Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold99
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: 1377724
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 13826 characters in sequence are not A, C, G, or T
File 1 of 10
Found at i:4537 original size:6 final size:6
Alignment explanation
Indices: 4526--4585 Score: 52
Period size: 6 Copynumber: 9.7 Consensus size: 6
4516 TAAATTTTTT
* *
4526 ATTTAA ATTTAA ATTT-G ATTTAA TTTTAA ATTTAA A-TTAA TATTATAAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA -ATT-T-AA
4575 ATATTAA ATTT
1 AT-TTAA ATTT
4586 TTTATTTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
5 8 0.18
6 24 0.55
7 5 0.11
8 4 0.09
9 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:4546 original size:17 final size:17
Alignment explanation
Indices: 4526--4558 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4516 TAAATTTTTT
4526 ATTTAAATTTAAATTTG
1 ATTTAAATTTAAATTTG
*
4543 ATTTAATTTTAAATTT
1 ATTTAAATTTAAATTT
4559 AAATTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
ATTTAAATTTAAATTTG
Found at i:4565 original size:17 final size:17
Alignment explanation
Indices: 4528--4566 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4518 AATTTTTTAT
* * *
4528 TTAAATTTAAATTTGAT
1 TTAATTTTAAATTTAAA
4545 TTAATTTTAAATTTAAA
1 TTAATTTTAAATTTAAA
4562 TTAAT
1 TTAAT
4567 ATTATAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTAATTTTAAATTTAAA
Found at i:4614 original size:21 final size:20
Alignment explanation
Indices: 4575--4627 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
4565 ATATTATAAA
*
4575 ATATTAAATTT-TTTATTTT
1 ATATTAAATTTATATATTTT
4594 ATATTAATATTTATATATTTT
1 ATATTAA-ATTTATATATTTT
4615 ATAATTAAATTTA
1 AT-ATTAAATTTA
4628 AATAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 7 0.23
20 4 0.13
21 14 0.47
22 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATATTAAATTTATATATTTT
Found at i:4638 original size:18 final size:20
Alignment explanation
Indices: 4617--4664 Score: 73
Period size: 18 Copynumber: 2.5 Consensus size: 20
4607 TATATTTTAT
4617 AATTAAATTTAAAT-AA-AA
1 AATTAAATTTAAATCAATAA
4635 AATTAAATTTAAATCAATAA
1 AATTAAATTTAAATCAATAA
4655 AATATAAATT
1 AAT-TAAATT
4665 CACCTAACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.52
19 2 0.07
20 5 0.19
21 6 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AATTAAATTTAAATCAATAA
Found at i:5343 original size:12 final size:13
Alignment explanation
Indices: 5321--5437 Score: 53
Period size: 14 Copynumber: 8.5 Consensus size: 13
5311 AGTGCCGAAT
5321 TATATAAATATAA
1 TATATAAATATAA
5334 TATA-AAATATAA
1 TATATAAATATAA
*
5346 TAT-TAATTAATTAAA
1 TATATAAAT-A-T-AA
* **
5361 TATTTAAA-ATTTT
1 TATATAAATA-TAA
*
5374 TATATTAATATAAAA
1 TATA-TAA-ATATAA
*
5389 TATTTTAAATATAA
1 TA-TATAAATATAA
5403 T-TATAATATAATAA
1 TATATAA-AT-ATAA
*
5417 AATATAAATATAAA
1 TATATAAATAT-AA
5431 TATATAA
1 TATATAA
5438 TTATTAATGT
Statistics
Matches: 78, Mismatches: 13, Indels: 25
0.67 0.11 0.22
Matches are distributed among these distances:
12 18 0.23
13 12 0.15
14 27 0.35
15 16 0.21
16 5 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TATATAAATATAA
Found at i:5362 original size:27 final size:29
Alignment explanation
Indices: 5322--5438 Score: 77
Period size: 28 Copynumber: 4.1 Consensus size: 29
5312 GTGCCGAATT
*
5322 ATATAAATATAATATAAAATATAATAT-TA
1 ATATAATTA-AATATAAAATATAATATATA
**
5351 AT-TAATTAAATATTTAAAAT-TTTTATATTA
1 ATATAATTAAATA--TAAAATATAATATA-TA
* *
5381 ATATAA--AATATTTTAAATATAAT-TATA
1 ATATAATTAA-ATATAAAATATAATATATA
*
5408 ATATAATAAAATAT-AAATATAAATATATA
1 ATATAATTAAATATAAAATAT-AATATATA
5437 AT
1 AT
5439 TATTAATGTT
Statistics
Matches: 69, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
27 18 0.26
28 22 0.32
29 20 0.29
30 6 0.09
31 3 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATAATTAAATATAAAATATAATATATA
Found at i:5403 original size:21 final size:21
Alignment explanation
Indices: 5365--5435 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 21
5355 ATTAAATATT
*
5365 TAAAAT-TTTTATAT-TAATA
1 TAAAATATTTTAAATATAATA
5384 TAAAATATTTTAAATATAAT-
1 TAAAATATTTTAAATATAATA
* * *
5404 TATAATATAATAAAATATAAATA
1 TAAAATAT-TTTAAATAT-AATA
5427 TAAATATAT
1 TAAA-ATAT
5436 AATTATTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
19 6 0.15
20 14 0.34
21 11 0.27
22 3 0.07
23 3 0.07
24 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAAATATTTTAAATATAATA
Found at i:5437 original size:21 final size:21
Alignment explanation
Indices: 5375--5437 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
5365 TAAAATTTTT
* * *
5375 ATATTAATATAAAATATTTTAA
1 ATATAAATAT-AAATATATAAA
*
5397 ATATAATTAT-AATATAATAAA
1 ATATAAATATAAATAT-ATAAA
5418 ATATAAATATAAATATATAA
1 ATATAAATATAAATATATAA
5438 TTATTAATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 5 0.15
21 16 0.47
22 13 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATAAATATAAATATATAAA
Found at i:10586 original size:48 final size:49
Alignment explanation
Indices: 10493--10592 Score: 132
Period size: 49 Copynumber: 2.0 Consensus size: 49
10483 GAGTAATTAG
* *
10493 ATAAAAAATTATTATGTTTTAAAAATATAATTAGTGAGTATTTTTTAAA
1 ATAAAAAATAATTATGTTTTAAAAATATAATTAGTGAATATTTTTTAAA
* *
10542 ATAAAAAATAATTAT-TTTTAAATTTATATAATTA-TTAATATTTTTTAAA
1 ATAAAAAATAATTATGTTTTAAA--AATATAATTAGTGAATATTTTTTAAA
10591 AT
1 AT
10593 TTTTAAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
48 7 0.16
49 29 0.64
50 9 0.20
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (49 bp):
ATAAAAAATAATTATGTTTTAAAAATATAATTAGTGAATATTTTTTAAA
Found at i:10917 original size:17 final size:17
Alignment explanation
Indices: 10897--10929 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10887 AATTAAAAGT
10897 TTAAAAT-TATATTTAAA
1 TTAAAATAT-TATTTAAA
10914 TTAAAATATTATTTAA
1 TTAAAATATTATTTAA
10930 TAAATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAAATATTATTTAAA
Found at i:11634 original size:21 final size:22
Alignment explanation
Indices: 11603--11643 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11593 CAATTTATAT
11603 AAATATATTATAATTATATTTA
1 AAATATATTATAATTATATTTA
*
11625 AAATAT-TTATATTTATATT
1 AAATATATTATAATTATATT
11644 ATTTTATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AAATATATTATAATTATATTTA
Found at i:13279 original size:6 final size:6
Alignment explanation
Indices: 13268--13309 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
13258 GACACCCGGG
13268 CGCCCC CGCCCC CGCCCC CGCCCC CGCCCC CGCCCC CGCCCC
1 CGCCCC CGCCCC CGCCCC CGCCCC CGCCCC CGCCCC CGCCCC
13310 ATGTATATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.83, G:0.17, T:0.00
Consensus pattern (6 bp):
CGCCCC
Found at i:13369 original size:15 final size:16
Alignment explanation
Indices: 13351--13384 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
13341 AGATTATTAA
13351 TTTATTTAT-AATTTT
1 TTTATTTATAAATTTT
13366 TTTATTTATGAAATTTT
1 TTTATTTAT-AAATTTT
13383 TT
1 TT
13385 GATGATAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTATTTATAAATTTT
Found at i:13631 original size:18 final size:18
Alignment explanation
Indices: 13599--13663 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
13589 TAAAATATTA
13599 TAATATATTGATATAAATTT
1 TAATATATT--TATAAATTT
13619 TAATATATTTAT-AA-TT
1 TAATATATTTATAAATTT
13635 T-ATAT-TTTATAAATTT
1 TAATATATTTATAAATTT
*
13651 TAAAATATTTATA
1 TAATATATTTATA
13664 TAAATATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 5 0.12
15 6 0.15
16 6 0.15
17 5 0.12
18 9 0.22
20 9 0.22
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
TAATATATTTATAAATTT
Found at i:13651 original size:32 final size:31
Alignment explanation
Indices: 13586--13663 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 31
13576 CAAGAATTAT
13586 TTTTAAAATA-TTATAATATATTGATATAAA
1 TTTTAAAATATTTATAATATATTGATATAAA
* *
13616 TTTTAATATATTTATAATTTATATT-TTATAAA
1 TTTTAAAATATTTATAA--TATATTGATATAAA
13648 TTTTAAAATATTTATA
1 TTTTAAAATATTTATA
13664 TAAATATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 9 0.21
31 6 0.14
32 21 0.50
33 6 0.14
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (31 bp):
TTTTAAAATATTTATAATATATTGATATAAA
Found at i:13686 original size:24 final size:24
Alignment explanation
Indices: 13620--13689 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 24
13610 TATAAATTTT
*
13620 AATATATTTATAATTTATATTTTAT-
1 AATATATTT-TAA-TTATATTATATA
* *
13645 AA-AT-TTTAAAATAT-TTATATA
1 AATATATTTTAATTATATTATATA
13666 AATATATTTTAATTATATTATATA
1 AATATATTTTAATTATATTATATA
13690 TTTTTCATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
20 5 0.14
21 5 0.14
22 4 0.11
23 11 0.31
24 9 0.25
25 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
AATATATTTTAATTATATTATATA
Found at i:13726 original size:27 final size:28
Alignment explanation
Indices: 13658--13727 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 28
13648 TTTTAAAATA
*
13658 TTTATA-TAAATATAT-TTTAATTATAT
1 TTTATATTAAATTTATATTTAATTATAT
*
13684 TATATATT---TTTCATATTTAATTA-AT
1 TTTATATTAAATTT-ATATTTAATTATAT
13709 TTTATATTAAATTTATATT
1 TTTATATTAAATTTATATT
13728 ATTTAAAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
24 2 0.06
25 11 0.31
26 13 0.37
27 6 0.17
28 3 0.09
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTATATTAAATTTATATTTAATTATAT
Found at i:14470 original size:21 final size:20
Alignment explanation
Indices: 14422--14471 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
14412 TAATTAAATT
*
14422 TAAATAAA-AATAATTTTTA
1 TAAATAAATAATAATTTATA
*
14441 TTAATTAAATAATAATTTATA
1 -TAAATAAATAATAATTTATA
14462 TAAACTAAAT
1 TAAA-TAAAT
14472 TAAAACCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATAAATAATAATTTATA
Found at i:15351 original size:18 final size:18
Alignment explanation
Indices: 15314--15360 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
15304 TATGTTTTAT
* *
15314 AAAAATTT-AATTAATTA
1 AAAAATTTAAAATAATAA
*
15331 AAATATTTAAAATAATAA
1 AAAAATTTAAAATAATAA
15349 AAAAATTTAAAA
1 AAAAATTTAAAA
15361 ATTTAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATTTAAAATAATAA
Found at i:19306 original size:8 final size:8
Alignment explanation
Indices: 19293--19317 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19283 TTTACTTGAT
19293 ACACATGC
1 ACACATGC
19301 ACACATGC
1 ACACATGC
19309 ACACATGC
1 ACACATGC
19317 A
1 A
19318 TATCTAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.36, G:0.12, T:0.12
Consensus pattern (8 bp):
ACACATGC
Found at i:21085 original size:34 final size:34
Alignment explanation
Indices: 21021--21203 Score: 260
Period size: 34 Copynumber: 5.4 Consensus size: 34
21011 CAGACAGAAG
* *
21021 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
21054 TGTTGACTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
21088 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
21122 TGTTGATTAAATAGGTGATTTGGTGGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
21156 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
21190 TGTTGATTAAATGG
1 TGTTGATTAAATGG
21204 TGGTTTTTAC
Statistics
Matches: 132, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 11 0.08
34 121 0.92
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:21564 original size:19 final size:19
Alignment explanation
Indices: 21508--21570 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
21498 TGGTTGTCGA
**
21508 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
21527 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
21546 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
21565 GTTACT
1 GGTACT
21571 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:25702 original size:34 final size:34
Alignment explanation
Indices: 25636--25820 Score: 264
Period size: 34 Copynumber: 5.5 Consensus size: 34
25626 AAGTGGGAGA
* *
25636 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
25669 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
25703 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
25737 ATTGTTGATTAAATAGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
25771 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
25805 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
25821 TGGTTTTTAC
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 13 0.10
34 121 0.90
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:25811 original size:102 final size:101
Alignment explanation
Indices: 25636--25820 Score: 325
Period size: 102 Copynumber: 1.8 Consensus size: 101
25626 AAGTGGGAGA
25636 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGACTAAATGGGAAATTTGGTAGCTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGACTAAATGGGAAATTTGGTAGCTTA
25701 CCATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
25737 ATTGTTGATTAAATAGGTGATTTGGTGGTTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACCATTGTTGACTAAATGGGAAATTTGGTAGCTT
*
25802 GCCATTGTTGATTAAATGG
65 ACCATTGTTGATTAAATGG
25821 TGGTTTTTAC
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
101 14 0.18
102 65 0.82
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (101 bp):
ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGACTAAATGGGAAATTTGGTAGCTTA
CCATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:32401 original size:18 final size:18
Alignment explanation
Indices: 32356--32413 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
32346 TTTTCAAAAC
*
32356 AAATAAATATATTAATTAA
1 AAATAATTATA-TAATTAA
*
32375 ATAAT-ATTATATATTTAA
1 A-AATAATTATATAATTAA
32393 AAATAATTATATAAATTAA
1 AAATAATTATAT-AATTAA
32412 AA
1 AA
32414 TTTTATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 3 0.09
18 14 0.42
19 13 0.39
20 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATAATTATATAATTAA
Found at i:32414 original size:18 final size:18
Alignment explanation
Indices: 32356--32427 Score: 51
Period size: 17 Copynumber: 4.0 Consensus size: 18
32346 TTTTCAAAAC
* *
32356 AAATAAATATATTAATT-
1 AAATAATTATATAAATTA
*
32373 AAATAA-TATTATATATTTAA
1 AAATAATTA-TATA-AATT-A
32393 AAATAATTATATAAATTA
1 AAATAATTATATAAATTA
* *
32411 AAAT-TTTATAAAAATTA
1 AAATAATTATATAAATTA
32428 CGATAAATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
16 2 0.04
17 20 0.44
18 8 0.18
19 3 0.07
20 10 0.22
21 2 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATAATTATATAAATTA
Found at i:35311 original size:32 final size:33
Alignment explanation
Indices: 35270--35333 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
35260 TATATTTTTA
*
35270 ATATAAATTTTAAAATATTAAT-TATTTATATT
1 ATATAAATTTTAAAAGATTAATATATTTATATT
*
35302 ATATAAATTTTAAAAGATTTATATATTTATAT
1 ATATAAATTTTAAAAGATTAATATATTTATAT
35334 CGTATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 20 0.69
33 9 0.31
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (33 bp):
ATATAAATTTTAAAAGATTAATATATTTATATT
Found at i:35673 original size:2 final size:2
Alignment explanation
Indices: 35668--35692 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35658 ATCCATCTAA
35668 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
35693 ATCTTTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37306 original size:39 final size:37
Alignment explanation
Indices: 37218--37329 Score: 97
Period size: 39 Copynumber: 3.0 Consensus size: 37
37208 GATTAAAAAT
* *
37218 TTTTTATTATTTGA-TTATAATATAATTCATATTATTA
1 TTTTTATTATTT-ATTTATAATATAATTAATAATATTA
*
37255 TTTGTGTTTTATTTATTTATAATATAATTAATAATATTAA
1 TTT-T-TATTATTTATTTATAATATAATTAATAATATT-A
* *
37295 TATTTTGTTATTTTATTTA-AAT-TAATAAAT-ATATT
1 T-TTTTATTA-TTTATTTATAATATAATTAATAATATT
37330 TGTTTGTTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
37 8 0.12
38 9 0.14
39 34 0.53
40 11 0.17
41 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.59
Consensus pattern (37 bp):
TTTTTATTATTTATTTATAATATAATTAATAATATTA
Found at i:37418 original size:24 final size:23
Alignment explanation
Indices: 37352--37424 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 23
37342 TAAATTTGTG
* *
37352 TAAATTTATTTATT-TATTATTCA
1 TAAATATATTTATTATA-TGTTCA
37375 TAAATATATTT-TTA-ATTGTTCA
1 TAAATATATTTATTATA-TGTTCA
*
37397 TGAATATATTTAATTATATGTTCA
1 TAAATATATTT-ATTATATGTTCA
37421 TAAA
1 TAAA
37425 CATACTCGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
22 19 0.45
23 10 0.24
24 12 0.29
25 1 0.02
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (23 bp):
TAAATATATTTATTATATGTTCA
Found at i:37549 original size:15 final size:15
Alignment explanation
Indices: 37531--37565 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
37521 TTTAATAAAC
37531 ATAAA-TTAAATATAA
1 ATAAATTTAAA-ATAA
37546 ATAAATTTAAAATAA
1 ATAAATTTAAAATAA
37561 ATAAA
1 ATAAA
37566 AAAATACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAATTTAAAATAA
Found at i:37556 original size:21 final size:19
Alignment explanation
Indices: 37532--37580 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
37522 TTAATAAACA
*
37532 TAAATTAAATATAAATAAATT
1 TAAAATAAATA-AAA-AAATT
*
37553 TAAAATAAATAAAAAAATA
1 TAAAATAAATAAAAAAATT
*
37572 CAAAATAAA
1 TAAAATAAA
37581 ATTTTAGTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 12 0.48
20 3 0.12
21 10 0.40
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAAATAAATAAAAAAATT
Found at i:37570 original size:19 final size:21
Alignment explanation
Indices: 37524--37580 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
37514 TAAAATTTTT
* *
37524 AATAAACATAAATTAAATATA
1 AATAAATATAAAATAAATATA
*
37545 AATAAATTTAAAATAAATA-A
1 AATAAATATAAAATAAATATA
*
37565 AA-AAATACAAAATAAA
1 AATAAATATAAAATAAA
37581 ATTTTAGTCG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 12 0.39
20 3 0.10
21 16 0.52
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.25
Consensus pattern (21 bp):
AATAAATATAAAATAAATATA
Found at i:37702 original size:42 final size:43
Alignment explanation
Indices: 37650--37742 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 43
37640 GTTAAGATAA
37650 GAAAAAAAGAAAAAGAAAAATTCTAATGTGAAAAATTA-AGGG
1 GAAAAAAAGAAAAAGAAAAATTCTAATGTGAAAAATTAGAGGG
* *
37692 GAAAAAAAGAAAAAGAAAAATTCTAATGTGAAAATTTAGGGGG
1 GAAAAAAAGAAAAAGAAAAATTCTAATGTGAAAAATTAGAGGG
37735 GAAAAAAA
1 GAAAAAAA
37743 CAAGATGGGT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 37 0.77
43 11 0.23
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.16
Consensus pattern (43 bp):
GAAAAAAAGAAAAAGAAAAATTCTAATGTGAAAAATTAGAGGG
Found at i:45130 original size:1 final size:1
Alignment explanation
Indices: 45120--45154 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
45110 ACAACTGATG
*
45120 CCCCCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
45155 GGCAGAGGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.97, G:0.00, T:0.03
Consensus pattern (1 bp):
C
Found at i:45483 original size:14 final size:14
Alignment explanation
Indices: 45461--45503 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
45451 TAGAAAAAGT
*
45461 AATTATAAATATTA
1 AATTTTAAATATTA
*
45475 AATTTTAAATTTTA
1 AATTTTAAATATTA
45489 AATTTATTAAATATT
1 AA-TT-TTAAATATT
45504 TTTTAAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 14 0.58
15 2 0.08
16 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AATTTTAAATATTA
Found at i:46956 original size:4 final size:4
Alignment explanation
Indices: 46947--46983 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
46937 GTCTTAGGCT
*
46947 TGTC TGTC TGTT TGTC TGTC TGTC TGTC TGTC TGTC T
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC T
46984 TTCTTTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.00, C:0.22, G:0.24, T:0.54
Consensus pattern (4 bp):
TGTC
Found at i:47677 original size:15 final size:15
Alignment explanation
Indices: 47653--47753 Score: 59
Period size: 15 Copynumber: 6.7 Consensus size: 15
47643 AAATAAGATA
*
47653 TAATAGATAAATAAT
1 TAATATATAAATAAT
47668 TAATATATAAATAAT
1 TAATATATAAATAAT
* *
47683 ATGCATATATTAA-AAT
1 -T-AATATATAAATAAT
* *
47699 TATCTAATATAAATTAT
1 TA-AT-ATATAAATAAT
*
47716 TAATTTAT-AATAAT
1 TAATATATAAATAAT
47730 T--TATATAAAT-AT
1 TAATATATAAATAAT
*
47742 ATAATATTTAAA
1 -TAATATATAAA
47754 ATATAATTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
12 6 0.09
13 4 0.06
14 6 0.09
15 26 0.40
16 11 0.17
17 12 0.18
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (15 bp):
TAATATATAAATAAT
Found at i:47764 original size:20 final size:18
Alignment explanation
Indices: 47720--47767 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
47710 AATTATTAAT
*
47720 TTATAATAATTTATATAAA
1 TTATAAT-ATTTAAATAAA
47739 TATATAATATTTAAAATATAA
1 T-TATAATATTT-AAATA-AA
47760 TTATAATA
1 TTATAATA
47768 AAAAATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.20
20 17 0.68
21 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATAATATTTAAATAAA
Found at i:51832 original size:2 final size:2
Alignment explanation
Indices: 51825--51875 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
51815 TGCGTTCATT
*
51825 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51867 TA TA TA TA T
1 TA TA TA TA T
51876 TCATGAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:52743 original size:21 final size:21
Alignment explanation
Indices: 52719--52767 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
52709 CATCTTCCAG
52719 CTTTTGCACATTAGCTCTCAA
1 CTTTTGCACATTAGCTCTCAA
** *
52740 CTTTTGCATTTTAGCTTTCAA
1 CTTTTGCACATTAGCTCTCAA
52761 CTTTTGC
1 CTTTTGC
52768 TCCAACTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.18, C:0.24, G:0.10, T:0.47
Consensus pattern (21 bp):
CTTTTGCACATTAGCTCTCAA
Found at i:54494 original size:33 final size:33
Alignment explanation
Indices: 54457--54523 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
54447 TTCAACGATG
*
54457 TGTATTGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
54490 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
54523 T
1 T
54524 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:54495 original size:13 final size:13
Alignment explanation
Indices: 54477--54501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54467 CATAAAATGT
54477 TGTATCGATACAA
1 TGTATCGATACAA
54490 TGTATCGATACA
1 TGTATCGATACA
54502 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:54582 original size:13 final size:13
Alignment explanation
Indices: 54564--54588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54554 ATTACTCAAA
54564 TGTATCGATACAT
1 TGTATCGATACAT
54577 TGTATCGATACA
1 TGTATCGATACA
54589 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:54638 original size:51 final size:53
Alignment explanation
Indices: 54577--54712 Score: 190
Period size: 52 Copynumber: 2.6 Consensus size: 53
54567 ATCGATACAT
*** *
54577 TGTATCGATACACTGAT-CTTTGTATCGATACATGCAGGC-AATTTGCCTAGA
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
54628 TGTATCGATACA-TTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
54680 TGTATCGATACACT-ATTAAATGTATCGATACAT
1 TGTATCGATACACTGATAAAATGTATCGATACAT
54713 ACAAGCAACT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
50 3 0.04
51 31 0.41
52 41 0.54
53 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (53 bp):
TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:54690 original size:52 final size:51
Alignment explanation
Indices: 54597--54712 Score: 196
Period size: 52 Copynumber: 2.3 Consensus size: 51
54587 CACTGATCTT
* *
54597 TGTATCGATACATGCAGGCAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACACTATAAAA
*
54648 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACACTATAAAA
54700 TGTATCGATACAT
1 TGTATCGATACAT
54713 ACAAGCAACT
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
51 19 0.31
52 42 0.69
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (51 bp):
TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:56319 original size:11 final size:11
Alignment explanation
Indices: 56303--56335 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
56293 CCAGCAGACG
56303 TTTTTTCTAAA
1 TTTTTTCTAAA
56314 TTTTTTC-AACA
1 TTTTTTCTAA-A
56325 TTTTTTCTAAA
1 TTTTTTCTAAA
56336 AAGGGTATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.10
11 16 0.80
12 2 0.10
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTTTCTAAA
Found at i:58871 original size:10 final size:10
Alignment explanation
Indices: 58856--58882 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
58846 TGCTAACTAA
58856 GTTTTTGTTT
1 GTTTTTGTTT
58866 GTTTTTGTTT
1 GTTTTTGTTT
58876 GTTTTTG
1 GTTTTTG
58883 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:68310 original size:1 final size:1
Alignment explanation
Indices: 68304--68417 Score: 75
Period size: 1 Copynumber: 114.0 Consensus size: 1
68294 GGCGTCCTCC
* ** * ** ** *
68304 AAAAAAAAAAAAAAAACAAAAAAAATGAAAAAACAAAAAAAATGAATGAAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *
68369 CAAAAGAAAAAAAAACAAAAACAATAAAAAAACAAACAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
68418 GGGGGTCCGG
Statistics
Matches: 82, Mismatches: 31, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 82 1.00
ACGTcount: A:0.85, C:0.08, G:0.04, T:0.04
Consensus pattern (1 bp):
A
Found at i:68325 original size:17 final size:17
Alignment explanation
Indices: 68303--68417 Score: 97
Period size: 17 Copynumber: 6.4 Consensus size: 17
68293 CGGCGTCCTC
68303 CAAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAAA
**
68320 CAAAAAAAATGAAAAAA
1 CAAAAAAAAAAAAAAAA
68337 CAAAAAAAATGAATGAAAAAA
1 CAAAAAAAA--AA--AAAAAA
* *
68358 -AAAACAAAAAACAAAA
1 CAAAAAAAAAAAAAAAA
*
68374 GAAAAAAAAACAAAAACAA
1 CAAAAAAAAA-AAAAA-AA
* *
68393 TAAAAAAACAAACAAAAA
1 CAAAAAAA-AAAAAAAAA
68411 CAAAAAA
1 CAAAAAA
68418 GGGGGTCCGG
Statistics
Matches: 79, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
16 5 0.06
17 32 0.41
18 14 0.18
19 13 0.16
20 9 0.11
21 6 0.08
ACGTcount: A:0.84, C:0.09, G:0.03, T:0.03
Consensus pattern (17 bp):
CAAAAAAAAAAAAAAAA
Found at i:68357 original size:43 final size:42
Alignment explanation
Indices: 68309--68415 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
68299 CCTCCAAAAA
* *
68309 AAAAAAAAAAACAAAAA-AAATGAAAAAACAAA-AAAAATGAAT
1 AAAAAAAAAAACAAAAACAAAAGAAAAAA-AAACAAAAA-CAAT
*
68351 GAAAAAAAAAACAAAAAACAAAAGAAAAAAAAACAAAAACAAT
1 AAAAAAAAAAAC-AAAAACAAAAGAAAAAAAAACAAAAACAAT
*
68394 AAAAAAACAAACAAAAACAAAA
1 AAAAAAAAAAACAAAAACAAAA
68416 AAGGGGGTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 21 0.37
43 21 0.37
44 15 0.26
ACGTcount: A:0.84, C:0.08, G:0.04, T:0.04
Consensus pattern (42 bp):
AAAAAAAAAAACAAAAACAAAAGAAAAAAAAACAAAAACAAT
Found at i:68411 original size:21 final size:21
Alignment explanation
Indices: 68309--68417 Score: 116
Period size: 21 Copynumber: 5.2 Consensus size: 21
68299 CCTCCAAAAA
*
68309 AAAAAAAAAAACAAAAAAAAT
1 AAAAAAAAAAACAAAAACAAT
* **
68330 GAAAAAACAAAA-AAAATGAAT
1 -AAAAAAAAAAACAAAAACAAT
*
68351 GAAAAAAAAAACAAAAAACAA-
1 AAAAAAAAAAAC-AAAAACAAT
68372 AAGAAAAAAAAACAAAAACAAT
1 AA-AAAAAAAAACAAAAACAAT
*
68394 AAAAAAACAAACAAAAACAA-
1 AAAAAAAAAAACAAAAACAAT
68414 AAAA
1 AAAA
68418 GGGGGTCCGG
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
20 13 0.18
21 33 0.45
22 28 0.38
ACGTcount: A:0.84, C:0.08, G:0.04, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAAACAAAAACAAT
Found at i:69914 original size:30 final size:29
Alignment explanation
Indices: 69859--70308 Score: 308
Period size: 30 Copynumber: 15.3 Consensus size: 29
69849 TCACCCTTCA
* *
69859 AAAGTCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
* *
69888 AAAGCCCACAAGTCGGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
**
69917 GAAAGCCCACAAGTCAGTGGCA-A-CCTTC
1 -AAAGCCCACAAGTCAGTGGCATATTTTTC
* ** *
69945 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TATTTTTC
* * * *
69975 GAAGCCCACAAGTCGGCGGCATATTTTCC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
* * * *
70004 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TATTTTTC
* * * * *
70034 TTTTGTAAGCTCACAACTCTA-TAGCACT-CTTTTC
1 -----AAAGCCCACAAGTC-AGTGGCA-TATTTTTC
* ***
70068 --AGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
70095 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATATTTTTC
** *
70125 AAAAGCCCACAAGTCAGTGGCA-ACCTTTA
1 -AAAGCCCACAAGTCAGTGGCATATTTTTC
* *** *
70154 AAAGCCCACAAGTTAGTGGCACCCTGTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
70183 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATATTTTTC
** *
70213 AAAAGCCCACAAGTCAGTGGCA-ACCTTTA
1 -AAAGCCCACAAGTCAGTGGCATATTTTTC
*
70242 AAAGCCCACAAGTCAGTGGCA-A-TCTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
* ** *
70269 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TATTTTTC
70299 AAAGCCCACA
1 AAAGCCCACA
70309 CAAGTCGGTG
Statistics
Matches: 338, Mismatches: 62, Indels: 41
0.77 0.14 0.09
Matches are distributed among these distances:
26 1 0.00
27 61 0.18
28 45 0.13
29 60 0.18
30 149 0.44
34 5 0.01
35 17 0.05
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATATTTTTC
Found at i:69960 original size:27 final size:27
Alignment explanation
Indices: 69918--69970 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
69908 ATTTTTTTCG
*
69918 AAAGCCCACAAGTCAGTGGCAACCTTC
1 AAAGCCCACAAATCAGTGGCAACCTTC
*
69945 AAAGCCCACAAATCAGTGGCACCCTT
1 AAAGCCCACAAATCAGTGGCAACCTT
69971 TTCCGAAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (27 bp):
AAAGCCCACAAATCAGTGGCAACCTTC
Found at i:70172 original size:88 final size:88
Alignment explanation
Indices: 70068--70324 Score: 385
Period size: 88 Copynumber: 2.9 Consensus size: 88
70058 CACTCTTTTC
*
70068 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCCTCTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
70133 ACAAGTCAGTGGCAACCTTTAAA
66 ACAAGTCAGTGGCAACCTTTAAA
*
70156 AGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCCTCTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
70221 ACAAGTCAGTGGCAACCTTTAAA
66 ACAAGTCAGTGGCAACCTTTAAA
* * * *** *
70244 AGCCCACAAGTCAGTGGCA--ATCTTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCC
1 AGCCCACAAGTTAGTGGCACCCTCTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAG-CC
*
70306 ACACAAGTCGGTGGCAACC
65 -CACAAGTCAGTGGCAACC
70325 CTTCTAAGCC
Statistics
Matches: 157, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
85 29 0.18
86 6 0.04
87 17 0.11
88 105 0.67
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (88 bp):
AGCCCACAAGTTAGTGGCACCCTCTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
ACAAGTCAGTGGCAACCTTTAAA
Found at i:70184 original size:58 final size:59
Alignment explanation
Indices: 69855--70324 Score: 331
Period size: 58 Copynumber: 8.0 Consensus size: 59
69845 TTCATCACCC
* *** * ***
69855 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTC-AAAGCCCACAAGTCGGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
* * * *
69914 TTCGAAAGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
** * * ** * * * *
69971 TTCCGAAGCCCACAAGTCGGCGGCA-TATTTTCCAAAGTCCACAACTCCGTGGC-ACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAAC-C--T
** * * * * * *
70031 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTTTC---AGCCCACAAGTTAGTGGCACCCTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
***
70092 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
* * **
70151 TT-AAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
* *
70210 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGGCAATC-
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
* * *
70266 TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACACAAGTCGGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAG-CC-CACAAGTCAGTGGCAACC
70325 CTTCTAAGCC
Statistics
Matches: 329, Mismatches: 59, Indels: 46
0.76 0.14 0.11
Matches are distributed among these distances:
55 22 0.07
56 7 0.02
57 70 0.21
58 75 0.23
59 66 0.20
60 48 0.15
61 5 0.02
62 15 0.05
63 1 0.00
64 14 0.04
65 6 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (59 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
Found at i:70391 original size:49 final size:48
Alignment explanation
Indices: 70329--70566 Score: 306
Period size: 49 Copynumber: 4.9 Consensus size: 48
70319 GCAACCCTTC
* *
70329 TAAGCCCAATATAGCTGGCCTTGAATCACCATATTGGCACCTTTAACTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-ACTT
*
70378 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA-CTT
*
70427 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTACTT
70470 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--A-CTT
* * * *
70522 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTT
70567 TTCTCATCTT
Statistics
Matches: 169, Mismatches: 9, Indels: 19
0.86 0.05 0.10
Matches are distributed among these distances:
43 41 0.24
44 1 0.01
48 2 0.01
49 82 0.49
52 41 0.24
53 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (48 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTACTT
Found at i:70482 original size:43 final size:43
Alignment explanation
Indices: 70421--70513 Score: 177
Period size: 43 Copynumber: 2.2 Consensus size: 43
70411 TTGGCACCTT
70421 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
*
70464 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
70507 CACCTTT
1 CACCTTT
70514 TCCATCTTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
Found at i:70491 original size:22 final size:22
Alignment explanation
Indices: 70423--70491 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
70413 GGCACCTTCA
70423 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * *
70445 CCTTGAA-TCAGCACAT-TGGC--A
1 CCTTTAAGTC--CA-ATATAGCTGG
70466 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
70488 CCTT
1 CCTT
70492 GAATCAGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:70503 original size:92 final size:95
Alignment explanation
Indices: 70375--70566 Score: 318
Period size: 92 Copynumber: 2.0 Consensus size: 95
70365 GCACCTTTAA
70375 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TT-CACCTTTAAGTCCAATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCACCTTTAAGTCCAATA
*
70438 TAGCTGGCCTTGAATCAGCACATTGGCA-C
66 TAGCTGGCCTTGAATCAGCACATTGACATC
* *
70467 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTCCACCTTTAAGTCCAAT
*
70532 GTAGCTGGCCTTGAATCAGCACATTGACATC
65 ATAGCTGGCCTTGAATCAGCACATTGACATC
70563 CTTT
1 CTTT
70567 TTCTCATCTT
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
92 44 0.48
94 2 0.02
95 41 0.45
96 5 0.05
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (95 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCACCTTTAAGTCCAATA
TAGCTGGCCTTGAATCAGCACATTGACATC
Found at i:70545 original size:52 final size:53
Alignment explanation
Indices: 70467--70620 Score: 186
Period size: 52 Copynumber: 2.9 Consensus size: 53
70457 ACATTGGCAC
70467 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
70519 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * *
70574 CTTTAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTT
70621 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 7 0.08
55 35 0.41
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:71437 original size:33 final size:33
Alignment explanation
Indices: 71400--71466 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
71390 TTCAACGATT
71400 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
71433 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
71466 T
1 T
71467 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:71438 original size:13 final size:13
Alignment explanation
Indices: 71420--71444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71410 CATAAAATGT
71420 TGTATCGATACAA
1 TGTATCGATACAA
71433 TGTATCGATACA
1 TGTATCGATACA
71445 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:71525 original size:13 final size:13
Alignment explanation
Indices: 71507--71531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71497 ATTACTCAAA
71507 TGTATCGATACAT
1 TGTATCGATACAT
71520 TGTATCGATACA
1 TGTATCGATACA
71532 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:71595 original size:51 final size:52
Alignment explanation
Indices: 71540--71655 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
71530 CACTGATCTT
*
71540 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
71591 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
71643 TGTATCGATACAT
1 TGTATCGATACAT
71656 ACAAGCAACT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 19 0.31
52 43 0.69
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:81745 original size:20 final size:20
Alignment explanation
Indices: 81695--81746 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
81685 TTTTTTTGGA
* *
81695 TTTTTGTTGTTCCCCTTTTT
1 TTTTTGTTTTTCCACTTTTT
* * *
81715 ATTTTGCTTTTGCACTTTTT
1 TTTTTGTTTTTCCACTTTTT
81735 TTTTTGTTTTTC
1 TTTTTGTTTTTC
81747 TTTTCATATT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.04, C:0.15, G:0.10, T:0.71
Consensus pattern (20 bp):
TTTTTGTTTTTCCACTTTTT
Found at i:84606 original size:116 final size:116
Alignment explanation
Indices: 84457--84665 Score: 418
Period size: 116 Copynumber: 1.8 Consensus size: 116
84447 ATGAATGCTA
84457 ATCATGATGTGATGATGCATGAAAAAATCACAAAAGTAAAACTTTACAACATGCAAACAATTGCA
1 ATCATGATGTGATGATGCATGAAAAAATCACAAAAGTAAAACTTTACAACATGCAAACAATTGCA
84522 AAGAATAAAAGAGTGAGGGTAAAGAATGCAAACAAAAGTAAAAATCACATC
66 AAGAATAAAAGAGTGAGGGTAAAGAATGCAAACAAAAGTAAAAATCACATC
84573 ATCATGATGTGATGATGCATGAAAAAATCACAAAAGTAAAACTTTACAACATGCAAACAATTGCA
1 ATCATGATGTGATGATGCATGAAAAAATCACAAAAGTAAAACTTTACAACATGCAAACAATTGCA
84638 AAGAATAAAAGAGTGAGGGTAAAGAATG
66 AAGAATAAAAGAGTGAGGGTAAAGAATG
84666 AACCCTGACA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 93 1.00
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.20
Consensus pattern (116 bp):
ATCATGATGTGATGATGCATGAAAAAATCACAAAAGTAAAACTTTACAACATGCAAACAATTGCA
AAGAATAAAAGAGTGAGGGTAAAGAATGCAAACAAAAGTAAAAATCACATC
Found at i:86656 original size:27 final size:27
Alignment explanation
Indices: 86588--86659 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
86578 TTGATTGAAA
* * *
86588 AATGGGGTTTGAGTATTCCCTCGGAGG
1 AATGGGGTTGGAGTGTCCCCTCGGAGG
86615 AATGGGGTTGGAGTGTCCCCTCGGAGG
1 AATGGGGTTGGAGTGTCCCCTCGGAGG
86642 AATGGGGTTGGAGTGTCC
1 AATGGGGTTGGAGTGTCC
86660 TCGATGATGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.17, C:0.15, G:0.42, T:0.26
Consensus pattern (27 bp):
AATGGGGTTGGAGTGTCCCCTCGGAGG
Found at i:86869 original size:97 final size:97
Alignment explanation
Indices: 86618--86858 Score: 401
Period size: 97 Copynumber: 2.5 Consensus size: 97
86608 TCGGAGGAAT
* *
86618 GGGGTTGGAGTGTCCCCTCGGAGGAATGGGGTTGGAGTGTCCTCGATGATGACAATTTAAGTGAG
1 GGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAG
86683 AATAAAATTTAAACTTTGATGCATTTAAAAGC
66 AATAAAATTTAAACTTTGATGCATTTAAAAGC
* *
86715 GGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGGTGACAATTTAAGTGAG
1 GGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAG
* **
86780 AATAAGATTTAAACTTTGATGTGTTTAAAAGC
66 AATAAAATTTAAACTTTGATGCATTTAAAAGC
* *
86812 GGGGTTGGAGTATCCTCTCGGAGGAATAGGGTTGGAGTGTCCCCGAT
1 GGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGAT
86859 AAATAAAATT
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 134 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.28
Consensus pattern (97 bp):
GGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAG
AATAAAATTTAAACTTTGATGCATTTAAAAGC
Found at i:87377 original size:10 final size:11
Alignment explanation
Indices: 87355--87383 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
87345 GAAGTTTTTA
87355 TGAAAAATGTT
1 TGAAAAATGTT
87366 TGAAAAAT-TT
1 TGAAAAATGTT
87376 TGAAAAAT
1 TGAAAAAT
87384 CATCTAGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (11 bp):
TGAAAAATGTT
Found at i:87668 original size:389 final size:389
Alignment explanation
Indices: 87177--87959 Score: 1539
Period size: 389 Copynumber: 2.0 Consensus size: 389
87167 AAATATTTCA
87177 AAAATCCAGAAAAATCATTTTCCAGGAGAAATAAATTCTTAAAATCAGGTGAATTGCGCTGCTAG
1 AAAATCCAGAAAAATCATTTTCCAGGAGAAATAAATTCTTAAAATCAGGTGAATTGCGCTGCTAG
87242 CAGAGCACATGAAGTAAAGGTGTGACAAACTTTGAAAAATCACCTCGAATTCATTTAGTATCAAA
66 CAGAGCACATGAAGTAAAGGTGTGACAAACTTTGAAAAATCACCTCGAATTCATTTAGTATCAAA
87307 AAATTATAAACTATACCTTTATGGAAAGGTAATTTCATGAAGTTTTTATGAAAAATGTTTGAAAA
131 AAATTATAAACTATACCTTTATGGAAAGGTAATTTCATGAAGTTTTTATGAAAAATGTTTGAAAA
87372 ATTTTGAAAAATCATCTAGTGGGCCAAAATGGCCCGACCAGAATGCAAATCGCAGATTCCATGGG
196 ATTTTGAAAAATCATCTAGTGGGCCAAAATGGCCCGACCAGAATGCAAATCGCAGATTCCATGGG
*
87437 TTCTGGACAGTTTAGGTTCGAAAAATCATAACTCCCTCATCCGGAACAATCCGGGGGCAAATAAG
261 TTCTGGACAGTTTAGGTTCGAAAAATCATAACTCCCTCATCCGGAACAATCCGAGGGCAAATAAG
87502 ATACCGTTGGAAAGATATTTTGACATAATTTATAGGAAAATCTGAGAAAATCTTTTAGGATTTT
326 ATACCGTTGGAAAGATATTTTGACATAATTTATAGGAAAATCTGAGAAAATCTTTTAGGATTTT
87566 AAAATCCAGAAAAATCATTTTCCAGGAGAAATAAATTCTTAAAATCAGGTGAATTGCGCTGCTAG
1 AAAATCCAGAAAAATCATTTTCCAGGAGAAATAAATTCTTAAAATCAGGTGAATTGCGCTGCTAG
87631 CAGAGCACATGAAGTAAAGGTGTGACAAACTTTGAAAAATCACCTCGAATTCATTTAGTATCAAA
66 CAGAGCACATGAAGTAAAGGTGTGACAAACTTTGAAAAATCACCTCGAATTCATTTAGTATCAAA
87696 AAATTATAAACTATACCTTTATGGAAAGGTAATTTCATGAAGTTTTTATGAAAAATGTTTGAAAA
131 AAATTATAAACTATACCTTTATGGAAAGGTAATTTCATGAAGTTTTTATGAAAAATGTTTGAAAA
*
87761 ATTTTGAAAAATCATCTAGTGGGCCAAAATGGCCCGACCAGAATGGAAATCGCAGATTCCATGGG
196 ATTTTGAAAAATCATCTAGTGGGCCAAAATGGCCCGACCAGAATGCAAATCGCAGATTCCATGGG
*
87826 TTCTGGATAGTTTAGGTTCGAAAAATCATAACTCCCTCATCCGGAACAATCCGAGGGCAAATAAG
261 TTCTGGACAGTTTAGGTTCGAAAAATCATAACTCCCTCATCCGGAACAATCCGAGGGCAAATAAG
87891 ATACCGTTGGAAAGATATTTTGACATAATTTATAGGAAAATCTGAGAAAATCTTTTAGGATTTT
326 ATACCGTTGGAAAGATATTTTGACATAATTTATAGGAAAATCTGAGAAAATCTTTTAGGATTTT
87955 AAAAT
1 AAAAT
87960 TATTTTTCAA
Statistics
Matches: 391, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
389 391 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (389 bp):
AAAATCCAGAAAAATCATTTTCCAGGAGAAATAAATTCTTAAAATCAGGTGAATTGCGCTGCTAG
CAGAGCACATGAAGTAAAGGTGTGACAAACTTTGAAAAATCACCTCGAATTCATTTAGTATCAAA
AAATTATAAACTATACCTTTATGGAAAGGTAATTTCATGAAGTTTTTATGAAAAATGTTTGAAAA
ATTTTGAAAAATCATCTAGTGGGCCAAAATGGCCCGACCAGAATGCAAATCGCAGATTCCATGGG
TTCTGGACAGTTTAGGTTCGAAAAATCATAACTCCCTCATCCGGAACAATCCGAGGGCAAATAAG
ATACCGTTGGAAAGATATTTTGACATAATTTATAGGAAAATCTGAGAAAATCTTTTAGGATTTT
Found at i:87766 original size:10 final size:11
Alignment explanation
Indices: 87744--87772 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
87734 GAAGTTTTTA
87744 TGAAAAATGTT
1 TGAAAAATGTT
87755 TGAAAAAT-TT
1 TGAAAAATGTT
87765 TGAAAAAT
1 TGAAAAAT
87773 CATCTAGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (11 bp):
TGAAAAATGTT
Found at i:89486 original size:51 final size:51
Alignment explanation
Indices: 89390--89486 Score: 113
Period size: 51 Copynumber: 1.9 Consensus size: 51
89380 TTTTAACTAG
* * *
89390 ATGTATTGATACATCTAGGTAAAATGACAAAATCTATCAATACATTCATAC
1 ATGTATCGATACATCTAGGTAAAAAGACAAAATCTATCAACACATTCATAC
* * ** * *
89441 ATGTATCGATACATTTGGGTAAAAAGACGGAATGTATCGACACATT
1 ATGTATCGATACATCTAGGTAAAAAGACAAAATCTATCAACACATT
89487 GAAGAATGTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 37 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACATCTAGGTAAAAAGACAAAATCTATCAACACATTCATAC
Found at i:94995 original size:27 final size:27
Alignment explanation
Indices: 94965--95800 Score: 382
Period size: 27 Copynumber: 30.7 Consensus size: 27
94955 CTGTGACCTC
* *
94965 TCCACGATTTAGTGGCATCCTTTTAAG
1 TCCACAATTTCGTGGCATCCTTTTAAG
* ***
94992 TCCATAACCCCGTGGCATCCTTTTAAG
1 TCCACAATTTCGTGGCATCCTTTTAAG
* *
95019 TCCACTACTTT-GTGGCATCTTTTTAAG
1 TCCAC-AATTTCGTGGCATCCTTTTAAG
95046 TCCACAACTTT-GTGGCATCCTTTTAAAG
1 TCCACAA-TTTCGTGGCATCCTTTT-AAG
* * *
95074 TCCATAACTTT-GTGGTAGCCTTTTAAG
1 TCCACAA-TTTCGTGGCATCCTTTTAAG
* * *
95101 TCCATAACTTCTTGGCATCCTTTTAAG
1 TCCACAATTTCGTGGCATCCTTTTAAG
* * * *
95128 TCTACAACTCTAG-GGCATCCTTTTAGG
1 TCCACAA-TTTCGTGGCATCCTTTTAAG
* * * *
95155 CCCACAACTCCGAGGCATCCTTTTAAAG
1 TCCACAATTTCGTGGCATCCTTTT-AAG
* *
95183 TCCACAACTCCGTGGCATCCTTTTAAG
1 TCCACAATTTCGTGGCATCCTTTTAAG
** *
95210 TCCAC-AGCTCTGTGGCATCTTTTTAAG
1 TCCACAATTTC-GTGGCATCCTTTTAAG
* *
95237 TCCATAACTTCGTGGCATCCTTTTAAG
1 TCCACAATTTCGTGGCATCCTTTTAAG
* * * * * *
95264 CCCATAACTCCATGGCATCTTTTTAAG
1 TCCACAATTTCGTGGCATCCTTTTAAG
*
95291 TCCACAACTTCGTGGCATCCTTTTTAAG
1 TCCACAATTTCGTGGCATCC-TTTTAAG
* * * *
95319 CCCACAAGTTAGTGGCACCCTTTTTAAG
1 TCCACAATTTCGTGGCATCC-TTTTAAG
* * *
95347 CCCACAA-GTCAGTGGCACCCCTTTTTAAG
1 TCCACAATTTC-GTGGCA-TCC-TTTTAAG
* * *
95376 TCCACAA-GTC-T-GCACCCTTCTAAAG
1 TCCACAATTTCGTGGCATCCTT-TTAAG
* * * * * *
95401 CCCATAAATTAGTGGCACCCATTTCAAAG
1 TCCACAATTTCGTGGCATCC-TTT-TAAG
* *
95430 -CCTCAA-GTCAGTGGCATCCTATTTAAG
1 TCCACAATTTC-GTGGCATCCT-TTTAAG
* * *
95457 TCGACAA-GTCAGTGGCACCCCTTTTTAAG
1 TCCACAATTTC-GTGGCA-TCC-TTTTAAG
* * * * * *
95486 CCCACAACTCCGCGGCACCCTTTAAAG
1 TCCACAATTTCGTGGCATCCTTTTAAG
* * *
95513 TCTACAACTCCGTGGCA-CCTTTTAAAG
1 TCCACAATTTCGTGGCATCCTTTT-AAG
* * *
95540 TCCACAACTCCGTGGCACCCTTTTAAG
1 TCCACAATTTCGTGGCATCCTTTTAAG
** * * *
95567 TCCACACCTCCGTGGCACCCTTTTAGG
1 TCCACAATTTCGTGGCATCCTTTTAAG
* * *
95594 TCCACAACTCCGTGGCACCCTTTTAAAG
1 TCCACAATTTCGTGGCATCCTTTT-AAG
* * *
95622 TTCACAA-CTCTGTGGCACCCTTTTAAG
1 TCCACAATTTC-GTGGCATCCTTTTAAG
* * * *
95649 TCCACAA-CTCTATGGCACCCCTTTAAAG
1 TCCACAATTTC-GTGGCA-TCCTTTTAAG
* * * * * *
95677 TCTACCACTCCGTGGCACCCTTTTAGG
1 TCCACAATTTCGTGGCATCCTTTTAAG
* * *
95704 TCCACAACTCCATGGCA-CCTATTTAAG
1 TCCACAATTTCGTGGCATCCT-TTTAAG
* * * * *
95731 TCTACAACTCCATGGCACCCTTTTAAG
1 TCCACAATTTCGTGGCATCCTTTTAAG
*
95758 TCCACAACTTT-GT-GC--CCTTTAAAG
1 TCCACAA-TTTCGTGGCATCCTTTTAAG
95782 TCCACAAGTTT-GTGGCATC
1 TCCACAA-TTTCGTGGCATC
95801 ATTTCAAAGC
Statistics
Matches: 659, Mismatches: 114, Indels: 72
0.78 0.13 0.09
Matches are distributed among these distances:
24 22 0.03
25 14 0.02
26 20 0.03
27 371 0.56
28 185 0.28
29 45 0.07
30 2 0.00
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (27 bp):
TCCACAATTTCGTGGCATCCTTTTAAG
Found at i:95047 original size:54 final size:54
Alignment explanation
Indices: 94976--95832 Score: 624
Period size: 54 Copynumber: 15.7 Consensus size: 54
94966 CCACGATTTA
* * * *
94976 GTGGCATCCTTTTAAGTCCATAACCCCGTGGCATCCTTTTAAGTCCACTACTTT
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTC
* ** * *
95030 GTGGCATCTTTTTAAGTCCACAACTTTGTGGCATCCTTTTAAAGTCCATAACTTT
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTTC
* * * * * * *
95085 GTGGTAGCCTTTTAAGTCCATAACTTCTTGGCATCCTTTTAAGTCTACAACTCTA
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT-TC
* * * *
95140 G-GGCATCCTTTTAGGCCCACAACTCCGAGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTTC
* * * *
95194 GTGGCATCCTTTTAAGTCCACAGCTCTGTGGCATCTTTTTAAGTCCATAACTTC
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTC
* * * *
95248 GTGGCATCCTTTTAAGCCCATAACTCCATGGCATCTTTTTAAGTCCACAACTTC
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTC
* * ** * * *
95302 GTGGCATCCTTTTTAAGCCCACAAGTTAGTGGCACCCTTTTTAAGCCCACAA-GTC
1 GTGGCATCC-TTTTAAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTTC
* * * * * * * *
95357 AGTGGCACCCCTTTTTAAGTCCACAAGT-C-T-GCACCCTTCTAAAGCCCATAAATTA
1 -GTGGCA-TCC-TTTTAAGTCCACAACTCCGTGGCATCCTT-TTAAGTCCACAACTTC
* * * * * * *
95412 GTGGCACCCATTTCAAAG-CCTCAAGTCAGTGGCATCCTATTTAAGTCGACAA-GTC
1 GTGGCATCC-TTT-TAAGTCCACAACTCCGTGGCATCCT-TTTAAGTCCACAACTTC
* * * * * * *
95467 AGTGGCACCCCTTTTTAAGCCCACAACTCCGCGGCACCCTTTAAAGTCTACAACTCC
1 -GTGGCA-TCC-TTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTC
* * *
95524 GTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACACCTCC
1 GTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTC
* * * *
95578 GTGGCACCCTTTTAGGTCCACAACTCCGTGGCACCCTTTTAAAGTTCACAAC-TC
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTTC
* ** * * * * *
95632 TGTGGCACCCTTTTAAGTCCACAACTCTATGGCACCCCTTTAAAGTCTACCACTCC
1 -GTGGCATCCTTTTAAGTCCACAACTCCGTGGCA-TCCTTTTAAGTCCACAACTTC
* * * * *
95688 GTGGCACCCTTTTAGGTCCACAACTCCATGGCA-CCTATTTAAGTCTACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCT-TTTAAGTCCACAACTTC
* * ** * * *
95742 ATGGCACCCTTTTAAGTCCACAACTTTGT-GC--CCTTTAAAGTCCACAAGTTT
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTC
* * * * **
95793 GTGGCATCATTTCAAAGCCCACAAGTCAATGGCATCCTTT
1 GTGGCATCCTTT-TAAGTCCACAACTCCGTGGCATCCTTT
95833 CAAAGCCCAC
Statistics
Matches: 654, Mismatches: 119, Indels: 59
0.79 0.14 0.07
Matches are distributed among these distances:
51 21 0.03
52 14 0.02
53 26 0.04
54 280 0.43
55 206 0.31
56 66 0.10
57 41 0.06
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.30
Consensus pattern (54 bp):
GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTC
Found at i:95077 original size:28 final size:28
Alignment explanation
Indices: 94976--96217 Score: 659
Period size: 28 Copynumber: 45.2 Consensus size: 28
94966 CCACGATTTA
* *
94976 GTGGCATCCTTTT-AAGTCCATAACCCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* **
95003 GTGGCATCCTTTT-AAGTCCACTACTTT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* **
95030 GTGGCAT-CTTTTTAAGTCCACAACTTT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* **
95057 GTGGCATCCTTTTAAAGTCCATAACTTT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * *
95085 GTGGTAGCCTTTT-AAGTCCATAACTTC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
95112 TTGGCATCCTTTT-AAGTCTACAACTCTA
1 GTGGCATCCTTTTAAAGTCCACAACTC-C
* *
95140 G-GGCATCCTTTT-AGGCCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
95166 GAGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
95194 GTGGCATCCTTTT-AAGTCCACAGCTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
95221 GTGGCAT-CTTTTTAAGTCCATAACTTC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
95248 GTGGCATCCTTTT-AAGCCCATAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
95275 ATGGCAT-CTTTTTAAGTCCACAACTTC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * **
95302 GTGGCATCCTTTTTAAGCCCACAAGTTA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * * *
95330 GTGGCACCCTTTTTAAGCCCACAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
95358 GTGGCACCCCTTTTTAAGTCCACAAGT-C
1 GTGGCA-TCCTTTTAAAGTCCACAACTCC
* * * * * **
95386 -T-GCACCCTTCTAAAGCCCATAAATTA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * * *
95412 GTGGCACCCATTTCAAAG-CCTCAAGTCA
1 GTGGCATCC-TTTTAAAGTCCACAACTCC
* * *
95440 GTGGCATCCTATTT-AAGTCGACAAGTCA
1 GTGGCATCCT-TTTAAAGTCCACAACTCC
* * *
95468 GTGGCACCCCTTTTTAAGCCCACAACTCC
1 GTGGCA-TCCTTTTAAAGTCCACAACTCC
* * *
95497 GCGGCA-CCCTTTAAAGTCTACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
95524 GTGGCA-CCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
95551 GTGGCACCCTTTT-AAGTCCACACCTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
95578 GTGGCACCCTTTT-AGGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
95605 GTGGCACCCTTTTAAAGTTCACAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
95633 GTGGCACCCTTTT-AAGTCCACAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * * *
95660 ATGGCACCCCTTTAAAGTCTACCACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
95688 GTGGCACCCTTTT-AGGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
95715 ATGGCA-CCTATTT-AAGTCTACAACTCC
1 GTGGCATCCT-TTTAAAGTCCACAACTCC
* * **
95742 ATGGCACCCTTTT-AAGTCCACAACTTT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* **
95769 GT-GC--CC-TTTAAAGTCCACAAGTTT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * * *
95793 GTGGCATCATTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * * *
95821 ATGGCATCCTTTCAAAGCCCACAAGTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * * * *
95849 ATGGCATCATTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
95877 GTGGCA--CTATTTCAAAGCCCACAAGTCA
1 GTGGCATCCT-TTT-AAAGTCCACAACTCC
* * * * **
95905 GTGGCATCATTTCAAAGCCCACAAGTTA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * *
95933 GTGGCA-CCATTTCAAAGCCCACAAGTCA
1 GTGGCATCC-TTTTAAAGTCCACAACTCC
* * * * **
95961 GTGGCATCCTTTCAAAGCCCATAAGTTT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
95989 GTGGCATCCTTTTAAAGCCCATAAGTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * * *
96017 GTGGCAT-CATTTCAAGCCCACAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * *
96044 ATGGCA-CCATTTTAAAGCCCACAAGTCA
1 GTGGCATCC-TTTTAAAGTCCACAACTCC
* * ** **
96072 GTGGCA-CCATTTCAAAGACCACAGGTTA
1 GTGGCATCC-TTTTAAAGTCCACAACTCC
* ** * **
96100 GTGGCA-CCATTTCAAAACCCACAAGTTA
1 GTGGCATCC-TTTTAAAGTCCACAACTCC
* * * * *
96128 GTGGCATCATTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * *
96156 GTGGCATCCTTTCAATGCCCACAAGTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
96184 GTGGCATCATTTCAAAG-CTCACAAGTCC
1 GTGGCATCCTTTTAAAGTC-CACAACTCC
96212 GTGGCA
1 GTGGCA
96218 ACTCATTTCA
Statistics
Matches: 1030, Mismatches: 147, Indels: 75
0.82 0.12 0.06
Matches are distributed among these distances:
23 3 0.00
24 17 0.02
25 17 0.02
26 25 0.02
27 392 0.38
28 527 0.51
29 48 0.05
30 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (28 bp):
GTGGCATCCTTTTAAAGTCCACAACTCC
Found at i:95341 original size:82 final size:82
Alignment explanation
Indices: 94976--95766 Score: 513
Period size: 82 Copynumber: 9.6 Consensus size: 82
94966 CCACGATTTA
* * * * * * ***
94976 GTGGCATCC-TTTTAAGTCCATAACCCCGTGGCATCCTTTTAAGTCCACTACTTTGTGGCATCTT
1 GTGGCATCCTTTTTAAGCCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCATGGCATCTT
*
95040 TTTAAGTCCACAACTTT
66 TTTAAGTCCACAACTTC
* * * ** * * * * * *
95057 GTGGCATCCTTTTAAAGTCCATAACTTTGTGGTAGCCTTTTAAGTCCATAACTTCTTGGCATCCT
1 GTGGCATCCTTTTTAAGCCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCATGGCATCTT
* *
95122 TTTAAGTCTACAACTCTA
66 TTTAAGTCCACAACT-TC
* * * * * *
95140 G-GGCATCC-TTTTAGGCCCACAACTCCGAGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCC
1 GTGGCATCCTTTTTAAGCCCACAACTCAGTGGCACCCTTTT-AAGTCCACAACTCCATGGCATCT
*
95203 TTTTAAGTCCACAGC-TC
65 TTTTAAGTCCACAACTTC
* * * * *
95220 TGTGGCAT-CTTTTTAAGTCCATAACTTC-GTGGCATCCTTTTAAGCCCATAACTCCATGGCATC
1 -GTGGCATCCTTTTTAAGCCCACAAC-TCAGTGGCACCCTTTTAAGTCCACAACTCCATGGCATC
95283 TTTTTAAGTCCACAACTTC
64 TTTTTAAGTCCACAACTTC
* * * *
95302 GTGGCATCCTTTTTAAGCCCACAAGTTAGTGGCACCCTTTTTAAGCCCACAAGT-CAGTGGCACC
1 GTGGCATCCTTTTTAAGCCCACAACTCAGTGGCACCC-TTTTAAGTCCACAACTCCA-TGGCA--
* *
95366 CCTTTTTAAGTCCACAA-GTC
62 TCTTTTTAAGTCCACAACTTC
* * * * * * * * *
95386 -T-GCACCCTTCTAAAGCCCATAAATTAGTGGCACCCATTTCAAAG-CCTCAAGT-CAGTGGCAT
1 GTGGCATCCTTTTTAAGCCCACAACTCAGTGGCACCC-TTT-TAAGTCCACAACTCCA-TGGCAT
* * *
95447 CCTATTTAAGTCGACAA-GTC
63 -CTTTTTAAGTCCACAACTTC
* * * * * * *
95467 AGTGGCACCCCTTTTTAAGCCCACAACTCCGCGGCACCCTTTAAAGTCTACAACTCCGTGGCACC
1 -GTGGCA-TCCTTTTTAAGCCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCATGGCATC
* *
95532 TTTTAAAGTCCACAACTCC
64 TTTTTAAGTCCACAACTTC
* * * * * * *
95551 GTGGCA-CCCTTTTAAGTCCACACCTCCGTGGCACCCTTTTAGGTCCACAACTCCGTGGCACCCT
1 GTGGCATCCTTTTTAAGCCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCATGGCA-TCT
* *
95615 TTTAAAGTTCACAAC-TC
65 TTTTAAGTCCACAACTTC
* * * * * * *
95632 TGTGGCA-CCCTTTTAAGTCCACAACTCTA-TGGCACCCCTTTAAAGTCTACCACTCCGTGGCAC
1 -GTGGCATCCTTTTTAAGCCCACAACTC-AGTGGCA-CCCTTTTAAGTCCACAACTCCATGGCAT
* * *
95695 CCTTTTAGGTCCACAACTCC
63 CTTTTTAAGTCCACAACTTC
* * * *
95715 ATGGCA-CCTATTTAAGTCTACAACTCCA-TGGCACCCTTTTAAGTCCACAACT
1 GTGGCATCCTTTTTAAGCCCACAACT-CAGTGGCACCCTTTTAAGTCCACAACT
95767 TTGTGCCCTT
Statistics
Matches: 580, Mismatches: 101, Indels: 58
0.78 0.14 0.08
Matches are distributed among these distances:
80 1 0.00
81 155 0.27
82 288 0.50
83 76 0.13
84 19 0.03
85 41 0.07
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (82 bp):
GTGGCATCCTTTTTAAGCCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCATGGCATCTT
TTTAAGTCCACAACTTC
Found at i:95362 original size:56 final size:56
Alignment explanation
Indices: 95141--96377 Score: 695
Period size: 56 Copynumber: 22.2 Consensus size: 56
95131 ACAACTCTAG
* * * * * * * *
95141 GGCATCCTTTT-AGGCCCACAACTCCGAGGCATCCTTTTAAAGTCCACAACTCCGT
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGT
* * * * * * *
95196 GGCATCCTTTT-AAGTCCAC-AGCTCTGTGGCA-TCTTTTTAAGTCCATAACTTC-GT
1 GGCATCCTTTTAAAGCCCACAAG-TCAGTGGCACCCTTTTAAAGCCCACAA-GTCAGT
* * * * * *
95250 GGCATCCTTTT-AAGCCCATAACTCCA-TGGCA-TCTTTTTAAGTCCACAACTTC-GT
1 GGCATCCTTTTAAAGCCCACAAGT-CAGTGGCACCCTTTTAAAGCCCACAA-GTCAGT
* * *
95304 GGCATCCTTTTTAAGCCCACAAGTTAGTGGCACCCTTTTTAAGCCCACAAGTCAGT
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGT
* * * * * * *
95360 GGCACCCCTTTTTAAGTCCACAAGTC--T-GCACCCTTCTAAAGCCCATAAATTAGT
1 GGCA-TCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGT
* * * * * *
95414 GGCACCCATTTCAAAG-CCTCAAGTCAGTGGCATCCTATTT-AAGTCGACAAGTCAGT
1 GGCATCC-TTTTAAAGCCCACAAGTCAGTGGCACCCT-TTTAAAGCCCACAAGTCAGT
* * * * * * * * *
95470 GGCACCCCTTTTTAAGCCCACAACTCCGCGGCACCC-TTTAAAGTCTACAACTCCGT
1 GGCA-TCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGT
* * * * ** *
95526 GGCA-CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACACCTCCGT
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGT
* * * * * ** * *
95580 GGCACCCTTTT-AGGTCCACAACTCCGTGGCACCCTTTTAAAGTTCACAACTCTGT
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGT
* * * * * * * * *
95635 GGCACCCTTTT-AAGTCCACAACTCTA-TGGCACCCCTTTAAAGTCTACCACTCCGT
1 GGCATCCTTTTAAAGCCCACAAGTC-AGTGGCACCCTTTTAAAGCCCACAAGTCAGT
* * * * * * *
95690 GGCACCCTTTT-AGGTCCACAACTCCA-TGGCA-CCTATTT-AAGTCTACAACTCCA-T
1 GGCATCCTTTTAAAGCCCACAAGT-CAGTGGCACCCT-TTTAAAGCCCACAAGT-CAGT
* * * ** * **
95744 GGCACCCTTTT-AAGTCCACAACTTTGT-G--CCC-TTTAAAGTCCACAAGTTTGT
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGT
* * * * *
95795 GGCATCATTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCTA-T
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTC-AGT
* * ** *
95851 GGCATCATTTCAAAGCCCACAAGTCAGTGGCACTATTTCAAAGCCCACAAGTCAGT
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGT
* * * * *
95907 GGCATCATTTCAAAGCCCACAAGTTAGTGGCACCATTTCAAAGCCCACAAGTCAGT
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGT
* * ** * * *
95963 GGCATCCTTTCAAAGCCCATAAGTTTGTGGCATCCTTTTAAAGCCCATAAGTCCGT
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGT
* * * *
96019 GGCAT-CATTTCAAGCCCACAAGTCAATGGCACCATTTTAAAGCCCACAAGTCAGT
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGT
* * * * * * * *
96074 GGCA-CCATTTCAAAGACCACAGGTTAGTGGCACCATTTCAAAACCCACAAGTTAGT
1 GGCATCC-TTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGT
* * * * * *
96130 GGCATCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAATGCCCACAAGTCCGT
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGT
* * * * * * *
96186 GGCATCATTTCAAAGCTCACAAGTCCGTGGCAACTCATTTCAAAGCCCATAAGTCAGT
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGC-AC-CCTTTTAAAGCCCACAAGTCAGT
** * * *
96244 GGCATTATTTCAAAGCCCACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGT
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGC-ACCC-TTTTAAAG-CC-CACAAGTCAGT
* * * * * *
96304 GGCAACCCTTTTCAAAAACTACACAAGTCGGTGGGAACCCTTTTAAAGCCCACACAAGTTAGT
1 GGC-ATCCTTTT--AAAGC-CCACAAGTCAGT-GGCACCCTTTTAAAG-CC-CACAAGTCAGT
*
96367 GGCATCGTTTT
1 GGCATCCTTTT
96378 TCAAAAGTGA
Statistics
Matches: 978, Mismatches: 156, Indels: 89
0.80 0.13 0.07
Matches are distributed among these distances:
50 3 0.00
51 19 0.02
52 13 0.01
53 13 0.01
54 214 0.22
55 198 0.20
56 350 0.36
57 40 0.04
58 58 0.06
59 2 0.00
60 13 0.01
61 4 0.00
62 6 0.01
63 28 0.03
64 15 0.02
65 2 0.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (56 bp):
GGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGT
Found at i:95782 original size:24 final size:24
Alignment explanation
Indices: 95748--95795 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
95738 CTCCATGGCA
*
95748 CCCTTTTAAGTCCACAACTTTGTG
1 CCCTTTAAAGTCCACAACTTTGTG
*
95772 CCCTTTAAAGTCCACAAGTTTGTG
1 CCCTTTAAAGTCCACAACTTTGTG
95796 GCATCATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (24 bp):
CCCTTTAAAGTCCACAACTTTGTG
Found at i:96261 original size:28 final size:28
Alignment explanation
Indices: 95778--96307 Score: 661
Period size: 28 Copynumber: 18.8 Consensus size: 28
95768 TGTGCCCTTT
* **
95778 AAAGTCCACAAGTTTGTGGCATCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* *
95806 AAAGCCCACAAGTCAATGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
95834 AAAGCCCACAAGTCTA-TGGCATCATTTC
1 AAAGCCCACAAGTC-AGTGGCATCATTTC
95862 AAAGCCCACAAGTCAGTGGCA-CTATTTC
1 AAAGCCCACAAGTCAGTGGCATC-ATTTC
95890 AAAGCCCACAAGTCAGTGGCATCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* *
95918 AAAGCCCACAAGTTAGTGGCACCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
*
95946 AAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* ** * *
95974 AAAGCCCATAAGTTTGTGGCATCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* *
96002 AAAGCCCATAAGTCCGTGGCATCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* * *
96030 -AAGCCCACAAGTCAATGGCACCATTTT
1 AAAGCCCACAAGTCAGTGGCATCATTTC
*
96057 AAAGCCCACAAGTCAGTGGCACCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* * * *
96085 AAAGACCACAGGTTAGTGGCACCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* *
96113 AAAACCCACAAGTTAGTGGCATCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
*
96141 AAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* *
96169 AATGCCCACAAGTCCGTGGCATCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* *
96197 AAAGCTCACAAGTCCGTGGCAACTCATTTC
1 AAAGCCCACAAGTCAGTGGC-A-TCATTTC
* *
96227 AAAGCCCATAAGTCAGTGGCATTATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* *
96255 AAAGCCCACAAGTCGGTGGCAACCCATTTC
1 AAAGCCCACAAGTCAGTGGC-A-TCATTTC
96285 AAAGCCCACACAAGTCAGTGGCA
1 AAAG-CC-CACAAGTCAGTGGCA
96308 ACCCTTTTCA
Statistics
Matches: 441, Mismatches: 50, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
27 24 0.05
28 363 0.82
29 5 0.01
30 33 0.07
31 3 0.01
32 13 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCATTTC
Found at i:96368 original size:63 final size:65
Alignment explanation
Indices: 96261--96445 Score: 234
Period size: 63 Copynumber: 2.9 Consensus size: 65
96251 TTTCAAAGCC
* *
96261 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCAACCCTTTTCAAAAACT-A
1 CACAAGTCGGTGGCAACCCATTTTAAAGCCCACACAAGTCAGTGGCAACCTTTTTCAAAAACTGA
* * * * *
96325 CACAAGTCGGTGGGAACCC-TTTTAAAGCCCACACAAGTTAGTGGCATCGTTTTTC-AAAAGTGA
1 CACAAGTCGGTGGCAACCCATTTTAAAGCCCACACAAGTCAGTGGCAACCTTTTTCAAAAACTGA
** * * *
96388 CAC-TTTCGATGGCAACCCTTTTTAAAGCCTACACAAGTCAGTGGCAACCTTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTTAAAGCCCACACAAGTCAGTGGCAACCTTTTTCAAA
96446 TCACCACTTT
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
62 16 0.16
63 67 0.65
64 20 0.19
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (65 bp):
CACAAGTCGGTGGCAACCCATTTTAAAGCCCACACAAGTCAGTGGCAACCTTTTTCAAAAACTGA
Found at i:96433 original size:32 final size:32
Alignment explanation
Indices: 96261--96441 Score: 142
Period size: 32 Copynumber: 5.8 Consensus size: 32
96251 TTTCAAAGCC
* * * *
96261 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGCAACCCTTTTTAAAGCCTA
* **
96293 CACAAGTCAGTGGCAACCCTTTTCAAAAACTA
1 CACAAGTCAGTGGCAACCCTTTTTAAAGCCTA
* * *
96325 CACAAGTCGGTGGGAACCC-TTTTAAAGCCCA
1 CACAAGTCAGTGGCAACCCTTTTTAAAGCCTA
* * *
96356 CACAAGTTAGTGGC-ATCGTTTTTCAAAAG--TGA
1 CACAAGTCAGTGGCAACCCTTTTT--AAAGCCT-A
**
96388 CAC-TTTC-GATGGCAACCCTTTTTAAAGCCTA
1 CACAAGTCAG-TGGCAACCCTTTTTAAAGCCTA
96419 CACAAGTCAGTGGCAA-CCTTTTT
1 CACAAGTCAGTGGCAACCCTTTTT
96442 CAAATCACCA
Statistics
Matches: 115, Mismatches: 24, Indels: 21
0.72 0.15 0.13
Matches are distributed among these distances:
30 7 0.06
31 39 0.34
32 64 0.56
33 5 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (32 bp):
CACAAGTCAGTGGCAACCCTTTTTAAAGCCTA
Found at i:99918 original size:26 final size:25
Alignment explanation
Indices: 99874--99922 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
99864 GGGATTATAT
99874 TGAAATAATATCGAGTCAAAACAGA
1 TGAAATAATATCGAGTCAAAACAGA
* *
99899 TGAAATCAATATTGATTCAAAACA
1 TGAAAT-AATATCGAGTCAAAACA
99923 TATCTAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.24
Consensus pattern (25 bp):
TGAAATAATATCGAGTCAAAACAGA
Found at i:102923 original size:20 final size:20
Alignment explanation
Indices: 102898--102950 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
102888 CGTTTGGGAC
102898 AATGTATCGATATAATTCAT
1 AATGTATCGATATAATTCAT
102918 AATGTATCGATATAATTCAT
1 AATGTATCGATATAATTCAT
* *
102938 CATGTATCAATAT
1 AATGTATCGATAT
102951 TGTATCGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (20 bp):
AATGTATCGATATAATTCAT
Found at i:102976 original size:20 final size:19
Alignment explanation
Indices: 102951--103025 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 19
102941 GTATCAATAT
102951 TGTATCGATACAATGTGCCA
1 TGTATCGATACAATGTG-CA
102971 TGTATCGATACAATTGTGCA
1 TGTATCGATACAA-TGTGCA
**
102991 TGTATCGATACAATGAACA
1 TGTATCGATACAATGTGCA
103010 TGTATCGATACAATGT
1 TGTATCGATACAATGT
103026 ATCGATACAA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.37
20 28 0.55
21 4 0.08
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAATGTGCA
Found at i:103027 original size:13 final size:13
Alignment explanation
Indices: 103009--103048 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
102999 TACAATGAAC
103009 ATGTATCGATACA
1 ATGTATCGATACA
103022 ATGTATCGATACA
1 ATGTATCGATACA
103035 ATGTATCGATACA
1 ATGTATCGATACA
103048 A
1 A
103049 AGCATAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:109959 original size:15 final size:15
Alignment explanation
Indices: 109941--109973 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
109931 AGTCAACTTT
109941 ATCATTATCATCATC
1 ATCATTATCATCATC
*
109956 ATCATTATCTTCATC
1 ATCATTATCATCATC
109971 ATC
1 ATC
109974 TTTGATGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (15 bp):
ATCATTATCATCATC
Found at i:112739 original size:41 final size:40
Alignment explanation
Indices: 112694--112948 Score: 192
Period size: 41 Copynumber: 6.3 Consensus size: 40
112684 TCATGACAGG
* *
112694 CTTTATTAGTTTCACCTTGGCCAACCTTTTTAATTAGTTGA
1 CTTTATTAGTTTCGCCCTGGCCAACC-TTTTAATTAGTTGA
** **
112735 CTTTATCGGTTTTTCCCTGGCCAACCTTTTAATTAGTTGA
1 CTTTATTAGTTTCGCCCTGGCCAACCTTTTAATTAGTTGA
* *
112775 CTTTATT-GATTTCGCCCTGGTCAACCCTTTTAATCT-GTTGG
1 CTTTATTAG-TTTCGCCCTGGCCAA-CCTTTTAAT-TAGTTGA
** ** * *
112816 CTTTATTAGTTTTC-CCCAAGCCAACCTTCCAATTGGTTAA
1 CTTTATTAG-TTTCGCCCTGGCCAACCTTTTAATTAGTTGA
* * * * * * *
112856 CTTTATTGGTTTTGCCTTGGTCAACCCTTCTAATTTGTTGG
1 CTTTATTAGTTTCGCCCTGGCCAA-CCTTTTAATTAGTTGA
* * * *
112897 CTTTATTGGTTTCGCCTTAGCCAACCTTTCAATTAGTTGA
1 CTTTATTAGTTTCGCCCTGGCCAACCTTTTAATTAGTTGA
* *
112937 ATTTATCAGTTT
1 CTTTATTAGTTT
112949 TGCCTTAGTC
Statistics
Matches: 169, Mismatches: 38, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
39 5 0.03
40 77 0.46
41 81 0.48
42 6 0.04
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.45
Consensus pattern (40 bp):
CTTTATTAGTTTCGCCCTGGCCAACCTTTTAATTAGTTGA
Found at i:112776 original size:40 final size:40
Alignment explanation
Indices: 112711--112952 Score: 207
Period size: 40 Copynumber: 6.0 Consensus size: 40
112701 AGTTTCACCT
* *
112711 TGGCCAACCTTTTTAATTAGTTGACTTTATCGGTTTTTCCC
1 TGGCCAACC-TTTTAATTAGTTGACTTTATTGGTTTTGCCC
* *
112752 TGGCCAACCTTTTAATTAGTTGACTTTATTGATTTCGCCC
1 TGGCCAACCTTTTAATTAGTTGACTTTATTGGTTTTGCCC
* * * *
112792 TGGTCAACCCTTTTAATCT-GTTGGCTTTATTAGTTTTCCCC
1 TGGCCAA-CCTTTTAAT-TAGTTGACTTTATTGGTTTTGCCC
** ** * * *
112833 AAGCCAACCTTCCAATTGGTTAACTTTATTGGTTTTGCCT
1 TGGCCAACCTTTTAATTAGTTGACTTTATTGGTTTTGCCC
* * * * * *
112873 TGGTCAACCCTTCTAATTTGTTGGCTTTATTGGTTTCGCCT
1 TGGCCAA-CCTTTTAATTAGTTGACTTTATTGGTTTTGCCC
* * * **
112914 TAGCCAACCTTTCAATTAGTTGAATTTATCAGTTTTGCC
1 TGGCCAACCTTTTAATTAGTTGACTTTATTGGTTTTGCC
112953 TTAGTCAACC
Statistics
Matches: 159, Mismatches: 38, Indels: 9
0.77 0.18 0.04
Matches are distributed among these distances:
39 1 0.01
40 85 0.53
41 72 0.45
42 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (40 bp):
TGGCCAACCTTTTAATTAGTTGACTTTATTGGTTTTGCCC
Found at i:112839 original size:81 final size:81
Alignment explanation
Indices: 112754--112990 Score: 253
Period size: 81 Copynumber: 2.9 Consensus size: 81
112744 TTTTTCCCTG
* *
112754 GCCAACCTTTTAATTAGTTGACTTTATTGATTTCGCCCTGGTCAACCCTTTTAATCTGTTGGCTT
1 GCCAACCTTTCAATTAGTTGACTTTATTGATTTCGCCCTGGTCAACCCTTCTAATCTGTTGGCTT
*
112819 TATTAGTTTTC-CCCAA
66 TATT-GGTTTCGCCCAA
* * * * * * *
112835 GCCAACCTTCCAATTGGTTAACTTTATTGGTTTTGCCTTGGTCAACCCTTCTAATTTGTTGGCTT
1 GCCAACCTTTCAATTAGTTGACTTTATTGATTTCGCCCTGGTCAACCCTTCTAATCTGTTGGCTT
**
112900 TATTGGTTTCGCCTTA
66 TATTGGTTTCGCCCAA
* * * * * * * *
112916 GCCAACCTTTCAATTAGTTGAATTTA-TCAGTTTTGCCTTAGTCAACCTTTCTAACCCGTTGGCT
1 GCCAACCTTTCAATTAGTTGACTTTATTGA-TTTCGCCCTGGTCAACCCTTCTAATCTGTTGGCT
*
112980 TTATCGGTTTC
65 TTATTGGTTTC
112991 ACCTTGGTCT
Statistics
Matches: 130, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 6 0.05
81 124 0.95
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (81 bp):
GCCAACCTTTCAATTAGTTGACTTTATTGATTTCGCCCTGGTCAACCCTTCTAATCTGTTGGCTT
TATTGGTTTCGCCCAA
Found at i:112954 original size:40 final size:40
Alignment explanation
Indices: 112694--112966 Score: 206
Period size: 40 Copynumber: 6.8 Consensus size: 40
112684 TCATGACAGG
* ** *
112694 CTTTATTAGTTTCACCTTGGCCAACCTTTTTAATTAGTTGA
1 CTTTATTGGTTTTGCCTTGGCCAACC-TTTCAATTAGTTGA
* * * *
112735 CTTTATCGGTTTTTCCCTGGCCAACCTTTTAATTAGTTGA
1 CTTTATTGGTTTTGCCTTGGCCAACCTTTCAATTAGTTGA
* * * * * *
112775 CTTTATTGATTTCGCCCTGGTCAACCCTTTTAATCT-GTTGG
1 CTTTATTGGTTTTGCCTTGGCCAA-CCTTTCAAT-TAGTTGA
* * *** * * *
112816 CTTTATTAGTTTTCCCCAAGCCAACCTTCCAATTGGTTAA
1 CTTTATTGGTTTTGCCTTGGCCAACCTTTCAATTAGTTGA
* * * *
112856 CTTTATTGGTTTTGCCTTGGTCAACCCTTCTAATTTGTTGG
1 CTTTATTGGTTTTGCCTTGGCCAACCTTTC-AATTAGTTGA
* *
112897 CTTTATTGGTTTCGCCTTAGCCAACCTTTCAATTAGTTGA
1 CTTTATTGGTTTTGCCTTGGCCAACCTTTCAATTAGTTGA
* ** * *
112937 ATTTATCAGTTTTGCCTTAGTCAACCTTTC
1 CTTTATTGGTTTTGCCTTGGCCAACCTTTC
112967 TAACCCGTTG
Statistics
Matches: 184, Mismatches: 44, Indels: 9
0.78 0.19 0.04
Matches are distributed among these distances:
39 1 0.01
40 98 0.53
41 84 0.46
42 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (40 bp):
CTTTATTGGTTTTGCCTTGGCCAACCTTTCAATTAGTTGA
Found at i:113014 original size:81 final size:81
Alignment explanation
Indices: 112730--112995 Score: 223
Period size: 81 Copynumber: 3.3 Consensus size: 81
112720 TTTTTAATTA
* ** * * * * * * * *
112730 GTTGACTTTATCGGTTTTTCCCTGGCCAACCTTTTAATTAGTTGACTTTAT-TGATTTCGCCCTG
1 GTTGGCTTTATCGGTTTCACCTTAGCCAACCTTTCAATTAGTTGAATTTATCAG-TTTTGCCTTA
* * *
112794 GTCAACCCTTTTAATCT
65 GTCAACCCTTCTAACCC
* * ** * * **
112811 GTTGGCTTTATTAGTTTTC-CCCAAGCCAACCTTCCAATTGGTT-AACTTTATTGGTTTTGCCTT
1 GTTGGCTTTA-TCGGTTTCACCTTAGCCAACCTTTCAATTAGTTGAA-TTTATCAGTTTTGCCTT
* ***
112874 GGTCAACCCTTCTAATTT
64 AGTCAACCCTTCTAACCC
* *
112892 GTTGGCTTTATTGGTTTCGCCTTAGCCAACCTTTCAATTAGTTGAATTTATCAGTTTTGCCTTAG
1 GTTGGCTTTATCGGTTTCACCTTAGCCAACCTTTCAATTAGTTGAATTTATCAGTTTTGCCTTAG
*
112957 TCAACCTTTCTAACCC
66 TCAACCCTTCTAACCC
112973 GTTGGCTTTATCGGTTTCACCTT
1 GTTGGCTTTATCGGTTTCACCTT
112996 GGTCTATCTT
Statistics
Matches: 150, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
80 7 0.05
81 135 0.90
82 8 0.05
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (81 bp):
GTTGGCTTTATCGGTTTCACCTTAGCCAACCTTTCAATTAGTTGAATTTATCAGTTTTGCCTTAG
TCAACCCTTCTAACCC
Found at i:113090 original size:42 final size:42
Alignment explanation
Indices: 113039--113604 Score: 244
Period size: 42 Copynumber: 13.3 Consensus size: 42
113029 ATTCTTGGTC
* *
113039 AACCTTTTTATCCTTTGTTCACTTGTCGGCTTAGTCCAGAGTA
1 AACC-TTTTATCCTTTGTTTACTTGTCGGCTTAGTCCTGAGTA
* * * *
113082 AACCTTTTATCCTTTGTTGACTTGTCGG-TTCAATCTTG-GTC
1 AACCTTTTATCCTTTGTTTACTTGTCGGCTT-AGTCCTGAGTA
* * * * * *
113123 AACTCTTTCATCCTTTGTTTACCTGTTGGCCTAGT-ATCAGGTA
1 AAC-CTTTTATCCTTTGTTTACTTGTCGGCTTAGTCCTGA-GTA
* * ** * * * *
113166 AATCTTTTTATCTTTTGTCGACTTGTCAG-TTCAATCGTG-GTC
1 AA-CCTTTTATCCTTTGTTTACTTGTCGGCTT-AGTCCTGAGTA
* * * * *
113208 AACCTTTTGATCCCTTGTTTACCTATCAGCTTAGTCC-CAGGTA
1 AACCTTTT-ATCCTTTGTTTACTTGTCGGCTTAGTCCTGA-GTA
* * * * *** * *
113251 AATCTTTTTATCCTTT-ATTAATTATCTATTTATTCCTGA-TC
1 AA-CCTTTTATCCTTTGTTTACTTGTCGGCTTAGTCCTGAGTA
* * *
113292 AACCTTTTTATCCTTTATTTACTTGTCGACTTAGTCCTGAATA
1 AACC-TTTTATCCTTTGTTTACTTGTCGGCTTAGTCCTGAGTA
** * * * *
113335 AACCTTTTATCCTTTGTTGGCTTATCGGTTTA-TTCTCGA-TC
1 AACCTTTTATCCTTTGTTTACTTGTCGGCTTAGTCCT-GAGTA
* *
113376 AACCTTTTTATCCTTTGTTTACTTGTTGGCTTAGTCCTGGGTA
1 AACC-TTTTATCCTTTGTTTACTTGTCGGCTTAGTCCTGAGTA
* ** * * * *
113419 AATCCTTTTATCCTTTGTTGACTCATCGGTTTAAT-CTCAGTC
1 AA-CCTTTTATCCTTTGTTTACTTGTCGGCTTAGTCCTGAGTA
* *
113461 AACCTTTTTATCAC-TTGCTTACTTGTCAGCTTAGT-CTCGAGTA
1 AACC-TTTTATC-CTTTGTTTACTTGTCGGCTTAGTCCT-GAGTA
* * * * * * * *
113504 AATCCTTTTATCTTTTATTGACTTATCAG-TTCAATCTTG-GTC
1 AA-CCTTTTATCCTTTGTTTACTTGTCGGCTT-AGTCCTGAGTA
* * *
113546 AACCTTTTGTATCCTTTGTTTACCTGTTGACTTAGTCCTGAGTA
1 AACC-TTT-TATCCTTTGTTTACTTGTCGGCTTAGTCCTGAGTA
*
113590 AACTTTTTCATCCTT
1 AACCTTTT-ATCCTT
113605 GTTGACCTGA
Statistics
Matches: 378, Mismatches: 111, Indels: 68
0.68 0.20 0.12
Matches are distributed among these distances:
40 1 0.00
41 39 0.10
42 189 0.50
43 130 0.34
44 19 0.05
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (42 bp):
AACCTTTTATCCTTTGTTTACTTGTCGGCTTAGTCCTGAGTA
Found at i:113492 original size:253 final size:254
Alignment explanation
Indices: 113037--113610 Score: 676
Period size: 253 Copynumber: 2.3 Consensus size: 254
113027 TCATTCTTGG
* * *
113037 TCAACCTTTTTATCCTTTGTTCACTTGTCGGCTTAGTCCAGAGTAAACCTTTTATCCTTTGTTGA
1 TCAACCTTTTTATCCTTTGTTTACTTGTCGACTTAGTCCTGAGTAAACCTTTTATCCTTTGTTGA
* * *
113102 CTTGTCGGTTCAATCTTGGTCAACTCTTTCATCCTTTGTTTACCTGTTGGCCTAGTATCAGGTAA
66 CTTATCGGTTCAATCTCGATCAACTCTTTCATCCTTTGTTTACCTGTTGGCCTAGTATCAGGTAA
* * ** * * *
113167 ATCTTTTTATCTTTTGTCGACTTGTCAGTTCAATCGTGGTCAACCTTTTGATCCCTTGTTTACCT
131 ATCCTTTTATCCTTTGTCGACTCATCAGTTCAATCGTAGTCAACCTTTTGATCACTTGCTTACCT
* * *
113232 ATCAGCTTAGTCCC-AGGTAAATCTTTTTATCCTTTATT-AATTATCTA-TTTATTCCTGA
196 ATCAGCTTAGTCCCGA-GTAAATCCTTTTATCCTTTATTGAATTATC-AGTTCAATCCTGA
* * *
113290 TCAACCTTTTTATCCTTTATTTACTTGTCGACTTAGTCCTGAATAAACCTTTTATCCTTTGTTGG
1 TCAACCTTTTTATCCTTTGTTTACTTGTCGACTTAGTCCTGAGTAAACCTTTTATCCTTTGTTGA
* * * * * * *
113355 CTTATCGGTTTATTCTCGATCAAC-CTTTTTATCCTTTGTTTACTTGTTGGCTTAGT-CCTGGGT
66 CTTATCGGTTCAATCTCGATCAACTC-TTTCATCCTTTGTTTACCTGTTGGCCTAGTATC-AGGT
* * * *
113418 AAATCCTTTTATCCTTTGTTGACTCATCGGTTTAATC-TCAGTCAACCTTTTTATCACTTGCTTA
129 AAATCCTTTTATCCTTTGTCGACTCATCAGTTCAATCGT-AGTCAACCTTTTGATCACTTGCTTA
* * * * * * *
113482 CTTGTCAGCTTAGTCTCGAGTAAATCCTTTTATCTTTTATTGACTTATCAGTTCAATCTTGG
193 CCTATCAGCTTAGTCCCGAGTAAATCCTTTTATCCTTTATTGAATTATCAGTTCAATCCTGA
* * *
113544 TCAACCTTTTGTATCCTTTGTTTACCTGTTGACTTAGTCCTGAGTAAACTTTTTCATCC-TTGTT
1 TCAACCTTTT-TATCCTTTGTTTACTTGTCGACTTAGTCCTGAGTAAACCTTTT-ATCCTTTGTT
113608 GAC
64 GAC
113611 CTGATTGCCT
Statistics
Matches: 270, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
252 3 0.01
253 194 0.72
254 24 0.09
255 45 0.17
256 4 0.01
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (254 bp):
TCAACCTTTTTATCCTTTGTTTACTTGTCGACTTAGTCCTGAGTAAACCTTTTATCCTTTGTTGA
CTTATCGGTTCAATCTCGATCAACTCTTTCATCCTTTGTTTACCTGTTGGCCTAGTATCAGGTAA
ATCCTTTTATCCTTTGTCGACTCATCAGTTCAATCGTAGTCAACCTTTTGATCACTTGCTTACCT
ATCAGCTTAGTCCCGAGTAAATCCTTTTATCCTTTATTGAATTATCAGTTCAATCCTGA
Found at i:113610 original size:85 final size:84
Alignment explanation
Indices: 113031--113610 Score: 464
Period size: 85 Copynumber: 6.9 Consensus size: 84
113021 GTCGGCTCAT
* * * *
113031 TCTTGGTCAACCTTTTTATCCTTTGTTCACTTGTCGGCTTAGTCCAGAGTAAA-CCTTTTATCCT
1 TCTTGGTCAACCTTTTTATCCTTTGTTTACTTGTTGACTTAGTCCTGAGTAAATCCTTTTATCC-
* *
113095 TTGTTGACTTGTCGGTTCAA
65 TTGTTGACTTATCAGTTCAA
* * * * * * *
113115 TCTTGGTCAA-CTCTTTCATCCTTTGTTTACCTGTTGGCCTAGT-ATCAGGTAAATCTTTTTATC
1 TCTTGGTCAACCT-TTTTATCCTTTGTTTACTTGTTGACTTAGTCCTGA-GTAAATCCTTTTATC
* * *
113178 TTTTGTCGACTTGTCAGTTCAA
64 -CTTGTTGACTTATCAGTTCAA
* * * * * * * *
113200 TCGTGGTCAACCTTTTGATCCCTTGTTTACCT-ATCAGCTTAGTCC-CAGGTAAATCTTTTTATC
1 TCTTGGTCAACCTTTTTATCCTTTGTTTACTTGTTGA-CTTAGTCCTGA-GTAAATCCTTTTATC
* * * *
113263 CTT-TATTAATTATCTA-TTTAT
64 CTTGT-TGACTTATC-AGTTCAA
* * * * *
113284 TCCTGATCAACCTTTTTATCCTTTATTTACTTGTCGACTTAGTCCTGAATAAA-CCTTTTATCCT
1 TCTTGGTCAACCTTTTTATCCTTTGTTTACTTGTTGACTTAGTCCTGAGTAAATCCTTTTATCC-
* * * *
113348 TTGTTGGCTTATCGGTTTAT
65 TTGTTGACTTATCAGTTCAA
* * * *
113368 TCTCGATCAACCTTTTTATCCTTTGTTTACTTGTTGGCTTAGTCCTGGGTAAATCCTTTTATCCT
1 TCTTGGTCAACCTTTTTATCCTTTGTTTACTTGTTGACTTAGTCCTGAGTAAATCCTTTTATCC-
* * *
113433 TTGTTGACTCATCGGTTTAA
65 TTGTTGACTTATCAGTTCAA
** * *
113453 TCTCAGTCAACCTTTTTATCAC-TTGCTTACTTG-TCAGCTTAGT-CTCGAGTAAATCCTTTTAT
1 TCTTGGTCAACCTTTTTATC-CTTTGTTTACTTGTTGA-CTTAGTCCT-GAGTAAATCCTTTTAT
* *
113515 CTTTTATTGACTTATCAGTTCAA
63 C-CTTGTTGACTTATCAGTTCAA
* *
113538 TCTTGGTCAACCTTTTGTATCCTTTGTTTACCTGTTGACTTAGTCCTGAGTAAA-CTTTTTCATC
1 TCTTGGTCAACCTTTT-TATCCTTTGTTTACTTGTTGACTTAGTCCTGAGTAAATCCTTTT-ATC
113602 CTTGTTGAC
64 CTTGTTGAC
113611 CTGATTGCCT
Statistics
Matches: 400, Mismatches: 72, Indels: 47
0.77 0.14 0.09
Matches are distributed among these distances:
83 13 0.03
84 151 0.38
85 200 0.50
86 32 0.08
87 4 0.01
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.46
Consensus pattern (84 bp):
TCTTGGTCAACCTTTTTATCCTTTGTTTACTTGTTGACTTAGTCCTGAGTAAATCCTTTTATCCT
TGTTGACTTATCAGTTCAA
Found at i:116062 original size:19 final size:19
Alignment explanation
Indices: 116038--116092 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
116028 GTATAAAGCA
116038 TGGAAAATGCATGGAACAC
1 TGGAAAATGCATGGAACAC
116057 TGGAAAATGCATGGAACAC
1 TGGAAAATGCATGGAACAC
* *
116076 CGAAAAATGCAT-GAACA
1 TGGAAAATGCATGGAACA
116093 AAGGTTGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
18 5 0.15
19 29 0.85
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.15
Consensus pattern (19 bp):
TGGAAAATGCATGGAACAC
Found at i:116541 original size:21 final size:21
Alignment explanation
Indices: 116508--116548 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
116498 CTAAGTAAAA
116508 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
116529 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
116549 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:116613 original size:20 final size:20
Alignment explanation
Indices: 116588--116658 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
116578 ACCTTGAAAA
116588 GTATCGATACACATTTAAAT
1 GTATCGATACACATTTAAAT
* *
116608 GTATCGATACAAATTGTATA-
1 GTATCGATACACATT-TAAAT
**
116628 GTATCGATACACA-CAAATAT
1 GTATCGATACACATTTAA-AT
116648 GTATCGATACA
1 GTATCGATACA
116659 AGATATTGGC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 37 0.88
21 3 0.07
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (20 bp):
GTATCGATACACATTTAAAT
Found at i:116711 original size:53 final size:54
Alignment explanation
Indices: 116628--116764 Score: 233
Period size: 53 Copynumber: 2.6 Consensus size: 54
116618 AAATTGTATA
116628 GTATCGATACACACAAATATGTATCGATACAAGAT-ATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAAGATCATTGGCAGTAGCCAAATTT
*
116682 GTATCGATACACACAATATGTATCGATAC-AGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAAGATCATTGGCAGTAGCCAAATTT
*
116735 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
116765 TTGGAAGTAG
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
52 3 0.04
53 62 0.78
54 14 0.18
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (54 bp):
GTATCGATACACACAATATGTATCGATACAAGATCATTGGCAGTAGCCAAATTT
Found at i:116807 original size:10 final size:10
Alignment explanation
Indices: 116788--116818 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
116778 AATCTCATTT
116788 TCACTGTTCA
1 TCACTGTTCA
*
116798 TCACTATTCA
1 TCACTGTTCA
116808 TCACTGTTCA
1 TCACTGTTCA
116818 T
1 T
116819 GTATAGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:116840 original size:21 final size:22
Alignment explanation
Indices: 116806--116861 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
116796 CATCACTATT
116806 CATCACTGTTCATGTATAGATA
1 CATCACTGTTCATGTATAGATA
*
116828 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATAGATA
116849 CATCACTGTTCAT
1 CATCACTGTTCAT
116862 AGGTCACTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATAGATA
Found at i:116898 original size:38 final size:32
Alignment explanation
Indices: 116828--116916 Score: 99
Period size: 34 Copynumber: 2.6 Consensus size: 32
116818 TGTATAGATA
* *
116828 CATCACT-TTCATGTATCGATACATCACTGTT
1 CATCACTATTCATGTATCGAAAAATCACTGTT
116859 CATAGGTCACTATTCATGTATCGTTAAAAATCACTGTT
1 C--A--TCACTATTCATGTATCG--AAAAATCACTGTT
116897 CATCACTATTCATGTATCGA
1 CATCACTATTCATGTATCGA
116917 TACATATTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
31 1 0.02
32 1 0.02
33 1 0.02
34 17 0.35
35 5 0.10
36 12 0.24
38 12 0.24
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.37
Consensus pattern (32 bp):
CATCACTATTCATGTATCGAAAAATCACTGTT
Found at i:116946 original size:13 final size:13
Alignment explanation
Indices: 116928--116953 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
116918 ACATATTTGT
116928 GTGTATCGATACA
1 GTGTATCGATACA
116941 GTGTATCGATACA
1 GTGTATCGATACA
116954 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:119460 original size:21 final size:21
Alignment explanation
Indices: 119433--119492 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
119423 CCGTTGGGCC
119433 AAATGTATCGATACAAT-TTCA
1 AAATGTATCGATACAATCTT-A
* *
119454 TAATGTATCAATAC-ATCTTA
1 AAATGTATCGATACAATCTTA
119474 AACATGTATCGATACAATC
1 AA-ATGTATCGATACAATC
119493 ATAGTGTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 4 0.12
21 25 0.78
22 3 0.09
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (21 bp):
AAATGTATCGATACAATCTTA
Found at i:119601 original size:20 final size:19
Alignment explanation
Indices: 119535--119603 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 19
119525 CTTCCAGTTT
* *
119535 TATGTATCGATATAATTCCA
1 TATGTATCGATA-CATTACA
119555 TAGTGTATCGATAC-TTAGCAA
1 TA-TGTATCGATACATTA-C-A
*
119576 TTTGTATCGATACATCTACA
1 TATGTATCGATACAT-TACA
119596 TATGTATC
1 TATGTATC
119604 AATATATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
19 2 0.05
20 22 0.55
21 14 0.35
22 2 0.05
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (19 bp):
TATGTATCGATACATTACA
Found at i:123439 original size:19 final size:19
Alignment explanation
Indices: 123415--123477 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
123405 ATAGGCGTGA
123415 TGTATCGATACATGAAAAT
1 TGTATCGATACATGAAAAT
123434 TGTATCGATAC-----AA-
1 TGTATCGATACATGAAAAT
123447 TGTATCGATACATGAAAAT
1 TGTATCGATACATGAAAAT
123466 TGTATCGATACA
1 TGTATCGATACA
123478 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 2 0.05
18 2 0.05
19 23 0.61
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (19 bp):
TGTATCGATACATGAAAAT
Found at i:123452 original size:13 final size:13
Alignment explanation
Indices: 123434--123488 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
123424 ACATGAAAAT
123434 TGTATCGATACAA
1 TGTATCGATACAA
123447 TGTATCGATACATGAAAA
1 TGTATCGATAC-----AA
123465 TTGTATCGATACAA
1 -TGTATCGATACAA
123479 TGTATCGATA
1 TGTATCGATA
123489 TAATTGCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 21 0.58
14 2 0.06
18 2 0.06
19 11 0.31
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:123455 original size:32 final size:32
Alignment explanation
Indices: 123414--123488 Score: 150
Period size: 32 Copynumber: 2.3 Consensus size: 32
123404 TATAGGCGTG
123414 ATGTATCGATACATGAAAATTGTATCGATACA
1 ATGTATCGATACATGAAAATTGTATCGATACA
123446 ATGTATCGATACATGAAAATTGTATCGATACA
1 ATGTATCGATACATGAAAATTGTATCGATACA
123478 ATGTATCGATA
1 ATGTATCGATA
123489 TAATTGCATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (32 bp):
ATGTATCGATACATGAAAATTGTATCGATACA
Found at i:123500 original size:32 final size:31
Alignment explanation
Indices: 123414--123511 Score: 126
Period size: 32 Copynumber: 3.1 Consensus size: 31
123404 TATAGGCGTG
*
123414 ATGTATCGATACATGAAAATTGTATCGATACA
1 ATGTATCGATAAATG-AAATTGTATCGATACA
*
123446 ATGTATCGATACATGAAAATTGTATCGATACA
1 ATGTATCGATAAATG-AAATTGTATCGATACA
*
123478 ATGTATCGATATAATTG-CATTGTATCGATACA
1 ATGTATCGATA-AA-TGAAATTGTATCGATACA
123510 AT
1 AT
123512 CTGGGAAACC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
32 59 0.95
33 1 0.02
34 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (31 bp):
ATGTATCGATAAATGAAATTGTATCGATACA
Found at i:129519 original size:21 final size:20
Alignment explanation
Indices: 129472--129528 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
129462 TCGTTGGGCC
129472 AAATGTATCGATACAATTTCA
1 AAATGTATCGATAC-ATTTCA
*
129493 TAATGTATCGATACATCTT-A
1 AAATGTATCGATACAT-TTCA
*
129513 AACATGTATCAATACA
1 AA-ATGTATCGATACA
129529 ATCATAGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 4 0.13
21 27 0.87
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (20 bp):
AAATGTATCGATACATTTCA
Found at i:129624 original size:20 final size:20
Alignment explanation
Indices: 129599--129648 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
129589 AATTCTATAG
*
129599 TGTATCGATAC-TTAGCAATT
1 TGTATCGATACATTAGC-ATA
*
129619 TGTATCGATACATTTGCATA
1 TGTATCGATACATTAGCATA
129639 TGTATCGATA
1 TGTATCGATA
129649 TTTTTAAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTAGCATA
Found at i:130720 original size:19 final size:20
Alignment explanation
Indices: 130696--130736 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
130686 TCAAAAAATC
130696 TTAAATTTTC-TAGTTT-ATT
1 TTAAA-TTTCATAGTTTCATT
130715 TTAAATTTCATAGTTTCATT
1 TTAAATTTCATAGTTTCATT
130735 TT
1 TT
130737 CTTTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 11 0.55
20 5 0.25
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (20 bp):
TTAAATTTCATAGTTTCATT
Found at i:131512 original size:33 final size:33
Alignment explanation
Indices: 131450--131512 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
131440 TGAAGCAATG
* * *
131450 TATCGATACAATTCATCATGTATCGATACATTT
1 TATCGATACAATTCACCATGTAACAATACATTT
131483 TATCGATACAATGT-ACCATGTAACAATACA
1 TATCGATACAAT-TCACCATGTAACAATACA
131513 AACAGTGGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 25 0.96
34 1 0.04
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (33 bp):
TATCGATACAATTCACCATGTAACAATACATTT
Found at i:131567 original size:20 final size:19
Alignment explanation
Indices: 131542--131614 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
131532 CTACCAGTTT
**
131542 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
131562 CATGTATCGGTACAATGAA
1 CATGTATCGATACAATGAA
*
131581 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
131602 -ATGTATCGATACA
1 CATGTATCGATACA
131615 TCTGGGTGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 17 0.37
20 28 0.61
21 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:131586 original size:19 final size:20
Alignment explanation
Indices: 131542--131595 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
131532 CTACCAGTTT
**
131542 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
*
131562 CATGTATCGGTACAA-TGAA
1 CATGTATCGATACAATTGAA
131581 CATGTATCGATACAA
1 CATGTATCGATACAA
131596 AGCATAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:132189 original size:21 final size:21
Alignment explanation
Indices: 132165--132205 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
132155 TAAGGCTTTC
132165 AAAAAAAGTT-TCCCCCTTGA
1 AAAAAAAGTTCTCCCCCTTGA
*
132185 AAAAAAATTTCTCCCCCTTGA
1 AAAAAAAGTTCTCCCCCTTGA
132206 TAATCGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.39, C:0.27, G:0.07, T:0.27
Consensus pattern (21 bp):
AAAAAAAGTTCTCCCCCTTGA
Found at i:132839 original size:13 final size:13
Alignment explanation
Indices: 132821--132846 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132811 TAGTAACCCT
132821 TGTATCGATACAA
1 TGTATCGATACAA
132834 TGTATCGATACAA
1 TGTATCGATACAA
132847 AGAATATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:135014 original size:154 final size:153
Alignment explanation
Indices: 134665--135031 Score: 407
Period size: 154 Copynumber: 2.4 Consensus size: 153
134655 TACTTTCATG
* * ** *
134665 TCAAAGGTATATCTATAGAGGCATTTTCGTAATTTTTCTAGAAGTAAGTCCTGGGTTGTCATCGA
1 TCAAAGGTATCT-TATAGAGGCATTTTCGTAATTTTT-TAAAACCAAGTCCTAGGTTGTCATCGA
*
134730 GTCTGCTTTTATGCCGAAGGTGAGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTTAAGTC
64 GTCTGCTTTTATGCCGAAAGTGAGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTTAAGTC
* * **
134795 CTTTAGGGTACTGGGTACTTCTATG
129 CTTTAGGGTACTGGGCACTTATAAA
** * * * * * *
134820 T-AGAAAATATCTTCTAGGGGCATTTTTGTAATTTTCTTAAAACCAAGTCTTAGGTTGTCATTGG
1 TCA-AAGGTATCTTATAGAGGCATTTTCGTAATTTT-TTAAAACCAAGTCCTAGGTTGTCATCGA
* * * * *
134884 GTTTGCTTTTATGCCGAAAGTGGGTATTTATGATAGGTTCATCCCTTTTATAATCTTTTTAAGTC
64 GTCTGCTTTTATGCCGAAAGTGAGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTTAAGTC
*
134949 TTTTAGGGGTA-TCGGGCACTTATAAA
129 CTTTA-GGGTACT-GGGCACTTATAAA
* * *
134975 TCAAAGGTATCTTTTAGAGGTATTTTCGTAATTTTTTAAAA-TAGAGTCCTAGGTTGT
1 TCAAAGGTATCTTATAGAGGCATTTTCGTAATTTTTTAAAACCA-AGTCCTAGGTTGT
135032 TACCAGGTCT
Statistics
Matches: 174, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
153 1 0.01
154 123 0.71
155 49 0.28
156 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (153 bp):
TCAAAGGTATCTTATAGAGGCATTTTCGTAATTTTTTAAAACCAAGTCCTAGGTTGTCATCGAGT
CTGCTTTTATGCCGAAAGTGAGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTTAAGTCCT
TTAGGGTACTGGGCACTTATAAA
Found at i:137078 original size:50 final size:51
Alignment explanation
Indices: 137012--137157 Score: 224
Period size: 50 Copynumber: 2.9 Consensus size: 51
137002 AAAGTCACAT
* *
137012 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTC
1 TTTTTACCGAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
* *
137063 -TTTTACTC-AGATGTATCGATACATTCTTCAATGTATCGATAAATTCTATC
1 TTTTTAC-CGAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
*
137113 TTTTTACCGAGATGTATCAATACATTTTTCAATGTATCGATACAT
1 TTTTTACCGAGATGTATCGATACATTTTTCAATGTATCGATACAT
137158 CTAGTTAAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
50 46 0.53
51 40 0.47
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (51 bp):
TTTTTACCGAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
Done.