Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 32 of 153
Found at i:11205350 original size:16 final size:16
Alignment explanation
Indices: 11205317--11205382 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
11205307 TTTTTTTTTT
*
11205317 AAAATACGAGAATTTTTG
1 AAAACACGAGAA--TTTG
11205335 AAAACACGAGAATTTG
1 AAAACACGAGAATTTG
* *
11205351 TAAACACGA-ATATTTT
1 AAAACACGAGA-ATTTG
*
11205367 AGAAACACGAAAATTT
1 A-AAACACGAGAATTT
11205383 TTGGAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 1 0.02
16 16 0.39
17 12 0.29
18 12 0.29
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (16 bp):
AAAACACGAGAATTTG
Found at i:11205522 original size:17 final size:17
Alignment explanation
Indices: 11205484--11205761 Score: 144
Period size: 17 Copynumber: 15.4 Consensus size: 17
11205474 TTCTTAAAAA
* *
11205484 AAAAATTTT-AAATACG
1 AAAATTTTTAAAACACG
*
11205500 AGAATTTTTAAAACACG
1 AAAATTTTTAAAACACG
11205517 AAAATTTTTAAAACACGG
1 AAAATTTTTAAAACAC-G
11205535 AAATATTTTTTTTTAAAACACG
1 AAA-A----TTTTTAAAACACG
*
11205557 AAAATTTTTTTTTTGAAAACAAG
1 AAAA-----TTTTT-AAAACACG
* *
11205580 AAAATTTTTGAAACACT
1 AAAATTTTTAAAACACG
* *
11205597 AGAATTTTGAAAACACG
1 AAAATTTTTAAAACACG
* * *
11205614 AAGATTTTTGAAACATG
1 AAAATTTTTAAAACACG
*
11205631 AGAATTTTTAAAAGCACG
1 AAAATTTTTAAAA-CACG
** * *
11205649 AGGATTATTGAAAGCACG
1 AAAATT-TTTAAAACACG
* * *
11205667 AAGATTTATAAAAAACG
1 AAAATTTTTAAAACACG
* * *
11205684 ACAATTTTTGAAATACG
1 AAAATTTTTAAAACACG
* *
11205701 AGAAATTTTTTAAACGCG
1 A-AAATTTTTAAAACACG
*
11205719 AAAATTTTTTTCAAACACG
1 AAAA--TTTTTAAAACACG
* *
11205738 AAAACTTTTGAAAACGCG
1 AAAA-TTTTTAAAACACG
11205756 AAAATT
1 AAAATT
11205762 CGAAAATTTC
Statistics
Matches: 204, Mismatches: 44, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
16 7 0.03
17 86 0.42
18 53 0.26
19 21 0.10
21 1 0.00
22 13 0.06
23 23 0.11
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (17 bp):
AAAATTTTTAAAACACG
Found at i:11205548 original size:23 final size:22
Alignment explanation
Indices: 11205521--11205588 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 22
11205511 AACACGAAAA
*
11205521 TTTTTAAAACACGGAAATATTTT
1 TTTTTAAAACACGAAAAT-TTTT
11205544 TTTTTAAAACACGAAAATTTTT
1 TTTTTAAAACACGAAAATTTTT
*
11205566 TTTTTGAAAACAAGAAAATTTTT
1 TTTTT-AAAACACGAAAATTTTT
11205589 GAAACACTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.21
23 33 0.79
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (22 bp):
TTTTTAAAACACGAAAATTTTT
Found at i:11205559 original size:22 final size:21
Alignment explanation
Indices: 11205504--11205588 Score: 97
Period size: 23 Copynumber: 4.0 Consensus size: 21
11205494 AATACGAGAA
11205504 TTTTTAAAACACGAAAA----
1 TTTTTAAAACACGAAAATTTT
11205521 TTTTTAAAACACGGAAATATTTT
1 TTTTTAAAACAC-GAAA-ATTTT
11205544 TTTTTAAAACACGAAAATTTTT
1 TTTTTAAAACACGAAAA-TTTT
*
11205566 TTTTTGAAAACAAGAAAATTTT
1 TTTTT-AAAACACGAAAATTTT
11205588 T
1 T
11205589 GAAACACTAG
Statistics
Matches: 59, Mismatches: 1, Indels: 11
0.83 0.01 0.15
Matches are distributed among these distances:
17 12 0.20
18 4 0.07
19 1 0.02
21 1 0.02
22 18 0.31
23 23 0.39
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (21 bp):
TTTTTAAAACACGAAAATTTT
Found at i:11205728 original size:19 final size:19
Alignment explanation
Indices: 11205706--11205761 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
11205696 ATACGAGAAA
11205706 TTTTTT-AAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
* *
11205724 TTTTTTCAAACACGAAAA-
1 TTTTTTAAAACGCGAAAAT
* *
11205742 CTTTTGAAAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
11205761 T
1 T
11205762 CGAAAATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (19 bp):
TTTTTTAAAACGCGAAAAT
Found at i:11205805 original size:18 final size:17
Alignment explanation
Indices: 11205756--11205806 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
11205746 TGAAAACGCG
11205756 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
11205773 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
11205791 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
11205807 GAAACAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:11206315 original size:10 final size:9
Alignment explanation
Indices: 11206300--11206371 Score: 69
Period size: 10 Copynumber: 8.0 Consensus size: 9
11206290 AATTGAACCC
11206300 CCTTTTTCTT
1 CCTTTTT-TT
11206310 CCTTTTTTT
1 CCTTTTTTT
**
11206319 TTTTTTTTT
1 CCTTTTTTT
11206328 CC-TTTTTT
1 CCTTTTTTT
11206336 -CTTTTTTT
1 CCTTTTTTT
11206344 -CTTTTTTCT
1 CCTTTTTT-T
*
11206353 TCTTTTTCTT
1 CCTTTTT-TT
11206363 CCTTTTTTT
1 CCTTTTTTT
11206372 TTCTGCTGGG
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
7 1 0.02
8 19 0.36
9 12 0.23
10 20 0.38
11 1 0.02
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
CCTTTTTTT
Found at i:11206329 original size:18 final size:18
Alignment explanation
Indices: 11206302--11206373 Score: 94
Period size: 18 Copynumber: 4.1 Consensus size: 18
11206292 TTGAACCCCC
11206302 TTTTTCTTCCTTTTTTTT
1 TTTTTCTTCCTTTTTTTT
*
11206320 TTTTTTTTCCTTTTTTCTT
1 TTTTTCTTCCTTTTTT-TT
* *
11206339 TTTTTCTT--TTTTCTTC
1 TTTTTCTTCCTTTTTTTT
11206355 TTTTTCTTCCTTTTTTTT
1 TTTTTCTTCCTTTTTTTT
11206373 T
1 T
11206374 CTGCTGGGCT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
16 9 0.20
17 5 0.11
18 22 0.49
19 9 0.20
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCTTCCTTTTTTTT
Found at i:11206333 original size:16 final size:16
Alignment explanation
Indices: 11206314--11206373 Score: 75
Period size: 16 Copynumber: 3.6 Consensus size: 16
11206304 TTTCTTCCTT
11206314 TTTTTTTTTTTTTTCC
1 TTTTTTTTTTTTTTCC
* *
11206330 TTTTTTCTTTTTTTCT
1 TTTTTTTTTTTTTTCC
11206346 TTTTTCTTCTTTTTCTTCC
1 TTTTT-TT-TTTTT-TTCC
11206365 TTTTTTTTT
1 TTTTTTTTT
11206374 CTGCTGGGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 19 0.51
17 3 0.08
18 7 0.19
19 8 0.22
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTTTTTTCC
Found at i:11206658 original size:13 final size:13
Alignment explanation
Indices: 11206640--11206692 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
11206630 ACTGTTAAAA
11206640 TTTTTTT-TTCTT
1 TTTTTTTCTTCTT
11206652 TTTTTTTCTTCTT
1 TTTTTTTCTTCTT
* *
11206665 TCTTCTTCTCTCTT
1 TTTTTTTCT-TCTT
*
11206679 TCTTTCTTCTTCTT
1 T-TTTTTTCTTCTT
11206693 CTTCTTCCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.20
13 12 0.34
14 9 0.26
15 7 0.20
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTCTTCTT
Found at i:11206663 original size:3 final size:3
Alignment explanation
Indices: 11206657--11206715 Score: 73
Period size: 3 Copynumber: 18.0 Consensus size: 3
11206647 TTCTTTTTTT
11206657 TTC TTC TTTC TTC TTC TCTC TTTC TTTC TTC TTC TTC TTC TTCC TTC
1 TTC TTC -TTC TTC TTC T-TC -TTC -TTC TTC TTC TTC TTC TT-C TTC
11206704 TTC TTC TTC TTC
1 TTC TTC TTC TTC
11206716 AAAACCGAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 37 0.71
4 14 0.27
5 1 0.02
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:11206672 original size:10 final size:10
Alignment explanation
Indices: 11206647--11206715 Score: 74
Period size: 10 Copynumber: 7.3 Consensus size: 10
11206637 AAATTTTTTT
* *
11206647 TTCTTTTTTT
1 TTCTTCTTTC
11206657 TTCTTCTTTC
1 TTCTTCTTTC
*
11206667 TTCTTCTCTC
1 TTCTTCTTTC
11206677 -T-TTCTTTC
1 TTCTTCTTTC
11206685 TTCTTC-TTC
1 TTCTTCTTTC
*
11206694 TTCTTCCTTC
1 TTCTTCTTTC
11206704 TTCTTC-TTC
1 TTCTTCTTTC
11206713 TTC
1 TTC
11206716 AAAACCGAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
8 6 0.12
9 17 0.33
10 29 0.56
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTCTTCTTTC
Found at i:11206703 original size:13 final size:13
Alignment explanation
Indices: 11206657--11206712 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
11206647 TTCTTTTTTT
*
11206657 TTCTTCTTTCTTC
1 TTCTTCCTTCTTC
*
11206670 TTCTCTCTTTC-T-
1 TTCT-TCCTTCTTC
11206682 TTCTT-CTTCTTC
1 TTCTTCCTTCTTC
11206694 TTCTTCCTTCTTC
1 TTCTTCCTTCTTC
11206707 TTCTTC
1 TTCTTC
11206713 TTCAAAACCG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
10 3 0.08
11 2 0.05
12 9 0.24
13 18 0.47
14 6 0.16
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
TTCTTCCTTCTTC
Found at i:11207123 original size:30 final size:30
Alignment explanation
Indices: 11207068--11207184 Score: 130
Period size: 30 Copynumber: 3.9 Consensus size: 30
11207058 TGTAATTTTT
* *
11207068 AGAAAGTTTA-GGATTAAAATGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* * *
11207097 TGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
11207127 ACAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
11207156 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AG-AAAGTTTAGGGGTCAAAATGAAATTT
11207185 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
29 10 0.14
30 62 0.86
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:11207184 original size:60 final size:59
Alignment explanation
Indices: 11207070--11207184 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 59
11207060 TAATTTTTAG
* * * *
11207070 AAAGTTTAGGATTAAAATGAAATTTAATGAAAGTTTAGGGGTCTAAGTGAAATTTAAAC
1 AAAGTTTAGGATCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAAAC
* *
11207129 AAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AAAGTTT-AGGATCAAAATGAAATTTAAGG-AAAGTTTAGGGGTCAAAATGAAATTT
11207185 TTATTTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 9 0.19
60 39 0.81
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.30
Consensus pattern (59 bp):
AAAGTTTAGGATCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAAAC
Found at i:11207581 original size:50 final size:50
Alignment explanation
Indices: 11207467--11207676 Score: 267
Period size: 50 Copynumber: 4.0 Consensus size: 50
11207457 CACGTGAGCC
* * * *
11207467 AAGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTTTGAAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG--AA-A-AA-TAGAAA
11207523 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
*
11207573 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
* *
11207627 AAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
11207677 CTGAAAAGTA
Statistics
Matches: 142, Mismatches: 8, Indels: 14
0.87 0.05 0.09
Matches are distributed among these distances:
50 52 0.37
51 2 0.01
52 3 0.02
53 2 0.01
54 46 0.32
55 6 0.04
56 31 0.22
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (50 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
Found at i:11207653 original size:54 final size:54
Alignment explanation
Indices: 11207467--11207676 Score: 295
Period size: 54 Copynumber: 3.9 Consensus size: 54
11207457 CACGTGAGCC
* * *
11207467 AAGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT--AA
*
11207523 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
11207573 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
11207627 AAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
11207677 CTGAAAAGTA
Statistics
Matches: 141, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
50 48 0.34
52 1 0.01
54 49 0.35
55 6 0.04
56 37 0.26
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:11207660 original size:104 final size:105
Alignment explanation
Indices: 11207467--11207676 Score: 325
Period size: 104 Copynumber: 2.0 Consensus size: 105
11207457 CACGTGAGCC
* * * *
11207467 AAGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTTTGAAAACAGAATTTGCAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTGAAAACAGAAATT-CAAAAGGCTCAA
*
11207532 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
65 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
*
11207573 AAGGCTCAACTCACCTCTCGCAATATGAGTTG-GTTTTTGAAAAATAGAAATT-AAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTG-AAAACAGAAATTCAAAAGGCTCAA
*
11207636 CTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
65 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
11207677 CTGAAAAGTA
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
104 50 0.52
105 6 0.06
106 40 0.42
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (105 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTGAAAACAGAAATTCAAAAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
Found at i:11207789 original size:13 final size:14
Alignment explanation
Indices: 11207761--11207793 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
11207751 TTTTTGAAAC
11207761 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
11207775 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
11207788 ACAGAA
1 ACAGAA
11207794 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:11207801 original size:14 final size:14
Alignment explanation
Indices: 11207754--11207801 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
11207744 TGATTTTTTT
*
11207754 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
11207768 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
11207782 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
11207795 TTGAAAA
1 TTGAAAA
11207802 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:11207849 original size:106 final size:105
Alignment explanation
Indices: 11207666--11207855 Score: 283
Period size: 106 Copynumber: 1.8 Consensus size: 105
11207656 TTGATTTTTG
** * *
11207666 AAAAACAGAAACTGAAAAGTAGAAATTGAAAATACATCAGCGTGCCCTGAGGCTCAACTCACCTC
1 AAAAACAGAAACTGAAAAACAGAAATTGAAAAGACATCAGCGTGCCCTGAGACTCAACTCACCTC
11207731 TTGCAATATGAGTTGATTTTTTTTTGAAACACAGAAATTA
66 TTGCAATATGAGTTGATTTTTTTTTGAAACACAGAAATTA
* * * *
11207771 AAAAACAGAAA-TTAAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACC
1 AAAAACAGAAACTGAAAAACAGAAATTGAAAAGACATCAGC--GTGCCCTGAGACTCAACTCACC
11207835 TCTTGCAATATGAGTTGATTT
64 TCTTGCAATATGAGTTGATTT
11207856 GAAAAAGTAG
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
104 23 0.31
105 11 0.15
106 41 0.55
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (105 bp):
AAAAACAGAAACTGAAAAACAGAAATTGAAAAGACATCAGCGTGCCCTGAGACTCAACTCACCTC
TTGCAATATGAGTTGATTTTTTTTTGAAACACAGAAATTA
Found at i:11208065 original size:72 final size:72
Alignment explanation
Indices: 11207878--11208679 Score: 1351
Period size: 72 Copynumber: 11.1 Consensus size: 72
11207868 TTAGTAAAGT
* * * *
11207878 AGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TT
11207942 TTGAAAAGC
65 TTGAAAA-C
* *
11207951 AGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT-AAGTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TT
11208015 TTGAAAAC
65 TTGAAAAC
11208023 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
11208088 TGAAAAC
66 TGAAAAC
11208095 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
*
11208160 TGAGAAGC
66 TGA-AAAC
* *
11208168 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
11208233 TGAAAAC
66 TGAAAAC
*
11208240 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTCAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
11208305 TGAAAAC
66 TGAAAAC
* * *
11208312 AGAAATTGAAACTACCTCAACGTGTCTTGAGGCTTAACTCATTTCTCGCAATATGCGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
11208377 TGAAAAC
66 TGAAAAC
* * * *
11208384 AGAAACTGAACTTACCTCAACGTGTCTTGAGGCTTAACTCATTTCTCGCAATATGCGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
11208449 TGAAAAC
66 TGAAAAC
11208456 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
11208521 TGAAAAC
66 TGAAAAC
11208528 A-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 AGAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
11208592 TTGAAAAC
65 TTGAAAAC
11208600 A-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 AGAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
11208664 TTGAAAAAC
65 TTG-AAAAC
*
11208673 AAAAATT
1 AGAAATT
11208680 AAAAGGCTTA
Statistics
Matches: 700, Mismatches: 24, Indels: 10
0.95 0.03 0.01
Matches are distributed among these distances:
71 2 0.00
72 549 0.78
73 147 0.21
74 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (72 bp):
AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
TGAAAAC
Found at i:11208253 original size:217 final size:216
Alignment explanation
Indices: 11207878--11208679 Score: 1351
Period size: 217 Copynumber: 3.7 Consensus size: 216
11207868 TTAGTAAAGT
* * * *
11207878 AGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TT
*
11207942 TTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
65 TTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
11208007 GTT-AAGTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
129 GTTGAA-TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
11208071 CAATATGAGTTGAATTTTGAAAAC
193 CAATATGAGTTGAATTTTGAAAAC
11208095 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
* *
11208160 TGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCATTTCTCGCAATATGAG
66 TGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
11208225 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
130 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
*
11208290 ATATGAGTTCAATTTTGAAAAC
195 ATATGAGTTGAATTTTGAAAAC
* * *
11208312 AGAAATTGAAACTACCTCAACGTGTCTTGAGGCTTAACTCATTTCTCGCAATATGCGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
* ** * *
11208377 TGAAAACAGAAACTGAACTTACCTCAACGTGTCTTGAGGCTTAACTCATTTCTCGCAATATGCGT
66 TGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
11208442 TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
131 TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
11208507 TATGAGTTGAATTTTGAAAAC
196 TATGAGTTGAATTTTGAAAAC
11208528 A-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 AGAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
11208592 TTGAAAACA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
65 TTGAAAACAGAA-ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
*
11208656 GTTGAATTTTGAAAAACAAAAATT
129 GTTGAATTTTG-AAAACAGAAATT
11208680 AAAAGGCTTA
Statistics
Matches: 554, Mismatches: 25, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
215 4 0.01
216 268 0.48
217 276 0.50
218 6 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (216 bp):
AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
TGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
TATGAGTTGAATTTTGAAAAC
Found at i:11209113 original size:122 final size:126
Alignment explanation
Indices: 11208891--11209122 Score: 312
Period size: 122 Copynumber: 1.9 Consensus size: 126
11208881 ACGTGTCTTG
* * * * *
11208891 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAATAGAAATTAAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCA-TATCTTGAAAACAGAAACTAAAAATACCTCAG
* *
11208956 CGTGTCCCGAGGCTCAACTCACCTCTCGCCATATGAATTGATTTTGGAAAACAAATATTAAA
65 CGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGGAAAACAAATATTAAA
* *
11209018 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-AT-TT-AAAACATAAACTAAAAATACCTC-GA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCATATCTTGAAAACAGAAACTAAAAATACCTCAG-
* *
11209078 CGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
65 CGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTT
11209123 TTTTTTAAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
121 1 0.01
122 60 0.65
123 2 0.02
124 1 0.01
126 2 0.02
127 27 0.29
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (126 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCATATCTTGAAAACAGAAACTAAAAATACCTCAGC
GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGGAAAACAAATATTAAA
Found at i:11209160 original size:70 final size:70
Alignment explanation
Indices: 11209064--11209194 Score: 208
Period size: 70 Copynumber: 1.9 Consensus size: 70
11209054 AAACATAAAC
* *
11209064 TAAAAATACCTCGACGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTT
1 TAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTTTTTT
11209129 AAATT
66 AAATT
* ** *
11209134 TAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTT
1 TAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTT
11209195 GAAACAGAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 55 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (70 bp):
TAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTTTTTT
AAATT
Found at i:11223913 original size:24 final size:24
Alignment explanation
Indices: 11223872--11223939 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
11223862 AGATTTGAGG
* * *
11223872 AAGATGAAAAATTAAAGGTTAAAA
1 AAGATGAAAGATGAAAGGTCAAAA
* * *
11223896 AAGATGAAAGGTGGAAGGTCAAGA
1 AAGATGAAAGATGAAAGGTCAAAA
*
11223920 GAGATGAAAGATGAAAGGTC
1 AAGATGAAAGATGAAAGGTC
11223940 CATTAAATAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.29, T:0.16
Consensus pattern (24 bp):
AAGATGAAAGATGAAAGGTCAAAA
Found at i:11238452 original size:3 final size:3
Alignment explanation
Indices: 11238446--11238478 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
11238436 TTTTTCCTCT
11238446 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
11238479 AACCCATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:11253105 original size:22 final size:21
Alignment explanation
Indices: 11253074--11253118 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
11253064 TTTAAAAAGT
11253074 AAGTTGAAGTC-AAATAGATTA
1 AAGTTGAAGTCAAAATA-ATTA
11253095 AAGTATGAAGTCAAAATAATTA
1 AAGT-TGAAGTCAAAATAATTA
11253117 AA
1 AA
11253119 TGGATATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.18
22 13 0.59
23 5 0.23
ACGTcount: A:0.53, C:0.04, G:0.16, T:0.27
Consensus pattern (21 bp):
AAGTTGAAGTCAAAATAATTA
Found at i:11253220 original size:7 final size:7
Alignment explanation
Indices: 11253210--11253239 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
11253200 AGACTTCACA
11253210 GGGCAAT
1 GGGCAAT
11253217 GGGCAAT
1 GGGCAAT
11253224 GGGCAAT
1 GGGCAAT
11253231 GGGCAAT
1 GGGCAAT
11253238 GG
1 GG
11253240 CATATCGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.47, T:0.13
Consensus pattern (7 bp):
GGGCAAT
Found at i:11257853 original size:20 final size:21
Alignment explanation
Indices: 11257819--11257859 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11257809 AGCCTTTTTT
* *
11257819 TATCTATCAAGCTTATAAAAC
1 TATCTATCAAACTTAAAAAAC
11257840 TATC-ATCAAACTTAAAAAAC
1 TATCTATCAAACTTAAAAAAC
11257860 ATTATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (21 bp):
TATCTATCAAACTTAAAAAAC
Found at i:11261813 original size:29 final size:29
Alignment explanation
Indices: 11261779--11261839 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
11261769 GAAAATTTCT
*
11261779 TTTTAAATACATT-TAAACCAT-TTTTAAAA
1 TTTTAAATA-ATTATAAA-AATATTTTAAAA
11261808 TTTTAAATAATTATAAAAATATTTTAAAA
1 TTTTAAATAATTATAAAAATATTTTAAAA
11261837 TTT
1 TTT
11261840 ACTTATAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (29 bp):
TTTTAAATAATTATAAAAATATTTTAAAA
Found at i:11262784 original size:25 final size:25
Alignment explanation
Indices: 11262732--11262785 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
11262722 CAATTAAAAT
* * *
11262732 ATTTTATAATTATTTTATAAATTTA
1 ATTTTATAATTATATTATAAAGTAA
11262757 ATTTTATAATTGATATTAT-AAGTAA
1 ATTTTATAATT-ATATTATAAAGTAA
11262782 ATTT
1 ATTT
11262786 AAATATTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
ATTTTATAATTATATTATAAAGTAA
Found at i:11265626 original size:21 final size:21
Alignment explanation
Indices: 11265600--11265653 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
11265590 ATAGCGGTGA
*
11265600 CGGTGAGATTAGTTACTATAG
1 CGGTGAGATTAGGTACTATAG
* *
11265621 CGGTGAGATTAGGTATTGTAG
1 CGGTGAGATTAGGTACTATAG
*
11265642 CAGTGAGATTAG
1 CGGTGAGATTAG
11265654 AAATAGCGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.33, T:0.31
Consensus pattern (21 bp):
CGGTGAGATTAGGTACTATAG
Found at i:11266541 original size:28 final size:28
Alignment explanation
Indices: 11266509--11266563 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
11266499 ATAAATTTTT
11266509 TATAAAAAT-TATTAAATTTTAATAAAAA
1 TATAAAAATAT-TTAAATTTTAATAAAAA
*
11266537 TATAAAAATATTTAAATTTTATTAAAA
1 TATAAAAATATTTAAATTTTAATAAAA
11266564 GTTAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TATAAAAATATTTAAATTTTAATAAAAA
Found at i:11266591 original size:19 final size:18
Alignment explanation
Indices: 11266522--11266621 Score: 67
Period size: 19 Copynumber: 5.2 Consensus size: 18
11266512 AAAAATTATT
11266522 AAATTTTAATAAAAATATAA
1 AAATTTT-A-AAAAATATAA
***
11266542 AAATATTTAAATTTTATTAA
1 AAAT-TTTAAAAAATA-TAA
* **
11266562 AAGTTAGAAAAAATATAA
1 AAATTTTAAAAAATATAA
11266580 AAATCTTTAAAAAAT-TATA
1 AAAT-TTTAAAAAATATA-A
11266599 AAATTTTATAAAAATCATAA
1 AAATTTTA-AAAAAT-ATAA
11266619 AAA
1 AAA
11266622 AATTATGAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
18 12 0.20
19 29 0.48
20 15 0.25
21 5 0.08
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
AAATTTTAAAAAATATAA
Found at i:11266601 original size:28 final size:28
Alignment explanation
Indices: 11266522--11266641 Score: 71
Period size: 30 Copynumber: 4.1 Consensus size: 28
11266512 AAAAATTATT
* **
11266522 AAATTTTAATAAAAATATAAAA-ATATTT
1 AAATTTTAA-AAAATTATAAAATATATAA
* * *
11266550 AAATTTTATTAAAAGTTAGAAAAAATATAA
1 AAATTTTA--AAAAATTATAAAATATATAA
*
11266580 AAATCTTTAAAAAATTATAAAATTTTATAA
1 AAAT-TTTAAAAAATTATAAAA-TATATAA
* * * * *
11266610 AAATCATAAAAAAATTATGAAATCTAGAA
1 AAAT-TTTAAAAAATTATAAAATATATAA
11266639 AAA
1 AAA
11266642 AAATCCTTTA
Statistics
Matches: 73, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
28 8 0.11
29 28 0.38
30 33 0.45
31 4 0.05
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (28 bp):
AAATTTTAAAAAATTATAAAATATATAA
Found at i:11266611 original size:30 final size:30
Alignment explanation
Indices: 11266575--11266632 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11266565 TTAGAAAAAA
* *
11266575 TATAAAAATCTTTAAAAAATTATAAAATTT
1 TATAAAAATCATAAAAAAATTATAAAATTT
*
11266605 TATAAAAATCATAAAAAAATTATGAAAT
1 TATAAAAATCATAAAAAAATTATAAAAT
11266633 CTAGAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (30 bp):
TATAAAAATCATAAAAAAATTATAAAATTT
Found at i:11266612 original size:38 final size:38
Alignment explanation
Indices: 11266507--11266621 Score: 117
Period size: 38 Copynumber: 2.9 Consensus size: 38
11266497 AAATAAATTT
*
11266507 TTTATAAAAATTATTAAATTTTAATAAAAATATAAAAATA
1 TTTA-AAAAATTATAAAATTTT-ATAAAAATATAAAAATA
** * * *
11266547 TTT-AAATTTTATTAAAA-GTTAGAAAAAATATAAAAATC
1 TTTAAAAAATTA-TAAAATTTTA-TAAAAATATAAAAATA
11266585 TTTAAAAAATTATAAAATTTTATAAAAATCATAAAAA
1 TTTAAAAAATTATAAAATTTTATAAAAAT-ATAAAAA
11266622 AATTATGAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
37 1 0.02
38 36 0.60
39 20 0.33
40 3 0.05
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (38 bp):
TTTAAAAAATTATAAAATTTTATAAAAATATAAAAATA
Found at i:11266824 original size:19 final size:19
Alignment explanation
Indices: 11266800--11266870 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 19
11266790 GGTACAATAT
11266800 TTTTATAATTTTTTACGAA
1 TTTTATAATTTTTTACGAA
* *
11266819 TTTTAT-ATTTCTTTA-TATT
1 TTTTATAATTT-TTTACGA-A
*
11266838 TTTTATAATTTTCTTACGAC
1 TTTTATAATTTT-TTACGAA
*
11266858 TTTATAAAATTTT
1 TTT-TATAATTTT
11266871 ATAAATTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
18 5 0.12
19 17 0.41
20 10 0.24
21 9 0.22
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAA
Found at i:11266872 original size:38 final size:38
Alignment explanation
Indices: 11266799--11266891 Score: 91
Period size: 38 Copynumber: 2.4 Consensus size: 38
11266789 TGGTACAATA
**
11266799 TTTTTATAATTTTTTACGAATTTTATATTTCTTTATAT
1 TTTTTATAATTTTTTACGAATTTTATAAATCTTTATAT
*
11266837 TTTTTATAATTTTCTTACG-ACTTTATAAAAT-TTTATAAATT
1 TTTTTATAATTTT-TTACGAATTTTAT-AAATCTTTAT--A-T
*
11266878 TTTTTCTAATTTTT
1 TTTTTATAATTTTT
11266892 AATATTTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
38 24 0.52
39 7 0.15
40 2 0.04
41 13 0.28
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.63
Consensus pattern (38 bp):
TTTTTATAATTTTTTACGAATTTTATAAATCTTTATAT
Found at i:11267437 original size:17 final size:18
Alignment explanation
Indices: 11267389--11267437 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
11267379 GTGTTCTTCG
* *
11267389 TTACTTAAGAAACGAGCTT
1 TTACTT-AGAAAAGTGCTT
11267408 TTACTTAGAAAAGTGCTT
1 TTACTTAGAAAAGTGCTT
*
11267426 TT-CTTTGAAAAG
1 TTACTTAGAAAAG
11267438 CAATGAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 9 0.33
18 12 0.44
19 6 0.22
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTTAGAAAAGTGCTT
Found at i:11270878 original size:44 final size:44
Alignment explanation
Indices: 11270815--11270908 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
11270805 GTCTCGACTT
11270815 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
11270859 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
11270903 TCATTT
1 TCATTT
11270909 ATTGAATATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (44 bp):
TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
Found at i:11270902 original size:22 final size:22
Alignment explanation
Indices: 11270833--11270903 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
11270823 ATATGCTTAT
11270833 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
** * *
11270855 CAAATCAT-TTTCATATG-CTT-AT
1 CAAAT-ATAAGT-AT-TGTATTAAC
11270877 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
11270899 CAAAT
1 CAAAT
11270904 CATTTATTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 6 0.17
22 19 0.54
23 6 0.17
24 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (22 bp):
CAAATATAAGTATTGTATTAAC
Found at i:11270912 original size:21 final size:22
Alignment explanation
Indices: 11270887--11270930 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11270877 CAAATATAAG
*
11270887 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATCATT
11270908 TATTGAATATAACCAAATCATT
1 TATTGAATATAACCAAATCATT
11270930 T
1 T
11270931 TCATATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACCAAATCATT
Found at i:11271536 original size:13 final size:13
Alignment explanation
Indices: 11271518--11271542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11271508 ACACTCAAAT
11271518 TTCTCAAAAGTAC
1 TTCTCAAAAGTAC
11271531 TTCTCAAAAGTA
1 TTCTCAAAAGTA
11271543 ATAAAGAACT
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:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (13 bp):
TTCTCAAAAGTAC
Found at i:11277354 original size:15 final size:15
Alignment explanation
Indices: 11277334--11277373 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
11277324 TTTCAAAGCT
11277334 TAATTTTAAAAAAAA
1 TAATTTTAAAAAAAA
11277349 TAATTTT-AAAAAAA
1 TAATTTTAAAAAAAA
11277363 TAATTTATAAA
1 TAATTT-TAAA
11277374 TTTATAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 13 0.57
15 8 0.35
16 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAATTTTAAAAAAAA
Found at i:11277382 original size:22 final size:22
Alignment explanation
Indices: 11277348--11277403 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 22
11277338 TTTAAAAAAA
* *
11277348 ATAATTTTA-AAAAAATAATTT
1 ATAAATTTATAAAAAATAATTG
* *
11277369 ATAAATTTATAAAACATTATTG
1 ATAAATTTATAAAAAATAATTG
11277391 A-AAA-TTATAAAAA
1 ATAAATTTATAAAAA
11277404 TATTAAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 8 0.28
21 11 0.38
22 10 0.34
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
ATAAATTTATAAAAAATAATTG
Found at i:11278116 original size:20 final size:18
Alignment explanation
Indices: 11278085--11278124 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
11278075 GTTTAAATTA
11278085 TTTAATATTTTTATAAAT
1 TTTAATATTTTTATAAAT
*
11278103 TTTAATAATGTTTTCTAAAT
1 TTTAAT-AT-TTTTATAAAT
11278123 TT
1 TT
11278125 ATAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTAATATTTTTATAAAT
Found at i:11279679 original size:14 final size:15
Alignment explanation
Indices: 11279653--11279681 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11279643 AAAGTTTAAA
11279653 CAAAAATATAAAATT
1 CAAAAATATAAAATT
11279668 CAAAAATA-AAAATT
1 CAAAAATATAAAATT
11279682 TGAACTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (15 bp):
CAAAAATATAAAATT
Found at i:11286884 original size:73 final size:72
Alignment explanation
Indices: 11286791--11286932 Score: 223
Period size: 73 Copynumber: 2.0 Consensus size: 72
11286781 TCGGGTTTAG
* * * *
11286791 AAAAGGGATCATGCCTAGTAAGTTAGGACACGATCTTTTTTTAATTCCCGAGATCGTTTAAAAAC
1 AAAAAGGATCATGCCTAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTT-AAAAC
11286856 TTGAGGAA
65 TTGAGGAA
11286864 AAAAAGGATCATGCAC-AGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAAC
1 AAAAAGGATCATGC-CTAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAAC
11286928 TTGAG
65 TTGAG
11286933 TTTGAAAAGA
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
72 10 0.16
73 53 0.83
74 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (72 bp):
AAAAAGGATCATGCCTAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAACT
TGAGGAA
Found at i:11287337 original size:26 final size:26
Alignment explanation
Indices: 11287304--11287356 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
11287294 TATAACAAAT
*
11287304 ATATATGTATACATATAAATTATAAA
1 ATATATGTACACATATAAATTATAAA
* **
11287330 ATATATGTACATATATGTATTATAAA
1 ATATATGTACACATATAAATTATAAA
11287356 A
1 A
11287357 ATGTATAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (26 bp):
ATATATGTACACATATAAATTATAAA
Found at i:11287404 original size:48 final size:50
Alignment explanation
Indices: 11287350--11287475 Score: 124
Period size: 52 Copynumber: 2.6 Consensus size: 50
11287340 ATATATGTAT
*
11287350 TATAAAAATGTATA-G-ATGTATACGTATATTTT-AAGATTATAAAATATA
1 TATAAAAATGTATATGTATGTATACATATATTTTAAAG-TTATAAAATATA
* * *
11287398 TATAAAAAAGAATATATGTCTGTATATATATATTTTAAAGTTATAAAATATA
1 TATAAAAATG--TATATGTATGTATACATATATTTTAAAGTTATAAAATATA
*
11287450 -A-AAAAA---ATATGTATGTATAAATATAT
1 TATAAAAATGTATATGTATGTATACATATAT
11287476 AAAAAAACAT
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
45 18 0.27
48 9 0.13
50 9 0.13
51 2 0.03
52 26 0.39
53 3 0.04
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.39
Consensus pattern (50 bp):
TATAAAAATGTATATGTATGTATACATATATTTTAAAGTTATAAAATATA
Found at i:11287493 original size:25 final size:25
Alignment explanation
Indices: 11287443--11287493 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
11287433 TAAAGTTATA
* **
11287443 AAATATAAAAAAAATATGTATGTAT
1 AAATATAAAAAAAACATGTAAATAT
11287468 AAATATATAAAAAAACAT-TAAATAT
1 AAATATA-AAAAAAACATGTAAATAT
11287493 A
1 A
11287494 TGTACATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (25 bp):
AAATATAAAAAAAACATGTAAATAT
Found at i:11287635 original size:3 final size:3
Alignment explanation
Indices: 11287629--11287655 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11287619 TGGGAGTATA
11287629 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
11287656 GCAAAGCTAG
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11289102 original size:44 final size:44
Alignment explanation
Indices: 11289030--11289136 Score: 110
Period size: 44 Copynumber: 2.4 Consensus size: 44
11289020 TATCTTCAGT
* *
11289030 CTGCTCTACTGCAACTTCAAGGATATAAGACTTG-TATCTTCAAC
1 CTGCTCCACTGCAACTTCAAGGAGATAAGACTTGCTAT-TTCAAC
* * * **
11289074 TTG-TCCCACTGCAACTTCATGGCGATAAGGTTTGCTATTTCAAC
1 CTGCT-CCACTGCAACTTCAAGGAGATAAGACTTGCTATTTCAAC
*
11289118 CTGCTCTACTGCAACTTCA
1 CTGCTCCACTGCAACTTCA
11289137 GAAAGATGAG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
43 1 0.02
44 46 0.90
45 4 0.08
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAAGGAGATAAGACTTGCTATTTCAAC
Found at i:11289643 original size:45 final size:45
Alignment explanation
Indices: 11289489--11290069 Score: 418
Period size: 45 Copynumber: 13.0 Consensus size: 45
11289479 CAAACTATGG
* * * *
11289489 TATCTTC-GATCTGCTTCACTGTTAGTACAGGAAGGCAAGATCTGC
1 TATCTTCAG-TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGT
** * * * * *
11289534 TATCTTCAGTCTGCTCTACT-ACAAATCCAGGGAGGCAAGAT-TGG
1 TATCTTCAGTCTGCTCCGCTGTC-AGTACAGGAAGGCAAGATCTGT
* ** * * *
11289578 TGTCTTC-GATCTATTTCGCTGTCAGTATAGGAAGGCAATATCTGT
1 TATCTTCAG-TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGT
* * * * *
11289623 TATCTTCAGTTTGCTCCGCTG-CA-AACCCAGGGAGGAAAGA-CTGG
1 TATCTTCAGTCTGCTCCGCTGTCAGTA--CAGGAAGGCAAGATCTGT
* * ** * * * *
11289667 TGTCTTC-GATCTACTTTGTTGTTAGTACAGGAACGCAAGATCTAT
1 TATCTTCAG-TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGT
* * * * * * * *
11289712 TATCTTCAGTTTACTCCACTGTCAATATAGAAAGGCAAGGT-TGG
1 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGT
* * * *
11289756 TGTCTTC-GATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTGC
1 TATCTTCAG-TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGT
* * *
11289801 TATCTTCAGTCTGCTCTGCTGTCAGTACAGGAAGGCAAG-GCTGG
1 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGT
* * * * **
11289845 TGTCTT-TGATCTGCTTCGCTGTCAGTACAGGAATGCAAGATCTAC
1 TATCTTCAG-TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGT
* *
11289890 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGATTTGC
1 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGT
* * *
11289935 TATCTTCAGTCTGCTCCGCTATCAGTATAGGAAGGCAAG-GCTAG-
1 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCT-GT
* * * *
11289979 TGTCTTC-GATTTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGT
1 TATCTTCAG-TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGT
*
11290024 TATTTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGT
1 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGT
11290069 T
1 T
11290070 GTTTGAGGAA
Statistics
Matches: 408, Mismatches: 104, Indels: 48
0.73 0.19 0.09
Matches are distributed among these distances:
43 6 0.01
44 155 0.38
45 240 0.59
46 7 0.02
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (45 bp):
TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGT
Found at i:11289653 original size:89 final size:88
Alignment explanation
Indices: 11289486--11290067 Score: 503
Period size: 89 Copynumber: 6.5 Consensus size: 88
11289476 CTACAAACTA
* * * *
11289486 TGGTATCTTCGATCTGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCT
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * * *
11289551 ACT-ACAAATCCAGGGAGGCAAGAT
66 GCTGTCAAA--CAGGAAGGCAAGAC
** * * * *
11289575 TGGTGTCTTCGATCTATTTCGCTGTCAGTATAGGAAGGCAATATCTGTTATCTTCAGTTTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* *
11289640 GCTG-CAAACCCAGGGAGGAAAGAC
66 GCTGTCAAA--CAGGAAGGCAAGAC
* * * * * ** * *
11289664 TGGTGTCTTCGATCTACTTTGTTGTTAGTACAGGAACGCAAGATCTATTATCTTCAGTTTACTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * * **
11289729 ACTGTCAATATAGAAAGGCAAGGT
66 GCTGTCAA-ACAGGAAGGCAAGAC
* *
11289753 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTGCTATCTTCAGTCTGCTCT
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* *
11289818 GCTGTCAGTACAGGAAGGCAAGGC
66 GCTGTCA-AACAGGAAGGCAAGAC
* * *
11289842 TGGTGTCTTTGATCTGCTTCGCTGTCAGTACAGGAATGCAAGATCTACTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* *
11289907 GCTGTCAGTACAGGAAGGCAAGATT
66 GCTGTCA-AACAGGAAGGCAAGA-C
* * * * * * * *
11289932 TGCTATCTTC-AGTCTGCTCCGCTATCAGTATAGGAAGGCAAG-GCTAG-TGTCTTC-GATTTGC
1 TGGTGTCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCT-GCTATCTTCAG-TCTGC
* * *
11289993 TTCACTGTCAGTACAGGAAGGCAAGATC
63 TCCGCTGTCA-AACAGGAAGGCAAGA-C
* * * *
11290021 TGTTATTTTC-AGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTG
1 TGGTGTCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTG
11290068 TTGTTTGAGG
Statistics
Matches: 412, Mismatches: 72, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
88 1 0.00
89 372 0.90
90 38 0.09
91 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (88 bp):
TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
GCTGTCAAACAGGAAGGCAAGAC
Found at i:11289914 original size:134 final size:134
Alignment explanation
Indices: 11289489--11290067 Score: 501
Period size: 134 Copynumber: 4.3 Consensus size: 134
11289479 CAAACTATGG
* * * **
11289489 TATCTTC-GATCTGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCTAC
1 TATCTTCAG-TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGC
* * * ** * ** * * *
11289553 TA-CAAATCCAGGGAGGCAAGATTGGTGTCTTCGATCTATTTCGCTGTCAGTATAGGAAGGCAAT
65 TATC-AGTACAGGAAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAG
**
11289617 ATCTGT
129 ATCTAC
* * * * * * * **
11289623 TATCTTCAGTTTGCTCCGCTG-CA-AACCCAGGGAGGAAAGA-CTGGTGTCTTC-GATCTACTTT
1 TATCTTCAGTCTGCTCCGCTGTCAGTA--CAGGAAGGCAAGATCTGCTATCTTCAG-TCTGCTCC
* * * * * * * * * * * * *
11289684 GTTGTTAGTACAGGAACGCAAGATCTATTATCTTC-AGTTTACTCCACTGTCAATATAGAAAGGC
63 GCTATCAGTACAGGAAGGCAAG-GCTAGTGTCTTCGA-TCTGCTTCACTGTCAGTACAGGAAGGC
* **
11289748 AAGGT-TGG
126 AAGATCTAC
* * * *
11289756 TGTCTTC-GATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTGCTATCTTCAGTCTGCTCTGC
1 TATCTTCAG-TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGC
* * * * *
11289820 TGTCAGTACAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCAGTACAGGAATGCAAGA
65 TATCAGTACAGGAAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGA
11289885 TCTAC
130 TCTAC
*
11289890 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGATTTGCTATCTTCAGTCTGCTCCGCT
1 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCT
* *
11289955 ATCAGTATAGGAAGGCAAGGCTAGTGTCTTCGATTTGCTTCACTGTCAGTACAGGAAGGCAAGAT
66 ATCAGTACAGGAAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
**
11290020 CTGT
131 CTAC
*
11290024 TATTTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTG
1 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTG
11290068 TTGTTTGAGG
Statistics
Matches: 351, Mismatches: 79, Indels: 30
0.76 0.17 0.07
Matches are distributed among these distances:
132 3 0.01
133 88 0.25
134 256 0.73
135 4 0.01
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (134 bp):
TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCT
ATCAGTACAGGAAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
CTAC
Found at i:11292379 original size:41 final size:41
Alignment explanation
Indices: 11292334--11292566 Score: 358
Period size: 41 Copynumber: 5.7 Consensus size: 41
11292324 GGTTTTAAAA
*
11292334 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
11292375 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
11292416 CCTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * *
11292457 CCTAGCAGGCTAAGTGCCGGTGAACTGGATTAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
11292498 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * *
11292539 CCTAACAAGCTAAGTGCCAGTGAATCTG
1 CCTAGCAGGCTAAGTGCCGGTG-ATCTG
11292567 TTTAAATTAA
Statistics
Matches: 174, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
41 170 0.98
42 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:11293657 original size:40 final size:40
Alignment explanation
Indices: 11293602--11293681 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
11293592 CGTTTGTATT
11293602 GAGGTGTGTTTTGTTCAATAATGCCTCGTAACCCTAGTCC
1 GAGGTGTGTTTTGTTCAATAATGCCTCGTAACCCTAGTCC
*
11293642 GAGGTGTGTTTTGTTCAATAATGCCTTGTAACCCTAGTCC
1 GAGGTGTGTTTTGTTCAATAATGCCTCGTAACCCTAGTCC
11293682 AGCGACGGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (40 bp):
GAGGTGTGTTTTGTTCAATAATGCCTCGTAACCCTAGTCC
Found at i:11294504 original size:6 final size:6
Alignment explanation
Indices: 11294488--11294544 Score: 71
Period size: 6 Copynumber: 9.3 Consensus size: 6
11294478 TTGGCATCTC
* *
11294488 CTTTTT CTTTTCT TTTTGTT CTTTTT CTTTTT CTTTTT C-TTTT CTTCTT
1 CTTTTT CTTTT-T CTTT-TT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
11294537 CTTTTT CT
1 CTTTTT CT
11294545 AAACTCATAG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 5 0.11
6 30 0.68
7 8 0.18
8 1 0.02
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:11294504 original size:11 final size:11
Alignment explanation
Indices: 11294488--11294541 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
11294478 TTGGCATCTC
11294488 CTTTTTCTTTT
1 CTTTTTCTTTT
*
11294499 C-TTTT-TGTT
1 CTTTTTCTTTT
11294508 CTTTTTCTTTTT
1 CTTTTTC-TTTT
11294520 CTTTTTCTTTT
1 CTTTTTCTTTT
*
11294531 CTTCTTCTTTT
1 CTTTTTCTTTT
11294542 TCTAAACTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 4 0.11
10 8 0.22
11 15 0.41
12 10 0.27
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.80
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:11294524 original size:26 final size:29
Alignment explanation
Indices: 11294489--11294544 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
11294479 TGGCATCTCC
*
11294489 TTTTTC-TTTTC-TTT-TTGTTCTTTTTC
1 TTTTTCTTTTTCTTTTCTTCTTCTTTTTC
11294515 TTTTTCTTTTTCTTTTCTTCTTCTTTTTC
1 TTTTTCTTTTTCTTTTCTTCTTCTTTTTC
11294544 T
1 T
11294545 AAACTCATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.23
27 5 0.19
28 3 0.12
29 12 0.46
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (29 bp):
TTTTTCTTTTTCTTTTCTTCTTCTTTTTC
Found at i:11298982 original size:19 final size:20
Alignment explanation
Indices: 11298940--11298992 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
11298930 ATGTATATAG
*
11298940 ATATATATAGATATGTAAACAA
1 ATATATA-AG-TATATAAACAA
11298962 AT-TATAAAGTATATAAA-AA
1 ATATAT-AAGTATATAAACAA
11298981 ATATATAAGTAT
1 ATATATAAGTAT
11298993 GTATATGTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 10 0.36
20 10 0.36
21 5 0.18
22 3 0.11
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.34
Consensus pattern (20 bp):
ATATATAAGTATATAAACAA
Found at i:11299032 original size:33 final size:31
Alignment explanation
Indices: 11298995--11299062 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
11298985 ATAAGTATGT
*
11298995 ATATGTACATATATATGTAAATAAGTTATAAAA
1 ATATGTACATATATATATAAAT-A-TTATAAAA
* * *
11299028 ATATGTACGTGTATATATATATATTATAAAA
1 ATATGTACATATATATATAAATATTATAAAA
11299059 ATAT
1 ATAT
11299063 ATGTATAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 12 0.39
32 1 0.03
33 18 0.58
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (31 bp):
ATATGTACATATATATATAAATATTATAAAA
Found at i:11299228 original size:15 final size:15
Alignment explanation
Indices: 11299208--11299242 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
11299198 TGGTAATAGT
*
11299208 AATAACAATATTAAA
1 AATAACAATAGTAAA
11299223 AATAACAATAGTAAA
1 AATAACAATAGTAAA
11299238 AATAA
1 AATAA
11299243 TGATAACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.23
Consensus pattern (15 bp):
AATAACAATAGTAAA
Found at i:11315889 original size:228 final size:233
Alignment explanation
Indices: 11315322--11315893 Score: 834
Period size: 237 Copynumber: 2.5 Consensus size: 233
11315312 TAGTTATAAT
* * * * *
11315322 TATATATGTA-CAATGATTGAACATTATAATAACATGTAATACTATATATTTTATTATAATCTAT
1 TATATATGCATCAATGATTAAACATTATAATATCATGTAATATTATATCTTTTATTATAATCTAT
11315386 AATATAATAATAGTTATATATAATAGTAGTACATTATATATTATTGTTTATAATTATACTACGTC
66 AATATAATAATAGTTATATATAATAGTAGTACATTATATATTATTGTTTATAATTATACTACGTC
** * * *
11315451 AAATATGTTTTAAGTCTCTATATTTTTCGTACATTTGAAAGTTAGCCCTCCTACTATACTATATA
131 AAATATACTTTAAATCCCTATACTTTTCGTACATTTGAAAGTTAGCCCTCCTAC-ATACTATATA
* *
11315516 ATATCATATCATAGAGTATATGATATATTAATGGTTTATTTA
195 ATATCATATCATAGAGTATATAATATATTAATAG--T-TTTA
* *
11315558 TATATATGCATTAATGATTAAACATTACAATATCATGTAATATTATATCTTTTATTATAATCTAT
1 TATATATGCATCAATGATTAAACATTATAATATCATGTAATATTATATCTTTTATTATAATCTAT
* * * ** *
11315623 AATATAATAATAGTTATATATAATGGTAGTATATTATATATTATTGTTTATTATTATACTATTTG
66 AATATAATAATAGTTATATATAATAGTAGTACATTATATATTATTGTTTATAATTATACTACGTC
*
11315688 AAATATACTTTAAATCCCTATACTTTTCGTACATTTGAAAGTTAGCCCTCCTAC-T-GTAT-T-A
131 AAATATACTTTAAATCCCTATACTTTTCGTACATTTGAAAGTTAGCCCTCCTACATACTATATAA
11315749 TATCATATCATATG-GTATATAATATATTAATAG-TTTA
196 TATCATATCATA-GAGTATATAATATATTAATAGTTTTA
* *
11315786 TATATATGCATCAATGATTAAACATTATAATATCATGTAATATTGTATCTTTTATTATAATGTAT
1 TATATATGCATCAATGATTAAACATTATAATATCATGTAATATTATATCTTTTATTATAATCTAT
*
11315851 AATATAATAATAGTTATATATAATAGTAATACATTATATATTA
66 AATATAATAATAGTTATATATAATAGTAGTACATTATATATTA
11315894 ATTATTGTAT
Statistics
Matches: 306, Mismatches: 28, Indels: 12
0.88 0.08 0.03
Matches are distributed among these distances:
228 105 0.34
232 30 0.10
233 2 0.01
234 3 0.01
235 1 0.00
236 9 0.03
237 156 0.51
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.45
Consensus pattern (233 bp):
TATATATGCATCAATGATTAAACATTATAATATCATGTAATATTATATCTTTTATTATAATCTAT
AATATAATAATAGTTATATATAATAGTAGTACATTATATATTATTGTTTATAATTATACTACGTC
AAATATACTTTAAATCCCTATACTTTTCGTACATTTGAAAGTTAGCCCTCCTACATACTATATAA
TATCATATCATAGAGTATATAATATATTAATAGTTTTA
Found at i:11317521 original size:30 final size:31
Alignment explanation
Indices: 11317473--11317530 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
11317463 AATTATCCTA
*
11317473 AAAAGAAAAGAGAAAACCTAATCTAAAAAAG
1 AAAAGAAAAGAGAAAACCTAACCTAAAAAAG
11317504 AAAAGAAAAGA-AAAACCTAACCTAAAA
1 AAAAGAAAAGAGAAAACCTAACCTAAAA
11317531 CTATGAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.69, C:0.12, G:0.10, T:0.09
Consensus pattern (31 bp):
AAAAGAAAAGAGAAAACCTAACCTAAAAAAG
Found at i:11318303 original size:18 final size:18
Alignment explanation
Indices: 11318282--11318329 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
11318272 GATATGAGAT
11318282 ATTGAATGTAGATGATG-A
1 ATTGAATGT-GATGATGAA
**
11318300 ATTGAAATGTGATTTTGAA
1 ATTG-AATGTGATGATGAA
11318319 ATTGAATGTGA
1 ATTGAATGTGA
11318330 AATTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (18 bp):
ATTGAATGTGATGATGAA
Found at i:11319620 original size:31 final size:31
Alignment explanation
Indices: 11319577--11319639 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
11319567 TTCGTTTCGA
*
11319577 TATATGGTAAGTACTTGGGTTGTGAATCGGT
1 TATATGGCAAGTACTTGGGTTGTGAATCGGT
11319608 TATATGGCAAGTACTTGGGTTGTGAATCGGT
1 TATATGGCAAGTACTTGGGTTGTGAATCGGT
11319639 T
1 T
11319640 TTGTATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.08, G:0.32, T:0.38
Consensus pattern (31 bp):
TATATGGCAAGTACTTGGGTTGTGAATCGGT
Found at i:11321423 original size:11 final size:11
Alignment explanation
Indices: 11321407--11321432 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11321397 TAAAATAAAG
11321407 ATTTATATTTT
1 ATTTATATTTT
11321418 ATTTATATTTT
1 ATTTATATTTT
11321429 ATTT
1 ATTT
11321433 TAAGTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTATATTTT
Found at i:11321685 original size:12 final size:12
Alignment explanation
Indices: 11321668--11321750 Score: 51
Period size: 12 Copynumber: 6.5 Consensus size: 12
11321658 CCATATTATT
11321668 TTTAATTTAATA
1 TTTAATTTAATA
**
11321680 TTTAATAAAATTA
1 TTTAATTTAA-TA
*
11321693 TTT-ATTTAAAA
1 TTTAATTTAATA
*
11321704 TTTTATATATAATCA
1 -TTTA-ATTTAAT-A
* *
11321719 TCTTAAAATTAATT
1 T-TT-AATTTAATA
11321733 TTTAATTTAATA
1 TTTAATTTAATA
11321745 TTTAAT
1 TTTAAT
11321751 AAATGTTTAC
Statistics
Matches: 52, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
11 1 0.02
12 28 0.54
13 7 0.13
14 7 0.13
15 8 0.15
16 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTAATTTAATA
Found at i:11327895 original size:10 final size:10
Alignment explanation
Indices: 11327876--11327925 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
11327866 TTTTTCGAAG
*
11327876 GAAAAAAGAA
1 GAAAAGAGAA
11327886 GAAAAGAGAA
1 GAAAAGAGAA
11327896 GAAAAGAGAA
1 GAAAAGAGAA
* *
11327906 -AGAGGAGAA
1 GAAAAGAGAA
11327915 GAAAAGA-AA
1 GAAAAGAGAA
11327924 GA
1 GA
11327926 GTACCGGCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:11327926 original size:17 final size:19
Alignment explanation
Indices: 11327879--11327921 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
11327869 TTCGAAGGAA
11327879 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
11327897 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
11327916 AAAAGA
1 AAAAGA
11327922 AAGAGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:11327997 original size:3 final size:3
Alignment explanation
Indices: 11327991--11328025 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
11327981 GTGTAGGAGG
11327991 AGA AGA AGA AGA AGA AGA AGA AGAA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA A
11328026 AGAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11328238 original size:21 final size:21
Alignment explanation
Indices: 11328208--11328256 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
11328198 AAAGCAGCCC
**
11328208 AAAAAGAAAAGGC-CCCCAAA
1 AAAAAGAAAAAACACCCCAAA
*
11328228 AAAAAGAAAAAACAGCCCAAA
1 AAAAAGAAAAAACACCCCAAA
11328249 AAAAAGAA
1 AAAAAGAA
11328257 GCAGGCCACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.69, C:0.18, G:0.12, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAAACACCCCAAA
Found at i:11328368 original size:15 final size:15
Alignment explanation
Indices: 11328348--11328444 Score: 108
Period size: 15 Copynumber: 6.5 Consensus size: 15
11328338 CAGGCCAGGA
* *
11328348 AAAAAAGAGAGAAAG
1 AAAAAAGAAAAAAAG
11328363 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
11328378 AAAGAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
11328393 AAAAGAGAAAAAAAG
1 AAAAAAGAAAAAAAG
* *
11328408 GAAAAAGGAAAAAAG
1 AAAAAAGAAAAAAAG
*
11328423 AAGAAAA-AAAGAAA-
1 AA-AAAAGAAAAAAAG
11328437 AAAAAAGA
1 AAAAAAGA
11328445 GTTTCAATTC
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
13 4 0.06
14 3 0.04
15 58 0.84
16 4 0.06
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:11328374 original size:8 final size:8
Alignment explanation
Indices: 11328346--11328440 Score: 97
Period size: 8 Copynumber: 12.0 Consensus size: 8
11328336 AGCAGGCCAG
11328346 GAAAAAAA
1 GAAAAAAA
* *
11328354 GAGAGAAA
1 GAAAAAAA
11328362 G-AAAAAA
1 GAAAAAAA
11328369 GAAAAAAA
1 GAAAAAAA
*
11328377 G-AAAGAA
1 GAAAAAAA
11328384 GAAAAAAA
1 GAAAAAAA
*
11328392 G-AAAAGA
1 GAAAAAAA
11328399 GAAAAAAA
1 GAAAAAAA
* *
11328407 GGAAAAAG
1 GAAAAAAA
11328415 GAAAAAAGAA
1 G-AAAAA-AA
11328425 GAAAAAAA
1 GAAAAAAA
11328433 GAAAAAAA
1 GAAAAAAA
11328441 AAGAGTTTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
7 17 0.24
8 42 0.60
9 9 0.13
10 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:11328376 original size:23 final size:23
Alignment explanation
Indices: 11328346--11328444 Score: 100
Period size: 23 Copynumber: 4.4 Consensus size: 23
11328336 AGCAGGCCAG
*
11328346 GAAAAAAAGAGAGAAAGAAAAAA
1 GAAAAAAAGAAAGAAAGAAAAAA
11328369 GAAAAAAAGAAAG-AAGAAAAAA
1 GAAAAAAAGAAAGAAAGAAAAAA
* * *
11328391 -AGAAAAGAGAAAAAAAGGAAAAA
1 GA-AAAAAAGAAAGAAAGAAAAAA
*
11328414 GGAAAAAAG-AAGAAA-AAAAGAA
1 GAAAAAAAGAAAGAAAGAAAA-AA
11328436 -AAAAAAAGA
1 GAAAAAAAGA
11328445 GTTTCAATTC
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
21 11 0.18
22 25 0.40
23 26 0.42
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (23 bp):
GAAAAAAAGAAAGAAAGAAAAAA
Found at i:11328802 original size:20 final size:21
Alignment explanation
Indices: 11328765--11328803 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11328755 ACAAATATTT
*
11328765 AAAAAAAAGTCTCATATTTAC
1 AAAAAAAAATCTCATATTTAC
*
11328786 AAAAAAAAATTTC-TATTT
1 AAAAAAAAATCTCATATTT
11328804 TTCAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAAAAAAATCTCATATTTAC
Found at i:11329030 original size:20 final size:22
Alignment explanation
Indices: 11328989--11329031 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11328979 AATTTTGTGT
*
11328989 AAAAAAATCCAGTGTTTTCAAA
1 AAAAAAATCCAGTGTTTCCAAA
11329011 AAAAAAATCCA-T-TTTCCAAA
1 AAAAAAATCCAGTGTTTCCAAA
11329031 A
1 A
11329032 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAAATCCAGTGTTTCCAAA
Found at i:11329063 original size:219 final size:220
Alignment explanation
Indices: 11328645--11329068 Score: 492
Period size: 219 Copynumber: 1.9 Consensus size: 220
11328635 TTTTAGATAA
* *
11328645 TTTTAATAAATAAGGCAACGAATCGATTTAACATAAAATCGTTGATTTCATCGCTACGTTGGGTG
1 TTTTAATAAATAAGACAACGAATCGATTTAACATAAAATCGTTGATTTCATCGCTACGTTGAGTG
* *
11328710 AATATCACCGGTTCGCGTTAAAATCGATACGCCCTTTTTAAAATAACAAATATTTAAAAAAAAGT
66 AATATCACCGATTCGCGTTAAAATCGATACGCCCTTTTAAAAATAACAAATATTTAAAAAAAAGT
* * * *
11328775 CTCATATTTACAAAAAAAAATTTCTATTTTTCAAAATTTTTCGTGCCTTCAAAAATTTTTCTCGT
131 CTCATATTTACAAAAAAAAATATCCATTTTCCAAAATTTTTAGTGCCTTCAAAAATTTTTCTCGT
11328840 GTTTCAAAAAAAAATATATTCGTGT
196 GTTTCAAAAAAAAATATATTCGTGT
* * * * *
11328865 TTTTAA-AAATAAGACAATGAATCGATTTGACACT-AATTCGTTGATTTCATTGCTATGTTGAGT
1 TTTTAATAAATAAGACAACGAATCGATTTAACA-TAAAATCGTTGATTTCATCGCTACGTTGAGT
* ** * *
11328928 GAATATCACCGATTCGTGTT-AAATACGATACG-TGTTTAATAAAAAATCAA-AAATTTTGTGTA
65 GAATATCACCGATTCGCGTTAAAAT-CGATACGCCCTTT--T-AAAAAT-AACAAATATT-T-AA
* * *
11328990 AAAAAA-TC-CAGTGTTTTCAAAAAAAAA-ATCCATTTTCCAAAATTTTTAGTGTCTTCTAAAAA
123 AAAAAAGTCTCA-TATTTACAAAAAAAAATATCCATTTTCCAAAATTTTTAGTGCCTTC-AAAAA
11329052 -TTTT-T-GTGTTTCAAAAA
186 TTTTTCTCGTGTTTCAAAAA
11329069 TTTTCGTTTT
Statistics
Matches: 173, Mismatches: 21, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
218 7 0.04
219 85 0.49
220 9 0.05
221 41 0.24
222 24 0.14
223 7 0.04
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (220 bp):
TTTTAATAAATAAGACAACGAATCGATTTAACATAAAATCGTTGATTTCATCGCTACGTTGAGTG
AATATCACCGATTCGCGTTAAAATCGATACGCCCTTTTAAAAATAACAAATATTTAAAAAAAAGT
CTCATATTTACAAAAAAAAATATCCATTTTCCAAAATTTTTAGTGCCTTCAAAAATTTTTCTCGT
GTTTCAAAAAAAAATATATTCGTGT
Found at i:11329101 original size:18 final size:17
Alignment explanation
Indices: 11329027--11329188 Score: 157
Period size: 17 Copynumber: 9.4 Consensus size: 17
11329017 ATCCATTTTC
* *
11329027 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
11329045 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
11329063 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
11329079 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
11329096 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
11329114 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
11329131 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
11329149 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
** *
11329166 TGAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTT
11329183 CAAAAA
1 CAAAAA
11329189 AAAAATCTCG
Statistics
Matches: 118, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
16 15 0.13
17 58 0.49
18 33 0.28
19 12 0.10
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:11329189 original size:35 final size:33
Alignment explanation
Indices: 11329023--11329188 Score: 147
Period size: 35 Copynumber: 4.8 Consensus size: 33
11329013 AAAAATCCAT
* *
11329023 TTTCCAAAATTTTTAGTGTCTTCTAAAAATTTTTGTG
1 TTTCAAAAATTTTT-GTGT-TTC-AAAAA-TTTCGTG
*
11329060 TTTCAAAAATTTTCGT-TTTCAAAAATTTCCGTG
1 TTTCAAAAATTTTTGTGTTTCAAAAATTT-CGTG
* * *
11329093 TTTCAAAAATTTTCGTGTTTTCAAAATTTTTCGTA
1 TTTCAAAAATTTTTGTG-TTTCAAAA-ATTTCGTG
*
11329128 TTTCAAAAATCCTCTTGT-TTTCAAAAATTTCGGTG
1 TTTCAAAAAT--TTTTGTGTTTCAAAAATTTC-GTG
**
11329163 TTTTGAAAATTTTTGTGTTTCAAAAA
1 TTTCAAAAATTTTTGTGTTTCAAAAA
11329189 AAAAATCTCG
Statistics
Matches: 109, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
32 3 0.03
33 29 0.27
34 16 0.15
35 40 0.37
36 5 0.05
37 16 0.15
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (33 bp):
TTTCAAAAATTTTTGTGTTTCAAAAATTTCGTG
Found at i:11329202 original size:38 final size:37
Alignment explanation
Indices: 11329150--11329227 Score: 88
Period size: 36 Copynumber: 2.1 Consensus size: 37
11329140 TCTTGTTTTC
* *
11329150 AAAAATTTCGGTGTTTTGA-AAATTTTTGTGTTTCAAAAA
1 AAAAATCTCGGTG-TTTCATAAA-TTTTG-GTTTCAAAAA
*
11329189 AAAAATCTC-GTGTTTCATAAATTTTGGTTTTAAAAA
1 AAAAATCTCGGTGTTTCATAAATTTTGGTTTCAAAAA
11329225 AAA
1 AAA
11329228 TATTATGTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
36 12 0.34
37 9 0.26
38 6 0.17
39 8 0.23
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (37 bp):
AAAAATCTCGGTGTTTCATAAATTTTGGTTTCAAAAA
Found at i:11331068 original size:45 final size:45
Alignment explanation
Indices: 11330979--11331068 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
11330969 ATATGAACCA
* * * *
11330979 GACATCATTGATTAGTAAGGTTGTTGCTATGTGCTGATTTCACCG
1 GACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
11331024 GACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 GACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
11331069 AGTATCTGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (45 bp):
GACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
Found at i:11331139 original size:23 final size:22
Alignment explanation
Indices: 11331113--11331156 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
11331103 AATTGACTAA
11331113 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
11331136 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
11331157 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:11333254 original size:23 final size:24
Alignment explanation
Indices: 11333228--11333277 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
11333218 CTTGATAAAC
* *
11333228 AAATTATGACAC-AATAAATTTTA
1 AAATTATGAAACAAATAAATTTCA
*
11333251 AAA-TATTAAACAAATAAATTTCA
1 AAATTATGAAACAAATAAATTTCA
11333274 AAAT
1 AAAT
11333278 ATTTATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATTATGAAACAAATAAATTTCA
Found at i:11335212 original size:23 final size:23
Alignment explanation
Indices: 11335145--11335213 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
11335135 CGTGTTATAT
* *
11335145 GGCTTTTTGTGAGCTTCTCAATA
1 GGCTCTTTGTGAGCTTCTCGATA
* *
11335168 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTTGTGAGCTTCTCGATA
11335191 GGCTCTTTGTGAGCTTCTCGATA
1 GGCTCTTTGTGAGCTTCTCGATA
11335214 TTGCTCGCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.38
Consensus pattern (23 bp):
GGCTCTTTGTGAGCTTCTCGATA
Found at i:11335231 original size:46 final size:46
Alignment explanation
Indices: 11335145--11335236 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 46
11335135 CGTGTTATAT
* * *
11335145 GGCTTTTTGTGAGCTTCTCAATAGGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTTGTGAGCTTCTCAATAGGCTCTGCGTGAACTTCCCGATA
* * *
11335191 GGCTCTTTGTGAGCTTCTCGATATTGCTC-GCTTGAACTTCCCGATA
1 GGCTCTTTGTGAGCTTCTCAATA-GGCTCTGCGTGAACTTCCCGATA
11335237 TATGGCTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 35 0.90
47 4 0.10
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (46 bp):
GGCTCTTTGTGAGCTTCTCAATAGGCTCTGCGTGAACTTCCCGATA
Found at i:11340262 original size:36 final size:37
Alignment explanation
Indices: 11340193--11340263 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
11340183 CAACGAAAAT
*
11340193 ATCCACAGGTATTTCCACGGATTTCTACTTTCTCCAA
1 ATCCACAGGTATTTCCACAGATTTCTACTTTCTCCAA
11340230 ATCCACAGGTATTTCCACAGA-TTCTACTTTCTCC
1 ATCCACAGGTATTTCCACAGATTTCTACTTTCTCC
11340264 TAATAATCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 13 0.39
37 20 0.61
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.35
Consensus pattern (37 bp):
ATCCACAGGTATTTCCACAGATTTCTACTTTCTCCAA
Found at i:11359194 original size:10 final size:10
Alignment explanation
Indices: 11359104--11359275 Score: 75
Period size: 10 Copynumber: 17.7 Consensus size: 10
11359094 TCATTTTAAT
11359104 TATTTTAT-A
1 TATTTTATAA
11359113 TATTTTCTATAA
1 TA-TTT-TATAA
*
11359125 T-TTCTA-AA
1 TATTTTATAA
11359133 T-TTTTATAA
1 TATTTTATAA
*
11359142 TATTTATTTAA
1 TATTT-TATAA
*
11359153 TATTTCAT-A
1 TATTTTATAA
11359162 T-TTTTCATAA
1 TATTTT-ATAA
* *
11359172 CATATTAATAA
1 TAT-TTTATAA
11359183 TATTTTATAA
1 TATTTTATAA
** *
11359193 TATTTGGTAG
1 TATTTTATAA
11359203 T-TTTTA-AA
1 TATTTTATAA
*
11359211 -ATTTTATTA
1 TATTTTATAA
11359220 TA-TTTA-AA
1 TATTTTATAA
11359228 TATTTTTATAGA
1 TA-TTTTATA-A
11359240 T-TTTCTATAA
1 TATTT-TATAA
*
11359250 -ATTTTTTAA
1 TATTTTATAA
11359259 TATTTTAATAA
1 TATTTT-ATAA
11359270 -ATTTTA
1 TATTTTA
11359276 AGTTTAAATA
Statistics
Matches: 122, Mismatches: 20, Indels: 42
0.66 0.11 0.23
Matches are distributed among these distances:
8 19 0.16
9 24 0.20
10 46 0.38
11 27 0.22
12 6 0.05
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.58
Consensus pattern (10 bp):
TATTTTATAA
Found at i:11359962 original size:13 final size:13
Alignment explanation
Indices: 11359944--11359970 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11359934 TAAATTAAAC
11359944 TTTTCAAAAACAA
1 TTTTCAAAAACAA
11359957 TTTTCAAAAACAA
1 TTTTCAAAAACAA
11359970 T
1 T
11359971 GTTAAACTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAACAA
Found at i:11361338 original size:21 final size:21
Alignment explanation
Indices: 11361292--11361350 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
11361282 AGCCTTATTA
* *
11361292 ATAAAAT-AATTACTATCATAT
1 ATAAAATAAATTAATAT-TTAT
*
11361313 TTAAAATAAATTAATATTTAT
1 ATAAAATAAATTAATATTTAT
11361334 ATAAAA-AAA-T-ATATTTA
1 ATAAAATAAATTAATATTTA
11361351 ATTAATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 7 0.21
19 1 0.03
20 3 0.09
21 14 0.42
22 8 0.24
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAAATAAATTAATATTTAT
Found at i:11368980 original size:11 final size:11
Alignment explanation
Indices: 11368964--11368988 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11368954 TATCCTGCAC
11368964 ATTACCCTTAT
1 ATTACCCTTAT
11368975 ATTACCCTTAT
1 ATTACCCTTAT
11368986 ATT
1 ATT
11368989 TTTGGACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTACCCTTAT
Found at i:11373574 original size:4 final size:4
Alignment explanation
Indices: 11373565--11373602 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
11373555 TAACTTGAGC
*
11373565 ATTT ATTT ATTT ATTT -TTC ATTTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT AT
11373603 ATACAAGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 2 0.07
4 25 0.83
5 3 0.10
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:11377443 original size:29 final size:30
Alignment explanation
Indices: 11377384--11377441 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11377374 TCCGAGCCTT
*
11377384 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
11377414 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
11377442 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:11377671 original size:13 final size:13
Alignment explanation
Indices: 11377653--11377684 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11377643 TTTCCAGCAA
11377653 TTATGAATTTATT
1 TTATGAATTTATT
11377666 TTATGAATTTATT
1 TTATGAATTTATT
*
11377679 TGATGA
1 TTATGA
11377685 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:11377892 original size:50 final size:50
Alignment explanation
Indices: 11377779--11378020 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
11377769 ATTTGGGTAA
* * *
11377779 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
11377835 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
11377885 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
11377935 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
11377985 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
11378021 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:11377968 original size:100 final size:103
Alignment explanation
Indices: 11377779--11378028 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
11377769 ATTTGGGTAA
11377779 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
11377844 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
11377885 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
11377947 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
11377985 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
11378029 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:11385037 original size:29 final size:30
Alignment explanation
Indices: 11384978--11385035 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11384968 TCCGAGCCTT
*
11384978 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
11385008 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
11385036 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:11385265 original size:13 final size:13
Alignment explanation
Indices: 11385247--11385278 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11385237 TTTCCAGCAA
11385247 TTATGAATTTATT
1 TTATGAATTTATT
11385260 TTATGAATTTATT
1 TTATGAATTTATT
*
11385273 TGATGA
1 TTATGA
11385279 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:11385486 original size:50 final size:50
Alignment explanation
Indices: 11385373--11385614 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
11385363 ATTTGGGTAA
* * *
11385373 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
11385429 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
11385479 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
11385529 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
11385579 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
11385615 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:11385562 original size:100 final size:103
Alignment explanation
Indices: 11385373--11385622 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
11385363 ATTTGGGTAA
11385373 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
11385438 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
11385479 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
11385541 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
11385579 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
11385623 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:11390303 original size:12 final size:12
Alignment explanation
Indices: 11390288--11390317 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11390278 AATAATTAAA
11390288 TAAATTAGAAAT
1 TAAATTAGAAAT
*
11390300 TAAATTGGAAAT
1 TAAATTAGAAAT
11390312 TAAATT
1 TAAATT
11390318 CAGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:11391448 original size:18 final size:18
Alignment explanation
Indices: 11391427--11391466 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
11391417 GAAATATTTA
*
11391427 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
11391445 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
11391463 TTTT
1 TTTT
11391467 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:11391489 original size:12 final size:12
Alignment explanation
Indices: 11391468--11391501 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11391458 TATATTTTTT
*
11391468 AAAATTATATAA
1 AAAATAATATAA
11391480 AAAATAATATAA
1 AAAATAATATAA
*
11391492 AAAGTAATAT
1 AAAATAATAT
11391502 GGGCGGGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:11393252 original size:2 final size:2
Alignment explanation
Indices: 11393245--11393269 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11393235 AATGTGCTTT
11393245 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 T
11393270 TTTTTTTTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11393465 original size:21 final size:23
Alignment explanation
Indices: 11393439--11393484 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11393429 AGTTACACTC
11393439 AAGTATTA-TT-TTTGAT-AAATA
1 AAGTATTACTTGTTT-ATCAAATA
11393460 AAGTATTACTTGTTTATCAAATA
1 AAGTATTACTTGTTTATCAAATA
11393483 AA
1 AA
11393485 AGTGTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 8 0.36
22 4 0.18
23 10 0.45
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (23 bp):
AAGTATTACTTGTTTATCAAATA
Found at i:11394140 original size:20 final size:20
Alignment explanation
Indices: 11394115--11394159 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
11394105 TCTAATTATT
11394115 TTTTTTATAAAAATTTTA-AA
1 TTTTTTA-AAAAATTTTATAA
* *
11394135 TTTTTTAATAATTTTTATAA
1 TTTTTTAAAAAATTTTATAA
11394155 TTTTT
1 TTTTT
11394160 AAATAATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTTAAAAAATTTTATAA
Found at i:11394164 original size:20 final size:19
Alignment explanation
Indices: 11394128--11394167 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
11394118 TTTATAAAAA
*
11394128 TTTTAAATTTTTTAATAAT
1 TTTTAAATTTTTAAATAAT
11394147 TTTTATAATTTTTAAATAAT
1 TTTTA-AATTTTTAAATAAT
11394167 T
1 T
11394168 GTAATGACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAAATTTTTAAATAAT
Found at i:11394899 original size:31 final size:31
Alignment explanation
Indices: 11394806--11394901 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
11394796 GGCAAATTAC
*
11394806 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
11394837 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
11394869 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
11394900 AA
1 AA
11394902 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:11396965 original size:443 final size:443
Alignment explanation
Indices: 11396100--11396986 Score: 1163
Period size: 443 Copynumber: 2.0 Consensus size: 443
11396090 GTTTGACTGT
* * * * * *
11396100 ATCAAAATATATGACTCACGACGTTGGGATAGTGATGATCTCAAGTCAGAGGATCATATATATAG
1 ATCAAAATATACGACTCACGACGTTGGGACAATGATAATCTCAAGTCAGAAGATCATATACATAG
* * ** *
11396165 TTATCACTATAAGTAATATTTGTCACTCTTACATAACAATCCAAGAAACATTTTCATGGCAGGTC
66 TTATCACTATAAGTAATAGTTGTCACTATTACATAACAATCCAAGAAACATGCTCATAGCAGGTC
* * * ** *
11396230 AGTCCAGTATGTTGTTCTTTAACACATACTCATGTATTGATTTTGACATCCCTATGTCAATGAAA
131 AATCCAGGATGCTGTTCTCCAACACATACTCATGTATTGATTTTGACATCCATATGTCAATGAAA
* * ** * *
11396295 ACTCTTTGTCATCAATCAACTACACATTAGTCTCAATGCATTATTGTTTTCCAATCCCACAATAA
196 ACACTTTGACATCAATCAACTACACATTAGTCTCAATGCATTATTAATGTCCAAGCCCACAATAA
*
11396360 TACTTGACTAAGGACCTTTTAAGAATAATCATGGTTTCTTAGGACTTTATTACAATTCAATTTAT
261 TACTTGACTAAGGACCTTTTAAGAATAATCATGATTTCTTAGGACTTTATTACAATTCAATTTAT
* * * * * *
11396425 TTATATACATAAGAAAAGAAACTGAAATAATAATGGTAATGTCTTATATTAATAAACAAGGTAAA
326 TTACACACACAAGAAAAGAAACTGAAATAACAATGGCAATGTCTTATATTAACAAACAAGGTAAA
* *
11396490 ACGAGTATATGATTACAATCATCTCATGATTGGTCTTTTGGCATACTCTAACA
391 ACGAGTATATGATTACAATAATCTCATGATTGGTCTTTGGGCATACTCTAACA
* ** *
11396543 ATCAAAATATACGACTCACGATGTTGGGACAATGATAATCTCAAGTTTGAAGATCGTATACATAG
1 ATCAAAATATACGACTCACGACGTTGGGACAATGATAATCTCAAGTCAGAAGATCATATACATAG
* * * * * * **
11396608 TTATCTCTATGAGTAAT-GTTGTGACTATTACATAATAATCCAAGAGATATGCTCATAGTGGGTC
66 TTATCACTATAAGTAATAGTTGTCACTATTACATAACAATCCAAGAAACATGCTCATAGCAGGTC
* * **
11396672 AATCCAGGATGCTGTTCTCCAACTCATACTCATGTATTGATTTTGACATCTATATGTCAATGGCA
131 AATCCAGGATGCTGTTCTCCAACACATACTCATGTATTGATTTTGACATCCATATGTCAATGAAA
* *
11396737 ACACTTTGACATCAATCAACTGCACATTAGTCTCAATGCATTATTAATGTCCAAGCGCACAATAA
196 ACACTTTGACATCAATCAACTACACATTAGTCTCAATGCATTATTAATGTCCAAGCCCACAATAA
* * *
11396802 TACTTGACTAAGGACCTTTTAAGAATAATCAT-ATCATTTTTAGGACTTTATTATTAA-TCAGTT
261 TACTTGACTAAGGACCTTTTAAGAATAATCATGAT--TTCTTAGGACTTTATTA-CAATTCAATT
* *
11396865 TATTTACACACAC-AGAAAAAGAAATTGAAATAACAATGGCAATGTCTTATATTAACAAATAAGG
323 TATTTACACACACAAG-AAAAGAAACTGAAATAACAATGGCAATGTCTTATATTAACAAACAAGG
* * * *
11396929 TAAAA-GAAGTATGTTATTACAATAATCTCATGATTGGTCTTTGGGTATTCTCTAACA
387 TAAAACG-AGTATATGATTACAATAATCTCATGATTGGTCTTTGGGCATACTCTAACA
11396986 A
1 A
11396987 GATTAAGGAC
Statistics
Matches: 380, Mismatches: 59, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
441 1 0.00
442 183 0.48
443 194 0.51
444 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (443 bp):
ATCAAAATATACGACTCACGACGTTGGGACAATGATAATCTCAAGTCAGAAGATCATATACATAG
TTATCACTATAAGTAATAGTTGTCACTATTACATAACAATCCAAGAAACATGCTCATAGCAGGTC
AATCCAGGATGCTGTTCTCCAACACATACTCATGTATTGATTTTGACATCCATATGTCAATGAAA
ACACTTTGACATCAATCAACTACACATTAGTCTCAATGCATTATTAATGTCCAAGCCCACAATAA
TACTTGACTAAGGACCTTTTAAGAATAATCATGATTTCTTAGGACTTTATTACAATTCAATTTAT
TTACACACACAAGAAAAGAAACTGAAATAACAATGGCAATGTCTTATATTAACAAACAAGGTAAA
ACGAGTATATGATTACAATAATCTCATGATTGGTCTTTGGGCATACTCTAACA
Found at i:11400738 original size:31 final size:31
Alignment explanation
Indices: 11400488--11400735 Score: 471
Period size: 31 Copynumber: 8.0 Consensus size: 31
11400478 AGGCAAATTA
11400488 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
11400519 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
11400550 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
11400581 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
11400612 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
11400643 CAAGAGTAATTGAATCCTAATAAAACTC-TT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
11400673 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
*
11400705 AAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
11400736 AAAATTATCT
Statistics
Matches: 214, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
30 23 0.11
31 169 0.79
32 22 0.10
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:11406948 original size:201 final size:201
Alignment explanation
Indices: 11406598--11406998 Score: 766
Period size: 201 Copynumber: 2.0 Consensus size: 201
11406588 AGAGGCACCA
*
11406598 ATAAGATTTCCTTCTAGGTGGTGCTCTCCATCTAACAAATCTTCAAAATCAGCATCCACTTCACC
1 ATAAGATTTCCTTCTAAGTGGTGCTCTCCATCTAACAAATCTTCAAAATCAGCATCCACTTCACC
11406663 AGAATCAACTACACTACCATTCACGTTCTCTTTAAGAACTCCTAAAACATCAAAATCATCACCAA
66 AGAATCAACTACACTACCATTCACGTTCTCTTTAAGAACTCCTAAAACATCAAAATCATCACCAA
*
11406728 CATCATTACCATCAGAGTTATTATGCATAAATTGCATATCCTCGTCCTCAAAGTCATCTTCTGCA
131 CATCATTACCATAAGAGTTATTATGCATAAATTGCATATCCTCGTCCTCAAAGTCATCTTCTGCA
11406793 GCATCG
196 GCATCG
*
11406799 ATAAGATTTCCTTCTAAGTGGTGCTCTTCATCTAACAAATCTTCAAAATCAGCATCCACTTCACC
1 ATAAGATTTCCTTCTAAGTGGTGCTCTCCATCTAACAAATCTTCAAAATCAGCATCCACTTCACC
*
11406864 ATAATCAACTACACTACCATTCACGTTCTCTTTAAGAACTCCTAAAACATCAAAATCATCACCAA
66 AGAATCAACTACACTACCATTCACGTTCTCTTTAAGAACTCCTAAAACATCAAAATCATCACCAA
11406929 CATCATTACCATAAGAGTTATTATGCATAAATTGCATATCCTCGTCCTCAAAGTCATCTTCTGCA
131 CATCATTACCATAAGAGTTATTATGCATAAATTGCATATCCTCGTCCTCAAAGTCATCTTCTGCA
11406994 GCATC
196 GCATC
11406999 TTCAAAGAAA
Statistics
Matches: 196, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
201 196 1.00
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.30
Consensus pattern (201 bp):
ATAAGATTTCCTTCTAAGTGGTGCTCTCCATCTAACAAATCTTCAAAATCAGCATCCACTTCACC
AGAATCAACTACACTACCATTCACGTTCTCTTTAAGAACTCCTAAAACATCAAAATCATCACCAA
CATCATTACCATAAGAGTTATTATGCATAAATTGCATATCCTCGTCCTCAAAGTCATCTTCTGCA
GCATCG
Found at i:11411602 original size:11 final size:11
Alignment explanation
Indices: 11411572--11411602 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11411562 GAATTAAATG
*
11411572 TTCTTCTTCCC
1 TTCTTCTTTCC
11411583 TTCTTCTTTCC
1 TTCTTCTTTCC
11411594 TTCTTCTTT
1 TTCTTCTTT
11411603 TCACTTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (11 bp):
TTCTTCTTTCC
Found at i:11411611 original size:22 final size:21
Alignment explanation
Indices: 11411586--11411630 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
11411576 TCTTCCCTTC
11411586 TTCTTTCCTTCTT-CTTTTCACT
1 TTCTTT-CTTCTTCCTTTTC-CT
*
11411608 TTCTTTCTTTTTCCTTTTCCT
1 TTCTTTCTTCTTCCTTTTCCT
11411629 TT
1 TT
11411631 TTTTGTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (21 bp):
TTCTTTCTTCTTCCTTTTCCT
Found at i:11412341 original size:17 final size:17
Alignment explanation
Indices: 11412311--11412357 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
11412301 AATTTAGAAT
*
11412311 AATTTT-TGAATTAGTG
1 AATTTTGTGATTTAGTG
11412327 AATTTTGTGATTTAGTG
1 AATTTTGTGATTTAGTG
11412344 AATTTTGTGATTTA
1 AATTTTGTGATTTA
11412358 AAAATAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 6 0.21
17 23 0.79
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (17 bp):
AATTTTGTGATTTAGTG
Found at i:11413637 original size:46 final size:46
Alignment explanation
Indices: 11413586--11413768 Score: 312
Period size: 46 Copynumber: 4.0 Consensus size: 46
11413576 TGGAAAATTA
* *
11413586 TGAAAAGTAGGTATGGTGTTTCAATGAAGAAATCCATACTGAGTTG
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTG
11413632 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTG
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTG
11413678 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTG
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTG
* * * *
11413724 TGAAAAGTAGATATGATATTTCAGTGAAGGAAACCATACTGAGTT
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTT
11413769 ATAGCATTGT
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 131 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.29
Consensus pattern (46 bp):
TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTG
Found at i:11424194 original size:18 final size:19
Alignment explanation
Indices: 11424153--11424194 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
11424143 TCTCAAAAAA
11424153 TTTT-AATTTTTATATATT
1 TTTTAAATTTTTATATATT
* *
11424171 TCTTAAATTTTTATGT-TT
1 TTTTAAATTTTTATATATT
11424189 TTTTAA
1 TTTTAA
11424195 TTTGAAACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTAAATTTTTATATATT
Done.