Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 45 of 109
Found at i:7693475 original size:37 final size:34
Alignment explanation
Indices: 7693408--7693505 Score: 108
Period size: 37 Copynumber: 2.8 Consensus size: 34
7693398 GGTAAGCCCA
* *
7693408 TTTTCTTTTTTATTTTTATTTTTATATTTTATATTCT
1 TTTTCTATTTTATTTTTA-TTTTAT-TTTTTTATT-T
*
7693445 TATTCTATTTTATTTTTATTTTATTTTTTTATTT
1 TTTTCTATTTTATTTTTATTTTATTTTTTTATTT
* * *
7693479 TTTTATATATT-TTTTTCTTTTATTTTT
1 TTTTCTATTTTATTTTTATTTTATTTTT
7693506 ATCTTATGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
33 15 0.28
34 9 0.17
35 8 0.15
36 6 0.11
37 16 0.30
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (34 bp):
TTTTCTATTTTATTTTTATTTTATTTTTTTATTT
Found at i:7693489 original size:20 final size:19
Alignment explanation
Indices: 7693414--7693504 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 19
7693404 CCCATTTTCT
*
7693414 TTTTTATTTTTATTTTTATA
1 TTTTTA-TTTTATTTTTTTA
7693434 TTTTATATTCTTATTCTATTTTA
1 TTTT-TATT-TTATT-T-TTTTA
7693457 TTTTTATTTTATTTTTTTA
1 TTTTTATTTTATTTTTTTA
7693476 TTTTT-TTATATATTTTTTT-
1 TTTTTATT-T-TATTTTTTTA
*
7693495 CTTTTATTTT
1 TTTTTATTTT
7693505 TATCTTATGT
Statistics
Matches: 62, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
18 3 0.05
19 16 0.26
20 18 0.29
21 12 0.19
22 5 0.08
23 8 0.13
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTATTTTATTTTTTTA
Found at i:7693624 original size:22 final size:21
Alignment explanation
Indices: 7693586--7693653 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
7693576 GTTTTGTTAA
7693586 TATT-TATATGTAT-ATTTATC
1 TATTATATAT-TATAATTTATC
7693606 TGATTATATATTATAATTTATC
1 T-ATTATATATTATAATTTATC
* *
7693628 TATTATTTATTTTTAATTTATC
1 TATTATATA-TTATAATTTATC
7693650 TATT
1 TATT
7693654 TTTTTTGGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.02
21 13 0.31
22 28 0.67
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (21 bp):
TATTATATATTATAATTTATC
Found at i:7694554 original size:24 final size:23
Alignment explanation
Indices: 7694510--7694554 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
7694500 TTCCAGGTTT
* * *
7694510 TTTTTTTTTTTTTTTCTTTTTCA
1 TTTTCTTTTTTTTATATTTTTCA
7694533 TTTTCTTTTTTTTATATATTTT
1 TTTTCTTTTTTTTATAT-TTTT
7694555 ATATATTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTCTTTTTTTTATATTTTTCA
Found at i:7694612 original size:6 final size:6
Alignment explanation
Indices: 7694601--7694697 Score: 69
Period size: 6 Copynumber: 16.5 Consensus size: 6
7694591 TTTAATACTC
* ** *
7694601 TTTTAT TTTTAT CTTTA- TTTTAT TTTTA- TTTTCG TTTTAT TTTTCT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * *
7694647 TTAT-T TTTTATT TTTTAT TTTCAC TTTTAT TTTGT-T TTATTA- TTTTAT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTT-TAT TT-TTAT TTTTAT
7694695 TTT
1 TTT
7694698 CTTTAAATAA
Statistics
Matches: 71, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
5 15 0.21
6 48 0.68
7 8 0.11
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:7694621 original size:17 final size:16
Alignment explanation
Indices: 7694601--7694697 Score: 86
Period size: 17 Copynumber: 5.6 Consensus size: 16
7694591 TTTAATACTC
7694601 TTTTATTTTTATCTTTA
1 TTTTATTTTTAT-TTTA
*
7694618 TTTTATTTTTATTTTCG
1 TTTTATTTTTATTTT-A
* *
7694635 TTTTATTTTTCTTTATT
1 TTTTATTTTTATTT-TA
7694652 TTTTATTTTTTATTTTCA
1 TTTTA-TTTTTATTTT-A
*
7694670 CTTTTATTTTGTTTTATTA
1 -TTTTATTTT-TATT-TTA
7694689 TTTTATTTT
1 TTTTATTTT
7694698 CTTTAAATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
16 3 0.04
17 31 0.46
18 22 0.33
19 9 0.13
20 2 0.03
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:7694622 original size:5 final size:5
Alignment explanation
Indices: 7694601--7694697 Score: 69
Period size: 5 Copynumber: 18.8 Consensus size: 5
7694591 TTTAATACTC
*
7694601 TTTTA TTTTTA TCTTTA TTTTA TTTTTA TTTTCG TTTTA TTTT- TCTTTA
1 TTTTA -TTTTA T-TTTA TTTTA -TTTTA TTTT-A TTTTA TTTTA T-TTTA
*
7694650 TTTT- TTATT- TTTTA TTTTCA CTTTTA TTTTG TTTTA --TTA TTTTA
1 TTTTA TT-TTA TTTTA TTTT-A -TTTTA TTTTA TTTTA TTTTA TTTTA
7694694 TTTT
1 TTTT
7694698 CTTTAAATAA
Statistics
Matches: 76, Mismatches: 4, Indels: 23
0.74 0.04 0.22
Matches are distributed among these distances:
3 3 0.04
4 5 0.07
5 42 0.55
6 22 0.29
7 4 0.05
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:7694654 original size:11 final size:10
Alignment explanation
Indices: 7694601--7694655 Score: 56
Period size: 11 Copynumber: 5.1 Consensus size: 10
7694591 TTTAATACTC
7694601 TTTTATTTTT
1 TTTTATTTTT
7694611 ATCTTTATTTTAT
1 -T-TTTATTTT-T
*
7694624 TTTTATTTTCG
1 TTTTATTTT-T
7694635 TTTTATTTTT
1 TTTTATTTTT
*
7694645 CTTTATTTTT
1 TTTTATTTTT
7694655 T
1 T
7694656 ATTTTTTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
10 9 0.24
11 18 0.49
12 9 0.24
13 1 0.03
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:7694686 original size:36 final size:36
Alignment explanation
Indices: 7694600--7694697 Score: 123
Period size: 34 Copynumber: 2.8 Consensus size: 36
7694590 ATTTAATACT
* *
7694600 CTTTTATTTTTATCT-TTATTTTA-TTTTTATTTTC
1 CTTTTATTTTTCTTTATTATTTTATTTTTTATTTTC
*
7694634 GTTTTATTTTTCTTTATT-TTTTATTTTTTATTTTC
1 CTTTTATTTTTCTTTATTATTTTATTTTTTATTTTC
7694669 ACTTTTATTTTGT-TTTATTATTTTATTTT
1 -CTTTTATTTT-TCTTTATTATTTTATTTT
7694698 CTTTAAATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
34 17 0.31
35 13 0.24
36 15 0.27
37 10 0.18
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (36 bp):
CTTTTATTTTTCTTTATTATTTTATTTTTTATTTTC
Found at i:7695048 original size:60 final size:58
Alignment explanation
Indices: 7694715--7695047 Score: 374
Period size: 57 Copynumber: 5.7 Consensus size: 58
7694705 TAAAATCCAA
* * *
7694715 AAAAAAAAATTTTTGGGGAAAAGTTCAAAGTATCAATTTTCCTTGAAAA-CAAGCTTTCC
1 AAAAAAAAATTTTT-GAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAG-TTTCC
* *
7694774 AAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC
1 AAAAAAAA-ATTTTTGA-G-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCC
** * *
7694833 -AAAAAAAGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAA-TTTTC
1 AAAAAAAAATTTTTGA-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCC
* * *
7694890 -AAAAAAAGTTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAATTAAAGTTT-C
1 AAAAAAAAATTTTTGAG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCC
* * *
7694947 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC
1 AAAAAAAA-ATTTTTGA-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCC
*
7695007 AAAAAAAAATTTTTAGGAGAAAAATTGAAAGTATCAATTTT
1 AAAAAAAAATTTTT--GAGAAAAGTTGAAAGTATCAATTTT
7695048 TTCCTGTACA
Statistics
Matches: 243, Mismatches: 18, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
56 1 0.00
57 89 0.37
58 20 0.08
59 62 0.26
60 67 0.28
61 4 0.02
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
AAAAAAAAATTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCC
Found at i:7697555 original size:14 final size:14
Alignment explanation
Indices: 7697536--7697565 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7697526 TTTTTTTTTG
7697536 TTAAAGACTTTGCC
1 TTAAAGACTTTGCC
7697550 TTAAAGACTTTGCC
1 TTAAAGACTTTGCC
7697564 TT
1 TT
7697566 CTAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (14 bp):
TTAAAGACTTTGCC
Found at i:7698692 original size:80 final size:80
Alignment explanation
Indices: 7698559--7698721 Score: 256
Period size: 80 Copynumber: 2.0 Consensus size: 80
7698549 GAATATAATC
* *
7698559 GATGATTTTTTATTAAGATGCTTTTTAATATATGATAACTAATTATTATTTTGATTATAAAATAC
1 GATGATTTTTTATTAAGATGATTTTTAATATATGATAACTAATTATTATTTTGACTATAAAATAC
7698624 GATATATTTTATTTT
66 GATATATTTTATTTT
** *
7698639 GATGATTTTTTATTAAGAT-ATTTTTGAATATATGATATTTAATTATTATTTTGACTGTAAAATA
1 GATGATTTTTTATTAAGATGATTTTT-AATATATGATAACTAATTATTATTTTGACTATAAAATA
*
7698703 TGATATATTTTATTTT
65 CGATATATTTTATTTT
7698719 GAT
1 GAT
7698722 TAAAGAGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
79 5 0.07
80 71 0.93
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.53
Consensus pattern (80 bp):
GATGATTTTTTATTAAGATGATTTTTAATATATGATAACTAATTATTATTTTGACTATAAAATAC
GATATATTTTATTTT
Found at i:7700419 original size:18 final size:19
Alignment explanation
Indices: 7700396--7700448 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
7700386 ATTTAAAAAA
*
7700396 TTATATAAAATA-ATTATT
1 TTATATAAAATATATAATT
*
7700414 TTATATTAATATATATAATT
1 TTATA-TAAAATATATAATT
* *
7700434 TTATTTAAAGTATAT
1 TTATATAAAATATAT
7700449 CACATAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 5 0.18
19 14 0.50
20 9 0.32
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTATATAAAATATATAATT
Found at i:7700564 original size:21 final size:23
Alignment explanation
Indices: 7700502--7700567 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 23
7700492 TTAAAAATAT
*
7700502 TTATTTTAATAAAATTCATTAATTA
1 TTATTTTAA-AAAA-TAATTAATTA
*
7700527 TTATTTATAATAAATAATTAA-TA
1 TTATTT-TAAAAAATAATTAATTA
7700550 TT-TTTTAAAAAATAATTA
1 TTATTTTAAAAAATAATTA
7700568 CATAACAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 12 0.32
22 3 0.08
23 4 0.11
24 6 0.16
25 9 0.24
26 3 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TTATTTTAAAAAATAATTAATTA
Found at i:7711589 original size:22 final size:22
Alignment explanation
Indices: 7711564--7711610 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
7711554 TATCAGTTAA
*
7711564 ATTTAATTCATTGATTTTTTAT
1 ATTTAATTCATTGATTTTATAT
**
7711586 ATTTAATTTTTTGATTTTATAT
1 ATTTAATTCATTGATTTTATAT
7711608 ATT
1 ATT
7711611 ATTGTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (22 bp):
ATTTAATTCATTGATTTTATAT
Found at i:7711699 original size:15 final size:16
Alignment explanation
Indices: 7711671--7711701 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7711661 TATTTTTATT
7711671 TTATAAAAAGTTAATA
1 TTATAAAAAGTTAATA
7711687 TTATAAAAA-TTAATA
1 TTATAAAAAGTTAATA
7711702 AAAATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
TTATAAAAAGTTAATA
Found at i:7712359 original size:29 final size:31
Alignment explanation
Indices: 7712317--7712394 Score: 126
Period size: 29 Copynumber: 2.6 Consensus size: 31
7712307 ATTAAATTAA
7712317 ATTATTTTATTAATAAAATGAATTA-A-AAT
1 ATTATTTTATTAATAAAATGAATTAGATAAT
*
7712346 ATTATTTTATTAATAAGATGAATTAGATAAT
1 ATTATTTTATTAATAAAATGAATTAGATAAT
7712377 ATTATTTTATTAA-AAAAT
1 ATTATTTTATTAATAAAAT
7712395 ATTAATTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
29 24 0.53
30 5 0.11
31 16 0.36
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (31 bp):
ATTATTTTATTAATAAAATGAATTAGATAAT
Found at i:7712422 original size:30 final size:29
Alignment explanation
Indices: 7712376--7712439 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
7712366 AATTAGATAA
* *
7712376 TATTATTTTATTAAAAAATATTAATTTTT
1 TATTATTTTATTAAAAAATAATAATTATT
* *
7712405 TATTATTTATTTTAAAAATTAATAATTATT
1 TATTATTT-TATTAAAAAATAATAATTATT
7712435 TATTA
1 TATTA
7712440 ATTTGATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
TATTATTTTATTAAAAAATAATAATTATT
Found at i:7714269 original size:2 final size:2
Alignment explanation
Indices: 7714262--7714287 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7714252 TTGATTATTG
7714262 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7714288 TGCTGCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7715394 original size:1 final size:1
Alignment explanation
Indices: 7715356--7715386 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
7715346 AAATAGAGTG
*
7715356 TTTTCTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7715387 CTGTTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:7715763 original size:2 final size:2
Alignment explanation
Indices: 7715756--7715798 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7715746 TGGGTAAGTT
7715756 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7715798 T
1 T
7715799 TTTTGCATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7729695 original size:16 final size:17
Alignment explanation
Indices: 7729656--7729697 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
7729646 TATTATAAAA
*
7729656 ATTTTAAAATATAATTT
1 ATTTTTAAATATAATTT
**
7729673 AAATTTAAAT-TAATTT
1 ATTTTTAAATATAATTT
7729689 ATTTTTAAA
1 ATTTTTAAA
7729698 ATTGATCCAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTTTAAATATAATTT
Found at i:7729815 original size:21 final size:24
Alignment explanation
Indices: 7729770--7729824 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
7729760 AAAATTTTAT
*
7729770 TTTTTATATATTATTTTAATAAAA
1 TTTTTATATATTATTTAAATAAAA
7729794 TTTTTA-ATA-TATTTAAAT-AAA
1 TTTTTATATATTATTTAAATAAAA
*
7729815 TTTATATATA
1 TTTTTATATA
7729825 AAATAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 8 0.29
22 11 0.39
23 3 0.11
24 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTTATATATTATTTAAATAAAA
Found at i:7729863 original size:17 final size:18
Alignment explanation
Indices: 7729843--7729881 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
7729833 TATTTTATTT
7729843 TATAAAATT-TAAAAATA
1 TATAAAATTATAAAAATA
7729860 TATAAAATTAATAAAAATA
1 TATAAAATT-ATAAAAATA
7729879 TAT
1 TAT
7729882 TTTTTGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
19 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TATAAAATTATAAAAATA
Found at i:7733707 original size:18 final size:18
Alignment explanation
Indices: 7733660--7733698 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
7733650 AGTACGGTAT
7733660 TATCTTACATTTAATAAA
1 TATCTTACATTTAATAAA
7733678 TATCTTACATTTAATAAA
1 TATCTTACATTTAATAAA
7733696 TAT
1 TAT
7733699 TTAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (18 bp):
TATCTTACATTTAATAAA
Found at i:7743719 original size:1 final size:1
Alignment explanation
Indices: 7743713--7743739 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
7743703 TCGAGGAAAG
7743713 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
7743740 GTCATCCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7743944 original size:14 final size:14
Alignment explanation
Indices: 7743880--7743944 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
7743870 TATATCATAT
7743880 TTAAAAATCAATTATA
1 TTAAAAAT--ATTATA
7743896 TTAAAAATATTA-A
1 TTAAAAATATTATA
7743909 TTAATAAAT-TTATAA
1 TTAA-AAATATTAT-A
*
7743924 TT-TAAATATTATA
1 TTAAAAATATTATA
*
7743937 CTAAAAAT
1 TTAAAAAT
7743945 TTTTAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
13 14 0.34
14 16 0.39
15 3 0.07
16 8 0.20
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
TTAAAAATATTATA
Found at i:7744605 original size:23 final size:23
Alignment explanation
Indices: 7744575--7744633 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
7744565 TGATAAAATT
* *
7744575 AAAATTATTTTAATTATGATAAA
1 AAAATTATTATAATTATAATAAA
*
7744598 AAAATTATTATAATTATAATTAA
1 AAAATTATTATAATTATAATAAA
*
7744621 AAAATTTTTATAA
1 AAAATTATTATAA
7744634 AAACTTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AAAATTATTATAATTATAATAAA
Found at i:7745323 original size:38 final size:37
Alignment explanation
Indices: 7745241--7745357 Score: 107
Period size: 36 Copynumber: 3.2 Consensus size: 37
7745231 ATTAAAATTA
*
7745241 AATAATT-ATTTTTTATTTAAATAAAACATTATATTT
1 AATAATTCATATTTTATTTAAATAAAACATTATATTT
* *
7745277 AATAATTCATATTTTA-TTATATAAAATATTAATAATTT
1 AATAATTCATATTTTATTTAAATAAAACATT-AT-ATTT
** * *
7745315 -ATACATTCATATCATATTTTATATAAAA-ATTATATAT
1 AATA-ATTCATATTTTA-TTTAAATAAAACATTATATTT
7745352 AATAAT
1 AATAAT
7745358 GATAAAAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
36 19 0.28
37 17 0.25
38 19 0.28
39 3 0.04
40 10 0.15
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (37 bp):
AATAATTCATATTTTATTTAAATAAAACATTATATTT
Found at i:7745425 original size:22 final size:22
Alignment explanation
Indices: 7745383--7745426 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7745373 TAAATATTTA
**
7745383 TTTTATTAAATTTATTTATAAT
1 TTTTATTAAATTTATAAATAAT
7745405 TTTTATTAAAATTT-TAAATAAT
1 TTTTATT-AAATTTATAAATAAT
7745427 ATAATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTATTAAATTTATAAATAAT
Found at i:7745443 original size:15 final size:15
Alignment explanation
Indices: 7745395--7745443 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
7745385 TTATTAAATT
7745395 TATT-TATAATTTT-
1 TATTATATAATTTTA
7745408 TATTA-A-AATTTTA
1 TATTATATAATTTTA
* *
7745421 AATAATATAATTTTA
1 TATTATATAATTTTA
7745436 TATTATAT
1 TATTATAT
7745444 CACAATCTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
12 6 0.21
13 8 0.29
14 1 0.04
15 13 0.46
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTATATAATTTTA
Found at i:7745811 original size:7 final size:7
Alignment explanation
Indices: 7745799--7745824 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7745789 TCTTGGTAGG
7745799 GCCATTA
1 GCCATTA
7745806 GCCATTA
1 GCCATTA
7745813 GCCATTA
1 GCCATTA
7745820 GCCAT
1 GCCAT
7745825 GAACCATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (7 bp):
GCCATTA
Found at i:7746007 original size:24 final size:23
Alignment explanation
Indices: 7745982--7746050 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
7745972 AAAAAATTTA
7745982 AAATTTTAATAAAAATCATATAT
1 AAATTTTAATAAAAATCATATAT
* * *
7746005 AAA-TTTAATAAAACTCAAAAAT
1 AAATTTTAATAAAAATCATATAT
* *
7746027 ATATTTTATATAAAATATAATATA
1 AAATTTTA-ATAAAA-ATCATATA
7746051 ATATAAATTA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 18 0.51
23 7 0.20
24 6 0.17
25 4 0.11
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATTTTAATAAAAATCATATAT
Found at i:7746542 original size:15 final size:15
Alignment explanation
Indices: 7746524--7746583 Score: 88
Period size: 15 Copynumber: 4.1 Consensus size: 15
7746514 AATAATATAC
7746524 TATTAATAAATAATA
1 TATTAATAAATAATA
*
7746539 TATTAGTAAAT-AT-
1 TATTAATAAATAATA
7746552 TATTAATAAATAATA
1 TATTAATAAATAATA
*
7746567 AATTAATAAATAATA
1 TATTAATAAATAATA
7746582 TA
1 TA
7746584 AAGAATAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
13 10 0.26
14 4 0.10
15 25 0.64
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
TATTAATAAATAATA
Found at i:7746557 original size:28 final size:28
Alignment explanation
Indices: 7746514--7746596 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
7746504 TGCACTTATA
* *
7746514 AATAATATACTATTAATAAATAATATATT
1 AATAA-ATATTATTAATAAATAATAAATT
*
7746543 AGTAAATATTATTAATAAATAATAAATT
1 AATAAATATTATTAATAAATAATAAATT
*
7746571 AATAAATAATA-TAA-AGAATAATAAAT
1 AATAAATATTATTAATA-AATAATAAAT
7746597 AGTTTTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.02
27 13 0.27
28 30 0.62
29 4 0.08
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.36
Consensus pattern (28 bp):
AATAAATATTATTAATAAATAATAAATT
Found at i:7746672 original size:28 final size:28
Alignment explanation
Indices: 7746640--7746702 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 28
7746630 TATTTTAATA
7746640 TTAAATAT-TGTAATTAAATT-ATATATTT
1 TTAAATATAT-TAA-TAAATTAATATATTT
*
7746668 TTAAA-ATATTAATAATTTCAATATATTT
1 TTAAATATATTAATAAATT-AATATATTT
7746696 TTAAATA
1 TTAAATA
7746703 AATAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 5 0.17
27 5 0.17
28 19 0.63
29 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (28 bp):
TTAAATATATTAATAAATTAATATATTT
Found at i:7751158 original size:2 final size:2
Alignment explanation
Indices: 7751151--7751187 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
7751141 GTAGATCAAC
* *
7751151 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7751188 CCAAAACAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7757554 original size:2 final size:2
Alignment explanation
Indices: 7757549--7757575 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7757539 TCAAAATTTT
7757549 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
7757576 CGGACAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7758736 original size:18 final size:19
Alignment explanation
Indices: 7758713--7758758 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
7758703 TTTTGATCAG
*
7758713 TTTAATTATGA-TCGAT-TA
1 TTTAATTAT-ATTCGATCGA
*
7758731 TTTAATAATATTCGATCGA
1 TTTAATTATATTCGATCGA
7758750 TTTAATTAT
1 TTTAATTAT
7758759 TTATTAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 13 0.57
19 9 0.39
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.50
Consensus pattern (19 bp):
TTTAATTATATTCGATCGA
Found at i:7763340 original size:14 final size:15
Alignment explanation
Indices: 7763321--7763353 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7763311 TAGTAAGTTT
7763321 TTTTTTAAATA-TTA
1 TTTTTTAAATATTTA
*
7763335 TTTTTTATATATTTA
1 TTTTTTAAATATTTA
7763350 TTTT
1 TTTT
7763354 AAGGATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTTAAATATTTA
Found at i:7768470 original size:29 final size:28
Alignment explanation
Indices: 7768438--7768500 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
7768428 TTTTTAATAA
**
7768438 AAATATTGATAAAATTTTTATTATTAAAT
1 AAATATTGATAAAATTTGAATTA-TAAAT
* *
7768467 AAATAGTGATTAAATTTGAATTATAAAT
1 AAATATTGATAAAATTTGAATTATAAAT
7768495 -AATATT
1 AAATATT
7768501 TTTAATATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 5 0.17
28 5 0.17
29 19 0.66
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.44
Consensus pattern (28 bp):
AAATATTGATAAAATTTGAATTATAAAT
Found at i:7769413 original size:10 final size:10
Alignment explanation
Indices: 7769398--7769422 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7769388 CGAATCAATC
7769398 AAATATTATT
1 AAATATTATT
7769408 AAATATTATT
1 AAATATTATT
7769418 AAATA
1 AAATA
7769423 ATCGATCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AAATATTATT
Found at i:7772191 original size:16 final size:17
Alignment explanation
Indices: 7772164--7772195 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7772154 AAAAAAATGA
7772164 ACATATTCATATTTGAC
1 ACATATTCATATTTGAC
7772181 ACATA-TCATATTTGA
1 ACATATTCATATTTGA
7772196 TACTCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (17 bp):
ACATATTCATATTTGAC
Found at i:7773310 original size:26 final size:26
Alignment explanation
Indices: 7773266--7773327 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
7773256 TTTTTTTATA
* *
7773266 AATTTTTTTTCAATTACAATTATAGT
1 AATTTTTTTTCAATCACAACTATAGT
* * *
7773292 GATTTTTTTTTAATCACAACTATTGT
1 AATTTTTTTTCAATCACAACTATAGT
7773318 AATTTTTTTT
1 AATTTTTTTT
7773328 ACTATTTTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (26 bp):
AATTTTTTTTCAATCACAACTATAGT
Found at i:7777826 original size:13 final size:14
Alignment explanation
Indices: 7777797--7777830 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
7777787 CTTAAATTTG
*
7777797 ATTTAATTTTATAA
1 ATTTAATATTATAA
7777811 ATTTAATATT-TAA
1 ATTTAATATTATAA
7777824 ATTTAAT
1 ATTTAAT
7777831 TTAATATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTAATATTATAA
Found at i:7777858 original size:19 final size:18
Alignment explanation
Indices: 7777810--7777869 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
7777800 TAATTTTATA
*
7777810 AATTTAATATTTAAATTT
1 AATTTAATATTAAAATTT
7777828 AATTTAATATTAAAATATT
1 AATTTAATATTAAAAT-TT
* *
7777847 ATTTTTATATTAAAATTT
1 AATTTAATATTAAAATTT
*
7777865 GATTT
1 AATTT
7777870 GATTTATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
18 20 0.56
19 16 0.44
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
AATTTAATATTAAAATTT
Found at i:7777932 original size:19 final size:18
Alignment explanation
Indices: 7777912--7777961 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 18
7777902 AAATGAAATT
7777912 AATAAAATATTAATATTTTA
1 AATAAAATATT-AT-TTTTA
7777932 ATATAAAATATTATTTTTA
1 A-ATAAAATATTATTTTTA
7777951 AATATAAATAT
1 AATA-AAATAT
7777962 AAAATTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.11
19 12 0.43
20 3 0.11
21 10 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATAAAATATTATTTTTA
Found at i:7777956 original size:20 final size:21
Alignment explanation
Indices: 7777913--7777958 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
7777903 AATGAAATTA
7777913 ATAAAATATTAATATTTTAAT
1 ATAAAATATTAATATTTTAAT
7777934 ATAAAATATT-AT-TTTTAAAT
1 ATAAAATATTAATATTTT-AAT
7777954 ATAAA
1 ATAAA
7777959 TATAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.17
20 10 0.42
21 10 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAAAATATTAATATTTTAAT
Found at i:7784566 original size:28 final size:28
Alignment explanation
Indices: 7784535--7784656 Score: 68
Period size: 28 Copynumber: 4.3 Consensus size: 28
7784525 TTTAATTTCT
7784535 AAATTTTTCACCATTTGGGTCTATTTAA
1 AAATTTTTCACCATTTGGGTCTATTTAA
* *** * * ** **
7784563 AAA-TTCTCTATTTTTTTGTTGGATTTCT
1 AAATTTTTC-ACCATTTGGGTCTATTTAA
* **
7784591 AAATTTTTCACAATTTGGG-CTTATTTCT
1 AAATTTTTCACCATTTGGGTC-TATTTAA
* *
7784619 AAATTTTTCACCATTTTGGTCAATTTAA
1 AAATTTTTCACCATTTGGGTCTATTTAA
7784647 AAATATTTTC
1 AAAT-TTTTC
7784657 TCTTCATTTA
Statistics
Matches: 66, Mismatches: 23, Indels: 9
0.67 0.23 0.09
Matches are distributed among these distances:
27 4 0.06
28 52 0.79
29 10 0.15
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.51
Consensus pattern (28 bp):
AAATTTTTCACCATTTGGGTCTATTTAA
Found at i:7786489 original size:15 final size:15
Alignment explanation
Indices: 7786471--7786500 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7786461 ACTTTATGAG
*
7786471 TTGATAATTTAATTA
1 TTGATAATATAATTA
7786486 TTGATAATATAATTA
1 TTGATAATATAATTA
7786501 AATCTTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
TTGATAATATAATTA
Found at i:7787223 original size:5 final size:5
Alignment explanation
Indices: 7787213--7787237 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7787203 CAAGGTTAAG
7787213 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
7787238 TTAAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:7788551 original size:17 final size:17
Alignment explanation
Indices: 7788502--7788551 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
7788492 ATGTTATGAC
7788502 AAATATTTTTATATAATA
1 AAAT-TTTTTATATAATA
* * *
7788520 AAAATTTATGTATAATA
1 AAATTTTTTATATAATA
*
7788537 AAATTTTTTAAATAA
1 AAATTTTTTATATAA
7788552 AGTAAAAATT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 22 0.88
18 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
AAATTTTTTATATAATA
Found at i:7790025 original size:13 final size:13
Alignment explanation
Indices: 7790007--7790047 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
7789997 TTAAGTTGCT
*
7790007 ATGATCTTTTATA
1 ATGATCTTTTACA
7790020 ATGATCTTTTACA
1 ATGATCTTTTACA
*
7790033 ATGATCCTTTACA
1 ATGATCTTTTACA
7790046 AT
1 AT
7790048 ATTCTTTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (13 bp):
ATGATCTTTTACA
Found at i:7790056 original size:12 final size:13
Alignment explanation
Indices: 7790007--7790056 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
7789997 TTAAGTTGCT
* *
7790007 ATGATCTTTTATA
1 ATGATCCTTTACA
*
7790020 ATGATCTTTTACA
1 ATGATCCTTTACA
7790033 ATGATCCTTTACA
1 ATGATCCTTTACA
*
7790046 AT-ATTCTTTAC
1 ATGATCCTTTAC
7790057 TTTTTTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 8 0.24
13 26 0.76
ACGTcount: A:0.30, C:0.16, G:0.06, T:0.48
Consensus pattern (13 bp):
ATGATCCTTTACA
Found at i:7790842 original size:20 final size:20
Alignment explanation
Indices: 7790785--7790842 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
7790775 TGGATAATTA
*
7790785 ATAACTTAATAATAAATCATTG
1 ATAACTTAAT-AT-AATCAATG
*
7790807 AAAACTTAAATATAATCAAT-
1 ATAACTT-AATATAATCAATG
7790827 ATAACTTAATAGTAAT
1 ATAACTTAATA-TAAT
7790843 TATCGATACT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 4 0.13
20 10 0.32
21 6 0.19
22 8 0.26
23 3 0.10
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.34
Consensus pattern (20 bp):
ATAACTTAATATAATCAATG
Found at i:7790880 original size:22 final size:22
Alignment explanation
Indices: 7790852--7790903 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
7790842 TTATCGATAC
* * *
7790852 TTAATAGTAAGTTAGTAATAAT
1 TTAATAGTAAATGAATAATAAT
*
7790874 TTAATAGTAAATGAATGATAAT
1 TTAATAGTAAATGAATAATAAT
7790896 TTAATAGT
1 TTAATAGT
7790904 TAATAGTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.40
Consensus pattern (22 bp):
TTAATAGTAAATGAATAATAAT
Found at i:7791103 original size:22 final size:22
Alignment explanation
Indices: 7791041--7791391 Score: 145
Period size: 22 Copynumber: 16.3 Consensus size: 22
7791031 CAAAAATAAG
* * * *
7791041 TGATAACTTAGTAGTTAATTAT
1 TGATAACTTAATAGTAAATCAA
**
7791063 TGATAACTTAATAAAAAATCAA
1 TGATAACTTAATAGTAAATCAA
* *
7791085 TGATAACTTAATAGTAAATGAG
1 TGATAACTTAATAGTAAATCAA
*
7791107 TGATAA-TATAATAGTAAATCAG
1 TGATAACT-TAATAGTAAATCAA
** **
7791129 TTTTAGTTTAATAGT-AATCAA
1 TGATAACTTAATAGTAAATCAA
*
7791150 --ATGA--TAATAGTAAAT-AA
1 TGATAACTTAATAGTAAATCAA
* * * * *
7791167 TAAACAATTTAATAATAAATAAA
1 T-GATAACTTAATAGTAAATCAA
* * *
7791190 TTATAAATTAGTAGTAAAT-AA
1 TGATAACTTAATAGTAAATCAA
* * * * *
7791211 TTGATAATTTAGTAGTTATTCAT
1 -TGATAACTTAATAGTAAATCAA
* * *
7791234 TGAAAATTTAAAAGTAAATCAA
1 TGATAACTTAATAGTAAATCAA
*
7791256 T-ATAACATAATAGTAAATC-A
1 TGATAACTTAATAGTAAATCAA
* * * *
7791276 TCGATAACATAATAGTTAATTAT
1 T-GATAACTTAATAGTAAATCAA
*
7791299 TTATAACTTAATAGTAAATC-A
1 TGATAACTTAATAGTAAATCAA
* *
7791320 TGTATAATTTAATA-TAAAAT-AG
1 TG-ATAACTTAATAGT-AAATCAA
* * *
7791342 TAATAACTTATTAGTGAATC-A
1 TGATAACTTAATAGTAAATCAA
* * *
7791363 TAAATAATTTAATGGTAAATCAA
1 T-GATAACTTAATAGTAAATCAA
7791386 TGATAA
1 TGATAA
7791392 TTTTGTGATA
Statistics
Matches: 246, Mismatches: 62, Indels: 42
0.70 0.18 0.12
Matches are distributed among these distances:
17 9 0.04
18 3 0.01
19 1 0.00
20 4 0.02
21 37 0.15
22 184 0.75
23 8 0.03
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.36
Consensus pattern (22 bp):
TGATAACTTAATAGTAAATCAA
Found at i:7791127 original size:44 final size:44
Alignment explanation
Indices: 7791021--7791112 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
7791011 CTAAGTTAAA
* * * * *
7791021 GATAACTTAA-CAAAAAT-AAGTGATAACTTAGTAGTTAATTATT
1 GATAACTTAATAAAAAATCAA-TGATAACTTAATAGTAAATGAGT
7791064 GATAACTTAATAAAAAATCAATGATAACTTAATAGTAAATGAGT
1 GATAACTTAATAAAAAATCAATGATAACTTAATAGTAAATGAGT
7791108 GATAA
1 GATAA
7791113 TATAATAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 10 0.24
44 30 0.71
45 2 0.05
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.32
Consensus pattern (44 bp):
GATAACTTAATAAAAAATCAATGATAACTTAATAGTAAATGAGT
Found at i:7791333 original size:44 final size:42
Alignment explanation
Indices: 7791256--7791375 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
7791246 AGTAAATCAA
* ** * * *
7791256 TATAACATAATAGTAAATCATCGATAACATAATAGTTAATTATT
1 TATAACTTAATAGTAAATCAT-GATAATTTAATA-TAAAATAGT
7791300 TATAACTTAATAGTAAATCATGTATAATTTAATATAAAATAGT
1 TATAACTTAATAGTAAATCATG-ATAATTTAATATAAAATAGT
* * * *
7791343 AATAACTTATTAGTGAATCATAAATAATTTAAT
1 TATAACTTAATAGTAAATCAT-GATAATTTAAT
7791376 GGTAAATCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
43 35 0.55
44 29 0.45
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (42 bp):
TATAACTTAATAGTAAATCATGATAATTTAATATAAAATAGT
Found at i:7791489 original size:44 final size:42
Alignment explanation
Indices: 7791362--7791492 Score: 118
Period size: 44 Copynumber: 3.0 Consensus size: 42
7791352 TTAGTGAATC
* * *
7791362 ATAAATAATTTAATGGTAAATCAATGATAATTTTGTGATAAATA
1 ATAAA-AA-TTAATAGTAAATCAATGATAATTTAGTAATAAATA
* ** ** *
7791406 ATTAAAAATTAAGTAGTAAATTAACAATAACATAATAATAAATA
1 A-TAAAAATTAA-TAGTAAATCAATGATAATTTAGTAATAAATA
*
7791450 TATAAAAATATAATAGTAAATCATTGATAATTTAGTAATAAAT
1 -ATAAAAAT-TAATAGTAAATCAATGATAATTTAGTAATAAAT
7791493 TGACAACTTA
Statistics
Matches: 67, Mismatches: 16, Indels: 8
0.74 0.18 0.09
Matches are distributed among these distances:
43 4 0.06
44 55 0.82
45 8 0.12
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (42 bp):
ATAAAAATTAATAGTAAATCAATGATAATTTAGTAATAAATA
Found at i:7791601 original size:22 final size:22
Alignment explanation
Indices: 7791576--7791650 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
7791566 TAGTAGTAAA
*
7791576 TTAGTTAATTATTGATAACTTT
1 TTAGTAAATTATTGATAACTTT
* * *
7791598 TTAGTAAATTATGGATAAATTA
1 TTAGTAAATTATTGATAACTTT
*
7791620 ATAGTAAATTAGTT-ATAACTTT
1 TTAGTAAATTA-TTGATAACTTT
* *
7791642 ATAATAAAT
1 TTAGTAAAT
7791651 CATCAATAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
22 42 0.98
23 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (22 bp):
TTAGTAAATTATTGATAACTTT
Found at i:7791971 original size:22 final size:22
Alignment explanation
Indices: 7791944--7791987 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 22
7791934 ATAATGTTAT
7791944 TATATAAAAAAAGAGATTATCTTG
1 TATAT-AAAAAA-AGATTATCTTG
7791968 TATATAAAAAAAGATTATCT
1 TATATAAAAAAAGATTATCT
7791988 CGTAAATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.45
23 6 0.30
24 5 0.25
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (22 bp):
TATATAAAAAAAGATTATCTTG
Found at i:7792096 original size:11 final size:11
Alignment explanation
Indices: 7792066--7792121 Score: 60
Period size: 11 Copynumber: 5.1 Consensus size: 11
7792056 TTAATAATTG
7792066 ATAACTTAATA
1 ATAACTTAATA
7792077 ATAGA-TTAATA
1 ATA-ACTTAATA
*
7792088 ATAACTTAATG
1 ATAACTTAATA
* * *
7792099 ATAAATTAGTG
1 ATAACTTAATA
7792110 ATAACTTAATA
1 ATAACTTAATA
7792121 A
1 A
7792122 CAAATCGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
10 1 0.03
11 35 0.95
12 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (11 bp):
ATAACTTAATA
Found at i:7792126 original size:22 final size:22
Alignment explanation
Indices: 7792009--7792126 Score: 89
Period size: 22 Copynumber: 5.4 Consensus size: 22
7791999 AACAACATAT
7792009 TAATAAATTAATGATAGA-TTAA
1 TAATAAATTAATGATA-ACTTAA
* * * * *
7792031 CAA-AAAATAAGTGACAACATAG
1 TAATAAATTAA-TGATAACTTAA
*
7792053 TAATTAA-TAATTGATAACTTAA
1 TAATAAATTAA-TGATAACTTAA
* *
7792075 TAATAGATTAATAATAACTTAA
1 TAATAAATTAATGATAACTTAA
* *
7792097 TGATAAATTAGTGATAACTTAA
1 TAATAAATTAATGATAACTTAA
*
7792119 TAACAAAT
1 TAATAAAT
7792127 CGTTTCAATT
Statistics
Matches: 72, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
21 7 0.10
22 60 0.83
23 5 0.07
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.32
Consensus pattern (22 bp):
TAATAAATTAATGATAACTTAA
Found at i:7792177 original size:19 final size:20
Alignment explanation
Indices: 7792140--7792177 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7792130 TTCAATTTAA
*
7792140 TAGTAATTAATTGATAAATT
1 TAGTAATAAATTGATAAATT
7792160 TAGTAATAAATT-ATAAAT
1 TAGTAATAAATTGATAAAT
7792178 AACTTAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (20 bp):
TAGTAATAAATTGATAAATT
Found at i:7792272 original size:46 final size:45
Alignment explanation
Indices: 7792175--7792286 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 45
7792165 ATAAATTATA
7792175 AATAACTTAATAGTAAATAAATGATAATTTAATTGTTAATCATTC
1 AATAACTTAATAGTAAATAAATGATAATTTAATTGTTAATCATTC
*
7792220 AA-AACTTACA-AGTAAATTAAT-ATAATTTAATAGTAGTTAATCA-TC
1 AATAACTTA-ATAGTAAATAAATGATAATTTAAT--T-GTTAATCATTC
*
7792265 AATAACTTAATAGTTAATAAAT
1 AATAACTTAATAGTAAATAAAT
7792287 AATATCTTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
43 10 0.17
44 16 0.28
45 9 0.16
46 23 0.40
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (45 bp):
AATAACTTAATAGTAAATAAATGATAATTTAATTGTTAATCATTC
Found at i:7792313 original size:44 final size:43
Alignment explanation
Indices: 7792136--7792604 Score: 148
Period size: 44 Copynumber: 10.6 Consensus size: 43
7792126 TCGTTTCAAT
* * * * * *
7792136 TTAATAGTAATTAATTGATAAATTTAGTAATAAATTATAAATAAC
1 TTAATAGTAAATAAAT-AT-AATTTAATAGTAAATCATCAATAAC
* *
7792181 TTAATAGTAAATAAATGATAATTTAATTGTTAATCATTCAA-AAC
1 TTAATAGTAAATAAAT-ATAATTTAATAGTAAATCA-TCAATAAC
*
7792225 TTACA-AGTAAATTAATATAATTTAATAGTAGTTAATCATCAATAAC
1 TTA-ATAGTAAATAAATATAATTTAATAGTA---AATCATCAATAAC
* * * *
7792271 TTAATAGTTAATAAATA-ATATCTTAATAGTAAATTATGAATAAT
1 TTAATAGTAAATAAATATA-AT-TTAATAGTAAATCATCAATAAC
** * * * * * * *
7792315 TTAATA-TGCATGAATTATAACTTGATAATGAATCATTAAAAAC
1 TTAATAGTAAAT-AAATATAATTTAATAGTAAATCATCAATAAC
** * * *
7792358 TTTGTAGTAAATTATCAATA-AA-TTAATAGTAAACCAAT-TATAAT
1 TTAATAGTAAA-TA--AATATAATTTAATAGTAAATC-ATCAATAAC
* * * * * ** * *
7792402 TTTACAATAAAT-TATCAGTAACTTAGCAGTAAATCATTAATAAT
1 TTAATAGTAAATAAAT-A-TAATTTAATAGTAAATCATCAATAAC
* * * ** *
7792446 TTAGTAATAAATCAATCATAATTTAATAGTAAATCATTTATAAA
1 TTAATAGTAAATAAAT-ATAATTTAATAGTAAATCATCAATAAC
* * * * * * * * *
7792490 ATAGTGGTAAATTAATACTAATTTAGTAATAAATTATTAATAAT
1 TTAATAGTAAATAAATA-TAATTTAATAGTAAATCATCAATAAC
* * * *
7792534 TTAGTAGTATAAT-ATTGATAGTTTAATAGTAAATCATTAATAA-
1 TTAATAGTA-AATAAAT-ATAATTTAATAGTAAATCATCAATAAC
**
7792577 TATAATAGTAAATCGATAATAATTTAAT
1 T-TAATAGTAAATAAAT-ATAATTTAAT
7792605 TTTTAATCAT
Statistics
Matches: 320, Mismatches: 77, Indels: 55
0.71 0.17 0.12
Matches are distributed among these distances:
40 2 0.01
41 1 0.00
43 44 0.14
44 197 0.62
45 41 0.13
46 26 0.08
47 9 0.03
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (43 bp):
TTAATAGTAAATAAATATAATTTAATAGTAAATCATCAATAAC
Found at i:7792318 original size:22 final size:21
Alignment explanation
Indices: 7792133--7792604 Score: 105
Period size: 22 Copynumber: 21.4 Consensus size: 21
7792123 AAATCGTTTC
*
7792133 AATTTAATAGT-AATTAATTGAT
1 AATTTAATAGTAAATT-A-TAAT
* *
7792155 AAATTTAGTAATAAATTATAAAT
1 -AATTTAATAGTAAATTAT-AAT
* * *
7792178 AACTTAATAGTAAATAAATGAT
1 AATTTAATAGTAAAT-TATAAT
* * *
7792200 AATTTAATTGTTAATCATTCAA-
1 AATTTAATAGTAAATTA-T-AAT
*
7792222 AACTTACA-AGTAAATTA-ATAT
1 AATTTA-ATAGTAAATTATA-AT
*
7792243 AATTTAATAGTAGTTAATCATCAAT
1 AATTTAATAGTA---AATTAT-AAT
* * *
7792268 AACTTAATAGTTAATAAATAAT
1 AATTTAATAGTAAAT-TATAAT
7792290 -ATCTTAATAGTAAATTATGAAT
1 AAT-TTAATAGTAAATTAT-AAT
** * *
7792312 AATTTAATA-TGCATGAATTAT
1 AATTTAATAGTAAAT-TATAAT
* * * * * *
7792333 AACTTGATAATGAATCATTAAA
1 AATTTAATAGTAAATTA-TAAT
*
7792355 AACTTT-GTAGTAAATTATCAAT
1 AA-TTTAATAGTAAATTAT-AAT
* ** *
7792377 AAATTAATAGTAAACCAATTAT
1 AATTTAATAGTAAA-TTATAAT
* * * *
7792399 AATTTTACAATAAATTATCAGT
1 AATTTAATAGTAAATTAT-AAT
* ** *
7792421 AACTTAGCAGTAAATCATTAAT
1 AATTTAATAGTAAATTA-TAAT
* * * *
7792443 AATTTAGTAATAAATCAATCAT
1 AATTTAATAGTAAAT-TATAAT
* *
7792465 AATTTAATAGTAAATCATTTAT
1 AATTTAATAGTAAATTA-TAAT
** * * *
7792487 AAAATAGTGGTAAATTAATACT
1 AATTTAATAGTAAATT-ATAAT
* *
7792509 AATTTAGTAATAAATTATTAAT
1 AATTTAATAGTAAATTA-TAAT
* *
7792531 AATTTAGTAGTATAA-TATTGAT
1 AATTTAATAGTA-AATTA-TAAT
* *
7792553 AGTTTAATAGTAAATCATTAAT
1 AATTTAATAGTAAATTA-TAAT
* *
7792575 AATATAATAGTAAATCGATAAT
1 AATTTAATAGTAAAT-TATAAT
7792597 AATTTAAT
1 AATTTAAT
7792605 TTTTAATCAT
Statistics
Matches: 324, Mismatches: 91, Indels: 69
0.67 0.19 0.14
Matches are distributed among these distances:
19 1 0.00
20 2 0.01
21 35 0.11
22 235 0.73
23 30 0.09
24 8 0.02
25 12 0.04
26 1 0.00
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (21 bp):
AATTTAATAGTAAATTATAAT
Found at i:7792500 original size:66 final size:66
Alignment explanation
Indices: 7792429--7792604 Score: 183
Period size: 66 Copynumber: 2.7 Consensus size: 66
7792419 GTAACTTAGC
* *
7792429 AGTAAATCATTAATAATTTAGTAATAAATCAATCATAATTTAATAGTA-AATCATTTATAAAATA
1 AGTAAATCATTAATAATTTAGTAATAAATCAATAATAATTTAATAGTATAAT-ATTGATAAAATA
*
7792493 GT
65 AT
* * * * * * * ***
7792495 GGTAAATTAATACTAATTTAGTAATAAATTATTAATAATTTAGTAGTATAATATTGATAGTTTAA
1 AGTAAATCATTAATAATTTAGTAATAAATCAATAATAATTTAATAGTATAATATTGATAAAATAA
7792560 T
66 T
* * * *
7792561 AGTAAATCATTAATAATATAATAGTAAATCGATAATAATTTAAT
1 AGTAAATCATTAATAATTTAGTAATAAATCAATAATAATTTAAT
7792605 TTTTAATCAT
Statistics
Matches: 85, Mismatches: 24, Indels: 2
0.77 0.22 0.02
Matches are distributed among these distances:
66 82 0.96
67 3 0.04
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (66 bp):
AGTAAATCATTAATAATTTAGTAATAAATCAATAATAATTTAATAGTATAATATTGATAAAATAA
T
Found at i:7792621 original size:88 final size:88
Alignment explanation
Indices: 7792431--7792623 Score: 217
Period size: 88 Copynumber: 2.2 Consensus size: 88
7792421 AACTTAGCAG
* * *
7792431 TAAATCATTAATAATTTAGTAATAAATCAATCATAATTTAATAGTAAATCATTTATAAAATAGTG
1 TAAATCATTAATAATTTAGTAATAAATCAATCATAATTTAATAGTAAATCATTAATAAAATAATA
* * *
7792496 GTAAATTAATACTAATTTAGTAA
66 GTAAATCAATAATAATTTAATAA
* * * * * *
7792519 TAAATTATTAATAATTTAGTAGTATAAT-ATTGATAGTTTAATAGTAAATCATTAATAATATAAT
1 TAAATCATTAATAATTTAGTAATA-AATCAATCATAATTTAATAGTAAATCATTAATAAAATAAT
* **
7792583 AGTAAATCGATAATAATTTAATTT
65 AGTAAATCAATAATAATTTAATAA
* *
7792607 TTAATCATTGATAATTT
1 TAAATCATTAATAATTT
7792624 TTTTTTCAAC
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
88 83 0.97
89 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (88 bp):
TAAATCATTAATAATTTAGTAATAAATCAATCATAATTTAATAGTAAATCATTAATAAAATAATA
GTAAATCAATAATAATTTAATAA
Found at i:7792959 original size:21 final size:20
Alignment explanation
Indices: 7792929--7793002 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
7792919 ATATGGAGGG
*
7792929 ATTATTAAAATTTTATCAGAA
1 ATTATCAAAATTTTATCA-AA
* *
7792950 ATTATCAAAATTGTATCAATC
1 ATTATCAAAATTTTATCAA-A
*
7792971 GTTATCAAAATTTTATCAAA
1 ATTATCAAAATTTTATCAAA
*
7792991 GTTTATCAAAAT
1 -ATTATCAAAAT
7793003 CAAAATTATA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.02
21 43 0.98
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTATCAAAATTTTATCAAA
Found at i:7793468 original size:3 final size:3
Alignment explanation
Indices: 7793462--7793488 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7793452 AGCCTCTTCT
7793462 TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA
7793489 CCATGCCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:7806118 original size:18 final size:18
Alignment explanation
Indices: 7806095--7806130 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7806085 CTGAGGCCTT
7806095 GTCAATCAAGACGACCTC
1 GTCAATCAAGACGACCTC
7806113 GTCAATCAAGACGACCTC
1 GTCAATCAAGACGACCTC
7806131 TAGCTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (18 bp):
GTCAATCAAGACGACCTC
Found at i:7815076 original size:7 final size:7
Alignment explanation
Indices: 7815064--7815089 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7815054 TATTACAAGT
7815064 TGCCAAA
1 TGCCAAA
7815071 TGCCAAA
1 TGCCAAA
7815078 TGCCAAA
1 TGCCAAA
7815085 TGCCA
1 TGCCA
7815090 TGCTTGGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.31, G:0.15, T:0.15
Consensus pattern (7 bp):
TGCCAAA
Found at i:7817466 original size:14 final size:13
Alignment explanation
Indices: 7817445--7817479 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
7817435 TGTATCAAAT
7817445 TTATATTAATATA
1 TTATATTAATATA
*
7817458 TTAATATTATTATA
1 TT-ATATTAATATA
7817472 TTATATTA
1 TTATATTA
7817480 TATTAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTATATTAATATA
Found at i:7822912 original size:20 final size:22
Alignment explanation
Indices: 7822856--7822913 Score: 57
Period size: 25 Copynumber: 2.6 Consensus size: 22
7822846 ATTGTTATTT
7822856 TTTATAAAAATTTGATTTATGAAA
1 TTTATAAAAATTTGA-TTA-GAAA
* *
7822880 TTCTCTAATAATTTGA-TA-AAA
1 TT-TATAAAAATTTGATTAGAAA
7822901 TTTATAAAAATTT
1 TTTATAAAAATTT
7822914 AAATTCATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 9 0.31
21 5 0.17
23 2 0.07
24 2 0.07
25 11 0.38
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (22 bp):
TTTATAAAAATTTGATTAGAAA
Found at i:7823049 original size:3 final size:3
Alignment explanation
Indices: 7823032--7823076 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
7823022 CATTTCAAAA
7823032 AAT AAGT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7823077 TAAAAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7824267 original size:55 final size:55
Alignment explanation
Indices: 7824163--7824268 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
7824153 ACTGCAATCG
* * * *
7824163 AACTGCGAGTCAAAAAAATAACATGATTTGGACTAAGCCAAGATTGAAAATATCA
1 AACTACGAGTCAAAAAAATAACATGATCTAGACTAAGCCAAGATCGAAAATATCA
* ***
7824218 AACTACGAGTTAAAAAAATAACATGATCTAGACTAAGGTGAGATCGAAAAT
1 AACTACGAGTCAAAAAAATAACATGATCTAGACTAAGCCAAGATCGAAAAT
7824269 GAACGATCAG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (55 bp):
AACTACGAGTCAAAAAAATAACATGATCTAGACTAAGCCAAGATCGAAAATATCA
Found at i:7825078 original size:18 final size:18
Alignment explanation
Indices: 7825055--7825114 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
7825045 AAATGTTTGC
7825055 AAGAATTTCATGTTTCGT
1 AAGAATTTCATGTTTCGT
* *
7825073 AAGAA-TTC-TATTTCAT
1 AAGAATTTCATGTTTCGT
*
7825089 AAGAACTTTCAAGTTT-GT
1 AAGAA-TTTCATGTTTCGT
*
7825107 AAGGATTT
1 AAGAATTT
7825115 TCAAATTGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 11 0.33
17 6 0.18
18 13 0.39
19 3 0.09
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (18 bp):
AAGAATTTCATGTTTCGT
Found at i:7826570 original size:10 final size:10
Alignment explanation
Indices: 7826557--7826585 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
7826547 TTTTTCTTTA
7826557 TTTTTTTCA-
1 TTTTTTTCAT
7826566 TTTTTTTCAT
1 TTTTTTTCAT
7826576 TTTTTTTCAT
1 TTTTTTTCAT
7826586 CATTTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTTCAT
Found at i:7826582 original size:22 final size:21
Alignment explanation
Indices: 7826540--7826592 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
7826530 TATTTTGCCC
*
7826540 CATCAATTTTTTCTTTATTTT
1 CATCATTTTTTTCTTTATTTT
** *
7826561 TTTCATTTTTTTCATTTTTTTT
1 CATCATTTTTTTC-TTTATTTT
7826583 CATCATTTTT
1 CATCATTTTT
7826593 CAATAAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (21 bp):
CATCATTTTTTTCTTTATTTT
Found at i:7826594 original size:10 final size:9
Alignment explanation
Indices: 7826556--7826581 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7826546 TTTTTTCTTT
7826556 ATTTTTTTC
1 ATTTTTTTC
7826565 ATTTTTTTC
1 ATTTTTTTC
7826574 ATTTTTTT
1 ATTTTTTT
7826582 TCATCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.81
Consensus pattern (9 bp):
ATTTTTTTC
Found at i:7827835 original size:26 final size:26
Alignment explanation
Indices: 7827799--7827852 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
7827789 GGTTATGAGA
7827799 ATAGGATCAATATGAGCTCTCTCTTG
1 ATAGGATCAATATGAGCTCTCTCTTG
* *
7827825 ATAGGATCAATATGAGCTTTCTTTTG
1 ATAGGATCAATATGAGCTCTCTCTTG
7827851 AT
1 AT
7827853 TACCTCCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (26 bp):
ATAGGATCAATATGAGCTCTCTCTTG
Found at i:7829684 original size:26 final size:25
Alignment explanation
Indices: 7829621--7829685 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
7829611 ATATATTTAG
7829621 TAAATATATTTTT-ATTAAATAATA
1 TAAATATATTTTTAATTAAATAATA
7829645 TAAAT-TATTATTTTAGATT-AATAATAA
1 TAAATATA-T-TTTTA-ATTAAATAAT-A
*
7829672 TTAATATATTTTTA
1 TAAATATATTTTTA
7829686 TTGAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
23 2 0.06
24 6 0.18
25 4 0.12
26 11 0.32
27 9 0.26
28 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAAATATATTTTTAATTAAATAATA
Found at i:7831104 original size:24 final size:26
Alignment explanation
Indices: 7831077--7831142 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 26
7831067 TGAAATAATA
*
7831077 AATAATTTTTATTAAT-AA-TATATT
1 AATAATTTTTATTAATAAATTAAATT
*
7831101 AATAAATTTTATT-ATAAATTAAATT
1 AATAATTTTTATTAATAAATTAAATT
*
7831126 AATAAATTTTAATTAAT
1 AAT-AATTTTTATTAAT
7831143 TATTATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.06
24 14 0.41
25 8 0.24
26 8 0.24
27 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
AATAATTTTTATTAATAAATTAAATT
Found at i:7831119 original size:12 final size:13
Alignment explanation
Indices: 7831077--7831142 Score: 66
Period size: 13 Copynumber: 5.2 Consensus size: 13
7831067 TGAAATAATA
*
7831077 AATAATTTTTATT
1 AATAAATTTTATT
*
7831090 AAT-AA-TATATT
1 AATAAATTTTATT
7831101 AATAAATTTTATT
1 AATAAATTTTATT
**
7831114 -ATAAATTAAATT
1 AATAAATTTTATT
7831126 AATAAATTTTAATT
1 AATAAATTTT-ATT
7831140 AAT
1 AAT
7831143 TATTATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
11 8 0.19
12 13 0.31
13 15 0.36
14 6 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATAAATTTTATT
Found at i:7831126 original size:25 final size:24
Alignment explanation
Indices: 7831077--7831142 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
7831067 TGAAATAATA
* *
7831077 AATAATTTTTATTAATAATATATT
1 AATAAATTTTATTAATAATAAATT
7831101 AATAAATTTTATT-ATAAATTAAATT
1 AATAAATTTTATTAAT-AA-TAAATT
7831126 AATAAATTTTAATTAAT
1 AATAAATTTT-ATTAAT
7831143 TATTATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 14 0.39
25 15 0.42
26 3 0.08
27 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AATAAATTTTATTAATAATAAATT
Found at i:7839474 original size:2 final size:2
Alignment explanation
Indices: 7839467--7839492 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7839457 GTAGGAAAAG
7839467 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7839493 TTCAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7849374 original size:16 final size:17
Alignment explanation
Indices: 7849341--7849374 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7849331 TTCCCAACAA
7849341 GAAACAAGTCACTGTTT
1 GAAACAAGTCACTGTTT
*
7849358 GAAACAAG-CACTTTTT
1 GAAACAAGTCACTGTTT
7849374 G
1 G
7849375 TTGGAAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (17 bp):
GAAACAAGTCACTGTTT
Found at i:7851264 original size:31 final size:31
Alignment explanation
Indices: 7851219--7851303 Score: 118
Period size: 31 Copynumber: 2.7 Consensus size: 31
7851209 TAAATTAAAA
*
7851219 TAATTTA-TTTATTAATAAAATATTATCATT
1 TAATTTATTTTATTAATAAAATATCATCATT
*
7851249 TAATTTATTTTATTAATAAATTATCATCATT
1 TAATTTATTTTATTAATAAAATATCATCATT
*
7851280 TGATTTATTTATATTATATAAAAT
1 TAATTTATTT-TATTA-ATAAAAT
7851304 TTTACTAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
30 7 0.15
31 30 0.62
32 5 0.10
33 6 0.12
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (31 bp):
TAATTTATTTTATTAATAAAATATCATCATT
Found at i:7855312 original size:66 final size:66
Alignment explanation
Indices: 7855206--7855340 Score: 209
Period size: 66 Copynumber: 2.0 Consensus size: 66
7855196 CCCCAATTAT
**
7855206 AAAATTACTCAACCAGTGTACATAATTGCCAAAAGGAATGAGTTGTTAGAGAAATCTGA-CTGTA
1 AAAATTACTCAACCAGCATACATAATTGCCAAAAGGAATGAGTTGTTAGAGAAATCTGATC-GTA
7855270 GA
65 GA
** *
7855272 AAAATTACTCAGTCAGCATACATAATTGCTAAAAGGAATGAGTTGTTAGAGAAATCTGATCGTAG
1 AAAATTACTCAACCAGCATACATAATTGCCAAAAGGAATGAGTTGTTAGAGAAATCTGATCGTAG
7855337 A
66 A
7855338 AAA
1 AAA
7855341 TTTATGAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 62 0.98
67 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (66 bp):
AAAATTACTCAACCAGCATACATAATTGCCAAAAGGAATGAGTTGTTAGAGAAATCTGATCGTAG
A
Found at i:7862358 original size:3 final size:3
Alignment explanation
Indices: 7862350--7862378 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7862340 TTTTAATGTT
7862350 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7862379 TCATACTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7867771 original size:6 final size:6
Alignment explanation
Indices: 7867760--7867803 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
7867750 AATATTATTT
* *
7867760 TAAATA TAAATA TAAA-A TTAAATA TATATA TATATA TAAATA TA
1 TAAATA TAAATA TAAATA -TAAATA TAAATA TAAATA TAAATA TA
7867804 TAAAATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 1 0.03
6 32 0.94
7 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (6 bp):
TAAATA
Found at i:7867772 original size:18 final size:18
Alignment explanation
Indices: 7867745--7867803 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
7867735 ACATGAAATT
7867745 AATA-AAATATTATTTTA
1 AATATAAATATTATTTTA
* **
7867762 AATATAAATATAAAATTA
1 AATATAAATATTATTTTA
* *
7867780 AATATATATA-TATATATA
1 AATATAAATATTAT-TTTA
7867798 AATATA
1 AATATA
7867804 TAAAATTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
17 5 0.16
18 27 0.84
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATATAAATATTATTTTA
Found at i:7867804 original size:18 final size:18
Alignment explanation
Indices: 7867759--7867805 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
7867749 AAATATTATT
*
7867759 TTAAATATAAATATAAAA
1 TTAAATATATATATAAAA
*
7867777 TTAAATATATATAT-ATA
1 TTAAATATATATATAAAA
7867794 TATAAATATATA
1 T-TAAATATATA
7867806 AAATTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAATATATATATAAAA
Found at i:7867816 original size:18 final size:18
Alignment explanation
Indices: 7867759--7867825 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 18
7867749 AAATATTATT
7867759 TTAAATATAA-ATATAAAA
1 TTAAATA-AATATATAAAA
*
7867777 TTAAAT--ATATAT-ATA
1 TTAAATAAATATATAAAA
*
7867792 -TATATAAATATATAAAA
1 TTAAATAAATATATAAAA
*
7867809 TTAAATAATTA-ATAAAA
1 TTAAATAAATATATAAAA
7867826 AATAATTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
14 4 0.10
15 3 0.08
16 10 0.26
17 8 0.21
18 14 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAATAAATATATAAAA
Found at i:7873455 original size:22 final size:21
Alignment explanation
Indices: 7873424--7873476 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
7873414 AATAAAATTT
7873424 ATAAAATTTA-ATTAATTTAAA
1 ATAAAATTTATATT-ATTTAAA
*
7873445 ATAATAATTTATATTATTTAAT
1 ATAA-AATTTATATTATTTAAA
7873467 A-AAAATTTAT
1 ATAAAATTTAT
7873477 TTACTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 13 0.45
23 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAAATTTATATTATTTAAA
Found at i:7873473 original size:20 final size:22
Alignment explanation
Indices: 7873426--7873476 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
7873416 TAAAATTTAT
7873426 AAAATTTA-ATTAATTTAAAATA
1 AAAATTTATATTAATTT-AAATA
*
7873448 ATAATTTATATT-ATTT-AATA
1 AAAATTTATATTAATTTAAATA
7873468 AAAATTTAT
1 AAAATTTAT
7873477 TTACTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 12 0.46
22 11 0.42
23 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAAATTTATATTAATTTAAATA
Found at i:7879512 original size:29 final size:29
Alignment explanation
Indices: 7879470--7879526 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
7879460 AGGATATTCC
* *
7879470 TTTTTTTTTGTTATATCAAAAAAATAAAG
1 TTTTTTATTATTATATCAAAAAAATAAAG
* *
7879499 TTTTTTATTATTATATTAAAAAGATAAA
1 TTTTTTATTATTATATCAAAAAAATAAA
7879527 ATCTTAACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (29 bp):
TTTTTTATTATTATATCAAAAAAATAAAG
Found at i:7880006 original size:15 final size:15
Alignment explanation
Indices: 7879982--7880012 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7879972 CAGCAAAAAA
7879982 AAAGAGATGGATTTC
1 AAAGAGATGGATTTC
*
7879997 AAAGATATGGATTTC
1 AAAGAGATGGATTTC
7880012 A
1 A
7880013 GAGGTTTCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (15 bp):
AAAGAGATGGATTTC
Found at i:7880637 original size:2 final size:2
Alignment explanation
Indices: 7880630--7880654 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7880620 ATAAAATGGC
7880630 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7880655 ATAACATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7891414 original size:11 final size:12
Alignment explanation
Indices: 7891347--7891414 Score: 59
Period size: 13 Copynumber: 5.7 Consensus size: 12
7891337 CATCTAAATC
*
7891347 ATATAATTTAAA
1 ATATAATATAAA
*
7891359 ATATAGTATAATA
1 ATATAATATAA-A
*
7891372 ATATGATAT-AA
1 ATATAATATAAA
*
7891383 ATATTATATAAA
1 ATATAATATAAA
*
7891395 TATAAAATATAAA
1 -ATATAATATAAA
7891408 A-ATAATA
1 ATATAATA
7891415 AATTTTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
11 14 0.31
12 13 0.29
13 18 0.40
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (12 bp):
ATATAATATAAA
Found at i:7891788 original size:21 final size:21
Alignment explanation
Indices: 7891731--7891788 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 21
7891721 TATAATTAAT
* *
7891731 TAATTAATTATTTAATTATCA
1 TAATTAATTATATAAATATCA
7891752 TAATTTAATTATAT--AT-T-A
1 TAA-TTAATTATATAAATATCA
7891770 TAATTAATTATATAAATAT
1 TAATTAATTATATAAATAT
7891789 AATAGTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 10 0.32
18 4 0.13
19 3 0.10
20 2 0.06
21 3 0.10
22 9 0.29
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TAATTAATTATATAAATATCA
Found at i:7901485 original size:19 final size:20
Alignment explanation
Indices: 7901445--7901483 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
7901435 ATCACACAGC
7901445 CTGTCATTTTTCAACAAAAA
1 CTGTCATTTTTCAACAAAAA
7901465 CTGTCATTTTTCAACAAAA
1 CTGTCATTTTTCAACAAAA
7901484 CTATCATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (20 bp):
CTGTCATTTTTCAACAAAAA
Found at i:7901490 original size:19 final size:20
Alignment explanation
Indices: 7901448--7901490 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
7901438 ACACAGCCTG
*
7901448 TCATTTTTCAACAAAAACTG
1 TCATTTTTCAACAAAAACTA
7901468 TCATTTTTCAAC-AAAACTA
1 TCATTTTTCAACAAAAACTA
7901487 TCAT
1 TCAT
7901491 CTTCTGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.37
Consensus pattern (20 bp):
TCATTTTTCAACAAAAACTA
Found at i:7909022 original size:156 final size:156
Alignment explanation
Indices: 7908738--7909051 Score: 628
Period size: 156 Copynumber: 2.0 Consensus size: 156
7908728 GCTGCACAAA
7908738 AAACAACATCATGGTTGTGATGAATTTGTAAAAACCAATCTAAGCATTGAAATCCACCAGTTTTC
1 AAACAACATCATGGTTGTGATGAATTTGTAAAAACCAATCTAAGCATTGAAATCCACCAGTTTTC
7908803 AACAAATAAAATGTGCACATACTTTCTTCAAAAAAAATATGTTCACATTCTAAACATCAATGAAG
66 AACAAATAAAATGTGCACATACTTTCTTCAAAAAAAATATGTTCACATTCTAAACATCAATGAAG
7908868 CAAAACCTGCTTTACTTCATTGTCTT
131 CAAAACCTGCTTTACTTCATTGTCTT
7908894 AAACAACATCATGGTTGTGATGAATTTGTAAAAACCAATCTAAGCATTGAAATCCACCAGTTTTC
1 AAACAACATCATGGTTGTGATGAATTTGTAAAAACCAATCTAAGCATTGAAATCCACCAGTTTTC
7908959 AACAAATAAAATGTGCACATACTTTCTTCAAAAAAAATATGTTCACATTCTAAACATCAATGAAG
66 AACAAATAAAATGTGCACATACTTTCTTCAAAAAAAATATGTTCACATTCTAAACATCAATGAAG
7909024 CAAAACCTGCTTTACTTCATTGTCTT
131 CAAAACCTGCTTTACTTCATTGTCTT
7909050 AA
1 AA
7909052 TTGAATATAT
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 158 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (156 bp):
AAACAACATCATGGTTGTGATGAATTTGTAAAAACCAATCTAAGCATTGAAATCCACCAGTTTTC
AACAAATAAAATGTGCACATACTTTCTTCAAAAAAAATATGTTCACATTCTAAACATCAATGAAG
CAAAACCTGCTTTACTTCATTGTCTT
Found at i:7912032 original size:11 final size:11
Alignment explanation
Indices: 7912016--7912044 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
7912006 AATGTTAATA
7912016 CAGGGGTCCGC
1 CAGGGGTCCGC
7912027 CAGGGGTCCGC
1 CAGGGGTCCGC
7912038 CAGGGGT
1 CAGGGGT
7912045 TTCAAGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.31, G:0.48, T:0.10
Consensus pattern (11 bp):
CAGGGGTCCGC
Found at i:7913300 original size:129 final size:132
Alignment explanation
Indices: 7913150--7913398 Score: 333
Period size: 129 Copynumber: 1.9 Consensus size: 132
7913140 AGTTCATTGC
** * * * * * * * *
7913150 GAACCTAGTTTTGGTGGTGTATCCGCTGGAGCTTCCATTATGGGTTACTCATCTCCTCTCGAAGT
1 GAACCTAGCCTTGGTGCTGTATCAGCTGCAGCTACCATTAGGGGTTACTCATCTCCACTAGAAAT
* * **
7913215 TCCAAATTTAGTTGGCCATAGATGGGATGC-TCC-T-GGCATTAGTCCAAGTGCTGGAGTTCATC
66 TCCAAATTTAGTTAGCCAAAGACAGGATGCTTCCGTAGGCATTAGTCCAAGTGCTGGAGTTCATC
7913277 CT
131 CT
*
7913279 GAACCTAGCCTTGGTGCTGTATCAGCTGCAGCTACCATTAGGGGTTATTCATCTCCACTAGAAAT
1 GAACCTAGCCTTGGTGCTGTATCAGCTGCAGCTACCATTAGGGGTTACTCATCTCCACTAGAAAT
*
7913344 TCCAAATTTAGTTAGCCAAAGACAGGATGCTTCCGTAGGCATTAGTCTAAGTGCT
66 TCCAAATTTAGTTAGCCAAAGACAGGATGCTTCCGTAGGCATTAGTCCAAGTGCT
7913399 CCTGCTCCCA
Statistics
Matches: 101, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
129 80 0.79
130 3 0.03
131 1 0.01
132 17 0.17
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (132 bp):
GAACCTAGCCTTGGTGCTGTATCAGCTGCAGCTACCATTAGGGGTTACTCATCTCCACTAGAAAT
TCCAAATTTAGTTAGCCAAAGACAGGATGCTTCCGTAGGCATTAGTCCAAGTGCTGGAGTTCATC
CT
Found at i:7918954 original size:3 final size:3
Alignment explanation
Indices: 7918946--7918998 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
7918936 AACAAGATAA
*
7918946 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AAC AGC
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC
7918994 AGC AG
1 AGC AG
7918999 ATTCTGTCTC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.36, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:7922540 original size:6 final size:6
Alignment explanation
Indices: 7922517--7922551 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
7922507 TAATAAAAAT
7922517 TTTTAA TTTATCAA TTTTAA TTTTAA TTTTAA TTT
1 TTTTAA TTT-T-AA TTTTAA TTTTAA TTTTAA TTT
7922552 ATTCATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTTAA
Found at i:7922546 original size:12 final size:14
Alignment explanation
Indices: 7922517--7922563 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
7922507 TAATAAAAAT
7922517 TTTTAATTTATCAA
1 TTTTAATTTATCAA
7922531 TTTTAATTT-T-AA
1 TTTTAATTTATCAA
7922543 TTTTAATTTATTC-A
1 TTTTAATTTA-TCAA
7922557 TTTTAAT
1 TTTTAAT
7922564 AAAAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 11 0.37
13 1 0.03
14 18 0.60
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTAATTTATCAA
Found at i:7922570 original size:26 final size:26
Alignment explanation
Indices: 7922507--7922572 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
7922497 TTAATTTATA
7922507 TAATAAAAATTTTTAATTTATCAATTT
1 TAATAAAAA-TTTTAATTTATCAATTT
***
7922534 TAATTTTAATTTTAATTTATTC-ATTT
1 TAATAAAAATTTTAATTTA-TCAATTT
7922560 TAATAAAAATTTT
1 TAATAAAAATTTT
7922573 TACAAATATC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
26 24 0.75
27 8 0.25
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (26 bp):
TAATAAAAATTTTAATTTATCAATTT
Found at i:7931010 original size:2 final size:2
Alignment explanation
Indices: 7931003--7931029 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7930993 TTATTCATAA
7931003 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
7931030 ATACATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:7932303 original size:182 final size:180
Alignment explanation
Indices: 7931989--7932344 Score: 495
Period size: 182 Copynumber: 2.0 Consensus size: 180
7931979 GAAACAATTG
* *
7931989 GTTTGGATAAACTATCAGAGGAATAAATGACTCTAAAGCTGTCAAGGAGTGATAGTTGGGTTGCA
1 GTTTGGATAAACTATCAGAGGAATAAATGACACTAAAGCTGTCAAGGAGTGATAGTTAGGTTGCA
* *
7932054 TTACTCATTCTAAGTTTTAGATTCAAGCCATTTTCATCCCAAATACTCTCGTGATTAGTGTAAAG
66 TTACACATTCTAACTTTTAGATTCAAGCCATTTTCATCCCAAATACTCTCGTGATTAGTGTAAAG
*
7932119 GCAAAAGAGAACCAGTCTTATTTCTCAAGTCAAAGTTTTGATGGTTCAAA
131 GCAAAAGAGAACCAGTCTTATTTCTCAAGTCAAAGTTGTGATGGTTCAAA
*
7932169 GTTTGGATAAAACTATCAGAGGAATAAATGACAC-AGGAA-CTGTCAAGGGGGTGATAGTTAGGT
1 GTTTGGAT-AAACTATCAGAGGAATAAATGACACTA--AAGCTGTCAA-GGAGTGATAGTTAGGT
* * * * * *
7932232 TGCATTACACATTCTTACTTTTAGATTGAAGCTATTTTCAT-CCATAATGCTGTTGTG-TTGAGT
62 TGCATTACACATTCTAACTTTTAGATTCAAGCCATTTTCATCCCA-AATACTCTCGTGATT-AGT
* * *
7932295 GTAAAGGCAAAAGAGAACCAGTTTTATTTCTTAAGTTAAAGTTGTGATGG
125 GTAAAGGCAAAAGAGAACCAGTCTTATTTCTCAAGTCAAAGTTGTGATGG
7932345 ATAAATGTTA
Statistics
Matches: 155, Mismatches: 15, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
180 9 0.06
181 36 0.23
182 110 0.71
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.33
Consensus pattern (180 bp):
GTTTGGATAAACTATCAGAGGAATAAATGACACTAAAGCTGTCAAGGAGTGATAGTTAGGTTGCA
TTACACATTCTAACTTTTAGATTCAAGCCATTTTCATCCCAAATACTCTCGTGATTAGTGTAAAG
GCAAAAGAGAACCAGTCTTATTTCTCAAGTCAAAGTTGTGATGGTTCAAA
Found at i:7933263 original size:34 final size:34
Alignment explanation
Indices: 7933191--7933267 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 34
7933181 TTTCAAAAAA
*
7933191 AAAATTTACTTATCCTTTCTTTATCTTTTACCTTT
1 AAAATTTA-TTATCCTTTCTTTATCTTTGACCTTT
7933226 AAAATTT-TTATCCTTTCTTT-TCTCCTTGACCTTT
1 AAAATTTATTATCCTTTCTTTATCT--TTGACCTTT
7933260 AAAATTTA
1 AAAATTTA
7933268 CCTTAATTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
32 3 0.08
33 13 0.34
34 15 0.39
35 7 0.18
ACGTcount: A:0.25, C:0.19, G:0.01, T:0.55
Consensus pattern (34 bp):
AAAATTTATTATCCTTTCTTTATCTTTGACCTTT
Found at i:7937167 original size:57 final size:57
Alignment explanation
Indices: 7937106--7937213 Score: 137
Period size: 57 Copynumber: 1.9 Consensus size: 57
7937096 ACATCCATGT
* * * *
7937106 ACTATA-CTTATATGAATCCTCACAATCTCCTTTAATTCATTTACAAACATTCACACC
1 ACTATATC-TATATAAATCATCACAATCACCTTTAATTCACTTACAAACATTCACACC
* * *
7937163 ACTATATCTATATAAATCATCTCATTCACCTTTAGTTCACTTACAAACATT
1 ACTATATCTATATAAATCATCACAATCACCTTTAATTCACTTACAAACATT
7937214 TATATCACCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
57 42 0.98
58 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (57 bp):
ACTATATCTATATAAATCATCACAATCACCTTTAATTCACTTACAAACATTCACACC
Found at i:7939597 original size:53 final size:53
Alignment explanation
Indices: 7939530--7939635 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
7939520 TTTTACTTAG
*
7939530 AATATATGAATATCCTATTGATGATTGATCTACTATATGAAATAATTTTAGAA
1 AATATATGAATATCCTATTGATGATTGATCTACCATATGAAATAATTTTAGAA
7939583 AATATATGAATATCCTATTGATGATTGATCTACCATATGAAATAATTTTAGAA
1 AATATATGAATATCCTATTGATGATTGATCTACCATATGAAATAATTTTAGAA
7939636 CTAAGTATCT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (53 bp):
AATATATGAATATCCTATTGATGATTGATCTACCATATGAAATAATTTTAGAA
Found at i:7942851 original size:14 final size:14
Alignment explanation
Indices: 7942832--7942879 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
7942822 TTAATAATTT
*
7942832 AAAATATAATATAA
1 AAAATATAAAATAA
7942846 AAAATATAAAATAA
1 AAAATATAAAATAA
*
7942860 ATATAATACAAAAATAA
1 A-A-AATA-TAAAATAA
7942877 AAA
1 AAA
7942880 TAAAAATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 14 0.48
15 2 0.07
16 5 0.17
17 8 0.28
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATATAAAATAA
Found at i:7942865 original size:25 final size:23
Alignment explanation
Indices: 7942833--7942883 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 23
7942823 TAATAATTTA
7942833 AAATATAATATAAAAAATATAAAAT
1 AAATATAATA-AAAAAATA-AAAAT
*
7942858 AAATATAATACAAAAATAAAAAT
1 AAATATAATAAAAAAATAAAAAT
7942881 AAA
1 AAA
7942884 AATGATACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 8 0.32
24 7 0.28
25 10 0.40
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (23 bp):
AAATATAATAAAAAAATAAAAAT
Found at i:7942879 original size:23 final size:24
Alignment explanation
Indices: 7942833--7942893 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 24
7942823 TAATAATTTA
*
7942833 AAATATAATATAAAAAATATAAAAT
1 AAATATAATA-CAAAAATATAAAAT
7942858 AAATATAATACAAAAATA-AAAAT
1 AAATATAATACAAAAATATAAAAT
* *
7942881 AAAAATGATACAA
1 AAATATAATACAA
7942894 TTTAAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 16 0.48
24 7 0.21
25 10 0.30
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (24 bp):
AAATATAATACAAAAATATAAAAT
Done.