Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 33 of 84
Found at i:7590509 original size:30 final size:32
Alignment explanation
Indices: 7590460--7590518 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
7590450 TATTATATCG
7590460 TATAAAATATTATATTTAT-ATT-ATATTTTA
1 TATAAAATATTATATTTATAATTCATATTTTA
*
7590490 TATAAAA-ATTATTTATTATAATTCATATT
1 TATAAAATATTATAT-TTATAATTCATATT
7590519 AAAAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 6 0.24
30 11 0.44
31 3 0.12
32 5 0.20
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (32 bp):
TATAAAATATTATATTTATAATTCATATTTTA
Found at i:7590562 original size:21 final size:19
Alignment explanation
Indices: 7590537--7590583 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
7590527 AAAATATAAC
7590537 TTTTAAAATTTTATTAAACA
1 TTTTAAAATTTTATTAAA-A
* *
7590557 TATTTATAATTTTTTTAAAA
1 T-TTTAAAATTTTATTAAAA
7590577 TTTTAAA
1 TTTTAAA
7590584 TTATATTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 5 0.22
20 3 0.13
21 15 0.65
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAAAATTTTATTAAAA
Found at i:7598523 original size:25 final size:22
Alignment explanation
Indices: 7598494--7598541 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 22
7598484 CTTTAATTAA
7598494 TTATTTAATTTAATATATATTATAT
1 TTATTTAATTT--TATAT-TTATAT
7598519 TTATTTAATTTTATATTTATAT
1 TTATTTAATTTTATATTTATAT
7598541 T
1 T
7598542 AAAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.30
23 5 0.22
25 11 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTATTTAATTTTATATTTATAT
Found at i:7602108 original size:2 final size:2
Alignment explanation
Indices: 7602101--7602131 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7602091 GTTAATATAA
*
7602101 AG AG AG AG AG AG AG AG AG AG AG GG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7602132 AAAGTAGGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7610419 original size:24 final size:25
Alignment explanation
Indices: 7610375--7610421 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
7610365 TTTTTTAATT
*
7610375 TATTTTTTAAGATATCTTAAAATCA
1 TATTTTTTAAAATATCTTAAAATCA
7610400 TATTTTTTAAAATATC-TAAAAT
1 TATTTTTTAAAATATCTTAAAAT
7610422 TCTTACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (25 bp):
TATTTTTTAAAATATCTTAAAATCA
Found at i:7610431 original size:25 final size:25
Alignment explanation
Indices: 7610378--7610433 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
7610368 TTTAATTTAT
* *
7610378 TTTTTAAGATATCTTAAAATCATAT
1 TTTTTAAAATATCTTAAAATCATAC
*
7610403 TTTTTAAAATATC-TAAAATTCTTAC
1 TTTTTAAAATATCTTAAAA-TCATAC
7610428 TTTTTA
1 TTTTTA
7610434 TATTTTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.52
Consensus pattern (25 bp):
TTTTTAAAATATCTTAAAATCATAC
Found at i:7615457 original size:34 final size:33
Alignment explanation
Indices: 7615411--7615525 Score: 113
Period size: 34 Copynumber: 3.4 Consensus size: 33
7615401 TTGAGCTTTC
* * *
7615411 GGATATGCAAATCTGAAAATTTTTAAAAGTTTCC
1 GGATATGTAAATC-GAAAATTTTTAAAAGCTTCT
* * * *
7615445 AGATATGTAAATCCAGAACTTTTTAAGAGCTTCT
1 GGATATGTAAATCGA-AAATTTTTAAAAGCTTCT
* *
7615479 GGATTTGTAAATCAGGAAATTTTTAAAAGCTTCT
1 GGATATGTAAATC-GAAAATTTTTAAAAGCTTCT
*
7615513 GGATTTGTAAATC
1 GGATATGTAAATC
7615526 CTTTTTAAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
33 1 0.02
34 65 0.98
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (33 bp):
GGATATGTAAATCGAAAATTTTTAAAAGCTTCT
Found at i:7615534 original size:29 final size:29
Alignment explanation
Indices: 7615463--7615555 Score: 96
Period size: 34 Copynumber: 3.0 Consensus size: 29
7615453 AAATCCAGAA
*
7615463 CTTTTTAAGAGCTTCTGGATTTGTAAATC
1 CTTTTTAAAAGCTTCTGGATTTGTAAATC
*
7615492 AGGAAATTTTTAAAAGCTTCTGGATTTGTAAATC
1 -----CTTTTTAAAAGCTTCTGGATTTGTAAATC
** *
7615526 CTTTTTAAAAGCTTCTAAATTTGCAAATC
1 CTTTTTAAAAGCTTCTGGATTTGTAAATC
7615555 C
1 C
7615556 AGAAGCTTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
29 26 0.49
34 27 0.51
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (29 bp):
CTTTTTAAAAGCTTCTGGATTTGTAAATC
Found at i:7622303 original size:17 final size:19
Alignment explanation
Indices: 7622278--7622314 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
7622268 TATATTTTAA
*
7622278 TTATATAAA-TATAATATT
1 TTATATAAATTAAAATATT
7622296 TTAT-TAAATTAAAATATT
1 TTATATAAATTAAAATATT
7622314 T
1 T
7622315 AATAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATATAAATTAAAATATT
Found at i:7622341 original size:29 final size:29
Alignment explanation
Indices: 7622280--7622350 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
7622270 TATTTTAATT
*
7622280 ATATAAATATAATATTTTATTAAATTAAA
1 ATATATATATAATATTTTATTAAATTAAA
* *
7622309 ATATTTA-ATAATAATTTTATT-AATATAAT
1 ATATATATATAAT-ATTTTATTAAAT-TAAA
7622338 ATATATATATAAT
1 ATATATATATAAT
7622351 TTAATAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 8 0.23
29 22 0.63
30 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
ATATATATATAATATTTTATTAAATTAAA
Found at i:7623385 original size:2 final size:2
Alignment explanation
Indices: 7623378--7623410 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7623368 TTAATTGGTT
7623378 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7623411 TGTTGCAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7642186 original size:33 final size:33
Alignment explanation
Indices: 7642149--7642215 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
7642139 ATATTCAACT
*
7642149 TCCTAGC-CAGCAAATATTGTAGAATATTTACAA
1 TCCTAGCTC-GCAAATATTGTAGAATATTCACAA
7642182 TCCTAGCTCGCAAATATTGTAGAATATTCACAA
1 TCCTAGCTCGCAAATATTGTAGAATATTCACAA
7642215 T
1 T
7642216 TGATCTACAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.31
Consensus pattern (33 bp):
TCCTAGCTCGCAAATATTGTAGAATATTCACAA
Found at i:7657975 original size:18 final size:18
Alignment explanation
Indices: 7657940--7657987 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
7657930 ATTTTTATTT
*
7657940 TATAAAAATTAA-AAAAA
1 TATATAAATTAATAAAAA
*
7657957 TATTTAAATTAATAAAAA
1 TATATAAATTAATAAAAA
*
7657975 TATATAATTTAAT
1 TATATAAATTAAT
7657988 TTGATTCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TATATAAATTAATAAAAA
Found at i:7667392 original size:15 final size:14
Alignment explanation
Indices: 7667352--7667403 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
7667342 GCGGTTGATT
7667352 ATTTAATTATATTTTA
1 ATTTAA-TA-ATTTTA
** *
7667368 ATTTGTTAATTTATT
1 ATTTAATAATTT-TA
7667383 ATTTAATAATTTTA
1 ATTTAATAATTTTA
7667397 ATTTAAT
1 ATTTAAT
7667404 TATTATATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 12 0.41
15 13 0.45
16 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (14 bp):
ATTTAATAATTTTA
Found at i:7667449 original size:29 final size:29
Alignment explanation
Indices: 7667349--7667450 Score: 68
Period size: 31 Copynumber: 3.4 Consensus size: 29
7667339 AGTGCGGTTG
* *
7667349 ATTATTTAATTATATTTTAATTTGTTA-ATTT
1 ATTATTTAATTATA--TTAA-ATGTAATATTT
* * *
7667380 ATTATTTAATAAT-TTTAATTTAAT-TATT
1 ATTATTTAATTATATTAAATGTAATAT-TT
*
7667408 A-TATAATAGATTATATTAAATGTAATATTT
1 ATTAT-TTA-ATTATATTAAATGTAATATTT
7667438 ATTATTTAATTAT
1 ATTATTTAATTAT
7667451 GATTGTAACT
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
27 7 0.13
28 8 0.15
29 9 0.17
30 14 0.26
31 16 0.30
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
ATTATTTAATTATATTAAATGTAATATTT
Found at i:7672827 original size:26 final size:26
Alignment explanation
Indices: 7672805--7672859 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
7672795 AATATTTTAA
7672805 ATTAAAAT-AT-TAAATAATAATTTT
1 ATTAAAATAATATAAATAATAATTTT
*
7672829 ATTAATATAATATAAATAATAAAATTTT
1 ATTAAAATAATATAAATAAT--AATTTT
7672857 ATT
1 ATT
7672860 TTTTATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.27
25 2 0.08
26 8 0.31
28 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTAAAATAATATAAATAATAATTTT
Found at i:7676740 original size:243 final size:243
Alignment explanation
Indices: 7676306--7676780 Score: 689
Period size: 243 Copynumber: 2.0 Consensus size: 243
7676296 ACCTGCTTTT
* * ** *
7676306 TAGAAAAATCATGGGACCAAGATTCTTGGTTTGTTTCTGCAATGTTACTAGTTTCAGCAGCAAGA
1 TAGAAAAATCATGGGACCAAGATTCTTGGTTTATTTCAGCAACATTACTAATTTCAGCAGCAAGA
* * * * * * * * *
7676371 GTATCTGAGGATGGGTAAATTTTTCCTTCATTTCCTTCCAATTCAACCCTATATATCCCATTTGA
66 ATACCCGAGGATGGGAAAAATTTTCCTTCATTTCCTGCCAATGCAACCCTAGAAATCCCATTTGA
* *
7676436 TGAGGGCAACAATTTCTCTTCACTTTCCTTCAACCCTGATTCAACAACATCAGCTACTGATTTGT
131 TGAGGGCAACAATTTCTCTTCACTATCCTTCAACCCTGACTCAACAACATCAGCTACTGATTTGT
**
7676501 TTGCAGAAATTTCTGTAGCATAATTGACTTCCTCTGGATTTTGCTGAA
196 TTGCAGAAATTTCTGTAGCATAATCAACTTCCTCTGGATTTTGCTGAA
* * * * *
7676549 TAGAATAATCATGGGGCCTAGATTCTTGGTTTATTTCAGCAACATTACTAATTTCAGCAGTAGGA
1 TAGAAAAATCATGGGACCAAGATTCTTGGTTTATTTCAGCAACATTACTAATTTCAGCAGCAAGA
*
7676614 ATACCCGAGGCTGGGAAAAATTTTCCTTCATTTCCTGCCAATGCAACCCTAGAAATCCCATTTGA
66 ATACCCGAGGATGGGAAAAATTTTCCTTCATTTCCTGCCAATGCAACCCTAGAAATCCCATTTGA
** * *
7676679 TGAGGGCAATGATTTCTCTTCACTATCCTTCAACCTTGACTCAACTACATCAGCTACTGATTTGT
131 TGAGGGCAACAATTTCTCTTCACTATCCTTCAACCCTGACTCAACAACATCAGCTACTGATTTGT
*
7676744 TTGCAGGAATTTCTGTAGCATAATCAACTTCCTCTGG
196 TTGCAGAAATTTCTGTAGCATAATCAACTTCCTCTGG
7676781 CACAGATAAC
Statistics
Matches: 203, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
243 203 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (243 bp):
TAGAAAAATCATGGGACCAAGATTCTTGGTTTATTTCAGCAACATTACTAATTTCAGCAGCAAGA
ATACCCGAGGATGGGAAAAATTTTCCTTCATTTCCTGCCAATGCAACCCTAGAAATCCCATTTGA
TGAGGGCAACAATTTCTCTTCACTATCCTTCAACCCTGACTCAACAACATCAGCTACTGATTTGT
TTGCAGAAATTTCTGTAGCATAATCAACTTCCTCTGGATTTTGCTGAA
Found at i:7686052 original size:27 final size:27
Alignment explanation
Indices: 7686022--7686075 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
7686012 AACAATCAGA
7686022 ACCAAAATTCTCGAGTAAAAAACGAAT
1 ACCAAAATTCTCGAGTAAAAAACGAAT
*
7686049 ACCAAAATTCTCGAGTGAAAAACGAAT
1 ACCAAAATTCTCGAGTAAAAAACGAAT
7686076 TAGGTCTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.50, C:0.19, G:0.13, T:0.19
Consensus pattern (27 bp):
ACCAAAATTCTCGAGTAAAAAACGAAT
Found at i:7693655 original size:22 final size:22
Alignment explanation
Indices: 7693627--7693669 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
7693617 AAACGATCAA
7693627 GTAGCCTGAAGAACACATAAAC
1 GTAGCCTGAAGAACACATAAAC
*
7693649 GTAGCCTGAAGGACACATAAA
1 GTAGCCTGAAGAACACATAAA
7693670 AGAAAAAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.14
Consensus pattern (22 bp):
GTAGCCTGAAGAACACATAAAC
Found at i:7694648 original size:47 final size:46
Alignment explanation
Indices: 7694597--7694697 Score: 148
Period size: 47 Copynumber: 2.2 Consensus size: 46
7694587 TAATACTTAA
* * *
7694597 ATTTTAATATTTTATACTTTTAACTGATAGCTTTTTTGATGTTTTAT
1 ATTTTAATATTTGATACTTCTAACTAATAG-TTTTTTGATGTTTTAT
*
7694644 ATTTTAATATTTGATACTTCTATCTAATAGTTTTTTGATGTTTTAT
1 ATTTTAATATTTGATACTTCTAACTAATAGTTTTTTGATGTTTTAT
*
7694690 ATATTAAT
1 ATTTTAAT
7694698 TCTATTCACA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 23 0.47
47 26 0.53
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (46 bp):
ATTTTAATATTTGATACTTCTAACTAATAGTTTTTTGATGTTTTAT
Found at i:7694697 original size:46 final size:47
Alignment explanation
Indices: 7694600--7694697 Score: 144
Period size: 46 Copynumber: 2.1 Consensus size: 47
7694590 TACTTAAATT
* * * *
7694600 TTAATATTTTATACTTTTAACTGATAGCTTTTTTGATGTTTTATATT
1 TTAATATTTGATACTTCTAACTAATAGCTTTTTTGATGTTTTATATA
*
7694647 TTAATATTTGATACTTCTATCTAATAG-TTTTTTGATGTTTTATATA
1 TTAATATTTGATACTTCTAACTAATAGCTTTTTTGATGTTTTATATA
7694693 TTAAT
1 TTAAT
7694698 TCTATTCACA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 23 0.50
47 23 0.50
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (47 bp):
TTAATATTTGATACTTCTAACTAATAGCTTTTTTGATGTTTTATATA
Found at i:7695395 original size:13 final size:13
Alignment explanation
Indices: 7695374--7695406 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
7695364 TAGATAATTT
7695374 ATAATTTTTA-AA
1 ATAATTTTTATAA
7695386 ATATATTTTTATAA
1 ATA-ATTTTTATAA
7695400 ATAATTT
1 ATAATTT
7695407 AAAATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 11 0.58
14 5 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATAATTTTTATAA
Found at i:7695579 original size:16 final size:15
Alignment explanation
Indices: 7695555--7695599 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
7695545 ATATATGATT
7695555 AATTATAATTTAAAA
1 AATTATAATTTAAAA
* *
7695570 ATTTATTAA-TAAAAA
1 AATTA-TAATTTAAAA
7695585 AATTATAATTTAAAA
1 AATTATAATTTAAAA
7695600 TTATATAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTATAATTTAAAA
Found at i:7696863 original size:27 final size:27
Alignment explanation
Indices: 7696846--7696898 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
7696836 ATATTTAACT
7696846 TAATCTATTATATTTAAAATTAATATA
1 TAATCTATTATATTTAAAATTAATATA
7696873 TAATCTATTATATTTAAAATTAATAT
1 TAATCTATTATATTTAAAATTAATAT
7696899 TTTTACTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (27 bp):
TAATCTATTATATTTAAAATTAATATA
Found at i:7697519 original size:20 final size:20
Alignment explanation
Indices: 7697496--7697533 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7697486 TAAAAAAATC
7697496 ATAAAAAATAA-TTTTAGAAT
1 ATAAAAAA-AAGTTTTAGAAT
7697516 ATAAAAAAAAGTTTTAGA
1 ATAAAAAAAAGTTTTAGA
7697534 TGTTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (20 bp):
ATAAAAAAAAGTTTTAGAAT
Found at i:7700162 original size:25 final size:25
Alignment explanation
Indices: 7700133--7700182 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
7700123 ATATGTTCTT
7700133 AATGTGGTGCCTATTCCATTTAAGA
1 AATGTGGTGCCTATTCCATTTAAGA
*
7700158 AATGTGGTTCCTATTCCATTTAAGA
1 AATGTGGTGCCTATTCCATTTAAGA
7700183 TATATGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (25 bp):
AATGTGGTGCCTATTCCATTTAAGA
Found at i:7704372 original size:25 final size:25
Alignment explanation
Indices: 7704337--7704430 Score: 99
Period size: 25 Copynumber: 3.8 Consensus size: 25
7704327 ATGATAATTT
*
7704337 ATTTACTTAATATATTTATTTGTGTG
1 ATTTA-TTAATATATTTATTTGTATG
7704363 ATTTATTAATATATTTATTTGTATG
1 ATTTATTAATATATTTATTTGTATG
*
7704388 ATTATATT--TA-ATTTGA-TTGCATG
1 ATT-TATTAATATATTT-ATTTGTATG
*
7704411 A-TTATAAATATATTTATTTG
1 ATTTATTAATATATTTATTTG
7704431 CATTTTATTT
Statistics
Matches: 59, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
21 3 0.05
22 1 0.02
23 14 0.24
24 10 0.17
25 22 0.37
26 9 0.15
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (25 bp):
ATTTATTAATATATTTATTTGTATG
Found at i:7704438 original size:23 final size:24
Alignment explanation
Indices: 7704345--7704433 Score: 92
Period size: 23 Copynumber: 3.7 Consensus size: 24
7704335 TTATTTACTT
** *
7704345 AATATATTTATTTGTGTGATTTATT
1 AATATATTTATTTGCATGA-TTATA
*
7704370 AATATATTTATTTGTATGATTATA
1 AATATATTTATTTGCATGATTATA
**
7704394 TTTA-ATTTGA-TTGCATGATTATA
1 AATATATTT-ATTTGCATGATTATA
7704417 AATATATTTATTTGCAT
1 AATATATTTATTTGCAT
7704434 TTTATTTGCA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
23 19 0.35
24 17 0.31
25 18 0.33
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (24 bp):
AATATATTTATTTGCATGATTATA
Found at i:7704478 original size:32 final size:31
Alignment explanation
Indices: 7704419--7704540 Score: 102
Period size: 31 Copynumber: 4.2 Consensus size: 31
7704409 TGATTATAAA
* **
7704419 TATATTTATTTGCAT-TTTATTTGCATGATT
1 TATATTTAATTGCATATTTATTCACATGATT
*
7704449 GTATACTTAATTGCATATTTATTCACATGATT
1 -TATATTTAATTGCATATTTATTCACATGATT
*
7704481 TATA--T-ATT--ATTATTT-GT---ATGATT
1 TATATTTAATTGCA-TATTTATTCACATGATT
7704504 ATATATTTAATTGCATATTTATTCACATGATT
1 -TATATTTAATTGCATATTTATTCACATGATT
7704536 TATAT
1 TATAT
7704541 ATTATTATTT
Statistics
Matches: 73, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
23 6 0.08
24 4 0.05
26 3 0.04
27 8 0.11
28 8 0.11
29 3 0.04
31 22 0.30
32 19 0.26
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.54
Consensus pattern (31 bp):
TATATTTAATTGCATATTTATTCACATGATT
Found at i:7704496 original size:55 final size:54
Alignment explanation
Indices: 7704435--7704630 Score: 257
Period size: 55 Copynumber: 3.5 Consensus size: 54
7704425 TATTTGCATT
*
7704435 TTATTTGCATGATTGTATACTTAATTGCATATTTATTCACATGATTTATATATTA
1 TTATTTGCATGATT-TATATTTAATTGCATATTTATTCACATGATTTATATATTA
*
7704490 TTATTTGTATGATTATATATTTAATTGCATATTTATTCACATGATTTATATATTA
1 TTATTTGCATGATT-TATATTTAATTGCATATTTATTCACATGATTTATATATTA
* * * **
7704545 TTATTTGTATGATATTATATTTAATTGTATGTTTATTTGCATGATTTATATATTA
1 TTATTTGCATGAT-TTATATTTAATTGCATATTTATTCACATGATTTATATATTA
* * *
7704600 TTAATTGCATGATAATAAATTTTAATTGCAT
1 TTATTTGCATGAT-TTATA-TTTAATTGCAT
7704631 GTTTGCATGA
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
55 116 0.91
56 11 0.09
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (54 bp):
TTATTTGCATGATTTATATTTAATTGCATATTTATTCACATGATTTATATATTA
Found at i:7704608 original size:23 final size:23
Alignment explanation
Indices: 7704581--7704648 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 23
7704571 GTATGTTTAT
7704581 TTGCATGATTTATATATTATTAA
1 TTGCATGATTTATATATTATTAA
* *
7704604 TTGCATGA-TAATAAATT-TTAA
1 TTGCATGATTTATATATTATTAA
**
7704625 TTGCATG-TTTGCATGATTATTAA
1 TTGCATGATTTATAT-ATTATTAA
7704648 T
1 T
7704649 ATATTTGCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
21 13 0.36
22 10 0.28
23 13 0.36
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.49
Consensus pattern (23 bp):
TTGCATGATTTATATATTATTAA
Found at i:7704651 original size:55 final size:55
Alignment explanation
Indices: 7704474--7704653 Score: 159
Period size: 55 Copynumber: 3.3 Consensus size: 55
7704464 TATTTATTCA
* * * * * *
7704474 CATGATTTATATATTATTATTTGTATGATTATATATTTAATTGCATATTTATTCA--
1 CATGATTAATATATTATTAATTGCATGATAATAAATTTAATTGCATGTTTA--CATG
* * * * * * **
7704529 CATGATTTATATATTATTATTTGTATGATATTATATTTAATTGTATGTTTATTTG
1 CATGATTAATATATTATTAATTGCATGATAATAAATTTAATTGCATGTTTACATG
* *
7704584 CATGATTTATATATTATTAATTGCATGATAATAAATTTTAATTGCATGTTTGCATG
1 CATGATTAATATATTATTAATTGCATGATAATAAA-TTTAATTGCATGTTTACATG
*
7704640 -ATTATTAATATATT
1 CATGATTAATATATT
7704654 TGCTTAATAT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
55 90 0.85
56 16 0.15
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.53
Consensus pattern (55 bp):
CATGATTAATATATTATTAATTGCATGATAATAAATTTAATTGCATGTTTACATG
Found at i:7704651 original size:110 final size:110
Alignment explanation
Indices: 7704435--7704653 Score: 255
Period size: 110 Copynumber: 2.0 Consensus size: 110
7704425 TATTTGCATT
* *
7704435 TTATTTGCATGATTGTATACTTAATTGCATATTTATTCACATGATTTATATATTATTATTTGTAT
1 TTATTTGCATGATTGTATACTTAATTGCATATTTATTCACATGATTTATATATTATTAATTGCAT
* * * * *
7704500 GATTATATATTTAATTGCATATTTATTCACATGATTTATATATTA
66 GATAATAAATTTAATTGCATAGTTATGCACATGATTAATATATTA
* * * * **
7704545 TTATTTGTATGATAT-TATATTTAATTGTATGTTTATTTGCATGATTTATATATTATTAATTGCA
1 TTATTTGCATGAT-TGTATACTTAATTGCATATTTATTCACATGATTTATATATTATTAATTGCA
* *
7704609 TGATAATAAATTTTAATTGCAT-GTT-TGCATGATTATTAATATATT
65 TGATAATAAA-TTTAATTGCATAGTTATGCA-CATGATTAATATATT
7704654 TGCTTAATAT
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
109 3 0.03
110 76 0.84
111 12 0.13
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.53
Consensus pattern (110 bp):
TTATTTGCATGATTGTATACTTAATTGCATATTTATTCACATGATTTATATATTATTAATTGCAT
GATAATAAATTTAATTGCATAGTTATGCACATGATTAATATATTA
Found at i:7704873 original size:18 final size:18
Alignment explanation
Indices: 7704844--7704937 Score: 84
Period size: 18 Copynumber: 5.1 Consensus size: 18
7704834 CATGAATGGT
* *
7704844 TATTAATATATTTGTATGG
1 TATT-ATATATTTGCATGA
*
7704863 TATTTTATATTTGCATGA
1 TATTATATATTTGCATGA
*
7704881 TATTATATATTTACATGA
1 TATTATATATTTGCATGA
* *
7704899 TTGTTAT-TA-TTACATGA
1 -TATTATATATTTGCATGA
7704916 TAATTAATATATTTGCATGA
1 T-ATT-ATATATTTGCATGA
7704936 TA
1 TA
7704938 CTCTTGCATG
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
16 1 0.02
17 10 0.16
18 31 0.50
19 12 0.19
20 8 0.13
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (18 bp):
TATTATATATTTGCATGA
Found at i:7704935 original size:37 final size:35
Alignment explanation
Indices: 7704844--7704936 Score: 100
Period size: 37 Copynumber: 2.6 Consensus size: 35
7704834 CATGAATGGT
* *
7704844 TATTAATATATTTGTATGGTATTTTATATTTGCATGA
1 TATTAATATATTTGCAT-G-ATTTTATATTTACATGA
*
7704881 TATT-ATATATTTACATGATTGTTAT-TATTACATGA
1 TATTAATATATTTGCATGATT-TTATAT-TTACATGA
7704916 TAATTAATATATTTGCATGAT
1 T-ATTAATATATTTGCATGAT
7704937 ACTCTTGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
34 4 0.08
35 13 0.27
36 13 0.27
37 18 0.38
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.52
Consensus pattern (35 bp):
TATTAATATATTTGCATGATTTTATATTTACATGA
Found at i:7712097 original size:27 final size:25
Alignment explanation
Indices: 7712059--7712119 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
7712049 TTAGGATAAA
*
7712059 TTTAAAGAAATTTGTCACCTAGAGATT
1 TTTAAA-AAATTTATCA-CTAGAGATT
* *
7712086 TCTTAAAAAATTTATCATTTGAGATT
1 T-TTAAAAAATTTATCACTAGAGATT
7712112 TTTAAAAA
1 TTTAAAAA
7712120 TCTCGTCCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 7 0.23
26 8 0.27
27 10 0.33
28 5 0.17
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (25 bp):
TTTAAAAAATTTATCACTAGAGATT
Found at i:7712865 original size:9 final size:8
Alignment explanation
Indices: 7712849--7712884 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
7712839 CTCAACTACC
7712849 TATTTTTT
1 TATTTTTT
*
7712857 CATTTTTT
1 TATTTTTT
7712865 TATTTTTT
1 TATTTTTT
7712873 TATTTTTT
1 TATTTTTT
7712881 TATT
1 TATT
7712885 AACAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (8 bp):
TATTTTTT
Found at i:7713106 original size:42 final size:43
Alignment explanation
Indices: 7713039--7713295 Score: 249
Period size: 42 Copynumber: 6.1 Consensus size: 43
7713029 TTTAAACAAA
* ** *
7713039 GCTCCTCTAAATAGAGGTTCAACAACTTTGAAAAAAAT-AAAT
1 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAAATAAAAT
* * * *
7713081 GTTGCTCTAAACAGAGGCACCACAACTTT-AGAAAAGTAAAAT
1 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAAATAAAAT
** * * * * *
7713123 GCTCCTCTAAACAGAGATATCACAATTTTG-GAAAAGTTAAAT
1 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAAATAAAAT
* * * *
7713165 GCTCATTTAAACAGATGCACCACAACTTTG-AGAAAATAAAAT
1 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAAATAAAAT
* *
7713207 GCTCCTCTAAATAGAGGCACCACAACTTTG-AAAAAGTAAAAT
1 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAAATAAAAT
* * *
7713249 GCTCCTCCAAATAGAGGCACCACAACTTTG--AAAAATAAAAA
1 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAAATAAAAT
7713290 GCTCCT
1 GCTCCT
7713296 TGACGATCAT
Statistics
Matches: 178, Mismatches: 35, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
41 21 0.12
42 157 0.88
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (43 bp):
GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAAATAAAAT
Found at i:7713645 original size:20 final size:20
Alignment explanation
Indices: 7713600--7713658 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
7713590 GTTTCACACC
* *
7713600 TCAAAGATTCTTATTTAAAAT
1 TCAAAGATTCTCATTT-GAAT
*
7713621 TCAAAGATTCTCATTTGAGT
1 TCAAAGATTCTCATTTGAAT
* *
7713641 TCAAAAATTCACATTTGA
1 TCAAAGATTCTCATTTGA
7713659 TAAATTTTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (20 bp):
TCAAAGATTCTCATTTGAAT
Found at i:7713728 original size:20 final size:21
Alignment explanation
Indices: 7713679--7713734 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
7713669 GTTTTACACC
7713679 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
* *
7713700 TCAAAGATTTTCATTTG-AGT
1 TCAAAGATTCTCATTTGAAAT
* *
7713720 TCGAAGATTCACATT
1 TCAAAGATTCTCATT
7713735 CGACAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:7713778 original size:157 final size:159
Alignment explanation
Indices: 7713580--7713894 Score: 483
Period size: 157 Copynumber: 2.0 Consensus size: 159
7713570 CTCATTTGAT
*
7713580 AAATTTTAGGGTTTCACACCTCAAAGATTCTTATTTAAAATTCAAAGATTCTCATTTGAGTTCAA
1 AAATTTTAGGGTTTAACACCTCAAAGATTCTTATTTAAAATTCAAAGATTCTCATTTGAGTTCAA
* * * *
7713645 AAATTCACATTTGATAAATTTTGGGTTTTACACCTCAAAGATTCTCATTTGAAATTCAAAGATTT
66 AAATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAAATTC
7713710 TCATTTGAGTTCGAAGATTCACATTCGAC
131 TCATTTGAGTTCGAAGATTCACATTCGAC
* * * *
7713739 AAATTTT-GGGTTTAACACC-CAAAGATT-TTCATTTGAAATTTAAATATTCTCATTTGAGTTCG
1 AAATTTTAGGGTTTAACACCTCAAAGATTCTT-ATTTAAAATTCAAAGATTCTCATTTGAGTTCA
* * * *
7713801 AAGATTCACATTCGATAAATTTTGGGTTTCACACTTTAAAGATTTTCATTTGAAATTCAAAAATT
65 AAAATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAAATT
7713866 CTCATTTGAGTTCGAAGATTCACATTCGA
130 CTCATTTGAGTTCGAAGATTCACATTCGA
7713895 AATTCAAATA
Statistics
Matches: 142, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
156 2 0.01
157 122 0.86
158 11 0.08
159 7 0.05
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (159 bp):
AAATTTTAGGGTTTAACACCTCAAAGATTCTTATTTAAAATTCAAAGATTCTCATTTGAGTTCAA
AAATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAAATTC
TCATTTGAGTTCGAAGATTCACATTCGAC
Found at i:7713800 original size:78 final size:79
Alignment explanation
Indices: 7713572--7713894 Score: 479
Period size: 79 Copynumber: 4.1 Consensus size: 79
7713562 CAAAGGCTCT
* *
7713572 CATTTGATAAATTTTAGGGTTTCACACCTCAAAGATTCTT-ATTTAAAATTCAAAGATTCTCATT
1 CATTCGATAAATTTT-GGGTTTCACACCTCAAAGATT-TTCATTTGAAATTCAAAGATTCTCATT
* *
7713636 TGAGTTCAAAAATTCA
64 TGAGTTCGAAGATTCA
* * * *
7713652 CATTTGATAAATTTTGGGTTTTACACCTCAAAGATTCTCATTTGAAATTCAAAGATTTTCATTTG
1 CATTCGATAAATTTTGGGTTTCACACCTCAAAGATTTTCATTTGAAATTCAAAGATTCTCATTTG
7713717 AGTTCGAAGATTCA
66 AGTTCGAAGATTCA
* * * *
7713731 CATTCGACAAATTTTGGGTTTAACACC-CAAAGATTTTCATTTGAAATTTAAATATTCTCATTTG
1 CATTCGATAAATTTTGGGTTTCACACCTCAAAGATTTTCATTTGAAATTCAAAGATTCTCATTTG
7713795 AGTTCGAAGATTCA
66 AGTTCGAAGATTCA
* * *
7713809 CATTCGATAAATTTTGGGTTTCACACTTTAAAGATTTTCATTTGAAATTCAAAAATTCTCATTTG
1 CATTCGATAAATTTTGGGTTTCACACCTCAAAGATTTTCATTTGAAATTCAAAGATTCTCATTTG
7713874 AGTTCGAAGATTCA
66 AGTTCGAAGATTCA
7713888 CATTCGA
1 CATTCGA
7713895 AATTCAAATA
Statistics
Matches: 222, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
78 72 0.32
79 135 0.61
80 15 0.07
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (79 bp):
CATTCGATAAATTTTGGGTTTCACACCTCAAAGATTTTCATTTGAAATTCAAAGATTCTCATTTG
AGTTCGAAGATTCA
Found at i:7713872 original size:21 final size:21
Alignment explanation
Indices: 7713846--7713933 Score: 88
Period size: 21 Copynumber: 4.2 Consensus size: 21
7713836 TTAAAGATTT
7713846 TCATTTGAAATTCAAAAATTC
1 TCATTTGAAATTCAAAAATTC
* * *
7713867 TCATTTG-AGTTCGAAGATTC
1 TCATTTGAAATTCAAAAATTC
* * * *
7713887 ACATTCGAAATTCAAATACTC
1 TCATTTGAAATTCAAAAATTC
*
7713908 TCATTTGAGAACTCAAAAATTC
1 TCATTTGA-AATTCAAAAATTC
7713930 TCAT
1 TCAT
7713934 CAAAATATTC
Statistics
Matches: 51, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 15 0.29
21 22 0.43
22 14 0.27
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (21 bp):
TCATTTGAAATTCAAAAATTC
Found at i:7714292 original size:23 final size:23
Alignment explanation
Indices: 7714266--7714309 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
7714256 TTGAAACAAG
*
7714266 TTTCATCAAC-TGATCATCATTAT
1 TTTCATC-ACTTGATCACCATTAT
7714289 TTTCATCACTTGATCACCATT
1 TTTCATCACTTGATCACCATT
7714310 CATAGGCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (23 bp):
TTTCATCACTTGATCACCATTAT
Found at i:7715189 original size:1 final size:1
Alignment explanation
Indices: 7715185--7715263 Score: 50
Period size: 1 Copynumber: 79.0 Consensus size: 1
7715175 CTCTTTTTCA
* * ** * * ** **
7715185 TTTTTTTTATTTTTTTATTTTTCATTTTTTTTTATTTTTTTTATTTTTTTTAATTTTTCATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
**
7715250 TTCCTTTTTTTTTT
1 TTTTTTTTTTTTTT
7715264 CATTCTTTCA
Statistics
Matches: 60, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:7715190 original size:9 final size:9
Alignment explanation
Indices: 7715178--7715260 Score: 75
Period size: 9 Copynumber: 9.6 Consensus size: 9
7715168 ATTTTCTCTC
7715178 TTTTTCATT
1 TTTTTCATT
*
7715187 TTTTTTATT
1 TTTTTCATT
7715196 TTTTT-A--
1 TTTTTCATT
7715202 TTTTTCATTT
1 TTTTTCA-TT
*
7715212 TTTTTTATT
1 TTTTTCATT
*
7715221 TTTTTTATT
1 TTTTTCATT
* *
7715230 TTTTTTA-A
1 TTTTTCATT
7715238 TTTTTCATT
1 TTTTTCATT
*
7715247 TTTTTCCTT
1 TTTTTCATT
7715256 TTTTT
1 TTTTT
7715261 TTTCATTCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
6 5 0.08
7 1 0.02
8 7 0.11
9 44 0.70
10 6 0.10
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTCATT
Found at i:7715198 original size:17 final size:16
Alignment explanation
Indices: 7715194--7715251 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 16
7715184 ATTTTTTTTA
7715194 TTTTTTTATTTTTCATT
1 TTTTTTTATTTTTCA-T
*
7715211 TTTTTTTATTTTTTTTAT
1 TTTTTTTA--TTTTTCAT
7715229 TTTTTTTAATTTTTCAT
1 TTTTTTT-ATTTTTCAT
7715246 TTTTTT
1 TTTTTT
7715252 CCTTTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
17 21 0.58
18 8 0.22
19 7 0.19
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTTATTTTTCAT
Found at i:7715216 original size:34 final size:36
Alignment explanation
Indices: 7715178--7715262 Score: 129
Period size: 36 Copynumber: 2.4 Consensus size: 36
7715168 ATTTTCTCTC
7715178 TTTTTCATTTTTTTTA-TTTTTTT-ATTTTTCATTT
1 TTTTTCATTTTTTTTATTTTTTTTAATTTTTCATTT
*
7715212 TTTTTTATTTTTTTTATTTTTTTTAATTTTTCATTT
1 TTTTTCATTTTTTTTATTTTTTTTAATTTTTCATTT
* *
7715248 TTTTCCTTTTTTTTT
1 TTTTTCATTTTTTTT
7715263 TCATTCTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 15 0.33
35 7 0.16
36 23 0.51
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.84
Consensus pattern (36 bp):
TTTTTCATTTTTTTTATTTTTTTTAATTTTTCATTT
Found at i:7715241 original size:26 final size:24
Alignment explanation
Indices: 7715185--7715263 Score: 88
Period size: 26 Copynumber: 3.2 Consensus size: 24
7715175 CTCTTTTTCA
7715185 TTTTTTTTA-TTTTTTTATTTTTCAT
1 TTTTTTTTATTTTTTTTATTTTT--T
7715210 TTTTTTTTATTTTTTTTATTTTTT
1 TTTTTTTTATTTTTTTTATTTTTT
* **
7715234 TTAATTTTTCATTTTTTTCCTTTTTT
1 TT--TTTTTTATTTTTTTTATTTTTT
7715260 TTTT
1 TTTT
7715264 CATTCTTTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
24 5 0.10
25 9 0.19
26 34 0.71
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (24 bp):
TTTTTTTTATTTTTTTTATTTTTT
Found at i:7721872 original size:12 final size:11
Alignment explanation
Indices: 7721826--7721902 Score: 57
Period size: 12 Copynumber: 6.6 Consensus size: 11
7721816 TTAATCAAGC
7721826 AAAAATACTAA
1 AAAAATACTAA
*
7721837 AAAAATAATAA
1 AAAAATACTAA
* *
7721848 ACAAACACATAA
1 AAAAATAC-TAA
7721860 ATAAAATACTAA
1 A-AAAATACTAA
*
7721872 ATAAAATA-AATA
1 A-AAAATACTA-A
*
7721884 AAAAATACCCAA
1 AAAAATA-CTAA
7721896 AAAAATA
1 AAAAATA
7721903 AAAACAGCTC
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
11 22 0.42
12 25 0.47
13 6 0.11
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATACTAA
Found at i:7721901 original size:35 final size:34
Alignment explanation
Indices: 7721826--7721902 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 34
7721816 TTAATCAAGC
*
7721826 AAAAATACTAAAAAAATAATAAACAAACACATAA
1 AAAAATACTAAAAAAATAATAAACAAACACACAA
* *
7721860 ATAAAATACTAAATAAAATAAATAAA-AAATACCCAA
1 A-AAAATACTAAA-AAAAT-AATAAACAAACACACAA
7721896 AAAAATA
1 AAAAATA
7721903 AAAACAGCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 1 0.03
35 17 0.46
36 13 0.35
37 6 0.16
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (34 bp):
AAAAATACTAAAAAAATAATAAACAAACACACAA
Found at i:7725187 original size:2 final size:2
Alignment explanation
Indices: 7725175--7725222 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
7725165 ATCTCTAGTT
*
7725175 TA TA TA AA 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 TA
7725217 TA TA TA
1 TA TA TA
7725223 CTCCCTCTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7730929 original size:10 final size:9
Alignment explanation
Indices: 7730912--7730936 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7730902 ATTGAGGTAA
7730912 TATTTTTTT
1 TATTTTTTT
7730921 TATTTTTTT
1 TATTTTTTT
7730930 TATTTTT
1 TATTTTT
7730937 ACATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TATTTTTTT
Found at i:7730947 original size:20 final size:19
Alignment explanation
Indices: 7730922--7730977 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
7730912 TATTTTTTTT
7730922 ATTTTTTTTATTTTTACATA
1 ATTTTTTTTATTTTTA-ATA
* * * *
7730942 ATTTTTATAATATTTAATT
1 ATTTTTTTTATTTTTAATA
7730961 ATTTATTTTTATTTTTA
1 ATTT-TTTTTATTTTTA
7730978 TATTTATTGC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTTTTATTTTTAATA
Found at i:7732496 original size:27 final size:27
Alignment explanation
Indices: 7732465--7732545 Score: 162
Period size: 27 Copynumber: 3.0 Consensus size: 27
7732455 TTTATCGACT
7732465 GTAATTACACATTGATTGCTCAAACTA
1 GTAATTACACATTGATTGCTCAAACTA
7732492 GTAATTACACATTGATTGCTCAAACTA
1 GTAATTACACATTGATTGCTCAAACTA
7732519 GTAATTACACATTGATTGCTCAAACTA
1 GTAATTACACATTGATTGCTCAAACTA
7732546 TTATATATAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (27 bp):
GTAATTACACATTGATTGCTCAAACTA
Found at i:7733286 original size:16 final size:17
Alignment explanation
Indices: 7733265--7733299 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7733255 TAGAAAATGA
*
7733265 CAAATAA-TATATCAAT
1 CAAATAATTATATAAAT
7733281 CAAATAATTATATAAAT
1 CAAATAATTATATAAAT
7733298 CA
1 CA
7733300 CATTTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (17 bp):
CAAATAATTATATAAAT
Found at i:7742773 original size:11 final size:11
Alignment explanation
Indices: 7742757--7742781 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7742747 GTAAGAGCAA
7742757 ATACTTATTAT
1 ATACTTATTAT
7742768 ATACTTATTAT
1 ATACTTATTAT
7742779 ATA
1 ATA
7742782 TGGGCACACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
ATACTTATTAT
Found at i:7742858 original size:13 final size:13
Alignment explanation
Indices: 7742840--7742864 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7742830 CACTATTTTC
7742840 TCTATATCACTTT
1 TCTATATCACTTT
7742853 TCTATATCACTT
1 TCTATATCACTT
7742865 CTCACTTAGT
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:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (13 bp):
TCTATATCACTTT
Found at i:7744265 original size:25 final size:25
Alignment explanation
Indices: 7744238--7744286 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
7744228 TTTTTAATTT
*
7744238 AAAAAAGCAAAAAGTAAAAAAGGATA
1 AAAAAAG-AAAAAGCAAAAAAGGATA
7744264 AAAAAAGAAAAAGCAAAAAAGGA
1 AAAAAAGAAAAAGCAAAAAAGGA
7744287 AGTTTGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.04
Consensus pattern (25 bp):
AAAAAAGAAAAAGCAAAAAAGGATA
Found at i:7744426 original size:14 final size:13
Alignment explanation
Indices: 7744396--7744440 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
7744386 TTTAAAACCC
*
7744396 AAAAATAGAAAAA
1 AAAAAAAGAAAAA
7744409 AAAAAAAGAAAATTA
1 AAAAAAAGAAAA--A
7744424 AAAAAAAGAGAAAA
1 AAAAAAAGA-AAAA
7744438 AAA
1 AAA
7744441 CCTAAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 11 0.39
14 4 0.14
15 10 0.36
16 3 0.11
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (13 bp):
AAAAAAAGAAAAA
Found at i:7744786 original size:12 final size:13
Alignment explanation
Indices: 7744769--7744801 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
7744759 TTAATTTCAA
7744769 AATAAAAAAA-TT
1 AATAAAAAAAGTT
7744781 AATAAAAAAAGTTT
1 AATAAAAAAAG-TT
7744795 AATAAAA
1 AATAAAA
7744802 GTGAGTCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
14 9 0.47
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AATAAAAAAAGTT
Found at i:7751943 original size:21 final size:21
Alignment explanation
Indices: 7751914--7751964 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
7751904 GTCGCATCAT
*
7751914 CTTCTTCCACTACGATCTCCC
1 CTTCCTCCACTACGATCTCCC
7751935 CTTCCTCCACTACGATCTCCC
1 CTTCCTCCACTACGATCTCCC
*
7751956 CGTCCTCCA
1 CTTCCTCCA
7751965 GCTCTTCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.14, C:0.51, G:0.06, T:0.29
Consensus pattern (21 bp):
CTTCCTCCACTACGATCTCCC
Found at i:7752763 original size:11 final size:11
Alignment explanation
Indices: 7752749--7752784 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
7752739 ACTTTGACCA
7752749 TCCTTTTTTTT
1 TCCTTTTTTTT
7752760 TCCTTTTTTTTT
1 TCC-TTTTTTTT
7752772 TCCTTTTTTTT
1 TCCTTTTTTTT
7752783 TC
1 TC
7752785 TCCCAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TCCTTTTTTTT
Found at i:7752769 original size:12 final size:12
Alignment explanation
Indices: 7752752--7752783 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
7752742 TTGACCATCC
7752752 TTTTTTTTTCCT
1 TTTTTTTTTCCT
7752764 TTTTTTTTTCCT
1 TTTTTTTTTCCT
7752776 TTTTTTTT
1 TTTTTTTT
7752784 CTCCCAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTCCT
Found at i:7759188 original size:22 final size:23
Alignment explanation
Indices: 7759160--7759209 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
7759150 ATAAAAATCT
7759160 ATAAATATTAAAAAAT-A-AAAAA
1 ATAAATA-TAAAAAATGATAAAAA
7759182 ATAAATATAAAAAATGATAAAAA
1 ATAAATATAAAAAATGATAAAAA
7759205 ATAAA
1 ATAAA
7759210 AAAATAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.31
22 8 0.31
23 10 0.38
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (23 bp):
ATAAATATAAAAAATGATAAAAA
Found at i:7771438 original size:40 final size:39
Alignment explanation
Indices: 7771393--7771473 Score: 92
Period size: 40 Copynumber: 2.1 Consensus size: 39
7771383 TTAATATGTA
* *
7771393 ATATAATAATGAATTTGAAACTTAATA-ATTTAATTATTTT
1 ATATAATAATAAATTT-AAACTTAATATATGTAATT-TTTT
* * *
7771433 ATATAATTATAAATTTATATTTAATATATGTAATTTTTT
1 ATATAATAATAAATTTAAACTTAATATATGTAATTTTTT
7771472 AT
1 AT
7771474 TCTATATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
39 14 0.40
40 21 0.60
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (39 bp):
ATATAATAATAAATTTAAACTTAATATATGTAATTTTTT
Found at i:7772019 original size:11 final size:11
Alignment explanation
Indices: 7771980--7772029 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
7771970 ATTTGATTTG
*
7771980 ATTTAATTTGA
1 ATTTAATTTTA
* *
7771991 A-TTATTTTTT
1 ATTTAATTTTA
7772001 ATTT-ATTTTA
1 ATTTAATTTTA
7772011 ATTTAATTTTA
1 ATTTAATTTTA
*
7772022 ATTAAATT
1 ATTTAATT
7772030 CAAATATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 15 0.48
11 16 0.52
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
ATTTAATTTTA
Found at i:7772135 original size:20 final size:17
Alignment explanation
Indices: 7772110--7772151 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 17
7772100 TCAAATTAAA
7772110 TTATATATTTTTATTAATTT
1 TTATATA-TTTTA--AATTT
7772130 TTATATATTTTAAATTT
1 TTATATATTTTAAATTT
7772147 TTATA
1 TTATA
7772152 AAATAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
19 5 0.23
20 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATATATTTTAAATTT
Found at i:7772168 original size:31 final size:29
Alignment explanation
Indices: 7772124--7772187 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
7772114 ATATTTTTAT
* *
7772124 TAATTTTTATATATTTTAAATTTTTATAAAA
1 TAATTTTTATATA-TTTAAATATAT-TAAAA
7772155 TAATTATTT-TATATTTAAATATATTAAAA
1 TAATT-TTTATATATTTAAATATATTAAAA
7772184 TAAT
1 TAAT
7772188 ATACAAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 9 0.30
30 9 0.30
31 9 0.30
32 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
TAATTTTTATATATTTAAATATATTAAAA
Found at i:7782935 original size:82 final size:82
Alignment explanation
Indices: 7782795--7782958 Score: 301
Period size: 82 Copynumber: 2.0 Consensus size: 82
7782785 TGGAAGATTC
* * *
7782795 ATTGAATGATTATTTGATATGCTTCTCCTGATTTAACCTGTACTTGTCCAAGGTTTGTACTGAAT
1 ATTGAATGATTATTTGATATGCTTCTACTGATTCAACCTGTACTTGTCCAAGGATTGTACTGAAT
7782860 GGATGCTATAATTTAAG
66 GGATGCTATAATTTAAG
7782877 ATTGAATGATTATTTGATATGCTTCTACTGATTCAACCTGTACTTGTCCAAGGATTGTACTGAAT
1 ATTGAATGATTATTTGATATGCTTCTACTGATTCAACCTGTACTTGTCCAAGGATTGTACTGAAT
7782942 GGATGCTATAATTTAAG
66 GGATGCTATAATTTAAG
7782959 TTGTAATTGC
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.40
Consensus pattern (82 bp):
ATTGAATGATTATTTGATATGCTTCTACTGATTCAACCTGTACTTGTCCAAGGATTGTACTGAAT
GGATGCTATAATTTAAG
Found at i:7793459 original size:2 final size:2
Alignment explanation
Indices: 7793452--7793482 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7793442 TGCTGCACCC
*
7793452 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7793483 TCATCAAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:7793781 original size:19 final size:21
Alignment explanation
Indices: 7793743--7793785 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
7793733 TCTATGCTAA
7793743 ATAGAAGAGACAATATATATT
1 ATAGAAGAGACAATATATATT
7793764 ATAGAAGAGACAATATATATT
1 ATAGAAGAGACAATATATATT
7793785 A
1 A
7793786 GTTGAAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.28
Consensus pattern (21 bp):
ATAGAAGAGACAATATATATT
Found at i:7794465 original size:10 final size:10
Alignment explanation
Indices: 7794450--7794474 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7794440 TCAAATGTTC
7794450 AGAGAAAGAG
1 AGAGAAAGAG
7794460 AGAGAAAGAG
1 AGAGAAAGAG
7794470 AGAGA
1 AGAGA
7794475 GAGACCAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (10 bp):
AGAGAAAGAG
Found at i:7796142 original size:6 final size:6
Alignment explanation
Indices: 7796131--7796158 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7796121 AATCATATTC
7796131 CATGTG CATGTG CATGTG CATGTG CATG
1 CATGTG CATGTG CATGTG CATGTG CATG
7796159 CTTCCATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (6 bp):
CATGTG
Found at i:7800843 original size:24 final size:24
Alignment explanation
Indices: 7800816--7800870 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
7800806 TACTTAAAAA
7800816 TTAA-AAATTAATATTAAAAATATT
1 TTAATAAATTAA-ATTAAAAATATT
** *
7800840 TTAATATTTTAACTTAAAAATATT
1 TTAATAAATTAAATTAAAAATATT
*
7800864 TTTATAA
1 TTAATAA
7800871 TTTTACTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TTAATAAATTAAATTAAAAATATT
Found at i:7800851 original size:25 final size:25
Alignment explanation
Indices: 7800823--7800875 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
7800813 AAATTAAAAA
7800823 TTAATATTAAAAATATTTTAAT-ATT
1 TTAA-ATTAAAAATATTTTAATAATT
* *
7800848 TTAACTTAAAAATATTTTTATAATT
1 TTAAATTAAAAATATTTTAATAATT
7800873 TTA
1 TTA
7800876 CTAAACAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TTAAATTAAAAATATTTTAATAATT
Found at i:7801283 original size:21 final size:20
Alignment explanation
Indices: 7801263--7801328 Score: 84
Period size: 17 Copynumber: 3.4 Consensus size: 20
7801253 TAATAGATAT
7801263 TTTTAATAAAAATATAAATA
1 TTTTAATAAAAATATAAATA
7801283 TTTTAAT---AATATAAATA
1 TTTTAATAAAAATATAAATA
* *
7801300 TTTTAATAATAAATATTACTA
1 TTTTAATAA-AAATATAAATA
7801321 TTTTAATA
1 TTTTAATA
7801329 TTAATAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 17 0.43
20 7 0.17
21 16 0.40
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTTAATAAAAATATAAATA
Found at i:7801298 original size:23 final size:21
Alignment explanation
Indices: 7801259--7801328 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
7801249 TTAATAATAG
7801259 ATATTTTTAATAAAAATATAA
1 ATATTTTTAATAAAAATATAA
7801280 ATA-TTTTAAT---AATATAA
1 ATATTTTTAATAAAAATATAA
*
7801297 ATA-TTTTAATAATAAATATTA
1 ATATTTTTAATAA-AAATATAA
*
7801318 CTA-TTTTAATA
1 ATATTTTTAATA
7801329 TTAATAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
17 17 0.40
20 7 0.16
21 19 0.44
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTTTTAATAAAAATATAA
Found at i:7801314 original size:38 final size:36
Alignment explanation
Indices: 7801248--7801328 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 36
7801238 TTTGTTATGA
*
7801248 TTTAATAATAGATATTTTTAATAAAAATATAAATAT
1 TTTAATAATAGAAATTTTTAATAAAAATATAAATAT
* * *
7801284 TTTAATAATATAAATATTTTAATAATAAATATTACTAT
1 TTTAATAATAGAAAT-TTTTAATAA-AAATATAAATAT
7801322 TTTAATA
1 TTTAATA
7801329 TTAATAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 13 0.33
37 9 0.23
38 17 0.44
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (36 bp):
TTTAATAATAGAAATTTTTAATAAAAATATAAATAT
Found at i:7801472 original size:15 final size:15
Alignment explanation
Indices: 7801454--7801494 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
7801444 AATATATATT
*
7801454 TTTTAATATTAATAA
1 TTTTAATATAAATAA
*
7801469 TTTTCATAATAAATAA
1 TTTTAAT-ATAAATAA
7801485 TTTTAATATA
1 TTTTAATATA
7801495 TTTTAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:7801485 original size:25 final size:25
Alignment explanation
Indices: 7801457--7801529 Score: 103
Period size: 25 Copynumber: 2.9 Consensus size: 25
7801447 ATATATTTTT
* *
7801457 TAATATTAATAATTTTCATAATAAA
1 TAATTTTAATAATTTTAATAATAAA
7801482 TAATTTTAATATATTTTAATAATAAA
1 TAATTTTAATA-ATTTTAATAATAAA
7801508 TAAATTTTAAT-ATTTTAATAAT
1 T-AATTTTAATAATTTTAATAAT
7801530 TATATTAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.48
26 14 0.32
27 9 0.20
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (25 bp):
TAATTTTAATAATTTTAATAATAAA
Found at i:7801499 original size:10 final size:9
Alignment explanation
Indices: 7801457--7801530 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 9
7801447 ATATATTTTT
*
7801457 TAATATTAA
1 TAATTTTAA
*
7801466 TAATTTTCA
1 TAATTTTAA
*
7801475 TAA--TAAA
1 TAATTTTAA
7801482 TAATTTTAA
1 TAATTTTAA
7801491 TATATTTTAA
1 TA-ATTTTAA
*
7801501 TAA--TAAA
1 TAATTTTAA
7801508 TAAATTTTAA
1 T-AATTTTAA
7801518 T-ATTTTAA
1 TAATTTTAA
7801526 TAATT
1 TAATT
7801531 ATATTAATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
7 9 0.18
8 10 0.20
9 19 0.37
10 13 0.25
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (9 bp):
TAATTTTAA
Found at i:7801530 original size:17 final size:17
Alignment explanation
Indices: 7801484--7801530 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
7801474 ATAATAAATA
7801484 ATTTTAATATATTTTAAT
1 ATTTTAATA-ATTTTAAT
* *
7801502 A-ATAAATAAATTTTAAT
1 ATTTTAAT-AATTTTAAT
7801519 ATTTTAATAATT
1 ATTTTAATAATT
7801531 ATATTAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTAATAATTTTAAT
Found at i:7802493 original size:3 final size:3
Alignment explanation
Indices: 7802485--7802511 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7802475 AAAAGTATAG
7802485 GGA GGA GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA
7802512 TTATTAAGGG
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:0.67, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:7803400 original size:2 final size:2
Alignment explanation
Indices: 7803393--7803439 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
7803383 TCTTTGTTCT
*
7803393 TA TA TA TA TA TA TA AA 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 TA
7803435 TA TA T
1 TA TA T
7803440 TGGGGGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7803520 original size:6 final size:6
Alignment explanation
Indices: 7803509--7803544 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
7803499 GATTAAATAA
7803509 AAAATT AAAATT AAAATT AAAATT GATAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT -A-AAATT AAAA
7803545 ATTTTTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 21 0.75
7 2 0.07
8 5 0.18
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:7805483 original size:17 final size:17
Alignment explanation
Indices: 7805458--7805496 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
7805448 ATTACAAAAT
*
7805458 AATTTTTTATTATAATA
1 AATTATTTATTATAATA
7805475 AATTATTTATTATAATA
1 AATTATTTATTATAATA
7805492 AATTA
1 AATTA
7805497 ACTAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTATTTATTATAATA
Found at i:7815358 original size:42 final size:42
Alignment explanation
Indices: 7815299--7815382 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
7815289 AGTAAAATAT
* * *
7815299 AAGAAATAAAATCTATAAGGAGAATTGTTTGTCAGAGGTGAG
1 AAGAAATAAAATCTATAAGAAGAATTATCTGTCAGAGGTGAG
7815341 AAGAAATAAAATCTATAAGAAGAATTATCTGTCAGAGGTGAG
1 AAGAAATAAAATCTATAAGAAGAATTATCTGTCAGAGGTGAG
7815383 TAAATAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.25
Consensus pattern (42 bp):
AAGAAATAAAATCTATAAGAAGAATTATCTGTCAGAGGTGAG
Found at i:7816672 original size:33 final size:34
Alignment explanation
Indices: 7816634--7816699 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
7816624 GACATGATCA
* * *
7816634 TATGGCCCT-GCTAATAGGTTATAGTAGTTAGCG
1 TATGGCCCTAGCTAACAGATTATAATAGTTAGCG
*
7816667 TATGGCCCTAGCTAGCAGATTATAATAGTTAGC
1 TATGGCCCTAGCTAACAGATTATAATAGTTAGC
7816700 AATGATCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 9 0.32
34 19 0.68
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (34 bp):
TATGGCCCTAGCTAACAGATTATAATAGTTAGCG
Found at i:7817823 original size:2 final size:2
Alignment explanation
Indices: 7817816--7817842 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7817806 CTTTCATAAC
7817816 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
7817843 GAATACGTAT
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:7818818 original size:24 final size:28
Alignment explanation
Indices: 7818766--7818822 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
7818756 TTAATGCATG
7818766 ATTTTTTAAAAATTAAATTATATAATTAT
1 ATTTTTTAAAAATTAAATTATAT-ATTAT
*
7818795 ATTTTTTAAAAATT-AATTATTTATTAT
1 ATTTTTTAAAAATTAAATTATATATTAT
7818822 A
1 A
7818823 CATTATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 6 0.22
28 7 0.26
29 14 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
ATTTTTTAAAAATTAAATTATATATTAT
Found at i:7822344 original size:2 final size:2
Alignment explanation
Indices: 7822337--7822381 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
7822327 GCACTGCATT
*
7822337 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7822379 AG A
1 AG A
7822382 AAAGGACATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7825725 original size:22 final size:22
Alignment explanation
Indices: 7825696--7825813 Score: 89
Period size: 22 Copynumber: 5.4 Consensus size: 22
7825686 ATTGAAAAAT
7825696 TAAATTATCATTGATTTACTAC
1 TAAATTATCATTGATTTACTAC
* * * *
7825718 TATATTATTAGTGATTTACTTC
1 TAAATTATCATTGATTTACTAC
* * *
7825740 TAAACTATTAATGATTTACTA-
1 TAAATTATCATTGATTTACTAC
*
7825761 TCAAATTATCAATT-ATTTATTAC
1 T-AAATTATC-ATTGATTTACTAC
* *
7825784 CAAATTATTAATTGA-TTACTAC
1 TAAATTA-TCATTGATTTACTAC
*
7825806 TAAGTTAT
1 TAAATTAT
7825814 ATAGATTACT
Statistics
Matches: 74, Mismatches: 17, Indels: 11
0.73 0.17 0.11
Matches are distributed among these distances:
21 2 0.03
22 68 0.92
23 4 0.05
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (22 bp):
TAAATTATCATTGATTTACTAC
Found at i:7836966 original size:16 final size:16
Alignment explanation
Indices: 7836945--7836984 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
7836935 AACGATTTGA
7836945 ATGATAATGATGATTT
1 ATGATAATGATGATTT
7836961 ATGATAATGATGATTT
1 ATGATAATGATGATTT
*
7836977 ACGATAAT
1 ATGATAAT
7836985 TTTTAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (16 bp):
ATGATAATGATGATTT
Found at i:7842035 original size:7 final size:7
Alignment explanation
Indices: 7842020--7842069 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
7842010 TTATTCTGAC
*
7842020 AAAATAT
1 AAAAAAT
7842027 AAAAAAT
1 AAAAAAT
7842034 AAAAAAT
1 AAAAAAT
*
7842041 GAAAAA-
1 AAAAAAT
*
7842047 AACAAAT
1 AAAAAAT
7842054 AAAAAA-
1 AAAAAAT
*
7842060 ATAAAAT
1 AAAAAAT
7842067 AAA
1 AAA
7842070 GTCATAAAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
6 9 0.26
7 25 0.74
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:7842716 original size:11 final size:10
Alignment explanation
Indices: 7842695--7842725 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
7842685 TAAATATTTT
7842695 TAAAAAAAAG
1 TAAAAAAAAG
7842705 TAAAAGAAAAG
1 TAAAA-AAAAG
7842716 TAAAAAAAAG
1 TAAAAAAAAG
7842726 AAAGAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (10 bp):
TAAAAAAAAG
Found at i:7843946 original size:31 final size:31
Alignment explanation
Indices: 7843897--7843955 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
7843887 TTCTGGCGAA
* *
7843897 AATTCCGACGAAATTTGAATTTTTCGGCAAT
1 AATTCCGACGAAATTTGAAGTTTCCGGCAAT
*
7843928 AATTCCGGCGAACA-TTGAAGTTTCCGGC
1 AATTCCGACGAA-ATTTGAAGTTTCCGGC
7843956 GACCAGTCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.96
32 1 0.04
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (31 bp):
AATTCCGACGAAATTTGAAGTTTCCGGCAAT
Found at i:7844689 original size:59 final size:59
Alignment explanation
Indices: 7844495--7844853 Score: 442
Period size: 60 Copynumber: 6.0 Consensus size: 59
7844485 TAAAAATAAA
* *
7844495 AAATTCCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAGAAAAAT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTC-CT---AG-AAAAT
*
7844559 AAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC-TAGAAAAT
* * *
7844618 AAATTTC--CAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAG-AAAT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAAAT
*
7844675 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT
* * * *
7844734 CAAAATTTCAAAAAAATAT-TTTTTGGGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAAT
1 --AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT
* * *
7844794 CGAAATTTC-CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCCTACAAAA
1 --AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA-TTTTCCTAGAAAA
7844854 AAAAAATCAT
Statistics
Matches: 267, Mismatches: 19, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
56 1 0.00
57 52 0.19
58 1 0.00
59 62 0.23
60 73 0.27
61 29 0.11
64 49 0.18
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (59 bp):
AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT
Found at i:7861238 original size:22 final size:23
Alignment explanation
Indices: 7861185--7861247 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
7861175 TAAATCATTT
*
7861185 ATAACCTAACAATAAATCACTCA
1 ATAACCTAATAATAAATCACTCA
** *
7861208 A-AATTTAATAATAAATC-TTCA
1 ATAACCTAATAATAAATCACTCA
*
7861229 ATAACCTAATAGTAAATCA
1 ATAACCTAATAATAAATCA
7861248 TCTTATAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
21 4 0.13
22 26 0.84
23 1 0.03
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (23 bp):
ATAACCTAATAATAAATCACTCA
Found at i:7861244 original size:89 final size:89
Alignment explanation
Indices: 7861085--7861269 Score: 203
Period size: 89 Copynumber: 2.1 Consensus size: 89
7861075 TATTTTCATT
* * * * * * * * **
7861085 GTAAATTATTTATAACCTATCAGTAAATTACTTATAACTTAATAGTAAATCTCAAATAACTTTTT
1 GTAAATCATTTATAACCTAACAATAAATCACTCAAAACTTAATAATAAATCTCAAATAACCTAAT
* *
7861150 GGTAAATCACCTATAAAATTTA-TA
66 AGTAAATCACCT-TAAAATATAGTA
*
7861174 GTAAATCATTTATAACCTAACAATAAATCACTCAAAATTTAATAATAAATCTTC-AATAACCTAA
1 GTAAATCATTTATAACCTAACAATAAATCACTCAAAACTTAATAATAAATC-TCAAATAACCTAA
* *
7861238 TAGTAAATCATCTTATAATATAGTA
65 TAGTAAATCACCTTAAAATATAGTA
7861263 GTAAATC
1 GTAAATC
7861270 TCTAATAATT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
88 7 0.09
89 70 0.89
90 2 0.03
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (89 bp):
GTAAATCATTTATAACCTAACAATAAATCACTCAAAACTTAATAATAAATCTCAAATAACCTAAT
AGTAAATCACCTTAAAATATAGTA
Found at i:7861287 original size:22 final size:22
Alignment explanation
Indices: 7861239--7861300 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
7861229 ATAACCTAAT
*
7861239 AGTAAATCATCTTATAATATAGT
1 AGTAAATC-TCTTATAATATAGA
* *
7861262 AGTAAATCTCTAATAATTTAGA
1 AGTAAATCTCTTATAATATAGA
*
7861284 AGTAAATCCCTTATAAT
1 AGTAAATCTCTTATAAT
7861301 CAAGTTGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 26 0.76
23 8 0.24
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (22 bp):
AGTAAATCTCTTATAATATAGA
Found at i:7861310 original size:22 final size:22
Alignment explanation
Indices: 7861285--7861344 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
7861275 TAATTTAGAA
7861285 GTAAATCCCTTATAATCAAGTT
1 GTAAATCCCTTATAATCAAGTT
* * * *
7861307 GTAAATACCATATAACCTAGTT
1 GTAAATCCCTTATAATCAAGTT
* **
7861329 ATAAATCATTTATAAT
1 GTAAATCCCTTATAAT
7861345 TTAATAATAA
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (22 bp):
GTAAATCCCTTATAATCAAGTT
Found at i:7861354 original size:22 final size:22
Alignment explanation
Indices: 7861329--7861370 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
7861319 TAACCTAGTT
*
7861329 ATAAATCATTTATAATTTAATA
1 ATAAATCATCTATAATTTAATA
7861351 ATAAATCATCTATAATTTAA
1 ATAAATCATCTATAATTTAA
7861371 AGGGAGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAAATCATCTATAATTTAATA
Found at i:7861710 original size:24 final size:22
Alignment explanation
Indices: 7861637--7861714 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
7861627 CCTATAGTTG
* *
7861637 TAAATCTCTTATAACTTAATAA
1 TAAATCACTTATAATTTAATAA
*
7861659 TAAATTACTTATAATTTAATAA
1 TAAATCACTTATAATTTAATAA
7861681 TAAATCACTTATAATTTAGAATAA
1 TAAATCACTTATAATTT--AATAA
*
7861705 TGAATCACTT
1 TAAATCACTT
7861715 GTAACCAAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
22 35 0.71
24 14 0.29
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (22 bp):
TAAATCACTTATAATTTAATAA
Found at i:7861744 original size:21 final size:20
Alignment explanation
Indices: 7861706--7861762 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
7861696 TTAGAATAAT
*
7861706 GAATCACTTGTAACCAAGTA
1 GAATCACTTATAACCAAGTA
*
7861726 GAATGCACTTATAATCAAGTAA
1 GAAT-CACTTATAACCAAGT-A
*
7861748 TGAATCACCTATAAC
1 -GAATCACTTATAAC
7861763 ATAATAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.13
21 13 0.43
22 9 0.30
23 4 0.13
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.26
Consensus pattern (20 bp):
GAATCACTTATAACCAAGTA
Found at i:7861771 original size:43 final size:43
Alignment explanation
Indices: 7861677--7861790 Score: 117
Period size: 43 Copynumber: 2.6 Consensus size: 43
7861667 TTATAATTTA
* * *
7861677 ATAATA-AATCACTTATAATTTAGAATAATGAATCACTTGTAACC
1 ATAATAGAATCACTTATAA-TCA-AATAATGAATCACCTATAACC
* *
7861721 A-AGTAGAATGCACTTATAATCAAGTAATGAATCACCTATAA-C
1 ATAATAGAAT-CACTTATAATCAAATAATGAATCACCTATAACC
7861763 ATAATAGAAACTCACTTATAATCAAATA
1 ATAATAG-AA-TCACTTATAATCAAATA
7861791 GTAAATTACT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
42 2 0.03
43 23 0.40
44 23 0.40
45 10 0.17
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (43 bp):
ATAATAGAATCACTTATAATCAAATAATGAATCACCTATAACC
Found at i:7861801 original size:22 final size:22
Alignment explanation
Indices: 7861636--7861801 Score: 81
Period size: 22 Copynumber: 7.5 Consensus size: 22
7861626 ACCTATAGTT
* *
7861636 GTAAATCTCTTATAA-CTTAATA
1 GTAAATCACTTATAATC-AAATA
* * **
7861658 ATAAATTACTTATAATTTAATA
1 GTAAATCACTTATAATCAAATA
* *
7861680 ATAAATCACTTATAATTTAGAATA
1 GTAAATCACTTATAA-TCA-AATA
* * * * *
7861704 ATGAATCACTTGTAACCAAGTA
1 GTAAATCACTTATAATCAAATA
*
7861726 G--AATGCACTTATAATCAAGTA
1 GTAAAT-CACTTATAATCAAATA
* * *
7861747 ATGAATCACCTATAA-CATAATA
1 GTAAATCACTTATAATCA-AATA
7861769 G-AAACTCACTTATAATCAAATA
1 GTAAA-TCACTTATAATCAAATA
*
7861791 GTAAATTACTT
1 GTAAATCACTT
7861802 TTAAATAAAA
Statistics
Matches: 113, Mismatches: 21, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
20 3 0.03
21 18 0.16
22 64 0.57
23 11 0.10
24 17 0.15
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (22 bp):
GTAAATCACTTATAATCAAATA
Found at i:7862432 original size:12 final size:12
Alignment explanation
Indices: 7862380--7862432 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
7862370 AATTCAAGAA
*
7862380 AATATAATTTAAT
1 AATA-AATTTTAT
7862393 AATAAATTATTAT
1 AATAAATT-TTAT
* *
7862406 AATAAACTTAAT
1 AATAAATTTTAT
*
7862418 AATAAATTTTGT
1 AATAAATTTTAT
7862430 AAT
1 AAT
7862433 TCAATTAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
12 19 0.58
13 14 0.42
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (12 bp):
AATAAATTTTAT
Found at i:7862432 original size:24 final size:25
Alignment explanation
Indices: 7862388--7862448 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
7862378 AAAATATAAT
7862388 TTAATAATAAATTATTATAA-TAAA
1 TTAATAATAAATTATTATAATTAAA
* *
7862412 CTTAATAATAAATT-TTGTAATTCAA
1 -TTAATAATAAATTATTATAATTAAA
7862437 TTAATAATAAAT
1 TTAATAATAAAT
7862449 AAATTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 17 0.52
25 16 0.48
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (25 bp):
TTAATAATAAATTATTATAATTAAA
Found at i:7863029 original size:14 final size:15
Alignment explanation
Indices: 7863010--7863045 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
7863000 AACAACTAAA
7863010 TTAATTATATTTA-T
1 TTAATTATATTTACT
*
7863024 TTAATTTTATTTACT
1 TTAATTATATTTACT
7863039 TTAATTA
1 TTAATTA
7863046 CTTTTAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
TTAATTATATTTACT
Found at i:7863554 original size:19 final size:21
Alignment explanation
Indices: 7863530--7863574 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
7863520 AATTAAATAC
7863530 AAAAACAAAT-GAA-AAAAAA
1 AAAAACAAATGGAACAAAAAA
7863549 AAAAACAAATGGAACAAAAAA
1 AAAAACAAATGGAACAAAAAA
7863570 AAAAA
1 AAAAA
7863575 AGAAGAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.42
20 3 0.12
21 11 0.46
ACGTcount: A:0.82, C:0.07, G:0.07, T:0.04
Consensus pattern (21 bp):
AAAAACAAATGGAACAAAAAA
Found at i:7863588 original size:22 final size:21
Alignment explanation
Indices: 7863542--7863600 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 21
7863532 AAACAAATGA
*
7863542 AAAAAAAAAAAACAAATGGAAC
1 AAAAAAAAAAAAGAAA-GGAAC
7863564 AAAAAAAAAAAAG-AAGAGAAGC
1 AAAAAAAAAAAAGAAAG-GAA-C
7863586 AAAACAAAATAAAAG
1 AAAA-AAAA-AAAAG
7863601 TATTGAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.03
21 5 0.16
22 17 0.53
23 4 0.12
24 5 0.16
ACGTcount: A:0.78, C:0.07, G:0.12, T:0.03
Consensus pattern (21 bp):
AAAAAAAAAAAAGAAAGGAAC
Found at i:7864203 original size:21 final size:21
Alignment explanation
Indices: 7864177--7864217 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
7864167 TTTAATATAT
7864177 TTTTAATCTAAA-AATAATTTA
1 TTTTAAT-TAAATAATAATTTA
7864198 TTTTAATTAAATTAATAATT
1 TTTTAATTAAA-TAATAATT
7864218 AATTACATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTAATTAAATAATAATTTA
Found at i:7865293 original size:60 final size:61
Alignment explanation
Indices: 7865229--7865351 Score: 158
Period size: 61 Copynumber: 2.0 Consensus size: 61
7865219 CATTTGGACC
*
7865229 AAATTAGAAATATTT-TCTCTTTTTGAATTTCTAAATTTTTCACCATTTGGGCCTATTTAG
1 AAATTAGAAATATTTCTCTCTTTTTGAATTTCTAAATTTTTCACCATTTGGGCCAATTTAG
***** ** *
7865289 AAATTCTCTTTATTTCTCTCTTTTTTTATTTCTAAATTTTTCACCATTTGGGTCAATTTAG
1 AAATTAGAAATATTTCTCTCTTTTTGAATTTCTAAATTTTTCACCATTTGGGCCAATTTAG
7865350 AA
1 AA
7865352 TTTTTTTTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
60 10 0.19
61 43 0.81
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (61 bp):
AAATTAGAAATATTTCTCTCTTTTTGAATTTCTAAATTTTTCACCATTTGGGCCAATTTAG
Found at i:7865639 original size:190 final size:187
Alignment explanation
Indices: 7865434--7865792 Score: 401
Period size: 190 Copynumber: 1.9 Consensus size: 187
7865424 ATAATCTGAC
* * * * *
7865434 AATTATTTTTTATTGAAA-TTTCATTTAAATTCTTCTACCATTT-GTGACAAATTTA-AGAAAAT
1 AATTATTTGTTATTGAAACTTT-ATCTAAATTATTCCACCATTTAG-GACAAATTTAGACAAAAT
* * * ** *
7865496 TTCTCATCTAGAGATTTCTTA-AAAAATTTATTATTTGAAATTTCTA-AGAATCT-CATCCTTGG
64 TTATCACCTA-AGAATT-TTATAAAAATTTACCATTTGAAATTTCTATA-AAT-TACATCATTGG
*
7865558 ATAATTATCAAATATT-TTCAATCAAAATTTTTTATTTTTTATTTGTTTTGGATTGAAAATAAAT
125 ATAATTA--AAAT-TTATTC--TCAAAATTTGTTATTTTTTATTTGTTTTGGATTGAAAATAAAT
7865622 ATT
185 ATT
*
7865625 AATTA-TTGTTATTGAAACTTTATCTAAATTATTCCACCATTTAGGTCAAATTTAGACAAAATTT
1 AATTATTTGTTATTGAAACTTTATCTAAATTATTCCACCATTTAGGACAAATTTAGACAAAATTT
* * *
7865689 ATTACCTAAGAATTTTATAGAAATTTACCATTTGAAATTTCTATACATTACATCATTGGATAATT
66 ATCACCTAAGAATTTTATAAAAATTTACCATTTGAAATTTCTATAAATTACATCATTGGATAATT
* *
7865754 AACATTTATTCTCAAAATTTGTTATTTTTTATTTTTTTT
131 AAAATTTATTCTCAAAATTTGTTATTTTTTATTTGTTTT
7865793 CTAAATTTAA
Statistics
Matches: 143, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
186 26 0.18
187 2 0.01
188 6 0.04
189 4 0.03
190 82 0.57
191 23 0.16
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (187 bp):
AATTATTTGTTATTGAAACTTTATCTAAATTATTCCACCATTTAGGACAAATTTAGACAAAATTT
ATCACCTAAGAATTTTATAAAAATTTACCATTTGAAATTTCTATAAATTACATCATTGGATAATT
AAAATTTATTCTCAAAATTTGTTATTTTTTATTTGTTTTGGATTGAAAATAAATATT
Found at i:7866905 original size:42 final size:42
Alignment explanation
Indices: 7866821--7867009 Score: 240
Period size: 42 Copynumber: 4.5 Consensus size: 42
7866811 CTCAATGACT
7866821 TTTGAAAAAAATAAAATGCT-TCTCTAAATAGAGGCACCACAAC
1 TTTG-AAAAAATAAAATGCTCT-TCTAAATAGAGGCACCACAAC
* * * *
7866864 TTT-AGAAAAGTAAAATGC-CTTTCTAAACAGAGACACTACAAC
1 TTTGA-AAAAATAAAATGCTC-TTCTAAATAGAGGCACCACAAC
* * *
7866906 TTTGAAAAAGTAAAATGCTCATCTAAATAGAGGCACCATAAC
1 TTTGAAAAAATAAAATGCTCTTCTAAATAGAGGCACCACAAC
*
7866948 TTTGAAAAAATAAAATGCTCTTCTAAATAGAGGCACCACAAT
1 TTTGAAAAAATAAAATGCTCTTCTAAATAGAGGCACCACAAC
*
7866990 TTTGAAAAAATAAAAAGCTC
1 TTTGAAAAAATAAAATGCTC
7867010 ATTGACGATC
Statistics
Matches: 127, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.01
42 120 0.94
43 6 0.05
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (42 bp):
TTTGAAAAAATAAAATGCTCTTCTAAATAGAGGCACCACAAC
Found at i:7867204 original size:23 final size:22
Alignment explanation
Indices: 7867178--7867228 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
7867168 GTTTCATAAG
**
7867178 GATTCAAATTTGCAAGATTTTAA
1 GATTCAAATTTGCAA-ATTGCAA
**
7867201 GATTCTTATTTGCAAATTGCAA
1 GATTCAAATTTGCAAATTGCAA
7867223 GATTCA
1 GATTCA
7867229 CATCTAGCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (22 bp):
GATTCAAATTTGCAAATTGCAA
Found at i:7867247 original size:21 final size:22
Alignment explanation
Indices: 7867221--7867274 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
7867211 TGCAAATTGC
*
7867221 AAGATTCACATCTAGCA-TTTA
1 AAGATTCACATCTAGAATTTTA
* *
7867242 AAGATTCTCAT-TTGAATTTTA
1 AAGATTCACATCTAGAATTTTA
7867263 AAGATTCACATC
1 AAGATTCACATC
7867275 CAAAAGTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (22 bp):
AAGATTCACATCTAGAATTTTA
Found at i:7867268 original size:42 final size:43
Alignment explanation
Indices: 7867194--7867274 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
7867184 AATTTGCAAG
* * *
7867194 ATTTTAAGATTCTTATTTGCAAATTGCAAGATTCACATCTAGC
1 ATTTAAAGATTCTCATTTGCAAATTGAAAGATTCACATCTAGC
* *
7867237 ATTTAAAGATTCTCATTTG-AATTTTAAAGATTCACATC
1 ATTTAAAGATTCTCATTTGCAAATTGAAAGATTCACATC
7867275 CAAAAGTTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 16 0.48
43 17 0.52
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.41
Consensus pattern (43 bp):
ATTTAAAGATTCTCATTTGCAAATTGAAAGATTCACATCTAGC
Found at i:7867363 original size:21 final size:22
Alignment explanation
Indices: 7867339--7867395 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
7867329 GTTTCACACC
* *
7867339 TCAAAGATTTTCATTTGA-AAT
1 TCAAAAATTCTCATTTGAGAAT
7867360 TCAAAAATTCTCATTTGAGAAT
1 TCAAAAATTCTCATTTGAGAAT
*
7867382 TTAAAAATTCTCAT
1 TCAAAAATTCTCAT
7867396 CAAAAGATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (22 bp):
TCAAAAATTCTCATTTGAGAAT
Done.