Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 156 of 250
Found at i:50204383 original size:5 final size:5
Alignment explanation
Indices: 50204373--50204404 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
50204363 CATAATCATA
50204373 ATTCT ATTCT ATTCT ATTCT ATTCT ATTCT AT
1 ATTCT ATTCT ATTCT ATTCT ATTCT ATTCT AT
50204405 ACCACAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTCT
Found at i:50205936 original size:27 final size:26
Alignment explanation
Indices: 50205906--50205967 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
50205896 AGATAATTAA
50205906 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
50205933 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
50205960 AATAAAAT
1 AATAAAAT
50205968 AGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:50206542 original size:11 final size:11
Alignment explanation
Indices: 50206526--50206552 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50206516 TTAATATGAC
50206526 TTTTTTTCTTT
1 TTTTTTTCTTT
50206537 TTTTTTTCTTT
1 TTTTTTTCTTT
50206548 TTTTT
1 TTTTT
50206553 ATAGAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:50207554 original size:15 final size:15
Alignment explanation
Indices: 50207534--50207590 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
50207524 TTAATATCTG
*
50207534 AAAATAATAAATAAT
1 AAAATAATAAATAAA
50207549 AAAATAATAAGATAAA
1 AAAATAATAA-ATAAA
50207565 ATAAATAA-AAATAAA
1 A-AAATAATAAATAAA
50207580 AATAA-AATAAA
1 AA-AATAATAAA
50207591 AATTGGGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 3 0.08
15 21 0.57
16 7 0.19
17 6 0.16
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAATAAATAAA
Found at i:50207588 original size:11 final size:11
Alignment explanation
Indices: 50207539--50207593 Score: 67
Period size: 11 Copynumber: 4.8 Consensus size: 11
50207529 ATCTGAAAAT
50207539 AATAAATAATAA
1 AATAAA-AATAA
50207551 AATAATAAGATAA
1 AATAA-AA-ATAA
*
50207564 AATAAATA-AA
1 AATAAAAATAA
50207574 AATAAAAATAA
1 AATAAAAATAA
50207585 AATAAAAAT
1 AATAAAAAT
50207594 TGGGTTGCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
10 9 0.24
11 12 0.32
12 7 0.18
13 10 0.26
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:50207590 original size:21 final size:25
Alignment explanation
Indices: 50207539--50207590 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 25
50207529 ATCTGAAAAT
50207539 AATAAATAATAAAATAATAAGATAA
1 AATAAATAATAAAATAATAAGATAA
50207564 AATAAAT-A-AAAATAA-AA-ATAA
1 AATAAATAATAAAATAATAAGATAA
50207585 AATAAA
1 AATAAA
50207591 AATTGGGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.37
22 2 0.07
23 7 0.26
24 1 0.04
25 7 0.26
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (25 bp):
AATAAATAATAAAATAATAAGATAA
Found at i:50211628 original size:30 final size:30
Alignment explanation
Indices: 50211583--50211642 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
50211573 ATTTAATACG
*
50211583 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
50211613 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
50211643 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:50213990 original size:10 final size:10
Alignment explanation
Indices: 50213975--50214006 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
50213965 TAAATACAAT
50213975 TAATTAAAGA
1 TAATTAAAGA
50213985 TAATTAAAGA
1 TAATTAAAGA
50213995 TAATTAAA-A
1 TAATTAAAGA
50214004 TAA
1 TAA
50214007 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:50214032 original size:27 final size:26
Alignment explanation
Indices: 50214002--50214063 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
50213992 AGATAATTAA
50214002 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
50214029 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
50214056 AATAAAAT
1 AATAAAAT
50214064 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:50214463 original size:15 final size:14
Alignment explanation
Indices: 50214443--50214477 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
50214433 TTGTTTCTTT
50214443 TTATTTTATTTTCTA
1 TTATTTTA-TTTCTA
*
50214458 TTATTTTATTTCTT
1 TTATTTTATTTCTA
50214472 TTATTT
1 TTATTT
50214478 ACTTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATTTTATTTCTA
Found at i:50215204 original size:21 final size:21
Alignment explanation
Indices: 50215178--50215229 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
50215168 CAAGTTGTTG
* **
50215178 CCCCAACTCAGCAATAGGCTA
1 CCCCAACTCAGCAAGAGAATA
* *
50215199 CCCCAAATTAGCAAGAGAATA
1 CCCCAACTCAGCAAGAGAATA
50215220 CCCCAACTCA
1 CCCCAACTCA
50215230 ACAGGCTGCC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.37, G:0.12, T:0.13
Consensus pattern (21 bp):
CCCCAACTCAGCAAGAGAATA
Found at i:50216303 original size:3 final size:3
Alignment explanation
Indices: 50216295--50216366 Score: 92
Period size: 3 Copynumber: 24.3 Consensus size: 3
50216285 TCATTTTTCC
*
50216295 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT CCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * * *
50216343 TCG TC- TCC TAT TCT TTT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
50216367 TTTTAGGGTG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.01, C:0.33, G:0.01, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:50218125 original size:15 final size:16
Alignment explanation
Indices: 50218105--50218139 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
50218095 TTGGCTAGGT
50218105 TTTTG-AGGTAAGCTA
1 TTTTGAAGGTAAGCTA
50218120 TTTTGAAGGTAAGCTA
1 TTTTGAAGGTAAGCTA
50218136 TTTT
1 TTTT
50218140 CAAATCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.46
Consensus pattern (16 bp):
TTTTGAAGGTAAGCTA
Found at i:50219457 original size:23 final size:24
Alignment explanation
Indices: 50219430--50219475 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
50219420 TAAATTTTGT
50219430 TCTATTATT-TAAA-TTTTATTTTA
1 TCTA-TATTATAAATTTTTATTTTA
50219453 TCTATATTATAAATTTTTATTTT
1 TCTATATTATAAATTTTTATTTT
50219476 TATTTTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.19
23 8 0.38
24 9 0.43
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
TCTATATTATAAATTTTTATTTTA
Found at i:50219514 original size:24 final size:23
Alignment explanation
Indices: 50219487--50219537 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
50219477 ATTTTGATGT
50219487 ATATAAATACTTTTATTTAAAAAA
1 ATAT-AATACTTTTATTTAAAAAA
**
50219511 ATATTTTACTTTTATTTAAAAAA
1 ATATAATACTTTTATTTAAAAAA
50219534 ATAT
1 ATAT
50219538 TATTTCTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATAATACTTTTATTTAAAAAA
Found at i:50219524 original size:23 final size:23
Alignment explanation
Indices: 50219494--50219538 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
50219484 TGTATATAAA
50219494 TACTTTTATTTAAAAAAATATTT
1 TACTTTTATTTAAAAAAATATTT
50219517 TACTTTTATTTAAAAAAATATT
1 TACTTTTATTTAAAAAAATATT
50219539 ATTTCTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TACTTTTATTTAAAAAAATATTT
Found at i:50224350 original size:47 final size:47
Alignment explanation
Indices: 50224254--50224351 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 47
50224244 CATCCAGGAA
* **
50224254 CCCAATAAATTGGCATGATTTTTTAGTTGAGCCCGGCTCGGCCCGGG
1 CCCAATAAATTGGCATGATTTTTTAGTTGAGCCCGGCCCAACCCGGG
* *
50224301 CCCAATAAA-TGGACATTATTTTTTAGTTGAGCTCGGCCCAAACCC-GG
1 CCCAATAAATTGG-CATGATTTTTTAGTTGAGCCCGGCCC-AACCCGGG
50224348 CCCA
1 CCCA
50224352 GCCCGGCCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
46 3 0.07
47 38 0.86
48 3 0.07
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (47 bp):
CCCAATAAATTGGCATGATTTTTTAGTTGAGCCCGGCCCAACCCGGG
Found at i:50227658 original size:20 final size:20
Alignment explanation
Indices: 50227633--50227674 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
50227623 CTAGTTGATG
50227633 TAGCAGAGGAGCCTAGCCTA
1 TAGCAGAGGAGCCTAGCCTA
50227653 TAGCAGAGGAGCCTAGCCTA
1 TAGCAGAGGAGCCTAGCCTA
50227673 TA
1 TA
50227675 TGCAATTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.29, T:0.17
Consensus pattern (20 bp):
TAGCAGAGGAGCCTAGCCTA
Found at i:50230744 original size:29 final size:28
Alignment explanation
Indices: 50230668--50230744 Score: 64
Period size: 29 Copynumber: 2.6 Consensus size: 28
50230658 ATTGAACCTG
* *
50230668 AATTTTAAAATTTAAAAAATAGAGAGACTA
1 AATTTT-AAATTT-AAAAGTAGAAAGACTA
** * *
50230698 AATTTCTAAAAATAAAAGTATAAAGATTA
1 AATTT-TAAATTTAAAAGTAGAAAGACTA
50230727 AATTTTAAATTTATAAAG
1 AATTTTAAATTTA-AAAG
50230745 AAATAGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
28 6 0.16
29 21 0.57
30 9 0.24
31 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.34
Consensus pattern (28 bp):
AATTTTAAATTTAAAAGTAGAAAGACTA
Found at i:50232380 original size:74 final size:74
Alignment explanation
Indices: 50232256--50232403 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 74
50232246 CTTTTTGGTT
*
50232256 TCTTAAATGGGCTTGGACCCAAAAAGTAAACCCAAAGCCTAATGTCCAAATAAGCTTGACTTTTT
1 TCTTAAATGGGCTTGGACCCAAAAACTAAACCCAAAGCCTAATGTCCAAATAAGCTTGACTTTTT
50232321 TAAACAAAA
66 TAAACAAAA
* * *
50232330 TCTTAAATGGGCTTTGACCCGAAAACTAAACCCAAAGCCTAATGTTCAAATAAGCTTGACTTTTT
1 TCTTAAATGGGCTTGGACCCAAAAACTAAACCCAAAGCCTAATGTCCAAATAAGCTTGACTTTTT
50232395 TAAACAAAA
66 TAAACAAAA
50232404 AAGGACAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (74 bp):
TCTTAAATGGGCTTGGACCCAAAAACTAAACCCAAAGCCTAATGTCCAAATAAGCTTGACTTTTT
TAAACAAAA
Found at i:50243496 original size:21 final size:21
Alignment explanation
Indices: 50243420--50243497 Score: 63
Period size: 21 Copynumber: 3.6 Consensus size: 21
50243410 ATTTTTAAGC
*
50243420 AATTA-ATATTAATTATTTAT
1 AATTATATATTAAATATTTAT
*
50243440 AAAATGTATATTTTAAATATTTA-
1 --AAT-TATATATTAAATATTTAT
*
50243463 AA-TATAACCATTAAATATTTAT
1 AATTAT-A-TATTAAATATTTAT
50243485 AATTATATATTAA
1 AATTATATATTAA
50243498 CACATTTGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 3 0.07
20 1 0.02
21 18 0.40
22 6 0.13
23 5 0.11
24 12 0.27
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (21 bp):
AATTATATATTAAATATTTAT
Found at i:50247106 original size:30 final size:30
Alignment explanation
Indices: 50247070--50247129 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
50247060 ACTACCAAAG
50247070 ATACTCTAAATACATGAGAAAACTTGAAAA
1 ATACTCTAAATACATGAGAAAACTTGAAAA
50247100 ATACTCTAAATACATGAGAAAACTTGAAAA
1 ATACTCTAAATACATGAGAAAACTTGAAAA
50247130 GATCTTACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.23
Consensus pattern (30 bp):
ATACTCTAAATACATGAGAAAACTTGAAAA
Found at i:50253286 original size:24 final size:21
Alignment explanation
Indices: 50253213--50253288 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 21
50253203 TAAAAAATAT
** *
50253213 TAAAATTACATATAAAATTATA
1 TAAAATTTTATATTAAATTA-A
50253235 TAAAAATTTTATATTAATATTAA
1 T-AAAATTTTATATTAA-ATTAA
50253258 GTAAAATTCATTATATTAAATTACA
1 -TAAAATT--TTATATTAAATTA-A
50253283 TAAAAT
1 TAAAAT
50253289 AAAATAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
22 1 0.02
23 19 0.42
24 15 0.33
25 10 0.22
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (21 bp):
TAAAATTTTATATTAAATTAA
Found at i:50254558 original size:25 final size:22
Alignment explanation
Indices: 50254512--50254562 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
50254502 TTTATTTTAA
*
50254512 TATAATAATTTTTATTTAATTT
1 TATAATAATTTTTATATAATTT
50254534 TATAATAATTATTTATAATACATTT
1 TATAATAATT-TTTAT-ATA-ATTT
50254559 TATA
1 TATA
50254563 TTTTTAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 10 0.40
23 5 0.20
24 2 0.08
25 8 0.32
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TATAATAATTTTTATATAATTT
Found at i:50254584 original size:20 final size:20
Alignment explanation
Indices: 50254514--50254598 Score: 60
Period size: 20 Copynumber: 4.6 Consensus size: 20
50254504 TATTTTAATA
* *
50254514 TAATAATTTTTATTTAATTT
1 TAATAATTTTAATTTATTTT
*
50254534 T-ATAA---TAA-TTATTTA
1 TAATAATTTTAATTTATTTT
50254549 TAATACATTTT-A--TATTTT
1 TAATA-ATTTTAATTTATTTT
*
50254567 TAGTAATTTTAATTTATTTT
1 TAATAATTTTAATTTATTTT
*
50254587 TAATATTTTTAA
1 TAATAATTTTAA
50254599 AAAAACTTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
15 6 0.12
16 5 0.10
17 6 0.12
18 10 0.20
19 5 0.10
20 18 0.36
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (20 bp):
TAATAATTTTAATTTATTTT
Found at i:50256404 original size:14 final size:14
Alignment explanation
Indices: 50256385--50256415 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
50256375 AGTAACATGT
50256385 TTTCTGGAAAATAA
1 TTTCTGGAAAATAA
*
50256399 TTTCTGGAAAATGA
1 TTTCTGGAAAATAA
50256413 TTT
1 TTT
50256416 ACTTTTCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (14 bp):
TTTCTGGAAAATAA
Found at i:50256441 original size:20 final size:20
Alignment explanation
Indices: 50256399--50256440 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
50256389 TGGAAAATAA
50256399 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
50256419 TTTCT-GAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
50256438 TTT
1 TTT
50256441 TTGGTGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:50256560 original size:18 final size:18
Alignment explanation
Indices: 50256519--50256562 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
50256509 GAAAAGCTAT
*
50256519 ATTTACATATATTAATAA
1 ATTTATATATATTAATAA
50256537 ATTTATATATATTAATAA
1 ATTTATATATATTAATAA
50256555 ATTTATAT
1 ATTTATAT
50256563 TTTAAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTATATATATTAATAA
Found at i:50262120 original size:14 final size:14
Alignment explanation
Indices: 50262101--50262140 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
50262091 GAAAAGGTTG
50262101 AAAAGCTTTT-CTGC
1 AAAAGCTTTTAC-GC
50262115 AAAAGCTTTTACGC
1 AAAAGCTTTTACGC
50262129 AAAAGCTTTTAC
1 AAAAGCTTTTAC
50262141 CCCTAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 24 0.96
15 1 0.04
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (14 bp):
AAAAGCTTTTACGC
Found at i:50267082 original size:7 final size:7
Alignment explanation
Indices: 50267070--50267102 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
50267060 TCTACTATTT
50267070 TAAAAAA
1 TAAAAAA
50267077 TAAAAAA
1 TAAAAAA
50267084 TAAAAAA
1 TAAAAAA
50267091 TAAAAAA
1 TAAAAAA
50267098 TAAAA
1 TAAAA
50267103 TATCTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:50268835 original size:29 final size:30
Alignment explanation
Indices: 50268796--50268853 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
50268786 AATTGGTCTC
50268796 TTCTTTTTGAGAA-ACTCTGTAATTATTCT
1 TTCTTTTTGAGAAGACTCTGTAATTATTCT
*
50268825 TTCTTTTTGAGAAGGTCTCTGTAATTATT
1 TTCTTTTTGAGAA-GACTCTGTAATTATT
50268854 ATAGTGAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.50
31 13 0.50
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (30 bp):
TTCTTTTTGAGAAGACTCTGTAATTATTCT
Found at i:50277674 original size:23 final size:26
Alignment explanation
Indices: 50277634--50277681 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
50277624 AGTTTTTATA
50277634 TTTTTATTTTTAAGAATTT-AGTCTT
1 TTTTTATTTTTAAGAATTTAAGTCTT
50277659 TTTTTA-TTTTAA-AATTTAAGTCT
1 TTTTTATTTTTAAGAATTTAAGTCT
50277682 AATTGTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.23
24 11 0.50
25 6 0.27
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.62
Consensus pattern (26 bp):
TTTTTATTTTTAAGAATTTAAGTCTT
Found at i:50288566 original size:41 final size:41
Alignment explanation
Indices: 50288368--50288555 Score: 299
Period size: 41 Copynumber: 4.6 Consensus size: 41
50288358 AGTGAAATAA
* * *
50288368 TTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGA-A-ATT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACA-T
50288408 ATTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 -TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
*
50288450 TTCAGGCTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
50288491 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
*
50288532 TTCGGACTATAAGTCTAGCAGGCT
1 TTCAGACTATAAGTCTAGCAGGCT
50288556 AAGAGCCGGT
Statistics
Matches: 139, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
41 136 0.98
42 2 0.01
43 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (41 bp):
TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
Found at i:50288826 original size:33 final size:33
Alignment explanation
Indices: 50288770--50288867 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
50288760 ATAGATATGT
*
50288770 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
50288802 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
50288835 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
50288868 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:50290055 original size:52 final size:51
Alignment explanation
Indices: 50289996--50290149 Score: 173
Period size: 52 Copynumber: 2.9 Consensus size: 51
50289986 GACGGAAAAG
*
50289996 ATGTGATATGTGCTTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATATGTG-TTTCGTATAAGACCATAACTGGGCTATGGCATCGGTGCA
* * * **
50290048 ATGTGATACGTGTTCCCGTATAAGACCATAACTGGGCTATGACATCGGTGTG
1 ATGTGATATGTGTT-TCGTATAAGACCATAACTGGGCTATGGCATCGGTGCA
* * * * *
50290100 ATGTGATAATATGATTCTGTATAAGACTATATCTGGGATATGGCATCGGT
1 ATGTGAT-ATGTGTTTC-GTATAAGACCATAACTGGGCTATGGCATCGGT
50290150 ATGATATGTG
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
51 2 0.02
52 51 0.60
53 32 0.38
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
ATGTGATATGTGTTTCGTATAAGACCATAACTGGGCTATGGCATCGGTGCA
Found at i:50294260 original size:18 final size:15
Alignment explanation
Indices: 50294205--50294266 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 15
50294195 CACGTAACAT
50294205 ATATAAATTTTAAAA
1 ATATAAATTTTAAAA
50294220 AT-TAAATTTTTTAAAAA
1 ATATAAA--TTTT-AAAA
50294237 TATATAAATTAATTAAAA
1 -ATATAAATT--TTAAAA
50294255 AGTATAAATTTT
1 A-TATAAATTTT
50294267 TTCCACATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
14 4 0.10
15 2 0.05
16 6 0.15
17 7 0.18
18 14 0.36
19 6 0.15
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
ATATAAATTTTAAAA
Found at i:50294579 original size:9 final size:9
Alignment explanation
Indices: 50294558--50294598 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
50294548 GCAAACTACA
50294558 TATTAACTAT
1 TATTAA-TAT
50294568 TATTAATAT
1 TATTAATAT
*
50294577 TATTATTAT
1 TATTAATAT
*
50294586 TATTATTAT
1 TATTAATAT
50294595 TATT
1 TATT
50294599 TAAAGAATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 24 0.80
10 6 0.20
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (9 bp):
TATTAATAT
Found at i:50294580 original size:3 final size:3
Alignment explanation
Indices: 50294565--50294598 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
50294555 ACATATTAAC
*
50294565 TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
50294599 TAAAGAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:50299887 original size:68 final size:65
Alignment explanation
Indices: 50299826--50300072 Score: 230
Period size: 65 Copynumber: 3.7 Consensus size: 65
50299816 AGATGGGATC
* * * *
50299826 ATCATTTACACCGATCTTAGAACATCTATCTCAATTTAT-AGGAATTCTTGAACAAATGAGATAG
1 ATCATTTACACCAATCTTAGGACTTCTATCTCAATTTATCA-GAATTCTTGAACAAATGAGATGG
50299890 G
65 G
* * * *
50299891 ATCATTTACACCAAGCCTAGGACTTTCT-TC-CTAATTTTATCAGAATTCTAGAACAAAGGAGAT
1 ATCATTTACACCAATCTTAGGAC-TTCTATCTC-AA-TTTATCAGAATTCTTGAACAAATGAGAT
*
50299954 GGAATC
63 GG---G
** * * **
50299960 ATCATTTACACTGATCTTAGGACTTTTATCTCATTTTATCAGAATTCTTGAACAAACAAGATGGG
1 ATCATTTACACCAATCTTAGGACTTCTATCTCAATTTATCAGAATTCTTGAACAAATGAGATGGG
* * * * *
50300025 GTCATTTATACCAATTTTAGGACTTCTATCTCATTTTATCGGAATTCT
1 ATCATTTACACCAATCTTAGGACTTCTATCTCAATTTATCAGAATTCT
50300073 AGTCTAGACC
Statistics
Matches: 147, Mismatches: 26, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
64 1 0.01
65 64 0.44
66 28 0.19
67 1 0.01
68 30 0.20
69 22 0.15
70 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (65 bp):
ATCATTTACACCAATCTTAGGACTTCTATCTCAATTTATCAGAATTCTTGAACAAATGAGATGGG
Found at i:50300114 original size:70 final size:70
Alignment explanation
Indices: 50299960--50300205 Score: 250
Period size: 71 Copynumber: 3.6 Consensus size: 70
50299950 AGATGGAATC
* * *
50299960 ATCATTTACACTGATCTTAGGACTTTTATCTCATTTTATCAGAATTC---T-T-GAACAAACAAG
1 ATCATTTACACTGATCTTAGGACTTCTATCTCATTTTATCGGAATTCTAGTCTAGAACAAACAAA
50300020 ATGGG
66 ATGGG
* * ** * *
50300025 GTCATTTATACCAATTTTAGGACTTCTATCTCATTTTATCGGAATTCTAGTCTAGACCAAACAAA
1 ATCATTTACACTGATCTTAGGACTTCTATCTCATTTTATCGGAATTCTAGTCTAGAACAAACAAA
*
50300090 ATGGT
66 ATGGG
* * * * ***
50300095 TTCATTTACACTGATTTTAGGACTTCTATCTCATCTTTTTCGGAGTTCTAGTCTAGAACAAGTTA
1 ATCATTTACACTGATCTTAGGACTTCTATCTCAT-TTTATCGGAATTCTAGTCTAGAACAAACAA
50300160 AATGGG
65 AATGGG
* ** * *
50300166 ATCATTTTCGTTGGTCTTAGGACTTCTATCTCATCTTATC
1 ATCATTTACACTGATCTTAGGACTTCTATCTCATTTTATC
50300206 AGCTGTATGG
Statistics
Matches: 146, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
65 40 0.27
68 1 0.01
69 1 0.01
70 47 0.32
71 57 0.39
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (70 bp):
ATCATTTACACTGATCTTAGGACTTCTATCTCATTTTATCGGAATTCTAGTCTAGAACAAACAAA
ATGGG
Found at i:50305677 original size:20 final size:20
Alignment explanation
Indices: 50305652--50305693 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
50305642 GAACAATTAG
50305652 ATATTACAACCCAAGAATCA
1 ATATTACAACCCAAGAATCA
50305672 ATATTACAACCCAAGAATCA
1 ATATTACAACCCAAGAATCA
50305692 AT
1 AT
50305694 TATGAGCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.24, G:0.05, T:0.21
Consensus pattern (20 bp):
ATATTACAACCCAAGAATCA
Found at i:50312439 original size:14 final size:14
Alignment explanation
Indices: 50312420--50312447 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50312410 GCATGTACAT
50312420 AAGTGTTAATATAA
1 AAGTGTTAATATAA
50312434 AAGTGTTAATATAA
1 AAGTGTTAATATAA
50312448 GAGACTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
AAGTGTTAATATAA
Found at i:50318126 original size:16 final size:16
Alignment explanation
Indices: 50318105--50318136 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50318095 TAGAGACAAG
50318105 TTGGATATGCTATTTA
1 TTGGATATGCTATTTA
50318121 TTGGATATGCTATTTA
1 TTGGATATGCTATTTA
50318137 GACTTAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (16 bp):
TTGGATATGCTATTTA
Found at i:50320947 original size:90 final size:90
Alignment explanation
Indices: 50320819--50321037 Score: 231
Period size: 90 Copynumber: 2.4 Consensus size: 90
50320809 GCATCAGTAC
* * * * * * * *
50320819 CAATATGTGATCCCGTATAAGACCATATCAGGGATATGGCTTCGACAACGTTAAGTGATTTCGTA
1 CAATATGAGGTCCCGTATAAGACCATGTCTGGGATATGGCATCGACAACGATAAGAGACTTCGTA
* *
50320884 TAAGACCATGTCTGGGACATGGCAT
66 TAAGACCATATCTGGGACATGACAT
* * * * *
50320909 TAATATGAGGTCCCGTATAAGACCATGTTTGGGATATGGCATCGGCATCGATATGAGACTTCGTA
1 CAATATGAGGTCCCGTATAAGACCATGTCTGGGATATGGCATCGACAACGATAAGAGACTTCGTA
* *
50320974 TAAGACCATATTTGGGATATGACAT
66 TAAGACCATATCTGGGACATGACAT
* * * * * *
50320999 CGATATGCGGACCCATGTAAGACCATGTCTGGGACATGG
1 CAATATGAGGTCCCGTATAAGACCATGTCTGGGATATGG
50321038 ATTTGGCACT
Statistics
Matches: 104, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
90 104 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (90 bp):
CAATATGAGGTCCCGTATAAGACCATGTCTGGGATATGGCATCGACAACGATAAGAGACTTCGTA
TAAGACCATATCTGGGACATGACAT
Found at i:50323824 original size:10 final size:10
Alignment explanation
Indices: 50323791--50323824 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
50323781 GAATTAGATC
50323791 AAAATTACTA
1 AAAATTACTA
*
50323801 AAAA-TAATA
1 AAAATTACTA
50323810 AAAATTACTA
1 AAAATTACTA
50323820 AAAAT
1 AAAAT
50323825 AACTTTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAATTACTA
Found at i:50325365 original size:20 final size:20
Alignment explanation
Indices: 50325296--50325365 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
50325286 TGTACAAAAA
* *
50325296 GCATACTTGGCACACGAAGT
1 GCATTCTTGGCACATGAAGT
* * * *
50325316 ACATTCCTAGCATAT-AAGT
1 GCATTCTTGGCACATGAAGT
50325335 GCATATC-TGGCACATGAAGT
1 GCAT-TCTTGGCACATGAAGT
50325355 GCATTCTTGGC
1 GCATTCTTGGC
50325366 GCATAAATGC
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 15 0.39
20 23 0.61
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (20 bp):
GCATTCTTGGCACATGAAGT
Found at i:50327749 original size:36 final size:36
Alignment explanation
Indices: 50327702--50327773 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
50327692 AGCTCGAGAA
*
50327702 GAGCTAATATATCAATATTTACAGGAACAAATTTTT
1 GAGCTAATATATCAATATTTAAAGGAACAAATTTTT
50327738 GAGCTAATATATCAATATTTAAAGGAACAAATTTTT
1 GAGCTAATATATCAATATTTAAAGGAACAAATTTTT
50327774 TTATAATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (36 bp):
GAGCTAATATATCAATATTTAAAGGAACAAATTTTT
Found at i:50329085 original size:43 final size:44
Alignment explanation
Indices: 50329002--50329087 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
50328992 CTATGTATAT
* * * *
50329002 ATTAATATGGTTAAATCATATGAGATGGTAAACCAGAAGTTTAC
1 ATTAATATCGTTAAATCATATGACATAGTAAACCAAAAGTTTAC
*
50329046 ATTAGTATCGTTAAATCATATG-CATAGTAAACCAAAAGTTTA
1 ATTAATATCGTTAAATCATATGACATAGTAAACCAAAAGTTTA
50329088 TTAGTCCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 17 0.46
44 20 0.54
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (44 bp):
ATTAATATCGTTAAATCATATGACATAGTAAACCAAAAGTTTAC
Found at i:50332955 original size:23 final size:23
Alignment explanation
Indices: 50332923--50332974 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
50332913 GGACTCACCA
*
50332923 CAGCTTATTGGAGCTTACCGATT
1 CAGCTCATTGGAGCTTACCGATT
50332946 CAGCTCATTGGAGCTTACCGATT
1 CAGCTCATTGGAGCTTACCGATT
50332969 CAGCTC
1 CAGCTC
50332975 GAAAAAGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (23 bp):
CAGCTCATTGGAGCTTACCGATT
Found at i:50333005 original size:45 final size:46
Alignment explanation
Indices: 50332934--50333036 Score: 120
Period size: 46 Copynumber: 2.2 Consensus size: 46
50332924 AGCTTATTGG
* * * *
50332934 AGCTTACCGATTCAGCTCATTGGAGCTTACCG-ATTCAGCTCGAA-AA
1 AGCTTACTG-TTCAGCTCAATAGAGCTTACCGTATTCAACTC-AATAA
* *
50332980 AGCTTACTGTTCAGCTCAATAGAGCTTACCGTTTTCAACTCAATAG
1 AGCTTACTGTTCAGCTCAATAGAGCTTACCGTATTCAACTCAATAA
50333026 AGCTTACTGTT
1 AGCTTACTGTT
50333037 TATCAGCTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 22 0.45
46 27 0.55
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (46 bp):
AGCTTACTGTTCAGCTCAATAGAGCTTACCGTATTCAACTCAATAA
Found at i:50333021 original size:24 final size:24
Alignment explanation
Indices: 50332933--50333046 Score: 103
Period size: 23 Copynumber: 4.9 Consensus size: 24
50332923 CAGCTTATTG
* * *
50332933 GAGCTTACCG-ATTCAGCTCATTG
1 GAGCTTACCGTTTTCAGCTCAATA
*
50332956 GAGCTTACCG-ATTCAGCTCGAA-A
1 GAGCTTACCGTTTTCAGCTC-AATA
* *
50332979 AAGCTTA-C-TGTTCAGCTCAATA
1 GAGCTTACCGTTTTCAGCTCAATA
*
50333001 GAGCTTACCGTTTTCAACTCAATA
1 GAGCTTACCGTTTTCAGCTCAATA
*
50333025 GAGCTTACTGTTTATCAGCTCA
1 GAGCTTACCGTTT-TCAGCTCA
50333047 GGAGGAGTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.03
22 16 0.21
23 26 0.34
24 25 0.33
25 7 0.09
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (24 bp):
GAGCTTACCGTTTTCAGCTCAATA
Found at i:50333380 original size:20 final size:20
Alignment explanation
Indices: 50333343--50333381 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50333333 ACTAATGAGT
* *
50333343 TACTGGTTATACGGATGAAC
1 TACTAGTTATACGAATGAAC
*
50333363 TACTAGTTATATGAATGAA
1 TACTAGTTATACGAATGAA
50333382 TTAGAGTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (20 bp):
TACTAGTTATACGAATGAAC
Found at i:50334654 original size:20 final size:21
Alignment explanation
Indices: 50334624--50334671 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
50334614 ATATAAGTAT
**
50334624 TTAATTATTAATGGATATTTA
1 TTAATTATTAAAAGATATTTA
50334645 TTAATT-TTAAAAGATATTTA
1 TTAATTATTAAAAGATATTTA
50334665 TTAATTA
1 TTAATTA
50334672 AATAATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (21 bp):
TTAATTATTAAAAGATATTTA
Found at i:50334924 original size:20 final size:21
Alignment explanation
Indices: 50334893--50334933 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
50334883 GCAGGGGAAG
50334893 GAAAGAAAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
*
50334914 GAAAG-AAGAAAAAGGGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
50334934 TTGAAGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAAAAGAGAAAA
Found at i:50337157 original size:46 final size:46
Alignment explanation
Indices: 50337105--50337378 Score: 345
Period size: 46 Copynumber: 6.0 Consensus size: 46
50337095 GCTCTTTGAA
** *
50337105 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
50337151 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
50337197 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * ***
50337243 -GGAAAATGAATAAGACCATGGTTGAAAGATACAATGGCAGTGTGAC
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
50337289 ATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* ** * * *
50337335 A-GAAAATGAGTAAGACCACAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
50337379 TTAAAGATAA
Statistics
Matches: 203, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
45 2 0.01
46 201 0.99
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:50337359 original size:138 final size:138
Alignment explanation
Indices: 50337115--50337378 Score: 384
Period size: 138 Copynumber: 1.9 Consensus size: 138
50337105 ATGAAATGTG
* * * **
50337115 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACAATGGCAACATGACATAAAATGAATAAGACCATGGTTGAAAGA
* * ** *
50337180 TACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGGCAACATGACAGAAAATGAATAAGACCACAGTTGAAAGACACCATGGCAACATGACGG
50337245 AAAATGAA
131 AAAATGAA
***
50337253 TAAGACCATGGTTGAAAGATACAATGGCAGTGTGACATAAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACAATGGCAACATGACATAAAATGAATAAGACCATGGTTGAAAGA
* * *
50337318 TACCATGGCAACATGACAGAAAATGAGTAAGACCACAGTTGAAAGACACTATGGCATCATG
66 TACCATGGCAACATGACAGAAAATGAATAAGACCACAGTTGAAAGACACCATGGCAACATG
50337379 TTAAAGATAA
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
138 110 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.20
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACAATGGCAACATGACATAAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGAAAATGAATAAGACCACAGTTGAAAGACACCATGGCAACATGACGG
AAAATGAA
Found at i:50337659 original size:16 final size:17
Alignment explanation
Indices: 50337638--50337669 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50337628 ATGATGGAGC
50337638 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
50337654 ATGAAATGATTGATAT
1 ATGAAATGATTGATAT
50337670 GTACTTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:50339997 original size:42 final size:42
Alignment explanation
Indices: 50339885--50340019 Score: 116
Period size: 42 Copynumber: 3.2 Consensus size: 42
50339875 CTGAAGGCTG
* * * * *
50339885 AACAGAAGCTC-ATGAGAGCTAAACAAAAACCCGTAAGGGTTG
1 AACAGAAGCTCAAT-AGAGCTGAACAGAAACCCATAAGAGTTA
* * *
50339927 AAC-GAAAG-TC-GTAAGAGCTGAACGGAAACCCATAAGGGTTA
1 AACAG-AAGCTCAAT-AGAGCTGAACAGAAACCCATAAGAGTTA
* * *
50339968 AATAGAAGCTCAATAGAGCTGAACAGAAACTCATATGAGTTA
1 AACAGAAGCTCAATAGAGCTGAACAGAAACCCATAAGAGTTA
50340010 AACAGAAGCT
1 AACAGAAGCT
50340020 TATGAGATCT
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
41 32 0.43
42 42 0.56
43 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCAATAGAGCTGAACAGAAACCCATAAGAGTTA
Found at i:50340039 original size:42 final size:42
Alignment explanation
Indices: 50339940--50340040 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
50339930 GAAAGTCGTA
* * * *
50339940 AGAGCTGAACGGAAACCCATAAGGGTTAAATAGAAGCTCAAT
1 AGAGCTAAACGGAAACTCATAAGAGTTAAACAGAAGCTCAAT
* * * *
50339982 AGAGCTGAACAGAAACTCATATGAGTTAAACAGAAGCT-TAT
1 AGAGCTAAACGGAAACTCATAAGAGTTAAACAGAAGCTCAAT
*
50340023 GAGATCTAAACGGAAACT
1 -AGAGCTAAACGGAAACT
50340041 AAACACGAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 2 0.04
42 47 0.96
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.19
Consensus pattern (42 bp):
AGAGCTAAACGGAAACTCATAAGAGTTAAACAGAAGCTCAAT
Found at i:50340937 original size:57 final size:58
Alignment explanation
Indices: 50340849--50340967 Score: 204
Period size: 57 Copynumber: 2.1 Consensus size: 58
50340839 ATGAAGCTAA
* **
50340849 AATATGAAATCCGGCATTAAGAGCTTTTCAATGGTGTTTTTGGA-AAAAAAATTGGAG
1 AATATGAAATCCGACATTAAGAGCTCCTCAATGGTGTTTTTGGACAAAAAAATTGGAG
50340906 AATATGAAATCCGACATTAAGAGCTCCTCAATGGTGTTTTTGGACAAAAAAATTGGAG
1 AATATGAAATCCGACATTAAGAGCTCCTCAATGGTGTTTTTGGACAAAAAAATTGGAG
50340964 AATA
1 AATA
50340968 AATGGTCTAG
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
57 41 0.71
58 17 0.29
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (58 bp):
AATATGAAATCCGACATTAAGAGCTCCTCAATGGTGTTTTTGGACAAAAAAATTGGAG
Found at i:50351987 original size:23 final size:22
Alignment explanation
Indices: 50351942--50351985 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
50351932 ATGTTATTGT
*
50351942 TTGTTAAATTTTAATTATAAAA
1 TTGTTAAATATTAATTATAAAA
50351964 TTGTATAAATATTAA-TATAAAA
1 TTGT-TAAATATTAATTATAAAA
50351986 ATAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (22 bp):
TTGTTAAATATTAATTATAAAA
Found at i:50357185 original size:6 final size:6
Alignment explanation
Indices: 50357171--50357231 Score: 104
Period size: 6 Copynumber: 10.2 Consensus size: 6
50357161 ACCGTGCCCG
*
50357171 ACATAT ACATGT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
50357219 ACATAT ACGTAT A
1 ACATAT ACATAT A
50357232 TAACACTCGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:50357814 original size:16 final size:16
Alignment explanation
Indices: 50357793--50357825 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
50357783 TCAACAATTC
50357793 GAAGAAAAAAAAAGAA
1 GAAGAAAAAAAAAGAA
*
50357809 GAAGAAGAAAAAAGAA
1 GAAGAAAAAAAAAGAA
50357825 G
1 G
50357826 CTTATGTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
GAAGAAAAAAAAAGAA
Found at i:50357933 original size:13 final size:13
Alignment explanation
Indices: 50357906--50357943 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
50357896 GTGGTAGGTA
*
50357906 AATTCATTTTCTGT
1 AATT-ATTTTTTGT
50357920 AATTATTTTTTGT
1 AATTATTTTTTGT
50357933 AATTATTTTTT
1 AATTATTTTTT
50357944 AAAATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (13 bp):
AATTATTTTTTGT
Found at i:50360063 original size:21 final size:21
Alignment explanation
Indices: 50360037--50360077 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
50360027 TTTATCCTAG
50360037 TTTTAATTTCAATGTAATTCA
1 TTTTAATTTCAATGTAATTCA
*
50360058 TTTTAATTTCAATGTGATTC
1 TTTTAATTTCAATGTAATTC
50360078 GAAAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.54
Consensus pattern (21 bp):
TTTTAATTTCAATGTAATTCA
Found at i:50360671 original size:60 final size:58
Alignment explanation
Indices: 50360550--50360686 Score: 134
Period size: 60 Copynumber: 2.3 Consensus size: 58
50360540 GGGTTCAACA
* * * * *
50360550 TTTTTTTGTCCAAGTTAAAGCCCTAAATTTAATAATTATTCCCACATTAAGGCTTGTATTT
1 TTTTTTTGTCCAAGTT-AGGCCCTAAACTTAACAATTATTCCCACATT-AGGCTT-AAATT
* * *
50360611 TTTTTTTGTCCAAGTTAGGCCCTAGACTTGACAATTGTTCCCACATT-GGATCTTAAATT
1 TTTTTTTGTCCAAGTTAGGCCCTAAACTTAACAATTATTCCCACATTAGG--CTTAAATT
*
50360670 TTTTGTT-TCCAAGTTAG
1 TTTTTTTGTCCAAGTTAG
50360687 TTCCTGATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
58 12 0.18
59 9 0.14
60 28 0.43
61 16 0.25
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (58 bp):
TTTTTTTGTCCAAGTTAGGCCCTAAACTTAACAATTATTCCCACATTAGGCTTAAATT
Found at i:50361623 original size:54 final size:54
Alignment explanation
Indices: 50361524--50361669 Score: 152
Period size: 54 Copynumber: 2.7 Consensus size: 54
50361514 TCAGGAATTG
* * * * * *
50361524 AAAAAAAATTTTGGGTGCTGGGTCATTGATGGCCAGCACCCTTGTAATAGATTT
1 AAAAAAAAATTTAGGTGCTGGGACACTGATAGCCAGCACCCTTGTAACAGATTT
* *
50361578 AAATAAAAAATTT-GGTGCTGGGACACTGATAGCC-GACACCTTTGTACCAGATTT
1 AAA-AAAAAATTTAGGTGCTGGGACACTGATAGCCAG-CACCCTTGTAACAGATTT
* *
50361632 TAAAAAAAATTCTAAGGTGCTGGGACACTGATGGCCAG
1 AAAAAAAAATT-T-AGGTGCTGGGACACTGATAGCCAG
50361670 GACCTCTTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
53 9 0.12
54 39 0.51
55 8 0.10
56 20 0.26
57 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (54 bp):
AAAAAAAAATTTAGGTGCTGGGACACTGATAGCCAGCACCCTTGTAACAGATTT
Found at i:50362572 original size:30 final size:33
Alignment explanation
Indices: 50362538--50362598 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
50362528 TACTTAAAAT
50362538 TTAAG-TA-AAAATATATT-ATTATTATTATTA
1 TTAAGCTATAAAATATATTAATTATTATTATTA
*
50362568 TTAAGCTATAAATTATATTAATTATTATTAT
1 TTAAGCTATAAAATATATTAATTATTATTAT
50362599 ATTTTGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 5 0.19
31 2 0.07
32 9 0.33
33 11 0.41
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (33 bp):
TTAAGCTATAAAATATATTAATTATTATTATTA
Found at i:50362611 original size:32 final size:32
Alignment explanation
Indices: 50362549--50362614 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
50362539 TAAGTAAAAA
**
50362549 TATATTATTATTATTATTATTAAGCTATAAAT
1 TATATTATTATTATTATTATTAAGAAATAAAT
**
50362581 TATATTAATTATTATTA-TATTTTGAAATAAAT
1 TATATT-ATTATTATTATTATTAAGAAATAAAT
50362613 TA
1 TA
50362615 AGAAAAGACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (32 bp):
TATATTATTATTATTATTATTAAGAAATAAAT
Found at i:50362719 original size:32 final size:30
Alignment explanation
Indices: 50362679--50362741 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
50362669 TACATTTGTA
50362679 TTATTTTATGTA-TAATTAGTGAAAAGATATT
1 TTATTTTAT-TATTAATTA-TGAAAAGATATT
* *
50362710 TTATATTTATTATTAATTATTAAAATATATT
1 TTAT-TTTATTATTAATTATGAAAAGATATT
50362741 T
1 T
50362742 ATTAGATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (30 bp):
TTATTTTATTATTAATTATGAAAAGATATT
Found at i:50365432 original size:90 final size:89
Alignment explanation
Indices: 50365213--50365446 Score: 269
Period size: 90 Copynumber: 2.6 Consensus size: 89
50365203 GGTGTTACAC
* * *
50365213 AAAATGTTCGTATTA-TTTTGTAT-TCGTAAAT-CAATTGTAGTCAGTATTATTTTTTGGTCAAA
1 AAAATGTTCGTATTATTTTTGTATCT-GTAAATAAAATT-TAGTC-GTATTATTTGTCGGTCAAA
* *
50365275 TTTTATATTTTCGTATATCAGTTTTGT
63 TTTTATATTTTCGTATATCAATTTTCT
* * * * * *
50365302 AAAATATTTGTGTTATTTTTGGATCTGTAAA-AATATTTTAGAACGTATTATTTGTCGGTCAAAT
1 AAAATGTTCGTATTATTTTTGTATCTGTAAATAA-AATTTAG-TCGTATTATTTGTCGGTCAAAT
*
50365366 TTTATATTTTTGTATATCAATTTTCT
64 TTTATATTTTCGTATATCAATTTTCT
*
50365392 AAAATGTTCGTATTATTTTTGTATCTGTAAATAAAATTTAGTTGGTATTATTTGT
1 AAAATGTTCGTATTATTTTTGTATCTGTAAATAAAATTTAG-TCGTATTATTTGT
50365447 TTATTGAATT
Statistics
Matches: 119, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
89 12 0.10
90 100 0.84
91 7 0.06
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.51
Consensus pattern (89 bp):
AAAATGTTCGTATTATTTTTGTATCTGTAAATAAAATTTAGTCGTATTATTTGTCGGTCAAATTT
TATATTTTCGTATATCAATTTTCT
Found at i:50365510 original size:16 final size:17
Alignment explanation
Indices: 50365485--50365518 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
50365475 GAATGCTTGT
50365485 ATTTTCTTATATATGTA
1 ATTTTCTTATATATGTA
*
50365502 ATTTT-TTATATCTGTA
1 ATTTTCTTATATATGTA
50365518 A
1 A
50365519 ATAAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (17 bp):
ATTTTCTTATATATGTA
Found at i:50368603 original size:16 final size:16
Alignment explanation
Indices: 50368582--50368616 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
50368572 TTAATTATGA
50368582 ATATTAATATTCATGG
1 ATATTAATATTCATGG
*
50368598 ATATTACTATTCATGG
1 ATATTAATATTCATGG
50368614 ATA
1 ATA
50368617 GATGAGGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (16 bp):
ATATTAATATTCATGG
Found at i:50382734 original size:26 final size:28
Alignment explanation
Indices: 50382673--50382735 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
50382663 TATATATATA
*
50382673 TTTATATATTTATAATTTTTTTAATAAT
1 TTTATATATTTATAATTTTATTAATAAT
* * *
50382701 TTTCTATATTTCTTA-TTTATTAA-AAT
1 TTTATATATTTATAATTTTATTAATAAT
50382727 TTTATATAT
1 TTTATATAT
50382736 AATCATCTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 11 0.37
27 7 0.23
28 12 0.40
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTATATATTTATAATTTTATTAATAAT
Found at i:50386402 original size:20 final size:20
Alignment explanation
Indices: 50386379--50386418 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
50386369 TATTCAAACT
* *
50386379 ATATTACTTGAATAGTTATA
1 ATATTACATGAATAATTATA
*
50386399 ATATTAGATGAATAATTATA
1 ATATTACATGAATAATTATA
50386419 CGTCTTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (20 bp):
ATATTACATGAATAATTATA
Found at i:50389088 original size:11 final size:11
Alignment explanation
Indices: 50389072--50389099 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
50389062 TGACTTTGGA
50389072 GTATGTATTTT
1 GTATGTATTTT
50389083 GTATGTATTTT
1 GTATGTATTTT
50389094 GTATGT
1 GTATGT
50389100 TAGACTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.61
Consensus pattern (11 bp):
GTATGTATTTT
Found at i:50389284 original size:15 final size:16
Alignment explanation
Indices: 50389264--50389293 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50389254 CAATATTGCC
50389264 TTGTTTTGGT-TAAAG
1 TTGTTTTGGTATAAAG
50389279 TTGTTTTGGTATAAA
1 TTGTTTTGGTATAAA
50389294 TGATGTGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.53
Consensus pattern (16 bp):
TTGTTTTGGTATAAAG
Found at i:50392828 original size:18 final size:18
Alignment explanation
Indices: 50392791--50392842 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
50392781 AAAAGTCTAG
*
50392791 AAAAATACAAATAAACAA
1 AAAAATAAAAATAAACAA
50392809 AAAAATAAAAATAAGA-AA
1 AAAAATAAAAATAA-ACAA
*
50392827 AAATATAAAAAATAAA
1 AAAAAT-AAAAATAAA
50392843 TGGATTCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 21 0.70
19 9 0.30
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (18 bp):
AAAAATAAAAATAAACAA
Found at i:50394491 original size:29 final size:28
Alignment explanation
Indices: 50394459--50394514 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 28
50394449 AACAGTAAAC
50394459 ATAAAAAATA-AACTTATATTAATAAATGA
1 ATAAAAAATATAA--TATATTAATAAATGA
50394488 ATAAAAAATATTAATATATTAATAAAT
1 ATAAAAAATA-TAATATATTAATAAAT
50394515 AAATGAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 23 0.92
31 2 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (28 bp):
ATAAAAAATATAATATATTAATAAATGA
Found at i:50394498 original size:21 final size:22
Alignment explanation
Indices: 50394474--50394518 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
50394464 AAATAAACTT
50394474 ATATTAATAAATGAATAAA-AA
1 ATATTAATAAATGAATAAATAA
* *
50394495 ATATTAATATATTAATAAATAA
1 ATATTAATAAATGAATAAATAA
50394517 AT
1 AT
50394519 GAATAACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
ATATTAATAAATGAATAAATAA
Found at i:50394521 original size:33 final size:36
Alignment explanation
Indices: 50394479--50394548 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 36
50394469 AACTTATATT
* *
50394479 AATAAATGAATAA-AA-AATATTAAT-ATATTAATA
1 AATAAATGAATAACAATAATAATAATAATAATAATA
50394512 AATAAATGAATAACAATAATAATAATAATAATAATA
1 AATAAATGAATAACAATAATAATAATAATAATAATA
50394548 A
1 A
50394549 TAGAAGAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
33 13 0.41
34 2 0.06
35 8 0.25
36 9 0.28
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (36 bp):
AATAAATGAATAACAATAATAATAATAATAATAATA
Found at i:50394531 original size:29 final size:29
Alignment explanation
Indices: 50394473--50394542 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
50394463 AAAATAAACT
* * *
50394473 TATATTAATAAATGAATAAAAAATATTAA
1 TATATTAATAAATAAATAAAAAACAATAA
* *
50394502 TATATTAATAAATAAATGAATAACAATAA
1 TATATTAATAAATAAATAAAAAACAATAA
*
50394531 TAATAATAATAA
1 T-ATATTAATAA
50394543 TAATAATAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 25 0.74
30 9 0.26
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (29 bp):
TATATTAATAAATAAATAAAAAACAATAA
Found at i:50394534 original size:3 final size:3
Alignment explanation
Indices: 50394520--50394550 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
50394510 TAAATAAATG
*
50394520 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
50394551 GAAGAAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:50396646 original size:42 final size:43
Alignment explanation
Indices: 50396540--50396656 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 43
50396530 TACCAGTGCT
* ** *
50396540 ATATCCTAGATATGGTCTTACATGTAATCTTGTATCGATGCCA
1 ATATCCCAGATATGGTCTTACATGTAATCTCATATCAATGCCA
* *
50396583 ATAGCCCAGCTATGGTCTTACATG-AAGTCTCATATCAATGCC-
1 ATATCCCAGATATGGTCTTACATGTAA-TCTCATATCAATGCCA
*
50396625 ATATCCCAGATATAGTCTTACATGTAATCTCA
1 ATATCCCAGATATGGTCTTACATGTAATCTCA
50396657 GTAACCCTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 28 0.44
43 35 0.56
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACATGTAATCTCATATCAATGCCA
Found at i:50400888 original size:7 final size:7
Alignment explanation
Indices: 50400855--50400886 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
50400845 AAATTTCTAA
50400855 TCATCCC
1 TCATCCC
50400862 TCATCCC
1 TCATCCC
50400869 TCATCCC
1 TCATCCC
*
50400876 TCATTCC
1 TCATCCC
50400883 TCAT
1 TCAT
50400887 TCATTATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.50, G:0.00, T:0.34
Consensus pattern (7 bp):
TCATCCC
Found at i:50406805 original size:29 final size:29
Alignment explanation
Indices: 50406763--50406833 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
50406753 GTTCTTCAAC
*
50406763 ATAGTTTGATTTGATTGTTAATTGGTGTG
1 ATAGTTTGATTTGATTGTTAATTGGTGCG
50406792 ATAGTTTGATTTGATTGTTAATTGGTGCG
1 ATAGTTTGATTTGATTGTTAATTGGTGCG
50406821 A-A--TTGATTTGATT
1 ATAGTTTGATTTGATT
50406834 AAATCATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 11 0.27
28 1 0.02
29 29 0.71
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (29 bp):
ATAGTTTGATTTGATTGTTAATTGGTGCG
Found at i:50407158 original size:125 final size:127
Alignment explanation
Indices: 50407004--50407301 Score: 327
Period size: 125 Copynumber: 2.4 Consensus size: 127
50406994 GCCACACGGC
* * * *
50407004 TGTGTGT-CAGGCCGTGTAACTCACTGTTTGTGAATTAAGGTCACATACGCTAGAAACACGAGCA
1 TGTGTGTCCAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACATACGCAAGAAACACGAACA
* * **
50407068 TGTGTCTAGGCATG-CAACTCA-T-TGTTAGTGAATTAGGGTCACAC-GGGCTAAAGATATGGG
66 TGTGTCCAGG-ATGACAACTCACTAT-TTAGTGAATTAGGGTCACACGGGGCTAAAGACACCGG
* * ** * **
50407128 TGTGTGTCCAGGCTGTGTAATTCACTGTTTGTGAATTAGGGTCAAATGGGCAAGAGACACGAATG
1 TGTGTGTCCAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACATACGCAAGAAACACGAACA
* * **
50407193 TGTGTCCAGGTTGTATAACTCACTATTTTTTGAATTAGGGTCACACGGGGCTAAAGACACCGG
66 TGTGTCCAGGATG-ACAACTCACTATTTAGTGAATTAGGGTCACACGGGGCTAAAGACACCGG
* * * *
50407256 CGTGTGTCTAGGCTGTGTAACTCACTATTTATGAATTAGGGTCACA
1 TGTGTGTCCAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACA
50407302 CGATCCAGAG
Statistics
Matches: 143, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
124 9 0.06
125 55 0.38
126 6 0.04
127 19 0.13
128 54 0.38
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (127 bp):
TGTGTGTCCAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACATACGCAAGAAACACGAACA
TGTGTCCAGGATGACAACTCACTATTTAGTGAATTAGGGTCACACGGGGCTAAAGACACCGG
Found at i:50407170 original size:63 final size:63
Alignment explanation
Indices: 50406997--50407303 Score: 280
Period size: 63 Copynumber: 4.9 Consensus size: 63
50406987 CGTGTAAGCC
* * * ***
50406997 ACACGGCTGTGTGT-CAGGCCGTGTAACTCACTGTTTGTGAATTAAGGTCACATACGCTAGAA-
1 ACACGGGTGTGTGTCCAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACACGGGCTA-AAG
* ** * * * * *
50407059 ACACGAGCATGTGTCTAGGC-ATGCAACTCATTGTTAGTGAATTAGGGTCACACGGGCTAAAG
1 ACACGGGTGTGTGTCCAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACACGGGCTAAAG
* * * * *
50407121 ATATGGGTGTGTGTCCAGGCTGTGTAATTCACTGTTTGTGAATTAGGGTCAAATGGGC-AAGAG
1 ACACGGGTGTGTGTCCAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACACGGGCTAA-AG
** * * * *
50407184 ACACGAATGTGTGTCCAGGTTGTATAACTCACTATTTTTTGAATTAGGGTCACACGGGGCTAAAG
1 ACACGGGTGTGTGTCCAGGCTGTGTAACTCACT-GTTTGTGAATTAGGGTCACAC-GGGCTAAAG
* * * * *
50407249 ACACCGGCGTGTGTCTAGGCTGTGTAACTCACTATTTATGAATTAGGGTCACACG
1 ACACGGGTGTGTGTCCAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACACG
50407304 ATCCAGAGAC
Statistics
Matches: 192, Mismatches: 46, Indels: 13
0.76 0.18 0.05
Matches are distributed among these distances:
61 2 0.01
62 57 0.30
63 63 0.33
64 36 0.19
65 32 0.17
66 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (63 bp):
ACACGGGTGTGTGTCCAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACACGGGCTAAAG
Found at i:50413670 original size:16 final size:16
Alignment explanation
Indices: 50413649--50413679 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50413639 TTTGCTATTA
*
50413649 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
50413665 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
50413680 GCATGCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:50417310 original size:19 final size:19
Alignment explanation
Indices: 50417286--50417335 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
50417276 ATTCTAACCT
50417286 TGTCTCATAAAAATTCAAA
1 TGTCTCATAAAAATTCAAA
50417305 TGTCTCATAAAAATTCAAA
1 TGTCTCATAAAAATTCAAA
*
50417324 TATCTCATAAAA
1 TGTCTCATAAAA
50417336 TGAAATTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (19 bp):
TGTCTCATAAAAATTCAAA
Found at i:50419127 original size:26 final size:26
Alignment explanation
Indices: 50419094--50419146 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
50419084 AAAAATTACA
50419094 TTTTTGCCCCTAAACTTTGTCATATT
1 TTTTTGCCCCTAAACTTTGTCATATT
50419120 TTTTTGCCCCTAAACTTTGTCATATT
1 TTTTTGCCCCTAAACTTTGTCATATT
50419146 T
1 T
50419147 ACACTTTGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.23, G:0.08, T:0.51
Consensus pattern (26 bp):
TTTTTGCCCCTAAACTTTGTCATATT
Found at i:50424277 original size:42 final size:42
Alignment explanation
Indices: 50424217--50424297 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
50424207 GTGCAGGTTT
* *
50424217 CACACGGCCAAGATACACACCTATGT-TCTAGGCCATGTGTTA
1 CACACGGCCAAGACACACACCTATGTCTCT-GCCCATGTGTTA
**
50424259 CACACGGCTGAGACACACACCTATGTCTCTGCCCATGTG
1 CACACGGCCAAGACACACACCTATGTCTCTGCCCATGTG
50424298 CTTAATTCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 31 0.91
43 3 0.09
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (42 bp):
CACACGGCCAAGACACACACCTATGTCTCTGCCCATGTGTTA
Found at i:50427744 original size:16 final size:16
Alignment explanation
Indices: 50427720--50427752 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
50427710 TTTTATATAT
*
50427720 TAAATTATTATATTAA
1 TAAAATATTATATTAA
50427736 TAAAATATTATATTAA
1 TAAAATATTATATTAA
50427752 T
1 T
50427753 TAGATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATATTATATTAA
Found at i:50427952 original size:5 final size:5
Alignment explanation
Indices: 50427942--50427973 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
50427932 TTATTAATTA
50427942 AATAT AATAT AATAT AATAT AATAT AATAT AA
1 AATAT AATAT AATAT AATAT AATAT AATAT AA
50427974 AGTAAATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:50428490 original size:44 final size:44
Alignment explanation
Indices: 50428440--50428531 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
50428430 TGTTTAGGGA
* *
50428440 TACTTCGACCTT-GAGTCGATGAGGCA-CTATGAGTGTCGTACTGT
1 TACTTCGA-CTTCAAGTCGATAAGGCACCT-TGAGTGTCGTACTGT
*
50428484 TACTTCGACTTCAAGTCGATAAGGCACCTTGTGTGTCGTACTGT
1 TACTTCGACTTCAAGTCGATAAGGCACCTTGAGTGTCGTACTGT
50428528 TACT
1 TACT
50428532 ATTACTTTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 3 0.07
44 38 0.88
45 2 0.05
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (44 bp):
TACTTCGACTTCAAGTCGATAAGGCACCTTGAGTGTCGTACTGT
Found at i:50431855 original size:22 final size:22
Alignment explanation
Indices: 50431816--50431857 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
50431806 ATATTGTATA
*
50431816 ACATATCATAACACATCTCATG
1 ACATATCATAACAAATCTCATG
* *
50431838 ACATATCTTAGCAAATCTCA
1 ACATATCATAACAAATCTCA
50431858 AATCATATCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.29
Consensus pattern (22 bp):
ACATATCATAACAAATCTCATG
Found at i:50433126 original size:206 final size:206
Alignment explanation
Indices: 50432767--50433173 Score: 656
Period size: 206 Copynumber: 2.0 Consensus size: 206
50432757 AAACTTGGCA
* * *
50432767 TCCTGAGGTACTTTTGATAGGGCATTGTTTGGGGATGGCTTTGGTGGCTAACGTGGTAGTTTGGG
1 TCCTAAGGTACTTTTGATAAGGCATTGGTTGGGGATGGCTTTGGTGGCTAACGTGGTAGTTTGGG
* *
50432832 GGCTATTTTGGGGTGGTTTCGTGACCTTCCCGACGGCCACACGGGCGTGTGCTGAGGCACACGGC
66 GGCTATTTTGGGGTGGTTTCGTGACCTTCCCGACGGCCACACGGGCATGTGCTAAGGCACACGGC
* * * *
50432897 TGTATGGATTTGGGGATTAGGGTTT-TGAGCCAAATTTGGTGTAACACGACCGTGTGACTGATTG
131 TGTATGGATTTGAGGATTAGGGTTTCAG-GCCAAATTTGGTGCAACACGACCGTGTGACCGATTG
50432961 GGGGATTAGGCT
195 GGGGATTAGGCT
*
50432973 TCCTAAGGTACTTTTGATAAGGCATTGGTTGGGGATGGCTTTGGTGGCTAACGTGGTGGTTTGGG
1 TCCTAAGGTACTTTTGATAAGGCATTGGTTGGGGATGGCTTTGGTGGCTAACGTGGTAGTTTGGG
* *
50433038 GGCTATTTTGGGGTGGTTTCGTGACC-TCCCATACTGCCACACGGGCATGTGCTAAGGCACACGG
66 GGCTATTTTGGGGTGGTTTCGTGACCTTCCC-GACGGCCACACGGGCATGTGCTAAGGCACACGG
* *
50433102 CTGTGTGGATTTGAGGATTAGGGTTTCAGGCCAAATTTGGTGCAATACGACCGTGTGACCGATTG
130 CTGTATGGATTTGAGGATTAGGGTTTCAGGCCAAATTTGGTGCAACACGACCGTGTGACCGATTG
50433167 GGGGATT
195 GGGGATT
50433174 TTGTTATTTC
Statistics
Matches: 185, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
205 4 0.02
206 180 0.97
207 1 0.01
ACGTcount: A:0.17, C:0.16, G:0.36, T:0.31
Consensus pattern (206 bp):
TCCTAAGGTACTTTTGATAAGGCATTGGTTGGGGATGGCTTTGGTGGCTAACGTGGTAGTTTGGG
GGCTATTTTGGGGTGGTTTCGTGACCTTCCCGACGGCCACACGGGCATGTGCTAAGGCACACGGC
TGTATGGATTTGAGGATTAGGGTTTCAGGCCAAATTTGGTGCAACACGACCGTGTGACCGATTGG
GGGATTAGGCT
Found at i:50436335 original size:16 final size:15
Alignment explanation
Indices: 50436317--50436390 Score: 71
Period size: 17 Copynumber: 4.8 Consensus size: 15
50436307 TCTCGTTTTA
*
50436317 ATTATTCTTTTTATT
1 ATTATTATTTTTATT
50436332 AATTATTAATTTTTATT
1 -ATTATT-ATTTTTATT
*
50436349 GTTATAATATTTTTATT
1 ATTAT--TATTTTTATT
*
50436366 ATTCTTATTTTTA-T
1 ATTATTATTTTTATT
50436380 -TTATTATTTTT
1 ATTATTATTTTT
50436391 CTTTTCTGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
13 10 0.20
14 1 0.02
15 8 0.16
16 10 0.20
17 20 0.40
18 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (15 bp):
ATTATTATTTTTATT
Found at i:50439610 original size:8 final size:8
Alignment explanation
Indices: 50439598--50439637 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
50439588 CAAGAGCACC
*
50439598 AAAAGAAC
1 AAAAGAAA
50439606 AAAAGAAA
1 AAAAGAAA
50439614 ACAAAGAAA
1 A-AAAGAAA
*
50439623 GAAAGAAA
1 AAAAGAAA
50439631 AAAAGAA
1 AAAAGAA
50439638 TAGGAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:50439621 original size:17 final size:17
Alignment explanation
Indices: 50439607--50439652 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
50439597 CAAAAGAACA
50439607 AAAGAAAACAAAGAAAG
1 AAAGAAAACAAAGAAAG
50439624 AAAGAAAA-AAAGAATAG
1 AAAGAAAACAAAGAA-AG
*
50439641 GAAGAAAACAAA
1 AAAGAAAACAAA
50439653 ACAAAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 6 0.23
17 17 0.65
18 3 0.12
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.02
Consensus pattern (17 bp):
AAAGAAAACAAAGAAAG
Found at i:50441534 original size:17 final size:18
Alignment explanation
Indices: 50441492--50441534 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
50441482 TAAATAAATC
50441492 TAAA-TAAAACTCTTAAG
1 TAAACTAAAACTCTTAAG
* *
50441509 TATACTAAAACTC-TAAT
1 TAAACTAAAACTCTTAAG
50441526 TAAACTAAA
1 TAAACTAAA
50441535 CAAGAAGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.30
Consensus pattern (18 bp):
TAAACTAAAACTCTTAAG
Found at i:50442270 original size:13 final size:14
Alignment explanation
Indices: 50442247--50442275 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
50442237 TAACCATAAA
50442247 TTTAGCCTTTTATG
1 TTTAGCCTTTTATG
50442261 TTTA-CCTTTTATG
1 TTTAGCCTTTTATG
50442274 TT
1 TT
50442276 ATATTGGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.62
Consensus pattern (14 bp):
TTTAGCCTTTTATG
Found at i:50455177 original size:135 final size:138
Alignment explanation
Indices: 50454894--50455307 Score: 647
Period size: 138 Copynumber: 3.0 Consensus size: 138
50454884 AGTGGGAGGC
*
50454894 TCTGGATCATATTGTCTATATCCAATGGTATTAGTTTCGTTATTATTAACAGCATTCACCGGCCT
1 TCTGGATCATATTGTCTATATCCAATGGTATTAGTTTCGTTATTATTAACAGCATTCACCTGCCT
*
50454959 CGAGTTTGAAGCAGACGAATCAGATCCTCCTCCGTCTTTCTTGGCCCAATTCCTCGTCTTTTCCG
66 CGAGTTTGAAGCAGACGAATCAGATCCTCCTCCGTCTTTCTTGGCCCAATTCCTCGTCTTTTCCA
50455024 GTTTTTCT
131 GTTTTTCT
* * * *
50455032 TCTGGATCATATTGTCTATTTCCGACGGTATTAGTTTCATTATTATTAACAGCATTCACCTGCCT
1 TCTGGATCATATTGTCTATATCCAATGGTATTAGTTTCGTTATTATTAACAGCATTCACCTGCCT
** ** *
50455097 TAAGTTTGAAGCAGAAAAATCGGATCCTCCAT-C-T-TTT-TTGGCCCAATTCCTCGTCTTTTCC
66 CGAGTTTGAAGCAGACGAATCAGATCCTCC-TCCGTCTTTCTTGGCCCAATTCCTCGTCTTTTCC
*
50455158 TGTTTTTCT
130 AGTTTTTCT
*
50455167 TCTGGATCATATTGTCTATGTCCAATGGTATTAGTTTCGTTATTATTAACAGCATTCACCTGCCT
1 TCTGGATCATATTGTCTATATCCAATGGTATTAGTTTCGTTATTATTAACAGCATTCACCTGCCT
* * *
50455232 CGAGTTTGAAGCATACGAATCAGATCCTCCTCCGTCTTTCTTTGCCCAATTCCTTGTCTTTTCCA
66 CGAGTTTGAAGCAGACGAATCAGATCCTCCTCCGTCTTTCTTGGCCCAATTCCTCGTCTTTTCCA
50455297 GTTTTTCT
131 GTTTTTCT
50455305 TCT
1 TCT
50455308 CTAGTTGCTT
Statistics
Matches: 247, Mismatches: 24, Indels: 10
0.88 0.09 0.04
Matches are distributed among these distances:
134 1 0.00
135 118 0.48
136 4 0.02
137 4 0.02
138 119 0.48
139 1 0.00
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (138 bp):
TCTGGATCATATTGTCTATATCCAATGGTATTAGTTTCGTTATTATTAACAGCATTCACCTGCCT
CGAGTTTGAAGCAGACGAATCAGATCCTCCTCCGTCTTTCTTGGCCCAATTCCTCGTCTTTTCCA
GTTTTTCT
Found at i:50459510 original size:73 final size:74
Alignment explanation
Indices: 50459391--50459595 Score: 243
Period size: 73 Copynumber: 2.7 Consensus size: 74
50459381 GTCATGAGAG
* * * *
50459391 TGTTCACCAAATAAGTTCATAAAAAATGACAATTTTAAATAAATTAAAAG-TATACATTAATCAA
1 TGTTCACCAAATAAGTTTAAAAAAAATGACAATTTAAAATAAATTAAAAGATATACATTAACCAA
50459455 ATTCAATTA
66 ATTCAATTA
* *
50459464 TGTTCACCGAATAAGTTTAAAAAAAATAACAATTTAAAATAAATTAAAAGCCATTAAATATATAC
1 TGTTCACCAAATAAGTTTAAAAAAAATGACAATTTAAAATAAATTAAAAG---------ATATAC
50459529 ATTAACCAAATTCAATTA
57 ATTAACCAAATTCAATTA
* *
50459547 TGTTCACCAAATAAG-TTCATAAAAATGACAATTTAAAATAAATTAAAAG
1 TGTTCACCAAATAAGTTTAAAAAAAATGACAATTTAAAATAAATTAAAAG
50459596 CAATTAAATA
Statistics
Matches: 112, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
73 45 0.40
82 31 0.28
83 36 0.32
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (74 bp):
TGTTCACCAAATAAGTTTAAAAAAAATGACAATTTAAAATAAATTAAAAGATATACATTAACCAA
ATTCAATTA
Found at i:50459592 original size:82 final size:83
Alignment explanation
Indices: 50459432--50459625 Score: 302
Period size: 82 Copynumber: 2.3 Consensus size: 83
50459422 ATTTTAAATA
* *
50459432 AATTAAA-AGTATACATTAATCAAATTCAATTATGTTCACCGAATAAGTTTAAAAAAAATAACAA
1 AATTAAATA-TATACATTAACCAAATTCAATTATGTTCACCAAATAAGTTTAAAAAAAATAACAA
50459496 TTTAAAATAAATTAAAAGC
65 TTTAAAATAAATTAAAAGC
* * * *
50459515 CATTAAATATATACATTAACCAAATTCAATTATGTTCACCAAATAAG-TTCATAAAAATGACAAT
1 AATTAAATATATACATTAACCAAATTCAATTATGTTCACCAAATAAGTTTAAAAAAAATAACAAT
50459579 TTAAAATAAATTAAAAGC
66 TTAAAATAAATTAAAAGC
*
50459597 AATTAAATATATACATTAACCGAATTCAA
1 AATTAAATATATACATTAACCAAATTCAA
50459626 ATTGCCGCAT
Statistics
Matches: 102, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
82 59 0.58
83 42 0.41
84 1 0.01
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (83 bp):
AATTAAATATATACATTAACCAAATTCAATTATGTTCACCAAATAAGTTTAAAAAAAATAACAAT
TTAAAATAAATTAAAAGC
Found at i:50462343 original size:20 final size:20
Alignment explanation
Indices: 50462318--50462371 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
50462308 AAGTTAAGTA
* *
50462318 TTTATATTAAATTAATATAT
1 TTTATATTAAATTAAGACAT
*
50462338 TTTATAATAAATTTAAGACAT
1 TTTATATTAAA-TTAAGACAT
50462359 TTTATATTTAAAT
1 TTTATA-TTAAAT
50462372 ATATTCTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.36
21 14 0.50
22 4 0.14
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTATATTAAATTAAGACAT
Found at i:50465614 original size:43 final size:43
Alignment explanation
Indices: 50465533--50465614 Score: 98
Period size: 43 Copynumber: 1.9 Consensus size: 43
50465523 AAGTTGTACA
**
50465533 ATGCCAACGTCCCAGACGTGGTCTTACATGTAGTCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
50465576 ATGCC-ACAGTCCCAGACAG-GGTCTTAC-TCGTAAACACAT
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAAACACAT
50465615 CTCGGAATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
42 3 0.09
43 30 0.88
44 1 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:50465672 original size:30 final size:30
Alignment explanation
Indices: 50465638--50465697 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
50465628 ATCGATGCCA
50465638 TGGTCTTACTCGCACACATATATCAGAATC
1 TGGTCTTACTCGCACACATATATCAGAATC
*
50465668 TGGTCTTACTCGCACACATTTATCAGAATC
1 TGGTCTTACTCGCACACATATATCAGAATC
50465698 CTATGTCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (30 bp):
TGGTCTTACTCGCACACATATATCAGAATC
Found at i:50475065 original size:40 final size:40
Alignment explanation
Indices: 50475010--50475089 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
50475000 ACAAGTAGTT
50475010 AACTAGAATTCTTGGTTGCATGTTGGTTGCTTAAGAATCA
1 AACTAGAATTCTTGGTTGCATGTTGGTTGCTTAAGAATCA
50475050 AACTAGAATTCTTGGTTGCATGTTGGTTGCTTAAGAATCA
1 AACTAGAATTCTTGGTTGCATGTTGGTTGCTTAAGAATCA
50475090 CTTAGTTCTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.38
Consensus pattern (40 bp):
AACTAGAATTCTTGGTTGCATGTTGGTTGCTTAAGAATCA
Found at i:50481831 original size:64 final size:65
Alignment explanation
Indices: 50481702--50481831 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 65
50481692 CAGGTTCCTT
50481702 TGTTTGTTTCATGCTTCTTCTCGTGCCTTTTTTTTTGTAATTTTTTATGAGTTTTAATATTTATG
1 TGTTTGTTTCATGCTTCTTCTCGTGCCTTTTTTTTTGTAATTTTTTATGAGTTTTAATATTTATG
50481767 TGTTTGTTTCATGCTTCTTCTCGTGCC-TTTTTTTTGTAATTTTTTATGAGTTTTAATATTTATG
1 TGTTTGTTTCATGCTTCTTCTCGTGCCTTTTTTTTTGTAATTTTTTATGAGTTTTAATATTTATG
50481831 T
1 T
50481832 TCCGTTGCTG
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
64 38 0.58
65 27 0.42
ACGTcount: A:0.14, C:0.11, G:0.14, T:0.62
Consensus pattern (65 bp):
TGTTTGTTTCATGCTTCTTCTCGTGCCTTTTTTTTTGTAATTTTTTATGAGTTTTAATATTTATG
Found at i:50487846 original size:18 final size:18
Alignment explanation
Indices: 50487814--50487853 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
50487804 ATTATTTAAG
50487814 TTTA-AAAATAATTAAAA
1 TTTATAAAATAATTAAAA
50487831 TATTATAAAA-AATTAAAA
1 T-TTATAAAATAATTAAAA
50487849 TTTAT
1 TTTAT
50487854 GGAAAATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.24
18 12 0.57
19 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTATAAAATAATTAAAA
Found at i:50488045 original size:22 final size:21
Alignment explanation
Indices: 50487983--50488082 Score: 71
Period size: 21 Copynumber: 4.7 Consensus size: 21
50487973 ATTTTTAAAC
* * *
50487983 ATTATAAAAAACTATTAA-AT
1 ATTATAAAATATTAATAAGAT
*
50488003 ATTATAAAATATTATTAAGAT
1 ATTATAAAATATTAATAAGAT
*
50488024 CTTATGAAAATATTAA-ATAGAT
1 ATTAT-AAAATATTAATA-AGAT
* * *
50488046 ATTATAAAAAATTTAGAAGAT
1 ATTATAAAATATTAATAAGAT
50488067 -TATATAAAATAATTAA
1 AT-TATAAAAT-ATTAA
50488083 AATTATAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
20 17 0.26
21 26 0.40
22 22 0.34
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (21 bp):
ATTATAAAATATTAATAAGAT
Found at i:50488066 original size:43 final size:43
Alignment explanation
Indices: 50488001--50488083 Score: 100
Period size: 43 Copynumber: 1.9 Consensus size: 43
50487991 AAACTATTAA
* *
50488001 ATATTATAAAATATTATTAAGATCT-TATGAAAAT-ATTAAATAG
1 ATATTATAAAAAATTATGAAGAT-TATAT-AAAATAATTAAATAG
50488044 ATATTATAAAAAATT-TAGAAGATTATATAAAATAATTAAA
1 ATATTATAAAAAATTAT-GAAGATTATATAAAATAATTAAA
50488084 ATTATAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
42 7 0.20
43 28 0.80
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.37
Consensus pattern (43 bp):
ATATTATAAAAAATTATGAAGATTATATAAAATAATTAAATAG
Found at i:50489270 original size:40 final size:40
Alignment explanation
Indices: 50489226--50489308 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
50489216 GATACTTAAA
*
50489226 GTATATTTTTTTCTCAAGTTGATATTTATATGATTTTTTG
1 GTATATTTTTTTCTCAAGTTGATATTTATATGAATTTTTG
50489266 GTATATTTTTTTCTCAAGTTGATATTTATATGAATTTTTG
1 GTATATTTTTTTCTCAAGTTGATATTTATATGAATTTTTG
50489306 GTA
1 GTA
50489309 ACAAGTGATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.58
Consensus pattern (40 bp):
GTATATTTTTTTCTCAAGTTGATATTTATATGAATTTTTG
Found at i:50490521 original size:31 final size:31
Alignment explanation
Indices: 50490483--50490542 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
50490473 AAATAATTTG
*
50490483 GGTAATGGAGTATAATTTAGGTATCACTTTA
1 GGTAATGGAATATAATTTAGGTATCACTTTA
* *
50490514 GGTAATGGAATATATTTTAGGTATTACTT
1 GGTAATGGAATATAATTTAGGTATCACTT
50490543 GTGAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.42
Consensus pattern (31 bp):
GGTAATGGAATATAATTTAGGTATCACTTTA
Found at i:50492269 original size:11 final size:11
Alignment explanation
Indices: 50492255--50492298 Score: 63
Period size: 11 Copynumber: 3.9 Consensus size: 11
50492245 TAAAAAAGGC
50492255 AAAAA-AAAAA
1 AAAAAGAAAAA
50492265 AAAAAGAAAAA
1 AAAAAGAAAAA
50492276 AAAAAGAAAAA
1 AAAAAGAAAAA
50492287 GAAAGAAGAAAA
1 -AAA-AAGAAAA
50492299 CTTTAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.16
11 16 0.52
12 3 0.10
13 7 0.23
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:50492269 original size:18 final size:17
Alignment explanation
Indices: 50492246--50492287 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 17
50492236 CTAACTGGAT
50492246 AAAAAAGGCAAAAAAAAA
1 AAAAAAGG-AAAAAAAAA
50492264 AAAAAA-GAAAAAAAAA
1 AAAAAAGGAAAAAAAAA
50492280 AGAAAAAG
1 A-AAAAAG
50492288 AAAGAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 10 0.45
17 6 0.27
18 6 0.27
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAGGAAAAAAAAA
Found at i:50492285 original size:21 final size:20
Alignment explanation
Indices: 50492255--50492298 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
50492245 TAAAAAAGGC
50492255 AAAAAAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAGAAAA
*
50492275 AAAAAAGAAAAAGAAAGAAGAA
1 AAAAAA-AAAAAAAAAGAA-AA
50492297 AA
1 AA
50492299 CTTTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAGAAAA
Found at i:50492288 original size:17 final size:16
Alignment explanation
Indices: 50492255--50492290 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
50492245 TAAAAAAGGC
50492255 AAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAG
50492271 AAAAAAAAAAGAAAAAG
1 AAAAAAAAAA-AAAAAG
50492288 AAA
1 AAA
50492291 GAAGAAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAG
Found at i:50492295 original size:7 final size:6
Alignment explanation
Indices: 50492255--50492298 Score: 58
Period size: 5 Copynumber: 7.7 Consensus size: 6
50492245 TAAAAAAGGC
50492255 AAAAA- AAAAA- AAAAAG AAAAA- AAAAAG AAAAAG AAAGAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA-AAG AAAA
50492299 CTTTAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 15 0.42
6 15 0.42
7 6 0.17
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (6 bp):
AAAAAG
Done.