Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 139 of 147
Found at i:25429786 original size:12 final size:13
Alignment explanation
Indices: 25429759--25429784 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25429749 TAGGGGTGAG
25429759 ATAAAAAAATAAA
1 ATAAAAAAATAAA
25429772 ATAAAAAAATAAA
1 ATAAAAAAATAAA
25429785 TATATTGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAAAATAAA
Found at i:25433073 original size:87 final size:88
Alignment explanation
Indices: 25432922--25433097 Score: 318
Period size: 87 Copynumber: 2.0 Consensus size: 88
25432912 ATGTAGCTTA
*
25432922 TCGGTTTTGATATGGTACAAGATGTTTATGTGCACTCTTTTGCCAGGGATGGGATTGAACAAATA
1 TCGGTTTTGATATAGTACAAGATGTTTATGTGCACTCTTTTGCCAGGGATGGGATTGAACAAATA
*
25432987 TCATCCTTGCAATTGCATTGGTT
66 TCATCCTTGCAATTGCATCGGTT
*
25433010 TCGG-TTTGATATAGTACAAGATGTTTATGTGCTCTCTTTTGCCAGGGATGGGATTGAACAAATA
1 TCGGTTTTGATATAGTACAAGATGTTTATGTGCACTCTTTTGCCAGGGATGGGATTGAACAAATA
25433074 TCATCCTTGCAATTGCATCGGTT
66 TCATCCTTGCAATTGCATCGGTT
25433097 T
1 T
25433098 GTACACTTTG
Statistics
Matches: 85, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
87 81 0.95
88 4 0.05
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (88 bp):
TCGGTTTTGATATAGTACAAGATGTTTATGTGCACTCTTTTGCCAGGGATGGGATTGAACAAATA
TCATCCTTGCAATTGCATCGGTT
Found at i:25441818 original size:2 final size:2
Alignment explanation
Indices: 25441811--25441843 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25441801 GAAAGACTGT
25441811 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
25441844 TTATCTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:25445574 original size:7 final size:6
Alignment explanation
Indices: 25445560--25445603 Score: 70
Period size: 6 Copynumber: 7.0 Consensus size: 6
25445550 CAATAAACTT
25445560 ATAAAA ATAAAAA ATAAAA ATAAAA ATAAAA ATAAAAA ATAAAA
1 ATAAAA AT-AAAA ATAAAA ATAAAA ATAAAA AT-AAAA ATAAAA
25445604 CACAAAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 24 0.67
7 12 0.33
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:25445578 original size:13 final size:13
Alignment explanation
Indices: 25445560--25445603 Score: 81
Period size: 13 Copynumber: 3.5 Consensus size: 13
25445550 CAATAAACTT
25445560 ATAAAAATAAAAA
1 ATAAAAATAAAAA
25445573 ATAAAAAT-AAAA
1 ATAAAAATAAAAA
25445585 ATAAAAATAAAAA
1 ATAAAAATAAAAA
25445598 ATAAAA
1 ATAAAA
25445604 CACAAAATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.40
13 18 0.60
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAAATAAAAA
Found at i:25445584 original size:19 final size:19
Alignment explanation
Indices: 25445560--25445603 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
25445550 CAATAAACTT
25445560 ATAAAAATAAAAA-ATAAAA
1 ATAAAAATAAAAATA-AAAA
25445579 ATAAAAATAAAAATAAAAA
1 ATAAAAATAAAAATAAAAA
25445598 ATAAAA
1 ATAAAA
25445604 CACAAAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (19 bp):
ATAAAAATAAAAATAAAAA
Found at i:25446637 original size:23 final size:24
Alignment explanation
Indices: 25446587--25446642 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
25446577 TAAAAAATAA
*
25446587 AAAATATAAATTTGAAATTTTTATT
1 AAAATATAAATTTGAAA-TATTATT
*
25446612 AAAATATAAGTTTGAAA-ATTATT
1 AAAATATAAATTTGAAATATTATT
25446635 AAAATATA
1 AAAATATA
25446643 GATACTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 13 0.45
25 16 0.55
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (24 bp):
AAAATATAAATTTGAAATATTATT
Found at i:25458263 original size:25 final size:26
Alignment explanation
Indices: 25458213--25458265 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 26
25458203 AAATGAGAGG
25458213 ATAGGAGAAAGAAGCACACACACAGAC
1 ATAGGAGAAAGAAG-ACACACACAGAC
25458240 ATAGGAGAAAGAAG-CACACACAGAC
1 ATAGGAGAAAGAAGACACACACAGAC
25458265 A
1 A
25458266 GAGTGCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 12 0.46
27 14 0.54
ACGTcount: A:0.53, C:0.21, G:0.23, T:0.04
Consensus pattern (26 bp):
ATAGGAGAAAGAAGACACACACAGAC
Found at i:25459724 original size:21 final size:21
Alignment explanation
Indices: 25459699--25459745 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
25459689 ATAATATAAA
25459699 AATAATATAAT-TTA-AAATTTT
1 AATAAT-TAATATTATAAA-TTT
25459720 AATAATTAATATTATAAATTT
1 AATAATTAATATTATAAATTT
25459741 AATAA
1 AATAA
25459746 AATTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.17
21 17 0.71
22 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATAATTAATATTATAAATTT
Found at i:25460027 original size:31 final size:28
Alignment explanation
Indices: 25459992--25460052 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
25459982 AGGTAATTTT
*
25459992 TTATTTCAAAGGGACAAATATTCTTTGCTAA
1 TTATTTCAAAGGG---AATATTCTTTGATAA
**
25460023 TTATTTTGAAGGGAATATTCTTTGATAA
1 TTATTTCAAAGGGAATATTCTTTGATAA
25460051 TT
1 TT
25460053 TAAAAGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 16 0.59
31 11 0.41
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (28 bp):
TTATTTCAAAGGGAATATTCTTTGATAA
Found at i:25460569 original size:18 final size:18
Alignment explanation
Indices: 25460548--25460599 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
25460538 TAGTTTAAAG
25460548 TCTTTAATTATAATTT-TC
1 TCTTT-ATTATAATTTATC
*
25460566 TCTTCTCATAATAATTTATC
1 TCTT-T-ATTATAATTTATC
*
25460586 TCATTATTATAATT
1 TCTTTATTATAATT
25460600 ATTTTTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 12 0.43
19 11 0.39
20 5 0.18
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (18 bp):
TCTTTATTATAATTTATC
Found at i:25465056 original size:19 final size:20
Alignment explanation
Indices: 25465029--25465072 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
25465019 AAAAAATATT
* *
25465029 TAAAAAAATTTTAATTA-AA
1 TAAAAAAATTATAAATATAA
*
25465048 TAAATAAATTATAAATATAA
1 TAAAAAAATTATAAATATAA
25465068 TAAAA
1 TAAAA
25465073 TTTATTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAAAAATTATAAATATAA
Found at i:25470955 original size:12 final size:12
Alignment explanation
Indices: 25470936--25470966 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25470926 TTTTTCAAAT
25470936 AATTTAATAAAA
1 AATTTAATAAAA
*
25470948 ATTTTAATAAAA
1 AATTTAATAAAA
25470960 AATTTAA
1 AATTTAA
25470967 ATCGATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATTTAATAAAA
Found at i:25471091 original size:13 final size:13
Alignment explanation
Indices: 25471058--25471112 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
25471048 TTCAACAGTA
25471058 AAAAT-TTTA-TT
1 AAAATATTTATTT
* *
25471069 AATATTTTTATTT
1 AAAATATTTATTT
25471082 AAAATATTTATTT
1 AAAATATTTATTT
*
25471095 AAAA-ATATATATT
1 AAAATATTTAT-TT
25471108 AAAAT
1 AAAAT
25471113 TTTTTAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 4 0.11
12 9 0.25
13 23 0.64
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAAATATTTATTT
Found at i:25471123 original size:9 final size:10
Alignment explanation
Indices: 25471106--25471134 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
25471096 AAAATATATA
25471106 TTAAAATTTT
1 TTAAAATTTT
25471116 TT-AAATTTT
1 TTAAAATTTT
25471125 TTAAAATTTT
1 TTAAAATTTT
25471135 ACACAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTAAAATTTT
Found at i:25471272 original size:20 final size:20
Alignment explanation
Indices: 25471249--25471287 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25471239 ATTCTAAATT
25471249 TTTAAT-TTAAATAATAAAGA
1 TTTAATCTTAAATAA-AAAGA
*
25471269 TTTAATCTTTAATAAAAAG
1 TTTAATCTTAAATAAAAAG
25471288 TTAATATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTAATCTTAAATAAAAAGA
Found at i:25478383 original size:18 final size:17
Alignment explanation
Indices: 25478350--25478396 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
25478340 ATTGTGAAAA
*
25478350 ATATTAAAATTTA-TAT
1 ATATTAAATTTTATTAT
*
25478366 AT-TTATATTTTATTAT
1 ATATTAAATTTTATTAT
25478382 ATATTAAATTTTATT
1 ATATTAAATTTTATT
25478397 TTGATATCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 8 0.31
16 7 0.27
17 11 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATTAAATTTTATTAT
Found at i:25479253 original size:19 final size:19
Alignment explanation
Indices: 25479202--25479253 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
25479192 ATTTAATATA
*
25479202 TATATAATTATTTTTTAAT
1 TATATATTTATTTTTTAAT
* *
25479221 TA-ATTAATTAATTTTTTATT
1 TATA-T-ATTTATTTTTTAAT
25479241 TATATATTTATTT
1 TATATATTTATTT
25479254 AATTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
18 1 0.04
19 10 0.38
20 14 0.54
21 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATATATTTATTTTTTAAT
Found at i:25479262 original size:18 final size:18
Alignment explanation
Indices: 25479239--25479273 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
25479229 TAATTTTTTA
25479239 TTTATATATT-TATTTAAT
1 TTTATAT-TTATATTTAAT
25479257 TTTATATTTATATTTAA
1 TTTATATTTATATTTAA
25479274 AAAATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTATATTTATATTTAAT
Found at i:25487259 original size:24 final size:24
Alignment explanation
Indices: 25487212--25487260 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
25487202 TATTTAATAT
* *
25487212 TAATACATAAAATTTATATATTAA
1 TAATACATAAAATATAAATATTAA
* *
25487236 TAATACATCAAATATAAATTTTAA
1 TAATACATAAAATATAAATATTAA
25487260 T
1 T
25487261 TTGTTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (24 bp):
TAATACATAAAATATAAATATTAA
Found at i:25488756 original size:13 final size:13
Alignment explanation
Indices: 25488720--25488761 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
25488710 TGATGAGATC
*
25488720 TTTTAATTTATTA
1 TTTTAATTTTTTA
25488733 GTTTTAATTTTTTA
1 -TTTTAATTTTTTA
*
25488747 TTTT-AGTTTTTA
1 TTTTAATTTTTTA
25488759 TTT
1 TTT
25488762 ACTTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 10 0.38
13 4 0.15
14 12 0.46
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTTAATTTTTTA
Found at i:25488767 original size:20 final size:19
Alignment explanation
Indices: 25488730--25488770 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
25488720 TTTTAATTTA
*
25488730 TTAGTTTTAATTTTTTATT
1 TTAGTTTTAATTTCTTATT
*
25488749 TTAGTTTTTATTTACTTATT
1 TTAGTTTTAATTT-CTTATT
25488769 TT
1 TT
25488771 TAATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (19 bp):
TTAGTTTTAATTTCTTATT
Found at i:25489242 original size:16 final size:17
Alignment explanation
Indices: 25489221--25489262 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
25489211 TATTTTTTAA
25489221 ATATAAATAAT-TAAAT
1 ATATAAATAATATAAAT
*
25489237 ATAT-AATTATATAAAT
1 ATATAAATAATATAAAT
25489253 ATATAAATAA
1 ATATAAATAA
25489263 AAAATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 5 0.23
16 13 0.59
17 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATAAATAATATAAAT
Found at i:25489268 original size:24 final size:24
Alignment explanation
Indices: 25489221--25489269 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
25489211 TATTTTTTAA
* *
25489221 ATATAAATAATTAAATATATAATT
1 ATATAAATAATTAAATAAAAAATT
25489245 ATATAAAT-ATATAAATAAAAAATT
1 ATATAAATAAT-TAAATAAAAAATT
25489269 A
1 A
25489270 ATTAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATAAATAATTAAATAAAAAATT
Found at i:25490224 original size:22 final size:22
Alignment explanation
Indices: 25490196--25490238 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25490186 ATTATAATAA
25490196 AATAAGA-TAAAATAATATTATG
1 AATAAGATTAAAATAA-ATTATG
*
25490218 AATAAGATTAAATTAAATTAT
1 AATAAGATTAAAATAAATTAT
25490239 ATCATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (22 bp):
AATAAGATTAAAATAAATTATG
Found at i:25490455 original size:26 final size:25
Alignment explanation
Indices: 25490396--25490463 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
25490386 AAATTAAAAA
*
25490396 TAATTTTTTTAT-TT-TGAAATAAT
1 TAATTTTTTTATATTAAGAAATAAT
**
25490419 TGAATCATTTTATATTAAGAAGATAAT
1 T-AATTTTTTTATATTAAGAA-ATAAT
25490446 TAATTTTTTTATAATTAA
1 TAATTTTTTTAT-ATTAA
25490464 ATTTATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 1 0.03
24 9 0.26
25 2 0.06
26 12 0.34
27 11 0.31
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (25 bp):
TAATTTTTTTATATTAAGAAATAAT
Found at i:25491508 original size:21 final size:22
Alignment explanation
Indices: 25491466--25491513 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
25491456 CTCGAAATTA
*
25491466 ATAAAATATTATTTTTTAAAAT
1 ATAAAATAATATTTTTTAAAAT
25491488 ATAAAATAATATTTTTT-AAAT
1 ATAAAATAATATTTTTTAAAAT
25491509 ATAAA
1 ATAAA
25491514 TATTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAAAATAATATTTTTTAAAAT
Found at i:25494314 original size:12 final size:13
Alignment explanation
Indices: 25494281--25494316 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
25494271 TTTCACCGTA
*
25494281 TTATAATTATATT
1 TTATAATTAAATT
25494294 TTATAATTAAATT
1 TTATAATTAAATT
25494307 TT-TAATTAAA
1 TTATAATTAAA
25494317 CTCTTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATAATTAAATT
Found at i:25495212 original size:16 final size:16
Alignment explanation
Indices: 25495188--25495221 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25495178 AGTGATTCGT
* *
25495188 TTAATATTTATTTTTA
1 TTAAAATTTATTTATA
25495204 TTAAAATTTATTTATA
1 TTAAAATTTATTTATA
25495220 TT
1 TT
25495222 TTATAGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAAAATTTATTTATA
Found at i:25495247 original size:31 final size:33
Alignment explanation
Indices: 25495198--25495259 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 33
25495188 TTAATATTTA
*
25495198 TTTTTATTAAAATTTATTT-A-TATTTTATAGT
1 TTTTTATTAAAATATATTTAATTATTTTATAGT
25495229 TTTTTA-TAAAATAATATTTAATTATTTTATA
1 TTTTTATTAAAAT-ATATTTAATTATTTTATA
25495260 AATTATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 6 0.22
31 11 0.41
32 1 0.04
33 9 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (33 bp):
TTTTTATTAAAATATATTTAATTATTTTATAGT
Found at i:25495260 original size:23 final size:24
Alignment explanation
Indices: 25495230--25495275 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
25495220 TTTTATAGTT
25495230 TTTTATAAAATAAT-ATTTAATTA
1 TTTTATAAAATAATAATTTAATTA
* *
25495253 TTTTATAAATTATTAATTTAATT
1 TTTTATAAAATAATAATTTAATT
25495276 TAATTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTATAAAATAATAATTTAATTA
Found at i:25497145 original size:2 final size:2
Alignment explanation
Indices: 25497138--25497167 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25497128 CAATTCATTC
25497138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25497168 TTGTAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25497679 original size:10 final size:10
Alignment explanation
Indices: 25497664--25497693 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
25497654 AATATTAACT
25497664 TAGAACATTA
1 TAGAACATTA
25497674 TAGAACATTA
1 TAGAACATTA
25497684 TAGAACATTA
1 TAGAACATTA
25497694 AGAGATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (10 bp):
TAGAACATTA
Found at i:25504162 original size:30 final size:30
Alignment explanation
Indices: 25504126--25504184 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
25504116 CCGAAATTAA
* *
25504126 TAAAAATATTATTTTTTAAATATAAATATT
1 TAAAAATATTATTATATAAATATAAATATT
*
25504156 TAAAAATATTATTATATAAATATATATAT
1 TAAAAATATTATTATATAAATATAAATAT
25504185 AAATAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TAAAAATATTATTATATAAATATAAATATT
Found at i:25504193 original size:30 final size:30
Alignment explanation
Indices: 25504127--25504193 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
25504117 CGAAATTAAT
* * *
25504127 AAAAATATTATTTTTTAAATATAAATATTT
1 AAAAATATTATTATATAAATATAAATATTA
*
25504157 AAAAATATTATTATATAAATATATATA-TA
1 AAAAATATTATTATATAAATATAAATATTA
25504186 AATAAATA
1 AA-AAATA
25504194 ATTAAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 3 0.09
30 29 0.91
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
AAAAATATTATTATATAAATATAAATATTA
Found at i:25504199 original size:12 final size:11
Alignment explanation
Indices: 25504184--25504219 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
25504174 AATATATATA
25504184 TAAATAAATAAT
1 TAAA-AAATAAT
25504196 TAAAAAATTAAT
1 TAAAAAA-TAAT
25504208 TAAAAAATAAT
1 TAAAAAATAAT
25504219 T
1 T
25504220 TTTTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAAAATAAT
Found at i:25504931 original size:21 final size:21
Alignment explanation
Indices: 25504889--25504931 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
25504879 AAAAAGTACT
* *
25504889 ATTTAAAATCAATTTATTATA
1 ATTTAAAATCAATATATAATA
25504910 ATTTAAAA-CACATATATAATA
1 ATTTAAAATCA-ATATATAATA
25504931 A
1 A
25504932 ATGCAAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTTAAAATCAATATATAATA
Found at i:25505656 original size:3 final size:3
Alignment explanation
Indices: 25505648--25505691 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
25505638 AATCTAGGCA
25505648 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
25505692 TCTCTTCATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:25509289 original size:16 final size:17
Alignment explanation
Indices: 25509265--25509303 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
25509255 TTTTTTAAAT
*
25509265 ATAAATATAAAATT-TA
1 ATAATTATAAAATTATA
25509281 ATAATTATAAAATTATA
1 ATAATTATAAAATTATA
25509298 A-AATTA
1 ATAATTA
25509304 AATAAATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATTATAAAATTATA
Found at i:25509294 original size:8 final size:8
Alignment explanation
Indices: 25509270--25509303 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
25509260 TAAATATAAA
25509270 TATAAAAT
1 TATAAAAT
25509278 T-TAATAAT
1 TATAA-AAT
25509286 TATAAAAT
1 TATAAAAT
25509294 TATAAAAT
1 TATAAAAT
25509302 TA
1 TA
25509304 AATAAATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 3 0.12
8 18 0.75
9 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TATAAAAT
Found at i:25509675 original size:22 final size:23
Alignment explanation
Indices: 25509647--25509689 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
25509637 ATTTATATCT
25509647 TAATAAAT-ATAATAAAATAAAC
1 TAATAAATAATAATAAAATAAAC
*
25509669 TAATAAATAATTATAAAATAA
1 TAATAAATAATAATAAAATAA
25509690 TTATTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
TAATAAATAATAATAAAATAAAC
Found at i:25509999 original size:18 final size:16
Alignment explanation
Indices: 25509961--25509992 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
25509951 TCATTTTTAA
25509961 TAATTTTATATATTAT
1 TAATTTTATATATTAT
25509977 TAATTTTATA-ATTAT
1 TAATTTTATATATTAT
25509992 T
1 T
25509993 TTTAATTATA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTTTATATATTAT
Found at i:25512959 original size:8 final size:8
Alignment explanation
Indices: 25512948--25512977 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
25512938 ACAAATTTAT
25512948 TAATTAAA
1 TAATTAAA
25512956 TAATTAAA
1 TAATTAAA
25512964 TAATTAAA
1 TAATTAAA
25512972 TAATTA
1 TAATTA
25512978 TAGCGTTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATTAAA
Found at i:25513254 original size:27 final size:26
Alignment explanation
Indices: 25513200--25513254 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
25513190 TTCGTAATTT
* *
25513200 TTTTATTAAAAATATTTTAATATGAA
1 TTTTATTAAAAATATTTTAAAATAAA
25513226 TTTTAGTTAAAAA-ATTTTAAAAATAAA
1 TTTTA-TTAAAAATATTTT-AAAATAAA
25513253 TT
1 TT
25513255 AATAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (26 bp):
TTTTATTAAAAATATTTTAAAATAAA
Found at i:25513295 original size:16 final size:13
Alignment explanation
Indices: 25513234--25513306 Score: 53
Period size: 13 Copynumber: 5.5 Consensus size: 13
25513224 AATTTTAGTT
25513234 AAAA-AATT-TTA
1 AAAATAATTATTA
*
25513245 AAAATAAATTAATA
1 AAAAT-AATTATTA
*
25513259 AAAATTAATGA-TA
1 AAAA-TAATTATTA
*
25513272 AAATTAATAGTATGTA
1 AAAATAAT--TAT-TA
25513288 AAAATAATTATTA
1 AAAATAATTATTA
25513301 AAAATA
1 AAAATA
25513307 TCAGTTATCT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
11 4 0.08
12 4 0.08
13 17 0.35
14 14 0.29
15 1 0.02
16 9 0.18
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (13 bp):
AAAATAATTATTA
Found at i:25517058 original size:16 final size:16
Alignment explanation
Indices: 25517037--25517072 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
25517027 TATTTTAAAA
25517037 ATTTTTAAATCATATT
1 ATTTTTAAATCATATT
* *
25517053 ATTTTTATATTATATT
1 ATTTTTAAATCATATT
25517069 ATTT
1 ATTT
25517073 ATCGTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTTAAATCATATT
Found at i:25519951 original size:16 final size:16
Alignment explanation
Indices: 25519930--25519964 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
25519920 ATAAAATAAG
*
25519930 ATTATAATTATTTTAT
1 ATTATAATTAATTTAT
*
25519946 ATTATATTTAATTTAT
1 ATTATAATTAATTTAT
25519962 ATT
1 ATT
25519965 TAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTATAATTAATTTAT
Found at i:25524124 original size:20 final size:20
Alignment explanation
Indices: 25524082--25524121 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
25524072 GATTTTTTAG
25524082 ATTTCATTTAATTCAAATAA
1 ATTTCATTTAATTCAAATAA
25524102 ATTT-ATTTACATT-AAATAA
1 ATTTCATTTA-ATTCAAATAA
25524121 A
1 A
25524122 ATTCTCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTCATTTAATTCAAATAA
Found at i:25527358 original size:23 final size:22
Alignment explanation
Indices: 25527332--25527383 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
25527322 CATTTTTATC
*
25527332 TTTAATTTGTATTTAAATAAAAT
1 TTTAATTTATATTTAAAT-AAAT
25527355 TTTAATTTATATTTAAATAAAT
1 TTTAATTTATATTTAAATAAAT
25527377 TTGTAAT
1 TT-TAAT
25527384 ATTTAATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
TTTAATTTATATTTAAATAAAT
Found at i:25527469 original size:29 final size:29
Alignment explanation
Indices: 25527436--25527509 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
25527426 TTTATTTAGA
*
25527436 ATAAAAATTTATTTAACTACAA-ATCAA-T
1 ATAAAAATTTATTTAACTACAATA-AAACT
**
25527464 ATTAAAAATTTATTTATGTACAATAAAACT
1 A-TAAAAATTTATTTAACTACAATAAAACT
25527494 ATAAAAATTTATTTAA
1 ATAAAAATTTATTTAA
25527510 AAAATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
28 1 0.03
29 35 0.90
30 3 0.08
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (29 bp):
ATAAAAATTTATTTAACTACAATAAAACT
Found at i:25527556 original size:3 final size:3
Alignment explanation
Indices: 25527550--25527581 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
25527540 CAAGATTTTT
25527550 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
25527582 TTTTATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:25528168 original size:7 final size:7
Alignment explanation
Indices: 25528156--25528199 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
25528146 TAATCGCAAC
25528156 ATATTAA
1 ATATTAA
25528163 ATATTAA
1 ATATTAA
25528170 ATATTAA
1 ATATTAA
25528177 ATATTAA
1 ATATTAA
* *
25528184 CTTTTAA
1 ATATTAA
25528191 AT-TTAA
1 ATATTAA
25528197 ATA
1 ATA
25528200 CTTTTTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (7 bp):
ATATTAA
Found at i:25546817 original size:23 final size:24
Alignment explanation
Indices: 25546787--25546841 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
25546777 TAAGTGATAT
* *
25546787 AATAAAATTATAAAAT-AAAATTA
1 AATAAAATAATAAAATAAAAATAA
*
25546810 AATAAAATAATAATATCAAAAATAA
1 AATAAAATAATAAAAT-AAAAATAA
25546835 AATAAAA
1 AATAAAA
25546842 ATTTTCATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 14 0.52
25 13 0.48
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (24 bp):
AATAAAATAATAAAATAAAAATAA
Found at i:25555824 original size:2 final size:2
Alignment explanation
Indices: 25555817--25555845 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25555807 GAATTAATCG
25555817 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25555846 ATCTGCTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25559891 original size:17 final size:17
Alignment explanation
Indices: 25559867--25559915 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
25559857 AATTGTTTTT
25559867 AAATTATATATAATAAA
1 AAATTATATATAATAAA
*
25559884 ATATTATA-ATTAA-AAA
1 AAATTATATA-TAATAAA
25559900 AAATTAT-TATAATAAA
1 AAATTATATATAATAAA
25559916 TCATTTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 3 0.11
16 14 0.52
17 10 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTATATATAATAAA
Found at i:25561971 original size:2 final size:2
Alignment explanation
Indices: 25561964--25561990 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25561954 AGAGCCCTAT
25561964 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
25561991 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:25561995 original size:2 final size:2
Alignment explanation
Indices: 25561990--25562019 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25561980 TCTCTCTCTC
25561990 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25562020 AAACAGTGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25571490 original size:13 final size:13
Alignment explanation
Indices: 25571474--25571499 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25571464 CAAAAGCCTT
25571474 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
25571487 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
25571500 GGGGTAATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:25572907 original size:30 final size:30
Alignment explanation
Indices: 25572838--25572908 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
25572828 TATAAATTAT
* * * *
25572838 ATTTAATGATCTCAGATAAATATGAACCAC
1 ATTTAATAATTTCAGATAAATATAAACCAA
*
25572868 ATTTAATAATTTCAGATAAATTTAAAACCAA
1 ATTTAATAATTTCAGATAAATAT-AAACCAA
25572899 ATTT-ATAATT
1 ATTTAATAATT
25572909 ATAAAATGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 26 0.74
31 9 0.26
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (30 bp):
ATTTAATAATTTCAGATAAATATAAACCAA
Found at i:25577296 original size:21 final size:21
Alignment explanation
Indices: 25577272--25577322 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
25577262 CTCAAAATTA
* *
25577272 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTAATTTTAAAAT
25577293 ATAAAATATTAATTTTAAAAT
1 ATAAAATATTAATTTTAAAAT
25577314 AT-AAATATT
1 ATAAAATATT
25577323 TAAAAATATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAAATATTAATTTTAAAAT
Found at i:25577310 original size:20 final size:20
Alignment explanation
Indices: 25577271--25577322 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
25577261 ACTCAAAATT
*
25577271 AATAAAATATTATTTTTTAA
1 AATAAAATATTATATTTTAA
25577291 ATATAAAATATTA-ATTTTAA
1 A-ATAAAATATTATATTTTAA
25577311 AATATAAATATT
1 AATA-AAATATT
25577323 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 3 0.10
20 15 0.52
21 11 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAAAATATTATATTTTAA
Found at i:25577328 original size:16 final size:16
Alignment explanation
Indices: 25577295--25577354 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
25577285 TTTTAAATAT
*
25577295 AAAATATTAAT-TTT-
1 AAAATATAAATATTTA
25577309 AAAATATAAATATTTA
1 AAAATATAAATATTTA
* * *
25577325 AAAATATCATTATATA
1 AAAATATAAATATTTA
25577341 AATATATATAAATA
1 AA-A-ATATAAATA
25577355 AAAAATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
14 10 0.28
15 3 0.08
16 15 0.42
17 1 0.03
18 7 0.19
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATATAAATATTTA
Found at i:25578588 original size:23 final size:22
Alignment explanation
Indices: 25578546--25578589 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
25578536 AAATGATTTT
25578546 AATTTATTTAATATTAAAATTA
1 AATTTATTTAATATTAAAATTA
25578568 AATTT-TTTATATAATTAAAATT
1 AATTTATTTA-AT-ATTAAAATT
25578590 TCATGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTTATTTAATATTAAAATTA
Found at i:25584265 original size:22 final size:21
Alignment explanation
Indices: 25584216--25584261 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
25584206 TTATATTACA
*
25584216 TTTTCTTCCATGTATGTATTC
1 TTTTCCTCCATGTATGTATTC
25584237 TTTTCCTCCATGTATGTATTC
1 TTTTCCTCCATGTATGTATTC
25584258 TTTT
1 TTTT
25584262 TCCTATAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.13, C:0.20, G:0.09, T:0.59
Consensus pattern (21 bp):
TTTTCCTCCATGTATGTATTC
Found at i:25587931 original size:2 final size:2
Alignment explanation
Indices: 25587924--25587950 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25587914 TTTGTTTTAT
25587924 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
25587951 TTACCTCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25588789 original size:18 final size:18
Alignment explanation
Indices: 25588742--25588799 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
25588732 ATTTTATTAT
25588742 ATTTTAAAAAATTATATCAA
1 ATTTT-AAAAATTATAT-AA
*
25588762 TAATTT--AAATTATATAA
1 -ATTTTAAAAATTATATAA
25588779 ATTTTAAAAA-TATAT-A
1 ATTTTAAAAATTATATAA
25588795 ATTTT
1 ATTTT
25588800 GATAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
16 10 0.30
17 7 0.21
18 12 0.36
21 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTTAAAAATTATATAA
Found at i:25588794 original size:17 final size:17
Alignment explanation
Indices: 25588772--25588814 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
25588762 TAATTTAAAT
25588772 TATATAAATTTTAAAAA
1 TATATAAATTTTAAAAA
* *
25588789 TATAT-AATTTTGATAA
1 TATATAAATTTTAAAAA
*
25588805 TAAATAAATT
1 TATATAAATT
25588815 ATTTTTATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TATATAAATTTTAAAAA
Found at i:25589183 original size:15 final size:14
Alignment explanation
Indices: 25589165--25589200 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
25589155 CATGAATAAC
*
25589165 AAATAAATTATAATT
1 AAATAAATT-TAAAT
25589180 AAATAAATTTAAAT
1 AAATAAATTTAAAT
25589194 AAATAAA
1 AAATAAA
25589201 CTTTCAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAAATTTAAAT
Found at i:25589317 original size:22 final size:22
Alignment explanation
Indices: 25589275--25589317 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
25589265 TCGTATTATT
* *
25589275 ATAAATGAACAGCAAATAAATA
1 ATAAATGAACAACAAACAAATA
*
25589297 ATAAATGAACAATAAACAAAT
1 ATAAATGAACAACAAACAAAT
25589318 GAGTTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.07, T:0.19
Consensus pattern (22 bp):
ATAAATGAACAACAAACAAATA
Found at i:25590622 original size:24 final size:26
Alignment explanation
Indices: 25590595--25590648 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
25590585 TAGATTTTAC
* *
25590595 TTTTATT-TA-TGAGAAAAAAAATAA
1 TTTTATTCTATTGAAAAAAAAAAAAA
*
25590619 TTTT-TTCTATTTAAAAAAAAAAAAA
1 TTTTATTCTATTGAAAAAAAAAAAAA
25590644 TTTTA
1 TTTTA
25590649 GCTTAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
23 2 0.08
24 6 0.25
25 16 0.67
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (26 bp):
TTTTATTCTATTGAAAAAAAAAAAAA
Found at i:25599858 original size:39 final size:39
Alignment explanation
Indices: 25599789--25599865 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
25599779 TTCAGGCTTT
*
25599789 GAGGATCTGGTTGGATGTTTTAAACTTGAAAAGGAGTTG
1 GAGGATCTGGTTGGATGTTTTAAACGTGAAAAGGAGTTG
** *
25599828 GAGGATCTGGTTGGATGTTTTGGACGTGAAAGGGAGTT
1 GAGGATCTGGTTGGATGTTTTAAACGTGAAAAGGAGTT
25599866 TGAGAAGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.25, C:0.05, G:0.38, T:0.32
Consensus pattern (39 bp):
GAGGATCTGGTTGGATGTTTTAAACGTGAAAAGGAGTTG
Found at i:25604036 original size:14 final size:14
Alignment explanation
Indices: 25604017--25604047 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25604007 GTGAAATATG
25604017 ATATGTAAACTTTA
1 ATATGTAAACTTTA
25604031 ATATGTAAACTTTA
1 ATATGTAAACTTTA
25604045 ATA
1 ATA
25604048 ATTTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (14 bp):
ATATGTAAACTTTA
Found at i:25605716 original size:17 final size:17
Alignment explanation
Indices: 25605694--25605739 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
25605684 CATCGGTCAG
*
25605694 TAGAATGCTCGACTTGA
1 TAGAATGCTCGACTCGA
** *
25605711 TAGAATGCTTAACTCGG
1 TAGAATGCTCGACTCGA
25605728 TAGAATGCTCGA
1 TAGAATGCTCGA
25605740 ATTTTAATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (17 bp):
TAGAATGCTCGACTCGA
Found at i:25605787 original size:3 final size:3
Alignment explanation
Indices: 25605779--25605807 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25605769 GACAACCTCA
25605779 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25605808 ATACTCGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:25610894 original size:25 final size:24
Alignment explanation
Indices: 25610845--25610908 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
25610835 ATGAGTTTAA
**
25610845 ATTT-AAATTTATATTAATTTTATT
1 ATTTAAAATTTA-ATTAATTAAATT
25610869 ATGTTAAAATTTAATTAATTAAATT
1 AT-TTAAAATTTAATTAATTAAATT
*
25610894 ATTTAATAATATAAT
1 ATTTAA-AATTTAAT
25610909 ATTTAATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 6 0.18
25 21 0.62
26 7 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTTAAAATTTAATTAATTAAATT
Found at i:25611696 original size:27 final size:28
Alignment explanation
Indices: 25611666--25611751 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 28
25611656 TATAAAATAA
*
25611666 AAAATATATATAT-TAAAATTTTTTTAT
1 AAAATATATATATATAAAATTTTTATAT
*
25611693 AAAA-AT-TATGATATATAATTTTTATAT
1 AAAATATATAT-ATATAAAATTTTTATAT
*
25611720 AAAATATAATATAAATATATAAATTTTAATAT
1 AAAATAT-ATAT--ATATA-AAATTTTTATAT
25611752 TTTATAAGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
25 3 0.06
26 4 0.09
27 20 0.43
28 2 0.04
30 3 0.06
31 5 0.11
32 10 0.21
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (28 bp):
AAAATATATATATATAAAATTTTTATAT
Found at i:25611706 original size:28 final size:27
Alignment explanation
Indices: 25611665--25611734 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
25611655 TTATAAAATA
*
25611665 AAAAATATATATATTAAAATTTTTTTAT
1 AAAAATATATATA-TAAAATTTTTATAT
*
25611693 AAAAAT-TATGATATATAATTTTTATAT
1 AAAAATATAT-ATATAAAATTTTTATAT
25611720 -AAAATATA-ATATAAA
1 AAAAATATATATATAAA
25611735 TATATAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
25 6 0.16
26 5 0.14
27 17 0.46
28 9 0.24
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (27 bp):
AAAAATATATATATAAAATTTTTATAT
Found at i:25612735 original size:13 final size:13
Alignment explanation
Indices: 25612719--25612751 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25612709 ATATGTGAAT
25612719 TATATATAAATTA
1 TATATATAAATTA
*
25612732 TATATAAAAATTA
1 TATATATAAATTA
25612745 -ATATATA
1 TATATATA
25612752 TTAAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TATATATAAATTA
Found at i:25612754 original size:23 final size:21
Alignment explanation
Indices: 25612716--25612776 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
25612706 ATAATATGTG
*
25612716 AATTATATATAAATTATATATAAA
1 AATTA-ATAT-AATTATAAAT-AA
*
25612740 AATTAATATATATTAAAAATAA
1 AATTAATATA-ATTATAAATAA
25612762 AATT-ATATAATTATA
1 AATTAATATAATTATA
25612777 CATATTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.15
21 5 0.15
22 7 0.21
23 11 0.33
24 5 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTAATATAATTATAAATAA
Found at i:25612768 original size:17 final size:17
Alignment explanation
Indices: 25612724--25612770 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
25612714 TGAATTATAT
25612724 ATAAATTATATATAAAA
1 ATAAATTATATATAAAA
*
25612741 ATTAA-TATATATTAAAA
1 ATAAATTATATA-TAAAA
25612758 ATAAAATTATATA
1 AT-AAATTATATA
25612771 ATTATACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 6 0.24
17 11 0.44
18 2 0.08
19 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAATTATATATAAAA
Found at i:25612820 original size:15 final size:15
Alignment explanation
Indices: 25612797--25612837 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
25612787 TTTATTAAAA
*
25612797 ATATAATATAATTAT
1 ATATTATATAATTAT
*
25612812 ATATTATATATTTAT
1 ATATTATATAATTAT
*
25612827 TTATTATATAA
1 ATATTATATAA
25612838 ATTAGATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATATAATTAT
Found at i:25616370 original size:153 final size:153
Alignment explanation
Indices: 25616071--25616381 Score: 570
Period size: 153 Copynumber: 2.0 Consensus size: 153
25616061 TGAATTTATG
25616071 AAATTATATCCTTTTGAGGATTAGTTGATTCATGTTTCATCTGATTGGAAATGGATCTCTTAATT
1 AAATTATATCCTTTTGAGGATTAGTTGATTCATGTTTCATCTGATTGGAAATGGATCTCTTAATT
25616136 GAGTTTTGAGTATAAATTTTAAAAAAAAAATTATAATGGTCGATAATACTCATAGCATTGCTCTC
66 GAGTTTTGAGTATAAATTTTAAAAAAAAAATTATAATGGTCGATAATACTCATAGCATTGCTCTC
* *
25616201 TTTTTAAACTTTTTTGTCTAATC
131 TTTTTAAACTTGTTTGTATAATC
25616224 AAATTATATCCTTTTGAGGATTAGTTGATTCATGTTTCATCTGATTGGAAATGGATCTCTTAATT
1 AAATTATATCCTTTTGAGGATTAGTTGATTCATGTTTCATCTGATTGGAAATGGATCTCTTAATT
* *
25616289 GAGTTTTGAGTATAAATTTT-AAAAAAAAATTATAATGGTCGATAATACTCATAGCATTGTTCTT
66 GAGTTTTGAGTATAAATTTTAAAAAAAAAATTATAATGGTCGATAATACTCATAGCATTGCTCTC
25616353 TTTTTAAACTTCGTTTGTATAATC
131 TTTTTAAACTT-GTTTGTATAATC
25616377 AAATT
1 AAATT
25616382 TGGATTAATG
Statistics
Matches: 153, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
152 53 0.35
153 100 0.65
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.43
Consensus pattern (153 bp):
AAATTATATCCTTTTGAGGATTAGTTGATTCATGTTTCATCTGATTGGAAATGGATCTCTTAATT
GAGTTTTGAGTATAAATTTTAAAAAAAAAATTATAATGGTCGATAATACTCATAGCATTGCTCTC
TTTTTAAACTTGTTTGTATAATC
Found at i:25618633 original size:2 final size:2
Alignment explanation
Indices: 25618626--25618653 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25618616 TTTCTTCCCT
25618626 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
25618654 ACACACACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:25620494 original size:17 final size:19
Alignment explanation
Indices: 25620474--25620512 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
25620464 TTTTATAATT
25620474 TTAAATTT-ATTTTTTA-A
1 TTAAATTTAATTTTTTATA
*
25620491 TTAATTTTAATTTTTTATA
1 TTAAATTTAATTTTTTATA
25620510 TTA
1 TTA
25620513 TCTTAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 8 0.42
19 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTAAATTTAATTTTTTATA
Found at i:25620518 original size:18 final size:18
Alignment explanation
Indices: 25620482--25620519 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
25620472 TTTTAAATTT
*
25620482 ATTTTTTAATTAATTTTA
1 ATTTTTTAATTAATCTTA
25620500 ATTTTTTATATT-ATCTTA
1 ATTTTTTA-ATTAATCTTA
25620518 AT
1 AT
25620520 AAAAAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTTTAATTAATCTTA
Found at i:25622212 original size:222 final size:219
Alignment explanation
Indices: 25621924--25622372 Score: 614
Period size: 222 Copynumber: 2.0 Consensus size: 219
25621914 AATTATGCTT
* * **
25621924 TAATATATTTGAATTGAAAATTTATGCAAAATTTTCAATTTCAAGTAGATTTTGATTTGTATTTA
1 TAATATATTTGAATTCAAAATTTATGCAAAATTTTCAATTTCAAGTAAATTTTGATTTAAATTTA
* *
25621989 AATAATTATCCAAAGTTTTAAACTTAAATAATATATTAAAGAAATTTATTTGATAAATAAAATAA
66 AATAATTATCCAAAATATTAAACTTAAATAATATATTAAA-AAA-TTATTTGATAAATAAAATAA
* * * * * *
25622054 TATAAATATTATCTTATGTGTCATTAAAAGAGATTATCTACCTCGACATCCATATAAGCAATTTT
129 TATAAATATTATCTTATATGCCATTAAAA-AGACTATCTACCTAGACATCCACATAAGAAATTTT
*
25622119 TATCATATAACATTTTATGTTGTAATA
193 TATCATATAACATTATATGTTGTAATA
* *
25622146 TAATATGTTTGAATTCAAAATTTATGCAAAATTTTTAATCTT--AGATAAATTTTGATTTAAATT
1 TAATATATTTGAATTCAAAATTTATGCAAAATTTTCAAT-TTCAAG-TAAATTTTGATTTAAATT
* * *
25622209 TAAATAATTATCTAAAATATTAAATTTAAATAATTTATTAAAAAATTATTTGATAAATAAAATAA
64 TAAATAATTATCCAAAATATTAAACTTAAATAATATATTAAAAAATTATTTGATAAATAAAATAA
* * *
25622274 TATAAGTATTATTTTATATGCCATTAAAAAGACTATCTACCTAGACATTCACATAAGAAATTTTT
129 TATAAATATTATCTTATATGCCATTAAAAAGACTATCTACCTAGACATCCACATAAGAAATTTTT
* * *
25622339 ATTATGTAATATTATATGTTGTAATA
194 ATCATATAACATTATATGTTGTAATA
*
25622365 CAATATAT
1 TAATATAT
25622373 ACTAGTTTAT
Statistics
Matches: 199, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
219 59 0.30
220 45 0.23
221 5 0.03
222 88 0.44
223 2 0.01
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (219 bp):
TAATATATTTGAATTCAAAATTTATGCAAAATTTTCAATTTCAAGTAAATTTTGATTTAAATTTA
AATAATTATCCAAAATATTAAACTTAAATAATATATTAAAAAATTATTTGATAAATAAAATAATA
TAAATATTATCTTATATGCCATTAAAAAGACTATCTACCTAGACATCCACATAAGAAATTTTTAT
CATATAACATTATATGTTGTAATA
Found at i:25622232 original size:26 final size:26
Alignment explanation
Indices: 25622202--25622256 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
25622192 AAATTTTGAT
*
25622202 TTAAATTTAAATAA-TTATCTAAAATA
1 TTAAATTTAAATAATTTAT-TAAAAAA
25622228 TTAAATTTAAATAATTTATTAAAAAA
1 TTAAATTTAAATAATTTATTAAAAAA
25622254 TTA
1 TTA
25622257 TTTGATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
TTAAATTTAAATAATTTATTAAAAAA
Found at i:25628379 original size:22 final size:23
Alignment explanation
Indices: 25628354--25628401 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
25628344 AATTTTTAAA
* *
25628354 ATAATTTTTTATTT-ATATTTAT
1 ATAATTATATATTTAATATTTAT
25628376 ATAATTATATATTTAAATATTTAT
1 ATAATTATATATTT-AATATTTAT
25628400 AT
1 AT
25628402 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 12 0.55
24 10 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATAATTATATATTTAATATTTAT
Found at i:25628383 original size:8 final size:8
Alignment explanation
Indices: 25628367--25628401 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
25628357 ATTTTTTATT
25628367 TATATTTA
1 TATATTTA
*
25628375 TATAATTA
1 TATATTTA
25628383 TATATTTA
1 TATATTTA
*
25628391 AATATTTA
1 TATATTTA
25628399 TAT
1 TAT
25628402 TTAAAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATATTTA
Found at i:25628388 original size:16 final size:16
Alignment explanation
Indices: 25628367--25628421 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 16
25628357 ATTTTTTATT
25628367 TATATTTATATAATTA
1 TATATTTATATAATTA
*
25628383 TATATTTAAAT-ATT-
1 TATATTTATATAATTA
* *
25628397 TATATTTA-AAAATAA
1 TATATTTATATAATTA
25628412 TAT-TTTATAT
1 TATATTTATAT
25628422 TTTAAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 1 0.03
14 14 0.44
15 7 0.22
16 10 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATTTATATAATTA
Found at i:25628405 original size:14 final size:14
Alignment explanation
Indices: 25628363--25628406 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
25628353 AATAATTTTT
*
25628363 TATTTATATTTATA
1 TATTTATATTTAAA
25628377 TAATTATATATTTAAA
1 T-ATT-TATATTTAAA
25628393 TATTTATATTTAAA
1 TATTTATATTTAAA
25628407 AATAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 11 0.41
15 6 0.22
16 10 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTTATATTTAAA
Found at i:25628420 original size:20 final size:22
Alignment explanation
Indices: 25628391--25628441 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
25628381 TATATATTTA
25628391 AATA-TTTATA-TTT-AAAAAT
1 AATATTTTATATTTTAAAAAAT
25628410 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
25628432 AATATTTTAT
1 AATATTTTAT
25628442 TAATTTTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.14
20 6 0.21
21 3 0.10
22 16 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:25629675 original size:17 final size:17
Alignment explanation
Indices: 25629653--25629697 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 17
25629643 CGGCTCTTTT
25629653 TTTTTAATAATTATTGA
1 TTTTTAATAATTATTGA
25629670 TTTTTAA-AA-T-TTGA
1 TTTTTAATAATTATTGA
*
25629684 TTCTTAAT-ATTATT
1 TTTTTAATAATTATT
25629698 TTAATATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 4 0.17
17 7 0.29
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (17 bp):
TTTTTAATAATTATTGA
Found at i:25639627 original size:30 final size:29
Alignment explanation
Indices: 25639588--25639672 Score: 118
Period size: 30 Copynumber: 2.8 Consensus size: 29
25639578 CCAAGTGAAC
25639588 TTTTAATATTTATTTTCATTCAA-TTAAAT
1 TTTTAATATTTATTTTCA-TCAAGTTAAAT
25639617 TTTTGAATATTTATTTTCATCAAGTTAAAT
1 TTTT-AATATTTATTTTCATCAAGTTAAAT
*
25639647 CTTTAAATATTTATTTTCACTCAAGT
1 -TTTTAATATTTATTTTCA-TCAAGT
25639673 GAATCATTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
29 8 0.16
30 34 0.67
31 9 0.18
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (29 bp):
TTTTAATATTTATTTTCATCAAGTTAAAT
Found at i:25662889 original size:19 final size:19
Alignment explanation
Indices: 25662867--25662906 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25662857 AATCATATCA
25662867 ATTCATATATATTTATATT
1 ATTCATATATATTTATATT
* * *
25662886 ATTCGTGTTTATTTATATT
1 ATTCATATATATTTATATT
25662905 AT
1 AT
25662907 ATTTAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTCATATATATTTATATT
Found at i:25663294 original size:24 final size:25
Alignment explanation
Indices: 25663262--25663308 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
25663252 GGGTCAAATA
25663262 ATAATGCTAAAGAACTT-CTTTTCT
1 ATAATGCTAAAGAACTTCCTTTTCT
25663286 ATAATGCTAAAGAACTTCCTTTT
1 ATAATGCTAAAGAACTTCCTTTT
25663309 TCTTCCTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (25 bp):
ATAATGCTAAAGAACTTCCTTTTCT
Found at i:25669108 original size:8 final size:8
Alignment explanation
Indices: 25669095--25669126 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
25669085 GAAATATTTT
25669095 ACATACAC
1 ACATACAC
25669103 ACATACAC
1 ACATACAC
*
25669111 ACATACAT
1 ACATACAC
25669119 ACATACAC
1 ACATACAC
25669127 TAATGAGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (8 bp):
ACATACAC
Found at i:25686557 original size:2 final size:2
Alignment explanation
Indices: 25686544--25686578 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
25686534 AGTTGAGTCT
*
25686544 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25686579 CACATATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:25687004 original size:36 final size:35
Alignment explanation
Indices: 25686927--25687004 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
25686917 ACTAAATAAT
*
25686927 ACAATATAAAACATTATATATTTAGAAAAAGTTAA
1 ACAATATAAAAAATTATATATTTAGAAAAAGTTAA
* * *
25686962 AAAATATAAAAAATTATGTATTTAGAAAAAATTTAA
1 ACAATATAAAAAATTATATATTTAG-AAAAAGTTAA
25686998 ACAATAT
1 ACAATAT
25687005 GTTTTATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 22 0.59
36 15 0.41
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (35 bp):
ACAATATAAAAAATTATATATTTAGAAAAAGTTAA
Found at i:25687005 original size:26 final size:26
Alignment explanation
Indices: 25686960--25687010 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
25686950 AGAAAAAGTT
25686960 AAAAAATATAAAAAATTATGTATTTAG
1 AAAAAATATAAAAAATTATGT-TTTAG
* *
25686987 AAAAAATTTAAACAA-TATGTTTTA
1 AAAAAATATAAAAAATTATGTTTTA
25687011 TATTAATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 5 0.23
27 13 0.59
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (26 bp):
AAAAAATATAAAAAATTATGTTTTAG
Found at i:25687666 original size:28 final size:29
Alignment explanation
Indices: 25687627--25687705 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 29
25687617 ACTTTGTTTT
*
25687627 TATATAATTATATTAATTATATCTATTCA
1 TATATATTTATATTAATTATATCTATTCA
* * *
25687656 TATAT-TTTATATTAATTATGTTTATTCG
1 TATATATTTATATTAATTATATCTATTCA
*
25687684 TATATATTTATATTATTTATAT
1 TATATATTTATATTAATTATAT
25687706 TTAAATAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 24 0.56
29 19 0.44
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (29 bp):
TATATATTTATATTAATTATATCTATTCA
Found at i:25692602 original size:71 final size:72
Alignment explanation
Indices: 25692518--25692656 Score: 244
Period size: 71 Copynumber: 1.9 Consensus size: 72
25692508 CAGCTCCAAT
* *
25692518 GAATTGTAAGAGAAAAGTTTTAACAGTTCAAAG-ACAGAGCCTATTTCTGATAAGGTAATTGGAA
1 GAATTGCAAGAGAAAAGTTTTAACAGTTCAAAGAAAAGAGCCTATTTCTGATAAGGTAATTGGAA
25692582 TATAGCA
66 TATAGCA
25692589 GAATTGCAAGAGAAAAGTTTTAACAGTTCAAAGAAAAAGAGCCTATTTCTGATAAGGTAATTGGA
1 GAATTGCAAGAGAAAAGTTTTAACAGTTCAAAG-AAAAGAGCCTATTTCTGATAAGGTAATTGGA
25692654 ATA
65 ATA
25692657 AAACAACCCG
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
71 32 0.50
73 32 0.50
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.27
Consensus pattern (72 bp):
GAATTGCAAGAGAAAAGTTTTAACAGTTCAAAGAAAAGAGCCTATTTCTGATAAGGTAATTGGAA
TATAGCA
Found at i:25695789 original size:30 final size:30
Alignment explanation
Indices: 25695724--25695789 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
25695714 TAATATAATT
* *
25695724 TTAAAAGTTTATGAATTTATTTATAGCTAA
1 TTAAAAGTTTATAAATTTATTTAAAGCTAA
*
25695754 ATAAAAGATTT-TAAATTTATTTAAATG-TAA
1 TTAAAAG-TTTATAAATTTATTTAAA-GCTAA
25695784 TTAAAA
1 TTAAAA
25695790 ATCGAGAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.44
Consensus pattern (30 bp):
TTAAAAGTTTATAAATTTATTTAAAGCTAA
Found at i:25696077 original size:2 final size:2
Alignment explanation
Indices: 25696066--25696103 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
25696056 AAAAATCTAT
*
25696066 TA TA TA -A TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25696104 CAGTGCCAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:25703438 original size:2 final size:2
Alignment explanation
Indices: 25703431--25703464 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
25703421 TCGAAAGCAA
*
25703431 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25703465 TTTTTGTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:25707734 original size:20 final size:21
Alignment explanation
Indices: 25707711--25707751 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
25707701 TTTTAGTAAA
25707711 AAATAAGATAATTTAT-TATT
1 AAATAAGATAATTTATATATT
**
25707731 AAATTTGATAATTTATATATT
1 AAATAAGATAATTTATATATT
25707752 TATATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
AAATAAGATAATTTATATATT
Found at i:25707945 original size:50 final size:51
Alignment explanation
Indices: 25707851--25707950 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 51
25707841 TTAAGATTTG
25707851 GCTTTCCTAATCTAACATAAAAAAGGATAATTAATAATTTATGTATTTATT
1 GCTTTCCTAATCTAACATAAAAAAGGATAATTAATAATTTATGTATTTATT
*
25707902 GCTTTCCTAATCTAACATAAAAAA-GATAATTTATAATTTATGTATTTAT
1 GCTTTCCTAATCTAACATAAAAAAGGATAATTAATAATTTATGTATTTAT
25707951 ATTATATAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 24 0.50
51 24 0.50
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (51 bp):
GCTTTCCTAATCTAACATAAAAAAGGATAATTAATAATTTATGTATTTATT
Found at i:25708168 original size:24 final size:23
Alignment explanation
Indices: 25708141--25708208 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
25708131 ATTAGATTTA
25708141 ATAATTAAAATATAATATAATAAT
1 ATAA-TAAAATATAATATAATAAT
* **
25708165 ATAATATAAATATGATACGATAAT
1 ATAATA-AAATATAATATAATAAT
* *
25708189 AAAATAAAAAATAATATAAT
1 ATAATAAAATATAATATAAT
25708209 TTAAAATTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 12 0.34
24 23 0.66
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (23 bp):
ATAATAAAATATAATATAATAAT
Found at i:25708260 original size:20 final size:22
Alignment explanation
Indices: 25708216--25708261 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
25708206 AATTTAAAAT
*
25708216 TTTAATAATAATTATAAATAAA
1 TTTAATAATAATTAAAAATAAA
*
25708238 TTTAATAA-AA-TAAAAATATA
1 TTTAATAATAATTAAAAATAAA
25708258 TTTA
1 TTTA
25708262 TCACATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 2 0.09
22 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTAATAATAATTAAAAATAAA
Found at i:25708438 original size:5 final size:5
Alignment explanation
Indices: 25708424--25708464 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
25708414 CTTCATTTCG
* * *
25708424 CTTCC CTTCT GTTCT CTTCT GTTCT CTTCT CTTCT CTTCT C
1 CTTCT CTTCT CTTCT CTTCT CTTCT CTTCT CTTCT CTTCT C
25708465 CGCACATAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.00, C:0.39, G:0.05, T:0.56
Consensus pattern (5 bp):
CTTCT
Found at i:25708442 original size:10 final size:10
Alignment explanation
Indices: 25708429--25708463 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
25708419 TTTCGCTTCC
25708429 CTTCTGTTCT
1 CTTCTGTTCT
25708439 CTTCTGTTCT
1 CTTCTGTTCT
*
25708449 CTTCTCTTCT
1 CTTCTGTTCT
25708459 CTTCT
1 CTTCT
25708464 CCGCACATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.00, C:0.34, G:0.06, T:0.60
Consensus pattern (10 bp):
CTTCTGTTCT
Found at i:25708442 original size:15 final size:15
Alignment explanation
Indices: 25708411--25708464 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
25708401 CCCTCTTCCC
*
25708411 TCTCTTCAT-TTCGCT
1 TCTCTTC-TCTTCTCT
* *
25708426 TCCCTTCTGTTCTCT
1 TCTCTTCTCTTCTCT
*
25708441 TCTGTTCTCTTCTCT
1 TCTCTTCTCTTCTCT
25708456 TCTCTTCTC
1 TCTCTTCTC
25708465 CGCACATAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 1 0.03
15 31 0.97
ACGTcount: A:0.02, C:0.37, G:0.06, T:0.56
Consensus pattern (15 bp):
TCTCTTCTCTTCTCT
Found at i:25708464 original size:10 final size:10
Alignment explanation
Indices: 25708411--25708464 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
25708401 CCCTCTTCCC
25708411 TCTCTTCAT-T
1 TCTCTTC-TCT
* *
25708421 TCGCTTCCCT
1 TCTCTTCTCT
*
25708431 TCTGTTCTCT
1 TCTCTTCTCT
*
25708441 TCTGTTCTCT
1 TCTCTTCTCT
25708451 TCTCTTCTCT
1 TCTCTTCTCT
25708461 TCTC
1 TCTC
25708465 CGCACATAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
10 37 1.00
ACGTcount: A:0.02, C:0.37, G:0.06, T:0.56
Consensus pattern (10 bp):
TCTCTTCTCT
Found at i:25717601 original size:2 final size:2
Alignment explanation
Indices: 25717588--25717628 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
25717578 ATAATATCCG
*
25717588 AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25717629 AGCTTTCTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:25720208 original size:10 final size:11
Alignment explanation
Indices: 25720192--25720233 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
25720182 AAATTTTAAA
25720192 TTATATTA-AT
1 TTATATTATAT
*
25720202 TTTTATTATAT
1 TTATATTATAT
25720213 ATTATATTATAT
1 -TTATATTATAT
25720225 TTATATTAT
1 TTATATTAT
25720234 GTTATTGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 7 0.25
11 11 0.39
12 10 0.36
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTATATTATAT
Found at i:25720244 original size:24 final size:23
Alignment explanation
Indices: 25720191--25720250 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
25720181 AAAATTTTAA
*
25720191 ATTATATTA-ATTTTTATTATAT
1 ATTATATTATATTTATATTATAT
*
25720213 ATTATATTATATTTATATTATGTT
1 ATTATATTATATTTATATTAT-AT
*
25720237 ATTGTATTATATTT
1 ATTATATTATATTT
25720251 TAAATTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 9 0.27
23 10 0.30
24 14 0.42
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (23 bp):
ATTATATTATATTTATATTATAT
Found at i:25725766 original size:18 final size:18
Alignment explanation
Indices: 25725745--25725782 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
25725735 GGGAAAAGGT
*
25725745 TATATATACATAAAAACA
1 TATATATACACAAAAACA
*
25725763 TATATATACACAAATACA
1 TATATATACACAAAAACA
25725781 TA
1 TA
25725783 ACTGATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (18 bp):
TATATATACACAAAAACA
Found at i:25727132 original size:295 final size:296
Alignment explanation
Indices: 25726594--25727132 Score: 834
Period size: 295 Copynumber: 1.8 Consensus size: 296
25726584 TTTTTCTTTT
* * * * ** **
25726594 TCAGTTTAGATCAAAGTCGGATATTAAATGTATATATTAAGTTTGGATTTGAATTTTGGATCAGG
1 TCAGTTTAGATCAAAGTCGAATATTAAATGTATATATTAAGATTCGAATCAAATTTTGGATCAAA
25726659 ATGTGAAAAAAAAAAAAAAAAAAACCGAACTAAATTATATATTTTTATTAGTTTTTATATATATT
66 ATGTGAAAAAAAAAAAAAAAAAAACCGAACTAAATTATATATTTTTATTAGTTTTTATATATATT
*
25726724 TTAAATTTTTATAAAATAAAAATATTATTTTATTTATAAATCTATTTAAATATATTAAAAATCCT
131 TTAAATTTTTATAAAATAAAAATATTATTTTATATATAAATCTATTTAAATATATTAAAAATCCT
* *
25726789 ATTAAACTAATATTTAAAAAATAAAAATTTTAAAAATTCATTAATCAAACCAAACTGAACTTGTA
196 ATTAAACTAATATTTAAAAAATAAAAAATTTAAAAATTCATGAATCAAACCAAACTGAACTTGTA
25726854 AAATTTTATTCGGATTGAATCAATTTTAAAATAAGG
261 AAATTTTATTCGGATTGAATCAATTTTAAAATAAGG
* *
25726890 TCAGTTTAGATTAAAGTTGAATATTAAATGTATATATTAA-ATTCGAATCAAATTTTGGATCAAA
1 TCAGTTTAGATCAAAGTCGAATATTAAATGTATATATTAAGATTCGAATCAAATTTTGGATCAAA
* ** *** *
25726954 ATTTGAAAAATCAAAAAAATCGAACCGAA-TCAAATTTTATATTTTTATTAGTTTTTATATATAT
66 ATGTGAAAAAAAAAAAAAAAAAAACCGAACT-AAATTATATATTTTTATTAGTTTTTATATATAT
*
25727018 TTTAAATTTTTATAAAATAAAAATAATTATTTTATATATAAATTTATTTAAATATATT-AAAATC
130 TTTAAATTTTTATAAAATAAAAAT-ATTATTTTATATATAAATCTATTTAAATATATTAAAAATC
25727082 CTATTAAACTAATATTTAAAAAATAAAAAATTTAAAAA-TCAATGAATCAAA
194 CTATTAAACTAATATTTAAAAAATAAAAAATTTAAAAATTC-ATGAATCAAA
25727133 TTAAAGCGAA
Statistics
Matches: 219, Mismatches: 21, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
294 3 0.01
295 148 0.68
296 68 0.31
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (296 bp):
TCAGTTTAGATCAAAGTCGAATATTAAATGTATATATTAAGATTCGAATCAAATTTTGGATCAAA
ATGTGAAAAAAAAAAAAAAAAAAACCGAACTAAATTATATATTTTTATTAGTTTTTATATATATT
TTAAATTTTTATAAAATAAAAATATTATTTTATATATAAATCTATTTAAATATATTAAAAATCCT
ATTAAACTAATATTTAAAAAATAAAAAATTTAAAAATTCATGAATCAAACCAAACTGAACTTGTA
AAATTTTATTCGGATTGAATCAATTTTAAAATAAGG
Found at i:25734453 original size:2 final size:2
Alignment explanation
Indices: 25734440--25734474 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
25734430 AAATGTGGAC
25734440 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25734475 ATTGTGGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:25739819 original size:6 final size:6
Alignment explanation
Indices: 25739808--25739832 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25739798 CCTCTTCACA
25739808 TGATTG TGATTG TGATTG TGATTG T
1 TGATTG TGATTG TGATTG TGATTG T
25739833 AGTCTTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (6 bp):
TGATTG
Done.