Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010487.1 Kokia drynarioides strain JFW-HI SEQ_125393, 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: 96395
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Warning! 15 characters in sequence are not A, C, G, or T
Found at i:78 original size:2 final size:2
Alignment explanation
Indices: 73--112 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
63 TTAATATTAG
73 TA 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 TA
113 AAAGAATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:673 original size:3 final size:3
Alignment explanation
Indices: 665--691 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
655 AATTGTGTAA
665 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
692 TTTGTAGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2513 original size:23 final size:23
Alignment explanation
Indices: 2487--2548 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
2477 TTCATTTAAC
**
2487 TTAATTGAACATGTTCACGAGCA
1 TTAATTGAACATGTTCACGAAAA
** * *
2510 TTAAACGAATATGTTCATGAAAA
1 TTAATTGAACATGTTCACGAAAA
2533 TATAATTGAACATGTT
1 T-TAATTGAACATGTT
2549 TCATGAACAT
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (23 bp):
TTAATTGAACATGTTCACGAAAA
Found at i:4939 original size:33 final size:32
Alignment explanation
Indices: 4879--4943 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
4869 AATGTAATTT
*
4879 ATATTATATAAAATTAAATATATAATAATATA
1 ATATTATATAAAATTAAACATATAATAATATA
*
4911 ATATTATGTAAATATTAAACAT-TAAATAATATA
1 ATATTATATAAA-ATTAAACATAT-AATAATATA
4944 TAGTTGTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (32 bp):
ATATTATATAAAATTAAACATATAATAATATA
Found at i:6368 original size:32 final size:32
Alignment explanation
Indices: 6331--6395 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
6321 GCATGTATAG
*
6331 AAGGATCATGATCAAAGTTTGCTATGAGTATT
1 AAGGATCATGATCAAAGCTTGCTATGAGTATT
* *
6363 AAGGATTATGATCAAAGCTTGCTATGATTATT
1 AAGGATCATGATCAAAGCTTGCTATGAGTATT
6395 A
1 A
6396 TTGGAACTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (32 bp):
AAGGATCATGATCAAAGCTTGCTATGAGTATT
Found at i:7217 original size:23 final size:24
Alignment explanation
Indices: 7151--7218 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
7141 AAAAAATACC
*
7151 CTCTCTTCTACTCTATTATTTATTG
1 CTCTCTTCTACTCTATTA-TTATCG
* * * *
7176 ATCTCTTTTAATCTTTTATTA-CG
1 CTCTCTTCTACTCTATTATTATCG
7199 CTCTCTTCTACTCTATTATT
1 CTCTCTTCTACTCTATTATT
7219 TACCCTCTAT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 17 0.50
24 3 0.09
25 14 0.41
ACGTcount: A:0.18, C:0.24, G:0.03, T:0.56
Consensus pattern (24 bp):
CTCTCTTCTACTCTATTATTATCG
Found at i:7463 original size:22 final size:22
Alignment explanation
Indices: 7438--7479 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7428 TTGAATAAAG
* *
7438 TTATTTTACTTTTAAAAAAAAA
1 TTATGTTACATTTAAAAAAAAA
*
7460 TTATGTTCCATTTAAAAAAA
1 TTATGTTACATTTAAAAAAA
7480 TAATAATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (22 bp):
TTATGTTACATTTAAAAAAAAA
Found at i:13387 original size:27 final size:26
Alignment explanation
Indices: 13332--13387 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
13322 TTGACTCGAC
* *
13332 TTAATTTTATATTTTTGTAATATATT
1 TTAATTTTATATTTTTATAATATAAT
13358 TTAATTTTA-ATTGTTATATAATATAAT
1 TTAATTTTATATT-TT-TATAATATAAT
13385 TTA
1 TTA
13388 TATCACATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 3 0.12
26 11 0.42
27 12 0.46
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (26 bp):
TTAATTTTATATTTTTATAATATAAT
Found at i:13690 original size:29 final size:30
Alignment explanation
Indices: 13646--13702 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
13636 TAAGTTTTTT
*
13646 TTTTTTTAATTCAATTAGGTACTTAAATAA
1 TTTTTTTAATTCAATTAGGTACATAAATAA
* *
13676 TTTTTTT-ATTTAATTTGGTACATAAAT
1 TTTTTTTAATTCAATTAGGTACATAAAT
13703 TTGATCTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.54
Consensus pattern (30 bp):
TTTTTTTAATTCAATTAGGTACATAAATAA
Found at i:16374 original size:44 final size:45
Alignment explanation
Indices: 16326--16424 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
16316 GTTGTAATGA
* * *
16326 ACATTTGCTACTGTTTTTGTTGAGT-AAATGTCGCATATGTGTGC
1 ACATTTGCTACTGCTTTTGTAGAGTAAAATGCCGCATATGTGTGC
** *
16370 ACATTTTGCTGTTGCTTTTGTAGAGTAAAATGCCGTATATGTGTGC
1 ACA-TTTGCTACTGCTTTTGTAGAGTAAAATGCCGCATATGTGTGC
*
16416 ACTTTTGCT
1 ACATTTGCT
16425 GCTTTTGGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
44 3 0.07
45 24 0.52
46 19 0.41
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.43
Consensus pattern (45 bp):
ACATTTGCTACTGCTTTTGTAGAGTAAAATGCCGCATATGTGTGC
Found at i:16389 original size:45 final size:45
Alignment explanation
Indices: 16340--16425 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
16330 TTGCTACTGT
* *
16340 TTTTGTTGAGT-AAATGTCGCATATGTGTGCACATTTTGCTGTTGC
1 TTTTGTAGAGTAAAATGCCGCATATGTGTGCAC-TTTTGCTGTTGC
*
16385 TTTTGTAGAGTAAAATGCCGTATATGTGTGCACTTTTGCTG
1 TTTTGTAGAGTAAAATGCCGCATATGTGTGCACTTTTGCTG
16426 CTTTTGGATG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 18 0.49
46 19 0.51
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.43
Consensus pattern (45 bp):
TTTTGTAGAGTAAAATGCCGCATATGTGTGCACTTTTGCTGTTGC
Found at i:17992 original size:31 final size:29
Alignment explanation
Indices: 17949--18028 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
17939 AATCTAAACT
*
17949 TATATATAAATTTTGATTTAATGTGTAATTC
1 TATATATGAATTTTGATTT--TGTGTAATTC
* *
17980 TATATATGAATTTTGATTTTGTTTAATTT
1 TATATATGAATTTTGATTTTGTGTAATTC
18009 TATATATGAAATTTT-ATTTT
1 TATATATG-AATTTTGATTTT
18029 AATCTAATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
29 21 0.47
30 6 0.13
31 18 0.40
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.57
Consensus pattern (29 bp):
TATATATGAATTTTGATTTTGTGTAATTC
Found at i:22563 original size:54 final size:56
Alignment explanation
Indices: 22450--22571 Score: 133
Period size: 54 Copynumber: 2.2 Consensus size: 56
22440 ATTAGTAATT
* * *
22450 ACTCAATTATTAATAATTTTTTTTTATCATCTAACTATAAAAAATTACAAAATGGTC
1 ACTCAATTATTAATAATTTTTTTGTATCATCCAAC-ATAAAAAATTACAAAATGATC
* * * *
22507 ACTCAATTATTAATAAATTTTTTTGT-TCA-CCAA-ATAAAAAGTTATAAATTTATC
1 ACTCAATTATTAAT-AATTTTTTTGTATCATCCAACATAAAAAATTACAAAATGATC
*
22561 ACTCAACTATT
1 ACTCAATTATT
22572 CAATTTATCT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
54 26 0.46
56 3 0.05
57 17 0.30
58 10 0.18
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (56 bp):
ACTCAATTATTAATAATTTTTTTGTATCATCCAACATAAAAAATTACAAAATGATC
Found at i:23602 original size:13 final size:13
Alignment explanation
Indices: 23586--23610 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23576 TCAGCTCCGG
23586 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
23599 TTTTCTTTTTTT
1 TTTTCTTTTTTT
23611 AGGAGAAGCT
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:30440 original size:2 final size:2
Alignment explanation
Indices: 30433--30463 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
30423 ACCTTGAATC
30433 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
30464 ATGATGCCAT
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:33442 original size:24 final size:24
Alignment explanation
Indices: 33414--33461 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
33404 ACAAATCACT
33414 ATCTAAATTAAAAATTAGATGATA
1 ATCTAAATTAAAAATTAGATGATA
33438 ATCTAAATTAAAAATTAGATGATA
1 ATCTAAATTAAAAATTAGATGATA
33462 CGATATCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.33
Consensus pattern (24 bp):
ATCTAAATTAAAAATTAGATGATA
Found at i:38902 original size:15 final size:15
Alignment explanation
Indices: 38882--38912 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38872 TTTTTCCAAT
*
38882 AAAAAAGACAAAGAA
1 AAAAAAAACAAAGAA
38897 AAAAAAAACAAAGAA
1 AAAAAAAACAAAGAA
38912 A
1 A
38913 CCACATTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAACAAAGAA
Found at i:39724 original size:5 final size:5
Alignment explanation
Indices: 39703--39755 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
39693 GAATATAAAA
* * *
39703 TATATT TATATT TATGT TATGT TATGT TATAT TATAT TATAT TAT-T TATAT
1 TATA-T TATA-T TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
39754 TA
1 TA
39756 AAATAAAACA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
4 4 0.09
5 31 0.70
6 9 0.20
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:39729 original size:10 final size:10
Alignment explanation
Indices: 39708--39755 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
39698 TAAAATATAT
39708 TTATATTTATG
1 TTATA-TTATG
*
39719 TTATGTTATG
1 TTATATTATG
*
39729 TTATATTATA
1 TTATATTATG
39739 TTATATTAT-
1 TTATATTATG
39748 TTATATTA
1 TTATATTA
39756 AAATAAAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
9 8 0.24
10 22 0.65
11 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (10 bp):
TTATATTATG
Found at i:39812 original size:11 final size:11
Alignment explanation
Indices: 39773--39820 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
39763 ACAATCATAT
*
39773 TTATATTTTAAA
1 TTATA-TTTATA
* *
39785 TTAAATATATA
1 TTATATTTATA
*
39796 TAATATTTATA
1 TTATATTTATA
39807 TTATATTTATA
1 TTATATTTATA
39818 TTA
1 TTA
39821 AATAATAAGA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
11 25 0.86
12 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTATATTTATA
Found at i:39862 original size:16 final size:16
Alignment explanation
Indices: 39813--39862 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
39803 TATATTATAT
39813 TTATATTAAATAATAAG
1 TTATATTAAATAAT-AG
*
39830 --ATATTAAAATCAT-G
1 TTATATT-AAATAATAG
39844 TTATATTAAATAATAG
1 TTATATTAAATAATAG
39860 TTA
1 TTA
39863 AAATTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
14 1 0.04
15 11 0.41
16 15 0.56
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (16 bp):
TTATATTAAATAATAG
Found at i:40735 original size:48 final size:48
Alignment explanation
Indices: 40680--40778 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
40670 TACCCGCTTT
40680 GACCCCTTAGACCCCATAGTTTGAACAACAAGAGACACCTCACAAGTC
1 GACCCCTTAGACCCCATAGTTTGAACAACAAGAGACACCTCACAAGTC
40728 GACCCCTTAGACCCCATAGTTTGAACAACAAGAGACACCTCACAAGTC
1 GACCCCTTAGACCCCATAGTTTGAACAACAAGAGACACCTCACAAGTC
40776 GAC
1 GAC
40779 GGTATTGTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.35, C:0.33, G:0.15, T:0.16
Consensus pattern (48 bp):
GACCCCTTAGACCCCATAGTTTGAACAACAAGAGACACCTCACAAGTC
Found at i:45326 original size:20 final size:19
Alignment explanation
Indices: 45292--45330 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
45282 GCTGAATTAA
45292 AATTATGTTTAAAATGTTTT
1 AATTATGTTTAAAAT-TTTT
45312 AATTATGATTT-AAATTTTT
1 AATTATG-TTTAAAATTTTT
45331 TTTATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 11 0.61
21 3 0.17
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
AATTATGTTTAAAATTTTT
Found at i:51630 original size:16 final size:16
Alignment explanation
Indices: 51605--51635 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51595 TTTAAAAAGG
*
51605 AAAAAGAAAAGAAAAT
1 AAAAAAAAAAGAAAAT
51621 AAAAAAAAAAGAAAA
1 AAAAAAAAAAGAAAA
51636 ATATACCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAGAAAAT
Found at i:65737 original size:59 final size:57
Alignment explanation
Indices: 65627--65747 Score: 136
Period size: 59 Copynumber: 2.1 Consensus size: 57
65617 ATTTGCCAAG
* * * * *
65627 TTCAATGTCTAACTTGACAAAAAAAGTTTAGACCTCAATGTGGGAATAATTATCAAA
1 TTCAAGGTCTAACTTGACAAAAAAAATTTAAACCTCAATGTGAGAAAAATTATCAAA
* * *
65684 TTCAAGGTCTAATTTGGACAAAAAAAAATTTAAACC-CTAATGTGAGAAAAATTATTAAG
1 TTCAAGGTCTAACTT-GAC-AAAAAAAATTTAAACCTC-AATGTGAGAAAAATTATCAAA
65743 TTCAA
1 TTCAA
65748 ACCTTAAAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
57 13 0.25
58 4 0.08
59 36 0.68
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (57 bp):
TTCAAGGTCTAACTTGACAAAAAAAATTTAAACCTCAATGTGAGAAAAATTATCAAA
Found at i:71428 original size:15 final size:16
Alignment explanation
Indices: 71410--71447 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
71400 AAGATATTTT
71410 AACAAATGAAATTAA-
1 AACAAATGAAATTAAC
*
71425 AACAAAAGAAATTAAC
1 AACAAATGAAATTAAC
71441 AACAAAT
1 AACAAAT
71448 ATAGTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.68, C:0.11, G:0.05, T:0.16
Consensus pattern (16 bp):
AACAAATGAAATTAAC
Found at i:73748 original size:15 final size:15
Alignment explanation
Indices: 73703--73752 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
73693 TCAATGGTAA
*
73703 TTTTTAAAATGTTTAAT
1 TTTTTAATAT-TTT-AT
*
73720 TATTTAAGTATTTTAT
1 TTTTTAA-TATTTTAT
73736 TTTTTAATATTTTAT
1 TTTTTAATATTTTAT
73751 TT
1 TT
73753 ATATATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 10 0.34
16 8 0.28
17 9 0.31
18 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (15 bp):
TTTTTAATATTTTAT
Found at i:74051 original size:21 final size:22
Alignment explanation
Indices: 74008--74051 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
73998 TTTTGAGTAA
*
74008 TTTAATTTTTTTTTTTATGTTCT
1 TTTAATTTTTTTTTTCA-GTTCT
74031 TTTAATTTTTTTTTTCA-TTCT
1 TTTAATTTTTTTTTTCAGTTCT
74052 GATTTGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
23 16 0.80
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTAATTTTTTTTTTCAGTTCT
Found at i:79003 original size:4 final size:4
Alignment explanation
Indices: 78973--79023 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
78963 CTTGACATGA
* * * * *
78973 ATAC AAAC ATGC ATGC ATGC ATTC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
79021 ATA
1 ATA
79024 TACTTGAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:81117 original size:39 final size:39
Alignment explanation
Indices: 81058--81340 Score: 379
Period size: 39 Copynumber: 7.1 Consensus size: 39
81048 AAAAACTGCT
*
81058 GCGGCGACGGTGGCGCCGACAACTGTGGCTGAAATTGCA
1 GCGGAGACGGTGGCGCCGACAACTGTGGCTGAAATTGCA
*
81097 GCGGAGACGGTGGCGCCGACAACTGTGGCTGAAATTGCT
1 GCGGAGACGGTGGCGCCGACAACTGTGGCTGAAATTGCA
* *
81136 GCGGCGACGGTGGCGCCGACAACTGTGGCTGAAATTGCG
1 GCGGAGACGGTGGCGCCGACAACTGTGGCTGAAATTGCA
*
81175 GCGGAGACGGTGGCGCTGACAACTGTGGCTGAAATTGCA
1 GCGGAGACGGTGGCGCCGACAACTGTGGCTGAAATTGCA
*
81214 GCGGAGACGGTGGCGCTGACAACTGTGGCTGAAATTGCA
1 GCGGAGACGGTGGCGCCGACAACTGTGGCTGAAATTGCA
* ** * * *
81253 GCGGTGGTGGTGGCTCTGACAAATGTGGCTGAAATTGCA
1 GCGGAGACGGTGGCGCCGACAACTGTGGCTGAAATTGCA
*
81292 GCGGCAG-GGGTGGCAGTGGCTCCGACAACTGTGGCTGAAATTGCA
1 GCGG-AGACGGTGGC----G--CCGACAACTGTGGCTGAAATTGCA
81337 GCGG
1 GCGG
81341 CGGCGGTGAC
Statistics
Matches: 220, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
39 193 0.88
40 1 0.00
45 26 0.12
ACGTcount: A:0.20, C:0.22, G:0.40, T:0.18
Consensus pattern (39 bp):
GCGGAGACGGTGGCGCCGACAACTGTGGCTGAAATTGCA
Found at i:81773 original size:126 final size:126
Alignment explanation
Indices: 81548--81921 Score: 622
Period size: 126 Copynumber: 3.0 Consensus size: 126
81538 TGTCTTCTTC
* * * * * * *
81548 AGGTAAGCAATTAGTGTCTTGTTCGAGATTCATGTTAAATGGTTGAACTTCAAGCTGTTCATATT
1 AGGTAACCAACTAGTGTCTTGCTCGAGATTCGTGTCAAATGATTGGACTTCAAGCTGTTCATATT
*
81613 GAACATAAACAGGTGGTGCAACCATATTAATGGGTTCACTAACAGGTTCAGCCATTTTGCG
66 GATCATAAACAGGTGGTGCAACCATATTAATGGGTTCACTAACAGGTTCAGCCATTTTGCG
81674 AGGTAACCAACTAGTGTCTTGCTCGAGATTCGTGTCAAATGATTGGACTTCAAGCTGTTCATATT
1 AGGTAACCAACTAGTGTCTTGCTCGAGATTCGTGTCAAATGATTGGACTTCAAGCTGTTCATATT
81739 GATCATAAACAGGTGGTGCAACCATATTAATGGGTTCACTAACAGGTTCAGCCATTTTGCG
66 GATCATAAACAGGTGGTGCAACCATATTAATGGGTTCACTAACAGGTTCAGCCATTTTGCG
81800 AGGTAACCAACTAGTGTCTTGCTCGAGATTCGTGTCAAATGATTGGACTTCAAGCTGTTCATATT
1 AGGTAACCAACTAGTGTCTTGCTCGAGATTCGTGTCAAATGATTGGACTTCAAGCTGTTCATATT
* * * * * *
81865 GATAATAAACAGGTGGTGCAACCACAATAATGGGTTGACTAACAGCTGCAGCCATTT
66 GATCATAAACAGGTGGTGCAACCATATTAATGGGTTCACTAACAGGTTCAGCCATTT
81922 CGTAAGGGAC
Statistics
Matches: 234, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 234 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (126 bp):
AGGTAACCAACTAGTGTCTTGCTCGAGATTCGTGTCAAATGATTGGACTTCAAGCTGTTCATATT
GATCATAAACAGGTGGTGCAACCATATTAATGGGTTCACTAACAGGTTCAGCCATTTTGCG
Found at i:82856 original size:33 final size:33
Alignment explanation
Indices: 82806--82985 Score: 335
Period size: 33 Copynumber: 5.5 Consensus size: 33
82796 GTTGAATTCA
*
82806 AAAAAATAATTAA-TTTTTAATATTTATCTGAG
1 AAAAATTAATTAATTTTTTAATATTTATCTGAG
*
82838 AAAAAATAATTAATTTTTTAATATTTATCTGAG
1 AAAAATTAATTAATTTTTTAATATTTATCTGAG
82871 AAAAATTAATTAATTTTTTAATATTTATCTGAG
1 AAAAATTAATTAATTTTTTAATATTTATCTGAG
82904 AAAAATTAATTAATTTTTTAATATTTATCTGAG
1 AAAAATTAATTAATTTTTTAATATTTATCTGAG
82937 AAAAATTAATTAATTTTTTAATATTTATCTGAG
1 AAAAATTAATTAATTTTTTAATATTTATCTGAG
82970 AAAAATTAATTAATTT
1 AAAAATTAATTAATTT
82986 AAATATATCA
Statistics
Matches: 146, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
32 13 0.09
33 133 0.91
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.47
Consensus pattern (33 bp):
AAAAATTAATTAATTTTTTAATATTTATCTGAG
Found at i:83082 original size:21 final size:21
Alignment explanation
Indices: 83038--83078 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
83028 TTTCAGATAG
*
83038 ATTTTGTATTCTTAATCTTAT
1 ATTTTGTATTCTTAATCTAAT
*
83059 ATTTTGTATTTTTAAT-TAAT
1 ATTTTGTATTCTTAATCTAAT
83079 TATTAATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (21 bp):
ATTTTGTATTCTTAATCTAAT
Found at i:83232 original size:152 final size:151
Alignment explanation
Indices: 82946--83237 Score: 414
Period size: 152 Copynumber: 1.9 Consensus size: 151
82936 GAAAAATTAA
* *
82946 TTAATTTTTTAATATTTATCTGAGAAAAATTAATTAATTTAAATATATCAATTTATAATATAATA
1 TTAATTTTTTAATATTTATCTGAGAAAAAATAATTAATTTAAATATATCAATTTATAAAATAATA
* * * * ** *
83011 TTAGATAAGAAATTAGATTTCAGATAGATTTTGTATTCTTAATCTTATATTTTGTATTTTTAATT
66 TTAGATAAGAAATTAGAGTTCAGATAGATTTTGTATTCTTAATCGTACATTTTGAATTTAAAATA
83076 AATTATTAATAACCAAAGCAT
131 AATTATTAATAACCAAAGCAT
83097 TTAATTTTTTAATATTTAAT-TGAGAAAAAAATAATTAATTTAAATATATCAATTTATAAAATAA
1 TTAATTTTTTAATATTT-ATCTGAG-AAAAAATAATTAATTTAAATATATCAATTTATAAAATAA
83161 TATTAGATAAGAAATTAGAGTTCAGATA-AGTTTTGTATTCTTAAT-GT-CA-TTTGAAATTTAA
64 TATTAGATAAGAAATTAGAGTTCAGATAGA-TTTTGTATTCTTAATCGTACATTTTG-AATTT--
83222 AAAATAAATTATTAAT
125 AAAATAAATTATTAAT
83238 GAAATTAAAT
Statistics
Matches: 126, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
149 4 0.03
150 5 0.04
151 23 0.18
152 94 0.75
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (151 bp):
TTAATTTTTTAATATTTATCTGAGAAAAAATAATTAATTTAAATATATCAATTTATAAAATAATA
TTAGATAAGAAATTAGAGTTCAGATAGATTTTGTATTCTTAATCGTACATTTTGAATTTAAAATA
AATTATTAATAACCAAAGCAT
Found at i:83720 original size:9 final size:9
Alignment explanation
Indices: 83689--83869 Score: 72
Period size: 10 Copynumber: 19.3 Consensus size: 9
83679 AATTTTAATA
83689 AAAAATTAGT
1 AAAAATTA-T
83699 AAAAA--AT
1 AAAAATTAT
83706 AGAAAATTAT
1 A-AAAATTAT
*
83716 AAAAATCAT
1 AAAAATTAT
83725 -AAAA-TAT
1 AAAAATTAT
*
83732 AAAAAATTGT
1 -AAAAATTAT
*
83742 AAAATTTTAT
1 AAAA-ATTAT
* **
83752 ACAAACCAT
1 AAAAATTAT
83761 AAAAAATTAT
1 -AAAAATTAT
83771 -AAAATATAT
1 AAAAAT-TAT
83780 AAAAA-TAT
1 AAAAATTAT
83788 AAAAGAATTAT
1 -AAA-AATTAT
*
83799 -AAAATTTT
1 AAAAATTAT
*
83807 ATAAAATCAT
1 A-AAAATTAT
83817 AATAAAATTAT
1 -A-AAAATTAT
83828 ATAAAA-TAT
1 A-AAAATTAT
*
83837 AAAGAAATAT
1 AAA-AATTAT
* *
83847 AAAATTCGTAA
1 AAAAAT--TAT
83858 AAAAATTAT
1 AAAAATTAT
83867 AAA
1 AAA
83870 TTATCATACC
Statistics
Matches: 130, Mismatches: 21, Indels: 41
0.68 0.11 0.21
Matches are distributed among these distances:
7 4 0.03
8 24 0.18
9 37 0.28
10 46 0.35
11 19 0.15
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:83720 original size:17 final size:17
Alignment explanation
Indices: 83685--83850 Score: 79
Period size: 19 Copynumber: 9.0 Consensus size: 17
83675 ATTAAATTTT
83685 AATAAAAAATTAGTAAAA
1 AATAAAAAATTA-TAAAA
*
83703 AATAGAAAATTAT-AAA
1 AATAAAAAATTATAAAA
*
83719 AATCATAAAA-TATAAAA
1 AAT-AAAAAATTATAAAA
**
83736 AATTGTAAAATTTTATACAAA
1 AA---TAAAAAATTATA-AAA
*
83757 CCATAAAAAATTATAAAA
1 -AATAAAAAATTATAAAA
*
83775 TATATAAAAA-TATAAAA
1 AATA-AAAAATTATAAAA
*
83792 GAATTATAAAATTTTATAAAA
1 -AA-TA-AAAA-ATTATAAAA
*
83813 TCATAATAAAATTATATAAA
1 -AATAA-AAAATTATA-AAA
83833 ATATAAAGAAA-TATAAAA
1 A-ATAAA-AAATTATAAAA
83851 TTCGTAAAAA
Statistics
Matches: 116, Mismatches: 15, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
16 9 0.08
17 21 0.18
18 23 0.20
19 31 0.27
20 20 0.17
21 11 0.09
22 1 0.01
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
AATAAAAAATTATAAAA
Found at i:83765 original size:29 final size:28
Alignment explanation
Indices: 83698--83828 Score: 126
Period size: 29 Copynumber: 4.7 Consensus size: 28
83688 AAAAAATTAG
* * *
83698 TAAAAA-ATAGAAAATTATAAAA-ATCA
1 TAAAAACATAAAAAATTATAAAATTTTA
* *
83724 T-AAAATATAAAAAATTGTAAAATTTTA
1 TAAAAACATAAAAAATTATAAAATTTTA
* *
83751 TACAAACCATAAAAAATTATAAAA-TATA
1 TA-AAAACATAAAAAATTATAAAATTTTA
*
83779 TAAAAATATAAAAGAATTATAAAATTTTA
1 TAAAAACATAAAA-AATTATAAAATTTTA
*
83808 TAAAATCATAATAAAATTATA
1 TAAAAACATAA-AAAATTATA
83829 TAAAATATAA
Statistics
Matches: 85, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
25 4 0.05
26 15 0.18
27 12 0.14
28 15 0.18
29 37 0.44
30 2 0.02
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (28 bp):
TAAAAACATAAAAAATTATAAAATTTTA
Found at i:83781 original size:19 final size:18
Alignment explanation
Indices: 83686--83869 Score: 94
Period size: 18 Copynumber: 9.8 Consensus size: 18
83676 TTAAATTTTA
83686 ATAAAAAATTAGTAAAAA-
1 ATAAAAAATTA-TAAAAAT
*
83704 ATAGAAAATTATAAAAAT
1 ATAAAAAATTATAAAAAT
*
83722 CATAAAATA-TA-AAAAATT
1 -ATAAAAAATTATAAAAA-T
* ** **
83740 GTAAAATTTTATACAAACC
1 ATAAAAAATTATA-AAAAT
83759 ATAAAAAATTAT-AAAAT
1 ATAAAAAATTATAAAAAT
83776 ATATAAAAA-TATAAAAGA-
1 ATA-AAAAATTATAAAA-AT
* *
83794 ATTATAAAATTTTATAAAAT
1 A-TAAAAAATTATA-AAAAT
83814 CATAATAAAATTATATAAAAT
1 -ATAA-AAAATTATA-AAAAT
*
83835 ATAAAGAAA-TATAAAATT
1 ATAAA-AAATTATAAAAAT
*
83853 CGTAAAAAAATTATAAA
1 -AT-AAAAAATTATAAA
83870 TTATCATACC
Statistics
Matches: 129, Mismatches: 18, Indels: 36
0.70 0.10 0.20
Matches are distributed among these distances:
17 26 0.20
18 32 0.25
19 32 0.25
20 24 0.19
21 15 0.12
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
ATAAAAAATTATAAAAAT
Found at i:83801 original size:38 final size:38
Alignment explanation
Indices: 83759--83869 Score: 104
Period size: 38 Copynumber: 2.9 Consensus size: 38
83749 TATACAAACC
83759 ATAAAAAATTATAAAAT-AT-ATAAAAATATAAAAGAATT
1 ATAAAAAATTATAAAATCATAATAAAAATATAAAA-AA-T
** * *
83797 ATAAAATTTTATAAAATCATAATAAAATTATATAAAAT
1 ATAAAAAATTATAAAATCATAATAAAAATATAAAAAAT
*
83835 ATAAAGAAA-TATAAAATTCGTAA-AAAAATTATAAA
1 ATAAA-AAATTATAAAA-TCATAATAAAAA-TATAAA
83870 TTATCATACC
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
38 32 0.54
39 15 0.25
40 12 0.20
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (38 bp):
ATAAAAAATTATAAAATCATAATAAAAATATAAAAAAT
Found at i:83809 original size:21 final size:21
Alignment explanation
Indices: 83784--83833 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
83774 ATATATAAAA
*
83784 ATATAAAAGAATTATAAAATT
1 ATATAAAAGAATAATAAAATT
* **
83805 TTATAAAATCATAATAAAATT
1 ATATAAAAGAATAATAAAATT
83826 ATATAAAA
1 ATATAAAA
83834 TATAAAGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
ATATAAAAGAATAATAAAATT
Found at i:83811 original size:48 final size:48
Alignment explanation
Indices: 83759--83873 Score: 139
Period size: 48 Copynumber: 2.4 Consensus size: 48
83749 TATACAAACC
* *
83759 ATAAAAAATTATAAAA-TATATAAAAATATAAAAGAATTATAAAATT-TT
1 ATAAAAAATTATAAAATTATAT-AAAATAT-AAAGAAATATAAAATTCGT
* *
83807 ATAAAATCATAATAAAATTATATAAAATATAAAGAAATATAAAATTCGT
1 ATAAAA-AATTATAAAATTATATAAAATATAAAGAAATATAAAATTCGT
83856 A-AAAAAATTAT-AAATTAT
1 ATAAAAAATTATAAAATTAT
83874 CATACCAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
46 7 0.12
47 4 0.07
48 25 0.43
49 17 0.29
50 5 0.09
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (48 bp):
ATAAAAAATTATAAAATTATATAAAATATAAAGAAATATAAAATTCGT
Found at i:83825 original size:57 final size:55
Alignment explanation
Indices: 83708--83850 Score: 191
Period size: 57 Copynumber: 2.5 Consensus size: 55
83698 TAAAAAATAG
*
83708 AAAATTATAAAAATCAT-AAAATATAAAAAATTGTAAAATTTTATACAAACCATAA
1 AAAATTATAAAAAT-ATAAAAATATAAAAAATTATAAAATTTTATACAAACCATAA
*
83763 AAAATTATAAAATATATAAAAATATAAAAGAATTATAAAATTTTATA-AAATCATAA
1 AAAATTATAAAA-ATATAAAAATATAAAA-AATTATAAAATTTTATACAAACCATAA
83819 TAAAATTATATAAAATATAAAGAAATATAAAA
1 -AAAATTATA-AAAATAT-AA-AAATATAAAA
83851 TTCGTAAAAA
Statistics
Matches: 79, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
55 14 0.18
56 21 0.27
57 29 0.37
58 5 0.06
59 10 0.13
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.30
Consensus pattern (55 bp):
AAAATTATAAAAATATAAAAATATAAAAAATTATAAAATTTTATACAAACCATAA
Found at i:84120 original size:18 final size:18
Alignment explanation
Indices: 84097--84148 Score: 86
Period size: 18 Copynumber: 2.8 Consensus size: 18
84087 TTTTTATAAA
84097 AAAATTTAAATTTTTAAT
1 AAAATTTAAATTTTTAAT
*
84115 AAAATTTAAATTTTTATT
1 AAAATTTAAATTTTTAAT
84133 AAAATTTAATATTTTT
1 AAAATTTAA-ATTTTT
84149 TCTATAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 26 0.81
19 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAAATTTAAATTTTTAAT
Found at i:84157 original size:19 final size:17
Alignment explanation
Indices: 84097--84159 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 17
84087 TTTTTATAAA
*
84097 AAAATTTAAATTTTTAAT
1 AAAATTTAAATTTTT-TT
84115 AAAATTTAAATTTTTATT
1 AAAATTTAAATTTTT-TT
84133 AAAATTTAATATTTTTTCT
1 AAAATTTAA-ATTTTTT-T
*
84152 ATAATTTA
1 AAAATTTA
84160 TTTTTTATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
18 27 0.66
19 14 0.34
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
AAAATTTAAATTTTTTT
Found at i:84179 original size:16 final size:15
Alignment explanation
Indices: 84144--84190 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
84134 AAATTTAATA
*
84144 TTTTTTCTATAA-TT
1 TTTTTTTTATAATTT
*
84158 TATTTTTTATAACTTT
1 TTTTTTTTATAA-TTT
*
84174 TTTTTTTTCTAATTT
1 TTTTTTTTATAATTT
84189 TT
1 TT
84191 AATAAGAGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 10 0.37
15 5 0.19
16 12 0.44
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTTTATAATTT
Found at i:84189 original size:14 final size:14
Alignment explanation
Indices: 84139--84190 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
84129 TATTAAAATT
* *
84139 TAATATTTTTTCTA
1 TAATTTTTTTTTTA
*
84153 TAATTTATTTTTTA
1 TAATTTTTTTTTTA
*
84167 TAACTTTTTTTTTTTC
1 TAA--TTTTTTTTTTA
84183 TAATTTTT
1 TAATTTTT
84191 AATAAGAGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
14 19 0.61
16 12 0.39
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (14 bp):
TAATTTTTTTTTTA
Found at i:84414 original size:89 final size:91
Alignment explanation
Indices: 84212--84400 Score: 258
Period size: 90 Copynumber: 2.1 Consensus size: 91
84202 GGGTTTAAAA
* ** *
84212 TTTTTTTTTGAAAAATTTTGAGTGTA-TTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAG
1 TTTTTTTTTGAAAAAGTTTGAAAGTATTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTAAG
* *
84276 TGGAGAAAAAAAAGAGCTTAATTGTT
66 TGGAGAAAAAAAAGAACTTAATTCTT
* * *
84302 TTTTTTTTTGAAAAAGTTTGAAAGTATTTTTTTATGCATTTTGAAAGTTCAAGTGCTCAGTTAAG
1 TTTTTTTTTGAAAAAGTTTGAAAGTATTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTAAG
*
84367 TGTA-AAAAAAAA-AACTTAATTACTT
66 TGGAGAAAAAAAAGAACTTAATT-CTT
84392 TTTTTTTTT
1 TTTTTTTTT
84401 TTTAAATTTG
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
89 8 0.09
90 42 0.48
91 37 0.43
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (91 bp):
TTTTTTTTTGAAAAAGTTTGAAAGTATTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTAAG
TGGAGAAAAAAAAGAACTTAATTCTT
Found at i:84882 original size:21 final size:21
Alignment explanation
Indices: 84843--84882 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
84833 GTGCAAATGC
*
84843 AATCCCATTTTCAAGCATTGT
1 AATCCCATTTTCAACCATTGT
*
84864 AATCCCATTTTGAACCATT
1 AATCCCATTTTCAACCATT
84883 TGGGTTCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (21 bp):
AATCCCATTTTCAACCATTGT
Found at i:86268 original size:2 final size:2
Alignment explanation
Indices: 86261--86309 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
86251 ATCATACTCA
86261 AT AT AT AT AT 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 AT AT
86303 AT AT AT A
1 AT AT AT A
86310 ATTAACTCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:88066 original size:36 final size:36
Alignment explanation
Indices: 88019--88104 Score: 136
Period size: 36 Copynumber: 2.4 Consensus size: 36
88009 ATGCAAAAAG
88019 CACATTCATGCAAACTAATCTTTATAGTTTAAACAA
1 CACATTCATGCAAACTAATCTTTATAGTTTAAACAA
* * * *
88055 CACATTCATGCAAATTAATCTTTATGGTTTCAACAG
1 CACATTCATGCAAACTAATCTTTATAGTTTAAACAA
88091 CACATTCATGCAAA
1 CACATTCATGCAAA
88105 AAGCAGATTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (36 bp):
CACATTCATGCAAACTAATCTTTATAGTTTAAACAA
Found at i:88114 original size:17 final size:17
Alignment explanation
Indices: 88089--88121 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
88079 TGGTTTCAAC
88089 AGCACATTCATGCAAAA
1 AGCACATTCATGCAAAA
*
88106 AGCAGATTCATGCAAA
1 AGCACATTCATGCAAA
88122 TTAATCTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.18
Consensus pattern (17 bp):
AGCACATTCATGCAAAA
Done.