Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 126 of 130
Found at i:25529395 original size:31 final size:28
Alignment explanation
Indices: 25529389--25529457 Score: 63
Period size: 27 Copynumber: 2.5 Consensus size: 28
25529379 ATATGTTATA
*
25529389 ATTTATA-TTTATATAAAAATATAATTT
1 ATTTATATTTTATATAAAATTATAATTT
* * * *
25529416 ATTTATTTTTTAT-TAAAATTTTAAATA
1 ATTTATATTTTATATAAAATTATAATTT
25529443 ATCTTAT-TTTTATAT
1 AT-TTATATTTTATAT
25529458 TTTTATTTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
27 24 0.71
28 10 0.29
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (28 bp):
ATTTATATTTTATATAAAATTATAATTT
Found at i:25530798 original size:39 final size:38
Alignment explanation
Indices: 25530709--25530798 Score: 87
Period size: 39 Copynumber: 2.4 Consensus size: 38
25530699 ATAATAAAAA
* *
25530709 ATATTAAAAA-AATTAATATTTTTTATTTATCATATTT
1 ATATAAAAAATAATTAATATTTTTTATTTATCATATAT
**
25530746 ATATAAATTATAATATAATAATTCTTTTATTT-T-ATATAT
1 ATATAAAAAATAAT-TAAT-ATT-TTTTATTTATCATATAT
*
25530785 ATTTAAAAAATAAT
1 ATATAAAAAATAAT
25530799 GTTGAACTGG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
37 7 0.17
38 3 0.07
39 20 0.48
40 4 0.10
41 8 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (38 bp):
ATATAAAAAATAATTAATATTTTTTATTTATCATATAT
Found at i:25540918 original size:19 final size:20
Alignment explanation
Indices: 25540873--25540920 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
25540863 AAAAATATAT
25540873 TTTAATTAAAATAATAAAAA
1 TTTAATTAAAATAATAAAAA
* * *
25540893 TAT-ATTAAAA-ATTTAAAA
1 TTTAATTAAAATAATAAAAA
25540911 TTTAATTAAA
1 TTTAATTAAA
25540921 CTTATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 8 0.35
19 13 0.57
20 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTAATTAAAATAATAAAAA
Found at i:25555231 original size:22 final size:23
Alignment explanation
Indices: 25555197--25555239 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
25555187 ATATAATTAA
25555197 TTAAATTGATAAAAATTAAATAT
1 TTAAATTGATAAAAATTAAATAT
* *
25555220 TTAATTTG-TAAAATTTAAAT
1 TTAAATTGATAAAAATTAAAT
25555240 TCAATTTTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (23 bp):
TTAAATTGATAAAAATTAAATAT
Found at i:25556454 original size:4 final size:4
Alignment explanation
Indices: 25556445--25556481 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
25556435 ATTAATGTGT
25556445 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
25556482 GTATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:25556499 original size:30 final size:31
Alignment explanation
Indices: 25556479--25556565 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 31
25556469 TATGTATGTA
* *
25556479 TGTGTATATATATACATATGTATGTACGTGTG
1 TGTGTATATATATATATATGTATGTA-GTGTA
*
25556511 TGTGTATATATATAAATATATTTATGTATATGTGTA
1 TGTGTATATATAT--ATATATGTATG--TA-GTGTA
25556547 TGTGTATATATATATATAT
1 TGTGTATATATATATATAT
25556566 ACATAATGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
32 13 0.28
34 15 0.32
36 19 0.40
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.48
Consensus pattern (31 bp):
TGTGTATATATATATATATGTATGTAGTGTA
Found at i:25558888 original size:6 final size:6
Alignment explanation
Indices: 25558877--25558906 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
25558867 ACACTACTCT
25558877 ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC
1 ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC
25558907 TACAACGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (6 bp):
ATCTTC
Found at i:25564214 original size:7 final size:7
Alignment explanation
Indices: 25564202--25564230 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
25564192 ATCTTTATTT
25564202 CAATCCA
1 CAATCCA
25564209 CAATCCA
1 CAATCCA
25564216 CAATCCA
1 CAATCCA
25564223 CAATCCA
1 CAATCCA
25564230 C
1 C
25564231 CAGATTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.45, G:0.00, T:0.14
Consensus pattern (7 bp):
CAATCCA
Found at i:25569552 original size:27 final size:27
Alignment explanation
Indices: 25569522--25569573 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
25569512 TGATGATACC
*
25569522 TTATATGTAACACAAACGTAAGTTACT
1 TTATATGTAACACAAAAGTAAGTTACT
25569549 TTATATGTAACACAAAAGTAAGTTA
1 TTATATGTAACACAAAAGTAAGTTA
25569574 AAGGCATGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (27 bp):
TTATATGTAACACAAAAGTAAGTTACT
Found at i:25574891 original size:30 final size:30
Alignment explanation
Indices: 25574846--25574907 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
25574836 AGTTAAAAAG
* * *
25574846 CAAAGTTATTTTTATTAATCTTATTAAATT
1 CAAAATTAATTTTATTAATCTTATCAAATT
25574876 CAAAATTAATTTTATTAATCTTATCAAATT
1 CAAAATTAATTTTATTAATCTTATCAAATT
25574906 CA
1 CA
25574908 TACCTCTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (30 bp):
CAAAATTAATTTTATTAATCTTATCAAATT
Found at i:25577377 original size:112 final size:113
Alignment explanation
Indices: 25577169--25577393 Score: 389
Period size: 112 Copynumber: 2.0 Consensus size: 113
25577159 GAGTCCAGGG
* * *
25577169 CTGAATTAAGGTACTAAAAATGGATCCTGCTACCCCTAACATAACTGATAAGAAGTTAAACAAAG
1 CTGAATTAAGGTACTAAAAATGGATACTACTACCCCTAACATAACTGATAAGAAGCTAAACAAAG
*
25577234 ACTAGAGTCTTGAACTTGATATAATGTGCTTTGCAAATTCAAAATAAA
66 ACTAGAGTCTTGAACTTGATATAATGCGCTTTGCAAATTCAAAATAAA
* *
25577282 CTGAATTAA-GTACTAAAAATGGATACTACTATCCCTAACATAACTGATAATAAGCTAAACAAAG
1 CTGAATTAAGGTACTAAAAATGGATACTACTACCCCTAACATAACTGATAAGAAGCTAAACAAAG
25577346 ACTAGAGTCTTGAACTTGATATAATGCGCTTTGCAAATTCAAAATAAA
66 ACTAGAGTCTTGAACTTGATATAATGCGCTTTGCAAATTCAAAATAAA
25577394 ACTACCTTTC
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
112 97 0.92
113 9 0.08
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (113 bp):
CTGAATTAAGGTACTAAAAATGGATACTACTACCCCTAACATAACTGATAAGAAGCTAAACAAAG
ACTAGAGTCTTGAACTTGATATAATGCGCTTTGCAAATTCAAAATAAA
Found at i:25584442 original size:3 final size:3
Alignment explanation
Indices: 25584434--25584458 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25584424 AGCCGCAACT
25584434 GCA GCA GCA GCA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA G
25584459 TCGTATGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.36, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:25585875 original size:20 final size:21
Alignment explanation
Indices: 25585836--25585877 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
25585826 TAATTTTCAA
*
25585836 TTCATTTTTTTACCTTTTAATT
1 TTCATTTTTTTA-CTATTAATT
25585858 TTCATTTTTTT-CTATTAATT
1 TTCATTTTTTTACTATTAATT
25585878 GCATAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (21 bp):
TTCATTTTTTTACTATTAATT
Found at i:25586755 original size:5 final size:5
Alignment explanation
Indices: 25586739--25586769 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
25586729 TACCACTTTG
25586739 TCCTT T-CTT TCCTT TCCTT TCCTT TCCTT TC
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TC
25586770 TCTCTCGCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (5 bp):
TCCTT
Found at i:25592397 original size:13 final size:14
Alignment explanation
Indices: 25592358--25592390 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
25592348 GATTTGATTT
25592358 AATTT-TAAATAAA
1 AATTTATAAATAAA
25592371 AATTTATAAATAAA
1 AATTTATAAATAAA
25592385 AATTTA
1 AATTTA
25592391 ATTTAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTATAAATAAA
Found at i:25592685 original size:4 final size:4
Alignment explanation
Indices: 25592678--25592707 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
25592668 TATCTATTTT
25592678 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
25592708 TTTAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:25601028 original size:104 final size:104
Alignment explanation
Indices: 25600852--25601047 Score: 347
Period size: 104 Copynumber: 1.9 Consensus size: 104
25600842 GGACAAGTAA
*
25600852 GTGTTCTGCAATGATCAAAATCTCTTAAATTTAACTGTTTCTAAAGCATCAGCCGAATACCCATC
1 GTGTTCTGCAATGATCAAAATCTCTTAAATTTAACTGTTTCTAAAGCATCAGCCGAAAACCCATC
*
25600917 GCGGGAAATAACATGAATCATAACAAACTGGGCAAGTGG
66 GCAGGAAATAACATGAATCATAACAAACTGGGCAAGTGG
* * *
25600956 GTGTTCTGCAATGATCAAAATTTCTTAAGTTTAACTGTTTCTAAAGCATCAGCCGAAAACCCATT
1 GTGTTCTGCAATGATCAAAATCTCTTAAATTTAACTGTTTCTAAAGCATCAGCCGAAAACCCATC
25601021 GCAGGAAATAACATGAATCATAACAAA
66 GCAGGAAATAACATGAATCATAACAAA
25601048 AACTGAGAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 87 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (104 bp):
GTGTTCTGCAATGATCAAAATCTCTTAAATTTAACTGTTTCTAAAGCATCAGCCGAAAACCCATC
GCAGGAAATAACATGAATCATAACAAACTGGGCAAGTGG
Found at i:25604726 original size:28 final size:28
Alignment explanation
Indices: 25604686--25604744 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
25604676 ATAATTGGTA
25604686 AAAAGCAAAGATCAATGACTGATCGAAC
1 AAAAGCAAAGATCAATGACTGATCGAAC
25604714 AAAAGCAAAGATCAATGACTGATCGAAC
1 AAAAGCAAAGATCAATGACTGATCGAAC
25604742 AAA
1 AAA
25604745 CTTAGCAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.53, C:0.17, G:0.17, T:0.14
Consensus pattern (28 bp):
AAAAGCAAAGATCAATGACTGATCGAAC
Found at i:25609705 original size:20 final size:20
Alignment explanation
Indices: 25609680--25609720 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25609670 AGTTAATTTT
*
25609680 TTAAATTAATAAATTAAATA
1 TTAAATTAATAAATAAAATA
* *
25609700 TTAAATTTATTAATAAAATA
1 TTAAATTAATAAATAAAATA
25609720 T
1 T
25609721 GAAACAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAATTAATAAATAAAATA
Found at i:25610659 original size:19 final size:19
Alignment explanation
Indices: 25610635--25610675 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
25610625 ATATTTAAAT
25610635 AAATTTTGATATAAAATTA
1 AAATTTTGATATAAAATTA
**
25610654 AAATTTTTTTATAAAATTA
1 AAATTTTGATATAAAATTA
25610673 AAA
1 AAA
25610676 ATTTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AAATTTTGATATAAAATTA
Found at i:25610747 original size:6 final size:6
Alignment explanation
Indices: 25610736--25610789 Score: 67
Period size: 6 Copynumber: 9.3 Consensus size: 6
25610726 TTTTAATTAA
* * *
25610736 AAATTT AAATTT AAATTT -AATAT ATATTT ATATTT AAATTT -AATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
25610782 AAATTT AA
1 AAATTT AA
25610790 TAAAAAATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
5 9 0.21
6 33 0.79
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
AAATTT
Found at i:25610764 original size:23 final size:23
Alignment explanation
Indices: 25610727--25610789 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
25610717 TTTAATTTTT
*
25610727 TTTAATTAAAAATTTAAATTTAAA
1 TTTAA-TATAAATTTAAATTTAAA
* *
25610751 TTTAATATATATTTATATTTAAA
1 TTTAATATAAATTTAAATTTAAA
*
25610774 TTTAATTTAAATTTAA
1 TTTAATATAAATTTAA
25610790 TAAAAAATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 28 0.85
24 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTAATATAAATTTAAATTTAAA
Found at i:25610770 original size:17 final size:18
Alignment explanation
Indices: 25610743--25610791 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
25610733 TAAAAATTTA
25610743 AATTTAAATTTAATATAT
1 AATTTAAATTTAATATAT
* *
25610761 -ATTTATATTTAA-ATTT
1 AATTTAAATTTAATATAT
25610777 AATTTAAATTTAATA
1 AATTTAAATTTAATA
25610792 AAAAATCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 3 0.12
17 22 0.85
18 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTTAAATTTAATATAT
Found at i:25613143 original size:2 final size:2
Alignment explanation
Indices: 25613136--25613160 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25613126 CTTTTTATTT
25613136 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
25613161 TATATGTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:25626508 original size:34 final size:34
Alignment explanation
Indices: 25626460--25626529 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
25626450 CATGAGCAAA
25626460 AGCCAGATAATTATTCGCTTACAAGAGTCAATGG
1 AGCCAGATAATTATTCGCTTACAAGAGTCAATGG
* *
25626494 AGCCAGATAGTTATTCGCTTACAGGAGTCAATGG
1 AGCCAGATAATTATTCGCTTACAAGAGTCAATGG
25626528 AG
1 AG
25626530 TAATGTAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (34 bp):
AGCCAGATAATTATTCGCTTACAAGAGTCAATGG
Found at i:25629287 original size:24 final size:26
Alignment explanation
Indices: 25629225--25629288 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
25629215 AAGTGAATTT
25629225 TGTGAACATTAATATATTTCAATCAAA
1 TGTGAACATTAATATATTT-AATCAAA
* * *
25629252 TCTGTATA-TAATATATTT-A-CAAA
1 TGTGAACATTAATATATTTAATCAAA
25629275 TGTGAACATTAATA
1 TGTGAACATTAATA
25629289 GATTAACATG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
23 9 0.30
24 6 0.20
26 10 0.33
27 5 0.17
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (26 bp):
TGTGAACATTAATATATTTAATCAAA
Found at i:25631659 original size:18 final size:17
Alignment explanation
Indices: 25631628--25631662 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25631618 AAGGATGGTT
25631628 AGATGATGAGCCTGAGG
1 AGATGATGAGCCTGAGG
*
25631645 AGATAGATGATCCTGAGG
1 AGAT-GATGAGCCTGAGG
25631663 CAACCAAGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.31, C:0.11, G:0.37, T:0.20
Consensus pattern (17 bp):
AGATGATGAGCCTGAGG
Found at i:25640794 original size:28 final size:27
Alignment explanation
Indices: 25640754--25640806 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
25640744 ATTGGCATCT
*
25640754 ATCTTTATCTAAAAGCCACCTCGTTTCC
1 ATCTATATCTAAAA-CCACCTCGTTTCC
*
25640782 ATCTATATCTAAAACTACCTCGTTT
1 ATCTATATCTAAAACCACCTCGTTT
25640807 TGACATCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.38
Consensus pattern (27 bp):
ATCTATATCTAAAACCACCTCGTTTCC
Found at i:25641696 original size:17 final size:17
Alignment explanation
Indices: 25641676--25641710 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25641666 AATTTAATTT
25641676 AATAAAATTTAAATTAA
1 AATAAAATTTAAATTAA
**
25641693 AATATTATTTAAATTAA
1 AATAAAATTTAAATTAA
25641710 A
1 A
25641711 TTATTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATAAAATTTAAATTAA
Found at i:25641715 original size:14 final size:16
Alignment explanation
Indices: 25641682--25641719 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
25641672 ATTTAATAAA
25641682 ATTTAAATTAAAATATT
1 ATTTAAATT-AAATATT
25641699 ATTTAAATT-AA-ATT
1 ATTTAAATTAAATATT
25641713 ATTTAAA
1 ATTTAAA
25641720 AAATTAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
15 2 0.10
17 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTAAATTAAATATT
Found at i:25641715 original size:17 final size:17
Alignment explanation
Indices: 25641682--25641715 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25641672 ATTTAATAAA
25641682 ATTTAAATTAAAATATT
1 ATTTAAATTAAAATATT
*
25641699 ATTTAAATTAAATTATT
1 ATTTAAATTAAAATATT
25641716 TAAAAAATTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAAATTAAAATATT
Found at i:25641904 original size:42 final size:42
Alignment explanation
Indices: 25641842--25641927 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
25641832 CAATTCAATT
* *
25641842 ATTAACTTTAAGAATCAAAAATCAATCGATTTAATTAATTTA
1 ATTAACTTTAAAAATAAAAAATCAATCGATTTAATTAATTTA
* **
25641884 ATTAATTTTAAAAATAAAAAATTGATCGATTTAATTAATTTA
1 ATTAACTTTAAAAATAAAAAATCAATCGATTTAATTAATTTA
25641926 AT
1 AT
25641928 AGTTTCAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.41
Consensus pattern (42 bp):
ATTAACTTTAAAAATAAAAAATCAATCGATTTAATTAATTTA
Found at i:25647318 original size:18 final size:19
Alignment explanation
Indices: 25647285--25647322 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
25647275 ATAAAATATA
25647285 TATTTTTTAATTTCATATTT
1 TATTTTTTAA-TTCATATTT
25647305 TATTTTTTAA-TCATATTT
1 TATTTTTTAATTCATATTT
25647323 ATATGGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTTTTAATTCATATTT
Found at i:25647669 original size:13 final size:13
Alignment explanation
Indices: 25647651--25647676 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25647641 TCTCTTTCAG
25647651 TTGTTCAGATTTT
1 TTGTTCAGATTTT
25647664 TTGTTCAGATTTT
1 TTGTTCAGATTTT
25647677 CATTTACTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (13 bp):
TTGTTCAGATTTT
Found at i:25649982 original size:34 final size:31
Alignment explanation
Indices: 25649893--25649984 Score: 80
Period size: 34 Copynumber: 2.8 Consensus size: 31
25649883 TGTAATTTAG
*
25649893 TAATTGATTATTATAA-TTATTTT-TAAAAA
1 TAATTGATTATTGTAATTTATTTTATAAAAA
* *
25649922 TAATTTAATTATTGTATTATTTTATTTTATAACTTAA
1 TAA-TTGATTATTGTA--A-TTTATTTTATAA--AAA
25649959 TAATTGATTATTGTAATTGTATTTTA
1 TAATTGATTATTGTAATT-TATTTTA
25649985 AAATTATCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
29 3 0.06
30 10 0.20
32 1 0.02
33 2 0.04
34 15 0.30
35 3 0.06
36 11 0.22
37 5 0.10
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (31 bp):
TAATTGATTATTGTAATTTATTTTATAAAAA
Found at i:25651795 original size:36 final size:36
Alignment explanation
Indices: 25651748--25651817 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
25651738 TTAGAACAGA
*
25651748 AGCTTTAAAGTTTAAGAAGTCTTAACATTTATGAGC
1 AGCTTTAAAGTTCAAGAAGTCTTAACATTTATGAGC
*
25651784 AGCTTTAAAGTTCAAGGAGTCTTAACATTTATGA
1 AGCTTTAAAGTTCAAGAAGTCTTAACATTTATGA
25651818 TAACCGATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (36 bp):
AGCTTTAAAGTTCAAGAAGTCTTAACATTTATGAGC
Found at i:25653264 original size:24 final size:24
Alignment explanation
Indices: 25653236--25653285 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
25653226 ATTGTACCAT
25653236 ATTTTGTTTCCTTTTGCAAGCAGA
1 ATTTTGTTTCCTTTTGCAAGCAGA
25653260 ATTTTGTTTCCTTTTGCAAGCAGA
1 ATTTTGTTTCCTTTTGCAAGCAGA
25653284 AT
1 AT
25653286 AATAATCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (24 bp):
ATTTTGTTTCCTTTTGCAAGCAGA
Found at i:25665667 original size:19 final size:19
Alignment explanation
Indices: 25665631--25665669 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25665621 ATATGTGATT
*
25665631 AATTAATTTTATTTATAAA
1 AATTAATTTTATTAATAAA
25665650 AATTAATTTGT-TTAATAAA
1 AATTAATTT-TATTAATAAA
25665669 A
1 A
25665670 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
AATTAATTTTATTAATAAA
Found at i:25666211 original size:111 final size:115
Alignment explanation
Indices: 25666016--25666302 Score: 424
Period size: 111 Copynumber: 2.5 Consensus size: 115
25666006 ACAGAAATAA
25666016 GAAGAGAATCCCAATTTTCCTCACAAAAAACCCAAAACCCTAAAAAAGTCAGCATTCATCTTATT
1 GAAGAGAATCCCAATTTTCCTCACAAAAAACCCAAAACCCTAAAAAA-TCAGCATTCATCTTATT
* * * *
25666081 CTTCGGAAAGAATCTATTTTTTCTTTGACAAACAGAAATAAGGAGAGACTTC
65 CTTAGGAAAGAATCTATTTTTTATTTGACAAACAGAAATAAGAAGAGA-ATC
*
25666133 -AAGAGAATCCCAA-TTTCC-CTCAAAAAACCCAAAA-CCT-AAAAATCAGCATTCATCTTATTC
1 GAAGAGAATCCCAATTTTCCTCACAAAAAACCCAAAACCCTAAAAAATCAGCATTCATCTTATTC
* * *
25666193 TTATGAAAGACT-TGATTTTTTATTTGCCAAACAGAAATAAGAAGAGAATC
66 TTAGGAAAGAATCT-ATTTTTTATTTGACAAACAGAAATAAGAAGAGAATC
25666243 GAAGAGAATCCCAATTTTCCTCACAAAAAACCCAAAACCCTACAAAAATCAGCATTCATC
1 GAAGAGAATCCCAATTTTCCTCACAAAAAACCCAAAACCCTA-AAAAATCAGCATTCATC
25666303 GAACTCAACA
Statistics
Matches: 154, Mismatches: 9, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
110 3 0.02
111 70 0.45
112 10 0.06
113 18 0.12
114 18 0.12
115 5 0.03
116 30 0.19
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (115 bp):
GAAGAGAATCCCAATTTTCCTCACAAAAAACCCAAAACCCTAAAAAATCAGCATTCATCTTATTC
TTAGGAAAGAATCTATTTTTTATTTGACAAACAGAAATAAGAAGAGAATC
Found at i:25682143 original size:29 final size:26
Alignment explanation
Indices: 25682111--25682172 Score: 61
Period size: 29 Copynumber: 2.2 Consensus size: 26
25682101 AAGTAAAATG
*
25682111 GTAAAATAAAGATAATAACTTATTTCAA
1 GTAAAA-AAAGATAAAAACTTATTT-AA
* *
25682139 TGTAATAAAAATATAAAAATTTATTTAA
1 -GTAA-AAAAAGATAAAAACTTATTTAA
25682167 GTAAAA
1 GTAAAA
25682173 CAGTAAAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 2 0.07
27 4 0.14
28 2 0.07
29 19 0.66
30 2 0.07
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (26 bp):
GTAAAAAAAGATAAAAACTTATTTAA
Found at i:25682559 original size:12 final size:12
Alignment explanation
Indices: 25682542--25682572 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25682532 CGAACTACAG
25682542 CAACCACTACCA
1 CAACCACTACCA
*
25682554 CTACCACTACCA
1 CAACCACTACCA
25682566 CAACCAC
1 CAACCAC
25682573 AGCAACCGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.39, C:0.52, G:0.00, T:0.10
Consensus pattern (12 bp):
CAACCACTACCA
Found at i:25695925 original size:16 final size:16
Alignment explanation
Indices: 25695904--25695966 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
25695894 AAAAATGGAA
25695904 TTAAATTTAAAT-ATT
1 TTAAATTTAAATCATT
25695919 TTGAAA-TTAAATCA-T
1 TT-AAATTTAAATCATT
* * * *
25695934 ATCAATTTTAATTATT
1 TTAAATTTAAATCATT
25695950 TTAAATTTAAATCATT
1 TTAAATTTAAATCATT
25695966 T
1 T
25695967 CATATTCGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
14 2 0.06
15 16 0.44
16 18 0.50
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (16 bp):
TTAAATTTAAATCATT
Found at i:25696349 original size:20 final size:20
Alignment explanation
Indices: 25696310--25696349 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25696300 GAAATTATAA
*
25696310 AAAATTAAATTTTAATCATT
1 AAAATTAAATTCTAATCATT
25696330 AAAATTAAAATTCTAA-CATT
1 AAAATT-AAATTCTAATCATT
25696350 TTGTCTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATTAAATTCTAATCATT
Found at i:25696517 original size:26 final size:27
Alignment explanation
Indices: 25696479--25696535 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
25696469 TTAAATCTTG
*
25696479 ATTT-AATACAAAAATAATATATTATT
1 ATTTAAATACAAAAATAATATACTATT
* *
25696505 TTTTAAATA-AAAAATAGTATACTATT
1 ATTTAAATACAAAAATAATATACTATT
25696531 ATTTA
1 ATTTA
25696536 TTTATAGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (27 bp):
ATTTAAATACAAAAATAATATACTATT
Found at i:25700661 original size:4 final size:4
Alignment explanation
Indices: 25700654--25700681 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
25700644 ATATATATAT
25700654 ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG
25700682 GCTGCTACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
ATAG
Found at i:25702143 original size:2 final size:2
Alignment explanation
Indices: 25702136--25702162 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25702126 ACTTGATTAC
25702136 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
25702163 GTATGTGCGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25704351 original size:15 final size:15
Alignment explanation
Indices: 25704307--25704358 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
25704297 ATACATAAAT
*
25704307 AATAAATAAATCCTA
1 AATAAATAAATCTTA
*
25704322 ACTAAATAAAT-TTA
1 AATAAATAAATCTTA
25704336 AATAAATAAATCTTA
1 AATAAATAAATCTTA
*
25704351 AAAAAATA
1 AATAAATA
25704359 TAAATAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAAATAAATCTTA
Found at i:25704366 original size:29 final size:29
Alignment explanation
Indices: 25704301--25704366 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
25704291 TATTATATAC
**
25704301 ATAAAT-AATAAATAAATCCTAACTAAAT
1 ATAAATAAATAAATAAATCCTAAAAAAAT
* *
25704329 A-AATTTAAATAAATAAATCTTAAAAAAAT
1 ATAA-ATAAATAAATAAATCCTAAAAAAAT
25704358 ATAAATAAA
1 ATAAATAAA
25704367 CTTTAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
27 2 0.07
28 2 0.07
29 24 0.80
30 2 0.07
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (29 bp):
ATAAATAAATAAATAAATCCTAAAAAAAT
Found at i:25704436 original size:11 final size:11
Alignment explanation
Indices: 25704420--25704453 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
25704410 TAATATTATT
25704420 ATAAATAAATA
1 ATAAATAAATA
*
25704431 ATAAATGAATA
1 ATAAATAAATA
25704442 ATAAATAAATA
1 ATAAATAAATA
25704453 A
1 A
25704454 ATTTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
ATAAATAAATA
Found at i:25704448 original size:15 final size:15
Alignment explanation
Indices: 25704420--25704466 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
25704410 TAATATTATT
25704420 ATAAATAA-ATAATAA
1 ATAAATAATA-AATAA
*
25704435 ATGAATAATAAATAA
1 ATAAATAATAAATAA
**
25704450 ATAAATTTTAAATAA
1 ATAAATAATAAATAA
25704465 AT
1 AT
25704467 TTACTTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
ATAAATAATAAATAA
Found at i:25706369 original size:130 final size:129
Alignment explanation
Indices: 25706137--25706397 Score: 452
Period size: 130 Copynumber: 2.0 Consensus size: 129
25706127 TATATTGATG
*
25706137 ATCAAAATTCACTTACAAGTAAAGCTGAAATTATGATTCTGCTTTTAGTTTGCCGATAAGGATGT
1 ATCAAAATTCACTTACAAGTAAAGCTGAAACTATGATTCTGCTTTTAGTTTGCCGATAAGGATGT
*
25706202 AGGACGAGTTTCAGCATTTGATTGCTTCAATGTGGCTTGAAAATGTCTTG-TAGCGTGCAAGTGC
66 AGGAAGAGTTTCAGCATTTGATTGCTTCAATGTGGCTTGAAAATGTCTTGTTA-CGTGCAAGTGC
*
25706266 ATCAAAATTCACTTACAAGTAGAGCTGAAACTATGATTCTGCTTTTAGTTTGGCCGATAAGGATG
1 ATCAAAATTCACTTACAAGTAAAGCTGAAACTATGATTCTGCTTTTAGTTT-GCCGATAAGGATG
* *
25706331 TAGGAAGAGTTTCAGCATTTGATTGCTTCAATTTGGCTTGAAAATGTCTTGTTACGTGCATGTGC
65 TAGGAAGAGTTTCAGCATTTGATTGCTTCAATGTGGCTTGAAAATGTCTTGTTACGTGCAAGTGC
25706396 AT
1 AT
25706398 GGAAAATCAC
Statistics
Matches: 125, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
129 49 0.39
130 74 0.59
131 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (129 bp):
ATCAAAATTCACTTACAAGTAAAGCTGAAACTATGATTCTGCTTTTAGTTTGCCGATAAGGATGT
AGGAAGAGTTTCAGCATTTGATTGCTTCAATGTGGCTTGAAAATGTCTTGTTACGTGCAAGTGC
Found at i:25708599 original size:18 final size:19
Alignment explanation
Indices: 25708578--25708613 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25708568 TGATTTATAA
*
25708578 TTTATA-ATTTTTTTAATT
1 TTTATATATTATTTTAATT
25708596 TTTATATATTATTTTAAT
1 TTTATATATTATTTTAAT
25708614 ATAAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATATATTATTTTAATT
Found at i:25708784 original size:13 final size:13
Alignment explanation
Indices: 25708764--25708798 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
25708754 AATTTAATTC
25708764 AAATTTAATATAT
1 AAATTTAATATAT
* *
25708777 ATATTTAATATTT
1 AAATTTAATATAT
25708790 AAATTTAAT
1 AAATTTAAT
25708799 CCAAACCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAATTTAATATAT
Found at i:25719898 original size:9 final size:9
Alignment explanation
Indices: 25719886--25719918 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
25719876 CACTTCTTAC
25719886 TTTTTTTTA
1 TTTTTTTTA
25719895 -TTTTTTTA
1 TTTTTTTTA
25719903 TTTTTTTTA
1 TTTTTTTTA
25719912 TTTTTTT
1 TTTTTTT
25719919 CTCTTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:25719900 original size:8 final size:8
Alignment explanation
Indices: 25719887--25719918 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
25719877 ACTTCTTACT
25719887 TTTTTTTA
1 TTTTTTTA
25719895 TTTTTTTA
1 TTTTTTTA
25719903 TTTTTTTTA
1 -TTTTTTTA
25719912 TTTTTTT
1 TTTTTTT
25719919 CTCTTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (8 bp):
TTTTTTTA
Found at i:25719908 original size:17 final size:17
Alignment explanation
Indices: 25719886--25719918 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25719876 CACTTCTTAC
25719886 TTTTTTTTATTTTTTTA
1 TTTTTTTTATTTTTTTA
25719903 TTTTTTTTATTTTTTT
1 TTTTTTTTATTTTTTT
25719919 CTCTTAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (17 bp):
TTTTTTTTATTTTTTTA
Found at i:25720069 original size:21 final size:21
Alignment explanation
Indices: 25720023--25720070 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
25720013 CGGACAGCGC
* *
25720023 GGAGGCGGAGCGACGGTTGCG
1 GGAGGCGGAGCGACGATTGAG
*
25720044 TGAGGCGGAG-GAGCGATTGAG
1 GGAGGCGGAGCGA-CGATTGAG
25720065 GGAGGC
1 GGAGGC
25720071 CATAGAGGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.19, C:0.15, G:0.56, T:0.10
Consensus pattern (21 bp):
GGAGGCGGAGCGACGATTGAG
Found at i:25735790 original size:128 final size:129
Alignment explanation
Indices: 25735559--25735800 Score: 387
Period size: 128 Copynumber: 1.9 Consensus size: 129
25735549 ATAGTTATAA
* *
25735559 ATAACAAGGCAAAGGGTAAATATAAATTTCCAAGCTTTCTATCTCAAAACCTATAATTTTCTATA
1 ATAACAAGGCAAAGGGTAAAAATAAATTTCCAAGCTTTCTATCTCAAAACC--TAACTTTCTATA
* *
25735624 ATCAGACAGGCAAAATTAGCAACAAAAATAACATGAATGAAAACCTTAAATTTCCAACATAAACA
64 ATCAGAAAGGCAAAATTAGCAACAAAAACAACATGAATGAAAACCTTAAATTTCCAACATAAACA
25735689 C
129 C
* * *
25735690 ATAACAAGGCAAAGGGTAAAAATAAATTTCCAAGCTTTCTATTTCACAACC-CACTTTCTATAAT
1 ATAACAAGGCAAAGGGTAAAAATAAATTTCCAAGCTTTCTATCTCAAAACCTAACTTTCTATAAT
*
25735754 CAGAAAGGCAAAATTAGCAACAAAAACAACATGAATGAAAGCCTTAA
66 CAGAAAGGCAAAATTAGCAACAAAAACAACATGAATGAAAACCTTAA
25735801 TTAAAGACAG
Statistics
Matches: 103, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
128 55 0.53
131 48 0.47
ACGTcount: A:0.47, C:0.19, G:0.10, T:0.24
Consensus pattern (129 bp):
ATAACAAGGCAAAGGGTAAAAATAAATTTCCAAGCTTTCTATCTCAAAACCTAACTTTCTATAAT
CAGAAAGGCAAAATTAGCAACAAAAACAACATGAATGAAAACCTTAAATTTCCAACATAAACAC
Found at i:25736495 original size:25 final size:26
Alignment explanation
Indices: 25736464--25736521 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
25736454 TGATATAATA
*
25736464 AAAATTT-TAAATTT-AAATTTAATTT
1 AAAATTTAT-AATTTAAAATTTAACTT
*
25736489 AAAATTTATTATTTAAAATTTAACTT
1 AAAATTTATAATTTAAAATTTAACTT
25736515 -AAATTTA
1 AAAATTTA
25736522 GTCAAGTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 18 0.62
26 11 0.38
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
AAAATTTATAATTTAAAATTTAACTT
Found at i:25736504 original size:14 final size:12
Alignment explanation
Indices: 25736473--25736521 Score: 57
Period size: 11 Copynumber: 4.1 Consensus size: 12
25736463 AAAAATTTTA
25736473 AATTT-AAATTT
1 AATTTAAAATTT
25736484 AATTTAAAATTT
1 AATTTAAAATTT
25736496 ATTATTTAAAATTT
1 A--ATTTAAAATTT
*
25736510 AACTT-AAATTT
1 AATTTAAAATTT
25736521 A
1 A
25736522 GTCAAGTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
11 12 0.35
12 10 0.29
14 12 0.35
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (12 bp):
AATTTAAAATTT
Found at i:25736507 original size:26 final size:24
Alignment explanation
Indices: 25736474--25736521 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
25736464 AAAATTTTAA
*
25736474 ATTTAAATTTAATTTAAAATTTATT
1 ATTTAAATTTAACTT-AAATTTATT
25736499 ATTTAAAATTTAACTTAAATTTA
1 ATTT-AAATTTAACTTAAATTTA
25736522 GTCAAGTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTTAAATTTAACTTAAATTTATT
Found at i:25750271 original size:2 final size:2
Alignment explanation
Indices: 25750264--25750297 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
25750254 TGGATAACAA
* *
25750264 AT AT AT AT AT AT AT AT AT AT TT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25750298 TGAGAGAGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:25762850 original size:54 final size:55
Alignment explanation
Indices: 25762764--25762867 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 55
25762754 TTTACTTTGT
*
25762764 TTTGGTTCACAACGGCTTTAAGTCACTAATAAT-GACCCTTTCGAGAAAGGTTGC
1 TTTGGTTCACAACGGCTTTAAGTCAATAATAATCGACCCTTTCGAGAAAGGTTGC
* * * *
25762818 TTTGGTTCGCAATGGCTTTAAGTCAATGATAATCGACCCTTTCTAGAAAG
1 TTTGGTTCACAACGGCTTTAAGTCAATAATAATCGACCCTTTCGAGAAAG
25762868 AGGCAATGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 29 0.66
55 15 0.34
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (55 bp):
TTTGGTTCACAACGGCTTTAAGTCAATAATAATCGACCCTTTCGAGAAAGGTTGC
Found at i:25785179 original size:32 final size:31
Alignment explanation
Indices: 25785139--25785201 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
25785129 AATAAATAAC
25785139 TCAAAAATATATATTTGATTTGTTTATAGAG
1 TCAAAAATATATATTTGATTTGTTTATAGAG
* * *
25785170 TCAACAAATATATTTTTTATTTGTTTTTAGAG
1 TCAA-AAATATATATTTGATTTGTTTATAGAG
25785202 AGTTTCAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (31 bp):
TCAAAAATATATATTTGATTTGTTTATAGAG
Found at i:25785340 original size:14 final size:13
Alignment explanation
Indices: 25785311--25785355 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
25785301 ATTATGATTA
*
25785311 AAAAAATTTTAAT
1 AAAAAATTTTACT
25785324 AAAAAATTTATACT
1 AAAAAATTT-TACT
*
25785338 AAATAAATCTTACT
1 AAA-AAATTTTACT
25785352 AAAA
1 AAAA
25785356 TTAATATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 10 0.36
14 13 0.46
15 5 0.18
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAAAATTTTACT
Found at i:25787612 original size:13 final size:13
Alignment explanation
Indices: 25787594--25787618 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25787584 TCATCTTATA
25787594 TTTGGTAAATATG
1 TTTGGTAAATATG
25787607 TTTGGTAAATAT
1 TTTGGTAAATAT
25787619 TCATCTTACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TTTGGTAAATATG
Found at i:25792305 original size:16 final size:17
Alignment explanation
Indices: 25792284--25792318 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25792274 CCACAGATTT
25792284 TTTTTC-CTTTTCTTTC
1 TTTTTCACTTTTCTTTC
*
25792300 TTTTTCATTTTTCTTTC
1 TTTTTCACTTTTCTTTC
25792317 TT
1 TT
25792319 CTGTTGTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTCACTTTTCTTTC
Found at i:25795798 original size:22 final size:25
Alignment explanation
Indices: 25795771--25795828 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
25795761 TATAAGTAAA
*
25795771 TTTATTTAAATAA-AT-T-AAAAAT
1 TTTATTAAAATAATATATAAAAAAT
25795793 TTTATTAAAATAATATATAAAAAAT
1 TTTATTAAAATAATATATAAAAAAT
*
25795818 TTTATAAAAAT
1 TTTATTAAAAT
25795829 TTAAAAACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 12 0.39
23 2 0.06
24 1 0.03
25 16 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTATTAAAATAATATATAAAAAAT
Found at i:25795801 original size:12 final size:12
Alignment explanation
Indices: 25795784--25795830 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
25795774 ATTTAAATAA
25795784 ATTAAAAATTTT
1 ATTAAAAATTTT
* *
25795796 ATTAAAATAATAT
1 ATTAAAA-ATTTT
*
25795809 ATAAAAAATTTT
1 ATTAAAAATTTT
25795821 A-TAAAAATTT
1 ATTAAAAATTT
25795831 AAAAACTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
11 8 0.29
12 11 0.39
13 9 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTAAAAATTTT
Found at i:25813541 original size:26 final size:26
Alignment explanation
Indices: 25813505--25813563 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
25813495 ATTAGATAAA
*
25813505 TAATTT-TTCTT-GAATTT-TTATATT
1 TAATTTATTCTTAAAATTTATT-TATT
25813529 TCAATTTATTCTTAAAATTTATTTATT
1 T-AATTTATTCTTAAAATTTATTTATT
25813556 TAATTTAT
1 TAATTTAT
25813564 GCAAGCAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 1 0.03
25 5 0.17
26 12 0.40
27 10 0.33
28 2 0.07
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (26 bp):
TAATTTATTCTTAAAATTTATTTATT
Found at i:25813662 original size:2 final size:2
Alignment explanation
Indices: 25813655--25813692 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
25813645 ATCTCATTTG
25813655 TA TA TA TA TA 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 TA TA TA TA TA
25813693 AAGATGAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25814621 original size:14 final size:15
Alignment explanation
Indices: 25814595--25814624 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
25814585 GGAGAACAAA
25814595 AATGAATTTCGATTC
1 AATGAATTTCGATTC
25814610 AATGAA-TTCGATTC
1 AATGAATTTCGATTC
25814624 A
1 A
25814625 TACTTCAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (15 bp):
AATGAATTTCGATTC
Found at i:25826228 original size:12 final size:11
Alignment explanation
Indices: 25826208--25826250 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
25826198 TAATTTTATT
25826208 AATATAATATATA
1 AATA-AATA-ATA
25826221 AATAAATAATTA
1 AATAAATAA-TA
25826233 AATAAATAATA
1 AATAAATAATA
25826244 AA-AAATA
1 AATAAATA
25826251 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 5 0.17
11 5 0.17
12 15 0.52
13 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAAATAATA
Found at i:25826240 original size:29 final size:27
Alignment explanation
Indices: 25826186--25826240 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 27
25826176 TTTAAATTAA
** *
25826186 AATATTAAATAATAATTTTATTAATAT
1 AATATTAAATAATAATTAAATAAATAT
25826213 AATATATAAATAAATAATTAAATAAATA
1 AATAT-TAAAT-AATAATTAAATAAATA
25826241 ATAAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.22
28 5 0.22
29 13 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
AATATTAAATAATAATTAAATAAATAT
Found at i:25826841 original size:24 final size:24
Alignment explanation
Indices: 25826814--25826864 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
25826804 CATTGCATAT
25826814 AAATTATTTTATCATCTCTATCTA
1 AAATTATTTTATCATCTCTATCTA
* * * *
25826838 AAATTTTTTTATTATTTTTATCTA
1 AAATTATTTTATCATCTCTATCTA
25826862 AAA
1 AAA
25826865 AAATCTCAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (24 bp):
AAATTATTTTATCATCTCTATCTA
Found at i:25826990 original size:25 final size:24
Alignment explanation
Indices: 25826956--25827004 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
25826946 ATATATATTT
*
25826956 TTAATTAATAATTTAAATTAAAATA
1 TTAAATAATAA-TTAAATTAAAATA
*
25826981 TTAAATAATAATTATATTAAAATA
1 TTAAATAATAATTAAATTAAAATA
25827005 AATAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TTAAATAATAATTAAATTAAAATA
Found at i:25832059 original size:41 final size:40
Alignment explanation
Indices: 25831968--25832064 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 40
25831958 TTATGATTAT
*
25831968 ATATAAATATAATATTTTATTAAGTTAATATTTAAATTAAA
1 ATATAAA-ATAATATTTTATTAAGTTAATATATAAATTAAA
*
25832009 ATATTAAATAATAATTTTATTAA-TATAATATATAAATATAAA
1 ATATAAAATAAT-ATTTTATTAAGT-TAATATATAAAT-TAAA
25832051 AT-TAAAATATATAT
1 ATATAAAATA-ATAT
25832065 ATTCATGTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
40 6 0.12
41 35 0.71
42 8 0.16
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (40 bp):
ATATAAAATAATATTTTATTAAGTTAATATATAAATTAAA
Found at i:25837689 original size:21 final size:22
Alignment explanation
Indices: 25837651--25837702 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
25837641 CCCGAAATTA
25837651 ATAAAATATTATTTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
25837673 ATAAAATATTA-TTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
25837694 AT-AAATATT
1 ATAAAATATT
25837703 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 11 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATAAAATATTATTTTTTTAAAT
Found at i:25839073 original size:3 final size:3
Alignment explanation
Indices: 25839065--25839094 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
25839055 TTGATGTAAC
25839065 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25839095 GATATCTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:25840026 original size:2 final size:2
Alignment explanation
Indices: 25840019--25840049 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
25840009 GTGTAAATGA
25840019 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25840050 GATTCATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25842483 original size:24 final size:23
Alignment explanation
Indices: 25842456--25842512 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
25842446 AAACAAAATA
*
25842456 TAAAAATAATATATTTATAAATTT
1 TAAAAATAAT-TATATATAAATTT
25842480 TAAAAATAATTATATATAAATTT
1 TAAAAATAATTATATATAAATTT
*
25842503 AATAAAATAA
1 TA-AAAATAA
25842513 AAAATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 13 0.43
24 17 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAAAATAATTATATATAAATTT
Found at i:25842484 original size:23 final size:24
Alignment explanation
Indices: 25842454--25842509 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
25842444 AAAAACAAAA
*
25842454 TATAAAAATAATATATTTATAAATT
1 TATAAAAATAAT-TATATATAAATT
25842479 T-TAAAAATAATTATATATAAATT
1 TATAAAAATAATTATATATAAATT
25842502 TAATAAAA
1 T-ATAAAA
25842510 TAAAAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 12 0.43
24 10 0.36
25 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TATAAAAATAATTATATATAAATT
Found at i:25842519 original size:23 final size:23
Alignment explanation
Indices: 25842457--25842519 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
25842447 AACAAAATAT
** *
25842457 AAAAATAATATATTTATAAATTTT
1 AAAAATAATA-AAATATAAATTTA
* *
25842481 AAAAATAATTATATATAAATTTA
1 AAAAATAATAAAATATAAATTTA
25842504 ATAAAATAA-AAAATAT
1 A-AAAATAATAAAATAT
25842520 TTTTTATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 17 0.52
24 16 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAATAATAAAATATAAATTTA
Found at i:25844985 original size:18 final size:17
Alignment explanation
Indices: 25844964--25845007 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 17
25844954 TTTTAATTAA
25844964 TTATTTAATTTTATATAT
1 TTATTTAATTTTATAT-T
25844982 TTATTTAATTTTATATT
1 TTATTTAATTTTATATT
25844999 TATATTTAA
1 T-TATTTAA
25845008 AAATAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 2 0.08
18 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTTAATTTTATATT
Found at i:25845676 original size:2 final size:2
Alignment explanation
Indices: 25845669--25845697 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25845659 CTTTGTCATT
25845669 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
25845698 ATGGTATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25847757 original size:8 final size:7
Alignment explanation
Indices: 25847750--25847868 Score: 52
Period size: 7 Copynumber: 16.7 Consensus size: 7
25847740 GGATTGTTTA
25847750 ATTTTTT
1 ATTTTTT
25847757 ATTTTTT
1 ATTTTTT
*
25847764 -TATTTTC
1 AT-TTTTT
*
25847771 GTTTTTT
1 ATTTTTT
25847778 A-TTTTT
1 ATTTTTT
25847784 A-TTTTT
1 ATTTTTT
25847790 ATTTTTT
1 ATTTTTT
*
25847797 -TATTATT
1 AT-TTTTT
* *
25847804 ATATTATA
1 AT-TTTTT
*
25847812 ATTATTTA
1 ATT-TTTT
25847820 ATATTTTT
1 AT-TTTTT
25847828 ATTTTTT
1 ATTTTTT
*
25847835 -TATTTTC
1 AT-TTTTT
*
25847842 GTTTTTT
1 ATTTTTT
25847849 A-TTTTT
1 ATTTTTT
25847855 ATTTATTTT
1 A-TT-TTTT
25847864 ATTTT
1 ATTTT
25847869 CTTTAAATAA
Statistics
Matches: 90, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
6 21 0.23
7 40 0.44
8 23 0.26
9 6 0.07
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (7 bp):
ATTTTTT
Found at i:25847769 original size:6 final size:6
Alignment explanation
Indices: 25847760--25847858 Score: 60
Period size: 6 Copynumber: 15.5 Consensus size: 6
25847750 ATTTTTTATT
*
25847760 TTTTTA TTTTCGT- TTTTTA TTTTTA TTTTTA TTTTT- TTATTA TTATATTA
1 TTTTTA TTTT--TA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT-T-TTA
** *
25847810 TAATTA TTTAATA TTTTTA TTTTTTTA TTTTCGT- TTTTTA TTTTTA TTT
1 TTTTTA TTT-TTA TTTTTA --TTTTTA TTTT--TA TTTTTA TTTTTA TTT
25847859 ATTTTATTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 24
0.70 0.08 0.23
Matches are distributed among these distances:
5 6 0.08
6 42 0.58
7 13 0.18
8 12 0.16
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:25847789 original size:20 final size:21
Alignment explanation
Indices: 25847746--25847868 Score: 74
Period size: 21 Copynumber: 5.8 Consensus size: 21
25847736 ATTAGGATTG
* *
25847746 TTTAATTTTTTATTTTTTTAT
1 TTTAGTTTTTTATTTTTATAT
*
25847767 TTTCGTTTTTTATTTTTAT-T
1 TTTAGTTTTTTATTTTTATAT
* *
25847787 TTTATTTTTTTATTATTATAT
1 TTTAGTTTTTTATTTTTATAT
* * *
25847808 TATAATTATTTAATATTTTTATTTT
1 TTTAGTT-TTT--TATTTTTA-TAT
*
25847833 TTTA-TTTTCGT-TTTTTAT-T
1 TTTAGTTTT-TTATTTTTATAT
*
25847852 TTTATTTATTTTATTTT
1 TTTAGTT-TTTTATTTT
25847869 CTTTAAATAA
Statistics
Matches: 80, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
19 5 0.06
20 21 0.26
21 34 0.43
22 4 0.05
23 2 0.03
24 9 0.11
25 5 0.06
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTAGTTTTTTATTTTTATAT
Found at i:25847833 original size:70 final size:69
Alignment explanation
Indices: 25847718--25847866 Score: 228
Period size: 71 Copynumber: 2.1 Consensus size: 69
25847708 TCCCAAGTTA
* *
25847718 TTTATTTATTATTATTATATTAGGATTGTTTAATTTTTTATTTTTTTATTTTCGTTTTTTATTTT
1 TTTATTTATTATTATTATATTAGAATTATTTAATTTTTTATTTTTTTATTTTCGTTTTTTATTTT
25847783 TATT
66 TATT
* *
25847787 TTTATTTTTTTATTATTATATTATAATTATTTAATATTTTTATTTTTTTATTTTCGTTTTTTATT
1 TTTA-TTTATTATTATTATATTAGAATTATTTAAT-TTTTTATTTTTTTATTTTCGTTTTTTATT
25847852 TTTATT
64 TTTATT
*
25847858 TAT-TTTATT
1 TTTATTTATT
25847867 TTCTTTAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
69 9 0.12
70 26 0.36
71 37 0.51
ACGTcount: A:0.21, C:0.01, G:0.03, T:0.74
Consensus pattern (69 bp):
TTTATTTATTATTATTATATTAGAATTATTTAATTTTTTATTTTTTTATTTTCGTTTTTTATTTT
TATT
Found at i:25847873 original size:14 final size:13
Alignment explanation
Indices: 25847753--25847868 Score: 79
Period size: 14 Copynumber: 8.3 Consensus size: 13
25847743 TTGTTTAATT
25847753 TTTTATTTTTTTA
1 TTTTATTTTTTTA
**
25847766 TTTTCGTTTTTTA
1 TTTTATTTTTTTA
*
25847779 TTTTTATTTTTATTT
1 -TTTTATTTTT-TTA
* *
25847794 TTTTATTATTATA
1 TTTTATTTTTTTA
* *
25847807 TTATAATTATTTAATA
1 TT-TTATT-TTT-TTA
25847823 TTTTTATTTTTTTA
1 -TTTTATTTTTTTA
**
25847837 TTTTCGTTTTTTA
1 TTTTATTTTTTTA
25847850 TTTTTATTTATTTTA
1 -TTTTATTT-TTTTA
25847865 TTTT
1 TTTT
25847869 CTTTAAATAA
Statistics
Matches: 79, Mismatches: 16, Indels: 15
0.72 0.15 0.14
Matches are distributed among these distances:
13 25 0.32
14 33 0.42
15 12 0.15
16 7 0.09
17 2 0.03
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:25848052 original size:117 final size:114
Alignment explanation
Indices: 25847938--25848371 Score: 511
Period size: 117 Copynumber: 3.7 Consensus size: 114
25847928 GGGTTTTGAG
*
25847938 GAAAAGTTGAAAGTATCAATTTT-CTTCGAAATTAAAAGTTTTCAAAAAATATTTTTG-GAAAAA
1 GAAAAGTTGAAAGTATCAATTTTCCTT--AAA-TAAAA-TTTTC-AAAAATATTTTTGAG-GAAA
*
25848001 AATTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAATATTTTT-GGA
60 AGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAATATTTTTGGGA
* * *
25848055 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAGATTTTGAGGAAAAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAATA-AAATTTTC--AAAAATA-TTTTTGAGGAAAAG
*
25848120 TTGAAAGTATCAATTTTCATCGAAATTAAAGTTTTCAAAAAATATTTTTGGG-
62 TTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAATATTTTTGGGA
* ***
25848172 GAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAATTTTCAAAGGGATTTTTGAGGAAAAGTTG
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAATA-AAATTTTCAAAAATATTTTTGAGGAAAAGTTG
* * * * *
25848237 AAAGTATTAAATTTCCTTGAAAAT-AAGCTTTCCACAAAAAAAATATTTTTGGGA
65 AAAGTATCAATTTTCCTCGAAATTAAAG-TTT--TC--AAAAAATATTTTTGGGA
25848291 GAAAAGTTGAAAGTATCAATTTTCCTTAAA-AATAAGTTTTCAAAAATGAATTTTTGAGGAAAAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAATAA-AA-TTTTCAAAAAT--ATTTTTGAGGAAAAG
25848355 TTGAAAGTATCAATTTT
62 TTGAAAGTATCAATTTT
25848372 TCCTGCACAA
Statistics
Matches: 279, Mismatches: 22, Indels: 28
0.85 0.07 0.09
Matches are distributed among these distances:
113 3 0.01
114 38 0.14
115 10 0.04
116 14 0.05
117 121 0.43
118 25 0.09
119 38 0.14
121 30 0.11
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (114 bp):
GAAAAGTTGAAAGTATCAATTTTCCTTAAATAAAATTTTCAAAAATATTTTTGAGGAAAAGTTGA
AAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAATATTTTTGGGA
Found at i:25848375 original size:59 final size:57
Alignment explanation
Indices: 25847931--25848371 Score: 471
Period size: 58 Copynumber: 7.5 Consensus size: 57
25847921 AAAAAAAGGG
25847931 TTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAATTAA-AAGTTTTCAAAAAATAT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT--AAA--AATAAGTTTTCAAAAAATAT
* * ** *
25847990 TTTTG-GAAAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAATAT
1 TTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAGTTTTCAAAAAATAT
* * *
25848048 TTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAGA
1 TTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTC-AAAAAATA-T
* ** *
25848107 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCATCGAAATTAAAGTTTTCAAAAAATAT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAGTTTTCAAAAAATAT
* * * ***
25848165 TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAATTTTC-AAAGGGAT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAAATAT
* * * *
25848221 TTTTGAGGAAAAGTTGAAAGTATTAAATTTCCTTGAAAATAAGCTTTCCACAAAAAAAATAT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTT--TC--AAAAAATAT
*
25848283 TTTTGGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTC-AAAAATGAAT
1 TTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAAAT--AT
25848342 TTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTT
25848372 TCCTGCACAA
Statistics
Matches: 319, Mismatches: 46, Indels: 35
0.80 0.12 0.09
Matches are distributed among these distances:
56 43 0.13
57 23 0.07
58 119 0.37
59 76 0.24
60 11 0.03
62 14 0.04
63 33 0.10
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.35
Consensus pattern (57 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAAATAT
Found at i:25852276 original size:12 final size:12
Alignment explanation
Indices: 25852246--25852292 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
25852236 AATGAGAAAA
25852246 AGAAAAAAAGATG
1 AGAAAAAAAGA-G
*
25852259 ATGAAAAAAATAG
1 A-GAAAAAAAGAG
*
25852272 AGAAAAAAAGAA
1 AGAAAAAAAGAG
25852284 AGAAAAAAA
1 AGAAAAAAA
25852293 ATGAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 18 0.60
13 3 0.10
14 9 0.30
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (12 bp):
AGAAAAAAAGAG
Found at i:25854055 original size:41 final size:41
Alignment explanation
Indices: 25854006--25854291 Score: 323
Period size: 41 Copynumber: 7.0 Consensus size: 41
25853996 AAGTTCCGTT
25854006 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGGTG
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGGTG
* * * *
25854047 CCTTTGTTTAGATGAGCAATTTATTTTTCAAAGTTTCAT--TA
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG--TCATGGTG
*
25854088 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGGTG
* * * * *
25854129 TCTTTATTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTG
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGGTG
* *
25854170 CCTCTATTTAAAGGAGCAATTTA-TTTTCTAAAGT-AGTGGTTG
1 CCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCA-TGG-TG
* **
25854212 CCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTGTGGTG
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGGTG
* **
25854253 CCTCTGTTTAGAGGAG-TATTTA-TTTTTGAAGTCATGGTG
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGGTG
25854292 TTTCTGCTTA
Statistics
Matches: 211, Mismatches: 25, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.08
40 10 0.05
41 144 0.68
42 32 0.15
43 9 0.04
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.41
Consensus pattern (41 bp):
CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGGTG
Found at i:25854119 original size:82 final size:81
Alignment explanation
Indices: 25853983--25854291 Score: 360
Period size: 82 Copynumber: 3.8 Consensus size: 81
25853973 GTCAATAAGT
* *
25853983 AATTTATTTTCCAAAGTTCCGTT-CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGGTG
1 AATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCAAAGTCATGGTG
* *
25854047 CCTTTGTTTAGATGAGC
65 CCTTTATTTAGAGGAGC
* * *
25854064 AATTTATTTTTCAAAGTTTCATTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
1 AATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCAAAGTCATGGTG
*
25854129 TCTTTATTTAGAGGAGC
65 CCTTTATTTAGAGGAGC
* *
25854146 AATTTATTTTTCAAAG--TCGTGGTGCCTCTATTTAAAGGAGCAATTTATTTTCTAAAGT-AGTG
1 AATTTATTTTTCAAAGTTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTC-AAAGTCA-TG
*
25854208 GTTGCCTCTATTTAGAGGAGC
62 G-TGCCTTTATTTAGAGGAGC
* * * **
25854229 AATTTACTTTTCAAAGTTGT-GGTGCCTCTGTTTAGAGGAG-TATTTATTTTTGAAGTCATGGTG
1 AATTTATTTTTCAAAGTT-TCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTCAAAGTCATGGTG
25854292 TTTCTGCTTA
Statistics
Matches: 197, Mismatches: 21, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
80 5 0.03
81 32 0.16
82 110 0.56
83 48 0.24
85 1 0.01
86 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.42
Consensus pattern (81 bp):
AATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTCAAAGTCATGGTGC
CTTTATTTAGAGGAGC
Found at i:25854203 original size:123 final size:124
Alignment explanation
Indices: 25854006--25854291 Score: 373
Period size: 123 Copynumber: 2.3 Consensus size: 124
25853996 AAGTTCCGTT
* * * * * *
25854006 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGGTGCCTTTGTTTAGATGAGCAATTTAT
1 CCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTATTTAAAGGAGCAATTTAT
* *
25854071 TTTTCAAAGT-TTCATTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
66 TTTTCAAAGTAGTCATTACCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
* * *
25854129 TCTTTATTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTATTTAAAGGAGCAATTTA-
1 CCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTATTTAAAGGAGCAATTTAT
** * *
25854193 TTTTCTAAAGTAGTGGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTGTGGTG
66 TTTTC-AAAGTAGTCATTACCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
* * *
25854253 CCTCTGTTTAGAGGAG-TATTTATTTTT-GAAGTCATGGTG
1 CCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTCATGGTG
25854292 TTTCTGCTTA
Statistics
Matches: 140, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
122 15 0.11
123 70 0.50
124 55 0.39
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.41
Consensus pattern (124 bp):
CCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTATTTAAAGGAGCAATTTAT
TTTTCAAAGTAGTCATTACCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
Found at i:25854450 original size:42 final size:42
Alignment explanation
Indices: 25854391--25854532 Score: 176
Period size: 42 Copynumber: 3.3 Consensus size: 42
25854381 AAAAAATTTA
25854391 CCTCTGATTAGAGGAGCCTTTTATTTTCCAAAAGTCGTTGAG
1 CCTCTGATTAGAGGAGCCTTTTATTTTCCAAAAGTCGTTGAG
*
25854433 CCTCTGATTAGAGGAGCCATTTATTTTCCAAAAAGTCGTTGAG
1 CCTCTGATTAGAGGAGCCTTTTATTTTCC-AAAAGTCGTTGAG
** ** * **
25854476 CCTCTGATTAGAATAGTTTTGTTTATTTTTCAAAAGTATTTGAG
1 CCTCTGATTAGAGGAG-CCT-TTTATTTTCCAAAAGTCGTTGAG
*
25854520 CCTCTGATCAGAG
1 CCTCTGATTAGAG
25854533 AAGTTTTGTT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 28 0.33
43 27 0.31
44 22 0.26
45 9 0.10
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (42 bp):
CCTCTGATTAGAGGAGCCTTTTATTTTCCAAAAGTCGTTGAG
Found at i:25854526 original size:44 final size:45
Alignment explanation
Indices: 25854410--25854545 Score: 138
Period size: 44 Copynumber: 3.1 Consensus size: 45
25854400 AGAGGAGCCT
* * * ***
25854410 TTTATTTTCC-AAAAGTCGTTGAGCCTCTGATTAGAGGAG--CCA
1 TTTATTTTCCAAAAAGTAGTTGAGCCTCTGATCAGAGAAGTTTTG
* *
25854452 TTTATTTTCCAAAAAGTCGTTGAGCCTCTGATTAGA-ATAGTTTTG
1 TTTATTTTCCAAAAAGTAGTTGAGCCTCTGATCAGAGA-AGTTTTG
* *
25854497 TTTATTTTTC-AAAAGTATTTGAGCCTCTGATCAGAGAAGTTTTG
1 TTTATTTTCCAAAAAGTAGTTGAGCCTCTGATCAGAGAAGTTTTG
25854541 TTTAT
1 TTTAT
25854546 GTTCTTTAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
42 10 0.12
43 27 0.33
44 34 0.42
45 10 0.12
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.41
Consensus pattern (45 bp):
TTTATTTTCCAAAAAGTAGTTGAGCCTCTGATCAGAGAAGTTTTG
Found at i:25854583 original size:45 final size:44
Alignment explanation
Indices: 25854410--25854585 Score: 171
Period size: 45 Copynumber: 4.0 Consensus size: 44
25854400 AGAGGAGCCT
* * ***
25854410 TTTATTTTCCAAAAGTCGTTGAGCCTCTGATTAGAGGAG--CCA
1 TTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGAAGTTTTG
*
25854452 TTTATTTTCCAAAAAGTCGTTGAGCCTCTGATTAGA-ATAGTTTTG
1 TTTATTTTTC-AAAAGTCGTTGAGCCTCTGATTAGAGA-AGTTTTG
** *
25854497 TTTATTTTTCAAAAGTATTTGAGCCTCTGATCAGAGAAGTTTTG
1 TTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGAAGTTTTG
* * * *
25854541 TTTATGTTCTT-TAAAGTCGTTAAGCCTCTGCTTAGAGGAGTTTTG
1 TTTAT-TT-TTCAAAAGTCGTTGAGCCTCTGATTAGAGAAGTTTTG
25854586 ATTAAATTTT
Statistics
Matches: 112, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
42 10 0.09
43 27 0.24
44 34 0.30
45 39 0.35
46 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (44 bp):
TTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGAAGTTTTG
Found at i:25854881 original size:40 final size:44
Alignment explanation
Indices: 25854812--25854912 Score: 120
Period size: 40 Copynumber: 2.3 Consensus size: 44
25854802 CTTAGTTACT
*
25854812 TATTATTTATTATTACTATCTATTAATATATATATT-TTATTT-TC
1 TATT-TTTATTATTA-TATCTATTAATATACATATTATTATTTATC
* *
25854856 -ATTTTTATTATT-TATCTGTTGATATACATATTATTATTTATC
1 TATTTTTATTATTATATCTATTAATATACATATTATTATTTATC
*
25854898 TATTATTATTATTAT
1 TATTTTTATTATTAT
25854913 TATTATTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
40 17 0.35
41 6 0.12
42 11 0.22
43 14 0.29
44 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (44 bp):
TATTTTTATTATTATATCTATTAATATACATATTATTATTTATC
Found at i:25854892 original size:3 final size:3
Alignment explanation
Indices: 25854884--25854919 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
25854874 TTGATATACA
25854884 TAT TAT TATT TAT CTAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TAT T
25854920 TATCTATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 25 0.81
4 6 0.19
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:25854911 original size:46 final size:44
Alignment explanation
Indices: 25854812--25854974 Score: 108
Period size: 46 Copynumber: 3.7 Consensus size: 44
25854802 CTTAGTTACT
* *
25854812 TATTATTTATTATTA-CTATCTATTAATATATATATTTTATTTTC
1 TATTA-TTATTATTATTTATCTATTAATATACATATTTTATTTTC
* *
25854856 -A-T-TT-TTATTATTTATCTGTTGATATACATATTATTATTTATC
1 TATTATTATTATTATTTATCTATTAATATACATATT-TTATTT-TC
*
25854898 TATTATTATTATTA-TTAT-TATTTATCTATTA-ATAGTTTTATTTATC
1 TATTATTATTATTATTTATCTA-TTA-ATA-TACATA-TTTTATTT-TC
* * **
25854944 TAATTATTTTTTTTGGTTATCTATTAATATA
1 T-ATTATTATTATTATTTATCTATTAATATA
25854975 TTTATCTTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
39 6 0.06
40 19 0.20
41 6 0.06
42 3 0.03
43 2 0.02
44 2 0.02
45 8 0.09
46 23 0.24
47 16 0.17
48 7 0.07
49 2 0.02
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (44 bp):
TATTATTATTATTATTTATCTATTAATATACATATTTTATTTTC
Found at i:25854938 original size:26 final size:26
Alignment explanation
Indices: 25854811--25854939 Score: 92
Period size: 26 Copynumber: 5.1 Consensus size: 26
25854801 TCTTAGTTAC
*
25854811 TTATTATTTAT-TATTACTATCTATTA
1 TTATTATTTATCTATTAATAT-TATTA
* * * *
25854837 ATA-TATATAT-T-TT-ATTTTCATTT
1 TTATTATTTATCTATTAATATT-ATTA
* * *
25854860 TTATTATTTATCTGTTGATA-TACATA
1 TTATTATTTATCTATTAATATTA-TTA
*
25854886 TTATTATTTATCTATTATTATTATTA
1 TTATTATTTATCTATTAATATTATTA
25854912 TTATTATTTATCTATTAATAGTT-TTA
1 TTATTATTTATCTATTAATA-TTATTA
25854938 TT
1 TT
25854940 TATCTAATTA
Statistics
Matches: 80, Mismatches: 15, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
22 1 0.01
23 7 0.09
24 8 0.10
25 9 0.11
26 49 0.61
27 6 0.08
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
TTATTATTTATCTATTAATATTATTA
Found at i:25854956 original size:20 final size:19
Alignment explanation
Indices: 25854887--25854969 Score: 55
Period size: 20 Copynumber: 4.3 Consensus size: 19
25854877 ATATACATAT
* *
25854887 TATTATTTATCTA-TTAT-
1 TATTATTTTTTTATTTATC
*
25854904 TATTATTATTATTATTTATC
1 TATTATT-TTTTTATTTATC
**
25854924 TATTAATAGTTTTATTTATC
1 TATT-ATTTTTTTATTTATC
25854944 TAATTATTTTTTT-TGGTTATC
1 T-ATTATTTTTTTAT--TTATC
25854965 TATTA
1 TATTA
25854970 ATATATTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
17 7 0.14
18 3 0.06
19 5 0.10
20 25 0.49
21 11 0.22
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.64
Consensus pattern (19 bp):
TATTATTTTTTTATTTATC
Found at i:25855304 original size:4 final size:4
Alignment explanation
Indices: 25855295--25855324 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
25855285 TCCCAGGTTT
25855295 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
25855325 ATTATATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:25855332 original size:8 final size:7
Alignment explanation
Indices: 25855295--25855392 Score: 64
Period size: 8 Copynumber: 14.0 Consensus size: 7
25855285 TCCCAGGTTT
25855295 TTTATTTA
1 TTTA-TTA
25855303 TTTATTTA
1 TTTA-TTA
25855311 TTTATTTA
1 TTTA-TTA
25855319 TTTATTA
1 TTTATTA
25855326 TTATATTA
1 TT-TATTA
** *
25855334 -GGATTG
1 TTTATTA
25855340 TTTAATT-
1 TTT-ATTA
25855347 TTT-TTA
1 TTTATTA
*
25855353 TTTTTTA
1 TTTATTA
25855360 TTT-TTA
1 TTTATTA
25855366 TTT-TTA
1 TTTATTA
25855372 TTT-TTA
1 TTTATTA
25855378 TTTATTA
1 TTTATTA
25855385 TTATATTA
1 TT-TATTA
25855393 GAATTGTTTA
Statistics
Matches: 78, Mismatches: 5, Indels: 14
0.80 0.05 0.14
Matches are distributed among these distances:
5 2 0.03
6 24 0.31
7 19 0.24
8 33 0.42
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:25855363 original size:6 final size:6
Alignment explanation
Indices: 25855347--25855452 Score: 70
Period size: 6 Copynumber: 16.5 Consensus size: 6
25855337 TTGTTTAATT
* ***
25855347 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTTA TTTATTA -TTATA TTAGAA
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA
* **
25855396 TTGTTTAA TATTTTA TTTTATT TTTTTA TTTTCG TTTTTAA TTTTTTA
1 TT-TTT-A T-TTTTA TTTT-TA TTTTTA TTTTTA TTTTT-A -TTTTTA
25855444 TTTTTA TTT
1 TTTTTA TTT
25855453 ATTTTATTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
5 2 0.03
6 48 0.62
7 17 0.22
8 10 0.13
9 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.03, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:25855365 original size:13 final size:13
Alignment explanation
Indices: 25855347--25855462 Score: 76
Period size: 13 Copynumber: 8.3 Consensus size: 13
25855337 TTGTTTAATT
25855347 TTTTTATTTTTTA
1 TTTTTATTTTTTA
25855360 TTTTTA-TTTTTA
1 TTTTTATTTTTTA
*
25855372 TTTTTATTTATTA
1 TTTTTATTTTTTA
*
25855385 TTATATTAGAATTGTTTAA
1 TT-T-TT---ATT-TTTTA
25855404 TATTTTATTTTATT-
1 T-TTTTATTTT-TTA
*
25855418 TTTTTATTTTCGT-
1 TTTTTATTTT-TTA
*
25855431 TTTTAATTTTTTA
1 TTTTTATTTTTTA
25855444 TTTTTATTTATTTTA
1 TTTTTA-TT-TTTTA
25855459 TTTT
1 TTTT
25855463 CTTTAAATAA
Statistics
Matches: 82, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
12 13 0.16
13 37 0.45
14 6 0.07
15 15 0.18
18 5 0.06
19 5 0.06
20 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.03, T:0.76
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:25855368 original size:59 final size:58
Alignment explanation
Indices: 25855292--25855427 Score: 186
Period size: 59 Copynumber: 2.3 Consensus size: 58
25855282 CATTCCCAGG
* *
25855292 TTTTTTATTTATTTATTTATT-TATTTATTTATTATTATATTAGGATTGTTTAATTTTTTTA
1 TTTTTTA-TT-TTTATTT-TTATATTTATTTATTATTATATTAGAATTGTTTAA-TATTTTA
*
25855353 TTTTTTATTTTTATTTTTATTTTTATTTATTATTATATTAGAATTGTTTAATATTTTA
1 TTTTTTATTTTTATTTTTATATTTATTTATTATTATATTAGAATTGTTTAATATTTTA
25855411 TTTTATT-TTTTTATTTT
1 TTTT-TTATTTTTATTTT
25855428 CGTTTTTAAT
Statistics
Matches: 70, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
58 22 0.31
59 39 0.56
60 2 0.03
61 7 0.10
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (58 bp):
TTTTTTATTTTTATTTTTATATTTATTTATTATTATATTAGAATTGTTTAATATTTTA
Found at i:25855391 original size:12 final size:11
Alignment explanation
Indices: 25855295--25855388 Score: 58
Period size: 12 Copynumber: 8.7 Consensus size: 11
25855285 TCCCAGGTTT
25855295 TTTATTTATTTA
1 TTTA-TTATTTA
25855307 TTTATTTATTTA
1 TTTA-TTATTTA
25855319 TTTATTATTATA
1 TTTATTATT-TA
* *
25855331 TTAGGATTGTTTA
1 TT--TATTATTTA
*
25855344 ATT-TT-TTTA
1 TTTATTATTTA
*
25855353 TTTTTTA-TT-
1 TTTATTATTTA
25855362 TTTATT-TTTA
1 TTTATTATTTA
25855372 TTT-TTATTTA
1 TTTATTATTTA
25855382 -TTATTAT
1 TTTATTAT
25855389 ATTAGAATTG
Statistics
Matches: 67, Mismatches: 6, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
9 17 0.25
10 17 0.25
11 5 0.07
12 20 0.30
13 3 0.04
14 5 0.07
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:25855417 original size:34 final size:31
Alignment explanation
Indices: 25855315--25855413 Score: 102
Period size: 25 Copynumber: 3.2 Consensus size: 31
25855305 TATTTATTTA
25855315 TTTATTTATTATTATATTAGGATTGTTTAATTTT
1 TTTATTTATTATTATATTA-GATTGTTTAA--TT
*
25855349 TTTATTTTTTATT-T-TT--ATT-TTT-ATT
1 TTTATTTATTATTATATTAGATTGTTTAATT
25855374 TTTATTTATTATTATATTAGAATTGTTTAATAT
1 TTTATTTATTATTATATTAG-ATTGTTTAAT-T
25855407 TTTATTT
1 TTTATTT
25855414 TATTTTTTTA
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
25 14 0.25
26 1 0.02
27 3 0.05
28 3 0.05
29 3 0.05
30 3 0.05
31 3 0.05
32 4 0.07
33 9 0.16
34 12 0.22
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (31 bp):
TTTATTTATTATTATATTAGATTGTTTAATT
Found at i:25855448 original size:15 final size:15
Alignment explanation
Indices: 25855408--25855462 Score: 62
Period size: 14 Copynumber: 3.8 Consensus size: 15
25855398 GTTTAATATT
25855408 TTATTTTATTTTT--
1 TTATTTTATTTTTAA
*
25855421 TTATTTTCGTTTTTAA
1 TTATTTT-ATTTTTAA
*
25855437 TT-TTTTATTTTTAT
1 TTATTTTATTTTTAA
25855451 TTATTTTATTTT
1 TTATTTTATTTT
25855463 CTTTAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 7 0.20
14 13 0.37
15 13 0.37
16 2 0.06
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (15 bp):
TTATTTTATTTTTAA
Found at i:25855666 original size:119 final size:115
Alignment explanation
Indices: 25855519--25856019 Score: 464
Period size: 119 Copynumber: 4.3 Consensus size: 115
25855509 AAAAAAAGGG
*
25855519 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAAGTTTTCAAAAAATATTTTTGG
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTTT-GAAATT-AAAGTTTTCAAAAAATATTTTTGA
* *
25855584 GGAAAAGTTAAAAGTATCAATTTTCTTTAAAAATAAA-TTTTCAAAAAAGGTTTT
64 GGAAAAGTTAAAAGTATCAATTTTCTTCAAAATTAAAGTTTTCAAAAAA---TTT
* * * * *
25855638 TTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTGTCCAAAAAATATTTTTGGG
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTT-TTGAAATTAAAGTTTTCAAAAAATATTTTTGAG
* * * *
25855703 GAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAAGTTTCCAAAAAATAT
65 GAAAAGTTAAAAGTATCAATTTTCTTCAAAATT-AAAGTTTTCAAAAAATTT
* * * * * * *
25855755 TTTTG-GAAAAAAGTTTAAAGTATCAATTTTCCTTAAAAATAAA-TTTTCAAAAAAAAAAAGATT
1 TTTTGAG-GAAAAGTTGAAAGTATCAATTTT-TTTGAAATTAAAGTTTTC---AAAAAATA-TTT
** * * *
25855818 TTGAAAAAAAGTTAAAAGTATCAGTTTT-TCTCGAAATTAAAGTTTTCAAAAAATAT
60 TTGAGGAAAAGTTAAAAGTATCAATTTTCT-TCAAAATTAAAGTTTTCAAAAAATTT
* *
25855874 TTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAGTTTTC-AAAAATGAATTTTT
1 TTTTGAGG-AAAAGTTGAAAGTATCAATTTTT-TTGAAATTAAAGTTTTCAAAAAAT--ATTTTT
* * * *
25855936 GAGGAAAAGTTGAAAGTATCAATTTT-TCTCGAAATTAAAG-TTTCAAAAGTATAT
62 GAGGAAAAGTTAAAAGTATCAATTTTCT-TCAAAATTAAAGTTTTCAAAA-AATTT
*
25855990 TTTTG-GGAAAAAATTGAAAGTATCAATTTT
1 TTTTGAGG-AAAAGTTGAAAGTATCAATTTT
25856020 CCTGCACAAA
Statistics
Matches: 326, Mismatches: 40, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
115 13 0.04
116 77 0.24
117 36 0.11
118 54 0.17
119 103 0.32
120 43 0.13
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (115 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTGAAATTAAAGTTTTCAAAAAATATTTTTGAGG
AAAAGTTAAAAGTATCAATTTTCTTCAAAATTAAAGTTTTCAAAAAATTT
Found at i:25855720 original size:58 final size:58
Alignment explanation
Indices: 25855519--25856019 Score: 519
Period size: 58 Copynumber: 8.5 Consensus size: 58
25855509 AAAAAAAGGG
* * *
25855519 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAAGTTTTCAAAAAATAT
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATT-AAAGTTTTCAAAAAATAT
* * * *
25855578 TTTTGGGGAAAAGTTAAAAGTATCAA-TTTTCTTTAAAAATAAA-TTTTCAAAAAAGGTTTT
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTC-TCAAAATTAAAGTTTTCAAAAAA---TAT
** * * *
25855638 TTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTGTCCAAAAAATAT
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTTCAAAAAATAT
* *
25855696 TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAAGTTTCCAAAAAATAT
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATT-AAAGTTTTCAAAAAATAT
** * * * * * *
25855755 TTTTGGAAAAAAGTTTAAAGTATCAATTTTCCTTAAAAATAAA-TTTTCAAAAAAAAAAAGA
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTTC---AAAAAATA-T
*** * * *
25855816 TTTTGAAAAAAAGTTAAAAGTATCAGTTTTTCTCGAAATTAAAGTTTTCAAAAAATAT
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTTCAAAAAATAT
* * *
25855874 TTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAGTTTTC-AAAAATGAAT
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTTCAAAAAAT--AT
* * *
25855932 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG-TTTCAAAAGTATAT
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTTCAAAA-AATAT
* *
25855990 TTTTGGGAAAAAATTGAAAGTATCAATTTT
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTT
25856020 CCTGCACAAA
Statistics
Matches: 371, Mismatches: 54, Indels: 35
0.81 0.12 0.08
Matches are distributed among these distances:
56 6 0.02
57 23 0.06
58 151 0.41
59 94 0.25
60 42 0.11
61 50 0.13
62 5 0.01
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (58 bp):
TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTTCAAAAAATAT
Found at i:25855884 original size:177 final size:176
Alignment explanation
Indices: 25855519--25855961 Score: 579
Period size: 177 Copynumber: 2.5 Consensus size: 176
25855509 AAAAAAAGGG
* *
25855519 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAAGTTTTCAAAAAATATTTTTGG
1 TTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAAGTTTTCAAAAAATATTTTTGG
* * ****** * **
25855584 GGAAAAGTTAAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAAAGGTTTTTTTTTAGGAAA
65 AGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGATTTTGAAAAAA
*
25855649 AGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTGTCCAAAAAATAT
130 AGTTAAAAGTATCAATTTTTCTCGAAATTAAAGTGTCCAAAAAATAT
* *
25855696 TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAAGTTTCCAAAAAATATTTTTGG
1 TTTT-GGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAAGTTTTCAAAAAATATTTTTGG
* *
25855761 AAAAAAGTTTAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAAAGATTTTGAAAAA
65 AGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAAAAAAAGATTTTGAAAAA
* * *
25855826 AAGTTAAAAGTATCAGTTTTTCTCGAAATTAAAGTTTTCAAAAAATAT
129 AAGTTAAAAGTATCAATTTTTCTCGAAATTAAAGTGTCCAAAAAATAT
* *
25855874 TTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAA--ATAAGTTTTC-AAAAATGAATTTTT
1 TTTTGGG-AAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAAGTTTTCAAAAAAT--ATTTTT
*
25855936 -GAGGAAAAGTTGAAAGTATCAATTTT
63 GGA-GAAAAGTTAAAAGTATCAATTTT
25855962 TCTCGAAATT
Statistics
Matches: 233, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
175 6 0.03
176 10 0.04
177 127 0.55
178 90 0.39
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.37
Consensus pattern (176 bp):
TTTTGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAAGTTTTCAAAAAATATTTTTGGA
GAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGATTTTGAAAAAAA
GTTAAAAGTATCAATTTTTCTCGAAATTAAAGTGTCCAAAAAATAT
Found at i:25856621 original size:22 final size:22
Alignment explanation
Indices: 25856596--25856640 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
25856586 TCTCATTTTT
* *
25856596 ATTACTTATTCTTAATTTATTA
1 ATTAATTATTATTAATTTATTA
* *
25856618 ATTAATTTTTATTATTTTATTA
1 ATTAATTATTATTAATTTATTA
25856640 A
1 A
25856641 AGAAAAGAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTAATTATTATTAATTTATTA
Found at i:25857518 original size:10 final size:9
Alignment explanation
Indices: 25857503--25857528 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25857493 CCAAAATGGC
25857503 TTTTTTTAT
1 TTTTTTTAT
25857512 TTTTTTTAT
1 TTTTTTTAT
25857521 TTTTTTTA
1 TTTTTTTA
25857529 CAGGCTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:25865367 original size:20 final size:20
Alignment explanation
Indices: 25865342--25865413 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
25865332 TTCAACAGAC
*
25865342 ATAATAATAACAAAACTCAA
1 ATAATAAAAACAAAACTCAA
* *
25865362 ATAATAAAAACAAAATTAAA
1 ATAATAAAAACAAAACTCAA
* * *
25865382 AGATTAATAACAAAACTCAA
1 ATAATAAAAACAAAACTCAA
25865402 ATAATAAAAACA
1 ATAATAAAAACA
25865414 CAATTAAAAG
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.68, C:0.11, G:0.01, T:0.19
Consensus pattern (20 bp):
ATAATAAAAACAAAACTCAA
Found at i:25865390 original size:40 final size:40
Alignment explanation
Indices: 25865346--25865426 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
25865336 ACAGACATAA
25865346 TAATAACAAAACTCAAATAATAAAAACAAAATTAAAAGAT
1 TAATAACAAAACTCAAATAATAAAAACAAAATTAAAAGAT
*
25865386 TAATAACAAAACTCAAATAATAAAAACACAATTAAAAGAT
1 TAATAACAAAACTCAAATAATAAAAACAAAATTAAAAGAT
25865426 T
1 T
25865427 TAAGGCATGA
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:0.65, C:0.11, G:0.02, T:0.21
Consensus pattern (40 bp):
TAATAACAAAACTCAAATAATAAAAACAAAATTAAAAGAT
Found at i:25866272 original size:2 final size:2
Alignment explanation
Indices: 25866257--25866290 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
25866247 AATTGAGATA
25866257 AT AT A- AT A- 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
25866291 CCAAGTTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.