Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168150.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_391, 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: 29294
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.41
Found at i:197 original size:19 final size:19
Alignment explanation
Indices: 151--197 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
141 ATAAAAATTA
151 TATAAAGTAATTATATATTT
1 TATAAA-TAATTATATATTT
171 T-TATAATATATTA-ATATTT
1 TATA-AATA-ATTATATATTT
190 TATAAATA
1 TATAAATA
198 CCATATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TATAAATAATTATATATTT
Found at i:310 original size:26 final size:24
Alignment explanation
Indices: 282--349 Score: 86
Period size: 23 Copynumber: 2.8 Consensus size: 24
272 TAAACTATCA
282 AATAATTAATATTACTATTATTAGT
1 AATAATTAAT-TTACTATTATTAGT
307 -A-AATTAATTTACTTATTATTAGT
1 AATAATTAATTTAC-TATTATTAGT
*
330 AATAATCTAATTTAATATTA
1 AATAAT-TAATTTACTATTA
350 ATCATAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
22 4 0.11
23 17 0.45
24 2 0.05
25 8 0.21
26 7 0.18
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (24 bp):
AATAATTAATTTACTATTATTAGT
Found at i:496 original size:20 final size:20
Alignment explanation
Indices: 468--513 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
458 TTTTATAGTT
*
468 AATTGTTAAATAATCTAT-TA
1 AATTATTAAATAAT-TATATA
*
488 AATTATTAAATTATTATATA
1 AATTATTAAATAATTATATA
508 AATTAT
1 AATTAT
514 ATAACATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
AATTATTAAATAATTATATA
Found at i:623 original size:27 final size:29
Alignment explanation
Indices: 570--623 Score: 67
Period size: 27 Copynumber: 1.9 Consensus size: 29
560 TTAATTGTAT
** *
570 ATATTATATTATTATATATCAATTATAGA
1 ATATTATATTATTATATAGAAACTATAGA
599 ATATT-TA-TATTATATAGAAACTATA
1 ATATTATATTATTATATAGAAACTATA
624 ATATTCATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 15 0.68
28 2 0.09
29 5 0.23
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (29 bp):
ATATTATATTATTATATAGAAACTATAGA
Found at i:762 original size:26 final size:25
Alignment explanation
Indices: 726--802 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
716 TATATTACAT
726 AATTATT-ATTAAATTTAATAATAG
1 AATTATTAATTAAATTTAATAATAG
* * *
750 AATATATTAATTAAATTAAATTTATAT
1 AAT-TATTAATTAAATTTAA-TAATAG
*
777 AATTATTAATTATAATGTATATAATA
1 AATTATTAATTA-AATTTA-ATAATA
803 ATACATTTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
24 3 0.07
25 4 0.10
26 19 0.45
27 15 0.36
28 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (25 bp):
AATTATTAATTAAATTTAATAATAG
Found at i:776 original size:22 final size:22
Alignment explanation
Indices: 751--804 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
741 TAATAATAGA
*
751 ATATATTAATTAAATTA-AATTT
1 ATATATTAATT-AATTATAATGT
773 ATATAATT-ATTAATTATAATGT
1 ATAT-ATTAATTAATTATAATGT
*
795 ATATAATAAT
1 ATATATTAAT
805 ACATTTGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 7 0.26
22 17 0.63
23 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATATTAATTAATTATAATGT
Found at i:1206 original size:21 final size:20
Alignment explanation
Indices: 1174--1222 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
1164 AAATTTAATT
*
1174 ATTAGATAAATTATAAATATA
1 ATTA-ATAAATTATAAATACA
*
1195 ATTAATACAATTATTAATACA
1 ATTAATA-AATTATAAATACA
*
1216 ATAAATA
1 ATTAATA
1223 TAATATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (20 bp):
ATTAATAAATTATAAATACA
Found at i:1341 original size:21 final size:20
Alignment explanation
Indices: 1316--1378 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 20
1306 GATATAATAT
1316 TTATAAATATTTATTATTAAA
1 TTATAAATA-TTATTATTAAA
* *
1337 TTATAATTATT-TTAAT-AA
1 TTATAAATATTATTATTAAA
*
1355 TTAT-TATATTATTATTAAA
1 TTATAAATATTATTATTAAA
1374 -TATAA
1 TTATAA
1379 TTTAATTAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 4 0.12
18 13 0.39
19 6 0.18
20 2 0.06
21 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATAAATATTATTATTAAA
Found at i:1368 original size:29 final size:28
Alignment explanation
Indices: 1281--1369 Score: 72
Period size: 29 Copynumber: 2.9 Consensus size: 28
1271 TTAATTTGTC
*
1281 TATTTTAATTAATTAATTATATTCAGATATAA
1 TATTTTAA-TAATT-ATTATATT-A-TTATAA
* *
1313 TATTTATAAATATTTATTAT-TAAATTATAA
1 TATTT-T-AATAATTATTATAT-TATTATAA
1343 TTATTTTAATAATTATTATATTATTAT
1 -TATTTTAATAATTATTATATTATTAT
1370 TAAATATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
29 16 0.34
30 7 0.15
31 7 0.15
32 10 0.21
33 5 0.11
34 2 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (28 bp):
TATTTTAATAATTATTATATTATTATAA
Found at i:1860 original size:21 final size:21
Alignment explanation
Indices: 1834--1903 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
1824 TAATATATTA
1834 AATTATATAAATTATGATACT
1 AATTATATAAATTATGATACT
*
1855 AATTATAT-TATTACCATGGATACT
1 AATTATATAAATT---AT-GATACT
*
1879 AATTA-ACTAAATTATGATAAT
1 AATTATA-TAAATTATGATACT
1900 AATT
1 AATT
1904 TGAAATAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
20 3 0.08
21 17 0.43
22 2 0.05
23 3 0.08
24 12 0.30
25 3 0.08
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (21 bp):
AATTATATAAATTATGATACT
Found at i:3155 original size:18 final size:18
Alignment explanation
Indices: 3132--3175 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3122 AATTAAACTC
*
3132 AATTATATATAATAATTT
1 AATTATATATAATAATAT
*
3150 AATTATACATAATAATAT
1 AATTATATATAATAATAT
*
3168 AATAATAT
1 AATTATAT
3176 TATATTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTATATATAATAATAT
Found at i:5140 original size:18 final size:19
Alignment explanation
Indices: 5095--5145 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
5085 CAAATTATAC
*
5095 TATTTAT-TAATATTAATA
1 TATTTATATAATTTTAATA
*
5113 TAATTA-ATAATTTTAAT-
1 TATTTATATAATTTTAATA
*
5130 TATTTATATAAATTTA
1 TATTTATATAATTTTA
5146 CAGTAACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTTATATAATTTTAATA
Found at i:5438 original size:8 final size:8
Alignment explanation
Indices: 5427--5536 Score: 53
Period size: 7 Copynumber: 14.6 Consensus size: 8
5417 TAATTTTTTA
*
5427 ATAACTAT
1 ATAATTAT
5435 ATAA-TATT
1 ATAATTA-T
*
5443 ATAATTAA
1 ATAATTAT
5451 ATAATTAT
1 ATAATTAT
5459 ATTTAATTAT
1 A--TAATTAT
* *
5469 AATTATTAA
1 -ATAATTAT
**
5478 ATAAAAAT
1 ATAATTAT
5486 -TAATT-T
1 ATAATTAT
5492 ATAATTAT
1 ATAATTAT
5500 A-AATTA-
1 ATAATTAT
5506 ATAATTAT
1 ATAATTAT
5514 -T-A-T-T
1 ATAATTAT
5518 ATAATTA-
1 ATAATTAT
5525 AT-ATTAT
1 ATAATTAT
5532 ATAAT
1 ATAAT
5537 AAATTAGCAT
Statistics
Matches: 77, Mismatches: 10, Indels: 30
0.66 0.09 0.26
Matches are distributed among these distances:
4 1 0.01
5 2 0.03
6 8 0.10
7 26 0.34
8 25 0.32
9 7 0.09
10 7 0.09
11 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (8 bp):
ATAATTAT
Found at i:5454 original size:24 final size:24
Alignment explanation
Indices: 5426--5473 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
5416 TTAATTTTTT
5426 AATAACTATATA-ATATTATAATTA
1 AATAACTATATATA-ATTATAATTA
* *
5450 AATAATTATATTTAATTATAATTA
1 AATAACTATATATAATTATAATTA
5474 TTAAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
AATAACTATATATAATTATAATTA
Found at i:5498 original size:25 final size:25
Alignment explanation
Indices: 5461--5524 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
5451 ATAATTATAT
5461 TTAA-TTATAATTATTAAA-TAAAAA
1 TTAATTTATAATTA-TAAATTAAAAA
*
5485 TTAATTTATAATTATAAATTAATAA
1 TTAATTTATAATTATAAATTAAAAA
*
5510 TTATTATTATAATTA
1 TTAAT-TTATAATTA
5525 ATATTATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 8 0.23
25 18 0.51
26 9 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTAATTTATAATTATAAATTAAAAA
Found at i:5503 original size:18 final size:18
Alignment explanation
Indices: 5433--5542 Score: 77
Period size: 18 Copynumber: 6.0 Consensus size: 18
5423 TTTAATAACT
*
5433 ATATAATATTAT-AATTAA
1 ATATTATATTATAAATT-A
*
5451 ATAATTATATT-TAATTATA
1 AT-ATTATATTATAAAT-TA
* *
5470 ATTATTA-AATAAAAATTA
1 A-TATTATATTATAAATTA
5488 AT-TTATAATTATAAATTA
1 ATATTAT-ATTATAAATTA
5506 ATAATTATTATTAT-AATTA
1 AT-ATTA-TATTATAAATTA
*
5525 ATATTATATAATAAATTA
1 ATATTATATTATAAATTA
5543 GCATCAATAT
Statistics
Matches: 73, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
16 3 0.04
17 6 0.08
18 28 0.38
19 25 0.34
20 10 0.14
21 1 0.01
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATATTATAAATTA
Found at i:5504 original size:7 final size:6
Alignment explanation
Indices: 5440--5657 Score: 64
Period size: 6 Copynumber: 35.7 Consensus size: 6
5430 ACTATATAAT
* *
5440 ATTATA ATTAAATA ATTAT- ATT-TA ATTATA ATTATTAA ATAAAA ATTA-A
1 ATTATA ATT--ATA ATTATA ATTATA ATTATA ATTA-T-A ATTATA ATTATA
* * *
5489 TTTATA ATTATAA ATTAATA ATTATT ATTATA ATTA-A TATTAT- ATAATAA
1 ATTATA ATTAT-A ATT-ATA ATTATA ATTATA ATTATA -ATTATA ATTAT-A
** * * *
5539 ATTAGC ATCA-A TATTAATA AATATA ATGATATA ATTATA TTTATCA A--ATA
1 ATTATA ATTATA -ATT-ATA ATTATA AT--TATA ATTATA ATTAT-A ATTATA
* * * *
5589 ATATATTA AATAT- ATTAATA ATTATT ATAATA ATTAT- -TTATA AAT-TA
1 AT-TA-TA ATTATA ATT-ATA ATTATA ATTATA ATTATA ATTATA ATTATA
* *
5636 ATTATA ATAATA GTTATA ATTA
1 ATTATA ATTATA ATTATA ATTA
5658 GTACCATAAT
Statistics
Matches: 154, Mismatches: 30, Indels: 56
0.64 0.12 0.23
Matches are distributed among these distances:
4 7 0.05
5 23 0.15
6 80 0.52
7 22 0.14
8 22 0.14
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (6 bp):
ATTATA
Found at i:5618 original size:9 final size:10
Alignment explanation
Indices: 5586--5625 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
5576 TATTTATCAA
5586 ATAATATATT
1 ATAATATATT
5596 A-AATATATT
1 ATAATATATT
5605 AATAAT-TATT
1 -ATAATATATT
5615 ATAATA-ATT
1 ATAATATATT
5624 AT
1 AT
5626 TTATAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 18 0.67
10 6 0.22
11 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAATATATT
Found at i:5639 original size:24 final size:24
Alignment explanation
Indices: 5461--5654 Score: 73
Period size: 24 Copynumber: 8.0 Consensus size: 24
5451 ATAATTATAT
* ** *
5461 TTAATTATAATTATTAAATAAAAA
1 TTAATTATAATAATTATTTATAAA
* * *
5485 TTAATTTATAATTATAAATTA-ATAA
1 TTAA-TTATAATAATTATTTATA-AA
*
5510 TT-ATTATTATAATTAATATTATATAA
1 TTAATTATAATAATT-AT-TTATA-AA
* ** *
5536 TAAATTAGCATCAA-TATTAATAAA
1 TTAATTATAAT-AATTATTTATAAA
*
5560 TATAATGAT-ATAATTATATTTATCAAA
1 T-TAATTATAATAA-T-TATTTAT-AAA
* *
5587 -TAA-TATATTAAATATATTA-ATAA
1 TTAATTATAATAATTAT-TTATA-AA
5610 TT-ATTATAATAATTATTTATAAA
1 TTAATTATAATAATTATTTATAAA
*
5633 TTAATTATAATAA-TAGTTATAA
1 TTAATTATAATAATTATTTATAA
5655 TTAGTACCAT
Statistics
Matches: 131, Mismatches: 20, Indels: 39
0.69 0.11 0.21
Matches are distributed among these distances:
22 1 0.01
23 31 0.24
24 39 0.30
25 35 0.27
26 13 0.10
27 10 0.08
28 2 0.02
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAATTATAATAATTATTTATAAA
Found at i:5742 original size:3 final size:3
Alignment explanation
Indices: 5734--5823 Score: 101
Period size: 3 Copynumber: 29.7 Consensus size: 3
5724 CTTGGATAAA
*
5734 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * *
5781 ATT ATT ATT TTT AAAG ATT ATA ATT ATT ATT AATT AAT ATT AT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT -ATT ATT ATT AT
5824 AATATTTATT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.03
3 67 0.93
4 3 0.04
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:5858 original size:4 final size:4
Alignment explanation
Indices: 5849--5892 Score: 52
Period size: 4 Copynumber: 10.0 Consensus size: 4
5839 TTATAATAAT
5849 ATTA ATTA ATTA ATTA ACTTAA ATTA ATTAA ATATA ATTA ATTA
1 ATTA ATTA ATTA ATTA A-TT-A ATTA ATT-A AT-TA ATTA ATTA
5893 TTATTCAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 23 0.64
5 10 0.28
6 3 0.08
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (4 bp):
ATTA
Found at i:5873 original size:14 final size:14
Alignment explanation
Indices: 5855--5892 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
5845 TAATATTAAT
*
5855 TAATTAATTAACT-
1 TAATTAATTAAATA
5868 TAAATTAATTAAATA
1 T-AATTAATTAAATA
5883 TAATTAATTA
1 TAATTAATTA
5893 TTATTCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATTAATTAAATA
Found at i:5902 original size:21 final size:21
Alignment explanation
Indices: 5878--5958 Score: 64
Period size: 21 Copynumber: 3.9 Consensus size: 21
5868 TAAATTAATT
5878 AAATATAATTAATTATTATTC
1 AAATATAATTAATTATTATTC
*
5899 AAATA-ATATTAATTA-TATGC
1 AAATATA-ATTAATTATTATTC
*
5919 TAAATTATAATTAATATTTTATT-
1 -AAA-TATAATTAAT-TATTATTC
*
5942 -AATATATTTAA-TATTAT
1 AAATATAATTAATTATTAT
5959 ATTATAATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
18 5 0.10
20 13 0.27
21 18 0.37
22 8 0.16
23 2 0.04
24 3 0.06
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (21 bp):
AAATATAATTAATTATTATTC
Found at i:5944 original size:11 final size:12
Alignment explanation
Indices: 5928--5994 Score: 50
Period size: 13 Copynumber: 5.6 Consensus size: 12
5918 CTAAATTATA
5928 ATTAATAT-TTT
1 ATTAATATATTT
5939 ATTAATATATTT
1 ATTAATATATTT
* *
5951 AATATTATA-TT
1 ATTAATATATTT
*
5962 A-TAATTATAATAT
1 ATTAA-TAT-ATTT
*
5975 ATTAATATAATTA
1 ATTAATAT-ATTT
5988 ATTAATA
1 ATTAATA
5995 AAAGGTTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
10 2 0.04
11 14 0.31
12 11 0.24
13 15 0.33
14 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTAATATATTT
Found at i:5945 original size:39 final size:35
Alignment explanation
Indices: 5902--5992 Score: 94
Period size: 36 Copynumber: 2.5 Consensus size: 35
5892 ATTATTCAAA
* *
5902 TAATATTAATTATATGCTAAATTATAATTAATATTTTAT
1 TAATA-TAATTATAT--TAAATTATAATT-ATAATATAT
* *
5941 TAATATATTTAATATTATATTATAATTATAATATAT
1 TAATATAATT-ATATTAAATTATAATTATAATATAT
5977 TAATATAATTA-ATTAA
1 TAATATAATTATATTAA
5993 TAAAAGGTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
34 4 0.09
35 1 0.02
36 16 0.36
37 11 0.24
38 4 0.09
39 9 0.20
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (35 bp):
TAATATAATTATATTAAATTATAATTATAATATAT
Found at i:5974 original size:19 final size:18
Alignment explanation
Indices: 5922--5974 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
5912 TATATGCTAA
*
5922 ATTATAA-TTAATATTTT
1 ATTATAATTTAATATTAT
5939 ATTAATATATTTAATATTAT
1 ATT-ATA-ATTTAATATTAT
5959 ATTATAATTATAATAT
1 ATTATAATT-TAATAT
5975 ATTAATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 3 0.10
18 6 0.19
19 10 0.32
20 12 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTATAATTTAATATTAT
Found at i:5983 original size:19 final size:19
Alignment explanation
Indices: 5924--5987 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
5914 TATGCTAAAT
* *
5924 TATAATTAATATTTTATTAA
1 TATAATT-ATAATATATTAA
*
5944 TAT-ATT-TAATAT-TATAT
1 TATAATTATAATATAT-TAA
5961 TATAATTATAATATATTAA
1 TATAATTATAATATATTAA
5980 TATAATTA
1 TATAATTA
5988 ATTAATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
16 1 0.03
17 9 0.25
18 3 0.08
19 19 0.53
20 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATAATTATAATATATTAA
Found at i:6159 original size:16 final size:17
Alignment explanation
Indices: 6131--6164 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6121 TTAAAAATTA
6131 ATAATATATTAATGATT
1 ATAATATATTAATGATT
*
6148 ATAATA-ATTAATTATT
1 ATAATATATTAATGATT
6164 A
1 A
6165 CTATTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATAATATATTAATGATT
Found at i:6250 original size:24 final size:24
Alignment explanation
Indices: 6223--6271 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
6213 ATGAACTAAG
6223 ATAATTGTAATAAT-TATTA-TTATA
1 ATAATT-T-ATAATATATTATTTATA
6247 ATAATTTATAATATATTATTTATA
1 ATAATTTATAATATATTATTTATA
6271 A
1 A
6272 CACATTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
23 6 0.26
24 12 0.52
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
ATAATTTATAATATATTATTTATA
Found at i:6528 original size:19 final size:18
Alignment explanation
Indices: 6501--6556 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 18
6491 TATTTATTTC
*
6501 AAATCATTAAAATAATAAT
1 AAATAATTAAAATAA-AAT
6520 AAATAATTAAAAT-AAAT
1 AAATAATTAAAATAAAAT
6537 ATAATAATTATAAATAAAAT
1 A-AATAATTA-AAATAAAAT
6557 TATCATTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 4 0.12
18 9 0.27
19 16 0.48
20 4 0.12
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAATTAAAATAAAAT
Found at i:6532 original size:9 final size:9
Alignment explanation
Indices: 6501--6553 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
6491 TATTTATTTC
*
6501 AAATCATTA
1 AAATAATTA
*
6510 AAATAATAA
1 AAATAATTA
6519 TAAATAATTA
1 -AAATAATTA
*
6529 AAATAAATA
1 AAATAATTA
*
6538 TAATAATTA
1 AAATAATTA
6547 TAAATAA
1 -AAATAA
6554 AATTATCATT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
9 22 0.63
10 13 0.37
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
AAATAATTA
Found at i:7217 original size:15 final size:16
Alignment explanation
Indices: 7199--7238 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
7189 AAAATCATTT
7199 TAATTAATTA-ATAAA
1 TAATTAATTATATAAA
7214 TAATT-ATTATATAAA
1 TAATTAATTATATAAA
7229 TAA-TAATTAT
1 TAATTAATTAT
7239 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTAATTATATAAA
Found at i:7268 original size:24 final size:24
Alignment explanation
Indices: 7213--7282 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
7203 TAATTAATAA
7213 ATAATTATTATATAAATAATAATT
1 ATAATTATTATATAAATAATAATT
* * *
7237 ATTATTATTATTTAAAT-ATATTT
1 ATAATTATTATATAAATAATAATT
*
7260 ATAA--CTTATAT-AAT-ATAATT
1 ATAATTATTATATAAATAATAATT
7280 ATA
1 ATA
7283 TTGTAATATT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 11 0.28
21 5 0.13
23 8 0.21
24 15 0.38
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (24 bp):
ATAATTATTATATAAATAATAATT
Found at i:7469 original size:25 final size:23
Alignment explanation
Indices: 7423--7523 Score: 60
Period size: 24 Copynumber: 4.0 Consensus size: 23
7413 AATTAATTAT
*
7423 ATTAATTTTTATTAATATAATAGA
1 ATTATTTTTTATTAATATAATA-A
7447 ATTATTTTTATATTAAATAAATAAATAA
1 ATTATTTTT-TATT-AAT--AT-AATAA
* *
7475 TTTAGTTTATTTATTAAAATAATAA
1 ATTA-TTT-TTTATTAATATAATAA
* *
7500 GAGTTA-TTATTAATAATATAATAA
1 -A-TTATTTTTTATTAATATAATAA
7524 TTGAAATAGT
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
24 21 0.34
25 11 0.18
26 5 0.08
27 3 0.05
28 8 0.13
29 11 0.18
30 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
ATTATTTTTTATTAATATAATAA
Found at i:8012 original size:6 final size:6
Alignment explanation
Indices: 7996--8044 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
7986 TATAAAATTT
* *
7996 TTAATA TTAAAA AT-AAA TTAATAA TTAAAA TTAAAA TTAAAA TTAAAA
1 TTAAAA TTAAAA TTAAAA TTAA-AA TTAAAA TTAAAA TTAAAA TTAAAA
8044 T
1 T
8045 CCTTATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 4 0.11
6 28 0.74
7 6 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
TTAAAA
Found at i:8242 original size:19 final size:20
Alignment explanation
Indices: 8206--8247 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
8196 AATATAAAAT
* *
8206 TATTATAATATTAGTAATAA
1 TATTATAATACTAATAATAA
8226 TATT-TAATACTAATAATAA
1 TATTATAATACTAATAATAA
8245 TAT
1 TAT
8248 CATTATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TATTATAATACTAATAATAA
Found at i:8333 original size:12 final size:12
Alignment explanation
Indices: 8313--8355 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
8303 TAGTATTATT
8313 ATAATTTTTAAA
1 ATAATTTTTAAA
* *
8325 ATTATTTTTAAT
1 ATAATTTTTAAA
*
8337 ATAATATTTAAAA
1 ATAAT-TTTTAAA
8350 ATAATT
1 ATAATT
8356 AGAAATAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
ATAATTTTTAAA
Found at i:8387 original size:23 final size:23
Alignment explanation
Indices: 8306--8388 Score: 73
Period size: 23 Copynumber: 3.7 Consensus size: 23
8296 CTACTATTAG
* *
8306 TATTATT-A-TAATTTTTAAAAT
1 TATTATTAATTAATATTTAAAAA
*
8327 TATTTTTAATATAATATTTAAAAA
1 TATTATTAAT-TAATATTTAAAAA
* * *
8351 TAATTA-GAAATAATATTAAAAAA
1 T-ATTATTAATTAATATTTAAAAA
8374 TATTATTAATTAATA
1 TATTATTAATTAATA
8389 ATAATTAATT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
21 6 0.12
22 5 0.10
23 20 0.42
24 14 0.29
25 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (23 bp):
TATTATTAATTAATATTTAAAAA
Found at i:8525 original size:14 final size:13
Alignment explanation
Indices: 8496--8611 Score: 56
Period size: 11 Copynumber: 9.6 Consensus size: 13
8486 TTAATACTCC
8496 TAATTAATTATAA
1 TAATTAATTATAA
*
8509 TAATTAGTTACTAA
1 TAATTAATTA-TAA
8523 TAATT-ATTA-AA
1 TAATTAATTATAA
* *
8534 TTATTTA-TA-AA
1 TAATTAATTATAA
* *
8545 TTATTAATTTATTA
1 TAATTAA-TTATAA
* *
8559 TATTTAA-TATAT
1 TAATTAATTATAA
*
8571 TAA-TAA-AAT-A
1 TAATTAATTATAA
8581 TAATT-A-TATAA
1 TAATTAATTATAA
*
8592 TATTTAATTAT-A
1 TAATTAATTATAA
8604 TAATTAAT
1 TAATTAAT
8612 AAATTATTTA
Statistics
Matches: 79, Mismatches: 15, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
10 6 0.08
11 27 0.34
12 15 0.19
13 17 0.22
14 14 0.18
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (13 bp):
TAATTAATTATAA
Found at i:8577 original size:33 final size:34
Alignment explanation
Indices: 8522--8630 Score: 98
Period size: 33 Copynumber: 3.1 Consensus size: 34
8512 TTAGTTACTA
* *
8522 ATAATTATTAAAT-TATTTATAAATTATTAATT-T
1 ATAA-TATTTAATATATTAATAAATTATTAATTAT
* *
8555 ATTATATTTAATATATTAATAAAATA-TAATTAT
1 ATAATATTTAATATATTAATAAATTATTAATTAT
*
8588 ATAATATTTAATTATATAATTAATAAATTATTTATTAT
1 ATAATATTT-A--ATAT-ATTAATAAATTATTAATTAT
8626 GATAA
1 -ATAA
8631 AGTAATTGAT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
32 12 0.20
33 23 0.38
34 1 0.02
36 4 0.07
37 11 0.18
38 6 0.10
39 4 0.07
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (34 bp):
ATAATATTTAATATATTAATAAATTATTAATTAT
Found at i:8589 original size:8 final size:8
Alignment explanation
Indices: 8578--8618 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
8568 TATTAATAAA
8578 ATATAATT
1 ATATAATT
8586 ATATAA-T
1 ATATAATT
*
8593 ATTTAATT
1 ATATAATT
8601 ATATAATT
1 ATATAATT
8609 A-ATAAATT
1 ATAT-AATT
8617 AT
1 AT
8619 TTATTATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
7 8 0.29
8 20 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
ATATAATT
Found at i:8599 original size:15 final size:15
Alignment explanation
Indices: 8548--8607 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
8538 TTATAAATTA
*
8548 TTAATT-TATTATAT
1 TTAATTATATAATAT
*
8562 TTAATATATTAATAAAAT
1 TTAAT-TA-T-ATAATAT
*
8580 ATAATTATATAATAT
1 TTAATTATATAATAT
8595 TTAATTATATAAT
1 TTAATTATATAAT
8608 TAATAAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 5 0.14
15 19 0.51
16 1 0.03
17 3 0.08
18 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAATTATATAATAT
Found at i:8608 original size:23 final size:23
Alignment explanation
Indices: 8578--8630 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
8568 TATTAATAAA
8578 ATATAATT-ATATAA-TATTTAATT
1 ATATAATTAATA-AATTATTT-ATT
8601 ATATAATTAATAAATTATTTATT
1 ATATAATTAATAAATTATTTATT
8624 ATGATAA
1 AT-ATAA
8631 AGTAATTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATATAATTAATAAATTATTTATT
Found at i:8690 original size:17 final size:18
Alignment explanation
Indices: 8668--8710 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
8658 TATTAGTTAA
8668 TATAATA-AAATAATAA-T
1 TATAATATAAAT-ATAACT
8685 TATAATATAAATATAACT
1 TATAATATAAATATAACT
8703 TATTAATA
1 TA-TAATA
8711 GTAAGATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 11 0.48
18 7 0.30
19 5 0.22
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TATAATATAAATATAACT
Found at i:8923 original size:23 final size:21
Alignment explanation
Indices: 8872--8925 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
8862 TGATAAGAAT
*
8872 TAATTATATTAATCAATAGTTA
1 TAATTATA-TAATCAATAATTA
*
8894 -AAATATATAATCAATTATATTA
1 TAATTATATAATCAA-TA-ATTA
8916 TAATTATATA
1 TAATTATATA
8926 TTGTTATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 7 0.27
21 8 0.31
22 3 0.12
23 8 0.31
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
TAATTATATAATCAATAATTA
Found at i:9062 original size:15 final size:15
Alignment explanation
Indices: 9042--9074 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
9032 ATAACTATTT
9042 TATGTTA-TAAATAAA
1 TATGTTAGT-AATAAA
9057 TATGTTAGTAATAAA
1 TATGTTAGTAATAAA
9072 TAT
1 TAT
9075 TAATTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (15 bp):
TATGTTAGTAATAAA
Found at i:9164 original size:35 final size:33
Alignment explanation
Indices: 9100--9168 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 33
9090 AATATTATTA
* *
9100 ATTTATTATTACTATTAAATAAGTTAATTAATT
1 ATTTATTATTAATATTAAACAAGTTAATTAATT
9133 ATTT-TTATTAATATTAATACAAGTTCAAATTAATT
1 ATTTATTATTAATATTAA-ACAAGTT--AATTAATT
9168 A
1 A
9169 AATACAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 12 0.39
33 10 0.32
35 9 0.29
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (33 bp):
ATTTATTATTAATATTAAACAAGTTAATTAATT
Found at i:9490 original size:6 final size:6
Alignment explanation
Indices: 9473--9502 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
9463 TCCTATTATC
*
9473 TAAAAA TGAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
9503 AATAAAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:9742 original size:11 final size:11
Alignment explanation
Indices: 9716--9756 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
9706 CATCCCAACA
*
9716 CATTTATTTCTT
1 CATTT-TTTTTT
9728 CATTTTTTTTT
1 CATTTTTTTTT
9739 CA--TTTTTTT
1 CATTTTTTTTT
9748 CATTTTTTT
1 CATTTTTTT
9757 ATTTTTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
9 9 0.35
11 12 0.46
12 5 0.19
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (11 bp):
CATTTTTTTTT
Found at i:9746 original size:9 final size:9
Alignment explanation
Indices: 9732--9763 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
9722 TTTCTTCATT
9732 TTTTTTTCA
1 TTTTTTTCA
9741 TTTTTTTCA
1 TTTTTTTCA
9750 TTTTTTT-A
1 TTTTTTTCA
9758 TTTTTT
1 TTTTTT
9764 GTTTTTCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:10076 original size:43 final size:43
Alignment explanation
Indices: 10028--10168 Score: 160
Period size: 43 Copynumber: 3.2 Consensus size: 43
10018 CATTTAAAAT
10028 TTCTCATTTTAATTTTGGAGATTCACATCCAAAAGTTCAAAGC
1 TTCTCATTTTAATTTTGGAGATTCACATCCAAAAGTTCAAAGC
* * *
10071 TTCTCATTCAAGTTAAATTTGG-GGTTCACATCCAAAAAGTT-TAAGC
1 TTCTCATT----TTAATTTTGGAGATTCACATCC-AAAAGTTCAAAGC
* * *
10117 TTTTTCATTTGAATTTTGGAAATTCACATCCAAAAGTTCAAAGC
1 -TTCTCATTTTAATTTTGGAGATTCACATCCAAAAGTTCAAAGC
10161 TTCTCATT
1 TTCTCATT
10169 CAAGTTTGAA
Statistics
Matches: 80, Mismatches: 10, Indels: 16
0.75 0.09 0.15
Matches are distributed among these distances:
43 30 0.38
44 13 0.16
46 14 0.17
47 23 0.29
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (43 bp):
TTCTCATTTTAATTTTGGAGATTCACATCCAAAAGTTCAAAGC
Found at i:10263 original size:46 final size:46
Alignment explanation
Indices: 10212--10299 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
10202 GGTTTCACAT
*
10212 CTCAAAAATTCTCATTTGAGGA-TTTCTTAAAGATTTTCATTTAAAA
1 CTCAAAAATTCTCATTTGAGGATTTTCTTAAA-ATTCTCATTTAAAA
* *
10258 CTCAAAGATTCTCATTTGAGGATTTTTTTAAAATTCTCATTT
1 CTCAAAAATTCTCATTTGAGGATTTTCTTAAAATTCTCATTT
10300 GAATATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
46 30 0.79
47 8 0.21
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (46 bp):
CTCAAAAATTCTCATTTGAGGATTTTCTTAAAATTCTCATTTAAAA
Found at i:10332 original size:71 final size:70
Alignment explanation
Indices: 10216--10391 Score: 216
Period size: 71 Copynumber: 2.5 Consensus size: 70
10206 TCACATCTCA
* * *
10216 AAAATTCTCATTTGAGGATTTCTTAAAGATTTTCATTTAAAACTCAAAGATTCTCATTTGAGGAT
1 AAAATTCTCATTTGAAGATTTCTTAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAGA-
10281 TTTTTT
65 TTTTTT
* * * * *
10287 AAAATTCTCATTTGAATATTTTTTTAAGATTCTCATTTAAGACTCAAAGATTCTTATTTGAAGAT
1 AAAATTCTCATTTGAAGATTTCTTAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAGAT
10352 TTTTT
66 TTTTT
* *
10357 AAAGATTTTCATTT-AAGA---CTTAAAGATTATCATTT
1 AAA-ATTCTCATTTGAAGATTTCTTAAAGATTCTCATTT
10392 GAGGGTCACA
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
67 14 0.15
70 12 0.13
71 65 0.71
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (70 bp):
AAAATTCTCATTTGAAGATTTCTTAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAGAT
TTTTT
Found at i:10338 original size:21 final size:21
Alignment explanation
Indices: 10312--10391 Score: 79
Period size: 21 Copynumber: 3.6 Consensus size: 21
10302 ATATTTTTTT
*
10312 AAGATTCTCATTTAAGACTCA
1 AAGATTCTCATTTAAGACTTA
* *
10333 AAGATTCTTATTTGAAGATTTTTTA
1 AAGATTCTCATTT-AAGA---CTTA
*
10358 AAGATTTTCATTTAAGACTTA
1 AAGATTCTCATTTAAGACTTA
*
10379 AAGATTATCATTT
1 AAGATTCTCATTT
10392 GAGGGTCACA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
21 27 0.56
22 4 0.08
24 4 0.08
25 13 0.27
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
AAGATTCTCATTTAAGACTTA
Found at i:10354 original size:46 final size:46
Alignment explanation
Indices: 10290--10393 Score: 154
Period size: 46 Copynumber: 2.3 Consensus size: 46
10280 TTTTTTTAAA
* *
10290 ATTCTCATTTGAATATTTTTTTAAGATTCTCATTTAAGACTCAAAG
1 ATTCTCATTTGAAGATTTTTTAAAGATTCTCATTTAAGACTCAAAG
* * *
10336 ATTCTTATTTGAAGATTTTTTAAAGATTTTCATTTAAGACTTAAAG
1 ATTCTCATTTGAAGATTTTTTAAAGATTCTCATTTAAGACTCAAAG
*
10382 ATTATCATTTGA
1 ATTCTCATTTGA
10394 GGGTCACAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.47
Consensus pattern (46 bp):
ATTCTCATTTGAAGATTTTTTAAAGATTCTCATTTAAGACTCAAAG
Found at i:10360 original size:25 final size:25
Alignment explanation
Indices: 10219--10374 Score: 116
Period size: 25 Copynumber: 6.6 Consensus size: 25
10209 CATCTCAAAA
* *
10219 ATTCTCATTTGAGGATTTCTTAAAG
1 ATTCTCATTTGAAGATTTTTTAAAG
* ** *
10244 ATTTTCATTT-AA-A--ACTCAAAG
1 ATTCTCATTTGAAGATTTTTTAAAG
*
10265 ATTCTCATTTGAGGATTTTTTTAAA-
1 ATTCTCATTTGAAGA-TTTTTTAAAG
* *
10290 ATTCTCATTTGAATATTTTTTTAAG
1 ATTCTCATTTGAAGATTTTTTAAAG
* *
10315 ATTCTCATTT-AAGA---CTCAAAG
1 ATTCTCATTTGAAGATTTTTTAAAG
*
10336 ATTCTTATTTGAAGATTTTTTAAAG
1 ATTCTCATTTGAAGATTTTTTAAAG
*
10361 ATTTTCATTT-AAGA
1 ATTCTCATTTGAAGA
10375 CTTAAAGATT
Statistics
Matches: 100, Mismatches: 21, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
21 28 0.28
22 5 0.05
23 2 0.02
24 16 0.16
25 45 0.45
26 4 0.04
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (25 bp):
ATTCTCATTTGAAGATTTTTTAAAG
Found at i:10881 original size:63 final size:62
Alignment explanation
Indices: 10791--11351 Score: 263
Period size: 63 Copynumber: 8.9 Consensus size: 62
10781 CCTTATCATT
* * * * * * **
10791 TTCATCACTTGATCATCATTCACAGGCTTTTCAACATTAGCAAGTTCAGAACAAGTTTTGTCC
1 TTCATCATTTGGTCACCACTCACAGGCTTTT-AACACTAGCAAGTTCAGAACAAATTTCATCC
* * * * * *
10854 TTCATCATTTGGTCACCGCTCACAGGCTTCGTAGCACTAGCTATTTCAGAACAAATTTCATCT
1 TTCATCATTTGGTCACCACTCACAGGCTT-TTAACACTAGCAAGTTCAGAACAAATTTCATCC
* * * * *
10917 TTCATCATTTGGTCACCACTCACAGGCTTTTTAGCACTAAC-CGTTTCAAAACAAATTTTAT-C
1 TTCATCATTTGGTCACCACTCACAGGC-TTTTAACACTAGCAAG-TTCAGAACAAATTTCATCC
* * * * * *
10979 TTCTATCACTTGGTCACCACTCATAAGCTTCTTAGCACTAGCCA-TTCCAAAACAAA-TTCTAT-
1 TTC-ATCATTTGGTCACCACTCACAGGCTT-TTAACACTAGCAAGTT-CAGAACAAATTTC-ATC
*
11041 T
62 C
* * * * * *
11042 TTCTATCACTTGATCACCACTCATAGGCTTCTTAGCACTAGCCA-TTCTAAAACAAATTTCATCC
1 TTC-ATCATTTGGTCACCACTCACAGGCTT-TTAACACTAGCAAGTTC-AGAACAAATTTCATCC
* * * * * *
11106 TTCATCATTTGGTCACCACTCATAGGCTTTTTAGCATTAGTAATTTCA-AACAAA-TT-ATTTC
1 TTCATCATTTGGTCACCACTCACAGGC-TTTTAACACTAGCAAGTTCAGAACAAATTTCA-TCC
* * * * * * * * *
11167 TTCCATCACTTGGT-ACCACTCATAGGCTTCTCAGCACTAGCCATTTTAGAATAAA-TTCTATCT
1 TT-CATCATTTGGTCACCACTCACAGGCTT-TTAACACTAGCAAGTTCAGAACAAATTTC-ATCC
* * * * * * * *
11230 TTTATCACTTAGTCACCACTCATAGGCTTCTCAGCACTAGCCA-TTCCAGAACAAATTCTGTAT-
1 TTCATCATTTGGTCACCACTCACAGGCTT-TTAACACTAGCAAGTT-CAGAACAAATT-T-CATC
11293 -
62 C
* * * * *
11293 TTTATCACTTGGTCACTACTCATAGGCTTCTTAGCACTAGTC-A-TTCCAGAACAAATTTC
1 TTCATCATTTGGTCACCACTCACAGGCTT-TTAACACTAG-CAAGTT-CAGAACAAATTTC
11352 GTCCATTAAC
Statistics
Matches: 417, Mismatches: 56, Indels: 52
0.79 0.11 0.10
Matches are distributed among these distances:
60 3 0.01
61 32 0.08
62 45 0.11
63 317 0.76
64 17 0.04
65 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (62 bp):
TTCATCATTTGGTCACCACTCACAGGCTTTTAACACTAGCAAGTTCAGAACAAATTTCATCC
Found at i:11015 original size:126 final size:125
Alignment explanation
Indices: 10783--11350 Score: 533
Period size: 126 Copynumber: 4.5 Consensus size: 125
10773 CAACTGATCC
* * * * * * ** * *
10783 TTATCATTTTCATCACTTGATCATCATTCACAGGCTT-TTCAACATTAGCAAGTTCAGAACAAGT
1 TTATCATTTTCATCACTTGGTCACCACTCATAGGCTTCTT-AGCACTAGC-CTTTCAAAACAAAT
* * * * * * *
10847 TTTGTCCTTCATCATTTGGTCACCGCTCACAGGCTTCGTAGCACTAGCTATTTCAGAACAAA
64 TTTATCCTTCATCACTTGGTCACCACTCATAGGCTTCTTAGCACTAGCCATTCCAGAACAAA
* * * *
10909 TT-TCATCTTTCATCATTTGGTCACCACTCACAGGCTTTTTAGCACTAACCGTTTCAAAACAAAT
1 TTATCAT-TTTCATCACTTGGTCACCACTCATAGGCTTCTTAGCACTAGCC-TTTCAAAACAAAT
* *
10973 TTTAT-CTTCTATCACTTGGTCACCACTCATAAGCTTCTTAGCACTAGCCATTCCAAAACAAA
64 TTTATCCTTC-ATCACTTGGTCACCACTCATAGGCTTCTTAGCACTAGCCATTCCAGAACAAA
* * *
11035 TTCT-ATTTTCTATCACTTGATCACCACTCATAGGCTTCTTAGCACTAGCCATTCTAAAACAAAT
1 TTATCATTTTC-ATCACTTGGTCACCACTCATAGGCTTCTTAGCACTAGCCTTTC-AAAACAAAT
* * * * ** *
11099 TTCATCCTTCATCATTTGGTCACCACTCATAGGCTTTTTAGCATTAGTAATTTCA-AACAAA
64 TTTATCCTTCATCACTTGGTCACCACTCATAGGCTTCTTAGCACTAGCCATTCCAGAACAAA
* * * *
11160 TTAT--TTCTTCCATCACTTGGT-ACCACTCATAGGCTTCTCAGCACTAGCCATTTTAGAATAAA
1 TTATCATT-TT-CATCACTTGGTCACCACTCATAGGCTTCTTAGCACTAGCC-TTTCAAAACAAA
* * * * *
11222 TTCTATCTTTTATCACTTAGTCACCACTCATAGGCTTCTCAGCACTAGCCATTCCAGAACAAA
63 TTTTATCCTTCATCACTTGGTCACCACTCATAGGCTTCTTAGCACTAGCCATTCCAGAACAAA
* * * * * *
11285 TTCTGTATTTT-ATCACTTGGTCACTACTCATAGGCTTCTTAGCACTAGTCATTCCAGAACAAAT
1 TTAT-CATTTTCATCACTTGGTCACCACTCATAGGCTTCTTAGCACTAG-CCTTTCAAAACAAAT
11349 TT
64 TT
11351 CGTCCATTAA
Statistics
Matches: 364, Mismatches: 61, Indels: 34
0.79 0.13 0.07
Matches are distributed among these distances:
124 79 0.22
125 56 0.15
126 217 0.60
127 10 0.03
128 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (125 bp):
TTATCATTTTCATCACTTGGTCACCACTCATAGGCTTCTTAGCACTAGCCTTTCAAAACAAATTT
TATCCTTCATCACTTGGTCACCACTCATAGGCTTCTTAGCACTAGCCATTCCAGAACAAA
Found at i:11249 original size:250 final size:252
Alignment explanation
Indices: 10851--11351 Score: 688
Period size: 250 Copynumber: 2.0 Consensus size: 252
10841 ACAAGTTTTG
*
10851 TCCTTCATCATTTGGTCACCGCTCACAGGCTTCGTAGCACTAGCTATTTCAGAACAAATTTCATC
1 TCCTTCATCATTTGGTCACCACTCACAGGCTTCGTAGCACTAGCTATTTCAGAACAAATTTCATC
* * * * * *
10916 TTTCATCATTTGGTCACCACTCACAGGCTTTTTAGCACTAACCGTTTCAAAACAAATTTTATCTT
66 TTCCATCACTTGGTCACCACTCACAGGCTTCTCAGCACTAACCATTTCAAAACAAATTCTATCTT
* *
10981 CTATCACTTGGTCACCACTCATAAGCTTCTTAGCACTAGCCATTCCAAAACAAATTCTAT-TTTC
131 CTATCACTTAGTCACCACTCATAAGCTTCTCAGCACTAGCCATTCCAAAACAAATTCTATATTT-
*
11045 TATCACTTGATCACCACTCATAGGCTTCTTAGCACTAGCCATTCTAAAACAAATTTCA
195 TATCACTTGATCACCACTCATAGGCTTCTTAGCACTAGCCATTCCAAAACAAATTTCA
* ** * *
11103 TCCTTCATCATTTGGTCACCACTCATAGGCTTTTTAGCATTAG-TAATTTCA-AACAAATTAT-T
1 TCCTTCATCATTTGGTCACCACTCACAGGCTTCGTAGCACTAGCT-ATTTCAGAACAAATT-TCA
* * * * *
11165 TCTTCCATCACTTGGT-ACCACTCATAGGCTTCTCAGCACTAGCCATTTTAGAATAAATTCTATC
64 TCTTCCATCACTTGGTCACCACTCACAGGCTTCTCAGCACTAACCATTTCAAAACAAATTCTATC
* * * *
11229 TTTTATCACTTAGTCACCACTCATAGGCTTCTCAGCACTAGCCATTCCAGAACAAATTCTGTATT
129 TTCTATCACTTAGTCACCACTCATAAGCTTCTCAGCACTAGCCATTCCAAAACAAATTCTATATT
* * * *
11294 TTATCACTTGGTCACTACTCATAGGCTTCTTAGCACTAGTCATTCCAGAACAAATTTC
194 TTATCACTTGATCACCACTCATAGGCTTCTTAGCACTAGCCATTCCAAAACAAATTTC
11352 GTCCATTAAC
Statistics
Matches: 218, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
250 147 0.67
251 26 0.12
252 45 0.21
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (252 bp):
TCCTTCATCATTTGGTCACCACTCACAGGCTTCGTAGCACTAGCTATTTCAGAACAAATTTCATC
TTCCATCACTTGGTCACCACTCACAGGCTTCTCAGCACTAACCATTTCAAAACAAATTCTATCTT
CTATCACTTAGTCACCACTCATAAGCTTCTCAGCACTAGCCATTCCAAAACAAATTCTATATTTT
ATCACTTGATCACCACTCATAGGCTTCTTAGCACTAGCCATTCCAAAACAAATTTCA
Found at i:12543 original size:16 final size:17
Alignment explanation
Indices: 12522--12567 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
12512 CTTTCCTCCA
12522 TTTCTTTC-ATTTTTCT
1 TTTCTTTCTATTTTTCT
*
12538 TTTCTTTCTTTTTTTCTT
1 TTTCTTTCTATTTTTC-T
12556 TTTGCTTTCTAT
1 TTT-CTTTCTAT
12568 CTCTAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 4 0.16
19 7 0.28
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTCTTTCTATTTTTCT
Found at i:12565 original size:19 final size:17
Alignment explanation
Indices: 12522--12557 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
12512 CTTTCCTCCA
*
12522 TTTCTTTC-ATTTTTCT
1 TTTCTTTCTTTTTTTCT
12538 TTTCTTTCTTTTTTTCT
1 TTTCTTTCTTTTTTTCT
12555 TTT
1 TTT
12558 TGCTTTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTCTTTCTTTTTTTCT
Found at i:15628 original size:6 final size:6
Alignment explanation
Indices: 15619--15671 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
15609 TGGGCTTCAT
* * * *
15619 TTTTTA -TTTTA TTTTTA TTCTTA TTTTTA TTTTGA TTTTTC TTTTCA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
15666 TTTTTA
1 TTTTTA
15672 GATAATAGGA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:15634 original size:12 final size:11
Alignment explanation
Indices: 15619--15671 Score: 70
Period size: 12 Copynumber: 4.5 Consensus size: 11
15609 TGGGCTTCAT
15619 TTTTTATTTTA
1 TTTTTATTTTA
15630 TTTTTATTCTTA
1 TTTTTATT-TTA
15642 TTTTTATTTTGA
1 TTTTTATTTT-A
*
15654 TTTTTCTTTTCA
1 TTTTTATTTT-A
15666 TTTTTA
1 TTTTTA
15672 GATAATAGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.27
12 27 0.73
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:16718 original size:63 final size:63
Alignment explanation
Indices: 16411--16825 Score: 412
Period size: 63 Copynumber: 6.6 Consensus size: 63
16401 TCTAGAATAA
* * *
16411 CTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAAAAGACAGAATTTATTCTGGAATGG
1 CTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAAAAGATAGAATTTATTTTGAAATGG
* * *
16474 CTAATGCTGAA-AAGCCTATGAGTGGTGACTAAGTGATAAAAGATAGAATTT-GTTTGAAACT-G
1 CTAGTGCT-AAGAAGCCTATGAGTGGTGACCAAGTGATAAAAGATAGAATTTATTTTGAAA-TGG
* * * * * * * * *
16536 CTAATGCTAAGAAGCCTGTGAGTGGTGACTAAATGATGAAGGAT-GAAATTTGTTATGGAATGG
1 CTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAAAAGATAG-AATTTATTTTGAAATGG
* * *
16599 CTAGTGCTGAGAAGCCTATGAGTGGTGATCAAGTGATAGAAA-ATAGAATTTATTTTGGAATGG
1 CTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATA-AAAGATAGAATTTATTTTGAAATGG
* * * * *
16662 CTAGTGCTGAGAAGCTTATGAGTGGTGACCAAGTGATAAAAGATAGAATTTGTTTTGAAACGACC
1 CTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAAAAGATAGAATTTATTTTGAAATG--G
* * * * * * * *
16727 CTA-TGCTAAGAAGCTTGTGAGTGATGACCAAATGATGAAGGAT-GAAATTTATTCTAAAATGG
1 CTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAAAAGATAG-AATTTATTTTGAAATGG
* * *
16789 CTAGTGCTAAGAAACCTGTGAGTGGTGACCAAATGAT
1 CTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGAT
16826 GGAAGACGAA
Statistics
Matches: 296, Mismatches: 43, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
61 3 0.01
62 55 0.19
63 184 0.62
64 51 0.17
65 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.28
Consensus pattern (63 bp):
CTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAAAAGATAGAATTTATTTTGAAATGG
Found at i:16842 original size:127 final size:124
Alignment explanation
Indices: 16411--16894 Score: 340
Period size: 125 Copynumber: 3.8 Consensus size: 124
16401 TCTAGAATAA
* * * * * * * * *
16411 CTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAAAAGACAGAATTTATTCTGGAATGGCT
1 CTAGTGCTAAGAAGCCTGTGAGTGGTGACCAAATGAT-GAAGAGA-AATTTGTTATGAAACGCCT
* * * * * *
16476 AATGCTGAA-AAGCCTATGAGTGGTGACTAAGTGATA-AAAGATAGAATTTGTT-TGAAACT-G
64 AGTGCT-AAGAAGCCTATGAGTGATGACCAAATGATAGAAA-ATAGAATTTATTCT-AAAATGG
* * * * *
16536 CTAATGCTAAGAAGCCTGTGAGTGGTGACTAAATGATGAAGGATGAAATTTGTTATGGAATGGCT
1 CTAGTGCTAAGAAGCCTGTGAGTGGTGACCAAATGATGAA-GA-GAAATTTGTTATGAAACGCCT
* * * * * **
16601 AGTGCTGAGAAGCCTATGAGTGGTGATCAAGTGATAGAAAATAGAATTTATTTTGGAATGG
64 AGTGCTAAGAAGCCTATGAGTGATGACCAAATGATAGAAAATAGAATTTATTCTAAAATGG
* * * * * * *
16662 CTAGTGCTGAGAAGCTTATGAGTGGTGACCAAGTGATAAAAGATAGAATTTGTTTTGAAACGACC
1 CTAGTGCTAAGAAGCCTGTGAGTGGTGACCAAATGAT-GAAGAGA-AATTTGTTATGAAACG--C
* * *
16727 CTA-TGCTAAGAAGCTTGTGAGTGATGACCAAATGAT-GAAGGAT-GAAATTTATTCTAAAATGG
62 CTAGTGCTAAGAAGCCTATGAGTGATGACCAAATGATAGAA-AATAG-AATTTATTCTAAAATGG
* * *
16789 CTAGTGCTAAGAAACCTGTGAGTGGTGACCAAATGATGGAAGACGAAACTTGTTCTG-AACTTG-
1 CTAGTGCTAAGAAGCCTGTGAGTGGTGACCAAATGAT-GAAGA-GAAATTTGTTATGAAAC--GC
* * * * *
16852 CTAATGCTCAGAAGCCTATGAATGATGATCAAGTGAT-GAAAAT
62 CTAGTGCTAAGAAGCCTATGAGTGATGACCAAATGATAGAAAAT
16895 GATGAGGATC
Statistics
Matches: 288, Mismatches: 55, Indels: 32
0.77 0.15 0.09
Matches are distributed among these distances:
124 3 0.01
125 101 0.35
126 89 0.31
127 90 0.31
128 5 0.02
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (124 bp):
CTAGTGCTAAGAAGCCTGTGAGTGGTGACCAAATGATGAAGAGAAATTTGTTATGAAACGCCTAG
TGCTAAGAAGCCTATGAGTGATGACCAAATGATAGAAAATAGAATTTATTCTAAAATGG
Found at i:16887 original size:190 final size:187
Alignment explanation
Indices: 16388--16893 Score: 642
Period size: 190 Copynumber: 2.7 Consensus size: 187
16378 ATGGGGCAAT
** *
16388 GGATGAAATTTGTTCTAGAATAACTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAAAAG
1 GGATGAAATTTGTTCTAGAATGGCTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAGAAG
*
16453 ACAGAATTTATTCTGGAATGGCTAATGCTGAAAAGCCTATGAGTGGTGACTAAGTGATAAAAGAT
66 ACAGAATTTATTCTGGAATGGCTAATGCTGAGAAGCCTATGAGTGGTGAC-AAGTGATAAAAGAT
* *
16518 AGAATTTGTTTGAAACTGCTAATGCTAAGAAGCCTGTGAGTGGTGACTAAATGATGAA
130 AGAATTTGTTTGAAACTGCTAATGCTAAGAAGCCTGTGAGTGATGACCAAATGATGAA
* * * * *
16576 GGATGAAATTTGTTATGGAATGGCTAGTGCTGAGAAGCCTATGAGTGGTGATCAAGTGATAGAAA
1 GGATGAAATTTGTTCTAGAATGGCTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAGAAG
* * * *
16641 ATAGAATTTATTTTGGAATGGCTAGTGCTGAGAAGCTTATGAGTGGTGACCAAGTGATAAAAGAT
66 ACAGAATTTATTCTGGAATGGCTAATGCTGAGAAGCCTATGAGTGGTGA-CAAGTGATAAAAGAT
*
16706 AGAATTTGTTTTGAAAC-GACCCT-ATGCTAAGAAGCTTGTGAGTGATGACCAAATGATGAA
130 AGAATTTG-TTTGAAACTG---CTAATGCTAAGAAGCCTGTGAGTGATGACCAAATGATGAA
* * * * * *
16766 GGATGAAATTTATTCTAAAATGGCTAGTGCTAAGAAACCTGTGAGTGGTGACCAAATGATGGAAG
1 GGATGAAATTTGTTCTAGAATGGCTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAGAAG
* * * * * *
16831 AC-GAAACTTGTTCT-GAACTTGCTAATGCTCAGAAGCCTATGAATGATGATCAAGTGATGAAAA
66 ACAG-AATTTATTCTGGAA-TGGCTAATGCTGAGAAGCCTATGAGTGGTGA-CAAGTGAT-AAAA
16894 TGATGAGGAT
Statistics
Matches: 272, Mismatches: 38, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
188 124 0.46
189 13 0.05
190 129 0.47
191 6 0.02
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (187 bp):
GGATGAAATTTGTTCTAGAATGGCTAGTGCTAAGAAGCCTATGAGTGGTGACCAAGTGATAGAAG
ACAGAATTTATTCTGGAATGGCTAATGCTGAGAAGCCTATGAGTGGTGACAAGTGATAAAAGATA
GAATTTGTTTGAAACTGCTAATGCTAAGAAGCCTGTGAGTGATGACCAAATGATGAA
Found at i:17261 original size:21 final size:21
Alignment explanation
Indices: 17235--17311 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 21
17225 GTGAACCCTC
17235 AAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
*
17256 AAATGAGAATCTTTAAGAAATCTT
1 AAATGAGAATCTTT--G-AGTCTT
* *
17280 CAAATGAGAATATTTGAGTATT
1 -AAATGAGAATCTTTGAGTCTT
17302 AAATGAGAAT
1 AAATGAGAAT
17312 TTTTACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
21 24 0.50
22 4 0.08
23 2 0.04
24 5 0.10
25 13 0.27
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (21 bp):
AAATGAGAATCTTTGAGTCTT
Found at i:17907 original size:6 final size:6
Alignment explanation
Indices: 17860--17916 Score: 54
Period size: 5 Copynumber: 10.3 Consensus size: 6
17850 AATTAATAAT
*
17860 ATTATA ATTATTA ATTA-A A-TATA A-T-TA ATTACA ATTAT- ATTATA
1 ATTATA ATTA-TA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA
17904 ATTA-A ATTATA AT
1 ATTATA ATTATA AT
17917 GATTATAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
4 5 0.12
5 16 0.37
6 16 0.37
7 6 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (6 bp):
ATTATA
Found at i:17936 original size:31 final size:28
Alignment explanation
Indices: 17847--17943 Score: 83
Period size: 31 Copynumber: 3.3 Consensus size: 28
17837 AATTAATTAT
17847 TTAAATTAATAATATTATAATTAT--TAA
1 TTAAATT-ATAATATTATAATTATAATAA
*
17874 TTAAA-TATAATTAATTACAATTATATTATAA
1 TTAAATTATAA-T-ATTATAATTATA--ATAA
17905 TTAAATTATAATGATTATAATTAATAGATAA
1 TTAAATTATAAT-ATTATAATT-ATA-ATAA
*
17936 TTATATTA
1 TTAAATTA
17944 ATTGTATTGG
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 4 0.07
26 2 0.04
27 15 0.26
31 28 0.49
32 8 0.14
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (28 bp):
TTAAATTATAATATTATAATTATAATAA
Found at i:17951 original size:9 final size:9
Alignment explanation
Indices: 17833--18011 Score: 76
Period size: 9 Copynumber: 20.0 Consensus size: 9
17823 CAAAATTTTT
17833 TATTAATTA
1 TATTAATTA
*
17842 -ATTATTTA
1 TATTAATTA
* *
17850 AATTAATAA
1 TATTAATTA
17859 TATT-A-TA
1 TATTAATTA
17866 -ATT-ATTA
1 TATTAATTA
*
17873 -ATTAAATA
1 TATTAATTA
17881 TAATTAATTA
1 T-ATTAATTA
*
17891 CAATTATATTA
1 -TATTA-ATTA
17902 TAATTAAATTA
1 T-ATT-AATTA
* *
17913 TAATGATTA
1 TATTAATTA
17922 TAATTAA-TA
1 T-ATTAATTA
*
17931 GA-TAATTA
1 TATTAATTA
*
17939 TATTAATTG
1 TATTAATTA
*
17948 TATTGGATTAA
1 TATT-AATT-A
17959 TATTATATT-
1 TATTA-ATTA
*
17968 TATTATAATA
1 TATTA-ATTA
17978 TAATTAA-TA
1 T-ATTAATTA
17987 TATTAATTA
1 TATTAATTA
17996 -ATTAATTA
1 TATTAATTA
18004 -ATTAATTA
1 TATTAATTA
18012 CTTAAAATTA
Statistics
Matches: 132, Mismatches: 20, Indels: 37
0.70 0.11 0.20
Matches are distributed among these distances:
6 4 0.03
7 9 0.07
8 36 0.27
9 38 0.29
10 21 0.16
11 23 0.17
12 1 0.01
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (9 bp):
TATTAATTA
Found at i:17985 original size:4 final size:4
Alignment explanation
Indices: 17973--18029 Score: 57
Period size: 4 Copynumber: 14.5 Consensus size: 4
17963 ATATTTATTA
*
17973 TAAT ATAAT TAA- TATAT TAAT TAAT TAAT TAAT TAAT TACT TAA- -AAT
1 TAAT -TAAT TAAT TA-AT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
*
18020 TAAT AAAT TA
1 TAAT TAAT TA
18030 TTATTAGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
2 2 0.05
3 2 0.05
4 34 0.77
5 6 0.14
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (4 bp):
TAAT
Found at i:19561 original size:14 final size:13
Alignment explanation
Indices: 19527--19579 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 13
19517 GTTTAAATAC
19527 TATATT-TAATTA
1 TATATTATAATTA
19539 TAT-TTATAATTA
1 TATATTATAATTA
19551 TATTATTATAA--A
1 TA-TATTATAATTA
* *
19563 AATATTATAATGA
1 TATATTATAATTA
19576 TATA
1 TATA
19580 ATTAATATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
11 10 0.29
12 13 0.38
13 5 0.15
14 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
TATATTATAATTA
Found at i:19672 original size:20 final size:19
Alignment explanation
Indices: 19621--19708 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 19
19611 GATAAATATT
* *
19621 TAATTATAATTAAT-TTTA
1 TAATAATAATTAATAATTA
19639 T-ATGAATAATTAATAATTA
1 TAAT-AATAATTAATAATTA
* *
19658 TAATAATACATTAATTATAA
1 TAATAATA-ATTAATAATTA
*
19678 TAATTAAATAATTATTAATATA
1 TAA-T-AATAATTAATAAT-TA
19700 TAATAATAA
1 TAATAATAA
19709 ATAAATATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
17 2 0.04
18 10 0.18
19 8 0.14
20 19 0.34
21 9 0.16
22 8 0.14
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (19 bp):
TAATAATAATTAATAATTA
Found at i:19679 original size:14 final size:13
Alignment explanation
Indices: 19649--19706 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 13
19639 TATGAATAAT
*
19649 TAATAATT-ATAA
1 TAATAATTAATTA
19661 TAATACATTAATTA
1 TAATA-ATTAATTA
19675 TAATAATTAA--A
1 TAATAATTAATTA
*
19686 TAATTATTAATATA
1 TAATAATTAAT-TA
19700 TAATAAT
1 TAATAAT
19707 AAATAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 10 0.26
12 5 0.13
13 8 0.21
14 15 0.39
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
TAATAATTAATTA
Found at i:19689 original size:17 final size:17
Alignment explanation
Indices: 19643--19697 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
19633 ATTTTATATG
19643 AATAATT-AATAATTAT
1 AATAATTAAATAATTAT
*
19659 AATAA-TACATTAATTAT
1 AATAATTA-AATAATTAT
19676 AATAATTAAATAATTATT
1 AATAATTAAATAATTA-T
19694 AATA
1 AATA
19698 TATAATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 1 0.03
16 5 0.15
17 20 0.61
18 7 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAATTAAATAATTAT
Found at i:19704 original size:17 final size:15
Alignment explanation
Indices: 19643--19706 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 15
19633 ATTTTATATG
19643 AATAATTAATAATTAT
1 AATAA-TAATAATTAT
19659 AATAATACATTAATTAT
1 AATAATA-A-TAATTAT
19676 AATAATTAAATAATTATT
1 AATAA-T-AATAATTA-T
19694 AATATATAATAAT
1 AATA-ATAATAAT
19707 AAATAAATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.05
16 6 0.14
17 24 0.57
18 8 0.19
19 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAATAATAATTAT
Found at i:19726 original size:25 final size:25
Alignment explanation
Indices: 19649--19728 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
19639 TATGAATAAT
*
19649 TAATAATTATAATAATACATTAA-TTA
1 TAATAATTA-AATAA-ATATTAATTTA
* *
19675 TAATAATTAAATAATTATTAATATA
1 TAATAATTAAATAAATATTAATTTA
*
19700 TAATAA-TAAATAAATATTTATTTTA
1 TAATAATTAAATAAATA-TTAATTTA
19725 TAAT
1 TAAT
19729 TATTCATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
24 14 0.30
25 23 0.50
26 9 0.20
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (25 bp):
TAATAATTAAATAAATATTAATTTA
Found at i:19776 original size:17 final size:18
Alignment explanation
Indices: 19750--19787 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
19740 ATTAATGATA
*
19750 TATTAATATTTAATTT-T
1 TATTAATATTAAATTTAT
*
19767 TATTATTATTAAATTTAT
1 TATTAATATTAAATTTAT
19785 TAT
1 TAT
19788 AGTTATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTAATATTAAATTTAT
Found at i:19870 original size:16 final size:15
Alignment explanation
Indices: 19851--19884 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
19841 ATATACCAAT
19851 AATTATATATAAATTA
1 AATTATATAT-AATTA
19867 AATTATATATAATTA
1 AATTATATATAATTA
19882 AAT
1 AAT
19885 CATAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTATATATAATTA
Found at i:20878 original size:356 final size:358
Alignment explanation
Indices: 20251--21157 Score: 932
Period size: 356 Copynumber: 2.5 Consensus size: 358
20241 TGAACAAAAC
* * ** * * *
20251 CAATTGTTTTATGACAAAACATAAAGTCATA-ATGTTTTGTGATAGATAATTGTTTAGATACTCA
1 CAATTGTTTTATGACAAAACAAAAAGTCATACAAG--TTGAAATAGATAATTGATTAAATAGTCA
* ** * * * * *
20315 TAACTATTTGAACTTATTTGGTAAATAAATTCTTTTTTTTAATTCTCTTACTCATTAATT-T-TT
64 TAACTATTTGAACTTGTTCAGTAAACAAATT-TATTTTTTAAATCTTTTACTTATTAATTGTCTT
* * *
20378 AGAATATTAATAAATTAGTATTATTTTACTTCAGATAAGCTTGTATGAAT-G-AAATAATTCTTT
128 --AATATTAATAAATTAGTATTATTTTA-TTCAAATAAGCTTGTATGAATAGAAAAT-TTTATTT
* * * * * * * * *
20441 TATTACAAAAGAAAATGTCATAATAATTCAAAATAGATAATTATTTAAATGGTCATCACTATTTG
189 TATGACAAAACAAAAGGTCATAATAATTCAAAATAAAAAATTATTCAAATAGTCATAACTATTTA
* * * * *
20506 AACTTGTTCTGTAAACATATTTATTTTTTTAAATC-TTTTA-C-TT-A-TTAAAATATTAATAAA
254 AAATTGTTCAGTAAACAAATTCA-TTTTTAAAATCTTTTTATCATTAATTTAAAATATTAATAAA
* * *
20566 TTAATATTATTTTAATTT-GAATAAACTTGTATGAA-TAGAAA
318 TTAATATTAATTT-ATTTCAAATAAACTTATATGAACT-GAAA
* * *
20607 CAATTGTTTTACGACAAAACAAAAAGTCATAGCAAGTTGAAATAAATAATTGCTTAAATAGTCAT
1 CAATTGTTTTATGACAAAACAAAAAGTCATA-CAAGTTGAAATAGATAATTGATTAAATAGTCAT
*
20672 AACGATTTGAACTTGTTCAGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTGTCTTAA
65 AACTATTTGAACTTGTTCAGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTGTCTTAA
*
20737 TATTAATAAATTTGTATTATTTTATTCGAAATAAGCTTGTATGAATAGAAAATTTTATTTTATGA
130 TATTAATAAATTAGTATTATTTTATTC-AAATAAGCTTGTATGAATAGAAAATTTTATTTTATGA
* * * *
20802 CAAAACAAAAGGTTATAGTGATTTCAAAA-AAAAAATTATTCAAATAGTCATAATTATTTAAAAT
194 CAAAACAAAAGGTCATAAT-AATTCAAAATAAAAAATTATTCAAATAGTCATAACTATTTAAAAT
* * *
20866 TGTTCAGTAAACAAATTCATTTTTAAAATCTTTTTATCATTAATTTTTAGATTATTAGTAAATTA
258 TGTTCAGTAAACAAATTCATTTTTAAAATCTTTTTATCATTAA--TTTAAAATATTAATAAATTA
*
20931 ATATTAATTTATTTCAAATAAGCTTATATGAACTGAAA
321 ATATTAATTTATTTCAAATAAACTTATATGAACTGAAA
* * *
20969 -AATT-TTTTAATGACAAAACAGAAGGTCATAACAATTTGAAATAGATAATT-ATTCAAATAGTC
1 CAATTGTTTT-ATGACAAAACAAAAAGTCAT-ACAAGTTGAAATAGATAATTGATT-AAATAGTC
* * * * * *
21031 ATGATTATTTGATCTAGTTCAGTAAACATATTTTATTTTTTAAATTTTTTACTTATTAATTGTC-
63 ATAACTATTTGAACTTGTTCAGTAAACA-AATTTATTTTTTAAATCTTTTACTTATTAATTGTCT
* * * * **
21095 AATATATTAGT-AATTAGTATTAGTTTAATCCAAATAAGCTTGTATGAATAGATTATTTTATTT
127 TA-ATATTAATAAATTAGTATTA-TTTTATTCAAATAAGCTTGTATGAATAGAAAATTTTATTT
21158 CAAATAAGCT
Statistics
Matches: 461, Mismatches: 67, Indels: 41
0.81 0.12 0.07
Matches are distributed among these distances:
354 3 0.01
355 76 0.16
356 151 0.33
357 15 0.03
358 4 0.01
359 1 0.00
360 6 0.01
361 114 0.25
362 90 0.20
363 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (358 bp):
CAATTGTTTTATGACAAAACAAAAAGTCATACAAGTTGAAATAGATAATTGATTAAATAGTCATA
ACTATTTGAACTTGTTCAGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTGTCTTAAT
ATTAATAAATTAGTATTATTTTATTCAAATAAGCTTGTATGAATAGAAAATTTTATTTTATGACA
AAACAAAAGGTCATAATAATTCAAAATAAAAAATTATTCAAATAGTCATAACTATTTAAAATTGT
TCAGTAAACAAATTCATTTTTAAAATCTTTTTATCATTAATTTAAAATATTAATAAATTAATATT
AATTTATTTCAAATAAACTTATATGAACTGAAA
Found at i:21040 original size:180 final size:180
Alignment explanation
Indices: 20215--21146 Score: 804
Period size: 181 Copynumber: 5.2 Consensus size: 180
20205 TAATTAATAA
* * *** * *
20215 ATTATTTTTTTTGAAATAAGCTAACATGAACA-AAACCAATTGTTTTATGACAAAACATAAA-GT
1 ATTATTTTATTTCAAATAAGCTTGTATGAATAGAAA-CAATTCTTTTATGACAAAACA-AAAGGT
*** ** * * * * * * ** *
20278 CATAATGTTTTGTGATAGATAATTGTTTAGATACTCATAACTATTTGAACTTATTTGGTAAATAA
64 CATAACAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAA
* * *
20343 ATTCTTTTTTTTAATTCTCTTACTCATTAATTTTTAGAATATTAATAAATTAGT
129 ATT-TATTTTTTAAATCTTTTACTCATTAATTTTTA-AATATTAATAAATTAGT
* * * * * *
20397 ATTATTTTACTTCAGATAAGCTTGTATGAAT-GAAATAATTCTTTTATTACAAAAGAAAATGTCA
1 ATTATTTTATTTCAAATAAGCTTGTATGAATAGAAACAATTCTTTTATGACAAAACAAAAGGTCA
* ** * * * * * *
20461 TAATAATTCAAAATAGATAATTATTTAAATGGTCATCACTATTTGAACTTGTTCTGTAAACATAT
66 TAACAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAAAT
* *
20526 TTATTTTTTTAAATCTTTTA--C-TT-A--TTAAAATATTAATAAATTAAT
131 TTA-TTTTTTAAATCTTTTACTCATTAATTTTTAAATATTAATAAATTAGT
* * * * *
20571 ATTATTTTAATTT-GAATAAACTTGTATGAATAGAAACAATTGTTTTACGACAAAACAAAAAGTC
1 ATTATTTT-ATTTCAAATAAGCTTGTATGAATAGAAACAATTCTTTTATGACAAAACAAAAGGTC
* * * *
20635 ATAGCAAGTTGAAATAAATAATTGCTT-AAATAGTCATAACGATTTGAACTTGTTCAGTAAACAA
65 ATAACAATTTGAAATAAATAATT-ATTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAA
* *
20699 ATTTATTTTTTAAATCTTTTACTTATTAATTGTCTT-AATATTAATAAATTTGT
129 ATTTATTTTTTAAATCTTTTACTCATTAATT-T-TTAAATATTAATAAATTAGT
* *
20752 ATTATTTTA-TTCGAAATAAGCTTGTATGAATAGAAA-ATTTTATTTTATGACAAAACAAAAGGT
1 ATTATTTTATTTC-AAATAAGCTTGTATGAATAGAAACA-ATTCTTTTATGACAAAACAAAAGGT
* *** * * * * * *
20815 TATAGTGATTTCAAAAAAAAAATTATTCAAATAGTCATAATTATTTAAAATTGTTCAGTAAACAA
64 CATAACAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAA
* * * * *
20880 ATTCATTTTTAAAATCTTTTTA-TCATTAATTTTTAGATTATTAGTAAATTAAT
129 ATTTATTTTTTAAATC-TTTTACTCATTAATTTTTA-AATATTAATAAATTAGT
* * *
20933 ATTAATTTATTTCAAATAAGCTTATATGAACT-GAAA-AATT-TTTTAATGACAAAACAGAAGGT
1 ATTATTTTATTTCAAATAAGCTTGTATGAA-TAGAAACAATTCTTTT-ATGACAAAACAAAAGGT
* * * * *
20995 CATAACAATTTGAAATAGATAATTATTCAAATAGTCATGATTATTTGATCTAGTTCAGTAAACAT
64 CATAACAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACA-
* * * * * *
21060 ATTTTATTTTTTAAATTTTTTACTTATTAATTGTCAATATATTAGT-AATTAGT
128 AATTTATTTTTTAAATCTTTTACTCATTAATTTTTAA-ATATTAATAAATTAGT
* * *
21113 ATTAGTTTAATCCAAATAAGCTTGTATGAATAGA
1 ATTATTTTATTTCAAATAAGCTTGTATGAATAGA
21147 TTATTTTATT
Statistics
Matches: 608, Mismatches: 114, Indels: 58
0.78 0.15 0.07
Matches are distributed among these distances:
174 55 0.09
175 86 0.14
176 2 0.00
177 3 0.00
178 3 0.00
179 10 0.02
180 118 0.19
181 295 0.49
182 36 0.06
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (180 bp):
ATTATTTTATTTCAAATAAGCTTGTATGAATAGAAACAATTCTTTTATGACAAAACAAAAGGTCA
TAACAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAAAT
TTATTTTTTAAATCTTTTACTCATTAATTTTTAAATATTAATAAATTAGT
Found at i:21312 original size:213 final size:214
Alignment explanation
Indices: 20933--21342 Score: 684
Period size: 214 Copynumber: 1.9 Consensus size: 214
20923 GTAAATTAAT
*
20933 ATTAATTTATTTCAAATAAGCTTATATGAACTGAAAAATTTTTTAATGACAAAACAGAAGGTCAT
1 ATTAATTTATTTCAAATAAGCTTATATGAACTGAAAAATTTTTTAATGACAAAACAAAAGGTCAT
* *
20998 AACAATTTGAAATAGATAATTATTCAAATAGTCATGATTATTTGATCTAGTTCAGTAAACATATT
66 AACAATTTAAAATAGATAATTAATCAAATAGTCATGATTATTTGATCTAGTTCAGTAAACATATT
* * *
21063 TTATTTTTTAAATTTTTTACTTATTAATTGTCAATATATTAGT-AATTAGTATTAGTTTAATCCA
131 TTATTTTTAAAATTTTTTACTTATTAATTATCAATATATTAATAAATTAGTATTAGTTTAATCCA
21127 AATAAGCTTGTATGAATAG
196 AATAAGCTTGTATGAATAG
* *
21146 ATTATTTTATTTCAAATAAGCTTATATGAACTGAAACAATTCTTTT-ATGATAAAACAAAAGGTC
1 ATTAATTTATTTCAAATAAGCTTATATGAACTGAAA-AATT-TTTTAATGACAAAACAAAAGGTC
*
21210 ATAACTATTTAAAATAGATAATTAATCAAATAGTCATGATTATTTGATCTAGCTT-AGTAAACAT
64 ATAACAATTTAAAATAGATAATTAATCAAATAGTCATGATTATTTGATCTAG-TTCAGTAAACAT
21274 A-TTTATTTTTAAAATTTTTTACTTATTAATTATCAATATATTAATAAATTAGTATTAGTTTAAT
128 ATTTTATTTTTAAAATTTTTTACTTATTAATTATCAATATATTAATAAATTAGTATTAGTTTAAT
21338 CCAAA
193 CCAAA
21343 AAAAGATTAA
Statistics
Matches: 184, Mismatches: 9, Indels: 7
0.92 0.05 0.04
Matches are distributed among these distances:
213 76 0.41
214 102 0.55
215 6 0.03
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (214 bp):
ATTAATTTATTTCAAATAAGCTTATATGAACTGAAAAATTTTTTAATGACAAAACAAAAGGTCAT
AACAATTTAAAATAGATAATTAATCAAATAGTCATGATTATTTGATCTAGTTCAGTAAACATATT
TTATTTTTAAAATTTTTTACTTATTAATTATCAATATATTAATAAATTAGTATTAGTTTAATCCA
AATAAGCTTGTATGAATAG
Found at i:21911 original size:21 final size:20
Alignment explanation
Indices: 21869--21913 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
21859 ATGAAATATT
*
21869 TTTAAGTTATAATAATTAAA
1 TTTAAGTTATAATAAATAAA
21889 TTTAA-TTATAATTTAAATAAA
1 TTTAAGTTATAA--TAAATAAA
21910 TTTA
1 TTTA
21914 TATTTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 5 0.23
21 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TTTAAGTTATAATAAATAAA
Found at i:21925 original size:21 final size:20
Alignment explanation
Indices: 21875--21934 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
21865 TATTTTTAAG
* *
21875 TTATAATAATTAAATTTA-A
1 TTATATTAAATAAATTTATA
21894 TTATAATTTAAATAAATTTATA
1 TTAT-A-TTAAATAAATTTATA
21916 TTTATATT-AAT-AATTTATA
1 -TTATATTAAATAAATTTATA
21935 ACAATTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 12 0.34
20 4 0.11
21 13 0.37
22 2 0.06
23 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTATATTAAATAAATTTATA
Found at i:22573 original size:17 final size:18
Alignment explanation
Indices: 22551--22587 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22541 AAAGTTTAAA
22551 AAATA-TTTGATTATTAT
1 AAATATTTTGATTATTAT
*
22568 AAATATTTTTATTATTAT
1 AAATATTTTGATTATTAT
22586 AA
1 AA
22588 TTATAACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
AAATATTTTGATTATTAT
Found at i:23047 original size:32 final size:32
Alignment explanation
Indices: 22950--23052 Score: 88
Period size: 32 Copynumber: 3.2 Consensus size: 32
22940 TATACTAAAT
*
22950 TATTAAATA-TT-ATTAAGTTAATATCTAATACT
1 TATTAAATATTTAATTAA-TTAATATCTAATA-A
* * *
22982 TAATTAATTAATTTAATT-ATGAATAAT-TCATAA
1 T-ATTAAAT-ATTTAATTAATTAAT-ATCTAATAA
23015 TATTAAATATTTAATTAATTAATATCTAATAA
1 TATTAAATATTTAATTAATTAATATCTAATAA
*
23047 TTTTAA
1 TATTAA
23053 TTAGCTTCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
31 10 0.18
32 22 0.39
33 7 0.12
34 9 0.16
35 5 0.09
36 3 0.05
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.48
Consensus pattern (32 bp):
TATTAAATATTTAATTAATTAATATCTAATAA
Found at i:23395 original size:7 final size:6
Alignment explanation
Indices: 23376--23452 Score: 54
Period size: 6 Copynumber: 13.0 Consensus size: 6
23366 AAAACTATAT
* * *
23376 TAATTA TTATTA TAACTTA TAATTA T-ATTA -AAATA TAACTA -ATATTA
1 TAATTA TAATTA TAA-TTA TAATTA TAATTA TAATTA TAATTA TA-ATTA
* *
23423 TAGTTA TTATTA T-ATTA TATATTA TAATTA
1 TAATTA TAATTA TAATTA TA-ATTA TAATTA
23453 ATTATTTGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
5 13 0.23
6 30 0.54
7 13 0.23
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (6 bp):
TAATTA
Found at i:24072 original size:17 final size:17
Alignment explanation
Indices: 24028--24079 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 17
24018 TATAATAGTT
*
24028 ATATTTATTAATATTAA
1 ATATATATTAATATTAA
*
24045 ATAATTAATATTAATATTTA
1 AT-A-T-ATATTAATATTAA
24065 ATATATATTAA-ATTA
1 ATATATATTAATATTA
24080 GTTTTATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 3 0.10
17 9 0.31
18 2 0.07
19 2 0.07
20 13 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATATTAATATTAA
Found at i:25579 original size:712 final size:711
Alignment explanation
Indices: 24388--27292 Score: 2655
Period size: 712 Copynumber: 4.1 Consensus size: 711
24378 ATTCACAACA
* * * * * *
24388 ATTTTAAATAGATAATTGTTCAAATAGTTATAACTATTTGAACTTGTTCGGTAAACAAATTTAGT
1 ATTTGAAATAGATAATTATTCTAATAGTCATAACTATTTGAACTAGTTCGGTAAACATATTTA-T
* * * **
24453 TTTTCAAATATCCTACTTATTAATCTTTCAAA-AGTTAATAAATTAGTATTATTTTCTTTCAAAT
65 TTTT-TAA-AT-CTACTTATTAATTTTTGAAATA-TTAATAAATTAGTATTATTTTAATTCAAAT
* * * *
24517 AAGCTTGTATGAACTGAAACAATTATTTTATGATTAAACAAAAGATCAGAA-GATTTGAAATATA
126 AAGCTTGTATGAATTGAAACAATTATTTTATGA-CAAA-AAAAGATCATAATGATTTGAAATAGA
* * ** * * * * *
24581 TAATTATTTTAATAGTCTTAACTATTTGAACTAATCGGCAAACACATTTATTTTTTAAATCTTTT
189 TAATTA-TTAAATAGTCATAACTATTTGAACTGTTTGGTAAATAGATTTAATTTTTAAATC--TT
* * * * *
24646 ACTTATTAATTTTCAAAATATTATTAAATTACTATTATTTT-TATCTGAATCAGCTTATATG-AT
251 ACTTATTAATTTTCAAAATATTAATAAATTAATATTATTTTATTTC-GAATAAACTTATATGAAT
* * * * * * *
24709 AAGAAACAATTATTTTGTGACAAAAC-AAAGATCATAACGATTTGAGATTAATATTTGTTCAAAT
315 -AGAAAAAATTATTTTATGACAAAACAAAAAATCATAACGATTTGAAATAAATAATTATTCAAAT
* * * * * * *
24773 TGTCATAACTATTAGAAC-TACTTTGAAAAACAGCTTTAGTTTTT-AAATCTCTTGCTTAATAAT
379 AGTCATAACTATTAGAACTTGCTTTGATAAACAGATTTA-TTTTTAAAATCTTTTACTTATTAAT
* * * * *
24836 TTTTTAAATATTAATAAAGTAGTATTATTTTATTTC-ATATAAGTTTTTATTAATTGAAACAATT
443 TTTTGAAATATTAATAAATTAGTATTATTTTATTTCGAAATAAGCTTTTATGAATTGAAACAATT
** * * * * *
24900 GTTTTATGACAAAATGAAATGTCAAAATAATTTTAAACAGATAATTGTTTAAATAGTCATATCTA
508 GTTTTATGACAAAACAAAAGGTCAAAACAATTTGAAATAGATAATTGTTCAAATAGTC-TAT-TA
* *
24965 TTTGAAATTGTTTAGTAAACAAATTTATTTTTTTAAATCTCTTACT-TTAATTTTTTGAATGTTA
571 TTTG-AATTGTTTAGTAAACAAATTTA-TTTTTTAAATCTCTTACTATTAATTTTTGGAATATTA
**
25029 ATAAATTAGTATTATTTTATTCCAAATAAGCTTGTATGAACTGAAATAATTGTTTTATGACTAAA
634 ATAAATTAGTATTATTTTATTTTAAATAAGCTTGTATGAACTGAAATAATTGTTTTATGAC-AAA
25094 C-AAAGG-ATAGAGTG
698 CAAAAGGCATA-A-TG
* * * *
25108 ATTTGAAATGGATAATTATTCTGATGGTCTTAACTATTTGAACTAGTTCGGCT-AACATATTTAT
1 ATTTGAAATAGATAATTATTCTAATAGTCATAACTATTTGAACTAGTTCGG-TAAACATATTTAT
* * * * *
25172 TTTTTAAATCT-CTTATTAATTTTTGAAATATTATTAAATTAGTGTCATTTTAATCCGAATAAGC
65 TTTTTAAATCTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTAATTCAAATAAGC
** * * *
25236 TTGTATGAAAGGAAACAATTATTGTATGACAAAATAAAGATCATTATGATTTGAGATAGATAATT
130 TTGTATGAATTGAAACAATTATTTTATGACAAAA-AAAGATCATAATGATTTGAAATAGATAATT
* *
25301 GTTCAAATAGTCATAACTATTTGAACTGGTTTAGTAAATAGATTTAATTTTTAAATC-T-CTTAT
194 ATT-AAATAGTCATAACTATTTGAACT-GTTTGGTAAATAGATTTAATTTTTAAATCTTACTTAT
* * * ** *
25364 TAATTTTCAAAATATTAATAAATCAAAATTATTTTATTTTGAATAATTTTGTATGAATAGAAAAA
257 TAATTTTCAAAATATTAATAAATTAATATTATTTTATTTCGAATAAACTTATATGAATAGAAAAA
* *
25429 ATTATTTTATGACAAAACAAAATATCATAACAATTTGAAA-AAATAATTATTCAAATAGTCATAA
322 ATTATTTTATGACAAAACAAAAAATCATAACGATTTGAAATAAATAATTATTCAAATAGTCATAA
* *
25493 CTATTTGAACTTGC-TCGATAAACAGATTTATTTTTAAAATCTTTTACTTATTAATTTTTGAAAT
387 CTATTAGAACTTGCTTTGATAAACAGATTTATTTTTAAAATCTTTTACTTATTAATTTTTGAAAT
* * *
25557 TTTAATAAATTAGTACTATTTTATTTCGAAA-AAGCTTTTATGACCA-T-AAACAATTGGTTTAT
452 ATTAATAAATTAGTATTATTTTATTTCGAAATAAGCTTTTATGA--ATTGAAACAATTGTTTTAT
* * * * * * *
25619 GATAAAATAAAAGGTCATAACAATTTGAAATAGATAATTCTTTAAATAGT-TATAACTTGAATGT
515 GACAAAACAAAAGGTCAAAACAATTTGAAATAGATAATTGTTCAAATAGTCTATTATTTGAAT-T
* * *
25683 GTTCAGAAAACATATTTATTTTTTTAAAT-T-TTACTTATTAATTTTTGGAATATTAATAAATTT
579 GTTTAGTAAACAAATTTA-TTTTTTAAATCTCTTAC-TATTAATTTTTGGAATATTAATAAA-TT
* ** * * *
25746 A-AATTATTTTATTAGAAATAAGCTTGCATGAAC--AAAGCCAATTGTTTTATGATAAAACAAAA
641 AGTATTATTTTATTTTAAATAAGCTTGTATGAACTGAAA--TAATTGTTTTATGA-CAAACAAAA
25808 GGTCATAAT-
703 GG-CATAATG
* * *
25817 ATTTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAGCTTA-TTTGGTAAACATATTCT
1 A-TTTGAAATAGATAATTATTCTAATAGTCATAACTATTTGAAC-TAGTTCGGTAAACATATT-T
* ** * * *
25881 -TTTTTTAATTCTCTCACCAATTAATTTTTGGAATATTAATAAATTAGTATTATCTTACTTCAAA
63 ATTTTTTAA--ATCT-ACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTAATTCAAA
* * * *
25945 TAAGCTTATATGAATTGAAACAAGTGTTTTATTAGA-AAAGAAAATG-TCATAATAATTTGAAAT
125 TAAGCTTGTATGAATTGAAACAATTATTTTA-T-GACAAA-AAAA-GATCATAATGATTTGAAAT
* * * *
26008 AGATAATTATTGAAATATTAATAACTATTTGAACTTGTTTGGTAAATATATTTATTTTTTAAATC
186 AGATAATTATT-AAATAGTCATAACTATTTGAAC-TGTTTGGTAAATAGATTTAATTTTTAAATC
* * * *
26073 TTGTACTTATTAATTGTCAAAATATTAATTAATTAATATTATTTTAATTCGAATAAACTTGTATG
249 -T-TACTTATTAATTTTCAAAATATTAATAAATTAATATTATTTTATTTCGAATAAACTTATATG
* **
26138 AATAGAAATAATTATTTTATGACAAAACAAAAAATCATAAC-ATGTTGAAATAAATAATTGCTCA
312 AATAGAAAAAATTATTTTATGACAAAACAAAAAATCATAACGAT-TTGAAATAAATAATTATTCA
* *
26202 AATAGCCATAA-TGATTAGAACTT-CTTTGGTAAACAGATTTATTTTTAAAATCTTTTACTTATT
376 AATAGTCATAACT-ATTAGAACTTGCTTTGATAAACAGATTTATTTTTAAAATCTTTTACTTATT
* ** *
26265 AATTGTCTT--AATATTAATAAATTTGTATTATTTTA-TTCGAAATAAGCTTAGATGAATAGAAA
440 AATT-T-TTGAAATATTAATAAATTAGTATTATTTTATTTCGAAATAAGCTTTTATGAATTGAAA
* * * * * * * * * ** **
26327 AAACTCTTTTATTACAAAACAAAAGGTTATAGCTATTTCAAATAGATAATTACTCAAACCGTCCT
503 CAATTGTTTTATGACAAAACAAAAGGTCAAAACAATTTGAAATAGATAATTGTTCAAATAGT-CT
* * * * * *
26392 AATTATTTAAATTTGTTTAGTAAACAAAGTCATTTTTTGAATCTCTTTATTATTAATTTTTGGAT
567 -ATTATTTGAA-TTGTTTAGTAAACAAATTTATTTTTTAAATCTC-TTACTATTAATTTTTGGAA
* * * * *
26457 TATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTATATGAACTGAAATGACTCTTTTATGA
629 TATTAATAAATTAGTATTATTTTATTTTAAATAAGCTTGTATGAACTGAAATAATTGTTTTATGA
26522 CAAATCAAAAGGTCATAATG
694 CAAA-CAAAAGG-CATAATG
* * *
26542 ATTTGAAATAGATAATTATT-TAAATTA-TCATGATTATTTGATCTAGTGT-GGTAAAC--A--T
1 ATTTGAAATAGATAATTATTCT-AA-TAGTCATAACTATTTGAACTAGT-TCGGTAAACATATTT
* * * ** *
26600 ATTTTTTAAATTTTTTACTTACTAATTGTCAAAATATTAATAAATTAGTATT-TTTTAATGCAAA
63 ATTTTTTAAA---TCTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTAATTCAAA
* * ** * *
26664 TAAGCTTGTATGAATCGAAACAATTGTTTTACAACAAAAAAA-AGTTATAATGATTTGAAATAAA
125 TAAGCTTGTATGAATTGAAACAATTATTTTATGACAAAAAAAGA-TCATAATGATTTGAAATAGA
* * * * *
26728 TAATTGCTTAAATAGTCATAACTATTTGAACTAGTTTGATACATAGATAT-ATTGTCTAAATC--
189 TAATT-ATTAAATAGTCATAACTATTTGAACT-GTTTGGTAAATAGATTTAATT-TTTAAATCTT
** * * * * * *
26790 ACTTATTAATTTTTGAAATATTAATAGATTAGTATTACTTTAGTTCAAATAAACTTATATGAACA
251 ACTTATTAATTTTCAAAATATTAATAAATTAATATTATTTTATTTCGAATAAACTTATATGAATA
* * * * * *
26855 -AAAATATT-TGTTGTACGACAAAACAAAAAATAATAATGATTTTAAATATATAATTATTCAAAT
316 GAAAAAATTAT-TT-TATGACAAAACAAAAAATCATAACGATTTGAAATAAATAATTATTCAAAT
* * * * * * * * *
26918 AGT-ATAATTTTTTGAAC-TGGTTTGGTAAACAAAATTATTTTTTAAATCTTTTACTTATTATTT
379 AGTCATAACTATTAGAACTTGCTTTGATAAACAGATTTATTTTTAAAATCTTTTACTTATTAATT
* **
26981 TTTGAAATATTAATAAATTCA-TTTTATTTTATTTC-AAATAAGCTAGTATGAATTGAGAA-AAT
444 TTTGAAATATTAATAAATT-AGTATTATTTTATTTCGAAATAAGCTTTTATGAATTGA-AACAAT
* * * * * *
27043 TGTTTTATGACAAGACAAAAGGTTATAACGATTTGAAATAGATAATTGTTCATATAGTCTTAACT
507 TGTTTTATGACAAAACAAAAGGTCAAAACAATTTGAAATAGATAATTGTTCAAATAGTC-T-ATT
* * * * * *
27108 ATTTGAATTGGTTCGACAAACAAATTTATTTTCTAAATCCCTTAGATATTAATTTTTGGAATATT
570 ATTTGAATTGTTTAG-TAAACAAATTTATTTTTTAAATCTCTTA-CTATTAATTTTTGGAATATT
* * * * ** *
27173 ATTATATTAGTATTGTTTTATTTTGAATAAGCTTGTATGAACAAAAATAATTATTTTATGACATA
633 AATAAATTAGTATTATTTTATTTTAAATAAGCTTGTATGAACTGAAATAATTGTTTTATGACA-A
*
27238 ACAAAAGGTTATAATG
697 ACAAAAGG-CATAATG
* * * * *
27254 ATTTGACATATAGAATTGTTCAAATAGTCATAACTATTT
1 ATTTGAAATAGATAATTATTCTAATAGTCATAACTATTT
27293 TAATATAATA
Statistics
Matches: 1796, Mismatches: 297, Indels: 192
0.79 0.13 0.08
Matches are distributed among these distances:
707 7 0.00
708 5 0.00
709 99 0.06
710 70 0.04
711 24 0.01
712 521 0.29
713 133 0.07
714 80 0.04
715 182 0.10
716 32 0.02
717 69 0.04
718 11 0.01
719 149 0.08
720 240 0.13
721 4 0.00
722 13 0.01
723 30 0.02
724 117 0.07
725 7 0.00
726 3 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (711 bp):
ATTTGAAATAGATAATTATTCTAATAGTCATAACTATTTGAACTAGTTCGGTAAACATATTTATT
TTTTAAATCTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTAATTCAAATAAGCT
TGTATGAATTGAAACAATTATTTTATGACAAAAAAAGATCATAATGATTTGAAATAGATAATTAT
TAAATAGTCATAACTATTTGAACTGTTTGGTAAATAGATTTAATTTTTAAATCTTACTTATTAAT
TTTCAAAATATTAATAAATTAATATTATTTTATTTCGAATAAACTTATATGAATAGAAAAAATTA
TTTTATGACAAAACAAAAAATCATAACGATTTGAAATAAATAATTATTCAAATAGTCATAACTAT
TAGAACTTGCTTTGATAAACAGATTTATTTTTAAAATCTTTTACTTATTAATTTTTGAAATATTA
ATAAATTAGTATTATTTTATTTCGAAATAAGCTTTTATGAATTGAAACAATTGTTTTATGACAAA
ACAAAAGGTCAAAACAATTTGAAATAGATAATTGTTCAAATAGTCTATTATTTGAATTGTTTAGT
AAACAAATTTATTTTTTAAATCTCTTACTATTAATTTTTGGAATATTAATAAATTAGTATTATTT
TATTTTAAATAAGCTTGTATGAACTGAAATAATTGTTTTATGACAAACAAAAGGCATAATG
Found at i:25996 original size:181 final size:179
Alignment explanation
Indices: 24388--27292 Score: 2112
Period size: 181 Copynumber: 16.2 Consensus size: 179
24378 ATTCACAACA
* * * * *
24388 ATTTTAAATAGATAATTGTTCAAATAGTTATAACTATTTGAACTTGTTCGGTAAACAAATTTAGT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTGGTAAACATATTT--T
* * * * * *
24453 TTTTCAAATATCCTACTTATTAATCTTTCAAA-AGTTAATAAATTAGTATTATTTTCTTTCAAAT
64 TTTTTAAATCTCTTACTTATTAATTTTTGAAATA-TTAATAAATTAGTATTATTTTATTTCAAAT
* * ** * * *
24517 AAGCTTGTATGAACTGAAACAATTATTTTATGATTAAACAAAAGATCAGAAG
128 AAGCTTGTATGAATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* ** * ** * * *
24569 ATTTGAAATATATAATTATTTTAATAGTCTTAACTATTTGAAC-TAATCGGCAAACACATTTATT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTGGTAAACATATTT-TT
* ** * * * * *
24633 TTTTAAATCTTTTACTTATTAATTTTCAAAATATTATTAAATTACTATTATTTT-TATCTGAATC
65 TTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTC-AAATA
* * * * * *
24697 AGCTTATATG-ATAAGAAACAATTATTTTGTGACAAAAC-AAAGATCATAACG
129 AGCTTGTATGAAT-TGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA-T
* * * * * ** ** ** *
24748 ATTTGAGATTA-ATATTTGTTCAAATTGTCATAACTATTAGAACTACTTTGAAAAACAGCTTTAG
1 ATTTGA-AATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTGGTAAACATATTT-T
* * * * *
24812 TTTTTAAATCTCTTGCTTAATAATTTTTTAAATATTAATAAAGTAGTATTATTTTATTTCATATA
64 TTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATA
* * * ** * *
24877 AGTTTTTATTAATTGAAACAATTGTTTTATGACAAAATGAAATGTCAAAAT
129 AGCTTGTATGAATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * * * * * *
24928 AATTTTAAACAGATAATTGTTTAAATAGTCATATCTATTTGAAATTGTTTAGTAAACAAATTTAT
1 -ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTGGTAAACATA-TT-T
* *
24993 TTTTTTAAATCTCTTAC-T-TTAATTTTTTG-AATGTTAATAAATTAGTATTATTTTATTCCAAA
63 TTTTTTAAATCTCTTACTTATTAA-TTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAA
* * *
25055 TAAGCTTGTATGAACTGAAATAATTGTTTTATGACTAAAC-AAAGG--ATAGAGT
127 TAAGCTTGTATGAATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATA-A-T
* ** * * * *
25107 GATTTGAAATGGATAATTATTCTGATGGTCTTAACTATTTGAACTAGTTCGGCT-AACATATTTA
1 -ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTGG-TAAACATATTT-
* * * * * *
25171 TTTTTTAAA--TC-T-CTTATTAATTTTTGAAATATTATTAAATTAGTGTCATTTTAATCCGAAT
63 TTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAAT
** * * * * *
25232 AAGCTTGTATGAAAGGAAACAATTATTGTATGACAAAA-TAAAGATCATTAT
128 AAGCTTGTATGAATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * * * * *
25283 GATTTGAGATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGGTTTAGTAAATAGATTTAA
1 -ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTGGTAAACATATTT-T
** * ** **
25348 TTTTTAAA--TC-T-CTTATTAATTTTCAAAATATTAATAAATCAAAATTATTTTATTTTGAATA
64 TTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATA
** * * * ** *
25409 ATTTTGTATGAATAGAAAAAATTATTTTATGACAAAACAAAATATCATAACA
129 AGCTTGTATGAATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA-T
* * * * *
25461 ATTTGAAA-AAATAATTATTCAAATAGTCATAACTATTTGAACTTGCTCGATAAACAGATTTATT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTGGTAAACATATTT-TT
* * * *
25525 TTTAAAATCTTTTACTTATTAATTTTTGAAATTTTAATAAATTAGTACTATTTTATTTCGAAA-A
65 TTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTC-AAATA
* * * * *
25589 AGCTTTTATGACCA-T-AAACAATTGGTTTATGATAAAATAAAAGGTCATAACA
129 AGCTTGTATGA--ATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA-T
* * * ** *
25641 ATTTGAAATAGATAATTCTTTAAATAGTTATAAC---TTGAA-TGTGTTCAGAAAACATATTTAT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACT-TGTTTGGTAAACATA-TT-T
* * **
25702 TTTTTTAAAT-T-TTACTTATTAATTTTTGGAATATTAATAAATTTA-AATTATTTTATTAGAAA
63 TTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAA-TTAGTATTATTTTATTTCAAA
* * *
25764 TAAGCTTGCATGAA--CAAAGCCAATTGTTTTATGATAAAACAAAAGGTCATAAT
127 TAAGCTTGTATGAATTGAAA--CAATTGTTTTATGACAAAACAAAAGGTCATAAT
* *
25817 ATTTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAGCTTATTTGGTAAACATATTCTT
1 A-TTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTGGTAAACATATT-TT
* * ** * * *
25882 TTTTTAATTCTCTCACCAATTAATTTTTGGAATATTAATAAATTAGTATTATCTTACTTCAAATA
64 TTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATA
* * * * * *
25947 AGCTTATATGAATTGAAACAAGTGTTTTATTAGAAAAGAAAATGTCATAAT
129 AGCTTGTATGAATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * *
25998 AATTTGAAATAGATAATTATTGAAATATTAATAACTATTTGAACTTGTTTGGTAAATATATTTAT
1 -ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTGGTAAACATATTT-T
* ** * * * *
26063 TTTTTAAATCT-TGTACTTATTAATTGTCAAAATATTAATTAATTAATATTATTTTAATTCGAAT
64 TTTTTAAATCTCT-TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAAT
* * * * ** *
26127 AAACTTGTATGAATAGAAATAATTATTTTATGACAAAACAAAAAATCATAAC
128 AAGCTTGTATGAATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* ** * * * *
26179 ATGTTGAAATAAATAATTGCTCAAATAGCCATAA-TGATTAGAACTTCTTTGGTAAACAGATTTA
1 AT-TTGAAATAGATAATTATTCAAATAGTCATAACT-ATTTGAACTTGTTTGGTAAACATATTT-
* * *
26243 TTTTTAAAATCTTTTACTTATTAATTGTCTT--AATATTAATAAATTTGTATTATTTTA-TTCGA
63 TTTTTTAAATCTCTTACTTATTAATT-T-TTGAAATATTAATAAATTAGTATTATTTTATTTC-A
* * * * * * *
26305 AATAAGCTTAG-ATGAATAGAAAAAACTCTTTTATTACAAAACAAAAGGTTATAGCT
125 AATAAGCTT-GTATGAATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATA-AT
* * ** * * * * * * **
26361 ATTTCAAATAGATAATTACTCAAACCGTCCTAATTATTTAAATTTGTTTAGTAAACAAAGTCATT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTGGTAAACATA-TTTTT
* * * **
26426 TTTTGAATCTCTTTA-TTATTAATTTTTGGATTATTAATAAATTAGTATTATTTTATTTTGAATA
65 TTTTAAATCTC-TTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATA
* * ** * * *
26490 AGCTTATATGAACTGAAATGACTCTTTTATGACAAATCAAAAGGTCATAAT
129 AGCTTGTATGAATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * * * *
26541 GATTTGAAATAGATAATTATTTAAATTA-TCATGATTATTTGATCTAGTGTGGTAAACATA---T
1 -ATTTGAAATAGATAATTATTCAAA-TAGTCATAACTATTTGAACTTGTTTGGTAAACATATTTT
* * * * ** * *
26602 TTTTTAAATTTTTTACTTACTAATTGTCAAAATATTAATAAATTAGTATT-TTTTAATGCAAATA
64 TTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATA
* ** *
26666 AGCTTGTATGAATCGAAACAATTGTTTTACAACAAAA-AAAA-GTTATAAT
129 AGCTTGTATGAATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * * *
26715 GATTTGAAATAAATAATTGCTT-AAATAGTCATAACTATTTGAACTAGTTTGATACATAGATA-T
1 -ATTTGAAATAGATAATT-ATTCAAATAGTCATAACTATTTGAACTTGTTTGGTA-A-ACATATT
* * * * * *
26778 ATTGTCTAAA--TC--ACTTATTAATTTTTGAAATATTAATAGATTAGTATTACTTTAGTTCAAA
62 TTTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAA
* * *** * * * * ** *
26839 TAAACTTATATGAACAAAAATATTTGTTGTACGACAAAACAAAAAATAATAAT
127 TAAGCTTGTATGAATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * * * * *
26892 GATTTTAAATATATAATTATTCAAATAGT-ATAATTTTTTGAACTGGTTTGGTAAACAAAATTAT
1 -ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTGGTAAAC-ATATTTT
* * *
26956 TTTTTAAATCTTTTACTTATTATTTTTTGAAATATTAATAAATTCA-TTTTATTTTATTTCAAAT
64 TTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATT-AGTATTATTTTATTTCAAAT
* * * *
27020 AAGCTAGTATGAATTGAGAA-AATTGTTTTATGACAAGACAAAAGGTTATAACG
128 AAGCTTGTATGAATTGA-AACAATTGTTTTATGACAAAACAAAAGGTCATAA-T
* * * * ** *
27073 ATTTGAAATAGATAATTGTTCATATAGTCTTAACTATTTGAA-TTGGTTCGACAAACAAATTTAT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTT-GTTTGGTAAACATATTT-T
* * ** * * * * **
27137 TTTCTAAATCCCTTAGATATTAATTTTTGGAATATTATTATATTAGTATTGTTTTATTTTGAATA
64 TTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATA
*** * * * *
27202 AGCTTGTATGAACAAAAATAATTATTTTATGACATAACAAAAGGTTATAAT
129 AGCTTGTATGAATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * *
27253 GATTTGACATATAGAATTGTTCAAATAGTCATAACTATTT
1 -ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTT
27293 TAATATAATA
Statistics
Matches: 2151, Mismatches: 474, Indels: 198
0.76 0.17 0.07
Matches are distributed among these distances:
173 2 0.00
174 81 0.04
175 62 0.03
176 339 0.16
177 196 0.09
178 56 0.03
179 183 0.09
180 399 0.19
181 798 0.37
182 30 0.01
183 5 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (179 bp):
ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTGGTAAACATATTTTTT
TTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAG
CTTGTATGAATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
Found at i:26494 original size:543 final size:535
Alignment explanation
Indices: 24384--27291 Score: 1975
Period size: 539 Copynumber: 5.4 Consensus size: 535
24374 TTAAATTCAC
* * * *
24384 AACAATTTTAAATAGATAATTGTTCAAATAGTTATAACTATTTGAACTTGTTCGGTAAACAAATT
1 AACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGATAAACAAATT
* * ** * * **
24449 TAGTTTTTCAAATATCCTACTTATTAATCTTTCAAAA-GTTAATAAATTAGTATTATTTTCTTTC
66 TA-TTTTTTAAATCTTTTACTTATTAAT-TGTCAAAATATTAATAAATTAGTATTATTTTAATTC
* * * ** * *
24513 AAATAAGCTTGTATGAACTGAAACAATTATTTTATGATTAAAC-AAAAGATCAGAAGATTTGAAA
129 GAATAAACTTGTATGAACAGAAACAATTATTTTATGACAAAACAAAAAG-TCATAACATTTGAAA
* ** * * ** * * *
24577 TATATAATTATTTTAATAGTCTTAACTATTTGAAC-TAATCGGCAAACACATTTATTTTTTAAAT
193 TAAATAATTGCTTAAATAGTCATAA-TA-TTGAACTTGTTTGGTAAACAGATTTA-TTTTTAAAT
** * ** * *
24641 CTTTTACTTATTAATTTTCAAAATATTATTAAATTACTATTATTTT-TATCTG-AATCAGCTTAT
255 CTTTTACTTATTAATTTT-TGAATATTAATAAATTTGTATTATTTTAT-TC-GAAATAAGCTTAG
* * * * * * * * * *
24704 ATGATA-AGAAACAATTATTTTGTGACAAAAC-AAAGATCATAACGATTTGAGATTA-ATATTTG
317 ATGA-ACA-AAA-AAATCTTTTATGACAAAACAAAAGGTAATAA-TATTTCA-AATAGATAATTA
* * * ** ** *** * * *
24766 TTCAAATTGTCATAACTATTAGAACTACTTTGAAAAACAGCTTTAGTTTTTAAATCTC-TTGCTT
377 TTCAAATAGTCATAATTATTTGAACTTGTTTGGTAAACAAAATCATTTTTTAAATCTCTTTACTT
* ** * * * * *
24830 AATAATTTTTTAAATATTAATAAAGTAGTATTATTTTATTTCATATAAGTTTTTATTAATTGAAA
442 ATTAATTTTTGGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTATATGAATTGAAA
** * *
24895 CAATTGTTTTATGACAAAATGAAATGTCAA
507 -AATTGTTTTATGACAAAACAAAAGGTCAT
* * * * * * * *
24925 AATAATTTTAAACAGATAATTGTTTAAATAGTCATATCTATTTGAAATTGTT-TAGTAAACAAAT
1 AACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGA-TAAACAAAT
* * *** *
24989 TTATTTTTTTAAATCTCTTAC-T-TTAATTTTTTGAATGTTAATAAATTAGTATTATTTT-ATTC
65 TTA-TTTTTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAGTATTATTTTAATT-
* * * * * * * *
25051 CAAATAAGCTTGTATGAACTGAAATAATTGTTTTATGACTAAAC--AAAG-GATAGAGTGATTTG
128 CGAATAAACTTGTATGAACAGAAACAATTATTTTATGACAAAACAAAAAGTCATA-A--CATTTG
** * ** * * * * *
25113 AAATGGATAATT-ATTCTGATGGTCTTAACTATTTGAACTAGTTCGGCT-AACATATTTATTTTT
190 AAATAAATAATTGCTT-AAATAGTCATAA-TA-TTGAACTTGTTTGG-TAAACAGATTTA-TTTT
* * * * *
25176 TAAATC---T-CTTATTAATTTTTGAAATATTATTAAATTAGTGTCATTTTAATCCG-AATAAGC
250 TAAATCTTTTACTTATTAATTTTTG-AATATTAATAAATTTGTATTATTTT-ATTCGAAATAAGC
* * * * * * *
25236 TT-GTATGAA-AGGAAACAAT-TATTGTATGACAAAA-TAAAGATCATTATGATTTGAGATAGAT
313 TTAG-ATGAACA--AAAAAATCT-TT-TATGACAAAACAAAAGGTAATAAT-ATTTCAAATAGAT
* * * * * * * * *
25297 AATTGTTCAAATAGTCATAACTATTTGAACTGGTTTAGTAAATAGATTTAATTTTTAAA--TC--
372 AATTATTCAAATAGTCATAATTATTTGAACTTGTTTGGTAAACAAAATCATTTTTTAAATCTCTT
*** * ** ** ** *
25358 T-CTTATTAATTTTCAAAATATTAATAAATCAAAATTATTTTATTTTGAATAATTTTGTATGAAT
437 TACTTATTAATTTTTGGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTATATGAAT
* * **
25422 AGAAAAAATTATTTTATGACAAAACAAAATATCAT
502 TG-AAAAATTGTTTTATGACAAAACAAAAGGTCAT
* * *
25457 AACAATTTGAAA-AAATAATTATTCAAATAGTCATAACTATTTGAACTTGCTCGATAAACAGATT
1 AACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGATAAACAAATT
* * ** * * *
25521 TATTTTTAAAATCTTTTACTTATTAATTTTTGAAATTTTAATAAATTAGTACTATTTTATTTCGA
66 TATTTTTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAGTATTATTTTAATTCGA
* * * ** * * *
25586 A-AAAGCTTTTATGACCATAAACAATTGGTTTATGATAAAATAAAAGGTCATAACAATTTGAAAT
131 ATAAA-CTTGTATGAACAGAAACAATTATTTTATGACAAAACAAAAAGTCATAAC-ATTTGAAAT
* * * ** * *
25650 AGATAATT-CTTTAAATAGTTATAA-CTTGAA-TGTGTTCAGAAAACATATTTATTTTTTTAAA-
194 AAATAATTGC-TTAAATAGTCATAATATTGAACT-TGTTTGGTAAACAGATTTA--TTTTTAAAT
** *
25711 -TTTTACTTATTAATTTTTGGAATATTAATAAATTTAAATTATTTTATTAGAAATAAGCTT-GCA
255 CTTTTACTTATTAATTTTT-GAATATTAATAAATTTGTATTATTTTATTCGAAATAAGCTTAG-A
* * * * * *
25774 TGAACAAAGCCAATTGTTTTATGATAAAACAAAAGGTCATAATATTTTGAAATAGATAATTATTC
318 TGAACAAA--AAAATCTTTTATGACAAAACAAAAGGTAATAATA-TTTCAAATAGATAATTATTC
* * * * * * * * **
25839 AAATAGTCATAACTATTTGAGCTTATTTGGTAAACATATTCTTTTTTTAATTCTC-TCACCAATT
380 AAATAGTCATAATTATTTGAACTTGTTTGGTAAACAAAATCATTTTTTAAATCTCTTTACTTATT
* *
25903 AATTTTTGGAATATTAATAAATTAGTATTATCTTACTTCAAATAAGCTTATATGAATTGAAACAA
445 AATTTTTGGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTATATGAATTGAAA-AA
* * * * *
25968 GTGTTTTATTAGAAAAGAAAATGTCAT
509 TTGTTTTATGACAAAACAAAAGGTCAT
* * * * * * * *
25995 AATAATTTGAAATAGATAATTATTGAAATATTAATAACTATTTGAACTTGTTTGGTAAATATATT
1 AACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGATAAACAAATT
* * *
26060 TATTTTTTAAATCTTGTACTTATTAATTGTCAAAATATTAATTAATTAATATTATTTTAATTCGA
66 TATTTTTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAGTATTATTTTAATTCGA
* * *
26125 ATAAACTTGTATGAATAGAAATAATTATTTTATGACAAAACAAAAAATCATAACATGTTGAAATA
131 ATAAACTTGTATGAACAGAAACAATTATTTTATGACAAAACAAAAAGTCATAACAT-TTGAAATA
* * *
26190 AATAATTGCTCAAATAGCCATAATGATTAGAACTTCTTTGGTAAACAGATTTATTTTTAAAATCT
195 AATAATTGCTTAAATAGTCATAAT-ATT-GAACTTGTTTGGTAAACAGATTTATTTTT-AAATCT
26255 TTTACTTATTAATTGTCTT-AATATTAATAAATTTGTATTATTTTATTCGAAATAAGCTTAGATG
257 TTTACTTATTAATT-T-TTGAATATTAATAAATTTGTATTATTTTATTCGAAATAAGCTTAGATG
* * * * *
26319 AATAGAAAAAACTCTTTTATTACAAAACAAAAGGTTATAGCTATTTCAAATAGATAATTACTCAA
320 AACA-AAAAAA-TCTTTTATGACAAAACAAAAGGTAATA-ATATTTCAAATAGATAATTATTCAA
** * * * * * *
26384 ACCGTCCTAATTATTTAAATTTGTTTAGTAAACAAAGTCATTTTTTGAATCTCTTTA-TTATTAA
382 ATAGTCATAATTATTTGAACTTGTTTGGTAAACAAAATCATTTTTTAAATCTCTTTACTTATTAA
* ** * * *
26448 TTTTTGGATTATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTATATGAACTGAAATGACT
447 TTTTTGGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTATATGAATTGAAA-AATT
* *
26513 CTTTTATGACAAATCAAAAGGTCAT
511 GTTTTATGACAAAACAAAAGGTCAT
** * * * * * *
26538 AATGATTTGAAATAGATAATTATTTAAATTA-TCATGATTATTTGATCTAGTGT-GGTAAAC--A
1 AACAATTTGAAATAGATAATTATTCAAA-TAGTCATAACTATTTGAACTTGT-TCGATAAACAAA
* * *
26599 --TATTTTTTAAATTTTTTACTTACTAATTGTCAAAATATTAATAAATTAGTATT-TTTTAATGC
64 TTTATTTTTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAGTATTATTTTAATTC
* * * ** * *
26661 AAATAAGCTTGTATGAATC-GAAACAATTGTTTTACAAC-AAA-AAAAAGTTATAATGATTTGAA
129 GAATAAACTTGTATGAA-CAGAAACAATTATTTTATGACAAAACAAAAAGTCATAA-CATTTGAA
* * * * * *
26723 ATAAATAATTGCTTAAATAGTCATAACTATTTGAACTAGTTTGATACATAGATATATTGTCTAAA
192 ATAAATAATTGCTTAAATAGTCATAA-TA-TTGAACTTGTTTGGTAAACAGATTTATT-TTTAAA
* * * * *
26788 TC----ACTTATTAATTTTTGAAATATTAATAGATTAGTATTACTTTAGTTC-AAATAAACTTAT
254 TCTTTTACTTATTAATTTTTG-AATATTAATAAATTTGTATTATTTTA-TTCGAAATAAGCTTAG
* * * ** * *
26848 ATGAACAAAAATATTTGTTGTACGACAAAACAAAAAATAATAATGATTTTAAATATATAATTATT
317 ATGAACAAAAAAATCT-TT-TATGACAAAACAAAAGGTAATAAT-ATTTCAAATAGATAATTATT
* * *
26913 CAAATAGT-ATAATTTTTTGAACTGGTTTGGTAAACAAAATTATTTTTTAAATCT-TTTACTTAT
379 CAAATAGTCATAATTATTTGAACTTGTTTGGTAAACAAAATCATTTTTTAAATCTCTTTACTTAT
* * *
26976 TATTTTTTGAAATATTAATAAATTCA-TTTTATTTTATTTCAAATAAGC-TAGTATGAATTGAGA
444 TAATTTTTGGAATATTAATAAATT-AGTATTATTTTATTTCAAATAAGCTTA-TATGAATTGA-A
* *
27039 AAATTGTTTTATGACAAGACAAAAGGTTAT
506 AAATTGTTTTATGACAAAACAAAAGGTCAT
* * * * *
27069 AACGATTTGAAATAGATAATTGTTCATATAGTCTTAACTATTTGAA-TTGGTTCGACAAACAAAT
1 AACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTT-GTTCGATAAACAAAT
* ** ** * *** * * * * *
27133 TTATTTTCTAAATCCCTTAGATATTAATTTTTGGAATATTATTATATTAGTATTGTTTTATTTTG
65 TTATTTTTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAGTATTATTTTAATTCG
* * * * * * * *
27198 AATAAGCTTGTATGAACAAAAATAATTATTTTATGACATAACAAAAGGTTATAATGATTTGACAT
130 AATAAACTTGTATGAACAGAAACAATTATTTTATGACAAAACAAAAAGTCATAA-CATTTGAAAT
* *
27263 ATAGAATTG-TTCAAATAGTCATAACTATT
194 AAATAATTGCTT-AAATAGTCATAA-TATT
27292 TTAATATAAT
Statistics
Matches: 1903, Mismatches: 367, Indels: 198
0.77 0.15 0.08
Matches are distributed among these distances:
529 1 0.00
530 49 0.03
531 220 0.12
532 247 0.13
533 90 0.05
534 84 0.04
535 53 0.03
536 231 0.12
537 22 0.01
538 180 0.09
539 314 0.17
540 34 0.02
541 78 0.04
542 19 0.01
543 268 0.14
544 11 0.01
545 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (535 bp):
AACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGATAAACAAATT
TATTTTTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAGTATTATTTTAATTCGA
ATAAACTTGTATGAACAGAAACAATTATTTTATGACAAAACAAAAAGTCATAACATTTGAAATAA
ATAATTGCTTAAATAGTCATAATATTGAACTTGTTTGGTAAACAGATTTATTTTTAAATCTTTTA
CTTATTAATTTTTGAATATTAATAAATTTGTATTATTTTATTCGAAATAAGCTTAGATGAACAAA
AAAATCTTTTATGACAAAACAAAAGGTAATAATATTTCAAATAGATAATTATTCAAATAGTCATA
ATTATTTGAACTTGTTTGGTAAACAAAATCATTTTTTAAATCTCTTTACTTATTAATTTTTGGAA
TATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTATATGAATTGAAAAATTGTTTTATGAC
AAAACAAAAGGTCAT
Found at i:28226 original size:21 final size:22
Alignment explanation
Indices: 28191--28249 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
28181 GTTTTTGAAT
28191 AATAATAATATATAA-CTATTA
1 AATAATAATATATAATCTATTA
*
28212 AATAATAAT-TAATAATTTATTA
1 AATAATAATAT-ATAATCTATTA
*
28234 AAT-TTAATACTATAAT
1 AATAATAATA-TATAAT
28250 TAATAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 1 0.03
21 17 0.53
22 13 0.41
23 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAATAATATATAATCTATTA
Found at i:28255 original size:36 final size:36
Alignment explanation
Indices: 28205--28275 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
28195 ATAATATATA
28205 ACTATTAAATAATAAT-TAATAATTTATTAAATTTAAT
1 ACTATTAAATAATAATAT-ATAATTTATT-AATTTAAT
* *
28242 ACTA-TAATTAATAATATATTATTTATTAATTTAA
1 ACTATTAAATAATAATATATAATTTATTAATTTAA
28276 CATAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 7 0.23
36 19 0.61
37 5 0.16
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (36 bp):
ACTATTAAATAATAATATATAATTTATTAATTTAAT
Found at i:28411 original size:18 final size:18
Alignment explanation
Indices: 28388--28439 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
28378 AATTTATAAT
28388 AATATTATTAAATATTAA
1 AATATTATTAAATATTAA
* * *
28406 AATATTAGT-CATATT-T
1 AATATTATTAAATATTAA
28422 AATATTAATTAAATATTA
1 AATATT-ATTAAATATTA
28440 TTATAATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
16 6 0.23
17 7 0.27
18 13 0.50
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
AATATTATTAAATATTAA
Found at i:28469 original size:23 final size:22
Alignment explanation
Indices: 28419--28469 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
28409 ATTAGTCATA
*
28419 TTTAATATTAATTAAATATTAT
1 TTTAATATTAATTAAATAATAT
* *
28441 TATAATATATAATTAATTAATAT
1 TTTAATAT-TAATTAAATAATAT
28464 TTTAAT
1 TTTAAT
28470 TATTGACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTAATATTAATTAAATAATAT
Found at i:28654 original size:33 final size:36
Alignment explanation
Indices: 28611--28692 Score: 89
Period size: 37 Copynumber: 2.3 Consensus size: 36
28601 TGAAATATAT
* *
28611 TATTATTTATATATAGATTTT-TAAC-TTATAAT-AA
1 TATTA-TTATAAATAGATTTTAAAACATTATAATAAA
**
28645 TATTATTATAAATTTATTTTAAAACAATTATAATAAA
1 TATTATTATAAATAGATTTTAAAAC-ATTATAATAAA
28682 TATTATTATAA
1 TATTATTATAA
28693 TTTAAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 12 0.30
34 8 0.20
36 7 0.17
37 13 0.32
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.50
Consensus pattern (36 bp):
TATTATTATAAATAGATTTTAAAACATTATAATAAA
Found at i:28715 original size:17 final size:17
Alignment explanation
Indices: 28674--28731 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
28664 TAAAACAATT
28674 ATAATAAATATTATTATA
1 ATAATAAA-ATTATTATA
*
28692 AT-TTAAAATTATT-TAA
1 ATAATAAAATTATTAT-A
*
28708 ATAATAAAATAATTATA
1 ATAATAAAATTATTATA
*
28725 TTAATAA
1 ATAATAA
28732 GCAGTTGTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
15 1 0.03
16 9 0.27
17 20 0.61
18 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATAAAATTATTATA
Found at i:28810 original size:18 final size:18
Alignment explanation
Indices: 28753--28811 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
28743 ATATTTATAT
*
28753 TATTAATTA-TAAGTATA
1 TATTAATTATTAAGTAAA
*
28770 TCATTAAATTATGAAGTTAAA
1 T-ATT-AATTATTAAG-TAAA
28791 TATTAATTATTAAGTAAA
1 TATTAATTATTAAGTAAA
28809 TAT
1 TAT
28812 GATTTGTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
17 1 0.03
18 10 0.29
19 14 0.40
20 6 0.17
21 4 0.11
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (18 bp):
TATTAATTATTAAGTAAA
Found at i:29209 original size:20 final size:19
Alignment explanation
Indices: 29163--29210 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
29153 TTACCAATTT
*
29163 ATAATTA-AAGTTTATATT
1 ATAATTATAAGTTTATATA
29181 AT-ATT-TAAGTTTACTATA
1 ATAATTATAAGTTTA-TATA
29199 ATAATTATAAGT
1 ATAATTATAAGT
29211 AATTCTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 10 0.40
18 7 0.28
19 3 0.12
20 5 0.20
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (19 bp):
ATAATTATAAGTTTATATA
Done.