Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 25 of 172
Found at i:7830073 original size:51 final size:51
Alignment explanation
Indices: 7830014--7830121 Score: 162
Period size: 51 Copynumber: 2.1 Consensus size: 51
7830004 ATATATTCTA
* * *
7830014 TGTAAATATTGTAAGCTAAATTTGTTAAATTAAGACTAAATTGACAGAATG
1 TGTAAATATTGTAAGCTAAATTTATTAAATTAAGACCAAATTAACAGAATG
* * *
7830065 TGTAAATATTGTAGGTTAAATTTATTAAATTAAGACCAAATTAATAGAATG
1 TGTAAATATTGTAAGCTAAATTTATTAAATTAAGACCAAATTAACAGAATG
7830116 TGTAAA
1 TGTAAA
7830122 CTTTAAGGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (51 bp):
TGTAAATATTGTAAGCTAAATTTATTAAATTAAGACCAAATTAACAGAATG
Found at i:7831561 original size:8 final size:9
Alignment explanation
Indices: 7831540--7831616 Score: 52
Period size: 8 Copynumber: 8.2 Consensus size: 9
7831530 CATTTTAGAC
7831540 AATATTTAA
1 AATATTTAA
7831549 AATATTT-A
1 AATATTTAA
7831557 AATATTTTAGTA
1 AATA-TTTA--A
*
7831569 AATTATTTAT
1 AA-TATTTAA
7831579 AA-ATTTAA
1 AATATTTAA
*
7831587 TAATATATAA
1 -AATATTTAA
*
7831597 CATATTTTAA
1 AATA-TTTAA
7831607 AAT-TTTAA
1 AATATTTAA
7831615 AA
1 AA
7831617 ATAATAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
8 17 0.31
9 15 0.28
10 13 0.24
12 7 0.13
13 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (9 bp):
AATATTTAA
Found at i:7831644 original size:11 final size:10
Alignment explanation
Indices: 7831615--7831702 Score: 54
Period size: 11 Copynumber: 8.3 Consensus size: 10
7831605 AAAATTTTAA
7831615 AAATAATAAT
1 AAATAATAAT
* *
7831625 AAATTATATTT
1 AAATAATA-AT
7831636 AAATAAT-AT
1 AAATAATAAT
7831645 AATATAATAAT
1 AA-ATAATAAT
* *
7831656 ACATGAATATTT
1 AAAT-AATA-AT
7831668 AAATAAT-AT
1 AAATAATAAT
*
7831677 AATATAATGAT
1 AA-ATAATAAT
7831688 AAAATAATACAT
1 -AAATAATA-AT
7831700 AAA
1 AAA
7831703 ATATAATTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
9 6 0.10
10 19 0.32
11 27 0.45
12 8 0.13
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
AAATAATAAT
Found at i:7831666 original size:32 final size:31
Alignment explanation
Indices: 7831617--7831696 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 31
7831607 AATTTTAAAA
*
7831617 ATAATAATAAATTATATTTAAATAATATAAT
1 ATAATAATAAATAATATTTAAATAATATAAT
*
7831648 ATAATAATACATGAATATTTAAATAATATAAT
1 ATAATAATAAAT-AATATTTAAATAATATAAT
*
7831680 ATAATGATAAAATAATA
1 ATAATAAT-AAATAATA
7831697 CATAAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 11 0.26
32 29 0.67
33 3 0.07
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.38
Consensus pattern (31 bp):
ATAATAATAAATAATATTTAAATAATATAAT
Found at i:7831942 original size:21 final size:21
Alignment explanation
Indices: 7831916--7831988 Score: 130
Period size: 21 Copynumber: 3.5 Consensus size: 21
7831906 ATAAATAAAT
7831916 ATTAAAAATTGA-AATTTTTAG
1 ATTAAAAATT-ACAATTTTTAG
7831937 ATTAAAAATTACAATTTTTAG
1 ATTAAAAATTACAATTTTTAG
7831958 ATTAAAAATTACAATTTTTAG
1 ATTAAAAATTACAATTTTTAG
7831979 ATTAAAAATT
1 ATTAAAAATT
7831989 CAAAAAATAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 1 0.02
21 50 0.98
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTAAAAATTACAATTTTTAG
Found at i:7832285 original size:19 final size:18
Alignment explanation
Indices: 7832251--7832323 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 18
7832241 AGAAAAATGG
7832251 AAAATATTAA-ATTTAATA
1 AAAATATTAATA-TTAATA
7832269 GAAAATATTAATATTAATA
1 -AAAATATTAATATTAATA
**
7832288 TTAATATTAATATTAATTA
1 AAAATATTAATATTAA-TA
7832307 AAAATAATT-ATATTAAT
1 AAAAT-ATTAATATTAAT
7832324 TTTAATAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
18 15 0.32
19 28 0.60
20 4 0.09
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (18 bp):
AAAATATTAATATTAATA
Found at i:7832304 original size:6 final size:6
Alignment explanation
Indices: 7832272--7832304 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
7832262 TTTAATAGAA
7832272 AATATT AATATT AATATT AATATT AATATT AAT
1 AATATT AATATT AATATT AATATT AATATT AAT
7832305 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATATT
Found at i:7832304 original size:37 final size:37
Alignment explanation
Indices: 7832253--7832330 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 37
7832243 AAAAATGGAA
7832253 AATATTAAATTTAA-TAGAAAAT-ATTAATATTAATATT
1 AATATTAAATTTAATTA-AAAATAATT-ATATTAATATT
*
7832290 AATATT-AATATTAATTAAAAATAATTATATTAATTTT
1 AATATTAAAT-TTAATTAAAAATAATTATATTAATATT
7832327 AATA
1 AATA
7832331 AAATATTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
36 3 0.08
37 29 0.78
38 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (37 bp):
AATATTAAATTTAATTAAAAATAATTATATTAATATT
Found at i:7832312 original size:25 final size:22
Alignment explanation
Indices: 7832272--7832337 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 22
7832262 TTTAATAGAA
*
7832272 AATATTAATATTAATATTAATATT
1 AATATTAATA-AAATATT-ATATT
7832296 AATATTAATTAAAAATAATTATATT
1 AATATTAA-T-AAAAT-ATTATATT
*
7832321 AATTTTAATAAAATATT
1 AATATTAATAAAATATT
7832338 TTCCTCTCGG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 3 0.08
23 5 0.14
24 9 0.24
25 16 0.43
26 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATTAATAAAATATTATATT
Found at i:7833866 original size:15 final size:15
Alignment explanation
Indices: 7833846--7833876 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7833836 GAATACTTAG
7833846 TAAGCTCATATAAAC
1 TAAGCTCATATAAAC
*
7833861 TAAGCTCGTATAAAC
1 TAAGCTCATATAAAC
7833876 T
1 T
7833877 TTAATCATAA
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:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (15 bp):
TAAGCTCATATAAAC
Found at i:7850366 original size:3 final size:3
Alignment explanation
Indices: 7850358--7850409 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
7850348 GAGGAAGAAT
* * * *
7850358 AGG AGG AGG AAG AGG AGA AGG AGG AGG AGA AGG AGG AGG AGG AGG AAG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
7850406 AGG A
1 AGG A
7850410 AGAAGAAGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:7850372 original size:9 final size:9
Alignment explanation
Indices: 7850360--7850415 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
7850350 GGAAGAATAG
7850360 GAGGAGGAA
1 GAGGAGGAA
7850369 GAGGA-GAA
1 GAGGAGGAA
7850377 GGAGGAGG-A
1 -GAGGAGGAA
*
7850386 GAAGGAGGAG
1 G-AGGAGGAA
7850396 GAGGAGGAA
1 GAGGAGGAA
*
7850405 GAGGAAGAA
1 GAGGAGGAA
7850414 GA
1 GA
7850416 AGAAGAAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 4 0.10
9 34 0.85
10 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (9 bp):
GAGGAGGAA
Found at i:7850373 original size:12 final size:12
Alignment explanation
Indices: 7850348--7850409 Score: 70
Period size: 12 Copynumber: 5.2 Consensus size: 12
7850338 GGGAGCAAAT
* *
7850348 GAGGAAGAATAG
1 GAGGAGGAAGAG
7850360 GAGGAGGAAGAG
1 GAGGAGGAAGAG
* *
7850372 GAGAAGGAGGAG
1 GAGGAGGAAGAG
* *
7850384 GAGAAGGAGGAG
1 GAGGAGGAAGAG
7850396 GAGGAGGAAGAG
1 GAGGAGGAAGAG
7850408 GA
1 GA
7850410 AGAAGAAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 44 1.00
ACGTcount: A:0.44, C:0.00, G:0.55, T:0.02
Consensus pattern (12 bp):
GAGGAGGAAGAG
Found at i:7854173 original size:10 final size:10
Alignment explanation
Indices: 7854158--7854212 Score: 53
Period size: 10 Copynumber: 5.8 Consensus size: 10
7854148 TTGTATCTTG
*
7854158 TTATATTATA
1 TTATATGATA
7854168 TTATAT-ATA
1 TTATATGATA
7854177 -TATAT-ATA
1 TTATATGATA
*
7854185 TGATATGATA
1 TTATATGATA
*
7854195 TGATATGATA
1 TTATATGATA
*
7854205 TAATATGA
1 TTATATGA
7854213 AGCGATGGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
8 8 0.20
9 7 0.17
10 26 0.63
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (10 bp):
TTATATGATA
Found at i:7854211 original size:15 final size:14
Alignment explanation
Indices: 7854164--7854212 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
7854154 CTTGTTATAT
*
7854164 TATATTATAT-ATA
1 TATATGATATGATA
7854177 TATAT-ATATGATA
1 TATATGATATGATA
7854190 TGATATGATATGATA
1 T-ATATGATATGATA
7854205 TAATATGA
1 T-ATATGA
7854213 AGCGATGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 4 0.12
13 9 0.28
14 4 0.12
15 15 0.47
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (14 bp):
TATATGATATGATA
Found at i:7868395 original size:28 final size:28
Alignment explanation
Indices: 7868355--7868410 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
7868345 TTAGGGATAG
*
7868355 TGTCGAGCTTCCATATAGCTTTCCAAAA
1 TGTCAAGCTTCCATATAGCTTTCCAAAA
7868383 TGTCAAGCTTCCATATAGCTTTCCAAAA
1 TGTCAAGCTTCCATATAGCTTTCCAAAA
7868411 GAACCTATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (28 bp):
TGTCAAGCTTCCATATAGCTTTCCAAAA
Found at i:7871875 original size:34 final size:34
Alignment explanation
Indices: 7871832--7871928 Score: 142
Period size: 34 Copynumber: 2.9 Consensus size: 34
7871822 ACCGATATAA
*
7871832 AGCATTTGGTGTGCTGGATGGATTTGCTCTT-ACG
1 AGCATTTGGTGTGCTGGATGGATTGGCTCTTGA-G
7871866 AGCATTTGGTGTGCTGGATGGATTGGCTCTTGAG
1 AGCATTTGGTGTGCTGGATGGATTGGCTCTTGAG
* * *
7871900 AGCATTTGGTGTACTGGTTGGAATGGCTC
1 AGCATTTGGTGTGCTGGATGGATTGGCTC
7871929 ACTTGAGCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
34 57 0.98
35 1 0.02
ACGTcount: A:0.15, C:0.13, G:0.35, T:0.36
Consensus pattern (34 bp):
AGCATTTGGTGTGCTGGATGGATTGGCTCTTGAG
Found at i:7875085 original size:30 final size:30
Alignment explanation
Indices: 7875051--7875109 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
7875041 ACTTAACAAG
7875051 CAAATGCCTCT-AAAATAA-AAACAAAATTAA
1 CAAATGCCT-TAAAAATAATAAA-AAAATTAA
7875081 CAAATGCCTTAAAAATAATAAAAAAATTA
1 CAAATGCCTTAAAAATAATAAAAAAATTA
7875110 GCAATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 1 0.04
30 23 0.85
31 3 0.11
ACGTcount: A:0.61, C:0.14, G:0.03, T:0.22
Consensus pattern (30 bp):
CAAATGCCTTAAAAATAATAAAAAAATTAA
Found at i:7875854 original size:6 final size:6
Alignment explanation
Indices: 7875843--7875885 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
7875833 AAGAGTTTTC
* *
7875843 TTTCTT TTTCTT TTT-TT TTTCTT TTT-TT TTTATT TTTATT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
7875886 GAAATGTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.29
6 25 0.71
ACGTcount: A:0.05, C:0.07, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTCTT
Found at i:7875863 original size:17 final size:16
Alignment explanation
Indices: 7875838--7875885 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
7875828 AGTACAAGAG
*
7875838 TTTTCTTTCTTTTTCTT
1 TTTTTTTTCTTTTT-TT
7875855 TTTTTTTTCTTTTTTT
1 TTTTTTTTCTTTTTTT
*
7875871 TTTATTTTTATTTTT
1 TTT-TTTTTCTTTTT
7875886 GAAATGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.18
17 23 0.82
ACGTcount: A:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTTCTTTTTTT
Found at i:7875868 original size:12 final size:11
Alignment explanation
Indices: 7875838--7875885 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
7875828 AGTACAAGAG
*
7875838 TTTTC-TTTCT
1 TTTTCTTTTTT
7875848 TTTTCTTTTTT
1 TTTTCTTTTTT
7875859 TTTTCTTTTTT
1 TTTTCTTTTTT
*
7875870 TTTTATTTTTAT
1 TTTTCTTTTT-T
7875882 TTTT
1 TTTT
7875886 GAAATGTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
10 5 0.15
11 24 0.71
12 5 0.15
ACGTcount: A:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:7876109 original size:3 final size:3
Alignment explanation
Indices: 7876101--7876152 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
7876091 CAATATTACG
7876101 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7876149 ATA A
1 ATA A
7876153 GCACCATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7887523 original size:49 final size:50
Alignment explanation
Indices: 7887428--7887724 Score: 182
Period size: 49 Copynumber: 6.2 Consensus size: 50
7887418 TTCCAAATAT
* * * * *
7887428 GGTCTTACACTGGCTCTCA--CATCT-AAGTCAATGTCATGTTCTAGACA
1 GGTCTTACACTGACTCTCACTCATCTGAAGTCGATGCCATGTCCCAGACA
* * *
7887475 AGTCTTACACTGACTTTCA-T-ATATCGAAGTCGATGCCATGTCCCAGACA
1 GGTCTTACACTGACTCTCACTCATCT-GAAGTCGATGCCATGTCCCAGACA
* * *
7887524 GGTCTTACACTGGCTCTCACTCATCTG-TGTTGATGCCATGTCCCAGACA
1 GGTCTTACACTGACTCTCACTCATCTGAAGTCGATGCCATGTCCCAGACA
* * * *
7887573 GGTCTTACACT-A-ACACAC-C-TC--AAGCCGATGCCATGTCCCAAACA
1 GGTCTTACACTGACTCTCACTCATCTGAAGTCGATGCCATGTCCCAGACA
* ** * *
7887617 GGTTTTACACT-AGCT-TGCA-T-ATCTTGAAACCGATGTCATGT-CCAGATA
1 GGTCTTACACTGA-CTCT-CACTCATC-TGAAGTCGATGCCATGTCCCAGACA
* * ** *
7887665 GGTCTTACACTGGA-TCTCATTTAT-TGGTGCCGATGCCATGTCCCAGACA
1 GGTCTTACACT-GACTCTCACTCATCTGAAGTCGATGCCATGTCCCAGACA
*
7887714 GGTCTGACACT
1 GGTCTTACACT
7887725 AGGACACACA
Statistics
Matches: 195, Mismatches: 35, Indels: 38
0.73 0.13 0.14
Matches are distributed among these distances:
44 29 0.15
45 2 0.01
46 5 0.03
47 23 0.12
48 31 0.16
49 97 0.50
50 5 0.03
51 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (50 bp):
GGTCTTACACTGACTCTCACTCATCTGAAGTCGATGCCATGTCCCAGACA
Found at i:7894839 original size:49 final size:48
Alignment explanation
Indices: 7894761--7895020 Score: 219
Period size: 49 Copynumber: 5.5 Consensus size: 48
7894751 TCCAAACATA
* * * *
7894761 GTCTTACACTGGCTCTCA-CATCTAAGTCGATGCCATGTCCCAGATAG
1 GTCTTACACTAGCTCACATCATCTGAGTCGATGCCATGTCCCAGACAG
* *
7894808 GTCTTACACTAGCTCCCACTCATCTGTGTCGATGCCATGTCCCAGACAG
1 GTCTTACACTAGCTCACA-TCATCTGAGTCGATGCCATGTCCCAGACAG
* * * * * *
7894857 GTCTTACACT-G-ACACA-CCT-TAAGCCAATGCCATGTCCGAGACAG
1 GTCTTACACTAGCTCACATCATCTGAGTCGATGCCATGTCCCAGACAG
** * *
7894901 GTCTTACACTAGCTTGCAT-ATCTTGAAGCCGATGCCATGTCTCAGACAG
1 GTCTTACACTAGCTCACATCATC-TG-AGTCGATGCCATGTCCCAGACAG
* * * * * * *
7894950 GTCTTACAGTGGCTCATATTTATCAGTGTCGATGCCATGTCCTAGACAG
1 GTCTTACACTAGCTCACA-TCATCTGAGTCGATGCCATGTCCCAGACAG
*
7894999 GTCTTACACTAGCACACA-CATC
1 GTCTTACACTAGCTCACATCATC
7895021 ACCTAAATGC
Statistics
Matches: 167, Mismatches: 36, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
44 30 0.18
45 3 0.02
46 3 0.02
47 22 0.13
48 2 0.01
49 102 0.61
50 2 0.01
51 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GTCTTACACTAGCTCACATCATCTGAGTCGATGCCATGTCCCAGACAG
Found at i:7897559 original size:78 final size:78
Alignment explanation
Indices: 7897412--7897667 Score: 275
Period size: 78 Copynumber: 3.2 Consensus size: 78
7897402 CTCAATCCCA
* * * *
7897412 AAACGGATTTTATTTTACTCGTTTTTGAAAATAAAACAAAATTTGGAATAAAATCATTGAACGGA
1 AAACGGATTTTATTTTACTCGTTTTTG-GAATAAAACAAAATTTGGAATAAAATCGTTGAATGGC
7897477 GGGAATCAATTCTG
65 GGGAATCAATTCTG
* *
7897491 AAACAGATTTTATTTTACTCGTTTTTGGAATAAAAAAAAATTTGGAATAAAATCGTTGAATGGCG
1 AAACGGATTTTATTTTACTCGTTTTTGGAATAAAACAAAATTTGGAATAAAATCGTTGAATGGCG
7897556 GGAATCAA-TCTTG
66 GGAATCAATTC-TG
* * ** * *
7897569 AAATGGTTTTTA-TTTACCTTTAATTTTTGGAAATAGAAACAAAATAATAGAATAAAATCCGTTG
1 AAACGGATTTTATTTTA-C--TCGTTTTTGG-AATA-AAACAAAAT-TTGGAATAAAAT-CGTTG
* *
7897633 AATGGCGAGAATAAATT-TCG
59 AATGGCGGGAATCAATTCT-G
7897653 AAACGGATTTTATTT
1 AAACGGATTTTATTT
7897668 ACCTTTAATT
Statistics
Matches: 148, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
77 6 0.04
78 53 0.36
79 26 0.18
80 8 0.05
81 4 0.03
82 8 0.05
83 11 0.07
84 29 0.20
85 3 0.02
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (78 bp):
AAACGGATTTTATTTTACTCGTTTTTGGAATAAAACAAAATTTGGAATAAAATCGTTGAATGGCG
GGAATCAATTCTG
Found at i:7897664 original size:84 final size:84
Alignment explanation
Indices: 7897535--7897768 Score: 240
Period size: 89 Copynumber: 2.7 Consensus size: 84
7897525 AAAAAATTTG
* * * *
7897535 GAATAAAAT-CGTTGAATGGCGGGAATCAATCTT-GAAATGGTTTTTATTTACCTTTAATTTTTG
1 GAATAAAATCCGTTGAATGGCGAGAATAAAT-TTCGAAACGGATTTTATTTACCTTTAATTTTTG
7897598 GAAATAGAAA-CAAAATAATA
65 GAAATA-AAATCAAAATAATA
7897618 GAATAAAATCCGTTGAATGGCGAGAATAAATTTCGAAACGGATTTTATTTACCTTTAATTTCCTG
1 GAATAAAATCCGTTGAATGGCGAGAATAAATTTCGAAACGGATTTTATTTACCTTTAA--T--T-
* *
7897683 TTTGGAAATAAAATTAAAATAATG
61 TTTGGAAATAAAATCAAAATAATA
* * *** ** * * *
7897707 GAATAAAACCCGTTAAACAACGAGAATAAATCCCAAAACGAATTTTATTTACTTTTAATTTT
1 GAATAAAATCCGTTGAATGGCGAGAATAAATTTCGAAACGGATTTTATTTACCTTTAATTTT
7897769 GAAAACAAAA
Statistics
Matches: 127, Mismatches: 16, Indels: 15
0.80 0.10 0.09
Matches are distributed among these distances:
83 11 0.09
84 43 0.34
85 1 0.01
86 1 0.01
87 1 0.01
88 4 0.03
89 66 0.52
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (84 bp):
GAATAAAATCCGTTGAATGGCGAGAATAAATTTCGAAACGGATTTTATTTACCTTTAATTTTTGG
AAATAAAATCAAAATAATA
Found at i:7899013 original size:3 final size:3
Alignment explanation
Indices: 7899005--7899038 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7898995 TTTTATTTCT
7899005 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7899039 GAAATAATTC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7900773 original size:30 final size:30
Alignment explanation
Indices: 7900714--7900773 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
7900704 GTAATTTGTA
* *
7900714 AAGGGTTCTAGTTGAGCTACAAAAACTAGG
1 AAGGGCTCTAGTTGAGCCACAAAAACTAGG
* * *
7900744 AAGGGCTCTAGTTTAGCCATAAAAGCTAGG
1 AAGGGCTCTAGTTGAGCCACAAAAACTAGG
7900774 GGGAAGGATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (30 bp):
AAGGGCTCTAGTTGAGCCACAAAAACTAGG
Found at i:7903959 original size:97 final size:99
Alignment explanation
Indices: 7903695--7904050 Score: 310
Period size: 97 Copynumber: 3.5 Consensus size: 99
7903685 TGCATGTGAT
* * ** * * * *
7903695 GGTACTGTTCTTACCCTTGGCTCAAACACACTACTTTGTGAATCAAATCAAGTGCTCGTAATGGT
1 GGTACTATTCTTACCTTTGGCTCAAACACACCCCTTTATGAATC-AATGAAATCCTCGTAATGGT
* *
7903760 GGATTTGTAATGGGGTCCACCATTTGATAATGAAACCAA
65 GGATTTGTAATGGAGTCCA-CATTT--CAATG-AACCAA
* * * * * * * *
7903799 TCGGTAATATTATTACCTTTGGC-CCAA-ACACCCCTTTCTGAATGAATGAATTGCTCGTTATGG
1 --GGTACTATTCTTACCTTTGGCTCAAACACACCCCTTTATGAATCAATGAAATCCTCGTAATGG
7903862 TGGATTTGTAATGGAGTCCACATATTCAATGAA-C-A
64 TGGATTTGTAATGGAGTCCACAT-TTCAATGAACCAA
* *
7903897 -GTACTATTCTTGCCTTTGGCTCAAACACACCCCTTTATGAATCAATGAAATCCTTGTAATGGTG
1 GGTACTATTCTTACCTTTGGCTCAAACACACCCCTTTATGAATCAATGAAATCCTCGTAATGGTG
** * * *
7903961 GATTCATAATGGAGTTCGCATTGGCAATGAACCGAA
66 GATTTGTAATGGAGTCCACATT-TCAATGAACC-AA
* * *
7903997 TGGCACTATTCTTACCTTTGG-TCCAATCACACCCCTTTATGAATCAATGGAATC
1 -GGTACTATTCTTACCTTTGGCT-CAAACACACCCCTTTATGAATCAATGAAATC
7904051 TGTTTTAAAC
Statistics
Matches: 207, Mismatches: 33, Indels: 24
0.78 0.12 0.09
Matches are distributed among these distances:
95 17 0.08
96 4 0.02
97 56 0.27
98 2 0.01
99 1 0.00
100 3 0.01
101 5 0.02
102 49 0.24
103 37 0.18
104 13 0.06
105 3 0.01
106 17 0.08
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (99 bp):
GGTACTATTCTTACCTTTGGCTCAAACACACCCCTTTATGAATCAATGAAATCCTCGTAATGGTG
GATTTGTAATGGAGTCCACATTTCAATGAACCAA
Found at i:7909002 original size:18 final size:19
Alignment explanation
Indices: 7908979--7909018 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
7908969 CATAATGATA
*
7908979 TATATAA-TAAATTTTTAT
1 TATATAATTAAATATTTAT
*
7908997 TATATAATTACATATTTAT
1 TATATAATTAAATATTTAT
7909016 TAT
1 TAT
7909019 TTGATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATAATTAAATATTTAT
Found at i:7910148 original size:9 final size:9
Alignment explanation
Indices: 7910118--7910414 Score: 120
Period size: 9 Copynumber: 32.6 Consensus size: 9
7910108 AAATGACTTT
7910118 TTTTTATAA
1 TTTTTATAA
7910127 --TTTATAA
1 TTTTTATAA
7910134 --TTTATAA
1 TTTTTATAA
7910141 TTTTTATAA
1 TTTTTATAA
*
7910150 TATATTT-TAT
1 T-T-TTTATAA
*
7910160 TTTTTATAT
1 TTTTTATAA
*
7910169 TTTTTATGA
1 TTTTTATAA
7910178 TTATTTATAA
1 TT-TTTATAA
7910188 -TTTTATAA
1 TTTTTATAA
*
7910196 GTTTATATCAA
1 -TTTTTAT-AA
*
7910207 TTTTAATACA
1 TTTTTATA-A
7910217 TTTTTAT-A
1 TTTTTATAA
*
7910225 TTTTTAATATT
1 TTTTT-ATA-A
*
7910236 TTTTTATGA
1 TTTTTATAA
*
7910245 TTTTTATAGG
1 TTTTTATA-A
7910255 TTTTTA-AGA
1 TTTTTATA-A
*
7910264 ATTTTATACA
1 TTTTTATA-A
7910274 TTTTTATAA
1 TTTTTATAA
** *
7910283 AATTTAAAA
1 TTTTTATAA
*
7910292 TATTTTAAACA
1 T-TTTTATA-A
7910303 TGTTTTATTAA
1 T-TTTTA-TAA
7910314 -TTTTATAA
1 TTTTTATAA
7910322 TTTTT-TATA
1 TTTTTATA-A
7910331 TTTTT-TAA
1 TTTTTATAA
* *
7910339 TATTTACAA
1 TTTTTATAA
*
7910348 -TTTTATTAC
1 TTTTTA-TAA
* *
7910357 TTTTAATTA
1 TTTTTATAA
*
7910366 TTTTCATAA
1 TTTTTATAA
*
7910375 GTTTATATCAA
1 -TTTTTAT-AA
**
7910386 -TTTTATTT
1 TTTTTATAA
7910394 TTTTTAT-A
1 TTTTTATAA
7910402 -TTTTATAA
1 TTTTTATAA
7910410 TTTTT
1 TTTTT
7910415 TTATTTTCTA
Statistics
Matches: 220, Mismatches: 40, Indels: 56
0.70 0.13 0.18
Matches are distributed among these distances:
7 20 0.09
8 31 0.14
9 89 0.40
10 59 0.27
11 20 0.09
12 1 0.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:7910148 original size:16 final size:15
Alignment explanation
Indices: 7910120--7910202 Score: 57
Period size: 16 Copynumber: 5.4 Consensus size: 15
7910110 ATGACTTTTT
7910120 TTTATAA-TTTATAA
1 TTTATAATTTTATAA
7910134 TTTATAATTTTTATAA
1 TTTATAA-TTTTATAA
**
7910150 --TAT-ATTTTATTT
1 TTTATAATTTTATAA
*
7910162 TTTATATTTTTTATGATTA
1 TTTATA-ATTTTAT-A--A
7910181 TTTATAATTTTATAA
1 TTTATAATTTTATAA
7910196 GTTTATA
1 -TTTATA
7910203 TCAATTTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
12 6 0.11
13 1 0.02
14 13 0.25
15 1 0.02
16 19 0.36
17 1 0.02
18 6 0.11
19 6 0.11
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTATAATTTTATAA
Found at i:7910156 original size:27 final size:26
Alignment explanation
Indices: 7910126--7910230 Score: 77
Period size: 28 Copynumber: 3.8 Consensus size: 26
7910116 TTTTTTTATA
7910126 ATTTATAATTTATAATTTTTATAATAT
1 ATTTATAATTTATAATTTTTATAAT-T
** * *
7910153 ATTTTATTTTTTATATTTTTTATGATT
1 A-TTTATAATTTATAATTTTTATAATT
*
7910180 ATTTATAATTTTATAAGTTTATATCAATT
1 ATTTATAA-TTTATAA-TTTTTAT-AATT
* *
7910209 -TTAATACATTTTTATATTTTTA
1 ATTTATA-ATTTATA-ATTTTTA
7910231 ATATTTTTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 11
0.72 0.14 0.13
Matches are distributed among these distances:
26 5 0.08
27 9 0.15
28 41 0.68
29 5 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (26 bp):
ATTTATAATTTATAATTTTTATAATT
Found at i:7910158 original size:28 final size:27
Alignment explanation
Indices: 7910126--7910195 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 27
7910116 TTTTTTTATA
7910126 ATTTATAATTTATAATTTTTATAATAT
1 ATTTATAATTTATAATTTTTATAATAT
** * *
7910153 ATTTTATTTTTTATATTTTTTATGAT-T
1 A-TTTATAATTTATAATTTTTATAATAT
7910180 ATTTATAATTTTATAA
1 ATTTATAA-TTTATAA
7910196 GTTTATATCA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
26 5 0.15
27 9 0.26
28 20 0.59
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (27 bp):
ATTTATAATTTATAATTTTTATAATAT
Found at i:7910242 original size:57 final size:57
Alignment explanation
Indices: 7910160--7910281 Score: 149
Period size: 57 Copynumber: 2.1 Consensus size: 57
7910150 TATATTTTAT
* *
7910160 TTTTTATATTTTTTATGATTATTTAT-AATTTTATAAGTTTATATCAATTTTAATACA
1 TTTTTATATTTTTAATGATTATTTATGAATTTTATAAGTTTATAACAATTTT-ATACA
* * * * *
7910217 TTTTTATATTTTTAAT-ATTTTTTTATGATTTTTATAGGTTTTTAAGAATTTTATACA
1 TTTTTATATTTTTAATGA-TTATTTATGAATTTTATAAGTTTATAACAATTTTATACA
7910274 TTTTTATA
1 TTTTTATA
7910282 AAATTTAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 1 0.02
57 35 0.62
58 20 0.36
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (57 bp):
TTTTTATATTTTTAATGATTATTTATGAATTTTATAAGTTTATAACAATTTTATACA
Found at i:7910281 original size:10 final size:10
Alignment explanation
Indices: 7910160--7910281 Score: 57
Period size: 10 Copynumber: 12.8 Consensus size: 10
7910150 TATATTTTAT
*
7910160 TTTTTATA-T
1 TTTTTATAGA
7910169 TTTTTAT-GA
1 TTTTTATAGA
7910178 TTATTTATA-A
1 TT-TTTATAGA
7910188 -TTTTATA-A
1 TTTTTATAGA
*
7910196 GTTTATATCA-A
1 -TTTTTAT-AGA
* *
7910207 TTTTAATACA
1 TTTTTATAGA
7910217 TTTTTAT--A
1 TTTTTATAGA
*
7910225 TTTTTA-ATA
1 TTTTTATAGA
*
7910234 TTTTTTTATGA
1 TTTTTATA-GA
*
7910245 TTTTTATAGG
1 TTTTTATAGA
7910255 TTTTTA-AGA
1 TTTTTATAGA
* *
7910264 ATTTTATACA
1 TTTTTATAGA
7910274 TTTTTATA
1 TTTTTATA
7910282 AAATTTAAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
8 14 0.16
9 24 0.27
10 40 0.45
11 10 0.11
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (10 bp):
TTTTTATAGA
Found at i:7910328 original size:30 final size:29
Alignment explanation
Indices: 7910264--7910328 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
7910254 GTTTTTAAGA
*
7910264 ATTTTATACATTTTTATAAAATTTAAAAT
1 ATTTTAAACATTTTTATAAAATTTAAAAT
* * *
7910293 ATTTTAAACATGTTTTATTAATTTTATAAT
1 ATTTTAAACAT-TTTTATAAAATTTAAAAT
*
7910323 TTTTTA
1 ATTTTA
7910329 TATTTTTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (29 bp):
ATTTTAAACATTTTTATAAAATTTAAAAT
Found at i:7910405 original size:7 final size:8
Alignment explanation
Indices: 7910305--7910427 Score: 59
Period size: 9 Copynumber: 14.2 Consensus size: 8
7910295 TTTAAACATG
7910305 TTTTATTAA
1 TTTTA-TAA
7910314 TTTTATAA
1 TTTTATAA
*
7910322 TTTTTTATA
1 TTTTATA-A
*
7910331 TTTTTTAA
1 TTTTATAA
*
7910339 TATTTACAA
1 T-TTTATAA
*
7910348 TTTTATTAC
1 TTTTA-TAA
*
7910357 TTTTAATTA
1 TTTT-ATAA
7910366 TTTTCATAA
1 TTTT-ATAA
7910375 GTTTATATCAA
1 -TTT-TAT-AA
*
7910386 TTTTAT-T
1 TTTTATAA
*
7910393 TTTTTTATA
1 TTTTATA-A
7910402 TTTTATAA
1 TTTTATAA
* *
7910410 TTTTTTTA
1 TTTTATAA
*
7910418 TTTTCTAA
1 TTTTATAA
7910426 TT
1 TT
7910428 ATTTTTATGG
Statistics
Matches: 88, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
7 5 0.06
8 30 0.34
9 41 0.47
10 9 0.10
11 3 0.03
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (8 bp):
TTTTATAA
Found at i:7910406 original size:16 final size:17
Alignment explanation
Indices: 7910385--7910435 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
7910375 GTTTATATCA
7910385 ATTTTAT-TTTTTTTAT
1 ATTTTATATTTTTTTAT
7910401 ATTTTATAATTTTTTTAT
1 ATTTTAT-ATTTTTTTAT
7910419 -TTTCTA-ATTATTTTTAT
1 ATTT-TATATT-TTTTTAT
7910436 GGAAAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 10 0.32
17 10 0.32
18 11 0.35
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (17 bp):
ATTTTATATTTTTTTAT
Found at i:7910433 original size:17 final size:16
Alignment explanation
Indices: 7910393--7910435 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
7910383 CAATTTTATT
7910393 TTTTTTATATTTTATAA
1 TTTTTT-TATTTTATAA
*
7910410 TTTTTTTATTTTCTAA
1 TTTTTTTATTTTATAA
7910426 TTATTTTTAT
1 TT-TTTTTAT
7910436 GGAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTTATTTTATAA
Found at i:7910433 original size:18 final size:17
Alignment explanation
Indices: 7910117--7910432 Score: 79
Period size: 19 Copynumber: 17.4 Consensus size: 17
7910107 TAAATGACTT
*
7910117 TTTTTTATAATTTATAA
1 TTTTTTATATTTTATAA
* *
7910134 TTTATAAT-TTTTATAA
1 TTTTTTATATTTTATAA
*
7910150 TATATTTTATTTTTTAT-A
1 T-T-TTTTATATTTTATAA
7910168 TTTTTTATGATTATTTATAA
1 TTTTTTAT-A-T-TTTATAA
*
7910188 TTTTATA-AGTTTATATCAA
1 TTTTTTATA-TTT-TAT-AA
* *
7910207 TTTTAATACATTTT-TATA
1 TTTT-TTATATTTTATA-A
* * *
7910225 TTTTTAATATTTTTTTA
1 TTTTTTATATTTTATAA
*
7910242 TGATTTTTATAGGTTTTTAAGAA
1 T--TTTTTATA---TTTT-ATAA
* *
7910265 TTTTATACATTTTTATAAAA
1 TTTTTTATA-TTTTAT--AA
*** *
7910285 TTTAAAATATTTTAAACA
1 TTTTTTATATTTTATA-A
*
7910303 TGTTTTATTAATTTTATAA
1 TTTTTTA-T-ATTTTATAA
*
7910322 TTTTTTATATTTTTTAA
1 TTTTTTATATTTTATAA
* * *
7910339 -TATTTACAATTTTATTA
1 TTTTTTA-TATTTTATAA
* *
7910356 CTTTTAATTATTTTCATAA
1 TTTTTTA-TATTTT-ATAA
* * *
7910375 GTTTATATCAATTTTAT-T
1 TTTTTTAT--ATTTTATAA
7910393 TTTTTTATATTTTATAA
1 TTTTTTATATTTTATAA
*
7910410 TTTTTT-TATTTTCTAA
1 TTTTTTATATTTTATAA
7910426 TTATTTT
1 TT-TTTT
7910433 TATGGAAAAA
Statistics
Matches: 221, Mismatches: 47, Indels: 62
0.67 0.14 0.19
Matches are distributed among these distances:
16 37 0.17
17 45 0.20
18 41 0.19
19 52 0.24
20 33 0.15
21 7 0.03
22 4 0.02
23 2 0.01
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTTTTATATTTTATAA
Found at i:7917920 original size:9 final size:9
Alignment explanation
Indices: 7917906--7917938 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
7917896 TTCTCATCAT
7917906 TTTCTCTTA
1 TTTCTCTTA
7917915 TTTCTCTTA
1 TTTCTCTTA
7917924 TTTCTCTTA
1 TTTCTCTTA
7917933 TTTCTC
1 TTTCTC
7917939 GCCAGCAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTCTCTTA
Found at i:7921035 original size:17 final size:18
Alignment explanation
Indices: 7921004--7921037 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7920994 TTTAAATTTT
7921004 TTTTATGCTTCTTTCTTC
1 TTTTATGCTTCTTTCTTC
*
7921022 TTTT-TGCTTGTTTCTT
1 TTTTATGCTTCTTTCTT
7921038 GCTTCTGCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.03, C:0.18, G:0.09, T:0.71
Consensus pattern (18 bp):
TTTTATGCTTCTTTCTTC
Found at i:7921614 original size:13 final size:13
Alignment explanation
Indices: 7921573--7921615 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
7921563 AATTTTGAAT
7921573 TATTTAGTGATAA
1 TATTTAGTGATAA
*
7921586 TATCTAG-GAT--
1 TATTTAGTGATAA
7921596 TATTTAGTGATAA
1 TATTTAGTGATAA
7921609 TATTTAG
1 TATTTAG
7921616 AAAAAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:7923603 original size:19 final size:19
Alignment explanation
Indices: 7923579--7923618 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
7923569 TTATTAAATG
*
7923579 ATAAAATGATAAAT-TTTTT
1 ATAAAAT-AAAAATATTTTT
7923598 ATAAAATAAAAATATTTTT
1 ATAAAATAAAAATATTTTT
7923617 AT
1 AT
7923619 TATTATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
ATAAAATAAAAATATTTTT
Found at i:7924246 original size:13 final size:13
Alignment explanation
Indices: 7924228--7924255 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7924218 ACAACCATCC
7924228 CTTTATATATGCT
1 CTTTATATATGCT
7924241 CTTTATATATGCT
1 CTTTATATATGCT
7924254 CT
1 CT
7924256 CGTATTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.07, T:0.54
Consensus pattern (13 bp):
CTTTATATATGCT
Found at i:7926342 original size:18 final size:18
Alignment explanation
Indices: 7926319--7926356 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7926309 AAATGTTCTG
*
7926319 ATTTAATTTAGTTT-TAAA
1 ATTTAAATTA-TTTATAAA
7926337 ATTTAAATTATTTATAAA
1 ATTTAAATTATTTATAAA
7926355 AT
1 AT
7926357 AGTTCATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATTTAAATTATTTATAAA
Found at i:7931687 original size:30 final size:30
Alignment explanation
Indices: 7931653--7931711 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
7931643 CATTTATCTC
7931653 TACTTTCATTTTATTAAACTATTTTCTTTT
1 TACTTTCATTTTATTAAACTATTTTCTTTT
7931683 TACTTTCATTTTATTAAACTATTTTCTTT
1 TACTTTCATTTTATTAAACTATTTTCTTT
7931712 ACTTAAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.63
Consensus pattern (30 bp):
TACTTTCATTTTATTAAACTATTTTCTTTT
Found at i:7936170 original size:6 final size:6
Alignment explanation
Indices: 7936142--7936261 Score: 77
Period size: 6 Copynumber: 19.3 Consensus size: 6
7936132 AAGAAACATT
* * *
7936142 ATCAGA A-CTAGA ATCAAA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
7936191 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
7936242 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
7936262 GTGAATGCAA
Statistics
Matches: 88, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
5 6 0.07
6 65 0.74
7 14 0.16
8 3 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:7936194 original size:31 final size:31
Alignment explanation
Indices: 7936151--7936261 Score: 177
Period size: 31 Copynumber: 3.5 Consensus size: 31
7936141 TATCAGAACT
* * *
7936151 AGAATCAAAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
7936182 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
7936213 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
7936244 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
7936262 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 63 0.85
32 11 0.15
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:7936217 original size:19 final size:19
Alignment explanation
Indices: 7936193--7936250 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
7936183 GAATCAGAAT
7936193 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
7936212 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
7936224 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
7936243 CAGAATCA
1 CAGAATCA
7936251 AAAATCAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:7936440 original size:27 final size:26
Alignment explanation
Indices: 7936398--7936499 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
7936388 GCTCAGTTAT
* *
7936398 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
7936425 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
7936451 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
7936479 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
7936500 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:7936686 original size:22 final size:22
Alignment explanation
Indices: 7936658--7936722 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
7936648 GCAAATACGT
*
7936658 TTGGCACACAGCCATAATCAGG
1 TTGGCACAGAGCCATAATCAGG
*
7936680 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAGAGCCATAAT-CAGG
*
7936702 TTGACACAGAGCCATAATCAG
1 TTGGCACAGAGCCATAATCAG
7936723 AAGGCTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAGAGCCATAATCAGG
Found at i:7937206 original size:27 final size:27
Alignment explanation
Indices: 7937150--7937343 Score: 178
Period size: 27 Copynumber: 7.2 Consensus size: 27
7937140 AGGCAAAATG
* * * * *
7937150 GTAATTTTACCCCACA-AGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCC
* * **
7937176 GTAATTCCATCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCC
*
7937203 GTAATTCTACCCTACAAGGGTATTT-C
1 GTAATTCTACCCTACAGGGGTATTTCC
* * * *
7937229 GATAATTCCACCCTATAGAGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCC
*
7937257 GTAATTCTACCCTACAGGGGTA-TTGC
1 GTAATTCTACCCTACAGGGGTATTTCC
*
7937283 GATAATTCTACCCTACAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCC
* * *
7937311 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCC
7937338 GTAATT
1 GTAATT
7937344 TTGTAAATCG
Statistics
Matches: 136, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
26 16 0.12
27 116 0.85
28 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCC
Found at i:7937252 original size:54 final size:54
Alignment explanation
Indices: 7937149--7937343 Score: 257
Period size: 54 Copynumber: 3.6 Consensus size: 54
7937139 GAGGCAAAAT
* * * * * *
7937149 GGTAATTTTACCCCACAA-GGTATCTCGGTAATTCCATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCCACCCTACAGGGGTATTTC
* * *
7937202 AGTAATTCTACCCTACAAGGGTATTTCGATAATTCCACCCTATAGAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCCACCCTACAGGGGTATTTC
* * *
7937256 GGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCCACCCTACAGGGGTATTTC
* *
7937310 GGTATTTCTACCCTACAAGGGTATTTCGGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATT
7937344 TTGTAAATCG
Statistics
Matches: 122, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 15 0.12
54 107 0.88
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCCACCCTACAGGGGTATTTC
Found at i:7937305 original size:81 final size:80
Alignment explanation
Indices: 7937158--7937343 Score: 239
Period size: 81 Copynumber: 2.3 Consensus size: 80
7937148 TGGTAATTTT
* * * **
7937158 ACCCCACAAGGTATCTCGGTAATTCCATCCTACAGGGGTATTTTAGTAATTCTACCCTACAAGGG
1 ACCCTACAAGGTATTTCGGTAATTCCACCCTACAGGGGTATTCGAGTAATTCTACCCTACAAGGG
7937223 TATTTCGATAATTCC
66 TATTTCGATAATTCC
* * *
7937238 ACCCTATAGAGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGA-TAATTCTACCCTACAGG
1 ACCCTACA-AGGTATTTCGGTAATTCCACCCTACAGGGGTATT-CGAGTAATTCTACCCTACAAG
* * *
7937302 GGTATTTCGGTATTTCT
64 GGTATTTCGATAATTCC
7937319 ACCCTACAAGGGTATTTCGGTAATT
1 ACCCTACAA-GGTATTTCGGTAATT
7937344 TTGTAAATCG
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
80 7 0.08
81 83 0.91
82 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (80 bp):
ACCCTACAAGGTATTTCGGTAATTCCACCCTACAGGGGTATTCGAGTAATTCTACCCTACAAGGG
TATTTCGATAATTCC
Found at i:7937357 original size:27 final size:27
Alignment explanation
Indices: 7937327--7937803 Score: 420
Period size: 27 Copynumber: 17.7 Consensus size: 27
7937317 CTACCCTACA
* *
7937327 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * * *
7937354 AGGGTAAAATGGTAATTCTGTAAATCA
1 AGGGTATTTTGGTAATTTTATAAATCG
* * *
7937381 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * **
7937408 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* * *
7937435 AGGGTATTTTAGTAATTTCACAAATC-
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
7937461 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTTGGTAATTTTATAAATCG
* * *
7937488 AGGGGTATTTTGATAATTTTACAAA-CC
1 A-GGGTATTTTGGTAATTTTATAAATCG
* *
7937515 AGGGGTATTTTGGTAATTTTACAAA-CC
1 A-GGGTATTTTGGTAATTTTATAAATCG
* *
7937542 AGGGGTATTTTGGTAATTTTATAAACCA
1 A-GGGTATTTTGGTAATTTTATAAATCG
* * *
7937570 AGGGTATTTTAGTAATTTTACAAA-CTA
1 AGGGTATTTTGGTAATTTTATAAATC-G
7937597 AGGGTATTTTGGTAATTTTACT-AATCG
1 AGGGTATTTTGGTAATTTTA-TAAATCG
*
7937624 AGGGTATTTTGGTAATTTTACT-AATCA
1 AGGGTATTTTGGTAATTTTA-TAAATCG
7937651 AGGGTATTTTGGTAATTTTACT-AATCG
1 AGGGTATTTTGGTAATTTTA-TAAATCG
*
7937678 AGGGTATTTTGGTAATTTTGCT-AATCG
1 AGGGTATTTTGGTAATTTT-ATAAATCG
*
7937705 AGGGTATTTTGGTAATTTTGCT-AATCG
1 AGGGTATTTTGGTAATTTT-ATAAATCG
*
7937732 AGGGTATTTTGGTAATTTTGCT-AATCG
1 AGGGTATTTTGGTAATTTT-ATAAATCG
*
7937759 AGGGTATTTTGGTAATTTTGTAAAAT-G
1 AGGGTATTTTGGTAATTTTAT-AAATCG
*
7937786 AGGGTATTTTAGTAATTT
1 AGGGTATTTTGGTAATTT
7937804 GGTAAACTAA
Statistics
Matches: 400, Mismatches: 41, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
26 4 0.01
27 390 0.98
28 6 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATCG
Found at i:7937412 original size:81 final size:80
Alignment explanation
Indices: 7937325--7937803 Score: 464
Period size: 81 Copynumber: 5.9 Consensus size: 80
7937315 TTCTACCCTA
* ** *** * *
7937325 CAAGGGTATTTCGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTACTT
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTT
7937390 TGGTAATTTTACAAGT
66 TGGTAATTTTACAA-T
* *** ** * *** *
7937406 CGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTTAGTAATTTCACAAATCAGGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTT
*
7937471 TGGTAATTTTACAAA
66 TGGTAATTTTACAAT
* * * ** * *
7937486 CTAGGGGTATTTTGATAATTTTACAAA-CCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTAT
1 C-AAGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTGTAAATCAAGGGTAT
* *
7937550 TTTGGTAATTTTATAAAC
64 TTTGGTAATTTTA-CAAT
* * * *
7937568 CAAGGGTATTTTAGTAATTTTACAAA-CTAAGGGTATTTTGGTAATTTTACT-AATCGAGGGTAT
1 CAAGGGTATTTTGGTAATTTTACAAATC-GAGGGTATTTTGGTAATTTT-GTAAATCAAGGGTAT
7937631 TTTGGTAATTTTACTAAT
64 TTTGGTAATTTTAC-AAT
* *
7937649 CAAGGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGCT-AATCGAGGGTATT
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTG-TAAATCAAGGGTATT
*
7937713 TTGGTAATTTTGCTAAT
65 TTGGTAATTTTAC-AAT
* * * *
7937730 CGAGGGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTGGTAATTTTGTAAAAT-GAGGGTATT
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTGT-AAATCAAGGGTATT
*
7937794 TTAGTAATTT
65 TTGGTAATTT
7937804 GGTAAACTAA
Statistics
Matches: 339, Mismatches: 49, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
80 4 0.01
81 327 0.96
82 8 0.02
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (80 bp):
CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTT
TGGTAATTTTACAAT
Found at i:7937818 original size:26 final size:27
Alignment explanation
Indices: 7937762--7937819 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
7937752 CTAATCGAGG
* * **
7937762 GTATTTTGGTAATTTTGTAAAATGAGG
1 GTATTTTAGTAATTTGGTAAAATGAAA
*
7937789 GTATTTTAGTAATTTGGTAAACT-AAA
1 GTATTTTAGTAATTTGGTAAAATGAAA
7937815 GTATT
1 GTATT
7937820 CTAAACAGGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.45
Consensus pattern (27 bp):
GTATTTTAGTAATTTGGTAAAATGAAA
Found at i:7939412 original size:31 final size:31
Alignment explanation
Indices: 7939335--7939436 Score: 98
Period size: 31 Copynumber: 3.3 Consensus size: 31
7939325 CCTGGGAGAC
* * *
7939335 TCTATT-TATGTTTACTGTCCCAGCAGACTA
1 TCTATTCTGTGTTTACTATCCCAACAGACTA
* * *
7939365 TTACTGTTTTGTGTTTACTATCCTAACAGACTA
1 -T-CTATTCTGTGTTTACTATCCCAACAGACTA
* * *
7939398 TCTATTCTGTGTTTACTATCCCAGCGGAGTA
1 TCTATTCTGTGTTTACTATCCCAACAGACTA
7939429 TCTATTCT
1 TCTATTCT
7939437 ATGGATACCA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
31 33 0.57
32 5 0.09
33 20 0.34
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.43
Consensus pattern (31 bp):
TCTATTCTGTGTTTACTATCCCAACAGACTA
Found at i:7942973 original size:13 final size:13
Alignment explanation
Indices: 7942955--7942996 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
7942945 AGGGTAGAAA
7942955 ATATTTTACTTTT
1 ATATTTTACTTTT
7942968 ATATTTTACTTTT
1 ATATTTTACTTTT
* *
7942981 CT-TTTTAGTTTT
1 ATATTTTACTTTT
7942993 ATAT
1 ATAT
7942997 ACTTTTGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.69
Consensus pattern (13 bp):
ATATTTTACTTTT
Found at i:7945167 original size:77 final size:77
Alignment explanation
Indices: 7945037--7945190 Score: 254
Period size: 77 Copynumber: 2.0 Consensus size: 77
7945027 ACAAAGTTTG
* * * *
7945037 TTTATGTTGTTCAGTTTTTCTACGTTTGCTGAGGCTAGCTTAGTGAGACGTATCCACTACCTTCA
1 TTTATGTTGTTCAATTTTTCTACGTTTGCTGAGGCTAGCTCAGTGAAAAGTATCCACTACCTTCA
7945102 AACACTTACAAC
66 AACACTTACAAC
* *
7945114 TTTATGTTGTTCAATTTTTCTACGTTTGCTGAGTCTAGCTCAGTGAAAAGTATCCACTATCTTCA
1 TTTATGTTGTTCAATTTTTCTACGTTTGCTGAGGCTAGCTCAGTGAAAAGTATCCACTACCTTCA
7945179 AACACTTACAAC
66 AACACTTACAAC
7945191 AAGTGATCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (77 bp):
TTTATGTTGTTCAATTTTTCTACGTTTGCTGAGGCTAGCTCAGTGAAAAGTATCCACTACCTTCA
AACACTTACAAC
Found at i:7951184 original size:12 final size:12
Alignment explanation
Indices: 7951169--7951211 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
7951159 TTAAAAATTG
7951169 AATAATAAATAA
1 AATAATAAATAA
7951181 AATAATAAAT-A
1 AATAATAAATAA
* *
7951192 AGTATTAAATAAA
1 AATAATAAAT-AA
7951205 AATAATA
1 AATAATA
7951212 TTTTTTATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
11 9 0.36
12 10 0.40
13 6 0.24
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (12 bp):
AATAATAAATAA
Found at i:7954035 original size:3 final size:3
Alignment explanation
Indices: 7954027--7954089 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
7954017 CAAGCACCTT
7954027 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
7954075 GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA
7954090 AAGCCATTCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:7954715 original size:21 final size:22
Alignment explanation
Indices: 7954686--7954727 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
7954676 ATCACTGGAC
*
7954686 ACGGTGGTG-CCGGTGGCTGCA
1 ACGGCGGTGCCCGGTGGCTGCA
7954707 ACGGCGGTGCCCCGGTGGCTG
1 ACGGCGGTG-CCCGGTGGCTG
7954728 GCGGCGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
23 10 0.56
ACGTcount: A:0.07, C:0.29, G:0.48, T:0.17
Consensus pattern (22 bp):
ACGGCGGTGCCCGGTGGCTGCA
Found at i:7955014 original size:16 final size:16
Alignment explanation
Indices: 7954825--7955017 Score: 56
Period size: 20 Copynumber: 11.1 Consensus size: 16
7954815 TCCAAAAATA
*
7954825 ATATTATTTTAATAGCTT
1 ATATTAATTTAATA--TT
7954843 AATATTTAATTTAATACTT
1 -ATA-TTAATTTAATA-TT
*
7954862 ATCTTAA--TAATATT
1 ATATTAATTTAATATT
*
7954876 TTATTAATTTAATATT
1 ATATTAATTTAATATT
7954892 AAAGTGATT-ATCTTAATATT
1 --A-T-ATTAAT-TTAATATT
* *
7954912 AAATTAAATTTAACATTT
1 ATATT-AATTTAATA-TT
* * *
7954930 ATCTTATATATAAACATT
1 ATATTA-AT-TTAATATT
*
7954948 CTATTAA--TAATATTT
1 ATATTAATTTAATA-TT
*
7954963 AATATTAAATTTAAT-CT
1 -ATATT-AATTTAATATT
7954980 ATATTTAACTTAATAAATATT
1 ATA-TTAA-TT--T-AATATT
7955001 ATATTAATTTAATATT
1 ATATTAATTTAATATT
7955017 A
1 A
7955018 AAGTGATTAA
Statistics
Matches: 133, Mismatches: 17, Indels: 51
0.66 0.08 0.25
Matches are distributed among these distances:
14 10 0.08
15 7 0.05
16 26 0.20
17 19 0.14
18 18 0.14
19 21 0.16
20 28 0.21
21 4 0.03
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATTAATTTAATATT
Found at i:7958066 original size:12 final size:12
Alignment explanation
Indices: 7958049--7958113 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
7958039 TAATTTAGTC
7958049 ATTTTTTATTTT
1 ATTTTTTATTTT
* *
7958061 A-TTTTTAGTAT
1 ATTTTTTATTTT
*
7958072 ATTTTTTAATTTA
1 ATTTTTT-ATTTT
*
7958085 ACTTTTATATTTT
1 A-TTTTTTATTTT
7958098 ATTTTTT-TTTT
1 ATTTTTTATTTT
7958109 CATTT
1 -ATTT
7958114 GTTTCTTTCG
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 13 0.32
12 15 0.37
13 8 0.20
14 5 0.12
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.74
Consensus pattern (12 bp):
ATTTTTTATTTT
Found at i:7958076 original size:22 final size:24
Alignment explanation
Indices: 7958028--7958079 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
7958018 TTAGGAAAAC
7958028 TTTATTTCTATTAATTTAGTCATTT
1 TTTATTTCTATT-ATTTAGTCATTT
*
7958053 TTTATTT-TATT-TTTAGTATATTT
1 TTTATTTCTATTATTTAGT-CATTT
7958076 TTTA
1 TTTA
7958080 ATTTAACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 6 0.24
23 8 0.32
24 4 0.16
25 7 0.28
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (24 bp):
TTTATTTCTATTATTTAGTCATTT
Found at i:7959686 original size:13 final size:13
Alignment explanation
Indices: 7959668--7959692 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7959658 AAGTAATCGC
7959668 ACACAGGCGTGTT
1 ACACAGGCGTGTT
7959681 ACACAGGCGTGT
1 ACACAGGCGTGT
7959693 CCCTACCGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (13 bp):
ACACAGGCGTGTT
Found at i:7966555 original size:6 final size:6
Alignment explanation
Indices: 7966544--7966577 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
7966534 AATTAATGAA
* *
7966544 TTTTAT TTTTAT TTCTAT CTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
7966578 TATTATTGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:7967339 original size:18 final size:18
Alignment explanation
Indices: 7967316--7967350 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7967306 GTAGGCCCAA
7967316 ACGGGCATGTGAGCCTAT
1 ACGGGCATGTGAGCCTAT
*
7967334 ACGGGCATGTGGGCCTA
1 ACGGGCATGTGAGCCTA
7967351 GGATTCTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.37, T:0.20
Consensus pattern (18 bp):
ACGGGCATGTGAGCCTAT
Found at i:7968161 original size:29 final size:30
Alignment explanation
Indices: 7968079--7968165 Score: 149
Period size: 30 Copynumber: 2.9 Consensus size: 30
7968069 ACTGTATGGT
7968079 TTTAACTTTTGGACTTGGACTTTGTTTTGC
1 TTTAACTTTTGGACTTGGACTTTGTTTTGC
*
7968109 TTTACCTTTTGGACTTGGACTTTGTTTTGC
1 TTTAACTTTTGGACTTGGACTTTGTTTTGC
*
7968139 TTTAAC-TTTGGACTTGGATTTTGTTTT
1 TTTAACTTTTGGACTTGGACTTTGTTTT
7968166 TCTATCCTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 20 0.37
30 34 0.63
ACGTcount: A:0.13, C:0.13, G:0.20, T:0.55
Consensus pattern (30 bp):
TTTAACTTTTGGACTTGGACTTTGTTTTGC
Found at i:7969743 original size:13 final size:13
Alignment explanation
Indices: 7969719--7969761 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
7969709 GTTAAAAAAA
7969719 TAATTAAATTAACT
1 TAATT-AATTAACT
*
7969733 TAATTAATTAACA
1 TAATTAATTAACT
*
7969746 TAATTAATTAAAT
1 TAATTAATTAACT
7969759 TAA
1 TAA
7969762 ATTATAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 21 0.81
14 5 0.19
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (13 bp):
TAATTAATTAACT
Found at i:7977079 original size:27 final size:27
Alignment explanation
Indices: 7977043--7977096 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
7977033 TACATTTATC
*
7977043 ACCGATGTGATATGAAACATTTCTAGT
1 ACCGAAGTGATATGAAACATTTCTAGT
*
7977070 ACCGAAGTGATCTGAAACATTTCTAGT
1 ACCGAAGTGATATGAAACATTTCTAGT
7977097 TTAACAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (27 bp):
ACCGAAGTGATATGAAACATTTCTAGT
Found at i:7991673 original size:23 final size:25
Alignment explanation
Indices: 7991628--7991674 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
7991618 AATAAATATA
*
7991628 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
7991653 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
7991675 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:7999608 original size:21 final size:22
Alignment explanation
Indices: 7999584--7999625 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
7999574 AAAAAATATA
7999584 TTATAAAATAAT-TTATTTAAT
1 TTATAAAATAATATTATTTAAT
*
7999605 TTATAAAATTATATTATTTAA
1 TTATAAAATAATATTATTTAA
7999626 ATCCTAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATAAAATAATATTATTTAAT
Found at i:8000816 original size:24 final size:24
Alignment explanation
Indices: 8000784--8000838 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
8000774 ACAAATATAG
8000784 ATGCAATTTCATATACAGAA-TCAA
1 ATGCAATTTCATATACA-AAGTCAA
8000808 ATGCAATTTCATATACAAAGTCAA
1 ATGCAATTTCATATACAAAGTCAA
8000832 ATGCAAT
1 ATGCAAT
8000839 ATCAATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.29
Consensus pattern (24 bp):
ATGCAATTTCATATACAAAGTCAA
Found at i:8001635 original size:23 final size:23
Alignment explanation
Indices: 8001605--8001651 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
8001595 ACACTAGATA
8001605 TAAGCCTCTAATTCGACCACAAC
1 TAAGCCTCTAATTCGACCACAAC
8001628 TAAGCCTCTAATTCGACCACAAC
1 TAAGCCTCTAATTCGACCACAAC
8001651 T
1 T
8001652 GCTAACACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.23
Consensus pattern (23 bp):
TAAGCCTCTAATTCGACCACAAC
Found at i:8007933 original size:29 final size:29
Alignment explanation
Indices: 8007892--8007972 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
8007882 CGAAGTACTG
8007892 ATAT-CATGGCCCGAAGCCAAATCAGCCT
1 ATATGCATGGCCCGAAGCCAAATCAGCCT
8007920 ATATGCATGGCCCGAAGCCAAATCAGCCT
1 ATATGCATGGCCCGAAGCCAAATCAGCCT
8007949 ATATGCATGGCCCGAAGCCAAATC
1 ATATGCATGGCCCGAAGCCAAATC
8007973 GGTATAACTC
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 4 0.08
29 48 0.92
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.17
Consensus pattern (29 bp):
ATATGCATGGCCCGAAGCCAAATCAGCCT
Found at i:8010549 original size:16 final size:17
Alignment explanation
Indices: 8010528--8010561 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
8010518 CGAGTGAGAG
8010528 AATTCAAACAACC-TAT
1 AATTCAAACAACCATAT
8010544 AATTCAAACAACCATAT
1 AATTCAAACAACCATAT
8010561 A
1 A
8010562 TACCTCCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (17 bp):
AATTCAAACAACCATAT
Found at i:8020574 original size:29 final size:30
Alignment explanation
Indices: 8020532--8020590 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
8020522 TATAGTTTAA
8020532 TGTGCAATTGTATACATGAAA-TTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
* *
8020561 TGTGCAATTTTATATATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
8020591 GATCCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAATTTTGATTT
Found at i:8020599 original size:30 final size:29
Alignment explanation
Indices: 8020536--8020599 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
8020526 GTTTAATGTG
*
8020536 CAATTGTATACATGAAATTTGATTTTGTG
1 CAATTGTATACATGAAATTTGATTTTGTC
* *
8020565 CAATTTTATATATGAAATTTTGA-TTTGATC
1 CAATTGTATACATGAAA-TTTGATTTTG-TC
8020595 CAATT
1 CAATT
8020600 CTTGTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (29 bp):
CAATTGTATACATGAAATTTGATTTTGTC
Found at i:8029407 original size:25 final size:25
Alignment explanation
Indices: 8029379--8029456 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
8029369 CTCGGCCCTG
8029379 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
*** *** *
8029404 TCACAT-TGGCCA-TTAGGCCTT-A
1 TCACATATATACACTTTCACATTCA
8029426 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
8029451 TCACAT
1 TCACAT
8029457 CGGCCATTAG
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 13 0.36
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (25 bp):
TCACATATATACACTTTCACATTCA
Found at i:8029470 original size:47 final size:47
Alignment explanation
Indices: 8029328--8029472 Score: 218
Period size: 47 Copynumber: 3.1 Consensus size: 47
8029318 CCCTTCGGGA
* * * * *
8029328 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
8029375 CCTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
8029422 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
8029469 CTTA
1 CTTA
8029473 CTATCATTTC
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 88 1.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:8033314 original size:47 final size:47
Alignment explanation
Indices: 8033256--8033552 Score: 447
Period size: 47 Copynumber: 6.4 Consensus size: 47
8033246 TATCACATTT
* * *
8033256 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
*
8033301 ATACACATGTTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
8033348 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * * *
8033395 ATATACATGTTTACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
8033442 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
8033489 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
*
8033536 ATATACACT-TTCACATT
1 ATACACA-TGTTCACATT
8033553 TATTCAATTA
Statistics
Matches: 233, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 6 0.03
46 1 0.00
47 226 0.97
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:8033417 original size:25 final size:25
Alignment explanation
Indices: 8033388--8033465 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
8033378 ATTCGGCCTT
*
8033388 ATCACACATATACATGTTTACTTTC
1 ATCACACATATACATGTTCACTTTC
* *** *
8033413 ATCACA-TTGGCCA--TTCGGCTTT-
1 ATCACACATATACATGTTC-ACTTTC
8033435 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
8033460 ATCACA
1 ATCACA
8033466 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 8 0.22
23 7 0.19
24 7 0.19
25 15 0.41
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (25 bp):
ATCACACATATACATGTTCACTTTC
Found at i:8041331 original size:24 final size:24
Alignment explanation
Indices: 8041280--8041473 Score: 291
Period size: 24 Copynumber: 8.0 Consensus size: 24
8041270 GCTTTATCAT
*
8041280 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
8041305 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
8041329 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
8041353 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
8041377 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
8041402 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
8041426 ATAACTAGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
8041451 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
8041474 GCACTTCCTC
Statistics
Matches: 158, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
24 98 0.62
25 60 0.38
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:8041425 original size:49 final size:49
Alignment explanation
Indices: 8041300--8041473 Score: 305
Period size: 49 Copynumber: 3.6 Consensus size: 49
8041290 GCCTAGCCTC
*
8041300 TTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAAGCCC-
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCCT
* *
8041348 TTTTGATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCCT
8041397 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCCT
*
8041446 TTTTAATAACTAGGGCATAAGCCCTTTT
1 TTTTAATAACTGGGGCATAAGCCCTTTT
8041474 GCACTTCCTC
Statistics
Matches: 119, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
48 45 0.38
49 74 0.62
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (49 bp):
TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCCT
Found at i:8041548 original size:20 final size:20
Alignment explanation
Indices: 8041523--8041589 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
8041513 TTATGAAGAC
8041523 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
8041543 ATCATGTGCACATCATACAT
1 ATCATGTGCATATCATACAT
*
8041563 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
8041583 ACCATGT
1 ATCATGT
8041590 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:8049995 original size:40 final size:39
Alignment explanation
Indices: 8049958--8050049 Score: 123
Period size: 39 Copynumber: 2.3 Consensus size: 39
8049948 GCTACTCGTT
*
8049958 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* * *
8049998 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
8050037 CAAATGCCTTCGG
1 CAAATGCCTTCGG
8050050 ATCTTAGTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 32 0.70
40 14 0.30
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:8050029 original size:39 final size:40
Alignment explanation
Indices: 8049939--8050102 Score: 131
Period size: 40 Copynumber: 4.1 Consensus size: 40
8049929 CGGAATTTAA
**
8049939 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAGC
* * *
8049979 CCGGTTATAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAGC
* * *
8050018 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CATAGC
* * * * * *
8050058 TCGGATATGGTCACTTAGCACAAA-GCCTTCTGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACATAGC
8050098 CCGGA
1 CCGGA
8050103 CATCATTCAA
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.31
40 55 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAGC
Found at i:8055844 original size:46 final size:50
Alignment explanation
Indices: 8055777--8055998 Score: 173
Period size: 46 Copynumber: 4.7 Consensus size: 50
8055767 TTTGTGTGCT
8055777 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAAATGT-A-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAATGTGAGAGCC
* * ** *
8055823 AGTGTAAGA-CATGTCTAGGACAT-GCATCAG-CTAAAAAATGT----GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAAATGTGAGAGCC
**** * * *
8055867 AGTGTAAGACCATGTCTGGGACATGGCATCGGTAGGGATAGGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAATGTGAGAGCC
* * * * *
8055917 AGTGTAAGACCATGTCTGGGACATCGCGTCGGCCTC--AATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAATGT-GAGAGCC
*
8055966 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
8055999 ATTACACCCT
Statistics
Matches: 137, Mismatches: 30, Indels: 15
0.75 0.16 0.08
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 44 0.32
48 2 0.01
49 34 0.25
50 31 0.23
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAATGTGAGAGCC
Found at i:8059629 original size:40 final size:40
Alignment explanation
Indices: 8059581--8059783 Score: 182
Period size: 40 Copynumber: 5.1 Consensus size: 40
8059571 CGGGATTTAA
*
8059581 CCGGATATAGCT-ACTCGCGCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACGAATGCCTTCGGGACATAGC
* *
8059621 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACATAGC
* * *
8059661 CCAGACATAATAACTCGCACGAATGCCTTCGGGA-ATTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACA-TAGC
* * * ** *
8059701 CCGGGTACAATAACTAACAC-AATTGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACGAA-TGCCTTCGGGACATAGC
* * * **
8059740 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGATTTAGC
1 CCGGATA-TAGTAACTCGCACGAATGCCTTCGGGACATAGC
8059780 CCGG
1 CCGG
8059784 TTATCATCCG
Statistics
Matches: 135, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 30 0.22
40 104 0.77
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACGAATGCCTTCGGGACATAGC
Found at i:8059701 original size:80 final size:79
Alignment explanation
Indices: 8059593--8059783 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 79
8059583 GGATATAGCT
* * * **
8059593 ACTCGCGCGAATGCCTTCGGGACA-TAGCCCGGATATAGTAACTCGCACCAA-TGCCTTCGGGAC
1 ACTCGCACGAATGCCTTCGGGA-ATTAGCCCGGATACAATAACTAACA-CAATTGCCTTCGGG-C
8059656 TTAGCCCAGACA-TAATA
63 TTAGCCCAGA-ATTAATA
*
8059673 ACTCGCACGAATGCCTTCGGGAATTAGCCCGGGTACAATAACTAACACAATTGCCTTCGGGCTTA
1 ACTCGCACGAATGCCTTCGGGAATTAGCCCGGATACAATAACTAACACAATTGCCTTCGGGCTTA
* * *
8059738 GCCCGGAATTAGTC
66 GCCCAGAATTAATA
* * *
8059752 ACTAGCACAAATGCCTTCGGGATTTAGCCCGG
1 ACTCGCACGAATGCCTTCGGGAATTAGCCCGG
8059784 TTATCATCCG
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 46 0.48
80 49 0.51
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (79 bp):
ACTCGCACGAATGCCTTCGGGAATTAGCCCGGATACAATAACTAACACAATTGCCTTCGGGCTTA
GCCCAGAATTAATA
Found at i:8059779 original size:79 final size:80
Alignment explanation
Indices: 8059602--8059783 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 80
8059592 TACTCGCGCG
* * **
8059602 AATGCCTTCGGGACA-TAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCAGA
1 AATGCCTTCGGGA-ATTAGCCCGGATACAATAACTAACACCAATGCCTTCGGGACTTAGCCCAGA
* *
8059666 CATAATAACTCGCACG
65 CATAATAACTAGCACA
* *
8059682 AATGCCTTCGGGAATTAGCCCGGGTACAATAACTAACA-CAATTGCCTTCGGG-CTTAGCCCGGA
1 AATGCCTTCGGGAATTAGCCCGGATACAATAACTAACACCAA-TGCCTTCGGGACTTAGCCCAGA
* *
8059745 -ATTAGTCACTAGCACA
65 CA-TAATAACTAGCACA
*
8059761 AATGCCTTCGGGATTTAGCCCGG
1 AATGCCTTCGGGAATTAGCCCGG
8059784 TTATCATCCG
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 46 0.52
80 41 0.47
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (80 bp):
AATGCCTTCGGGAATTAGCCCGGATACAATAACTAACACCAATGCCTTCGGGACTTAGCCCAGAC
ATAATAACTAGCACA
Found at i:8060910 original size:30 final size:30
Alignment explanation
Indices: 8060874--8060948 Score: 132
Period size: 30 Copynumber: 2.5 Consensus size: 30
8060864 ATGGAAAATA
8060874 AAAGATATGGGTATCAAATAATAGAAAGTC
1 AAAGATATGGGTATCAAATAATAGAAAGTC
* *
8060904 AAAGATATGGGTATCAAATATTGGAAAGTC
1 AAAGATATGGGTATCAAATAATAGAAAGTC
8060934 AAAGATATGGGTATC
1 AAAGATATGGGTATC
8060949 GAGATATTGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
AAAGATATGGGTATCAAATAATAGAAAGTC
Found at i:8060920 original size:15 final size:15
Alignment explanation
Indices: 8060874--8060948 Score: 55
Period size: 15 Copynumber: 5.0 Consensus size: 15
8060864 ATGGAAAATA
8060874 AAAGATATGGGTATC
1 AAAGATATGGGTATC
* * **
8060889 AAATA-ATAGAAAGTC
1 AAAGATATGGGTA-TC
8060904 AAAGATATGGGTATC
1 AAAGATATGGGTATC
* **
8060919 AAATAT-TGGAAAGTC
1 AAAGATATGGGTA-TC
8060934 AAAGATATGGGTATC
1 AAAGATATGGGTATC
8060949 GAGATATTGG
Statistics
Matches: 42, Mismatches: 14, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
14 8 0.19
15 26 0.62
16 8 0.19
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (15 bp):
AAAGATATGGGTATC
Found at i:8068338 original size:40 final size:40
Alignment explanation
Indices: 8068294--8068474 Score: 176
Period size: 40 Copynumber: 4.5 Consensus size: 40
8068284 TACTCGCTCG
*
8068294 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCACACC
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACC
* *
8068334 AATGCCTTCGGGACTTAGCCCAGACATA-A-TAACTCGCACG
1 AATGCCTTCGGGACTTAGCCC-GA-ATATAGTAACTCACACC
* ** * *
8068374 AATGCCTTCGGGAATTAGCCCGGGTATAATAACTCGCA-C
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACC
* * *
8068413 AATTACCTTCGGG-CTTAGCCCGGAAT-TAGTCACT-AGCACA
1 AA-TGCCTTCGGGACTTAGCCC-GAATATAGTAACTCA-CACC
8068453 AATGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
8068475 GTTATCATCC
Statistics
Matches: 116, Mismatches: 16, Indels: 19
0.77 0.11 0.13
Matches are distributed among these distances:
38 2 0.02
39 29 0.25
40 79 0.68
41 3 0.03
42 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACC
Found at i:8068393 original size:80 final size:79
Alignment explanation
Indices: 8068285--8068474 Score: 215
Period size: 80 Copynumber: 2.4 Consensus size: 79
8068275 GGATATAGCT
* * *
8068285 ACTCGCTCGAATGCCTTCGGGACA-TAGCCCGAATATAGTAACTCACACCAA-TGCCTTCGGGAC
1 ACTCGCACGAATGCCTTCGGGA-ATTAGCCCGAATATAATAACTCACA-CAATTACCTTCGGG-C
8068348 TTAGCCCAGACA-TAATA
63 TTAGCCCAGA-ATTAATA
** *
8068365 ACTCGCACGAATGCCTTCGGGAATTAGCCCGGGTATAATAACTCGCACAATTACCTTCGGGCTTA
1 ACTCGCACGAATGCCTTCGGGAATTAGCCCGAATATAATAACTCACACAATTACCTTCGGGCTTA
* * *
8068430 GCCCGGAATTAGTC
66 GCCCAGAATTAATA
* * *
8068444 ACTAGCACAAATGCCTTCGGGACTTAGCCCG
1 ACTCGCACGAATGCCTTCGGGAATTAGCCCG
8068475 GTTATCATCC
Statistics
Matches: 95, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 45 0.47
80 49 0.52
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (79 bp):
ACTCGCACGAATGCCTTCGGGAATTAGCCCGAATATAATAACTCACACAATTACCTTCGGGCTTA
GCCCAGAATTAATA
Found at i:8068471 original size:79 final size:80
Alignment explanation
Indices: 8068294--8068475 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
8068284 TACTCGCTCG
* * * *
8068294 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCACACCAATGCCTTCGGGACTTAGCCCAGAC
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACCAATACCTTCGGGACTTAGCCCAGAC
* *
8068359 ATAATAACTCGCACG
66 ATAATAACTAGCACA
* * * *
8068374 AATGCCTTCGGGAATTAGCCCGGGTATAATAACTCGCA-CAATTACCTTCGGG-CTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACCAA-TACCTTCGGGACTTAGCCCAGA
* *
8068437 -ATTAGTCACTAGCACA
65 CA-TAATAACTAGCACA
8068453 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
8068476 TTATCATCCA
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 45 0.52
80 41 0.47
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACCAATACCTTCGGGACTTAGCCCAGAC
ATAATAACTAGCACA
Found at i:8069318 original size:30 final size:30
Alignment explanation
Indices: 8069273--8069396 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
8069263 TCCATATTTA
* * *
8069273 TGGAAAATAAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
8069303 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
8069333 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
8069363 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
8069394 TGG
1 TGG
8069397 CATAATAAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 79 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:8069328 original size:15 final size:15
Alignment explanation
Indices: 8069282--8069386 Score: 72
Period size: 15 Copynumber: 7.0 Consensus size: 15
8069272 ATGGAAAATA
8069282 AAAGATATGGGTATC
1 AAAGATATGGGTATC
* * **
8069297 AAATA-ATAGAAAGTC
1 AAAGATATGGGTA-TC
8069312 AAAGATATGGGTATC
1 AAAGATATGGGTATC
* **
8069327 AAATAT-TGGAAAGTC
1 AAAGATATGGGTA-TC
8069342 AAAGATATGGGTATC
1 AAAGATATGGGTATC
* **
8069357 AAATAT-TGGAAAGTC
1 AAAGATATGGGTA-TC
8069372 AAAGATATGGGTATC
1 AAAGATATGGGTATC
8069387 GAGATATTGG
Statistics
Matches: 64, Mismatches: 20, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
14 12 0.19
15 40 0.62
16 12 0.19
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
AAAGATATGGGTATC
Found at i:8086902 original size:38 final size:38
Alignment explanation
Indices: 8086851--8086926 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
8086841 GCAGTAAAAG
8086851 TACGCGTGGGTAAACTTGAGGAGTCCATGGAAAACGTT
1 TACGCGTGGGTAAACTTGAGGAGTCCATGGAAAACGTT
8086889 TACGCGTGGGTAAACTTGAGGAGTCCATGGAAAACGTT
1 TACGCGTGGGTAAACTTGAGGAGTCCATGGAAAACGTT
8086927 AAAGAGTCTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.24
Consensus pattern (38 bp):
TACGCGTGGGTAAACTTGAGGAGTCCATGGAAAACGTT
Found at i:8089913 original size:56 final size:55
Alignment explanation
Indices: 8089851--8089961 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 55
8089841 AATAAAATAC
8089851 AATCTAACTCTTAGTACAAAGGTCTTCATGATATTTTTACTACTTTTTTTATGTAT
1 AATCTAACTCTTAGTACAAAGGTCTTCATGATATTTTTACTA-TTTTTTTATGTAT
8089907 AATCTAACTCTTAGTACAAAGGTCTTCATGATATTTTTACTATTTTTTTATGTAT
1 AATCTAACTCTTAGTACAAAGGTCTTCATGATATTTTTACTATTTTTTTATGTAT
8089962 TCAAAACGGT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 13 0.24
56 42 0.76
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.49
Consensus pattern (55 bp):
AATCTAACTCTTAGTACAAAGGTCTTCATGATATTTTTACTATTTTTTTATGTAT
Found at i:8093063 original size:28 final size:29
Alignment explanation
Indices: 8093032--8093087 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
8093022 TTAGTCATAA
*
8093032 TTTTTAAAAAAAATTAACCCTTAACTTAT
1 TTTTTAAAAAAAATTAACCCTCAACTTAT
* * *
8093061 TTTTTTAACAAATTTAACCCTCAACTT
1 TTTTTAAAAAAAATTAACCCTCAACTT
8093088 TTATATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (29 bp):
TTTTTAAAAAAAATTAACCCTCAACTTAT
Found at i:8093240 original size:118 final size:122
Alignment explanation
Indices: 8093072--8093324 Score: 302
Period size: 130 Copynumber: 2.0 Consensus size: 122
8093062 TTTTTAACAA
* * *
8093072 ATTTAACCCTCAACTTTTATATAAATATATTTTTTTTAATTTTTAATTT-A-ATT-TT-TA-AAA
1 ATTTGACCCTCAACTTTTACATAAATATATTTTTTTTAATTATT-ATTTAATATTCTTGTATAAA
8093132 TATTTATGTATTATATATATTTCTTTGAATCTTTTAGAATTAGAATCAAATTGAGAAC
65 TATTTATGTATTATATATATTTCTTTGAATCTTTTAGAATTAGAATCAAATTGAGAAC
* * *
8093190 ATTTGACCCTCAACTTTTACATATATATTTTTTATTTTTATATATT-TTTAAATTTATTCTTGTA
1 ATTTGACCCTCAACTTTTACATAAATATATTTT-TTTTAAT-TATTATTT-AA--TATTCTTGTA
* *
8093254 TTTTTAAATATTTATGTATTTTATATATTTCTTTGAATCTTTTAGCATTAGAATCAAATTGAGAA
61 ----TAAATATTTATGTATTATATATATTTCTTTGAATCTTTTAGAATTAGAATCAAATTGAGAA
8093319 C
122 C
8093320 ATTTG
1 ATTTG
8093325 TGAATTTTGA
Statistics
Matches: 113, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
118 32 0.28
119 6 0.05
120 4 0.04
123 3 0.03
124 2 0.02
125 2 0.02
130 64 0.57
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (122 bp):
ATTTGACCCTCAACTTTTACATAAATATATTTTTTTTAATTATTATTTAATATTCTTGTATAAAT
ATTTATGTATTATATATATTTCTTTGAATCTTTTAGAATTAGAATCAAATTGAGAAC
Found at i:8093244 original size:18 final size:18
Alignment explanation
Indices: 8093211--8093275 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 18
8093201 AACTTTTACA
*
8093211 TATATATTTTT-TATTTT
1 TATATATTTTTAAATTTT
8093228 TATATATTTTTAAATTTAT
1 TATATATTTTTAAATTT-T
* * *
8093247 TCTTGTATTTTTAAATATT
1 T-ATATATTTTTAAATTTT
*
8093266 TATGTATTTT
1 TATATATTTT
8093276 ATATATTTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 11 0.28
18 12 0.30
19 4 0.10
20 13 0.32
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.68
Consensus pattern (18 bp):
TATATATTTTTAAATTTT
Found at i:8096356 original size:20 final size:17
Alignment explanation
Indices: 8096340--8096374 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8096330 ATAAAATATG
8096340 TATAATAAAATTAAAATA
1 TATAA-AAAATTAAAATA
*
8096358 TATAAAATATTAAAATA
1 TATAAAAAATTAAAATA
8096375 AAACTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TATAAAAAATTAAAATA
Found at i:8099750 original size:33 final size:33
Alignment explanation
Indices: 8099705--8099827 Score: 112
Period size: 33 Copynumber: 3.8 Consensus size: 33
8099695 GTGAATAGCA
* *
8099705 CAGTATCAGTACAATCTGGGCCAAAGCCTTATT
1 CAGTAACAGTACAATCTGGGCCTAAGCCTTATT
* * * * *
8099738 CAGTAACGGTACAGTCTGGGCTTTAGCC--CTT
1 CAGTAACAGTACAATCTGGGCCTAAGCCTTATT
*
8099769 -A--AACAGTAGCAATATGGGCCTAAGCCTTATT
1 CAGTAACAGTA-CAATCTGGGCCTAAGCCTTATT
* *
8099800 CAGTAACAGTACAGTCTGGGCCTTAGCC
1 CAGTAACAGTACAATCTGGGCCTAAGCC
8099828 CTTAAACAGT
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
28 6 0.09
29 13 0.19
30 1 0.01
31 4 0.06
32 1 0.01
33 36 0.53
34 7 0.10
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (33 bp):
CAGTAACAGTACAATCTGGGCCTAAGCCTTATT
Found at i:8099776 original size:34 final size:33
Alignment explanation
Indices: 8099738--8099838 Score: 95
Period size: 34 Copynumber: 3.2 Consensus size: 33
8099728 AAGCCTTATT
*
8099738 CAGTAACGGTACAGTCTGGGCTTTAGCCCTTAAA
1 CAGTAAC-GTACAGTCTGGGCCTTAGCCCTTAAA
* * * **
8099772 CAGT-A-G--CAATATGGGCCTAAG-CCTTATT
1 CAGTAACGTACAGTCTGGGCCTTAGCCCTTAAA
8099800 CAGTAACAGTACAGTCTGGGCCTTAGCCCTTAAA
1 CAGTAAC-GTACAGTCTGGGCCTTAGCCCTTAAA
8099834 CAGTA
1 CAGTA
8099839 GCAATATGGG
Statistics
Matches: 50, Mismatches: 11, Indels: 12
0.68 0.15 0.16
Matches are distributed among these distances:
28 9 0.18
29 12 0.24
31 2 0.04
33 13 0.26
34 14 0.28
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.26
Consensus pattern (33 bp):
CAGTAACGTACAGTCTGGGCCTTAGCCCTTAAA
Found at i:8099818 original size:62 final size:62
Alignment explanation
Indices: 8099711--8099856 Score: 240
Period size: 62 Copynumber: 2.4 Consensus size: 62
8099701 AGCACAGTAT
* * * *
8099711 CAGTA-CAATCTGGGCCAAAGCCTTATTCAGTAACGGTACAGTCTGGGCTTTAGCCCTTAAA
1 CAGTAGCAATATGGGCCTAAGCCTTATTCAGTAACAGTACAGTCTGGGCCTTAGCCCTTAAA
8099772 CAGTAGCAATATGGGCCTAAGCCTTATTCAGTAACAGTACAGTCTGGGCCTTAGCCCTTAAA
1 CAGTAGCAATATGGGCCTAAGCCTTATTCAGTAACAGTACAGTCTGGGCCTTAGCCCTTAAA
*
8099834 CAGTAGCAATATGGGCTTAAGCC
1 CAGTAGCAATATGGGCCTAAGCC
8099857 CAAATTCAGT
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
61 5 0.06
62 74 0.94
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (62 bp):
CAGTAGCAATATGGGCCTAAGCCTTATTCAGTAACAGTACAGTCTGGGCCTTAGCCCTTAAA
Found at i:8099837 original size:28 final size:28
Alignment explanation
Indices: 8099746--8099838 Score: 87
Period size: 33 Copynumber: 3.1 Consensus size: 28
8099736 TTCAGTAACG
*
8099746 GTACAGTCTGGGCTTTAGCCCTTAAACA
1 GTACAGTCTGGGCCTTAGCCCTTAAACA
* * * *
8099774 GTAGCAATATGGGCCTAAGCCTTATTCAGTAACA
1 GTA-CAGTCTGGGCCTTAGCC--CTT-A--AACA
8099808 GTACAGTCTGGGCCTTAGCCCTTAAACA
1 GTACAGTCTGGGCCTTAGCCCTTAAACA
8099836 GTA
1 GTA
8099839 GCAATATGGG
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
28 10 0.20
29 13 0.26
30 1 0.02
31 4 0.08
32 1 0.02
33 14 0.28
34 7 0.14
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (28 bp):
GTACAGTCTGGGCCTTAGCCCTTAAACA
Found at i:8099852 original size:28 final size:29
Alignment explanation
Indices: 8099754--8099857 Score: 95
Period size: 29 Copynumber: 3.4 Consensus size: 29
8099744 CGGTACAGTC
*
8099754 TGGGCTTTAGCCCTTAAACAGTAGCAATA
1 TGGGCCTTAGCCCTTAAACAGTAGCAATA
* * * *
8099783 TGGGCCTAAGCCTTATTCAGTAACAGTA-CAGTC
1 TGGGCCTTAGCC--CTT-A--AACAGTAGCAATA
8099816 TGGGCCTTAGCCCTTAAACAGTAGCAATA
1 TGGGCCTTAGCCCTTAAACAGTAGCAATA
8099845 TGGG-CTTAAGCCC
1 TGGGCCTT-AGCCC
8099858 AAATTCAGTC
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
28 10 0.17
29 22 0.37
30 1 0.02
31 4 0.07
32 1 0.02
33 14 0.24
34 7 0.12
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (29 bp):
TGGGCCTTAGCCCTTAAACAGTAGCAATA
Found at i:8100182 original size:25 final size:25
Alignment explanation
Indices: 8100145--8100214 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
8100135 CTCTTTTAAT
*
8100145 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
8100170 AACTGGGGTAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
8100195 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
8100215 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:8101177 original size:27 final size:27
Alignment explanation
Indices: 8101147--8101253 Score: 92
Period size: 27 Copynumber: 3.9 Consensus size: 27
8101137 GTAAATCTAC
8101147 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
***
8101174 AAACCATTTGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTT-TAGTAATTTTGT
* *
8101200 AGAAAGTCAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTTAGTAATTTTGT
* * *
8101230 AAATCAGGGGTATTTTGGTAATTT
1 AAACCAAGGGTATTTTAGTAATTT
8101254 AACAAATTGA
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
26 1 0.02
27 38 0.59
28 9 0.14
29 15 0.23
30 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.45
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTGT
Found at i:8101260 original size:27 final size:27
Alignment explanation
Indices: 8101210--8101366 Score: 140
Period size: 27 Copynumber: 5.8 Consensus size: 27
8101200 AGAAAGTCAA
* ***
8101210 GGGTATTTTTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTAACAAATCAG
*
8101237 GGGTATTTTGGTAATTTAACAAAT-TG
1 GGGTATTTTGGTAATTTAACAAATCAG
* * *
8101263 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTAACAAATCAG
* *
8101291 TGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTAACAAATC-AG
* *
8101318 GGGTATTTTGGTAATTCTACCATAT-AG
1 GGGTATTTTGGTAATT-TAACAAATCAG
* *
8101345 GGGTATTTTAGTAATTTCACAA
1 GGGTATTTTGGTAATTTAACAA
8101367 TCGAGGGTAA
Statistics
Matches: 105, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
26 5 0.05
27 95 0.90
28 5 0.05
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTAACAAATCAG
Found at i:8101328 original size:81 final size:81
Alignment explanation
Indices: 8101211--8101366 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 81
8101201 GAAAGTCAAG
* ** * *
8101211 GGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATT-TAACAAATTGAGGGTATTTCGG
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTAACAAATAG-GGGTATTTCAG
8101275 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGT
* * *
8101292 GGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTCTACCATATAGGGGTATTTTAG
1 GGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTCTAACAAATAGGGGTATTTCAG
8101356 TAATTTCACAA
65 TAATTTCACAA
8101367 TCGAGGGTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
80 1 0.02
81 57 0.88
82 7 0.11
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTAACAAATAGGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:8101437 original size:27 final size:27
Alignment explanation
Indices: 8101365--8102075 Score: 794
Period size: 27 Copynumber: 26.4 Consensus size: 27
8101355 GTAATTTCAC
*
8101365 AATCGAGGGTAAAACGATAA-TTCGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* * ***
8101391 ACTTGA-GGTAAAACGATAATTCCATA
1 AATCGAGGGTAAAACGATAATTTTGTA
* * *
8101417 AATCGAGGGTAAAA-TAGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTTTGTA
8101444 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* *
8101471 AATCGATGGTAAAACGATAATTTCGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* * *
8101498 AATCGAGGGTAAAA-TAGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTTTGTA
8101525 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* *
8101552 AATCGATGGTAAAACGATAATTTCGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* * *
8101579 AATCGAGGGTAAAA-TAGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTTTGTA
8101606 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* *
8101633 AATCGATGGTAAAACGATAATTTCGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* * *
8101660 AATCGAGGGTAAAA-TAGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTTTGTA
8101687 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* *
8101714 AATCGATGGTAAAACGATAATTTCGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* * *
8101741 AATCGAGGGTAAAA-TAGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTTTGTA
8101768 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* *
8101795 AATCGATGGTAAAACGATAATTTCGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* * *
8101822 AATCGAGGGTAAAA-TAGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTTTGTA
8101849 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* *
8101876 AATCGATGGTAAAACGATAATTTCGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* * *
8101903 AATCGAGGGTAAAA-TAGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTTTGTA
* * * *
8101930 AATTGAGGGTAAAAGGGTAATTCTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
**
8101957 AATCGAGGGTAAAACGGCAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* * * *
8101984 AATCAATGGTAAAAC-AGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTTTGTA
* * *
8102011 AATCAAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTTTGTA
* *
8102038 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
8102065 AATCGAGGGTA
1 AATCGAGGGTA
8102076 CTTTGGTAAT
Statistics
Matches: 581, Mismatches: 86, Indels: 35
0.83 0.12 0.05
Matches are distributed among these distances:
25 13 0.02
26 19 0.03
27 542 0.93
28 7 0.01
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTTTGTA
Found at i:8102086 original size:81 final size:81
Alignment explanation
Indices: 8101365--8102075 Score: 1203
Period size: 81 Copynumber: 8.8 Consensus size: 81
8101355 GTAATTTCAC
* * * * *
8101365 AATCGAGGGTAAAACGATAA-TTCGTAACTTGA-GGTAAAACGATAATTCCATAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
8101428 AAATAGTAATTCTATA
66 AAATAGTAATTCTATA
8101444 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
8101509 AAATAGTAATTCTATA
66 AAATAGTAATTCTATA
8101525 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
8101590 AAATAGTAATTCTATA
66 AAATAGTAATTCTATA
8101606 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
8101671 AAATAGTAATTCTATA
66 AAATAGTAATTCTATA
8101687 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
8101752 AAATAGTAATTCTATA
66 AAATAGTAATTCTATA
8101768 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
8101833 AAATAGTAATTCTATA
66 AAATAGTAATTCTATA
8101849 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
8101914 AAATAGTAATTCTATA
66 AAATAGTAATTCTATA
* * * * * ** * * *
8101930 AATTGAGGGTAAAAGGGTAATTCTGTAAATCGAGGGTAAAACGGCAATTTTGTAAATCAATGGTA
1 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
*
8101995 AAACAGTAATTCTATA
66 AAATAGTAATTCTATA
* * * * *
8102011 AATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAA-TTCTGTAAATCGAGGGT
1 AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTC-GTAAATCGAGGGT
8102075 A
65 A
8102076 CTTTGGTAAT
Statistics
Matches: 604, Mismatches: 25, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
79 20 0.03
80 11 0.02
81 573 0.95
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAACGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
AAATAGTAATTCTATA
Found at i:8105276 original size:39 final size:38
Alignment explanation
Indices: 8105186--8105285 Score: 103
Period size: 39 Copynumber: 2.6 Consensus size: 38
8105176 ACACTGGCAT
* *
8105186 GAAGCCTACTAGGCATCAAGCCCGATAAACACCGACAC
1 GAAGCCTACTAGGCTTAAAGCCCGATAAACACCGACAC
** * *
8105224 GAAGCCTGTTAGGCTTAAAGCCTGATAAGTCACC-AGCAC
1 GAAGCCTACTAGGCTTAAAGCCCGATAA-ACACCGA-CAC
* *
8105263 GAGGCCTACTAGGCTTAAGGCCC
1 GAAGCCTACTAGGCTTAAAGCCC
8105286 AATACAATAC
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
38 24 0.49
39 25 0.51
ACGTcount: A:0.31, C:0.30, G:0.23, T:0.16
Consensus pattern (38 bp):
GAAGCCTACTAGGCTTAAAGCCCGATAAACACCGACAC
Done.