Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold181
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: 968729
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 1 of 7
Found at i:2132 original size:2 final size:2
Alignment explanation
Indices: 2125--2162 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2115 TCTTAAGAAA
2125 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2163 TTTTCCTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4325 original size:7 final size:7
Alignment explanation
Indices: 4313--4347 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
4303 AAATACAGAG
*
4313 AAAAATT
1 AAAAATA
4320 AAAAATA
1 AAAAATA
4327 AAAAATA
1 AAAAATA
4334 AGAAAATA
1 A-AAAATA
4342 AAAAAT
1 AAAAAT
4348 TAAATACATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (7 bp):
AAAAATA
Found at i:9419 original size:11 final size:11
Alignment explanation
Indices: 9403--9436 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
9393 TTTTAAAATT
9403 TTTATATAAAA
1 TTTATATAAAA
*
9414 TTTATAATTAAA
1 TTTAT-ATAAAA
9426 TTTATATAAAA
1 TTTATATAAAA
9437 ATATTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTTATATAAAA
Found at i:9438 original size:12 final size:13
Alignment explanation
Indices: 9396--9444 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
9386 GAATTATTTT
*
9396 TAAAATTTTTATA
1 TAAAATTTATATA
9409 TAAAATTTATA-A
1 TAAAATTTATATA
*
9421 TTAAATTTATATA
1 TAAAATTTATATA
*
9434 AAAATATTTAT
1 TAAA-ATTTAT
9445 TTATTTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 11 0.37
13 13 0.43
14 6 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TAAAATTTATATA
Found at i:9580 original size:16 final size:18
Alignment explanation
Indices: 9556--9597 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9546 AAAATTTTAA
9556 TAAAAATAT-AATT-TTT
1 TAAAAATATAAATTATTT
*
9572 TAAATATATAAATTATTT
1 TAAAAATATAAATTATTT
9590 TAAAAATA
1 TAAAAATA
9598 AATATATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 4 0.18
18 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAAAATATAAATTATTT
Found at i:9596 original size:20 final size:19
Alignment explanation
Indices: 9549--9597 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
9539 CTTATAAAAA
*
9549 ATTTTAATAAAAATATAATT
1 ATTTTAA-AAATATATAATT
*
9569 -TTTTAAATATATA-AATT
1 ATTTTAAAAATATATAATT
9586 ATTTTAAAAATA
1 ATTTTAAAAATA
9598 AATATATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 4 0.16
18 15 0.60
19 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTAAAAATATATAATT
Found at i:9598 original size:16 final size:16
Alignment explanation
Indices: 9556--9606 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 16
9546 AAAATTTTAA
9556 TAAAAATATAATT-TTT
1 TAAAAATA-AATTATTT
9572 TAAATATATAAATTATTT
1 TAAA-A-ATAAATTATTT
9590 TAAAAATAAATATATTT
1 TAAAAATAAAT-TATTT
9607 ATATTAAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 10 0.32
17 11 0.35
18 10 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAAATAAATTATTT
Found at i:9607 original size:16 final size:15
Alignment explanation
Indices: 9556--9607 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 15
9546 AAAATTTTAA
*
9556 TAAAAATATAATTTTT
1 TAAAAATA-AATTATT
9572 TAAATATATAAATTATTT
1 TAAA-A-ATAAATTA-TT
9590 TAAAAATAAATATATT
1 TAAAAATAAAT-TATT
9606 TA
1 TA
9608 TATTAAACGA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
16 14 0.45
17 8 0.26
18 9 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAAAAATAAATTATT
Found at i:9850 original size:17 final size:17
Alignment explanation
Indices: 9815--9854 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
9805 TATATATATA
9815 TATATTAAATTTCTTAAT
1 TATA-TAAATTTCTTAAT
9833 TGATATAAATTT-TTAAT
1 T-ATATAAATTTCTTAAT
9850 TATAT
1 TATAT
9855 TTAATATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.19
17 6 0.29
18 8 0.38
19 3 0.14
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
TATATAAATTTCTTAAT
Found at i:10777 original size:14 final size:14
Alignment explanation
Indices: 10760--10789 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10750 ATTAAATTTA
*
10760 TTTTTAAAAATTAT
1 TTTTTAAAAATCAT
10774 TTTTTAAAAATCAT
1 TTTTTAAAAATCAT
10788 TT
1 TT
10790 ACGACAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTTAAAAATCAT
Found at i:12544 original size:9 final size:9
Alignment explanation
Indices: 12529--12685 Score: 52
Period size: 11 Copynumber: 15.9 Consensus size: 9
12519 GATTACATCA
12529 ATTTAAATT
1 ATTTAAATT
*
12538 TTTTAAATT
1 ATTTAAATT
12547 ATTTAAAATTT
1 ATTT-AAA-TT
*
12558 AGTTTAGAATA
1 A-TTTA-AATT
12569 ATTTATAAATTT
1 A-TT-TAAA-TT
*
12581 ATTT-TATT
1 ATTTAAATT
*
12589 ATTTAAAAT
1 ATTTAAATT
*
12598 ATATTAAAAT
1 AT-TTAAATT
*
12608 AATTAAA--
1 ATTTAAATT
* *
12615 AATTAATTT
1 ATTTAAATT
12624 ATATTAAATTT
1 AT-TTAAA-TT
12635 ATTTATAATT
1 ATTTA-AATT
12645 AAATTTAAATAT
1 --ATTTAAAT-T
12657 ATATT-AATT
1 AT-TTAAATT
12666 AATTTAATATT
1 -ATTTAA-ATT
12677 AATTTAAAT
1 -ATTTAAAT
12686 CAATATCAAT
Statistics
Matches: 116, Mismatches: 12, Indels: 39
0.69 0.07 0.23
Matches are distributed among these distances:
7 6 0.05
8 6 0.05
9 25 0.22
10 31 0.27
11 33 0.28
12 15 0.13
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (9 bp):
ATTTAAATT
Found at i:12586 original size:23 final size:21
Alignment explanation
Indices: 12538--12623 Score: 70
Period size: 20 Copynumber: 4.1 Consensus size: 21
12528 AATTTAAATT
*
12538 TTTTAAATTATTTAAAATTTA
1 TTTTAAATAATTTAAAATTTA
*
12559 GTTTAGAATAATTTATAAATTTA
1 TTTTA-AATAATTTA-AAATTTA
* *
12582 TTTT--ATTATTTAAAATATA
1 TTTTAAATAATTTAAAATTTA
* * *
12601 -TTAAAATAATTAAAAATTAA
1 TTTTAAATAATTTAAAATTTA
12621 TTT
1 TTT
12624 ATATTAAATT
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
18 2 0.04
19 6 0.12
20 18 0.36
21 6 0.12
22 8 0.16
23 10 0.20
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTTAAATAATTTAAAATTTA
Found at i:12609 original size:40 final size:41
Alignment explanation
Indices: 12539--12629 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 41
12529 ATTTAAATTT
* * * * *
12539 TTTAAATTATTTAAAATTTAGTTTAGAATAATTTATAAATTTA
1 TTTATATTATTTAAAATATAG-TTAAAATAA-TTAAAAATTAA
12582 TTT-TATTATTTAAAATATA-TTAAAATAATTAAAAATTAA
1 TTTATATTATTTAAAATATAGTTAAAATAATTAAAAATTAA
12621 TTTATATTA
1 TTTATATTA
12630 AATTTATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
39 12 0.29
40 13 0.31
42 14 0.33
43 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (41 bp):
TTTATATTATTTAAAATATAGTTAAAATAATTAAAAATTAA
Found at i:12647 original size:16 final size:15
Alignment explanation
Indices: 12614--12682 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
12604 AAATAATTAA
*
12614 AAATTAATTTATATT
1 AAATTTATTTATATT
12629 AAATTTATTTATAATT
1 AAATTTATTTAT-ATT
*
12645 AAATTTAAATATATATT
1 AAATTT--ATTTATATT
*
12662 -AATTAATTTAATATT
1 AAATTTATTT-ATATT
12677 -AATTTA
1 AAATTTA
12683 AATCAATATC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
14 3 0.07
15 21 0.47
16 13 0.29
17 3 0.07
18 5 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AAATTTATTTATATT
Found at i:12653 original size:58 final size:54
Alignment explanation
Indices: 12574--12682 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 54
12564 GAATAATTTA
12574 TAAATTTATTTTATTATTTAAA-ATATATTAAAATAATTAAAAATTAATTTATAT
1 TAAATTTATTTTATTATTTAAATATATATT-AAATAATTAAAAATTAATTTATAT
* * *
12628 TAAATTTATTTATAATTAAATTTAAATATATATTAATTAATTTAATATTAATTTA
1 TAAATTTATTT-T-ATT--ATTTAAATATATATTAAATAATTAAAAATTAATTTA
12683 AATCAATATC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
54 11 0.23
55 1 0.02
56 3 0.06
58 25 0.53
59 7 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (54 bp):
TAAATTTATTTTATTATTTAAATATATATTAAATAATTAAAAATTAATTTATAT
Found at i:12681 original size:31 final size:33
Alignment explanation
Indices: 12623--12698 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 33
12613 AAAATTAATT
*
12623 TATATTAAATTTATTTATAATTAAATTTAAAT-A
1 TATATT-AATTAATTTATAATTAAATTTAAATCA
12656 TATATTAATTAATTTA-ATATT-AATTTAAATCA
1 TATATTAATTAATTTATA-ATTAAATTTAAATCA
*
12688 -ATATCAATTAA
1 TATATTAATTAA
12699 AAAATTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
31 20 0.51
32 13 0.33
33 6 0.15
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (33 bp):
TATATTAATTAATTTATAATTAAATTTAAATCA
Found at i:12683 original size:16 final size:16
Alignment explanation
Indices: 12617--12683 Score: 70
Period size: 16 Copynumber: 4.2 Consensus size: 16
12607 TAATTAAAAA
12617 TTAATTTATATTAAAT
1 TTAATTTATATTAAAT
12633 TT-ATTTATAATTAAAT
1 TTAATTTAT-ATTAAAT
*
12649 TTAAATATATATT-AA-
1 TT-AATTTATATTAAAT
12664 TTAATTTAATATT-AAT
1 TTAATTT-ATATTAAAT
12680 TTAA
1 TTAA
12684 ATCAATATCA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
14 4 0.09
15 15 0.34
16 17 0.39
17 3 0.07
18 5 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAATTTATATTAAAT
Found at i:12690 original size:16 final size:15
Alignment explanation
Indices: 12646--12696 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
12636 TTTATAATTA
12646 AATTTAAATATATATT
1 AATTTAAATA-ATATT
*
12662 AA-TTAATTTAATATT
1 AATTTAA-ATAATATT
*
12677 AATTTAAATCAATATC
1 AATTTAAAT-AATATT
12693 AATT
1 AATT
12697 AAAAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTAAATAATATT
Found at i:12698 original size:15 final size:15
Alignment explanation
Indices: 12657--12699 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
12647 ATTTAAATAT
* *
12657 ATATTAATTAATTTA
1 ATATTAATTAAATCA
12672 ATATTAATTTAAATCA
1 ATATTAA-TTAAATCA
*
12688 ATATCAATTAAA
1 ATATTAATTAAA
12700 AAATTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATTAATTAAATCA
Found at i:13336 original size:18 final size:17
Alignment explanation
Indices: 13313--13346 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13303 AACTTGAATT
13313 AATATTTAATATTTAAAA
1 AATATTT-ATATTTAAAA
*
13331 AATATTTTTATTTAAA
1 AATATTTATATTTAAA
13347 TTTAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATTTATATTTAAAA
Found at i:13381 original size:22 final size:20
Alignment explanation
Indices: 13343--13382 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
13333 TATTTTTATT
13343 TAAATTTAATTAAAAATATA
1 TAAATTTAATTAAAAATATA
13363 TAAATATTAATATAAAAATA
1 TAAAT-TTAAT-TAAAAATA
13383 ATTTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAATTTAATTAAAAATATA
Found at i:13390 original size:51 final size:50
Alignment explanation
Indices: 13313--13424 Score: 120
Period size: 51 Copynumber: 2.2 Consensus size: 50
13303 AACTTGAATT
*
13313 AATATTTAATATTTAAAAAATATTTTTATTTAA-ATTTAATTAAAAATATATA
1 AATA-TTAATATTAAAAAAATATTTTTATTTAATA-TTAATTAAAAATA-ATA
* ** *
13365 AATATTAATA-TAAAAATAATTTTTTTATTTTTTATTAATTATAAATAATA
1 AATATTAATATTAAAAA-AATATTTTTATTTAATATTAATTAAAAATAATA
*
13415 AATATGAATA
1 AATATTAATA
13425 ATCAAAACTA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
50 17 0.33
51 30 0.58
52 5 0.10
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (50 bp):
AATATTAATATTAAAAAAATATTTTTATTTAATATTAATTAAAAATAATA
Found at i:13683 original size:13 final size:12
Alignment explanation
Indices: 13665--13720 Score: 69
Period size: 13 Copynumber: 4.6 Consensus size: 12
13655 GATTAGTTTG
13665 ATTAAATTAAATT
1 ATTAAATTAAA-T
13678 ATTAAATTAAA-
1 ATTAAATTAAAT
*
13689 AATAAATTAAAT
1 ATTAAATTAAAT
*
13701 ATATAAATTGAAT
1 AT-TAAATTAAAT
13714 ATTAAAT
1 ATTAAAT
13721 AAGTATTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
11 10 0.26
12 6 0.16
13 22 0.58
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (12 bp):
ATTAAATTAAAT
Found at i:14512 original size:9 final size:11
Alignment explanation
Indices: 14477--14537 Score: 51
Period size: 10 Copynumber: 5.8 Consensus size: 11
14467 AATATTTTAT
14477 ATTTT-TATAA
1 ATTTTATATAA
*
14487 TTTTTATATAA
1 ATTTTATATAA
14498 ATTTTA-ATAA
1 ATTTTATATAA
14508 A-TTTATAT--
1 ATTTTATATAA
*
14516 ATTTATATTTAA
1 ATTT-TATATAA
14528 ATATTTATAT
1 AT-TTTATAT
14538 TATTTTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
8 1 0.03
9 6 0.15
10 15 0.38
11 10 0.25
12 6 0.15
13 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTTATATAA
Found at i:14777 original size:12 final size:13
Alignment explanation
Indices: 14753--14793 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
14743 ACTTGATATA
14753 ATAAAAATATAAT
1 ATAAAAATATAAT
14766 ATAAAAAT-TAAT
1 ATAAAAATATAAT
*
14778 A-AAATATATAAAT
1 ATAAAAATAT-AAT
14791 ATA
1 ATA
14794 TTAAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
11 5 0.21
12 6 0.25
13 12 0.50
14 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAAAAATATAAT
Found at i:14783 original size:17 final size:18
Alignment explanation
Indices: 14758--14800 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
14748 ATATAATAAA
*
14758 AATATAATATAAAAAT-T
1 AATAAAATATAAAAATAT
*
14775 AATAAAATATATAAATAT
1 AATAAAATATAAAAATAT
*
14793 ATTAAAAT
1 AATAAAAT
14801 TTATGTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAAAATATAAAAATAT
Found at i:15222 original size:28 final size:27
Alignment explanation
Indices: 15155--15224 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
15145 AATAAATATA
*
15155 TTAACATATAAA-TTTCATTTTTAATT
1 TTAAAATATAAATTTTCATTTTTAATT
* *
15181 TTAAAAAATTTAAATTTATTATTTTTAATT
1 TT--AAAATATAAATTT-TCATTTTTAATT
*
15211 TTAATATATAAATT
1 TTAAAATATAAATT
15225 AAAATTTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.06
28 18 0.51
29 2 0.06
30 13 0.37
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (27 bp):
TTAAAATATAAATTTTCATTTTTAATT
Found at i:17067 original size:6 final size:6
Alignment explanation
Indices: 17056--17086 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
17046 ATTTAAATAA
17056 TAATTT TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT TAATTT T
17087 TTTAATCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:17598 original size:22 final size:23
Alignment explanation
Indices: 17571--17613 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17561 TTTTAAAATT
17571 AATTA-TGAAAAAAAATTAAAAA
1 AATTATTGAAAAAAAATTAAAAA
**
17593 AATTATTTTAAAAAAATTAAA
1 AATTATTGAAAAAAAATTAAA
17614 TAAGTGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
AATTATTGAAAAAAAATTAAAAA
Found at i:18122 original size:19 final size:18
Alignment explanation
Indices: 18094--18133 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18084 TATAATTAAA
18094 TTTAAATAAAAAATATTAT
1 TTTAAAT-AAAAATATTAT
* *
18113 TTTAATTAAAATTATTAT
1 TTTAAATAAAAATATTAT
18131 TTT
1 TTT
18134 GGATGAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAATAAAAATATTAT
Found at i:18401 original size:20 final size:21
Alignment explanation
Indices: 18365--18404 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
18355 ACAATAGATA
*
18365 TTATTTTATAAATATATTAAT
1 TTATTTTATAAAAATATTAAT
18386 TTATTTT-TAAAAATATTAA
1 TTATTTTATAAAAATATTAA
18405 ATATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATTTTATAAAAATATTAAT
Found at i:20134 original size:2 final size:2
Alignment explanation
Indices: 20127--20165 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
20117 TTTAAGGGTT
20127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20166 TTTATAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35323 original size:4 final size:4
Alignment explanation
Indices: 35314--35385 Score: 117
Period size: 4 Copynumber: 18.0 Consensus size: 4
35304 TGTCCTACAA
* *
35314 TATG TATG TATG TATG GATG TATG TATG TATG TATG TATG TATG AATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
35362 TATG TATA TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG
35386 ACCTTTTTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 62 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:35462 original size:17 final size:17
Alignment explanation
Indices: 35442--35475 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
35432 GTCTCATACA
35442 GGTATGTTTAATTTTTT
1 GGTATGTTTAATTTTTT
35459 GGTATGTTTAATTTTTT
1 GGTATGTTTAATTTTTT
35476 CTAAGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (17 bp):
GGTATGTTTAATTTTTT
Found at i:38839 original size:25 final size:26
Alignment explanation
Indices: 38792--38840 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
38782 AATTAACCTT
*
38792 AGTCTGGTCTAGAAAAAAACAAAAGA
1 AGTCTGGTCCAGAAAAAAACAAAAGA
38818 AGTCTGGTCCAG-AAAAAACAAAA
1 AGTCTGGTCCAGAAAAAAACAAAA
38841 CAGTTGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.53, C:0.14, G:0.18, T:0.14
Consensus pattern (26 bp):
AGTCTGGTCCAGAAAAAAACAAAAGA
Found at i:42023 original size:21 final size:21
Alignment explanation
Indices: 41997--42051 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
41987 TATTTTAAAG
41997 CTTGAGCTTGATTCAAGATAA
1 CTTGAGCTTGATTCAAGATAA
42018 CTTGAG-TTCGATTCAAGATAA
1 CTTGAGCTT-GATTCAAGATAA
*
42039 CTTGAGCTCGATT
1 CTTGAGCTTGATT
42052 AGACTCGCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 2 0.06
21 28 0.90
22 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (21 bp):
CTTGAGCTTGATTCAAGATAA
Found at i:47211 original size:16 final size:17
Alignment explanation
Indices: 47190--47247 Score: 59
Period size: 16 Copynumber: 3.4 Consensus size: 17
47180 ATTTAAATAA
47190 ATAATTATT-ATTTAAT
1 ATAATTATTAATTTAAT
47206 ATAATTTAACTTAAATTT-AT
1 ATAA-TT-A-TT-AATTTAAT
47226 ATAATTATTAATTTAAT
1 ATAATTATTAATTTAAT
47243 -TAATT
1 ATAATT
47248 GGTTATAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
16 14 0.39
17 6 0.17
18 2 0.06
19 4 0.11
20 6 0.17
21 4 0.11
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAATTATTAATTTAAT
Found at i:47585 original size:11 final size:12
Alignment explanation
Indices: 47564--47593 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47554 TTATTCATAA
47564 TTTATAAAAAAT
1 TTTATAAAAAAT
*
47576 TTTAAAAAAAAT
1 TTTATAAAAAAT
47588 TTTATA
1 TTTATA
47594 TTAATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TTTATAAAAAAT
Found at i:47639 original size:16 final size:18
Alignment explanation
Indices: 47612--47654 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
47602 TTTATATTTT
*
47612 ATAATTA-AATTTAAATA
1 ATAATTATATTTTAAATA
47629 A-AATTATATTTTTAAATA
1 ATAATTATA-TTTTAAATA
47647 ATAATTAT
1 ATAATTAT
47655 TAATTCAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.23
17 2 0.09
18 9 0.41
19 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAATTATATTTTAAATA
Found at i:48507 original size:18 final size:18
Alignment explanation
Indices: 48486--48530 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
48476 AAATTATTTT
48486 TAAAATAAAAATATAAA-A
1 TAAAATAAAAATA-AAATA
48504 TAAAAT-AAAATAAAATA
1 TAAAATAAAAATAAAATA
48521 TATAAATAAA
1 TA-AAATAAA
48531 TATTAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 9 0.38
18 10 0.42
19 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAAATAAAAATAAAATA
Found at i:48532 original size:22 final size:23
Alignment explanation
Indices: 48486--48530 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
48476 AAATTATTTT
48486 TAAAATAAAAATATAAAATAAAA
1 TAAAATAAAAATATAAAATAAAA
48509 TAAAAT-AAAATATATAAATAAA
1 TAAAATAAAAATATA-AAATAAA
48531 TATTAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (23 bp):
TAAAATAAAAATATAAAATAAAA
Found at i:48553 original size:14 final size:13
Alignment explanation
Indices: 48527--48620 Score: 58
Period size: 13 Copynumber: 7.4 Consensus size: 13
48517 AATATATAAA
48527 TAAATATTAAATT
1 TAAATATTAAATT
48540 TAAATATCTAAATT
1 TAAATAT-TAAATT
*
48554 T-ATTATTTAAA--
1 TAAATA-TTAAATT
*
48565 TAAATAAAATAAATT
1 TAAAT--ATTAAATT
*
48580 T-AATAATAAATT
1 TAAATATTAAATT
*
48592 TAAATATTTAATAT
1 TAAATATTAAAT-T
48606 T--AT-TTAAATT
1 TAAATATTAAATT
48616 TAAAT
1 TAAAT
48621 TAAAATAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 23
0.69 0.06 0.25
Matches are distributed among these distances:
10 2 0.03
11 6 0.09
12 15 0.23
13 26 0.41
14 14 0.22
15 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAATATTAAATT
Found at i:48572 original size:21 final size:21
Alignment explanation
Indices: 48522--48596 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
48512 AATAAAATAT
48522 ATAAATAAATATTAAATTTAA
1 ATAAATAAATATTAAATTTAA
** *
48543 ATATCTAAAT-TTATTATTTAA
1 ATAAATAAATATTA-AATTTAA
48564 ATAAATAAA-A-TAAATTT-A
1 ATAAATAAATATTAAATTTAA
48582 AT-AATAAAT-TTAAAT
1 ATAAATAAATATTAAAT
48597 ATTTAATATT
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
17 6 0.14
18 8 0.18
19 4 0.09
20 5 0.11
21 21 0.48
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAATAAATATTAAATTTAA
Found at i:48598 original size:52 final size:51
Alignment explanation
Indices: 48506--48637 Score: 142
Period size: 52 Copynumber: 2.5 Consensus size: 51
48496 ATATAAAATA
* * * *
48506 AAATAAAATAAAATATATAAATAAATATTAAATTTAAATATCTAAATTTATTATTT
1 AAATTAAATTAAA-ATA-AAATTAATAATAAATTTAAATAT-TAAA--TATTATTT
* *
48562 AAA-TAAA-TAAAATAAATTTAATAATAAATTTAAATATTTAATATTATTT
1 AAATTAAATTAAAATAAAATTAATAATAAATTTAAATATTAAATATTATTT
48611 AAATTTAAATTAAAATAAAATTAATAA
1 AAA-TTAAATTAAAATAAAATTAATAA
48638 ATTTAATTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
49 11 0.17
51 7 0.11
52 36 0.55
53 3 0.05
54 3 0.05
55 3 0.05
56 3 0.05
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (51 bp):
AAATTAAATTAAAATAAAATTAATAATAAATTTAAATATTAAATATTATTT
Found at i:48702 original size:28 final size:30
Alignment explanation
Indices: 48671--48737 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 30
48661 CTCGAAATTT
*
48671 TTTATAAATAATAAATTTAAT-AT-TTAAA
1 TTTATAAATAATAAATTAAATAATATTAAA
*
48699 TTTATAAAAAATAAATTAAATAATATTAAA
1 TTTATAAATAATAAATTAAATAATATTAAA
48729 TATT-TAAAT
1 T-TTATAAAT
48738 TTTTACTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 19 0.58
29 2 0.06
30 10 0.30
31 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
TTTATAAATAATAAATTAAATAATATTAAA
Found at i:54069 original size:12 final size:13
Alignment explanation
Indices: 54046--54074 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
54036 AAAATTTAAT
54046 ATTTTAAATTTTA
1 ATTTTAAATTTTA
54059 ATTTT-AATTTTA
1 ATTTTAAATTTTA
54071 ATTT
1 ATTT
54075 ATTGATACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTTAAATTTTA
Found at i:54222 original size:16 final size:17
Alignment explanation
Indices: 54203--54240 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
54193 AAAATAATTA
54203 ATTAATTTAATT-AATG
1 ATTAATTTAATTCAATG
*
54219 ATTAA-TTAATTCAATT
1 ATTAATTTAATTCAATG
54235 ATTAAT
1 ATTAAT
54241 CAAATTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTAATTTAATTCAATG
Found at i:55280 original size:16 final size:16
Alignment explanation
Indices: 55229--55281 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 16
55219 ATTGAGTTTT
*
55229 ATATAATTATTAATTTA
1 ATATAATTAAT-ATTTA
55246 TATATAATTAATATATTA
1 -ATATAATTAATAT-TTA
55264 ATA-AATTAATTATTTA
1 ATATAATTAA-TATTTA
55280 AT
1 AT
55282 TTAAAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 11 0.34
17 8 0.25
18 13 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATAATTAATATTTA
Found at i:55305 original size:39 final size:38
Alignment explanation
Indices: 55232--55305 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 38
55222 GAGTTTTATA
* *
55232 TAATTATTAATTTATATATAATTAATATATTAATAAAT
1 TAATTATTAATTTATATAAAATTAATATAATAATAAAT
55270 TAATTATTTAATTTA-A-AAAATATAATTATAATAATA
1 TAATTA-TTAATTTATATAAAAT-TAA-TATAATAATA
55306 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 4 0.13
38 10 0.32
39 17 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (38 bp):
TAATTATTAATTTATATAAAATTAATATAATAATAAAT
Found at i:55378 original size:76 final size:74
Alignment explanation
Indices: 55275--55458 Score: 193
Period size: 76 Copynumber: 2.5 Consensus size: 74
55265 TAAATTAATT
* * * *
55275 ATTTAATTTAAAAAATATA-ATTATAATAATATAAA-A-TTTTAAATCGATTTAATATTTTAATT
1 ATTTAATTTATATAATATATATTATAATAAT-TAAATATTTTTAAATCGAATAAATA-TTTAATT
55337 TTATTAATATAAA
64 TT-TT-ATATAAA
* *
55350 ATATTAATATT-TTTAATATATATT-TAATAATTAAATATTTTTATATCGAATAAATATTTAATT
1 AT-TTAAT-TTATATAATATATATTATAATAATTAAATATTTTTAAATCGAATAAATATTTAATT
*
55413 TTTTATTTAAA
64 TTTTATATAAA
*
55424 ATTTAATTTATATAATATATA-TA-AATAAATAAATA
1 ATTTAATTTATATAATATATATTATAATAATTAAATA
55459 AATAATAATA
Statistics
Matches: 93, Mismatches: 9, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
72 14 0.15
73 15 0.16
74 8 0.09
75 8 0.09
76 28 0.30
77 20 0.22
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (74 bp):
ATTTAATTTATATAATATATATTATAATAATTAAATATTTTTAAATCGAATAAATATTTAATTTT
TTATATAAA
Found at i:55444 original size:9 final size:9
Alignment explanation
Indices: 55435--55513 Score: 60
Period size: 9 Copynumber: 8.9 Consensus size: 9
55425 TTTAATTTAT
*
55435 ATAATATAT
1 ATAATATAA
55444 ATAA-ATAA
1 ATAATATAA
55452 ATAA-ATAA
1 ATAATATAA
55460 ATAATA-ATA
1 ATAATATA-A
*
55469 ATAAAATTAA
1 ATAATA-TAA
55479 ATAAATATAA
1 AT-AATATAA
*
55489 ATTATATAA
1 ATAATATAA
55498 A-AATTATAA
1 ATAA-TATAA
55507 A-AATATA
1 ATAATATA
55514 TAAAAATAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
8 21 0.36
9 26 0.44
10 8 0.14
11 4 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAATATAA
Found at i:55474 original size:50 final size:49
Alignment explanation
Indices: 55420--55530 Score: 113
Period size: 50 Copynumber: 2.3 Consensus size: 49
55410 ATTTTTTATT
55420 TAAAATTTAATTTATAT-AATATATATAAATAAATA-AATAAATA-ATAATAA
1 TAAAATTTAATTTATATAAAT-TATATAAA-AAATATAA-AAATATATAA-AA
* ** *
55470 TAAAATTAAATAAATATAAATTATATAAAAATTATAAAAATATATAAAA
1 TAAAATTTAATTTATATAAATTATATAAAAAATATAAAAATATATAAAA
*
55519 -ATAATTTAATTT
1 TAAAATTTAATTT
55531 TAATAAAAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
48 8 0.16
49 11 0.22
50 28 0.56
51 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (49 bp):
TAAAATTTAATTTATATAAATTATATAAAAAATATAAAAATATATAAAA
Found at i:55488 original size:19 final size:17
Alignment explanation
Indices: 55444--55523 Score: 51
Period size: 19 Copynumber: 4.6 Consensus size: 17
55434 TATAATATAT
55444 ATAAATA-AATAAATAA
1 ATAAATATAATAAATAA
55460 AT-AATAATAATAAAATTAA
1 ATAAAT-ATAAT-AAA-TAA
*
55479 ATAAATATAAATTATATAA
1 ATAAATAT-AA-TAAATAA
* *
55498 A-AATTATAA-AAATAT
1 ATAAATATAATAAATAA
*
55513 ATAAAAATAAT
1 ATAAATATAAT
55524 TTAATTTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 17
0.68 0.08 0.24
Matches are distributed among these distances:
15 8 0.16
16 9 0.18
17 5 0.10
18 8 0.16
19 11 0.22
20 7 0.14
21 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAATATAATAAATAA
Found at i:55500 original size:26 final size:27
Alignment explanation
Indices: 55432--55516 Score: 92
Period size: 26 Copynumber: 3.3 Consensus size: 27
55422 AAATTTAATT
*
55432 TATATAATATATATAAATAAATAAATAAA
1 TATATAAT-TATATAAA-AATTAAATAAA
55461 TA-ATAA-TA-AT-AAAATTAAATAAA
1 TATATAATTATATAAAAATTAAATAAA
55484 TATA-AATTATATAAAAATTATAA-AAA
1 TATATAATTATATAAAAATTA-AATAAA
55510 TATATAA
1 TATATAA
55517 AAATAATTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
23 14 0.29
24 5 0.10
25 4 0.08
26 16 0.33
27 4 0.08
28 4 0.08
29 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
TATATAATTATATAAAAATTAAATAAA
Found at i:56412 original size:22 final size:22
Alignment explanation
Indices: 56387--56439 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
56377 TTATTTCATT
56387 AATTTTATTCATAAAATTTTAA
1 AATTTTATTCATAAAATTTTAA
56409 AATTTTATTCATAAAATTTTAA
1 AATTTTATTCATAAAATTTTAA
56431 AATTTTATT
1 AATTTTATT
56440 AATGATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTTTATTCATAAAATTTTAA
Found at i:56938 original size:16 final size:15
Alignment explanation
Indices: 56896--56939 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
56886 CTATTAGTTC
*
56896 AAAAAAAAAATTTTA
1 AAAAAAAAAAATTTA
*
56911 AAAAAGATAAAATTTA
1 AAAAA-AAAAAATTTA
56927 AAATAAAAAAAAT
1 AAA-AAAAAAAAT
56940 AAATTATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.21
16 17 0.71
17 2 0.08
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (15 bp):
AAAAAAAAAAATTTA
Found at i:57665 original size:28 final size:28
Alignment explanation
Indices: 57642--57695 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
57632 CCATTTAATC
57642 TCATTTAAA-AAATT-AATTTAATTT-T
1 TCATTTAAATAAATTAAATTTAATTTAT
*
57667 TTATTTAAATTAAATTAAATTTAATTTAT
1 TCATTTAAA-TAAATTAAATTTAATTTAT
57696 AATTATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 8 0.33
27 5 0.21
28 10 0.42
29 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
TCATTTAAATAAATTAAATTTAATTTAT
Found at i:57679 original size:22 final size:22
Alignment explanation
Indices: 57651--57713 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
57641 CTCATTTAAA
* *
57651 AAATTAATTTAATTTTTTATTT
1 AAATTAATTTAATATTTAATTT
*
57673 AAATTAAATTAA-ATTTAATTT
1 AAATTAATTTAATATTTAATTT
57694 ATAATT-ATTTAATATTTAAT
1 A-AATTAATTTAATATTTAAT
57714 ATTTAATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 13 0.37
22 22 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AAATTAATTTAATATTTAATTT
Found at i:57709 original size:7 final size:7
Alignment explanation
Indices: 57681--57730 Score: 59
Period size: 7 Copynumber: 7.1 Consensus size: 7
57671 TTAAATTAAA
57681 TTAA-AT
1 TTAATAT
57687 TTAAT-T
1 TTAATAT
57693 TATAATTAT
1 T-TAA-TAT
57702 TTAATAT
1 TTAATAT
57709 TTAATAT
1 TTAATAT
57716 TTAATAT
1 TTAATAT
*
57723 TTTATAT
1 TTAATAT
57730 T
1 T
57731 ATATAATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
6 6 0.15
7 27 0.69
8 4 0.10
9 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTAATAT
Found at i:57738 original size:46 final size:44
Alignment explanation
Indices: 57688--57813 Score: 121
Period size: 46 Copynumber: 2.8 Consensus size: 44
57678 AAATTAAATT
57688 TAATTTATAATTATTTAATATTTAATATTTAATATTTTATATTATA
1 TAATTTATAATTATTTAATATTTAATATTTAATATTTTA-A-TATA
* * *
57734 TAATTTAT-ATTATATAAAATTTAAATATATATTATATTTTAATATA
1 TAATTTATAATTATTTAATATTT-AATAT-T-TAATATTTTAATATA
* * * *
57780 -AATATAAAATTATTTTTATATTTAAAATTTAATA
1 TAATTTATAATTA-TTTAATATTTAATATTTAATA
57814 AAAATAAATC
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
44 4 0.06
45 18 0.28
46 25 0.38
47 9 0.14
48 9 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (44 bp):
TAATTTATAATTATTTAATATTTAATATTTAATATTTTAATATA
Found at i:57756 original size:16 final size:14
Alignment explanation
Indices: 57684--57750 Score: 58
Period size: 14 Copynumber: 5.1 Consensus size: 14
57674 AATTAAATTA
57684 AATTTA-ATT-TAT
1 AATTTATATTATAT
57696 AA-TTAT-TTA-AT
1 AATTTATATTATAT
57707 -ATTTAATATT-TAAT
1 AATTT-ATATTAT-AT
*
57721 ATTTTATATTATAT
1 AATTTATATTATAT
57735 AATTTATATTATAT
1 AATTTATATTATAT
57749 AA
1 AA
57751 AATTTAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
10 1 0.02
11 9 0.20
12 4 0.09
13 2 0.05
14 24 0.55
15 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTTATATTATAT
Found at i:57961 original size:31 final size:32
Alignment explanation
Indices: 57897--57961 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 32
57887 CATATTAATC
**
57897 ATTTATATATATAAATAAAATTTAAAATTTAT
1 ATTTATATATATAAATAAAATTTAAAAAATAT
*
57929 ATTT-TATAT-TAAATTAAATTTAAATAAATAT
1 ATTTATATATATAAATAAAATTTAAA-AAATAT
57960 AT
1 AT
57962 AATATCGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 14 0.48
31 11 0.38
32 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
ATTTATATATATAAATAAAATTTAAAAAATAT
Found at i:57966 original size:29 final size:29
Alignment explanation
Indices: 57900--57962 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
57890 ATTAATCATT
**
57900 TATATATA-TAAATAAAATTTAAAATTTA
1 TATATATATTAAATAAAATTTAAAATAAA
* *
57928 TATTTTATATTAAATTAAATTT-AAATAAA
1 TA-TATATATTAAATAAAATTTAAAATAAA
57957 TATATA
1 TATATA
57963 ATATCGATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
28 5 0.18
29 12 0.43
30 11 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
TATATATATTAAATAAAATTTAAAATAAA
Found at i:73681 original size:4 final size:4
Alignment explanation
Indices: 73674--73733 Score: 102
Period size: 4 Copynumber: 15.0 Consensus size: 4
73664 ACAATATATA
* *
73674 TATG TATG TATG TATG TATG TATG TATG TATG AATG TATG TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
73722 TATG TATG TATG
1 TATG TATG TATG
73734 ACTTTTTTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:74082 original size:21 final size:23
Alignment explanation
Indices: 74033--74086 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
74023 TTATAATTTT
*
74033 CTAAGATATTATTTCACAAATCT
1 CTAAGATATTATTTCACAAATCG
*
74056 CTAAGATATTATTTCA-ATAT-G
1 CTAAGATATTATTTCACAAATCG
74077 CTAAGATATT
1 CTAAGATATT
74087 GTTCAACACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 10 0.34
22 3 0.10
23 16 0.55
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (23 bp):
CTAAGATATTATTTCACAAATCG
Found at i:80712 original size:52 final size:51
Alignment explanation
Indices: 80627--80750 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
80617 TTATGAAAAG
* *
80627 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
80678 TTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
80730 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
80751 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:80763 original size:51 final size:51
Alignment explanation
Indices: 80627--80770 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
80617 TTATGAAAAG
*
80627 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
80679 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
80730 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
80771 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 2 0.02
51 34 0.40
52 48 0.57
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:80777 original size:13 final size:13
Alignment explanation
Indices: 80759--80783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80749 CAAAGATCAG
80759 TGTATCGATACAA
1 TGTATCGATACAA
80772 TGTATCGATACA
1 TGTATCGATACA
80784 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:80861 original size:33 final size:33
Alignment explanation
Indices: 80824--80890 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
80814 AGTAGCTTAA
80824 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
80857 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
80890 A
1 A
80891 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:80864 original size:13 final size:13
Alignment explanation
Indices: 80846--80870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80836 CAAAAAAATA
80846 TGTATCGATACAT
1 TGTATCGATACAT
80859 TGTATCGATACA
1 TGTATCGATACA
80871 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:82006 original size:49 final size:49
Alignment explanation
Indices: 81889--82209 Score: 458
Period size: 49 Copynumber: 6.6 Consensus size: 49
81879 AAAATGATGT
* * *
81889 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
*
81941 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
81990 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
82039 CAATATGCTGATTCAAGGCCAGCTATA-TGGACTT--A-AT---GGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
82081 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
*
82130 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
*
82179 CAATATGGTGATTCAAGGCCAGCTATATTGG
1 CAATATGCTGATTCAAGGCCAGCTATATTGG
82210 GTTTAGAAGG
Statistics
Matches: 244, Mismatches: 18, Indels: 17
0.87 0.06 0.06
Matches are distributed among these distances:
42 31 0.13
43 7 0.03
45 3 0.01
46 2 0.01
48 7 0.03
49 156 0.64
51 1 0.00
52 37 0.15
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
Found at i:82191 original size:140 final size:140
Alignment explanation
Indices: 81936--82206 Score: 479
Period size: 140 Copynumber: 1.9 Consensus size: 140
81926 AGATGGAAAA
* *
81936 GGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
1 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
82001 GTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA
66 GTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA
82066 TGGACTTAAT
131 TGGACTTAAT
* *
82076 GGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATATGCTGA
1 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
* * *
82141 TTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGGTGATTCAAGGCCAGCTATA
66 GTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA
82206 T
131 T
82207 TGGGTTTAGA
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (140 bp):
GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
GTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA
TGGACTTAAT
Found at i:82271 original size:30 final size:29
Alignment explanation
Indices: 82235--82360 Score: 130
Period size: 30 Copynumber: 4.3 Consensus size: 29
82225 CACCGACTTG
* *
82235 TGTGGGCTTTGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTT-GAAAAGGATGCCACTGACT
*
82265 TGTGGGCTTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* ** *
82292 TATGGGCTTTCGAAAAAAATGCCACCGACT
1 TGTGGGCTTT-GAAAAGGATGCCACTGACT
**
82322 TGTGGGCTTTGAAAAAAATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
82351 TGTGGACTTT
1 TGTGGGCTTT
82361 TGAAGGGTGA
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.28
28 1 0.01
29 28 0.34
30 31 0.37
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGATGCCACTGACT
Found at i:82287 original size:27 final size:29
Alignment explanation
Indices: 82219--82360 Score: 90
Period size: 30 Copynumber: 4.8 Consensus size: 29
82209 GGTTTAGAAG
*
82219 GGTTGCCACCGACTTGTGTGGGCTTTGGAAAA
1 GGTTGCCACTGA-TT-TGTGGGCTTTGG-AAA
*
82251 GGGTGCCACTGATTTGTGGGCTTT-G-AA
1 GGTTGCCACTGATTTGTGGGCTTTGGAAA
* * *
82278 GGTTGCCACTGACTTATGGGCTTTCGAAAA
1 GGTTGCCACTGATTTGTGGGCTTT-GGAAA
*** * * *
82308 AAATGCCACCGACTTGTGGGCTTTGAAAA
1 GGTTGCCACTGATTTGTGGGCTTTGGAAA
*** * *
82337 AAATGCCACTGACTTGTGGACTTT
1 GGTTGCCACTGATTTGTGGGCTTT
82361 TGAAGGGTGA
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.24
29 28 0.30
30 31 0.33
31 2 0.02
32 10 0.11
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (29 bp):
GGTTGCCACTGATTTGTGGGCTTTGGAAA
Found at i:82363 original size:30 final size:30
Alignment explanation
Indices: 82281--82364 Score: 125
Period size: 29 Copynumber: 2.8 Consensus size: 30
82271 CTTTGAAGGT
* *
82281 TGCCACTGACTTATGGGCTTTCGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
*
82311 TGCCACCGACTTGTGGGC-TTTGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
*
82340 TGCCACTGACTTGTGGACTTTTGAA
1 TGCCACTGACTTGTGGGCTTTTGAA
82365 GGGTGATGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 26 0.54
30 22 0.46
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (30 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAAAA
Found at i:83806 original size:1 final size:1
Alignment explanation
Indices: 83802--83919 Score: 101
Period size: 1 Copynumber: 118.0 Consensus size: 1
83792 CCGGACCCCC
* * * * * ** * *
83802 TTTTTTTGTTTTTGTTTATTTTTTTATTGTTTTTTTTTCCTTTTGTTTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** **
83867 TTTTTTTTGGTTTTTCATTTTTTTTTCGTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
83920 GGAGGACGCC
Statistics
Matches: 93, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 93 1.00
ACGTcount: A:0.03, C:0.03, G:0.07, T:0.87
Consensus pattern (1 bp):
T
Found at i:83862 original size:49 final size:47
Alignment explanation
Indices: 83802--83919 Score: 152
Period size: 47 Copynumber: 2.5 Consensus size: 47
83792 CCGGACCCCC
*
83802 TTTTTTTGTTTTTGTTTATTTTTTTATTGTTTTT-TTTTCCTTTT-GTTTT
1 TTTTTTTGTTTTT-TTT-TTTTTTT-TGGTTTTTATTTT-CTTTTCGTTTT
*
83851 TTTTTTTGTTTTTTTTTTTTTTTTGGTTTTTCATTTTTTTTTCGTTTT
1 TTTTTTTGTTTTTTTTTTTTTTTTGGTTTTT-ATTTTCTTTTCGTTTT
83899 TTTTTTT-TTTTTTTTTTTTTT
1 TTTTTTTGTTTTTTTTTTTTTT
83920 GGAGGACGCC
Statistics
Matches: 64, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
46 7 0.11
47 25 0.39
48 19 0.30
49 13 0.20
ACGTcount: A:0.03, C:0.03, G:0.07, T:0.87
Consensus pattern (47 bp):
TTTTTTTGTTTTTTTTTTTTTTTTGGTTTTTATTTTCTTTTCGTTTT
Found at i:83918 original size:37 final size:38
Alignment explanation
Indices: 83804--83919 Score: 124
Period size: 40 Copynumber: 2.9 Consensus size: 38
83794 GGACCCCCTT
* * * *
83804 TTTTTGTTTTTGTTTATTTTTTTATTGTTTTTTTTTCCT
1 TTTTT-TTTTTGTTTATTTTTTTTTTTTTTTTTTTTTCA
* *
83843 TTTGTTTTTTTTTTTGTTTTTTTTTTTTTTTTGGTTTTTCA
1 TTT-TTTTTTTGTTTATTTTTTTTTTTTTTTT--TTTTTCA
* *
83884 TTTTTTTTTCGTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTGTTTATTTTTTTTTTTTTTTTTTTTT
83920 GGAGGACGCC
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
38 5 0.08
39 25 0.38
40 27 0.42
41 8 0.12
ACGTcount: A:0.03, C:0.03, G:0.07, T:0.87
Consensus pattern (38 bp):
TTTTTTTTTTGTTTATTTTTTTTTTTTTTTTTTTTTCA
Found at i:93611 original size:10 final size:10
Alignment explanation
Indices: 93596--93622 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
93586 ATGTATCAAG
93596 CAAAAACAAA
1 CAAAAACAAA
93606 CAAAAACAAA
1 CAAAAACAAA
93616 CAAAAAC
1 CAAAAAC
93623 TTAGTTAGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:97842 original size:52 final size:51
Alignment explanation
Indices: 97757--97880 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
97747 TTATGAAAAG
* *
97757 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
97808 TTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
97860 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
97881 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:97893 original size:51 final size:51
Alignment explanation
Indices: 97757--97900 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
97747 TTATGAAAAG
*
97757 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
97809 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
97860 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
97901 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 2 0.02
51 34 0.40
52 48 0.57
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:97907 original size:13 final size:13
Alignment explanation
Indices: 97889--97913 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97879 CAAAGATCAG
97889 TGTATCGATACAA
1 TGTATCGATACAA
97902 TGTATCGATACA
1 TGTATCGATACA
97914 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:97991 original size:33 final size:33
Alignment explanation
Indices: 97954--98020 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
97944 AGTAGCTTAA
97954 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
97987 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
98020 A
1 A
98021 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:97994 original size:13 final size:13
Alignment explanation
Indices: 97976--98000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97966 CAAAAAAATA
97976 TGTATCGATACAT
1 TGTATCGATACAT
97989 TGTATCGATACA
1 TGTATCGATACA
98001 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:99460 original size:21 final size:23
Alignment explanation
Indices: 99411--99464 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
99401 TTATAATTTT
*
99411 CTAAGATATTATTTCACAAATCT
1 CTAAGATATTATTTCACAAATCG
*
99434 CTAAGATATTATTTCA-ATAT-G
1 CTAAGATATTATTTCACAAATCG
99455 CTAAGATATT
1 CTAAGATATT
99465 GTTCAACAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 10 0.34
22 3 0.10
23 16 0.55
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (23 bp):
CTAAGATATTATTTCACAAATCG
Found at i:102812 original size:25 final size:26
Alignment explanation
Indices: 102765--102813 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
102755 AATTAACCTT
*
102765 AGTCTGGTCTAGAAAAAAACAAAAGA
1 AGTCTGGTCCAGAAAAAAACAAAAGA
102791 AGTCTGGTCCAG-AAAAAACAAAA
1 AGTCTGGTCCAGAAAAAAACAAAA
102814 CAATTGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.53, C:0.14, G:0.18, T:0.14
Consensus pattern (26 bp):
AGTCTGGTCCAGAAAAAAACAAAAGA
Found at i:102934 original size:14 final size:15
Alignment explanation
Indices: 102917--102949 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
102907 ACAAAAATAT
102917 TTAACTTTTT-AAAA
1 TTAACTTTTTAAAAA
*
102931 TTAATTTTTTAAAAA
1 TTAACTTTTTAAAAA
102946 TTAA
1 TTAA
102950 GTATTTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAACTTTTTAAAAA
Found at i:106008 original size:21 final size:21
Alignment explanation
Indices: 105982--106036 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
105972 CTATTTTAAG
*
105982 CTTGAGCTTGATTCAAGATAA
1 CTTGAGCTCGATTCAAGATAA
106003 CTTGAGCTCGATTCAAGATAA
1 CTTGAGCTCGATTCAAGATAA
*
106024 CTTGAGCGCGATT
1 CTTGAGCTCGATT
106037 AGACTCGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (21 bp):
CTTGAGCTCGATTCAAGATAA
Found at i:107959 original size:32 final size:32
Alignment explanation
Indices: 107918--107980 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
107908 TAGCCAAACT
*
107918 TGTATCGATACAGCAAGAA-TGTATCAATACAA
1 TGTATCGATACA-CAAAAATTGTATCAATACAA
*
107950 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAATTGTATCAATACA
107981 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACAAAAATTGTATCAATACAA
Found at i:110293 original size:79 final size:77
Alignment explanation
Indices: 110187--110388 Score: 219
Period size: 78 Copynumber: 2.6 Consensus size: 77
110177 AAAAATTTAA
* * *
110187 TATTTTGGAGATAAAGAT-AGGGTTGGAGTATCCTTTCAAAAATAAT-GAGGCTAGAGTATCCCC
1 TATTTTGGAAATAAA-ATCGGGGTTGGAGTATCCCTT-AAAAATAATAG-GGCTAGAGTA-CCCC
*
110250 AATTCTGGAAAATCGG
62 AATTATGGAAAATCGG
* * * * *
110266 TGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTTAGAAATAATAGGGTTGGAGTACCCCGAT
1 TATTTTGGAAATAAAATCGGGGTTGGAGTAT-CCCTTAAAAATAATAGGGCTAGAGTACCCCAAT
*
110331 TATGGAAAATTGG
65 TATGGAAAATCGG
* * *
110344 TATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTAGAAAATAA
1 TATTTTGGAAATAAAATCGGGGTTGGAGTATCCCTTA-AAAATAA
110389 CGGGGTTGGA
Statistics
Matches: 104, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
77 5 0.05
78 53 0.51
79 41 0.39
80 5 0.05
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (77 bp):
TATTTTGGAAATAAAATCGGGGTTGGAGTATCCCTTAAAAATAATAGGGCTAGAGTACCCCAATT
ATGGAAAATCGG
Found at i:110373 original size:78 final size:79
Alignment explanation
Indices: 110240--110406 Score: 239
Period size: 78 Copynumber: 2.1 Consensus size: 79
110230 AATGAGGCTA
* * * *
110240 GAGTATCCCCAATTCTGGAAAATCGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTTAG
1 GAGTATCCCCAATTATGGAAAATCGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCC-TAG
*
110305 -AAATAATAGGGTTG
65 AAAATAACAGGGTTG
* *
110319 GAGTA-CCCCGATTATGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTAGA
1 GAGTATCCCCAATTATGGAAAATCGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTAGA
*
110383 AAATAACGGGGTTG
66 AAATAACAGGGTTG
110397 GAGTATCCCC
1 GAGTATCCCC
110407 TAGAAAATAA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
77 3 0.04
78 66 0.85
79 9 0.12
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (79 bp):
GAGTATCCCCAATTATGGAAAATCGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTAGA
AAATAACAGGGTTG
Found at i:110392 original size:28 final size:28
Alignment explanation
Indices: 110361--110434 Score: 139
Period size: 28 Copynumber: 2.6 Consensus size: 28
110351 GAAATAAAAT
*
110361 CGGGGTTAGAGTATCCCCTAGAAAATAA
1 CGGGGTTGGAGTATCCCCTAGAAAATAA
110389 CGGGGTTGGAGTATCCCCTAGAAAATAA
1 CGGGGTTGGAGTATCCCCTAGAAAATAA
110417 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
110435 GATTGTGAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTAGAAAATAA
Found at i:110503 original size:107 final size:107
Alignment explanation
Indices: 110283--110620 Score: 477
Period size: 107 Copynumber: 3.2 Consensus size: 107
110273 GAAATAAAAT
** * *
110283 CGGGGTTGGAGTATCCCCTTAG-AAATAATAGGGTTGGAGTA-CCCCGATTATGGAAAATTGGTA
1 CGGGGTTGGAGTATCCCC-TAGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTA
* *
110346 TTTTAGAAATAAAA-TCGGGGTTAGAGTATCCCCTAGAAAATAA
65 TTTTGGAAATAAAACT-GGGGTTAGAGTATCCCCTCGAAAATAA
* * *
110389 CGGGGTTGGAGTATCCCCTAGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAACTGATGT
1 CGGGGTTGGAGTATCCCCTAGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTAT
* *
110454 TTTGGAAATAAAACTGGGGTTGGAGTATTCCCTCGAAAATAA
66 TTTGGAAATAAAACTGGGGTTAGAGTATCCCCTCGAAAATAA
* * * *
110496 CGAGGTTGGAGTATTCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTGGTAT
1 CGGGGTTGGAGTATCCCCTAGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTAT
110561 TTTGGAAATAAAACTGGGGTTAGAGTATCCCCTC-AGAAATAA
66 TTTGGAAATAAAACTGGGGTTAGAGTATCCCCTCGA-AAATAA
*
110603 TGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
110621 GATTGTAAAA
Statistics
Matches: 205, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
105 3 0.01
106 36 0.18
107 165 0.80
108 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCTAGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTAT
TTTGGAAATAAAACTGGGGTTAGAGTATCCCCTCGAAAATAA
Found at i:110504 original size:28 final size:28
Alignment explanation
Indices: 110471--110537 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
110461 ATAAAACTGG
110471 GGTTGGAGTATTCCCTCGAAAATAACGA
1 GGTTGGAGTATTCCCTCGAAAATAACGA
110499 GGTTGGAGTATTCCCTCGAAAATAACGA
1 GGTTGGAGTATTCCCTCGAAAATAACGA
110527 GGTTGGAGTAT
1 GGTTGGAGTAT
110538 CCCCGATTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (28 bp):
GGTTGGAGTATTCCCTCGAAAATAACGA
Found at i:110561 original size:79 final size:75
Alignment explanation
Indices: 110486--110697 Score: 244
Period size: 79 Copynumber: 2.7 Consensus size: 75
110476 GAGTATTCCC
* * *
110486 TCGAAAATAACGAGGTTGGAGTATTCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAA
1 TCGAAAATAACGAGGTTAGAGTATCCCCTC-AAAATAACGAGGTTGGAGTATCCCCGATTGTAAA
110551 AAATTGGTATTT
65 AAATTGGTA-TT
* * * * *
110563 TGGAAATAAAACTGGGGTTAGAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCCCGATTGTA
1 TCGAAA-ATAAC-GAGGTTAGAGTATCCCCTCA-AAATAACGAGGTTGGAGTATCCCCGATTGTA
*
110628 AAAAATTGGTGTT
63 AAAAATTGGTATT
* *
110641 TTGAAAATAAAACCGAGTTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCC
1 TCGAAAAT--AA-CGAGGTTAGAGTATCCCCTC-AAAATAACGAGGTTGGAGTATCC
110698 TCTCAGAAAT
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
77 6 0.05
78 12 0.11
79 93 0.82
80 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (75 bp):
TCGAAAATAACGAGGTTAGAGTATCCCCTCAAAATAACGAGGTTGGAGTATCCCCGATTGTAAAA
AATTGGTATT
Found at i:110643 original size:186 final size:187
Alignment explanation
Indices: 110389--110883 Score: 660
Period size: 186 Copynumber: 2.6 Consensus size: 187
110379 TAGAAAATAA
* * * * *
110389 CGGGGTTGGAGTATCCCCTAGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAACTGATGT
1 CGGGGTTAGAGTATCCCCTAGAAAATAATGGGGTTGGAGTATCCCCGATTGTAAAAAAATGGTGT
*
110454 TTTGGAAATAAAACTGGGGTTGGAGTATTCCCTCGAAAATAACGAGGTTGGAGTATTCC-CTC-G
66 TTTGGAAATAAAACTGGGGTTGGAGTATCCCCTC-AAAATAACGAGGTTGGAGTATTCCTCTCAG
** * *
110517 AAAATAACGAGGTTGGAGTATCCCCGATTGTG-AAAAATTGGTATTTTGGAAATAAAAC
130 -AAATAACGAAATTAGAGTATCCCCGATTGTGAAAAAATTGATATTTTGGAAATAAAAC
* *
110575 TGGGGTTAGAGTATCCCCTCAG-AAATAATGGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTG
1 CGGGGTTAGAGTATCCCCT-AGAAAATAATGGGGTTGGAGTATCCCCGATTGTAAAAAAATGGTG
* * * * *
110639 TTTTGAAAATAAAACCGAGTTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTA-TCCTCTCA
65 TTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTC-AAAATAACGAGGTTGGAGTATTCCTCTCA
* *
110703 GAAATAACGAAATTAGAGTATCCCCGATTTTGAAAAAATTGATGTTTTGGAAATAAAAC
129 GAAATAACGAAATTAGAGTATCCCCGATTGTGAAAAAATTGATATTTTGGAAATAAAAC
* * *
110762 CGGGGTTAGAGTATCCCCTTGAAAATAAT-GGGTTAGAGTATCCCCGATTGTGAAAAAAATGGTA
1 CGGGGTTAGAGTATCCCCTAGAAAATAATGGGGTTGGAGTATCCCCGATTGT-AAAAAAATGGTG
* * *
110826 TTTTGGAAATAAAACTAGTGTTGGAGATATCCCCTCAGAAATAACGGGGTTGGAGTAT
65 TTTTGGAAATAAAACTGGGGTTGGAG-TATCCCCTCA-AAATAACGAGGTTGGAGTAT
110884 CCCCGATTGT
Statistics
Matches: 268, Mismatches: 32, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
185 3 0.01
186 156 0.58
187 82 0.31
188 27 0.10
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (187 bp):
CGGGGTTAGAGTATCCCCTAGAAAATAATGGGGTTGGAGTATCCCCGATTGTAAAAAAATGGTGT
TTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAATAACGAGGTTGGAGTATTCCTCTCAGA
AATAACGAAATTAGAGTATCCCCGATTGTGAAAAAATTGATATTTTGGAAATAAAAC
Found at i:110693 original size:28 final size:28
Alignment explanation
Indices: 110659--110727 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
110649 AAAACCGAGT
**
110659 TTAGAGTATCCCCTCAAAAATAACGAGG
1 TTAGAGTATCCCCTCAAAAATAACGAAA
* * *
110687 TTGGAGTATCCTCTCAGAAATAACGAAA
1 TTAGAGTATCCCCTCAAAAATAACGAAA
110715 TTAGAGTATCCCC
1 TTAGAGTATCCCC
110728 GATTTTGAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (28 bp):
TTAGAGTATCCCCTCAAAAATAACGAAA
Found at i:110694 original size:107 final size:107
Alignment explanation
Indices: 110577--110806 Score: 309
Period size: 107 Copynumber: 2.1 Consensus size: 107
110567 AATAAAACTG
* *** * *
110577 GGGTTAGAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCCCGATTGT-AAAAAATTGGTGTT
1 GGGTTAGAGTATCCCCTCAGAAATAACGAAATTAGAGTATCCCCGATTGTGAAAAAATTGATGTT
*
110641 TTGAAAATAAAACCGAGTTTAGAGTATCCCCTCAAAAATAAC
66 TTGAAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAAC
* * *
110683 GAGGTTGGAGTATCCTCTCAGAAATAACGAAATTAGAGTATCCCCGATTTTGAAAAAATTGATGT
1 G-GGTTAGAGTATCCCCTCAGAAATAACGAAATTAGAGTATCCCCGATTGTGAAAAAATTGATGT
* * ** *
110748 TTTGGAAATAAAACCGGGGTTAGAGTATCCCCTTGAAAATAAT
65 TTTGAAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAAC
110791 GGGTTAGAGTATCCCC
1 GGGTTAGAGTATCCCC
110807 GATTGTGAAA
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
106 1 0.01
107 54 0.51
108 50 0.48
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (107 bp):
GGGTTAGAGTATCCCCTCAGAAATAACGAAATTAGAGTATCCCCGATTGTGAAAAAATTGATGTT
TTGAAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAAC
Found at i:110899 original size:159 final size:157
Alignment explanation
Indices: 110685--111069 Score: 430
Period size: 159 Copynumber: 2.5 Consensus size: 157
110675 AAAATAACGA
* *** * *
110685 GGTTGGAGTATCCTCTCAGAAATAACGAAATTAGAGTATCCCCGATTTTGAAAAAATTGATGTTT
1 GGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTG-AAAAATTGATGTTT
* * * * *
110750 TGGAAATAAAACCGGGGTT-AGAGTATCCCCTTGAAAATAATG-GGTTAGAGTATCCCCGATTGT
65 TGGAAATAAAACCGAGGTTGA-AGTATACCCTCG-AAATAACGAGGTTAGAGTATCCCCGATTAT
*
110813 GAAAAAAATGGTATTTTGGAAATAAAA-CTAG
128 G-AAAAAATAGTATTTTGGAAATAAAATC-AG
*
110844 TGTTGGAGATATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATT-AGTGTT
1 GGTTGGAG-TATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA-TGTT
* * *
110908 TTGAAAATAAAATCGAGGTTGAAGTATACCCTCGAAATAACGAGGTTGGAGTATCCCCGATTATG
64 TTGGAAATAAAACCGAGGTTGAAGTATACCCTCGAAATAACGAGGTTAGAGTATCCCCGATTATG
* *
110973 AAAAATTAGTATTTTGGAAATAAAATCGG
129 AAAAAATAGTATTTTGGAAATAAAATCAG
* * * *
111002 GGTTGGAGTTTCCCCT------TAACAGGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTT
1 GGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTT
*
111061 AGAAATAAA
66 GGAAATAAA
111070 GACATGAATG
Statistics
Matches: 195, Mismatches: 25, Indels: 20
0.81 0.10 0.08
Matches are distributed among these distances:
151 46 0.24
157 7 0.04
158 39 0.20
159 66 0.34
160 37 0.19
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (157 bp):
GGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTT
GGAAATAAAACCGAGGTTGAAGTATACCCTCGAAATAACGAGGTTAGAGTATCCCCGATTATGAA
AAAATAGTATTTTGGAAATAAAATCAG
Found at i:110963 original size:78 final size:78
Alignment explanation
Indices: 110682--111069 Score: 398
Period size: 78 Copynumber: 5.0 Consensus size: 78
110672 TCAAAAATAA
* ** * *
110682 CGAGGTTGGAGTATCCTCTCAGAAATAACGAAATTAGAGTATCCCCGATTTTGAAAAAATT-GAT
1 CGAGGTTGGAGTATCCCCTC-GAAATAACGAGGTTGGAGTATCCCCGATTGTG-AAAAATTAG-T
*
110746 GTTTTGGAAATAAAAC
63 GTTTTGGAAATAAAAT
* * * * * * * *
110762 CGGGGTTAGAGTATCCCCTTGAAAATAATG-GGTTAGAGTATCCCCGATTGTGAAAAAAATGGTA
1 CGAGGTTGGAGTATCCCCTCG-AAATAACGAGGTTGGAGTATCCCCGATTGTG-AAAAATTAGTG
110826 TTTTGGAAATAAAA-
64 TTTTGGAAATAAAAT
* *
110840 CTAGTGTTGGAGATATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGT
1 CGAG-GTTGGAG-TATCCCCTC-GAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGT
*
110905 GTTTTGAAAATAAAAT
63 GTTTTGGAAATAAAAT
* * * *
110921 CGAGGTTGAAGTATACCCTCGAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAGTATT
1 CGAGGTTGGAGTATCCCCTCGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTT
110986 TTGGAAATAAAAT
66 TTGGAAATAAAAT
* * * *
110999 CGGGGTTGGAGTTTCCCCT-----TAAC-AGGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGT
1 CGAGGTTGGAGTATCCCCTCGAAATAACGA-GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGT
*
111058 TTTAGAAATAAA
65 TTTGGAAATAAA
111070 GACATGAATG
Statistics
Matches: 264, Mismatches: 36, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
72 1 0.00
73 45 0.17
78 71 0.27
79 56 0.21
80 66 0.25
81 25 0.09
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (78 bp):
CGAGGTTGGAGTATCCCCTCGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTT
TTGGAAATAAAAT
Found at i:114432 original size:61 final size:58
Alignment explanation
Indices: 114268--114902 Score: 485
Period size: 62 Copynumber: 10.4 Consensus size: 58
114258 AAATTAAAGC
* * *
114268 GCGTCCTACTCTTTGGGGACTAGAAGGTGCCACCAACCTTGTGTGGGCTTTAAAAGGAAA
1 GCGTCCT-CTCTTTGAGGACTGGAAGGTGCCACCAA-CTTGTGTGGGCTTTGAAAGGAAA
*** *
114328 GCGTCCTGCTCTTTGAGGACCAAAAGGTGCCACCAAACTTTGTGTGGGCTTTGAAAAGAAA
1 GCGTCCT-CTCTTTGAGGACTGGAAGGTGCCACC-AAC-TTGTGTGGGCTTTGAAAGGAAA
* * * *
114389 GCATCTTGCCTCTTTGAAGAACTGGAAGGTGCTACCAACTTGTGTGGGGCTTTTGAAAGGAAA
1 GCGTCCT--CTCTTTG-AGGACTGGAAGGTGCCACCAACTTGTGT-GGGC-TTTGAAAGGAAA
* * * * *
114452 GCATCCTACTTTTTTGAGGACTGGAAGGTGCTACCAACTTGTGTAGGCTTTGTAAGGAAAA
1 GCGTCCT-C-TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA
* * *
114513 ACGTCCTACTCTTTGAAGACT-GAGAGGTTGCGACCAACTTGTGTGGGCTTTTGAAAGGAAA
1 GCGTCCT-CTCTTTGAGGACTGGA-AGG-TGCCACCAACTTGTGTGGGC-TTTGAAAGGAAA
* *
114574 ACGTCCTACTCTTTGAGGACTGGAGGTGTGCCA-CAACTTATGTGTGGGCTTTTGAAAGGAAA
1 GCGTCCT-CTCTTTGAGGACTGGAAG-GTGCCACCAAC-T-TGTGTGGGC-TTTGAAAGGAAA
* * * *
114636 ACGTCCTGCTCTTTGAGGATTGGAAGGGTGCCACCCAACTTGTATAGGCTTTGAAAGGAAAA
1 GCGTCCT-CTCTTTGAGGACTGGAA-GGTGCCA-CCAACTTGTGTGGGCTTTGAAAGG-AAA
* * * * * * * * *
114698 GGCATCCTGCTTTTTAAGCACT-AACAAGTGCCACAAACTTGTGT-GGCTTTAAAAAGAAA
1 -GCGTCCT-CTCTTTGAGGACTGGA-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAA
* ** * *
114757 GGTGTCCTACTC-TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAA
1 -GCGTCCT-CTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA-AA
* * *
114817 G-G-CACTACTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAATGGAAA
1 GCGTC-CT-CTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAA
* *
114875 G-GGCATCTACTCTTTGAGGACTGAAAGG
1 GCGTC--CT-CTCTTTGAGGACTGGAAGG
114903 ATAAAAGCTT
Statistics
Matches: 483, Mismatches: 64, Indels: 56
0.80 0.11 0.09
Matches are distributed among these distances:
57 1 0.00
58 35 0.07
59 68 0.14
60 90 0.19
61 111 0.23
62 120 0.25
63 54 0.11
64 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (58 bp):
GCGTCCTCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAA
Found at i:114439 original size:123 final size:118
Alignment explanation
Indices: 114269--114868 Score: 521
Period size: 123 Copynumber: 4.9 Consensus size: 118
114259 AATTAAAGCG
* * * *
114269 CGTCCTACTCTTTGGGGACTAGAAGGTGCCACCAACCTTGTGTGGGCTTTAAAAGGAAAGCGTCC
1 CGTCCTCCTCTTTGAGGACTGGAAGGTGCCACCAA-CTTGTGTGGGCTTTGAAAGGAAAGCGTCC
* ** *
114334 TGCTCTTTGAGGACCAAAAGGTGCCACCAAACTTTGTGTGGGCTTTGAAAAGAAAG
65 TACTCTTTGAGGACTGAAAGGTGCCACC-AAC-TTGTGTGGGCTTTGAAAAGAAAA
* * * * *
114390 CATCTTGCCTCTTTGAAGAACTGGAAGGTGCTACCAACTTGTGTGGGGCTTTTGAAAGGAAAGCA
1 CGTCCT-CCTCTTTG-AGGACTGGAAGGTGCCACCAACTTGTGT-GGGC-TTTGAAAGGAAAGCG
* * * * * *
114455 TCCTACTTTTTTGAGGACTGGAAGGTGCTACCAACTTGTGTAGGCTTTGTAAGGAAAAA
62 TCCTAC-TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAA
* * * *
114514 CGTCCTACTCTTTGAAGACT-GAGAGGTTGCGACCAACTTGTGTGGGCTTTTGAAAGGAAAACGT
1 CGTCCTCCTCTTTGAGGACTGGA-AGG-TGCCACCAACTTGTGTGGGC-TTTGAAAGGAAAGCGT
* * *
114578 CCTACTCTTTGAGGACTGGAGGTGTGCCA-CAACTTATGTGTGGGCTTTTGAAAGGAAAA
63 CCTACTCTTTGAGGACTGAAAG-GTGCCACCAAC-T-TGTGTGGGC-TTTGAAAAGAAAA
* * * * *
114637 CGTCCTGCTCTTTGAGGATTGGAAGGGTGCCACCCAACTTGTATAGGCTTTGAAAGGAAAAGGCA
1 CGTCCTCCTCTTTGAGGACTGGAA-GGTGCCA-CCAACTTGTGTGGGCTTTGAAAGG-AAA-GCG
* * * * * * * *
114702 TCCTGCTTTTTAAGCACT-AACAAGTGCCACAAACTTGTGT-GGCTTTAAAAAGAAAGG
62 TCCTACTCTTTGAGGACTGAA-AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAA-A
* * ** * *
114759 TGTCCTACTC-TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAG-G-CA
1 CGTCCTCCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA-AAGCGTC-
*
114821 CTACTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAA
64 CTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA
114869 TGGAAAGGGC
Statistics
Matches: 386, Mismatches: 69, Indels: 51
0.76 0.14 0.10
Matches are distributed among these distances:
116 1 0.00
117 28 0.07
118 12 0.03
119 22 0.06
120 7 0.02
121 45 0.12
122 62 0.16
123 107 0.28
124 64 0.17
125 38 0.10
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (118 bp):
CGTCCTCCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCGTCCT
ACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA
Found at i:118702 original size:52 final size:51
Alignment explanation
Indices: 118617--118740 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
118607 ATATGAAAAG
* *
118617 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
118668 TTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
118720 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
118741 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:118753 original size:51 final size:51
Alignment explanation
Indices: 118617--118760 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
118607 ATATGAAAAG
*
118617 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
118669 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
118720 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
118761 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 2 0.02
51 34 0.40
52 48 0.57
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:118767 original size:13 final size:13
Alignment explanation
Indices: 118749--118773 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
118739 CAAAGATCAG
118749 TGTATCGATACAA
1 TGTATCGATACAA
118762 TGTATCGATACA
1 TGTATCGATACA
118774 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:118851 original size:33 final size:33
Alignment explanation
Indices: 118814--118880 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
118804 AGTAGCTTAA
118814 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
118847 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
118880 A
1 A
118881 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:118854 original size:13 final size:13
Alignment explanation
Indices: 118836--118860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
118826 CAAAAAAATA
118836 TGTATCGATACAT
1 TGTATCGATACAT
118849 TGTATCGATACA
1 TGTATCGATACA
118861 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:120007 original size:56 final size:52
Alignment explanation
Indices: 119822--120162 Score: 311
Period size: 49 Copynumber: 6.7 Consensus size: 52
119812 GATAAAAGGA
* * * * * * *
119822 CCAATACGTTGATTCACGGCCAACGATATTGGATTTAAAGATGATGAAAAATGATG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG--G-AAAA-GGTG
* * * *
119878 TCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
* * *
119930 CCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-GAAGGTGCCATGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAA-----AAGGTG
119986 CCAATATGCTGATTCAAGGCCAGCTATA-TGGACTT--A-AT------GGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
* * *
120028 CCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT-G--TAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
120077 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT---AAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
* *
120126 CCAATATGGTGATTCAAGGCCAGCTATATTGGGCTTA
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
120163 GAAGGGTTGC
Statistics
Matches: 245, Mismatches: 27, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
42 30 0.12
43 7 0.03
45 1 0.00
46 1 0.00
49 84 0.34
51 3 0.01
52 42 0.17
53 5 0.02
54 1 0.00
55 7 0.03
56 64 0.26
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (52 bp):
CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
Found at i:120126 original size:98 final size:100
Alignment explanation
Indices: 119879--120167 Score: 362
Period size: 98 Copynumber: 2.9 Consensus size: 100
119869 AAAATGATGT
* * * *
119879 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
*
119944 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCATGTGC
63 CAAGGCCAGCTATATTGGACTT----A-GAAGGTGCCAGGTGC
*
119987 CAATATGCTGATTCAAGGCCAGCTATA-TGGACTT--A-AT---GGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
120045 GGCCAGCTATATTGGACTTA-AAGGTG-TAGGTGC
66 GGCCAGCTATATTGGACTTAGAAGGTGCCAGGTGC
*
120078 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGGTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
120143 GGCCAGCTATATTGGGCTTAGAAGG
66 GGCCAGCTATATTGGACTTAGAAGG
120168 GTTGCCACCG
Statistics
Matches: 163, Mismatches: 10, Indels: 25
0.82 0.05 0.13
Matches are distributed among these distances:
91 32 0.20
92 13 0.08
94 2 0.01
95 2 0.01
98 76 0.47
99 4 0.02
104 2 0.01
105 1 0.01
107 6 0.04
108 25 0.15
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (100 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAGAAGGTGCCAGGTGC
Found at i:120189 original size:30 final size:30
Alignment explanation
Indices: 120155--120243 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 30
120145 CCAGCTATAT
*
120155 TGGGCTTAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTAGAAGGGTTGCCACTGACTTGTG
*
120185 TGGGCTTTGGAAAAGGG-TGCCACTGA-TT-TG
1 TGGGC-TT--AGAAGGGTTGCCACTGACTTGTG
*
120215 TGGGCTTTGAA-GGTTGCCACTGACTTGTG
1 TGGGCTTAGAAGGGTTGCCACTGACTTGTG
120244 GGCTTTCGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
26 2 0.04
27 11 0.22
28 2 0.04
29 4 0.08
30 12 0.24
31 4 0.08
32 8 0.16
33 6 0.12
ACGTcount: A:0.17, C:0.17, G:0.36, T:0.30
Consensus pattern (30 bp):
TGGGCTTAGAAGGGTTGCCACTGACTTGTG
Found at i:120235 original size:27 final size:27
Alignment explanation
Indices: 120155--120249 Score: 100
Period size: 27 Copynumber: 3.3 Consensus size: 27
120145 CCAGCTATAT
* *
120155 TGGGCTTAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAA-GGTTGCCACTGA-TT-TG
*
120185 TGGGCTTTGGAAAAGGGTGCCACTGATTTG
1 TGGGCTTT-G--AAGGTTGCCACTGATTTG
*
120215 TGGGCTTTGAAGGTTGCCACTGACTTG
1 TGGGCTTTGAAGGTTGCCACTGATTTG
120242 TGGGCTTT
1 TGGGCTTT
120250 CGAAAAAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
27 24 0.42
29 1 0.02
30 17 0.30
31 3 0.05
32 10 0.18
33 2 0.04
ACGTcount: A:0.16, C:0.17, G:0.36, T:0.32
Consensus pattern (27 bp):
TGGGCTTTGAAGGTTGCCACTGATTTG
Found at i:120263 original size:57 final size:60
Alignment explanation
Indices: 120155--120282 Score: 163
Period size: 57 Copynumber: 2.2 Consensus size: 60
120145 CCAGCTATAT
* * *** * *
120155 TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAAAAGGGTGCCACTGATTTG
1 TGGGCTTTGAAGGGTTGCCACCGACTTGTGTGGGCTTTCGAAAAAAATGCCACCGACTTG
*
120215 TGGGCTTTGAA-GGTTGCCACTGAC-T-TGTGGGCTTTCGAAAAAAATGCCACCGACTTG
1 TGGGCTTTGAAGGGTTGCCACCGACTTGTGTGGGCTTTCGAAAAAAATGCCACCGACTTG
120272 TGGGCTTTGAA
1 TGGGCTTTGAA
120283 AAAAATGCCA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 37 0.62
58 1 0.02
59 12 0.20
60 10 0.17
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (60 bp):
TGGGCTTTGAAGGGTTGCCACCGACTTGTGTGGGCTTTCGAAAAAAATGCCACCGACTTG
Found at i:120270 original size:30 final size:29
Alignment explanation
Indices: 120183--120308 Score: 139
Period size: 30 Copynumber: 4.3 Consensus size: 29
120173 CACCGACTTG
*** *
120183 TGTGGGCTTTGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTT-GAAAAAAATGCCACTGACT
***
120213 TGTGGGCTTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTGAAAAAAATGCCACTGACT
*
120240 TGTGGGCTTTCGAAAAAAATGCCACCGACT
1 TGTGGGCTTT-GAAAAAAATGCCACTGACT
120270 TGTGGGCTTTGAAAAAAATGCCACTGACT
1 TGTGGGCTTTGAAAAAAATGCCACTGACT
*
120299 TGTGGACTTT
1 TGTGGGCTTT
120309 TGAAGGGTGA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
27 24 0.28
28 1 0.01
29 28 0.33
30 32 0.38
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAAAATGCCACTGACT
Found at i:120311 original size:30 final size:30
Alignment explanation
Indices: 120229--120312 Score: 134
Period size: 29 Copynumber: 2.8 Consensus size: 30
120219 CTTTGAAGGT
*
120229 TGCCACTGACTTGTGGGCTTTCGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
*
120259 TGCCACCGACTTGTGGGC-TTTGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
*
120288 TGCCACTGACTTGTGGACTTTTGAA
1 TGCCACTGACTTGTGGGCTTTTGAA
120313 GGGTGATGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 26 0.53
30 23 0.47
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (30 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAAAA
Found at i:121755 original size:1 final size:1
Alignment explanation
Indices: 121751--121887 Score: 130
Period size: 1 Copynumber: 137.0 Consensus size: 1
121741 CCGGACCCCC
* * * * * * * * *
121751 TTTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTTGTTTTTTTTTTGTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** ** **
121816 TTTTTTGTTTTTTTTTTTTTTTGGTTTTTCATTTTTTTCGTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
121881 TTTTTTT
1 TTTTTTT
121888 GGAGGACGCC
Statistics
Matches: 108, Mismatches: 28, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 108 1.00
ACGTcount: A:0.01, C:0.01, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:121772 original size:17 final size:16
Alignment explanation
Indices: 121751--121885 Score: 150
Period size: 15 Copynumber: 8.4 Consensus size: 16
121741 CCGGACCCCC
121751 TTTTTTTGTTTTTGTTT
1 TTTTTTTGTTTTT-TTT
* *
121768 GTTTTTTTATTGTTTTT
1 -TTTTTTTGTTTTTTTT
* *
121785 GTTTTTT-TTTTGTTT
1 TTTTTTTGTTTTTTTT
121800 TTTTTTTG-TTTTTTT
1 TTTTTTTGTTTTTTTT
*
121815 GTTTTTTGTTTTTTTT
1 TTTTTTTGTTTTTTTT
**
121831 TTTTTTTGGTTTTTCAT
1 TTTTTTT-GTTTTTTTT
*
121848 TTTTTTCGTTTTTTTT
1 TTTTTTTGTTTTTTTT
121864 TTTTTTT-TTTTTTTT
1 TTTTTTTGTTTTTTTT
121879 TTTTTTT
1 TTTTTTT
121886 TTGGAGGACG
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
15 40 0.40
16 32 0.32
17 16 0.16
18 11 0.11
ACGTcount: A:0.01, C:0.01, G:0.09, T:0.88
Consensus pattern (16 bp):
TTTTTTTGTTTTTTTT
Found at i:125467 original size:1 final size:1
Alignment explanation
Indices: 125461--125493 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
125451 TGATAAAGGC
125461 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
125494 TGGAGGGTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:131617 original size:10 final size:10
Alignment explanation
Indices: 131602--131628 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
131592 ATGTATCAAG
131602 CAAAAACAAA
1 CAAAAACAAA
131612 CAAAAACAAA
1 CAAAAACAAA
131622 CAAAAAC
1 CAAAAAC
131629 TTAGTTAGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:135848 original size:52 final size:51
Alignment explanation
Indices: 135763--135886 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
135753 TTATGAAAAG
* *
135763 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
135814 TTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
135866 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
135887 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:135899 original size:51 final size:51
Alignment explanation
Indices: 135763--135906 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
135753 TTATGAAAAG
*
135763 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
135815 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
135866 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
135907 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 2 0.02
51 34 0.40
52 48 0.57
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Done.