Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 49 of 318
Found at i:18125909 original size:30 final size:30
Alignment explanation
Indices: 18125873--18125995 Score: 174
Period size: 30 Copynumber: 4.1 Consensus size: 30
18125863 GTCCCAGAGC
*
18125873 AGTTCATATAACCCGGACATAGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* * *
18125903 AGTTCATATCACTCGAACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* *
18125933 AGTTCTTATCACCCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* *
18125963 AGTTCATATCACCCGGATATAGGCGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
18125993 AGT
1 AGT
18125996 CCATTTGACC
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATAGGTGGTTCG
Found at i:18134682 original size:2 final size:2
Alignment explanation
Indices: 18134670--18134698 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18134660 AACGCTACAT
18134670 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
18134699 AGCAAAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:18141428 original size:41 final size:41
Alignment explanation
Indices: 18141371--18141461 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
18141361 ATACGCATAG
18141371 TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGA
1 TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGA
*
18141412 TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGT
1 TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGA
18141453 TATACATTT
1 TATA-ATTT
18141462 CTAACTTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 44 0.92
42 4 0.08
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (41 bp):
TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGA
Found at i:18148324 original size:18 final size:18
Alignment explanation
Indices: 18148303--18148741 Score: 117
Period size: 18 Copynumber: 24.6 Consensus size: 18
18148293 CGAAAGTTTT
* *
18148303 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAGAA
18148321 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAGAA
*
18148339 --TTTGTAAACACGA-ATA
1 TTTTTGAAAACACGAGA-A
* *
18148355 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
18148372 TTTTTGGAAAAAAACGA-AA
1 TTTTT-G-AAAACACGAGAA
* * *
18148391 TTTTCTTAAAACACGACATTT
1 TTTT-TGAAAACACGAGA--A
*
18148412 TTTTTG-AAACACGGGAA
1 TTTTTGAAAACACGAGAA
* * *
18148429 TTTTT-AAAACAAGACATT
1 TTTTTGAAAACACGAGA-A
18148447 TTTTTG-AAACA--A-AA
1 TTTTTGAAAACACGAGAA
*
18148461 TTTTTTCTTAAAA-A--A-AA
1 --TTTT-TGAAAACACGAGAA
* *
18148478 ATTTT--AAATACGAGAA
1 TTTTTGAAAACACGAGAA
*
18148494 TTTTT-AAAACACGAAAAA
1 TTTTTGAAAACACG-AGAA
*
18148512 TTTTT-AAAACACGGAAATA
1 TTTTTGAAAACAC-GAGA-A
*
18148531 TTTTTTTTTAAAACACGA-AA
1 ---TTTTTGAAAACACGAGAA
* *
18148551 TTTTTTTTTGAAAACAAGAAAA
1 ----TTTTTGAAAACACGAGAA
*
18148573 TTTTTG-AAACACTAGAA
1 TTTTTGAAAACACGAGAA
18148590 -TTTTGAAAACACGA-AGA
1 TTTTTGAAAACACGAGA-A
*
18148607 TTTTTG-AAACATGAGAA
1 TTTTTGAAAACACGAGAA
*
18148624 TTTTT-AAAAGCACGAGGA
1 TTTTTGAAAA-CACGAGAA
* *
18148642 TTATTGAAAGCACGA-AGA
1 TTTTTGAAAACACGAGA-A
* * *
18148660 TTTAT-AAAAAACGACAA
1 TTTTTGAAAACACGAGAA
*
18148677 TTTTTG-AAATACGAGAAA
1 TTTTTGAAAACACGAG-AA
* * *
18148695 TTTTT-TAAACGCGAAAA
1 TTTTTGAAAACACGAGAA
** *
18148712 TTTTTTTCAAACACGAAAA
1 -TTTTTGAAAACACGAGAA
*
18148731 CTTTTGAAAAC
1 TTTTTGAAAAC
18148742 GCGAAAATTC
Statistics
Matches: 325, Mismatches: 50, Indels: 92
0.70 0.11 0.20
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
14 1 0.00
15 6 0.02
16 30 0.09
17 89 0.27
18 118 0.36
19 30 0.09
20 10 0.03
21 21 0.06
22 9 0.03
23 7 0.02
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAGAA
Found at i:18148342 original size:16 final size:16
Alignment explanation
Indices: 18148309--18148374 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
18148299 TTTTTTTTTT
*
18148309 AAAATACGAGAATTTTTG
1 AAAACACGAGAA--TTTG
18148327 AAAACACGAGAATTTG
1 AAAACACGAGAATTTG
* *
18148343 TAAACACGA-ATATTTT
1 AAAACACGAGA-ATTTG
*
18148359 AGAAACACGAAAATTT
1 A-AAACACGAGAATTT
18148375 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:18148550 original size:22 final size:22
Alignment explanation
Indices: 18148512--18148577 Score: 91
Period size: 21 Copynumber: 3.0 Consensus size: 22
18148502 ACACGAAAAA
18148512 TTTTTAAAACACGGAAATATTTT
1 TTTTTAAAACAC-GAAATATTTT
18148535 TTTTTAAAACACGAAAT-TTTT
1 TTTTTAAAACACGAAATATTTT
* *
18148556 TTTTGAAAACAAGAAA-ATTTT
1 TTTTTAAAACACGAAATATTTT
18148577 T
1 T
18148578 GAAACACTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 23 0.57
22 5 0.12
23 12 0.30
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (22 bp):
TTTTTAAAACACGAAATATTTT
Found at i:18148595 original size:16 final size:16
Alignment explanation
Indices: 18148574--18148627 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
18148564 ACAAGAAAAT
18148574 TTTTGAAACACTAGAA
1 TTTTGAAACACTAGAA
* *
18148590 TTTTGAAAACACGAAGAT
1 TTTTG-AAACAC-TAGAA
18148608 TTTTGAAACA-TGAGAA
1 TTTTGAAACACT-AGAA
18148624 TTTT
1 TTTT
18148628 TAAAAGCACG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 12 0.39
17 11 0.35
18 8 0.26
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (16 bp):
TTTTGAAACACTAGAA
Found at i:18148599 original size:34 final size:34
Alignment explanation
Indices: 18148556--18148632 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
18148546 CGAAATTTTT
18148556 TTTTGAAAACAAGAAAATTTTTGAAACACT-AGAA
1 TTTTGAAAACAAGAAAATTTTTGAAACA-TGAGAA
* *
18148590 TTTTGAAAACACGAAGATTTTTGAAACATGAGAA
1 TTTTGAAAACAAGAAAATTTTTGAAACATGAGAA
*
18148624 TTTTTAAAA
1 TTTTGAAAA
18148633 GCACGAGGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
33 1 0.03
34 38 0.97
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (34 bp):
TTTTGAAAACAAGAAAATTTTTGAAACATGAGAA
Found at i:18148746 original size:18 final size:19
Alignment explanation
Indices: 18148701--18148749 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
18148691 GAAATTTTTT
* **
18148701 AAACGCGAAAATTTTTTTC
1 AAACGCGAAAATCTTTTGA
*
18148720 AAACACGAAAA-CTTTTGA
1 AAACGCGAAAATCTTTTGA
18148738 AAACGCGAAAAT
1 AAACGCGAAAAT
18148750 TCGAAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (19 bp):
AAACGCGAAAATCTTTTGA
Found at i:18148794 original size:18 final size:17
Alignment explanation
Indices: 18148745--18148795 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
18148735 TGAAAACGCG
18148745 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
18148762 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
18148780 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
18148796 GAAACAAGAA
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:18149313 original size:7 final size:7
Alignment explanation
Indices: 18149301--18149350 Score: 82
Period size: 7 Copynumber: 6.9 Consensus size: 7
18149291 TTTTTCTTCT
18149301 TTTTTTC
1 TTTTTTC
18149308 TTTTTTC
1 TTTTTTC
18149315 TTTTTTCC
1 TTTTTT-C
18149323 TTTTTTC
1 TTTTTTC
18149330 TTTTTTC
1 TTTTTTC
18149337 TTTTTTC
1 TTTTTTC
18149344 TTCTTTT
1 TT-TTTT
18149351 TCTTCCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
7 30 0.73
8 11 0.27
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:18149317 original size:15 final size:15
Alignment explanation
Indices: 18149292--18149367 Score: 93
Period size: 14 Copynumber: 5.1 Consensus size: 15
18149282 TAAACCCCCT
18149292 TTTTCTTCTTTTTTTC
1 TTTT-TTCTTTTTTTC
*
18149308 TTTTTTCTTTTTTCC
1 TTTTTTCTTTTTTTC
18149323 TTTTTTC-TTTTTTC
1 TTTTTTCTTTTTTTC
18149337 TTTTTTCTTCTTTTTC
1 TTTTTTCTT-TTTTTC
**
18149353 TTCCTT-TTTTTTTC
1 TTTTTTCTTTTTTTC
18149367 T
1 T
18149368 GCTGGGCTGC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
14 20 0.37
15 20 0.37
16 14 0.26
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:18149329 original size:22 final size:22
Alignment explanation
Indices: 18149301--18149362 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
18149291 TTTTTCTTCT
18149301 TTTTTTCTTTTTT-CTTTTTTCC
1 TTTTTTCTTTTTTCCTTTTTT-C
18149323 TTTTTTCTTTTTT-CTTTTTTC
1 TTTTTTCTTTTTTCCTTTTTTC
* *
18149344 -TTCTT-TTTCTTCCTTTTTT
1 TTTTTTCTTTTTTCCTTTTTT
18149363 TTTCTGCTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.14
20 11 0.30
21 1 0.03
22 20 0.54
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTCTTTTTTCCTTTTTTC
Found at i:18149363 original size:22 final size:22
Alignment explanation
Indices: 18149291--18149367 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 22
18149281 TTAAACCCCC
18149291 TTTTTCTTCTTTTT-TTCTTTT
1 TTTTTCTTCTTTTTCTTCTTTT
* *
18149312 TTCTTTTTTCCTTTTTTCTTTTTTCT
1 TT-TTTCTT-C-TTTTTCTTCTTT-T
18149338 TTTTTCTTCTTTTTCTTCCTTTT
1 TTTTTCTTCTTTTTCTT-CTTTT
18149361 TTTTTCT
1 TTTTTCT
18149368 GCTGGGCTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
21 2 0.04
22 5 0.11
23 17 0.37
24 9 0.20
25 10 0.22
26 3 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTCTTCTTTTTCTTCTTTT
Found at i:18149515 original size:12 final size:12
Alignment explanation
Indices: 18149498--18149523 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18149488 CTTTCCCTTC
18149498 TTTTTTTTTGCT
1 TTTTTTTTTGCT
18149510 TTTTTTTTTGCT
1 TTTTTTTTTGCT
18149522 TT
1 TT
18149524 GATTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTGCT
Found at i:18149524 original size:17 final size:17
Alignment explanation
Indices: 18149504--18149536 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18149494 CTTCTTTTTT
*
18149504 TTTGCTTTTTTTTTTGC
1 TTTGATTTTTTTTTTGC
18149521 TTTGATTTTTTTTTTG
1 TTTGATTTTTTTTTTG
18149537 GGCTTGTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.06, G:0.12, T:0.79
Consensus pattern (17 bp):
TTTGATTTTTTTTTTGC
Found at i:18149564 original size:18 final size:19
Alignment explanation
Indices: 18149501--18149566 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
18149491 TCCCTTCTTT
18149501 TTTTTTGCTTTTTTTTTTGC
1 TTTTTT-CTTTTTTTTTTGC
* **
18149521 TTTGATT-TTTTTTTTGGGC
1 TTT-TTTCTTTTTTTTTTGC
*
18149540 TTGTTTCTTTTTTTTTTG-
1 TTTTTTCTTTTTTTTTTGC
18149558 TTTTTTCTT
1 TTTTTTCTT
18149567 GGGCTGCTGG
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
18 10 0.28
19 21 0.58
20 3 0.08
21 2 0.06
ACGTcount: A:0.02, C:0.08, G:0.12, T:0.79
Consensus pattern (19 bp):
TTTTTTCTTTTTTTTTTGC
Found at i:18149664 original size:3 final size:3
Alignment explanation
Indices: 18149658--18149703 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
18149648 TTTTCTTTCT
*
18149658 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
18149704 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:18149687 original size:10 final size:10
Alignment explanation
Indices: 18149672--18149700 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
18149662 TCTTCCTCTT
18149672 TTCTTCTTCC
1 TTCTTCTTCC
18149682 TTCTTCTTCC
1 TTCTTCTTCC
18149692 TTCTTCTTC
1 TTCTTCTTC
18149701 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:18149688 original size:13 final size:13
Alignment explanation
Indices: 18149658--18149703 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
18149648 TTTTCTTTCT
18149658 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
18149670 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
18149682 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
18149695 TTCTTCTTC
1 TTCTTCTTC
18149704 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:18149794 original size:10 final size:10
Alignment explanation
Indices: 18149759--18149808 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
18149749 ACGCCGGTAC
18149759 TCTT-TCTTT
1 TCTTCTCTTT
* *
18149768 TCTTCTCCTC
1 TCTTCTCTTT
18149778 T-TTCTCTTT
1 TCTTCTCTTT
18149787 TCTTCTCTTT
1 TCTTCTCTTT
*
18149797 TCTTCTTTTT
1 TCTTCTCTTT
18149807 TC
1 TC
18149809 CTTCGAAAAA
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:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:18149806 original size:19 final size:19
Alignment explanation
Indices: 18149763--18149805 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
18149753 CGGTACTCTT
18149763 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
18149782 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
18149799 TTCTTTT
1 -TCTTTT
18149806 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:18150085 original size:29 final size:29
Alignment explanation
Indices: 18150052--18150168 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
18150042 TGTAATTTTT
*
18150052 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
18150081 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
18150111 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
18150140 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
18150169 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:18150107 original size:30 final size:30
Alignment explanation
Indices: 18150067--18150168 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
18150057 ATTTAGGATT
*
18150067 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
18150097 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
18150127 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
18150157 AAAATGCAATTT
1 AAAATGAAATTT
18150169 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:18150661 original size:53 final size:54
Alignment explanation
Indices: 18150443--18150692 Score: 377
Period size: 53 Copynumber: 4.7 Consensus size: 54
18150433 CACGTGAGCC
* *
18150443 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
18150498 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
18150548 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
18150602 AAGGCTCAACTCACCTCTCGCAATATGA-TTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
18150655 AAGGCTCAACTCACCTCTTGCAGTATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
18150693 TTTTTTTGAA
Statistics
Matches: 181, Mismatches: 8, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
50 48 0.27
52 1 0.01
53 49 0.27
54 39 0.22
55 38 0.21
56 6 0.03
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:18150733 original size:13 final size:14
Alignment explanation
Indices: 18150705--18150737 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
18150695 TTTTTGAAAC
18150705 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
18150719 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
18150732 ACAGAA
1 ACAGAA
18150738 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:18150745 original size:14 final size:14
Alignment explanation
Indices: 18150698--18150745 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
18150688 TTTTTTTTTT
*
18150698 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
18150712 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
18150726 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
18150739 TTGAAAA
1 TTGAAAA
18150746 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:18151009 original size:72 final size:72
Alignment explanation
Indices: 18150821--18152578 Score: 2917
Period size: 72 Copynumber: 24.1 Consensus size: 72
18150811 ATTAGTAAAG
* * * *
18150821 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
18150885 TTTGAAAA
65 TTTGAAAA
* *
18150893 GCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
18150958 TTTGAAAA
65 TTTGAAAA
* *
18150966 CAGAAACTGAAATTACCTTAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151031 TTGAGAAG
66 TTGA-AAA
*
18151039 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
18151104 TTGAAAA
66 TTGAAAA
18151111 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151176 TTGAGAAG
66 TTGA-AAA
*
18151184 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
18151249 TTGAAAA
66 TTGAAAA
18151256 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151321 TTGAGAAG
66 TTGA-AAA
*
18151329 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
18151394 TTGAAAA
66 TTGAAAA
18151401 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
18151466 TTGAAAA
66 TTGAAAA
18151473 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151538 TTGAGAAG
66 TTGA-AAA
*
18151546 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
18151611 TTGAAAA
66 TTGAAAA
*
18151618 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGACTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
18151683 TTGAAAA
66 TTGAAAA
18151690 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
18151755 TTGAAAA
66 TTGAAAA
* * *
18151762 GCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
*
18151827 TTTGAGAAG
65 TTTGA-AAA
*
18151836 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
18151901 TTGAAAA
66 TTGAAAA
18151908 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151973 TTGAGAAG
66 TTGA-AAA
*
18151981 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
18152046 TTGAAAA
66 TTGAAAA
18152053 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA---G----
18152118 TTGAAATATTTTGAAAA
59 TTG--A-ATTTTGAAAA
*
18152135 GCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
18152200 TTTGAAAA
65 TTTGAAAA
18152208 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
18152273 TTGAAAA
66 TTGAAAA
18152280 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
18152345 TTGAAAA
66 TTGAAAA
* * * *
18152352 GCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
18152417 TTTGAAAA
65 TTTGAAAA
* * *
18152425 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
*
18152490 TTTTAACAA
65 TTTGAA-AA
* * * ** * *
18152499 CAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAATTG-ATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
18152563 TTGAAAAA
66 TTG-AAAA
*
18152571 CATAAATT
1 CAGAAATT
18152579 AAAAGGCTTA
Statistics
Matches: 1604, Mismatches: 58, Indels: 47
0.94 0.03 0.03
Matches are distributed among these distances:
72 834 0.52
73 632 0.39
74 63 0.04
75 1 0.00
76 3 0.00
79 3 0.00
80 1 0.00
81 1 0.00
82 10 0.01
83 56 0.03
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (72 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:18151072 original size:145 final size:144
Alignment explanation
Indices: 18150821--18152578 Score: 2919
Period size: 145 Copynumber: 12.1 Consensus size: 144
18150811 ATTAGTAAAG
* * * *
18150821 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
*
18150885 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
18150950 AGTTGAATTTTGAAAA
129 AGTTGAATTTTGAAAA
* *
18150966 CAGAAACTGAAATTACCTTAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151031 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
18151096 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
18151111 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151176 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
18151241 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
18151256 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151321 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
18151386 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
18151401 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151466 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
18151531 TTGAATTTTGAGAAG
131 TTGAATTTTGA-AAA
*
18151546 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151611 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
18151676 TTGACTTTTGAAAA
131 TTGAATTTTGAAAA
18151690 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
18151755 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
*
18151820 GTTGAATTTTGAGAAG
130 GTTGAATTTTGA-AAA
*
18151836 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151901 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
18151966 TTGAATTTTGAGAAG
131 TTGAATTTTGA-AAA
*
18151981 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18152046 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA-
18152111 TTGAATTTTGAAATATTTTGAAAA
130 --G----TTG--A-ATTTTGAAAA
*
18152135 GCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
*
18152200 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
65 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
18152265 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
18152280 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* * *
18152345 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAA
66 TTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
18152410 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
* * *
18152425 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
* * * ** *
18152490 TTTTAACAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATAT
65 TTTGAA-AACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
*
18152554 GAATTG-ATTTTGAAAAA
128 GAGTTGAATTTTG-AAAA
*
18152571 CATAAATT
1 CAGAAATT
18152579 AAAAGGCTTA
Statistics
Matches: 1550, Mismatches: 42, Indels: 41
0.95 0.03 0.03
Matches are distributed among these distances:
144 214 0.14
145 1041 0.67
146 146 0.09
147 2 0.00
148 4 0.00
152 4 0.00
154 3 0.00
155 136 0.09
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (144 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAAA
Found at i:18151275 original size:217 final size:216
Alignment explanation
Indices: 18150821--18152582 Score: 2936
Period size: 217 Copynumber: 8.1 Consensus size: 216
18150811 ATTAGTAAAG
* * *
18150821 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
*
18150885 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
* *
18150950 AGTTGAATTTTGAAAACAGAAACTGAAATTACCTTAACGTGTCTTGAGGCTCAACTCATTTCTCG
129 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
*
18151015 CAATATGAGTTGAATTTTGAGAAG
194 CAATATGAGTTGAATTTTGA-AAA
18151039 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151104 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
* *
18151169 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
131 TTGAATTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
18151234 AATATGAGTTGAATTTTGAAAA
195 AATATGAGTTGAATTTTGAAAA
*
18151256 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151321 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
18151386 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
130 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
18151451 AATATGAGTTGAATTTTGAAAA
195 AATATGAGTTGAATTTTGAAAA
*
18151473 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151538 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
18151603 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
130 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
*
18151668 AATATGAGTTGACTTTTGAAAA
195 AATATGAGTTGAATTTTGAAAA
*
18151690 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
18151755 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
* *
18151820 GTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
130 GTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
18151885 CAATATGAGTTGAATTTTGAAAA
194 CAATATGAGTTGAATTTTGAAAA
*
18151908 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
18151973 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
18152038 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
130 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
18152103 AATATGAGTTGAATTTTGAAATATTTTGAAAA
195 AATATGA---G----TTG--A-ATTTTGAAAA
18152135 GCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
*
18152200 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
65 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
18152265 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
130 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
18152330 AATATGAGTTGAATTTTGAAAA
195 AATATGAGTTGAATTTTGAAAA
* * *
18152352 GCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAAT
1 -CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
* * *
18152417 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
65 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
* * * * * ** *
18152482 GTTGATTTTTTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTA
130 GTTGA-ATTTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
*
18152547 GCAATATGAATTG-ATTTTGAAAAA
193 GCAATATGAGTTGAATTTTG-AAAA
*
18152571 CATAAATT-AAAA
1 CAGAAATTGAAAA
18152583 GGCTTAACTC
Statistics
Matches: 1479, Mismatches: 45, Indels: 41
0.95 0.03 0.03
Matches are distributed among these distances:
216 2 0.00
217 764 0.52
218 432 0.29
219 64 0.04
220 4 0.00
224 4 0.00
226 1 0.00
227 140 0.09
228 68 0.05
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (216 bp):
CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
ATATGAGTTGAATTTTGAAAA
Found at i:18152155 original size:83 final size:82
Alignment explanation
Indices: 18152043--18152206 Score: 310
Period size: 83 Copynumber: 2.0 Consensus size: 82
18152033 TATGAGTTGA
*
18152043 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
1 ATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
18152108 GAGTTGAATTTTGAAAT
66 GAGTTGAATTTTGAAAT
18152125 ATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 ATTTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
18152190 TGAGTTGAATTTTGAAA
65 TGAGTTGAATTTTGAAA
18152207 ACAGAAATTG
Statistics
Matches: 80, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
82 10 0.12
83 70 0.88
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (82 bp):
ATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
GAGTTGAATTTTGAAAT
Found at i:18153569 original size:45 final size:47
Alignment explanation
Indices: 18153508--18153621 Score: 117
Period size: 47 Copynumber: 2.5 Consensus size: 47
18153498 GTTTCATTAG
*
18153508 GACGCCC-TCTCGGGTTTTCATCCTAAT-C-TTTTTGTATTAATCAA
1 GACGCCCTTTTCGGGTTTTCATCCTAATCCTTTTTTGTATTAATCAA
** * * * ** *
18153552 GACGCCCTTTTCGGGTTTTCGCCCTGATCCTTTTTTTTTTTTTTTAA
1 GACGCCCTTTTCGGGTTTTCATCCTAATCCTTTTTTGTATTAATCAA
*
18153599 GATGCCCTTTTCGGGTTTTCATC
1 GACGCCCTTTTCGGGTTTTCATC
18153622 TTAAGCATAA
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
44 7 0.13
45 16 0.29
46 1 0.02
47 31 0.56
ACGTcount: A:0.13, C:0.25, G:0.16, T:0.46
Consensus pattern (47 bp):
GACGCCCTTTTCGGGTTTTCATCCTAATCCTTTTTTGTATTAATCAA
Found at i:18160833 original size:18 final size:18
Alignment explanation
Indices: 18160812--18161252 Score: 103
Period size: 18 Copynumber: 24.6 Consensus size: 18
18160802 CGAAAGTTTT
* *
18160812 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAGAA
18160830 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAGAA
*
18160848 --TTTGTAAACACGA-ATA
1 TTTTTGAAAACACGAGA-A
* *
18160864 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
18160881 TTTTTGGAAAAAAACGA-AA
1 TTTTT-G-AAAACACGAGAA
* * *
18160900 TTTTCTTAAAACACGACATTTT
1 TTTT-TGAAAACACGAGA---A
*
18160922 TTTTTG-AAACACGGGAA
1 TTTTTGAAAACACGAGAA
* * *
18160939 TTTTT-AAAACAAGACATT
1 TTTTTGAAAACACGAGA-A
18160957 TTTTTG-AAACA--A-AA
1 TTTTTGAAAACACGAGAA
*
18160971 TTTTTTCTTAAAA-A--A-AA
1 --TTTT-TGAAAACACGAGAA
* *
18160988 ATTTT--AAATACGAGAA
1 TTTTTGAAAACACGAGAA
*
18161004 TTTTT-AAAACACGAAAAA
1 TTTTTGAAAACACG-AGAA
*
18161022 TTTTT-AAAACACGGAAATA
1 TTTTTGAAAACAC-GAGA-A
*
18161041 TTTTTTTTTAAAACACGA-AA
1 ---TTTTTGAAAACACGAGAA
* *
18161061 TTTTTTTTTTGAAAACAAGAAAA
1 ----T-TTTTGAAAACACGAGAA
*
18161084 TTTTTG-AAACACTAGAA
1 TTTTTGAAAACACGAGAA
18161101 -TTTTGAAAACACGA-AGA
1 TTTTTGAAAACACGAGA-A
*
18161118 TTTTTG-AAACATGAGAA
1 TTTTTGAAAACACGAGAA
*
18161135 TTTTT-AAAAGCACGAGGA
1 TTTTTGAAAA-CACGAGAA
* *
18161153 TTATTGAAAGCACGA-AGA
1 TTTTTGAAAACACGAGA-A
* * *
18161171 TTTAT-AAAAAACGACAA
1 TTTTTGAAAACACGAGAA
*
18161188 TTTTTG-AAATACGAGAAA
1 TTTTTGAAAACACGAG-AA
* * *
18161206 TTTTT-TAAACGCGAAAA
1 TTTTTGAAAACACGAGAA
** *
18161223 TTTTTTTCAAACACGAAAA
1 -TTTTTGAAAACACGAGAA
*
18161242 CTTTTGAAAAC
1 TTTTTGAAAAC
18161253 GCGAAAATTC
Statistics
Matches: 325, Mismatches: 50, Indels: 96
0.69 0.11 0.20
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
14 1 0.00
15 6 0.02
16 30 0.09
17 89 0.27
18 117 0.36
19 23 0.07
20 17 0.05
21 6 0.02
22 23 0.07
23 9 0.03
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACACGAGAA
Found at i:18160851 original size:16 final size:16
Alignment explanation
Indices: 18160818--18160883 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
18160808 TTTTTTTTTT
*
18160818 AAAATACGAGAATTTTTG
1 AAAACACGAGAA--TTTG
18160836 AAAACACGAGAATTTG
1 AAAACACGAGAATTTG
* *
18160852 TAAACACGA-ATATTTT
1 AAAACACGAGA-ATTTG
*
18160868 AGAAACACGAAAATTT
1 A-AAACACGAGAATTT
18160884 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:18161060 original size:22 final size:22
Alignment explanation
Indices: 18161022--18161088 Score: 93
Period size: 22 Copynumber: 3.0 Consensus size: 22
18161012 ACACGAAAAA
18161022 TTTTTAAAACACGGAAATATTTT
1 TTTTTAAAACAC-GAAATATTTT
18161045 TTTTTAAAACACGAAAT-TTTT
1 TTTTTAAAACACGAAATATTTT
*
18161066 TTTTTGAAAACAAGAAA-ATTTT
1 TTTTT-AAAACACGAAATATTTT
18161088 T
1 T
18161089 GAAACACTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
21 9 0.22
22 20 0.49
23 12 0.29
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (22 bp):
TTTTTAAAACACGAAATATTTT
Found at i:18161106 original size:16 final size:16
Alignment explanation
Indices: 18161085--18161138 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
18161075 ACAAGAAAAT
18161085 TTTTGAAACACTAGAA
1 TTTTGAAACACTAGAA
* *
18161101 TTTTGAAAACACGAAGAT
1 TTTTG-AAACAC-TAGAA
18161119 TTTTGAAACA-TGAGAA
1 TTTTGAAACACT-AGAA
18161135 TTTT
1 TTTT
18161139 TAAAAGCACG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 12 0.39
17 11 0.35
18 8 0.26
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (16 bp):
TTTTGAAACACTAGAA
Found at i:18161110 original size:34 final size:34
Alignment explanation
Indices: 18161067--18161143 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
18161057 GAAATTTTTT
18161067 TTTTGAAAACAAGAAAATTTTTGAAACACT-AGAA
1 TTTTGAAAACAAGAAAATTTTTGAAACA-TGAGAA
* *
18161101 TTTTGAAAACACGAAGATTTTTGAAACATGAGAA
1 TTTTGAAAACAAGAAAATTTTTGAAACATGAGAA
*
18161135 TTTTTAAAA
1 TTTTGAAAA
18161144 GCACGAGGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
33 1 0.03
34 38 0.97
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (34 bp):
TTTTGAAAACAAGAAAATTTTTGAAACATGAGAA
Found at i:18161257 original size:18 final size:19
Alignment explanation
Indices: 18161212--18161260 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
18161202 GAAATTTTTT
* **
18161212 AAACGCGAAAATTTTTTTC
1 AAACGCGAAAATCTTTTGA
*
18161231 AAACACGAAAA-CTTTTGA
1 AAACGCGAAAATCTTTTGA
18161249 AAACGCGAAAAT
1 AAACGCGAAAAT
18161261 TCGAAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (19 bp):
AAACGCGAAAATCTTTTGA
Found at i:18161305 original size:18 final size:17
Alignment explanation
Indices: 18161256--18161306 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
18161246 TGAAAACGCG
18161256 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
18161273 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
18161291 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
18161307 GAAACAAGAA
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:18161818 original size:8 final size:8
Alignment explanation
Indices: 18161800--18161865 Score: 84
Period size: 7 Copynumber: 8.4 Consensus size: 8
18161790 ATTGAACCCC
18161800 CTTTTTCTT
1 CTTTTT-TT
18161809 CTTTTTTT
1 CTTTTTTT
18161817 CTTTTTTT
1 CTTTTTTT
18161825 C-TTTTTT
1 CTTTTTTT
*
18161832 CCTTTTTT
1 CTTTTTTT
18161840 C-TTTTTT
1 CTTTTTTT
18161847 C-TTTTTT
1 CTTTTTTT
18161854 CTTCTTTTT
1 CTT-TTTTT
18161863 CTT
1 CTT
18161866 CCTTTTTTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
7 21 0.39
8 19 0.35
9 14 0.26
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
CTTTTTTT
Found at i:18161826 original size:16 final size:15
Alignment explanation
Indices: 18161802--18161878 Score: 86
Period size: 14 Copynumber: 5.1 Consensus size: 15
18161792 TGAACCCCCT
18161802 TTTTCTTCTTTTTTTC
1 TTTT-TTCTTTTTTTC
*
18161818 TTTTTTTCTTTTTTCC
1 -TTTTTTCTTTTTTTC
18161834 TTTTTTC-TTTTTTC
1 TTTTTTCTTTTTTTC
18161848 TTTTTTCTTCTTTTTC
1 TTTTTTCTT-TTTTTC
**
18161864 TTCCTT-TTTTTTTC
1 TTTTTTCTTTTTTTC
18161878 T
1 T
18161879 GCTGGGCTGC
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
14 20 0.37
15 10 0.19
16 20 0.37
17 4 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:18161837 original size:14 final size:15
Alignment explanation
Indices: 18161811--18161861 Score: 77
Period size: 15 Copynumber: 3.4 Consensus size: 15
18161801 TTTTTCTTCT
*
18161811 TTTTTTCTTTTTTTC
1 TTTTTTCCTTTTTTC
18161826 TTTTTTCCTTTTTTC
1 TTTTTTCCTTTTTTC
18161841 TTTTTT-CTTTTTTC
1 TTTTTTCCTTTTTTC
18161855 TTCTTTT
1 TT-TTTT
18161862 TCTTCCTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
14 10 0.29
15 24 0.71
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTCCTTTTTTC
Found at i:18161841 original size:23 final size:22
Alignment explanation
Indices: 18161807--18161878 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 22
18161797 CCCCTTTTTC
18161807 TTCTTTTTTTCTTTTTTTCTTTT
1 TTCTTTTTTTC-TTTTTTCTTTT
*
18161830 TTCCTTTTTTCTTTTTTCTTTT
1 TTCTTTTTTTCTTTTTTCTTTT
*
18161852 TTCTTCTTTTTCTTCCTTT-TTTT
1 TTCTT-TTTTTCTT-TTTTCTTTT
18161875 TTCT
1 TTCT
18161879 GCTGGGCTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
22 15 0.34
23 26 0.59
24 3 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTCTTTTTTTCTTTTTTCTTTT
Found at i:18162026 original size:12 final size:12
Alignment explanation
Indices: 18162009--18162033 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18161999 CTTTCCCTTC
18162009 TTTTTTTTGCTT
1 TTTTTTTTGCTT
18162021 TTTTTTTTGCTT
1 TTTTTTTTGCTT
18162033 T
1 T
18162034 GATTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTTTTTTGCTT
Found at i:18162039 original size:17 final size:17
Alignment explanation
Indices: 18162014--18162046 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18162004 CCTTCTTTTT
*
18162014 TTTGCTTTTTTTTTTGC
1 TTTGATTTTTTTTTTGC
18162031 TTTGATTTTTTTTTTG
1 TTTGATTTTTTTTTTG
18162047 GGCTTGTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.06, G:0.12, T:0.79
Consensus pattern (17 bp):
TTTGATTTTTTTTTTGC
Found at i:18162074 original size:18 final size:19
Alignment explanation
Indices: 18162011--18162076 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
18162001 TTCCCTTCTT
18162011 TTTTTTGCTTTTTTTTTTGC
1 TTTTTT-CTTTTTTTTTTGC
* **
18162031 TTTGATT-TTTTTTTTGGGC
1 TTT-TTTCTTTTTTTTTTGC
*
18162050 TTGTTTCTTTTTTTTTTG-
1 TTTTTTCTTTTTTTTTTGC
18162068 TTTTTTCTT
1 TTTTTTCTT
18162077 GGGCTGCTGG
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
18 10 0.28
19 21 0.58
20 3 0.08
21 2 0.06
ACGTcount: A:0.02, C:0.08, G:0.12, T:0.79
Consensus pattern (19 bp):
TTTTTTCTTTTTTTTTTGC
Found at i:18162187 original size:14 final size:13
Alignment explanation
Indices: 18162168--18162204 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
18162158 TTTTTCTTTC
18162168 TTTCTTCTTCCTCT
1 TTTCTTCTTCCT-T
18162182 TTTCTTCTTCCTT
1 TTTCTTCTTCCTT
*
18162195 CTTCTTCTTC
1 TTTCTTCTTC
18162205 AAAGTCTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTCTTCTTCCTT
Found at i:18162195 original size:21 final size:22
Alignment explanation
Indices: 18162159--18162203 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
18162149 TTTCTTTTTT
*
18162159 TTTTCTTTCTTTCTTCTTCCTC
1 TTTTCTTTCTTCCTTCTTCCTC
*
18162181 TTTTC-TTCTTCCTTCTTCTTC
1 TTTTCTTTCTTCCTTCTTCCTC
18162202 TT
1 TT
18162204 CAAAGTCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTCTTTCTTCCTTCTTCCTC
Found at i:18162295 original size:10 final size:10
Alignment explanation
Indices: 18162260--18162309 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
18162250 ACGCCGGTAC
18162260 TCTT-TCTTT
1 TCTTCTCTTT
* *
18162269 TCTTCTCCTC
1 TCTTCTCTTT
18162279 T-TTCTCTTT
1 TCTTCTCTTT
18162288 TCTTCTCTTT
1 TCTTCTCTTT
*
18162298 TCTTCTTTTT
1 TCTTCTCTTT
18162308 TC
1 TC
18162310 CTTCGAAAAA
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:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:18162307 original size:19 final size:19
Alignment explanation
Indices: 18162264--18162306 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
18162254 CGGTACTCTT
18162264 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
18162283 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
18162300 TTCTTTT
1 -TCTTTT
18162307 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:18162587 original size:29 final size:29
Alignment explanation
Indices: 18162554--18162670 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
18162544 TGTAATTTTT
*
18162554 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
18162583 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
18162613 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
18162642 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
18162671 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:18162609 original size:30 final size:30
Alignment explanation
Indices: 18162569--18162670 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
18162559 ATTTAGGATT
*
18162569 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
18162599 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
18162629 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
18162659 AAAATGCAATTT
1 AAAATGAAATTT
18162671 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:18162695 original size:18 final size:19
Alignment explanation
Indices: 18162668--18162706 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
18162658 CAAAATGCAA
18162668 TTTTTATTTTTTT-AAATT
1 TTTTTATTTTTTTGAAATT
*
18162686 TTTTTTTTTTTTTGAAATT
1 TTTTTATTTTTTTGAAATT
18162705 TT
1 TT
18162707 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTTATTTTTTTGAAATT
Found at i:18162696 original size:16 final size:16
Alignment explanation
Indices: 18162666--18162695 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18162656 GTCAAAATGC
18162666 AATTTTTATTTTTTTA
1 AATTTTTATTTTTTTA
18162682 AATTTTT-TTTTTTT
1 AATTTTTATTTTTTT
18162696 TTTGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
AATTTTTATTTTTTTA
Found at i:18162696 original size:19 final size:19
Alignment explanation
Indices: 18162668--18162706 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
18162658 CAAAATGCAA
*
18162668 TTTTTATTTTTTTAAATTT
1 TTTTTATTTTTTGAAATTT
*
18162687 TTTTTTTTTTTTGAAATTT
1 TTTTTATTTTTTGAAATTT
18162706 T
1 T
18162707 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTTATTTTTTGAAATTT
Found at i:18167803 original size:16 final size:19
Alignment explanation
Indices: 18167772--18167811 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 19
18167762 TTACGAGTAG
18167772 GTTTTTGTATGTTATTT-T
1 GTTTTTGTATGTTATTTCT
18167790 GTTTTTG-A-GTTATTTCT
1 GTTTTTGTATGTTATTTCT
18167807 GTTTT
1 GTTTT
18167812 AGAACTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 7 0.33
18 7 0.33
ACGTcount: A:0.10, C:0.03, G:0.17, T:0.70
Consensus pattern (19 bp):
GTTTTTGTATGTTATTTCT
Found at i:18175205 original size:3 final size:3
Alignment explanation
Indices: 18175197--18175228 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18175187 TACCCCACAA
18175197 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
18175229 AAGGGAACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:18181179 original size:47 final size:47
Alignment explanation
Indices: 18181115--18181225 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
18181105 GACATTGAGT
*
18181115 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
18181162 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
18181209 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
18181226 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:18188071 original size:50 final size:50
Alignment explanation
Indices: 18187994--18188225 Score: 230
Period size: 47 Copynumber: 4.8 Consensus size: 50
18187984 GACCTCAGCA
* * *
18187994 TGCTCTCTGAT-TATTAGCACGCTAGTGCTCTCTAATTATTAGCACGCCAG
1 TGCTCTCTGATAT-TTAGCACGCCAGTGCTCTCTGATTATTAGCACGTCAG
* * * **
18188044 TGCTCTCTAAT-TATTAGCACGCCAGTGCTTTCTG---ATTAGCACATTTG
1 TGCTCTCTGATAT-TTAGCACGCCAGTGCTCTCTGATTATTAGCACGTCAG
* * *
18188091 TGCTCTCTGATATTTAGCACGTCAATGCTCTCTGA-TATTTAGCATGTCAG
1 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTA-TTAGCACGTCAG
* * **
18188141 TGCTCTCTGATATTTAGCACGTCAGTGCTCTCTG---ATTAGCACATTTG
1 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTATTAGCACGTCAG
*
18188188 TGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGATTA
1 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTA
18188226 GCACATTTGT
Statistics
Matches: 154, Mismatches: 21, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
47 79 0.51
48 2 0.01
49 1 0.01
50 72 0.47
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (50 bp):
TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTATTAGCACGTCAG
Found at i:18188108 original size:47 final size:47
Alignment explanation
Indices: 18188043--18188243 Score: 287
Period size: 47 Copynumber: 4.2 Consensus size: 47
18188033 TAGCACGCCA
* * *
18188043 GTGCTCTCTAAT-TATTAGCACGCCAGTGCTTTCTGATTAGCACATTT
1 GTGCTCTCTGATAT-TTAGCACGTCAGTGCTCTCTGATTAGCACATTT
* ** **
18188090 GTGCTCTCTGATATTTAGCACGTCAATGCTCTCTGATATTTAGCATGTCA
1 GTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTG--A-TTAGCACATTT
18188140 GTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTT
1 GTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTT
18188187 GTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTT
1 GTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTT
18188234 GTGCTCTCTG
1 GTGCTCTCTG
18188244 TTCATTAGTG
Statistics
Matches: 137, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
47 93 0.68
48 2 0.01
49 1 0.01
50 41 0.30
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (47 bp):
GTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTT
Found at i:18188160 original size:97 final size:97
Alignment explanation
Indices: 18187994--18188225 Score: 337
Period size: 97 Copynumber: 2.4 Consensus size: 97
18187984 GACCTCAGCA
*
18187994 TGCTCTCTGAT-TATTAGCACG-CTAGTGCTCTCTAATTATTAGCACGCCAGTGCTCTCTAATTA
1 TGCTCTCTGATAT-TTAGCACGTC-AGTGCTCTCTGATTATTAGCACGCCAGTGCTCTCTAATTA
*
18188057 TTAGCACGCCAGTGCTTTCTGATTAGCACATTTG
64 TTAGCACGCCAGTGCTCTCTGATTAGCACATTTG
* * * *
18188091 TGCTCTCTGATATTTAGCACGTCAATGCTCTCTGA-TATTTAGCATGTCAGTGCTCTCTGA-TAT
1 TGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGATTA-TTAGCACGCCAGTGCTCTCTAATTA-
*
18188154 TTAGCACGTCAGTGCTCTCTGATTAGCACATTTG
64 TTAGCACGCCAGTGCTCTCTGATTAGCACATTTG
18188188 TGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGATTA
1 TGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGATTA
18188226 GCACATTTGT
Statistics
Matches: 122, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
96 4 0.03
97 114 0.93
98 4 0.03
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (97 bp):
TGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGATTATTAGCACGCCAGTGCTCTCTAATTATT
AGCACGCCAGTGCTCTCTGATTAGCACATTTG
Found at i:18188204 original size:25 final size:25
Alignment explanation
Indices: 18187994--18188223 Score: 237
Period size: 25 Copynumber: 9.4 Consensus size: 25
18187984 GACCTCAGCA
18187994 TGCTCTCTGAT-TATTAGCACG-CTAG
1 TGCTCTCTGATAT-TTAGCACGTC-AG
* *
18188019 TGCTCTCTAAT-TATTAGCACGCCAG
1 TGCTCTCTGATAT-TTAGCACGTCAG
* *
18188044 TGCTCTCTAAT-TATTAGCACGCCAG
1 TGCTCTCTGATAT-TTAGCACGTCAG
* * **
18188069 TGCTTTCTG--A-TTAGCACATTTG
1 TGCTCTCTGATATTTAGCACGTCAG
*
18188091 TGCTCTCTGATATTTAGCACGTCAA
1 TGCTCTCTGATATTTAGCACGTCAG
*
18188116 TGCTCTCTGATATTTAGCATGTCAG
1 TGCTCTCTGATATTTAGCACGTCAG
18188141 TGCTCTCTGATATTTAGCACGTCAG
1 TGCTCTCTGATATTTAGCACGTCAG
* **
18188166 TGCTCTCTG--A-TTAGCACATTTG
1 TGCTCTCTGATATTTAGCACGTCAG
18188188 TGCTCTCTGATATTTAGCACGTCAG
1 TGCTCTCTGATATTTAGCACGTCAG
18188213 TGCTCTCTGAT
1 TGCTCTCTGAT
18188224 TAGCACATTT
Statistics
Matches: 176, Mismatches: 21, Indels: 16
0.83 0.10 0.08
Matches are distributed among these distances:
22 34 0.19
23 1 0.01
24 2 0.01
25 138 0.78
26 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.37
Consensus pattern (25 bp):
TGCTCTCTGATATTTAGCACGTCAG
Found at i:18189288 original size:46 final size:47
Alignment explanation
Indices: 18189236--18189338 Score: 111
Period size: 46 Copynumber: 2.2 Consensus size: 47
18189226 TATTCAATAT
* * *
18189236 AGACCATATCTGGGATATGGCATCA-GTGTGATATGTGA-TCTGTGTA
1 AGACCATAT-TGGGATATGGCATCAGGTGTGATATATGACTATGTGCA
* * *
18189282 AGACCATGGTTGGGCTATGGCTTCAGTGTGTGATATATGACTATGTGCA
1 AGACCAT-ATTGGGATATGGCATCAG-GTGTGATATATGACTATGTGCA
18189331 AGACCATA
1 AGACCATA
18189339 GTTTTACTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
46 20 0.43
47 1 0.02
48 12 0.26
49 13 0.28
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (47 bp):
AGACCATATTGGGATATGGCATCAGGTGTGATATATGACTATGTGCA
Found at i:18201380 original size:18 final size:20
Alignment explanation
Indices: 18201338--18201374 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18201328 ATATTTTATG
*
18201338 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
18201357 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
18201375 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:18203586 original size:46 final size:46
Alignment explanation
Indices: 18203534--18203806 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
18203524 AGTGTGCTCT
* *
18203534 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAAC
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
18203580 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
18203626 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACAATGGC-AC
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
18203671 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ****
18203717 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
18203763 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAACGTGTAAGACCATGGTTGAAAGATACCATGGCA
18203807 TCATGTCAAA
Statistics
Matches: 205, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
45 44 0.21
46 161 0.79
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:18203702 original size:21 final size:21
Alignment explanation
Indices: 18203632--18203702 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
18203622 CAGCCTGATA
18203632 TGAAACGTGTAAGACCATGGT
1 TGAAACGTGTAAGACCATGGT
** *
18203653 TGAAA-GATACAATGGCACC-TGAT
1 TGAAACG-TGTAA--G-ACCATGGT
18203676 ATGAAACGTGTAAGACCATGGT
1 -TGAAACGTGTAAGACCATGGT
18203698 TGAAA
1 TGAAA
18203703 GATACCATGG
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
20 1 0.03
21 16 0.43
22 4 0.11
23 4 0.11
24 11 0.30
25 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (21 bp):
TGAAACGTGTAAGACCATGGT
Found at i:18203710 original size:91 final size:92
Alignment explanation
Indices: 18203534--18203806 Score: 361
Period size: 91 Copynumber: 3.0 Consensus size: 92
18203524 AGTGTGCTCT
*
18203534 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAACCTGATATGAAACGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACCTGATATGAAACGTGTAAG
*
18203599 ACCATGGTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAAC
*
18203626 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACAATGGC-ACCTGATATGAAACGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACCTGATATGAAACGTGTAAG
18203690 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* *** *** * * * * *
18203717 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACCTGATATG-AAACGTGTAA
* * *
18203781 GACCATAGTTGAAAGACACTATGGCA
65 GACCATGGTTGAAAGATACCATGGCA
18203807 TCATGTCAAA
Statistics
Matches: 160, Mismatches: 19, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
91 82 0.51
92 78 0.49
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACCTGATATGAAACGTGTAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:18203781 original size:137 final size:137
Alignment explanation
Indices: 18203534--18203806 Score: 368
Period size: 137 Copynumber: 2.0 Consensus size: 137
18203524 AGTGTGCTCT
* * * * * ***
18203534 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAACCTGATATGAAACGTGTAAG
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAACAAATAAG
* * * * * *
18203599 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACA
66 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAACGAGTAAGACCATAGTTGAAAGACACA
18203664 ATGGCAC
131 ATGGCAC
* *
18203671 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAACAAATAAG
*
18203736 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
66 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAACGAGTAAGACCATAGTTGAAAGACAC
*
18203800 TATGGCA
130 AATGGCA
18203807 TCATGTCAAA
Statistics
Matches: 117, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
136 1 0.01
137 116 0.99
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (137 bp):
CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAACAAATAAG
ACCATGGTTGAAAGATACCATGGCAACATGACATGAAACGAGTAAGACCATAGTTGAAAGACACA
ATGGCAC
Found at i:18206139 original size:131 final size:132
Alignment explanation
Indices: 18205976--18206213 Score: 307
Period size: 131 Copynumber: 1.8 Consensus size: 132
18205966 GTAATTCGTG
* * * * * * *
18205976 GAATCATGCCCTAACGTGTTAGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCTTTTA
1 GAATCATGCCCTAACGTGCTAGGTTGCAATTTCTCGTTCGCTCAAAATAATCAAAGATCCCTTCA
* * *
18206041 GAATTTCACCCATGTCTTTTAAAAATCCCTT-AAATGAAGGCGATGTGTGATATTTGGCAATTCA
66 AAATTTCACCCACGTCTTCTAAAAATCCCTTAAAATGAAGGCGATGTGTGATATTTGGCAATTCA
18206105 CA
131 CA
* * * * *
18206107 GAATCGTGCCTTAACGTGCTGGGTTGCAATTTCTCGTTCGCTTAAAATAATCAAATATCCCTTCA
1 GAATCATGCCCTAACGTGCTAGGTTGCAATTTCTCGTTCGCTCAAAATAATCAAAGATCCCTTCA
* * *
18206172 AAATTTCACTCGCGTCTTCTAAAAATCCTTTAAAATGAAGGC
66 AAATTTCACCCACGTCTTCTAAAAATCCCTTAAAATGAAGGC
18206214 AATACTCAGT
Statistics
Matches: 88, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
131 78 0.89
132 10 0.11
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (132 bp):
GAATCATGCCCTAACGTGCTAGGTTGCAATTTCTCGTTCGCTCAAAATAATCAAAGATCCCTTCA
AAATTTCACCCACGTCTTCTAAAAATCCCTTAAAATGAAGGCGATGTGTGATATTTGGCAATTCA
CA
Found at i:18206583 original size:132 final size:131
Alignment explanation
Indices: 18206093--18206587 Score: 383
Period size: 131 Copynumber: 3.8 Consensus size: 131
18206083 ATGTGTGATA
* * * * * * * *
18206093 TTTGGCAATTCACAGAATCGTGCCTTAACGTGCTGGGTTGCAATTTCTCGTTCGCTT-AAAATAA
1 TTTGGCAATTCAGAGAATAGTGCCCTATCGTGCTGGGTTGCAATTTCTCATTTG-TTCGAAACAA
* * * * * **
18206157 TCAAATATCCCTTCAAAATTTCACTCGCGTCTTCTAAAAATCCTTTAAAATGAAGGCAATACTC-
65 TCAAATATCCCTTCAGAATTTCACTCACGTTTTCTAAAAA-CCTTTAAAACGAAGGAAATGTTCG
18206221 AGTG
129 A-TG
* * * ** * *
18206225 TTTGACAA-TCCGGGAATCA-TGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGCTCGAAACAA
1 TTTGGCAATTCAGAGAAT-AGTGCCCTATCGTGCTGGGTTGCAATTTCTCATTTGTTCGAAACAA
* * ** * *
18206288 TCAAATATTCCTTTAGGTTTTCACTCATGTTTAT-TAAAAACCTTTCAAAACGAAGGTAATGTTC
65 TCAAATATCCCTTCAGAATTTCACTCACGTTT-TCTAAAAACCTTT-AAAACGAAGGAAATGTTC
18206352 GATG
128 GATG
** * * * * ** * * * *
18206356 TTTGGTGATT-TGAGAATCGTGCCCTGTCGTTCTGGGTTGCGCTTTTTCATCTGTCCTAAACAAT
1 TTTGGCAATTCAGAGAATAGTGCCCTATCGTGCTGGGTTGCAATTTCTCATTTGTTCGAAACAAT
* * * *
18206420 CGAAGATCCCTTCGGAATTTCACTCACGTTTTCTAAAAACCCTTTAAAACGAAAGAAATGTTCGA
66 CAAATATCCCTTCAGAATTTCACTCACGTTTTCTAAAAA-CCTTTAAAACGAAGGAAATGTTCGA
*
18206485 CG
130 TG
* * * * *
18206487 TTTGGCAATTCGGGGAATAGTGCCCTATCGTGCTGGGCTGCAATTTCCCATTTGTTC-AAGATAA
1 TTTGGCAATTCAGAGAATAGTGCCCTATCGTGCTGGGTTGCAATTTCTCATTTGTTCGAA-ACAA
* * **
18206551 TCAAATATCTCTTCATAATTTCACTCGTGTTTTCTAA
65 TCAAATATCCCTTCAGAATTTCACTCACGTTTTCTAA
18206588 GGCGATGCAA
Statistics
Matches: 278, Mismatches: 74, Indels: 22
0.74 0.20 0.06
Matches are distributed among these distances:
130 7 0.03
131 189 0.68
132 82 0.29
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (131 bp):
TTTGGCAATTCAGAGAATAGTGCCCTATCGTGCTGGGTTGCAATTTCTCATTTGTTCGAAACAAT
CAAATATCCCTTCAGAATTTCACTCACGTTTTCTAAAAACCTTTAAAACGAAGGAAATGTTCGAT
G
Found at i:18213803 original size:18 final size:18
Alignment explanation
Indices: 18213780--18213816 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
18213770 TCATCTAAAT
18213780 TTTCATACGATATTTCTA
1 TTTCATACGATATTTCTA
18213798 TTTCATACGATATTTCTA
1 TTTCATACGATATTTCTA
18213816 T
1 T
18213817 CATACTGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTCATACGATATTTCTA
Found at i:18218961 original size:15 final size:16
Alignment explanation
Indices: 18218941--18218970 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18218931 GAAAATTGCC
18218941 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
18218956 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
18218971 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:18226562 original size:17 final size:19
Alignment explanation
Indices: 18226528--18226565 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
18226518 AAACCTTGAA
18226528 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
18226547 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
18226564 TT
1 TT
18226566 CCTTCCCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:18227987 original size:42 final size:43
Alignment explanation
Indices: 18227921--18228082 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 43
18227911 TCGTTTTCTT
** * *
18227921 GATGCCATAGTTCAACTATAGTCTTACACATCTTCACATAAT-
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAATC
* *
18227963 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATAT-ATC
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAATC
*
18228005 GATGCCATAGCCCAGCTATGGTCTTACACGTAATC-ACACATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACAC---ATCTTCACAT---A-ATC
*
18228054 GATGCCATAGCCCAGTTATGGTCTTACAC
1 GATGCCATAGCCCAGCTATGGTCTTACAC
18228083 GAATCACATA
Statistics
Matches: 101, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
41 2 0.02
42 62 0.61
44 4 0.04
45 2 0.02
49 31 0.31
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (43 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAATC
Found at i:18228063 original size:49 final size:49
Alignment explanation
Indices: 18227989--18228172 Score: 193
Period size: 49 Copynumber: 3.8 Consensus size: 49
18227979 TATGGTCTTA
* *
18227989 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
* *
18228039 CACACATCACATATCGATGCCATAGCCCAGTTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
* * * *
18228087 CACATATCTCACTA---ATGCCATATCCCAGATATGGTCTTATACAGT-AG
1 CACATATCACA-TATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAAT
* * *
18228134 CATATATCAC--ACCGATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTA
18228173 TACGGAAATC
Statistics
Matches: 117, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
44 1 0.01
46 25 0.21
47 35 0.30
48 12 0.10
49 39 0.33
50 5 0.04
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
Found at i:18228175 original size:47 final size:46
Alignment explanation
Indices: 18228004--18228172 Score: 185
Period size: 47 Copynumber: 3.6 Consensus size: 46
18227994 ATTCATATAT
* * *
18228004 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACACATCACATAT
1 CGATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCAC--AC
* * *
18228053 CGATGCCATAGCCCAGTTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
** * * * *
18228099 TAATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACAC
*
18228146 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATAGCCCAGATATGGTCTTA
18228173 TACGGAAATC
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
46 26 0.25
47 37 0.36
48 10 0.10
49 30 0.29
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (46 bp):
CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
Found at i:18228229 original size:31 final size:31
Alignment explanation
Indices: 18228194--18228342 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
18228184 CTTGTCACTT
* *
18228194 GTAGCCGGAGTTACCACTATTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
18228225 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
18228256 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
** * *
18228287 GTAGTAGAAGCTACCACTTTTCACTGCTCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
18228318 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
18228343 TGTTATTTGT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:18228422 original size:50 final size:50
Alignment explanation
Indices: 18228318--18228494 Score: 282
Period size: 50 Copynumber: 3.5 Consensus size: 50
18228308 CACTGCTCAG
* * *
18228318 GTAGCCGAAGCTACCACTTTTCACTTGTTATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* * *
18228369 GTAGTCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAAT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
18228419 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
18228469 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
18228495 GTTGCCATGG
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
50 92 0.80
51 23 0.20
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:18232377 original size:29 final size:29
Alignment explanation
Indices: 18232335--18232394 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
18232325 AAACGGAAGT
18232335 TTTGGCACTAAGTGTG-CATTTAAACTAGC
1 TTTGGCACTAAGTGTGTCATTT-AACTAGC
*
18232364 TTTGGCACTAAGTGTGTGATTTAACTAGC
1 TTTGGCACTAAGTGTGTCATTTAACTAGC
18232393 TT
1 TT
18232395 CGACTACTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGTCATTTAACTAGC
Found at i:18241105 original size:19 final size:19
Alignment explanation
Indices: 18241078--18241117 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
18241068 AAGTTTTTTA
18241078 TATTATTAA-ATTATATTAT
1 TATTATTAATA-TATATTAT
*
18241097 TATTTTTAATATATATTAT
1 TATTATTAATATATATTAT
18241116 TA
1 TA
18241118 ACTCTAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTATTAATATATATTAT
Found at i:18243935 original size:14 final size:15
Alignment explanation
Indices: 18243916--18243945 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18243906 TACGCATTTA
18243916 ATTTTTAAATATTGT
1 ATTTTTAAATATTGT
*
18243931 ATTTTTAATTATTGT
1 ATTTTTAAATATTGT
18243946 TACTTGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
ATTTTTAAATATTGT
Found at i:18244687 original size:15 final size:13
Alignment explanation
Indices: 18244657--18244692 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 13
18244647 TGTTTAACTA
18244657 ATAATTATAAATT
1 ATAATTATAAATT
18244670 ATAATTATAATTATT
1 ATAATTATAA--ATT
18244685 ATAATTAT
1 ATAATTAT
18244693 CACAATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.48
15 11 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATAATTATAAATT
Found at i:18244776 original size:117 final size:116
Alignment explanation
Indices: 18244569--18244800 Score: 303
Period size: 118 Copynumber: 2.0 Consensus size: 116
18244559 TAAAATTAAT
* *
18244569 TAATTATCACAATTTATTTCTATATTTATACTTAAAGTTCTATTTAAATAATAAATCTATTTTAA
1 TAATTATCACAATTTATTTCTATATTTATACTCAAAGTTCTATTCAAATAATAAATCTATTTTAA
* * *
18244634 ATTTTATCATATTTGTTTAACTAAT-AATTATAAATTATAATTATAATTATTA
66 ATATTAGCAAATTTGTTTAACTAATAAATT-TAAATTA-AATTATAATTATTA
* * *
18244686 TAATTATCACAATCTT-TTTCTATATTTTATGA-TCAATGTTCTATTCAAGTAATAAATTTATTT
1 TAATTATCACAAT-TTATTTCTATA-TTTAT-ACTCAAAGTTCTATTCAAATAATAAATCTATTT
18244749 TAAA-ATTAGCACAATTT-TTTAACTAATAAATTTAAATTAAATTATAATTATT
63 TAAATATTAGCA-AATTTGTTTAACTAATAAATTTAAATTAAATTATAATTATT
18244801 TTTAAAGTTA
Statistics
Matches: 102, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
116 13 0.13
117 43 0.42
118 45 0.44
119 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (116 bp):
TAATTATCACAATTTATTTCTATATTTATACTCAAAGTTCTATTCAAATAATAAATCTATTTTAA
ATATTAGCAAATTTGTTTAACTAATAAATTTAAATTAAATTATAATTATTA
Found at i:18250831 original size:19 final size:17
Alignment explanation
Indices: 18250807--18250850 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 17
18250797 CAAGTTAAAC
18250807 AAAGAAAGAAAGAAAATAA
1 AAAGAAAGAAAG-AAA-AA
18250826 AAAGAAAGAAAGAAAAA
1 AAAGAAAGAAAGAAAAA
18250843 AAAGAAAG
1 AAAGAAAG
18250851 GAATGCACGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 10 0.40
18 3 0.12
19 12 0.48
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (17 bp):
AAAGAAAGAAAGAAAAA
Found at i:18250846 original size:13 final size:14
Alignment explanation
Indices: 18250811--18250850 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
18250801 TTAAACAAAG
*
18250811 AAAGAAAGAAAATAA
1 AAAGAAAG-AAAGAA
18250826 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
18250840 AAA-AAAGAAAG
1 AAAGAAAGAAAG
18250851 GAATGCACGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 8 0.33
14 8 0.33
15 8 0.33
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (14 bp):
AAAGAAAGAAAGAA
Found at i:18265484 original size:6 final size:6
Alignment explanation
Indices: 18265473--18265497 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18265463 AAGACTTTTC
18265473 AAATTA AAATTA AAATTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA A
18265498 GATTTCTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:18280187 original size:22 final size:21
Alignment explanation
Indices: 18280158--18280201 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
18280148 TCAGGTCAAA
*
18280158 TTAGGAAAG-CTGTTAACTGAG
1 TTAGGAAAGTATGTTAAC-GAG
18280179 TTAGAGAAAGTATGTTAACGAG
1 TTAG-GAAAGTATGTTAACGAG
18280201 T
1 T
18280202 CATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 9 0.45
23 7 0.35
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (21 bp):
TTAGGAAAGTATGTTAACGAG
Found at i:18280892 original size:14 final size:14
Alignment explanation
Indices: 18280852--18280894 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
18280842 TTGTGATTAT
18280852 TTTAATTTTATTGTA
1 TTTAATTTTA-TGTA
* *
18280867 TATAATTATATGTA
1 TTTAATTTTATGTA
*
18280881 TTTACTTTTATGTA
1 TTTAATTTTATGTA
18280895 GGATAAAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (14 bp):
TTTAATTTTATGTA
Found at i:18289516 original size:21 final size:21
Alignment explanation
Indices: 18289479--18289532 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
18289469 TGCTATTCTG
*
18289479 TTGTTTTTCCATGTTTTG-CTA
1 TTGTTTTCCCATGTTTTGTC-A
18289500 TTGTTTTCCCACT-TTTTGTCA
1 TTGTTTTCCCA-TGTTTTGTCA
*
18289521 TTATTTTCCCAT
1 TTGTTTTCCCAT
18289533 CATTTCACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 1 0.03
21 26 0.90
22 2 0.07
ACGTcount: A:0.11, C:0.20, G:0.09, T:0.59
Consensus pattern (21 bp):
TTGTTTTCCCATGTTTTGTCA
Found at i:18291750 original size:3 final size:3
Alignment explanation
Indices: 18291742--18291768 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18291732 CCATAGTGTT
18291742 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
18291769 CTACTTTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18295364 original size:5 final size:5
Alignment explanation
Indices: 18295317--18295392 Score: 70
Period size: 5 Copynumber: 15.4 Consensus size: 5
18295307 ATTGATTAAA
* * *
18295317 ATATAT ATATA ATATAT ATATT -TATT -TAAT A-ATT A-AGT ATATT ATATT
1 ATAT-T ATATT ATAT-T ATATT ATATT ATATT ATATT ATATT ATATT ATATT
18295365 ATTATT ATATT ATATT ATATT ATATT AT
1 A-TATT ATATT ATATT ATATT ATATT AT
18295393 TATATATAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
4 13 0.22
5 34 0.57
6 13 0.22
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:18295369 original size:8 final size:9
Alignment explanation
Indices: 18295318--18295400 Score: 74
Period size: 8 Copynumber: 9.9 Consensus size: 9
18295308 TTGATTAAAA
18295318 TATATATAT
1 TATATATAT
*
18295327 AATATATA-
1 TATATATAT
*
18295335 TATTTAT-T
1 TATATATAT
18295343 TA-ATA-AT
1 TATATATAT
18295350 TA-AGTATAT
1 TATA-TATAT
18295359 TATAT-TAT
1 TATATATAT
18295367 TAT-TATAT
1 TATATATAT
18295375 TATATTATAT
1 TATA-TATAT
18295385 TATAT-TAT
1 TATATATAT
18295393 TATATATA
1 TATATATA
18295401 AAAGAAACAA
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
7 7 0.11
8 29 0.48
9 15 0.25
10 10 0.16
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:18296526 original size:45 final size:45
Alignment explanation
Indices: 18296476--18296630 Score: 197
Period size: 45 Copynumber: 3.4 Consensus size: 45
18296466 CTACTGTTAC
* *
18296476 TGTTACCGTTACTGTTACTGATTCGATACTTTGTGTGTCAAATAT
1 TGTTACCGTTACTGTTACTGATTCGACACTTTGTGTGTCGAATAT
*
18296521 TGTTACTGTTACTGTTA-TCGATTCGACACTTTGTGTGTCGAATAT
1 TGTTACCGTTACTGTTACT-GATTCGACACTTTGTGTGTCGAATAT
* * * *
18296566 TGTTATCGTTACTGTTACAGATTC-AGCACTTTGTGTGTTGAATAC
1 TGTTACCGTTACTGTTACTGATTCGA-CACTTTGTGTGTCGAATAT
* *
18296611 TGTTACTGTTACTGCTACTG
1 TGTTACCGTTACTGTTACTG
18296631 CTACCGTTAC
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
44 2 0.02
45 93 0.98
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (45 bp):
TGTTACCGTTACTGTTACTGATTCGACACTTTGTGTGTCGAATAT
Found at i:18296639 original size:18 final size:18
Alignment explanation
Indices: 18296608--18296642 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18296598 GTGTGTTGAA
* *
18296608 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
18296626 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
18296643 ATTACTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:18303810 original size:12 final size:12
Alignment explanation
Indices: 18303793--18303817 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18303783 GCCGACTACT
18303793 GTTACTGTTACC
1 GTTACTGTTACC
18303805 GTTACTGTTACC
1 GTTACTGTTACC
18303817 G
1 G
18303818 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:18303848 original size:45 final size:45
Alignment explanation
Indices: 18303798--18303938 Score: 221
Period size: 45 Copynumber: 3.1 Consensus size: 45
18303788 CTACTGTTAC
18303798 TGTTACCGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATAT
1 TGTTACCGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATAT
*
18303843 TGTTACCGTTACTGTTACCGATTTGACACTTTGTGTGTCGAATAT
1 TGTTACCGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATAT
* * * *
18303888 TGTTACTGTTACTGTTACAGATTC-AGCACTTTGTGTGTTGAATAC
1 TGTTACCGTTACTGTTACCGATTCGA-CACTTTGTGTGTCGAATAT
18303933 TGTTAC
1 TGTTAC
18303939 TATTACTGCT
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
44 1 0.01
45 88 0.99
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
TGTTACCGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATAT
Found at i:18311690 original size:35 final size:32
Alignment explanation
Indices: 18311650--18311716 Score: 80
Period size: 35 Copynumber: 2.0 Consensus size: 32
18311640 CAATCAGTAA
* *
18311650 TATTCATTAACATTCAGCTAATCAGAACAATTATT
1 TATTCAATAACAGTCAG-TAA-CA-AACAATTATT
*
18311685 TATTCAATAACAGTCAGTAACAATCAATTATT
1 TATTCAATAACAGTCAGTAACAAACAATTATT
18311717 CAATAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 9 0.31
33 2 0.07
34 3 0.10
35 15 0.52
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (32 bp):
TATTCAATAACAGTCAGTAACAAACAATTATT
Found at i:18314446 original size:26 final size:26
Alignment explanation
Indices: 18314415--18314522 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
18314405 TGAAATGCCC
* *
18314415 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
18314441 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
18314467 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
18314493 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18314519 ATCA
1 ATCA
18314523 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:18314472 original size:52 final size:52
Alignment explanation
Indices: 18314415--18314522 Score: 207
Period size: 52 Copynumber: 2.1 Consensus size: 52
18314405 TGAAATGCCC
18314415 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
18314467 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
18314519 ATCA
1 ATCA
18314523 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:18317030 original size:6 final size:6
Alignment explanation
Indices: 18317021--18317057 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
18317011 CCGAAGCCGA
*
18317021 AACAGT AACAGT AACAGT AACAGT AACAGT AATAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
18317058 CGGTACACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (6 bp):
AACAGT
Found at i:18317103 original size:6 final size:6
Alignment explanation
Indices: 18317092--18317131 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
18317082 ACAAATCCGG
**
18317092 AACAGT AACAGT AACAGT AATGGT AACAGT AACAGT AACA
1 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACA
18317132 ATATCCAGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (6 bp):
AACAGT
Found at i:18318441 original size:9 final size:9
Alignment explanation
Indices: 18318429--18318464 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
18318419 CTTTTCTCCC
18318429 TTTCTTTCT
1 TTTCTTTCT
*
18318438 TTTCTTTCCC
1 TTTCTTT-CT
18318448 TTTCTTTCT
1 TTTCTTTCT
18318457 TTTCTTTC
1 TTTCTTTC
18318465 CTTCCCCTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTCTTTCT
Found at i:18318470 original size:23 final size:19
Alignment explanation
Indices: 18318425--18318465 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
18318415 TTTCCTTTTC
18318425 TCCCTTTCTTTCTTTTCTT
1 TCCCTTTCTTTCTTTTCTT
18318444 TCCCTTTCTTTCTTTTCTT
1 TCCCTTTCTTTCTTTTCTT
18318463 TCC
1 TCC
18318466 TTCCCCTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (19 bp):
TCCCTTTCTTTCTTTTCTT
Found at i:18318685 original size:24 final size:24
Alignment explanation
Indices: 18318639--18318685 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
18318629 TCTTTTCTTT
* *
18318639 TATATATATATAATAACTTAATAA
1 TATATATATATAATAAATAAATAA
*
18318663 TATATTTATATAATAAATAAATA
1 TATATATATATAATAAATAAATA
18318686 TACATGTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TATATATATATAATAAATAAATAA
Found at i:18320161 original size:6 final size:6
Alignment explanation
Indices: 18320147--18320180 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
18320137 AGGAAACAAG
*
18320147 AAAACT AAAATT AAAACT AAAACT AAAACT AAAA
1 AAAACT AAAACT AAAACT AAAACT AAAACT AAAA
18320181 AAAAAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAACT
Found at i:18320186 original size:18 final size:18
Alignment explanation
Indices: 18320147--18320186 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18320137 AGGAAACAAG
* **
18320147 AAAACTAAAATTAAAACT
1 AAAACTAAAACTAAAAAA
18320165 AAAACTAAAACTAAAAAA
1 AAAACTAAAACTAAAAAA
18320183 AAAA
1 AAAA
18320187 AGAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.75, C:0.10, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAACTAAAACTAAAAAA
Found at i:18322489 original size:20 final size:18
Alignment explanation
Indices: 18322458--18322514 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 18
18322448 TCATTTTTCA
18322458 ATAAATTCAATTTCAATAATT
1 ATAAA-TCAATTT-AAT-ATT
18322479 -TAATATCAATTTAATATT
1 ATAA-ATCAATTTAATATT
18322497 ATAAATCAATTATAATAT
1 ATAAATCAATT-TAATAT
18322515 AGTGTGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 10 0.30
19 12 0.36
20 10 0.30
21 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAATCAATTTAATATT
Found at i:18333703 original size:39 final size:39
Alignment explanation
Indices: 18333647--18333743 Score: 131
Period size: 39 Copynumber: 2.5 Consensus size: 39
18333637 TGATTTGAAA
* * * *
18333647 CCCGAAGTCTAGCTAAAGCACATAAGTGCTAAATGGAAG
1 CCCGAAGGCTAACTAAAGCACACAAGTGCTAAACGGAAG
* *
18333686 CTCGAAGGCTAACTAAAGCACACAAGTGTTAAACGGAAG
1 CCCGAAGGCTAACTAAAGCACACAAGTGCTAAACGGAAG
*
18333725 CCCGAAGGCTAACTGAAGC
1 CCCGAAGGCTAACTAAAGC
18333744 TCATCAGAGC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (39 bp):
CCCGAAGGCTAACTAAAGCACACAAGTGCTAAACGGAAG
Found at i:18344970 original size:26 final size:26
Alignment explanation
Indices: 18344941--18345000 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
18344931 TCCCTTTGAA
* *
18344941 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTTGCACACTAAGTG
18344967 TCATTCTCAATATCTTGCACACTAAGTG
1 TCA-T-TCAATATCTTGCACACTAAGTG
*
18344995 CCATTC
1 TCATTC
18345001 TCAATATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 22 0.76
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTTGCACACTAAGTG
Found at i:18344984 original size:28 final size:28
Alignment explanation
Indices: 18344948--18345007 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
18344938 GAATCATTCG
* *
18344948 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATCTTGCACACTAAGTGCCATTCTCA
18344976 ATATCTTGCACACTAAGTGCCATTCTCA
1 ATATCTTGCACACTAAGTGCCATTCTCA
18345004 ATAT
1 ATAT
18345008 TTCGTACACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (28 bp):
ATATCTTGCACACTAAGTGCCATTCTCA
Found at i:18349820 original size:57 final size:57
Alignment explanation
Indices: 18349729--18350026 Score: 452
Period size: 57 Copynumber: 5.2 Consensus size: 57
18349719 GATCTCATTT
* * * *
18349729 CACACACTTAGTGCCCCAAAAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
18349788 CACACACAGTGCCTCACCAACCGATCTCGCACACACAGTGCTCAGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * *
18349845 CGCACACAGTGCCTCAACAACCGATCTCGCACATACAGTGCTCGGTTATGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
18349902 CGCACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * *
18349959 CACACATAGTGCCTCAACAATCGATCTCGCACACACAATGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
18350016 CACACACAGTG
1 CACACACAGTG
18350027 TCTATGTTCA
Statistics
Matches: 219, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
57 212 0.97
59 7 0.03
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:18349825 original size:29 final size:29
Alignment explanation
Indices: 18349784--18349995 Score: 178
Period size: 29 Copynumber: 7.4 Consensus size: 29
18349774 GGTTACGGAA
*
18349784 CTCGCACACACAGTGCCTCACCAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
*** * *
18349813 CTCGCACACACAGTG-CTCAGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
18349841 CTCGCGCACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* **** ** *
18349870 CTCGCACATACAGTG-CTCGGTTATGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
18349898 CTCGCGCACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
**** * *
18349927 CTCGCACACACAGTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
* * *
18349955 CTCACACACATAGTGCCTCAACAATCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
18349984 CTCGCACACACA
1 CTCGCACACACA
18349996 ATGCTCGGTT
Statistics
Matches: 133, Mismatches: 47, Indels: 6
0.72 0.25 0.03
Matches are distributed among these distances:
28 61 0.46
29 72 0.54
ACGTcount: A:0.28, C:0.37, G:0.18, T:0.17
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:18350840 original size:46 final size:46
Alignment explanation
Indices: 18350787--18351060 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
18350777 TTTGTCATGT
** * *
18350787 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** * * * *
18350833 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
18350879 TGCCATTGTATCTTTCAACCATGGTC-TACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* **
18350924 TGCCATGGTATCTTTCAACCATGGTCTAACATGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
18350970 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
18351016 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
18351061 TTGCTCACAC
Statistics
Matches: 208, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 37 0.18
46 171 0.82
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:18350972 original size:137 final size:138
Alignment explanation
Indices: 18350787--18351060 Score: 410
Period size: 137 Copynumber: 2.0 Consensus size: 138
18350777 TTTGTCATGT
* *
18350787 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCACGCTGCCATGGTATCTTTCAAC
*** * * * * *
18350852 CATGGTCTTATTTATTTCCTGTCATGTTGCCATTGTATCTTTCAACCATGGTC-TACACATTTCA
66 CATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
18350916 TATCAGGC
131 TATCAGGC
*
18350924 TGCCATGGTATCTTTCAACCATGGTC-TA-ACATGTTTCATATCAGGCTGCCATGGTATCTTTCA
1 TGCCATGGTATCTTTCAACCATGGTCTTATACA--TTTCATATCACGCTGCCATGGTATCTTTCA
18350987 ACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
64 ACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
18351052 CATATCAGG
129 CATATCAGG
18351061 TTGCTCACAC
Statistics
Matches: 123, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
135 2 0.02
136 2 0.02
137 101 0.82
138 18 0.15
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (138 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCACGCTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
TATCAGGC
Found at i:18351074 original size:23 final size:23
Alignment explanation
Indices: 18351044--18351087 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
18351034 CCATGGTCTT
18351044 ACACATTTCATATCAGGTTGCTC
1 ACACATTTCATATCAGGTTGCTC
18351067 ACACATTTCATATCAGGTTGC
1 ACACATTTCATATCAGGTTGC
18351088 CATGGTATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (23 bp):
ACACATTTCATATCAGGTTGCTC
Found at i:18351080 original size:69 final size:69
Alignment explanation
Indices: 18350998--18351133 Score: 245
Period size: 69 Copynumber: 2.0 Consensus size: 69
18350988 CCATGGTCTT
18350998 ACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
1 ACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
18351063 GCTC
66 GCTC
* * *
18351067 ACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCATGTT
1 ACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
18351132 GC
66 GC
18351134 CATGGTATCT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (69 bp):
ACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
GCTC
Found at i:18351125 original size:46 final size:46
Alignment explanation
Indices: 18351067--18351173 Score: 173
Period size: 46 Copynumber: 2.3 Consensus size: 46
18351057 CAGGTTGCTC
18351067 ACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
1 ACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
* *
18351113 ACACGTTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTT
1 ACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
18351159 AC-CATTTTC-TATCAG
1 ACACA-TTTCATATCAG
18351174 AGAGCACACT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
45 6 0.11
46 50 0.89
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (46 bp):
ACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
Found at i:18351159 original size:115 final size:114
Alignment explanation
Indices: 18350957--18351173 Score: 373
Period size: 115 Copynumber: 1.9 Consensus size: 114
18350947 GTCTAACATG
18350957 TTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCAT
1 TTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCAT
18351022 GGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCTCACACA
66 GGTATCTTTCAACCATGGTCTTAC-CATTTTC-TATCAGGTTGCTCACACA
* * * *
18351072 TTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCATGTTGCCAT
1 TTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCAT
18351137 GGTATCTTTCAACCATGGTCTTACCATTTTCTATCAG
66 GGTATCTTTCAACCATGGTCTTACCATTTTCTATCAG
18351174 AGAGCACACT
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
114 8 0.08
115 89 0.92
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (114 bp):
TTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCAT
GGTATCTTTCAACCATGGTCTTACCATTTTCTATCAGGTTGCTCACACA
Found at i:18353337 original size:17 final size:18
Alignment explanation
Indices: 18353317--18353357 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
18353307 AATAAATAAT
*
18353317 AATAA-ATATCTCATTAA
1 AATAATATATCTAATTAA
18353334 AATAATTATATCTAATT-A
1 AATAA-TATATCTAATTAA
18353352 AATAAT
1 AATAAT
18353358 CATAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 6 0.29
19 9 0.43
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (18 bp):
AATAATATATCTAATTAA
Found at i:18353356 original size:18 final size:19
Alignment explanation
Indices: 18353322--18353357 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18353312 ATAATAATAA
*
18353322 ATATCTCATTAAAATAATT
1 ATATCTAATTAAAATAATT
18353341 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
18353358 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATCTAATTAAAATAATT
Done.