Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167979.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_237, 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: 44953
ACGTcount: A:0.20, C:0.10, G:0.06, T:0.65
File 1 of 2
Found at i:156 original size:22 final size:23
Alignment explanation
Indices: 118--175 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
108 CTTTTCTCTC
*
118 TTTTA-ATTTTTTGTCTT-TGATT
1 TTTTATATTGTTT-TCTTATGATT
*
140 TTTTATATTGTTTTCTTATTATT
1 TTTTATATTGTTTTCTTATGATT
*
163 TCTTATA-TGTTTT
1 TTTTATATTGTTTT
176 TCAATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (23 bp):
TTTTATATTGTTTTCTTATGATT
Found at i:276 original size:7 final size:7
Alignment explanation
Indices: 255--331 Score: 57
Period size: 7 Copynumber: 10.6 Consensus size: 7
245 AATTTTTGTC
255 TTTTTTA
1 TTTTTTA
**
262 TTCATTA
1 TTTTTTA
269 TTTTTTA
1 TTTTTTA
276 TTTTCTTA
1 TTTT-TTA
284 CTTTTTATA
1 -TTTTT-TA
293 TTTTTTA
1 TTTTTTA
*
300 TTGTATT-
1 TT-TTTTA
*
307 TTGTTTA
1 TTTTTTA
*
314 TTTTATA
1 TTTTTTA
*
321 TTTTTTG
1 TTTTTTA
328 TTTT
1 TTTT
332 GCTTTAATAT
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
6 2 0.04
7 34 0.63
8 12 0.22
9 6 0.11
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:279 original size:20 final size:20
Alignment explanation
Indices: 209--265 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
199 TTTTTTTCTA
*
209 TTTTGTCATTTCCT-TTC-AT
1 TTTTGTCATTT-TTATTCAAT
**
228 TTTTGAAATTTTTATTCAAT
1 TTTTGTCATTTTTATTCAAT
*
248 TTTTGTCTTTTTTATTCA
1 TTTTGTCATTTTTATTCA
266 TTATTTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 1 0.03
19 12 0.40
20 17 0.57
ACGTcount: A:0.18, C:0.12, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTGTCATTTTTATTCAAT
Found at i:328 original size:18 final size:18
Alignment explanation
Indices: 305--362 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 18
295 TTTTATTGTA
305 TTTTGTTTATTTTATATT
1 TTTTGTTTATTTTATATT
323 TTTTGTTT-TGCTTTAATATT
1 TTTTGTTTAT--TTT-ATATT
343 TTTT-TCTTATTTT-TATT
1 TTTTGT-TTATTTTATATT
360 TTT
1 TTT
363 ATTTCTTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
17 8 0.23
18 8 0.23
19 7 0.20
20 11 0.31
21 1 0.03
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTTGTTTATTTTATATT
Found at i:365 original size:23 final size:24
Alignment explanation
Indices: 339--385 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
329 TTTGCTTTAA
* *
339 TATTTTTTTC-TTATTTTTATTTT
1 TATTTCTTTCTTTATTTATATTTT
362 TATTTCTTTCTTTATTTATATTTT
1 TATTTCTTTCTTTATTTATATTTT
386 CATAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (24 bp):
TATTTCTTTCTTTATTTATATTTT
Found at i:375 original size:18 final size:19
Alignment explanation
Indices: 341--384 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
331 TGCTTTAATA
*
341 TTTT-TTTCTTATTTTTAT
1 TTTTATTTCTTATCTTTAT
359 TTTTATTTCTT-TCTTTAT
1 TTTTATTTCTTATCTTTAT
*
377 TTATATTT
1 TTTTATTT
385 TCATAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTATTTCTTATCTTTAT
Found at i:724 original size:17 final size:17
Alignment explanation
Indices: 689--724 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
679 TTACACTTCC
* *
689 TTATTTTGTTTTTATTT
1 TTATTTTGTTTTAACTT
706 TTATTTTGTTTTAACTT
1 TTATTTTGTTTTAACTT
723 TT
1 TT
725 CCCTCTGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.78
Consensus pattern (17 bp):
TTATTTTGTTTTAACTT
Found at i:897 original size:25 final size:24
Alignment explanation
Indices: 856--905 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
846 TTTAATTTTT
*
856 TATCTTTGATTTTTTATATCTTTA
1 TATCTTTGATTTGTTATATCTTTA
* *
880 TATCTTATTATTTGTTATATTTTTA
1 TATCTT-TGATTTGTTATATCTTTA
905 T
1 T
906 TTTTGTTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.68
Consensus pattern (24 bp):
TATCTTTGATTTGTTATATCTTTA
Found at i:1472 original size:24 final size:24
Alignment explanation
Indices: 1445--1511 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
1435 TTTTATTTTA
1445 TTTTTTATCTTTGATTATTTGTCTT
1 TTTTTTATCTTTG-TTATTTGTCTT
*
1470 TTTTTTAT-TTTGTTATTT-TTTT
1 TTTTTTATCTTTGTTATTTGTCTT
*
1492 TTTGTTTCTCTTTGTATATT
1 TTT-TTTATCTTTGT-TATT
1512 AAACTAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
22 6 0.16
23 10 0.27
24 9 0.24
25 12 0.32
ACGTcount: A:0.10, C:0.06, G:0.07, T:0.76
Consensus pattern (24 bp):
TTTTTTATCTTTGTTATTTGTCTT
Found at i:1538 original size:28 final size:27
Alignment explanation
Indices: 1496--1555 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
1486 TTTTTTTTTG
*
1496 TTTCTCTTTGTATATTAAACTAAAAGTTT
1 TTTCTATTTGTATATTAAAC-AAAA-TTT
* *
1525 TTTCTATTT-TATATTCATCAAAATTT
1 TTTCTATTTGTATATTAAACAAAATTT
1551 TTTCT
1 TTTCT
1556 TCACTTCGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.29
27 4 0.14
28 8 0.29
29 8 0.29
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (27 bp):
TTTCTATTTGTATATTAAACAAAATTT
Found at i:1598 original size:6 final size:7
Alignment explanation
Indices: 1588--1672 Score: 50
Period size: 7 Copynumber: 11.9 Consensus size: 7
1578 TTGTTTTGCC
1588 TTTTTTA
1 TTTTTTA
1595 TTTTTTA
1 TTTTTTA
1602 TTTTTTTA
1 -TTTTTTA
1610 TTTTTT-
1 TTTTTTA
*
1616 TCTTGTTA
1 T-TTTTTA
* **
1624 ATTAATA
1 TTTTTTA
1631 TTTTTT-
1 TTTTTTA
*
1637 TTATTTA
1 TTTTTTA
*
1644 TTTTTCA
1 TTTTTTA
1651 TTTCTTTTA
1 -TT-TTTTA
1660 TTGTTTT-
1 TT-TTTTA
1667 TTTTTT
1 TTTTTT
1673 TCCTATTTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
6 10 0.17
7 31 0.52
8 15 0.25
9 4 0.07
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:1615 original size:15 final size:14
Alignment explanation
Indices: 1588--1673 Score: 64
Period size: 15 Copynumber: 5.4 Consensus size: 14
1578 TTGTTTTGCC
1588 TTTTTTATTTTTTAT
1 TTTTTTATTTTTT-T
1603 TTTTTTATTTTTTT
1 TTTTTTATTTTTTT
1617 CTTGTTAATTAATATTTTTT
1 -TT-TT--TT-AT-TTTTTT
*
1637 TTATTTATTTTTCATT
1 TTTTTTATTTTT--TT
*
1653 TCTTTTATTGTTTTT
1 TTTTTTATT-TTTTT
1668 TTTTTT
1 TTTTTT
1674 CCTATTTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
14 5 0.09
15 24 0.41
16 13 0.22
17 3 0.05
18 3 0.05
19 4 0.07
20 6 0.10
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTTTATTTTTTT
Found at i:2178 original size:8 final size:7
Alignment explanation
Indices: 2126--2263 Score: 66
Period size: 7 Copynumber: 18.6 Consensus size: 7
2116 TTTTTATTCA
2126 ATTTTTGT
1 ATTTTT-T
*
2134 ATTTTTG
1 ATTTTTT
**
2141 ATTAATT
1 ATTTTTT
2148 ATTTTTT
1 ATTTTTT
2155 ATTTTCTT
1 ATTTT-TT
*
2163 ACTTTTT
1 ATTTTTT
2170 ATATTTTT
1 AT-TTTTT
*
2178 ATTCAATTT
1 ATT--TTTT
*
2187 -TTGTTT
1 ATTTTTT
2193 ATTTTTT
1 ATTTTTT
2200 ATTTTTT
1 ATTTTTT
2207 -TTGTTTT
1 ATT-TTTT
**
2214 ACTTTAAT
1 A-TTTTTT
*
2222 AGTCTTTT
1 A-TTTTTT
*
2230 CTTATTTT
1 ATT-TTTT
2238 A-TTTTT
1 ATTTTTT
2244 ATTTGGTTT
1 ATTT--TTT
2253 ATTTTTT
1 ATTTTTT
2260 ATTT
1 ATTT
2264 CTTTCTTTAT
Statistics
Matches: 98, Mismatches: 20, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
6 10 0.10
7 45 0.46
8 31 0.32
9 12 0.12
ACGTcount: A:0.17, C:0.04, G:0.05, T:0.73
Consensus pattern (7 bp):
ATTTTTT
Found at i:2207 original size:38 final size:38
Alignment explanation
Indices: 2127--2206 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 38
2117 TTTTATTCAA
*
2127 TTTTTGTATTTTTGATTAATTATTTTTTATTTTCTTAC
1 TTTTTATATTTTTGATTAATTATTTTTTATTTTCTTAC
*
2165 TTTTTATATTTTT-ATTCAATT-TTTGTTTATTTT-TTAT
1 TTTTTATATTTTTGATT-AATTATTT-TTTATTTTCTTAC
2202 TTTTT
1 TTTTT
2207 TTGTTTTACT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
37 14 0.37
38 24 0.63
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (38 bp):
TTTTTATATTTTTGATTAATTATTTTTTATTTTCTTAC
Found at i:2596 original size:7 final size:7
Alignment explanation
Indices: 2586--2646 Score: 59
Period size: 7 Copynumber: 8.3 Consensus size: 7
2576 ATTTTTGTCT
2586 TTTTTTA
1 TTTTTTA
*
2593 TTTTTTG
1 TTTTTTA
*
2600 TTTTTGA
1 TTTTTTA
**
2607 TTCCTTA
1 TTTTTTA
2614 TTTTTTA
1 TTTTTTA
2621 TTTTCTTA
1 TTTT-TTA
2629 CTTTTTATA
1 -TTTTT-TA
2638 TTTTTTA
1 TTTTTTA
2645 TT
1 TT
2647 GTATTTTTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
7 28 0.65
8 9 0.21
9 6 0.14
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:3591 original size:12 final size:12
Alignment explanation
Indices: 3574--3623 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
3564 AATTAAAATC
*
3574 ATCTTGTATTTT
1 ATCTTGTAATTT
*
3586 ATCTTGAAATTT
1 ATCTTGTAATTT
*
3598 AT-TT-TTATTT
1 ATCTTGTAATTT
*
3608 ATCGTGTAATTT
1 ATCTTGTAATTT
3620 ATCT
1 ATCT
3624 AATTAACAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 6 0.21
11 3 0.10
12 20 0.69
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
ATCTTGTAATTT
Found at i:3751 original size:59 final size:60
Alignment explanation
Indices: 3639--3756 Score: 134
Period size: 59 Copynumber: 2.0 Consensus size: 60
3629 ACAAAATTAT
* *** * *
3639 ATTGTATAATATTTATCTTTTATTTAATAGAATTTGGATTATTTTATTTATTAT-TTTGG
1 ATTGTATAATATTTATCTTTTATTTAATACAATTTGGATTAAGATAATAATTATCTTTGG
*
3698 ATTGTATAATATTTATCTTTTATTTGATACAATTT-G-TTAAGAGATAATAATTATCTTTG
1 ATTGTATAATATTTATCTTTTATTTAATACAATTTGGATT-A-AGATAATAATTATCTTTG
3757 TTATTTTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
57 2 0.04
58 2 0.04
59 41 0.84
60 4 0.08
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.55
Consensus pattern (60 bp):
ATTGTATAATATTTATCTTTTATTTAATACAATTTGGATTAAGATAATAATTATCTTTGG
Found at i:4351 original size:30 final size:28
Alignment explanation
Indices: 4310--4365 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
4300 TTTTATCCAC
*
4310 ACTTCTTTCTTTTGTTTTTATTTTTTATTA
1 ACTTCTTTC-TTT-TTTTAATTTTTTATTA
*
4340 ACTTTTTTCTTTTTTTAATTTTTTAT
1 ACTTCTTTCTTTTTTTAATTTTTTAT
4366 CATTGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.54
29 3 0.12
30 8 0.33
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (28 bp):
ACTTCTTTCTTTTTTTAATTTTTTATTA
Found at i:4418 original size:8 final size:8
Alignment explanation
Indices: 4342--4419 Score: 50
Period size: 8 Copynumber: 9.5 Consensus size: 8
4332 TTTTATTAAC
*
4342 TTTTTTCT
1 TTTTTTAT
*
4350 TTTTTTAA
1 TTTTTTAT
4358 TTTTTTA-
1 TTTTTTAT
** *
4365 TCATTGAT
1 TTTTTTAT
4373 TTTTTTAT
1 TTTTTTAT
* *
4381 ATCTTTAT
1 TTTTTTAT
4389 TTCTTATTAT
1 TT-TT-TTAT
*
4399 TTGTTATAT
1 TT-TTTTAT
4408 TTTTTTAT
1 TTTTTTAT
4416 TTTT
1 TTTT
4420 CGTTTGTATT
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
7 4 0.08
8 34 0.65
9 6 0.12
10 8 0.15
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.76
Consensus pattern (8 bp):
TTTTTTAT
Found at i:4987 original size:24 final size:22
Alignment explanation
Indices: 4931--4987 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
4921 GTGAACTTCC
4931 TTTTGATTTTATTTATATTTTG
1 TTTTGATTTTATTTATATTTTG
*
4953 TATTGACTTTTATTT-TACTTTTTG
1 TTTTGA-TTTTATTTATA--TTTTG
4977 TCTTTGATTTT
1 T-TTTGATTTT
4988 TTATGTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 7 0.24
23 8 0.28
24 10 0.34
25 4 0.14
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (22 bp):
TTTTGATTTTATTTATATTTTG
Found at i:5121 original size:15 final size:16
Alignment explanation
Indices: 5103--5140 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
5093 CGTTTTATAT
5103 TTTTTTATTCTC-TAA
1 TTTTTTATTCTCTTAA
* *
5118 TTTTTTATTTTCTTAC
1 TTTTTTATTCTCTTAA
5134 TTTTTTA
1 TTTTTTA
5141 CTTTTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTATTCTCTTAA
Found at i:5137 original size:16 final size:15
Alignment explanation
Indices: 5103--5145 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
5093 CGTTTTATAT
*
5103 TTTTTTATTCTCTAA
1 TTTTTTATTTTCTAA
*
5118 TTTTTTATTTTCTTAC
1 TTTTTTATTTTC-TAA
5134 TTTTTTACTTTT
1 TTTTTTA-TTTT
5146 TGTTTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 9 0.38
17 4 0.17
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTATTTTCTAA
Found at i:5202 original size:8 final size:7
Alignment explanation
Indices: 5103--5346 Score: 65
Period size: 8 Copynumber: 33.4 Consensus size: 7
5093 CGTTTTATAT
5103 TTTTTTA
1 TTTTTTA
* *
5110 TTCTCTAA
1 TT-TTTTA
5118 TTTTTTA
1 TTTTTTA
5125 TTTTCTTA
1 TTTT-TTA
5133 CTTTTTTA
1 -TTTTTTA
*
5141 CTTTTTGTT
1 -TTTTT-TA
5150 TTTGTTTA
1 TTT-TTTA
5158 -TTTTTA
1 TTTTTTA
* *
5164 ATTGTTA
1 TTTTTTA
5171 TTTTTTTA
1 -TTTTTTA
*
5179 GTATTTTA
1 -TTTTTTA
5187 --TTTTA
1 TTTTTTA
5192 TTTTTTCA
1 TTTTTT-A
5200 TTTATATTA
1 TTT-T-TTA
**
5209 AATTTT-
1 TTTTTTA
**
5215 TTTTCAA
1 TTTTTTA
5222 TTTTTGTA
1 TTTTT-TA
*
5230 TTTTTGA
1 TTTTTTA
**
5237 TTCATTA
1 TTTTTTA
5244 TTTTTTA
1 TTTTTTA
*
5251 TTATCTTA
1 TT-TTTTA
**
5259 CCTTTTA
1 TTTTTTA
5266 TATTTTTA
1 T-TTTTTA
*
5274 --TTGTA
1 TTTTTTA
5279 TTTTTGT-
1 TTTTT-TA
5286 TTCTTTTA
1 TT-TTTTA
5294 TTTTTT-
1 TTTTTTA
*
5300 TGTTTTA
1 TTTTTTA
**
5307 CTTTAATA
1 -TTTTTTA
*
5315 TTGTTTTC
1 TT-TTTTA
5323 TTATTTTA
1 TT-TTTTA
5331 -TTTTTA
1 TTTTTTA
5337 TTTTTTA
1 TTTTTTA
5344 TTT
1 TTT
5347 CTTTCTTTAT
Statistics
Matches: 170, Mismatches: 42, Indels: 50
0.65 0.16 0.19
Matches are distributed among these distances:
5 9 0.05
6 16 0.09
7 63 0.37
8 70 0.41
9 10 0.06
10 2 0.01
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.73
Consensus pattern (7 bp):
TTTTTTA
Found at i:5592 original size:22 final size:23
Alignment explanation
Indices: 5554--5611 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
5544 CTTTTCTCTC
*
5554 TTTTA-ATTTTTTGTCTT-TGATT
1 TTTTATATTGTTT-TCTTATGATT
*
5576 TTTTATATTGTTTTCTTATTATT
1 TTTTATATTGTTTTCTTATGATT
*
5599 TCTTATA-TGTTTT
1 TTTTATATTGTTTT
5612 TCAATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (23 bp):
TTTTATATTGTTTTCTTATGATT
Found at i:5767 original size:18 final size:18
Alignment explanation
Indices: 5744--5803 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 18
5734 TTTTATTGTA
5744 TTTTTGTTTATTTTATAT
1 TTTTTGTTTATTTTATAT
5762 TTTTTGTTT-TGCTTTAATAT
1 TTTTTGTTTAT--TTT-ATAT
5782 TTTTT-TCTTATTTT-TAT
1 TTTTTGT-TTATTTTATAT
5799 TTTTT
1 TTTTT
5804 ATTTCTTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
17 9 0.24
18 9 0.24
19 7 0.19
20 11 0.30
21 1 0.03
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTTTGTTTATTTTATAT
Found at i:5806 original size:24 final size:25
Alignment explanation
Indices: 5779--5826 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
5769 TTTGCTTTAA
* *
5779 TATTTTTTTC-TTATTTTTATTTTT
1 TATTTCTTTCTTTATTTATATTTTT
5803 TATTTCTTTCTTTATTTATATTTT
1 TATTTCTTTCTTTATTTATATTTT
5827 CATAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (25 bp):
TATTTCTTTCTTTATTTATATTTTT
Found at i:6166 original size:17 final size:17
Alignment explanation
Indices: 6131--6166 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6121 TTACACTTCC
* *
6131 TTATTTTGTTTTTATTT
1 TTATTTTGTTTTAACTT
6148 TTATTTTGTTTTAACTT
1 TTATTTTGTTTTAACTT
6165 TT
1 TT
6167 CCCTCTGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.78
Consensus pattern (17 bp):
TTATTTTGTTTTAACTT
Found at i:6923 original size:24 final size:24
Alignment explanation
Indices: 6896--6962 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
6886 TTTTATTTTA
6896 TTTTTTATCTTTGATTATTTGTCTT
1 TTTTTTATCTTTG-TTATTTGTCTT
*
6921 TTTTTTAT-TTTGTTATTT-TTTT
1 TTTTTTATCTTTGTTATTTGTCTT
*
6943 TTTGTTTCTCTTTGTATATT
1 TTT-TTTATCTTTGT-TATT
6963 CTAAACTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
22 6 0.16
23 10 0.27
24 9 0.24
25 12 0.32
ACGTcount: A:0.10, C:0.06, G:0.07, T:0.76
Consensus pattern (24 bp):
TTTTTTATCTTTGTTATTTGTCTT
Found at i:7065 original size:22 final size:22
Alignment explanation
Indices: 7040--7096 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
7030 ATTAGCTAAT
*
7040 TTTTTATTTTCTTCCTTTT-TTA
1 TTTTTATTTT-TTCATTTTCTTA
7062 TTTTTATTTTTTCATTTTCTTA
1 TTTTTATTTTTTCATTTTCTTA
*
7084 TTTTGTCTTTTTT
1 TTTT-TATTTTTT
7097 TTTCCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 7 0.23
22 17 0.55
23 7 0.23
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTATTTTTTCATTTTCTTA
Found at i:7084 original size:16 final size:15
Alignment explanation
Indices: 7024--7087 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
7014 CTTTTTATAT
** *
7024 TTTTTTATTAGCTAA
1 TTTTTTATTTTCTTA
*
7039 TTTTTTATTTTCTTCC
1 TTTTTTATTTTCTT-A
7055 TTTTTTA-TTT-TTA
1 TTTTTTATTTTCTTA
7068 TTTTTTCATTTTCTTA
1 TTTTTT-ATTTTCTTA
7084 TTTT
1 TTTT
7088 GTCTTTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
13 6 0.15
14 3 0.08
15 17 0.43
16 14 0.35
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTTTTATTTTCTTA
Found at i:7216 original size:19 final size:20
Alignment explanation
Indices: 7194--7252 Score: 50
Period size: 23 Copynumber: 2.9 Consensus size: 20
7184 CATGCTTTCA
7194 TTTT-TATTTTATTTCATTG
1 TTTTATATTTTATTTCATTG
7213 TTTTAATATTTTTTACTTTC-TTG
1 TTTT-ATA--TTTTA-TTTCATTG
* *
7236 TTTTCTTTTTTATTTCA
1 TTTTATATTTTATTTCA
7253 AATCTTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
19 8 0.25
20 5 0.16
21 2 0.06
22 1 0.03
23 12 0.38
24 4 0.12
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.73
Consensus pattern (20 bp):
TTTTATATTTTATTTCATTG
Found at i:7297 original size:24 final size:26
Alignment explanation
Indices: 7230--7302 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 26
7220 ATTTTTTACT
7230 TTCTTG-TTTTCTTTTTTATTTCAAA
1 TTCTTGCTTTTCTTTTTTATTTCAAA
* * *
7255 TCTTTTGTCTTTTCATTTTTA-TTC-TA
1 T-TCTTG-CTTTTCTTTTTTATTTCAAA
7281 TTCTTGCTTTTCTTTTTT-TTTC
1 TTCTTGCTTTTCTTTTTTATTTC
7303 CCCAAATTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
24 14 0.36
25 5 0.13
26 6 0.15
27 3 0.08
28 11 0.28
ACGTcount: A:0.10, C:0.15, G:0.04, T:0.71
Consensus pattern (26 bp):
TTCTTGCTTTTCTTTTTTATTTCAAA
Found at i:7586 original size:8 final size:7
Alignment explanation
Indices: 7534--7671 Score: 66
Period size: 7 Copynumber: 18.6 Consensus size: 7
7524 TTTTTATTCA
7534 ATTTTTGT
1 ATTTTT-T
*
7542 ATTTTTG
1 ATTTTTT
**
7549 ATTAATT
1 ATTTTTT
7556 ATTTTTT
1 ATTTTTT
7563 ATTTTCTT
1 ATTTT-TT
*
7571 ACTTTTT
1 ATTTTTT
7578 ATATTTTT
1 AT-TTTTT
*
7586 ATTCAATTT
1 ATT--TTTT
*
7595 -TTGTTT
1 ATTTTTT
7601 ATTTTTT
1 ATTTTTT
7608 ATTTTTT
1 ATTTTTT
7615 -TTGTTTT
1 ATT-TTTT
**
7622 ACTTTAAT
1 A-TTTTTT
*
7630 AGTCTTTT
1 A-TTTTTT
*
7638 CTTATTTT
1 ATT-TTTT
7646 A-TTTTT
1 ATTTTTT
7652 ATTTGGTTT
1 ATTT--TTT
7661 ATTTTTT
1 ATTTTTT
7668 ATTT
1 ATTT
7672 CTTTCTTTAT
Statistics
Matches: 98, Mismatches: 20, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
6 10 0.10
7 45 0.46
8 31 0.32
9 12 0.12
ACGTcount: A:0.17, C:0.04, G:0.05, T:0.73
Consensus pattern (7 bp):
ATTTTTT
Found at i:7615 original size:38 final size:38
Alignment explanation
Indices: 7535--7614 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 38
7525 TTTTATTCAA
*
7535 TTTTTGTATTTTTGATTAATTATTTTTTATTTTCTTAC
1 TTTTTATATTTTTGATTAATTATTTTTTATTTTCTTAC
*
7573 TTTTTATATTTTT-ATTCAATT-TTTGTTTATTTT-TTAT
1 TTTTTATATTTTTGATT-AATTATTT-TTTATTTTCTTAC
7610 TTTTT
1 TTTTT
7615 TTGTTTTACT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
37 14 0.37
38 24 0.63
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (38 bp):
TTTTTATATTTTTGATTAATTATTTTTTATTTTCTTAC
Found at i:7919 original size:19 final size:18
Alignment explanation
Indices: 7895--7930 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
7885 TTTTGTCTTT
7895 GATTTTTTATATGTTTTTC
1 GATTTTTTATAT-TTTTTC
*
7914 GATTTTTTGTATTTTTT
1 GATTTTTTATATTTTTT
7931 AAAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.14, C:0.03, G:0.11, T:0.72
Consensus pattern (18 bp):
GATTTTTTATATTTTTTC
Found at i:8005 original size:7 final size:7
Alignment explanation
Indices: 7995--8055 Score: 59
Period size: 7 Copynumber: 8.3 Consensus size: 7
7985 ATTTTTGTCT
7995 TTTTTTA
1 TTTTTTA
*
8002 TTTTTTG
1 TTTTTTA
*
8009 TTTTTGA
1 TTTTTTA
**
8016 TTCCTTA
1 TTTTTTA
8023 TTTTTTA
1 TTTTTTA
8030 TTTTCTTA
1 TTTT-TTA
8038 CTTTTTATA
1 -TTTTT-TA
8047 TTTTTTA
1 TTTTTTA
8054 TT
1 TT
8056 GTATTTTTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
7 28 0.65
8 9 0.21
9 6 0.14
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:9007 original size:12 final size:12
Alignment explanation
Indices: 8990--9039 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
8980 AATTAAAATC
*
8990 ATCTTGTATTTT
1 ATCTTGTAATTT
*
9002 ATCTTGAAATTT
1 ATCTTGTAATTT
*
9014 AT-TT-TTATTT
1 ATCTTGTAATTT
*
9024 ATCGTGTAATTT
1 ATCTTGTAATTT
9036 ATCT
1 ATCT
9040 AATTAACAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 6 0.21
11 3 0.10
12 20 0.69
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
ATCTTGTAATTT
Found at i:9167 original size:59 final size:60
Alignment explanation
Indices: 9055--9172 Score: 134
Period size: 59 Copynumber: 2.0 Consensus size: 60
9045 ACAAAATTAT
* *** * *
9055 ATTGTATAATATTTATCTTTTATTTAATAGAATTTGGATTATTTTATTTATTAT-TTTGG
1 ATTGTATAATATTTATCTTTTATTTAATACAATTTGGATTAAGATAATAATTATCTTTGG
*
9114 ATTGTATAATATTTATCTTTTATTTGATACAATTT-G-TTAAGAGATAATAATTATCTTTG
1 ATTGTATAATATTTATCTTTTATTTAATACAATTTGGATT-A-AGATAATAATTATCTTTG
9173 TTATTTTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
57 2 0.04
58 2 0.04
59 41 0.84
60 4 0.08
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.55
Consensus pattern (60 bp):
ATTGTATAATATTTATCTTTTATTTAATACAATTTGGATTAAGATAATAATTATCTTTGG
Found at i:9766 original size:30 final size:28
Alignment explanation
Indices: 9725--9780 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
9715 TTTTATCCAC
*
9725 ACTTCTTTCTTTTGTTTTTATTTTTTATTA
1 ACTTCTTTC-TTT-TTTTAATTTTTTATTA
*
9755 ACTTTTTTCTTTTTTTAATTTTTTAT
1 ACTTCTTTCTTTTTTTAATTTTTTAT
9781 CATTGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.54
29 3 0.12
30 8 0.33
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (28 bp):
ACTTCTTTCTTTTTTTAATTTTTTATTA
Found at i:9833 original size:8 final size:8
Alignment explanation
Indices: 9757--9834 Score: 50
Period size: 8 Copynumber: 9.5 Consensus size: 8
9747 TTTTATTAAC
*
9757 TTTTTTCT
1 TTTTTTAT
*
9765 TTTTTTAA
1 TTTTTTAT
9773 TTTTTTA-
1 TTTTTTAT
** *
9780 TCATTGAT
1 TTTTTTAT
9788 TTTTTTAT
1 TTTTTTAT
* *
9796 ATCTTTAT
1 TTTTTTAT
9804 TTCTTATTAT
1 TT-TT-TTAT
*
9814 TTGTTATAT
1 TT-TTTTAT
9823 TTTTTTAT
1 TTTTTTAT
9831 TTTT
1 TTTT
9835 CGTTTGTATT
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
7 4 0.08
8 34 0.65
9 6 0.12
10 8 0.15
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.76
Consensus pattern (8 bp):
TTTTTTAT
Found at i:10400 original size:24 final size:22
Alignment explanation
Indices: 10344--10400 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
10334 GTGAACTTCC
10344 TTTTGATTTTATTTATATTTTG
1 TTTTGATTTTATTTATATTTTG
* *
10366 TATTGACTTTTATTTTATTTTTTG
1 TTTTGA-TTTTA-TTTATATTTTG
10390 TCTTTGATTTT
1 T-TTTGATTTT
10401 TTATGTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 5 0.17
23 5 0.17
24 15 0.52
25 4 0.14
ACGTcount: A:0.16, C:0.04, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTTGATTTTATTTATATTTTG
Found at i:10533 original size:15 final size:16
Alignment explanation
Indices: 10515--10552 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
10505 CGTTTTATAT
10515 TTTTTTATTCTC-TAA
1 TTTTTTATTCTCTTAA
* *
10530 TTTTTTATTTTCTTAC
1 TTTTTTATTCTCTTAA
10546 TTTTTTA
1 TTTTTTA
10553 CTTTTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTATTCTCTTAA
Found at i:10549 original size:16 final size:15
Alignment explanation
Indices: 10515--10557 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
10505 CGTTTTATAT
*
10515 TTTTTTATTCTCTAA
1 TTTTTTATTTTCTAA
*
10530 TTTTTTATTTTCTTAC
1 TTTTTTATTTTC-TAA
10546 TTTTTTACTTTT
1 TTTTTTA-TTTT
10558 TGTTTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 9 0.38
17 4 0.17
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTATTTTCTAA
Found at i:10614 original size:8 final size:7
Alignment explanation
Indices: 10515--10759 Score: 67
Period size: 8 Copynumber: 33.4 Consensus size: 7
10505 CGTTTTATAT
10515 TTTTTTA
1 TTTTTTA
* *
10522 TTCTCTAA
1 TT-TTTTA
10530 TTTTTTA
1 TTTTTTA
10537 TTTTCTTA
1 TTTT-TTA
10545 CTTTTTTA
1 -TTTTTTA
*
10553 CTTTTTGTT
1 -TTTTT-TA
10562 TTTGTTTA
1 TTT-TTTA
10570 -TTTTTA
1 TTTTTTA
* *
10576 ATTGTTA
1 TTTTTTA
10583 TTTTTTTA
1 -TTTTTTA
*
10591 GTATTTTA
1 -TTTTTTA
10599 --TTTTA
1 TTTTTTA
10604 TTTTTTCA
1 TTTTTT-A
10612 TTTATATTA
1 TTT-T-TTA
**
10621 AATTTT-
1 TTTTTTA
**
10627 TTTTCAA
1 TTTTTTA
10634 TTTTTGTA
1 TTTTT-TA
*
10642 TTTTTGA
1 TTTTTTA
**
10649 TTCATTA
1 TTTTTTA
10656 TTTTTTA
1 TTTTTTA
*
10663 TTATCTTA
1 TT-TTTTA
**
10671 CCTTTTA
1 TTTTTTA
10678 TATTTTTA
1 T-TTTTTA
*
10686 --TTGTA
1 TTTTTTA
10691 TTTTTGT-
1 TTTTT-TA
10698 TTCTTTTA
1 TT-TTTTA
10706 TTTTTT-
1 TTTTTTA
10712 TTGTTTTA
1 TT-TTTTA
**
10720 CTTTAATA
1 -TTTTTTA
*
10728 TTGTTTTC
1 TT-TTTTA
10736 TTATTTTA
1 TT-TTTTA
10744 -TTTTTA
1 TTTTTTA
10750 TTTTTTA
1 TTTTTTA
10757 TTT
1 TTT
10760 CTTTCTTTAT
Statistics
Matches: 172, Mismatches: 40, Indels: 52
0.65 0.15 0.20
Matches are distributed among these distances:
5 9 0.05
6 13 0.08
7 67 0.39
8 69 0.40
9 12 0.07
10 2 0.01
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.73
Consensus pattern (7 bp):
TTTTTTA
Found at i:11005 original size:22 final size:23
Alignment explanation
Indices: 10967--11024 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
10957 CTTTTCTCTC
*
10967 TTTTA-ATTTTTTGTCTT-TGATT
1 TTTTATATTGTTT-TCTTATGATT
*
10989 TTTTATATTGTTTTCTTATTATT
1 TTTTATATTGTTTTCTTATGATT
*
11012 TCTTATA-TGTTTT
1 TTTTATATTGTTTT
11025 TCAATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (23 bp):
TTTTATATTGTTTTCTTATGATT
Found at i:11180 original size:18 final size:18
Alignment explanation
Indices: 11157--11216 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 18
11147 TTTTATTGTA
11157 TTTTTGTTTATTTTATAT
1 TTTTTGTTTATTTTATAT
11175 TTTTTGTTT-TGCTTTAATAT
1 TTTTTGTTTAT--TTT-ATAT
11195 TTTTT-TCTTATTTT-TAT
1 TTTTTGT-TTATTTTATAT
11212 TTTTT
1 TTTTT
11217 ATTTCTTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
17 9 0.24
18 9 0.24
19 7 0.19
20 11 0.30
21 1 0.03
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTTTGTTTATTTTATAT
Found at i:11219 original size:24 final size:25
Alignment explanation
Indices: 11192--11239 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
11182 TTTGCTTTAA
* *
11192 TATTTTTTTC-TTATTTTTATTTTT
1 TATTTCTTTCTTTATTTATATTTTT
11216 TATTTCTTTCTTTATTTATATTTT
1 TATTTCTTTCTTTATTTATATTTT
11240 CATAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (25 bp):
TATTTCTTTCTTTATTTATATTTTT
Found at i:11873 original size:7 final size:8
Alignment explanation
Indices: 11856--11885 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
11846 TCCTTACTTC
11856 TTTATTTT
1 TTTATTTT
11864 TTTATTTT
1 TTTATTTT
*
11872 TTTCTTTT
1 TTTATTTT
11880 TTTATT
1 TTTATT
11886 ACTTATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTATTTT
Found at i:11881 original size:16 final size:16
Alignment explanation
Indices: 11836--11885 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
11826 TTTTGACTCA
* *
11836 TTTTTTCTTTTCCTTAC
1 TTTTTTCTTTT-TTTAT
* *
11853 TTCTTTATTTTTTTAT
1 TTTTTTCTTTTTTTAT
11869 TTTTTTCTTTTTTTAT
1 TTTTTTCTTTTTTTAT
11885 T
1 T
11886 ACTTATTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTCTTTTTTTAT
Found at i:11894 original size:28 final size:28
Alignment explanation
Indices: 11861--11935 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 28
11851 ACTTCTTTAT
*
11861 TTTTTTATTTTTTTCTTTT-TTTATTAC
1 TTTTTTATTTTTTTCTTTTCTTTAATAC
*
11888 TTATTTTATCTTTTTCCTTTTGCTTTAATAC
1 TT-TTTTAT-TTTTTTCTTTT-CTTTAATAC
11919 TTTCTCTTATTTTTTTC
1 TTT-T-TTATTTTTTTC
11936 CCTTTTACTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 2 0.05
28 6 0.15
29 10 0.26
30 1 0.03
31 16 0.41
32 4 0.10
ACGTcount: A:0.12, C:0.13, G:0.01, T:0.73
Consensus pattern (28 bp):
TTTTTTATTTTTTTCTTTTCTTTAATAC
Found at i:12655 original size:19 final size:20
Alignment explanation
Indices: 12633--12691 Score: 50
Period size: 23 Copynumber: 2.9 Consensus size: 20
12623 CATGCTTTCA
12633 TTTT-TATTTTATTTCATTG
1 TTTTATATTTTATTTCATTG
12652 TTTTAATATTTTTTACTTTC-TTG
1 TTTT-ATA--TTTTA-TTTCATTG
* *
12675 TTTTCTTTTTTATTTCA
1 TTTTATATTTTATTTCA
12692 AATCTTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
19 8 0.25
20 5 0.16
21 2 0.06
22 1 0.03
23 12 0.38
24 4 0.12
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.73
Consensus pattern (20 bp):
TTTTATATTTTATTTCATTG
Found at i:12736 original size:24 final size:26
Alignment explanation
Indices: 12669--12742 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 26
12659 ATTTTTTACT
12669 TTCTTG-TTTTCTTTTTTATTTCAAA
1 TTCTTGCTTTTCTTTTTTATTTCAAA
* * *
12694 TCTTTTGTCTTTTCATTTTTA-TTC-TA
1 T-TCTTG-CTTTTCTTTTTTATTTCAAA
*
12720 TTCTTGCTTTTCTTTTTTTTTTC
1 TTCTTGCTTTTCTTTTTTATTTC
12743 CCAAATTTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
24 11 0.28
25 8 0.21
26 6 0.15
27 3 0.08
28 11 0.28
ACGTcount: A:0.09, C:0.15, G:0.04, T:0.72
Consensus pattern (26 bp):
TTCTTGCTTTTCTTTTTTATTTCAAA
Found at i:12986 original size:8 final size:7
Alignment explanation
Indices: 12973--13108 Score: 89
Period size: 7 Copynumber: 18.6 Consensus size: 7
12963 TTTTTATTCA
12973 ATTTTTGT
1 ATTTTT-T
*
12981 ATTTTTG
1 ATTTTTT
**
12988 ATTAATT
1 ATTTTTT
12995 ATTTTTT
1 ATTTTTT
13002 ATTTTCTT
1 ATTTT-TT
*
13010 ACTTTTT
1 ATTTTTT
13017 ATATTTTT
1 AT-TTTTT
*
13025 ATTATTT
1 ATTTTTT
*
13032 -TTGTTT
1 ATTTTTT
13038 ATTTTTT
1 ATTTTTT
13045 ATTTTTT
1 ATTTTTT
13052 -TTGTTTT
1 ATT-TTTT
**
13059 ACTTTAAT
1 A-TTTTTT
13067 ATTCTTTT
1 ATT-TTTT
*
13075 CTTATTTT
1 ATT-TTTT
13083 A-TTTTT
1 ATTTTTT
13089 ATTTGGTTT
1 ATTT--TTT
13098 ATTTTTT
1 ATTTTTT
13105 ATTT
1 ATTT
13109 CTTTCTTTAT
Statistics
Matches: 100, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
6 12 0.12
7 49 0.49
8 30 0.30
9 9 0.09
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (7 bp):
ATTTTTT
Found at i:13045 original size:20 final size:20
Alignment explanation
Indices: 13014--13120 Score: 78
Period size: 20 Copynumber: 5.3 Consensus size: 20
13004 TTTCTTACTT
13014 TTTATATTTTTATTATTTTTG
1 TTTAT-TTTTTATTATTTTTG
*
13035 TTTATTTTTTATTTTTTTTG
1 TTTATTTTTTATTATTTTTG
** *
13055 TTT-TACTTTAATATTCTTT-
1 TTTATTTTTTATTATT-TTTG
* *
13074 TCTTATTTTATTTTTA-TTTGG
1 T-TTATTTT-TTATTATTTTTG
* *
13095 TTTATTTTTTATT-TCTTTC
1 TTTATTTTTTATTATTTTTG
13114 TTTATTT
1 TTTATTT
13121 AAATTTTCAT
Statistics
Matches: 66, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
19 22 0.33
20 31 0.47
21 9 0.14
22 4 0.06
ACGTcount: A:0.15, C:0.05, G:0.04, T:0.77
Consensus pattern (20 bp):
TTTATTTTTTATTATTTTTG
Found at i:13046 original size:17 final size:17
Alignment explanation
Indices: 12999--13120 Score: 54
Period size: 19 Copynumber: 6.8 Consensus size: 17
12989 TTAATTATTT
12999 TTTATTTTCTTACTTTTTA
1 TTTATTTT-TTA-TTTTTA
* *
13018 TATT-TTTATTATTTTTG
1 T-TTATTTTTTATTTTTA
13035 TTTATTTTTTA-TTTT-
1 TTTATTTTTTATTTTTA
* * *
13050 TTT-TGTTTTACTTTAA
1 TTTATTTTTTATTTTTA
* *
13066 TATTCTTTTCTTATTTTATT
1 T-TTATTTT-TTATTTT-TA
13086 TTTATTTGGTTTATTTTTTA
1 TTTATTT--TTTA-TTTTTA
*
13106 TTTCTTTCTTTATTT
1 TTTATTT-TTTATTT
13121 AAATTTTCAT
Statistics
Matches: 79, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
14 6 0.08
15 6 0.08
16 7 0.09
17 14 0.18
18 9 0.11
19 19 0.24
20 13 0.16
21 5 0.06
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTATTTTTTATTTTTA
Found at i:13064 original size:26 final size:27
Alignment explanation
Indices: 12996--13064 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
12986 TGATTAATTA
12996 TTTTTTATTTTC-TTACTTTTTATATT
1 TTTTTTATTTTCTTTACTTTTTATATT
* *
13022 TTTATTATTTTTGTTTA-TTTTT-TATT
1 TTTTTTA-TTTTCTTTACTTTTTATATT
*
13048 TTTTTTGTTTTACTTTA
1 TTTTTTATTTT-CTTTA
13065 ATATTCTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
25 4 0.11
26 19 0.54
27 9 0.26
28 3 0.09
ACGTcount: A:0.14, C:0.04, G:0.03, T:0.78
Consensus pattern (27 bp):
TTTTTTATTTTCTTTACTTTTTATATT
Found at i:13114 original size:38 final size:39
Alignment explanation
Indices: 13041--13120 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 39
13031 TTTGTTTATT
*
13041 TTTTATTTTTTTTGTTTTACTTTAATATTCTTTTC-TTA
1 TTTTATTTTTTTTGGTTTACTTTAATATTCTTTTCTTTA
**
13079 TTTTATTTTTATTTGGTTTA-TTTTTTATT-TCTTTCTTTA
1 TTTTATTTTT-TTTGGTTTACTTTAATATTCT-TTTCTTTA
13118 TTT
1 TTT
13121 AAATTTTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
37 1 0.03
38 21 0.58
39 14 0.39
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (39 bp):
TTTTATTTTTTTTGGTTTACTTTAATATTCTTTTCTTTA
Found at i:13354 original size:19 final size:18
Alignment explanation
Indices: 13330--13365 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
13320 TTTTGTCTTT
13330 GATTTTTTATATGTTTTTC
1 GATTTTTTATAT-TTTTTC
*
13349 GATTTTTTGTATTTTTT
1 GATTTTTTATATTTTTT
13366 AAAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.14, C:0.03, G:0.11, T:0.72
Consensus pattern (18 bp):
GATTTTTTATATTTTTTC
Found at i:13439 original size:7 final size:7
Alignment explanation
Indices: 13429--13488 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
13419 AATTTTGTCT
13429 TTTTTTA
1 TTTTTTA
*
13436 -TTTTTG
1 TTTTTTA
*
13442 TTTTTGA
1 TTTTTTA
**
13449 TTCCTTA
1 TTTTTTA
13456 TTTTTTA
1 TTTTTTA
13463 TTTTCTTA
1 TTTT-TTA
13471 CTTTTTATA
1 -TTTTT-TA
13480 TTTTTTA
1 TTTTTTA
13487 TT
1 TT
13489 GTATTTTTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
6 5 0.12
7 21 0.51
8 9 0.22
9 6 0.15
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:13470 original size:15 final size:16
Alignment explanation
Indices: 13452--13488 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13442 TTTTTGATTC
13452 CTTATTTTT-TATTTT
1 CTTATTTTTATATTTT
13467 CTTACTTTTTATATTTT
1 CTTA-TTTTTATATTTT
13484 -TTATT
1 CTTATT
13489 GTATTTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.30
16 8 0.40
17 6 0.30
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (16 bp):
CTTATTTTTATATTTT
Found at i:14440 original size:12 final size:12
Alignment explanation
Indices: 14423--14472 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
14413 AATTAAAATC
*
14423 ATCTTGTATTTT
1 ATCTTGTAATTT
*
14435 ATCTTGAAATTT
1 ATCTTGTAATTT
*
14447 AT-TT-TTATTT
1 ATCTTGTAATTT
*
14457 ATCGTGTAATTT
1 ATCTTGTAATTT
14469 ATCT
1 ATCT
14473 AATTAACAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 6 0.21
11 3 0.10
12 20 0.69
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
ATCTTGTAATTT
Found at i:14600 original size:59 final size:60
Alignment explanation
Indices: 14488--14605 Score: 134
Period size: 59 Copynumber: 2.0 Consensus size: 60
14478 ACAAAATTAT
*** * *
14488 ATTGTATAATATTTATCTTTTATTTAATAAAATTTGGATTATTTTATTTATTAT-TTTGG
1 ATTGTATAATATTTATCTTTTATTTAATAAAATTTGGATTAGGATAATAATTATCTTTGG
* *
14547 ATTGTATAATATTTATCTTTTATTTGATACAATTT-G-TTAAGGGATAATAATTATCTTTG
1 ATTGTATAATATTTATCTTTTATTTAATAAAATTTGGATT-A-GGATAATAATTATCTTTG
14606 TTATTTTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
57 2 0.04
58 2 0.04
59 41 0.84
60 4 0.08
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.55
Consensus pattern (60 bp):
ATTGTATAATATTTATCTTTTATTTAATAAAATTTGGATTAGGATAATAATTATCTTTGG
Found at i:15828 original size:24 final size:22
Alignment explanation
Indices: 15772--15828 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
15762 GTGAACTTCC
15772 TTTTGATTTTATTTATATTTTG
1 TTTTGATTTTATTTATATTTTG
*
15794 TATTGACTTTTATTT-TACTTTTTG
1 TTTTGA-TTTTATTTATA--TTTTG
15818 TCTTTGATTTT
1 T-TTTGATTTT
15829 TTATGTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 7 0.24
23 8 0.28
24 10 0.34
25 4 0.14
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (22 bp):
TTTTGATTTTATTTATATTTTG
Found at i:16413 original size:22 final size:23
Alignment explanation
Indices: 16375--16432 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
16365 CTTTTCTCCC
*
16375 TTTTA-ATTTTTTGTCTT-TGATT
1 TTTTATATTGTTT-TCTTATGATT
*
16397 TTTTATATTGTTTTCTTATTATT
1 TTTTATATTGTTTTCTTATGATT
*
16420 TCTTATA-TGTTTT
1 TTTTATATTGTTTT
16433 TCAATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (23 bp):
TTTTATATTGTTTTCTTATGATT
Found at i:16588 original size:18 final size:18
Alignment explanation
Indices: 16565--16624 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 18
16555 TTTTATTGTA
16565 TTTTTGTTTATTTTATAT
1 TTTTTGTTTATTTTATAT
16583 TTTTTGTTT-TGCTTTAATAT
1 TTTTTGTTTAT--TTT-ATAT
16603 TTTTT-TCTTATTTT-TAT
1 TTTTTGT-TTATTTTATAT
16620 TTTTT
1 TTTTT
16625 ATTTCTTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
17 9 0.24
18 9 0.24
19 7 0.19
20 11 0.30
21 1 0.03
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTTTGTTTATTTTATAT
Found at i:16627 original size:24 final size:25
Alignment explanation
Indices: 16600--16647 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
16590 TTTGCTTTAA
* *
16600 TATTTTTTTC-TTATTTTTATTTTT
1 TATTTCTTTCTTTATTTATATTTTT
16624 TATTTCTTTCTTTATTTATATTTT
1 TATTTCTTTCTTTATTTATATTTT
16648 CATAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (25 bp):
TATTTCTTTCTTTATTTATATTTTT
Found at i:17841 original size:8 final size:8
Alignment explanation
Indices: 17824--17884 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
17814 TCACTTCGTC
*
17824 TTTTTATA
1 TTTTTTTA
17832 TTTTTTTA
1 TTTTTTTA
* *
17840 TTTTCTTC
1 TTTTTTTA
*
17848 CTTTTTTA
1 TTTTTTTA
17856 TTTTTTGT-
1 TTTTTT-TA
17864 TTTTGTTTA
1 TTTT-TTTA
*
17873 TTTTTTTC
1 TTTTTTTA
17881 TTTT
1 TTTT
17885 ATATTAATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
8 35 0.83
9 7 0.17
ACGTcount: A:0.08, C:0.07, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:17884 original size:17 final size:16
Alignment explanation
Indices: 17832--17884 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
17822 TCTTTTTATA
*
17832 TTTTTTTATTTTCTTC
1 TTTTTTTATTTTTTTC
*
17848 CTTTTTTATTTTTTGT-
1 TTTTTTTATTTTTT-TC
17864 TTTTGTTTATTTTTTTC
1 TTTT-TTTATTTTTTTC
17881 TTTT
1 TTTT
17885 ATATTAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 16 0.52
17 15 0.48
ACGTcount: A:0.06, C:0.08, G:0.04, T:0.83
Consensus pattern (16 bp):
TTTTTTTATTTTTTTC
Found at i:18377 original size:8 final size:7
Alignment explanation
Indices: 18364--18492 Score: 75
Period size: 8 Copynumber: 17.6 Consensus size: 7
18354 TTTTTATTCA
18364 ATTTTTGT
1 ATTTTT-T
*
18372 ATTTTTG
1 ATTTTTT
**
18379 ATTAATT
1 ATTTTTT
18386 ATTTTTT
1 ATTTTTT
18393 ATTTTCTT
1 ATTTT-TT
*
18401 ACTTTTT
1 ATTTTTT
18408 ATATTTTT
1 AT-TTTTT
18416 ATTGTATTT
1 ATT-T-TTT
*
18425 -TTGTTT
1 ATTTTTT
18431 ATTTTTT
1 ATTTTTT
18438 ATTTTTTT
1 A-TTTTTT
18446 ATTTTTT
1 ATTTTTT
*
18453 -TGTTTT
1 ATTTTTT
**
18459 ACTTTAAT
1 A-TTTTTT
18467 ATTCTTTT
1 ATT-TTTT
*
18475 CTTATTTT
1 ATT-TTTT
18483 A-TTTTT
1 ATTTTTT
18489 ATTT
1 ATTT
18493 CTTTCTTTAT
Statistics
Matches: 92, Mismatches: 19, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
6 13 0.14
7 35 0.38
8 41 0.45
9 3 0.03
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (7 bp):
ATTTTTT
Found at i:18413 original size:38 final size:36
Alignment explanation
Indices: 18364--18451 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 36
18354 TTTTTATTCA
*
18364 ATTTTTGTATTTTTGATT-AATTATTT-TTTATTTTCTT
1 ATTTTTATATTTTT-ATTGAATT-TTTGTTTATTTT-TT
*
18401 ACTTTTTATATTTTTATTGTATTTTTGTTTATTTTTT
1 A-TTTTTATATTTTTATTGAATTTTTGTTTATTTTTT
*
18438 ATTTTTTTATTTTT
1 ATTTTTATATTTTT
18452 TTGTTTTACT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
36 12 0.27
37 10 0.22
38 23 0.51
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (36 bp):
ATTTTTATATTTTTATTGAATTTTTGTTTATTTTTT
Found at i:18458 original size:15 final size:15
Alignment explanation
Indices: 18384--18452 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
18374 TTTTGATTAA
*
18384 TTATTTTTTATTTTC
1 TTATTTTTTATTTTT
* *
18399 TTACTTTTTATATTT
1 TTATTTTTTATTTTT
* *
18414 TTATTGTATT-TTTGT
1 TTATT-TTTTATTTTT
18429 TTATTTTTTATTTTT
1 TTATTTTTTATTTTT
18444 TTATTTTTT
1 TTATTTTTT
18453 TGTTTTACTT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
14 3 0.07
15 37 0.86
16 3 0.07
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (15 bp):
TTATTTTTTATTTTT
Found at i:18474 original size:23 final size:23
Alignment explanation
Indices: 18455--18504 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
18445 TATTTTTTTG
18455 TTTTACTTTAATATTCTTTTCTTA
1 TTTTACTTTAAT-TTCTTTTCTTA
* *
18479 TTTTATTTTTATTTC-TTTCTTTA
1 TTTTACTTTAATTTCTTTTC-TTA
18502 TTT
1 TTT
18505 AAATTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 9 0.39
24 10 0.43
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTACTTTAATTTCTTTTCTTA
Found at i:18840 original size:14 final size:14
Alignment explanation
Indices: 18823--18882 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
18813 TTGTTTTTGA
18823 TTCTTATTTTTATT
1 TTCTTATTTTTATT
*
18837 TTCTTACTTTTATAT
1 TTCTTATTTTTAT-T
*
18852 TT-TT-TTCTTATT
1 TTCTTATTTTTATT
18864 TT-TTAATTTTTATT
1 TTCTT-ATTTTTATT
18878 TTCTT
1 TTCTT
18883 CTTTATTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 5 0.13
13 5 0.13
14 23 0.61
15 5 0.13
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (14 bp):
TTCTTATTTTTATT
Found at i:18855 original size:22 final size:22
Alignment explanation
Indices: 18827--18886 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
18817 TTTTGATTCT
18827 TATTTTTATTTTCTTACTTTTA
1 TATTTTTATTTTCTTACTTTTA
*
18849 TA--TTT-TTTTCTTA-TTTTT
1 TATTTTTATTTTCTTACTTTTA
18867 TAATTTTTATTTTCTT-CTTT
1 T-ATTTTTATTTTCTTACTTT
18887 ATTTATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
18 5 0.16
19 9 0.28
20 3 0.09
21 3 0.09
22 12 0.38
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (22 bp):
TATTTTTATTTTCTTACTTTTA
Found at i:18866 original size:19 final size:18
Alignment explanation
Indices: 18795--18866 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 18
18785 TTTATTCAAA
*
18795 TTTTGTCTT-TTTTTATT
1 TTTTTTCTTATTTTTATT
*
18812 TTTGTTT-TTGATTCTTATTT
1 TTT-TTTCTT-ATTTTTA-TT
*
18832 TTATTTTCTTACTTTTATAT
1 TT-TTTTCTTATTTTTAT-T
18852 TTTTTTCTTATTTTT
1 TTTTTTCTTATTTTT
18867 TAATTTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
17 5 0.12
18 2 0.05
19 18 0.42
20 15 0.35
21 3 0.07
ACGTcount: A:0.11, C:0.07, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTTTTCTTATTTTTATT
Found at i:18873 original size:18 final size:19
Alignment explanation
Indices: 18835--18874 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
18825 CTTATTTTTA
*
18835 TTTTCTTACTTTTATATTT
1 TTTTCTTACTTTTATAATT
*
18854 TTTTCTTA-TTTTTTAATT
1 TTTTCTTACTTTTATAATT
18872 TTT
1 TTT
18875 ATTTTCTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCTTACTTTTATAATT
Found at i:18887 original size:19 final size:19
Alignment explanation
Indices: 18828--18898 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 19
18818 TTTGATTCTT
18828 ATTTTTATTTTCTTACTTTTA
1 ATTTTTATTTTCTT-C-TTTA
* *
18849 TATTTTT-TTCTTATTTTTTA
1 -ATTTTTATT-TTCTTCTTTA
18869 ATTTTTATTTTCTTCTTT-
1 ATTTTTATTTTCTTCTTTA
*
18887 ATTTATATTTTC
1 ATTTTTATTTTC
18899 ATAAATTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 11 0.26
19 13 0.31
20 6 0.14
21 2 0.05
22 10 0.24
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (19 bp):
ATTTTTATTTTCTTCTTTA
Found at i:18908 original size:41 final size:41
Alignment explanation
Indices: 18828--18909 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
18818 TTTGATTCTT
* *
18828 ATTTTTATTTTCTTACTTTTATATTTTTTTCTTATTTTTTA
1 ATTTTTATTTTCTTACTTTTATATTTTTTTCTAAATTTTTA
18869 ATTTTTATTTTCTT-C-TTTAT-TTATATTTTCATAAATTTTTA
1 ATTTTTATTTTCTTACTTTTATATT-T-TTTTC-TAAATTTTTA
18910 TAATGTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
38 2 0.06
39 6 0.17
40 6 0.17
41 22 0.61
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (41 bp):
ATTTTTATTTTCTTACTTTTATATTTTTTTCTAAATTTTTA
Found at i:19070 original size:19 final size:18
Alignment explanation
Indices: 19048--19087 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19038 TTTCATGTGC
*
19048 TTTCATATTTTTTTTTTGT
1 TTTCA-ATTTTTTCTTTGT
*
19067 TTTCACTTTTTTCTTTGT
1 TTTCAATTTTTTCTTTGT
19085 TTT
1 TTT
19088 AAAATTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.07, C:0.10, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTCAATTTTTTCTTTGT
Found at i:19682 original size:7 final size:7
Alignment explanation
Indices: 19672--19704 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
19662 TTTTTTTTCC
19672 TTTTATT
1 TTTTATT
19679 TTTTA-T
1 TTTTATT
19685 TTTTATT
1 TTTTATT
*
19692 TTTTTTT
1 TTTTATT
19699 TTTTAT
1 TTTTAT
19705 AAAATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:19700 original size:13 final size:13
Alignment explanation
Indices: 19662--19701 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
19652 ATATTTTCTC
19662 TTTTTTTTCCTTTTA
1 TTTTTTTT--TTTTA
*
19677 TTTTTTATTTTTA
1 TTTTTTTTTTTTA
19690 TTTTTTTTTTTT
1 TTTTTTTTTTTT
19702 TATAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 16 0.70
15 7 0.30
ACGTcount: A:0.07, C:0.05, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTTTA
Found at i:19832 original size:12 final size:12
Alignment explanation
Indices: 19815--19864 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
19805 AATTAAAATC
*
19815 ATCTTGTATTTT
1 ATCTTGTAATTT
*
19827 ATCTTGAAATTT
1 ATCTTGTAATTT
*
19839 AT-TT-TTATTT
1 ATCTTGTAATTT
*
19849 ATCGTGTAATTT
1 ATCTTGTAATTT
19861 ATCT
1 ATCT
19865 AATTAACAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 6 0.21
11 3 0.10
12 20 0.69
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
ATCTTGTAATTT
Found at i:19992 original size:59 final size:60
Alignment explanation
Indices: 19880--19997 Score: 134
Period size: 59 Copynumber: 2.0 Consensus size: 60
19870 ACAAAATTAT
*** * *
19880 ATTGTATAATATTTATCTTTTATTTAATAAAATTTGGATTATTTTATTTATTAT-TTTGG
1 ATTGTATAATATTTATCTTTTATTTAATAAAATTTGGATTAAGATAATAATTATCTTTGG
* *
19939 ATTGTATAATATTTATCTTTTATTTGATACAATTT-G-TTAAGAGATAATAATTATCTTTG
1 ATTGTATAATATTTATCTTTTATTTAATAAAATTTGGATT-A-AGATAATAATTATCTTTG
19998 TTATTTTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
57 2 0.04
58 2 0.04
59 41 0.84
60 4 0.08
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.55
Consensus pattern (60 bp):
ATTGTATAATATTTATCTTTTATTTAATAAAATTTGGATTAAGATAATAATTATCTTTGG
Found at i:20502 original size:17 final size:17
Alignment explanation
Indices: 20477--20509 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20467 GTACTCTTAC
20477 TTTTATCTTTTTTTTTT
1 TTTTATCTTTTTTTTTT
*
20494 TTTTTTCTTTTTTTTT
1 TTTTATCTTTTTTTTT
20510 CTTAAGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (17 bp):
TTTTATCTTTTTTTTTT
Found at i:20510 original size:10 final size:10
Alignment explanation
Indices: 20484--20512 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
20474 TACTTTTATC
20484 TTTTTTT-TT
1 TTTTTTTCTT
20493 TTTTTTTCTT
1 TTTTTTTCTT
20503 TTTTTTTCTT
1 TTTTTTTCTT
20513 AAGGTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:20592 original size:30 final size:28
Alignment explanation
Indices: 20551--20606 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
20541 TTTTATCCAC
*
20551 ACTTCTTTCTTTTGTTTTTATTTTTTATTA
1 ACTTCTTTC-TTT-TTTTAATTTTTTATTA
*
20581 ACTTTTTTCTTTTTTTAATTTTTTAT
1 ACTTCTTTCTTTTTTTAATTTTTTAT
20607 CATTGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.54
29 3 0.12
30 8 0.33
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (28 bp):
ACTTCTTTCTTTTTTTAATTTTTTATTA
Found at i:20737 original size:18 final size:20
Alignment explanation
Indices: 20715--20758 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
20705 TCTTTTTTCA
*
20715 TTTTTATTAGTTTT-TTA-T
1 TTTTTATTAATTTTCTTACT
*
20733 TTTTTTTTAATTTTCTTACT
1 TTTTTATTAATTTTCTTACT
20753 TTTTTA
1 TTTTTA
20759 ATTGCGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 12 0.57
19 3 0.14
20 6 0.29
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTATTAATTTTCTTACT
Found at i:20737 original size:27 final size:27
Alignment explanation
Indices: 20707--20758 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
20697 TTTTCTTTTC
* *
20707 TTTTTTCATTTTTATTAGTTTTTTATT
1 TTTTTTCAATTTTATTACTTTTTTATT
* *
20734 TTTTTTTAATTTTCTTACTTTTTTA
1 TTTTTTCAATTTTATTACTTTTTTA
20759 ATTGCGTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (27 bp):
TTTTTTCAATTTTATTACTTTTTTATT
Found at i:21224 original size:24 final size:22
Alignment explanation
Indices: 21168--21224 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
21158 GTGAACTTCC
21168 TTTTGATTTTATTTATATTTTG
1 TTTTGATTTTATTTATATTTTG
*
21190 TATTGACTTTTATTT-TACTTTTTG
1 TTTTGA-TTTTATTTATA--TTTTG
21214 TCTTTGATTTT
1 T-TTTGATTTT
21225 TTATGTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 7 0.24
23 8 0.28
24 10 0.34
25 4 0.14
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (22 bp):
TTTTGATTTTATTTATATTTTG
Found at i:21354 original size:15 final size:16
Alignment explanation
Indices: 21336--21373 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
21326 CGTTTTATAT
21336 TTTTTTATTCTC-TAA
1 TTTTTTATTCTCTTAA
* *
21351 TTTTTTATTTTCTTAC
1 TTTTTTATTCTCTTAA
21367 TTTTTTA
1 TTTTTTA
21374 CTTTTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTATTCTCTTAA
Found at i:21370 original size:16 final size:15
Alignment explanation
Indices: 21336--21378 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
21326 CGTTTTATAT
*
21336 TTTTTTATTCTCTAA
1 TTTTTTATTTTCTAA
*
21351 TTTTTTATTTTCTTAC
1 TTTTTTATTTTC-TAA
21367 TTTTTTACTTTT
1 TTTTTTA-TTTT
21379 TGTTTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 9 0.38
17 4 0.17
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTATTTTCTAA
Found at i:21435 original size:8 final size:7
Alignment explanation
Indices: 21336--21580 Score: 67
Period size: 8 Copynumber: 33.4 Consensus size: 7
21326 CGTTTTATAT
21336 TTTTTTA
1 TTTTTTA
* *
21343 TTCTCTAA
1 TT-TTTTA
21351 TTTTTTA
1 TTTTTTA
21358 TTTTCTTA
1 TTTT-TTA
21366 CTTTTTTA
1 -TTTTTTA
*
21374 CTTTTTGTT
1 -TTTTT-TA
21383 TTTGTTTA
1 TTT-TTTA
21391 -TTTTTA
1 TTTTTTA
* *
21397 ATTGTTA
1 TTTTTTA
21404 TTTTTTTA
1 -TTTTTTA
*
21412 GTATTTTA
1 -TTTTTTA
21420 --TTTTA
1 TTTTTTA
21425 TTTTTTCA
1 TTTTTT-A
21433 TTTATATTA
1 TTT-T-TTA
**
21442 AATTTT-
1 TTTTTTA
**
21448 TTTTCAA
1 TTTTTTA
21455 TTTTTGTA
1 TTTTT-TA
*
21463 TTTTTGA
1 TTTTTTA
**
21470 TTCATTA
1 TTTTTTA
21477 TTTTTTA
1 TTTTTTA
*
21484 TTATCTTA
1 TT-TTTTA
**
21492 CCTTTTA
1 TTTTTTA
21499 TATTTTTA
1 T-TTTTTA
*
21507 --TTGTA
1 TTTTTTA
21512 TTTTTGT-
1 TTTTT-TA
21519 TTCTTTTA
1 TT-TTTTA
21527 TTTTTT-
1 TTTTTTA
21533 TTGTTTTA
1 TT-TTTTA
**
21541 CTTTAATA
1 -TTTTTTA
*
21549 TTGTTTTC
1 TT-TTTTA
21557 TTATTTTA
1 TT-TTTTA
21565 -TTTTTA
1 TTTTTTA
21571 TTTTTTA
1 TTTTTTA
21578 TTT
1 TTT
21581 CTTTCTTTAT
Statistics
Matches: 172, Mismatches: 40, Indels: 52
0.65 0.15 0.20
Matches are distributed among these distances:
5 9 0.05
6 13 0.08
7 67 0.39
8 69 0.40
9 12 0.07
10 2 0.01
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.73
Consensus pattern (7 bp):
TTTTTTA
Found at i:21826 original size:22 final size:23
Alignment explanation
Indices: 21788--21845 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
21778 CTTTTCTCTC
*
21788 TTTTA-ATTTTTTGTCTT-TGATT
1 TTTTATATTGTTT-TCTTATGATT
*
21810 TTTTATATTGTTTTCTTATTATT
1 TTTTATATTGTTTTCTTATGATT
*
21833 TCTTATA-TGTTTT
1 TTTTATATTGTTTT
21846 TCAATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (23 bp):
TTTTATATTGTTTTCTTATGATT
Found at i:21994 original size:17 final size:17
Alignment explanation
Indices: 21972--22029 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
21962 TTTTTTATTG
21972 TATTTTTGTTTATTTTA
1 TATTTTTGTTTATTTTA
** *
21989 TATTTTTGTTTGCTTAA
1 TATTTTTGTTTATTTTA
*
22006 TATTTTTTTCTTATTTT-
1 TATTTTTGT-TTATTTTA
22023 TATTTTT
1 TATTTTT
22030 TATTTCTTTC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
17 29 0.88
18 4 0.12
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (17 bp):
TATTTTTGTTTATTTTA
Found at i:22033 original size:24 final size:25
Alignment explanation
Indices: 22006--22052 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21996 GTTTGCTTAA
* *
22006 TATTTTTTTC-TTATTTTTATTTTT
1 TATTTCTTTCTTTATTTATATTTTT
22030 TATTTCTTTCTTTATTTATATTT
1 TATTTCTTTCTTTATTTATATTT
22053 CATTAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (25 bp):
TATTTCTTTCTTTATTTATATTTTT
Found at i:23165 original size:23 final size:24
Alignment explanation
Indices: 23111--23182 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 24
23101 TGACTTTTTA
*
23111 TTTTATTTTTTATCTTTGATTAT-T
1 TTTTTTTTTTTATCTTTG-TTATAT
*
23135 TGTCTTTTTTTTAT-TTTGTTATAT
1 T-TTTTTTTTTTATCTTTGTTATAT
* *
23159 TTTTTTTGTTTCTCTTTG-TATAT
1 TTTTTTTTTTTATCTTTGTTATAT
23182 T
1 T
23183 CTAAACTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
23 19 0.47
24 11 0.28
25 10 0.25
ACGTcount: A:0.12, C:0.06, G:0.07, T:0.75
Consensus pattern (24 bp):
TTTTTTTTTTTATCTTTGTTATAT
Found at i:23326 original size:18 final size:18
Alignment explanation
Indices: 23276--23326 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
23266 TTTTCTTCCT
* * *
23276 TTTTTATTTTTGTTTATT
1 TTTTTATTTTTATTAATA
*
23294 TTTTTCTTTTATATTAATA
1 TTTTTATTTT-TATTAATA
23313 TTTTTATTTTTATT
1 TTTTTATTTTTATT
23327 TTTTCATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTTATTAATA
Found at i:23344 original size:22 final size:20
Alignment explanation
Indices: 23316--23366 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
23306 ATTAATATTT
23316 TTATTTTTATTTTTTCATTTTC
1 TTATTTTTATTTTTT--TTTTC
*
23338 TTATTTTGTCTTTTTTTTTTC
1 TTATTTT-TATTTTTTTTTTC
*
23359 CTATTTTT
1 TTATTTTT
23367 TGTTCTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 11 0.42
22 7 0.27
23 7 0.27
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (20 bp):
TTATTTTTATTTTTTTTTTC
Found at i:23471 original size:19 final size:20
Alignment explanation
Indices: 23449--23507 Score: 50
Period size: 23 Copynumber: 2.9 Consensus size: 20
23439 CATGCTTTCA
23449 TTTT-TATTTTATTTCATTG
1 TTTTATATTTTATTTCATTG
23468 TTTTAATATTTTTTACTTTC-TTG
1 TTTT-ATA--TTTTA-TTTCATTG
* *
23491 TTTTCTTTTTTATTTCA
1 TTTTATATTTTATTTCA
23508 AATCTTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
19 8 0.25
20 5 0.16
21 2 0.06
22 1 0.03
23 12 0.38
24 4 0.12
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.73
Consensus pattern (20 bp):
TTTTATATTTTATTTCATTG
Found at i:23804 original size:8 final size:7
Alignment explanation
Indices: 23791--23934 Score: 89
Period size: 7 Copynumber: 19.6 Consensus size: 7
23781 TTTTTATTCA
23791 ATTTTTGT
1 ATTTTT-T
*
23799 ATTTTTG
1 ATTTTTT
**
23806 ATTAATT
1 ATTTTTT
23813 ATTTTTT
1 ATTTTTT
23820 ATTTTCTT
1 ATTTT-TT
*
23828 ACTTTTT
1 ATTTTTT
23835 ATATTTTT
1 AT-TTTTT
23843 ATTGTATTT
1 ATT-T-TTT
*
23852 -TTGTTT
1 ATTTTTT
23858 ATTTTTT
1 ATTTTTT
23865 ATTTTTT
1 ATTTTTT
23872 ATTTTTT
1 ATTTTTT
23879 -TTGTTTT
1 ATT-TTTT
**
23886 ACTTTAAT
1 A-TTTTTT
23894 ATTCTTTT
1 ATT-TTTT
*
23902 CTTATTTT
1 ATT-TTTT
23910 A-TTTTT
1 ATTTTTT
23916 ATTTGGTTT
1 ATTT--TTT
23925 A-TTTTT
1 ATTTTTT
23931 ATTT
1 ATTT
23935 CTTTCTTTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
6 14 0.13
7 48 0.45
8 35 0.33
9 9 0.08
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (7 bp):
ATTTTTT
Found at i:23840 original size:38 final size:37
Alignment explanation
Indices: 23792--23879 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
23782 TTTTATTCAA
*
23792 TTTTTGTATTTTTGATT-AATTATTT-TTTATTTTCTTAC
1 TTTTTATATTTTT-ATTGAATT-TTTGTTTATTTT-TTAC
* *
23830 TTTTTATATTTTTATTGTATTTTTGTTTATTTTTTAT
1 TTTTTATATTTTTATTGAATTTTTGTTTATTTTTTAC
*
23867 TTTTTATTTTTTT
1 TTTTTATATTTTT
23880 TGTTTTACTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
37 21 0.48
38 23 0.52
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (37 bp):
TTTTTATATTTTTATTGAATTTTTGTTTATTTTTTAC
Found at i:23841 original size:57 final size:57
Alignment explanation
Indices: 23766--23890 Score: 137
Period size: 57 Copynumber: 2.2 Consensus size: 57
23756 TTGTCATTCT
23766 TTTTCACTTTCTAAATTTTTATTCAATTTTTG-TATTTTTGATTAATTATTTTTTATT-
1 TTTT-ACTTTCTAAATTTTTATTCAATTTTTGTTATTTTTGATTAATTATTTTTT-TTG
* * ** * **
23823 TTCTTACTTTTTATATTTTTATTGTATTTTTGTTTATTTTTTATTTTTTATTTTTTTTG
1 TT-TTACTTTCTAAATTTTTATTCAATTTTTG-TTATTTTTGATTAATTATTTTTTTTG
23882 TTTTACTTT
1 TTTTACTTT
23891 AATATTCTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
57 25 0.44
58 11 0.19
59 21 0.37
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.73
Consensus pattern (57 bp):
TTTTACTTTCTAAATTTTTATTCAATTTTTGTTATTTTTGATTAATTATTTTTTTTG
Found at i:23851 original size:28 final size:29
Alignment explanation
Indices: 23821--23890 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
23811 TTATTTTTTA
23821 TTTT-CTTACTTTTTATATTTTTATTGTAT
1 TTTTGCTTACTTTTTAT-TTTTTATTGTAT
* *
23850 TTTTGTTTATTTTTTATTTTTTATT-T-T
1 TTTTGCTTACTTTTTATTTTTTATTGTAT
*
23877 TTTTGTTTTACTTT
1 TTTTG-CTTACTTT
23891 AATATTCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 6 0.17
28 8 0.22
29 12 0.33
30 10 0.28
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (29 bp):
TTTTGCTTACTTTTTATTTTTTATTGTAT
Found at i:23910 original size:38 final size:38
Alignment explanation
Indices: 23868--23946 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
23858 ATTTTTTATT
*
23868 TTTTATTTTT-TTTGTTTTACTTTAATATTCTTT-TCTTA
1 TTTTATTTTTATTTGGTTTACTTTAAT-TTCTTTCT-TTA
* *
23906 TTTTATTTTTATTTGGTTTATTTTTATTTCTTTCTTTA
1 TTTTATTTTTATTTGGTTTACTTTAATTTCTTTCTTTA
23944 TTT
1 TTT
23947 AAATTTTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 22 0.61
39 14 0.39
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (38 bp):
TTTTATTTTTATTTGGTTTACTTTAATTTCTTTCTTTA
Found at i:24174 original size:21 final size:21
Alignment explanation
Indices: 24150--24192 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
24140 TAATCTTTTG
*
24150 TCTT-TGATTTTTATATTGTTT
1 TCTTATGATTCTTATA-TGTTT
*
24171 TCTTATTATTCTTATATGTTT
1 TCTTATGATTCTTATATGTTT
24192 T
1 T
24193 TCGATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.70
Consensus pattern (21 bp):
TCTTATGATTCTTATATGTTT
Found at i:24286 original size:7 final size:7
Alignment explanation
Indices: 24276--24336 Score: 59
Period size: 7 Copynumber: 8.3 Consensus size: 7
24266 ATTTTTGTCT
24276 TTTTTTA
1 TTTTTTA
*
24283 TTTTTTG
1 TTTTTTA
*
24290 TTTTTGA
1 TTTTTTA
**
24297 TTCCTTA
1 TTTTTTA
24304 TTTTTTA
1 TTTTTTA
24311 TTTTCTTA
1 TTTT-TTA
24319 CTTTTTATA
1 -TTTTT-TA
24328 TTTTTTA
1 TTTTTTA
24335 TT
1 TT
24337 GTATTTTTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
7 28 0.65
8 9 0.21
9 6 0.14
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:24559 original size:19 final size:20
Alignment explanation
Indices: 24518--24560 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
24508 TTTTTACTTG
* *
24518 TTTTTTCATGTGCTTTCATA
1 TTTTTTCATGTGCTTTAAAA
*
24538 TTTTTTC-TTTGCTTTAAAA
1 TTTTTTCATGTGCTTTAAAA
24557 TTTT
1 TTTT
24561 CTATAAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.16, C:0.12, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTTTCATGTGCTTTAAAA
Found at i:25440 original size:59 final size:60
Alignment explanation
Indices: 25328--25445 Score: 134
Period size: 59 Copynumber: 2.0 Consensus size: 60
25318 ACAAAATTAT
*** * *
25328 ATTGTATAATATTTATCTTTTATTTAATAAAATTTGGATTATTTTATTTATTAT-TTTGG
1 ATTGTATAATATTTATCTTTTATTTAATAAAATTTGGATTAAGATAATAATTATCTTTGG
* *
25387 ATTGTATAATATTTATCTTTTATTTGATACAATTT-G-TTAAGAGATAATAATTATCTTTG
1 ATTGTATAATATTTATCTTTTATTTAATAAAATTTGGATT-A-AGATAATAATTATCTTTG
25446 TTATTTTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
57 2 0.04
58 2 0.04
59 41 0.84
60 4 0.08
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.55
Consensus pattern (60 bp):
ATTGTATAATATTTATCTTTTATTTAATAAAATTTGGATTAAGATAATAATTATCTTTGG
Found at i:26038 original size:30 final size:28
Alignment explanation
Indices: 25999--26054 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
25989 TTTTTTCCAC
*
25999 ACTTCTTTCTTTTGTTTTTATTTTTTATTA
1 ACTTCTTTC-TTT-TTTTAATTTTTTATTA
*
26029 ACTTTTTTCTTTTTTTAATTTTTTAT
1 ACTTCTTTCTTTTTTTAATTTTTTAT
26055 CATTGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.54
29 3 0.12
30 8 0.33
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (28 bp):
ACTTCTTTCTTTTTTTAATTTTTTATTA
Found at i:26274 original size:22 final size:22
Alignment explanation
Indices: 26247--26288 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
26237 CTTTTTCCTT
*
26247 TTATTTTTTATAATAATTTTTG
1 TTATTTTTTATAAAAATTTTTG
26269 TTATTTTTTATAAAAATTTT
1 TTATTTTTTATAAAAATTTT
26289 ATAATGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTTTTTATAAAAATTTTTG
Found at i:26634 original size:24 final size:22
Alignment explanation
Indices: 26578--26634 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
26568 GTGAACTTCC
26578 TTTTGATTTTATTTATATTTTG
1 TTTTGATTTTATTTATATTTTG
* *
26600 TATTGACTTTTATTTTATTTTTTG
1 TTTTGA-TTTTA-TTTATATTTTG
26624 TCTTTGATTTT
1 T-TTTGATTTT
26635 TTATGTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 5 0.17
23 5 0.17
24 15 0.52
25 4 0.14
ACGTcount: A:0.16, C:0.04, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTTGATTTTATTTATATTTTG
Found at i:26766 original size:15 final size:16
Alignment explanation
Indices: 26748--26785 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
26738 CGTTTTATAT
26748 TTTTTTATTCTC-TAA
1 TTTTTTATTCTCTTAA
* *
26763 TTTTTTATTTTCTTAC
1 TTTTTTATTCTCTTAA
26779 TTTTTTA
1 TTTTTTA
26786 CTTTTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTATTCTCTTAA
Found at i:26782 original size:16 final size:15
Alignment explanation
Indices: 26748--26790 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
26738 CGTTTTATAT
*
26748 TTTTTTATTCTCTAA
1 TTTTTTATTTTCTAA
*
26763 TTTTTTATTTTCTTAC
1 TTTTTTATTTTC-TAA
26779 TTTTTTACTTTT
1 TTTTTTA-TTTT
26791 TGTTTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 9 0.38
17 4 0.17
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTATTTTCTAA
Found at i:27235 original size:22 final size:23
Alignment explanation
Indices: 27197--27254 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
27187 CTTTTCTCTC
*
27197 TTTTA-ATTTTTTGTCTT-TGATT
1 TTTTATATTGTTT-TCTTATGATT
*
27219 TTTTATATTGTTTTCTTATTATT
1 TTTTATATTGTTTTCTTATGATT
*
27242 TCTTATA-TGTTTT
1 TTTTATATTGTTTT
27255 TCATTTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (23 bp):
TTTTATATTGTTTTCTTATGATT
Found at i:27356 original size:7 final size:7
Alignment explanation
Indices: 27335--27437 Score: 64
Period size: 7 Copynumber: 13.4 Consensus size: 7
27325 AATTTTTGTC
27335 TTTTTTA
1 TTTTTTA
**
27342 TTCATTA
1 TTTTTTA
27349 TTTTTTA
1 TTTTTTA
27356 TTTTCTTA
1 TTTT-TTA
27364 CTTTTTATA
1 -TTTTT-TA
27373 TTTTTTA
1 TTTTTTA
27380 TTGTATTT-
1 TT-T-TTTA
*
27388 TTGTTTA
1 TTTTTTA
*
27395 TTTTATA
1 TTTTTTA
*
27402 TTTTTTGT
1 TTTTTT-A
27410 TTTGCTTTAA
1 TTT--TTT-A
27420 TATTTTTA
1 T-TTTTTA
27428 TTTTTTA
1 TTTTTTA
27435 TTT
1 TTT
27438 CTTTCTTATT
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
6 3 0.04
7 37 0.49
8 17 0.23
9 12 0.16
10 4 0.05
11 2 0.03
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.76
Consensus pattern (7 bp):
TTTTTTA
Found at i:27359 original size:20 final size:20
Alignment explanation
Indices: 27289--27345 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
27279 TTTTTTTCTA
*
27289 TTTTGTCATTTCCT-TTC-AT
1 TTTTGTCATTT-TTATTCAAT
**
27308 TTTTGAAATTTTTATTCAAT
1 TTTTGTCATTTTTATTCAAT
*
27328 TTTTGTCTTTTTTATTCA
1 TTTTGTCATTTTTATTCA
27346 TTATTTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 1 0.03
19 12 0.40
20 17 0.57
ACGTcount: A:0.18, C:0.12, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTGTCATTTTTATTCAAT
Found at i:27412 original size:24 final size:24
Alignment explanation
Indices: 27383--27455 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
27373 TTTTTTATTG
27383 TATTTTTGTTTATTTTATATTTTT
1 TATTTTTGTTTATTTTATATTTTT
* *
27407 T-GTTTTGCTTTAATATTTTTATTTTT
1 TATTTTTG-TTT-AT-TTTATATTTTT
27433 TATTTCTT-TCTTA-TTTATATTTT
1 TATTT-TTGT-TTATTTTATATTTT
27456 CATAAATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
23 5 0.13
24 13 0.33
25 2 0.05
26 13 0.33
27 4 0.10
28 2 0.05
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.75
Consensus pattern (24 bp):
TATTTTTGTTTATTTTATATTTTT
Found at i:27601 original size:19 final size:19
Alignment explanation
Indices: 27570--27620 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
27560 CGTTAACTCC
* *
27570 TTTTCCTTT-TTTTACATT
1 TTTTTCTTTGTTTTACACT
* *
27588 TTTTTTTTTGTTTTTCACT
1 TTTTTCTTTGTTTTACACT
27607 TTTTTCTTTGTTTT
1 TTTTTCTTTGTTTT
27621 TAAAATTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.06, C:0.12, G:0.04, T:0.78
Consensus pattern (19 bp):
TTTTTCTTTGTTTTACACT
Found at i:27601 original size:20 final size:20
Alignment explanation
Indices: 27578--27622 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
27568 CCTTTTCCTT
* *
27578 TTTTTACATTTTTTTTTTTG
1 TTTTTACACTTTTTTCTTTG
27598 TTTTT-CACTTTTTTCTTTG
1 TTTTTACACTTTTTTCTTTG
27617 TTTTTA
1 TTTTTA
27623 AAATTTTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTACACTTTTTTCTTTG
Found at i:27629 original size:20 final size:19
Alignment explanation
Indices: 27587--27629 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
27577 TTTTTTACAT
* * *
27587 TTTTTTTTTTGTTTTTCAC
1 TTTTTTCTTTGTTTTTAAA
27606 TTTTTTCTTTGTTTTTAAA
1 TTTTTTCTTTGTTTTTAAA
*
27625 ATTTT
1 TTTTT
27630 CTATAAAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.77
Consensus pattern (19 bp):
TTTTTTCTTTGTTTTTAAA
Done.