Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168071.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_32, 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: 761692
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 8 of 17
Found at i:296217 original size:21 final size:20
Alignment explanation
Indices: 296187--296226 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
296177 TAAAATAAAT
296187 TAATATTATAGA-TAATATTA
1 TAATATTATA-ATTAATATTA
296207 TAATAATTATAATTAATATT
1 TAAT-ATTATAATTAATATT
296227 TAACCTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAATATTATAATTAATATTA
Found at i:296327 original size:12 final size:15
Alignment explanation
Indices: 296296--296326 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
296286 TATGTTATAC
296296 TATAATAATAAATAA
1 TATAATAATAAATAA
296311 TATAATAATAAA-AA
1 TATAATAATAAATAA
296325 TA
1 TA
296327 ACTTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TATAATAATAAATAA
Found at i:296401 original size:19 final size:19
Alignment explanation
Indices: 296359--296436 Score: 70
Period size: 21 Copynumber: 3.9 Consensus size: 19
296349 ATAATTAAGT
296359 TAATATTA-TAATTATTTAATA
1 TAATATTATTAA-TA-TT-ATA
*
296380 TAATATTATTCATATTATA
1 TAATATTATTAATATTATA
*
296399 TAATTGTTATTAATAATTATA
1 TAA-TATTATTAAT-ATTATA
*
296420 -AATATAATTAATATTAT
1 TAATATTATTAATATTAT
296437 TATAGTAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
18 5 0.10
19 14 0.29
20 12 0.24
21 16 0.33
22 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (19 bp):
TAATATTATTAATATTATA
Found at i:296566 original size:15 final size:15
Alignment explanation
Indices: 296548--296576 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
296538 TGAATAGATA
296548 ATATTAAAATATATC
1 ATATTAAAATATATC
296563 ATATTAAAATATAT
1 ATATTAAAATATAT
296577 TAATTAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATTAAAATATATC
Found at i:296698 original size:15 final size:15
Alignment explanation
Indices: 296655--296698 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
296645 CAATAATTGT
296655 AATTA-TAATTATTA
1 AATTATTAATTATTA
* * *
296669 TATTATCAATAATTA
1 AATTATTAATTATTA
296684 AATTATTAATTATTA
1 AATTATTAATTATTA
296699 CAAATTGTCA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTATTAATTATTA
Found at i:297007 original size:16 final size:16
Alignment explanation
Indices: 296986--297020 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
296976 AATTATAATA
296986 ATATTAACTTAATATT
1 ATATTAACTTAATATT
*
297002 ATATTAATTTAATATT
1 ATATTAACTTAATATT
297018 ATA
1 ATA
297021 ATTGTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATTAACTTAATATT
Found at i:297093 original size:20 final size:22
Alignment explanation
Indices: 297070--297110 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
297060 TGATTAATAT
297070 ATTAATTAT-A-AAATATTATA
1 ATTAATTATCATAAATATTATA
297090 ATTAATTATCATAAATATTAT
1 ATTAATTATCATAAATATTAT
297111 TAATATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 1 0.05
22 9 0.47
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTAATTATCATAAATATTATA
Found at i:297527 original size:26 final size:25
Alignment explanation
Indices: 297498--297554 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
297488 TTTAATTAGG
297498 TTAATAAAATTATAATTA-ATATTAAA
1 TTAATAAAATTAT--TTATATATTAAA
*
297524 TTAATTAAATTATTTATATATTAAA
1 TTAATAAAATTATTTATATATTAAA
*
297549 TCAATA
1 TTAATA
297555 TTAATTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 3 0.11
25 12 0.44
26 12 0.44
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAATAAAATTATTTATATATTAAA
Found at i:297604 original size:17 final size:18
Alignment explanation
Indices: 297574--297619 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
297564 TTTAATAAAT
*
297574 TATTGATTATAATTTATAA
1 TATTTATTATAATTT-TAA
297593 -ATTTATTA-AATTTTAA
1 TATTTATTATAATTTTAA
297609 TATTTATTATA
1 TATTTATTATA
297620 TTATTATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 3 0.12
17 13 0.54
18 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTTATTATAATTTTAA
Found at i:298065 original size:36 final size:37
Alignment explanation
Indices: 297920--298065 Score: 83
Period size: 39 Copynumber: 3.8 Consensus size: 37
297910 AATAATATAC
*
297920 AAATAATTT-ATACTATT-ATATATAATATAATTAATTAA
1 AAATAATTTAATA--ATTAATATATAATTTAATT-ATTAA
* **
297958 CAATAATTTAAAATAATTTAA-ATAATAGCTT-ATTATTAA
1 AAATAATTT--AATAA-TTAATAT-ATAATTTAATTATTAA
*
297997 ATTTAATAAATTATCATAA-TAATAT-TAA-TTAATTATTAA
1 A---AAT-AATT-TAATAATTAATATATAATTTAATTATTAA
298036 AAATAATTT-ATAATTAATATATAATTTAAT
1 AAATAATTTAATAATTAATATATAATTTAAT
298066 AAATAATTAT
Statistics
Matches: 85, Mismatches: 7, Indels: 34
0.67 0.06 0.27
Matches are distributed among these distances:
33 4 0.05
34 7 0.08
35 7 0.08
36 8 0.09
38 10 0.12
39 17 0.20
40 10 0.12
41 10 0.12
42 7 0.08
43 4 0.05
44 1 0.01
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.45
Consensus pattern (37 bp):
AAATAATTTAATAATTAATATATAATTTAATTATTAA
Found at i:298068 original size:62 final size:58
Alignment explanation
Indices: 297994--298152 Score: 167
Period size: 62 Copynumber: 2.6 Consensus size: 58
297984 AGCTTATTAT
* *
297994 TAAATTTAATAAATTATCATAATAATATTAATTAATTATTAAAAATAATTTATAATTAATA
1 TAAATTTAATAAATTATTATAATATTATTAATTAATT-TTAAAAATAATTTAT-A-TAATA
* * * * *
298055 TATAATTTAATAAATAATTATAATTATTTTTATATTAA-TTTATAATTAATTTATATAATT
1 TA-AATTTAATAAATTATTATAA-TATTATTA-ATTAATTTTAAAAATAATTTATATAATA
*
298115 TAAATATAATAAATTATTTATTAATATTATTAATTAAT
1 TAAATTTAATAAATTA-TTA-TAATATTATTAATTAAT
298153 CAGTATAAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
59 17 0.21
60 16 0.20
61 6 0.07
62 31 0.38
63 7 0.09
64 5 0.06
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (58 bp):
TAAATTTAATAAATTATTATAATATTATTAATTAATTTTAAAAATAATTTATATAATA
Found at i:298079 original size:53 final size:52
Alignment explanation
Indices: 298014--298138 Score: 141
Period size: 51 Copynumber: 2.4 Consensus size: 52
298004 AAATTATCAT
298014 AATAATATTAATTAATTATTAAAAATAATTTATAATTAA-TATATAATTTAATA
1 AATAATA-TAATTAATTATTAAAAATAATTTATAATTAATTATATAATTTAA-A
* * *
298067 AATAATTATAATT-ATT-TTTATATTAATTTATAATTAATTTATATAATTTAAA
1 AATAA-TATAATTAATTATTAAAAATAATTTATAATTAA-TTATATAATTTAAA
* *
298119 TATAATA-AATTATTTATTAA
1 AATAATATAATTAATTATTAA
298139 TATTATTAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
50 4 0.07
51 22 0.36
52 11 0.18
53 22 0.36
54 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (52 bp):
AATAATATAATTAATTATTAAAAATAATTTATAATTAATTATATAATTTAAA
Found at i:298100 original size:22 final size:20
Alignment explanation
Indices: 298068--298116 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
298058 AATTTAATAA
*
298068 ATAA-TTATAATTATTTTTAT
1 ATAATTTATAATTA-ATTTAT
298088 ATTAATTTATAATTAATTTAT
1 A-TAATTTATAATTAATTTAT
298109 ATAATTTA
1 ATAATTTA
298117 AATATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 9 0.35
22 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATAATTTATAATTAATTTAT
Found at i:298255 original size:30 final size:31
Alignment explanation
Indices: 298216--298279 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
298206 ATAACTATTA
* * *
298216 TTACTTAATATTATA-AATTAAGTTATATAAT
1 TTACTTAATAATATATAAGTAAATTATAT-AT
298247 TTAC-TAATAATATATAAGTAAATTATATAT
1 TTACTTAATAATATATAAGTAAATTATATAT
298277 TTA
1 TTA
298280 GAACTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
TTACTTAATAATATATAAGTAAATTATATAT
Found at i:298665 original size:11 final size:12
Alignment explanation
Indices: 298588--298689 Score: 51
Period size: 11 Copynumber: 9.0 Consensus size: 12
298578 ACAAAATTGA
*
298588 TAATAATATTAT
1 TAATAATATAAT
*
298600 TAAATTAGTACTAAT
1 T-AA-TAATA-TAAT
*
298615 TACTAAT-T-AT
1 TAATAATATAAT
* *
298625 TAATTATA-AAA
1 TAATAATATAAT
298636 TAATAA-ATAA-
1 TAATAATATAAT
*
298646 T-ATAGTATAAT
1 TAATAATATAAT
298657 T-ATAATAT-AT
1 TAATAATATAAT
298667 TAATAAT-TAAT
1 TAATAATATAAT
*
298678 TAATTATATAAT
1 TAATAATATAAT
298690 AAATTTATTA
Statistics
Matches: 68, Mismatches: 11, Indels: 22
0.67 0.11 0.22
Matches are distributed among these distances:
9 3 0.04
10 17 0.25
11 29 0.43
12 5 0.07
13 5 0.07
14 5 0.07
15 4 0.06
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (12 bp):
TAATAATATAAT
Found at i:298694 original size:16 final size:16
Alignment explanation
Indices: 298635--298717 Score: 59
Period size: 16 Copynumber: 5.2 Consensus size: 16
298625 TAATTATAAA
298635 ATAATAAA-TAATATAGT
1 ATAATAAATTAAT-TA-T
298652 ATAATTATAA-TATATTA-
1 ATAA-TA-AATTA-ATTAT
*
298669 ATAATTAATTAATTAT
1 ATAATAAATTAATTAT
*
298685 ATAATAAATTTATTAT
1 ATAATAAATTAATTAT
*
298701 ATAA-ATATTAATT-T
1 ATAATAAATTAATTAT
298715 ATA
1 ATA
298718 TTTAAATTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
14 4 0.07
15 13 0.23
16 21 0.38
17 8 0.14
18 2 0.04
19 6 0.11
20 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (16 bp):
ATAATAAATTAATTAT
Found at i:298699 original size:20 final size:20
Alignment explanation
Indices: 298613--298691 Score: 59
Period size: 17 Copynumber: 4.4 Consensus size: 20
298603 ATTAGTACTA
*
298613 ATTACTAATT-ATTAATTAT
1 ATTAATAATTAATTAATTAT
* *
298632 A-AAATAA-TAAATAA-TAT
1 ATTAATAATTAATTAATTAT
*
298649 AGT-ATAATT-A-TAA-TAT
1 ATTAATAATTAATTAATTAT
298665 ATTAATAATTAATTAATTAT
1 ATTAATAATTAATTAATTAT
298685 A-TAATAA
1 ATTAATAA
298692 ATTTATTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
16 8 0.17
17 16 0.33
18 10 0.21
19 10 0.21
20 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (20 bp):
ATTAATAATTAATTAATTAT
Found at i:298731 original size:18 final size:20
Alignment explanation
Indices: 298689--298731 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
298679 AATTATATAA
298689 TAAATTTATTATATAAATAT
1 TAAATTTATTATATAAATAT
*
298709 T-AATTTA-TATTTAAAT-T
1 TAAATTTATTATATAAATAT
298726 TAAATT
1 TAAATT
298732 ATCTAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.10
18 12 0.57
19 6 0.29
20 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAAATTTATTATATAAATAT
Found at i:298745 original size:25 final size:24
Alignment explanation
Indices: 298679--298753 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 24
298669 ATAATTAATT
* *
298679 AATTATATAATA-AATTTATTATATA
1 AATTAT-TAATATAATTTA-AATTTA
*
298704 AA-TATTAATTTATATTTAAATTTA
1 AATTATTAATATA-ATTTAAATTTA
*
298728 AATTATCTAATATAATTTAAAATTA
1 AATTAT-TAATATAATTTAAATTTA
298753 A
1 A
298754 TATAGTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
23 4 0.10
24 10 0.24
25 21 0.51
26 6 0.15
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (24 bp):
AATTATTAATATAATTTAAATTTA
Found at i:298746 original size:19 final size:19
Alignment explanation
Indices: 298722--298776 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
298712 TTTATATTTA
298722 AATTTAAATTATCTAATAT
1 AATTTAAATTATCTAATAT
298741 AATTTAAA--AT-TAATAT
1 AATTTAAATTATCTAATAT
*
298757 AGTTATTAAATT-TCTAATAT
1 A-AT-TTAAATTATCTAATAT
298777 TATATATGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
16 7 0.23
17 3 0.10
18 5 0.17
19 9 0.30
20 6 0.20
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (19 bp):
AATTTAAATTATCTAATAT
Found at i:300090 original size:13 final size:14
Alignment explanation
Indices: 300072--300103 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
300062 AATTCTTATG
300072 ATTTAAA-TATATA
1 ATTTAAATTATATA
300085 ATTTAAATTATATA
1 ATTTAAATTATATA
300099 ATTTA
1 ATTTA
300104 TTAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTAAATTATATA
Found at i:300185 original size:16 final size:16
Alignment explanation
Indices: 300164--300209 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
300154 TTCAAACAAA
300164 AATTTTAAATAATTTT
1 AATTTTAAATAATTTT
* *
300180 AATTTTAATTCATTTT
1 AATTTTAAATAATTTT
300196 AATTATATAAATAA
1 AATT-T-TAAATAA
300210 ATTAAGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 18 0.75
17 1 0.04
18 5 0.21
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTTAAATAATTTT
Found at i:300343 original size:22 final size:23
Alignment explanation
Indices: 300297--300345 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
300287 TTAAGAATAT
* * *
300297 TTAATTAAATATTTATATTTGAA
1 TTAATTAAATATTTAAATATAAA
300320 TTAATTAAA-ATTTAAATATAAA
1 TTAATTAAATATTTAAATATAAA
300342 TTAA
1 TTAA
300346 ACTAATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TTAATTAAATATTTAAATATAAA
Found at i:300482 original size:15 final size:13
Alignment explanation
Indices: 300449--300487 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
300439 AACTACATAA
300449 TATAATTATAAAT
1 TATAATTATAAAT
300462 TATAATTATGATAAT
1 TATAATTAT-A-AAT
*
300477 TGTAATTATAA
1 TATAATTATAA
300488 GTTTTTAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 10 0.43
14 2 0.09
15 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (13 bp):
TATAATTATAAAT
Found at i:300660 original size:13 final size:14
Alignment explanation
Indices: 300615--300658 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
300605 GAATATGAAT
300615 AATTAAAAT-TTTAA
1 AATTAAAATATTT-A
*
300629 AATTTTAAATATTTA
1 AA-TTAAAATATTTA
300644 AATTAAAATATTTA
1 AATTAAAATATTTA
300658 A
1 A
300659 TTTTTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 14 0.54
15 9 0.35
16 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTAAAATATTTA
Found at i:300663 original size:29 final size:28
Alignment explanation
Indices: 300615--300672 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
300605 GAATATGAAT
300615 AATTAAAATTTTAAAATTTTAAATATTTA
1 AATTAAAATTTTAAAATTTT-AATATTTA
* *
300644 AATTAAAATATTT-AATTTTTATTATTTA
1 AATTAAAAT-TTTAAAATTTTAATATTTA
300672 A
1 A
300673 GTATCGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 8 0.31
29 15 0.58
30 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
AATTAAAATTTTAAAATTTTAATATTTA
Found at i:300937 original size:23 final size:21
Alignment explanation
Indices: 300903--300956 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 21
300893 ATTACACAAT
*
300903 TTATATTATTATAAATTAATA
1 TTATATTATTATAAATAAATA
300924 TTATACTTAATTATAAATAAATA
1 TTATA-TT-ATTATAAATAAATA
*
300947 ATATATTATT
1 TTATATTATT
300957 TCCTAAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 8 0.28
22 4 0.14
23 17 0.59
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATATTATTATAAATAAATA
Found at i:301164 original size:18 final size:18
Alignment explanation
Indices: 301143--301208 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
301133 ACACTAATTT
* * *
301143 ATTAAATTATTTTGTTTA
1 ATTAAATTATTATATTAA
301161 ATTAAAATTATTATATTAA
1 ATT-AAATTATTATATTAA
301180 ATTAAA-TATTA-ATT-A
1 ATTAAATTATTATATTAA
301195 ATTATATATTATTA
1 ATTA-A-ATTATTA
301209 ATTTACTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
15 5 0.12
16 4 0.10
17 6 0.15
18 11 0.27
19 15 0.37
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTAAATTATTATATTAA
Found at i:301208 original size:30 final size:30
Alignment explanation
Indices: 301166--301260 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
301156 GTTTAATTAA
301166 AATTAT-TA-TATTAAATTAAATATTAATT
1 AATTATATATTATTAAATTAAATATTAATT
* * *
301194 AATTATATATTATT-AATTTACTAATTAATA
1 AATTATATATTATTAAATTAAAT-ATTAATT
*
301224 AATGT-TA-ATTAATAAATTAACTAATATTAATT
1 AAT-TATATATTATTAAATT-A--AATATTAATT
301256 AATTA
1 AATTA
301261 CAATAATTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
28 6 0.12
29 13 0.25
30 19 0.37
31 2 0.04
32 9 0.18
33 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (30 bp):
AATTATATATTATTAAATTAAATATTAATT
Found at i:301209 original size:18 final size:16
Alignment explanation
Indices: 301158--301211 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 16
301148 ATTATTTTGT
301158 TTAATTAAAATTATTATA
1 TTAATT-AAATTATTA-A
301176 TTAAATTAAA-TATTAA
1 TT-AATTAAATTATTAA
301192 TTAATTATATATTATTAA
1 TTAATTA-A-ATTATTAA
301210 TT
1 TT
301212 TACTAATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.16
16 4 0.12
17 6 0.19
18 13 0.41
19 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATTAAATTATTAA
Found at i:301974 original size:178 final size:178
Alignment explanation
Indices: 301406--301985 Score: 532
Period size: 180 Copynumber: 3.2 Consensus size: 178
301396 AATTTACAAT
* * * ** *
301406 GATTTTAAATAGATAATTGTTCAAATAGTAATAACTATTTGAACT-CGTTCGGTAAACAAATTTA
1 GATTTGAAATAGATAATTATTCAAATAGTCATAACTATTAAAACTGC-TTC-GAAAACAAATTTA
* * * * **
301470 GTTTTTCAAATATCCTGCTTATTAATCTTTCAAAA-GTTAATAAATTAGTATTATTTTTTTTTAA
64 GTTTTT-AAATCTCTTGCTTATTAAT-TTTTAAAATGTTAATAAATTAGTATTATTTTATTCCAA
* *
301534 TAAGCTTATATGAACTGAAACAATTATTTTATGATTAAACAAAA-AGTCAAAAC
127 TAAGCTTATATGAACTGAAACAATTGTTTTATGATCAAA-AAAAGA-TCAAAAC
* * * ** * * *
301587 GATTTGAAATAGATAATTATTCTAATAATCTTAACTATTTGAACTG-ATCGACAAACATATTTAT
1 GATTTGAAATAGATAATTATTCAAATAGTCATAACTATTAAAACTGCTTCGA-AAACAAATTTAG
* * * *
301651 TTTTTAAATCTCTTACTTATTAATTTTTAAAATATTATTAAATTAGTATTATTTTTATTTGC-AT
65 TTTTTAAATCTCTTGCTTATTAATTTTTAAAATGTTAATAAATTAGTATTA-TTTTA-TTCCAAT
* *** *
301715 CAGCTTATATGATAAAAAAACAATTGTTTTATGA-CAAAACAAAGATCATAAC
128 AAGCTTATATGA-ACTGAAACAATTGTTTTATGATCAAAA-AAAGATCAAAAC
* * * * * **
301767 GATTTGTGATTA-ATATTTGTTCAAATAGTCATAACTATTAAAACTGCTTTGAAAACAGCTTTAG
1 GATTTG-AAATAGATAATTATTCAAATAGTCATAACTATTAAAACTGCTTCGAAAACAAATTTAG
**
301831 TTTTTAAATCTCTTGC-T-TTAATTTTTTGAATGTTAATAAATTAGTATTATTTTATTCCAAATA
65 TTTTTAAATCTCTTGCTTATTAATTTTTAAAATGTTAATAAATTAGTATTATTTTATTCC-AATA
* * * * *
301894 AGCTTGTATGAACTGAAATAATTGTTTTATGACTCAAGAAAAGGAT-AGAAT
129 AGCTTATATGAACTGAAACAATTGTTTTATGA-TCAA-AAAAAGATCAAAAC
* *
301945 GATTTGAAATAGATAATTATTCTAATAGTCTTAACTATTAA
1 GATTTGAAATAGATAATTATTCAAATAGTCATAACTATTAA
301986 TTTATAATTA
Statistics
Matches: 322, Mismatches: 61, Indels: 35
0.77 0.15 0.08
Matches are distributed among these distances:
176 3 0.01
177 25 0.08
178 81 0.25
179 43 0.13
180 105 0.33
181 65 0.20
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (178 bp):
GATTTGAAATAGATAATTATTCAAATAGTCATAACTATTAAAACTGCTTCGAAAACAAATTTAGT
TTTTAAATCTCTTGCTTATTAATTTTTAAAATGTTAATAAATTAGTATTATTTTATTCCAATAAG
CTTATATGAACTGAAACAATTGTTTTATGATCAAAAAAAGATCAAAAC
Found at i:302110 original size:15 final size:15
Alignment explanation
Indices: 302090--302141 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
302080 AATTGTCTAT
302090 ATATTATAATTATTA
1 ATATTATAATTATTA
302105 ATATTATAATT-TATA
1 ATATTATAATTAT-TA
* *
302120 ACAATTA-AATTAATA
1 A-TATTATAATTATTA
302135 ATATTAT
1 ATATTAT
302142 TGATTTGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
14 5 0.17
15 21 0.70
16 4 0.13
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATTATAATTATTA
Found at i:302404 original size:16 final size:15
Alignment explanation
Indices: 302377--302408 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
302367 CTTGATTAAC
302377 ATTATTATTTATAAT
1 ATTATTATTTATAAT
302392 ATTATTAATTTATAAT
1 ATTATT-ATTTATAAT
302408 A
1 A
302409 ATTTCTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTATTATTTATAAT
Found at i:302498 original size:18 final size:17
Alignment explanation
Indices: 302477--302533 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
302467 TAGTTACAAC
302477 TAATTATAATATAATTAT
1 TAATTATAATATAA-TAT
*
302495 TAATAATAACTATAA-AT
1 TAATTATAA-TATAATAT
*
302512 TAATTATATTATAATAAT
1 TAATTATAATATAAT-AT
302530 TAAT
1 TAAT
302534 AAACTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 5 0.15
17 9 0.27
18 14 0.42
19 5 0.15
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATTATAATATAATAT
Found at i:302544 original size:35 final size:34
Alignment explanation
Indices: 302451--302563 Score: 85
Period size: 35 Copynumber: 3.3 Consensus size: 34
302441 TTTAAATTCT
* *
302451 TAATAATTTAATAAATTAGT-TACAACTAATTATAATA
1 TAATAA-TTAATAAA-TACTATA-AA-TAATTATATTA
*
302488 TAATTATTAAT-AATAACTATAAATTAATTATATTA
1 TAATAATTAATAAAT-ACTATAAA-TAATTATATTA
302523 TAATAATTAAT-AA-ACTATATAATAATT-TATTA
1 TAATAATTAATAAATACTATA-AATAATTATATTA
*
302555 TTAT-ATTAA
1 TAATAATTAA
302564 AAAAATCTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
31 5 0.07
32 8 0.12
33 11 0.16
34 3 0.04
35 28 0.42
36 7 0.10
37 5 0.07
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (34 bp):
TAATAATTAATAAATACTATAAATAATTATATTA
Found at i:303760 original size:16 final size:17
Alignment explanation
Indices: 303728--303760 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
303718 TGTTTAGTCA
303728 AATAATTATAACTATTTG
1 AATAATTAT-ACTATTTG
303746 AATAATTAT-CTATTT
1 AATAATTATACTATTT
303761 TAAATCGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:304324 original size:13 final size:12
Alignment explanation
Indices: 304278--304326 Score: 64
Period size: 12 Copynumber: 4.1 Consensus size: 12
304268 CAATGGTTAA
*
304278 AATTATCAGAAT
1 AATTATCATAAT
304290 AATTATC-TAAT
1 AATTATCATAAT
304301 AATTATCATAAT
1 AATTATCATAAT
*
304313 ATATTATTATAAT
1 A-ATTATCATAAT
304326 A
1 A
304327 CTATAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
11 10 0.30
12 12 0.36
13 11 0.33
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (12 bp):
AATTATCATAAT
Found at i:304770 original size:21 final size:23
Alignment explanation
Indices: 304736--304781 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
304726 GATAATATCA
304736 ATTTAATATTCAAATATT-AATT
1 ATTTAATATTCAAATATTAAATT
304758 ATTTAAT-TTCAAATATTAAATT
1 ATTTAATATTCAAATATTAAATT
304780 AT
1 AT
304782 AAATAATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTAATATTCAAATATTAAATT
Found at i:304805 original size:19 final size:20
Alignment explanation
Indices: 304774--304811 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
304764 TTTCAAATAT
304774 TAAATTATAAATAA-TTGAA
1 TAAATTATAAATAACTTGAA
304793 TAAA-TATATAATAACTTGA
1 TAAATTATA-AATAACTTGA
304812 TGCATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (20 bp):
TAAATTATAAATAACTTGAA
Found at i:304867 original size:19 final size:20
Alignment explanation
Indices: 304845--304931 Score: 69
Period size: 22 Copynumber: 4.3 Consensus size: 20
304835 ATAACATAAC
304845 TTAATTATAATATAATTAT-
1 TTAATTATAATATAATTATA
304864 TTAATGT-T-A-ATAATTATA
1 TTAAT-TATAATATAATTATA
304882 TTAA-TATTAATA-AATTATATA
1 TTAATTA-TAATATAA-T-TATA
304903 TTAATTATAATTATAATTTATA
1 TTAATTATAA-TATAA-TTATA
*
304925 ATAATTA
1 TTAATTA
304932 CATCCTATAT
Statistics
Matches: 56, Mismatches: 1, Indels: 19
0.74 0.01 0.25
Matches are distributed among these distances:
16 1 0.02
17 8 0.14
18 6 0.11
19 9 0.16
20 3 0.05
21 11 0.20
22 14 0.25
23 4 0.07
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (20 bp):
TTAATTATAATATAATTATA
Found at i:304903 original size:15 final size:17
Alignment explanation
Indices: 304874--304931 Score: 63
Period size: 16 Copynumber: 3.7 Consensus size: 17
304864 TTAATGTTAA
304874 TAATTAT-ATTA-ATAT
1 TAATTATAATTATATAT
304889 TAA-TA-AATTATATAT
1 TAATTATAATTATATAT
304904 TAATTATAATTATA-AT
1 TAATTATAATTATATAT
* *
304920 TTATAATAATTA
1 TAATTATAATTA
304932 CATCCTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
14 6 0.16
15 10 0.27
16 14 0.38
17 7 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTATAATTATATAT
Found at i:305343 original size:21 final size:21
Alignment explanation
Indices: 305296--305350 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
305286 ATTTATAATA
305296 AACAATAATTTATTATATTCAT
1 AACAAT-ATTTATTATATTCAT
*
305318 -GCAATATTTATTATACTT-AT
1 AACAATATTTATTATA-TTCAT
305338 AACAATAGTTTAT
1 AACAATA-TTTAT
305351 ATAATAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 12 0.43
21 11 0.39
22 5 0.18
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (21 bp):
AACAATATTTATTATATTCAT
Found at i:305525 original size:12 final size:12
Alignment explanation
Indices: 305508--305562 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
305498 TATTTTAGTT
305508 TTAATATTTAAA
1 TTAATATTTAAA
305520 TTAATATTTAAAAA
1 TTAATATTT--AAA
*
305534 TTAAATATTTATA
1 TT-AATATTTAAA
*
305547 TT-ATATTTTAA
1 TTAATATTTAAA
305558 TTAAT
1 TTAAT
305563 TATATATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 9 0.25
12 11 0.31
13 4 0.11
14 5 0.14
15 7 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAATATTTAAA
Found at i:305570 original size:17 final size:17
Alignment explanation
Indices: 305548--305600 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
305538 ATATTTATAT
305548 TATATTTTAATTAATTA
1 TATATTTTAATTAATTA
*
305565 TATATTATAATTAAATTA
1 TATATTTTAATT-AATTA
* * *
305583 GAT-TATTATTTAATTA
1 TATATTTTAATTAATTA
305599 TA
1 TA
305601 ACAATTATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 6 0.21
17 16 0.55
18 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATTTTAATTAATTA
Found at i:305651 original size:31 final size:32
Alignment explanation
Indices: 305613--305689 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 32
305603 AATTATTTTA
*
305613 AATTTTAAATTAATAAGTAAA-AAT-TTTAATT
1 AATTTTAAATTAATAAATAAATAATATTTAA-T
*
305644 AATTTT-AATTATATAAATAAATTATATTTAAT
1 AATTTTAAATTA-ATAAATAAATAATATTTAAT
*
305676 -ATTTAAAATTAATA
1 AATTTTAAATTAATA
305690 TATATTATAG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
30 5 0.13
31 21 0.54
32 8 0.21
33 5 0.13
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (32 bp):
AATTTTAAATTAATAAATAAATAATATTTAAT
Found at i:306501 original size:13 final size:13
Alignment explanation
Indices: 306480--306513 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
306470 TTTATAATAC
306480 TAATAAATAATTGT
1 TAAT-AATAATTGT
*
306494 TAATAATAATTTT
1 TAATAATAATTGT
306507 TAATAAT
1 TAATAAT
306514 TTATAAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
TAATAATAATTGT
Found at i:307503 original size:18 final size:18
Alignment explanation
Indices: 307464--307506 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
307454 TTTATTTATT
* *
307464 TTAATTAACATTTAATAT
1 TTAATTAACAATTAATAA
307482 TTAATTAA-AATTAATTAA
1 TTAATTAACAATTAA-TAA
307500 TTAATTA
1 TTAATTA
307507 TAATAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATTAACAATTAATAA
Found at i:307912 original size:21 final size:21
Alignment explanation
Indices: 307888--307953 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
307878 ATTGTTAATA
307888 ATTAACAATAAAT-AATAATTT
1 ATTAA-AATAAATAAATAATTT
* *
307909 ATTAAATTTAATAAATAATTT
1 ATTAAAATAAATAAATAATTT
* *
307930 A-TAATATAATATAATTAA-TT
1 ATTAAAATAA-ATAAATAATTT
307950 ATTA
1 ATTA
307954 TTATATAGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
20 13 0.36
21 23 0.64
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAAAATAAATAAATAATTT
Found at i:307944 original size:24 final size:20
Alignment explanation
Indices: 307894--307950 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
307884 AATAATTAAC
307894 AATA-AATAATAATTTATTA
1 AATATAATAATAATTTATTA
*
307913 AATTTAATAAATAATTTA-T-
1 AATATAAT-AATAATTTATTA
*
307932 AATATAAT-ATAATTAATTA
1 AATATAATAATAATTTATTA
307951 TTATTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 7 0.23
18 1 0.03
19 10 0.32
20 4 0.13
21 9 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATAATAATAATTTATTA
Found at i:307958 original size:21 final size:20
Alignment explanation
Indices: 307895--307982 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 20
307885 ATAATTAACA
307895 ATAA-ATAATAATTTATTAAATT
1 ATAATATAATAA-TTATT--ATT
*
307917 -TAATA-AATAATT-TATAAT
1 ATAATATAATAATTAT-TATT
307935 ATAATATAATTAATTATTATT
1 ATAATATAA-TAATTATTATT
*
307956 ATATAGATAATAATTATTATT
1 ATA-ATATAATAATTATTATT
*
307977 TTAATA
1 ATAATA
307983 ATTTACAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
18 2 0.04
19 6 0.11
20 7 0.13
21 32 0.59
22 7 0.13
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (20 bp):
ATAATATAATAATTATTATT
Found at i:308254 original size:22 final size:22
Alignment explanation
Indices: 308228--308272 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
308218 TATGAGTGAA
**
308228 AATATAGATTATCTATATTTAT
1 AATATAGATTATAAATATTTAT
*
308250 AATATAGTTTATAAATATTTAT
1 AATATAGATTATAAATATTTAT
308272 A
1 A
308273 TTTTAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
AATATAGATTATAAATATTTAT
Found at i:308277 original size:17 final size:18
Alignment explanation
Indices: 308252--308285 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
308242 ATATTTATAA
308252 TATAGTTT-ATAAATATT
1 TATAGTTTAATAAATATT
*
308269 TATATTTTAATAAATAT
1 TATAGTTTAATAAATAT
308286 AATAAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TATAGTTTAATAAATATT
Found at i:309151 original size:30 final size:31
Alignment explanation
Indices: 309093--309156 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
309083 TATATAGTTC
* * *
309093 TAAATATATAATTTACTTATATATTATT-AG
1 TAAATATATAACTTAATTATATAATATTAAG
309123 TAAATTATATAACTTAATT-TATAATATTAAG
1 TAAA-TATATAACTTAATTATATAATATTAAG
309154 TAA
1 TAA
309157 TAATAGTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 12 0.41
31 17 0.59
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
TAAATATATAACTTAATTATATAATATTAAG
Found at i:309170 original size:10 final size:10
Alignment explanation
Indices: 309157--309181 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
309147 TATTAAGTAA
309157 TAATAGTTAT
1 TAATAGTTAT
309167 TAATAGTTAT
1 TAATAGTTAT
309177 TAATA
1 TAATA
309182 TTAATATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (10 bp):
TAATAGTTAT
Found at i:309313 original size:22 final size:22
Alignment explanation
Indices: 309271--309348 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 22
309261 ATTTATTTTA
309271 TATAA-ATTATTAT-AATT--T
1 TATAATATTATTATAAATTAAT
*
309289 TATAATCTTATTATAAATTAAT
1 TATAATATTATTATAAATTAAT
* * *
309311 TATAAAATTAATATAAAAATAAT
1 TATAATATTATTAT-AAATTAAT
309334 TATAATTATTTATTA
1 TATAA-TA-TTATTA
309349 AATATTATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
18 5 0.11
19 7 0.15
20 4 0.09
22 12 0.26
23 12 0.26
24 1 0.02
25 5 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (22 bp):
TATAATATTATTATAAATTAAT
Found at i:309316 original size:11 final size:11
Alignment explanation
Indices: 309271--309351 Score: 50
Period size: 11 Copynumber: 7.6 Consensus size: 11
309261 ATTTATTTTA
309271 TATAAATT-AT
1 TATAAATTAAT
309281 TAT-AATT--T
1 TATAAATTAAT
*
309289 TAT-AATCTTAT
1 TATAAAT-TAAT
309300 TATAAATTAAT
1 TATAAATTAAT
309311 TATAAAATTAA-
1 TAT-AAATTAAT
*
309322 TATAAAAATAAT
1 TAT-AAATTAAT
*
309334 TAT-AATTATT
1 TATAAATTAAT
309344 TATTAAAT
1 TA-TAAAT
309352 ATTATATATT
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
8 7 0.12
9 5 0.08
10 10 0.17
11 21 0.36
12 16 0.27
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (11 bp):
TATAAATTAAT
Found at i:309320 original size:12 final size:12
Alignment explanation
Indices: 309298--309375 Score: 60
Period size: 12 Copynumber: 7.0 Consensus size: 12
309288 TTATAATCTT
309298 ATTAT-AAATTA
1 ATTATAAAATTA
309309 ATTATAAAATTA
1 ATTATAAAATTA
*
309321 A-TATAAAAATA
1 ATTATAAAATTA
309332 ATTAT--AATTA
1 ATTATAAAATTA
* *
309342 TTTATTAAA-T-
1 ATTATAAAATTA
* *
309352 ATTATATATTTA
1 ATTATAAAATTA
*
309364 ATTACAAAATTA
1 ATTATAAAATTA
309376 TTTGTTTAAT
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
10 13 0.25
11 17 0.33
12 21 0.41
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (12 bp):
ATTATAAAATTA
Found at i:309350 original size:23 final size:22
Alignment explanation
Indices: 309282--309350 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 22
309272 ATAAATTATT
* *
309282 ATAATTTTATAATCTTATTATAAA
1 ATAATTATAAAAT-TTATTA-AAA
* *
309306 TTAATTATAAAATTAATATAAAA
1 ATAATTATAAAATTTAT-TAAAA
*
309329 ATAATTATAATTATTTATTAAA
1 ATAATTATAA-AATTTATTAAA
309351 TATTATATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
23 19 0.53
24 17 0.47
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAATTATAAAATTTATTAAAA
Found at i:310084 original size:29 final size:27
Alignment explanation
Indices: 310032--310085 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 27
310022 AATAATATTT
*
310032 AATTATTTAATATTTTAATCTATTAAC
1 AATTATTTAATATTTTAATATATTAAC
310059 AATTACTTTAAATATTTATAA-ATATTA
1 AATTA-TTT-AATATTT-TAATATATTA
310086 TTTATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 5 0.22
28 3 0.13
29 12 0.52
30 3 0.13
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (27 bp):
AATTATTTAATATTTTAATATATTAAC
Found at i:310298 original size:14 final size:15
Alignment explanation
Indices: 310275--310305 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
310265 ATTATAGATT
310275 TATAATTAATTAATA
1 TATAATTAATTAATA
310290 TATAA-TAATTAATA
1 TATAATTAATTAATA
310304 TA
1 TA
310306 CTATTTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAATTAATTAATA
Found at i:310515 original size:19 final size:20
Alignment explanation
Indices: 310473--310529 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 20
310463 GAACATGATA
*
310473 TTAATATAATTAATTAATAT
1 TTAATATAATTAATTAATAG
310493 TTAA-ATAATTAATTTAA-AG
1 TTAATATAATTAA-TTAATAG
* *
310512 TTAAT-TCATTTATTAATA
1 TTAATATAATTAATTAATA
310530 TTTTATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 4 0.13
19 19 0.61
20 8 0.26
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
TTAATATAATTAATTAATAG
Found at i:310787 original size:9 final size:9
Alignment explanation
Indices: 310773--310869 Score: 78
Period size: 9 Copynumber: 10.8 Consensus size: 9
310763 TAATAAGAGC
310773 ATATAATTA
1 ATATAATTA
310782 ATATAATTA
1 ATATAATTA
310791 AT-T-A-TA
1 ATATAATTA
*
310797 TTATAATTA
1 ATATAATTA
*
310806 ATATAATAA
1 ATATAATTA
*
310815 ATCTAATT-
1 ATATAATTA
310823 A-ATAATTA
1 ATATAATTA
310831 ATAATTAATTA
1 AT-A-TAATTA
310842 TATTATAATTA
1 -A-TATAATTA
*
310853 ATTTAATTTA
1 ATATAA-TTA
310863 ATATAAT
1 ATATAAT
310870 AATTATATCA
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
6 3 0.04
7 7 0.10
8 4 0.06
9 31 0.44
10 10 0.14
11 12 0.17
12 2 0.03
13 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (9 bp):
ATATAATTA
Found at i:310800 original size:47 final size:47
Alignment explanation
Indices: 310744--310859 Score: 134
Period size: 47 Copynumber: 2.5 Consensus size: 47
310734 ATATACTTAA
*
310744 AATT-TATTATTAAGTAATTTAATAAGAGC--A-T-ATAATTAATATAATT
1 AATTATATTA-TAATTAATTTAATAA-AGCTAATTAATAATT-A-ATAATT
* *
310790 AATTATATTATAATTAATATAATAAATCTAATTAATAATTAATAATT
1 AATTATATTATAATTAATTTAATAAAGCTAATTAATAATTAATAATT
310837 AATTATATTATAATTAATTTAAT
1 AATTATATTATAATTAATTTAAT
310860 TTAATATAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
45 2 0.03
46 17 0.28
47 34 0.56
48 2 0.03
49 6 0.10
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.46
Consensus pattern (47 bp):
AATTATATTATAATTAATTTAATAAAGCTAATTAATAATTAATAATT
Found at i:310810 original size:33 final size:33
Alignment explanation
Indices: 310773--310882 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 33
310763 TAATAAGAGC
310773 ATATAATTAATATAATTAATTATATT-ATAATTA
1 ATATAATTAATATAATTAATTA-ATTAATAATTA
* *
310806 ATATAATAAATCTAATTAA-TAATTAATAATTA
1 ATATAATTAATATAATTAATTAATTAATAATTA
*
310838 ATTATATTATAAT-TAATTTAATTTAATATAATAATT-
1 A-TATAAT-TAATATAA-TTAA-TTAAT-TAATAATTA
310874 ATATCAATT
1 ATAT-AATT
310883 TATTATAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
31 3 0.05
32 10 0.16
33 25 0.39
34 7 0.11
35 4 0.06
36 7 0.11
37 8 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (33 bp):
ATATAATTAATATAATTAATTAATTAATAATTA
Found at i:310830 original size:7 final size:7
Alignment explanation
Indices: 310784--310854 Score: 53
Period size: 7 Copynumber: 10.3 Consensus size: 7
310774 TATAATTAAT
310784 ATAATTA
1 ATAATTA
310791 ATTATATT-
1 A-TA-ATTA
310799 ATAATTA
1 ATAATTA
310806 AT-A-TA
1 ATAATTA
*
310811 ATAAAT-
1 ATAATTA
*
310817 CTAATTA
1 ATAATTA
310824 ATAATTA
1 ATAATTA
310831 ATAATTA
1 ATAATTA
310838 ATTATATT-
1 A-TA-ATTA
310846 ATAATTA
1 ATAATTA
310853 AT
1 AT
310855 TTAATTTAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
5 4 0.08
6 12 0.23
7 24 0.46
8 6 0.12
9 6 0.12
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (7 bp):
ATAATTA
Found at i:310980 original size:22 final size:22
Alignment explanation
Indices: 310946--311005 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
310936 GTTAGTAATC
*
310946 TAATATAATTAAATATAT-TTAT
1 TAATATAA-TAAATATATATTAA
*
310968 TAATTATCATAAATAT-TATTAA
1 TAA-TATAATAAATATATATTAA
310990 TAATATAATAAATATA
1 TAATATAATAAATATA
311006 ATAATATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 12 0.38
22 16 0.50
23 4 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATATAATAAATATATATTAA
Found at i:311450 original size:19 final size:19
Alignment explanation
Indices: 311428--311492 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
311418 ATATTTATTA
311428 ATTATAAATAATAGTTAAT
1 ATTATAAATAATAGTTAAT
* *
311447 ATTATGTATAAT-ATATTTATT
1 ATTA--TA-AATAATAGTTAAT
311468 AATTATAAATAATAGTTAAT
1 -ATTATAAATAATAGTTAAT
311488 ATTAT
1 ATTAT
311493 GTATATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
19 12 0.32
20 9 0.24
21 9 0.24
22 7 0.19
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (19 bp):
ATTATAAATAATAGTTAAT
Found at i:311465 original size:41 final size:41
Alignment explanation
Indices: 311413--311497 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
311403 TATTTGAAAG
311413 ATAATATATTTATTAATTATAAATAATAGTTAATATTATGT
1 ATAATATATTTATTAATTATAAATAATAGTTAATATTATGT
311454 ATAATATATTTATTAATTATAAATAATAGTTAATATTATGT
1 ATAATATATTTATTAATTATAAATAATAGTTAATATTATGT
311495 ATA
1 ATA
311498 TAAAACAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (41 bp):
ATAATATATTTATTAATTATAAATAATAGTTAATATTATGT
Found at i:311672 original size:14 final size:15
Alignment explanation
Indices: 311632--311686 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 15
311622 TCAAAAATAT
311632 TATTATATAAT-AAA
1 TATTATATAATAAAA
* *
311646 TATTAAATTATAAAA
1 TATTATATAATAAAA
*
311661 TATT-TATAATAATA
1 TATTATATAATAAAA
311675 TATTATAATAAT
1 TATTAT-ATAAT
311687 TATATAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 20 0.61
15 8 0.24
16 5 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTATATAATAAAA
Found at i:311682 original size:13 final size:13
Alignment explanation
Indices: 311652--311691 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
311642 TAAATATTAA
311652 ATTATAA-AATAT
1 ATTATAATAATAT
311664 -TTATAATAATAT
1 ATTATAATAATAT
311676 ATTATAATAATTAT
1 ATTATAATAA-TAT
311690 AT
1 AT
311692 AAAAGGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.24
12 5 0.20
13 9 0.36
14 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTATAATAATAT
Found at i:312058 original size:11 final size:11
Alignment explanation
Indices: 312038--312093 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
312028 ATTATTATTG
312038 ATAA-TAATTT
1 ATAATTAATTT
312048 ATAATTAATTT
1 ATAATTAATTT
**
312059 AT-ATT-GCTT
1 ATAATTAATTT
312068 A-AATT-A-TT
1 ATAATTAATTT
312076 ATAATTAATTT
1 ATAATTAATTT
312087 ATAATTA
1 ATAATTA
312094 TTTTCAAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
8 3 0.08
9 10 0.26
10 8 0.21
11 17 0.45
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (11 bp):
ATAATTAATTT
Found at i:313933 original size:17 final size:17
Alignment explanation
Indices: 313913--313947 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
313903 CAATTAAAAA
*
313913 TAATTATAAATTATAAT
1 TAATTATAAATGATAAT
*
313930 TAATTATATATGATAAT
1 TAATTATAAATGATAAT
313947 T
1 T
313948 TTTAATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TAATTATAAATGATAAT
Found at i:313972 original size:20 final size:21
Alignment explanation
Indices: 313949--313988 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
313939 ATGATAATTT
* *
313949 TTAATTTATTATATA-ATAAA
1 TTAATATATAATATATATAAA
313969 TTAATATATAATATATATAA
1 TTAATATATAATATATATAA
313989 TAATTCATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAATATATAATATATATAAA
Found at i:314004 original size:46 final size:46
Alignment explanation
Indices: 313918--314005 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
313908 AAAAATAATT
* *
313918 ATAAATTATAATTAATTATATATGATAATTTTTAATTTATTATATA
1 ATAAATTATAATTAATTATATATAATAATTATTAATTTATTATATA
313964 ATAAATTA-ATATATAA-TATATATAATAATTCATTAA-TTATTA
1 ATAAATTATA-AT-TAATTATATATAATAATT-ATTAATTTATTA
314006 ATAGAATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
45 1 0.03
46 29 0.78
47 7 0.19
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (46 bp):
ATAAATTATAATTAATTATATATAATAATTATTAATTTATTATATA
Found at i:314128 original size:20 final size:19
Alignment explanation
Indices: 314100--314168 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 19
314090 TTTAAATATC
314100 TAATTTATAATATTTAAATT
1 TAATTTATAATATTTAAA-T
* *
314120 TATTTTATATAAATTTAAAT
1 TAATTTATA-ATATTTAAAT
314140 TAATTTATAATTATTATATAA-
1 TAATTTATAA-TATT-TA-AAT
314161 TAATTTAT
1 TAATTTAT
314169 TACAAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 20 0.49
21 18 0.44
22 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATTTATAATATTTAAAT
Found at i:314137 original size:21 final size:22
Alignment explanation
Indices: 314105--314145 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
314095 ATATCTAATT
*
314105 TATAATATTTAAATTTATTTTA
1 TATAATATTTAAATTAATTTTA
314127 TATAA-ATTTAAATTAATTT
1 TATAATATTTAAATTAATTT
314146 ATAATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TATAATATTTAAATTAATTTTA
Found at i:314151 original size:11 final size:11
Alignment explanation
Indices: 314100--314168 Score: 53
Period size: 10 Copynumber: 6.7 Consensus size: 11
314090 TTTAAATATC
314100 TAATTTATAA-
1 TAATTTATAAT
314110 T-ATTTA-AAT
1 TAATTTATAAT
*
314119 TTATTT-TATAT
1 TAATTTATA-AT
*
314130 AAATTTA-AAT
1 TAATTTATAAT
314140 TAATTTATAAT
1 TAATTTATAAT
314151 T-ATTATATAA-
1 TAATT-TATAAT
314161 TAATTTAT
1 TAATTTAT
314169 TACAAATATA
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
8 2 0.04
9 6 0.12
10 21 0.44
11 19 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TAATTTATAAT
Found at i:314366 original size:164 final size:162
Alignment explanation
Indices: 314185--314489 Score: 378
Period size: 163 Copynumber: 1.9 Consensus size: 162
314175 TATATAATCT
314185 TTTGTTTTATCATAAAACAATTGTTTCAGTTCA-ATAAAAACTTATCCAAAATAAAATAATATTA
1 TTTGTTTTATCATAAAACAATTGTTT---TTCATATAAAAACTTATCCAAAATAAAATAATATTA
* * * * ** * ***
314249 CTTTATCACTATTTCAAAAATTGAGAAGTTGGAAATTTAAAAAATAAATCAATTTATTGAATCAG
63 ATTTATCAATATTTCAAAAATTAAGAACTAAGAAATTTAAAAAACAAATCAATTTACCAAATCAG
314314 TTCAAATAATTATTTATTTCAAATCGTTATGACTG
128 TTCAAATAATTATTTATTTCAAATCGTTATGACTG
* * * * * *
314349 TTTGTTTTATTATAAAACAATTGTTTTTTATTGTACAAGCTTATTCAAAATAAAATAATATTAAT
1 TTTGTTTTATCATAAAACAATTGTTTTTCA-TATAAAAACTTATCCAAAATAAAATAATATTAAT
* * * *
314414 TTATTAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAACAAATCTATTTACCAAATCAGTT
65 TTATCAATATTTCAAAAATTAAGAACTAAGAAATTTAAAAAACAAATCAATTTACCAAATCAGTT
*
314479 TAAATAATTAT
130 CAAATAATTAT
314490 GATCAGTTTA
Statistics
Matches: 118, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
161 3 0.03
163 90 0.76
164 25 0.21
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (162 bp):
TTTGTTTTATCATAAAACAATTGTTTTTCATATAAAAACTTATCCAAAATAAAATAATATTAATT
TATCAATATTTCAAAAATTAAGAACTAAGAAATTTAAAAAACAAATCAATTTACCAAATCAGTTC
AAATAATTATTTATTTCAAATCGTTATGACTG
Found at i:314496 original size:19 final size:19
Alignment explanation
Indices: 314472--314508 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
314462 TATTTACCAA
314472 ATCAGTTTAAATAATTATG
1 ATCAGTTTAAATAATTATG
*
314491 ATCAGTTTAAATAGTTAT
1 ATCAGTTTAAATAATTAT
314509 TACTATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (19 bp):
ATCAGTTTAAATAATTATG
Found at i:315557 original size:19 final size:18
Alignment explanation
Indices: 315514--315562 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
315504 TAATATATAT
*
315514 TTATT-ATAATTTAATTA
1 TTATTAATAATTTAATGA
* *
315531 CTAATAATAATATTAATGA
1 TTATTAATAAT-TTAATGA
315550 TTATTAATAATTT
1 TTATTAATAATTT
315563 TTATAATTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 3 0.12
18 7 0.28
19 15 0.60
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
TTATTAATAATTTAATGA
Found at i:316556 original size:12 final size:12
Alignment explanation
Indices: 316539--316563 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
316529 TATTTCCTTC
316539 TATTATAATTAT
1 TATTATAATTAT
316551 TATTATAATTAT
1 TATTATAATTAT
316563 T
1 T
316564 GGATTAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATAATTAT
Found at i:316773 original size:19 final size:19
Alignment explanation
Indices: 316746--316786 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
316736 ATAATTGTTG
* *
316746 TTTATAATAGTAAATATTA
1 TTTAAAATAGTAAATAATA
*
316765 TTTAAAATAGTTAATAATA
1 TTTAAAATAGTAAATAATA
316784 TTT
1 TTT
316787 TGAAAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTAAAATAGTAAATAATA
Found at i:316918 original size:16 final size:16
Alignment explanation
Indices: 316876--316943 Score: 77
Period size: 16 Copynumber: 4.2 Consensus size: 16
316866 TAAATGGAGG
316876 TTAAATATTATTA--A
1 TTAAATATTATTATTA
*
316890 TTAAATTAAATTAATATTA
1 TTAAA-T--ATTATTATTA
316909 TTAAATATTATTATTA
1 TTAAATATTATTATTA
*
316925 TTATATATTATTATTA
1 TTAAATATTATTATTA
316941 TTA
1 TTA
316944 TTGTAATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
14 5 0.11
15 1 0.02
16 27 0.59
17 6 0.13
18 1 0.02
19 6 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAAATATTATTATTA
Found at i:316920 original size:3 final size:3
Alignment explanation
Indices: 316899--316945 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
316889 ATTAAATTAA
* *
316899 ATT AAT ATT ATT AAAT ATT ATT ATT ATT ATAT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
316946 GTAATATTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 33 0.87
4 5 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:317220 original size:15 final size:16
Alignment explanation
Indices: 317200--317230 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
317190 TAAATTAATT
317200 AATTAATAAAT-TTAA
1 AATTAATAAATATTAA
317215 AATTAATAAATATTAA
1 AATTAATAAATATTAA
317231 TAAATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAATAAATATTAA
Found at i:317372 original size:11 final size:11
Alignment explanation
Indices: 317350--317408 Score: 57
Period size: 11 Copynumber: 5.1 Consensus size: 11
317340 TATTACTAAG
317350 TATATAATTAAA
1 TATAT-ATTAAA
317362 TATATATTAAA
1 TATATATTAAA
*
317373 TAT-TATTAAT
1 TATATATTAAA
317383 TAATTATAATTAAA
1 T-A-TAT-ATTAAA
*
317397 TATGTATTAAA
1 TATATATTAAA
317408 T
1 T
317409 TAATTATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 7 0.17
11 17 0.43
12 8 0.20
13 2 0.05
14 6 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (11 bp):
TATATATTAAA
Found at i:317390 original size:25 final size:25
Alignment explanation
Indices: 317349--317423 Score: 100
Period size: 25 Copynumber: 3.0 Consensus size: 25
317339 TTATTACTAA
*
317349 GTATATAATTAAATATATATTAAATAT
1 GTAT-TAATTAATTATA-ATTAAATAT
317376 -TATTAATTAATTATAATTAAATAT
1 GTATTAATTAATTATAATTAAATAT
317400 GTATTAAATTAATTATAA-TAAATA
1 GTATT-AATTAATTATAATTAAATA
317424 ATTTAAATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
24 9 0.20
25 21 0.47
26 15 0.33
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (25 bp):
GTATTAATTAATTATAATTAAATAT
Found at i:317774 original size:27 final size:25
Alignment explanation
Indices: 317743--317799 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
317733 TATTATCAAT
317743 AAATAGAATTTATTTCAAATAATTTA-A
1 AAATAGAA--TATTTCAAAT-ATTTATA
* *
317770 AAATATAATATTTTAAATATTTATA
1 AAATAGAATATTTCAAATATTTATA
317795 AAATA
1 AAATA
317800 TTATAGGAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 5 0.19
25 15 0.56
27 7 0.26
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
AAATAGAATATTTCAAATATTTATA
Found at i:317781 original size:25 final size:25
Alignment explanation
Indices: 317753--317800 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
317743 AAATAGAATT
317753 TATTTCAAATAATTTA-AAAATATAA
1 TATTTCAAAT-ATTTATAAAATATAA
*
317778 TATTTTAAATATTTATAAAATAT
1 TATTTCAAATATTTATAAAATAT
317801 TATAGGAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTTCAAATATTTATAAAATATAA
Found at i:318282 original size:25 final size:23
Alignment explanation
Indices: 318248--318303 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
318238 ATTAATATTT
* *
318248 ATAATATAATTTAGTATTTAATTA
1 ATAAT-TAATATAGTATATAATTA
*
318272 TATGAATTAATATATTATATAATTA
1 -AT-AATTAATATAGTATATAATTA
318297 ATAATTA
1 ATAATTA
318304 TATTAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 5 0.19
24 2 0.07
25 17 0.63
26 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
ATAATTAATATAGTATATAATTA
Found at i:318297 original size:16 final size:15
Alignment explanation
Indices: 318266--318313 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 15
318256 ATTTAGTATT
318266 TAATTATATGAATTAA
1 TAATTATAT-AATTAA
318282 TATATTATATAATTAA
1 TA-ATTATATAATTAA
318298 TAATTATATTAATTAA
1 TAATTATA-TAATTAA
318314 AATCTAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.20
16 17 0.57
17 7 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
TAATTATATAATTAA
Found at i:318324 original size:16 final size:16
Alignment explanation
Indices: 318266--318324 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
318256 ATTTAGTATT
* *
318266 TAATTATATGAATTAA
1 TAATTAAATTAATTAA
*
318282 TATATTATA-TAATTAA
1 TA-ATTAAATTAATTAA
*
318298 TAATTATATTAATTAA
1 TAATTAAATTAATTAA
318314 -AATCTAAATTA
1 TAAT-TAAATTA
318325 GTTTGTTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
15 9 0.24
16 23 0.61
17 6 0.16
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
TAATTAAATTAATTAA
Found at i:318960 original size:17 final size:17
Alignment explanation
Indices: 318938--318974 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
318928 ATTATTATTT
318938 AAATTACTAATATTATA
1 AAATTACTAATATTATA
318955 AAATTACTAATATTATA
1 AAATTACTAATATTATA
318972 AAA
1 AAA
318975 ATATTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTACTAATATTATA
Found at i:318982 original size:17 final size:17
Alignment explanation
Indices: 318942--318982 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
318932 TTATTTAAAT
*
318942 TACTAATATTATAAAAT
1 TACTAATATTATAAAAA
318959 TACTAATATTATAAAAA
1 TACTAATATTATAAAAA
*
318976 TATTAAT
1 TACTAAT
318983 TATTTTTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TACTAATATTATAAAAA
Found at i:321354 original size:19 final size:18
Alignment explanation
Indices: 321319--321358 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
321309 AATATTTAAC
*
321319 AATTTATATATTTAAATT
1 AATTTATATAGTTAAATT
321337 AATTTATATTAGTTAAATT
1 AATTTATA-TAGTTAAATT
321356 AAT
1 AAT
321359 ATAAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
AATTTATATAGTTAAATT
Found at i:321523 original size:27 final size:27
Alignment explanation
Indices: 321476--321528 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
321466 TCTATACAAT
*
321476 TATTAAATTAATTAAATAATATTTATA
1 TATTAAATTAATTAAATAATAATTATA
* *
321503 TATTTAATTAATT-TATAAATAATTAT
1 TATTAAATTAATTAAAT-AATAATTAT
321529 TAAAATTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TATTAAATTAATTAAATAATAATTATA
Found at i:321956 original size:25 final size:29
Alignment explanation
Indices: 321913--321965 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 29
321903 AATATTTAAT
321913 TATATATTTTAATTGT-A-ATTATATAAC
1 TATATATTTTAATTGTAATATTATATAAC
*
321940 TATAT-TTTTTATT-TAATATTATATAA
1 TATATATTTTAATTGTAATATTATATAA
321966 AATATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 1 0.04
26 8 0.35
27 14 0.61
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (29 bp):
TATATATTTTAATTGTAATATTATATAAC
Found at i:322025 original size:19 final size:18
Alignment explanation
Indices: 322001--322040 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
321991 ATTCAGTTAT
322001 TAATATTTATAA-ATTAATA
1 TAATATTTA-AATATTAA-A
322020 TAATATTTAAATATTAAA
1 TAATATTTAAATATTAAA
322038 TAA
1 TAA
322041 ACTATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATATTTAAATATTAAA
Found at i:322036 original size:50 final size:47
Alignment explanation
Indices: 321974--322066 Score: 109
Period size: 50 Copynumber: 1.9 Consensus size: 47
321964 AAAATATTTA
* *
321974 ATTTAACAATTAAATTAATTCAGTTATTAATATTTATAAA-TTAATATAAT
1 ATTTAACAATTAAATAAACT-A-TTATTAATA--TATAAATTTAATATAAT
322024 ATTTAA-ATATTAAATAAACTATTATTAATATATAAATTTAATA
1 ATTTAACA-ATTAAATAAACTATTATTAATATATAAATTTAATA
322067 ATTGTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
46 6 0.15
47 6 0.15
48 9 0.23
49 2 0.05
50 16 0.41
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (47 bp):
ATTTAACAATTAAATAAACTATTATTAATATATAAATTTAATATAAT
Found at i:322387 original size:18 final size:18
Alignment explanation
Indices: 322366--322412 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
322356 CTTATCATAA
322366 TATCATTAATTATAATAT
1 TATCATTAATTATAATAT
322384 TATC--TAATTATAATAT
1 TATCATTAATTATAATAT
*
322400 GAT-ATTTAATTAT
1 TATCA-TTAATTAT
322413 TAAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 14 0.56
18 11 0.44
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (18 bp):
TATCATTAATTATAATAT
Found at i:322393 original size:16 final size:15
Alignment explanation
Indices: 322362--322399 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
322352 GATTCTTATC
322362 ATAATATCATTAATT
1 ATAATATCATTAATT
*
322377 ATAATATTATCTAATT
1 ATAATATCAT-TAATT
322393 ATAATAT
1 ATAATAT
322400 GATATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATATCATTAATT
Found at i:322422 original size:18 final size:17
Alignment explanation
Indices: 322371--322422 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
322361 CATAATATCA
*
322371 TTAATTAT-AATATTAT
1 TTAATTATAAATAATAT
* *
322387 CTAATTATAATATGATAT
1 TTAATTATAA-ATAATAT
322405 TTAATTATTAAATAATAT
1 TTAATTA-TAAATAATAT
322423 GATATTATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 7 0.25
17 1 0.04
18 17 0.61
19 3 0.11
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TTAATTATAAATAATAT
Found at i:322617 original size:18 final size:18
Alignment explanation
Indices: 322584--322633 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
322574 AATAATAACT
*
322584 TATATAATAGTTATTTATA
1 TATATATTA-TTATTTATA
322603 TATATATTATTATTTATA
1 TATATATTATTATTTATA
*
322621 AATAATATT-TTAT
1 TAT-ATATTATTAT
322634 GAGTAACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TATATATTATTATTTATA
Found at i:322629 original size:16 final size:16
Alignment explanation
Indices: 322534--322629 Score: 53
Period size: 16 Copynumber: 6.1 Consensus size: 16
322524 ATAAATTAAC
322534 TATTTATAAAATAATAGT
1 TATTTAT-AAATAATA-T
* *
322552 TATCTA-ATATAACTAT
1 TATTTATAAATAA-TAT
322568 TA-TTA-AAATAATA-
1 TATTTATAAATAATAT
*
322581 -ACTTAT--ATAATAGT
1 TATTTATAAATAATA-T
*
322595 TATTTATATATATATTAT
1 TATTTATA-A-ATAATAT
322613 TATTTATAAATAATAT
1 TATTTATAAATAATAT
322629 T
1 T
322630 TTATGAGTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
12 7 0.11
13 3 0.05
14 2 0.03
15 12 0.20
16 15 0.25
17 3 0.05
18 14 0.23
19 5 0.08
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (16 bp):
TATTTATAAATAATAT
Found at i:322902 original size:18 final size:18
Alignment explanation
Indices: 322874--322923 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
322864 GAAATAATTA
322874 AATTA-ATAATATTAAAT
1 AATTATATAATATTAAAT
*
322891 AATTATATAATATTCTAAT
1 AATTATATAATATT-AAAT
*
322910 AA-TATATATTATTA
1 AATTATATAATATTA
322924 TGATATTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 5 0.18
18 18 0.64
19 5 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTATATAATATTAAAT
Found at i:323351 original size:22 final size:22
Alignment explanation
Indices: 323248--323351 Score: 52
Period size: 22 Copynumber: 4.7 Consensus size: 22
323238 TTAGTCATAA
* *
323248 AATATTATTTTA-ATGATATTAT
1 AATATTAATTTATAT-AAATTAT
* *
323270 AAAATT-ATTAATATAAATTAAT
1 AATATTAATTTATATAAATT-AT
* * *
323292 ACTA-TAACTTATATATAATGAT
1 AATATTAATTTATATA-AATTAT
* * **
323314 TATATTCGATAGATATAAATTAT
1 AATATT-AATTTATATAAATTAT
323337 AATATTAATTTATAT
1 AATATTAATTTATAT
323352 GTGAAATATA
Statistics
Matches: 56, Mismatches: 20, Indels: 12
0.64 0.23 0.14
Matches are distributed among these distances:
21 8 0.14
22 28 0.50
23 14 0.25
24 6 0.11
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (22 bp):
AATATTAATTTATATAAATTAT
Found at i:323384 original size:21 final size:21
Alignment explanation
Indices: 323360--323431 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 21
323350 ATGTGAAATA
323360 TATTATATTTTAAATAATATT
1 TATTATATTTTAAATAATATT
*
323381 TATTAT-TTTTAAATATTCAATT
1 TATTATATTTTAAATAAT--ATT
* *
323403 ATAATATATTTATAATTAATATT
1 -TATTATATTT-TAAATAATATT
*
323426 AATTAT
1 TATTAT
323432 TATTAAGCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
20 10 0.25
21 6 0.15
22 7 0.17
23 8 0.20
24 3 0.08
25 6 0.15
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTATATTTTAAATAATATT
Found at i:323761 original size:13 final size:15
Alignment explanation
Indices: 323724--323810 Score: 54
Period size: 16 Copynumber: 5.7 Consensus size: 15
323714 AAGATATCTT
*
323724 ATTATTATTAATAATG
1 ATTATTAAT-ATAATG
323740 ATTATTAATATAAT-
1 ATTATTAATATAATG
* *
323754 ATTA-TAATCTAATT
1 ATTATTAATATAATG
*
323768 A-TATTATGATATAATAC
1 ATTATTA--ATATAAT-G
* *
323785 ATTGAGTAATATATTG
1 ATT-ATTAATATAATG
323801 ATTATTAATA
1 ATTATTAATA
323811 ATATATTTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
13 10 0.18
14 7 0.12
15 11 0.20
16 17 0.30
17 7 0.12
18 1 0.02
19 3 0.05
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (15 bp):
ATTATTAATATAATG
Found at i:323782 original size:16 final size:16
Alignment explanation
Indices: 323752--323855 Score: 61
Period size: 18 Copynumber: 6.2 Consensus size: 16
323742 TATTAATATA
*
323752 ATATTATAATCTAATT
1 ATATTATAATATAATT
*
323768 ATATTATGATATAA-T
1 ATATTATAATATAATT
*
323783 ACATTGAGTAATAT-ATT
1 ATATT-A-TAATATAATT
*
323800 GATTATTAATAATATATTT
1 -A-TATT-ATAATATAATT
*
323819 AATATTATAATATTAATG
1 -ATATTATAATA-TAATT
*
323837 ATTAATATAATAT-ATT
1 A-TATTATAATATAATT
323853 ATA
1 ATA
323856 CTAATTATCA
Statistics
Matches: 68, Mismatches: 12, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
15 7 0.10
16 17 0.25
17 14 0.21
18 23 0.34
19 7 0.10
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (16 bp):
ATATTATAATATAATT
Found at i:323814 original size:18 final size:17
Alignment explanation
Indices: 323791--323852 Score: 70
Period size: 18 Copynumber: 3.5 Consensus size: 17
323781 ATACATTGAG
323791 TAATATATTGATTATTAA
1 TAATATATTGATTATT-A
* *
323809 TAATATATTTAATATTA
1 TAATATATTGATTATTA
* *
323826 TAATATTAATGATTAATA
1 TAATA-TATTGATTATTA
323844 TAATATATT
1 TAATATATT
323853 ATACTAATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 9 0.25
18 27 0.75
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TAATATATTGATTATTA
Found at i:324221 original size:16 final size:16
Alignment explanation
Indices: 324202--324232 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
324192 TATAATAATG
324202 ATATAAATTGATTATT
1 ATATAAATTGATTATT
*
324218 ATATAAATTTATTAT
1 ATATAAATTGATTAT
324233 ACTATTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATATAAATTGATTATT
Found at i:325168 original size:15 final size:15
Alignment explanation
Indices: 325104--325168 Score: 62
Period size: 15 Copynumber: 4.3 Consensus size: 15
325094 TAATAAAACA
*
325104 AATTATATATTATTAG
1 AATTATA-ATTATTAT
* *
325120 ATTTATAATATAGTAT
1 AATTATAAT-TATTAT
325136 -ATTATAATTATT-T
1 AATTATAATTATTAT
325149 AAATTATAATTATTAT
1 -AATTATAATTATTAT
325165 AATT
1 AATT
325169 TATTAATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 1 0.03
14 3 0.08
15 25 0.62
16 11 0.28
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
AATTATAATTATTAT
Found at i:325174 original size:24 final size:24
Alignment explanation
Indices: 325103--325174 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
325093 TTAATAAAAC
*
325103 AAATTATATATTATTA-GATTTA-T
1 AAATTATA-ATTATTATAATTTATT
*
325126 -AA-TATAGTATATTATAA-TTATTT
1 AAATTATAAT-TATTATAATTTA-TT
325149 AAATTATAATTATTATAATTTATT
1 AAATTATAATTATTATAATTTATT
325173 AA
1 AA
325175 TATAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
20 1 0.03
21 12 0.31
22 3 0.08
23 1 0.03
24 14 0.36
25 8 0.21
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (24 bp):
AAATTATAATTATTATAATTTATT
Found at i:325186 original size:24 final size:24
Alignment explanation
Indices: 325134--325186 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
325124 ATAATATAGT
*
325134 ATATTATAATTATTTAAATTATAA
1 ATATTATAATTATTTAAATTAAAA
*
325158 TTATTATAATT-TATT-AATATAAAA
1 ATATTATAATTAT-TTAAAT-TAAAA
325182 ATATT
1 ATATT
325187 TATATTACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATTATAATTATTTAAATTAAAA
Found at i:325595 original size:22 final size:21
Alignment explanation
Indices: 325560--325601 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
325550 AATCAAAATA
325560 ATTTTAAATAATTAT-TATTT
1 ATTTTAAATAATTATATATTT
325580 ATTTTATAATTAATTATATATT
1 ATTTTA-AA-TAATTATATATT
325602 AATATATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 2 0.11
22 7 0.37
23 4 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTAAATAATTATATATTT
Found at i:325680 original size:21 final size:20
Alignment explanation
Indices: 325618--325690 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
325608 TTCAAAAATA
*
325618 TTAAATTTAAATATTAATAAGAT
1 TTAAA-TTAAATA-TAAT-ATAT
* *
325641 TTAAATTTATTAT-ATATAT
1 TTAAATTAAATATAATATAT
325660 TTATAATTAAATATAATATAT
1 TTA-AATTAAATATAATATAT
325681 TTAAAATTAA
1 TT-AAATTAA
325691 TAATTTTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 6 0.14
20 10 0.24
21 15 0.36
22 6 0.14
23 5 0.12
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (20 bp):
TTAAATTAAATATAATATAT
Found at i:325684 original size:15 final size:15
Alignment explanation
Indices: 325661--325715 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
325651 TATATATATT
325661 TATAATTAAATATAA
1 TATAATTAAATATAA
*
325676 TATATTTAAA-ATTAA
1 TATAATTAAATA-TAA
*
325691 TA-ATTTTAAATATGAA
1 TATA-ATTAAATAT-AA
325707 TATAATTAA
1 TATAATTAA
325716 TAAATATTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 2 0.06
15 21 0.64
16 9 0.27
17 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
TATAATTAAATATAA
Found at i:325687 original size:16 final size:16
Alignment explanation
Indices: 325668--325715 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
325658 ATTTATAATT
325668 AAATATAATATATTTA
1 AAATATAATATATTTA
*
325684 AAAT-TAATA-ATTTT
1 AAATATAATATATTTA
*
325698 AAATATGAATATAATTA
1 AAATAT-AATATATTTA
325715 A
1 A
325716 TAAATATTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 8 0.31
15 6 0.23
16 8 0.31
17 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
AAATATAATATATTTA
Found at i:325701 original size:14 final size:16
Alignment explanation
Indices: 325666--325710 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
325656 ATATTTATAA
325666 TTAAATATAATATATT
1 TTAAATATAATATATT
*
325682 TAAAAT-TAATA-ATT
1 TTAAATATAATATATT
325696 TTAAATATGAATATA
1 TTAAATAT-AATATA
325711 ATTAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 8 0.33
15 6 0.25
16 9 0.38
17 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TTAAATATAATATATT
Found at i:326094 original size:16 final size:16
Alignment explanation
Indices: 326062--326207 Score: 72
Period size: 18 Copynumber: 8.8 Consensus size: 16
326052 ATCTTTATAT
326062 TATTATATTAGATAATAA
1 TATTATATT--ATAATAA
326080 TATTATATTATAATAATA
1 TATTATATTATAAT-A-A
326098 TATTATAATTATAAT-A
1 TATTAT-ATTATAATAA
326114 TATT-TGAATTAATATATAA
1 TATTAT--ATT-ATA-ATAA
* *
326133 T-TTAATAATATAGTTAA
1 TATT-ATATTATA-ATAA
*
326150 TATTATATATATAACAA
1 TATTATAT-TATAATAA
*
326167 T-TT-TAATATAAT-A
1 TATTATATTATAATAA
* *
326180 -ATTATATTATTATAT
1 TATTATATTATAATAA
*
326195 TATTATATAATAA
1 TATTATATTATAA
326208 ATATAATCTA
Statistics
Matches: 100, Mismatches: 13, Indels: 32
0.69 0.09 0.22
Matches are distributed among these distances:
13 3 0.03
14 12 0.12
15 3 0.03
16 26 0.26
17 17 0.17
18 28 0.28
19 10 0.10
20 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (16 bp):
TATTATATTATAATAA
Done.