Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168304.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_53, 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: 157624
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.38
File 2 of 3
Found at i:106741 original size:17 final size:17
Alignment explanation
Indices: 106719--106757 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
106709 TTATCTATTT
106719 TAATAATA-TCTATATAA
1 TAATAATACT-TATATAA
*
106736 TAATAATACTTATTTAA
1 TAATAATACTTATATAA
106753 TAATA
1 TAATA
106758 TAATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATACTTATATAA
Found at i:106753 original size:14 final size:16
Alignment explanation
Indices: 106710--106758 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
106700 TTAATTATTT
106710 TATCTAT-TTTAATAA
1 TATCTATATTTAATAA
*
106725 TATCTATATAATAATAA
1 TATCTATAT-TTAATAA
106742 TA-CT-TATTTAATAA
1 TATCTATATTTAATAA
106756 TAT
1 TAT
106759 AATTTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 8 0.28
15 10 0.34
16 3 0.10
17 8 0.28
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (16 bp):
TATCTATATTTAATAA
Found at i:106765 original size:17 final size:16
Alignment explanation
Indices: 106733--106795 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 16
106723 AATATCTATA
*
106733 TAATAATAATACTTATT
1 TAATAAT-ATAATTATT
106750 TAATAATATAATTTATT
1 TAATAATATAA-TTATT
*
106767 TATTATAATAAGTAAATATT
1 TA--ATAAT-A-TAATTATT
106787 TAATAATAT
1 TAATAATAT
106796 TTATAATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
16 4 0.10
17 15 0.38
18 5 0.13
19 5 0.13
20 7 0.18
21 3 0.08
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATAATATAATTATT
Found at i:107305 original size:10 final size:10
Alignment explanation
Indices: 107276--107310 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
107266 TTCTGACTTT
107276 TTAATAATTA
1 TTAATAATTA
107286 TTAA-AA-TA
1 TTAATAATTA
107294 TTAATAATTA
1 TTAATAATTA
107304 TTAATAA
1 TTAATAA
107311 ATAATTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 6 0.26
9 4 0.17
10 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTAATAATTA
Found at i:107752 original size:29 final size:29
Alignment explanation
Indices: 107719--107805 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 29
107709 GAGTAATTCA
107719 AATATTATATATTAATTATATTAATAATT
1 AATATTATATATTAATTATATTAATAATT
107748 AATA-T-TA-ATT-ATTATA--AAT-A-T
1 AATATTATATATTAATTATATTAATAATT
* *
107769 AATATTATAATGTTAGTTATATATAACTAATT
1 AATATTAT-ATATTAATTATAT-TAA-TAATT
107801 AATAT
1 AATAT
107806 AATTTCAAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 19
0.68 0.03 0.29
Matches are distributed among these distances:
21 5 0.11
22 2 0.04
23 4 0.09
24 1 0.02
25 8 0.18
26 8 0.18
27 2 0.04
28 1 0.02
29 6 0.13
30 1 0.02
31 1 0.02
32 6 0.13
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (29 bp):
AATATTATATATTAATTATATTAATAATT
Found at i:109685 original size:26 final size:27
Alignment explanation
Indices: 109635--109695 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
109625 TAATTAATCT
* *
109635 AATAAAATAATATTAATTATATTA-TA
1 AATAAATTAATATTAATAATATTATTA
109661 AATAAATTAATAGTTAATAAT-TTATTA
1 AATAAATTAATA-TTAATAATATTATTA
*
109688 TATAAATT
1 AATAAATT
109696 TATAAATCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 14 0.47
27 16 0.53
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
AATAAATTAATATTAATAATATTATTA
Found at i:110004 original size:23 final size:23
Alignment explanation
Indices: 109956--110046 Score: 66
Period size: 23 Copynumber: 4.0 Consensus size: 23
109946 ATATTCATAG
*
109956 TAATTATAATTATTAATTACTTA
1 TAATTATAATTATTAATTAATTA
109979 TAATTATAA-TA-TAATTATATTAA
1 TAATTATAATTATTAATTA-ATT-A
*
110002 TAATAAT-ATTATTAGA-TAATTA
1 TAATTATAATTATTA-ATTAATTA
* *
110024 -AATTGTTATATTAATAATTAATT
1 TAATT-ATA-ATTATTAATTAATT
110047 TTTAAATTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 17
0.71 0.07 0.22
Matches are distributed among these distances:
21 9 0.17
22 7 0.13
23 22 0.41
24 15 0.28
25 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (23 bp):
TAATTATAATTATTAATTAATTA
Found at i:110046 original size:19 final size:20
Alignment explanation
Indices: 110011--110057 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
110001 ATAATAATAT
110011 TATTAGATAATTAAATTGTTA
1 TATTA-ATAATTAAATTGTTA
*
110032 TATTAATAATT-AATTTTTA
1 TATTAATAATTAAATTGTTA
*
110051 AATTAAT
1 TATTAAT
110058 TATACGTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 13 0.54
20 6 0.25
21 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TATTAATAATTAAATTGTTA
Found at i:110091 original size:17 final size:16
Alignment explanation
Indices: 109956--110087 Score: 69
Period size: 17 Copynumber: 8.1 Consensus size: 16
109946 ATATTCATAG
109956 TAATTATAATTATTAAT
1 TAATTAT-ATTATTAAT
*
109973 TACTTATAATTA-TAAT
1 TAATTAT-ATTATTAAT
*
109989 ATAATTATATTAATAA-
1 -TAATTATATTATTAAT
*
110005 TAA-TATTATTAGATAAT
1 TAATTA-TATTA-TTAAT
*
110022 TAAATTGT-TATATTAA-
1 T-AATTATAT-TATTAAT
*
110038 TAATTA-ATTTTTAAAT
1 TAATTATATTATT-AAT
* * *
110054 TAATTATACGTCTTAGT
1 TAATTATA-TTATTAAT
110071 TAATTATATTATTAAT
1 TAATTATATTATTAAT
110087 T
1 T
110088 TAATAAATAA
Statistics
Matches: 90, Mismatches: 12, Indels: 27
0.70 0.09 0.21
Matches are distributed among these distances:
14 5 0.06
15 15 0.17
16 25 0.28
17 36 0.40
18 8 0.09
19 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (16 bp):
TAATTATATTATTAAT
Found at i:110339 original size:22 final size:20
Alignment explanation
Indices: 110313--110355 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
110303 ATTTAACTTC
*
110313 ATTAATTCAATGATATATTATA
1 ATTAATT-AAT-ATAAATTATA
110335 ATTAATTAATATAAATTATA
1 ATTAATTAATATAAATTATA
110355 A
1 A
110356 CAATCACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 3 0.15
22 7 0.35
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTAATTAATATAAATTATA
Found at i:110570 original size:33 final size:33
Alignment explanation
Indices: 110511--110574 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
110501 TTAATATTAA
*
110511 TATAATGTTAATAAATATTTGTAATATTTATCC
1 TATAATGTTAATAAATATTTGAAATATTTATCC
* *
110544 TATAATGTTAGTCAATAATTT-AAATATTTAT
1 TATAATGTTAATAAAT-ATTTGAAATATTTAT
110575 TATATATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 23 0.85
34 4 0.15
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (33 bp):
TATAATGTTAATAAATATTTGAAATATTTATCC
Found at i:110785 original size:23 final size:22
Alignment explanation
Indices: 110759--110806 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
110749 ATAGTATTAA
*
110759 ATTTAATAAATTATTTAATTATT
1 ATTTAATAAATTATAT-ATTATT
*
110782 ATTTAATAGATTATATATTATT
1 ATTTAATAAATTATATATTATT
110804 ATT
1 ATT
110807 ATTCATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTAATAAATTATATATTATT
Found at i:111184 original size:178 final size:178
Alignment explanation
Indices: 110898--111246 Score: 429
Period size: 178 Copynumber: 2.0 Consensus size: 178
110888 AATAATACTA
* ** * * *
110898 ATTTTATTCGAAATAAGCTTATATGAATTGAAATAATTGTTTTATGACTAAATAAAAGGATAGAA
1 ATTTTATCCGAAATAAGCTTATATGAAAGGAAACAATTGTTGTATGAATAAATAAAAGGATAGAA
** * * *
110963 TGATTTGAAATAGATAATTATTCTGATAGTCTTATCTATTTGAACTAGTTCGGCTAACAT-A-TT
66 TGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTAGTTCAG-TAA-ATGATTT
** * *
111026 TATTTTTTTAAATCTCTTATTAATTTTT-GAAATATTATTAAATTAGTATT
129 TA-GGTTTTAAATCTCTTATTAATTTTTAAAAATATTAATAAATTAGTATT
* *
111076 ATTTTAATCCGAAATAAGCTTGTATGAAAGGAAACAATTGTTGTATGAATAAAT-AAA-GATCAT
1 ATTTT-ATCCGAAATAAGCTTATATGAAAGGAAACAATTGTTGTATGAATAAATAAAAGGAT-AG
* * * *
111139 TATGATTTGAGATAGATAATTGTTCAAATAGTCATAACTATTTGAACTAGTTTAGTAAATGATTT
64 AATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTAGTTCAGTAAATGATTT
111204 TAGGTTTTAAATCTCTTATTAATTTTTAAAAATATTAATAAAT
129 TAGGTTTTAAATCTCTTATTAATTTTTAAAAATATTAATAAAT
111247 ACAAATATTT
Statistics
Matches: 145, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
176 2 0.01
177 30 0.21
178 72 0.50
179 41 0.28
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (178 bp):
ATTTTATCCGAAATAAGCTTATATGAAAGGAAACAATTGTTGTATGAATAAATAAAAGGATAGAA
TGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTAGTTCAGTAAATGATTTTA
GGTTTTAAATCTCTTATTAATTTTTAAAAATATTAATAAATTAGTATT
Found at i:111506 original size:31 final size:28
Alignment explanation
Indices: 111467--111541 Score: 82
Period size: 27 Copynumber: 2.6 Consensus size: 28
111457 AATTAATTAA
*
111467 ATATTTAATATTAATATATATTAATAGTAT
1 ATATTT-ATATTAATATATAATAA-AGTAT
* *
111497 ATTATTTA-ATTAATTTATAATAAATTAT
1 A-TATTTATATTAATATATAATAAAGTAT
111525 ATATTTAT-TTAATATAT
1 ATATTTATATTAATATAT
111542 TATACAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 14 0.36
28 5 0.13
29 13 0.33
30 2 0.05
31 5 0.13
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (28 bp):
ATATTTATATTAATATATAATAAAGTAT
Found at i:112105 original size:17 final size:17
Alignment explanation
Indices: 112073--112117 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
112063 TCTGTTTACC
112073 ATAATAATTATATTATT
1 ATAATAATTATATTATT
112090 ATAACTAATTAT-TTATT
1 ATAA-TAATTATATTATT
112107 A-AATAAATTAT
1 ATAAT-AATTAT
112118 TGGTGATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.04
16 8 0.31
17 10 0.38
18 7 0.27
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAATAATTATATTATT
Found at i:112339 original size:26 final size:24
Alignment explanation
Indices: 112259--112339 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 24
112249 TATATATAAC
112259 AATTATAT-ATATAATTATTATAAT
1 AATTATATAATATAATTATTA-AAT
*
112283 -ATCT-TATAATA-AATTAATAAAT
1 AAT-TATATAATATAATTATTAAAT
*
112305 TATTAATATAATATTAATTATTAAAGT
1 AATT-ATATAATA-TAATTATTAAA-T
112332 AATTATAT
1 AATTATAT
112340 TTAATATATG
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
22 4 0.09
23 14 0.30
24 11 0.24
26 13 0.28
27 4 0.09
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (24 bp):
AATTATATAATATAATTATTAAAT
Found at i:112556 original size:21 final size:22
Alignment explanation
Indices: 112506--112556 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
112496 ATATGTTCAA
112506 ATAATTA-ATTTTTTCTAACTT
1 ATAATTATATTTTTTCTAACTT
*
112527 ATTATTATATTATTTT-TAAC-T
1 ATAATTATATT-TTTTCTAACTT
112548 ATAATTATA
1 ATAATTATA
112557 ATTAAAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 15 0.58
22 7 0.27
23 4 0.15
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (22 bp):
ATAATTATATTTTTTCTAACTT
Found at i:112560 original size:22 final size:24
Alignment explanation
Indices: 112511--112560 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
112501 TTCAAATAAT
*
112511 TAATT-TTTTCTAACTTATTATTA
1 TAATTATTTTCTAACTTATAATTA
112534 T-ATTATTTT-TAAC-TATAATTA
1 TAATTATTTTCTAACTTATAATTA
112555 TAATTA
1 TAATTA
112561 AAGTATTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 8 0.33
22 11 0.46
23 5 0.21
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (24 bp):
TAATTATTTTCTAACTTATAATTA
Found at i:112778 original size:12 final size:12
Alignment explanation
Indices: 112756--112785 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
112746 ATTATGAACA
112756 ATATT-TAATAT
1 ATATTATAATAT
112767 ATATTATAATAT
1 ATATTATAATAT
112779 ATATTAT
1 ATATTAT
112786 TACTATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTATAATAT
Found at i:113340 original size:15 final size:15
Alignment explanation
Indices: 113322--113397 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
113312 ACAATAAATA
113322 TAATTATATTATAAT
1 TAATTATATTATAAT
* *
113337 TAATTATAATATATT
1 TAATTATATTATAAT
*
113352 TAA-TATAAATATAAT
1 TAATTAT-ATTATAAT
* *
113367 TAA-TAT-TAATATT
1 TAATTATATTATAAT
113380 TAATTAT-TTATTAAT
1 TAATTATATTA-TAAT
113395 TAA
1 TAA
113398 ATAATAAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
13 7 0.14
14 8 0.16
15 35 0.70
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATTATATTATAAT
Found at i:113371 original size:82 final size:80
Alignment explanation
Indices: 113282--113438 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 80
113272 TATATCAAAT
113282 TATTAATATTATAATTTATATTATTACATTACAATAAATATAATTATATTATAATTAATT-ATAA
1 TATTAATATT-TAA-TTAT-TTATTA-ATTA-AAT-AATA-AATTATA-TAT-ATT-ATTAATAA
113346 TATA-TTTAATATAAATATAATTAA
56 TATATTTTAATATAAATATAATTAA
113370 TATTAATATTTAATTATTTATTAATTAAATAATAAATTATATATATTATTAGATAATATATTTTA
1 TATTAATATTTAATTATTTATTAATTAAATAATAAATTATATATATTATTA-ATAATATATTTTA
113435 ATAT
65 ATAT
113439 TACTTAATTA
Statistics
Matches: 66, Mismatches: 0, Indels: 13
0.84 0.00 0.16
Matches are distributed among these distances:
78 3 0.05
79 3 0.05
80 11 0.17
81 15 0.23
82 4 0.06
83 3 0.05
84 4 0.06
85 6 0.09
86 4 0.06
87 3 0.05
88 10 0.15
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (80 bp):
TATTAATATTTAATTATTTATTAATTAAATAATAAATTATATATATTATTAATAATATATTTTAA
TATAAATATAATTAA
Found at i:113419 original size:28 final size:26
Alignment explanation
Indices: 113298--113448 Score: 66
Period size: 28 Copynumber: 5.5 Consensus size: 26
113288 TATTATAATT
113298 TATATTATTACATTACAATAAATATAA-TTA
1 TATATTATTA-ATT--AAT-AATA-AATTTA
* *
113328 TATTATAATTAATT-ATAATATATTTA
1 TA-TATTATTAATTAATAATAAATTTA
* *
113354 -ATATAAATATAATTAATATTAATATTTA
1 TATAT-TAT-TAATTAATAATAA-ATTTA
113382 -ATTATTTATTAATTAAATAATAAA-TTA
1 TA-TA-TTATTAATT-AATAATAAATTTA
*
113409 TATA-TATT-ATTAGATAATATATTT-
1 TATATTATTAATTA-ATAATAAATTTA
113433 TAATATTACTTAATTA
1 T-ATATTA-TTAATTA
113449 TATGTAATTA
Statistics
Matches: 98, Mismatches: 7, Indels: 34
0.71 0.05 0.24
Matches are distributed among these distances:
23 1 0.01
24 14 0.14
25 14 0.14
26 14 0.14
27 14 0.14
28 17 0.17
29 11 0.11
30 6 0.06
31 7 0.07
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (26 bp):
TATATTATTAATTAATAATAAATTTA
Found at i:113490 original size:16 final size:17
Alignment explanation
Indices: 113465--113502 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
113455 ATTAAATTAG
113465 ATTATAATATATAAATA
1 ATTATAATATATAAATA
* *
113482 TTTAT-ATATATTAATA
1 ATTATAATATATAAATA
113498 ATTAT
1 ATTAT
113503 TATTTAAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTATAATATATAAATA
Found at i:113956 original size:17 final size:15
Alignment explanation
Indices: 113916--113960 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
113906 ATTATAAGAT
113916 TATAAATTAATAATA
1 TATAAATTAATAATA
*
113931 TATATAATTGATAAATA
1 TATA-AATTAAT-AATA
113948 TAATAAATTAATA
1 T-ATAAATTAATA
113961 TTATTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 4 0.16
16 7 0.28
17 11 0.44
18 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
TATAAATTAATAATA
Found at i:114155 original size:28 final size:26
Alignment explanation
Indices: 114117--114196 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 26
114107 TAAACAATAA
114117 ATTAAT-TATTAATATTATATAAGTT
1 ATTAATATATTAATATTATATAAGTT
*
114142 ATTAATTTATATT-ATA-AATATAAG-T
1 ATTAA--TATATTAATATTATATAAGTT
114167 A-TAATATA-TAATATT-TATAA-TT
1 ATTAATATATTAATATTATATAAGTT
114189 ATTTAATA
1 A-TTAATA
114197 ATAATAGTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
21 1 0.02
22 14 0.31
24 8 0.18
25 7 0.16
26 7 0.16
27 4 0.09
28 4 0.09
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (26 bp):
ATTAATATATTAATATTATATAAGTT
Found at i:114195 original size:48 final size:48
Alignment explanation
Indices: 114087--114195 Score: 127
Period size: 48 Copynumber: 2.3 Consensus size: 48
114077 TTAAATTATC
*
114087 ATAACTATTTAATTTATTTATAAACAATAAATTAATTATTAATATTAT
1 ATAATTATTTAATTTATTTATAAACAATAAATTAATTATTAATATTAT
* *
114135 ATAAGTTA-TTAATTTATATTATAAA-TATAAGTATAA-TATATAATATT-T
1 ATAA-TTATTTAATTTAT-TTATAAACAATAAAT-TAATTAT-TAATATTAT
114183 ATAATTATTTAAT
1 ATAATTATTTAAT
114196 AATAATAGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
47 3 0.06
48 31 0.58
49 19 0.36
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (48 bp):
ATAATTATTTAATTTATTTATAAACAATAAATTAATTATTAATATTAT
Found at i:114266 original size:28 final size:30
Alignment explanation
Indices: 114226--114281 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 30
114216 TAACTAATTG
114226 AAATTATATTATT-TAATTAT-AATATATT
1 AAATTATATTATTATAATTATCAATATATT
*
114254 AAATTA-ATATATTATATTTATCAATATA
1 AAATTATAT-TATTATAATTATCAATATA
114282 CAATTAGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 2 0.08
28 10 0.42
29 6 0.25
30 6 0.25
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (30 bp):
AAATTATATTATTATAATTATCAATATATT
Found at i:115348 original size:12 final size:11
Alignment explanation
Indices: 115327--115389 Score: 57
Period size: 11 Copynumber: 6.1 Consensus size: 11
115317 ATAATTGTGT
115327 TAATA-TAATA
1 TAATATTAATA
115337 TAATATTAA-A
1 TAATATTAATA
115347 T-ATATTAATA
1 TAATATTAATA
*
115357 AAATATTAATTA
1 TAATATTAA-TA
115369 TAAT-TT-ATA
1 TAATATTAATA
115378 -ATATATTAATA
1 TA-ATATTAATA
115389 T
1 T
115390 TATTTGAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
8 1 0.02
9 11 0.26
10 11 0.26
11 15 0.35
12 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATATTAATA
Found at i:115361 original size:20 final size:21
Alignment explanation
Indices: 115327--115386 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
115317 ATAATTGTGT
*
115327 TAATATAATATAATATTAAATA
1 TAAT-TAATAAAATATTAAATA
*
115349 T-ATTAATAAAATATTAATTA
1 TAATTAATAAAATATTAAATA
* *
115369 TAATTTATAATATATTAA
1 TAATTAATAAAATATTAA
115387 TATTATTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 16 0.48
21 16 0.48
22 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATTAATAAAATATTAAATA
Found at i:115371 original size:32 final size:30
Alignment explanation
Indices: 115328--115388 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 30
115318 TAATTGTGTT
115328 AATATAATATAATATTA-AATATATTAATAA
1 AATATAATATAAT-TTATAATATATTAATAA
115358 AATATTAATTATAATTTATAATATATTAATA
1 AATA-TAA-TATAATTTATAATATATTAATA
115389 TTATTTGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 4 0.14
31 6 0.21
32 18 0.64
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AATATAATATAATTTATAATATATTAATAA
Found at i:115404 original size:32 final size:32
Alignment explanation
Indices: 115328--115418 Score: 84
Period size: 32 Copynumber: 2.9 Consensus size: 32
115318 TAATTGTGTT
115328 AATA-TAAT-ATAATATTA-AATATATTAATAA
1 AATATTAATAATAAT-TTATAATATATTAATAA
* *
115358 AATATTAATTATAATTTATAATATATTAATAT
1 AATATTAATAATAATTTATAATATATTAATAA
* * *
115390 TAT-TTGAATAATAATTAATTATAT-TTAAT
1 AATATT-AATAATAATTTATAATATATTAAT
115419 TAATTTTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
30 4 0.08
31 14 0.27
32 34 0.65
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (32 bp):
AATATTAATAATAATTTATAATATATTAATAA
Found at i:115422 original size:21 final size:21
Alignment explanation
Indices: 115339--115418 Score: 87
Period size: 21 Copynumber: 3.9 Consensus size: 21
115329 ATATAATATA
* *
115339 ATATTAAATATA-TTAATAAA
1 ATATTAATTATATTTAATAAT
115359 ATATTAATTATAATTT-ATAAT
1 ATATTAATTAT-ATTTAATAAT
115380 ATATTAA-TATTATTTGAATAAT
1 ATATTAATTA-TATTT-AATAAT
115402 A-ATTAATTATATTTAAT
1 ATATTAATTATATTTAAT
115419 TAATTTTATT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
20 19 0.37
21 23 0.44
22 10 0.19
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (21 bp):
ATATTAATTATATTTAATAAT
Found at i:115631 original size:12 final size:13
Alignment explanation
Indices: 115585--115636 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 13
115575 TATGGTACTA
115585 ATTATAACT-ATT
1 ATTATAACTAATT
*
115597 ATTATAATTAATT
1 ATTATAACTAATT
115610 -TGTA-AA-TAATT
1 AT-TATAACTAATT
115621 ATTATAA-TAATT
1 ATTATAACTAATT
115633 ATTA
1 ATTA
115637 ATATATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
11 7 0.20
12 23 0.66
13 5 0.14
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (13 bp):
ATTATAACTAATT
Found at i:115633 original size:9 final size:10
Alignment explanation
Indices: 115615--115654 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
115605 TAATTTGTAA
115615 ATAAT-TATT
1 ATAATATATT
115624 ATAATA-ATT
1 ATAATATATT
115633 ATTAATATATT
1 A-TAATATATT
115644 -TAATATATT
1 ATAATATATT
115653 AT
1 AT
115655 TTGATAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 18 0.67
10 6 0.22
11 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
ATAATATATT
Found at i:115746 original size:14 final size:14
Alignment explanation
Indices: 115710--115755 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
115700 TGCTAATTTA
115710 TTATAATTAATTAATT
1 TTATAATT-ATTAA-T
115726 GTTATAATTATTAAT
1 -TTATAATTATTAAT
*
115741 TTATAATTATAAAT
1 TTATAATTATTAAT
115755 T
1 T
115756 AATTTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 14 0.50
15 1 0.04
16 5 0.18
17 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
TTATAATTATTAAT
Found at i:115747 original size:7 final size:6
Alignment explanation
Indices: 115727--115824 Score: 50
Period size: 7 Copynumber: 16.7 Consensus size: 6
115717 TAATTAATTG
* * *
115727 TTATAA TTATTAA TTTATAA TTATAAA TTA-AT TTTTAT TTAATAA TTATATA
1 TTATAA TTA-TAA -TTATAA TTAT-AA TTATAA TTATAA TT-ATAA TTATA-A
*
115779 TTA-AA -TATAA -TAT-A TT-TAA TTATAA -TATAA TAAATAA TTAT-A
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA T-TATAA TTATAA
115821 TTAT
1 TTAT
115825 TTAATTATTT
Statistics
Matches: 74, Mismatches: 6, Indels: 25
0.70 0.06 0.24
Matches are distributed among these distances:
4 4 0.05
5 23 0.31
6 20 0.27
7 24 0.32
8 3 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:115750 original size:20 final size:20
Alignment explanation
Indices: 115727--115833 Score: 61
Period size: 20 Copynumber: 5.5 Consensus size: 20
115717 TAATTAATTG
115727 TTATAATTATTAATTTATAA
1 TTATAATTATTAATTTATAA
*
115747 TTATAA--ATTAATTT-TTA
1 TTATAATTATTAATTTATAA
*
115764 TT-TAATAATTATATATTA-AA
1 TTATAATTATTA-AT-TTATAA
115784 -TATAATATATTTAA-TTATAA
1 TTATAAT-TA-TTAATTTATAA
* * *
115804 -TATAATAAATAATTATATTA
1 TTATAATTATTAATT-TATAA
115824 TT-TAATTATT
1 TTATAATTATT
115834 TTATTTTGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
16 3 0.04
17 4 0.06
18 15 0.22
19 8 0.12
20 31 0.46
21 3 0.04
22 3 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATAATTATTAATTTATAA
Found at i:115771 original size:25 final size:25
Alignment explanation
Indices: 115730--115782 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
115720 TTAATTGTTA
115730 TAATTATTAATTTATAATTATAAAT
1 TAATTATTAATTTATAATTATAAAT
* *
115755 TAATT-TTTATTTAATAATTATATAT
1 TAATTATTAATTT-ATAATTATAAAT
115780 TAA
1 TAA
115783 ATATAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATTATTAATTTATAATTATAAAT
Found at i:115785 original size:15 final size:15
Alignment explanation
Indices: 115762--115821 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 15
115752 AATTAATTTT
* *
115762 TATTTAATAATTATA
1 TATTAAATAATAATA
115777 TATTAAAT-ATAATA
1 TATTAAATAATAATA
* *
115791 TATTTAATTATAATA
1 TATTAAATAATAATA
* *
115806 TAATAAATAATTATA
1 TATTAAATAATAATA
115821 T
1 T
115822 TATTTAATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
14 12 0.32
15 25 0.68
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTAAATAATAATA
Found at i:115829 original size:31 final size:30
Alignment explanation
Indices: 115705--115832 Score: 99
Period size: 29 Copynumber: 4.3 Consensus size: 30
115695 ATTAATGCTA
* **
115705 ATTT-ATTATAATTAATTAATTGTTATAATT
1 ATTTAATTATAATTAATAAATAATTAT-ATT
115735 A-TTAATTTATAATT-ATAAATTAATT-T-TT
1 ATTTAA-TTATAATTAATAAA-TAATTATATT
* * * *
115763 ATTTAATAATTATATATTAAAT-ATAATA-T
1 ATTTAATTATAAT-TAATAAATAATTATATT
115792 ATTTAATTATAATATAATAAATAATTATATT
1 ATTTAATTATAAT-TAATAAATAATTATATT
115823 ATTTAATTAT
1 ATTTAATTAT
115833 TTTATTTTGT
Statistics
Matches: 77, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
28 10 0.13
29 29 0.38
30 16 0.21
31 22 0.29
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (30 bp):
ATTTAATTATAATTAATAAATAATTATATT
Found at i:116031 original size:18 final size:18
Alignment explanation
Indices: 116005--116057 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
115995 TTTGTTGCTG
*
116005 TAAATTTATATAAATAAT
1 TAAAATTATATAAATAAT
*
116023 TAAAATTAT-TAATTATAT
1 TAAAATTATATAAATA-AT
*
116041 TAATATTA-ATAAATAAT
1 TAAAATTATATAAATAAT
116058 ATAATTTGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 7 0.24
18 22 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAAATTATATAAATAAT
Found at i:117083 original size:12 final size:12
Alignment explanation
Indices: 116984--117084 Score: 57
Period size: 12 Copynumber: 8.3 Consensus size: 12
116974 TAATTTACAA
*
116984 TAATATTTATAT
1 TAATAATTATAT
*
116996 TATTAA-T-TAT
1 TAATAATTATAT
*
117006 TAATTAATTATAA
1 TAA-TAATTATAT
* *
117019 TAGTAACTGATAT
1 TAATAA-TTATAT
*
117032 AAAT-A-TATTAT
1 TAATAATTA-TAT
*
117043 TAAAATATTATCAT
1 TAATA-ATTAT-AT
*
117057 TATTAATTATAT
1 TAATAATTATAT
117069 TAATAATTATAT
1 TAATAATTATAT
117081 TAAT
1 TAAT
117085 TTGATATATT
Statistics
Matches: 65, Mismatches: 15, Indels: 18
0.66 0.15 0.18
Matches are distributed among these distances:
10 6 0.09
11 9 0.14
12 26 0.40
13 17 0.26
14 7 0.11
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (12 bp):
TAATAATTATAT
Found at i:117233 original size:26 final size:26
Alignment explanation
Indices: 117200--117259 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
117190 TATTAACTAA
117200 AAAT-AATAGAATT-TATAATT-ATTAT
1 AAATAAATAGAATTATAT-ATTAATT-T
*
117225 AAATAAATATAATTATATATTAATTT
1 AAATAAATAGAATTATATATTAATTT
*
117251 ATATAAATA
1 AAATAAATA
117260 TATTATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 4 0.13
26 20 0.67
27 6 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
AAATAAATAGAATTATATATTAATTT
Found at i:117244 original size:10 final size:10
Alignment explanation
Indices: 117213--117262 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
117203 TAATAGAATT
117213 TATAATTAT-
1 TATAATTATA
* *
117222 TATAAATAAA
1 TATAATTATA
117232 TATAATTATA
1 TATAATTATA
117242 TATTAATT-TA
1 TA-TAATTATA
*
117252 TATAAATATA
1 TATAATTATA
117262 T
1 T
117263 TATTAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
9 11 0.33
10 17 0.52
11 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TATAATTATA
Found at i:117405 original size:34 final size:34
Alignment explanation
Indices: 117359--117424 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
117349 GTTTGATAAC
* *
117359 TAATATATAATTATATTATTAT-ATATCAAATTAT
1 TAATATAGAATTA-ATTAATATAATATCAAATTAT
*
117393 TAATATAGAATTAATTAATATAATATTAAATT
1 TAATATAGAATTAATTAATATAATATCAAATT
117425 CAAATATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 7 0.25
34 21 0.75
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (34 bp):
TAATATAGAATTAATTAATATAATATCAAATTAT
Found at i:117421 original size:15 final size:13
Alignment explanation
Indices: 117373--117420 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 13
117363 ATATAATTAT
117373 ATTATTATATATCAA
1 ATTATTA-ATAT-AA
117388 ATTATTAATATAGA
1 ATTATTAATATA-A
117402 ATTAATTAATATAA
1 ATT-ATTAATATAA
117416 TATTA
1 -ATTA
117421 AATTCAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.03
14 10 0.33
15 19 0.63
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
ATTATTAATATAA
Found at i:117544 original size:18 final size:18
Alignment explanation
Indices: 117518--117552 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
117508 AATATATTAT
*
117518 AAATTATTATAATTATAA
1 AAATAATTATAATTATAA
*
117536 AAATAATTATTATTATA
1 AAATAATTATAATTATA
117553 TATTATTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATAATTATAATTATAA
Found at i:117551 original size:34 final size:31
Alignment explanation
Indices: 117512--117574 Score: 81
Period size: 34 Copynumber: 1.9 Consensus size: 31
117502 ATAATGAATA
117512 TATTATAAATTATTATAATTATAAAAATAATTAT
1 TATTATAAATTATT-T-A-TATAAAAATAATTAT
* *
117546 TATTATATATTATTTATATATAAATAATT
1 TATTATAAATTATTTATATAAAAATAATT
117575 TATATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 12 0.44
32 1 0.04
33 1 0.04
34 13 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
TATTATAAATTATTTATATAAAAATAATTAT
Found at i:117567 original size:15 final size:15
Alignment explanation
Indices: 117541--117588 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
117531 TATAAAAATA
117541 ATTA-TTAT-TATAT
1 ATTATTTATATATAT
*
117554 ATTATTTATATATAA
1 ATTATTTATATATAT
*
117569 ATAATTTATATATAT
1 ATTATTTATATATAT
117584 -TTATT
1 ATTATT
117589 ACATAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 4 0.14
14 8 0.28
15 17 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTATTTATATATAT
Found at i:117707 original size:18 final size:19
Alignment explanation
Indices: 117686--117763 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 19
117676 TTATTAAATA
117686 ATAAT-TATTTACAATATT
1 ATAATATATTTACAATATT
*
117704 ATAA-ATA-TTA-ATTATAT
1 ATAATATATTTACAATAT-T
*
117721 ATAATATAGTTTATAA-A-T
1 ATAATATA-TTTACAATATT
117739 ATAATATATTTACACTATATT
1 ATAATATATTTACA--ATATT
117760 ATAA
1 ATAA
117764 GATAATAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 17
0.70 0.04 0.25
Matches are distributed among these distances:
16 4 0.09
17 13 0.28
18 18 0.38
19 1 0.02
20 5 0.11
21 6 0.13
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (19 bp):
ATAATATATTTACAATATT
Found at i:117715 original size:25 final size:26
Alignment explanation
Indices: 117671--117773 Score: 104
Period size: 29 Copynumber: 3.8 Consensus size: 26
117661 TTAGAAATTA
117671 ATATATTATTAAATAATAATTATTTAC
1 ATATATTA-TAAATAATAATTATTTAC
*
117698 A-ATATTATAAATATTAATTATATATA-
1 ATATATTATAAATAATAATTAT-T-TAC
117724 ATATAGTTTATAAAT-ATAATATATTTAC
1 ATATA--TTATAAATAATAAT-TATTTAC
117752 ACTATATTATAAGATAATAATT
1 A-TATATTATAA-ATAATAATT
117774 CCATATTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 19
0.75 0.02 0.22
Matches are distributed among these distances:
25 13 0.20
26 8 0.12
27 14 0.22
28 9 0.14
29 20 0.31
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.46
Consensus pattern (26 bp):
ATATATTATAAATAATAATTATTTAC
Found at i:117772 original size:29 final size:27
Alignment explanation
Indices: 117671--117772 Score: 104
Period size: 27 Copynumber: 3.7 Consensus size: 27
117661 TTAGAAATTA
117671 ATATATTATTAAATAATAAT-TATTTAC
1 ATATATTA-TAAATAATAATATATTTAC
* *
117698 A-ATATTATAAATATTAATTATATATA-
1 ATATATTATAAATAATAA-TATATTTAC
117724 ATATAGTTTATAAAT-ATAATATATTTAC
1 ATATA--TTATAAATAATAATATATTTAC
117752 ACTATATTATAAGATAATAAT
1 A-TATATTATAA-ATAATAAT
117773 TCCATATTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
25 9 0.15
26 8 0.13
27 22 0.35
28 6 0.10
29 17 0.27
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (27 bp):
ATATATTATAAATAATAATATATTTAC
Found at i:117842 original size:14 final size:14
Alignment explanation
Indices: 117824--117871 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
117814 TAAATTAATA
117824 AATTA-TAATTTTT
1 AATTACTAATTTTT
* *
117837 ATATTAGTAATATTT
1 A-ATTACTAATTTTT
117852 AATTACTAATTTTAT
1 AATTACTAATTTT-T
117867 AATTA
1 AATTA
117872 AATAGTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 1 0.03
14 14 0.48
15 14 0.48
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (14 bp):
AATTACTAATTTTT
Found at i:118442 original size:50 final size:49
Alignment explanation
Indices: 118348--118443 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 49
118338 TAACTATTTC
* * * *
118348 AATTATTATATAATTAATAATAACTCTTATTATTTTAATAAATAAACTA
1 AATTATTATATAATTAATAATAAATATAATTATATTAATAAATAAACTA
* *
118397 AATTATTTATATATTTAAT-ATAAATATAATTATATTATATTAATAAA
1 AATTA-TTATATAATTAATAATAAATATAATTATATTA-ATAAATAAA
118444 AGTTAATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
49 19 0.49
50 20 0.51
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (49 bp):
AATTATTATATAATTAATAATAAATATAATTATATTAATAAATAAACTA
Found at i:119870 original size:12 final size:12
Alignment explanation
Indices: 119845--119887 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
119835 TCAAGTATAA
*
119845 ATAATAAATAAT
1 ATAATAAATTAT
*
119857 ATAATGAATTAT
1 ATAATAAATTAT
119869 ATAAATAAATATAT
1 AT-AATAAAT-TAT
119883 ATAAT
1 ATAAT
119888 TATTACAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 12 0.46
13 9 0.35
14 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
ATAATAAATTAT
Found at i:119888 original size:22 final size:21
Alignment explanation
Indices: 119840--119890 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
119830 ATATATCAAG
*
119840 TATAAATA-ATAAATAATATA
1 TATAATTATATAAATAATATA
119860 -ATGAATTATATAAATAAATATA
1 TAT-AATTATATAAAT-AATATA
119882 TATAATTAT
1 TATAATTAT
119891 TACAATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 2 0.08
20 4 0.15
21 6 0.23
22 12 0.46
23 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TATAATTATATAAATAATATA
Found at i:119923 original size:20 final size:22
Alignment explanation
Indices: 119884--119927 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
119874 TAAATATATA
119884 TAATTATTACAATTATTTAATC
1 TAATTATTACAATTATTTAATC
*
119906 TAATTATTA-ATTTA-TTAATC
1 TAATTATTACAATTATTTAATC
119926 TA
1 TA
119928 TTCAATAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 4 0.19
22 9 0.43
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATTATTACAATTATTTAATC
Found at i:120171 original size:28 final size:28
Alignment explanation
Indices: 120125--120187 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
120115 TTAAATATTA
* *
120125 ATAATATTAATATTTAATATTTTTATTTG
1 ATAATATTAATA-TTAATAGTTGTATTTG
120154 ATAATATTAACTA-TAATAGTTGTATTTG
1 ATAATATTAA-TATTAATAGTTGTATTTG
*
120182 TTAATA
1 ATAATA
120188 ACTAATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 18 0.60
29 10 0.33
30 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (28 bp):
ATAATATTAATATTAATAGTTGTATTTG
Found at i:120283 original size:27 final size:26
Alignment explanation
Indices: 120235--120287 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
120225 AAATGTTATT
* *
120235 AATAATTAATAATATTTGATTTATAG
1 AATAATTAATAATATGTAATTTATAG
*
120261 AATAATATAATATTATGTAATTTATAG
1 AATAAT-TAATAATATGTAATTTATAG
120288 TATGACTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (26 bp):
AATAATTAATAATATGTAATTTATAG
Found at i:120339 original size:14 final size:15
Alignment explanation
Indices: 120319--120356 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
120309 TATTATGATA
120319 ATAATTAATTATTAT
1 ATAATTAATTATTAT
*
120334 -TAATTAA-TATTTT
1 ATAATTAATTATTAT
120347 ATAATTAATT
1 ATAATTAATT
120357 TATAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATAATTAATTATTAT
Found at i:120348 original size:18 final size:19
Alignment explanation
Indices: 120317--120377 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 19
120307 TATATTATGA
120317 TAATAATTAATTATTATTAAT
1 TAATAATT--TTATTATTAAT
*
120338 TAAT-ATTTTATAATTAAT
1 TAATAATTTTATTATTAAT
* *
120356 TTATAATTTATATTATAAAT
1 TAATAATTT-TATTATTAAT
120376 TA
1 TA
120378 TTTAATATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 13 0.39
19 4 0.12
20 12 0.36
21 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATAATTTTATTATTAAT
Found at i:122153 original size:16 final size:16
Alignment explanation
Indices: 122134--122176 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
122124 ATAATATAAT
122134 ATTAATATAAATTATA
1 ATTAATATAAATTATA
*
122150 ATTAA-ATTAAATTGTA
1 ATTAATA-TAAATTATA
*
122166 ATTAATTTAAA
1 ATTAATATAAA
122177 ATTTGTCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTAATATAAATTATA
Found at i:122223 original size:14 final size:14
Alignment explanation
Indices: 122201--122259 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
122191 GAATTTACAA
*
122201 TTATTATATTAATT
1 TTATAATATTAATT
122215 TTATAATATTAATT
1 TTATAATATTAATT
*
122229 ATA-ATATATTACAATAT
1 TTATA-ATATT--AAT-T
122246 TTATAAT-TTAATT
1 TTATAATATTAATT
122259 T
1 T
122260 AAATAATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
13 3 0.08
14 23 0.62
16 5 0.14
17 5 0.14
18 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATAATATTAATT
Found at i:122343 original size:15 final size:15
Alignment explanation
Indices: 122312--122385 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
122302 AATAATCTAA
*
122312 ATTATATT-TAATATT
1 ATTATATTAAAAT-TT
*
122327 ATTATATTAAAACTT
1 ATTATATTAAAATTT
*
122342 ATTCAT-TTATAATTT
1 ATT-ATATTAAAATTT
* * *
122357 AATAAATTATAATTT
1 ATTATATTAAAATTT
122372 ATTATAATTAAAAT
1 ATTAT-ATTAAAAT
122386 AAAATAATAA
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
14 1 0.02
15 34 0.74
16 11 0.24
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTATATTAAAATTT
Found at i:122400 original size:27 final size:25
Alignment explanation
Indices: 122348--122404 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
122338 ACTTATTCAT
* * *
122348 TTATAATTTAATAAATTATAATTTA
1 TTATAATTAAATAAATAATAAATTA
122373 TTATAATTAAAATAAAATAATAAATTA
1 TTATAATT-AAAT-AAATAATAAATTA
122400 TTATA
1 TTATA
122405 TATATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 8 0.30
26 3 0.11
27 16 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TTATAATTAAATAAATAATAAATTA
Found at i:123214 original size:28 final size:28
Alignment explanation
Indices: 123182--123256 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 28
123172 TATTATATAA
*
123182 TAATATTAATTATTACAAA-TATATTTAT
1 TAATATTAATTATTACAAATTA-ATTAAT
* **
123210 TAATATTTATTAATTTTAAATTAATTAAT
1 TAATATTAATT-ATTACAAATTAATTAAT
123239 T-ATATTAATTATATACAA
1 TAATATTAATTAT-TACAA
123257 TGCAGATATT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
27 2 0.05
28 21 0.57
29 12 0.32
30 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (28 bp):
TAATATTAATTATTACAAATTAATTAAT
Found at i:123484 original size:18 final size:18
Alignment explanation
Indices: 123451--123495 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
123441 TTATAAACAT
123451 ATAATATTATATTATTAGTA
1 ATAATA-TA-ATTATTAGTA
* *
123471 ATTATATAATTATTATTA
1 ATAATATAATTATTAGTA
123489 ATAATAT
1 ATAATAT
123496 TTCATTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
19 2 0.09
20 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATAATATAATTATTAGTA
Found at i:123579 original size:20 final size:20
Alignment explanation
Indices: 123551--123592 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
123541 GTAATAATAA
* *
123551 TATATCAATATTACAATATT
1 TATAACAATATAACAATATT
*
123571 TATAACAATATAATAATATT
1 TATAACAATATAACAATATT
123591 TA
1 TA
123593 ATAATATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
TATAACAATATAACAATATT
Found at i:123610 original size:19 final size:19
Alignment explanation
Indices: 123588--123627 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
123578 ATATAATAAT
*
123588 ATTTAA-TAATATTAATTTA
1 ATTTAATTAATAAT-ATTTA
123607 ATTTAATTAATAATATTTA
1 ATTTAATTAATAATATTTA
123626 AT
1 AT
123628 CTTCATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTAATTAATAATATTTA
Found at i:125069 original size:19 final size:19
Alignment explanation
Indices: 125041--125081 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
125031 ATAATTTTCA
* *
125041 AAATATTATTAACTATTTT
1 AAATAATATTAACTATTAT
*
125060 AAATAATATTTACTATTAT
1 AAATAATATTAACTATTAT
125079 AAA
1 AAA
125082 CAACAATTAT
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:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATAATATTAACTATTAT
Found at i:125750 original size:14 final size:14
Alignment explanation
Indices: 125726--125770 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
125716 ATATTACTAC
*
125726 TAATCATATATTATT
1 TAAT-ATATATTAAT
*
125741 TAATATATATAAAT
1 TAATATATATTAAT
*
125755 AAATATATATTAAT
1 TAATATATATTAAT
125769 TA
1 TA
125771 CACATTATCT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 21 0.84
15 4 0.16
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATATATATTAAT
Found at i:126474 original size:68 final size:69
Alignment explanation
Indices: 126402--126529 Score: 197
Period size: 68 Copynumber: 1.9 Consensus size: 69
126392 TCTCTTTTGA
*
126402 ATTTCTAAAATTTTCACCATTTAGGCTTATTTAGAAATTCTT-TTTCT-TTTATTTTATTTCTTT
1 ATTTCTAAAATTTTCACCATTTAGGCCTATTTAGAAATTCTTCTTTCTATTTA-TTTATTTCTTT
126465 GTTGG
65 GTTGG
* * *
126470 ATTTCTAAATTTTTCACCATTTGGGCCTATTTAGAAATTCTTCTTTTTATTTATTTATTT
1 ATTTCTAAAATTTTCACCATTTAGGCCTATTTAGAAATTCTTCTTTCTATTTATTTATTT
126530 TATTTTTCTT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
68 39 0.72
69 11 0.20
70 4 0.07
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.57
Consensus pattern (69 bp):
ATTTCTAAAATTTTCACCATTTAGGCCTATTTAGAAATTCTTCTTTCTATTTATTTATTTCTTTG
TTGG
Found at i:126774 original size:14 final size:14
Alignment explanation
Indices: 126744--126790 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
126734 TTAATCATGC
126744 AAAATAATAAGAA-AA
1 AAAAT-ATAA-AATAA
126759 AAACATAT-AAATAA
1 AAA-ATATAAAATAA
126773 AAAATATAAAATAA
1 AAAATATAAAATAA
126787 AAAA
1 AAAA
126791 AGGCTCGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 6 0.21
14 16 0.55
15 5 0.17
16 2 0.07
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (14 bp):
AAAATATAAAATAA
Found at i:126791 original size:15 final size:16
Alignment explanation
Indices: 126755--126791 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
126745 AAATAATAAG
126755 AAAAAAACATATAAAT
1 AAAAAAACATATAAAT
*
126771 -AAAAAATATA-AAAT
1 AAAAAAACATATAAAT
126785 AAAAAAA
1 AAAAAAA
126792 GGCTCGGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAAAACATATAAAT
Found at i:127650 original size:43 final size:41
Alignment explanation
Indices: 127589--127673 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 41
127579 TTTAAAAAGT
** *
127589 AAATAAAGCTCCTCTAAACAGGGGCTCAACAACTTTGAAAA
1 AAATAAAGCTCCTCTAAACAGAAGCACAACAACTTTGAAAA
*
127630 AAATAAATGGCTCCTTTAAACAGAAGCACAACAACTTTGAAAA
1 AAATAAA--GCTCCTCTAAACAGAAGCACAACAACTTTGAAAA
127673 A
1 A
127674 TAAAAGGCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 7 0.18
43 31 0.82
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (41 bp):
AAATAAAGCTCCTCTAAACAGAAGCACAACAACTTTGAAAA
Found at i:127673 original size:41 final size:41
Alignment explanation
Indices: 127589--127683 Score: 113
Period size: 43 Copynumber: 2.3 Consensus size: 41
127579 TTTAAAAAGT
** *
127589 AAATAAA-GCTCCTCTAAACAGGGGCTCAACAACTTTGAAAA
1 AAATAAAGGCTCCTCTAAACAGAAGCACAACAACTTTG-AAA
*
127630 AAATAAATGGCTCCTTTAAACAGAAGCACAACAACTTTG-AA
1 AAATAAA-GGCTCCTCTAAACAGAAGCACAACAACTTTGAAA
127671 AAATAAAAGGCTC
1 AAAT-AAAGGCTC
127684 ATTGACAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
41 18 0.38
42 3 0.06
43 26 0.55
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (41 bp):
AAATAAAGGCTCCTCTAAACAGAAGCACAACAACTTTGAAA
Found at i:127936 original size:42 final size:42
Alignment explanation
Indices: 127890--128058 Score: 137
Period size: 42 Copynumber: 3.9 Consensus size: 42
127880 CTTATCCACA
127890 TTTAAAGATTCTCATTTGATTTTGAAGATTCACATCTAAAAG
1 TTTAAAGATTCTCATTTGATTTTGAAGATTCACATCTAAAAG
* * * *
127932 TTTAAA-ACTTCTCATTCAAGTTAAATTTG-GGATTCACATCCAAAAAG
1 TTTAAAGA-TTCTCA-T----TTGATTTTGAAGATTCACAT-CTAAAAG
* * *
127979 TTT-AAGCTTTTTCATTTGAATTTTGAAGATTCACATCCAAAAG
1 TTTAAAG-ATTCTCATTTG-ATTTTGAAGATTCACATCTAAAAG
* * * *
128022 TTTAAAGCTTCTCATTCGAGTTCGAAGATTCACATCT
1 TTTAAAGATTCTCATTTGATTTTGAAGATTCACATCT
128059 GATAAATTTC
Statistics
Matches: 99, Mismatches: 16, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
41 1 0.01
42 30 0.30
43 23 0.23
44 12 0.12
46 12 0.12
47 21 0.21
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (42 bp):
TTTAAAGATTCTCATTTGATTTTGAAGATTCACATCTAAAAG
Found at i:128140 original size:25 final size:25
Alignment explanation
Indices: 128106--128354 Score: 199
Period size: 25 Copynumber: 10.6 Consensus size: 25
128096 TTGAAAACTC
128106 AAAGATTCTCATTTAAGGATTTCTT
1 AAAGATTCTCATTTAAGGATTTCTT
* * *
128131 AAAGATTCTCAATT-ATGA---CTC
1 AAAGATTCTCATTTAAGGATTTCTT
* *
128152 AAATATTCTCATTTGAGGATTTCTT
1 AAAGATTCTCATTTAAGGATTTCTT
*
128177 AAAGATTTTCATTTAA-GA---CTT
1 AAAGATTCTCATTTAAGGATTTCTT
* * * *
128198 AAATATTCTCGTTTGAGTATTTCTT
1 AAAGATTCTCATTTAAGGATTTCTT
* *
128223 AAAGATTCTCATTTGAGGATTTTTT
1 AAAGATTCTCATTTAAGGATTTCTT
* * *
128248 AAAGATTATCATTTGAGAATTTCTT
1 AAAGATTCTCATTTAAGGATTTCTT
*
128273 AAAAATTCTCATTTGAA-GATTTCTT
1 AAAGATTCTCATTT-AAGGATTTCTT
* *
128298 AAAGATTCTCACTTAA-GA---CTC
1 AAAGATTCTCATTTAAGGATTTCTT
*
128319 AAAGATTCTCATTTAA-GA---CTC
1 AAAGATTCTCATTTAAGGATTTCTT
128340 AAAGATTCTCATTTA
1 AAAGATTCTCATTTA
128355 TGACTCAAAG
Statistics
Matches: 185, Mismatches: 30, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
21 66 0.36
22 4 0.02
24 9 0.05
25 105 0.57
26 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (25 bp):
AAAGATTCTCATTTAAGGATTTCTT
Found at i:128235 original size:46 final size:47
Alignment explanation
Indices: 128088--128379 Score: 255
Period size: 46 Copynumber: 6.3 Consensus size: 47
128078 CATCTCAAAA
* *
128088 ATTCTCATTTGAAAACTCAAAGATTCTCATTTAAGGATTTCTTAAAG
1 ATTCTCATTTGAAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAG
* * *
128135 ATTCTCAATT-ATGACTCAAATATTCTCATTTGAGGATTTCTTAAAG
1 ATTCTCATTTGAAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAG
* * * * *
128181 ATTTTCATTT-AAGACTTAAATATTCTCGTTTGAGTATTTCTTAAAG
1 ATTCTCATTTGAAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAG
* * * * * *
128227 ATTCTCATTTGAGGATTTTTTAAAGATTATCATTTGAGAATTTCTTAAAA
1 ATTCTCATTTGAAGA---CTCAAAGATTCTCATTTGAGGATTTCTTAAAG
* * * *
128277 ATTCTCATTTGAAGATTTCTTAAAGATTCTCACTT-AAGA---CTCAAAG
1 ATTCTCATTTGAAGA---CTCAAAGATTCTCATTTGAGGATTTCTTAAAG
* *
128323 ATTCTCATTT-AAGACTCAAAGATTCTCATTT-ATGA---CTCAAAG
1 ATTCTCATTTGAAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAG
128365 ATTCTCATTTGAAGA
1 ATTCTCATTTGAAGA
128380 TTTATTAATT
Statistics
Matches: 210, Mismatches: 30, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
42 35 0.17
43 4 0.02
45 4 0.02
46 96 0.46
47 12 0.06
49 2 0.01
50 57 0.27
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (47 bp):
ATTCTCATTTGAAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAG
Found at i:128322 original size:21 final size:21
Alignment explanation
Indices: 128298--128379 Score: 137
Period size: 21 Copynumber: 3.9 Consensus size: 21
128288 AAGATTTCTT
*
128298 AAAGATTCTCACTTAAGACTC
1 AAAGATTCTCATTTAAGACTC
128319 AAAGATTCTCATTTAAGACTC
1 AAAGATTCTCATTTAAGACTC
*
128340 AAAGATTCTCATTTATGACTC
1 AAAGATTCTCATTTAAGACTC
128361 AAAGATTCTCATTTGAAGA
1 AAAGATTCTCATTT-AAGA
128380 TTTATTAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 54 0.95
22 3 0.05
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (21 bp):
AAAGATTCTCATTTAAGACTC
Found at i:128349 original size:42 final size:43
Alignment explanation
Indices: 128277--128379 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 43
128267 TTTCTTAAAA
*
128277 ATTCTCATTTGAAGATTTCTTAAAGATTCTCACTTAAGACTCAAAG
1 ATTCTCATTTGAAGA---CTCAAAGATTCTCACTTAAGACTCAAAG
* *
128323 ATTCTCATTT-AAGACTCAAAGATTCTCATTTATGACTCAAAG
1 ATTCTCATTTGAAGACTCAAAGATTCTCACTTAAGACTCAAAG
128365 ATTCTCATTTGAAGA
1 ATTCTCATTTGAAGA
128380 TTTATTAATT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
42 35 0.66
43 4 0.08
45 4 0.08
46 10 0.19
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (43 bp):
ATTCTCATTTGAAGACTCAAAGATTCTCACTTAAGACTCAAAG
Found at i:128396 original size:42 final size:44
Alignment explanation
Indices: 128223--128386 Score: 134
Period size: 50 Copynumber: 3.6 Consensus size: 44
128213 AGTATTTCTT
* * * * *
128223 AAAGATTCTCATTTGAGGATTTTTTAAAGATTATCATTTGAGAATTTCTT
1 AAAGATTCTCATTTGAAGATTTATT--AGATTCTCATTTAAG-A---CTC
* * *
128273 AAAAATTCTCATTTGAAGATTTCTTAAAGATTCTCACTTAAGACTC
1 AAAGATTCTCATTTGAAGATTTATT--AGATTCTCATTTAAGACTC
* * * *
128319 AAAGATTCTCATTT-AAGACTCA-AAGATTCTCATTTATGACTC
1 AAAGATTCTCATTTGAAGATTTATTAGATTCTCATTTAAGACTC
128361 AAAGATTCTCATTTGAAGATTTATTA
1 AAAGATTCTCATTTGAAGATTTATTA
128387 ATTATATTTA
Statistics
Matches: 95, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 31 0.33
43 6 0.06
44 1 0.01
45 5 0.05
46 15 0.16
49 1 0.01
50 36 0.38
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.40
Consensus pattern (44 bp):
AAAGATTCTCATTTGAAGATTTATTAGATTCTCATTTAAGACTC
Found at i:129972 original size:22 final size:21
Alignment explanation
Indices: 129944--129991 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
129934 ATTATATGAT
129944 TAATAT-ATTAAAGCATATAATA
1 TAATATAATTAAA-CATATAA-A
*
129966 TAATATAATTAAATATATAAA
1 TAATATAATTAAACATATAAA
129987 TAATA
1 TAATA
129992 GATAAAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 6 0.25
22 12 0.50
23 6 0.25
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
TAATATAATTAAACATATAAA
Found at i:130026 original size:19 final size:18
Alignment explanation
Indices: 130004--130042 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
129994 TAAAATACTA
*
130004 TAATATAGTATCTTGTTAT
1 TAATATAGTAT-TTATTAT
130023 TAATATAGTATTTATTAT
1 TAATATAGTATTTATTAT
130041 TA
1 TA
130043 CACTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (18 bp):
TAATATAGTATTTATTAT
Found at i:130119 original size:23 final size:22
Alignment explanation
Indices: 130093--130149 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
130083 TGAATATAAA
**
130093 TATATTTTAAATATCTTAACAAT
1 TATATTTTAAATATAGTAA-AAT
*
130116 TATATTATTAATTATAGTAAAAT
1 TATATT-TTAAATATAGTAAAAT
130139 TATA-TTTAAAT
1 TATATTTTAAAT
130150 TATAAATGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 5 0.17
22 1 0.03
23 13 0.45
24 10 0.34
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
TATATTTTAAATATAGTAAAAT
Found at i:130130 original size:12 final size:12
Alignment explanation
Indices: 130087--130153 Score: 54
Period size: 11 Copynumber: 5.9 Consensus size: 12
130077 TATATTTGAA
130087 TATAAA-TATAT
1 TATAAATTATAT
* *
130098 TTTAAA-TATCT
1 TATAAATTATAT
130109 TA-ACAATTATAT
1 TATA-AATTATAT
* *
130121 TATTAATTATAG
1 TATAAATTATAT
130133 TA-AAATTATAT
1 TATAAATTATAT
130144 T-TAAATTATA
1 TATAAATTATA
130154 AATGTTTAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
10 1 0.02
11 28 0.64
12 15 0.34
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (12 bp):
TATAAATTATAT
Found at i:130258 original size:13 final size:12
Alignment explanation
Indices: 130221--130278 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 12
130211 TACTAATAAT
*
130221 TATAATATACTA
1 TATAATATATTA
*
130233 TTTAA-AT-TTA
1 TATAATATATTA
130243 TATAATATAATTA
1 TATAATAT-ATTA
130256 TATGAATATATTA
1 TAT-AATATATTA
130269 -ATAAT-TATTA
1 TATAATATATTA
130279 AATTAATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
10 11 0.28
11 7 0.18
12 6 0.15
13 10 0.26
14 5 0.13
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (12 bp):
TATAATATATTA
Found at i:130357 original size:18 final size:18
Alignment explanation
Indices: 130336--130380 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
130326 TTAATTAATA
130336 ATATATAAAATTTTAAGT
1 ATATATAAAATTTTAAGT
*
130354 ATATTAATAAAGTTTTAAGT
1 ATA-T-ATAAAATTTTAAGT
130374 ATATATA
1 ATATATA
130381 CATAATCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.25
19 2 0.08
20 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (18 bp):
ATATATAAAATTTTAAGT
Found at i:130385 original size:22 final size:20
Alignment explanation
Indices: 130340--130377 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
130330 TTAATAATAT
130340 ATAAAATTTTAAGTATATTA
1 ATAAAATTTTAAGTATATTA
*
130360 ATAAAGTTTTAAGTATAT
1 ATAAAATTTTAAGTATAT
130378 ATACATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (20 bp):
ATAAAATTTTAAGTATATTA
Found at i:130547 original size:24 final size:23
Alignment explanation
Indices: 130498--130549 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
130488 TATAATTATG
*
130498 TATATTAATAAATATTTAAATAA
1 TATATTAATAAATAGTTAAATAA
*
130521 TATACTTAAT-AATAGTTAATATTA
1 TATA-TTAATAAATAGTTAA-ATAA
130545 TATAT
1 TATAT
130550 AATTATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TATATTAATAAATAGTTAAATAA
Found at i:130567 original size:14 final size:14
Alignment explanation
Indices: 130548--130574 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
130538 AATATTATAT
130548 ATAATTATTTAAAC
1 ATAATTATTTAAAC
130562 ATAATTATTTAAA
1 ATAATTATTTAAA
130575 TTTATTCAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAATTATTTAAAC
Found at i:131783 original size:11 final size:11
Alignment explanation
Indices: 131740--131783 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
131730 ACAAAATTAC
131740 TAATATTATAA
1 TAATATTATAA
*
131751 AAATATTATAA
1 TAATATTATAA
131762 TTATTATATTATAA
1 -TA--ATATTATAA
131776 TAATATTA
1 TAATATTA
131784 ATTATTAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 16 0.57
12 1 0.04
13 2 0.07
14 9 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TAATATTATAA
Found at i:131795 original size:16 final size:16
Alignment explanation
Indices: 131754--131801 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
131744 ATTATAAAAA
131754 TATTATAATTATTATAT
1 TATTATAA-TATTATAT
*
131771 TATAATAATATTA-AT
1 TATTATAATATTATAT
131786 TATTAGTAATATTATA
1 TATTA-TAATATTATA
131802 AATATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 6 0.22
16 13 0.48
17 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TATTATAATATTATAT
Found at i:131807 original size:18 final size:18
Alignment explanation
Indices: 131751--131808 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
131741 AATATTATAA
131751 AAATATTATAAT--TATT
1 AAATATTATAATAATATT
131767 --ATATTATAATAATATT
1 AAATATTATAATAATATT
* *
131783 AATTATTAGTAATATTA-T
1 AAATATTA-TAATAATATT
131801 AAATATTA
1 AAATATTA
131809 ATATAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 10 0.29
16 4 0.12
18 13 0.38
19 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AAATATTATAATAATATT
Found at i:131917 original size:19 final size:20
Alignment explanation
Indices: 131893--131941 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
131883 ATTAAACTAT
131893 TAATAATAAATAATGA-TAA
1 TAATAATAAATAATGAGTAA
131912 TAATAA-AAATTAATGAGTAA
1 TAATAATAAA-TAATGAGTAA
*
131932 -AATATTAAAT
1 TAATAATAAAT
131942 GTTATTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.12
19 17 0.65
20 6 0.23
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (20 bp):
TAATAATAAATAATGAGTAA
Found at i:131938 original size:44 final size:45
Alignment explanation
Indices: 131847--131939 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 45
131837 AATTAGTAGT
* * * * * * *
131847 TTAATAATAATATAATAATACTAATTACAATTGATTATTAAACTA
1 TTAATAATAATATAATAATAATAATAAAAATTAATGAGTAAAATA
*
131892 TTAATAATAA-ATAATGATAATAATAAAAATTAATGAGTAAAATA
1 TTAATAATAATATAATAATAATAATAAAAATTAATGAGTAAAATA
131936 TTAA
1 TTAA
131940 ATGTTATTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 30 0.75
45 10 0.25
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (45 bp):
TTAATAATAATATAATAATAATAATAAAAATTAATGAGTAAAATA
Found at i:134274 original size:180 final size:180
Alignment explanation
Indices: 133925--134276 Score: 427
Period size: 180 Copynumber: 2.0 Consensus size: 180
133915 ATAGATTCAT
* * * * * * *
133925 TTTTTAAATCTCTTACTCATTAATTTTTGGAATAGTAATAAGTTAGTATTATTTTATTTCGAATA
1 TTTTCAAATCTCTTACTCATTAATTGTTGAAATAGTAATAAATTAATATTATTTTAATCCGAATA
* * *** * *** * * *
133990 AGTTTATATGAATTGATATAATTATTTTATGGTGAAACAAAAGGTCATAACAGTTTGAAATAGAT
66 AGGTAATATGAACAAAAATAATTATTTTATGACAAAACAAAAGGTCAAAACAATTTGAAATAAAT
* * ** * *
134055 AATTATTCAGATAGTTATTACTATTTGAACTTGTTCGGTAAACATATTTA
131 AATTATTCAGATAGTCATAACTATTCAAAATTATTCGGTAAACATATTTA
* * *
134105 TTTTCAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCCGAATA
1 TTTTCAAATCTCTTACTCATTAATTGTTGAAATAGTAATAAATTAATATTATTTTAATCCGAATA
134170 AGGTAATATGAACAAAAATAATTATTTTATGACAAAACAAAAGGTCAAAACAATTTGAAATAAAT
66 AGGTAATATGAACAAAAATAATTATTTTATGACAAAACAAAAGGTCAAAACAATTTGAAATAAAT
*
134235 AATTGTTCTA-ATAGTCATAACTATTCAAAATTATTCGGTAAA
131 AATTATTC-AGATAGTCATAACTATTCAAAATTATTCGGTAAA
134277 TAGATTTGAA
Statistics
Matches: 142, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
180 141 0.99
181 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (180 bp):
TTTTCAAATCTCTTACTCATTAATTGTTGAAATAGTAATAAATTAATATTATTTTAATCCGAATA
AGGTAATATGAACAAAAATAATTATTTTATGACAAAACAAAAGGTCAAAACAATTTGAAATAAAT
AATTATTCAGATAGTCATAACTATTCAAAATTATTCGGTAAACATATTTA
Found at i:134549 original size:299 final size:300
Alignment explanation
Indices: 134009--134553 Score: 720
Period size: 299 Copynumber: 1.8 Consensus size: 300
133999 GAATTGATAT
** * * **
134009 AATTATTTTATGGTGAAACAAAAGGTCATAACAGTTTGAAATAGATAATTATTCAGATAGTTATT
1 AATTATTTTATGGACAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGCCATT
* * * * *
134074 ACTATTTGAACTTGTTCGGTAAACATATTTATTTTCAAATCTTTTACTTATTAATTGTTGAAATA
66 AATATTTGAACTTGTTCGGTAAACAGATTCATTTTCAAATCTGTCACTTATTAATTGTTGAAATA
* * * * *
134139 TTAATAAATTAATATTATTTTAATCCGAATAAGGTAATATGAACAAAAATAATTATTTTATGACA
131 TTAATAAATTAATATTATGTTAATCCAAATAAGCTAATATAAACAAAAACAATTATTTTATGACA
* * *
134204 AAACAAAAGGTCAAAACAATTTGAAATAAATAATTGTTCTAATAGTCATAACTATTCAAAATTAT
196 AAACAAAAGGTCAAAACAAATTGAAATAAATAATTATTCAAATAGTCATAACTATTCAAAATTAT
134269 TCGGTAAATAGATTTGAAATATGCTTGTATGAATAGGAAA
261 TCGGTAAATAGATTTGAAATATGCTTGTATGAATAGGAAA
* * * *
134309 AATTATTTTAT-GACAATACAAAAGGTTATAGCAATTTGAACTAGATAATTGTTCAAATAGCCA-
1 AATTATTTTATGGACAA-ACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGCCAT
* * *
134372 TAATATTTGAACTTGTTC-GTAAACAGATTCATTTTTTAAATCTGTCACTTATTAATTTTTGGAA
65 TAATATTTGAACTTGTTCGGTAAACAGATTCA-TTTTCAAATCTGTCACTTATTAATTGTTGAAA
* * ** * *
134436 TATTAATAAATTAGA-ATTATGTTATTCTAAATAAGCTTGTATAAACAAAAACAATTGTTTTGTG
129 TATTAATAAATTA-ATATTATGTTAATCCAAATAAGCTAATATAAACAAAAACAATTATTTTATG
* * *
134500 AGAAAACAAAAGGTCATAACAAATTGAAATAGATAATTATTCAAATAGTCATAA
193 ACAAAACAAAAGGTCAAAACAAATTGAAATAAATAATTATTCAAATAGTCATAA
134554 TTGTTTACAC
Statistics
Matches: 207, Mismatches: 35, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
298 11 0.05
299 146 0.71
300 50 0.24
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.37
Consensus pattern (300 bp):
AATTATTTTATGGACAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGCCATT
AATATTTGAACTTGTTCGGTAAACAGATTCATTTTCAAATCTGTCACTTATTAATTGTTGAAATA
TTAATAAATTAATATTATGTTAATCCAAATAAGCTAATATAAACAAAAACAATTATTTTATGACA
AAACAAAAGGTCAAAACAAATTGAAATAAATAATTATTCAAATAGTCATAACTATTCAAAATTAT
TCGGTAAATAGATTTGAAATATGCTTGTATGAATAGGAAA
Found at i:134671 original size:181 final size:179
Alignment explanation
Indices: 134296--134867 Score: 484
Period size: 181 Copynumber: 3.2 Consensus size: 179
134286 AATATGCTTG
* * *
134296 TATGAATAGGAAA-AATTATTTTATGACAATACAAAAGGTTATAGCAATTTGAACTAGATAATTG
1 TATGAATA-GAAACAATTATTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAGATAATTG
* * * * * **
134360 TTCAAATAGCCATAATATTTGAACTTGTTCGTAAACAGATTCATTTTTTAAATCTGTCACTTATT
65 TTCAAATAGTCATAATATTTGAACTTGATCGCAAACAGATACATTTTCTAAATCCATCACTTATT
*** * *
134425 AATTTTTGGAATATTAATAAATTAGAATTATGTTATTCTAAATAAGCTTG
130 AATTTTCAAAATATTAATAAATTAGAATTATGTTATTCTAAATAAGATTA
* * * * * * * * *
134475 TATAAACAAAAACAATTGTTTTGTGAGAAAACAAAAGGTCATAACAAATTGAAATAGATAATTAT
1 TATGAATAGAAACAATTATTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAGATAATTGT
* *
134540 TCAAATAGTCATAAT-TGTTTACAC-TGATCAAGCCAAA-AGATACATTTTCTAAATCCATTACT
66 TCAAATAGTCATAATAT-TTGA-ACTTGATC--G-CAAACAGATACATTTTCTAAATCCATCACT
* * *
134602 TATTAATTTTCAAAATATTAATAAATTAGCATTACT-TTATTTTGAATAAGATTA
126 TATTAATTTTCAAAATATTAATAAATTAGAATTA-TGTTATTCTAAATAAGATTA
* * * * *
134656 TATGAATAGAAACAATTATTTTATGATAAAACAAATGGTTATAACAATTTGAAATAAATATTTGG
1 TATGAATAGAAACAATTATTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAGATAATTGT
* * * * * *
134721 TCAAATAGTTATAAATAATTGAACTGTTAT-GACAAACAGAT-CTATTTTTTAAATCTC-TTACG
66 TCAAATAGTCAT-AATATTTGAACT-TGATCG-CAAACAGATAC-ATTTTCTAAATC-CATCACT
* * *
134783 TATTAAGTTTT-GAAATATTAATAAATTA-ATATTATTTTATT-TCAAACAA-ACTTA
126 TATTAA-TTTTCAAAATATTAATAAATTAGA-ATTATGTTATTCT-AAATAAGA-TTA
* * * * *
134837 TATGAACAAAAACATTTGTCTTATGACAAAA
1 TATGAATAGAAACAATTATTTTATGACAAAA
134868 TTGATATTAA
Statistics
Matches: 315, Mismatches: 59, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
178 4 0.01
179 70 0.22
180 11 0.03
181 212 0.67
182 15 0.05
183 3 0.01
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (179 bp):
TATGAATAGAAACAATTATTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAGATAATTGT
TCAAATAGTCATAATATTTGAACTTGATCGCAAACAGATACATTTTCTAAATCCATCACTTATTA
ATTTTCAAAATATTAATAAATTAGAATTATGTTATTCTAAATAAGATTA
Found at i:135235 original size:19 final size:20
Alignment explanation
Indices: 135211--135254 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
135201 AATAATAATA
*
135211 AATTAT-TATCTATTTATT-T
1 AATTATGTAT-TATCTATTAT
135230 AATTATGTATTATCTATTAT
1 AATTATGTATTATCTATTAT
135250 AATTA
1 AATTA
135255 ATATAACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (20 bp):
AATTATGTATTATCTATTAT
Found at i:135696 original size:33 final size:32
Alignment explanation
Indices: 135641--135717 Score: 77
Period size: 33 Copynumber: 2.4 Consensus size: 32
135631 TCCAAACATT
* *
135641 TTAATTATAATA-GTTAATTAAATAAATACTTAA
1 TTAATT-TAATATATTAAATAAATAAATA-TTAA
***
135674 TTAATTTAATATATTAAATAAATTCTTATTAA
1 TTAATTTAATATATTAAATAAATAAATATTAA
135706 TT-ATTTAATATA
1 TTAATTTAATATA
135718 ATAGAATATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
31 10 0.26
32 11 0.29
33 17 0.45
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (32 bp):
TTAATTTAATATATTAAATAAATAAATATTAA
Found at i:135747 original size:13 final size:14
Alignment explanation
Indices: 135648--135749 Score: 54
Period size: 16 Copynumber: 7.1 Consensus size: 14
135638 ATTTTAATTA
135648 TAATAGTTAATTAAAT
1 TAATA-TTAATT-AAT
*
135664 AAATACTTAATTAATT
1 TAATA-TTAATTAA-T
*
135680 TAATA-T-ATTAAA
1 TAATATTAATTAAT
*
135692 TAA-ATT-CTT-AT
1 TAATATTAATTAAT
135703 TAATTATTTAATATAAT
1 TAA-TA-TTAAT-TAAT
*
135720 AGAATATTAATTAAT
1 -TAATATTAATTAAT
135735 TAATATT-ATTAAT
1 TAATATTAATTAAT
135748 TA
1 TA
135750 TCTAAATATT
Statistics
Matches: 68, Mismatches: 9, Indels: 21
0.69 0.09 0.21
Matches are distributed among these distances:
11 5 0.07
12 6 0.09
13 14 0.21
14 9 0.13
15 7 0.10
16 21 0.31
17 4 0.06
18 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (14 bp):
TAATATTAATTAAT
Found at i:135747 original size:28 final size:27
Alignment explanation
Indices: 135661--135747 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 27
135651 TAGTTAATTA
135661 AATAAATACTTAATTAATTTAATA-TATT
1 AATAAATA-TTAATTAA-TTAATATTATT
*
135689 AAATAAAT-TCTTATTAATT-AT-TTAATAT
1 -AATAAATAT-TAATTAATTAATATT-AT-T
135717 AATAGAATATTAATTAATTAATATTATT
1 AATA-AATATTAATTAATTAATATTATT
135745 AAT
1 AAT
135748 TATCTAAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
26 3 0.06
27 9 0.19
28 22 0.46
29 12 0.25
30 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (27 bp):
AATAAATATTAATTAATTAATATTATT
Found at i:135822 original size:22 final size:25
Alignment explanation
Indices: 135797--135848 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 25
135787 TTCAATTGTT
135797 TAATAAAATTAAT-AT-T-ATTATA
1 TAATAAAATTAATAATATAATTATA
*
135819 TAATTAAATTAATAATATAATTATA
1 TAATAAAATTAATAATATAATTATA
135844 TAATA
1 TAATA
135849 TTTATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.48
23 2 0.08
24 1 0.04
25 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TAATAAAATTAATAATATAATTATA
Found at i:135825 original size:17 final size:17
Alignment explanation
Indices: 135797--135841 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
135787 TTCAATTGTT
*
135797 TAATAAAATTAATATT-A
1 TAATATAATTAA-ATTAA
*
135814 TTATATAATTAAATTAA
1 TAATATAATTAAATTAA
135831 TAATATAATTA
1 TAATATAATTA
135842 TATAATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATATAATTAAATTAA
Found at i:135871 original size:17 final size:17
Alignment explanation
Indices: 135851--135893 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
135841 ATATAATATT
135851 TATTATAT-TATAATAAA
1 TATTATATATATAA-AAA
135868 TATT-TAATATATAAAAA
1 TATTAT-ATATATAAAAA
135885 TATTATATA
1 TATTATATA
135894 ATTATCCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.04
17 16 0.70
18 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTATATATATAAAAA
Found at i:135871 original size:21 final size:19
Alignment explanation
Indices: 135831--135879 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 19
135821 ATTAAATTAA
135831 TAATATAATTATATAATATT
1 TAATAT-ATTATATAATATT
*
135851 TATTATATTATAATAAATATT
1 TAATATATTAT-AT-AATATT
135872 TAATATAT
1 TAATATAT
135880 AAAAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.20
20 7 0.28
21 13 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATATTATATAATATT
Found at i:135925 original size:21 final size:21
Alignment explanation
Indices: 135883--135941 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
135873 AATATATAAA
135883 AATATTATATAATTATCCTAAT
1 AATATTA-ATAATTATCCTAAT
* **
135905 AATATTAATCATTATGTTAAT
1 AATATTAATAATTATCCTAAT
135926 AATATTAAGTAATTAT
1 AATATTAA-TAATTAT
135942 TAATATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (21 bp):
AATATTAATAATTATCCTAAT
Found at i:135947 original size:17 final size:16
Alignment explanation
Indices: 135924--135969 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
135914 CATTATGTTA
135924 ATAATATTAAGTAATT
1 ATAATATTAAGTAATT
*
135940 ATTAATATTAATTAAATT
1 A-TAATATTAAGT-AATT
135958 ATAA-ATTAAGTA
1 ATAATATTAAGTA
135970 CTTTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.04
16 7 0.27
17 13 0.50
18 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
ATAATATTAAGTAATT
Found at i:136083 original size:20 final size:18
Alignment explanation
Indices: 136032--136089 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 18
136022 AAATATTAGT
136032 TATTA-AATAATTATCAA
1 TATTATAATAATTATCAA
136049 TCA-TATGAATAAATTATCCAAA
1 T-ATTAT-AAT-AATTAT-C-AA
136071 TATTATAATAATTAT-AA
1 TATTATAATAATTATCAA
136088 TA
1 TA
136090 ATATTAGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
17 7 0.21
18 1 0.03
19 3 0.09
20 12 0.35
21 5 0.15
22 6 0.18
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (18 bp):
TATTATAATAATTATCAA
Found at i:136177 original size:20 final size:20
Alignment explanation
Indices: 136152--136199 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
136142 TTATTTATTT
*
136152 ATATTACTTATTAATAATAA
1 ATATTAATTATTAATAATAA
* *
136172 ATATTAATTATTTATTATAA
1 ATATTAATTATTAATAATAA
136192 AT-TTAATT
1 ATATTAATT
136200 TATCACAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTAATTATTAATAATAA
Found at i:136202 original size:20 final size:20
Alignment explanation
Indices: 136138--136202 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
136128 TCTTTAACAA
*
136138 TAATTTATTTATT-TATA-T
1 TAATTTATTTATTATAAATT
* * *
136156 T-ACTTATTAATAATAAATAT
1 TAATTTATTTATTATAAAT-T
136176 TAA-TTATTTATTATAAATT
1 TAATTTATTTATTATAAATT
136195 TAATTTAT
1 TAATTTAT
136203 CACAAATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
17 8 0.22
18 4 0.11
19 4 0.11
20 19 0.53
21 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TAATTTATTTATTATAAATT
Found at i:136368 original size:13 final size:13
Alignment explanation
Indices: 136350--136376 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
136340 ATTATCTTAA
136350 TTATTATTAATAT
1 TTATTATTAATAT
136363 TTATTATTAATAT
1 TTATTATTAATAT
136376 T
1 T
136377 AAATATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATTAATAT
Found at i:136397 original size:34 final size:32
Alignment explanation
Indices: 136347--136482 Score: 88
Period size: 34 Copynumber: 4.3 Consensus size: 32
136337 ATAATTATCT
* * *
136347 TAATTATTATTAATATTTATTATTAATATTAAA
1 TAATAATTATT-ATATTTATTAATAATATAAAA
136380 T-ATAAATTAATT-TATATTATTTAATAATATAAAA
1 TAAT-AATT-ATTATAT-TTA-TTAATAATATAAAA
* * *
136414 TAATAATTATTATATTTATTTAT-CTAT-CAA
1 TAATAATTATTATATTTATTAATAATATAAAA
* * * *
136444 TATTAATTA-T-T-TTAATTAATACTATAAAT
1 TAATAATTATTATATTTATTAATAATATAAAA
136473 TAATAATTAT
1 TAATAATTAT
136483 AAAGCATATA
Statistics
Matches: 82, Mismatches: 12, Indels: 21
0.71 0.10 0.18
Matches are distributed among these distances:
27 7 0.09
28 5 0.06
29 10 0.12
30 10 0.12
31 3 0.04
32 9 0.11
33 13 0.16
34 23 0.28
35 2 0.02
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (32 bp):
TAATAATTATTATATTTATTAATAATATAAAA
Found at i:137334 original size:34 final size:33
Alignment explanation
Indices: 137295--137358 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
137285 TATGACTATT
137295 TAATAACAGTCT-ATAAATTAAATATTAATAGATA
1 TAATAACAGT-TAATAAATTAAATA-TAATAGATA
*
137329 TAATAATAGTTAATAAATTAAATATAATAG
1 TAATAACAGTTAATAAATTAAATATAATAG
137359 TTAAATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 7 0.25
34 21 0.75
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (33 bp):
TAATAACAGTTAATAAATTAAATATAATAGATA
Found at i:137365 original size:18 final size:19
Alignment explanation
Indices: 137342--137402 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 19
137332 TAATAGTTAA
137342 TAAATTAAATATAAT-AGT
1 TAAATTAAATATAATAAGT
137360 TAAATT--ATATAATAAGT
1 TAAATTAAATATAATAAGT
137377 TAAATTATAATAATTAATAAG-
1 TAAATTA-AAT-A-TAATAAGT
137398 TAAAT
1 TAAAT
137403 GTTTATCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.19
17 9 0.24
18 6 0.16
20 2 0.05
21 6 0.16
22 7 0.19
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAATTAAATATAATAAGT
Found at i:137462 original size:13 final size:13
Alignment explanation
Indices: 137434--137509 Score: 51
Period size: 13 Copynumber: 6.3 Consensus size: 13
137424 AATTTATTTA
* *
137434 ATTATATAATATT
1 ATTATATATTAAT
137447 ATTATATATTAAT
1 ATTATATATTAAT
*
137460 ATT-TAAATTAAAT
1 ATTATATATT-AAT
137473 ATTAT-TA-TAAT
1 ATTATATATTAAT
137484 A-TA-ATA--AAT
1 ATTATATATTAAT
137493 ATTATATAATT-AT
1 ATTATAT-ATTAAT
137506 ATTA
1 ATTA
137510 ATTTTATTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
9 4 0.08
10 6 0.12
11 6 0.12
12 7 0.14
13 27 0.53
14 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTATATATTAAT
Found at i:137752 original size:21 final size:20
Alignment explanation
Indices: 137724--137763 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
137714 ATAAAATAAT
137724 TAATATTATAGA-TAATATTA
1 TAATATTATA-ATTAATATTA
137744 TAATAATTATAATTAATATT
1 TAAT-ATTATAATTAATATT
137764 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:137853 original size:14 final size:14
Alignment explanation
Indices: 137834--137864 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
137824 TATATTATAC
*
137834 TATAATAATAATAA
1 TATAATAATAACAA
137848 TATAATAATAACAA
1 TATAATAATAACAA
137862 TAT
1 TAT
137865 CTTATAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (14 bp):
TATAATAATAACAA
Found at i:138020 original size:29 final size:31
Alignment explanation
Indices: 137988--138047 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
137978 ATTATAGTAA
137988 TAAATTAAATATTAA-CAAAT-ATAATAATT
1 TAAATTAAATATTAATCAAATAATAATAATT
* * *
138017 TAAATTGATTATTAATCAAATAATCATAATT
1 TAAATTAAATATTAATCAAATAATAATAATT
138048 ATTATTTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 13 0.50
30 5 0.19
31 8 0.31
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (31 bp):
TAAATTAAATATTAATCAAATAATAATAATT
Done.