Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 122 of 147
Found at i:21935244 original size:21 final size:21
Alignment explanation
Indices: 21935220--21935259 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21935210 AATATCATTA
*
21935220 TTTTTAAAATTTTTAATATAT
1 TTTTTAAAATTATTAATATAT
*
21935241 TTTTTAATATTATTAATAT
1 TTTTTAAAATTATTAATAT
21935260 TTTAATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTAAAATTATTAATATAT
Found at i:21935996 original size:15 final size:15
Alignment explanation
Indices: 21935976--21936015 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 15
21935966 AGTCCATAGT
21935976 TTCATTTCTAATCTC
1 TTCATTTCTAATCTC
21935991 TTCATTTGTTCTAATCTC
1 TTCA--T-TTCTAATCTC
21936009 TTCATTT
1 TTCATTT
21936016 GTTAGTTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.27
16 1 0.05
17 1 0.05
18 14 0.64
ACGTcount: A:0.17, C:0.23, G:0.03, T:0.57
Consensus pattern (15 bp):
TTCATTTCTAATCTC
Found at i:21936004 original size:18 final size:18
Alignment explanation
Indices: 21935981--21936018 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
21935971 ATAGTTTCAT
21935981 TTCTAATCTCTTCATTTG
1 TTCTAATCTCTTCATTTG
21935999 TTCTAATCTCTTCATTTG
1 TTCTAATCTCTTCATTTG
21936017 TT
1 TT
21936019 AGTTAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.21, G:0.05, T:0.58
Consensus pattern (18 bp):
TTCTAATCTCTTCATTTG
Found at i:21936588 original size:10 final size:10
Alignment explanation
Indices: 21936558--21936590 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
21936548 TTATCTTACT
21936558 TATAAATATA
1 TATAAATATA
*
21936568 AATAAATATA
1 TATAAATATA
21936578 TATAAATATA
1 TATAAATATA
21936588 TAT
1 TAT
21936591 GAAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TATAAATATA
Found at i:21939357 original size:2 final size:2
Alignment explanation
Indices: 21939311--21939338 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21939301 TTTGCATGTA
21939311 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21939339 GTACGTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21945624 original size:2 final size:2
Alignment explanation
Indices: 21945617--21945646 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21945607 ATTAAGATTT
21945617 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
21945647 ACATAACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21946337 original size:7 final size:7
Alignment explanation
Indices: 21946327--21946351 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21946317 ATTAAATTCC
21946327 AAATTTT
1 AAATTTT
21946334 AAATTTT
1 AAATTTT
21946341 AAATTTT
1 AAATTTT
21946348 AAAT
1 AAAT
21946352 GCAAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:21946337 original size:14 final size:14
Alignment explanation
Indices: 21946318--21946351 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21946308 TATTTTACTA
21946318 TTAAATTCCAAATT
1 TTAAATTCCAAATT
**
21946332 TTAAATTTTAAATT
1 TTAAATTCCAAATT
21946346 TTAAAT
1 TTAAAT
21946352 GCAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAATTCCAAATT
Found at i:21948910 original size:7 final size:6
Alignment explanation
Indices: 21948877--21948909 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
21948867 GAAACCCAAG
21948877 TTATGTT TTATTT TTATTT TTATTT TTATTT TT
1 TTAT-TT TTATTT TTATTT TTATTT TTATTT TT
21948910 TGGGTTTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:21949587 original size:29 final size:29
Alignment explanation
Indices: 21949543--21949615 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
21949533 CATGTTTTTG
* * *
21949543 TATATATTCATTTTAATCT-TATTTATTCA
1 TATATATCCATGTTAAT-TGTATCTATTCA
* * *
21949572 TATATATCCGTGTTAATTGTGTCTATTCT
1 TATATATCCATGTTAATTGTATCTATTCA
21949601 TATATATCCATGTTA
1 TATATATCCATGTTA
21949616 TTCATGTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 1 0.03
29 35 0.97
ACGTcount: A:0.27, C:0.12, G:0.07, T:0.53
Consensus pattern (29 bp):
TATATATCCATGTTAATTGTATCTATTCA
Found at i:21949627 original size:29 final size:29
Alignment explanation
Indices: 21949564--21949627 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
21949554 TTTAATCTTA
* *
21949564 TTTATTCATATATATCCGTGTTAATTGTG
1 TTTATTCATATATATCCATGTTAATTATG
* *
21949593 TCTATTCTTATATATCCATGTT-ATTCATG
1 TTTATTCATATATATCCATGTTAATT-ATG
21949622 TTTATT
1 TTTATT
21949628 TATGTCATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.55
Consensus pattern (29 bp):
TTTATTCATATATATCCATGTTAATTATG
Found at i:21950461 original size:27 final size:26
Alignment explanation
Indices: 21950409--21950461 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
21950399 ATATGTAATA
* * * *
21950409 AAAATTTTAAATTATTTAATATTTAT
1 AAAATTTAAAATTATTAAAAAATTAT
21950435 AAAATTTAAAAATTATTAAAAAATTAT
1 AAAATTT-AAAATTATTAAAAAATTAT
21950462 TTTTATGTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AAAATTTAAAATTATTAAAAAATTAT
Found at i:21950550 original size:22 final size:18
Alignment explanation
Indices: 21950506--21950543 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
21950496 AAACTTATTT
21950506 ATTAATTATTATTTAATA
1 ATTAATTATTATTTAATA
21950524 ATTAATTTATTATTTAATA
1 ATTAA-TTATTATTTAATA
21950543 A
1 A
21950544 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTAATTATTATTTAATA
Found at i:21953748 original size:20 final size:20
Alignment explanation
Indices: 21953719--21953760 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
21953709 GTCAAAAGTC
*
21953719 TTCAAAATTCTCATTGAAAG
1 TTCAAAATTCACATTGAAAG
* *
21953739 TTCAAGATTCACATTGAGAG
1 TTCAAAATTCACATTGAAAG
21953759 TT
1 TT
21953761 TTGAGATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCAAAATTCACATTGAAAG
Found at i:21954042 original size:33 final size:33
Alignment explanation
Indices: 21954000--21954062 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
21953990 ATTAAACTGC
* *
21954000 AAGTCAAAAATGAAATGATTAGGACTAAATCAT
1 AAGTCAAAAATGAAATGACTAAGACTAAATCAT
21954033 AAGTCAAAAATGAAATGACTAAGACTAAAT
1 AAGTCAAAAATGAAATGACTAAGACTAAAT
21954063 TGCAAATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.54, C:0.10, G:0.14, T:0.22
Consensus pattern (33 bp):
AAGTCAAAAATGAAATGACTAAGACTAAATCAT
Found at i:21954069 original size:21 final size:21
Alignment explanation
Indices: 21954045--21954088 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
21954035 GTCAAAAATG
*
21954045 AAATGACTAAGACTAAATTGC
1 AAATAACTAAGACTAAATTGC
* * *
21954066 AAATAACTTAGATTGAATTGC
1 AAATAACTAAGACTAAATTGC
21954087 AA
1 AA
21954089 GTTGCATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (21 bp):
AAATAACTAAGACTAAATTGC
Found at i:21954407 original size:34 final size:35
Alignment explanation
Indices: 21954350--21954442 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 35
21954340 TGACATGGAC
*
21954350 TGAACTATAAGTC-GAAAAGTGAAATGTGACTTAGAT
1 TGAACTA-AAGTCTGAAAA-TGAAATGTGACGTAGAT
*
21954386 TGAAC-AATGTCTGAAAATGAAA--TGACGTAGAT
1 TGAACTAAAGTCTGAAAATGAAATGTGACGTAGAT
* *
21954418 TGAACTAAAGTTTGAAAATTAAATG
1 TGAACTAAAGTCTGAAAATGAAATG
21954443 ATTGGATTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
32 14 0.29
33 14 0.29
34 9 0.19
35 6 0.12
36 5 0.10
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (35 bp):
TGAACTAAAGTCTGAAAATGAAATGTGACGTAGAT
Found at i:21954419 original size:32 final size:33
Alignment explanation
Indices: 21954257--21954443 Score: 114
Period size: 33 Copynumber: 5.6 Consensus size: 33
21954247 AACTAGGCCG
* *
21954257 AAGTCTTAAAATGAAATGATC-TAGATT-AAATCA
1 AAGTCTGAAAATGAAATGA-CGTAGATTGAACT-A
* * * * **
21954290 AAGTTTGAAAGTGAAATGACTTAGACTGAACCG
1 AAGTCTGAAAATGAAATGACGTAGATTGAACTA
** * * *
21954323 AACCCTTGAAATAT-AAATGACATGGACTGAACTA
1 AAGTC-TGAAA-ATGAAATGACGTAGATTGAACTA
*
21954357 TAAGTC-GAAAAGTGAAATGTGACTTAGATTGAAC-A
1 -AAGTCTGAAAA-TGAAA--TGACGTAGATTGAACTA
*
21954392 ATGTCTGAAAATGAAATGACGTAGATTGAACTA
1 AAGTCTGAAAATGAAATGACGTAGATTGAACTA
* *
21954425 AAGTTTGAAAATTAAATGA
1 AAGTCTGAAAATGAAATGA
21954444 TTGGATTGGA
Statistics
Matches: 118, Mismatches: 25, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
32 16 0.14
33 45 0.38
34 35 0.30
35 10 0.08
36 12 0.10
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (33 bp):
AAGTCTGAAAATGAAATGACGTAGATTGAACTA
Found at i:21954435 original size:68 final size:66
Alignment explanation
Indices: 21954254--21954443 Score: 160
Period size: 68 Copynumber: 2.8 Consensus size: 66
21954244 TTGAACTAGG
* *
21954254 CCGAAGTCTTAAAATGAAATGATCTAGATT-AAATCAAAGTTTG-AAAGTGAAATGACTTAGACT
1 CCGAAGTCTGAAAATGAAATGA-CTAGATTGAACT-AAAGTTTGAAAAGTGAAATGACTTAGACT
21954317 GAA
64 GAA
** * * *
21954320 CCGAACCCTTGAAATAT-AAATGACATGGACTGAACTATAAG-TCGAAAAGTGAAATGTGACTTA
1 CCGAAGTC-TGAAA-ATGAAATGAC-TAGATTGAACTA-AAGTTTGAAAAGTGAAA--TGACTTA
*
21954383 GATTGAA
60 GACTGAA
*
21954390 -C-AATGTCTGAAAATGAAATGACGTAGATTGAACTAAAGTTTGAAAA-TTAAATGA
1 CCGAA-GTCTGAAAATGAAATGAC-TAGATTGAACTAAAGTTTGAAAAGTGAAATGA
21954444 TTGGATTGGA
Statistics
Matches: 98, Mismatches: 15, Indels: 23
0.72 0.11 0.17
Matches are distributed among these distances:
65 3 0.03
66 7 0.07
67 26 0.27
68 47 0.48
69 2 0.02
70 13 0.13
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (66 bp):
CCGAAGTCTGAAAATGAAATGACTAGATTGAACTAAAGTTTGAAAAGTGAAATGACTTAGACTGA
A
Found at i:21954655 original size:34 final size:34
Alignment explanation
Indices: 21954586--21954672 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 34
21954576 TATGGACTTT
*
21954586 AACCAAGGTTGAAAATG-AAATGGAACTAGACTG
1 AACCAAGGTTGAAAATGAAAAAGGAACTAGACTG
* * *
21954619 AACTAAGGTTGAAAATGAAAAAGGACCTAGAGTG
1 AACCAAGGTTGAAAATGAAAAAGGAACTAGACTG
**
21954653 AACCAAAATTGAAAATGAAA
1 AACCAAGGTTGAAAATGAAA
21954673 TAAATGTATC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 16 0.35
34 30 0.65
ACGTcount: A:0.51, C:0.10, G:0.22, T:0.17
Consensus pattern (34 bp):
AACCAAGGTTGAAAATGAAAAAGGAACTAGACTG
Found at i:21956525 original size:20 final size:20
Alignment explanation
Indices: 21956489--21956527 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21956479 TTTGAGGTAT
*
21956489 ATTTTTTTATTCTATTTATC
1 ATTTTTTTATTCAATTTATC
21956509 ATTTTGTTTATT-AATTTAT
1 ATTTT-TTTATTCAATTTAT
21956528 TATCTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (20 bp):
ATTTTTTTATTCAATTTATC
Found at i:21958236 original size:14 final size:16
Alignment explanation
Indices: 21958207--21958238 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
21958197 GTAGAGATCT
21958207 TTTATTTGTCTCATCA
1 TTTATTTGTCTCATCA
21958223 TTTATTT-T-TCATCA
1 TTTATTTGTCTCATCA
21958237 TT
1 TT
21958239 CTAATTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.19, C:0.16, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTATTTGTCTCATCA
Found at i:21973272 original size:16 final size:15
Alignment explanation
Indices: 21973251--21973283 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
21973241 TTTACTTAAA
21973251 AAATCTTTTCGTCTAT
1 AAATCTTTTCGT-TAT
21973267 AAATCTTTTCGTTAT
1 AAATCTTTTCGTTAT
21973282 AA
1 AA
21973284 CACCCCCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.48
Consensus pattern (15 bp):
AAATCTTTTCGTTAT
Found at i:21973672 original size:7 final size:7
Alignment explanation
Indices: 21973660--21973697 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
21973650 AAATTAAACA
21973660 AAAATAC
1 AAAATAC
*
21973667 AAAATATA
1 AAAATA-C
21973675 AAAATAC
1 AAAATAC
21973682 AAAATAC
1 AAAATAC
21973689 AAAATAC
1 AAAATAC
21973696 AA
1 AA
21973698 TTAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAATAC
Found at i:21973677 original size:15 final size:14
Alignment explanation
Indices: 21973659--21973718 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
21973649 TAAATTAAAC
21973659 AAAAATACAAAATA
1 AAAAATACAAAATA
21973673 TAAAAATACAAAATA
1 -AAAAATACAAAATA
* *
21973688 CAAAATAC-AATTAA
1 AAAAATACAAAAT-A
*
21973702 AAAAATA-AAAACA
1 AAAAATACAAAATA
21973715 AAAA
1 AAAA
21973719 CTAAACAGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 8 0.21
14 16 0.42
15 14 0.37
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAATACAAAATA
Found at i:21975019 original size:18 final size:18
Alignment explanation
Indices: 21974993--21975038 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
21974983 AGTTATAAAA
21974993 AAATAATAAA-TAAGAACT
1 AAATAATAAATTAAGAA-T
*
21975011 AATTAATAAATTAAGAAT
1 AAATAATAAATTAAGAAT
21975029 AAATAATAAA
1 AAATAATAAA
21975039 AAAATGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (18 bp):
AAATAATAAATTAAGAAT
Found at i:21976479 original size:4 final size:5
Alignment explanation
Indices: 21976452--21976481 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
21976442 TGTGTATAAC
21976452 ACAAA ACAAA ACAAA ACAAA AC-AA ACAAA A
1 ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA A
21976482 AATCTCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAA
Found at i:21976482 original size:15 final size:15
Alignment explanation
Indices: 21976452--21976481 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
21976442 TGTGTATAAC
21976452 ACAAAACAAAACAAA
1 ACAAAACAAAACAAA
21976467 ACAAAAC-AAACAAA
1 ACAAAACAAAACAAA
21976481 A
1 A
21976482 AATCTCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (15 bp):
ACAAAACAAAACAAA
Found at i:21976490 original size:24 final size:24
Alignment explanation
Indices: 21976463--21976508 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
21976453 CAAAACAAAA
21976463 CAAAAC-AAAACAAACAAAAAATCT
1 CAAAACTAAAA-AAACAAAAAATCT
*
21976487 CAAAACTAAAAAAATAAAAAAT
1 CAAAACTAAAAAAACAAAAAAT
21976509 GTTTTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.11
Consensus pattern (24 bp):
CAAAACTAAAAAAACAAAAAATCT
Found at i:21987108 original size:48 final size:48
Alignment explanation
Indices: 21986978--21988121 Score: 1010
Period size: 48 Copynumber: 23.8 Consensus size: 48
21986968 TTTTGAGAAC
* * * *
21986978 AGATGAGATTTTTAAAGTTGTTGAACCTCTGCTGGGAGAAGCTTTTTCA
1 AGATGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
21987027 AGATGAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTCA
1 AGATGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * *
21987076 AAATAAAATTTTAAAGTTATTGAGCCTCTGCTGAGATGAGCTTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * *
21987124 A-ATGAGATTTTAAAGTTTTTGAGCCTCTGATGAGAAGA-ATTTTTCCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT-CA
* *
21987171 AGATGAGATTTTAAAGTTGTTGA----------A-ATGAGCTTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * *
21987208 A-ATAAGATTTTAAAGTTGTTGAGCCTTTGCTGAAAGGAGCTTTTCCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * ** ** *
21987255 AGATGAGATTTTAAAGTTGTTAAGCCTCTACCAAGATAAGTTTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * *
21987303 AGATGAATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGTTTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * * *
21987351 AGATGGATTTTTAAAGTTATTAAGCCTCTACTGAGAGGAACTTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * *
21987399 AGATGAGATTTTTAAAATTGTTGAGCCTCTACTGAGAAGAGCTTTTTCA
1 AGATGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * *
21987448 AGATGAAATTTTAAAGTTGTTAATCATTTACTGAGAGGAGCTTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * * **
21987496 AGAT-AAGATTTTTGAAGTTGTTGATCCTCTGTTAAGAGAAATTTTTTCA
1 AGATGAA-A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
21987545 AGATGAAATTTTTAAAGTTGTTGATCCTCTGCTGAGAGGAGTTTTTTCA
1 AGATGAAA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
** * * * *
21987594 AGATGCTATTTTAAAGTTGTTGATCCTCTCCTGAGAGAAACTTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * * *
21987642 AGATGAGATTTTTAAAATTATTGAACCTCTACTGAGAAGAGCTTAACTTTTTCA
1 AGATGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAG-AG-G---AGCTTTTTCA
* *** *
21987696 AGATGAAATTTTGAAGTTGTTGATTTTCTGCTGAGAGAAGCTTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * **
21987744 AGATGAGATGTTT-AAGTTGTTAAGCCTCTACTGAGATAAGCTTTTT-A
1 AGATGAAAT-TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* ** ** * *
21987791 AGATGAAATTTTAAAGTTATTGATTCTCTTTTCAGATGAGCTTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * *
21987839 AGATGAGATTTTTAAAGTTGTTGAGTCTCTGCTGAAAGGAGCTTTTTTA
1 AGATGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * * * *
21987888 AAATGAAATTTTAAAGTTGTTGATCTTCTGCTGAGAGAAACTTTCTGA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * *
21987936 AGATGAGATTTCTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTTTA
1 AGATGAAATTT-TAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * *
21987985 AGATGAAATTTTAAATTTGTTGAGCCTCTGCTGAGAAGAGTTTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
21988033 AGAT-AAGATTTTTAAAGTTGTTGAACCTCTGCTGAGAAGAGCTTTTTTCA
1 AGATGAA-A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCA
* * *
21988083 AGATAAAATTTAAAAGTTATTGAGCCTCTGCTGAGAGGA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA
21988122 ACCTTTTTTT
Statistics
Matches: 903, Mismatches: 158, Indels: 68
0.80 0.14 0.06
Matches are distributed among these distances:
36 20 0.02
37 6 0.01
38 6 0.01
46 9 0.01
47 85 0.09
48 389 0.43
49 331 0.37
50 16 0.02
51 2 0.00
52 2 0.00
53 21 0.02
54 16 0.02
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (48 bp):
AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
Found at i:21987121 original size:97 final size:96
Alignment explanation
Indices: 21986978--21988121 Score: 1021
Period size: 97 Copynumber: 11.9 Consensus size: 96
21986968 TTTTGAGAAC
* * * * * *
21986978 AGATGAGATTTTTAAAGTTGTTGAACCTCTGCTGGGAGAAGCTTTTTCAAGATGAGATTTTTAAA
1 AGATGA-AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATGA-AATTTTAAA
*
21987043 GTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTCA
64 GTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * * *
21987076 AAATAAAATTTTAAAGTTATTGAGCCTCTGCTGAGATGAGCTTTTTCAA-ATGAGATTTTAAAGT
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGT
* * * *
21987140 TTTTGAGCCTCTGATGAGAAGA-ATTTTTCCA
66 TGTTGAGCCTCTGCTGAGAGGAGCTTTTT-CA
* *
21987171 AGATGAGATTTTAAAGTTGTT--G-----A---A-ATGAGCTTTTTCAA-AT-AAGATTTTAAAG
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATGAA-ATTTTAAAG
* * *
21987223 TTGTTGAGCCTTTGCTGAAAGGAGCTTTTCCA
65 TTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * ** ** * *
21987255 AGATGAGATTTTAAAGTTGTTAAGCCTCTACCAAGATAAGTTTTTTCAAGATGAATTTTTAAAGT
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGT
* *
21987320 TGTTGAGCCTTTGCTGAGAGGAGTTTTTTCA
66 TGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * * * *
21987351 AGATGGATTTTTAAAGTTATTAAGCCTCTACTGAGAGGAACTTTTTCAAGATGAGATTTTTAAAA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATGA-AATTTTAAAG
* *
21987416 TTGTTGAGCCTCTACTGAGAAGAGCTTTTTCA
65 TTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * *
21987448 AGATGAAATTTTAAAGTTGTTAATCATTTACTGAGAGGAGCTTTTTCAAGAT-AAGATTTTTGAA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATGAA-A-TTTTAAA
* * * * **
21987512 GTTGTTGATCCTCTGTTAAGAGAAATTTTTTCA
64 GTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * **
21987545 AGATGAAATTTTTAAAGTTGTTGATCCTCTGCTGAGAGGAGTTTTTTCAAGATGCTATTTTAAAG
1 AGATGAAA-TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAG
* * * *
21987610 TTGTTGATCCTCTCCTGAGAGAAACTTTTTCA
65 TTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * *
21987642 AGATGAGATTTTTAAAATTATTGAACCTCTACTGAGAAGAGCTTAACTTTTTCAAGATGAAATTT
1 AGATGA-AATTTTAAAGTTGTTGAGCCTCTACTGAG-AG-G---AGCTTTTTCAAGATGAAATTT
* *** *
21987707 TGAAGTTGTTGATTTTCTGCTGAGAGAAGCTTTTTCA
60 TAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * **
21987744 AGATGAGATGTTT-AAGTTGTTAAGCCTCTACTGAGATAAGCTTTTT-AAGATGAAATTTTAAAG
1 AGATGAAAT-TTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAG
* ** ** * *
21987807 TTATTGATTCTCTTTTCAGATGAGCTTTTTCA
65 TTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * * *
21987839 AGATGAGATTTTTAAAGTTGTTGAGTCTCTGCTGAAAGGAGCTTTTTTAAAATGAAATTTTAAAG
1 AGATGA-AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAG
* * * * * *
21987904 TTGTTGATCTTCTGCTGAGAGAAACTTTCTGA
65 TTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * *
21987936 AGATGAGATTTCTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTTTAAGATGAAATTTTAAAT
1 AGATGAAATTT-TAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAG
* *
21988001 TTGTTGAGCCTCTGCTGAGAAGAGTTTTTTCA
65 TTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * *
21988033 AGAT-AAGATTTTTAAAGTTGTTGAACCTCTGCTGAGAAGAGCTTTTTTCAAGATAAAATTTAAA
1 AGATGAA-A-TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGC-TTTTTCAAGATGAAATTTTAA
*
21988097 AGTTATTGAGCCTCTGCTGAGAGGA
63 AGTTGTTGAGCCTCTGCTGAGAGGA
21988122 ACCTTTTTTT
Statistics
Matches: 854, Mismatches: 157, Indels: 70
0.79 0.15 0.06
Matches are distributed among these distances:
83 1 0.00
84 66 0.08
85 5 0.01
86 1 0.00
91 1 0.00
93 1 0.00
94 6 0.01
95 109 0.13
96 127 0.15
97 368 0.43
98 90 0.11
99 1 0.00
100 1 0.00
101 19 0.02
102 58 0.07
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (96 bp):
AGATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGT
TGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
Found at i:21987252 original size:84 final size:84
Alignment explanation
Indices: 21987111--21987275 Score: 260
Period size: 84 Copynumber: 2.0 Consensus size: 84
21987101 CTCTGCTGAG
* * *
21987111 ATGAGCTTTTTCAAATGAGATTTTAAAGTTTTTGAGCCTCTGATGAGAAGAATTTTTCCAAGATG
1 ATGAGCTTTTTCAAATAAGATTTTAAAGTTGTTGAGCCTCTGATGAGAAGAACTTTTCCAAGATG
21987176 AGATTTTAAAGTTGTTGAA
66 AGATTTTAAAGTTGTTGAA
* * *
21987195 ATGAGCTTTTTCAAATAAGATTTTAAAGTTGTTGAGCCTTTGCTGA-AAGGAGCTTTTCCAAGAT
1 ATGAGCTTTTTCAAATAAGATTTTAAAGTTGTTGAGCCTCTGATGAGAA-GAACTTTTCCAAGAT
21987259 GAGATTTTAAAGTTGTT
65 GAGATTTTAAAGTTGTT
21987276 AAGCCTCTAC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
83 2 0.03
84 72 0.97
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (84 bp):
ATGAGCTTTTTCAAATAAGATTTTAAAGTTGTTGAGCCTCTGATGAGAAGAACTTTTCCAAGATG
AGATTTTAAAGTTGTTGAA
Found at i:21987305 original size:132 final size:132
Alignment explanation
Indices: 21987065--21987325 Score: 350
Period size: 132 Copynumber: 2.0 Consensus size: 132
21987055 TTGCTGAGAG
* * *
21987065 GAGCTTTTTCAAAATAAAATTTTAAAGTTATTGAGCCTCTGCTGAGATGAGCTTTTTCAAATGAG
1 GAGCTTTTTCAAAATAAAATTTTAAAGTTATTGAGCCTCTGCTGAAAGGAGCTTTTCCAAATGAG
* * **
21987130 ATTTTAAAGTTTTTGAGCCTCTGATGAGAAGAATTTTTCCAAGATGAGA-TTTTAAAGTTGTTGA
66 ATTTTAAAGTTGTTAAGCCTCTGACAAGAAGAATTTTTCCAAGATGA-ATTTTTAAAGTTGTTGA
21987194 AAT
130 AAT
* * *
21987197 GAGCTTTTTC-AAATAAGATTTTAAAGTTGTTGAGCCTTTGCTGAAAGGAGCTTTTCCAAGATGA
1 GAGCTTTTTCAAAATAAAATTTTAAAGTTATTGAGCCTCTGCTGAAAGGAGCTTTTCCAA-ATGA
* *
21987261 GATTTTAAAGTTGTTAAGCCTCT-ACCAAGATA-AGTTTTTTCAAGATGAATTTTTAAAGTTGTT
65 GATTTTAAAGTTGTTAAGCCTCTGA-CAAGA-AGAATTTTTCCAAGATGAATTTTTAAAGTTGTT
21987324 GA
128 GA
21987326 GCCTTTGCTG
Statistics
Matches: 113, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
131 45 0.40
132 67 0.59
133 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (132 bp):
GAGCTTTTTCAAAATAAAATTTTAAAGTTATTGAGCCTCTGCTGAAAGGAGCTTTTCCAAATGAG
ATTTTAAAGTTGTTAAGCCTCTGACAAGAAGAATTTTTCCAAGATGAATTTTTAAAGTTGTTGAA
AT
Found at i:21987838 original size:14 final size:15
Alignment explanation
Indices: 21987819--21987851 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21987809 ATTGATTCTC
*
21987819 TTTTC-AGATGAGCT
1 TTTTCAAGATGAGAT
21987833 TTTTCAAGATGAGAT
1 TTTTCAAGATGAGAT
21987848 TTTT
1 TTTT
21987852 AAAGTTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.48
Consensus pattern (15 bp):
TTTTCAAGATGAGAT
Found at i:21988450 original size:11 final size:11
Alignment explanation
Indices: 21988436--21988466 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
21988426 TACAAAACAC
21988436 AATAAAAAAAT
1 AATAAAAAAAT
21988447 AATAAAAAAAT
1 AATAAAAAAAT
21988458 AA-AAAAAAA
1 AATAAAAAAA
21988467 AGGGAACCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (11 bp):
AATAAAAAAAT
Found at i:21989246 original size:19 final size:19
Alignment explanation
Indices: 21989222--21989258 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
21989212 ATCGATCCAA
21989222 CTGAA-CCGAAACCGAACCG
1 CTGAACCCG-AACCGAACCG
21989241 CTGAACCCGAACCGAACC
1 CTGAACCCGAACCGAACC
21989259 ACCAGTCCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.35, C:0.41, G:0.19, T:0.05
Consensus pattern (19 bp):
CTGAACCCGAACCGAACCG
Found at i:21989503 original size:23 final size:21
Alignment explanation
Indices: 21989453--21989492 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
21989443 ATTAATTTTT
21989453 AAAATAAACTTTAAAAATAAA
1 AAAATAAACTTTAAAAATAAA
*
21989474 AAAATAAAC-TTAATAATAA
1 AAAATAAACTTTAAAAATAA
21989493 TACCAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAATAAACTTTAAAAATAAA
Found at i:21989671 original size:11 final size:11
Alignment explanation
Indices: 21989651--21989692 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
21989641 TCTTTTAGTT
*
21989651 ATAAAAAAATA
1 ATAAATAAATA
21989662 ATAAATAAATTA
1 ATAAATAAA-TA
21989674 A-AAATAAATA
1 ATAAATAAATA
21989684 ATAAA-AAAT
1 ATAAATAAAT
21989693 GAGAGAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 7 0.25
11 18 0.64
12 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
ATAAATAAATA
Found at i:21989685 original size:22 final size:20
Alignment explanation
Indices: 21989653--21989692 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
21989643 TTTTAGTTAT
21989653 AAAAAAATAATAAATAAATTA
1 AAAAAAATAATAAA-AAATTA
21989674 AAAATAAATAATAAAAAAT
1 AAAA-AAATAATAAAAAAT
21989693 GAGAGAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAAAATAATAAAAAATTA
Found at i:21992852 original size:27 final size:27
Alignment explanation
Indices: 21992822--21992876 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
21992812 TTTTAAGTAG
* * *
21992822 TAAATAAATTTTATTGTAATAAACTAA
1 TAAATAAATATCATTATAATAAACTAA
*
21992849 TAAATAAATATCATTATAATTAACTAA
1 TAAATAAATATCATTATAATAAACTAA
21992876 T
1 T
21992877 TAATTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (27 bp):
TAAATAAATATCATTATAATAAACTAA
Found at i:21995885 original size:25 final size:24
Alignment explanation
Indices: 21995848--21995915 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 24
21995838 AAACGTATTA
21995848 TTTTATTTAAATATAATTTAATAAT
1 TTTTATTT-AATATAATTTAATAAT
*
21995873 TTTTACTTTAATAT-TTTTAATAATT
1 TTTTA-TTTAATATAATTTAATAA-T
* *
21995898 ATTTTTTTTACTATAATT
1 -TTTTATTTAATATAATT
21995916 CATCTTACCA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
24 8 0.23
25 18 0.51
26 9 0.26
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTATTTAATATAATTTAATAAT
Found at i:22007118 original size:14 final size:15
Alignment explanation
Indices: 22007093--22007121 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22007083 GAATATATAA
22007093 TTTTATTATATTATT
1 TTTTATTATATTATT
22007108 TTTTATT-TATTATT
1 TTTTATTATATTATT
22007122 CATATCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATTATATTATT
Found at i:22008158 original size:12 final size:12
Alignment explanation
Indices: 22008141--22008182 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
22008131 TATATAAAAA
22008141 AATTATTTTTTT
1 AATTATTTTTTT
22008153 AATTATTTTTTT
1 AATTATTTTTTT
*
22008165 AATT-TTATATTT
1 AATTATT-TTTTT
22008177 AATTAT
1 AATTAT
22008183 ATATTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 2 0.07
12 24 0.89
13 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
AATTATTTTTTT
Found at i:22008177 original size:6 final size:6
Alignment explanation
Indices: 22008168--22008219 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
22008158 TTTTTTTAAT
* *
22008168 TTTATA TTTA-A TTATATA TTTTTA TATATA TTTA-A TTTTATA TTTATA
1 TTTATA TTTATA TT-TATA TTTATA TTTATA TTTATA -TTTATA TTTATA
22008216 TTTA
1 TTTA
22008220 AAATAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 4 0.11
6 30 0.79
7 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTATA
Found at i:22008185 original size:12 final size:12
Alignment explanation
Indices: 22008150--22008213 Score: 67
Period size: 12 Copynumber: 5.3 Consensus size: 12
22008140 AAATTATTTT
* *
22008150 TTTAATTATTTT
1 TTTAATTATATA
*
22008162 TTTAATTTTATA
1 TTTAATTATATA
22008174 TTTAATTATATA
1 TTTAATTATATA
*
22008186 TTT-TTATATATA
1 TTTAAT-TATATA
*
22008198 TTTAATTTTATA
1 TTTAATTATATA
22008210 TTTA
1 TTTA
22008214 TATTTAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
11 1 0.02
12 41 0.95
13 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTAATTATATA
Found at i:22008219 original size:12 final size:11
Alignment explanation
Indices: 22008162--22008219 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 11
22008152 TAATTATTTT
22008162 TTTAATTTTATA
1 TTTAA-TTTATA
22008174 TTTAATTATATA
1 TTTAATT-TATA
* *
22008186 TTTTTATATATA
1 -TTTAATTTATA
22008198 TTTAATTTTATA
1 TTTAA-TTTATA
22008210 TTTATATTTA
1 TTTA-ATTTA
22008220 AAATAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 6 0.16
12 26 0.68
13 6 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTAATTTATA
Found at i:22008540 original size:22 final size:22
Alignment explanation
Indices: 22008509--22008553 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
22008499 TGAAAGTAAA
22008509 AAAAAGTTATATTTAATTTATT
1 AAAAAGTTATATTTAATTTATT
*
22008531 AAAAATTTATATTTAATTTATT
1 AAAAAGTTATATTTAATTTATT
22008553 A
1 A
22008554 TTAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
AAAAAGTTATATTTAATTTATT
Found at i:22008563 original size:22 final size:23
Alignment explanation
Indices: 22008510--22008581 Score: 76
Period size: 22 Copynumber: 3.1 Consensus size: 23
22008500 GAAAGTAAAA
22008510 AAAAGTTATATTTAATTTATTA--
1 AAAA-TTATATTTAATTTATTATT
22008532 AAAATTTATATTTAATTTATTATT
1 AAAA-TTATATTTAATTTATTATT
* * *
22008556 AAAATATAAATTTTATATATTATT
1 AAAAT-TATATTTAATTTATTATT
22008580 AA
1 AA
22008582 TAAATCAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
22 21 0.49
23 1 0.02
24 21 0.49
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
AAAATTATATTTAATTTATTATT
Found at i:22008568 original size:24 final size:24
Alignment explanation
Indices: 22008519--22008581 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
22008509 AAAAAGTTAT
* *
22008519 ATTTAATTTATTA--AAAATTTAT
1 ATTTAATTTATTATTAAAATATAA
22008541 ATTTAATTTATTATTAAAATATAA
1 ATTTAATTTATTATTAAAATATAA
* *
22008565 ATTTTATATATTATTAA
1 ATTTAATTTATTATTAA
22008582 TAAATCAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 13 0.37
24 22 0.63
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTTAATTTATTATTAAAATATAA
Found at i:22008600 original size:24 final size:23
Alignment explanation
Indices: 22008548--22008600 Score: 54
Period size: 24 Copynumber: 2.2 Consensus size: 23
22008538 TATATTTAAT
**
22008548 TTATTATTAAAATATAAATTTTA
1 TTATTATTAAAATATAAATGATA
22008571 TATATTATTAATAA-ATCAAATGATA
1 T-TATTATTAA-AATAT-AAATGATA
22008596 TTATT
1 TTATT
22008601 TTTTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 1 0.04
24 15 0.60
25 9 0.36
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TTATTATTAAAATATAAATGATA
Found at i:22008626 original size:25 final size:25
Alignment explanation
Indices: 22008525--22008626 Score: 70
Period size: 25 Copynumber: 4.1 Consensus size: 25
22008515 TTATATTTAA
**
22008525 TTTATTAA-AAATTTATATTTAAT-T
1 TTTATTAATAAATAAATA-TTAATAT
*
22008549 TATTATTAA-AATATAAAT-TTTATAT
1 T-TTATTAATAA-ATAAATATTAATAT
* *
22008574 ATTATTAATAAATCAAATGA-TATTAT
1 TTTATTAATAAAT-AAAT-ATTAATAT
*
22008600 TTTTTTAATAAATAAATATTAATAT
1 TTTATTAATAAATAAATATTAATAT
22008625 TT
1 TT
22008627 AAAATAAATA
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
24 15 0.25
25 27 0.44
26 19 0.31
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (25 bp):
TTTATTAATAAATAAATATTAATAT
Found at i:22008723 original size:26 final size:25
Alignment explanation
Indices: 22008676--22008724 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
22008666 TATTATTGTC
*
22008676 TAATTTATCTTATCAATAAATAAAA
1 TAATTTATCTGATCAATAAATAAAA
* *
22008701 TAATATTATCTGATCCATTAATAA
1 TAAT-TTATCTGATCAATAAATAA
22008725 TTTATAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (25 bp):
TAATTTATCTGATCAATAAATAAAA
Found at i:22012242 original size:21 final size:21
Alignment explanation
Indices: 22012208--22012268 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
22012198 TCGATTCGAC
*
22012208 TTAAAATTAATAAAATATTATT
1 TTAAAAAT-ATAAAATATTATT
**
22012230 TTTTAAATATAAAATATTATT
1 TTAAAAATATAAAATATTATT
22012251 TTAAAAATATAAATATAT
1 TTAAAAATATAAA-ATAT
22012269 AAATATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 24 0.73
22 9 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAAAATATAAAATATTATT
Found at i:22012290 original size:27 final size:27
Alignment explanation
Indices: 22012230--22012295 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
22012220 AAATATTATT
*
22012230 TTTTAAATATAAAATATTATTTTAAAA
1 TTTTAAATATAAAATATTATATTAAAA
* *
22012257 ATATAAATATATAAATA-TATATTAAAA
1 TTTTAAATATA-AAATATTATATTAAAA
*
22012284 TTTTAAAAATAA
1 TTTTAAATATAA
22012296 TTTTTTATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
26 1 0.03
27 26 0.81
28 5 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
TTTTAAATATAAAATATTATATTAAAA
Found at i:22012346 original size:20 final size:19
Alignment explanation
Indices: 22012310--22012350 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
22012300 TTATATAATA
22012310 TTAAATCGAATTGAATTTAT
1 TTAAATCGAATTGAA-TTAT
22012330 TTAAATCGAATCT-AATTAT
1 TTAAATCGAAT-TGAATTAT
22012349 TT
1 TT
22012351 TTTAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 13 0.65
21 1 0.05
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (19 bp):
TTAAATCGAATTGAATTAT
Found at i:22032876 original size:2 final size:2
Alignment explanation
Indices: 22032869--22032896 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22032859 GCTTTGTCTG
22032869 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22032897 TAATATTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22033778 original size:22 final size:23
Alignment explanation
Indices: 22033748--22033790 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
22033738 AATTTTTTTT
22033748 AATTATTTAATAA-ATATATTTAA
1 AATTATTTAA-AATATATATTTAA
22033771 AATT-TTTAAAATATATATTT
1 AATTATTTAAAATATATATTT
22033791 TTAAGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 13 0.68
23 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTATTTAAAATATATATTTAA
Found at i:22034113 original size:20 final size:21
Alignment explanation
Indices: 22034085--22034127 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
22034075 TGGTTCTTTC
*
22034085 TTTTGCTTTT-CTTTTTTTTT
1 TTTTACTTTTACTTTTTTTTT
22034105 TTTTACTTTTAGCTTTTTTTTT
1 TTTTACTTTTA-CTTTTTTTTT
22034127 T
1 T
22034128 CTTTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
22 11 0.55
ACGTcount: A:0.05, C:0.09, G:0.05, T:0.81
Consensus pattern (21 bp):
TTTTACTTTTACTTTTTTTTT
Found at i:22036314 original size:25 final size:25
Alignment explanation
Indices: 22036286--22036340 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
22036276 AAAAAATGTG
**
22036286 AAAAAGATAAAAATTAAAAATAAAA
1 AAAAAGATAAAAACAAAAAATAAAA
*
22036311 AAAAAGGTAAAAACAAAAAATAAAA
1 AAAAAGATAAAAACAAAAAATAAAA
22036336 AAAAA
1 AAAAA
22036341 AGAGCTCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.82, C:0.02, G:0.05, T:0.11
Consensus pattern (25 bp):
AAAAAGATAAAAACAAAAAATAAAA
Found at i:22036323 original size:13 final size:13
Alignment explanation
Indices: 22036286--22036343 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
22036276 AAAAAATGTG
22036286 AAAAAGATAAAAA
1 AAAAAGATAAAAA
*
22036299 TTAAAA-AT-AAAA
1 -AAAAAGATAAAAA
*
22036311 AAAAAGGTAAAAA
1 AAAAAGATAAAAA
22036324 CAAAAA-ATAAAAA
1 -AAAAAGATAAAAA
22036337 AAAAAGA
1 AAAAAGA
22036344 GCTCATAGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
11 4 0.11
12 10 0.28
13 13 0.36
14 9 0.25
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.10
Consensus pattern (13 bp):
AAAAAGATAAAAA
Found at i:22036781 original size:14 final size:14
Alignment explanation
Indices: 22036762--22036798 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
22036752 AAAAAGCATT
*
22036762 AAAAAAGGAAAACA
1 AAAAAAGAAAAACA
*
22036776 AAAAAATAAAAACA
1 AAAAAAGAAAAACA
22036790 AAAAAAGAA
1 AAAAAAGAA
22036799 CTTCTATTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.84, C:0.05, G:0.08, T:0.03
Consensus pattern (14 bp):
AAAAAAGAAAAACA
Found at i:22036944 original size:157 final size:154
Alignment explanation
Indices: 22036650--22036942 Score: 374
Period size: 159 Copynumber: 1.8 Consensus size: 154
22036640 ATTTTAATTG
* *
22036650 GCAAATTTTATCTAATTAAAAATGTAAAAAGAAAAAAGAAGCAAAGGGGTGCAACATGGACATTT
1 GCAAATTTTATCTAATTAAAAATATAAAAAGAAAAAAAAAGCAAAGGGGTGCAACATGGACATTT
* * *
22036715 CCATTGCCTTTTTTTTTTCACAAAATTAATTTAATTAAAAAAGCATTAAAAAAGGAAAACAAAAA
66 CCATTGCC---TTTTTTTCACAAAATTAATTGAATTAAAAAAGCATCAAAAAAAGAAAACAAAAA
22036780 AATAAAAACAAAAAAAGAACTTCTATT
128 AATAAAAACAAAAAAAGAACTTCTATT
* **
22036807 GCAAATTTTATCTAATTAAAAATATAAAAAAAAGAAAGAAAAAAAAGCAATA-GTGTGCAATGTG
1 GCAAATTTTATCTAATTAAAAATAT---AAAAAG--A-AAAAAAAAGCAA-AGGGGTGCAACATG
*
22036871 GACATTTCCATTGCC-TTTTTTCACAAAATTAATTGAATTAAAAATGCATCAAAACAAAGAAAAG
59 GACATTTCCATTGCCTTTTTTTCACAAAATTAATTGAATTAAAAAAGCATCAAAA-AAAGAAAA-
*
22036935 GAAAAAAA
122 CAAAAAAA
22036943 AATGAAGCTT
Statistics
Matches: 117, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
157 24 0.21
159 36 0.31
160 13 0.11
161 7 0.06
162 1 0.01
163 35 0.30
164 1 0.01
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.26
Consensus pattern (154 bp):
GCAAATTTTATCTAATTAAAAATATAAAAAGAAAAAAAAAGCAAAGGGGTGCAACATGGACATTT
CCATTGCCTTTTTTTCACAAAATTAATTGAATTAAAAAAGCATCAAAAAAAGAAAACAAAAAAAT
AAAAACAAAAAAAGAACTTCTATT
Found at i:22037955 original size:29 final size:28
Alignment explanation
Indices: 22037923--22037996 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 28
22037913 GGATTACATC
*
22037923 TTAATTATGTATAAATATAATATTTTTA
1 TTAATTATGTATAAATATAATAATTTTA
* *
22037951 TTTAATTAAGATATTAA-ATAATAATTTTA
1 -TTAATTATG-TATAAATATAATAATTTTA
*
22037980 TTAA-TATG-ATACATATA
1 TTAATTATGTATAAATATA
22037997 TAAAGATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
25 3 0.08
26 3 0.08
27 3 0.08
28 4 0.11
29 19 0.51
30 5 0.14
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (28 bp):
TTAATTATGTATAAATATAATAATTTTA
Found at i:22038801 original size:2 final size:2
Alignment explanation
Indices: 22038796--22038830 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
22038786 TGTGTGTGTC
22038796 TA 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 TA T
22038831 TAAATTAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22039149 original size:78 final size:78
Alignment explanation
Indices: 22039067--22039219 Score: 306
Period size: 78 Copynumber: 2.0 Consensus size: 78
22039057 GAAATGAGCC
22039067 TCAATTTAAAAAATTCTAAAATATATAAAATATTTATTAATTATAAAAAAGGAAAAAAAAGTAAA
1 TCAATTTAAAAAATTCTAAAATATATAAAATATTTATTAATTATAAAAAAGGAAAAAAAAGTAAA
22039132 AAAAAAAAAATTT
66 AAAAAAAAAATTT
22039145 TCAATTTAAAAAATTCTAAAATATATAAAATATTTATTAATTATAAAAAAGGAAAAAAAAGTAAA
1 TCAATTTAAAAAATTCTAAAATATATAAAATATTTATTAATTATAAAAAAGGAAAAAAAAGTAAA
22039210 AAAAAAAAAA
66 AAAAAAAAAA
22039220 ACTTGACACA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (78 bp):
TCAATTTAAAAAATTCTAAAATATATAAAATATTTATTAATTATAAAAAAGGAAAAAAAAGTAAA
AAAAAAAAAATTT
Found at i:22039526 original size:20 final size:20
Alignment explanation
Indices: 22039489--22039528 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22039479 TATAGATTTA
*
22039489 AAAAAATATTTACCAAAAAT
1 AAAAAATATTTACAAAAAAT
22039509 AAAAAATATTTGA-AAAAAAT
1 AAAAAATATTT-ACAAAAAAT
22039529 TATTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAAAATATTTACAAAAAAT
Found at i:22040833 original size:1 final size:1
Alignment explanation
Indices: 22040829--22040853 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
22040819 GAAAAACTAT
22040829 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
22040854 CTGAGAGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:22042890 original size:16 final size:16
Alignment explanation
Indices: 22042850--22042893 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
22042840 TTATTAAAGT
*
22042850 ATATTGAAATTATTTA
1 ATATTAAAATTATTTA
*
22042866 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
22042881 ATATTCAAAATTA
1 ATATT-AAAATTA
22042894 ATTCTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:22043009 original size:39 final size:39
Alignment explanation
Indices: 22042966--22043040 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
22042956 CAAATCTATT
* *
22042966 TATTA-TTCTTTATTAATATATTATAATATTAGTTATTAC
1 TATTACTTATTTATTAAT-TAATATAATATTAGTTATTAC
*
22043005 TATTACTTATTTATTAATTAATATAATATTATTTAT
1 TATTACTTATTTATTAATTAATATAATATTAGTTAT
22043041 AAGTAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 21 0.66
40 11 0.34
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (39 bp):
TATTACTTATTTATTAATTAATATAATATTAGTTATTAC
Found at i:22045089 original size:25 final size:25
Alignment explanation
Indices: 22045060--22045110 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
22045050 AAACCCTTAA
* *
22045060 ACTTTGAACTTGTATCTAAATAAAC
1 ACTTTGAACTTGTACCTAAAAAAAC
*
22045085 ACTTTTAACTTGTACCTAAAAAAAC
1 ACTTTGAACTTGTACCTAAAAAAAC
22045110 A
1 A
22045111 TTTAATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (25 bp):
ACTTTGAACTTGTACCTAAAAAAAC
Found at i:22045204 original size:30 final size:30
Alignment explanation
Indices: 22045144--22045203 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
22045134 TAAAATAAGT
* *
22045144 ATTTATTTTGATGTAAATCAAAATATAAAA
1 ATTTATTTGGATATAAATCAAAATATAAAA
22045174 ATTTATTTGGATAT-AAT-AAAAGTATAAAA
1 ATTTATTTGGATATAAATCAAAA-TATAAAA
22045203 A
1 A
22045204 AATTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 4 0.15
29 11 0.41
30 12 0.44
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (30 bp):
ATTTATTTGGATATAAATCAAAATATAAAA
Found at i:22047346 original size:134 final size:129
Alignment explanation
Indices: 22047157--22047398 Score: 333
Period size: 134 Copynumber: 1.8 Consensus size: 129
22047147 TTTAAAATTA
**
22047157 ATCAAATAAATAAAAATATTTAAAATATTAGTTATCCAAAATTAATTTTCTAATAATGTACATAT
1 ATCAAATAAATAAAAATATTTAAAATATTAGCCATCCAAAATTAATTTTCTAATAAT-TACATAT
*
22047222 ATATAATTTAAATGTATATCTTATTT-TCTTCTAAAATTAATTTTTTTTTAATAATTTTATGGTA
65 ATATAATTTAAA--TATAT-ATATTTATCTTCTAAAATTAATTTTTTTTTAATAATTTTATGGTA
22047286 TTT
127 TTT
* * ***
22047289 ATCAAGTAAATAAAAGTATTTAAAAATTATTAGCCATCCAAAATTAATTTTCTAATAATTTTGTA
1 ATCAAATAAATAAAAATATTT-AAAA-TATTAGCCATCCAAAATTAATTTTCTAATAATTACATA
* *
22047354 TATATAATTTAAATATATATATTTATCTTTTAAAATTTATTTTTT
64 TATATAATTTAAATATATATATTTATCTTCTAAAATTAATTTTTT
22047399 AATAATTTAG
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
130 5 0.05
131 23 0.24
132 19 0.20
133 20 0.21
134 30 0.31
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (129 bp):
ATCAAATAAATAAAAATATTTAAAATATTAGCCATCCAAAATTAATTTTCTAATAATTACATATA
TATAATTTAAATATATATATTTATCTTCTAAAATTAATTTTTTTTTAATAATTTTATGGTATTT
Found at i:22047391 original size:14 final size:15
Alignment explanation
Indices: 22047374--22047407 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
22047364 AAATATATAT
22047374 ATTTATCTTTTAA-A
1 ATTTATCTTTTAATA
*
22047388 ATTTATTTTTTAATA
1 ATTTATCTTTTAATA
22047403 ATTTA
1 ATTTA
22047408 GATATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTATCTTTTAATA
Found at i:22047434 original size:20 final size:21
Alignment explanation
Indices: 22047382--22047434 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
22047372 ATATTTATCT
*
22047382 TTTAAAATTTATTTTTTAATAA
1 TTTAAAA-ATATTTTTTAATAA
* *
22047404 TTTAGATATATTTTTTAA-AA
1 TTTAAAAATATTTTTTAATAA
22047424 TTTAAAAATAT
1 TTTAAAAATAT
22047435 CAAATTTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 11 0.42
21 10 0.38
22 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTAAAAATATTTTTTAATAA
Found at i:22048359 original size:173 final size:172
Alignment explanation
Indices: 22048045--22048359 Score: 442
Period size: 173 Copynumber: 1.8 Consensus size: 172
22048035 TATAGTATTT
* *
22048045 ATCAAATAAATAAAATATTTAAAAATTATTTATTACTCAAAATTAATTTTTAATAATTTATATAT
1 ATCAAATAAATAAAATATTTAAAAATTATTAATTACTCAAAACTAATTTTTAATAATTTATATAT
* * *
22048110 ATAATCTAATATATATCTCTTTATTACATAAAATTAATTTTCTAATAATTATATGGTATTTATTA
66 ATAATCTAATATATATCTCTTTATTACATAAAATTAATTTACTAATAATTATATGGTATTCATCA
** *
22048175 TGTATATAATTTAAATGTATATTTTTTTATCTTTTAAAATTA
131 AATAAATAATTTAAATGTATATTTTTTTATCTTTTAAAATTA
22048217 ATCAAATAAATAAAAATATTTAAAAATT-TTAAATTA-TCCAAAACTAATTTTCTAATAA-TT-T
1 ATCAAATAAAT-AAAATATTTAAAAATTATT-AATTACT-CAAAACTAATTTT-TAATAATTTAT
* * *
22048278 ATATATAATCTAAATATATATCTTTTTATCTTC-TAAAATTAATTTACTAATAATTTTATGGTAT
62 ATATATAATCT-AATATATATCTCTTTAT-TACATAAAATTAATTTACTAATAATTATATGGTAT
22048342 TCATCAAATAAATAATTT
125 TCATCAAATAAATAATTT
22048360 TATTAAAAAA
Statistics
Matches: 126, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
172 26 0.21
173 92 0.73
174 8 0.06
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (172 bp):
ATCAAATAAATAAAATATTTAAAAATTATTAATTACTCAAAACTAATTTTTAATAATTTATATAT
ATAATCTAATATATATCTCTTTATTACATAAAATTAATTTACTAATAATTATATGGTATTCATCA
AATAAATAATTTAAATGTATATTTTTTTATCTTTTAAAATTA
Found at i:22048861 original size:3 final size:3
Alignment explanation
Indices: 22048853--22048880 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22048843 ATAATGTCTT
22048853 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
22048881 GAAATACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22054588 original size:65 final size:66
Alignment explanation
Indices: 22054511--22054638 Score: 213
Period size: 66 Copynumber: 2.0 Consensus size: 66
22054501 AATCCATATT
* **
22054511 TTTTTTTTATATTTTCATA-TTTCTGTATAGGTTATATAGACGATTAGATAATGAATTTAAAAAT
1 TTTTTTTGATATTTTCATATTTTCTGTATAAATTATATAGACGATTAGATAATGAATTTAAAAAT
22054575 A
66 A
*
22054576 TTTTTTTGATATTTTCATATTTTTTGTATAAATTATATAGACGATTAGATAATGAATTTAAAA
1 TTTTTTTGATATTTTCATATTTTCTGTATAAATTATATAGACGATTAGATAATGAATTTAAAA
22054639 TATAACATCG
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
65 18 0.31
66 40 0.69
ACGTcount: A:0.36, C:0.04, G:0.10, T:0.50
Consensus pattern (66 bp):
TTTTTTTGATATTTTCATATTTTCTGTATAAATTATATAGACGATTAGATAATGAATTTAAAAAT
A
Found at i:22058205 original size:41 final size:41
Alignment explanation
Indices: 22058148--22058230 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
22058138 GTATAGGTTC
* *
22058148 ACTGAAAATGAAAATTATTGACTACTCAAAACCTACCTGGT
1 ACTGAAAATCAAAATTATTGACTACTCAAAACCTACCAGGT
22058189 ACTGAAAATCAAAATTATTGACTACTCAAAACCTACCAGGT
1 ACTGAAAATCAAAATTATTGACTACTCAAAACCTACCAGGT
22058230 A
1 A
22058231 ATCTACAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.25
Consensus pattern (41 bp):
ACTGAAAATCAAAATTATTGACTACTCAAAACCTACCAGGT
Found at i:22069008 original size:25 final size:23
Alignment explanation
Indices: 22068958--22069010 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
22068948 CCCAATTATG
* *
22068958 GCCCATTTAAAGCCCAATGGATA
1 GCCCATTTAAAGCCCAATGAAAA
*
22068981 GCCCATTTTAAAGGCCCAATTAAAA
1 GCCCA-TTTAAA-GCCCAATGAAAA
22069006 GCCCA
1 GCCCA
22069011 AATAGGCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.20
24 6 0.24
25 14 0.56
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (23 bp):
GCCCATTTAAAGCCCAATGAAAA
Found at i:22071968 original size:31 final size:31
Alignment explanation
Indices: 22071886--22072025 Score: 113
Period size: 33 Copynumber: 4.4 Consensus size: 31
22071876 ATCACTATAG
* *
22071886 AAAATTTGGATATTGCCACCGAAGATTTTGAA
1 AAAATTTGGATATTACCACCAAAGA-TTTGAA
* * *
22071918 ATTAATTTGGATGTAACCACCAAAG-TGTTGAA
1 A-AAATTTGGATATTACCACCAAAGAT-TTGAA
*
22071950 AAAATTTGGGTATTACCACCAAAGACTTTAGAA
1 AAAATTTGGATATTACCACCAAAGA-TTT-GAA
* * * ** *
22071983 AAAATTTGGATGTCATCACCAAAGACCT-AG
1 AAAATTTGGATATTACCACCAAAGATTTGAA
22072013 AAAATTTGGATAT
1 AAAATTTGGATAT
22072026 CCCTACTGAA
Statistics
Matches: 86, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
30 13 0.15
31 20 0.23
32 10 0.12
33 43 0.50
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (31 bp):
AAAATTTGGATATTACCACCAAAGATTTGAA
Found at i:22071969 original size:64 final size:64
Alignment explanation
Indices: 22071886--22072006 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
22071876 ATCACTATAG
* * * *
22071886 AAAATTTGGATATTGCCACCGAAGA-TTTTGAAATTAATTTGGATGTAACCACCAAAGTGTTGAA
1 AAAATTTGGATATTACCACCAAAGACTTTAGAAA-AAATTTGGATGTAACCACCAAAGTGTTGAA
* * *
22071950 AAAATTTGGGTATTACCACCAAAGACTTTAGAAAAAATTTGGATGTCATCACCAAAG
1 AAAATTTGGATATTACCACCAAAGACTTTAGAAAAAATTTGGATGTAACCACCAAAG
22072007 ACCTAGAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
64 42 0.86
65 7 0.14
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (64 bp):
AAAATTTGGATATTACCACCAAAGACTTTAGAAAAAATTTGGATGTAACCACCAAAGTGTTGAA
Found at i:22072489 original size:20 final size:20
Alignment explanation
Indices: 22072464--22072514 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
22072454 AACAATACAA
22072464 ATGCAAATGCCCTTTTTATG
1 ATGCAAATGCCCTTTTTATG
*
22072484 ATGCAAATGCCTTTTTTATG
1 ATGCAAATGCCCTTTTTATG
*
22072504 ATACAAATGCC
1 ATGCAAATGCC
22072515 TCTTAGAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGCAAATGCCCTTTTTATG
Found at i:22075019 original size:19 final size:18
Alignment explanation
Indices: 22074971--22075043 Score: 74
Period size: 18 Copynumber: 3.8 Consensus size: 18
22074961 AATAATAACA
*
22074971 ATCATGTAAATATATAAT
1 ATCATGCAAATATATAAT
22074989 ATCATGCAAATATATTAATT
1 ATCATGCAAATATA-TAA-T
*
22075009 ATCATGCAATAATATAAAAT
1 ATCATGC-A-AATATATAAT
* *
22075029 ACCATGAAAATATAT
1 ATCATGCAAATATAT
22075044 GCAAATATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
18 19 0.41
19 4 0.09
20 14 0.30
21 3 0.07
22 6 0.13
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (18 bp):
ATCATGCAAATATATAAT
Found at i:22075347 original size:41 final size:41
Alignment explanation
Indices: 22075297--22075524 Score: 298
Period size: 41 Copynumber: 5.6 Consensus size: 41
22075287 ATAAATTAAT
* * *
22075297 AATCATGCAATTAAATACATAATCATGCAATTAACATTATA
1 AATCATGCAATTAAATATATAATTATGCAATTAACAATATA
* * * *
22075338 AAACATGCAATTAAATATATAATCAAGCAATTAATAATATA
1 AATCATGCAATTAAATATATAATTATGCAATTAACAATATA
* * *
22075379 AATCACGTAATT-AA-ATATAATTATGCAATTAAAAATATA
1 AATCATGCAATTAAATATATAATTATGCAATTAACAATATA
* *
22075418 AATCATGCTATTAAATATATAATTATGCAATTATCAATATA
1 AATCATGCAATTAAATATATAATTATGCAATTAACAATATA
*
22075459 AATCATGCAATTAAATATATAATTATGCAATAAACAATATA
1 AATCATGCAATTAAATATATAATTATGCAATTAACAATATA
* * *
22075500 AATCATGCAAATAAACATGTAATTA
1 AATCATGCAATTAAATATATAATTA
22075525 AATATATAAT
Statistics
Matches: 163, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
39 31 0.19
40 4 0.02
41 128 0.79
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (41 bp):
AATCATGCAATTAAATATATAATTATGCAATTAACAATATA
Found at i:22075409 original size:80 final size:80
Alignment explanation
Indices: 22075297--22075514 Score: 276
Period size: 80 Copynumber: 2.7 Consensus size: 80
22075287 ATAAATTAAT
* * * *
22075297 AATCATGCAATTAAATACATAATCATGCAATTAACATTATAAAACATGCAATTAAATATATAATC
1 AATCACGCAATTAAAT--ATAATTATGCAATTAACAATATAAATCATGCAATTAAATATATAATC
22075362 AAGCAATTAAT-AATATA
64 AAGCAATT-ATCAATATA
* * * * *
22075379 AATCACGTAATTAAATATAATTATGCAATTAAAAATATAAATCATGCTATTAAATATATAATTAT
1 AATCACGCAATTAAATATAATTATGCAATTAACAATATAAATCATGCAATTAAATATATAATCAA
22075444 GCAATTATCAATATA
66 GCAATTATCAATATA
* * *
22075459 AATCATGCAATTAAATATATAATTATGCAATAAACAATATAAATCATGCAAATAAA
1 AATCACGCAATT-AA-ATATAATTATGCAATTAACAATATAAATCATGCAATTAAA
22075515 CATGTAATTA
Statistics
Matches: 118, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.02
80 64 0.54
81 2 0.02
82 50 0.42
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (80 bp):
AATCACGCAATTAAATATAATTATGCAATTAACAATATAAATCATGCAATTAAATATATAATCAA
GCAATTATCAATATA
Found at i:22075538 original size:20 final size:20
Alignment explanation
Indices: 22075510--22075552 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
22075500 AATCATGCAA
* * *
22075510 ATAAACATGTAATTAAATAT
1 ATAAACATGCAAATAAAAAT
*
22075530 ATAATCATGCAAATAAAAAT
1 ATAAACATGCAAATAAAAAT
22075550 ATA
1 ATA
22075553 TAAACCATAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (20 bp):
ATAAACATGCAAATAAAAAT
Found at i:22075540 original size:53 final size:56
Alignment explanation
Indices: 22075335--22075570 Score: 174
Period size: 53 Copynumber: 4.1 Consensus size: 56
22075325 AATTAACATT
* * * * * * *
22075335 ATAAAACATGCAATTAAATATATAATCAAGCAATTAATAATATA-AATCACGTAATTAA
1 ATAAATCATGCAATTAAATATATAATCATGCAAATAAAAATATATAAAC-CAT-A-CAA
* * * * * ** *
22075393 ATATAATTATGCAATTAAAAATATAAATCATGCTATTAAATATATAATTATGCAATTATCAA
1 ATA-AATCATGCAATTAAATATAT-AATCATGCAAATAAAAATAT-A-TAAACCA-TA-CAA
* * * *
22075455 TATAAATCATGCAATTAAATATATAATTATGC-AATAAACA-ATATAAATCATGCAA
1 -ATAAATCATGCAATTAAATATATAATCATGCAAATAAAAATATATAAACCATACAA
*
22075510 ATAAA-CATGTAATTAAATATATAATCATGCAAATAAAAATATATAAACCATACAA
1 ATAAATCATGCAATTAAATATATAATCATGCAAATAAAAATATATAAACCATACAA
22075565 ATAAAT
1 ATAAAT
22075571 ATTTGATCAT
Statistics
Matches: 141, Mismatches: 27, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
53 23 0.16
54 12 0.09
55 21 0.15
56 1 0.01
57 3 0.02
58 4 0.03
59 19 0.13
60 22 0.16
61 8 0.06
62 22 0.16
63 6 0.04
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (56 bp):
ATAAATCATGCAATTAAATATATAATCATGCAAATAAAAATATATAAACCATACAA
Found at i:22075552 original size:22 final size:23
Alignment explanation
Indices: 22075524--22075569 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
22075514 ACATGTAATT
* *
22075524 AAATATAT-AATCATGCAAATAA
1 AAATATATAAACCATACAAATAA
22075546 AAATATATAAACCATACAAATAA
1 AAATATATAAACCATACAAATAA
22075569 A
1 A
22075570 TATTTGATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.63, C:0.11, G:0.02, T:0.24
Consensus pattern (23 bp):
AAATATATAAACCATACAAATAA
Found at i:22075708 original size:18 final size:18
Alignment explanation
Indices: 22075685--22075735 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
22075675 GATTAAACAG
22075685 AAAATCAAATAAAAAATA
1 AAAATCAAATAAAAAATA
**
22075703 AAAATCAAATTGAAAATA
1 AAAATCAAATAAAAAATA
*
22075721 AAAGATCCAATAAAA
1 AAA-ATCAAATAAAA
22075736 CAGAAAATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.71, C:0.08, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAATCAAATAAAAAATA
Found at i:22076630 original size:19 final size:20
Alignment explanation
Indices: 22076601--22076654 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
22076591 TTTTTTTCCT
22076601 TTTTTCTTTTTCTCTTT-TC-A
1 TTTTT-TTTTTCT-TTTGTCTA
*
22076621 TTTTTTTTTTGTTTTGTCTA
1 TTTTTTTTTTCTTTTGTCTA
*
22076641 TTTTTTTTTACTTT
1 TTTTTTTTTTCTTT
22076655 GTTGATGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.10
19 8 0.28
20 18 0.62
ACGTcount: A:0.06, C:0.11, G:0.04, T:0.80
Consensus pattern (20 bp):
TTTTTTTTTTCTTTTGTCTA
Found at i:22076722 original size:4 final size:4
Alignment explanation
Indices: 22076708--22076748 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
22076698 TATAAAACCA
*
22076708 AAAT AAAAT AAAT AAAT AAAT AAAT AAAT AATT ACAAT AAA
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAA
22076749 CACTTTTTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
4 26 0.79
5 7 0.21
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:22077120 original size:43 final size:43
Alignment explanation
Indices: 22077024--22077181 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 43
22077014 CTCATATAGT
* *
22077024 TAAGGCTTTGAAAATTTTTGAAAAAATAAAATTCTTTCCCACAAC
1 TAAGGCTTTG-AAACTTTTG-AAAAATAAAATACTTTCCCACAAC
* * * * *
22077069 TAAAGCTTTGAAACTTTTGGAAAATAAAATACTTTGCCATAAT
1 TAAGGCTTTGAAACTTTTGAAAAATAAAATACTTTCCCACAAC
* * * *
22077112 TGAGGCTTT-AGAACTTTTAAAAAAT-AAATGC-TCCCCACAAC
1 TAAGGCTTTGA-AACTTTTGAAAAATAAAATACTTTCCCACAAC
*
22077153 TAAGGCTTT-AGAAC-TTTGAAAAAAAAAAT
1 TAAGGCTTTGA-AACTTTTGAAAAATAAAAT
22077182 GAAATCATTC
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
40 8 0.09
41 23 0.25
42 6 0.07
43 38 0.41
44 8 0.09
45 9 0.10
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (43 bp):
TAAGGCTTTGAAACTTTTGAAAAATAAAATACTTTCCCACAAC
Found at i:22077971 original size:24 final size:24
Alignment explanation
Indices: 22077926--22077974 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
22077916 AATCATGTAT
*
22077926 TTTCTTAATCAAAATGGAGATAAA
1 TTTCTTAATCAAAATGAAGATAAA
22077950 TTTCTTAATCAAAAT-AATGATAAA
1 TTTCTTAATCAAAATGAA-GATAAA
22077974 T
1 T
22077975 AAGGCAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (24 bp):
TTTCTTAATCAAAATGAAGATAAA
Found at i:22083474 original size:21 final size:21
Alignment explanation
Indices: 22083450--22083497 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
22083440 TTTTTCTAAA
*
22083450 ATTTCATATCGATTTTGAGAG
1 ATTTCATACCGATTTTGAGAG
22083471 ATTTCATACCGATTTTGAGAG
1 ATTTCATACCGATTTTGAGAG
*
22083492 TTTTCA
1 ATTTCA
22083498 AAATCTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (21 bp):
ATTTCATACCGATTTTGAGAG
Found at i:22089489 original size:260 final size:260
Alignment explanation
Indices: 22089023--22089545 Score: 974
Period size: 260 Copynumber: 2.0 Consensus size: 260
22089013 AACACTTGGC
22089023 ATGTAGATCCATGGTCTTCTCAGTAGGCAGTTATAGGCTAGAGAGATGTTTATCATTTGAAATTT
1 ATGTAGATCCATGGTCTTCTCAGTAGGCAGTTATAGGCTAGAGAGATGTTTATCATTTGAAATTT
22089088 GATATTAAAGGTACAAAAACCAATCGATAATGGTATCTCAATGTCTCCCATCACTTCTTTTCATG
66 GATATTAAAGGTACAAAAACCAATCGATAATGGTATCTCAATGTCTCCCATCACTTCTTTTCATG
*
22089153 AACCATCAAAAGCCCTTACTACTATATGGCTAGCTCTCATATAAGATGTGTCGATTGAGAGCTTA
131 AACCATCAAAAGCCCTTACTACCATATGGCTAGCTCTCATATAAGATGTGTCGATTGAGAGCTTA
*
22089218 GCCAAAGTACTAGTAGGCATTACATTTATCAAAGAGCCATTATCAATCAAGATCTTAGTAATGGT
196 GCCAAAGTACTAGTAGGCATTACATTTATCAAAGAGCCATTATCAATCAAAATCTTAGTAATGGT
*
22089283 ATGTGGATCCATGGTCTTCTCAGTAGGCAGTTATAGGCTAGAGAGATGTTTATCATTTGAAATTT
1 ATGTAGATCCATGGTCTTCTCAGTAGGCAGTTATAGGCTAGAGAGATGTTTATCATTTGAAATTT
*
22089348 GATATTAAAGGTACAAAGACCAATCGATAATGGTATCTCAATGTCTCCCATCACTTCTTTTCATG
66 GATATTAAAGGTACAAAAACCAATCGATAATGGTATCTCAATGTCTCCCATCACTTCTTTTCATG
* * *
22089413 AACTATCAAAAGCCCTTACTACCATGTGGCTAGCTCTCATATAAGATGTGTCGATTGGGAGCTTA
131 AACCATCAAAAGCCCTTACTACCATATGGCTAGCTCTCATATAAGATGTGTCGATTGAGAGCTTA
*
22089478 GCCAAAGTACTAGTAGGCATTATATTTATCAAAGAGCCATTATCAATCAAAATCTTAGTAATGGT
196 GCCAAAGTACTAGTAGGCATTACATTTATCAAAGAGCCATTATCAATCAAAATCTTAGTAATGGT
22089543 ATG
1 ATG
22089546 ACTTTTGCAC
Statistics
Matches: 255, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
260 255 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (260 bp):
ATGTAGATCCATGGTCTTCTCAGTAGGCAGTTATAGGCTAGAGAGATGTTTATCATTTGAAATTT
GATATTAAAGGTACAAAAACCAATCGATAATGGTATCTCAATGTCTCCCATCACTTCTTTTCATG
AACCATCAAAAGCCCTTACTACCATATGGCTAGCTCTCATATAAGATGTGTCGATTGAGAGCTTA
GCCAAAGTACTAGTAGGCATTACATTTATCAAAGAGCCATTATCAATCAAAATCTTAGTAATGGT
Found at i:22091336 original size:184 final size:184
Alignment explanation
Indices: 22091007--22091359 Score: 523
Period size: 184 Copynumber: 1.9 Consensus size: 184
22090997 ATTAAGGGAT
* * *
22091007 CTTTTGAATTATGGCCCTTCACAAAATACAACCTGAACATCAGTCTTTTTCTTTCTGGGTGCAAC
1 CTTTTGAATTATGGCCCTTCACAAAATACAACCTGAACATAAGCCTCTTTCTTTCTGGGTGCAAC
* * * * *
22091072 TTCTTTATTTACATTAAACATTTCACCCCTTTCTAGTTTTCTCTTCTTAATAGCATTTTTAATGG
66 TCCTTTATTTACACTAAACATTTCACCCCTTTCTAGCTTTCTCTTCTTAATAGCATTTTCAATGA
22091137 TTTCTCTAGAGATTATCATATCAGCAAAATTCTTGGTGGCGTTATTGATTGTAC
131 TTTCTCTAGAGATTATCATATCAGCAAAATTCTTGGTGGCGTTATTGATTGTAC
* * *
22091191 CTTTTGAATTGTGGCCCTTCACAAAATATAACCT-AAGCATAAGCCTCTTTCTTTTTGGGTGCAA
1 CTTTTGAATTATGGCCCTTCACAAAATACAACCTGAA-CATAAGCCTCTTTCTTTCTGGGTGCAA
* *
22091255 CTCCTTTCTTTGCACTAAACATTTCACCCCTTTCTAGCTTTC-CATTCTTAATAGCATTTTCAAT
65 CTCCTTTATTTACACTAAACATTTCACCCCTTTCTAGCTTTCTC-TTCTTAATAGCATTTTCAAT
* *
22091319 GATTTCT-TCATAGATTATCATATCAGCAGAATTCTTGGTGG
129 GATTTCTCT-AGAGATTATCATATCAGCAAAATTCTTGGTGG
22091360 TGTTGCCAAT
Statistics
Matches: 151, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
183 4 0.03
184 147 0.97
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (184 bp):
CTTTTGAATTATGGCCCTTCACAAAATACAACCTGAACATAAGCCTCTTTCTTTCTGGGTGCAAC
TCCTTTATTTACACTAAACATTTCACCCCTTTCTAGCTTTCTCTTCTTAATAGCATTTTCAATGA
TTTCTCTAGAGATTATCATATCAGCAAAATTCTTGGTGGCGTTATTGATTGTAC
Found at i:22095630 original size:20 final size:20
Alignment explanation
Indices: 22095561--22095662 Score: 72
Period size: 20 Copynumber: 5.3 Consensus size: 20
22095551 CATGATAATT
22095561 TATTAATTATCATGC-AATA
1 TATTAATTATCATGCAAATA
** * *
22095580 -A-TAACAACCATGTAAATA
1 TATTAATTATCATGCAAATA
* *
22095598 TA-T-AGTATTATGCAAATA
1 TATTAATTATCATGCAAATA
22095616 TATTAATTATCATGC-AATAA
1 TATTAATTATCATGCAAAT-A
* * *
22095636 TATAAAATACCATGCAAATA
1 TATTAATTATCATGCAAATA
22095656 TATTAAT
1 TATTAAT
22095663 AACCATTCAT
Statistics
Matches: 61, Mismatches: 16, Indels: 11
0.69 0.18 0.12
Matches are distributed among these distances:
17 8 0.13
18 17 0.28
19 6 0.10
20 27 0.44
21 3 0.05
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (20 bp):
TATTAATTATCATGCAAATA
Found at i:22095859 original size:19 final size:20
Alignment explanation
Indices: 22095813--22095862 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
22095803 GCAATAACAT
*
22095813 ATAATAACATATCATGTAATA
1 ATAATAA-ATATCATGCAATA
22095834 A-ATATAAA-ATCATGCAATA
1 ATA-ATAAATATCATGCAATA
22095853 ATAATAAATA
1 ATAATAAATA
22095863 AATAAATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 16 0.64
20 4 0.16
21 5 0.20
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (20 bp):
ATAATAAATATCATGCAATA
Found at i:22095955 original size:21 final size:21
Alignment explanation
Indices: 22095926--22096183 Score: 291
Period size: 21 Copynumber: 12.5 Consensus size: 21
22095916 ATAAATTAAT
*
22095926 AATCATGCAATTAACAATGTA
1 AATCATGCAATTAACAATATA
* *
22095947 AAACATGCAATTAACAGTATA
1 AATCATGCAATTAACAATATA
*
22095968 AATCATGCAATTAACAGTATA
1 AATCATGCAATTAACAATATA
22095989 AATCATGCAATT-A-AATATA
1 AATCATGCAATTAACAATATA
* *
22096008 TAATTATGCAATTAACAGTATA
1 -AATCATGCAATTAACAATATA
22096030 AATCATGCAATT-A-AATAT-
1 AATCATGCAATTAACAATATA
* *
22096048 AATAATGTAATTAACAATATA
1 AATCATGCAATTAACAATATA
22096069 AATCATGCAATT-A-AATATA
1 AATCATGCAATTAACAATATA
22096088 TAATCATGCAATTAACAATATA
1 -AATCATGCAATTAACAATATA
*
22096110 AATCATGCACTT-A-AATATA
1 AATCATGCAATTAACAATATA
*
22096129 TAATCATGTAATTAACAATATA
1 -AATCATGCAATTAACAATATA
* * *
22096151 AATTATGCAAATAATAATATAGA
1 AATCATGCAATTAACAATAT--A
22096174 AATCATGCAA
1 AATCATGCAA
22096184 ATAAACATGC
Statistics
Matches: 202, Mismatches: 21, Indels: 26
0.81 0.08 0.10
Matches are distributed among these distances:
18 10 0.05
19 22 0.11
20 42 0.21
21 101 0.50
22 17 0.08
23 10 0.05
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (21 bp):
AATCATGCAATTAACAATATA
Found at i:22096028 original size:41 final size:41
Alignment explanation
Indices: 22095924--22096246 Score: 360
Period size: 41 Copynumber: 8.0 Consensus size: 41
22095914 AAATAAATTA
* *
22095924 ATAATCATGCAATTAACAATGTAAAACATGCAATTAACAGTAT
1 ATAATCATGCAATTAACAATATAAATCATGCAATTAA-A-TAT
*
22095967 A-AATCATGCAATTAACAGTATAAATCATGCAATTAAATAT
1 ATAATCATGCAATTAACAATATAAATCATGCAATTAAATAT
* *
22096007 ATAATTATGCAATTAACAGTATAAATCATGCAATT-AA-AT
1 ATAATCATGCAATTAACAATATAAATCATGCAATTAAATAT
* *
22096046 ATAATAATGTAATTAACAATATAAATCATGCAATTAAATAT
1 ATAATCATGCAATTAACAATATAAATCATGCAATTAAATAT
*
22096087 ATAATCATGCAATTAACAATATAAATCATGCACTTAAATAT
1 ATAATCATGCAATTAACAATATAAATCATGCAATTAAATAT
* * *
22096128 ATAATCATGTAATTAACAATATAAATTATGCAAAT-AATA-
1 ATAATCATGCAATTAACAATATAAATCATGCAATTAAATAT
* * *
22096167 AT-AT-A-GAAATCATGCAA-ATAAA-CATGCAATTAAATAT
1 ATAATCATGCAATTA-ACAATATAAATCATGCAATTAAATAT
* * * * *
22096204 ATAGTCATGCAAATAAAAATATATAAACTATGCAAATAAATAT
1 ATAATCATGCAATTAACAATATA-AATC-ATGCAATTAAATAT
22096247 GTGATCATAT
Statistics
Matches: 241, Mismatches: 26, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
35 7 0.03
36 14 0.06
37 6 0.02
38 3 0.01
39 39 0.16
40 19 0.08
41 106 0.44
42 33 0.14
43 14 0.06
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.31
Consensus pattern (41 bp):
ATAATCATGCAATTAACAATATAAATCATGCAATTAAATAT
Found at i:22096087 original size:80 final size:81
Alignment explanation
Indices: 22095924--22096183 Score: 351
Period size: 80 Copynumber: 3.1 Consensus size: 81
22095914 AAATAAATTA
* * * *
22095924 ATAATCATGCAATTAACAATGTAAAACATGCAATTAACAGTATAAATCATGCAATTAACAGTATA
1 ATAATCATGCAATTAACAATATAAATCATGCAATTAACA-TAT-AATCATGTAATTAACAATATA
22095989 AATCATGCAATTAAATAT
64 AATCATGCAATTAAATAT
* * *
22096007 ATAATTATGCAATTAACAGTATAAATCATGCAATTAA-ATATAATAATGTAATTAACAATATAAA
1 ATAATCATGCAATTAACAATATAAATCATGCAATTAACATATAATCATGTAATTAACAATATAAA
22096071 TCATGCAATTAAATAT
66 TCATGCAATTAAATAT
* *
22096087 ATAATCATGCAATTAACAATATAAATCATGCACTTAAATATATAATCATGTAATTAACAATATAA
1 ATAATCATGCAATTAACAATATAAATCATGCAATT-AACATATAATCATGTAATTAACAATATAA
* *
22096152 ATTATGCAAATAATAATAT
65 ATCATGC-AATTA-AATAT
*
22096171 AGAAATCATGCAA
1 A-TAATCATGCAA
22096184 ATAAACATGC
Statistics
Matches: 158, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
80 68 0.43
81 5 0.03
82 32 0.20
83 37 0.23
84 6 0.04
85 10 0.06
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (81 bp):
ATAATCATGCAATTAACAATATAAATCATGCAATTAACATATAATCATGTAATTAACAATATAAA
TCATGCAATTAAATAT
Found at i:22096214 original size:20 final size:20
Alignment explanation
Indices: 22096189--22096226 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22096179 TGCAAATAAA
* *
22096189 CATGCAATTAAATATATAGT
1 CATGCAAATAAAAATATAGT
22096209 CATGCAAATAAAAATATA
1 CATGCAAATAAAAATATA
22096227 TAAACTATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (20 bp):
CATGCAAATAAAAATATAGT
Found at i:22096246 original size:76 final size:75
Alignment explanation
Indices: 22096102--22096280 Score: 191
Period size: 76 Copynumber: 2.3 Consensus size: 75
22096092 CATGCAATTA
* * * * *
22096102 ACAATATAAATCATGCACTTAAATATATAATCATGTAATTAACAATATAAATTATGCAAATAATA
1 ACAA-ATAAA-CATGCAATTAAATATATAATCATGAAATAAAAAATATAAACTATGCAAATAATA
22096167 ATATAGAAATCAT
64 ATAT-GAAATCAT
* *
22096180 GCAAATAAACATGCAATTAAATATATAGTCATGCAAATAAAAATATATAAACTATGCAAAT-A-A
1 ACAAATAAACATGCAATTAAATATATAATCATG-AAATAAAAA-ATATAAACTATGCAAATAATA
**
22096243 ATATGTGATCAT
64 ATATGAAATCAT
* *
22096255 ATAAATAAACATGCAAAATAAATATA
1 ACAAATAAACATGC-AATTAAATATA
22096281 AAAATCAAAC
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
75 18 0.21
76 37 0.43
77 12 0.14
78 19 0.22
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (75 bp):
ACAAATAAACATGCAATTAAATATATAATCATGAAATAAAAAATATAAACTATGCAAATAATAAT
ATGAAATCAT
Found at i:22096268 original size:55 final size:55
Alignment explanation
Indices: 22096155--22096287 Score: 135
Period size: 55 Copynumber: 2.4 Consensus size: 55
22096145 AATATAAATT
* * * **
22096155 ATGCAAATAATAATATAGAAATCATGCAAATAAACATGCAATTAAATATATAGTC
1 ATGCAAATAAAAATATAGAAATCATGCAAATAAACATGCAATCAAATAAATAAAC
* * ** *
22096210 ATGCAAATAAAAATATATAAA-CTATGCAAATAAATATGTGATCATATAAATAAAC
1 ATGCAAATAAAAATATAGAAATC-ATGCAAATAAACATGCAATCAAATAAATAAAC
* *
22096265 ATGCAAA-ATAAATATAAAAATCA
1 ATGCAAATAAAAATATAGAAATCA
22096288 AACGGTTTTC
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
54 13 0.20
55 51 0.80
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (55 bp):
ATGCAAATAAAAATATAGAAATCATGCAAATAAACATGCAATCAAATAAATAAAC
Found at i:22097409 original size:4 final size:4
Alignment explanation
Indices: 22097400--22097441 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
22097390 TCCAAATTAA
*
22097400 AAAT AAAT AAAT AAAAT AAGAT AGAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT -AAAT AA-AT AAAT AAAT AAAT AAAT AAAT
22097442 GATCAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 27 0.79
5 7 0.21
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:22100511 original size:3 final size:3
Alignment explanation
Indices: 22100505--22100559 Score: 87
Period size: 3 Copynumber: 19.0 Consensus size: 3
22100495 TTATTACTAG
*
22100505 TAA TAA T-A TAA -AA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22100551 TAA TAA TAA
1 TAA TAA TAA
22100560 CATCATAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 4 0.08
3 44 0.92
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:22101417 original size:3 final size:3
Alignment explanation
Indices: 22101409--22101462 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
22101399 TTTTAAAGAT
* *
22101409 TAA TAA TAA TAA TAA TATA TAA TAA TAA TAA -ACA AAA TTA T-A TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA TAA
22101454 TAA TAA TAA
1 TAA TAA TAA
22101463 AAAAAACAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
2 3 0.07
3 38 0.84
4 4 0.09
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:22101454 original size:23 final size:23
Alignment explanation
Indices: 22101409--22101468 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
22101399 TTTTAAAGAT
* *
22101409 TAATAATAATAATAA-TATATAA
1 TAATAATAAAAAAAATTATATAA
*
22101431 TAATAATAAACAAAATTATATAA
1 TAATAATAAAAAAAATTATATAA
22101454 TAATAATAAAAAAAA
1 TAATAATAAAAAAAA
22101469 CAAAATTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 12 0.36
23 21 0.64
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
TAATAATAAAAAAAATTATATAA
Found at i:22101475 original size:28 final size:30
Alignment explanation
Indices: 22101420--22101475 Score: 89
Period size: 28 Copynumber: 1.9 Consensus size: 30
22101410 AATAATAATA
*
22101420 ATAATATATAATAATAATAAACAAAATTAT
1 ATAATATATAATAATAAAAAACAAAATTAT
22101450 ATAATA-ATAATAA-AAAAAACAAAATT
1 ATAATATATAATAATAAAAAACAAAATT
22101476 GATGCCTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 12 0.48
29 7 0.28
30 6 0.24
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (30 bp):
ATAATATATAATAATAAAAAACAAAATTAT
Found at i:22101821 original size:117 final size:117
Alignment explanation
Indices: 22101615--22102075 Score: 560
Period size: 117 Copynumber: 4.0 Consensus size: 117
22101605 AGAAAATTTG
* * * * ** *
22101615 AAAAGCTCCTCTAAACAGAGGCTAAAAAACTTTAAAT-TCAAAAAACTCCTCTCACCAAAGGCAA
1 AAAAGCTCCTTTAACCAAAGGC-AACAAACTTTAAATGTCAAAAGGCTCCTCTCACCAGAGGCAA
** * *
22101679 TGAACTTTAAATTCAAAAGCTCTTTTAACCAAAGGCAATAAACTTTAAATGT-T
65 CAAACTTTAAATTCAAAAGCTCTTTTAACCAAAGGCAACAAACTTTAAAT-TCC
* * * *
22101732 AAAAGGCTCCTATCATCAGAGGCAACAAACTTTAAAT-TCAAAAGGCTCCTCTCACCAGAGGCAA
1 AAAA-GCTCCTTTAACCAAAGGCAACAAACTTTAAATGTCAAAAGGCTCCTCTCACCAGAGGCAA
* *
22101796 CAAGCTTTAAATACAAAAGCTCTTTTAACCAAAGGCAACAAACTTTAAATTCC
65 CAAACTTTAAATTCAAAAGCTCTTTTAACCAAAGGCAACAAACTTTAAATTCC
* * * *
22101849 AAAAGCTCCTTTAACCAAAGGTAACAAAGTTTAAATGTTAAAAGGCTCCTCTCATCAGAGGCAAC
1 AAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATGTCAAAAGGCTCCTCTCACCAGAGGCAAC
*
22101914 AAACTTTAAATTCAAAAACTCTTTTAACCAAAGGCAACAAACTTTAAATTCC
66 AAACTTTAAATTCAAAAGCTCTTTTAACCAAAGGCAACAAACTTTAAATTCC
* * * *** *
22101966 AAAAGCTCTTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAGGTTTAGCTGACCAGAGGCAAC
1 AAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATGTCAAAAGGCTCCTCTCACCAGAGGCAAC
* *
22102031 AAACTTTAAA-T----GGCTCATTTAACCAAAGGCAACAAACTTTAAATT
66 AAACTTTAAATTCAAAAGCTCTTTTAACCAAAGGCAACAAACTTTAAATT
22102076 AAAGATTTGA
Statistics
Matches: 305, Mismatches: 36, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
112 31 0.10
116 28 0.09
117 231 0.76
118 15 0.05
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (117 bp):
AAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATGTCAAAAGGCTCCTCTCACCAGAGGCAAC
AAACTTTAAATTCAAAAGCTCTTTTAACCAAAGGCAACAAACTTTAAATTCC
Found at i:22101862 original size:156 final size:154
Alignment explanation
Indices: 22101615--22102001 Score: 540
Period size: 156 Copynumber: 2.5 Consensus size: 154
22101605 AGAAAATTTG
* * * * * * * *
22101615 AAAAGCTCCTCTAAACAGAGGCTAAAAAACTTTAAATTCAAAAAACTCCTCTCACCAAAGGCAAT
1 AAAAGCTCCTCTAACCAGAGGC-AACAAACTTTAAATAC-AAAAGCTCTTTTAACCAAAGGCAAC
* * *
22101680 GAACTTTAAATTCAAAAGCTCTTTTAACCAAAGGCAATAAACTTTAAATGTTAAAAGGCTCCTAT
64 AAACTTTAAATTCAAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAGGCTCCTAT
22101745 CATCAGAGGCAACAAACTTTAAATTC
129 CATCAGAGGCAACAAACTTTAAATTC
* *
22101771 AAAAGGCTCCTCTCACCAGAGGCAACAAGCTTTAAATACAAAAGCTCTTTTAACCAAAGGCAACA
1 AAAA-GCTCCTCTAACCAGAGGCAACAAACTTTAAATACAAAAGCTCTTTTAACCAAAGGCAACA
* * *
22101836 AACTTTAAATTCCAAAAGCTCCTTTAACCAAAGGTAACAAAGTTTAAATGTTAAAAGGCTCCTCT
65 AACTTTAAATT-CAAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAGGCTCCTAT
22101901 CATCAGAGGCAACAAACTTTAAATTC
129 CATCAGAGGCAACAAACTTTAAATTC
* * * * *
22101927 AAAAACTCTTTTAACCAAAGGCAACAAACTTTAAATTCCAAAAGCTCTTTTAACCAAAGGCAACA
1 AAAAGCTCCTCTAACCAGAGGCAACAAACTTTAAA-TACAAAAGCTCTTTTAACCAAAGGCAACA
22101992 AACTTTAAAT
65 AACTTTAAAT
22102002 GTTAAAAGGT
Statistics
Matches: 205, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
155 56 0.27
156 133 0.65
157 16 0.08
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (154 bp):
AAAAGCTCCTCTAACCAGAGGCAACAAACTTTAAATACAAAAGCTCTTTTAACCAAAGGCAACAA
ACTTTAAATTCAAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAGGCTCCTATCA
TCAGAGGCAACAAACTTTAAATTC
Found at i:22102009 original size:39 final size:38
Alignment explanation
Indices: 22101641--22102075 Score: 405
Period size: 39 Copynumber: 11.3 Consensus size: 38
22101631 AGAGGCTAAA
* * * * *
22101641 AAACTTTAAATTCAAAAAACTCCTCTCACCAAAGGCAAT
1 AAACTTTAAATTC-AAAAGCTCTTTTAACCAAAGGCAAC
* *
22101680 GAACTTTAAATTCAAAAGCTCTTTTAACCAAAGGCAAT
1 AAACTTTAAATTCAAAAGCTCTTTTAACCAAAGGCAAC
* * * * * *
22101718 AAACTTTAAATGTTAAAAGGCTCCTATCATCAGAGGCAAC
1 AAACTTTAAAT-TCAAAA-GCTCTTTTAACCAAAGGCAAC
* * * *
22101758 AAACTTTAAATTCAAAAGGCTCCTCTCACCAGAGGCAAC
1 AAACTTTAAATTCAAAA-GCTCTTTTAACCAAAGGCAAC
* *
22101797 AAGCTTTAAATACAAAAGCTCTTTTAACCAAAGGCAAC
1 AAACTTTAAATTCAAAAGCTCTTTTAACCAAAGGCAAC
* *
22101835 AAACTTTAAATTCCAAAAGCTCCTTTAACCAAAGGTAAC
1 AAACTTTAAATT-CAAAAGCTCTTTTAACCAAAGGCAAC
* * * * * * *
22101874 AAAGTTTAAATGTTAAAAGGCTCCTCTCATCAGAGGCAAC
1 AAACTTTAAAT-TCAAAA-GCTCTTTTAACCAAAGGCAAC
*
22101914 AAACTTTAAATTCAAAAACTCTTTTAACCAAAGGCAAC
1 AAACTTTAAATTCAAAAGCTCTTTTAACCAAAGGCAAC
22101952 AAACTTTAAATTCCAAAAGCTCTTTTAACCAAAGGCAAC
1 AAACTTTAAATT-CAAAAGCTCTTTTAACCAAAGGCAAC
* * * * *
22101991 AAACTTTAAATGTTAAAAGGT-TTAGCTGACCAGAGGCAAC
1 AAACTTTAAAT-TCAAAAGCTCTT--TTAACCAAAGGCAAC
* *
22102031 AAACTTTAAA-T----GGCTCATTTAACCAAAGGCAAC
1 AAACTTTAAATTCAAAAGCTCTTTTAACCAAAGGCAAC
22102064 AAACTTTAAATT
1 AAACTTTAAATT
22102076 AAAGATTTGA
Statistics
Matches: 332, Mismatches: 53, Indels: 27
0.81 0.13 0.07
Matches are distributed among these distances:
33 22 0.07
34 3 0.01
35 1 0.00
38 88 0.27
39 142 0.43
40 76 0.23
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (38 bp):
AAACTTTAAATTCAAAAGCTCTTTTAACCAAAGGCAAC
Found at i:22114675 original size:3 final size:3
Alignment explanation
Indices: 22114669--22114720 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
22114659 TTATTACCAG
22114669 TAA TAA T-A TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22114715 TAA TAA
1 TAA TAA
22114721 CATAAAAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.09
3 43 0.91
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:22123822 original size:22 final size:22
Alignment explanation
Indices: 22123797--22123841 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22123787 CATTGGGAAC
22123797 TGCAAAATCCCTCAAAGTTCTT
1 TGCAAAATCCCTCAAAGTTCTT
22123819 TGCAAAATCCCTCAAAGTTCTT
1 TGCAAAATCCCTCAAAGTTCTT
22123841 T
1 T
22123842 TTCTTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (22 bp):
TGCAAAATCCCTCAAAGTTCTT
Found at i:22125668 original size:3 final size:3
Alignment explanation
Indices: 22125662--22125800 Score: 79
Period size: 3 Copynumber: 44.3 Consensus size: 3
22125652 TATACTATAG
*
22125662 TAT TAT TAT ATAT TA- TAT TAT ATAC TA- TAGT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT
* *
22125708 ATAT TAT ATAT TA- TAT TAT ATAC TA- TAGT TAT TAT TAC TAT TAT TAT
1 -TAT TAT -TAT TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* ** * * *
22125755 ATAT TATT TAT TAT ATAC TAT GGT TAT TAT TAC CAC TAT TAT TAT T
1 -TAT TA-T TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
22125801 TATTTATTTA
Statistics
Matches: 108, Mismatches: 14, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
2 8 0.07
3 75 0.69
4 25 0.23
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:22125677 original size:7 final size:7
Alignment explanation
Indices: 22125665--22125771 Score: 94
Period size: 7 Copynumber: 14.3 Consensus size: 7
22125655 ACTATAGTAT
22125665 TATTATA
1 TATTATA
22125672 TATTATA
1 TATTATA
22125679 TTATATACTA
1 -TAT-TA-TA
22125689 TAGTTAT-
1 TA-TTATA
22125696 TATTAT-
1 TATTATA
22125702 TATTATA
1 TATTATA
22125709 TATTATA
1 TATTATA
22125716 TATTATA
1 TATTATA
22125723 TTATATACTA
1 -TAT-TA-TA
22125733 TAGTTAT-
1 TA-TTATA
22125740 TATTACTA
1 TATTA-TA
22125748 TTATTATA
1 -TATTATA
*
22125756 TATTATT
1 TATTATA
22125763 TATTATA
1 TATTATA
22125770 TA
1 TA
22125772 CTATGGTTAT
Statistics
Matches: 86, Mismatches: 2, Indels: 24
0.77 0.02 0.21
Matches are distributed among these distances:
6 13 0.15
7 40 0.47
8 10 0.12
9 17 0.20
10 6 0.07
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (7 bp):
TATTATA
Found at i:22125682 original size:12 final size:11
Alignment explanation
Indices: 22125642--22125770 Score: 97
Period size: 12 Copynumber: 11.4 Consensus size: 11
22125632 TTAGCTGGGG
*
22125642 ATATTATTACT
1 ATATTATTATT
* *
22125653 ATACTA-TAGT
1 ATATTATTATT
22125663 ATTATTATATATT
1 A-TATTAT-TATT
*
22125676 ATATTATATACT
1 ATATTAT-TATT
22125688 ATAGTTATTA-T
1 ATA-TTATTATT
22125699 -TATTATTA-T
1 ATATTATTATT
22125708 ATATTATATATT
1 ATATTAT-TATT
*
22125720 ATATTATATACT
1 ATATTAT-TATT
22125732 ATAGTTATTATT
1 ATA-TTATTATT
22125744 ACTATTATTA-T
1 A-TATTATTATT
22125755 ATATTATTTATT
1 ATATTA-TTATT
22125767 ATAT
1 ATAT
22125771 ACTATGGTTA
Statistics
Matches: 100, Mismatches: 7, Indels: 21
0.78 0.05 0.16
Matches are distributed among these distances:
9 7 0.07
10 17 0.17
11 17 0.17
12 45 0.45
13 14 0.14
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (11 bp):
ATATTATTATT
Found at i:22125714 original size:47 final size:45
Alignment explanation
Indices: 22125657--22125786 Score: 182
Period size: 44 Copynumber: 3.0 Consensus size: 45
22125647 ATTACTATAC
22125657 TATAGTAT-TATTATATATTATATTATATACTATAGTTATTATTAT
1 TATA-TATATATTATATATTATATTATATACTATAGTTATTATTAT
*
22125702 TAT-TATATATTATATATTATATTATATACTATAGTTATTATTAC
1 TATATATATATTATATATTATATTATATACTATAGTTATTATTAT
*
22125746 TAT-TAT-TA-TATATTATT-TATTATATACTATGGTTATTATTA
1 TATATATATATTATA-TATTATATTATATACTATAGTTATTATTA
22125787 CCACTATTAT
Statistics
Matches: 81, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
42 27 0.33
43 9 0.11
44 42 0.52
45 3 0.04
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (45 bp):
TATATATATATTATATATTATATTATATACTATAGTTATTATTAT
Found at i:22125720 original size:44 final size:43
Alignment explanation
Indices: 22125662--22125808 Score: 210
Period size: 42 Copynumber: 3.4 Consensus size: 43
22125652 TATACTATAG
*
22125662 TATTATTATATATTATATTATATACTATAGTTATTATTATTAT
1 TATTATTATATATTATATTATATACTATAGTTATTATTACTAT
22125705 TATATATTATATATTATATTATATACTATAGTTATTATTACTAT
1 TAT-TATTATATATTATATTATATACTATAGTTATTATTACTAT
* * *
22125749 TATTA-TATATTATT-TATTATATACTATGGTTATTATTACCAC
1 TATTATTATA-TATTATATTATATACTATAGTTATTATTACTAT
*
22125791 TATTATTATTTATT-TATT
1 TATTATTATATATTATATT
22125809 TATTTATGTT
Statistics
Matches: 96, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
42 42 0.44
43 12 0.12
44 42 0.44
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (43 bp):
TATTATTATATATTATATTATATACTATAGTTATTATTACTAT
Found at i:22125784 original size:16 final size:14
Alignment explanation
Indices: 22125645--22125775 Score: 94
Period size: 15 Copynumber: 9.0 Consensus size: 14
22125635 GCTGGGGATA
22125645 TTATTACTATACTAT
1 TTATTA-TATACTAT
*
22125660 AGTATTATTATA-TAT
1 -TTATTA-TATACTAT
22125675 TATATTATATACTAT
1 T-TATTATATACTAT
*
22125690 AGTTATTAT-TATTA-
1 --TTATTATATACTAT
22125704 TTATATATTATA-TAT
1 TTAT-TA-TATACTAT
22125719 TATATTATATACTAT
1 T-TATTATATACTAT
22125734 AGTTATTAT-TACTA-
1 --TTATTATATACTAT
*
22125748 TTATTATATATTAT
1 TTATTATATACTAT
22125762 TTATTATATACTAT
1 TTATTATATACTAT
22125776 GGTTATTATT
Statistics
Matches: 95, Mismatches: 6, Indels: 30
0.73 0.05 0.23
Matches are distributed among these distances:
12 11 0.12
13 6 0.06
14 24 0.25
15 28 0.29
16 24 0.25
17 2 0.02
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (14 bp):
TTATTATATACTAT
Done.