTTAACA
1 GATCTTGGCTCAGTCCAGATCATTTCTTATGAC-TGTGGTTTCATCTCGATCATTTATTTCAACA
* * *
10027188 TCGACTCAGTCTTGGTTATTTCACCCTTGACTCATGGTTTTGTTTCGATCACCC
65 TCGACTCAGTCCTGGTCATTTCACCCTTGACTCATGGTTTTGTTTCAATCACCC
* * *
10027242 AATCTTGGCTCAATCCAGATCATTTCTTATGACATATGGTTTCATCTCGATCATTTATTCTCAAC
1 GATCTTGGCTCAGTCCAGATCATTTCTTATGAC-TGTGGTTTCATCTCGATCATTTATT-TCAAC
* *** ** **
10027307 CTCGACTCAGTCCTGGTCACTTT-ATTTTTGACTTGTGGTTTTGTCTT-AATCACTT
64 ATCGACTCAGTCCTGGTCA-TTTCACCCTTGACTCATGGTTTTGT-TTCAATCACCC
10027362 GATCTTGGCTCAGTCCAGATCATTTCTTATGACTCGTGGTTTCATCTCGATCATTT
1 GATCTTGGCTCAGTCCAGATCATTTCTTATGACT-GTGGTTTCATCTCGATCATTT
10027418 TTGCTCATTG
Statistics
Matches: 242, Mismatches: 46, Indels: 13
0.80 0.15 0.04
Matches are distributed among these distances:
118 5 0.02
119 138 0.57
120 94 0.39
121 5 0.02
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (118 bp):
GATCTTGGCTCAGTCCAGATCATTTCTTATGACTGTGGTTTCATCTCGATCATTTATTTCAACAT
CGACTCAGTCCTGGTCATTTCACCCTTGACTCATGGTTTTGTTTCAATCACCC
Found at i:10027665 original size:3 final size:3
Alignment explanation
Indices: 10027659--10027693 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
10027649 TCACATTTTT
* *
10027659 TTA TTA TTT TTA CTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10027694 TATTCTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10027670 original size:9 final size:9
Alignment explanation
Indices: 10027656--10027694 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
10027646 ATATCACATT
10027656 TTTTTATTA
1 TTTTTATTA
*
10027665 TTTTTACTA
1 TTTTTATTA
*
10027674 TTATTATTA
1 TTTTTATTA
*
10027683 TTATTATTA
1 TTTTTATTA
10027692 TTT
1 TTT
10027695 ATTCTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTTATTA
Found at i:10028219 original size:31 final size:31
Alignment explanation
Indices: 10028177--10028259 Score: 112
Period size: 31 Copynumber: 2.6 Consensus size: 31
10028167 GTTGAATGTT
* **
10028177 TGAATTATTTGATGAATTTTTTGGTGGGATA
1 TGAATTTTTTGATGAATTTTTTGGTGAAATA
*
10028208 TGAATTTTTTGATGAGTTTTTTGGTGAAATA
1 TGAATTTTTTGATGAATTTTTTGGTGAAATA
*
10028239 TGAATTTTTCGATGGAATTTT
1 TGAATTTTTTGAT-GAATTTT
10028260 CTATAAACCG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
31 39 0.87
32 6 0.13
ACGTcount: A:0.25, C:0.01, G:0.23, T:0.51
Consensus pattern (31 bp):
TGAATTTTTTGATGAATTTTTTGGTGAAATA
Found at i:10028584 original size:19 final size:19
Alignment explanation
Indices: 10028562--10028598 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10028552 TTAACCCTTT
*
10028562 TTATTCTTTTATTTTTATA
1 TTATTCTTTTAGTTTTATA
*
10028581 TTATTTTTTTAGTTTTAT
1 TTATTCTTTTAGTTTTAT
10028599 TAAAATATAT
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:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (19 bp):
TTATTCTTTTAGTTTTATA
Found at i:10035185 original size:17 final size:17
Alignment explanation
Indices: 10035163--10035196 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10035153 GAGAACCATG
*
10035163 GCTGCTGCTTGCTGCTT
1 GCTGCTGCTTACTGCTT
10035180 GCTGCTGCTTACTGCTT
1 GCTGCTGCTTACTGCTT
10035197 CTTTGTTGTA
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:0.03, C:0.29, G:0.26, T:0.41
Consensus pattern (17 bp):
GCTGCTGCTTACTGCTT
Found at i:10035290 original size:32 final size:32
Alignment explanation
Indices: 10035254--10035318 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
10035244 AAAAAAATTC
10035254 AAAGCCCACAAAATCCATCCAAAC-ATCATAAA
1 AAAGCCCACAAAATCCATCCAAACAAT-ATAAA
* *
10035286 AAAGCCCACAAAATCCTTCTAAACAATATAAA
1 AAAGCCCACAAAATCCATCCAAACAATATAAA
10035318 A
1 A
10035319 GACTCATGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 28 0.93
33 2 0.07
ACGTcount: A:0.54, C:0.28, G:0.03, T:0.15
Consensus pattern (32 bp):
AAAGCCCACAAAATCCATCCAAACAATATAAA
Found at i:10043874 original size:19 final size:19
Alignment explanation
Indices: 10043850--10043888 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
10043840 ACGTGATCGT
10043850 GTCAAATAAAAAATGTAAC
1 GTCAAATAAAAAATGTAAC
10043869 GTCAAATAAAAAATGTAAC
1 GTCAAATAAAAAATGTAAC
10043888 G
1 G
10043889 CCTGATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.10, G:0.13, T:0.21
Consensus pattern (19 bp):
GTCAAATAAAAAATGTAAC
Found at i:10056812 original size:245 final size:234
Alignment explanation
Indices: 10056422--10056943 Score: 593
Period size: 245 Copynumber: 2.2 Consensus size: 234
10056412 TAAATATATA
*
10056422 TATATATATATATAAGAAAAATAGTTAAAAATTTAAAAAATAAATTGATAATGTAAACAAGTGAG
1 TATATATATATA-AAG-AAAATAGTTAAAAA-TTAAAAAATAAATTGATAATGTAAACAAGAGAG
* * * * *
10056487 AAACATAAAATTAGTATCATTTGGTGTAAAATAAGTAGGAAGTGTTGCAAAATACTAAGAAAGAG
63 AAACATAAAATTAGTATCATTTGGCGTAAAATAAGTAAGAAGTGTTACAAAACACTAAAAAAGAG
* *
10056552 CTACAACAATTTTAAACGTAATGTAAAG-TAAAAACAATCATAAAAAAATATATATATTATTATA
128 CTACAACAATTTTAAACGTAATG-AAAGATAAAAACAACCAT--AAAAATATAT-TATT-GTA-A
* * * *
10056616 TTATAAATAATTATAATGGCAATGTAAAATTTTAATTAATTTTTATTTTT
187 -GATAAATAATTATAATGGCAATGTAAAATTTTAACTAATTATTA-CTTT
* *
10056666 GTATATATATATAAAGAAAATAGCTAAAAATTAAAAAATAAATTGGTAATGTAAACAAAAGAGAA
1 -TATATATATATAAAGAAAATAGTTAAAAATTAAAAAATAAATTGATAATGTAAAC--AAGAG-A
* * * * *
10056731 GAAATATAAAATTAGTATTATTTGGCGTAAAAT-AGATAAGAAGTGTTATAACACATTAAAAAAG
62 GAAACATAAAATTAGTATCATTTGGCGTAAAATAAG-TAAGAAGTGTTACAAAACACTAAAAAAG
* ** * * *
10056795 AGTTATGATAATTTTAAACGTAATGGAAGATAAGAACAACCATAAAAATATATTATTGTAAGATA
126 AGCTACAACAATTTTAAACGTAATGAAAGATAAAAACAACCATAAAAATATATTATTGTAAGATA
* **
10056860 AATAATTGTGTTGGCAATGTAAAATTTTAACTAATTATTACTTT
191 AATAATTATAATGGCAATGTAAAATTTTAACTAATTATTACTTT
* * *
10056904 TA-A-ATATATAAGGAAAATAGTTAAAAATTGAAAAACAAAT
1 TATATATATATAAAGAAAATAGTTAAAAATTAAAAAATAAAT
10056944 AGAAAAACAT
Statistics
Matches: 240, Mismatches: 32, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
235 33 0.14
236 1 0.00
237 2 0.01
238 3 0.01
239 38 0.16
240 1 0.00
241 2 0.01
242 29 0.12
243 23 0.10
244 12 0.05
245 96 0.40
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (234 bp):
TATATATATATAAAGAAAATAGTTAAAAATTAAAAAATAAATTGATAATGTAAACAAGAGAGAAA
CATAAAATTAGTATCATTTGGCGTAAAATAAGTAAGAAGTGTTACAAAACACTAAAAAAGAGCTA
CAACAATTTTAAACGTAATGAAAGATAAAAACAACCATAAAAATATATTATTGTAAGATAAATAA
TTATAATGGCAATGTAAAATTTTAACTAATTATTACTTT
Found at i:10056957 original size:19 final size:20
Alignment explanation
Indices: 10056935--10056977 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
10056925 TAAAAATTGA
10056935 AAAACAAAT-AGAAAAA-CAT
1 AAAA-AAATGAGAAAAAGCAT
*
10056954 AAAAAAGTGAGAAAAAGCAT
1 AAAAAAATGAGAAAAAGCAT
10056974 AAAA
1 AAAA
10056978 GTAGAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 11 0.52
20 7 0.33
ACGTcount: A:0.72, C:0.07, G:0.12, T:0.09
Consensus pattern (20 bp):
AAAAAAATGAGAAAAAGCAT
Found at i:10057440 original size:34 final size:34
Alignment explanation
Indices: 10057402--10057475 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
10057392 CGTCGCCAAC
* *
10057402 TTAGCACCATTTGCAGTTAAAAATGCCGTTAAAT
1 TTAGCAACATTTGCAGTTAAAAATGCCATTAAAT
* * *
10057436 TTAGCAACATTTGTATTTAAAAATGCTATTAAAT
1 TTAGCAACATTTGCAGTTAAAAATGCCATTAAAT
10057470 TTAGCA
1 TTAGCA
10057476 GCGTTTTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (34 bp):
TTAGCAACATTTGCAGTTAAAAATGCCATTAAAT
Found at i:10068036 original size:120 final size:119
Alignment explanation
Indices: 10067698--10068160 Score: 475
Period size: 122 Copynumber: 3.8 Consensus size: 119
10067688 ATGCTTCATG
* * * * * * *
10067698 GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATGATAACTTCAAAAAATGTTTTTTTTTTTCG-A
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATGAAAATTTTAAAAAA--TATATATTTTT-GAA
* *
10067762 GAAAAAGTTGAAAGTAAAGTATCAATTTTCCTTGAATATAAAGTTTTCAAAAGATTTTTTTTTA
63 G-AAAAGTT----G-AAAGTATCAATTTTCCTTGAACATAAAGTTTTCAAAAGA-TTTTTTTGA
* * * * * *
10067826 GGAAAGTTGAAAGAATCAATTTTCCCTGAAAAATGAAAA-TTTAAAAAAAAAAAATGCTTTTGAA
1 GAAAAGTTGAAAGTATCAATTTT-CCTTAAAAATGAAAATTTTAAAAAATATATAT--TTTTGAA
* *
10067890 GAAAAGTTAAAAGTATCAATTTTCCTTGAACATAAAGTTCTCAAAAGATTTTTTTGAA
63 GAAAAGTTGAAAGTATCAATTTTCCTTGAACATAAAGTTTTCAAAAGATTTTTTTG-A
* *
10067948 GAAAAGTTGAAAGTATCAATTTT-TTTAAAAAATGAAAATTTTAAAAAATATATATTTTTGAGGA
1 GAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATGAAAATTTTAAAAAATATATATTTTTGAAGA
* * *
10068012 AAAGTTGAAAGTATTAATTTTCCTTGAAGATAAAATTTTCAAAAGATATTTTTTTGA
65 AAAGTTGAAAGTATCAATTTTCCTTGAACATAAAGTTTTCAAAAG--ATTTTTTTGA
* * * * * *
10068069 GAAAAAGTTGAGAGTATCAATTTTCCTTAAAAATAAAAATTTTTAAAAATATATTTTTTTAAATA
1 G-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATGAAAATTTTAAAAAATATATATTTTTGAAGA
*
10068134 AAAGTTGAAA-TATCAATTTTTCTTGAA
65 AAAGTTGAAAGTATCAATTTTCCTTGAA
10068161 TAAAGGGGAT
Statistics
Matches: 285, Mismatches: 39, Indels: 29
0.81 0.11 0.08
Matches are distributed among these distances:
120 49 0.17
121 35 0.12
122 143 0.50
123 2 0.01
126 1 0.00
127 8 0.03
128 35 0.12
129 12 0.04
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (119 bp):
GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATGAAAATTTTAAAAAATATATATTTTTGAAGAA
AAGTTGAAAGTATCAATTTTCCTTGAACATAAAGTTTTCAAAAGATTTTTTTGA
Found at i:10068155 original size:62 final size:61
Alignment explanation
Indices: 10067698--10068153 Score: 304
Period size: 62 Copynumber: 7.4 Consensus size: 61
10067688 ATGCTTCATG
* * * * * * **
10067698 GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATGATAACTTCAAAAAATGTTTTTTTTTTTCGA
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTTAAAAAA--TATATTTTTTTAAA
* * * *
10067762 GAAAAAGTTGAAAGTAAAGTATCAATTTTCCTTGAATATAAAGTTTTCAAAAGAT-T-TTTTTTT
1 G-AAAAGTT----G-AAAGTATCAATTTTCCTTAAAAATAAAATTTT-AAAAAATATATTTTTTT
10067825 --A
59 AAA
* * * * * * ** *
10067826 GGAAAGTTGAAAGAATCAATTTTCCCTGAAAAATGAAAATTTAAAAAAAAAAAATGCTTTTGAA
1 GAAAAGTTGAAAGTATCAATTTT-CCTTAAAAAT-AAAATTT-TAAAAAATATATTTTTTTAAA
* * * * * * * *
10067890 GAAAAGTTAAAAGTATCAATTTTCCTTGAACATAAAGTTCT--CAAA-AGATTTTTTTGAA
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTAAAAAATATATTTTTTTAAA
* * * *
10067948 GAAAAGTTGAAAGTATCAATTTT-TTTAAAAAATGAAAATTTTAAAAAATATATATTTTTGAG
1 GAAAAGTTGAAAGTATCAATTTTCCTT-AAAAAT-AAAATTTTAAAAAATATATTTTTTTAAA
* * * * * *
10068010 GAAAAGTTGAAAGTATTAATTTTCCTTGAAGATAAAATTTT-CAAAAGATATTTTTTT-GA
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTAAAAAATATATTTTTTTAAA
* *
10068069 GAAAAAGTTGAGAGTATCAATTTTCCTTAAAAATAAAAATTTTTAAAAATATATTTTTTTAAA
1 G-AAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTTAAAAAATATATTTTTTTAAA
*
10068132 TAAAAGTTGAAA-TATCAATTTT
1 GAAAAGTTGAAAGTATCAATTTT
10068154 TCTTGAATAA
Statistics
Matches: 307, Mismatches: 61, Indels: 51
0.73 0.15 0.12
Matches are distributed among these distances:
57 2 0.01
58 49 0.16
59 18 0.06
60 52 0.17
61 29 0.09
62 70 0.23
63 16 0.05
64 24 0.08
65 7 0.02
66 7 0.02
67 1 0.00
68 1 0.00
69 5 0.02
70 26 0.08
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (61 bp):
GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTAAAAAATATATTTTTTTAAA
Found at i:10072505 original size:27 final size:27
Alignment explanation
Indices: 10072474--10072525 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
10072464 ATATCTAAGT
*
10072474 TAATCTGGTTGGTTACATATCATATTC
1 TAATCTGGTTAGTTACATATCATATTC
*
10072501 TAATCTGGTTAGTTGCATATCATAT
1 TAATCTGGTTAGTTACATATCATAT
10072526 GTATTTTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.44
Consensus pattern (27 bp):
TAATCTGGTTAGTTACATATCATATTC
Found at i:10079093 original size:28 final size:28
Alignment explanation
Indices: 10079057--10079111 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
10079047 CAATGATAAT
*
10079057 TTAAAATAA-ATAAAACCTTATATATTTA
1 TTAAAATAATATAAAA-CTAATATATTTA
* *
10079085 TTAACATAATATATAACTAATATATTT
1 TTAAAATAATATAAAACTAATATATTT
10079112 TATATTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (28 bp):
TTAAAATAATATAAAACTAATATATTTA
Found at i:10079626 original size:28 final size:28
Alignment explanation
Indices: 10079590--10079646 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
10079580 CAATGATAAT
10079590 TTAAAATAA-ATAAAAACTTATATATTTA
1 TTAAAATAATATAAAAA-TTATATATTTA
* * *
10079618 TTAACATAATATAACAATTTTATATTTA
1 TTAAAATAATATAAAAATTATATATTTA
10079646 T
1 T
10079647 ATCTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (28 bp):
TTAAAATAATATAAAAATTATATATTTA
Found at i:10079921 original size:18 final size:18
Alignment explanation
Indices: 10079900--10079934 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10079890 TATTTTTTTT
*
10079900 ATTTTGTATATTTATATA
1 ATTTTGTATAATTATATA
*
10079918 ATTTTTTATAATTATAT
1 ATTTTGTATAATTATAT
10079935 TTTAATATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
ATTTTGTATAATTATATA
Found at i:10080011 original size:20 final size:20
Alignment explanation
Indices: 10079967--10080025 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 20
10079957 AATATATTAG
*
10079967 TTTTAATTAATCTAAAATAATAA
1 TTTTAATT-AT-T-AAATAAAAA
*
10079990 -TTTATATTATTTAATAAAAA
1 TTTTA-ATTATTAAATAAAAA
10080010 TTTTAATTATTAAATA
1 TTTTAATTATTAAATA
10080026 TATATAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 17 0.55
21 5 0.16
22 6 0.19
23 3 0.10
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTAATTATTAAATAAAAA
Found at i:10081012 original size:10 final size:10
Alignment explanation
Indices: 10080982--10081011 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10080972 ATTTGAAGTC
10080982 TGTTTTTTTT
1 TGTTTTTTTT
10080992 TGTTTTTTTT
1 TGTTTTTTTT
10081002 T-TTTTTTTT
1 TGTTTTTTTT
10081011 T
1 T
10081012 TCTGTGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TGTTTTTTTT
Found at i:10089042 original size:18 final size:20
Alignment explanation
Indices: 10089003--10089045 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
10088993 TGATCAAAAA
10089003 TAACTTAAGGACTCATTAAAT
1 TAACTTAAGGACTCA-TAAAT
10089024 TAACTTAAGGA-TC-TAAAT
1 TAACTTAAGGACTCATAAAT
10089042 TAAC
1 TAAC
10089046 ACAAGTCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
20 2 0.09
21 11 0.50
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (20 bp):
TAACTTAAGGACTCATAAAT
Found at i:10097810 original size:35 final size:32
Alignment explanation
Indices: 10097755--10097820 Score: 80
Period size: 35 Copynumber: 2.0 Consensus size: 32
10097745 TATTTTATTT
*
10097755 AAATTTAATAATTCTTATATTTACGTATTATATA
1 AAATTTAATAATTCTAATATTTA--TATTATATA
10097789 AAATATTAATAATT-TAAATATTTATATTATAT
1 AAAT-TTAATAATTCT-AATATTTATATTATAT
10097821 TTTATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 8 0.28
34 5 0.17
35 16 0.55
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (32 bp):
AAATTTAATAATTCTAATATTTATATTATATA
Found at i:10097907 original size:24 final size:24
Alignment explanation
Indices: 10097880--10097933 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
10097870 TTATTAATCT
10097880 TATT-TTTATTAAAATTTTAAATTA
1 TATTATTT-TTAAAATTTTAAATTA
* *
10097904 TATTATTTTTATAATTTTATATTA
1 TATTATTTTTAAAATTTTAAATTA
*
10097928 TTTTAT
1 TATTAT
10097934 ATAGTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TATTATTTTTAAAATTTTAAATTA
Found at i:10097932 original size:10 final size:10
Alignment explanation
Indices: 10097901--10097935 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
10097891 AAATTTTAAA
10097901 TTATATTATT
1 TTATATTATT
*
10097911 TT-TATAATT
1 TTATATTATT
10097920 TTATATTATT
1 TTATATTATT
10097930 TTATAT
1 TTATAT
10097936 AGTATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATATTATT
Found at i:10098397 original size:25 final size:25
Alignment explanation
Indices: 10098369--10098422 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
10098359 ATATAATATT
* *
10098369 AATTTTAAATTT-AAATTTGATTTTA
1 AATTTAAAATTTAAAAATTGA-TTTA
10098394 AATTTAAAATTTAAAAATTGATTTA
1 AATTTAAAATTTAAAAATTGATTTA
10098419 AATT
1 AATT
10098423 CAATCAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
AATTTAAAATTTAAAAATTGATTTA
Found at i:10098602 original size:17 final size:17
Alignment explanation
Indices: 10098564--10098608 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
10098554 GTGCTCAAGT
*
10098564 TTAAAATATTTTATTAA
1 TTAAAATATTTTATAAA
10098581 TTAAAATATTTTA-AAA
1 TTAAAATATTTTATAAA
*
10098597 TATAAAAAATTT
1 T-TAAAATATTT
10098609 GATTAAACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 22 0.88
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAAATATTTTATAAA
Found at i:10105429 original size:8 final size:8
Alignment explanation
Indices: 10105416--10105499 Score: 65
Period size: 8 Copynumber: 11.1 Consensus size: 8
10105406 TCAACAATGG
10105416 ATGAAAAA
1 ATGAAAAA
10105424 ATGAAAAA
1 ATGAAAAA
*
10105432 A--AGAAA
1 ATGAAAAA
**
10105438 A-GAAGATG
1 ATGAA-AAA
10105446 ATGAAAAA
1 ATGAAAAA
10105454 AT-AAAAA
1 ATGAAAAA
10105461 ATGAAACAA
1 ATGAAA-AA
*
10105470 AT-AAAGA
1 ATGAAAAA
10105477 A--AAAAA
1 ATGAAAAA
10105483 ATGAAAAA
1 ATGAAAAA
10105491 ATGAAAAA
1 ATGAAAAA
10105499 A
1 A
10105500 CTATTCAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
6 10 0.16
7 10 0.16
8 34 0.56
9 7 0.11
ACGTcount: A:0.75, C:0.01, G:0.13, T:0.11
Consensus pattern (8 bp):
ATGAAAAA
Found at i:10107337 original size:41 final size:42
Alignment explanation
Indices: 10107265--10107346 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 42
10107255 GATTGTCAAT
* * *
10107265 GAGCAATTTATTTTTTCAAAGTTTCGTTACCTCTGTTTAGAG
1 GAGCAATTTATCTTTCCAAAGTTTCGGTACCTCTGTTTAGAG
10107307 GAGCAATTTA-CTTTCCAAAGTTGT-GGTACCTCTGTTTAGA
1 GAGCAATTTATCTTTCCAAAGTT-TCGGTACCTCTGTTTAGA
10107347 AGAGAAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 25 0.69
42 11 0.31
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.41
Consensus pattern (42 bp):
GAGCAATTTATCTTTCCAAAGTTTCGGTACCTCTGTTTAGAG
Found at i:10107492 original size:42 final size:42
Alignment explanation
Indices: 10107433--10107524 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
10107423 CATTTATTTC
10107433 AGAGGAGCCATTTA-TTTTTCTAAAATCGTTAAGCCTCTGATT
1 AGAGGAGCCATTTATTTTTTC-AAAATCGTTAAGCCTCTGATT
*
10107475 AGAGGAGCCATTTATTTTTTCAAAATCGTTGAGCCTCTGATT
1 AGAGGAGCCATTTATTTTTTCAAAATCGTTAAGCCTCTGATT
*
10107517 AGAAGAGC
1 AGAGGAGC
10107525 TTTGTTTATG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
42 41 0.87
43 6 0.13
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (42 bp):
AGAGGAGCCATTTATTTTTTCAAAATCGTTAAGCCTCTGATT
Done.