Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168042.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_294, 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: 37975
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Found at i:992 original size:180 final size:182
Alignment explanation
Indices: 395--1034 Score: 663
Period size: 181 Copynumber: 3.5 Consensus size: 182
385 ACAAAACTAT
* * * * *
395 TTCAAATCATTATGACTATTTGAATAATTATCTATTTGAAATTGTTATTACCTTTTGTTTTGTCA
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCA
* * * * * *
460 TAAAACAAATGTTTTTGTTCATATAAGTTTGTTTGGAATAAAATAATATTAATTTATTAATATTT
66 TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAAT-AAATAATATTAATTTATTAATATTT
* * * * *
525 CAAAAATTAATACA-TAAGAGATTTTAAAAATAAATATGTTTGCCAT-ACCAA-
130 CAAAAATTAATA-AGTAAGAGATTTAAAAAATGAATCTGTTTGACATGAACAAG
* * * * * * *
576 TTCAATTAGTTATAACTATTTGACCAAATATTTATTTCAAATTGTTATGACCATTTGTTTTATCA
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCA
* * * * *
641 TAAAACAATTGTTTCTGTTCATATAATCTTATTGGGAAGAAAGTAATGTTAATTTATTAATATTT
66 TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAATAAA-TAATATTAATTTATTAATATTT
** * * * * *
706 TGAAAATTAATAAGTAATG-GATTTAGAAAATGTATCT-TTTGGCTTG-ACCAG
130 CAAAAATTAATAAGTAA-GAGATTTAAAAAATGAATCTGTTTGACATGAACAAG
* * * * * ** *
757 TGCAAACAATTATGACTATTTGAATAATTATCTACTTCAAATCATTATGACCTTTTGTTTTCTCA
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCA
* * *
822 CAAAACAATTGTTTTTGTTCATACAAGCTTATTCAGAATAACATAAT-TCTAATTTATTAATA-T
66 TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAATAA-ATAATAT-TAATTTATTAATATT
*
885 TCAAAAATTAATAAGTGAGAGATTTAAAAAATGAATCTGTTT-AC-TGAACAAG
129 TCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGACATGAACAAG
* * * *
937 TTCAAATAATTATAACTATTTGAACAATTATCTAGTTCAAATTGCTATAACCTTTTGTATTGTCA
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCA
* *
1002 TAAAATAATT-TTTGCTATTCATACAAGCTTATT
66 TAAAACAATTGTTT-CTGTTCATACAAGCTTATT
1035 TCAAATTTGT
Statistics
Matches: 374, Mismatches: 74, Indels: 23
0.79 0.16 0.05
Matches are distributed among these distances:
179 6 0.02
180 129 0.34
181 237 0.63
182 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (182 bp):
TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCA
TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAATAAATAATATTAATTTATTAATATTTC
AAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGACATGAACAAG
Found at i:2818 original size:13 final size:13
Alignment explanation
Indices: 2800--2824 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2790 TATTAATTAG
2800 TAGTTTAATTAAA
1 TAGTTTAATTAAA
2813 TAGTTTAATTAA
1 TAGTTTAATTAA
2825 TATTTTATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAGTTTAATTAAA
Found at i:2826 original size:12 final size:12
Alignment explanation
Indices: 2792--2831 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
2782 AATAATATTA
*
2792 TTAATTAGTAGT
1 TTAATTAATAGT
2804 TTAATTAAATAGT
1 TTAATT-AATAGT
*
2817 TTAATTAATATT
1 TTAATTAATAGT
2829 TTA
1 TTA
2832 TGAGTAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (12 bp):
TTAATTAATAGT
Found at i:3033 original size:16 final size:16
Alignment explanation
Indices: 2991--3035 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
2981 ATTAATTTTT
2991 TAAATTTTAATAAATTA
1 TAAATTTT-ATAAATTA
* *
3008 TAAATATTATAAATTG
1 TAAATTTTATAAATTA
*
3024 TTAATTTTATAA
1 TAAATTTTATAA
3036 CAAATTATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TAAATTTTATAAATTA
Found at i:3060 original size:14 final size:14
Alignment explanation
Indices: 3041--3078 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
3031 TATAACAAAT
3041 TATTATAATTATT-A
1 TATTATAATT-TTGA
*
3055 TATTATAATTTTGT
1 TATTATAATTTTGA
3069 TATTATAATT
1 TATTATAATT
3079 GATAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 2 0.09
14 20 0.91
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
TATTATAATTTTGA
Found at i:3277 original size:31 final size:30
Alignment explanation
Indices: 3210--3277 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 30
3200 TAATAATAAG
3210 CTATAATTTATTAAGTAATATTAATAGTTA
1 CTATAATTTATTAAGTAATATTAATAGTTA
* *
3240 -TTTAATTGATATTAAGT-ATATTATTA-TATA
1 CTATAATT--TATTAAGTAATATTAATAGT-TA
3270 CTATAATT
1 CTATAATT
3278 ATTTACTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
29 7 0.23
30 10 0.32
31 14 0.45
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (30 bp):
CTATAATTTATTAAGTAATATTAATAGTTA
Found at i:3747 original size:17 final size:17
Alignment explanation
Indices: 3727--3777 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
3717 ATTTATAATC
3727 TATAAATAAATTAATAA
1 TATAAATAAATTAATAA
* *
3744 TAT-AATAACAATAATTAT
1 TATAAATAA-ATTAA-TAA
*
3762 TATATATAAATTAATA
1 TATAAATAAATTAATA
3778 GGTCATAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 5 0.19
17 9 0.33
18 9 0.33
19 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
TATAAATAAATTAATAA
Found at i:4366 original size:27 final size:26
Alignment explanation
Indices: 4336--4402 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 26
4326 GAATATATTG
4336 AATATATTAAAATTTATATATTATAAT
1 AATATATTAAAATTTATATATT-TAAT
4363 AATATA-T--AATTCTATATATTTAAT
1 AATATATTAAAATT-TATATATTTAAT
* *
4387 TATAAATTAAATATTT
1 AATATATTAAA-ATTT
4403 TATTTAATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
24 12 0.36
25 9 0.27
26 1 0.03
27 8 0.24
28 3 0.09
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (26 bp):
AATATATTAAAATTTATATATTTAAT
Found at i:4367 original size:25 final size:24
Alignment explanation
Indices: 4328--4386 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
4318 TTAGTAATGA
*
4328 ATATATTGAAT-ATATTAAAATT-T
1 ATATATTTAATAATA-TAAAATTCT
*
4351 ATATATTATAATAATATATAATTCT
1 ATATATT-TAATAATATAAAATTCT
4376 ATATATTTAAT
1 ATATATTTAAT
4387 TATAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 7 0.23
24 13 0.42
25 11 0.35
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
ATATATTTAATAATATAAAATTCT
Found at i:4485 original size:12 final size:12
Alignment explanation
Indices: 4449--4489 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
4439 TTAAACAATT
*
4449 ATTATTAATAACA
1 ATTATTAAT-ATA
4462 ATTATATAATATA
1 ATTAT-TAATATA
4475 ATTATTAATATA
1 ATTATTAATATA
4487 ATT
1 ATT
4490 GTTATAAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 10 0.38
13 12 0.46
14 4 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
ATTATTAATATA
Found at i:4509 original size:25 final size:24
Alignment explanation
Indices: 4466--4536 Score: 61
Period size: 26 Copynumber: 2.8 Consensus size: 24
4456 ATAACAATTA
* **
4466 TATAATATAATTATTAATATAATTGT
1 TATAAT-TAATT-TAAATATAATAAT
4492 TATAAGTTAATTTAAATAATAATAAT
1 TATAA-TTAATTTAAAT-ATAATAAT
* *
4518 TATTATTATTTTAAATATA
1 TATAATTAATTTAAATATA
4537 GTTTAATCGG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 3 0.08
25 14 0.37
26 20 0.53
27 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (24 bp):
TATAATTAATTTAAATATAATAAT
Found at i:4842 original size:28 final size:29
Alignment explanation
Indices: 4787--4845 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
4777 ATATAGTAGT
* *
4787 TTTAAATATAATATATTTTTTAATTATAA
1 TTTAAATATAATATATTTATTAACTATAA
4816 TTTAAA-ATAATATATATTATT-ACTATAA
1 TTTAAATATAATATAT-TTATTAACTATAA
4844 TT
1 TT
4846 ATTTTAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (29 bp):
TTTAAATATAATATATTTATTAACTATAA
Found at i:5321 original size:13 final size:15
Alignment explanation
Indices: 5286--5338 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 15
5276 ACTAATAAAT
5286 ATATTATTTAATATATCA
1 ATATTATTTAA-AT-T-A
5304 ATATTA-TT-AATTA
1 ATATTATTTAAATTA
5317 ATATTATTTAAATTA
1 ATATTATTTAAATTA
5332 TATATTA
1 -ATATTA
5339 AATTATCTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.22
14 3 0.09
15 7 0.22
16 7 0.22
17 2 0.06
18 6 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTATTTAAATTA
Found at i:5692 original size:21 final size:19
Alignment explanation
Indices: 5668--5708 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
5658 TAATAAATGT
5668 TATAATTATATTTGATTAATA
1 TATAATTATATTT-A-TAATA
*
5689 TATAATTTTATTTATAATA
1 TATAATTATATTTATAATA
5708 T
1 T
5709 GTTAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TATAATTATATTTATAATA
Found at i:7563 original size:21 final size:21
Alignment explanation
Indices: 7533--7574 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7523 ATTAAATCTA
*
7533 ATTTATTTATATAA-TTAAAAT
1 ATTTACTTAT-TAATTTAAAAT
7554 ATTTACTTATTAATTTAAAAT
1 ATTTACTTATTAATTTAAAAT
7575 TAAAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTACTTATTAATTTAAAAT
Found at i:8680 original size:23 final size:24
Alignment explanation
Indices: 8643--8702 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
8633 AACTAATTAA
8643 ATTA-ATA-AATA-ATATAAA-AT
1 ATTATATATAATATATATAAATAT
*
8663 ATTATATATAATATATATAAATGT
1 ATTATATATAATATATATAAATAT
*
8687 ATTATAT-TAAGATATA
1 ATTATATATAATATATA
8703 AATTATAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 4 0.12
21 3 0.09
22 4 0.12
23 15 0.44
24 8 0.24
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (24 bp):
ATTATATATAATATATATAAATAT
Found at i:8733 original size:23 final size:22
Alignment explanation
Indices: 8703--8745 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
8693 TTAAGATATA
*
8703 AATTATAATTAAAATTATAACT
1 AATTATAAATAAAATTATAACT
*
8725 AATTAATAAATAAACTTATAA
1 AATT-ATAAATAAAATTATAA
8746 TATAACTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (22 bp):
AATTATAAATAAAATTATAACT
Found at i:9115 original size:13 final size:15
Alignment explanation
Indices: 9097--9128 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
9087 ATATTACAAC
9097 TATATTTTT-G-TAT
1 TATATTTTTAGTTAT
9110 TATATTTTTAGTTAT
1 TATATTTTTAGTTAT
9125 TATA
1 TATA
9129 ATATAATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 1 0.06
15 7 0.41
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (15 bp):
TATATTTTTAGTTAT
Found at i:9725 original size:19 final size:19
Alignment explanation
Indices: 9701--9739 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9691 TTAATATACA
*
9701 ATTAATCTAATAAAATAAT
1 ATTAATATAATAAAATAAT
* *
9720 ATTAATATATTATAATAAT
1 ATTAATATAATAAAATAAT
9739 A
1 A
9740 AATTAATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTAATATAATAAAATAAT
Found at i:10215 original size:26 final size:24
Alignment explanation
Indices: 10182--10246 Score: 76
Period size: 26 Copynumber: 2.6 Consensus size: 24
10172 TTAATGCATT
*
10182 AATTATAATATAATATTTTATAAA
1 AATTATAATATAATATTATATAAA
* * *
10206 AATTAGATAATATATTATTATATGAT
1 AATT--ATAATATAATATTATATAAA
10232 AATTATAATATAATA
1 AATTATAATATAATA
10247 ATAATTATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 14 0.41
26 20 0.59
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (24 bp):
AATTATAATATAATATTATATAAA
Found at i:10266 original size:17 final size:18
Alignment explanation
Indices: 10183--10266 Score: 63
Period size: 17 Copynumber: 4.8 Consensus size: 18
10173 TAATGCATTA
10183 ATTATA-ATATAAT-ATT
1 ATTATATATATAATAATT
* *
10199 -TTATAAAAATTAGATAATAT
1 ATTATATATA-TA-ATAAT-T
*
10219 ATTAT-TATATGATAATT
1 ATTATATATATAATAATT
*
10236 ATAATATA-ATAATAATT
1 ATTATATATATAATAATT
10253 ATTATATATA-AATA
1 ATTATATATATAATA
10267 TAAGATTTGA
Statistics
Matches: 53, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
15 5 0.09
16 2 0.04
17 26 0.49
18 10 0.19
19 3 0.06
20 3 0.06
21 4 0.08
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTATATATATAATAATT
Found at i:10964 original size:7 final size:6
Alignment explanation
Indices: 10931--10977 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
10921 ATTATATTGT
10931 TTATAA TTATAA TTTATAA TTA-AA TTAATAA TTAT-- TTATAA TTATAA
1 TTATAA TTATAA -TTATAA TTATAA TT-ATAA TTATAA TTATAA TTATAA
10978 ACAGTCAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
4 4 0.11
5 4 0.11
6 18 0.50
7 10 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTATAA
Found at i:11321 original size:181 final size:178
Alignment explanation
Indices: 11017--12097 Score: 852
Period size: 177 Copynumber: 6.0 Consensus size: 178
11007 TGAAAAAGTA
* * * * * * **
11017 AATTTGTTTACCGATCAAGTTTAAATAGCTATGACTATTTGAACAATTATTTATTTAAAA-TCGT
1 AATTTGTTTACTGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATTATT
** * * *
11081 -TGACCTTTTGTTTTAACAAAAAACAATTGTTTCAGTTCATACAAGCTTATCCAAAATAAAATAA
66 ATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTCGAAATAAAATAA
* *
11145 TACTAATTTCTTAATATTTGAAAAATTAATAAGTAAGATTTAAAAAAAATT
131 TACTAATTTATTAATATTTCAAAAATTAATAAGT-AGATTT--AAAAAATT
* * *
11196 AATTTGTTTACTGAACAAATTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATT
1 AATTTGTTTACTGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATTATT
* *
11261 ATGACCTTTTGTTTTATCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTGAAATAAAATAA
66 ATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTCGAAATAAAATAA
** * *
11326 TTGTAATTTATTAATATTCCAAAAATTACTAAGT-GATTTAAAAAA-T
131 TACTAATTTATTAATATTTCAAAAATTAATAAGTAGATTTAAAAAATT
* ** * * * * *
11372 AATTCTATTTACTGAATTAGTTCAAATAATTATGGCTATTTCAACAATTATCTATTTGAAATTAA
1 AATT-TGTTTACTGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATTAT
* * * **
11437 TATTACCTTTTGTTTGGTCATATAACAATTGTTT-TTTATCATACAAGC---TTC-AGAATAAAA
65 TATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAGT-TCATACAAGCTTATTCGA-AATAAAA
* * *
11497 TAATACTAATTTATTAATCTTTCAAACATTAATAAGTAAGAAATTTAAAAAATA
128 TAATACTAATTTATTAATATTTCAAAAATTAATAAGT-AG--ATTTAAAAAATT
* * * * * *
11551 AATTTATTTATTGAACCCGTTTAAGTTGTTATGACTATTTGAACAAATGTA-C-AGTTTAAATAA
1 AATTTGTTTACTGAACCAGTTCAAATAGTTATGACTATTTGAAC-AAT-TATCTA-TTT-AA-AA
* * * *
11614 GTTATTTAAAAAATAAACCTTTTTTGTTCTGTCATAAAGCAATT-ATTCATGTTCATACAAGCTT
61 -TTA-TT-----AT-GACC--TTTTGTTTTGTCATAAAACAATTGTTTCA-GTTCATACAAGCTT
* * * * * * *
11678 ATTCGAAACAAAATGATACTAATCTAATAATA-CTCTGAAAATTAATAATTAAGAGATTTAAAAA
115 ATTCGAAATAAAATAATACTAATTTATTAATATTTC-AAAAATTAATAAGT---AGATTTAAAAA
* *
11742 GTA
176 ATT
* * * * *
11745 AATTTGTTTACT-ATACCAGTTTAAATAGTTAAGACTATATGAACAATTATCTATTTTAAATTGT
1 AATTTGTTTACTGA-ACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATTAT
* * * * * * *
11809 TATGACCTTTAGTTTTGTAATAAAATAATTTTTTCAATTCATACTAGCTTATTCAAAATAAAATA
65 TATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTCGAAATAAAATA
* * **
11874 A-AATGAATTTATTAATATTTTAAAAATTAATAAG-AGATTTAACCAA-T
130 ATACT-AATTTATTAATATTTCAAAAATTAATAAGTAGATTTAAAAAATT
* * * * ** * * *
11921 ATTTCTGCTTACCT-AACCAGTTCAAATAATTATGATTATTCAAACAATTATTTATTTCAAATAA
1 AATT-TGTTTA-CTGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATTA
* * ** * * * * *
11985 TTATGACATTTTGTTTTGTCATAAAACAAATGTTTTTGTCCATATAAGTTTGTTC-AGAATAAAT
64 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTCGA-AATAAAA
* * *
12049 TAATACTACTTTATTAATATTTTAAAAATTAATAA-TAGATCTAAAAAAT
128 TAATACTAATTTATTAATATTTCAAAAATTAATAAGTAGATTTAAAAAAT
12098 AAATCTTTTT
Statistics
Matches: 716, Mismatches: 140, Indels: 93
0.75 0.15 0.10
Matches are distributed among these distances:
173 1 0.00
174 40 0.06
176 11 0.02
177 234 0.33
178 46 0.06
179 70 0.10
180 6 0.01
181 153 0.21
182 8 0.01
183 4 0.01
184 2 0.00
188 2 0.00
189 5 0.01
190 4 0.01
191 31 0.04
192 4 0.01
193 10 0.01
194 82 0.11
195 1 0.00
196 2 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (178 bp):
AATTTGTTTACTGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATTATT
ATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTCGAAATAAAATAA
TACTAATTTATTAATATTTCAAAAATTAATAAGTAGATTTAAAAAATT
Found at i:11964 original size:18 final size:19
Alignment explanation
Indices: 11941--11990 Score: 70
Period size: 17 Copynumber: 2.8 Consensus size: 19
11931 ACCTAACCAG
11941 TTCAAATAATTATGATTA-
1 TTCAAATAATTATGATTAT
*
11959 TTCAAACAATTAT--TTAT
1 TTCAAATAATTATGATTAT
11976 TTCAAATAATTATGA
1 TTCAAATAATTATGA
11991 CATTTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 3 0.11
17 12 0.44
18 12 0.44
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (19 bp):
TTCAAATAATTATGATTAT
Found at i:12641 original size:15 final size:15
Alignment explanation
Indices: 12623--12654 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
12613 CTAATATTCC
*
12623 AAAATTTAATAAGTA
1 AAAATTTAATAAATA
12638 AAAATTTAATAAATA
1 AAAATTTAATAAATA
12653 AA
1 AA
12655 TTTGTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAATTTAATAAATA
Found at i:12737 original size:109 final size:109
Alignment explanation
Indices: 12546--12771 Score: 339
Period size: 109 Copynumber: 2.1 Consensus size: 109
12536 GTTATGACCT
* * * *
12546 TTTGTTTTGTCATAAAATAATTGTTTTTGTTCATACAAGCTTATTTCGAATAAAATAATTAAATT
1 TTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCCAAATAAAATAATTAAATT
*
12611 AACTAATATTCCAAAATTTAATAAGTAAAAA-TTTAATAAATAAA
66 AACTAATATTCCAAAATTTAATAAGCAAAAATTTTAA-AAATAAA
* *
12655 TTTGTTTTGTGATAAACCAATTGTTTCTG-TCTATACAAGCTTATTCCAAATAAAATAATTAAAT
1 TTTGTTTTGTCATAAAACAATTGTTTCTGTTC-ATACAAGCTTATTCCAAATAAAATAATTAAAT
* *
12719 TTATTAATATTCCAAAATTTAATAAGCAAAAATTTTAAAAATAAA
65 TAACTAATATTCCAAAATTTAATAAGCAAAAATTTTAAAAATAAA
12764 TTTGTTTT
1 TTTGTTTT
12772 TTGAACATGT
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
108 2 0.02
109 99 0.93
110 5 0.05
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (109 bp):
TTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCCAAATAAAATAATTAAATT
AACTAATATTCCAAAATTTAATAAGCAAAAATTTTAAAAATAAA
Found at i:13043 original size:180 final size:180
Alignment explanation
Indices: 12655--14024 Score: 1031
Period size: 180 Copynumber: 7.7 Consensus size: 180
12645 AATAAATAAA
* * * * *
12655 TTTGTTTTGTGATAAACCAATTGTTTCTGTCTATACAAGCTTATTCCAAATAAAATAAT--TAAA
1 TTTGTTTTGTCATAAAACAATTGTTTCTATCTATATAAGCTTATTCAAAATAAAATAATACT-AA
* * * * * ** * *
12718 TTTATTAATATTCCAAAATTTAATAAGCAA-AAATTTTAAAAATAAATTTGTTTTTTGAACATGT
65 TTTATTAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAATCTGTTTACTAAACAAGT
* * *
12782 TCGAATAGATCTAACTATTTGAACAATTATCTATTTCAAATAATTATGA-CAT
130 TCAAATAGTTATAACTATTTGAACAATTATCTATTTCAAAT-ATTATGATC-T
* * * * *
12834 TTTCTTTTGTGATGAACCAATTATTTCTATCTATATAAGCTTATTCAAAATAAAATAATACTAAT
1 TTTGTTTTGTCATAAAACAATTGTTTCTATCTATATAAGCTTATTCAAAATAAAATAATACTAAT
* * * * * *
12899 TTAGTAATATTCCAACAATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTA-TAAAATAAGC
66 TTATTAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAATCTGTTTACT-AAACAAG-
* * *
12963 TT-AAATAGTTATAACTGTTTGAACAATT-TTTATTTCTAATAGTTATGATCT
129 TTCAAATAGTTATAACTATTTGAACAATTATCTATTTCAAATA-TTATGATCT
* * *
13014 TTTGTTTTGTCATAAAACAATTGTTTCTAT-TCATACAAGTTTATTCAAAATAAAATAATACTAC
1 TTTGTTTTGTCATAAAACAATTGTTTCTATCT-ATATAAGCTTATTCAAAATAAAATAATACTAA
*** * * * * *
13078 TTTATTAATATTTTGTAAATTAATAGGTAGGAGATTTAAAAAATAAATTTGTTTACTGAACAAGT
65 TTTATTAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAATCTGTTTACTAAACAAGT
* ** * * * * *
13143 TCAAATAGTCATGTCCATTAGAACAATTATCTATTTTAAATTGTTATGACCT
130 TCAAATAGTTATAACTATTTGAACAATTATCTATTTCAAA-TATTATGATCT
* * * * **
13195 TATATTTTGTCATAAAACAATTGTTT-T-TGT-TCATACAGAATTATTCAAAATAAAATAATTTT
1 TTTGTTTTGTCATAAAACAATTGTTTCTATCTAT-ATA-AG-CTTATTCAAAATAAAATAATACT
* ** * * *
13257 GATTTATTAATATTTTGAAAATTAAT----AAGAGATTTAAAAACTAAATCTATTTACTAAACCA
63 AATTTATTAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAATCTGTTTACTAAACAA
* * **
13318 GTTCAAATAGTTA-GACTATTTGAACAATTATCTATCTCAAATCAAAATGATC-
128 GTTCAAATAGTTATAACTATTTGAACAATTATCTATTTCAAAT-ATTATGATCT
* * * * * * * *
13370 TTTATTTTGTCATACAACAATTGTTTCCTTTC-ATACAAGCTTATTCGAATTAAAATGATATTAA
1 TTTGTTTTGTCATAAAACAATTGTTT-CTATCTATATAAGCTTATTCAAAATAAAATAATACTAA
* * * *
13434 TTTAATAATATTTCAAAAATTAAT----AAGAGATTTAAAAAATAAATATG-TTAGCCAAACTAG
65 TTTATTAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAATCTGTTTA-CTAAACAAG
* ** * *
13494 TTCAAATATTTA-AGACTATCAGAATAATTATCTATTTCAAATCATTCT-ATCCT
129 TTCAAATAGTTATA-ACTATTTGAACAATTATCTATTTCAAAT-ATTATGAT-CT
* * ***
13547 TTTGTTTAGTCATAAAACAATTATTTC-AGT-TCAT-TCAAGCTTATTTGGAATAAAATAATACT
1 TTTGTTTTGTCATAAAACAATTGTTTCTA-TCT-ATAT-AAGCTTATTCAAAATAAAATAATACT
* * *
13609 AATTTATTAATA-TTCAAAAAATAA-AAGCAAGAGATTGAAAAAAATAAATCTGTTTACTGAACA
63 AATTTATTAATATTTCAAAAATTAATAAGCAAGAGATT-TAAAAAATAAATCTGTTTACTAAACA
* * * * * *
13672 ATTTCAAATAGATATGA-TAATTTAAACAATTATCTATTTAAAACTATTTTGA-CAT
127 AGTTCAAATAGTTATAACT-ATTTGAACAATTATCTATTTCAAA-TATTATGATC-T
* * *
13727 TTTGTTTTGTCATAAAACAATTGTTTC-AGT-TAATAAAAACTTATAT-GAAATAAAATAATACT
1 TTTGTTTTGTCATAAAACAATTGTTTCTA-TCT-ATATAAGCTTAT-TCAAAATAAAATAATACT
* * * * * *
13789 ACTTTATTAATATTTCAAAAATTATTAAGCAAGAGATTTAAAAACTAAAGCCGTTT-TTCAAAGC
63 AATTTATTAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAATCTGTTTACT-AAA-C
** * ** * * *
13853 -AGTTCTGATAGTTATAATTATTTGAACAAACAT-TAATCTCAAATCATTGTAATC-
126 AAGTTCAAATAGTTATAACTATTTGAACAATTATCT-ATTTCAAAT-ATTATGATCT
* * * * * * *
13907 TTTGTTTTGTCATAACATAATTATTTTTTATC-ATATAAGCTGATT-TAGATAAAAATAATACTA
1 TTTGTTTTGTCATAAAACAATT-GTTTCTATCTATATAAGCTTATTCAAAAT-AAAATAATACTA
* * * *
13970 ATTTAATAATATTTTAAAAATTAATAAGTAAGAGATTTAAAAAATAAATATGTTT
64 ATTTATTAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAATCTGTTT
14025 GTCGATCAGT
Statistics
Matches: 958, Mismatches: 179, Indels: 107
0.77 0.14 0.09
Matches are distributed among these distances:
174 3 0.00
175 105 0.11
176 71 0.07
177 100 0.10
178 3 0.00
179 74 0.08
180 381 0.40
181 202 0.21
182 19 0.02
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
TTTGTTTTGTCATAAAACAATTGTTTCTATCTATATAAGCTTATTCAAAATAAAATAATACTAAT
TTATTAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATAAATCTGTTTACTAAACAAGTT
CAAATAGTTATAACTATTTGAACAATTATCTATTTCAAATATTATGATCT
Found at i:13603 original size:352 final size:359
Alignment explanation
Indices: 12659--13837 Score: 852
Period size: 361 Copynumber: 3.3 Consensus size: 359
12649 AATAAATTTG
* * * *
12659 TTTTGTGATAAACCAATTGTTTCT-GTCTATACAAGCTTATTCCAAATAAAATAAT--TAAATTT
1 TTTTGTCATAAAACAATTGTTTCTATTC-ATACAAGCTTATTCAAAATAAAATAATACT-AATTT
* * * * * * * **** * *
12721 ATTAATATTCCAAAATTTAATA-AGCAAAAATTTTAAAAATAAATTTGTTTTTTGAACATGTTCG
64 AATAATATTTCAAAAATTAATAGAG--GAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCA
* * ** * * * * * * *
12785 AATAGATCTA-ACTATTTGAACAATTATCTATTTCAAATAATTATGACATTTTCTTTTGTGATGA
127 AATAG-TCAAGACCATCAGAACAATTATCTATTTCAAATCATTATGACCTTATATTTAGTCATAA
* * * *
12849 ACCAATTATTTC--TATCTATATA-AGCTTATTCAAAATAAAATAATACTAATTTAGTAATATTC
191 AACAATTATTTCAGT-TC-ATACAGA-ATTATTCAAAATAAAATAATACTAATTTATTAATATT-
* * * * * * * *
12911 CAACAATTAATAAGTAAAAGATT-TAAAAAATAAATCTGTTTA-TAAAATAAGCTT-AAATAGTT
252 CAAAAAATAA-AAGCAAGAGATTGAAAAAAATAAATCTATTTACT-AAACAAG-TTCAAATAGAT
* * * * * * ** *
12973 ATAACT-GTTTGAACAATT-TTTATTTCTAAT-AGTTATGATCTTTTG
314 ATGA-TAATTTAAACAATTATCTATCTCAAATCA-AAATGATCTTTTA
* * *
13018 TTTTGTCATAAAACAATTGTTTCTATTCATACAAGTTTATTCAAAATAAAATAATACTACTTTAT
1 TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCAAAATAAAATAATACTAATTTAA
*** * **
13083 TAATATTTTGTAAATTAATAGGTAGGAGATTTAAAAAATAAATTTGTTTACTGAACAAGTTCAAA
66 TAATATTTCAAAAATTAATA-G-AGGAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAA
* * * * ** *
13148 TAGTCATGTCCATTAGAACAATTATCTATTTTAAATTGTTATGACCTTATATTTTGTCATAAAAC
129 TAGTCAAGACCATCAGAACAATTATCTATTTCAAATCATTATGACCTTATATTTAGTCATAAAAC
* ** ** * ***
13213 AATTGTTTTTGTTCATACAGAATTATTCAAAATAAAATAATTTTGATTTATTAATATTTTGAAAA
194 AATTATTTCAGTTCATACAGAATTATTCAAAATAAAATAATACTAATTTATTAATATTCAAAAAA
* * * * * *
13278 T-TAA-TAAGAGATT-TAAAAACTAAATCTATTTACTAAACCAGTTCAAATAGTTA-GACT-ATT
259 TAAAAGCAAGAGATTGAAAAAAATAAATCTATTTACTAAACAAGTTCAAATAGATATGA-TAATT
*
13338 TGAACAATTATCTATCTCAAATCAAAATGATC-TTTA
323 TAAACAATTATCTATCTCAAATCAAAATGATCTTTTA
* * * * *
13374 TTTTGTCATACAACAATTGTTTCCT-TTCATACAAGCTTATTCGAATTAAAATGATATTAATTTA
1 TTTTGTCATAAAACAATTGTTT-CTATTCATACAAGCTTATTCAAAATAAAATAATACTAATTTA
*
13438 ATAATATTTCAAAAATTAATA-A-GAGATTTAAAAAATAAATATG-TTAGCCAAACTAGTTCAAA
65 ATAATATTTCAAAAATTAATAGAGGAGATTTAAAAAATAAATATGTTTA-CCAAACAAGTTCAAA
* * * * * * *
13500 TATTTAAGACTATCAGAATAATTATCTATTTCAAATCATTCT-ATCCTTTTGTTTAGTCATAAAA
129 TAGTCAAGACCATCAGAACAATTATCTATTTCAAATCATTATGA-CCTTATATTTAGTCATAAAA
* * ***
13564 CAATTATTTCAGTTCATTCA-AGCTTATTTGGAATAAAATAATACTAATTTATTAATATTCAAAA
193 CAATTATTTCAGTTCATACAGA-ATTATTCAAAATAAAATAATACTAATTTATTAATATTCAAAA
* * *
13628 AATAAAAGCAAGAGATTGAAAAAAATAAATCTGTTTACTGAACAATTTCAAATAGATATGATAAT
257 AATAAAAGCAAGAGATTGAAAAAAATAAATCTATTTACTAAACAAGTTCAAATAGATATGATAAT
* * *** *
13693 TTAAACAATTATCTAT-TTAAAACTATTTTGA-CATTTTG
322 TTAAACAATTATCTATCTCAAATC-AAAATGATC-TTTTA
* * * * *
13731 TTTTGTCATAAAACAATTGTTTC-AGTTAATAAAAACTTATAT-GAAATAAAATAATACTACTTT
1 TTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTAT-TCAAAATAAAATAATACTAATTT
* * * *
13794 ATTAATATTTCAAAAATTATTAAGCAAGAGATTTAAAAACTAAA
64 AATAATATTTCAAAAATTAAT-AG-AGGAGATTTAAAAAATAAA
13838 GCCGTTTTTC
Statistics
Matches: 658, Mismatches: 129, Indels: 64
0.77 0.15 0.08
Matches are distributed among these distances:
351 5 0.01
352 131 0.20
353 3 0.00
354 8 0.01
355 40 0.06
356 114 0.17
357 128 0.19
358 6 0.01
359 47 0.07
360 29 0.04
361 141 0.21
362 3 0.00
363 3 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (359 bp):
TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCAAAATAAAATAATACTAATTTAA
TAATATTTCAAAAATTAATAGAGGAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATA
GTCAAGACCATCAGAACAATTATCTATTTCAAATCATTATGACCTTATATTTAGTCATAAAACAA
TTATTTCAGTTCATACAGAATTATTCAAAATAAAATAATACTAATTTATTAATATTCAAAAAATA
AAAGCAAGAGATTGAAAAAAATAAATCTATTTACTAAACAAGTTCAAATAGATATGATAATTTAA
ACAATTATCTATCTCAAATCAAAATGATCTTTTA
Found at i:14642 original size:31 final size:31
Alignment explanation
Indices: 14581--14642 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
14571 TTTTAAACTT
**
14581 TATTAATCTATTAAATCAATTTTATTTATTA
1 TATTAATCTATTAAATCAATTTTACATATTA
14612 TATTAATCTA-TAAAT-AATATTATACATATTA
1 TATTAATCTATTAAATCAAT-TT-TACATATTA
14643 CAATAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 3 0.11
30 7 0.26
31 17 0.63
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (31 bp):
TATTAATCTATTAAATCAATTTTACATATTA
Found at i:15799 original size:15 final size:14
Alignment explanation
Indices: 15779--15823 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
15769 TAATTTTTAG
15779 TAATTAGTATATTAA
1 TAATTA-TATATTAA
15794 TAATTATAATATT-A
1 TAATTAT-ATATTAA
15808 TAATTATA-ATTAA
1 TAATTATATATTAA
15821 TAA
1 TAA
15824 ATTAAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.11
13 5 0.18
14 9 0.32
15 11 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
TAATTATATATTAA
Found at i:15812 original size:14 final size:15
Alignment explanation
Indices: 15787--15817 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
15777 AGTAATTAGT
15787 ATATTAATAATTATA
1 ATATTAATAATTATA
15802 ATATT-ATAATTATA
1 ATATTAATAATTATA
15816 AT
1 AT
15818 TAATAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATTAATAATTATA
Found at i:15826 original size:14 final size:14
Alignment explanation
Indices: 15789--15837 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
15779 TAATTAGTAT
15789 ATTAAT-AATTATA
1 ATTAATAAATTATA
*
15802 A-TATTATAATTATA
1 ATTAATA-AATTATA
15816 ATTAATAAATTA-A
1 ATTAATAAATTATA
15829 ATTATATAA
1 ATTA-ATAA
15838 TAGTATTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 3 0.10
13 6 0.20
14 17 0.57
15 4 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTAATAAATTATA
Found at i:15836 original size:27 final size:29
Alignment explanation
Indices: 15779--15843 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 29
15769 TAATTTTTAG
15779 TAATTAGTATATTAATAATTATAATATTA
1 TAATTAGTATATTAATAATTATAATATTA
15808 TAATTA-TA-ATTAATAAATTA-AAT-TATA
1 TAATTAGTATATTAAT-AATTATAATAT-TA
15835 TAA-TAGTAT
1 TAATTAGTAT
15844 TAGTTTTACC
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
26 3 0.09
27 16 0.50
28 7 0.22
29 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (29 bp):
TAATTAGTATATTAATAATTATAATATTA
Found at i:16021 original size:13 final size:13
Alignment explanation
Indices: 15998--16031 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
15988 TAAATATTAG
15998 TATTATGAATTAAA
1 TATTAT-AATTAAA
*
16012 TATTATAATTTAA
1 TATTATAATTAAA
16025 TATTATA
1 TATTATA
16032 TTCATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TATTATAATTAAA
Found at i:16602 original size:181 final size:179
Alignment explanation
Indices: 16277--16602 Score: 377
Period size: 181 Copynumber: 1.8 Consensus size: 179
16267 TCAAAATATT
* * * * * *
16277 ATTAGTATTATTTTAATCCAATAAACTTGTACGAACAAAACAATTGTTTTATGTTAAAAGAAAAT
1 ATTAGTATTATTTTAATCAAATAAAATAGTACGAACAAAACAATTGTTTGATGATAAAAGAAAAG
* * * ** **
16342 GTCATAACGATTTGAAATAGATAATCATTCATAGAGTCTTAACTATTTAAACTGGTTCGATAATT
66 GTCATAACGATTTAAAATAAATAATCATTCAAAGAGTCAAAACTATTTAAACTGGTTCGATAAGC
16407 AAATTTATTTTTTAATTTTCTTGGTTATTAAGTTTCAAAATATTATTAA
131 AAATTTATTTTTTAATTTTCTTGGTTATTAAGTTTCAAAATATTATTAA
* * * * *
16456 ATTAGTATTATTTTATTCTAAATAAAATAGTATGAATAGAACCAATTGTTTGATGATAAAATAAA
1 ATTAGTATTATTTTAATC-AAATAAAATAGTACGAACA-AAACAATTGTTTGATGATAAAAGAAA
* * * * * *
16521 AGGTTATAACGATTTAAAATAAATAATTATTGAAATAGTCAAAACTATTTGAAA-TGGTTTGGTA
64 AGGTCATAACGATTTAAAATAAATAATCATTCAAAGAGTCAAAACTATTT-AAACTGGTTCGATA
*
16585 AGCAGATTT-TCTTTTTAA
128 AGCAAATTTAT-TTTTTAA
16603 ATCTCTTATA
Statistics
Matches: 118, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
179 17 0.14
180 15 0.13
181 83 0.70
182 3 0.03
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.40
Consensus pattern (179 bp):
ATTAGTATTATTTTAATCAAATAAAATAGTACGAACAAAACAATTGTTTGATGATAAAAGAAAAG
GTCATAACGATTTAAAATAAATAATCATTCAAAGAGTCAAAACTATTTAAACTGGTTCGATAAGC
AAATTTATTTTTTAATTTTCTTGGTTATTAAGTTTCAAAATATTATTAA
Found at i:17406 original size:181 final size:180
Alignment explanation
Indices: 17071--17872 Score: 758
Period size: 181 Copynumber: 4.4 Consensus size: 180
17061 TAATTTTTGA
* * * * * * * * *
17071 AATATTAATAAATTAATATTATTTTATTTCAAACAAACTTCTATGAATAAAAACATTTGTTTTAT
1 AATATTAATAAATTAGTATTATTTTATTTTAAATAAGCTTGTATGAAGATAAACAATTATTTTAT
* * * * *
17136 GACAAAAACAAAAGGTTATAACGATTTGAAATAGATAATTATTCATATAGCCTTAACTATTTGAA
66 GAC-AAAACAAAA-GTTATAATGATTTGAAATAGATAATTGTTCAAATAGCCATAATTATTTGAA
* * * * * *
17201 TTGGTTCGGTAAACAAATTTATTTTTTAAATTTATCAGTTATTAAATTTCAT
129 CTGATTCGATAAACAAATTTATTTTTTAAATCTCTCACTTATTAAATTTCAT
* * * *
17253 AATATTACTAGATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAGATAAATAATTATTTTAT
1 AATATTAATAAATTAGTATTATTTTATTTTAAATAAGCTTGTATGAAGATAAACAATTATTTTAT
* * *
17318 GACAAAACAAAATGTTATAATGATTGGAAATATATAATTGTTCAAATAGTCATAATTATTTGAAC
66 GACAAAACAAAA-GTTATAATGATTTGAAATAGATAATTGTTCAAATAGCCATAATTATTTGAAC
*
17383 TGATTCGATAAACAAATTTATTTTTTAAATCTC-CTACTTATTAATTTTTCA-
130 TGATTCGATAAACAAATTTATTTTTTAAATCTCTC-ACTTATTAA-ATTTCAT
* * * * *
17434 AATATTAATAAGTTAGTATTATTTTATTCTAAATAGGCTTGTATGATGAAAAACAATTATTTTAT
1 AATATTAATAAATTAGTATTATTTTATTTTAAATAAGCTTGTATGAAGATAAACAATTATTTTAT
* * *
17499 GACAAAACAAAAGTTCATAATGATTTGAAATAAATAATTGTTTAAATGGCCATAATTATTTGAAC
66 GACAAAACAAAAGTT-ATAATGATTTGAAATAGATAATTGTTCAAATAGCCATAATTATTTGAAC
* * * * * * *
17564 TGATTTGATAAACTAATTTATGTTTTAAATCTCTAACTTATCAATTTTTAT
130 TGATTCGATAAACAAATTTATTTTTTAAATCTCTCACTTATTAAATTTCAT
* * * * * * * *
17615 AATAGTAATAAAGTAATATTATTTTATTTCATATAAGCCTT-TATGAA-CTGGAACAATTGTTTT
1 AATATTAATAAATTAGTATTATTTTATTTTAAATAAG-CTTGTATGAAGAT-AAACAATTATTTT
* * * * * * ** * *
17678 ATGATAAAATATAAGATCATAGTGATTTTAAATAGATAATTGTTCAAATAGTTAAAAATATTTGA
64 ATGACAAAACAAAAG-TTATAATGATTTGAAATAGATAATTGTTCAAATAGCCATAATTATTTGA
* * * * * **
17743 ACTTG-TTCGGTAAATAGATTT-TTTTTCT-AATTTCTTACTTATT-AATTTTTT
128 AC-TGATTCGATAAACAAATTTATTTTT-TAAATCTCTCACTTATTAAATTTCAT
* * * * *
17794 GAATGTTAATAAATTAGTATTATTTTATTTTCAATAAGCATGTATG-AGTTGAAGCAATTATTTT
1 -AATATTAATAAATTAGTATTATTTTATTTTAAATAAGCTTGTATGAAGAT-AAACAATTATTTT
*
17858 ATGACCAAACAAAAG
64 ATGACAAAACAAAAG
17873 GTCAAAACAA
Statistics
Matches: 505, Mismatches: 102, Indels: 28
0.80 0.16 0.04
Matches are distributed among these distances:
179 9 0.02
180 82 0.16
181 348 0.69
182 66 0.13
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (180 bp):
AATATTAATAAATTAGTATTATTTTATTTTAAATAAGCTTGTATGAAGATAAACAATTATTTTAT
GACAAAACAAAAGTTATAATGATTTGAAATAGATAATTGTTCAAATAGCCATAATTATTTGAACT
GATTCGATAAACAAATTTATTTTTTAAATCTCTCACTTATTAAATTTCAT
Found at i:17680 original size:362 final size:359
Alignment explanation
Indices: 17056--17872 Score: 860
Period size: 362 Copynumber: 2.3 Consensus size: 359
17046 TATTAAATCT
* * * * *
17056 CTTATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTTCAAACAAACTTCTATGAAT-A
1 CTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTT-AAATAAGCTTGTATG-ATGA
* * * *
17120 AAAACATTTGTTTTATGACAAAAACAAAAGGTTATAACGATTTGAAATAGATAATTATTCATATA
64 AAAACAATTATTTTATGAC-AAAACAAAA-GTTATAACGATTTGAAATAAATAATTATTCAAATA
* * * * * * * * *
17185 GCCTTAACTATTTGAATTGGTTCGGTAAACAAATTTATTTTTTAAATTTATCAGTTATTAAATTT
127 GCCATAACTATTTGAACTGATTCGATAAACAAATTTATGTTTTAAATCTATAACTTATCAAATTT
* * * * * * *
17250 CATAATATTACTAGATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAGATAAATAATTATTT
192 CATAATAGTAATAAAGTAATATTATTTTATTTTCAATAAGCTTGTATGAAGATAAACAATTATTT
* * * *
17315 TATGACAAAACAAAATG-TTATAATGATTGGAAATATATAATTGTTCAAATAGTCATAATTATTT
257 TATGACAAAACAAAA-GATCATAATGATTGGAAATAGATAATTGTTCAAATAGTCAAAAATATTT
17379 GAAC-TGATTCGATAAACAAATTTATTTTT-TAAATCTCCTA
321 GAACTTG-TTCGATAAACAAATTT-TTTTTCT-AATCTCCTA
* *
17419 CTTATTAATTTTTCAAATATTAATAAGTTAGTATTATTTTATTCTAAATAGGCTTGTATGATGAA
1 CTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATT-TAAATAAGCTTGTATGATGAA
* * * *
17484 AAACAATTATTTTATGACAAAACAAAAGTTCATAATGATTTGAAATAAATAATTGTTTAAATGGC
65 AAACAATTATTTTATGACAAAACAAAAGTT-ATAACGATTTGAAATAAATAATTATTCAAATAGC
* * * * * *
17549 CATAATTATTTGAACTGATTTGATAAACTAATTTATGTTTTAAATCTCTAACTTATCAATTTTTA
129 CATAACTATTTGAACTGATTCGATAAACAAATTTATGTTTTAAATCTATAACTTATCAAATTTCA
* * *
17614 TAATAGTAATAAAGTAATATTATTTTA-TTTCATATAAGCCTT-TATGAA-CTGGAACAATTGTT
194 TAATAGTAATAAAGTAATATTATTTTATTTTCA-ATAAG-CTTGTATGAAGAT-AAACAATTATT
* * * * ** *
17676 TTATGATAAAATATAAGATCATAGTGATTTTAAATAGATAATTGTTCAAATAGTTAAAAATATTT
256 TTATGACAAAACAAAAGATCATAATGATTGGAAATAGATAATTGTTCAAATAGTCAAAAATATTT
* * * * *
17741 GAACTTGTTCGGTAAATAGATTTTTTTTCTAATTTCTTA
321 GAACTTGTTCGATAAACAAATTTTTTTTCTAATCTCCTA
** * * *
17780 CTTATTAATTTTTTGAATGTTAATAAATTAGTATTATTTTATTTTCAATAAGCATGTATGAGTTG
1 CTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTA-TTTAAATAAGCTTGTATGA--TG
* *
17845 --AAGCAATTATTTTATGACCAAACAAAAG
63 AAAAACAATTATTTTATGACAAAACAAAAG
17873 GTCAAAACAA
Statistics
Matches: 377, Mismatches: 65, Indels: 26
0.81 0.14 0.06
Matches are distributed among these distances:
361 98 0.26
362 202 0.54
363 76 0.20
364 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (359 bp):
CTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTTAAATAAGCTTGTATGATGAAA
AACAATTATTTTATGACAAAACAAAAGTTATAACGATTTGAAATAAATAATTATTCAAATAGCCA
TAACTATTTGAACTGATTCGATAAACAAATTTATGTTTTAAATCTATAACTTATCAAATTTCATA
ATAGTAATAAAGTAATATTATTTTATTTTCAATAAGCTTGTATGAAGATAAACAATTATTTTATG
ACAAAACAAAAGATCATAATGATTGGAAATAGATAATTGTTCAAATAGTCAAAAATATTTGAACT
TGTTCGATAAACAAATTTTTTTTCTAATCTCCTA
Found at i:18551 original size:16 final size:16
Alignment explanation
Indices: 18515--18579 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 16
18505 AAAAATATTT
18515 TAATAT-TTAA-AATA
1 TAATATGTTAATAATA
*
18529 TTAAATATGTTATTAATA
1 -T-AATATGTTAATAATA
18547 TAATAT-TTAATAATA
1 TAATATGTTAATAATA
18562 TAA-ATAGTTAATAATA
1 TAATAT-GTTAATAATA
18578 TA
1 TA
18580 TTAAATTTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
14 2 0.05
15 12 0.28
16 21 0.49
17 4 0.09
18 4 0.09
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TAATATGTTAATAATA
Found at i:18556 original size:32 final size:31
Alignment explanation
Indices: 18515--18579 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 31
18505 AAAAATATTT
*
18515 TAATATTTAA-AATATTAAATATGTTATTAATA
1 TAATATTTAATAATA-TAAATA-GTTAATAATA
18547 TAATATTTAATAATATAAATAGTTAATAATA
1 TAATATTTAATAATATAAATAGTTAATAATA
18578 TA
1 TA
18580 TTAAATTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 11 0.35
32 16 0.52
33 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (31 bp):
TAATATTTAATAATATAAATAGTTAATAATA
Found at i:18754 original size:13 final size:13
Alignment explanation
Indices: 18724--18799 Score: 61
Period size: 13 Copynumber: 6.1 Consensus size: 13
18714 TCTTGTTTAG
*
18724 TATTATAATATAA
1 TATTATAATATTA
* *
18737 AATTATTATATTA
1 TATTATAATATTA
18750 TATTATAATATTA
1 TATTATAATATTA
*
18763 -ATTTTAATGA--A
1 TATTATAAT-ATTA
*
18774 TATTA-GATATTA
1 TATTATAATATTA
*
18786 TTTTATAATATTA
1 TATTATAATATTA
18799 T
1 T
18800 TCTTTCCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
10 1 0.02
11 3 0.06
12 15 0.31
13 29 0.60
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
TATTATAATATTA
Found at i:19160 original size:10 final size:10
Alignment explanation
Indices: 19145--19184 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
19135 TAGATGTCCT
19145 AATTTATTTA
1 AATTTATTTA
19155 AATTTATTTA
1 AATTTATTTA
19165 AA-TTA-TTA
1 AATTTATTTA
*
19173 TATTTATTTA
1 AATTTATTTA
19183 AA
1 AA
19185 CTATTCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
8 4 0.15
9 6 0.23
10 16 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AATTTATTTA
Found at i:19444 original size:20 final size:20
Alignment explanation
Indices: 19421--19473 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 20
19411 TATTAATAGT
*
19421 AATTATTAATATTTATGATA
1 AATTATTAATATTTATAATA
19441 AATTA--AA-ATTTATAATA
1 AATTATTAATATTTATAATA
*
19458 AATAATTAATATTTAT
1 AATTATTAATATTTAT
19474 TATTAATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 13 0.46
18 2 0.07
19 2 0.07
20 11 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AATTATTAATATTTATAATA
Found at i:19481 original size:20 final size:20
Alignment explanation
Indices: 19420--19482 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
19410 ATATTAATAG
* *
19420 TAATTATTAATATTTATGA-
1 TAATAATTAATATTTATAAT
*
19439 T-A-AATTAAAATTTATAAT
1 TAATAATTAATATTTATAAT
* *
19457 AAATAATTAATATTTATTAT
1 TAATAATTAATATTTATAAT
19477 TAATAA
1 TAATAA
19483 GTTATATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 12 0.35
18 1 0.03
19 2 0.06
20 19 0.56
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TAATAATTAATATTTATAAT
Found at i:19616 original size:20 final size:19
Alignment explanation
Indices: 19593--19647 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
19583 TAATATTATT
*
19593 ATAATTATTATAATATTTGG
1 ATAATTATTATAATAATT-G
19613 ATAATTTATTCAT-ATAATTG
1 ATAA-TTATT-ATAATAATTG
19633 ATAATTATTA-AATAA
1 ATAATTATTATAATAA
19648 CTAATATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 9 0.29
21 10 0.32
22 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAATTATTATAATAATTG
Found at i:19846 original size:15 final size:15
Alignment explanation
Indices: 19828--19879 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
19818 ATAGAATAAT
19828 ATTATAATAATATTA
1 ATTATAATAATATTA
19843 ATTATAATAATAATTA
1 ATTATAATAAT-ATTA
* *
19859 AATA-AATTATATTA
1 ATTATAATAATATTA
19873 A-TATAAT
1 ATTATAAT
19880 TATTTATTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
13 2 0.06
14 8 0.24
15 16 0.48
16 7 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTATAATAATATTA
Found at i:19879 original size:26 final size:26
Alignment explanation
Indices: 19822--19872 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
19812 TAACTTATAG
19822 AATAATATTATAATAATATTAATTAT
1 AATAATATTATAATAATATTAATTAT
19848 AATAATAATTA-AATAA-ATTATATTA
1 AATAAT-ATTATAATAATATTA-ATTA
19873 ATATAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 4 0.17
26 15 0.65
27 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
AATAATATTATAATAATATTAATTAT
Found at i:20007 original size:18 final size:18
Alignment explanation
Indices: 19982--20017 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
19972 TATTATTATA
19982 TTTATTATATT-AATAAT
1 TTTATTATATTAAATAAT
19999 TTTAGTTATATTAAATAAT
1 TTTA-TTATATTAAATAAT
20018 AAGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTATTATATTAAATAAT
Found at i:20077 original size:44 final size:40
Alignment explanation
Indices: 19981--20077 Score: 92
Period size: 44 Copynumber: 2.4 Consensus size: 40
19971 GTATTATTAT
* *
19981 ATTTATTAT--ATTAATAATTTTAGTTATATTAAATAATA
1 ATTTATTATAAATTAATAATTATAATTATATTAAATAATA
* *
20019 A-GTATAATATAATTAATTAATTATAATTATTATTATATATAATA
1 ATTTATTATA-AATTAA-TAATTATAATTA-TATTA-A-ATAATA
20063 ATTTATTATAAATTA
1 ATTTATTATAAATTA
20078 TAAATTTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
37 5 0.11
38 1 0.02
40 5 0.11
41 10 0.22
42 5 0.11
43 1 0.02
44 12 0.27
45 6 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (40 bp):
ATTTATTATAAATTAATAATTATAATTATATTAAATAATA
Found at i:20080 original size:17 final size:17
Alignment explanation
Indices: 20037--20086 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
20027 ATAATTAATT
20037 AATTATAATTATTATTATA
1 AATTATAA-T-TTATTATA
* *
20056 TATAATAATTTATTATA
1 AATTATAATTTATTATA
20073 AATTATAAATTTAT
1 AATTAT-AATTTAT
20087 ATTAATAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 12 0.46
18 8 0.31
19 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTATAATTTATTATA
Found at i:20088 original size:30 final size:29
Alignment explanation
Indices: 20007--20098 Score: 80
Period size: 31 Copynumber: 3.1 Consensus size: 29
19997 ATTTTAGTTA
* *
20007 TATTA-AATAATAAGTATAATATAATTAATT
1 TATTATAATTATAATTAT-ATATAA-TAATT
* *
20037 AATTATAATTATTATTATATATAATAATT
1 TATTATAATTATAATTATATATAATAATT
*
20066 TATTATAAATTATAAATT-TATATTAATAGTT
1 TATTAT-AATTAT-AATTATATA-TAATAATT
20097 TA
1 TA
20099 ATAATTGTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
29 10 0.20
30 20 0.39
31 21 0.41
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
TATTATAATTATAATTATATATAATAATT
Found at i:22342 original size:23 final size:23
Alignment explanation
Indices: 22280--22342 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
22270 ATAATTGTAT
*
22280 TATACTATAATTTATA-T-TTAA
1 TATATTATAATTTATATTATTAA
* * *
22301 TAAATTATAAATTACATTATTAA
1 TATATTATAATTTATATTATTAA
*
22324 TATATTATATTTTATATTA
1 TATATTATAATTTATATTA
22343 ATATAATAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
21 12 0.38
22 1 0.03
23 19 0.59
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATTATAATTTATATTATTAA
Found at i:23240 original size:19 final size:19
Alignment explanation
Indices: 23211--23266 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
23201 TGTTTATAGC
* *
23211 TAATTTCATATTATATATTA
1 TAATTT-ATATAATATAATA
*
23231 TAGTTTATATAATATAATA
1 TAATTTATATAATATAATA
*
23250 TAATTTAAATAACTATA
1 TAATTTATATAA-TATA
23267 TAAATATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATTTATATAATATAATA
Found at i:23396 original size:25 final size:23
Alignment explanation
Indices: 23336--23406 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 23
23326 ATTAGATAGT
*
23336 TAATTATTATATTTA-AATAATA
1 TAATTATTAAATTTATAATAATA
*
23358 TAAATA-TAAA--TATAATAATTA
1 TAATTATTAAATTTATAATAA-TA
*
23379 TATATTATTAAATTTATAATAAAA
1 TA-ATTATTAAATTTATAATAATA
23403 TAAT
1 TAAT
23407 AAAAAATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
19 2 0.05
20 5 0.13
21 7 0.18
22 8 0.21
23 6 0.15
24 3 0.08
25 8 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATTATTAAATTTATAATAATA
Found at i:23421 original size:45 final size:44
Alignment explanation
Indices: 23338--23424 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 44
23328 TAGATAGTTA
* * *
23338 ATTATTATATTTAAATAATATAAATATAAATATAATAATTATAT
1 ATTATTAAATTTAAATAAAATAAATAAAAATATAATAATTATAT
*
23382 ATTATTAAATTTATAATAAAAT-AATAAAAAATTTAATAATTAT
1 ATTATTAAATTTA-AATAAAATAAAT-AAAAATATAATAATTAT
23425 TACTTAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 15 0.41
45 22 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (44 bp):
ATTATTAAATTTAAATAAAATAAATAAAAATATAATAATTATAT
Found at i:23925 original size:22 final size:20
Alignment explanation
Indices: 23887--23926 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23877 AAATTGACTA
*
23887 TATAAATTATTTAATAATCG
1 TATAAATTAATTAATAATCG
23907 TATAAATATAATTATATAAT
1 TATAAAT-TAATTA-ATAAT
23927 TTTTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
TATAAATTAATTAATAATCG
Found at i:24432 original size:12 final size:12
Alignment explanation
Indices: 24414--24444 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24404 ATTCTTTTGG
24414 ATTATATAATTA
1 ATTATATAATTA
*
24426 TTTATATAATTA
1 ATTATATAATTA
24438 ATTATAT
1 ATTATAT
24445 TAATAGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATATAATTA
Found at i:24552 original size:26 final size:25
Alignment explanation
Indices: 24523--24597 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
24513 AAAATTAAAG
24523 TTAAATAATATATAATTAAATATATA
1 TTAAATAATATATAA-TAAATATATA
*
24549 TTAAATATTAT-TAACTAAATAATATA
1 TTAAATAATATATAA-TAAAT-ATATA
* *
24575 TT-ATTTATATAT-ATAAATATATA
1 TTAAATAATATATAATAAATATATA
24598 ATTTGATCAG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
23 5 0.12
24 5 0.12
25 14 0.33
26 18 0.43
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (25 bp):
TTAAATAATATATAATAAATATATA
Found at i:24577 original size:19 final size:19
Alignment explanation
Indices: 24524--24579 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
24514 AAATTAAAGT
*
24524 TAAATAATATATAATTAAA
1 TAAATAATATATTATTAAA
*
24543 TATATATTAA-ATATTATTAAC
1 TA-A-A-TAATATATTATTAAA
24564 TAAATAATATATTATT
1 TAAATAATATATTATT
24580 TATATATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 3 0.10
19 11 0.35
20 2 0.06
21 12 0.39
22 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATAATATATTATTAAA
Found at i:25262 original size:18 final size:20
Alignment explanation
Indices: 25216--25262 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
25206 TTATAAATAT
25216 TATTATAAATTTATATAGTA
1 TATTATAAATTTATATAGTA
*
25236 T-TTATAAATTTA-ATTGTA
1 TATTATAAATTTATATAGTA
25254 TATTA-AAAT
1 TATTATAAAT
25263 AGTAATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.40
19 14 0.56
20 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TATTATAAATTTATATAGTA
Found at i:25778 original size:143 final size:144
Alignment explanation
Indices: 25565--25849 Score: 310
Period size: 143 Copynumber: 2.0 Consensus size: 144
25555 AATAGAACCA
* * *
25565 ATTATTTGATGATAAAATAAAAAGTTATAACAATTCAAAATAGATAATTTTGAAAATAGTCAAAA
1 ATTATTTGATGACAAAACAAAAAGTAATAACAATTCAAAATAGATAATTTTGAAAATAGTCAAAA
* * * * *
25630 CTATTTAAAATGGTT-TGATAACCA-AATTTACTTTTTAAATCTCTTA-TTGATTAATTTTT-TA
66 CTATTTAAAATGGTTCAG-TAAACAGAA-TTACTTTTTAAATATCTTACTT-ATAAATTTTTAAA
25691 AATATTAATAAATTAGT
128 AATATTAATAAATTAGT
* ** ** * * *
25708 ATTATTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGTT-TAAATAGTTATA
1 ATTATTTGATGACAAAACAAAAAGTAATAACAATTCAAAATAGATAATT-TTGAAAATAGTCAAA
* * * * *
25772 ATTATTTGAACTGGTTCAGTAAATAGAATTATTTTTTAAATATCTTACTTATAAATTTTTAAAAA
65 ACTATTTAAAATGGTTCAGTAAACAGAATTACTTTTTAAATATCTTACTTATAAATTTTTAAAAA
25837 TATTAATAAATTA
130 TATTAATAAATTA
25850 CTTTCATTCT
Statistics
Matches: 116, Mismatches: 21, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
143 93 0.80
144 23 0.20
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (144 bp):
ATTATTTGATGACAAAACAAAAAGTAATAACAATTCAAAATAGATAATTTTGAAAATAGTCAAAA
CTATTTAAAATGGTTCAGTAAACAGAATTACTTTTTAAATATCTTACTTATAAATTTTTAAAAAT
ATTAATAAATTAGT
Found at i:26104 original size:181 final size:182
Alignment explanation
Indices: 25712--27909 Score: 1120
Period size: 180 Copynumber: 12.2 Consensus size: 182
25702 ATTAGTATTA
* * ** * * ** *
25712 TTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGTTTAAATAGTTATAATTAT
1 TTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTAT
* * * * *
25777 TTG-AACTGG-TTCAGTAAA-TAGAATTATTTTTTAAATATCTTACTTATAAATTTTTAAAAATA
66 TTGAAACTGGTTTGA-TAAACT-GATTTATTTTTTAAATCTCTTACTTATTAATTTTT-AGAATA
* * * * * * *
25839 TTAATAAATTACT-TTCATTCTATTTCGAATTAGCTTGTATG-AGCTGAAATAATTA
128 TTACTAAATTAGTATT-ATTTTATTTCGAATAAGCTTGTATGAAG-AGAAACAATTG
* * * * *
25894 TTTTATGATAAAATAAAAGGTTATAACAATTTGAAATAAATAATTGTTCATATAGACTTAACTGT
1 TTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTAT
* * * * * *
25959 TTGAAA-GGGTTTGACAAACGGATTTATTTTTTAAATCTCTTAGTTATTCATTTTTAGAATATTG
66 TTGAAACTGGTTTGATAAACTGATTTATTTTTTAAATCTCTTACTTATTAATTTTTAGAATATTA
*
26023 CTAAATTATTATTATTTTATTTCGAATAAGCTTGTATGAAGAGAAACAATTG
131 CTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAGAGAAACAATTG
* * * * * *
26075 TTTTATGATAGAACAAAAGCTTGTAACAATTT-AAATAGAA-AATTATTCAAATAGTCATAACTA
1 TTTTATGACAAAACAAAAGGTTATAACAATTTGAAATA-AATAATTGTTCAAATAGACATAACTA
* ** * * *
26138 TTT-AAACTAGTTCAATAAACTGATTTATTTTTTAAA--T-GT-CTTATTAATTCTTAAAATATT
65 TTTGAAACTGGTTTGATAAACTGATTTATTTTTTAAATCTCTTACTTATTAATTTTTAGAATATT
* * * ** *
26198 ACTAAATTGGTA-TATTTTATTTCAAATAAGCTTGTTTGTTGAAAAACAATTG
130 ACTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAGAGAAACAATTG
* * * * * * *
26250 TTTTATGACAAAAGAAAAGGTAATAACAATTTGAAATAGATAGTTGTTTAAAT-GGCTATAATTA
1 TTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGAC-ATAACTA
* * * * *
26314 TTTG-AACTGATTGGGTAAATTGATTTATTCTTTTAAAT-TAGTTACTTATTAATTTTT-GAAAT
65 TTTGAAACTGGTTTGATAAACTGATTTATT-TTTTAAATCT-CTTACTTATTAATTTTTAG-AAT
* * * * * *
26376 ATTACTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACTA-AAACAATTG
127 ATTACTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAA-GAGAAACAATTG
* * ** * * *
26432 TTTTATGACAAAACAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATAGCCATAATTA-
1 TTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTAT
* * * * * *
26496 TTCAAACTTGTTTGGTAAACAT-ATTTATTTTTTTAAATCTCATGA-TTATTAATTTTTTGAATG
66 TTGAAACTGGTTTGATAAAC-TGATTTA-TTTTTTAAATCTC-TTACTTATTAATTTTTAGAATA
* * * * ** * *
26559 TTAATAAATTAGTATTATTTTCTTCCAAATAAGCTTGTATGAACTGAAGCAATTA
128 TTACTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAGAGAAACAATTG
** ** * * * ** ** * * * * *
26614 TTACATGACTGAAGAAAAGGTCAGAATGATTTGAAATTGATAATTATTCTAATAGTCTTAATTAT
1 TTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTAT
* * ** * *
26679 TTG-AACTGGTTCGGTAAACACATTTATTTTTTGAA--TC-T-CTTATTAA-TTTTGGAATATTA
66 TTGAAACTGGTTTGATAAACTGATTTATTTTTTAAATCTCTTACTTATTAATTTTTAGAATATTA
* * * * ** * *
26738 TTAAATTAGTAATATTTT-TATCTAAATAAGCTTGTATGATCAGAAATAATTA
131 CTAAATTAGTATTATTTTATTTC-GAATAAGCTTGTATGAAGAGAAACAATTG
* * * ** * * * *
26790 TTTTATGAGAAAAC-AAAGATCA-AGACAATTT-AAGATTGATATTTATTCAAATAGCCATAATT
1 TTTTATGACAAAACAAAAGGTTATA-ACAATTTGAA-ATAAATAATTGTTCAAATAGACATAACT
** * * ** * * *
26852 ATTTG-AACTAATTTGGA-AAAC-AATTTTAGTTTTTAAAAATCTTGCTTATTAATTTTCAAAAT
64 ATTTGAAACTGGTTT-GATAAACTGA-TTTATTTTTTAAATCTCTTACTTATTAATTTTTAGAAT
* * * * * * * **
26914 ATTAATAAAGTAGTATTATTTCATTT-TAGATAAGTTTTTATAAATTGAAACAATTG
127 ATTACTAAATTAGTATTATTTTATTTCGA-ATAAGCTTGTATGAAGAGAAACAATTG
* * * * *
26970 TTTTATGACAAAACAAAAGGTCATAATACTTT-AAATAGATAATTGTTTAAAATA-ATCA-AA-T
1 TTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAAATAATTG-TTCAAATAGA-CATAACT
** * ** * * * * * * * *
27031 ATATT-TTATTTATTCGATAAGC-AATTTATTTTTTAAATCACATGCTTATTAATTTTTTGAATG
64 AT-TTGAAACTGGTTTGATAAACTGATTTATTTTTTAAATCTCTTACTTATTAATTTTTAGAATA
* ** *
27094 TTAATAAATTA-TATTAATTTTATTCTAAAATAAGCTTGTATGAA-ATTGAAATAA-TG
128 TTACTAAATTAGTATT-ATTTTATT-TCGAATAAGCTTGTATGAAGA--GAAACAATTG
* * * * ** * * * ***
27150 TCTTGTAACTAAACAAAAAGGGTTA-AATGATCTGAAATAGAATAATT-ATCTTAATAGTTTTAA
1 TTTTATGACAAAAC-AAAA-GGTTATAACAATTTGAAATA-AATAATTGTTC-AAATAGACAT-A
* ** * *
27213 ACTATTTG-AACTGGTTTGACAAACACATTTATTTTTTTAAATCTCTTACTTACTAATTTTTTGG
61 ACTATTTGAAACTGGTTTGATAAACTGATTTA-TTTTTTAAATCTCTTACTTATTAA-TTTTT-A
* * * *
27277 GAATATTATTAAATTAGTATTATTTTAATATT-GAACAAG-TTATATGAAAAGAAACAATTG
123 GAATATTACTAAATTAGTATTATTTT-AT-TTCGAATAAGCTTGTATGAAGAGAAACAATTG
* * * * *
27337 TTTTATG--AAAA-TAAAGATCATAACAAATTTGATATAAAT-ATTGTTCAAATAGTCATAACTA
1 TTTTATGACAAAACAAAAGGTTATAAC-AATTTGAAATAAATAATTGTTCAAATAGACATAACTA
* * * *
27398 TTTG-AACT-G-TTCAGTAAA-TAAATTTAGTTTTTTAAATCTC-T--TTATTAATTTTCAAAAA
65 TTTGAAACTGGTTTGA-TAAACT-GATTTA-TTTTTTAAATCTCTTACTTATTAATTTT-TAGAA
* * * ** * *
27456 TATTAATAGATTGAAGTATTATTTGA-TTCTGAATAATTTTGCATGAACAGAAACAATTG
126 TATTACTAAATT--AGTATTATTTTATTTC-GAATAAGCTTGTATGAAGAGAAACAATTG
* ** * * * *
27515 TTTTATGACAAAA-AAAAGGTCATAACTTTTTTAAATAGATAATTGTTCAAATGGACATGACTAT
1 TTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTAT
* * * * * * *
27579 TTG-GACT--TATTCAGTAAA-TAGATTTATTTTTTAAAACTCCTAGC-TACTAACTTTCA-AAG
66 TTGAAACTGGT-TTGA-TAAACT-GATTTATTTTTTAAATCTCTTA-CTTATTAATTTTTAGAA-
* * * * * * * * * *
27638 TTTTAATCAACTAGTATTATTTTATTCCAAATAAACTTGTATGAACAAAAATAATTG
126 TATTACTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAGAGAAACAATTG
* * * * * * **
27695 TTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAA-AATTGTTCAAACAGTCATAAGGAT
1 TTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTAT
** * ** ** * * *
27759 TTGAATTTGCTCAG-TAAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTCA-AATATT
66 TTGAAACTGGTTTGATAAACTGATTTATTTTTTAAATCTCTTACTTATTAATTTTT-AGAATATT
* * * * *
27822 AATAAATTAGTATTATTTTATTTCAAATATGCTTGTATGAACAAAAACAATTG
130 ACTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAGAGAAACAATTG
* * * *
27875 GTTTATGACAAAACAAAGGGTCATAACTATTTGAA
1 TTTTATGACAAAACAAAAGGTTATAACAATTTGAA
27910 CATGTTTAGA
Statistics
Matches: 1560, Mismatches: 354, Indels: 206
0.74 0.17 0.10
Matches are distributed among these distances:
174 4 0.00
175 130 0.08
176 145 0.09
177 29 0.02
178 42 0.03
179 80 0.05
180 404 0.26
181 216 0.14
182 358 0.23
183 42 0.03
184 21 0.01
185 11 0.01
186 26 0.02
187 19 0.01
188 25 0.02
189 7 0.00
190 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (182 bp):
TTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTAT
TTGAAACTGGTTTGATAAACTGATTTATTTTTTAAATCTCTTACTTATTAATTTTTAGAATATTA
CTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAGAGAAACAATTG
Found at i:28044 original size:145 final size:146
Alignment explanation
Indices: 27774--28054 Score: 381
Period size: 145 Copynumber: 1.9 Consensus size: 146
27764 TTTGCTCAGT
* *
27774 AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTCAAATATTAATAAATTAGTATTATT
1 AAACAAATTTATTTTTAAAATTTTTTAATTATTAATTTTTCAAATATTAATAAATTAGTAATATT
* * * *
27839 TTATTTCAAATATGCTTGTATGAACAAAAACAATTGGTTTATGACAAAACAAAGGGTCATAACTA
66 TTATTTCAAATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAACAAAGGATCATAACAA
27904 TTTGAACATGTTTAGA
131 TTTGAACATGTTTAGA
* * *
27920 AAACATATTTATTTTTTAAA-TTTTTAATTATTAATTTTTGAAATATTAATAAATTTA-TAATAT
1 AAACAAATTTATTTTTAAAATTTTTTAATTATTAATTTTTCAAATATTAATAAA-TTAGTAATAT
* * * * *
27983 TTTA-TTCAGAATAAGCTTGTTTGAATAGAAACAATTGTTTTAGGACAAAACGAAA-TATCATAA
65 TTTATTTCA-AATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAAC-AAAGGATCATAA
28046 CAATTTGAA
128 CAATTTGAA
28055 ATAGATAATA
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
144 4 0.03
145 90 0.76
146 24 0.20
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (146 bp):
AAACAAATTTATTTTTAAAATTTTTTAATTATTAATTTTTCAAATATTAATAAATTAGTAATATT
TTATTTCAAATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAACAAAGGATCATAACAA
TTTGAACATGTTTAGA
Found at i:28165 original size:325 final size:314
Alignment explanation
Indices: 27640--28401 Score: 817
Period size: 325 Copynumber: 2.4 Consensus size: 314
27630 TTTCAAAGTT
* * * * *
27640 TTAATCAACTAGTATTATTTTATTCCA-AATAAACTTGTATGAACAA-AAATAATTGTTTTAGGA
1 TTAATAAATTAGTAATATTTTATT-CAGAATAAGCTTGTATGAA-AAGAAACAATTGTTTTAGGA
* * * * * ** *
27703 CAAAACAAAAGATCATAACTATTTGAAATA-AAAATTGTTCAAACAGTCATAAGGATTTGAATTT
64 CAAAACAAAAAATCATAACAATTTGAAATAGATAATAGTTCAAATAGTCATAACTATTTAAATTT
* ***
27767 GCTCAGTAAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTCAAATATTAATAAATTAG
129 GCTCAGTAAACAAATTTATTTTTAAAATCTCCAACTTATTAATTTTTCAAATATTAATAAATTAG
**
27832 TATTATTTTATTTCAAATATGCTTGTATGAACAAAAACA-ATTGGTTTATGACAAAACAAAGGGT
194 TATTATTTTATTTCAAATAAACTTGTATGAACAAAAACATA-TGGTTTATGACAAAAC-------
* * *
27896 CATAACTATTTGAACAT-GTTTAGAAAACATATTTATTTTTTAAATTTTTAATTATTAATTTTTG
251 C-TAACTATTTGAAC-TGGTTTAGAAAACACATTT-TTTTTTAAA--TCT-ATTACTAATTTTTG
27960 AAATA
310 AAATA
* *
27965 TTAATAAATTTA-TAATATTTTATTCAGAATAAGCTTGTTTGAATAGAAACAATTGTTTTAGGAC
1 TTAATAAA-TTAGTAATATTTTATTCAGAATAAGCTTGTATGAAAAGAAACAATTGTTTTAGGAC
* * * * *
28029 AAAACGAAATATCATAACAATTTGAAATAGATAATAGTTCAAATGGACATGACTATTTAAATTTG
65 AAAACAAAAAATCATAACAATTTGAAATAGATAATAGTTCAAATAGTCATAACTATTTAAATTTG
* ** * * **
28094 TTTGGTAAACAAATTT-TTTTTTAAATCTCCAACTTTTTAATTTTT-AGAATATTAATTGATTAG
130 CTCAGTAAACAAATTTATTTTTAAAATCTCCAACTTATTAATTTTTCA-AATATTAATAAATTAG
* * * *
28157 TATTATTTTATTTCGAATAAACTTGTATGAATAGAAACATATGTTTTATGACAAAACCTAACTAT
194 TATTATTTTATTTCAAATAAACTTGTATGAACAAAAACATATGGTTTATGACAAAACCTAACTAT
* * * *
28222 TTGAACTGGTTTGGTAAACACATTTTTTTTTAAATCTCTTACTAATTTTTGTAATA
259 TTGAACTGGTTTAGAAAACACATTTTTTTTTAAATCTATTACTAATTTTTGAAATA
* * * *
28278 TTATTAAATTAGTATTATTTTAAT-ATGAATAAGCTTGTATGAAAAGAAACAATTGTTTTATGAC
1 TTAATAAATTAGTAATATTTTATTCA-GAATAAGCTTGTATGAAAAGAAACAATTGTTTTAGGAC
* *
28342 AAAA-TAAAAATCATAACAATTTGATATAGATAATTA-TTCAAATAGTCATAACTATTTAAA
65 AAAACAAAAAATCATAACAATTTGAAATAGATAA-TAGTTCAAATAGTCATAACTATTTAAA
28402 CTATTTCGAT
Statistics
Matches: 372, Mismatches: 55, Indels: 33
0.81 0.12 0.07
Matches are distributed among these distances:
312 51 0.14
313 74 0.20
314 2 0.01
316 10 0.03
317 27 0.07
318 1 0.00
324 4 0.01
325 161 0.43
326 42 0.11
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (314 bp):
TTAATAAATTAGTAATATTTTATTCAGAATAAGCTTGTATGAAAAGAAACAATTGTTTTAGGACA
AAACAAAAAATCATAACAATTTGAAATAGATAATAGTTCAAATAGTCATAACTATTTAAATTTGC
TCAGTAAACAAATTTATTTTTAAAATCTCCAACTTATTAATTTTTCAAATATTAATAAATTAGTA
TTATTTTATTTCAAATAAACTTGTATGAACAAAAACATATGGTTTATGACAAAACCTAACTATTT
GAACTGGTTTAGAAAACACATTTTTTTTTAAATCTATTACTAATTTTTGAAATA
Found at i:28326 original size:133 final size:134
Alignment explanation
Indices: 28093--28345 Score: 345
Period size: 133 Copynumber: 1.9 Consensus size: 134
28083 ATTTAAATTT
** *
28093 GTTTGGTAAACAAATTTTTTTTTAAATCTCCAACTTTTTAATTTTTAGAATATTAATTGATTAGT
1 GTTTGGTAAACAAATTTTTTTTTAAATCT---ACTTACTAATTTTTAGAATATTAATTAATTAGT
* *
28158 ATTATTTTATTTCGAATAAACTTGTATGAATAGAAAC-ATATGTTTTATGACAAAACCTAACTAT
63 ATTATTTTATATCGAATAAACTTGTATGAAAAGAAACAAT-TGTTTTATGACAAAACCTAACTAT
28222 TTGAACTG
127 TTGAACTG
*
28230 GTTTGGTAAACACATTTTTTTTTAAATCT-CTTACTAATTTTT-GTAATATT-ATTAAATTAGTA
1 GTTTGGTAAACAAATTTTTTTTTAAATCTACTTACTAATTTTTAG-AATATTAATT-AATTAGTA
*
28292 TTATTTTAATAT-GAATAAGCTTGTATGAAAAGAAACAATTGTTTTATGACAAAA
64 TTATTTT-ATATCGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAAA
28346 TAAAAATCAT
Statistics
Matches: 105, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
132 4 0.04
133 68 0.65
134 5 0.05
137 28 0.27
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (134 bp):
GTTTGGTAAACAAATTTTTTTTTAAATCTACTTACTAATTTTTAGAATATTAATTAATTAGTATT
ATTTTATATCGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAAACCTAACTATTTGA
ACTG
Found at i:28777 original size:181 final size:181
Alignment explanation
Indices: 28483--28915 Score: 496
Period size: 181 Copynumber: 2.4 Consensus size: 181
28473 ACAATTTTAC
* * * *
28483 ATGAACAGAAACAA-TGTTTTTATGACAAAATAAAAAAGGTCATAACAATTTAAAATAAATAATT
1 ATGAATAGAAACAATTG-TTTTATGAC-AAA-ACAAAAGGTCATAACTATTTGAAATAAATAATT
** * *** * *
28547 GTTCAAATGGACATGACTATTTAAACTTGTTCGACGAACATATTTATTTTTTAAA-TCTCCTAC-
63 GTTCAAATCAACATGACAATTTAAACTAACTCGACAAACAGATTTA-TTTTTAAATTCTCCTACT
* ** *
28610 CTACTAATTTTTAGAGTATTAATCAATTAGTATTATTTTATTCCAAATAAACTTGT
127 C-ACTAATTTTTAGAATATTAAGAAATTAGAATTATTTTATTCCAAATAAACTTGT
* *
28666 ATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAATAATTGTT
1 ATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTT
* * ** *
28731 CAAA-CAATCATGACAATTTAAACTAACTCGATAAACAGATTTATTTTTAAATTTTTTTACTCAT
66 CAAATCAA-CATGACAATTTAAACTAACTCGACAAACAGATTTATTTTTAAATTCTCCTACTCAC
* * * * *
28795 TAATTTTTGGAATATTAAGAAATTAGAATTATTTTATTTCGAATACATTTGT
130 TAATTTTTAGAATATTAAGAAATTAGAATTATTTTATTCCAAATAAACTTGT
* * * *
28847 ATGAATAGAAACAATTGGTTTATGACAAAACAAAGGGTCGTAACTATTTGAAATAGATAATTGTT
1 ATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTT
28912 CAAA
66 CAAA
28916 AAGTCATAAC
Statistics
Matches: 212, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
180 9 0.04
181 176 0.83
182 4 0.02
183 21 0.10
184 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (181 bp):
ATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTT
CAAATCAACATGACAATTTAAACTAACTCGACAAACAGATTTATTTTTAAATTCTCCTACTCACT
AATTTTTAGAATATTAAGAAATTAGAATTATTTTATTCCAAATAAACTTGT
Found at i:29219 original size:22 final size:21
Alignment explanation
Indices: 29188--29228 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
29178 GATTTTAATT
29188 ATTATATATTAATATTTATCA
1 ATTATATATTAATATTTATCA
*
29209 ATTATATTATTAATGTTTAT
1 ATTATA-TATTAATATTTAT
29229 AATATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATATATTAATATTTATCA
Found at i:29346 original size:6 final size:6
Alignment explanation
Indices: 29335--29369 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
29325 AAACATTTAT
*
29335 TAATTA TAATTA TAATTA TAATTA AATATTA TAAT
1 TAATTA TAATTA TAATTA TAATTA TA-ATTA TAAT
29370 ATTATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TAATTA
Found at i:29384 original size:15 final size:14
Alignment explanation
Indices: 29366--29433 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 14
29356 TTAAATATTA
29366 TAATATTATATTAAT
1 TAATATT-TATTAAT
29381 TAATATTTTATT-AT
1 TAATA-TTTATTAAT
*
29395 TAAAATATTTAAATAAT
1 T--AATATTT-ATTAAT
*
29412 TAATATTTATTTGAT
1 TAATATTTA-TTAAT
29427 TAATATT
1 TAATATT
29434 GTTTAGTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
14 4 0.09
15 29 0.66
16 8 0.18
17 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (14 bp):
TAATATTTATTAAT
Found at i:30186 original size:22 final size:20
Alignment explanation
Indices: 30161--30212 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 20
30151 TAGTAAAAAT
*
30161 TATTTTATAATCATATTATAAG
1 TATTTTAT-AT-AAATTATAAG
*
30183 TATTAGTTATATAAATTATAAT
1 TATT--TTATATAAATTATAAG
30205 TATTTTAT
1 TATTTTAT
30213 TAATTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 4 0.15
22 16 0.62
23 2 0.08
24 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
TATTTTATATAAATTATAAG
Found at i:30359 original size:13 final size:13
Alignment explanation
Indices: 30341--30382 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
30331 TTGATTGTAT
*
30341 TTATTAATTATAC
1 TTATTAATTATAA
30354 TTATTAATTATAA
1 TTATTAATTATAA
30367 TTA-TAATTATTAA
1 TTATTAATTA-TAA
30380 TTA
1 TTA
30383 AAAAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATTAATTATAA
Found at i:30367 original size:19 final size:19
Alignment explanation
Indices: 30345--30427 Score: 68
Period size: 19 Copynumber: 4.5 Consensus size: 19
30335 TTGTATTTAT
*
30345 TAATTATACTTATTAATTA
1 TAATTATAATTATTAATTA
30364 TAATTATAATTATTAATTA
1 TAATTATAATTATTAATTA
** *
30383 -AAAAATTATTAGTTAA-TA
1 TAATTATAATTA-TTAATTA
30401 TTAATTA-AATTA-TAA-TA
1 -TAATTATAATTATTAATTA
*
30418 AAATTATAAT
1 TAATTATAAT
30428 ACAAGTTAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
16 5 0.10
17 8 0.15
18 10 0.19
19 26 0.50
20 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (19 bp):
TAATTATAATTATTAATTA
Found at i:31343 original size:38 final size:41
Alignment explanation
Indices: 31291--31386 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 41
31281 ATAAATGTAT
* *
31291 TAAATTATTCTTATTATA-TTAAATTAAT-TTATACTAA-A
1 TAAATTATTATTATTATATTTAAATTAATATTATAATAAGA
* *
31329 TAAATTATTATTATTATATTTAACTTATTATTATAATAAGA
1 TAAATTATTATTATTATATTTAAATTAATATTATAATAAGA
*
31370 TTAATTATTA-TATTATA
1 TAAATTATTATTATTATA
31387 CAATATTGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
38 17 0.34
39 8 0.16
40 15 0.30
41 10 0.20
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (41 bp):
TAAATTATTATTATTATATTTAAATTAATATTATAATAAGA
Found at i:31373 original size:61 final size:61
Alignment explanation
Indices: 31251--31362 Score: 140
Period size: 61 Copynumber: 1.9 Consensus size: 61
31241 ATAATTTAAT
* * * * *
31251 AATTAATTTATACTATATAATTTATTAATTATAAATGTATTAAATTATTCTTATTATATTA
1 AATTAATTTATACTAAATAAATTATTAATTATAAATATATTAAATTATTATTATTAGATTA
* *
31312 AATTAATTTATACTAAATAAATTATT-ATTAT-TATAT-TTAACTTATTATTAT
1 AATTAATTTATACTAAATAAATTATTAATTATAAATATATTAAATTATTATTAT
31363 AATAAGATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 13 0.29
59 3 0.07
60 5 0.11
61 24 0.53
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.53
Consensus pattern (61 bp):
AATTAATTTATACTAAATAAATTATTAATTATAAATATATTAAATTATTATTATTAGATTA
Found at i:31427 original size:16 final size:18
Alignment explanation
Indices: 31406--31443 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
31396 ATTTTAAATG
31406 ATTATTTAAT-TTA-TAT
1 ATTATTTAATGTTATTAT
31422 ATTATTTAATGTTATTAT
1 ATTATTTAATGTTATTAT
31440 ATTA
1 ATTA
31444 ACTAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 3 0.15
18 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTATTTAATGTTATTAT
Found at i:31734 original size:29 final size:28
Alignment explanation
Indices: 31681--31735 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
31671 TAATTTAATA
*
31681 ATAATATTAAATAATTAGTTTAATTATG
1 ATAATATTAAATAATTAGTTAAATTATG
*
31709 ATAATATTGATATAATTTA-TTAAATTA
1 ATAATATT-AAATAA-TTAGTTAAATTA
31736 GTTATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.35
29 12 0.52
30 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (28 bp):
ATAATATTAAATAATTAGTTAAATTATG
Found at i:33379 original size:45 final size:46
Alignment explanation
Indices: 33283--33379 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 46
33273 TTTAGTAAAT
* * *
33283 ATTATAAATAGTTATTATAATTAATATACTATAATTATGAATAACT
1 ATTATAAATAGTTATAATAATTAATATACTATAATTATAAATAACC
* * *
33329 ATTATAAATATTTATAATATATTAATAT-TTA-AATTATAAATTACC
1 ATTATAAATAGTTATAATA-ATTAATATACTATAATTATAAATAACC
*
33374 GTTATA
1 ATTATA
33380 TTTGAAGCCT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
45 16 0.37
46 19 0.44
47 8 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (46 bp):
ATTATAAATAGTTATAATAATTAATATACTATAATTATAAATAACC
Found at i:33758 original size:12 final size:12
Alignment explanation
Indices: 33743--33783 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
33733 TAATAAGTTA
33743 ATAAATATTAAT
1 ATAAATATTAAT
33755 ATAAATACTTAAT
1 ATAAATA-TTAAT
* *
33768 ATTATTATTAAT
1 ATAAATATTAAT
33780 ATAA
1 ATAA
33784 TTGTTATAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (12 bp):
ATAAATATTAAT
Found at i:34330 original size:27 final size:26
Alignment explanation
Indices: 34300--34362 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 26
34290 ATATACATTT
34300 AATTATTATACT-ATTTGATTGCT-ATAA
1 AATTATTA-ACTAATTT-ATTG-TAATAA
34327 AATTAATTAACTAATTTATTGTAATAA
1 AATT-ATTAACTAATTTATTGTAATAA
*
34354 ATTTATTAA
1 AATTATTAA
34363 AATATACAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 6 0.19
27 18 0.56
28 8 0.25
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (26 bp):
AATTATTAACTAATTTATTGTAATAA
Found at i:35031 original size:16 final size:16
Alignment explanation
Indices: 35012--35091 Score: 65
Period size: 16 Copynumber: 4.9 Consensus size: 16
35002 TTATACTTAA
35012 ATTATTATTAAATAAT
1 ATTATTATTAAATAAT
35028 ATTATTATTTAAATTAAT
1 ATTATTA-TTAAA-TAAT
* * *
35046 -TTA-AATAAAGATTAAA
1 ATTATTATTAA-A-TAAT
*
35062 ATTATTATTAAATATT
1 ATTATTATTAAATAAT
*
35078 ATTATTAATAAATA
1 ATTATTATTAAATA
35092 TTGTTACTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
15 3 0.06
16 28 0.55
17 12 0.24
18 8 0.16
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (16 bp):
ATTATTATTAAATAAT
Found at i:35081 original size:22 final size:21
Alignment explanation
Indices: 35030--35081 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
35020 TAAATAATAT
*
35030 TATTATTTAAATTAATTTAAA
1 TATTATTAAAATTAATTTAAA
** *
35051 TAAAGATTAAAATTATTATTAAA
1 T-ATTATTAAAATTAAT-TTAAA
35074 TATTATTA
1 TATTATTA
35082 TTAATAAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
21 1 0.04
22 16 0.70
23 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TATTATTAAAATTAATTTAAA
Found at i:35092 original size:16 final size:16
Alignment explanation
Indices: 35012--35114 Score: 63
Period size: 16 Copynumber: 6.4 Consensus size: 16
35002 TTATACTTAA
35012 ATTATTATTAA-ATAAT
1 ATTATTATTAATA-AAT
35028 ATTATTATT--TAAAT
1 ATTATTATTAATAAAT
* * *
35042 -TAATT-TAAATAAAG
1 ATTATTATTAATAAAT
*
35056 ATTAAAATTATTATTAAAT
1 ATT---ATTATTAATAAAT
35075 ATTATTATTAATAAAT
1 ATTATTATTAATAAAT
* * *
35091 ATTGTTACTCATAAAAT
1 ATTATTATTAAT-AAAT
35108 ATTATTA
1 ATTATTA
35115 AACTATTTTA
Statistics
Matches: 66, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
12 1 0.02
13 4 0.06
14 7 0.11
15 2 0.03
16 30 0.45
17 10 0.15
18 3 0.05
19 9 0.14
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
ATTATTATTAATAAAT
Found at i:35093 original size:13 final size:13
Alignment explanation
Indices: 35014--35085 Score: 53
Period size: 13 Copynumber: 5.7 Consensus size: 13
35004 ATACTTAAAT
35014 TATTATTAAATAA
1 TATTATTAAATAA
**
35027 TATTATTATTTAA
1 TATTATTAAATAA
35040 -ATTAATTTAAATAA
1 TATT-A-TTAAATAA
* *
35054 -A-GATTAAA-AT
1 TATTATTAAATAA
*
35064 TATTATTAAATAT
1 TATTATTAAATAA
35077 TATTATTAA
1 TATTATTAA
35086 TAAATATTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
10 1 0.02
11 6 0.13
12 10 0.21
13 23 0.49
14 7 0.15
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (13 bp):
TATTATTAAATAA
Found at i:35696 original size:17 final size:17
Alignment explanation
Indices: 35674--35709 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
35664 ATATAATAAA
35674 TATTAATTAAT-TAATAT
1 TATTAATT-ATCTAATAT
35691 TATTAATTATCTAATAT
1 TATTAATTATCTAATAT
35708 TA
1 TA
35710 GTTTGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTAATTATCTAATAT
Found at i:35772 original size:17 final size:17
Alignment explanation
Indices: 35750--35843 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
35740 TTGTTTAATA
35750 AATTAATATTATTATAT
1 AATTAATATTATTATAT
*
35767 AATTAA-ATTGATAATAT
1 AATTAATATT-ATTATAT
35784 ACTATATAATATTTATTATAT
1 A--AT-TAATA-TTATTATAT
* *
35805 TA-TAATAATATT-TA-
1 AATTAATATTATTATAT
* *
35819 ATATACAATAATATTATAT
1 A-AT-TAATATTATTATAT
35838 AATTAA
1 AATTAA
35844 ATAAATTAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 22
0.67 0.08 0.25
Matches are distributed among these distances:
15 3 0.05
16 7 0.12
17 29 0.49
18 4 0.07
19 4 0.07
20 3 0.05
21 7 0.12
22 2 0.03
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (17 bp):
AATTAATATTATTATAT
Found at i:35814 original size:20 final size:19
Alignment explanation
Indices: 35780--35864 Score: 74
Period size: 19 Copynumber: 4.6 Consensus size: 19
35770 TAAATTGATA
*
35780 ATATACTAT-ATAATATTT
1 ATATATTATAATAATATTT
35798 ATTATATTATAATAATATTT
1 A-TATATTATAATAATATTT
*
35818 A-ATA-TACAATAATA-TT
1 ATATATTATAATAATATTT
*
35834 ATATAATTA-AATAA-ATTAA
1 ATAT-ATTATAATAATATT-T
35853 ATATATTATAAT
1 ATATATTATAAT
35865 GATAACATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
16 3 0.05
17 12 0.21
18 15 0.27
19 16 0.29
20 10 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATATTATAATAATATTT
Found at i:35908 original size:33 final size:32
Alignment explanation
Indices: 35871--35941 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 32
35861 TAATGATAAC
*
35871 ATTTACTTATTAATTATTGAATT-TAACTATTAT
1 ATTTACTTATTAACTATT--ATTATAACTATTAT
* *
35904 ATTTAATTTATTAACTATTATTATATCTATTAT
1 ATTT-ACTTATTAACTATTATTATAACTATTAT
35937 ATTTA
1 ATTTA
35942 ATATTACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
32 4 0.12
33 17 0.52
34 12 0.36
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (32 bp):
ATTTACTTATTAACTATTATTATAACTATTAT
Found at i:35939 original size:24 final size:24
Alignment explanation
Indices: 35898--35947 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
35888 TGAATTTAAC
*
35898 TATTATATTTAATTTA-TTAACTAT
1 TATTATATCTAATTTATTTAA-TAT
35922 TATTATATCT-ATTATATTTAATAT
1 TATTATATCTAATT-TATTTAATAT
35946 TA
1 TA
35948 CAAATTGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 3 0.13
24 16 0.70
25 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
TATTATATCTAATTTATTTAATAT
Found at i:36449 original size:181 final size:178
Alignment explanation
Indices: 36096--36662 Score: 546
Period size: 180 Copynumber: 3.2 Consensus size: 178
36086 TAAGTAGGAG
* * *
36096 ATTTCAACAATTAGCTATTTCAAATTGTTATGACCTTTTGTTTT-TGCTATAAAACAATTGTTTC
1 ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGT-C-ATAAAACAATTGTTTC
* * * ** *
36160 TGTTCATACAAGTTTATTTC-AAATAAAATAATA-TAAATTTACTAATATTCCAAAGATT-ATAA
64 TATTCATA-AAGCTTA-TTCAAAATAAAATAATACT-AATTTATTAATATTTAAAAAATTAATAA
* * * *
36222 GTAAAATATAT-AAAATAAATTTGTTTTTTGA-ACATGTTAAAAATAATTATGACT
126 GTGAAATATTTAAAAATAAATTTG-TTTATGAGACA-GTT-CAAATAATTATGACT
* * *
36276 AATTTGAACAATTATCTATTTCAAATCGTTATGGCCTTTTGTTTTGTCGTAAACCAATTGTTTCT
1 -ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT
*
36341 ATTCATAAAAGCTTATTCAAAATAAAATAATACTAATTTATTAAAATTTAAAAAATTAATAAGTG
65 ATTCAT-AAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTG
**
36406 AAATATTTAAAAATAAATTTGTTTACTGAGTGAGTTCAAATAATTATGACT
129 AAATATTTAAAAATAAATTTGTTTA-TGAGACAGTTCAAATAATTATGACT
* *
36457 ATTTAAATATATTAT-TATTTCAAATCGTTATGATCC--TTGTTTTGT-ATAAAACAATTGTTTC
1 ATTTGAACA-ATTATCTATTTCAAATCGTTATGA-CCTTTTGTTTTGTCATAAAACAATTGTTTC
* *
36518 TATTCAT--A-C--A--AAAAATAAAATAATACTAATTTATTAATATTTTAAAAATTAATAA--G
64 TATTCATAAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTG
* * * * * *
36574 --AGATTTAAAAACTATATCTGTTTATCAGACCAATTCAAATAGTTATGACT
129 AAATATTTAAAAA-TAAATTTGTTTATGAGA-CAGTTCAAATAATTATGACT
* * * * *
36624 ATTTGAATAATTATCTATCTCAAATTGGTATGATCTTTT
1 ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTT
36663 TTTAATAAGT
Statistics
Matches: 331, Mismatches: 40, Indels: 43
0.80 0.10 0.10
Matches are distributed among these distances:
166 19 0.06
167 50 0.15
168 3 0.01
170 42 0.13
172 1 0.00
174 1 0.00
175 1 0.00
178 21 0.06
179 12 0.04
180 81 0.24
181 80 0.24
182 19 0.06
183 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.42
Consensus pattern (178 bp):
ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA
TTCATAAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTGAA
ATATTTAAAAATAAATTTGTTTATGAGACAGTTCAAATAATTATGACT
Found at i:36831 original size:22 final size:21
Alignment explanation
Indices: 36805--36849 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
36795 GAATAATATT
36805 TAAATAGATAATAATCTATAAC
1 TAAATAGATAATAAT-TATAAC
***
36827 TAAATCTTTAATAATTATAAC
1 TAAATAGATAATAATTATAAC
36848 TA
1 TA
36850 TTACACTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAATAGATAATAATTATAAC
Found at i:37464 original size:14 final size:15
Alignment explanation
Indices: 37431--37468 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
37421 TATTTATAAT
37431 TTAATTCTTTAAAGTA
1 TTAATT-TTTAAAGTA
*
37447 TTAATTTTT-AATTA
1 TTAATTTTTAAAGTA
37461 TTAATTTT
1 TTAATTTT
37469 CTATTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.57
15 3 0.14
16 6 0.29
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (15 bp):
TTAATTTTTAAAGTA
Done.