Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 336 of 344
Found at i:109092218 original size:20 final size:20
Alignment explanation
Indices: 109092193--109092254 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
109092183 TACAATTTCT
109092193 TAACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGA
*
109092213 TAACTTATATAATATT-ACA
1 TAACTTATATAATATTAAGA
* *
109092232 TAACTTATATCATGTTAAGA
1 TAACTTATATAATATTAAGA
109092252 TAA
1 TAA
109092255 AAAATCGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (20 bp):
TAACTTATATAATATTAAGA
Found at i:109092337 original size:19 final size:18
Alignment explanation
Indices: 109092313--109092403 Score: 64
Period size: 19 Copynumber: 5.1 Consensus size: 18
109092303 TTTAACTTAC
109092313 AACTTACACAATACATAAT
1 AACTTACA-AATACATAAT
*
109092332 AACTTACAACTTACATAAT
1 AACTTACAA-ATACATAAT
* * * *
109092351 -ACATA-ATA-AC-TTAC
1 AACTTACAAATACATAAT
109092365 AACTTACACAATACATAAT
1 AACTTACA-AATACATAAT
*
109092384 AACTTACAACTTACATAAT
1 AACTTACAA-ATACATAAT
109092403 A
1 A
109092404 CATAATAACT
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
14 2 0.04
15 6 0.11
16 1 0.02
17 2 0.04
18 8 0.15
19 35 0.65
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.29
Consensus pattern (18 bp):
AACTTACAAATACATAAT
Found at i:109092337 original size:26 final size:26
Alignment explanation
Indices: 109092293--109092578 Score: 454
Period size: 26 Copynumber: 11.2 Consensus size: 26
109092283 CATTTGACTG
*
109092293 ACATAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
109092318 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
109092344 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
109092370 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
109092396 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
* *
109092422 ACATAATACAT-TTAACTTGCAACTT
1 ACATAATACATAATAACTTACAACTT
*
109092447 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
109092473 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
109092499 ACATAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
* *
109092524 ACACAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
109092549 GCATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
109092575 ACAT
1 ACAT
109092579 TTAACTTACA
Statistics
Matches: 241, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
25 78 0.32
26 163 0.68
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (26 bp):
ACATAATACATAATAACTTACAACTT
Found at i:109092424 original size:19 final size:19
Alignment explanation
Indices: 109092350--109092480 Score: 65
Period size: 19 Copynumber: 7.5 Consensus size: 19
109092340 ACTTACATAA
109092350 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* * *
109092369 TACACAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
*
109092388 TAC-----AACTTACATA-A
1 TACATAATAACTTACA-ACT
109092402 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
109092421 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* * *
109092439 TGCA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
109092453 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
109092472 TACATAATA
1 TACATAATA
109092481 CATAATAACT
Statistics
Matches: 81, Mismatches: 14, Indels: 34
0.63 0.11 0.26
Matches are distributed among these distances:
14 9 0.11
15 7 0.09
16 2 0.02
17 6 0.07
18 14 0.17
19 43 0.53
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:109092454 original size:77 final size:76
Alignment explanation
Indices: 109092297--109092578 Score: 483
Period size: 77 Copynumber: 3.7 Consensus size: 76
109092287 TGACTGACAT
* * *
109092297 AATACATTTAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATAATAACT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACAT-TTAACT
109092362 TACAACTTACAC
65 TACAACTTACAC
109092374 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
*
109092439 TGCAACTTACAC
65 TACAACTTACAC
109092451 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
109092516 TACAACTTACAC
65 TACAACTTACAC
* *
109092528 AATACATTTAACTTACAACTTGCATAATACATAATAACTTACAACTTACAT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
109092579 TTAACTTACA
Statistics
Matches: 197, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
76 42 0.21
77 106 0.54
78 49 0.25
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (76 bp):
AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTT
ACAACTTACAC
Found at i:109092540 original size:18 final size:18
Alignment explanation
Indices: 109092519--109092606 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 18
109092509 TTTAACTTAC
109092519 AACTTACACAATACATTT
1 AACTTACACAATACATTT
*
109092537 AACTTACAACTTGCATAATACATAAT
1 AACTTAC-A----C--AATACAT-TT
*
109092563 AACTTACA-ACTTACATTT
1 AACTTACACA-ATACATTT
*
109092581 AACTTACATAATACATTT
1 AACTTACACAATACATTT
109092599 AACTTACA
1 AACTTACA
109092607 TAACTTACAT
Statistics
Matches: 56, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
18 32 0.57
19 7 0.12
23 1 0.02
25 8 0.14
26 8 0.14
ACGTcount: A:0.44, C:0.20, G:0.01, T:0.34
Consensus pattern (18 bp):
AACTTACACAATACATTT
Found at i:109092607 original size:18 final size:18
Alignment explanation
Indices: 109092544--109092609 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
109092534 TTTAACTTAC
* *
109092544 AACTTGCATAATACATAAT
1 AACTTACATAATACAT-TT
*
109092563 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
109092581 AACTTACATAATACATTT
1 AACTTACATAATACATTT
109092599 AACTTACATAA
1 AACTTACATAA
109092610 CTTACATAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
18 28 0.68
19 13 0.32
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:109092612 original size:9 final size:9
Alignment explanation
Indices: 109092561--109092623 Score: 62
Period size: 9 Copynumber: 7.0 Consensus size: 9
109092551 ATAATACATA
109092561 ATAACTTAC
1 ATAACTTAC
109092570 --AACTTAC
1 ATAACTTAC
109092577 ATTTAACTTAC
1 A--TAACTTAC
109092588 ATAA--TAC
1 ATAACTTAC
109092595 ATTTAACTTAC
1 A--TAACTTAC
109092606 ATAACTTAC
1 ATAACTTAC
109092615 ATAACTTAC
1 ATAACTTAC
109092624 CATTGCAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
7 11 0.24
9 23 0.50
11 12 0.26
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.37
Consensus pattern (9 bp):
ATAACTTAC
Found at i:109092619 original size:18 final size:19
Alignment explanation
Indices: 109092562--109092623 Score: 71
Period size: 18 Copynumber: 3.4 Consensus size: 19
109092552 TAATACATAA
109092562 TAACTTAC--AACTTACATT
1 TAACTTACATAACTTACA-T
109092580 TAACTTACATAA--TACATT
1 TAACTTACATAACTTACA-T
109092598 TAACTTACATAACTTACA-
1 TAACTTACATAACTTACAT
109092616 TAACTTAC
1 TAACTTAC
109092624 CATTGCAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
18 34 0.85
20 6 0.15
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (19 bp):
TAACTTACATAACTTACAT
Found at i:109095051 original size:21 final size:21
Alignment explanation
Indices: 109095025--109095095 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
109095015 CTACAACTTA
* *
109095025 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
109095046 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
109095067 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
109095088 AAGCAGAG
1 AAGCAGAG
109095096 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:109095338 original size:14 final size:14
Alignment explanation
Indices: 109095319--109095352 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
109095309 ATTGCTATTG
109095319 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
109095333 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
109095347 TTTGCT
1 GTTGCT
109095353 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:109095520 original size:43 final size:42
Alignment explanation
Indices: 109095406--109095793 Score: 388
Period size: 42 Copynumber: 9.2 Consensus size: 42
109095396 CAAAAATAGT
* * *
109095406 GGCGTTTTTGTATAAAAGCGCCACTAAAGAACATGTTCTTTTGC
1 GGCGTTTTT-T-TAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* * *
109095450 GGCG--TTTGTAAAAATGCCACTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
***** *
109095490 GGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGC
1 GGCG-TTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* *
109095533 GGCGTTTTCCCTT--AAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTT--TTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * * *
109095575 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGT
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* * *
109095617 GGCATTTTTTTACAAACGCCGCTAAAGAACATATTCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * *
109095659 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * *
109095701 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * * *
109095743 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAAC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
109095785 GGCGTTTTT
1 GGCGTTTTT
109095794 GTTTGTAAAC
Statistics
Matches: 300, Mismatches: 37, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
40 35 0.12
42 229 0.76
43 32 0.11
44 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (42 bp):
GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
Found at i:109095571 original size:42 final size:42
Alignment explanation
Indices: 109095507--109095793 Score: 445
Period size: 42 Copynumber: 6.8 Consensus size: 42
109095497 AGAAAAAAAA
**
109095507 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCCCTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-TAAG
*
109095549 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* * * *
109095591 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAG
109095633 CGCCGCTAAAGAACAT-ATTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTTTCTAAG
109095675 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
109095717 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* *
109095759 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
109095794 GTTTGTAAAC
Statistics
Matches: 227, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.00
42 219 0.96
43 7 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
Found at i:109095637 original size:84 final size:83
Alignment explanation
Indices: 109095421--109095793 Score: 453
Period size: 84 Copynumber: 4.5 Consensus size: 83
109095411 TTTTGTATAA
* * * * ** ** *
109095421 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCG-TTTGTAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCAAGCGCCGCTAAAGAACATGTTCT
*******
109095485 TTAGCGGCGATTAGAAAAA
66 TTAGCGGCG-TTTTTTTCT
* *
109095504 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTT-AAGCGCCGCTAAAGAACATGTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT--TTTCAAGCGCCGCTAAAGAACATGTT
109095568 CTTTAGCGGCGTTTTTTTCT
64 CTTTAGCGGCGTTTTTTTCT
* * * * *
109095588 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATATTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CAAGCGCCGCTAAAGAACATGTTC
109095653 TTTAGCGGCGTTTTTTTCT
65 TTTAGCGGCGTTTTTTTCT
*
109095672 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-AAGCGCCGCTAAAGAACATGTTC
109095737 TTTAGCGGCGTTTTTTTCT
65 TTTAGCGGCGTTTTTTTCT
* *
109095756 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
109095794 GTTTGTAAAC
Statistics
Matches: 253, Mismatches: 31, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
82 2 0.01
83 30 0.12
84 190 0.75
85 30 0.12
86 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (83 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCAAGCGCCGCTAAAGAACATGTTCT
TTAGCGGCGTTTTTTTCT
Found at i:109097621 original size:24 final size:24
Alignment explanation
Indices: 109097594--109097645 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
109097584 TTTCTAAAAG
* *
109097594 ATTTAGCATTTATGAGTATAATAT
1 ATTTAACATTTATGAGCATAATAT
*
109097618 ATTTAACATTTATTAGCATAATAT
1 ATTTAACATTTATGAGCATAATAT
109097642 ATTT
1 ATTT
109097646 GACCTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (24 bp):
ATTTAACATTTATGAGCATAATAT
Found at i:109097656 original size:24 final size:24
Alignment explanation
Indices: 109097611--109097657 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
109097601 ATTTATGAGT
*
109097611 ATAATATATTTAACATTTATTAGC
1 ATAATATATTTAACATTGATTAGC
* *
109097635 ATAATATATTTGACCTTGATTAG
1 ATAATATATTTAACATTGATTAG
109097658 AATTAGGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (24 bp):
ATAATATATTTAACATTGATTAGC
Found at i:109097805 original size:5 final size:5
Alignment explanation
Indices: 109097795--109097832 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
109097785 CAGTGTGTTC
109097795 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
109097833 TTTATTTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:109098110 original size:19 final size:19
Alignment explanation
Indices: 109098086--109098183 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
109098076 AATCTTTAAG
109098086 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
109098105 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
109098124 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
109098141 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
109098160 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
109098181 GAT
1 GAT
109098184 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:109098117 original size:36 final size:35
Alignment explanation
Indices: 109098076--109098183 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
109098066 ATGAAAATAT
109098076 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
109098112 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
109098148 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
109098184 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:109106054 original size:41 final size:41
Alignment explanation
Indices: 109106006--109106475 Score: 162
Period size: 41 Copynumber: 11.3 Consensus size: 41
109105996 GATCTTATTT
*
109106006 CCCTAAGCAGTAGTGGAGCAAATCGAAGATTCGCCTTAATC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGATTCGCCTTAATC
* * * *
109106047 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-TT-C-G-CCTTAATC
* *
109106089 TCCCTAAGCAGTAGTGGAGTAGATCGAAGACTCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGATTCGCCTTAATC
* * * * *
109106131 CCCTAAGCGGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-TT-C-G-CCTTAATC
*
109106173 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGATTCGCCTTAATC
* * * * *
109106215 CCTTAAGCAGTAG-GGTAACAGGTTCGCAGA-T---CTT-CT-
1 CCCTAAGCAGTAGTGG-AGCA-GATCGAAGATTCGCCTTAATC
* ** * *
109106251 CCCTAAGTAGTAGCAGAGTAGATCGACGATGACTCGCCTTAATC
1 CCCTAAGCAGTAGTGGAGCAGATCGA--A-GATTCGCCTTAATC
* * * * *
109106295 CCTTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-TT-C-G-CCTTAATC
**
109106337 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGATTCGCCTTAATC
* * * *
109106379 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-AT-
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-TT-C-G-CCTTAATC
* *
109106420 CCCTAAGCAGTAGCGGAGCAGATCGAAGAAGATGCGCCTTAA-C
1 CCCTAAGCAGTAGTGGAGCAGATC---GAAGATTCGCCTTAATC
109106463 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
109106476 GGTAACAGGT
Statistics
Matches: 310, Mismatches: 64, Indels: 108
0.64 0.13 0.22
Matches are distributed among these distances:
35 4 0.01
36 13 0.04
37 3 0.01
38 5 0.02
39 5 0.02
40 18 0.06
41 99 0.32
42 42 0.14
43 84 0.27
44 30 0.10
45 6 0.02
46 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (41 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAGATTCGCCTTAATC
Found at i:109106094 original size:84 final size:84
Alignment explanation
Indices: 109105953--109106489 Score: 797
Period size: 84 Copynumber: 6.4 Consensus size: 84
109105943 CAAAATTCAG
* * *
109105953 CGCCTTAATCCCCTAAACAGTAAGGTAACAGGTTAAATTTGCAGATCTTATTTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
109106018 GTGGAGCAAATCGAAGATT
66 GTGGAGCAGATCGAAGACT
109106037 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
109106102 GTGGAGTAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
*
109106121 CGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
109106186 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * *
109106205 CGCCTTAATCCCTTAAGCAGTAGGGTAACAGG-----TTCGCAGATC-T-TCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
** *
109106263 GCAGAGTAGATCGACGATGACT
66 GTGGAGCAGATCGA--A-GACT
*
109106285 CGCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
109106350 GTGGAGCAGATCGAAGACC
66 GTGGAGCAGATCGAAGACT
109106369 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTA--TCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
109106432 GCGGAGCAGATCGAAGAAGAT
66 GTGGAGCAGATCGAAG-A-CT
109106453 GCGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGTTAAA
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
109106490 GTATAGCAGA
Statistics
Matches: 415, Mismatches: 25, Indels: 26
0.89 0.05 0.06
Matches are distributed among these distances:
77 25 0.06
78 1 0.00
79 10 0.02
80 36 0.09
82 28 0.07
83 1 0.00
84 270 0.65
85 18 0.04
86 1 0.00
87 25 0.06
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACT
Found at i:109106474 original size:248 final size:247
Alignment explanation
Indices: 109106036--109106486 Score: 789
Period size: 248 Copynumber: 1.8 Consensus size: 247
109106026 AATCGAAGAT
109106036 TCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
1 TCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
* * *
109106101 AGTGGAGTAGATCGAAGACTCGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGA
66 AGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
* * *
109106166 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCTTAAGCAGTAGGGT
131 TCTTA-CTCCCTAAGCAGTAGCGGAGCAGATCGAAGAATCGCCTTAATCCCCTAAGCAGTAGGGT
109106231 AACAGGTTCGCAGATCTTCTCCCTAAGTAGTAGCAGAGTAGATCGACGATGAC
195 AACAGGTTCGCAGATCTTCTCCCTAAGTAGTAGCAGAGTAGATCGACGATGAC
*
109106284 TCGCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
1 TCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
109106349 AGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
66 AGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
109106414 TCTTA-TCCCTAAGCAGTAGCGGAGCAGATCGAAGAAGATGCGCCTTAA-CCCCTAAGCAGTAGG
131 TCTTACTCCCTAAGCAGTAGCGGAGCAGATCGAAG-A-AT-CGCCTTAATCCCCTAAGCAGTAGG
109106477 GTAACAGGTT
193 GTAACAGGTT
109106487 AAAGTATAGC
Statistics
Matches: 193, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
246 28 0.15
247 1 0.01
248 156 0.81
249 8 0.04
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (247 bp):
TCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
TCTTACTCCCTAAGCAGTAGCGGAGCAGATCGAAGAATCGCCTTAATCCCCTAAGCAGTAGGGTA
ACAGGTTCGCAGATCTTCTCCCTAAGTAGTAGCAGAGTAGATCGACGATGAC
Found at i:109107200 original size:19 final size:19
Alignment explanation
Indices: 109107172--109107283 Score: 156
Period size: 19 Copynumber: 5.8 Consensus size: 19
109107162 AATCTTTAAG
109107172 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
109107191 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
109107210 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
109107227 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
109107246 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
* *
109107267 GATCTTGTAATCTTAGA
1 GAT-ATGCAATCTTAGA
109107284 GATTTAATTT
Statistics
Matches: 85, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
17 17 0.20
19 48 0.56
20 3 0.04
21 9 0.11
22 8 0.09
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:109107202 original size:36 final size:35
Alignment explanation
Indices: 109107162--109107269 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
109107152 ATGGAAATAT
109107162 AATCTTTAAGGATATGCAATCTTAGATATGATATAC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATAC
*
109107198 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATAC
*
109107234 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
109107270 CTTGTAATCT
Statistics
Matches: 60, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 27 0.45
37 1 0.02
38 7 0.12
40 10 0.17
41 6 0.10
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATAC
Found at i:109120397 original size:60 final size:60
Alignment explanation
Indices: 109120329--109120450 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
109120319 AATTATAGAG
109120329 AATGTTGCATATGAATATGAAATGTATTAAATTGATGGTTAAATTTATTTATTTAGATAC
1 AATGTTGCATATGAATATGAAATGTATTAAATTGATGGTTAAATTTATTTATTTAGATAC
109120389 AATGTTGCATATGAATATGAAATGTATTAAATTGATGGTTAAATTTATTTATTTAGATAC
1 AATGTTGCATATGAATATGAAATGTATTAAATTGATGGTTAAATTTATTTATTTAGATAC
109120449 AA
1 AA
109120451 AAAATTCAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (60 bp):
AATGTTGCATATGAATATGAAATGTATTAAATTGATGGTTAAATTTATTTATTTAGATAC
Found at i:109125299 original size:24 final size:24
Alignment explanation
Indices: 109125243--109125317 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
109125233 ATGAATTCCA
109125243 ATCATGGA-ATTTACCTAACCATT
1 ATCATGGACATTTACCTAACCATT
109125266 -TCATGGACATTTACCTAACCATT
1 ATCATGGACATTTACCTAACCATT
*
109125289 ATCATGAACATTTACCTAACCCATT
1 ATCATGGACATTTACCTAA-CCATT
109125314 ATCA
1 ATCA
109125318 ATTGTATCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
22 7 0.15
23 15 0.31
24 17 0.35
25 9 0.19
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (24 bp):
ATCATGGACATTTACCTAACCATT
Found at i:109137476 original size:99 final size:99
Alignment explanation
Indices: 109137305--109137497 Score: 386
Period size: 99 Copynumber: 1.9 Consensus size: 99
109137295 TATAATATCG
109137305 TTAGATAGTTAATACAGAAAGCTTCATTAATTATTCTGGTTTAAATGATGATGTGCATTTGTTTT
1 TTAGATAGTTAATACAGAAAGCTTCATTAATTATTCTGGTTTAAATGATGATGTGCATTTGTTTT
109137370 TTTTAAAAGCATGCCTTCCAATTCATAAAGTAAA
66 TTTTAAAAGCATGCCTTCCAATTCATAAAGTAAA
109137404 TTAGATAGTTAATACAGAAAGCTTCATTAATTATTCTGGTTTAAATGATGATGTGCATTTGTTTT
1 TTAGATAGTTAATACAGAAAGCTTCATTAATTATTCTGGTTTAAATGATGATGTGCATTTGTTTT
109137469 TTTTAAAAGCATGCCTTCCAATTCATAAA
66 TTTTAAAAGCATGCCTTCCAATTCATAAA
109137498 TTACTTTGGG
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 94 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (99 bp):
TTAGATAGTTAATACAGAAAGCTTCATTAATTATTCTGGTTTAAATGATGATGTGCATTTGTTTT
TTTTAAAAGCATGCCTTCCAATTCATAAAGTAAA
Found at i:109142238 original size:8 final size:8
Alignment explanation
Indices: 109142198--109142227 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
109142188 TAAATTGTTT
*
109142198 ATTTTTCA
1 ATTTTTAA
109142206 ATTTTTAA
1 ATTTTTAA
109142214 ATTTTTAA
1 ATTTTTAA
109142222 ATTTTT
1 ATTTTT
109142228 TTAGATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (8 bp):
ATTTTTAA
Found at i:109149024 original size:50 final size:50
Alignment explanation
Indices: 109148965--109149069 Score: 194
Period size: 50 Copynumber: 2.1 Consensus size: 50
109148955 TTACATGACT
*
109148965 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGACAATGCCTTTGGCTAAATCATAATATTAC
109149015 AATACTACCTTAATAACAAGACAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGACAATGCCTTTGGCTAAATCATAATATTAC
109149065 -ATACT
1 AATACT
109149070 CACATTAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 5 0.09
50 49 0.91
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (50 bp):
AATACTACCTTAATAACAAGACAATGCCTTTGGCTAAATCATAATATTAC
Found at i:109150081 original size:20 final size:18
Alignment explanation
Indices: 109150047--109150083 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
109150037 GCAACTCATA
109150047 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
109150065 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
109150084 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:109155444 original size:13 final size:11
Alignment explanation
Indices: 109155412--109155436 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
109155402 AAATTTAATA
109155412 ACTCATAATTT
1 ACTCATAATTT
109155423 ACTCATAATTT
1 ACTCATAATTT
109155434 ACT
1 ACT
109155437 AACATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (11 bp):
ACTCATAATTT
Found at i:109157270 original size:129 final size:130
Alignment explanation
Indices: 109157040--109157290 Score: 398
Period size: 129 Copynumber: 1.9 Consensus size: 130
109157030 CTCGTTTTAG
* *
109157040 AAAACACCAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCAAAACCCAG
1 AAAACACCAGTAAAATTCCAAAGGAATATTCGATTATTCTGAACAAACGAGAAATCAAAACCCAG
109157105 CACGATAGGACACTATTCCCCGAATTTCCAAACATCGAATATTGCC-TTGTTTTAATATTTTGAA
66 CACGATAGGACACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTTGTTTTAATATTTTGAA
* ** * **
109157169 AAAACACGAGTAAAATTTTAAAGGAATATTCGATTATTCTGAACAAACGGGAAATCGGAACCCAG
1 AAAACACCAGTAAAATTCCAAAGGAATATTCGATTATTCTGAACAAACGAGAAATCAAAACCCAG
*
109157234 CACGATAGGGCACTATTCCCCG-ATCTTCCAAACATCGAATATTGCCTTTGTTTTAAT
66 CACGATAGGACACTATTCCCCGAAT-TTCCAAACATCGAATATTGCCTTTGTTTTAAT
109157291 GAATCTTCAA
Statistics
Matches: 111, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
128 2 0.02
129 99 0.89
130 10 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (130 bp):
AAAACACCAGTAAAATTCCAAAGGAATATTCGATTATTCTGAACAAACGAGAAATCAAAACCCAG
CACGATAGGACACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTTGTTTTAATATTTTGAA
Found at i:109159211 original size:131 final size:131
Alignment explanation
Indices: 109158977--109159243 Score: 516
Period size: 131 Copynumber: 2.0 Consensus size: 131
109158967 CAAAGCTCTC
109158977 CCTTTCCCCTCTCATACCGCCGAACTCTAATCCCCTTTCGTGCAAACACCAATCCTGGGTTTCAT
1 CCTTTCCCCTCTCATACCGCCGAACTCTAATCCCCTTTCGTGCAAACACCAATCCTGGGTTTCAT
109159042 CGGCGTTAACGCCTCCACCTCCACCATGGTACTTGACCCAAGTCACGGAAAAACGAGAGGACACC
66 CGGCGTTAACGCCTCCACCTCCACCATGGTACTTGACCCAAGTCACGGAAAAACGAGAGGACACC
109159107 T
131 T
*
109159108 CCTTTCCCCTCTCATACCGCCGAACTCTAATCCCCTTTCGTGCAAACACCGATCCTGGGTTTCAT
1 CCTTTCCCCTCTCATACCGCCGAACTCTAATCCCCTTTCGTGCAAACACCAATCCTGGGTTTCAT
*
109159173 CGGCGTTAACGCCTCCACCTCCGCCATGGTACTTGACCCAAGTCACGGAAAAACGAGAGGACACC
66 CGGCGTTAACGCCTCCACCTCCACCATGGTACTTGACCCAAGTCACGGAAAAACGAGAGGACACC
109159238 T
131 T
109159239 CCTTT
1 CCTTT
109159244 GGTTCGATAT
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 134 1.00
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.23
Consensus pattern (131 bp):
CCTTTCCCCTCTCATACCGCCGAACTCTAATCCCCTTTCGTGCAAACACCAATCCTGGGTTTCAT
CGGCGTTAACGCCTCCACCTCCACCATGGTACTTGACCCAAGTCACGGAAAAACGAGAGGACACC
T
Found at i:109163127 original size:15 final size:15
Alignment explanation
Indices: 109163107--109163145 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
109163097 TGGTAAACTG
109163107 AAAATTAAGTACTAA
1 AAAATTAAGTACTAA
* **
109163122 AAAATTCAGTGTTAA
1 AAAATTAAGTACTAA
109163137 AAAATTAAG
1 AAAATTAAG
109163146 AGTTGAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.28
Consensus pattern (15 bp):
AAAATTAAGTACTAA
Found at i:109167584 original size:20 final size:19
Alignment explanation
Indices: 109167559--109167605 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
109167549 AAATTTAAAT
109167559 ATTTAATT-TAATTAATTTAA
1 ATTTAATTGT-ATTAA-TTAA
*
109167579 ATTTAAATTGTATTAATTCA
1 ATTT-AATTGTATTAATTAA
109167599 ATTTAAT
1 ATTTAAT
109167606 CATAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 3 0.12
20 11 0.46
21 9 0.38
22 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTTAATTGTATTAATTAA
Found at i:109167593 original size:21 final size:21
Alignment explanation
Indices: 109167550--109167604 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
109167540 TTCGAATCTA
*
109167550 AATTTAAATATTTAATTTAATT
1 AATTTAAAT-TTAAATTTAATT
109167572 AATTTAAATTTAAATTGT-ATT
1 AATTTAAATTTAAATT-TAATT
*
109167593 AA-TTCAATTTAA
1 AATTTAAATTTAA
109167605 TCATAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 9 0.30
21 11 0.37
22 10 0.33
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTTAAATTTAAATTTAATT
Found at i:109179112 original size:19 final size:19
Alignment explanation
Indices: 109179088--109179126 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
109179078 TAATAAGTTA
109179088 TTTAATATTTCAAT-TTTAT
1 TTTAATATTT-AATATTTAT
109179107 TTTAATATTTAATATTTAT
1 TTTAATATTTAATATTTAT
109179126 T
1 T
109179127 ACAATTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTAATATTTAATATTTAT
Found at i:109181649 original size:10 final size:10
Alignment explanation
Indices: 109181634--109181661 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
109181624 ACAATTATGT
109181634 TGTTGTTTGC
1 TGTTGTTTGC
109181644 TGTTGTTTGC
1 TGTTGTTTGC
109181654 TGTTGTTT
1 TGTTGTTT
109181662 ACTGCTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.29, T:0.64
Consensus pattern (10 bp):
TGTTGTTTGC
Found at i:109183677 original size:26 final size:26
Alignment explanation
Indices: 109183648--109183703 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
109183638 TGATACAAAT
*
109183648 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
109183674 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
109183700 TGAT
1 TGAT
109183704 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:109190613 original size:26 final size:26
Alignment explanation
Indices: 109190584--109190691 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
109190574 TGATACAAAT
109190584 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
109190610 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109190636 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
109190662 TGATAAAGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109190688 TGAT
1 TGAT
109190692 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:109193468 original size:42 final size:42
Alignment explanation
Indices: 109193416--109193498 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
109193406 GCTCGAGTTG
*
109193416 GAGCTTGAGTACAAAAATTAGTAAATGAGCTTAATTGAGCTC
1 GAGCTCGAGTACAAAAATTAGTAAATGAGCTTAATTGAGCTC
*
109193458 GAGCTCGAGTACAAAAATTAGTAAGTGAGCTTAATTGAGCT
1 GAGCTCGAGTACAAAAATTAGTAAATGAGCTTAATTGAGCT
109193499 TGAACTCAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (42 bp):
GAGCTCGAGTACAAAAATTAGTAAATGAGCTTAATTGAGCTC
Found at i:109195710 original size:28 final size:26
Alignment explanation
Indices: 109195650--109195715 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 26
109195640 ATATCAAAAC
*
109195650 TAATAATAACAATAATATATAAATGTA
1 TAATAATAA-AATAATATATAAAAGTA
109195677 TAATAATAAAATAATATATATTAAAG-A
1 TAATAATAAAATAATATATA--AAAGTA
109195704 TATATAATAAAA
1 TA-ATAATAAAA
109195716 CATATTAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
26 11 0.31
27 12 0.34
28 12 0.34
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (26 bp):
TAATAATAAAATAATATATAAAAGTA
Found at i:109195862 original size:11 final size:11
Alignment explanation
Indices: 109195825--109195868 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
109195815 CAACAACAGT
109195825 AATATATATAA
1 AATATATATAA
*
109195836 AACA-ACTATAA
1 AATATA-TATAA
109195847 GAATATATATAA
1 -AATATATATAA
109195859 AATATATATA
1 AATATATATA
109195869 TGTAGTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 1 0.04
11 18 0.64
12 8 0.29
13 1 0.04
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (11 bp):
AATATATATAA
Found at i:109195918 original size:19 final size:20
Alignment explanation
Indices: 109195881--109195922 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
109195871 TAGTATTAAT
109195881 TAAAAATGTTTAAATAATAA
1 TAAAAATGTTTAAATAATAA
109195901 TAAAATATG-TTAAA-AATAA
1 TAAAA-ATGTTTAAATAATAA
109195920 TAA
1 TAA
109195923 TACAAGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 10 0.48
21 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
TAAAAATGTTTAAATAATAA
Found at i:109204587 original size:166 final size:167
Alignment explanation
Indices: 109204348--109204688 Score: 497
Period size: 166 Copynumber: 2.0 Consensus size: 167
109204338 ATTGTCTTTG
* * * *
109204348 TTGATGAGTGATACTAACTCAATTAACACTAAATAATGATATAGATTAAATTAACTTTCTACCCT
1 TTGATGAGTGATACCAACTCAATCAACACTAAATAATGATAAAGATTAAAATAACTTTCTACCCT
* * * *
109204413 AGAATATAAAATGGCAAAAATATCATCATAATAATGTTCCTTATTTTATAAAAAATGGGTTTTCC
66 AAAATATAAAATGACAAAAATATCATCATAATAATATTCCATATTTTATAAAAAATGGGTTTTCC
* * *
109204478 GTAATTTCTCAATTAAGTTAGAACTCGGTTGTCTCAA
131 GTAATTTATCAACTAAGTTAGAACTCGGTTATCTCAA
* * * *
109204515 TTGATGAGTGATACCAGCTCAA-CAACCCTAAAT-ATTAGTAAAGATTAAAATAACTTTCTATCC
1 TTGATGAGTGATACCAACTCAATCAACACTAAATAATGA-TAAAGATTAAAATAACTTTCTACCC
*
109204578 TAAAATATAAAATGACAAAAATATCGTCATAATAATATTCCATATTTTATAAAAAATGGGTTTTC
65 TAAAATATAAAATGACAAAAATATCATCATAATAATATTCCATATTTTATAAAAAATGGGTTTTC
* *
109204643 TGTAATTTATCAACTAAGTTAGAACTCGGTTATCTTAA
130 CGTAATTTATCAACTAAGTTAGAACTCGGTTATCTCAA
109204681 TTGATGAG
1 TTGATGAG
109204689 CGACACTAAT
Statistics
Matches: 155, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
165 3 0.02
166 132 0.85
167 20 0.13
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.35
Consensus pattern (167 bp):
TTGATGAGTGATACCAACTCAATCAACACTAAATAATGATAAAGATTAAAATAACTTTCTACCCT
AAAATATAAAATGACAAAAATATCATCATAATAATATTCCATATTTTATAAAAAATGGGTTTTCC
GTAATTTATCAACTAAGTTAGAACTCGGTTATCTCAA
Found at i:109205383 original size:15 final size:16
Alignment explanation
Indices: 109205357--109205396 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
109205347 AATCATTGGT
109205357 TAAAAATA-ATTTT-A
1 TAAAAATATATTTTAA
109205371 TAAAAATATATTTTAA
1 TAAAAATATATTTTAA
109205387 TATAAAATAT
1 TA-AAAATAT
109205397 GCATGATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.35
15 5 0.22
16 3 0.13
17 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAAATATATTTTAA
Found at i:109214991 original size:15 final size:15
Alignment explanation
Indices: 109214968--109215013 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
109214958 TGGAATAAAA
109214968 CAAAGGAGAATTGAAG
1 CAAA-GAGAATTGAAG
*
109214984 CAAAGAGAAAATGGAAG
1 CAAAGAG--AATTGAAG
109215001 CAAAGAGAATTGA
1 CAAAGAGAATTGA
109215014 TCAAGATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 8 0.31
16 4 0.15
17 14 0.54
ACGTcount: A:0.54, C:0.07, G:0.28, T:0.11
Consensus pattern (15 bp):
CAAAGAGAATTGAAG
Found at i:109223285 original size:40 final size:40
Alignment explanation
Indices: 109223241--109223328 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
109223231 AACAAATGGA
* * *
109223241 ACAAAATTATAAGACTTATAATTAATAATACAAAAGATTC
1 ACAAAAATATAAAACTTATAATTAACAATACAAAAGATTC
* * *
109223281 ACAAAAATATAAAACTTATAATTAACACTACAAAATATTT
1 ACAAAAATATAAAACTTATAATTAACAATACAAAAGATTC
109223321 ACAAAAAT
1 ACAAAAAT
109223329 TCAGATAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.28
Consensus pattern (40 bp):
ACAAAAATATAAAACTTATAATTAACAATACAAAAGATTC
Found at i:109227968 original size:19 final size:19
Alignment explanation
Indices: 109227923--109227970 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
109227913 ATCAAATTAA
*
109227923 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
109227942 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
109227961 AATAAAAATA
1 AATAAAAATA
109227971 TACAAGCTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:109228437 original size:26 final size:26
Alignment explanation
Indices: 109228408--109228515 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
109228398 TGGTACAAAT
109228408 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
109228434 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109228460 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
109228486 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109228512 TGAT
1 TGAT
109228516 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:109236602 original size:26 final size:26
Alignment explanation
Indices: 109236573--109236678 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
109236563 TGGTACAAAT
109236573 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
109236599 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
109236625 TGATAATGGGTTA--TAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
109236649 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
109236675 TGAT
1 TGAT
109236679 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
24 22 0.30
26 52 0.70
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:109236655 original size:50 final size:51
Alignment explanation
Indices: 109236573--109236678 Score: 169
Period size: 50 Copynumber: 2.1 Consensus size: 51
109236563 TGGTACAAAT
109236573 TGATAATGGGTTAGGTAAATATTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTA-GTAAATATTCCATGATAATGGATTAGGTAAATATTCCA
* * *
109236625 TGATAATGGGTTA-TAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGTAAATATTCCATGATAATGGATTAGGTAAATATTCCA
109236675 TGAT
1 TGAT
109236679 GGGCATTTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
50 38 0.75
52 13 0.25
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.37
Consensus pattern (51 bp):
TGATAATGGGTTAGTAAATATTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:109244145 original size:14 final size:14
Alignment explanation
Indices: 109244104--109244148 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
109244094 CACTAAAAAT
*
109244104 TAAACCCTAAACCA
1 TAAACCCTAAACTA
* *
109244118 TACACCCTACACTA
1 TAAACCCTAAACTA
*
109244132 TAAACCATAAACTA
1 TAAACCCTAAACTA
109244146 TAA
1 TAA
109244149 TGATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:109244628 original size:15 final size:15
Alignment explanation
Indices: 109244589--109244631 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
109244579 TAAATTTCAA
* *
109244589 CCCT-AACCCTTAAA
1 CCCTAAACCCATAAT
109244603 CCCTAAA-CCATAAT
1 CCCTAAACCCATAAT
109244617 CCCTAAACCCATAAT
1 CCCTAAACCCATAAT
109244632 TCATCATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAACCCATAAT
Found at i:109244695 original size:21 final size:21
Alignment explanation
Indices: 109244669--109244753 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 21
109244659 ACTCCTAAAC
* *
109244669 CTTAAACCCTAAACCGTATAT
1 CTTAAACCATAAACCATATAT
*
109244690 CTTAAACCATAGTTAACTCATAAACCT
1 CTTAAACCATA---AAC-CATATA--T
*
109244717 ACTTAAACCCTAAACCATATAT
1 -CTTAAACCATAAACCATATAT
109244739 CTTAAACCATAAACC
1 CTTAAACCATAAACC
109244754 TTAAACTATA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
21 24 0.47
22 1 0.02
24 8 0.16
25 7 0.14
27 1 0.02
28 10 0.20
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:109244738 original size:49 final size:46
Alignment explanation
Indices: 109244653--109244749 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 46
109244643 CTTCAAATAC
* *
109244653 TAGTTAACTCCTAAACCTTAAACCCTAAACCGTATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
109244699 TAGTTAACTCATAAACCTACTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAA-C--CTTAAACCCTAAACCATATATCTTAAACCA
109244748 TA
1 TA
109244750 AACCTTAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
46 14 0.30
47 1 0.02
49 31 0.67
ACGTcount: A:0.41, C:0.27, G:0.03, T:0.29
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:109244746 original size:14 final size:14
Alignment explanation
Indices: 109244720--109244764 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
109244710 TAAACCTACT
*
109244720 TAAACCCTAAACCA
1 TAAACCTTAAACCA
* *
109244734 TATATCTTAAACCA
1 TAAACCTTAAACCA
*
109244748 TAAACCTTAAACTA
1 TAAACCTTAAACCA
109244762 TAA
1 TAA
109244765 TGATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:109245017 original size:40 final size:41
Alignment explanation
Indices: 109244922--109245017 Score: 149
Period size: 41 Copynumber: 2.4 Consensus size: 41
109244912 GTTATATGAC
* * *
109244922 TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGACACTAATGCTCTGGT
*
109244963 TTTTAGCGGTGTTTTACCAAAAGCGACACTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGACACTAATGCTCTGGT
109245003 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
109245018 TTACTAAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 16 0.32
41 34 0.68
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGACACTAATGCTCTGGT
Found at i:109245039 original size:40 final size:39
Alignment explanation
Indices: 109244922--109245048 Score: 132
Period size: 41 Copynumber: 3.1 Consensus size: 39
109244912 GTTATATGAC
109244922 TTTTAGCGGCG-TTTTACTAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTACTAAAA--GCCGCTAATGCTCT-GT
* * *
109244963 TTTTAGCGGTG-TTTTACCAAAAGCGACACTAATGCTCTGT
1 TTTTAGCGGCGTTTTTACTAAAAGC--CGCTAATGCTCTGT
* *
109245003 TTTTAGCGGCGTTTTTTACTAAATGCCGCTATTGCTCTGT
1 TTTTAGCGGCG-TTTTTACTAAAAGCCGCTAATGCTCTGT
109245043 ATTTTA
1 -TTTTA
109245049 AAATTTTTAC
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
39 2 0.03
40 24 0.33
41 36 0.49
42 11 0.15
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (39 bp):
TTTTAGCGGCGTTTTTACTAAAAGCCGCTAATGCTCTGT
Found at i:109247947 original size:80 final size:80
Alignment explanation
Indices: 109247842--109247994 Score: 234
Period size: 80 Copynumber: 1.9 Consensus size: 80
109247832 ACCAAAGTAC
*
109247842 CCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTAT
1 CCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTAC
*
109247907 AGAATTACCGTTTAA
66 AAAATTACCGTTTAA
** * * **
109247922 CCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTAC
109247987 AAAATTAC
66 AAAATTAC
109247995 TAAAATACCC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.39
Consensus pattern (80 bp):
CCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTAC
AAAATTACCGTTTAA
Found at i:109247995 original size:27 final size:27
Alignment explanation
Indices: 109247839--109247994 Score: 206
Period size: 27 Copynumber: 5.8 Consensus size: 27
109247829 ATTACCAAAG
* *
109247839 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
109247866 TACCCTCGACTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
109247893 TACCCTCGATTTATAGAATTACCG-TT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
109247919 TAACCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
109247946 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
109247973 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
109247995 TAAAATACCC
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 24 0.21
27 92 0.79
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:109248003 original size:27 final size:27
Alignment explanation
Indices: 109247828--109248036 Score: 177
Period size: 27 Copynumber: 7.8 Consensus size: 27
109247818 CAAATTGTAA
** *
109247828 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAATTTACCCTCGATTTACAG
* *
109247855 AATTACCATTTTACCCTCGACTTACAG
1 AATTACCAATTTACCCTCGATTTACAG
* *
109247882 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCAATTTACCCTCGATTTACAG
* * *
109247909 AATTACC-GTTTAACCTCGATTTATAG
1 AATTACCAATTTACCCTCGATTTACAG
*** *
109247935 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACCAATTTACCCTCGATTTACAG
*** *
109247962 AATTACTGTTTTACCCTCGATTTACAA
1 AATTACCAATTTACCCTCGATTTACAG
* ** * * *
109247989 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAATTTACCCTCGATTTACAG
**
109248016 AATTACCAAAATACCCTCGAT
1 AATTACCAATTTACCCTCGAT
109248037 CAGTAAAATT
Statistics
Matches: 156, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 23 0.15
27 133 0.85
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (27 bp):
AATTACCAATTTACCCTCGATTTACAG
Found at i:109248031 original size:54 final size:53
Alignment explanation
Indices: 109247973--109248168 Score: 166
Period size: 54 Copynumber: 3.6 Consensus size: 53
109247963 ATTACTGTTT
* *
109247973 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTAC-AAAATACCCTTGGTTTATAAAATTACCAAAA
* * * * *
109248027 TACCCTCGA-TCAGTAAAATTAGCAAAATA-CCTTGGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-TAAAATTA-CAAAATACCCTTGGTTTATAAAATTACCAAAA
* * *** *
109248080 TACCC-CTGGTTTGTAAAATTACCAAAATACCCTAAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTA-CAAAATACCCTTGGTTTATAAAATTACCAAAA
**
109248134 TACCC-CTGATTTATAAGGTTACAGAAATACCCTTG
1 TACCCTC-GATTTATAAAATTACA-AAATACCCTTG
109248169 ACTTTTTAAA
Statistics
Matches: 113, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
52 1 0.01
53 44 0.39
54 67 0.59
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (53 bp):
TACCCTCGATTTATAAAATTACAAAATACCCTTGGTTTATAAAATTACCAAAA
Found at i:109248084 original size:80 final size:80
Alignment explanation
Indices: 109247987--109248137 Score: 221
Period size: 80 Copynumber: 1.9 Consensus size: 80
109247977 CTCGATTTAC
* ** *
109247987 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTAGCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTAAATCAGTAAAATTACCAA
109248052 AATACCTTGGTCTGT
66 AATACCTTGGTCTGT
* ** **
109248067 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTAAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTAAATCAGTAAAATTACCAA
109248132 AATACC
66 AATACC
109248138 CCTGATTTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTAAATCAGTAAAATTACCAA
AATACCTTGGTCTGT
Found at i:109248145 original size:27 final size:26
Alignment explanation
Indices: 109247973--109248145 Score: 148
Period size: 27 Copynumber: 6.4 Consensus size: 26
109247963 ATTACTGTTT
** *
109247973 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCT-GATTTGTAAAATTACCAAAA
* **
109248000 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCC-TGATTTGTAAAATTACCAAAA
** *
109248027 TACCCTCGATCAGTAAAATTAGCAAAA
1 TACCCT-GATTTGTAAAATTACCAAAA
* * * * *
109248054 TACCTTGGTCTGTAAAATTGCTAAAA
1 TACCCTGATTTGTAAAATTACCAAAA
*
109248080 TACCCCTGGTTTGTAAAATTACCAAAA
1 TA-CCCTGATTTGTAAAATTACCAAAA
*
109248107 TACCCTAAATTTGTAAAATTACCAAAA
1 TACCCT-GATTTGTAAAATTACCAAAA
109248134 TACCCCTGATTT
1 TA-CCCTGATTT
109248146 ATAAGGTTAC
Statistics
Matches: 120, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
26 22 0.18
27 93 0.77
28 5 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (26 bp):
TACCCTGATTTGTAAAATTACCAAAA
Found at i:109248216 original size:27 final size:26
Alignment explanation
Indices: 109248173--109248228 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 26
109248163 CCCTTGACTT
109248173 TTTAAAAATTATGGAAAT-ACCATTGG
1 TTTAAAAATTATGGAAATAACC-TTGG
109248199 TTTACAAAATTACT-GAAATAACCTTGG
1 TTTA-AAAATTA-TGGAAATAACCTTGG
109248226 TTT
1 TTT
109248229 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 4 0.15
27 19 0.70
28 4 0.15
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (26 bp):
TTTAAAAATTATGGAAATAACCTTGG
Found at i:109248312 original size:27 final size:27
Alignment explanation
Indices: 109248282--109248372 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
109248272 ACCCCTATTA
*
109248282 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
109248309 GGTAAAGTGACCATAAAGCTCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
109248336 GGTAAAGTGACCGTAATA--CCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
109248362 GGTAAAATGAC
1 GGTAAAATGAC
109248373 GAATATGCCC
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 16 0.29
27 38 0.69
28 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:109249267 original size:26 final size:26
Alignment explanation
Indices: 109249181--109249276 Score: 151
Period size: 25 Copynumber: 3.8 Consensus size: 26
109249171 AGGAAGTGCT
*
109249181 AAAAGGGCTATGCCCCAGTTT-TCCG
1 AAAAGGGCTTTGCCCCAGTTTATCCG
109249206 AAAAGGGCTTTGCCCCAGTTTA-CCG
1 AAAAGGGCTTTGCCCCAGTTTATCCG
**
109249231 AAAAGGGCTTTGCCCCAGTTTATCAA
1 AAAAGGGCTTTGCCCCAGTTTATCCG
109249257 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
109249277 ATTAAAAGAG
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
25 45 0.68
26 21 0.32
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTTGCCCCAGTTTATCCG
Found at i:109249276 original size:51 final size:50
Alignment explanation
Indices: 109249181--109249276 Score: 156
Period size: 51 Copynumber: 1.9 Consensus size: 50
109249171 AGGAAGTGCT
**
109249181 AAAAGGGCTATGCCCCAGTTTTCCGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTTCAAAAAAGGGCTTTGCCCCAGTTTACCG
*
109249231 AAAAGGGCTTTGCCCCAGTTTATCAAAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTATGCCCCAGTTT-TCAAAAAAGGGCTTTGCCCCAGTT
109249277 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 20 0.48
51 22 0.52
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTTCAAAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:109249300 original size:51 final size:50
Alignment explanation
Indices: 109249179--109249301 Score: 151
Period size: 50 Copynumber: 2.4 Consensus size: 50
109249169 GGAGGAAGTG
**
109249179 CTAAAAGGGCTATGCCCCAGTTTTCCGAAAAGGGCTTTGCCCCAGTTTAC
1 CTAAAAGGGCTATGCCCCAGTTTTCAAAAAAGGGCTTTGCCCCAGTTTAC
* *
109249229 CGAAAAGGGCTTTGCCCCAGTTTATCAAAAAAGGGCTTTGCCCCAG-TTA-
1 CTAAAAGGGCTATGCCCCAGTTT-TCAAAAAAGGGCTTTGCCCCAGTTTAC
* *
109249278 TTAAAAGAGGCTAGGCCTCCAGTT
1 CTAAAAG-GGCTATGCC-CCAGTT
109249302 ATATGATAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
49 5 0.08
50 31 0.50
51 26 0.42
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (50 bp):
CTAAAAGGGCTATGCCCCAGTTTTCAAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:109249481 original size:42 final size:42
Alignment explanation
Indices: 109249422--109249513 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
109249412 TAGTCTCCCC
*
109249422 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATATGATATTG
* *
109249464 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATATGATATTG
109249506 AAATGGGC
1 AAATGGGC
109249514 CTATGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATATGATATTG
Found at i:109252414 original size:17 final size:17
Alignment explanation
Indices: 109252400--109252523 Score: 94
Period size: 19 Copynumber: 6.9 Consensus size: 17
109252390 ATAATCTTCA
109252400 ATGATATGCAATCTTAT
1 ATGATATGCAATCTTAT
*
109252417 ATGTGATATGCAATCTTAG
1 A--TGATATGCAATCTTAT
109252436 AT-ATGATGCAATCTTAGAT
1 ATGAT-ATGCAATCTT--AT
*
109252455 ATGAT-TGCAATCTTAG
1 ATGATATGCAATCTTAT
*
109252471 AT-ATAATACAATCTTAGAT
1 ATGAT-ATGCAATCTT--AT
109252490 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTT--AT
*
109252508 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
109252524 GAAGATATGA
Statistics
Matches: 88, Mismatches: 7, Indels: 24
0.74 0.06 0.20
Matches are distributed among these distances:
15 2 0.02
16 5 0.06
17 21 0.24
18 26 0.30
19 30 0.34
20 4 0.05
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (17 bp):
ATGATATGCAATCTTAT
Found at i:109252470 original size:35 final size:35
Alignment explanation
Indices: 109252405--109252512 Score: 171
Period size: 35 Copynumber: 3.1 Consensus size: 35
109252395 CTTCAATGAT
* *
109252405 ATGCAATCTTATATGTGATATGCAATCTTAGATATG
1 ATGCAATCTTAGATATGAT-TGCAATCTTAGATATG
*
109252441 ATGCAATCTTAGATATGATTGCAATCTTAGATATA
1 ATGCAATCTTAGATATGATTGCAATCTTAGATATG
*
109252476 ATACAATCTTAGATATGATTGCAATCTTAGATATG
1 ATGCAATCTTAGATATGATTGCAATCTTAGATATG
109252511 AT
1 AT
109252513 ATACAATCTT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
35 50 0.75
36 17 0.25
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (35 bp):
ATGCAATCTTAGATATGATTGCAATCTTAGATATG
Found at i:109265792 original size:22 final size:21
Alignment explanation
Indices: 109265755--109265797 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
109265745 AATAATAACG
*
109265755 ATATATAAACATATAA-ATGT
1 ATATATAAAAATATAATATGT
109265775 ATATATTAAAAATAATAATATGT
1 ATATA-TAAAAAT-ATAATATGT
109265798 GTACATAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 4 0.21
23 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (21 bp):
ATATATAAAAATATAATATGT
Found at i:109266052 original size:12 final size:12
Alignment explanation
Indices: 109266031--109266061 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
109266021 TTAATAATGC
109266031 TATATA-ACATA
1 TATATATACATA
109266042 TATATATACATA
1 TATATATACATA
109266054 TATATATA
1 TATATATA
109266062 ATGAAAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATACATA
Found at i:109266517 original size:27 final size:27
Alignment explanation
Indices: 109266484--109266542 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
109266474 TGGTAATAAT
*
109266484 AATAATAATAACAGTTAAAATAATGCTAAA
1 AATAA-AA-AACAGTGAAAATAATG-TAAA
*
109266514 AATAAAAAAGAGTGAAAATAATGTAAA
1 AATAAAAAACAGTGAAAATAATGTAAA
109266541 AA
1 AA
109266543 CCAGATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 6 0.22
28 14 0.52
29 2 0.07
30 5 0.19
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.22
Consensus pattern (27 bp):
AATAAAAAACAGTGAAAATAATGTAAA
Found at i:109278816 original size:21 final size:22
Alignment explanation
Indices: 109278787--109278827 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
109278777 AAAAAAAAAC
*
109278787 TGTTATTTTTT-ACTGTTTTCT
1 TGTTATTTTTTCACTATTTTCT
*
109278808 TGTTTTTTTTTCACTATTTT
1 TGTTATTTTTTCACTATTTT
109278828 GCTACCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.10, C:0.10, G:0.07, T:0.73
Consensus pattern (22 bp):
TGTTATTTTTTCACTATTTTCT
Found at i:109283372 original size:17 final size:18
Alignment explanation
Indices: 109283352--109283385 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
109283342 AAGTGAATTG
109283352 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
109283369 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
109283386 AAGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:109284122 original size:21 final size:22
Alignment explanation
Indices: 109284093--109284138 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
109284083 AGTCTATTCC
**
109284093 TAATGAAATTCTAAAAGATAAA
1 TAATGAAATAATAAAAGATAAA
*
109284115 TAAT-AAATAATTAAAGATAAA
1 TAATGAAATAATAAAAGATAAA
109284136 TAA
1 TAA
109284139 AGATAAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (22 bp):
TAATGAAATAATAAAAGATAAA
Found at i:109284139 original size:10 final size:10
Alignment explanation
Indices: 109284106--109284156 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
109284096 TGAAATTCTA
109284106 AAAGATAAAT
1 AAAGATAAAT
* *
109284116 AATAAATAATT
1 AA-AGATAAAT
109284127 AAAGATAAAT
1 AAAGATAAAT
109284137 AAAGATAAAT
1 AAAGATAAAT
109284147 GAAA-ATAAAT
1 -AAAGATAAAT
109284157 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
10 24 0.69
11 11 0.31
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:109286092 original size:16 final size:16
Alignment explanation
Indices: 109286071--109286102 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
109286061 TTCATAAGTA
109286071 TATATCAATATTTCAT
1 TATATCAATATTTCAT
109286087 TATATCAATATTTCAT
1 TATATCAATATTTCAT
109286103 GCTCCATCAT
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:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATCAATATTTCAT
Found at i:109286448 original size:46 final size:45
Alignment explanation
Indices: 109286388--109286568 Score: 227
Period size: 46 Copynumber: 3.9 Consensus size: 45
109286378 TTTGACACGA
* * * *
109286388 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTATCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCTATCATGT
** *
109286434 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TATCATGT
* * *
109286480 TGCCATCGTATCTTTCAACCATGGTCTTATTCATTTCTCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCT-ATCATGT
*
109286526 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TATCA
109286569 GAGAGCACAC
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
45 5 0.04
46 111 0.95
47 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCTATCATGT
Found at i:109286545 original size:92 final size:92
Alignment explanation
Indices: 109286383--109286568 Score: 266
Period size: 92 Copynumber: 2.0 Consensus size: 92
109286373 TTATCTTTGA
* *
109286383 CACGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTATCATATTGCCATGGTATCTT
1 CACGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCTATCATATTGCCATGGTATCTT
***
109286448 TCAACCATGGTCTTGTTCATTTCATAT
66 TCAACCATGGTCTTACACATTTCATAT
* * * * *
109286475 CACGTTGCCATCGTATCTTTCAACCATGGTCTTATTCA-TTTCTCGTCATGTTGCCATGGTATCT
1 CACGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCT-ATCATATTGCCATGGTATCT
109286539 TTCAACCATGGTCTTACACATTTCATAT
65 TTCAACCATGGTCTTACACATTTCATAT
109286567 CA
1 CA
109286569 GAGAGCACAC
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 5 0.06
92 78 0.94
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.41
Consensus pattern (92 bp):
CACGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCTATCATATTGCCATGGTATCTT
TCAACCATGGTCTTACACATTTCATAT
Found at i:109289962 original size:26 final size:26
Alignment explanation
Indices: 109289926--109290035 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
109289916 TGATACAAAT
*
109289926 TGATAATAGGTTAGGTAAAGGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
109289952 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
109289978 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
109290004 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
109290030 TGATAA
1 TGATAA
109290036 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:109291694 original size:27 final size:26
Alignment explanation
Indices: 109291653--109291738 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
109291643 GAGGAAGCGT
* *
109291653 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCAC-ATTATCTGA
109291680 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTG-A
* * * *
109291708 TTTGGTGACTCTGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACATTATCTGA
109291734 TCTGG
1 TCTGG
109291739 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.08
27 31 0.62
28 15 0.30
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.37
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACATTATCTGA
Found at i:109302811 original size:15 final size:13
Alignment explanation
Indices: 109302783--109302808 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
109302773 TTTCGCTTCC
109302783 AAAATCAATTTTT
1 AAAATCAATTTTT
109302796 AAAATCAATTTTT
1 AAAATCAATTTTT
109302809 TTATTTTTTC
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATCAATTTTT
Found at i:109308367 original size:6 final size:6
Alignment explanation
Indices: 109308356--109308437 Score: 91
Period size: 6 Copynumber: 13.7 Consensus size: 6
109308346 CCAATCTTTC
*
109308356 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTATT- TTTTT- CTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA
109308403 TTATTTA TTATTT- TCTTTTA TTTTTA -TTTTA TTTT
1 TT-TTTA TT-TTTA T-TTTTA TTTTTA TTTTTA TTTT
109308438 AGTTAAATAT
Statistics
Matches: 68, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
5 11 0.16
6 43 0.63
7 14 0.21
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:109308962 original size:18 final size:17
Alignment explanation
Indices: 109308942--109309023 Score: 64
Period size: 18 Copynumber: 4.8 Consensus size: 17
109308932 CTGGCTGTTG
109308942 ATTATATAATTTAAATT
1 ATTATATAATTTAAATT
*
109308959 GATTATATAATTAAAAATT
1 -ATTATATAATT-TAAATT
109308978 ATTATCAT--TTT--ATCT
1 ATTAT-ATAATTTAAAT-T
* *
109308993 AATAAATAATTTAAATT
1 ATTATATAATTTAAATT
109309010 AATTATATAATTTA
1 -ATTATATAATTTA
109309024 TTAAAATATT
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
14 4 0.08
15 4 0.08
16 3 0.06
17 3 0.06
18 29 0.58
19 7 0.14
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (17 bp):
ATTATATAATTTAAATT
Found at i:109309041 original size:22 final size:21
Alignment explanation
Indices: 109309003--109309051 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
109308993 AATAAATAAT
* **
109309003 TTAAATTAATTATATAATTTA
1 TTAAAATAATTATATAAAATA
*
109309024 TTAAAATATTTATAATAAAATA
1 TTAAAATAATTAT-ATAAAATA
109309046 TTAAAA
1 TTAAAA
109309052 GATACATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAAATAATTATATAAAATA
Found at i:109309266 original size:21 final size:21
Alignment explanation
Indices: 109309240--109309292 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
109309230 CCCTGTTTCT
*
109309240 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
109309261 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
109309282 AATCTCACCGC
1 AATCTCACCGC
109309293 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:109310351 original size:118 final size:118
Alignment explanation
Indices: 109310143--109310378 Score: 382
Period size: 118 Copynumber: 2.0 Consensus size: 118
109310133 TGTTTTCCAT
* * *
109310143 GGTTATGAGTACAGCTTAGATCGTTACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
*
109310208 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAACCGA
**
109310261 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
109310326 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTAACCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAACCGA
109310379 AAATAAATAA
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 108 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAACCGA
Found at i:109310514 original size:10 final size:10
Alignment explanation
Indices: 109310501--109310539 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
109310491 TAAAATTTAA
109310501 AAAAAAAAAG
1 AAAAAAAAAG
109310511 AAAAAAAAAG
1 AAAAAAAAAG
109310521 -AAAAAAAAG
1 AAAAAAAAAG
109310530 AAGAAAAAAA
1 AA-AAAAAAA
109310540 TAAGTACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.33
10 11 0.41
11 7 0.26
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:109310514 original size:12 final size:12
Alignment explanation
Indices: 109310499--109310539 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
109310489 AATAAAATTT
109310499 AAAAAAAAAAAG
1 AAAAAAAAAAAG
109310511 --AAAAAAAAAG
1 AAAAAAAAAAAG
*
109310521 AAAAAAAAGAAG
1 AAAAAAAAAAAG
109310533 AAAAAAA
1 AAAAAAA
109310540 TAAGTACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 10 0.38
12 16 0.62
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:109312221 original size:25 final size:23
Alignment explanation
Indices: 109312186--109312298 Score: 66
Period size: 25 Copynumber: 4.6 Consensus size: 23
109312176 CATTCACATT
*
109312186 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTT--CTGATA
*
109312211 CTGATTCTGATTCTAATTCTG-TCA
1 CTGATTCTGATTCT-GTTCTGAT-A
* * * *
109312235 CCTAATTCTGATTATGATTTTGATT
1 -CTGATTCTGATTCTG-TTCTGATA
* * *
109312260 CTGATTCTGATTTTGTCACCTGATT
1 CTGATTCTGATTCTGT--TCTGATA
109312285 CTGATTCTGATTCT
1 CTGATTCTGATTCT
109312299 TATTTTGATT
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
23 2 0.03
24 17 0.25
25 47 0.68
26 3 0.04
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (23 bp):
CTGATTCTGATTCTGTTCTGATA
Found at i:109312221 original size:31 final size:31
Alignment explanation
Indices: 109312183--109312262 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
109312173 TTGCATTCAC
* *
109312183 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTCACCTAATACTG
* * *
109312214 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTCACCTAATACTG
*
109312245 ATTATGATTTTGATTCTG
1 ATTCTGATTTTGATTCTG
109312263 ATTCTGATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTAATACTG
Found at i:109312222 original size:6 final size:6
Alignment explanation
Indices: 109312183--109312310 Score: 82
Period size: 6 Copynumber: 20.8 Consensus size: 6
109312173 TTGCATTCAC
* * *
109312183 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
109312232 -TCACCTA ATTCTG ATTATG ATTTTG ATTCTG ATTCTG ATTTTG -TCACCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
109312282 ATTCTG ATTCTG ATTCTT ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
109312311 AGTTCAGATA
Statistics
Matches: 92, Mismatches: 21, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
5 4 0.04
6 78 0.85
7 7 0.08
8 3 0.03
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:109312259 original size:43 final size:44
Alignment explanation
Indices: 109312212--109312311 Score: 141
Period size: 43 Copynumber: 2.3 Consensus size: 44
109312202 TACCTGATAC
109312212 TGATTCTGATTCTAATTCTGTCACCTAATTCTGATTATGATT-T
1 TGATTCTGATTCTAATTCTGTCACCTAATTCTGATTATGATTCT
* * * *
109312255 TGATTCTGATTCTGATTTTGTCACCTGATTCTGATTCTGATTCT
1 TGATTCTGATTCTAATTCTGTCACCTAATTCTGATTATGATTCT
*
109312299 T-ATTTTGATTCTA
1 TGATTCTGATTCTA
109312312 GTTCAGATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
43 48 0.96
44 2 0.04
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.51
Consensus pattern (44 bp):
TGATTCTGATTCTAATTCTGTCACCTAATTCTGATTATGATTCT
Found at i:109314057 original size:17 final size:17
Alignment explanation
Indices: 109314035--109314068 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
109314025 ATCCACTAAT
*
109314035 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
109314052 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
109314069 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:109318695 original size:17 final size:17
Alignment explanation
Indices: 109318673--109318706 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
109318663 ATCCACTAAT
*
109318673 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
109318690 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
109318707 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:109323485 original size:19 final size:19
Alignment explanation
Indices: 109323461--109323501 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
109323451 TTAAATTGTT
*
109323461 TTATAATATGAAATGAATA
1 TTATAATATGAAAGGAATA
*
109323480 TTATAATATTAAAGGAATA
1 TTATAATATGAAAGGAATA
109323499 TTA
1 TTA
109323502 ATACTATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (19 bp):
TTATAATATGAAAGGAATA
Found at i:109325285 original size:39 final size:39
Alignment explanation
Indices: 109325231--109325526 Score: 520
Period size: 39 Copynumber: 7.5 Consensus size: 39
109325221 TAATGGAGAA
109325231 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
109325270 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
109325309 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
109325348 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
109325387 TTATATCCGGGCCAAGTCCCGAAAGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
109325426 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
109325465 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
109325504 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
109325527 CATGCTTTGT
Statistics
Matches: 246, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
39 237 0.96
40 1 0.00
41 8 0.03
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:109325630 original size:39 final size:39
Alignment explanation
Indices: 109325576--109325658 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
109325566 AGCAGACTTA
* *
109325576 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTAGTATTATATCC
*
109325615 GGGCTAAGTCCCGAAGGCATTCGTGCTAGTATTATATCT
1 GGGCTAAGTCCCGAAGGCATTCGTGCTAGTATTATATCC
109325654 GGGCT
1 GGGCT
109325659 TAAAGTCCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCTAGTATTATATCC
Found at i:109325690 original size:142 final size:142
Alignment explanation
Indices: 109325434--109325717 Score: 541
Period size: 142 Copynumber: 2.0 Consensus size: 142
109325424 TGTTATATCC
109325434 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
109325499 TGGTATTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGTGATTTGATTTTGGTTTTAAAT
66 TAGTATTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGTGATTTGATTTTGGTTTTAAAT
109325564 CTAGCAGACTTA
131 CTAGCAGACTTA
109325576 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
109325641 TAGTATTATATCTGGGCTTAAAGTCCTGCATGCTTTGTGGTGGTGATTTGATTTTGGTTTTAAAT
66 TAGTATTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGTGATTTGATTTTGGTTTTAAAT
109325706 CTAGCAGACTTA
131 CTAGCAGACTTA
109325718 ATGCCGATGA
Statistics
Matches: 139, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
142 139 1.00
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (142 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
TAGTATTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGTGATTTGATTTTGGTTTTAAAT
CTAGCAGACTTA
Found at i:109334140 original size:34 final size:34
Alignment explanation
Indices: 109334073--109334141 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
109334063 AGCCAGAGAT
*
109334073 GCATCAAATAAATACTAAATATGAAGAGAGATAG
1 GCATCAAATAAATACTAAATATGAAAAGAGATAG
*
109334107 GCATCAAATAGATACTAAATATGAAAATG-GATAG
1 GCATCAAATAAATACTAAATATGAAAA-GAGATAG
109334141 G
1 G
109334142 GAACTAGATC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.22
Consensus pattern (34 bp):
GCATCAAATAAATACTAAATATGAAAAGAGATAG
Found at i:109335797 original size:51 final size:51
Alignment explanation
Indices: 109335738--109335841 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
109335728 GATTCTTCCA
109335738 TCGATATTACCTCTCCCCATAGATCAACAATGTTTAGAAAAATAATCATAT
1 TCGATATTACCTCTCCCCATAGATCAACAATGTTTAGAAAAATAATCATAT
* *
109335789 TCGATATTACCTCTTCCCATAGATCAACAATGTTTAGAAAAATAATCGTAT
1 TCGATATTACCTCTCCCCATAGATCAACAATGTTTAGAAAAATAATCATAT
109335840 TC
1 TC
109335842 CAACTGTTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.33
Consensus pattern (51 bp):
TCGATATTACCTCTCCCCATAGATCAACAATGTTTAGAAAAATAATCATAT
Found at i:109339530 original size:16 final size:17
Alignment explanation
Indices: 109339491--109339528 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
109339481 TATATATATA
109339491 TTTTTCCCTAAAAGTTT
1 TTTTTCCCTAAAAGTTT
109339508 TTTTTCCCTAAAAGTTT
1 TTTTTCCCTAAAAGTTT
109339525 TTTT
1 TTTT
109339529 CCTTCAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTTTCCCTAAAAGTTT
Found at i:109343481 original size:114 final size:114
Alignment explanation
Indices: 109343281--109343492 Score: 352
Period size: 114 Copynumber: 1.9 Consensus size: 114
109343271 ATAATGGATC
* * *
109343281 AAATGCTTACCTTTTATGCTTCTTTGCTTCATGTTTAAGGCTTGCACCATAGATGACACCTACCA
1 AAATGCTTACCTTTAATGCTTATTTGCTTCATGGTTAAGGCTTGCACCATAGATGACACCTACCA
*
109343346 ACTCACATTTTGCTTGCTTATTTATTCCTCTTAGTCAAATTTGCCTATT
66 ACCCACATTTTGCTTGCTTATTTATTCCTCTTAGTCAAATTTGCCTATT
* * *
109343395 AAATGCTTACCTTTAATGCTTATTTGCTTCATGGTTAAGGTTTGGACCATAGCTGACACCTACCA
1 AAATGCTTACCTTTAATGCTTATTTGCTTCATGGTTAAGGCTTGCACCATAGATGACACCTACCA
*
109343460 ACCCCCATTTTGCTTGCTTATTTATTCCTCTTA
66 ACCCACATTTTGCTTGCTTATTTATTCCTCTTA
109343493 CTGAATTACA
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 90 1.00
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (114 bp):
AAATGCTTACCTTTAATGCTTATTTGCTTCATGGTTAAGGCTTGCACCATAGATGACACCTACCA
ACCCACATTTTGCTTGCTTATTTATTCCTCTTAGTCAAATTTGCCTATT
Found at i:109346385 original size:29 final size:29
Alignment explanation
Indices: 109346343--109346398 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
109346333 CTTCTACAAG
109346343 TTGGCACTTCAATTGCCTCCCTCAGCTGC
1 TTGGCACTTCAATTGCCTCCCTCAGCTGC
*
109346372 TTGGCACTTCAATTGCCTCCTTCAGCT
1 TTGGCACTTCAATTGCCTCCCTCAGCT
109346399 TGCAGCTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.14, C:0.36, G:0.16, T:0.34
Consensus pattern (29 bp):
TTGGCACTTCAATTGCCTCCCTCAGCTGC
Found at i:109348995 original size:17 final size:17
Alignment explanation
Indices: 109348973--109349007 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
109348963 ATTATGCCAA
109348973 ATTAAAGTATATAGACT
1 ATTAAAGTATATAGACT
109348990 ATTAAAGTATATAGACT
1 ATTAAAGTATATAGACT
109349007 A
1 A
109349008 AATCCCAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (17 bp):
ATTAAAGTATATAGACT
Found at i:109359388 original size:11 final size:12
Alignment explanation
Indices: 109359363--109359391 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
109359353 TTTGATTCGC
109359363 TTATATTATTTT
1 TTATATTATTTT
109359375 TTATATTA-TTT
1 TTATATTATTTT
109359386 TTATAT
1 TTATAT
109359392 AAAAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATATTATTTT
Found at i:109359614 original size:36 final size:33
Alignment explanation
Indices: 109359546--109359635 Score: 81
Period size: 36 Copynumber: 2.6 Consensus size: 33
109359536 AAACAGTAGC
* * *
109359546 AAAATTAATAATAAAATAATATTTATACAATATCT
1 AAAA-TAACAATAAAATAATAGTAATACAATAT-T
* *
109359581 AAATAATAACAATAAAATAGTAGTAATATAATATT
1 -AA-AATAACAATAAAATAATAGTAATACAATATT
* *
109359616 AAAATGACAATAAAACAATA
1 AAAATAACAATAAAATAATA
109359636 TCAAAATGGC
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
33 15 0.33
34 2 0.04
35 1 0.02
36 25 0.56
37 2 0.04
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (33 bp):
AAAATAACAATAAAATAATAGTAATACAATATT
Found at i:109359635 original size:22 final size:22
Alignment explanation
Indices: 109359610--109359652 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
109359600 GTAGTAATAT
* *
109359610 AATATTAAAATGACAATAAAAC
1 AATATCAAAATGACAACAAAAC
*
109359632 AATATCAAAATGGCAACAAAA
1 AATATCAAAATGACAACAAAA
109359653 TAGCAGTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.12, G:0.07, T:0.19
Consensus pattern (22 bp):
AATATCAAAATGACAACAAAAC
Found at i:109364696 original size:18 final size:19
Alignment explanation
Indices: 109364654--109364695 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
109364644 TTTCATGTCA
* *
109364654 AAAAATATTTTAAAATTAT
1 AAAAATATTTAAAAAATAT
109364673 AAAAATATTTAAAAAATAT
1 AAAAATATTTAAAAAATAT
109364692 AAAA
1 AAAA
109364696 TTATAAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATATTTAAAAAATAT
Found at i:109366952 original size:50 final size:50
Alignment explanation
Indices: 109366877--109366979 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
109366867 AGTCTCGATG
109366877 ACTTTAAATACCATAGAAACTAAATTGACTCATGATATTCAAGGACACGA
1 ACTTTAAATACCATAGAAACTAAATTGACTCATGATATTCAAGGACACGA
109366927 ACTTTAAATACCATAGAAACTAAATTGACTCATGATATTCAAGGACACGA
1 ACTTTAAATACCATAGAAACTAAATTGACTCATGATATTCAAGGACACGA
109366977 ACT
1 ACT
109366980 ATAGAGGTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (50 bp):
ACTTTAAATACCATAGAAACTAAATTGACTCATGATATTCAAGGACACGA
Found at i:109379590 original size:73 final size:71
Alignment explanation
Indices: 109379454--109379620 Score: 237
Period size: 73 Copynumber: 2.3 Consensus size: 71
109379444 GAGTTAAGCC
** * *
109379454 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
109379518 TGAGGTA
65 TGAGGTA
*
109379525 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATATGCGAGAGGTGAGTTGAGCCTCAGGTCACG
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATAT-TGCGAGAGGTGAGTTGAGCCTCAGGGCACG
109379590 CTGAGGTA
64 CTGAGGTA
* *
109379598 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
109379621 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
71 4 0.05
72 30 0.35
73 52 0.60
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:109379715 original size:140 final size:140
Alignment explanation
Indices: 109379552--109380082 Score: 1008
Period size: 140 Copynumber: 3.8 Consensus size: 140
109379542 TTAATTTCAA
109379552 CTCATATATGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCA
1 CTCATAT-TGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCA
109379617 ATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTT
65 ATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTT
*
109379682 TTTAAAATCAG
130 TTCAAAATCAG
*
109379693 CTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* *
109379758 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCATTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTT
109379823 TCAAAATCAG
131 TCAAAATCAG
109379833 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
109379898 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTT
109379963 TCAAAATCAG
131 TCAAAATCAG
109379973 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
109380038 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGA
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGA
109380083 GCTTCAGATC
Statistics
Matches: 383, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
140 376 0.98
141 7 0.02
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:109380205 original size:14 final size:13
Alignment explanation
Indices: 109380186--109380223 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
109380176 TGTTGAGGTA
109380186 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
109380199 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
109380213 TTTTCAAAATC
1 TTTTCAAAATC
109380224 AACTCATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.29, C:0.16, G:0.05, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:109380290 original size:87 final size:88
Alignment explanation
Indices: 109380131--109380295 Score: 233
Period size: 87 Copynumber: 1.9 Consensus size: 88
109380121 ATTTTTCAAA
* * * *
109380131 AAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTTCAAAAT
1 AAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAAAT
109380196 C-TGTTTTTCAAATTCTGTTTTC
66 CTTGTTTTTCAAATTCTGTTTTC
* * * **
109380218 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTT
1 AAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAAAT
*
109380283 CTTTTTTTTCAAA
66 CTTGTTTTTCAAA
109380296 AAAATTCAAC
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
87 57 0.85
88 10 0.15
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (88 bp):
AAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAAAT
CTTGTTTTTCAAATTCTGTTTTC
Found at i:109380308 original size:166 final size:164
Alignment explanation
Indices: 109379965--109380328 Score: 459
Period size: 166 Copynumber: 2.2 Consensus size: 164
109379955 CTACTTTTTC
* **
109379965 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAAAATCT
* *
109380030 GTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
66 GTTTTCAAATTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCAC
*
109380095 ACACTGAGGTATTTTTTTCAATTTATATTTTTCAAA
131 ACACTGAGCTA--TTTTTCAATTTATATTTTTCAAA
* * * *
109380131 AAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTTCAAAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC--GCTGAGGTATTTTCAAAAT
*
109380196 CTGTTTTTCAAATT-CTGTT-TTCAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT-GG
64 CTG-TTTTCAAATTAC-GTTGTTCAAGAATCAACTCATATTGCGAGAAGTGAGTTGAG-CTTCAG
* *** * *
109380257 CTCACGTGCTGAGCTA-TTTTCAATTTCTTTTTTTTCAAA
126 ATCACACACTGAGCTATTTTTCAATTT-ATATTTTTCAAA
109380296 AAAATTCAACTCATATTGCGAGAGGTGAGTTGA
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGA
109380329 ACTTTTTAAT
Statistics
Matches: 172, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
164 10 0.06
165 14 0.08
166 66 0.38
167 42 0.24
168 28 0.16
169 12 0.07
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (164 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAAAATCT
GTTTTCAAATTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCAC
ACACTGAGCTATTTTTCAATTTATATTTTTCAAA
Found at i:109380348 original size:30 final size:30
Alignment explanation
Indices: 109380312--109380373 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
109380302 CAACTCATAT
109380312 TGCGAGAGGTGAGTTGAACT-TTTTAATTTC
1 TGCGAGAGGTGAGTTG-ACTCTTTTAATTTC
* *
109380342 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGACTCTTTTAATTTC
109380372 TG
1 TG
109380374 TTTTTCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.21, C:0.10, G:0.27, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGACTCTTTTAATTTC
Done.