Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 55 of 318
Found at i:19750658 original size:20 final size:19
Alignment explanation
Indices: 19750635--19750699 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 19
19750625 TATTATTAAT
19750635 TTTAAAAATTTTGAAATATA
1 TTTAAAAATTTT-AAATATA
19750655 TTTAAAATATTTTAATAATATATA
1 TTTAAAA-A-TTT--TAA-ATATA
*
19750679 TTTTTAAAATTTTAAATATA
1 -TTTAAAAATTTTAAATATA
19750699 T
1 T
19750700 ATTTTGAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
19 1 0.03
20 12 0.32
21 4 0.11
22 3 0.08
23 5 0.13
24 7 0.18
25 6 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TTTAAAAATTTTAAATATA
Found at i:19750664 original size:11 final size:10
Alignment explanation
Indices: 19750633--19750675 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
19750623 TTTATTATTA
19750633 ATTTTAAAA-
1 ATTTTAAAAT
*
19750642 ATTTTGAAAT
1 ATTTTAAAAT
19750652 ATATTTAAAAT
1 AT-TTTAAAAT
19750663 ATTTTAATAAT
1 ATTTTAA-AAT
19750674 AT
1 AT
19750676 ATATTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.28
10 7 0.24
11 14 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:19750679 original size:26 final size:24
Alignment explanation
Indices: 19750650--19750701 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
19750640 AAATTTTGAA
*
19750650 ATATATTTAAAATATTTTAATAATAT
1 ATATATTTAAAAT-TTTAAAT-ATAT
*
19750676 ATATTTTTAAAATTTTAAATATAT
1 ATATATTTAAAATTTTAAATATAT
19750700 AT
1 AT
19750702 TTTGAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.25
25 6 0.25
26 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATATTTAAAATTTTAAATATAT
Found at i:19750681 original size:24 final size:21
Alignment explanation
Indices: 19750635--19750703 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 21
19750625 TATTATTAAT
*
19750635 TTTAAAAATTTTGAA-ATATA
1 TTTAAAAATTTTAAATATATA
19750655 TTTAAAATATTTTAATAATATATA
1 TTTAAAA-ATTTT-A-AATATATA
*
19750679 TTTTTAAAATTTTAAATATATA
1 -TTTAAAAATTTTAAATATATA
19750701 TTT
1 TTT
19750704 TGAAATTACT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
20 7 0.17
21 8 0.19
22 8 0.19
23 3 0.07
24 10 0.24
25 6 0.14
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (21 bp):
TTTAAAAATTTTAAATATATA
Found at i:19750696 original size:22 final size:22
Alignment explanation
Indices: 19750633--19750704 Score: 85
Period size: 22 Copynumber: 3.2 Consensus size: 22
19750623 TTTATTATTA
*
19750633 ATTTTAAAAATTTTGAA-ATAT
1 ATTTTAAAAATTTTAAATATAT
19750654 A-TTTAAAATATTTTAATAATATAT
1 ATTTTAAAA-ATTTT-A-AATATAT
*
19750678 ATTTTTAAAATTTTAAATATAT
1 ATTTTAAAAATTTTAAATATAT
19750700 ATTTT
1 ATTTT
19750705 GAAATTACTT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
20 7 0.16
21 6 0.14
22 12 0.27
23 3 0.07
24 10 0.23
25 6 0.14
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (22 bp):
ATTTTAAAAATTTTAAATATAT
Found at i:19750725 original size:58 final size:56
Alignment explanation
Indices: 19750642--19750753 Score: 131
Period size: 58 Copynumber: 2.0 Consensus size: 56
19750632 AATTTTAAAA
19750642 ATTTTGAAATATATTTAAAATATTTTAATAATATATATTTTTAAAAT-TTTAAATATAT
1 ATTTTGAAATATATTTAAAATATTTT-A-AATAT-TATTTTTAAAATATTTAAATATAT
* **
19750700 ATTTTGAAAT-TACTTTTTAAA-ATTTTAAATATTATTTTTTTAATATTTAAATAT
1 ATTTTGAAATATA--TTTAAAATATTTTAAATATTATTTTTAAAATATTTAAATAT
19750754 TTTAAACTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
55 10 0.21
56 14 0.29
57 3 0.06
58 15 0.31
59 6 0.12
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (56 bp):
ATTTTGAAATATATTTAAAATATTTTAAATATTATTTTTAAAATATTTAAATATAT
Found at i:19750738 original size:22 final size:21
Alignment explanation
Indices: 19750700--19750754 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
19750690 TTAAATATAT
*
19750700 ATTTTGAA-ATTACTTTTTAAA
1 ATTTTAAATATTACTTTTT-AA
* *
19750721 ATTTTAAATATTATTTTTTTA
1 ATTTTAAATATTACTTTTTAA
19750742 ATATTTAAATATT
1 AT-TTTAAATATT
19750755 TTAAACTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTAAATATTACTTTTTAA
Found at i:19750865 original size:11 final size:14
Alignment explanation
Indices: 19750820--19750858 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
19750810 TTTTATAATA
19750820 TTTTAAATTATGAT
1 TTTTAAATTATGAT
19750834 TTTTAAATTATGAT
1 TTTTAAATTATGAT
19750848 TTTTAAATTAT
1 TTTTAAATTAT
19750859 TTTTAAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (14 bp):
TTTTAAATTATGAT
Found at i:19751715 original size:20 final size:20
Alignment explanation
Indices: 19751687--19751758 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
19751677 GTTGGTTATA
*
19751687 ATTTTTAAATTTTAGTACAC
1 ATTTATAAATTTTAGTACAC
*
19751707 ATTTATAAATTTATA-TATTA-
1 ATTTATAAATTT-TAGTA-CAC
* *
19751727 ATTTTTTAATTTTAGTACAC
1 ATTTATAAATTTTAGTACAC
*
19751747 ATTCATAAATTT
1 ATTTATAAATTT
19751759 ATGTAGTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
19 3 0.08
20 34 0.85
21 3 0.08
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTATAAATTTTAGTACAC
Found at i:19751729 original size:40 final size:41
Alignment explanation
Indices: 19751685--19751769 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 41
19751675 GTGTTGGTTA
*
19751685 TAATTTTTAAATTTTAGTACACATTTATAAATTTATATA-T
1 TAATTTTTAAATTTTAGTACACATTCATAAATTTATATAGT
* *
19751725 TAATTTTTTAATTTTAGTACACATTCATAAATTTATGTAGT
1 TAATTTTTAAATTTTAGTACACATTCATAAATTTATATAGT
19751766 TAAT
1 TAAT
19751770 ATATATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 36 0.88
41 5 0.12
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (41 bp):
TAATTTTTAAATTTTAGTACACATTCATAAATTTATATAGT
Found at i:19751780 original size:40 final size:40
Alignment explanation
Indices: 19751694--19751780 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
19751684 ATAATTTTTA
* * *
19751694 AATTTTAGTACACATTTATAAATTTATATATTAATTTTTT
1 AATTTTAGTACACATTCATAAATTTATATATTAATTATAT
*
19751734 AATTTTAGTACACATTCATAAATTTATGTAGTTAA-TATAT
1 AATTTTAGTACACATTCATAAATTTATATA-TTAATTATAT
*
19751774 ATTTTTA
1 AATTTTA
19751781 ATAGATAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 37 0.90
41 4 0.10
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (40 bp):
AATTTTAGTACACATTCATAAATTTATATATTAATTATAT
Found at i:19751919 original size:71 final size:72
Alignment explanation
Indices: 19751833--19751977 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
19751823 GTTTAAAAAC
* * * * * *
19751833 TTAAAGAAATTAAATATATTAAAAAACGTTATGTATAGCGAATTTTAAAATTTTAATATATTTAA
1 TTAAAGAAATTAAATATATTAAAAAACGTTAAGTATAACCAATATTAAAATTATAATATATTCAA
19751898 TATATTT
66 TATATTT
*
19751905 TTAAA-AAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAA
1 TTAAAGAAATTAAATATATTAAAAAACGTTAAGTATAACCAATATTAAAATTATAATATATTCAA
*
19751969 TTTATTT
66 TATATTT
19751976 TT
1 TT
19751978 TTAAAATATA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
71 60 0.92
72 5 0.08
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (72 bp):
TTAAAGAAATTAAATATATTAAAAAACGTTAAGTATAACCAATATTAAAATTATAATATATTCAA
TATATTT
Found at i:19754174 original size:30 final size:30
Alignment explanation
Indices: 19754140--19754221 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
19754130 GACATTGCCG
* *
19754140 GTTCAAGTTCATATCACCCGGGCATAGGCA
1 GTTCAAGTTCATATCACCCAGACATAGGCA
* *
19754170 GTTCAAGTTCGTATCACCCAGACATAGGCG
1 GTTCAAGTTCATATCACCCAGACATAGGCA
* *
19754200 GTTCGAGTTCATTTCACCCAGA
1 GTTCAAGTTCATATCACCCAGA
19754222 GCAACCACCG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (30 bp):
GTTCAAGTTCATATCACCCAGACATAGGCA
Found at i:19758120 original size:23 final size:22
Alignment explanation
Indices: 19758093--19758135 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
19758083 TTAAATTTAA
*
19758093 ATTTAATAATTTATAAAAATTAT
1 ATTTAA-AATTTAAAAAAATTAT
19758116 ATTTAAAATTTAAAAAAATT
1 ATTTAAAATTTAAAAAAATT
19758136 TAAAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTAAAATTTAAAAAAATTAT
Found at i:19758140 original size:30 final size:30
Alignment explanation
Indices: 19758078--19758163 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
19758068 TGAATATCTT
* *
19758078 TAAAATTAAATTT-AAATTT-AATAATTTA
1 TAAAATTAAATTTAAAATTTAAAAAAATTA
*
19758106 TAAAAATTATATTTAAAATTTAAAAAAATT-
1 T-AAAATTAAATTTAAAATTTAAAAAAATTA
*
19758136 TAAAATATAAATTTAAAATATTATAAAA
1 TAAAAT-TAAATTTAAAAT-TTAAAAAA
19758164 CAAATAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
28 1 0.02
29 16 0.33
30 18 0.38
31 13 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
TAAAATTAAATTTAAAATTTAAAAAAATTA
Found at i:19758149 original size:13 final size:13
Alignment explanation
Indices: 19758131--19758156 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19758121 AAATTTAAAA
19758131 AAATTTAAAATAT
1 AAATTTAAAATAT
19758144 AAATTTAAAATAT
1 AAATTTAAAATAT
19758157 TATAAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTTAAAATAT
Found at i:19758237 original size:24 final size:24
Alignment explanation
Indices: 19758191--19758270 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
19758181 ATGTCATATC
* * *
19758191 TTTAAAAATAATATATTTTAAATTA
1 TTTAAAAATCATA-ATTTAAAATAA
*
19758216 TTTCAAAATCATAATTTAAAATAA
1 TTTAAAAATCATAATTTAAAATAA
*
19758240 TTTAAAAATCATAA-TTAAAAAAA
1 TTTAAAAATCATAATTTAAAATAA
19758263 TTATAAAA
1 TT-TAAAA
19758271 CAAATTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 10 0.21
24 27 0.56
25 11 0.23
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
TTTAAAAATCATAATTTAAAATAA
Found at i:19758259 original size:13 final size:13
Alignment explanation
Indices: 19758220--19758260 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
19758210 AAATTATTTC
*
19758220 AAAATCATAATTT
1 AAAATCATAATTA
*
19758233 AAAAT-A-ATTTA
1 AAAATCATAATTA
19758244 AAAATCATAATTA
1 AAAATCATAATTA
19758257 AAAA
1 AAAA
19758261 AATTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 13 0.57
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATCATAATTA
Found at i:19758378 original size:17 final size:18
Alignment explanation
Indices: 19758326--19758379 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
19758316 TTAAAAGGTC
*
19758326 ATATCTTTAAAATATTTAA
1 ATAT-TTTATAATATTTAA
* *
19758345 ATGTTTTATATTA-TTAA
1 ATATTTTATAATATTTAA
19758362 ATATTTT-TAATATTTAA
1 ATATTTTATAATATTTAA
19758379 A
1 A
19758380 AAATAATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 4 0.14
17 15 0.52
18 7 0.24
19 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
ATATTTTATAATATTTAA
Found at i:19758411 original size:34 final size:33
Alignment explanation
Indices: 19758373--19758477 Score: 99
Period size: 33 Copynumber: 3.2 Consensus size: 33
19758363 TATTTTTAAT
* * *
19758373 ATTTAAAAAATAATATTTAAATTTTTA-AACAATG
1 ATTT-AAAAATAATATTTAAA-ATTTAGAAAAATA
*
19758407 ATTTAAAAGTAATATTTAAAATTTAGAAAAATA
1 ATTTAAAAATAATATTTAAAATTTAGAAAAATA
* *
19758440 ATTTTAAATATATATATTTAAAACTTA-AAAAAT-
1 A-TTTAAAAATA-ATATTTAAAATTTAGAAAAATA
19758473 ATTTA
1 ATTTA
19758478 TTATAAAACA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
32 8 0.13
33 22 0.36
34 18 0.30
35 13 0.21
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (33 bp):
ATTTAAAAATAATATTTAAAATTTAGAAAAATA
Found at i:19758554 original size:4 final size:5
Alignment explanation
Indices: 19758529--19758579 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
19758519 TAATAATAAG
*
19758529 AAAAT AAAAT AAAAT AAAAT -AAAT AAAGAT AAAGAAA AAAAT AAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT -AA-AAT AAAAT AAAAT
19758575 AAAAT
1 AAAAT
19758580 GTCAGAGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 8 0.21
5 23 0.59
6 4 0.10
7 3 0.08
8 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:19758672 original size:21 final size:21
Alignment explanation
Indices: 19758620--19758680 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
19758610 GTAAAAAAAA
**
19758620 TTAAAAATATATATTTAATGTT
1 TTAAAAATA-ATATTTAAAATT
*
19758642 TAAAAAATAATATTTAAAATT
1 TTAAAAATAATATTTAAAATT
19758663 TTAAAAAT-A-ATTTAAAAT
1 TTAAAAATAATATTTAAAAT
19758681 AATATTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.26
20 1 0.03
21 17 0.49
22 8 0.23
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TTAAAAATAATATTTAAAATT
Found at i:19758705 original size:2 final size:2
Alignment explanation
Indices: 19758698--19758731 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
19758688 AAAATTTAAA
*
19758698 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19758732 AAACATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:19759420 original size:20 final size:22
Alignment explanation
Indices: 19759389--19759430 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
19759379 TTTAAAAAGT
19759389 AATTTCAAAATATATAT-TTAA
1 AATTTCAAAATATATATATTAA
19759410 AATTT-AAAATATATATATTAA
1 AATTTCAAAATATATATATTAA
19759431 TAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTTCAAAATATATATATTAA
Found at i:19759427 original size:26 final size:26
Alignment explanation
Indices: 19759411--19759481 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
19759401 TATATTTAAA
19759411 ATTTAAAATATATATATTAATAAAAT
1 ATTTAAAATATATATATTAATAAAAT
* *
19759437 ATTTTAAATATATAT-TTCA-AAAAT
1 ATTTAAAATATATATATTAATAAAAT
*
19759461 -TTTAAAAT-TA-ATAATAATAAA
1 ATTTAAAATATATATATTAATAAA
19759482 TAAAATAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 2 0.05
22 4 0.11
23 10 0.26
24 5 0.13
25 3 0.08
26 14 0.37
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTTAAAATATATATATTAATAAAAT
Found at i:19759434 original size:24 final size:24
Alignment explanation
Indices: 19759389--19759481 Score: 74
Period size: 26 Copynumber: 4.0 Consensus size: 24
19759379 TTTAAAAAGT
*
19759389 AATTTCAAA-ATATATATT--TAA
1 AATTTAAAATATATATATTAATAA
19759410 AATTTAAAATATATATATTAATAAA
1 AATTTAAAATATATATATTAAT-AA
*
19759435 ATATTTTAAATATATAT-TTCAA-AA
1 A-ATTTAAAATATATATATT-AATAA
* *
19759459 ATTTTAAAAT-TA-ATAATAATAA
1 AATTTAAAATATATATATTAATAA
19759481 A
1 A
19759482 TAAAATAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
21 12 0.20
22 15 0.25
23 7 0.12
24 4 0.07
25 5 0.08
26 16 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
AATTTAAAATATATATATTAATAA
Found at i:19759491 original size:46 final size:46
Alignment explanation
Indices: 19759396--19759492 Score: 110
Period size: 46 Copynumber: 2.1 Consensus size: 46
19759386 AGTAATTTCA
* ***
19759396 AAATATATATTTAAAATTTAAAATATATATATTAATAAAATATTTT
1 AAATATATATTTAAAATTTAAAATATATATAATAATAAAATAAAAT
19759442 AAATATATATTTCAAAAATTTTAAAAT-TA-ATAATAAT-AAATAAAAT
1 AAATATATATTT--AAAA-TTTAAAATATATATAATAATAAAATAAAAT
19759488 AAATA
1 AAATA
19759493 AATAAAGACA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
46 23 0.52
47 7 0.16
48 6 0.14
49 8 0.18
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (46 bp):
AAATATATATTTAAAATTTAAAATATATATAATAATAAAATAAAAT
Found at i:19762710 original size:38 final size:38
Alignment explanation
Indices: 19762616--19762803 Score: 207
Period size: 38 Copynumber: 4.9 Consensus size: 38
19762606 CGAGGTATAA
* * * *
19762616 AACCCAAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCAGATATAATACCAGCACGAAGCCTGCGGGA-TTT
* * *
19762655 AAACTCAGATATAATACCAGCACTAGGCCTGCGGGATTT
1 -AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
*
19762694 AACCCAGATATAATACCAGCACGAAGCCTACGGGATTT
1 AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
* * * *
19762732 AACCCGGATATATTACCAGCACAAAGCCTGTGGGATTT
1 AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
* * *
19762770 AACCCGGATATAATTCCAGCA-TATAGCCTGCGGG
1 AACCCAGATATAATACCAGCACGA-AGCCTGCGGG
19762804 TCTTTAAGCC
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
37 1 0.01
38 95 0.75
39 3 0.02
40 28 0.22
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (38 bp):
AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:19762769 original size:76 final size:78
Alignment explanation
Indices: 19762616--19762790 Score: 237
Period size: 76 Copynumber: 2.3 Consensus size: 78
19762606 CGAGGTATAA
* * * * * *
19762616 AACCCAAACATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTAG
1 AACCCAGATATAATACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACAAA
19762681 GCCTGCGGGATTT
66 GCCTGCGGGATTT
* *
19762694 AACCCAGATATAATACCAGCACGAAGCCTACGGGA-TTT-AACCCGGATATATTACCAGCACAAA
1 AACCCAGATATAATACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACAAA
*
19762757 GCCTGTGGGATTT
66 GCCTGCGGGATTT
* *
19762770 AACCCGGATATAATTCCAGCA
1 AACCCAGATATAATACCAGCA
19762791 TATAGCCTGC
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
76 51 0.59
77 3 0.03
78 32 0.37
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.19
Consensus pattern (78 bp):
AACCCAGATATAATACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACAAA
GCCTGCGGGATTT
Found at i:19776326 original size:46 final size:45
Alignment explanation
Indices: 19776276--19776451 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 45
19776266 TGATTGAGCA
19776276 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
19776322 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
19776367 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
19776415 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19776452 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 61 0.55
47 28 0.25
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:19776432 original size:93 final size:93
Alignment explanation
Indices: 19776273--19776444 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
19776263 GGATGATTGA
19776273 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
19776338 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
19776366 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
19776430 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
19776445 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19778230 original size:4 final size:4
Alignment explanation
Indices: 19778216--19778246 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
19778206 TATAGCCGAA
19778216 AAAT AAAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AA
19778247 TACAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:19781721 original size:21 final size:21
Alignment explanation
Indices: 19781683--19781813 Score: 133
Period size: 21 Copynumber: 6.3 Consensus size: 21
19781673 GGCATGAGCC
*
19781683 AACAGAAGCTCG--AAAGCTG
1 AACAGAAGCTCGTAAAAGCTA
*
19781702 AACAGAAGCTTGTAAAAGCTA
1 AACAGAAGCTCGTAAAAGCTA
* * * * *
19781723 AACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAAAGCTA
*
19781744 AACAGAAGCTC-AAAAGAGCTA
1 AACAGAAGCTCGTAAA-AGCTA
* *
19781765 AACAAAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAAAGCTA
*
19781786 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAAAGCTA
19781807 AACAGAA
1 AACAGAA
19781814 AGTAAAACAC
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
19 11 0.12
20 2 0.02
21 76 0.84
22 2 0.02
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCGTAAAAGCTA
Found at i:19781786 original size:63 final size:61
Alignment explanation
Indices: 19781683--19781813 Score: 163
Period size: 63 Copynumber: 2.1 Consensus size: 61
19781673 GGCATGAGCC
* * * * * *
19781683 AACAGAAGCTCGAAAGCTGAACAGAAGCTTGTAAAAGCTAAACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCAAAAGCTAAACAAAAGCTCGTAAAAGCTAAACAGAAACTCATAAGAGCTA
* * *
19781744 AACAGAAGCTCAAAAGAGCTAAACAAAAGCTCGTAAGAGCTAAACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTC-AAA-AGCTAAACAAAAGCTCGTAAAAGCTAAACAGAAACTCATAAGAGCTA
19781807 AACAGAA
1 AACAGAA
19781814 AGTAAAACAC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
61 11 0.19
62 2 0.03
63 46 0.78
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.14
Consensus pattern (61 bp):
AACAGAAGCTCAAAAGCTAAACAAAAGCTCGTAAAAGCTAAACAGAAACTCATAAGAGCTA
Found at i:19782241 original size:76 final size:76
Alignment explanation
Indices: 19782115--19782268 Score: 272
Period size: 76 Copynumber: 2.0 Consensus size: 76
19782105 TTTTTCCTTT
*
19782115 TTCACGAGTTTCTACGGGATCTTAATTTAAAATATAAAATTATTCATTCATTAGCATATATTTCA
1 TTCACGAGTTTCTACAGGATCTTAATTTAAAATATAAAATTATTCATTCATTAGCATATATTTCA
19782180 CTTATAATTCA
66 CTTATAATTCA
* * *
19782191 TTCACGAGTTTCTACAGGATTTTGATTTAAAATTTAAAATTATTCATTCATTAGCATATATTTCA
1 TTCACGAGTTTCTACAGGATCTTAATTTAAAATATAAAATTATTCATTCATTAGCATATATTTCA
19782256 CTTATAATTCA
66 CTTATAATTCA
19782267 TT
1 TT
19782269 TCACAATTAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (76 bp):
TTCACGAGTTTCTACAGGATCTTAATTTAAAATATAAAATTATTCATTCATTAGCATATATTTCA
CTTATAATTCA
Found at i:19799332 original size:25 final size:27
Alignment explanation
Indices: 19799286--19799346 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
19799276 TTATGTTTTA
* * *
19799286 TTTATATTTTTTTTATTATACATTCA-T
1 TTTATA-TTTTTTAACTATACATGCATT
19799313 TTTATATTTTTTAACT-TACATGCATT
1 TTTATATTTTTTAACTATACATGCATT
19799339 TTTATATT
1 TTTATATT
19799347 CGTTCATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 7 0.23
26 17 0.57
27 6 0.20
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTATATTTTTTAACTATACATGCATT
Found at i:19799627 original size:28 final size:27
Alignment explanation
Indices: 19799590--19799657 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 27
19799580 ATTATTATTA
*
19799590 TTATTATTATTATTATTATTTTAAATCACTG
1 TTATTATTATTATTACTA-TTT-AAT-A-TG
19799621 TTATTATT-TT-TTACTATTTAATATG
1 TTATTATTATTATTACTATTTAATATG
19799646 TTATTATTATTA
1 TTATTATTATTA
19799658 CTAAATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 10 0.29
26 3 0.09
27 3 0.09
28 3 0.09
29 5 0.15
30 2 0.06
31 8 0.24
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (27 bp):
TTATTATTATTATTACTATTTAATATG
Found at i:19799628 original size:3 final size:3
Alignment explanation
Indices: 19799470--19799609 Score: 110
Period size: 3 Copynumber: 46.3 Consensus size: 3
19799460 GTAAATTTAA
* *
19799470 TAT TAT CTAT TAT TAT TAT TAT TAT TAT TAT CAT T-T ATAT TCAT CAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT T-AT TAT
* * * * * *
19799517 CAT TAT TGT TAT TAC TAT TAT TAT TAT T-T T-T TAC CAC TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
19799562 ATAT TCAC TAT T-T CTAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 -TAT T-AT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19799609 T
1 T
19799610 TTAAATCACT
Statistics
Matches: 113, Mismatches: 14, Indels: 20
0.77 0.10 0.14
Matches are distributed among these distances:
2 7 0.06
3 96 0.85
4 10 0.09
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:19799637 original size:65 final size:65
Alignment explanation
Indices: 19799518--19799657 Score: 158
Period size: 65 Copynumber: 2.2 Consensus size: 65
19799508 ATTCATCATC
* ** *
19799518 ATTATTGTTATTACTATTATTATTATTTTTTACCACTATTATTTATATTCACTATTT-CTATTAT
1 ATTATTATTATTACTATTATTATTATTTTAAACCACTATTATTTATATTCACTATTTAATA-TAT
19799582 T
65 T
* * * * * *
19799583 ATTATTATTATTATTATTATTATTATTTTAAATCACTGTTA-TTATTTTTTACTATTTAATATGT
1 ATTATTATTATTACTATTATTATTATTTTAAACCACTATTATTTA-TATTCACTATTTAATATAT
19799647 T
65 T
19799648 ATTATTATTA
1 ATTATTATTA
19799658 CTAAATTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
64 3 0.05
65 58 0.92
66 2 0.03
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (65 bp):
ATTATTATTATTACTATTATTATTATTTTAAACCACTATTATTTATATTCACTATTTAATATATT
Found at i:19799970 original size:9 final size:8
Alignment explanation
Indices: 19799954--19800013 Score: 54
Period size: 9 Copynumber: 7.2 Consensus size: 8
19799944 AACTTTAAAA
19799954 TATT-TAT
1 TATTATAT
19799961 TACTTATAT
1 TA-TTATAT
19799970 TATTACTAT
1 TATTA-TAT
19799979 TA--ATAT
1 TATTATAT
19799985 TATTATTAT
1 TATTA-TAT
19799994 TATTATCAT
1 TATTAT-AT
19800003 TATTATCAT
1 TATTAT-AT
19800012 TA
1 TA
19800014 CTGTACTATC
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
6 5 0.11
7 3 0.07
8 7 0.15
9 31 0.67
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (8 bp):
TATTATAT
Found at i:19799985 original size:6 final size:6
Alignment explanation
Indices: 19799957--19800013 Score: 62
Period size: 6 Copynumber: 9.5 Consensus size: 6
19799947 TTTAAAATAT
* * *
19799957 TTATTA CTTA-TA TTATTA CTATTA ATATTA TTATTA TTATTA TCATTA
1 TTATTA -TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
*
19800005 TTATCA TTA
1 TTATTA TTA
19800014 CTGTACTATC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
5 3 0.07
6 37 0.86
7 3 0.07
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (6 bp):
TTATTA
Found at i:19800004 original size:15 final size:15
Alignment explanation
Indices: 19799957--19800013 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
19799947 TTTAAAATAT
19799957 TTATTACTTA-TATTA
1 TTATTA-TTATTATTA
* *
19799972 TTACTATTAATATTA
1 TTATTATTATTATTA
*
19799987 TTATTATTATTATCA
1 TTATTATTATTATTA
*
19800002 TTATTATCATTA
1 TTATTATTATTA
19800014 CTGTACTATC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
14 3 0.08
15 33 0.92
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATTATTATTATTA
Found at i:19800132 original size:18 final size:17
Alignment explanation
Indices: 19800084--19800126 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 17
19800074 TAATTCTAAA
19800084 TATTTCTTAGTTTATTCAT
1 TATTTCTT--TTTATTCAT
19800103 TATTTCCTTTTTATTCATT
1 TATTT-CTTTTTATTCA-T
19800122 TATTT
1 TATTT
19800127 TATTTTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.36
19 11 0.50
20 3 0.14
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTTCTTTTTATTCAT
Found at i:19800132 original size:19 final size:18
Alignment explanation
Indices: 19800094--19800157 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
19800084 TATTTCTTAG
*
19800094 TTTATTCATTATTTCCTT
1 TTTATTCATTATTTCATT
*
19800112 TTTATTCATTTATTTTATT
1 TTTATTCA-TTATTTCATT
* *
19800131 TTTGTTC-TTATCATCATT
1 TTTATTCATTAT-TTCATT
*
19800149 ATTATTCAT
1 TTTATTCAT
19800158 ATTCATCTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
17 4 0.11
18 17 0.47
19 15 0.42
ACGTcount: A:0.20, C:0.12, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTATTCATTATTTCATT
Found at i:19810014 original size:16 final size:16
Alignment explanation
Indices: 19809993--19810025 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19809983 TTCAAGTCAT
19809993 CGCAACTCTTTTGTCC
1 CGCAACTCTTTTGTCC
19810009 CGCAACTCTTTTGTCC
1 CGCAACTCTTTTGTCC
19810025 C
1 C
19810026 CACTTTCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.39, G:0.12, T:0.36
Consensus pattern (16 bp):
CGCAACTCTTTTGTCC
Found at i:19814000 original size:23 final size:23
Alignment explanation
Indices: 19813934--19814000 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
19813924 TATAAGAAAA
*
19813934 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
19813954 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
19813977 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
19814000 A
1 A
19814001 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:19814015 original size:44 final size:44
Alignment explanation
Indices: 19813961--19814047 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
19813951 ATTAGTATAT
19813961 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
19814005 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
19814048 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:19814032 original size:15 final size:14
Alignment explanation
Indices: 19813959--19814087 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 14
19813949 ATATTAGTAT
*
19813959 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
19813972 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
19813988 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
19814002 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
19814017 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
19814032 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
19814046 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
19814061 ATAAATATAAATAG
1 ATAAATAAAAATAG
19814075 A-AACATAAAAATA
1 ATAA-ATAAAAATA
19814088 ATAGCAATAA
Statistics
Matches: 92, Mismatches: 12, Indels: 23
0.72 0.09 0.18
Matches are distributed among these distances:
12 6 0.07
13 8 0.09
14 30 0.33
15 35 0.38
16 6 0.07
17 7 0.08
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:19814037 original size:29 final size:28
Alignment explanation
Indices: 19813980--19814087 Score: 73
Period size: 29 Copynumber: 3.8 Consensus size: 28
19813970 TAAAAATATA
* * *
19813980 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAACATAAAAATAG-ATAAAT
19814009 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AACATAAAAA-TAGATAAAT
*
19814038 A-ATAATAGTATTAGA-ATAACAA-A-ATAAAT
1 ATA-AATAG-A--A-ACATAAAAATAGATAAAT
19814067 ATAAATAGAAACATAAAAATA
1 ATAAATAGAAACATAAAAATA
19814088 ATAGCAATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 2 0.03
29 38 0.58
30 8 0.12
31 2 0.03
32 7 0.11
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (28 bp):
ATAAATAGAAACATAAAAATAGATAAAT
Found at i:19818768 original size:46 final size:46
Alignment explanation
Indices: 19818716--19818888 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
19818706 GTAACCCGTC
* *
19818716 CATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATT
*
19818762 CATAAGTGAACTCGGACTCAACTCAACGAGCTC-AG-ATGC-CTAGTT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGC-A-TT
* * * * * *
19818807 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATC
1 -CA--TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATT
19818855 CATAAGTGAACTCGGACTCAACTCAACGAGCTCG
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCG
19818889 GATGCCCAAA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 5 0.05
46 60 0.57
47 27 0.26
48 4 0.04
49 3 0.03
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATT
Found at i:19818835 original size:93 final size:93
Alignment explanation
Indices: 19818723--19818894 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
19818713 GTCCATAAGT
** *
19818723 GAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATTCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19818788 CGAGCTCAGATGCCTAGTTACATCTCAC
66 CGAGCTCAGATGCCTAGTTACATCTCAC
* * *
19818816 GAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
19818881 CGAGCTCGGATGCC
66 CGAGCTCAGATGCC
19818895 CAAATATTCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCAC
Found at i:19820558 original size:9 final size:9
Alignment explanation
Indices: 19820544--19820593 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
19820534 TTTATACAAA
19820544 TAATTCGGT
1 TAATTCGGT
19820553 TAATTCGGT
1 TAATTCGGT
* *
19820562 TAATTTGGG
1 TAATTCGGT
19820571 TAATTCAGG-
1 TAATTC-GGT
*
19820580 TAAGTCGGT
1 TAATTCGGT
19820589 TAATT
1 TAATT
19820594 TTATACTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
8 2 0.06
9 30 0.88
10 2 0.06
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (9 bp):
TAATTCGGT
Found at i:19825535 original size:19 final size:18
Alignment explanation
Indices: 19825493--19825537 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
19825483 TCCCTCAAAA
19825493 ATTTTTATACTTCCTCAT
1 ATTTTTATACTTCCTCAT
19825511 ATTTTTAGTA-TTCTCTCAT
1 ATTTTTA-TACTTC-CTCAT
*
19825530 TTTTTTAT
1 ATTTTTAT
19825538 CGGGTTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.20, C:0.16, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTTTATACTTCCTCAT
Found at i:19827105 original size:43 final size:43
Alignment explanation
Indices: 19827036--19827176 Score: 219
Period size: 43 Copynumber: 3.3 Consensus size: 43
19827026 TTAAAAAAAT
* *
19827036 GCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTCCCCACAAAC
1 GCCGCTAAAGGTCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
19827079 GCCGTTAGAGGTCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGGTCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
19827122 GCCGCTAAAGATCTTTACCTTTAGCGGCGCTTTTCCCGCAAAC
1 GCCGCTAAAGGTCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
19827165 GCCGCTAAAGGT
1 GCCGCTAAAGGT
19827177 AATGAAATTT
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAGGTCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:19828466 original size:138 final size:138
Alignment explanation
Indices: 19828218--19828469 Score: 452
Period size: 138 Copynumber: 1.8 Consensus size: 138
19828208 TTTTAAAATT
19828218 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
*
19828283 TTAATGCCAATTTTTAAGGAAATTACATATGGTTCTAAAATTCAAAACAATCACTCCTAAAAGCA
66 TTAATGCCAATTTTTAAAGAAATTACATATGGTTCTAAAATTCAAAACAATCACTCCTAAAAGCA
19828348 TCCAGACG
131 TCCAGACG
* *
19828356 TTAAATCAAATAAGTTGCATAATAACATCACAAAGAGAAATGTTATTATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
*
19828421 TTAATGCCAATTTTTAAAGAGATTACATA-GGATTCTAAAATTCAAAACA
66 TTAATGCCAATTTTTAAAGAAATTACATATGG-TTCTAAAATTCAAAACA
19828470 GGGACTCCAC
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
137 2 0.02
138 107 0.98
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (138 bp):
TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
TTAATGCCAATTTTTAAAGAAATTACATATGGTTCTAAAATTCAAAACAATCACTCCTAAAAGCA
TCCAGACG
Found at i:19830788 original size:15 final size:15
Alignment explanation
Indices: 19830755--19830797 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
19830745 TTATCTCTTA
*
19830755 CATAA-CCATAAA-T
1 CATAATCCATAAACC
*
19830768 CATAATCCCTAAACC
1 CATAATCCATAAACC
19830783 CATAATCCATAAACC
1 CATAATCCATAAACC
19830798 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 14 0.56
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:19830802 original size:22 final size:22
Alignment explanation
Indices: 19830760--19830846 Score: 52
Period size: 22 Copynumber: 4.0 Consensus size: 22
19830750 TCTTACATAA
*
19830760 CCATAAATCATAATCCCTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
19830782 CCAT-AATCCATAAACCTTAAAA
1 CCATAAAT-CATAAACCCTAAAC
** * * **
19830804 TAATAACTCATACACTTTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
19830826 CC-TAAACCCTAAACCCTAAAC
1 CCATAAATCATAAACCCTAAAC
19830847 TATAATGATA
Statistics
Matches: 46, Mismatches: 17, Indels: 5
0.68 0.25 0.07
Matches are distributed among these distances:
21 16 0.35
22 28 0.61
23 2 0.04
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (22 bp):
CCATAAATCATAAACCCTAAAC
Found at i:19830833 original size:7 final size:7
Alignment explanation
Indices: 19830821--19830846 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19830811 TCATACACTT
19830821 TAAACCC
1 TAAACCC
19830828 TAAACCC
1 TAAACCC
19830835 TAAACCC
1 TAAACCC
19830842 TAAAC
1 TAAAC
19830847 TATAATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:19830967 original size:15 final size:15
Alignment explanation
Indices: 19830943--19830984 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
19830933 CACTAACTAA
19830943 TCTAAACCCTAAACT
1 TCTAAACCCTAAACT
* *
19830958 TCTAATCCCTAAACC
1 TCTAAACCCTAAACT
*
19830973 T-TAAACCTTAAA
1 TCTAAACCCTAAA
19830985 ACATAAGCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.40, C:0.31, G:0.00, T:0.29
Consensus pattern (15 bp):
TCTAAACCCTAAACT
Found at i:19831328 original size:41 final size:40
Alignment explanation
Indices: 19831251--19831337 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 40
19831241 TCAAATACAT
19831251 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATA
* * * **
19831292 TTAAAACAATTATTAAAACAATAGACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
*
19831332 ATAAAA
1 TTAAAA
19831338 AGTGATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 8 0.20
41 32 0.80
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.23
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:19831625 original size:41 final size:41
Alignment explanation
Indices: 19831561--19831779 Score: 307
Period size: 41 Copynumber: 5.4 Consensus size: 41
19831551 ATTATATGAC
* * *
19831561 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTACTGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
19831602 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
19831643 TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
19831684 TTTTAACGACGTTTTACCAAAAGCGCCGCTAGTGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
19831724 TTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGGT
*
19831765 TTTTAGCGGCATTTT
1 TTTTAGCGGCGTTTT
19831780 TGGTAAAACG
Statistics
Matches: 161, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 15 0.09
41 146 0.91
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:19831807 original size:81 final size:81
Alignment explanation
Indices: 19831561--19831808 Score: 293
Period size: 82 Copynumber: 3.0 Consensus size: 81
19831551 ATTATATGAC
* * *
19831561 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTACTGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
* *
19831626 ACCGCTAATGCTCTGGT
66 GCCGCTAATGCTC-CGT
* * * *
19831643 TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCTGGTTTTTAACGACGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
* *
19831708 GCCGCTAGTGCTCTGT
66 GCCGCTAATGCTCCGT
* * * ***
19831724 TTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCT-GTTTTTAGCGGCATTTTTGGTAAAA
1 TTTTAGCGGCGTTTTAAC-AAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGC-GTTTTACCAAAA
*
19831788 -CGCCGCTATTGCTCCGT
64 GCGCCGCTAATGCTCCGT
19831805 TTTT
1 TTTT
19831809 TATAATTTTT
Statistics
Matches: 143, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
81 48 0.34
82 95 0.66
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
GCCGCTAATGCTCCGT
Found at i:19832726 original size:13 final size:14
Alignment explanation
Indices: 19832710--19832745 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
19832700 CAATCTCATA
19832710 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
19832723 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
19832736 TCTC-ATTTCA
1 TCTCAATTTCA
19832746 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:19832735 original size:18 final size:19
Alignment explanation
Indices: 19832697--19832737 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
19832687 TGGTTCATGT
19832697 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
19832716 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
19832734 TTTC
1 TTTC
19832738 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:19832927 original size:39 final size:40
Alignment explanation
Indices: 19832884--19832995 Score: 102
Period size: 38 Copynumber: 2.8 Consensus size: 40
19832874 TCAGATAGTT
* *
19832884 CGAAGCAATATTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
* * ** ** * *
19832923 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
*
19832962 CGAAGAAATATAGTGACACCCAGTGTCTCATCGA
1 CGAAGAAATAT-TTGACACCCAGTGTCTCATCGA
19832996 CTCGAGGTCG
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
38 18 0.33
39 18 0.33
40 1 0.02
41 17 0.31
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:19833260 original size:18 final size:19
Alignment explanation
Indices: 19833234--19833272 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
19833224 TTTCAATTCA
19833234 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
19833253 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
19833271 AT
1 AT
19833273 ATATCTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:19834599 original size:5 final size:5
Alignment explanation
Indices: 19834589--19834634 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
19834579 TTACTTATTT
*
19834589 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATA
19834635 ATTTAATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 25 0.69
6 7 0.19
7 4 0.11
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:19834605 original size:12 final size:12
Alignment explanation
Indices: 19834588--19834646 Score: 64
Period size: 14 Copynumber: 4.5 Consensus size: 12
19834578 TTTACTTATT
19834588 TATATAATATAA
1 TATATAATATAA
19834600 TATATAATATAATA
1 TATATAATAT-A-A
19834614 TACTATAATATAA
1 TA-TATAATATAA
*
19834627 TAATAATAATTTAA
1 T-AT-ATAATATAA
19834641 TATATA
1 TATATA
19834647 TTTTTTAACA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
12 13 0.32
13 6 0.15
14 14 0.34
15 8 0.20
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATAATATAA
Found at i:19836554 original size:25 final size:26
Alignment explanation
Indices: 19836490--19836570 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
19836480 TGATACAAAT
*
19836490 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19836516 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19836542 TGA-AATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19836567 TGAT
1 TGAT
19836571 GGAATTTCAT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
25 25 0.47
26 28 0.53
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19841211 original size:22 final size:20
Alignment explanation
Indices: 19841186--19841227 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
19841176 ATATACACAC
*
19841186 ATAAT-ATATACACGCAATT
1 ATAATAATATACACACAATT
19841205 ATAATAATATACACACAATT
1 ATAATAATATACACACAATT
19841225 ATA
1 ATA
19841228 TTCATGACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAATAATATACACACAATT
Found at i:19841988 original size:22 final size:22
Alignment explanation
Indices: 19841963--19842004 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19841953 CATAAAATTA
19841963 AAAAAGAA-AAACGAATCAATCC
1 AAAAAGAATAAA-GAATCAATCC
*
19841985 AAAAATAATAAAGAATCAAT
1 AAAAAGAATAAAGAATCAAT
19842005 TTATTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.67, C:0.12, G:0.07, T:0.14
Consensus pattern (22 bp):
AAAAAGAATAAAGAATCAATCC
Found at i:19842989 original size:13 final size:13
Alignment explanation
Indices: 19842971--19842996 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19842961 GCACGGGAGA
19842971 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
19842984 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
19842997 GGGGAAAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:19846850 original size:64 final size:65
Alignment explanation
Indices: 19846771--19846949 Score: 186
Period size: 67 Copynumber: 2.8 Consensus size: 65
19846761 GACATTATGT
* * *
19846771 TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAAAGCTACGGGATATA-
1 TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAAAGCTACGAGATAAAC
* * * * * *
19846835 TGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
1 TGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAAAGCTACGAGATA
19846900 AAC
63 AAC
* * *
19846903 TG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGA
1 TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGA
19846950 GAGCCAAAAT
Statistics
Matches: 93, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 15 0.16
64 24 0.26
66 21 0.23
67 30 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (65 bp):
TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAAAGCTACGAGATAAAC
Found at i:19850750 original size:132 final size:132
Alignment explanation
Indices: 19850509--19850906 Score: 546
Period size: 132 Copynumber: 3.0 Consensus size: 132
19850499 ATCATTCGTT
* * * *
19850509 TAAAAATTCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
* * * *
19850574 GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTAGAATTTCACTTATGTTT
66 GCTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTT
19850639 TC
131 TC
* * * *
19850641 TAAAAACTCTTTAAAATGAAGGAAATGTTCGATGTTTGGCAATTTGGGGAGTCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
* * *
19850706 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCACGTCT
66 GCTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTT
19850771 T-
131 TC
* * * * *
19850772 TAAAAACTCTTTAAAGCAAAGGCAATATTCGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
*** * * * *
19850837 GCTGGGTTTTGATTTCACGTTTGTTCAAAATAATCAAATATTCCTTTGGAATTTCACTCGTGTTT
66 GCTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTT
19850902 TC
131 TC
19850904 TAA
1 TAA
19850907 GGCGAGGCAA
Statistics
Matches: 232, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
131 112 0.48
132 120 0.52
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (132 bp):
TAAAAACTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
GCTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTT
TC
Found at i:19852028 original size:20 final size:20
Alignment explanation
Indices: 19852005--19852070 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 20
19851995 TATTATATTA
19852005 ATTATATAAGTTTAATAATT
1 ATTATATAAGTTTAATAATT
**
19852025 ATTATATATA-TTTATATTTTCGTT
1 ATTATATA-AGTTTA-A---TAATT
19852049 ATTATATAAGTTTAATAATT
1 ATTATATAAGTTTAATAATT
19852069 AT
1 AT
19852071 ATTTATAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
20 17 0.47
21 2 0.06
23 2 0.06
24 15 0.42
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTATATAAGTTTAATAATT
Found at i:19852725 original size:18 final size:17
Alignment explanation
Indices: 19852702--19852735 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19852692 AAGGTTTTAC
19852702 TAATTTAAAATAAAACTG
1 TAATTT-AAATAAAACTG
*
19852720 TAATTTTAATAAAACT
1 TAATTTAAATAAAACT
19852736 TTAAGCGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATTTAAATAAAACTG
Found at i:19870499 original size:21 final size:18
Alignment explanation
Indices: 19870462--19870500 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 18
19870452 GTTGATGTTT
19870462 TTTAAAAAATAAAATATA
1 TTTAAAAAATAAAATATA
19870480 TTTAAAATAATGATAAATATA
1 TTTAAAA-AAT-A-AAATATA
19870501 AAAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 1 0.06
21 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TTTAAAAAATAAAATATA
Found at i:19874780 original size:28 final size:28
Alignment explanation
Indices: 19874727--19874810 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
19874717 CACTTTGTGC
19874727 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
19874756 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
19874784 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
19874811 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:19874822 original size:23 final size:24
Alignment explanation
Indices: 19874731--19874824 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
19874721 TTGTGCTATT
19874731 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
19874758 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
19874788 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
19874811 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
19874825 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:19875062 original size:21 final size:21
Alignment explanation
Indices: 19875014--19875100 Score: 104
Period size: 21 Copynumber: 4.1 Consensus size: 21
19875004 GGCTATATTG
*
19875014 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
*
19875035 ATTTCAGGCACCTTGTGTGTCGT
1 A--TCAGGCACCTTATGTGTCGT
*
19875058 ATCAGGCACCTCATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
* *
19875079 TTCAGGCA-CTTATGTGTTGT
1 ATCAGGCACCTTATGTGTCGT
19875099 AT
1 AT
19875101 ACTGATCAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
20 11 0.20
21 26 0.46
23 19 0.34
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (21 bp):
ATCAGGCACCTTATGTGTCGT
Found at i:19875077 original size:44 final size:41
Alignment explanation
Indices: 19875014--19875100 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 41
19875004 GGCTATATTG
* * *
19875014 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTTGTGTGTCGT
1 ATCAGGCACCTCATGTGTCG--TTTCAGGCA-CTTATGTGTCGT
*
19875058 ATCAGGCACCTCATGTGTCGTTTCAGGCACTTATGTGTTGT
1 ATCAGGCACCTCATGTGTCGTTTCAGGCACTTATGTGTCGT
19875099 AT
1 AT
19875101 ACTGATCAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 12 0.31
42 9 0.23
44 18 0.46
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (41 bp):
ATCAGGCACCTCATGTGTCGTTTCAGGCACTTATGTGTCGT
Found at i:19876231 original size:46 final size:46
Alignment explanation
Indices: 19876181--19876330 Score: 140
Period size: 46 Copynumber: 3.1 Consensus size: 46
19876171 TGGTTGGACC
19876181 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
* * * * * *
19876227 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATC----A-ATGTGA-TATGTG-ATCTGTGTAAGACCATAGCTGGGCT
* * *
19876280 ATGGCATCAGTGTGATATGTGAT-TCGTGTAAGATCATGGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCT-GTGTAAGACCATAGCTGGGCT
19876326 ATGGC
1 ATGGC
19876331 TACGGTGTGT
Statistics
Matches: 81, Mismatches: 15, Indels: 16
0.72 0.13 0.14
Matches are distributed among these distances:
46 30 0.37
47 5 0.06
48 5 0.06
49 1 0.01
50 1 0.01
51 6 0.07
52 5 0.06
53 28 0.35
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (46 bp):
ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
Found at i:19889076 original size:43 final size:43
Alignment explanation
Indices: 19889008--19889118 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 43
19888998 ATAATCAGTG
* *
19889008 AGATCAAGATTACCAGTCCAGGCTAAATCTC-ATCTCCAACATA
1 AGATCAGGATTACCAGTCCAGGCTAAATCCCGAT-TCCAACATA
* *
19889051 TA-ATTAGGATTACCAGTCCAGGCTAAATCCCGATTTCAACATA
1 -AGATCAGGATTACCAGTCCAGGCTAAATCCCGATTCCAACATA
* *
19889094 AGATCAGAAATACCAGTCCAGGCTA
1 AGATCAGGATTACCAGTCCAGGCTA
19889119 GATTCTGTCT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.02
43 54 0.93
44 3 0.05
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.23
Consensus pattern (43 bp):
AGATCAGGATTACCAGTCCAGGCTAAATCCCGATTCCAACATA
Found at i:19890495 original size:46 final size:46
Alignment explanation
Indices: 19890442--19890615 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
19890432 TGATTGAGCA
19890442 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* *
19890488 TCCGAACTCGTTGAGTTGAGTCCGAGTT---TGT-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATAGATGCGAA-T--G
* * *
19890533 AATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* * *
19890581 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTAT
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
19890616 GGGCGGGTTA
Statistics
Matches: 107, Mismatches: 9, Indels: 24
0.76 0.06 0.17
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 1 0.01
45 3 0.03
46 58 0.54
47 27 0.25
48 1 0.01
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
Found at i:19893601 original size:11 final size:11
Alignment explanation
Indices: 19893585--19893611 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
19893575 ATATTACATG
19893585 AAATAATAAAA
1 AAATAATAAAA
19893596 AAATAATAAAA
1 AAATAATAAAA
19893607 AAATA
1 AAATA
19893612 TAATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATAATAAAA
Found at i:19908069 original size:21 final size:21
Alignment explanation
Indices: 19908045--19908084 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19908035 TCTTGATTCG
*
19908045 TAAAATTTTAAAATAAATATT
1 TAAAATTTTAAAAAAAATATT
19908066 TAAAATTTTAAAAAAAATA
1 TAAAATTTTAAAAAAAATA
19908085 AAAAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAATTTTAAAAAAAATATT
Found at i:19909441 original size:17 final size:18
Alignment explanation
Indices: 19909419--19909458 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
19909409 ATTTTTTTAT
19909419 TTATTTTAATAA-AAGTA
1 TTATTTTAATAAGAAGTA
* *
19909436 TTATTTTTATAAGAATTA
1 TTATTTTAATAAGAAGTA
19909454 TTATT
1 TTATT
19909459 CATTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TTATTTTAATAAGAAGTA
Found at i:19909458 original size:21 final size:20
Alignment explanation
Indices: 19909434--19909472 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19909424 TTAATAAAAG
19909434 TATT-ATTTTTATAAGAATTAT
1 TATTCATTTTT-TAA-AATTAT
19909455 TATTCATTTTTTAAAATT
1 TATTCATTTTTTAAAATT
19909473 TAAAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
TATTCATTTTTTAAAATTAT
Found at i:19912521 original size:21 final size:21
Alignment explanation
Indices: 19912495--19912535 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19912485 ATCTGCTCAA
* *
19912495 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
19912516 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
19912536 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:19917146 original size:3 final size:3
Alignment explanation
Indices: 19917138--19917448 Score: 231
Period size: 3 Copynumber: 103.0 Consensus size: 3
19917128 ATTTAATATA
* * *
19917138 TAT TAT TAT ATGT TTT TAT TAT T-T TAC TAT TACT TA- TATT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT TAT
* * *
19917184 CAT TAC TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
19917232 TAT TAT T-T GT-T TAC TAT TAT TATT TAT TGT CAT TAT CAT TAT TAC
1 TAT TAT TAT -TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * *
19917277 GAC TAT CAT TAT TAT TAT T-T TATT TAT TAT CAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * *
19917322 TAT GTTT TAAT TAC TAC TA- CAGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT -TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
19917369 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT CAT TTT TGT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
19917417 TAC TAT TAC TAT T-G TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19917449 ATTTTCATCT
Statistics
Matches: 242, Mismatches: 51, Indels: 30
0.75 0.16 0.09
Matches are distributed among these distances:
2 10 0.04
3 214 0.88
4 18 0.07
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:19917492 original size:25 final size:25
Alignment explanation
Indices: 19917455--19917506 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
19917445 TTATATTTTC
19917455 ATCTATATTTATTTTC-TTATTACTT
1 ATCTATATTTATTTTCGTTATTA-TT
19917480 ATCTAT-TTATATTTTCGTTATTATT
1 ATCTATATT-TATTTTCGTTATTATT
19917505 AT
1 AT
19917507 ATTTTAGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 2 0.08
25 17 0.68
26 6 0.24
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.63
Consensus pattern (25 bp):
ATCTATATTTATTTTCGTTATTATT
Found at i:19917518 original size:17 final size:17
Alignment explanation
Indices: 19917486--19917520 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19917476 ACTTATCTAT
* *
19917486 TTATATTTTCGTTATTA
1 TTATATTTTAGGTATTA
19917503 TTATATTTTAGGTATTA
1 TTATATTTTAGGTATTA
19917520 T
1 T
19917521 ATCCATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.63
Consensus pattern (17 bp):
TTATATTTTAGGTATTA
Found at i:19917555 original size:26 final size:27
Alignment explanation
Indices: 19917499--19917556 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
19917489 TATTTTCGTT
19917499 ATTA-TTATATTTTAGGTATTATATCC
1 ATTATTTATATTTTAGGTATTATATCC
19917525 A-TATTTATA-TTTAGGTATTAATAT-C
1 ATTATTTATATTTTAGGTATT-ATATCC
19917550 ATTATTT
1 ATTATTT
19917557 TACTATTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (27 bp):
ATTATTTATATTTTAGGTATTATATCC
Found at i:19919597 original size:87 final size:88
Alignment explanation
Indices: 19919443--19919613 Score: 281
Period size: 87 Copynumber: 2.0 Consensus size: 88
19919433 CGGATGCTTC
* * *
19919443 CAATTATACTCAGCACTATTTTCATTAATACTCGTTTAGCCCAACTCCAAACTTTCACCATCTAA
1 CAATTATACTCAACACTATTTTCATGAATACTCGTTTAGCCCAACTCCAAACTTTCACCATCCAA
*
19919508 CAAAGCACAACTATGGACACTTT
66 CAAAGCACAACCATGGACACTTT
* *
19919531 CAATT-TACTCAACACTGTTTTCATGAATACTTGTTTAGCCCAACTCCAAACTTTCACCATCCAA
1 CAATTATACTCAACACTATTTTCATGAATACTCGTTTAGCCCAACTCCAAACTTTCACCATCCAA
19919595 CAAAGCACAACCATGGACA
66 CAAAGCACAACCATGGACA
19919614 TCCATGGAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
87 72 0.94
88 5 0.06
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.29
Consensus pattern (88 bp):
CAATTATACTCAACACTATTTTCATGAATACTCGTTTAGCCCAACTCCAAACTTTCACCATCCAA
CAAAGCACAACCATGGACACTTT
Found at i:19919701 original size:27 final size:27
Alignment explanation
Indices: 19919665--19919716 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
19919655 TGGATGGTGG
19919665 AAATTTGGAGTTGGGCTAAACAAGTGA
1 AAATTTGGAGTTGGGCTAAACAAGTGA
19919692 AAATTTGGAGTTGGGCTAAACAAGT
1 AAATTTGGAGTTGGGCTAAACAAGT
19919717 ATTTAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.29, T:0.27
Consensus pattern (27 bp):
AAATTTGGAGTTGGGCTAAACAAGTGA
Found at i:19923169 original size:21 final size:21
Alignment explanation
Indices: 19923143--19923183 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19923133 ATCTGCTCAA
* *
19923143 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
19923164 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
19923184 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:19925110 original size:21 final size:21
Alignment explanation
Indices: 19925084--19925124 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19925074 ATCTGCTCAA
* *
19925084 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
19925105 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
19925125 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:19937476 original size:12 final size:12
Alignment explanation
Indices: 19937459--19937492 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
19937449 CCACCGCAAG
19937459 CGGCTGCACCGC
1 CGGCTGCACCGC
19937471 CGGCTGCACCGC
1 CGGCTGCACCGC
19937483 CGGCTGCACC
1 CGGCTGCACC
19937493 ACCCAGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.09, C:0.50, G:0.32, T:0.09
Consensus pattern (12 bp):
CGGCTGCACCGC
Found at i:19947995 original size:12 final size:12
Alignment explanation
Indices: 19947978--19948002 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19947968 ATACATAAAT
19947978 TTTAATTTAATA
1 TTTAATTTAATA
19947990 TTTAATTTAATA
1 TTTAATTTAATA
19948002 T
1 T
19948003 ATAAATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTAATTTAATA
Found at i:19953243 original size:20 final size:19
Alignment explanation
Indices: 19953218--19953285 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 19
19953208 TATAATTTAA
*
19953218 TTTAAATATATAAACTATAT
1 TTTAAATAT-TAAAATATAT
19953238 TTTAAATATTAAAATATAAT
1 TTTAAATATTAAAATAT-AT
* *
19953258 CATTACAATTTTAAATATATAT
1 -TTTA-AATATTAAA-ATATAT
19953280 TTTAAA
1 TTTAAA
19953286 AAAAATCAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 7 0.17
20 13 0.32
21 6 0.15
22 10 0.25
23 4 0.10
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAAATATTAAAATATAT
Found at i:19953533 original size:20 final size:20
Alignment explanation
Indices: 19953497--19953534 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19953487 TATAAACTCC
*
19953497 ATTAAATTAATTCATTTATT
1 ATTAAATTAATTAATTTATT
19953517 ATTAAA-TATATTAATTTA
1 ATTAAATTA-ATTAATTTA
19953535 ATTTCTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTAAATTAATTAATTTATT
Found at i:19953880 original size:3 final size:3
Alignment explanation
Indices: 19953872--19953905 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
19953862 CTCCTTGTAA
19953872 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
19953906 CCAACCGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19955110 original size:17 final size:17
Alignment explanation
Indices: 19955090--19955122 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
19955080 ATCAATCTAA
19955090 TTTTAATAAATTATAAT
1 TTTTAATAAATTATAAT
19955107 TTTTAATAAATTATAA
1 TTTTAATAAATTATAA
19955123 AAATTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTAATAAATTATAAT
Found at i:19959431 original size:22 final size:22
Alignment explanation
Indices: 19959403--19959445 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
19959393 GCACCTGTTA
19959403 GAAAAATATGCTGGGGAGCTAT
1 GAAAAATATGCTGGGGAGCTAT
19959425 GAAAAATATGCTGGGGAGCTA
1 GAAAAATATGCTGGGGAGCTA
19959446 GTGCCTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.09, G:0.33, T:0.21
Consensus pattern (22 bp):
GAAAAATATGCTGGGGAGCTAT
Found at i:19974702 original size:38 final size:38
Alignment explanation
Indices: 19974637--19974749 Score: 136
Period size: 38 Copynumber: 2.9 Consensus size: 38
19974627 ATTTGATGTG
*
19974637 TATCCGGGCTTAAAAACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TT-AAATCCCGCAGGCTTCGTGCTGGTAAAA
* **
19974677 TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * * *
19974715 TATCCGGGATAAATCCTGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
19974750 TTATATTCGG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 54 0.84
39 2 0.03
40 8 0.12
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.27
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:19974750 original size:38 final size:38
Alignment explanation
Indices: 19974653--19974760 Score: 144
Period size: 38 Copynumber: 2.8 Consensus size: 38
19974643 GGCTTAAAAA
** *
19974653 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
*
19974691 CCCACAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * * *
19974729 CCTGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
19974761 CCTTCGTGCC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:19974809 original size:43 final size:43
Alignment explanation
Indices: 19974753--19974907 Score: 265
Period size: 43 Copynumber: 3.6 Consensus size: 43
19974743 GCTGGTATTA
*
19974753 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
19974796 TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
19974839 TATTCGGGCCTTCGTGCCTAGCAGACTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
19974882 TATTCGGGCCTTCATGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
19974908 GTAATACCGG
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:19976535 original size:48 final size:48
Alignment explanation
Indices: 19976441--19976544 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
19976431 TGTGCTAAGC
* * *
19976441 GTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
**
19976489 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAGCTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAGCTAGT
*
19976537 ATAAGACC
1 GTAAGACC
19976545 ATAGTTGGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 8 0.17
48 40 0.83
ACGTcount: A:0.30, C:0.22, G:0.31, T:0.17
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
Found at i:19980212 original size:38 final size:38
Alignment explanation
Indices: 19980147--19980259 Score: 136
Period size: 38 Copynumber: 2.9 Consensus size: 38
19980137 ATTTGATGTG
*
19980147 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
* **
19980187 TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * * *
19980225 TATCCGGGATAAATCCCGCAAGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
19980260 TTATATTCGG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 51 0.80
39 5 0.08
40 8 0.12
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.26
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:19980260 original size:38 final size:38
Alignment explanation
Indices: 19980175--19980270 Score: 120
Period size: 38 Copynumber: 2.5 Consensus size: 38
19980165 CGCAGGCTTC
** * * * *
19980175 GTGCTGGTAAAATATCCGGGTTAAATCCCACAGGCTTC
1 GTGCTGGTATTATATCCGGGATAAATCCCACAAGCCTA
*
19980213 GTGCTGGTATTATATCCGGGATAAATCCCGCAAGCCTA
1 GTGCTGGTATTATATCCGGGATAAATCCCACAAGCCTA
*
19980251 GTGCTGGTATTATATTCGGG
1 GTGCTGGTATTATATCCGGG
19980271 CCTTCGTGCC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (38 bp):
GTGCTGGTATTATATCCGGGATAAATCCCACAAGCCTA
Found at i:19980430 original size:43 final size:43
Alignment explanation
Indices: 19980263--19980417 Score: 283
Period size: 43 Copynumber: 3.6 Consensus size: 43
19980253 GCTGGTATTA
*
19980263 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
19980306 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
19980349 TATTCGGGCCTTCGTGCTTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
19980392 TATTCGGGCATTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
19980418 GTAATGCCGG
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 108 1.00
ACGTcount: A:0.10, C:0.25, G:0.34, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:19988864 original size:12 final size:12
Alignment explanation
Indices: 19988840--19988881 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
19988830 TTTCTTAATT
19988840 TTTTTTATATTAA
1 TTTTTTAT-TTAA
*
19988853 TTTTTTGTTTAA
1 TTTTTTATTTAA
19988865 TTTATTTATTT-A
1 TTT-TTTATTTAA
19988877 TTTTT
1 TTTTT
19988882 ACAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 2 0.08
12 11 0.42
13 13 0.50
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTTTATTTAA
Found at i:19989434 original size:12 final size:12
Alignment explanation
Indices: 19989417--19989441 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19989407 GGTGTTCATT
19989417 CGGTTAACCGAC
1 CGGTTAACCGAC
19989429 CGGTTAACCGAC
1 CGGTTAACCGAC
19989441 C
1 C
19989442 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:19989614 original size:9 final size:9
Alignment explanation
Indices: 19989600--19989660 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
19989590 TTTGGTTAAA
19989600 AATTACCCG
1 AATTACCCG
19989609 AATTACCCG
1 AATTACCCG
19989618 AATTACCCG
1 AATTACCCG
*
19989627 AATTAACCG
1 AATTACCCG
*
19989636 AATTAACCG
1 AATTACCCG
*
19989645 AATTAACCG
1 AATTACCCG
19989654 AATTACC
1 AATTACC
19989661 GAAAAATACC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.39, C:0.28, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:19989893 original size:12 final size:12
Alignment explanation
Indices: 19989876--19989901 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19989866 ATTTTTTCGG
19989876 TTAACCGAAAAT
1 TTAACCGAAAAT
19989888 TTAACCGAAAAT
1 TTAACCGAAAAT
19989900 TT
1 TT
19989902 TCGGTTAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (12 bp):
TTAACCGAAAAT
Found at i:19990681 original size:6 final size:6
Alignment explanation
Indices: 19990670--19990703 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
19990660 TTCCCTATTC
*
19990670 ATATAA ATATAA ATATAA ATATAA ATACAA ATAT
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATAT
19990704 CAAAACTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:19998601 original size:15 final size:15
Alignment explanation
Indices: 19998583--19998613 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19998573 CTATTGAAGC
*
19998583 AAAAACGATTGCAGG
1 AAAAAAGATTGCAGG
19998598 AAAAAAGATTGCAGG
1 AAAAAAGATTGCAGG
19998613 A
1 A
19998614 CCTTGGTCGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.26, T:0.13
Consensus pattern (15 bp):
AAAAAAGATTGCAGG
Found at i:20005058 original size:43 final size:43
Alignment explanation
Indices: 20005005--20005094 Score: 162
Period size: 43 Copynumber: 2.1 Consensus size: 43
20004995 TCAAAACAAC
*
20005005 ACTTGAATTTTGATCAAAAGTACAATTTAATACATGAATTTTG
1 ACTTAAATTTTGATCAAAAGTACAATTTAATACATGAATTTTG
*
20005048 ACTTAAATTTTGATCAAAAGTACAATTTAATATATGAATTTTG
1 ACTTAAATTTTGATCAAAAGTACAATTTAATACATGAATTTTG
20005091 ACTT
1 ACTT
20005095 GATATAGTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (43 bp):
ACTTAAATTTTGATCAAAAGTACAATTTAATACATGAATTTTG
Found at i:20006236 original size:3 final size:3
Alignment explanation
Indices: 20006228--20006263 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
20006218 TCTCTCCTGC
20006228 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20006264 CTCAGTTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:20008830 original size:95 final size:95
Alignment explanation
Indices: 20008708--20008902 Score: 390
Period size: 95 Copynumber: 2.1 Consensus size: 95
20008698 AAGTCAAATG
20008708 CAACAAATTTCTTGCATACATGATACATTGATTCAAGGCAAACATTCAAAAAAAATGGTTTTAAT
1 CAACAAATTTCTTGCATACATGATACATTGATTCAAGGCAAACATTCAAAAAAAATGGTTTTAAT
20008773 TTATCTTGAACTTAACGTTAAATTTAACCT
66 TTATCTTGAACTTAACGTTAAATTTAACCT
20008803 CAACAAATTTCTTGCATACATGATACATTGATTCAAGGCAAACATTCAAAAAAAATGGTTTTAAT
1 CAACAAATTTCTTGCATACATGATACATTGATTCAAGGCAAACATTCAAAAAAAATGGTTTTAAT
20008868 TTATCTTGAACTTAACGTTAAATTTAACCT
66 TTATCTTGAACTTAACGTTAAATTTAACCT
20008898 CAACA
1 CAACA
20008903 TTTATTCTCT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 100 1.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (95 bp):
CAACAAATTTCTTGCATACATGATACATTGATTCAAGGCAAACATTCAAAAAAAATGGTTTTAAT
TTATCTTGAACTTAACGTTAAATTTAACCT
Done.