Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold693
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: 81683
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Found at i:1897 original size:12 final size:12
Alignment explanation
Indices: 1880--1914 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1870 AGAAGAGAAA
*
1880 TTAGGGTTAGGG
1 TTAGGGTTAAGG
1892 TTAGGGTTAAGG
1 TTAGGGTTAAGG
*
1904 TTAAGGTTAAG
1 TTAGGGTTAAG
1915 AAAAGGGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.40, T:0.34
Consensus pattern (12 bp):
TTAGGGTTAAGG
Found at i:3612 original size:20 final size:20
Alignment explanation
Indices: 3583--3621 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3573 AAAAGTTGAC
*
3583 TAATTTGATTAATAATTAAT
1 TAATTCGATTAATAATTAAT
3603 TAATTCGATTAATAATTAA
1 TAATTCGATTAATAATTAA
3622 ATTGTCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (20 bp):
TAATTCGATTAATAATTAAT
Found at i:5181 original size:14 final size:14
Alignment explanation
Indices: 5155--5187 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5145 CATTTAGCCG
5155 CTTTTAAATTTAAA
1 CTTTTAAATTTAAA
5169 -TTTTAATATTTAAA
1 CTTTTAA-ATTTAAA
5183 CTTTT
1 CTTTT
5188 CTCTTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.35
14 7 0.41
15 4 0.24
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (14 bp):
CTTTTAAATTTAAA
Found at i:11584 original size:22 final size:22
Alignment explanation
Indices: 11559--11605 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
11549 GAAAATAGTC
11559 TGAAACCAA-AAGAATC-TGAACT
1 TGAAACCAAGAA-AA-CATGAACT
*
11581 TGAACCCAAGAAAACATGAACT
1 TGAAACCAAGAAAACATGAACT
11603 TGA
1 TGA
11606 GACTGACCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 1 0.05
22 19 0.86
23 2 0.09
ACGTcount: A:0.49, C:0.19, G:0.15, T:0.17
Consensus pattern (22 bp):
TGAAACCAAGAAAACATGAACT
Found at i:12898 original size:33 final size:32
Alignment explanation
Indices: 12850--12913 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
12840 TTGAACTCGA
* *
12850 ATCCAAATCCAAAAAAAGCTTGAACTCGAAAAT
1 ATCCAAA-CCCAAAAAAGCTTGAACCCGAAAAT
* *
12883 ATCCAAACCCGAAAAAGTTTGAACCCGAAAA
1 ATCCAAACCCAAAAAAGCTTGAACCCGAAAA
12914 AGGTTCGAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.50, C:0.23, G:0.11, T:0.16
Consensus pattern (32 bp):
ATCCAAACCCAAAAAAGCTTGAACCCGAAAAT
Found at i:12907 original size:16 final size:17
Alignment explanation
Indices: 12888--12930 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
12878 AAAATATCCA
*
12888 AACCCGAAAAA-GTTTG
1 AACCCGAAAAAGGTTCG
12904 AACCCGAAAAAGGTTCG
1 AACCCGAAAAAGGTTCG
12921 AACCC-AAAAA
1 AACCCGAAAAA
12931 ACTAAACCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.49, C:0.23, G:0.16, T:0.12
Consensus pattern (17 bp):
AACCCGAAAAAGGTTCG
Found at i:12914 original size:17 final size:17
Alignment explanation
Indices: 12888--12931 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
12878 AAAATATCCA
*
12888 AACCCG-AAAAAGTTTG
1 AACCCGAAAAAAGTTCG
*
12904 AACCCGAAAAAGGTTCG
1 AACCCGAAAAAAGTTCG
12921 AACCC-AAAAAA
1 AACCCGAAAAAA
12932 CTAAACCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (17 bp):
AACCCGAAAAAAGTTCG
Found at i:19677 original size:13 final size:14
Alignment explanation
Indices: 19650--19678 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19640 CTAAATTTTG
19650 TTTGTTTTTTCAAT
1 TTTGTTTTTTCAAT
19664 TTTGTTTTTT-AAT
1 TTTGTTTTTTCAAT
19677 TT
1 TT
19679 GTAACCAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.14, C:0.03, G:0.07, T:0.76
Consensus pattern (14 bp):
TTTGTTTTTTCAAT
Found at i:20665 original size:24 final size:24
Alignment explanation
Indices: 20605--20666 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
20595 AATATTAGTG
* **
20605 AATTACAAAATAATATTTTATTAAT
1 AATTA-AAAATAAAATTTTAAAAAT
* *
20630 AATTGAATATAAAATTTTAAAAAT
1 AATTAAAAATAAAATTTTAAAAAT
*
20654 ATTTAAAAATAAA
1 AATTAAAAATAAA
20667 TACAAATATT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
AATTAAAAATAAAATTTTAAAAAT
Found at i:21409 original size:15 final size:15
Alignment explanation
Indices: 21386--21415 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21376 TTATATATTA
*
21386 ATTTTTTTAATTTTG
1 ATTTCTTTAATTTTG
21401 ATTTCTTTAATTTTG
1 ATTTCTTTAATTTTG
21416 TATAAAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (15 bp):
ATTTCTTTAATTTTG
Found at i:29500 original size:21 final size:21
Alignment explanation
Indices: 29474--29517 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
29464 AATATTAAAA
* *
29474 TATTATTTTTATATTAATATT
1 TATTATTTTTATAATAAAATT
29495 TATTATTTTTATAATAAAATT
1 TATTATTTTTATAATAAAATT
29516 TA
1 TA
29518 AATAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTATTTTTATAATAAAATT
Found at i:30051 original size:58 final size:58
Alignment explanation
Indices: 29960--30076 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
29950 AGGAATCCAG
29960 ATCAAAAACACAAGAATGAAGTAGAAATAGGAAAGAGATAATAGGTTTAGTTGAAGGT
1 ATCAAAAACACAAGAATGAAGTAGAAATAGGAAAGAGATAATAGGTTTAGTTGAAGGT
*
30018 ATCAAAAACACAAGAATGAAGTAGAAATGGGAAAGAGATAATAGGTTTAGTTGAAGGT
1 ATCAAAAACACAAGAATGAAGTAGAAATAGGAAAGAGATAATAGGTTTAGTTGAAGGT
30076 A
1 A
30077 GGATTAGAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.50, C:0.05, G:0.25, T:0.21
Consensus pattern (58 bp):
ATCAAAAACACAAGAATGAAGTAGAAATAGGAAAGAGATAATAGGTTTAGTTGAAGGT
Found at i:30718 original size:19 final size:19
Alignment explanation
Indices: 30694--30733 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
30684 TCACTAAAAG
30694 TTTCAAAATTGGATAAGAA
1 TTTCAAAATTGGATAAGAA
*
30713 TTTCAAAATTTGATAAGAA
1 TTTCAAAATTGGATAAGAA
30732 TT
1 TT
30734 CAACTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (19 bp):
TTTCAAAATTGGATAAGAA
Found at i:30943 original size:20 final size:19
Alignment explanation
Indices: 30918--30959 Score: 75
Period size: 20 Copynumber: 2.2 Consensus size: 19
30908 TATATATATA
30918 TAAATAATTAAAGTCAAGGT
1 TAAATAATTAAAGTCAA-GT
30938 TAAATAATTAAAGTCAAGT
1 TAAATAATTAAAGTCAAGT
30957 TAA
1 TAA
30960 TATATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (19 bp):
TAAATAATTAAAGTCAAGT
Found at i:34720 original size:23 final size:25
Alignment explanation
Indices: 34686--34755 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 25
34676 AATAAAAATT
34686 AGCCACCAA-TTTTGACAAACAACA
1 AGCCACCAATTTTTGACAAACAACA
*
34710 AGCCA-CAATTTTTGACAAACAAAA
1 AGCCACCAATTTTTGACAAACAACA
34734 AGAAACCACC-ATTTTTGACAAA
1 AG---CCACCAATTTTTGACAAA
34756 TACAAAGTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 3 0.08
24 21 0.52
27 15 0.38
28 1 0.03
ACGTcount: A:0.47, C:0.24, G:0.09, T:0.20
Consensus pattern (25 bp):
AGCCACCAATTTTTGACAAACAACA
Found at i:34750 original size:27 final size:26
Alignment explanation
Indices: 34688--34784 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 26
34678 TAAAAATTAG
* *
34688 CCACCAATTTTGACAAACAACAAG--
1 CCACCATTTTTGACAAACAAAAAGAA
*
34712 CCACAATTTTTGACAAACAAAAAGAAA
1 CCACCATTTTTGACAAACAAAAAG-AA
* *
34739 CCACCATTTTTGACAAATACAAAGTAA
1 CCACCATTTTTGACAAACAAAAAG-AA
*
34766 CCACCATTGTTGACAAACA
1 CCACCATTTTTGACAAACA
34785 CATGGTGGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
24 21 0.34
27 40 0.66
ACGTcount: A:0.46, C:0.25, G:0.08, T:0.21
Consensus pattern (26 bp):
CCACCATTTTTGACAAACAAAAAGAA
Found at i:34803 original size:24 final size:25
Alignment explanation
Indices: 34772--34829 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
34762 GTAACCACCA
*
34772 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGGCTT
34796 TTGTTGACAAACACAAAGGGTGGCTT
1 TTGTTGACAAACAC-AAGGGTGGCTT
34822 TTGTTGAC
1 TTGTTGAC
34830 TAGCCACCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGGCTT
Found at i:39329 original size:27 final size:27
Alignment explanation
Indices: 39293--39360 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
39283 ACAAGTCACA
*
39293 ATTTTCGACAAACAAAAAGAAACCACC
1 ATTTTTGACAAACAAAAAGAAACCACC
* * * *
39320 ATTTTTGACAAATACAAAGTAATCACC
1 ATTTTTGACAAACAAAAAGAAACCACC
*
39347 ATTGTTGACAAACA
1 ATTTTTGACAAACA
39361 CATGGTGGCT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.24
Consensus pattern (27 bp):
ATTTTTGACAAACAAAAAGAAACCACC
Found at i:39379 original size:24 final size:25
Alignment explanation
Indices: 39348--39405 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
39338 GTAATCACCA
*
39348 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGGCTT
39372 TTGTTGACAAACACAAAGGGTGGCTT
1 TTGTTGACAAACAC-AAGGGTGGCTT
39398 TTGTTGAC
1 TTGTTGAC
39406 TAGCCACCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGGCTT
Found at i:40106 original size:22 final size:22
Alignment explanation
Indices: 40055--40107 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
40045 AAATAATTTT
*
40055 TTTATATTTAATTATAAAAAATA
1 TTTATA-TTAATTATAAAAAAAA
**
40078 TAAATATTAA-TATAAAAATAAA
1 TTTATATTAATTATAAAAA-AAA
40100 TTTATATT
1 TTTATATT
40108 TTAATATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 8 0.33
22 12 0.50
23 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTATATTAATTATAAAAAAAA
Found at i:40618 original size:2 final size:2
Alignment explanation
Indices: 40613--40651 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
40603 TTTTTCTTAA
40613 AT AT AT AT 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 AT AT AT AT A
40652 ATGAGAAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:41745 original size:13 final size:13
Alignment explanation
Indices: 41710--41748 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
41700 GGTTTATTGA
*
41710 ATTAAATAAAAAT
1 ATTAAATTAAAAT
41723 ATTAAATTAAAAT
1 ATTAAATTAAAAT
*
41736 A-TAAATTTAAAT
1 ATTAAATTAAAAT
41748 A
1 A
41749 ATTTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATTAAATTAAAAT
Found at i:41773 original size:21 final size:23
Alignment explanation
Indices: 41723--41773 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
41713 AAATAAAAAT
*
41723 ATTAAATTAAAATATAAATTTAA
1 ATTAATTTAAAATATAAATTTAA
41746 A-TAATTTAAAAT-TAAA-TTAA
1 ATTAATTTAAAATATAAATTTAA
41766 ATTAATTT
1 ATTAATTT
41774 TTAATTGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 5 0.19
21 10 0.38
22 10 0.38
23 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTAATTTAAAATATAAATTTAA
Found at i:42100 original size:25 final size:26
Alignment explanation
Indices: 42070--42118 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
42060 AAAAATAACA
42070 AAATAAAAACA-AAAT-AAACAAAATG
1 AAATAAAAA-AGAAATAAAACAAAATG
42095 AAATAAAAAAGAAATAAAACAAAA
1 AAATAAAAAAGAAATAAAACAAAA
42119 GAATGAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 1 0.05
25 13 0.59
26 8 0.36
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (26 bp):
AAATAAAAAAGAAATAAAACAAAATG
Found at i:42103 original size:20 final size:18
Alignment explanation
Indices: 42059--42104 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 18
42049 GATATTTAAT
42059 AAAAAATAACAAAATAAA
1 AAAAAATAACAAAATAAA
42077 AACAAAATAAACAAAATGAAA
1 AA-AAAAT-AACAAAAT-AAA
42098 TAAAAAA
1 -AAAAAA
42105 GAAATAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 5 0.21
20 8 0.33
21 7 0.29
22 2 0.08
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (18 bp):
AAAAAATAACAAAATAAA
Found at i:42119 original size:14 final size:13
Alignment explanation
Indices: 42081--42121 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
42071 AATAAAAACA
42081 AAATAAACAAAATG
1 AAATAAACAAAA-G
42095 AAAT-AA-AAAAG
1 AAATAAACAAAAG
42106 AAATAAAACAAAAG
1 AAAT-AAACAAAAG
42120 AA
1 AA
42122 TGAAATTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 5 0.21
12 4 0.17
13 4 0.17
14 11 0.46
ACGTcount: A:0.78, C:0.05, G:0.07, T:0.10
Consensus pattern (13 bp):
AAATAAACAAAAG
Found at i:43379 original size:50 final size:49
Alignment explanation
Indices: 43224--43362 Score: 208
Period size: 50 Copynumber: 2.8 Consensus size: 49
43214 GATATGGTTG
* *
43224 TAATTATTAATTATTTTTTATTAATTTTTAATAATTGAG-AGATGATTA
1 TAATTATTGATTATTTTTTATTAATTTTTGATAATTGAGAAGATGATTA
*
43272 TAATTGTTGATTATTTTTTATTAATTTTTGATAATTGAGAGAGATGATTA
1 TAATTATTGATTATTTTTTATTAATTTTTGATAATTGAGA-AGATGATTA
* * *
43322 TAATTATTGATTATTTTTTATCAATCTTTGATAATCGAGAA
1 TAATTATTGATTATTTTTTATTAATTTTTGATAATTGAGAA
43363 AACTGACCGT
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
48 36 0.44
49 1 0.01
50 45 0.55
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.52
Consensus pattern (49 bp):
TAATTATTGATTATTTTTTATTAATTTTTGATAATTGAGAAGATGATTA
Found at i:43394 original size:18 final size:18
Alignment explanation
Indices: 43371--43406 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
43361 AAAACTGACC
43371 GTAATTATTAACTATTCT
1 GTAATTATTAACTATTCT
* *
43389 GTAATTGTTGACTATTCT
1 GTAATTATTAACTATTCT
43407 TCATTAACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (18 bp):
GTAATTATTAACTATTCT
Found at i:43485 original size:50 final size:50
Alignment explanation
Indices: 43389--43485 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
43379 TAACTATTCT
* ** ** * *
43389 GTAATTGTTGACTATTCTTCATTAACTTTTGACAATCGAGAGAGGTGGTC
1 GTAATTATTGACTATTCTTCACCAACTTTTGACAATAAAAAAAGGTGGTC
*
43439 GTAATTATTGACTATTCTTCACCAACTTTTGATAATAAAAAAAGGTG
1 GTAATTATTGACTATTCTTCACCAACTTTTGACAATAAAAAAAGGTG
43486 ACTGTAATTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (50 bp):
GTAATTATTGACTATTCTTCACCAACTTTTGACAATAAAAAAAGGTGGTC
Found at i:43493 original size:50 final size:49
Alignment explanation
Indices: 43387--43494 Score: 117
Period size: 50 Copynumber: 2.2 Consensus size: 49
43377 ATTAACTATT
* ** ** * *
43387 CTGTAATTGTTGACTATTCTTCATTAACTTTTGACAATCGAGAGAGGTG
1 CTGTAATTATTGACTATTCTTCACCAACTTTTGACAATAAAAAAAGGTG
* *
43436 GTCGTAATTATTGACTATTCTTCACCAACTTTTGATAATAAAAAAAGGTG
1 CT-GTAATTATTGACTATTCTTCACCAACTTTTGACAATAAAAAAAGGTG
43486 ACTGTAATT
1 -CTGTAATT
43495 GTTTACTCTA
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.02
50 45 0.96
51 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (49 bp):
CTGTAATTATTGACTATTCTTCACCAACTTTTGACAATAAAAAAAGGTG
Found at i:47932 original size:50 final size:50
Alignment explanation
Indices: 47853--48000 Score: 242
Period size: 50 Copynumber: 3.0 Consensus size: 50
47843 AATGGGTGCA
* *
47853 AAAAAGGTGACTGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCG
1 AAAAAGGTGGCCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCG
* *
47903 AGAGAGGTGGCCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCG
1 AAAAAGGTGGCCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCG
* *
47953 AAAAAGGTGGTCGTAATTATTGACTATTCTTCACCAACCTTTGACAAT
1 AAAAAGGTGGCCGTAATTGTTGACTATTCTTCACCAACCTTTGACAAT
48001 AAAGAAAGGT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 90 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (50 bp):
AAAAAGGTGGCCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCG
Found at i:48020 original size:50 final size:50
Alignment explanation
Indices: 47855--48023 Score: 225
Period size: 50 Copynumber: 3.4 Consensus size: 50
47845 TGGGTGCAAA
**
47855 AAAGGTGACTGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAG
1 AAAGGTGACTGTAATTGTTGACTATTCTTCACCAACCTTTGACAATAAAG
* * * *
47905 AGAGGTGGCCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAA-
1 AAAGGTGACTGTAATTGTTGACTATTCTTCACCAACCTTTGACAAT-AAAG
* *
47955 AAAGGTG-GTCGTAATTATTGACTATTCTTCACCAACCTTTGACAATAAAG
1 AAAGGTGACT-GTAATTGTTGACTATTCTTCACCAACCTTTGACAATAAAG
*
48005 AAAGGTGACTATAATTGTT
1 AAAGGTGACTGTAATTGTT
48024 TGCTCTAAGC
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
49 2 0.02
50 98 0.96
51 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (50 bp):
AAAGGTGACTGTAATTGTTGACTATTCTTCACCAACCTTTGACAATAAAG
Found at i:56336 original size:18 final size:20
Alignment explanation
Indices: 56313--56351 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
56303 ATTAAAATAT
56313 TTAAAAATTA-AT-TTTATA
1 TTAAAAATTATATATTTATA
*
56331 TTAAAATTTATATATTTATA
1 TTAAAAATTATATATTTATA
56351 T
1 T
56352 AATTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAAAAATTATATATTTATA
Found at i:61026 original size:26 final size:25
Alignment explanation
Indices: 60997--61051 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
60987 TGATTCGTGA
60997 TATTTTTAAATTAAAAT-ATTATTTAT
1 TATTTTTAAA-TAAAATAATTA-TTAT
* *
61023 TATTTTTTAATAAATTAATTATTAT
1 TATTTTTAAATAAAATAATTATTAT
61048 TATT
1 TATT
61052 AATATGTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTTTTAAATAAAATAATTATTAT
Found at i:61073 original size:29 final size:32
Alignment explanation
Indices: 61046--61124 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 32
61036 ATTAATTATT
*
61046 ATTAT-TAAT-ATGTGTAAAATTTATTTATAA
1 ATTATATAATCATATGTAAAATTTATTTATAA
*
61076 ATTATAATAATCATATTTAAAATTTATTTATAA
1 ATTAT-ATAATCATATGTAAAATTTATTTATAA
*
61109 ATTATGATAATTATAT
1 ATTAT-ATAATCATAT
61125 TTTAAAATGA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 5 0.12
32 4 0.10
33 33 0.79
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (32 bp):
ATTATATAATCATATGTAAAATTTATTTATAA
Found at i:61097 original size:33 final size:34
Alignment explanation
Indices: 61060--61132 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 34
61050 TTAATATGTG
61060 TAAAATTTATTTATAAATTATAATAATCATA-TT
1 TAAAATTTATTTATAAATTATAATAATCATATTT
* *
61093 TAAAATTTATTTATAAATTATGATAATTATATTT
1 TAAAATTTATTTATAAATTATAATAATCATATTT
61127 TAAAAT
1 TAAAAT
61133 GATAATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
33 29 0.78
34 8 0.22
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (34 bp):
TAAAATTTATTTATAAATTATAATAATCATATTT
Found at i:62032 original size:21 final size:22
Alignment explanation
Indices: 61980--62032 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
61970 TAGATTTAGT
*
61980 TTATAATTTATAAATAAATCTA
1 TTATAATTTATAAATAAATATA
*
62002 TT-TTATTTATAAATAAA-ATA
1 TTATAATTTATAAATAAATATA
*
62022 TTATAAATTAT
1 TTATAATTTAT
62033 GCTACACTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 4 0.15
21 20 0.77
22 2 0.08
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATAATTTATAAATAAATATA
Found at i:67435 original size:2 final size:2
Alignment explanation
Indices: 67428--67455 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
67418 ATTGTTTAAC
67428 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
67456 GAATTAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67510 original size:29 final size:27
Alignment explanation
Indices: 67469--67524 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
67459 TTAAGTTATG
67469 ATTTAAAAATAATTAAAATTTAAGTTTAA
1 ATTTAAAAATAA-TAAAATTTAA-TTTAA
** *
67498 ATTTAAATTTAATATAATTTAATTTAA
1 ATTTAAAAATAATAAAATTTAATTTAA
67525 CTTGAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.21
28 9 0.38
29 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
ATTTAAAAATAATAAAATTTAATTTAA
Found at i:68421 original size:18 final size:16
Alignment explanation
Indices: 68398--68436 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 16
68388 TCTTTGCATA
68398 ATATAAAGTAATATATAT
1 ATATAAA-TAATATAT-T
68416 ATATAAATAATATATT
1 ATATAAATAATATATT
68432 ATATA
1 ATATA
68437 GTTGAAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.29
17 8 0.38
18 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
ATATAAATAATATATT
Found at i:69118 original size:12 final size:12
Alignment explanation
Indices: 69093--69128 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
69083 AAATCAAATC
*
69093 ATTA-AAAATTA
1 ATTATAAAATAA
69104 ATTATAAAATAA
1 ATTATAAAATAA
69116 ATTATAAAATAA
1 ATTATAAAATAA
69128 A
1 A
69129 AATAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATTATAAAATAA
Found at i:72269 original size:26 final size:25
Alignment explanation
Indices: 72240--72299 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
72230 TGATTCGTGA
72240 TATTTTTAAATTAAAAT-ATTATTTAT
1 TATTTTTAAA-TAAAATAATTA-TTAT
* *
72266 TATTTTTTAATAAATTAATTATTAT
1 TATTTTTAAATAAAATAATTATTAT
*
72291 TATTATTAA
1 TATTTTTAA
72300 TATATGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TATTTTTAAATAAAATAATTATTAT
Found at i:72282 original size:22 final size:24
Alignment explanation
Indices: 72249--72301 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
72239 ATATTTTTAA
*
72249 ATTAA-AATATTATTTATTATT-TT
1 ATTAATAA-ATTAATTATTATTATT
72272 -TTAATAAATTAATTATTATTATT
1 ATTAATAAATTAATTATTATTATT
72295 ATTAATA
1 ATTAATA
72302 TATGTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 16 0.62
23 4 0.15
24 6 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTAATAAATTAATTATTATTATT
Found at i:72343 original size:33 final size:32
Alignment explanation
Indices: 72297--72378 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 32
72287 TTATTATTAT
*
72297 TAATATATGTAAAATTTATTTATAAATTATAA
1 TAATATATTTAAAATTTATTTATAAATTATAA
*
72329 TAATCATATTTAAAATTTATTTATAAATTATGA
1 TAAT-ATATTTAAAATTTATTTATAAATTATAA
72362 TAATTATATTTTAAAAT
1 TAA-TATA-TTTAAAAT
72379 GATAATTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
32 4 0.09
33 32 0.71
34 9 0.20
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (32 bp):
TAATATATTTAAAATTTATTTATAAATTATAA
Found at i:73880 original size:20 final size:21
Alignment explanation
Indices: 73839--73882 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 21
73829 TTTTTAAATT
73839 TTAATTATAAAAATATTAATA
1 TTAATTATAAAAATATTAATA
73860 TTAA-TATAAAAATAATTATATA
1 TTAATTATAAAAAT-ATTA-ATA
73882 T
1 T
73883 AAACAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAATTATAAAAATATTAATA
Found at i:74984 original size:18 final size:19
Alignment explanation
Indices: 74961--74998 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
74951 AAAATATGTT
* *
74961 AAATTATTTATATT-TTAA
1 AAATTAATTAAATTATTAA
74979 AAATTAATTAAATTATTAA
1 AAATTAATTAAATTATTAA
74998 A
1 A
74999 TTATTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATTAATTAAATTATTAA
Found at i:76081 original size:16 final size:20
Alignment explanation
Indices: 76050--76092 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
76040 ATTTATACGT
76050 AATTTTATTCATATC-T-AA
1 AATTTTATTCATATCTTAAA
76068 AATTTT-TT-ATATCTTAAA
1 AATTTTATTCATATCTTAAA
76086 AATTTTA
1 AATTTTA
76093 ATTTTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 3 0.14
18 14 0.64
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTTTATTCATATCTTAAA
Found at i:76555 original size:13 final size:13
Alignment explanation
Indices: 76537--76561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76527 GATTGATCGA
76537 ATATATTTATAAT
1 ATATATTTATAAT
76550 ATATATTTATAA
1 ATATATTTATAA
76562 AAAAGATAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATTTATAAT
Found at i:76610 original size:29 final size:28
Alignment explanation
Indices: 76573--76630 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 28
76563 AAAGATAATT
76573 ATTTAATAAATTAATAATT-AAATTTTTTA
1 ATTTAATAAA-TAA-AATTAAAATTTTTTA
*
76602 ATTTTATAAATAAAATTAAAATTTTTTA
1 ATTTAATAAATAAAATTAAAATTTTTTA
76630 A
1 A
76631 ATATTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 4 0.15
28 14 0.52
29 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
ATTTAATAAATAAAATTAAAATTTTTTA
Found at i:76638 original size:27 final size:28
Alignment explanation
Indices: 76578--76642 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
76568 TAATTATTTA
* *
76578 ATAAATTAATAATTAAATTTTTTAATTTT
1 ATAAA-TAATAATTAAATTTTTTAAATAT
76607 ATAAATAA-AATTAAAATTTTTTAAATAT
1 ATAAATAATAATT-AAATTTTTTAAATAT
76635 -TAAATAAT
1 ATAAATAAT
76643 TATTTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 11 0.34
28 16 0.50
29 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATAAATAATAATTAAATTTTTTAAATAT
Found at i:76639 original size:22 final size:21
Alignment explanation
Indices: 76600--76656 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
76590 TTAAATTTTT
*
76600 TAATTTTATAAATA-AAATTAA
1 TAATTTTTTAAATATAAA-TAA
76621 -AATTTTTTAAATATTAAATAA
1 TAATTTTTTAAATA-TAAATAA
*
76642 TTATTTTTTAAATAT
1 TAATTTTTTAAATAT
76657 CTTTTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 12 0.39
21 4 0.13
22 15 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATTTTTTAAATATAAATAA
Found at i:77050 original size:39 final size:36
Alignment explanation
Indices: 77007--77090 Score: 82
Period size: 39 Copynumber: 2.2 Consensus size: 36
76997 TAAATATTAA
77007 AATTAAAATTTTTAATTT-ATTAAATATTATTT-TTAAAAT
1 AATTAAAA--TTTAATTTAATTAAA-ATT-TTTATT-AAAT
*
77046 AATTATATAATTTAATTTAATTAAAATTTTTATTCAAT
1 AATTA-A-AATTTAATTTAATTAAAATTTTTATTAAAT
77084 AATTAAA
1 AATTAAA
77091 TTAACTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
36 1 0.03
37 1 0.03
38 11 0.28
39 18 0.45
40 7 0.17
41 2 0.05
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (36 bp):
AATTAAAATTTAATTTAATTAAAATTTTTATTAAAT
Found at i:77077 original size:18 final size:19
Alignment explanation
Indices: 77007--77077 Score: 53
Period size: 18 Copynumber: 3.8 Consensus size: 19
76997 TAAATATTAA
77007 AATTAA-AATTTTTAATTT
1 AATTAATAATTTTTAATTT
**
77025 -ATTAAATATTATTTTTAAAAT
1 AATT-AATA--ATTTTTAATTT
77046 AATTATATAA--TTTAATTT
1 AATTA-ATAATTTTTAATTT
77064 AATTAA-AATTTTTA
1 AATTAATAATTTTTA
77078 TTCAATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
16 2 0.05
17 4 0.10
18 17 0.41
19 1 0.02
20 1 0.02
21 10 0.24
22 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTAATAATTTTTAATTT
Found at i:80905 original size:2 final size:2
Alignment explanation
Indices: 80893--80927 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
80883 TAAAGTTATC
80893 AT AT AT A- 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
80928 TCATCTAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:80954 original size:21 final size:21
Alignment explanation
Indices: 80928--80970 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
80918 ATATATATAT
80928 TCATCTAATGCATGAAAATAA
1 TCATCTAATGCATGAAAATAA
*
80949 TCATCTAATGCTTGAAAATAA
1 TCATCTAATGCATGAAAATAA
80970 T
1 T
80971 AAATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (21 bp):
TCATCTAATGCATGAAAATAA
Found at i:81328 original size:22 final size:22
Alignment explanation
Indices: 81298--81350 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
81288 TGTTGATTAA
*
81298 ATTG-TGATTTGATAATTTATT
1 ATTGTTGATTTGATAATTTATC
* *
81319 ATTGTTGATTTGGTGATTTATC
1 ATTGTTGATTTGATAATTTATC
81341 ATTGTTGATT
1 ATTGTTGATT
81351 AAATTAGAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.23, C:0.02, G:0.19, T:0.57
Consensus pattern (22 bp):
ATTGTTGATTTGATAATTTATC
Found at i:81373 original size:34 final size:34
Alignment explanation
Indices: 81335--81472 Score: 158
Period size: 34 Copynumber: 4.1 Consensus size: 34
81325 GATTTGGTGA
81335 TTTATCATTGTTGATTAAATTAG-AGATTTGATAG
1 TTTATCATTGTTGATTAAATTAGTA-ATTTGATAG
*
81369 TTTATCATTGTTGATTAAA-TAGTAATTT-AGTGG
1 TTTATCATTGTTGATTAAATTAGTAATTTGA-TAG
* * * *
81402 TTTACCATTGTTGACTAAATGAG-AGATTTGGTAG
1 TTTATCATTGTTGATTAAATTAGTA-ATTTGATAG
* *
81436 TTTGTCATTGTTGATTAAATTGGTAATTTGATAG
1 TTTATCATTGTTGATTAAATTAGTAATTTGATAG
81470 TTT
1 TTT
81473 TTAACAAACC
Statistics
Matches: 86, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
32 1 0.01
33 27 0.31
34 57 0.66
35 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (34 bp):
TTTATCATTGTTGATTAAATTAGTAATTTGATAG
Found at i:81448 original size:67 final size:68
Alignment explanation
Indices: 81326--81464 Score: 199
Period size: 67 Copynumber: 2.1 Consensus size: 68
81316 ATTATTGTTG
* * * *
81326 ATTTGGTGATTTATCATTGTTGATTAAATTAGAGATTTGATAGTTTATCATTGTTGATTAAA-TA
1 ATTTAGTGATTTACCATTGTTGACTAAATGAGAGATTTGATAGTTTATCATTGTTGATTAAATTA
81390 GTA
66 GTA
* * * *
81393 ATTTAGTGGTTTACCATTGTTGACTAAATGAGAGATTTGGTAGTTTGTCATTGTTGATTAAATTG
1 ATTTAGTGATTTACCATTGTTGACTAAATGAGAGATTTGATAGTTTATCATTGTTGATTAAATTA
81458 GTA
66 GTA
81461 ATTT
1 ATTT
81465 GATAGTTTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
67 55 0.87
68 8 0.13
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (68 bp):
ATTTAGTGATTTACCATTGTTGACTAAATGAGAGATTTGATAGTTTATCATTGTTGATTAAATTA
GTA
Done.