Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014734.1 Kokia drynarioides strain JFW-HI SEQ_129773, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 222657
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Warning! 2 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:8171 original size:18 final size:18
Alignment explanation
Indices: 8148--8211 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
8138 ATAGCTTGGT
8148 TGAGCTCGCAACTTTCGA
1 TGAGCTCGCAACTTTCGA
8166 TGAGCTCGCAACTTT-GAA
1 TGAGCTCGCAACTTTCG-A
* * * * *
8184 TGAGTTTGTAGCTTTCAA
1 TGAGCTCGCAACTTTCGA
8202 TGAGCTCGCA
1 TGAGCTCGCA
8212 GTTATATTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 1 0.03
18 35 0.97
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (18 bp):
TGAGCTCGCAACTTTCGA
Found at i:9272 original size:22 final size:20
Alignment explanation
Indices: 9247--9286 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
9237 AATTCTTTTG
9247 AAAATAAATAAGTTTTAATTAT
1 AAAATAAAT-AG-TTTAATTAT
*
9269 AAAATTAATAGTTTAATT
1 AAAATAAATAGTTTAATT
9287 TCTTTTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
AAAATAAATAGTTTAATTAT
Found at i:9372 original size:14 final size:15
Alignment explanation
Indices: 9332--9373 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
9322 TCTGTTTGTA
9332 TGTTAGTTATTTTAT
1 TGTTAGTTATTTTAT
* *
9347 T-TTATTTCTTTTAT
1 TGTTAGTTATTTTAT
9361 TGTTA-TTATTTTA
1 TGTTAGTTATTTTA
9374 ATTGATTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (15 bp):
TGTTAGTTATTTTAT
Found at i:12409 original size:6 final size:6
Alignment explanation
Indices: 12387--12455 Score: 67
Period size: 6 Copynumber: 12.0 Consensus size: 6
12377 TAATTGGACT
*
12387 TTTAAT TTTGAAA -TTAAA TTTAAA TTTAAA -TTAAA -TTAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
12433 TTTAAGA -TT-AA TCTAAA TTTAAA
1 TTTAA-A TTTAAA TTTAAA TTTAAA
12456 ATAAATTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
4 1 0.02
5 15 0.28
6 35 0.65
7 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:12420 original size:11 final size:11
Alignment explanation
Indices: 12397--12462 Score: 66
Period size: 11 Copynumber: 5.9 Consensus size: 11
12387 TTTAATTTTG
12397 AAATTAAATTT
1 AAATTAAATTT
12408 AAATTTAAA-TT
1 AAA-TTAAATTT
12419 AAATTAAATTT
1 AAATTAAATTT
12430 AAATTTAAGA-TT
1 AAA-TTAA-ATTT
12442 -AATCTAAATTT
1 AAAT-TAAATTT
*
12453 AAAATAAATT
1 AAATTAAATT
12463 AAAAAAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
10 7 0.15
11 26 0.55
12 13 0.28
13 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
AAATTAAATTT
Found at i:15465 original size:29 final size:29
Alignment explanation
Indices: 15431--15493 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
15421 ATATTTTTAT
*
15431 ATTTCCCGCAAAACTTTTACT-TCTTCTC
1 ATTTCCCCCAAAACTTTTACTCTCTTCTC
*
15459 ACTTTCCCCCAAAACTTTTACTCTTTTCTC
1 A-TTTCCCCCAAAACTTTTACTCTCTTCTC
15489 ATTTC
1 ATTTC
15494 ACCTCCAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 1 0.03
29 23 0.74
30 7 0.23
ACGTcount: A:0.21, C:0.33, G:0.02, T:0.44
Consensus pattern (29 bp):
ATTTCCCCCAAAACTTTTACTCTCTTCTC
Found at i:17530 original size:22 final size:22
Alignment explanation
Indices: 17505--17639 Score: 103
Period size: 23 Copynumber: 5.9 Consensus size: 22
17495 TTTATATTGT
* *
17505 TGTTTTGGTACTATTTTTTTAC
1 TGTTTTGGTGCTGTTTTTTTAC
17527 TGTTTTGGT--TGTTGTTTTTAGC
1 TGTTTTGGTGCTGTT-TTTTTA-C
* * *
17549 TGTTTTGGGGTTTTTTTTATTAC
1 TGTTTTGGTGCTGTTTTT-TTAC
* *
17572 TATTTTGGTTGCTATTTTTTTTAC
1 TGTTTTGG-TGCT-GTTTTTTTAC
17596 TGTTTTGGTTGCTGTTTTTTTAC
1 TGTTTTGG-TGCTGTTTTTTTAC
* * *
17619 AGTTTTGATACTGTTATTTTT
1 TGTTTTGGTGCTGTT-TTTTT
17640 GTTGTTGTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 15
0.78 0.09 0.12
Matches are distributed among these distances:
20 3 0.03
21 6 0.06
22 24 0.26
23 31 0.33
24 24 0.26
25 6 0.06
ACGTcount: A:0.10, C:0.07, G:0.19, T:0.64
Consensus pattern (22 bp):
TGTTTTGGTGCTGTTTTTTTAC
Found at i:17595 original size:24 final size:24
Alignment explanation
Indices: 17561--17616 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
17551 TTTTGGGGTT
17561 TTTTTTATTACTATTTTGGTTGCTA
1 TTTTTT-TTACTATTTTGGTTGCTA
* *
17586 TTTTTTTTACTGTTTTGGTTGCTG
1 TTTTTTTTACTATTTTGGTTGCTA
17610 TTTTTTT
1 TTTTTTT
17617 ACAGTTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.09, C:0.07, G:0.14, T:0.70
Consensus pattern (24 bp):
TTTTTTTTACTATTTTGGTTGCTA
Found at i:17650 original size:12 final size:12
Alignment explanation
Indices: 17630--17760 Score: 110
Period size: 12 Copynumber: 11.3 Consensus size: 12
17620 GTTTTGATAC
17630 TGTTATTTTTGT
1 TGTTATTTTTGT
*
17642 TGTTGTTTTTGT
1 TGTTATTTTTGT
* *
17654 TGCTATTTTTGC
1 TGTTATTTTTGT
17666 TGTTATTTTTGT
1 TGTTATTTTTGT
* * *
17678 TGCTGTTTCTGT
1 TGTTATTTTTGT
*
17690 TGCTATTTTTGT
1 TGTTATTTTTGT
17702 TG----TTTTGT
1 TGTTATTTTTGT
* *
17710 TGTT-GTTTAGT
1 TGTTATTTTTGT
**
17721 TGTTATTTTTAC
1 TGTTATTTTTGT
* *
17733 TGCTATTTTGGT
1 TGTTATTTTTGT
17745 TGTTATTTTTGT
1 TGTTATTTTTGT
17757 TGTT
1 TGTT
17761 TAGATGTTAT
Statistics
Matches: 93, Mismatches: 22, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
8 8 0.09
11 9 0.10
12 76 0.82
ACGTcount: A:0.07, C:0.05, G:0.20, T:0.68
Consensus pattern (12 bp):
TGTTATTTTTGT
Found at i:17760 original size:36 final size:36
Alignment explanation
Indices: 17627--17758 Score: 148
Period size: 36 Copynumber: 3.8 Consensus size: 36
17617 ACAGTTTTGA
17627 TACTGTTATTTTTGTTGTTGTTTTTGTTGCTATTTT
1 TACTGTTATTTTTGTTGTTGTTTTTGTTGCTATTTT
* * *
17663 TGCTGTTATTTTTGTTGCTGTTTCTGTTGCTA-TTT
1 TACTGTTATTTTTGTTGTTGTTTTTGTTGCTATTTT
* * *
17698 T--TGTT-GTTTTGTTGTTG-TTTAGTTGTTATTTT
1 TACTGTTATTTTTGTTGTTGTTTTTGTTGCTATTTT
* * *
17730 TACTGCTATTTTGGTTGTTATTTTTGTTG
1 TACTGTTATTTTTGTTGTTGTTTTTGTTG
17759 TTTAGATGTT
Statistics
Matches: 78, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
31 8 0.10
32 14 0.18
33 4 0.05
34 3 0.04
35 13 0.17
36 36 0.46
ACGTcount: A:0.08, C:0.06, G:0.20, T:0.67
Consensus pattern (36 bp):
TACTGTTATTTTTGTTGTTGTTTTTGTTGCTATTTT
Found at i:17769 original size:44 final size:43
Alignment explanation
Indices: 17690--17775 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 43
17680 CTGTTTCTGT
* *
17690 TGCTATTTTTGTTGTTTTGTTGTTGTTTAGTTGTTATTTTTAC
1 TGCTATTTTGGTTGTTTTGTTGTTGTTTAGATGTTATTTTTAC
*
17733 TGCTATTTTGGTTGTTATTTTTGTTGTTTAGATGTTATTTTTA
1 TGCTATTTTGGTTGTT-TTGTTGTTGTTTAGATGTTATTTTTA
17776 TGCGTTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 15 0.38
44 24 0.62
ACGTcount: A:0.12, C:0.03, G:0.19, T:0.66
Consensus pattern (43 bp):
TGCTATTTTGGTTGTTTTGTTGTTGTTTAGATGTTATTTTTAC
Found at i:17824 original size:23 final size:23
Alignment explanation
Indices: 17780--17824 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
17770 TTTTTATGCG
* * *
17780 TTTTTACTATTGTTTCACTATTT
1 TTTTTAATATTATTTCAATATTT
*
17803 TTTTTAATATTATTTGAATATT
1 TTTTTAATATTATTTCAATATT
17825 GTAAAACTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTTTAATATTATTTCAATATTT
Found at i:18092 original size:50 final size:50
Alignment explanation
Indices: 18000--18266 Score: 320
Period size: 50 Copynumber: 5.3 Consensus size: 50
17990 AAAAATTAAT
* *
18000 AAGCTGGCGAGCGTAAATGCATAATTAAGCTGATGAGCGTAAACGTGTGC
1 AAGCTGGCGAGCGTAAATGCATAATTAAGCTGACGAGTGTAAACGTGTGC
* * * * *
18050 AAGTTGGCAAGCGTAAATGCATAACTAAGCTGACGAATGTAAAAGTGTGC
1 AAGCTGGCGAGCGTAAATGCATAATTAAGCTGACGAGTGTAAACGTGTGC
* * ** *
18100 AAGCTAGTGAGCGTAAATGCAT-ATTAAGCTGACGAGCATAAACATGTGC
1 AAGCTGGCGAGCGTAAATGCATAATTAAGCTGACGAGTGTAAACGTGTGC
* * * * *
18149 AAGCTAGTGAGCGAAAACGCATAATTAAGCTGATGAGTGTAAACGTGTGC
1 AAGCTGGCGAGCGTAAATGCATAATTAAGCTGACGAGTGTAAACGTGTGC
* * *
18199 AAGCTGGCGAGCGTAAACGCATAACTAAGCTGACGAGCGTATAAACGTGTGC
1 AAGCTGGCGAGCGTAAATGCATAATTAAGCTGACGA--GTGTAAACGTGTGC
*
18251 AAACTGGCGAGCGTAA
1 AAGCTGGCGAGCGTAA
18267 TTAAGCTGAC
Statistics
Matches: 184, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 41 0.22
50 115 0.62
52 28 0.15
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (50 bp):
AAGCTGGCGAGCGTAAATGCATAATTAAGCTGACGAGTGTAAACGTGTGC
Found at i:18172 original size:99 final size:100
Alignment explanation
Indices: 18000--18252 Score: 319
Period size: 99 Copynumber: 2.5 Consensus size: 100
17990 AAAAATTAAT
* * * * * *
18000 AAGCTGGCGAGCGTAAATGCATAATTAAGCTGATGAGCGTAAACGTGTGCAAGTTGGCAAGCGTA
1 AAGCTAGCGAGCGTAAATGCATAATTAAGCTGACGAGCATAAACGTGTGCAAGCTAGCAAGCGAA
*
18065 AATGCATAACTAAGCTGACGAATGTAAAAGTGTGC
66 AACGCATAACTAAGCTGACGAATGTAAAAGTGTGC
* * **
18100 AAGCTAGTGAGCGTAAATGCAT-ATTAAGCTGACGAGCATAAACATGTGCAAGCTAGTGAGCGAA
1 AAGCTAGCGAGCGTAAATGCATAATTAAGCTGACGAGCATAAACGTGTGCAAGCTAGCAAGCGAA
* * * *
18164 AACGCATAATTAAGCTGATGAGTGTAAACGTGTGC
66 AACGCATAACTAAGCTGACGAATGTAAAAGTGTGC
* * *
18199 AAGCTGGCGAGCGTAAACGCATAACTAAGCTGACGAGCGTATAAACGTGTGCAA
1 AAGCTAGCGAGCGTAAATGCATAATTAAGCTGACGAGC--ATAAACGTGTGCAA
18253 ACTGGCGAGC
Statistics
Matches: 130, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 83 0.64
100 34 0.26
102 13 0.10
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (100 bp):
AAGCTAGCGAGCGTAAATGCATAATTAAGCTGACGAGCATAAACGTGTGCAAGCTAGCAAGCGAA
AACGCATAACTAAGCTGACGAATGTAAAAGTGTGC
Found at i:18261 original size:26 final size:26
Alignment explanation
Indices: 18188--18265 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
18178 CTGATGAGTG
18188 TAAACGTGTGCAAGCTGGCGAGCG--
1 TAAACGTGTGCAAGCTGGCGAGCGTA
** * *
18212 TAAACGCATAACTAAGCTGACGAGCGTA
1 TAAACGTGT-GC-AAGCTGGCGAGCGTA
*
18240 TAAACGTGTGCAAACTGGCGAGCGTA
1 TAAACGTGTGCAAGCTGGCGAGCGTA
18266 ATTAAGCTGA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
24 7 0.17
25 1 0.02
26 25 0.61
27 1 0.02
28 7 0.17
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (26 bp):
TAAACGTGTGCAAGCTGGCGAGCGTA
Found at i:23148 original size:18 final size:18
Alignment explanation
Indices: 23125--23162 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23115 TAATATAGTT
* *
23125 TTATTCGATTTATTCGAA
1 TTATTCGAGTTATCCGAA
23143 TTATTCGAGTTATCCGAA
1 TTATTCGAGTTATCCGAA
23161 TT
1 TT
23163 CGAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (18 bp):
TTATTCGAGTTATCCGAA
Found at i:23553 original size:18 final size:19
Alignment explanation
Indices: 23519--23555 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23509 TCAAAATATA
23519 ATTTTATTTTTACAAAATT
1 ATTTTATTTTTACAAAATT
*
23538 ATTTTTTTTTTA-AAAATT
1 ATTTTATTTTTACAAAATT
23556 TAAAGACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTATTTTTACAAAATT
Found at i:29322 original size:30 final size:29
Alignment explanation
Indices: 29245--29589 Score: 269
Period size: 30 Copynumber: 11.7 Consensus size: 29
29235 AAGGAAAAAA
* * * *
29245 GGGGTTGAAAATGAAATTTCGGATAA-TAT
1 GGGGTT-AAAATGTAATTTTGGAAAAGTTT
* **
29274 GGGGTCAAAACATAATTTTGGAAAAGTTT
1 GGGGTTAAAATGTAATTTTGGAAAAGTTT
* * *
29303 AGGGGTAAAAATGTGATTTTGGGAAAGTTT
1 -GGGGTTAAAATGTAATTTTGGAAAAGTTT
* * * * *
29333 GGGGTCAAAGTGTGATTTTAGAGAAGTTT
1 GGGGTTAAAATGTAATTTTGGAAAAGTTT
* * * *
29362 GTGGTTAAAATGTGATTTTAGAGAAGTTT
1 GGGGTTAAAATGTAATTTTGGAAAAGTTT
* *
29391 AAGGGTTAAAATGTAATTTTGGAAAGGTTT
1 -GGGGTTAAAATGTAATTTTGGAAAAGTTT
* * * *
29421 GAGTGTTAAACTATAATTTTAGAAAAGTTT
1 G-GGGTTAAAATGTAATTTTGGAAAAGTTT
* *
29451 AGGGGTTAAAATGTAATTTTAGAGAAGTTT
1 -GGGGTTAAAATGTAATTTTGGAAAAGTTT
* *
29481 GAGGTTAAAATGTAATTTTGGAAAGGTTT
1 GGGGTTAAAATGTAATTTTGGAAAAGTTT
* **
29510 GGGAGTCAAAATGTAATTTTGGAACGGTTT
1 GGG-GTTAAAATGTAATTTTGGAAAAGTTT
** * * *
29540 AGAAGTTAAAATGTGATTCTGAAAAAGTTT
1 -GGGGTTAAAATGTAATTTTGGAAAAGTTT
*
29570 GGAGGTCAAAATGTAATTTT
1 GG-GGTTAAAATGTAATTTT
29590 TAAAAAAGTT
Statistics
Matches: 252, Mismatches: 56, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
28 14 0.06
29 85 0.34
30 151 0.60
31 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (29 bp):
GGGGTTAAAATGTAATTTTGGAAAAGTTT
Found at i:29336 original size:59 final size:57
Alignment explanation
Indices: 29273--29589 Score: 292
Period size: 59 Copynumber: 5.4 Consensus size: 57
29263 TCGGATAATA
** * *
29273 TGGGGTCAAAACATAATTTTGGAAAAGTTTAGGGGTAAAAATGTGATTTTGGGAAAGTT
1 TGGGGTCAAAATGTAATTTTGGAAAAGTTT-GAGGTTAAAATGTGATTTT-GGAAAGTT
* * * * * *
29332 TGGGGTCAAAGTGTGATTTTAGAGAAGTTTGTGGTTAAAATGTGATTTTAGAGAAGTT
1 TGGGGTCAAAATGTAATTTTGGAAAAGTTTGAGGTTAAAATGTGATTTTGGA-AAGTT
* * * * * * *
29390 TAAGGGTTAAAATGTAATTTTGGAAAGGTTTGAGTGTTAAACTATAATTTTAGAAAAGTT
1 T-GGGGTCAAAATGTAATTTTGGAAAAGTTTGAG-GTTAAAATGTGATTTT-GGAAAGTT
* * * *
29450 TAGGGGTTAAAATGTAATTTTAGAGAAGTTTGAGGTTAAAATGTAATTTTGGAAAGGTT
1 T-GGGGTCAAAATGTAATTTTGGAAAAGTTTGAGGTTAAAATGTGATTTTGGAAA-GTT
** * * *
29509 TGGGAGTCAAAATGTAATTTTGGAACGGTTTAGAAGTTAAAATGTGATTCTGAAAAAGTT
1 TGGG-GTCAAAATGTAATTTTGGAAAAGTTT-GAGGTTAAAATGTGATTTTG-GAAAGTT
29569 TGGAGGTCAAAATGTAATTTT
1 TGG-GGTCAAAATGTAATTTT
29590 TAAAAAAGTT
Statistics
Matches: 211, Mismatches: 38, Indels: 17
0.79 0.14 0.06
Matches are distributed among these distances:
57 2 0.01
58 30 0.14
59 87 0.41
60 87 0.41
61 5 0.02
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (57 bp):
TGGGGTCAAAATGTAATTTTGGAAAAGTTTGAGGTTAAAATGTGATTTTGGAAAGTT
Found at i:29499 original size:119 final size:118
Alignment explanation
Indices: 29326--29589 Score: 320
Period size: 119 Copynumber: 2.2 Consensus size: 118
29316 TGATTTTGGG
* * * *
29326 AAAGTTTGGGGTCAAAGTGTGATTTTAGAGAAGTTTGTGGTTAAAATGTGATTTTAGAGAA-GTT
1 AAAGTTTGGGGTCAAAATGTAATTTTAGAGAAGTTTGAGGTTAAAATGTAATTTTAGA-AAGGTT
*
29390 TAAGG-GTTAAAATGTAATTTTGGAAAGGTTTGAGTGTTAAACTATAATTTTAGA
65 T-AGGAGTCAAAATGTAATTTTGGAAAGGTTTGAGTGTTAAACTATAATTTTAGA
* *
29444 AAAGTTTAGGGGTTAAAATGTAATTTTAGAGAAGTTTGAGGTTAAAATGTAATTTTGGAAAGGTT
1 AAAGTTT-GGGGTCAAAATGTAATTTTAGAGAAGTTTGAGGTTAAAATGTAATTTTAGAAAGGTT
* * * * * * *
29509 TGGGAGTCAAAATGTAATTTTGGAACGGTTT-AGAAGTTAAAATGTGATTCT-GAA
65 TAGGAGTCAAAATGTAATTTTGGAAAGGTTTGAG-TGTTAAACTATAATTTTAG-A
29563 AAAGTTTGGAGGTCAAAATGTAATTTT
1 AAAGTTTGG-GGTCAAAATGTAATTTT
29590 TAAAAAAGTT
Statistics
Matches: 125, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
118 16 0.13
119 109 0.87
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (118 bp):
AAAGTTTGGGGTCAAAATGTAATTTTAGAGAAGTTTGAGGTTAAAATGTAATTTTAGAAAGGTTT
AGGAGTCAAAATGTAATTTTGGAAAGGTTTGAGTGTTAAACTATAATTTTAGA
Found at i:31886 original size:210 final size:210
Alignment explanation
Indices: 31608--32360 Score: 1087
Period size: 210 Copynumber: 3.6 Consensus size: 210
31598 AGGGGCTTGG
* * * * *
31608 AGTTTCACTCGCATTGAGCTTCACTTCATCGATTTGGTTTACTTCTCTGTATCTCATTAGGAAGA
1 AGTTTCACTCACATTGAGCTTCGCTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGA
* * * *
31673 TGACCGCATCACTTGTTTTAATCCGCTTCTCTGTATCTTATCAGGAAGACGGATTTGGTTCACTT
66 TGACCGCATCACTTGTTTTAATCCGCTTCTCTATATCTCATCAAGAAGACGGATTTGGTTCAATT
* * *
31738 CTCTGTATTTCATCAAGAAGACGATCGCTTTATTGCTTTGATCCACTTCTCAGTACCTCATCAAG
131 CTCTGTATCTCATCAGGAAGACGATCGCTTTATTGCTTTAATCCACTTCTCAGTACCTCATCAAG
31803 AAGATGGGGGTTCAA
196 AAGATGGGGGTTCAA
31818 AGTTTCACTCACATTGAGCTTCGCTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGA
1 AGTTTCACTCACATTGAGCTTCGCTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGA
* *
31883 TGACCGCATCACTTGTTTTAATCCTCTTCTCTATATCTCATCAAGAAGACGGATTTGG-TCTAGT
66 TGACCGCATCACTTGTTTTAATCCGCTTCTCTATATCTCATCAAGAAGACGGATTTGGTTC-AAT
*
31947 TCTCTGTATCTCATCAGGAAGACGATCGCTTTATTTCTTTAATCCACTTCTCAGTACCTCATCAA
130 TCTCTGTATCTCATCAGGAAGACGATCGCTTTATTGCTTTAATCCACTTCTCAGTACCTCATCAA
32012 GAAGATGGGGGTTCAA
195 GAAGATGGGGGTTCAA
* * * *
32028 AATTTCACTTACATTGAGCTTCGCTTCATCGATTTGGTCTACTTCTCTATATCTCATCGAGAAGA
1 AGTTTCACTCACATTGAGCTTCGCTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGA
*
32093 TGACCGTATCACTTGTTTTAATCCGCTTCTCTATATCTCATCAAGAAGACGGATTTGGTTCAATT
66 TGACCGCATCACTTGTTTTAATCCGCTTCTCTATATCTCATCAAGAAGACGGATTTGGTTCAATT
* * * * * *
32158 CTTTGTATCTCATCAGGAAGACGATCGCTTTATTGCTTTTATCCACTTCTTAGTATCTCCTCAGG
131 CTCTGTATCTCATCAGGAAGACGATCGCTTTATTGCTTTAATCCACTTCTCAGTACCTCATCAAG
**
32223 AAGATGGGGGTTTGA
196 AAGATGGGGGTTCAA
* * * * *
32238 AGTTTCACTCTCATTGAGTTTTGCTTCATTTGATTTGGTCTACTTCTCTGTATCTTATCAAGAAG
1 AGTTTCACTCACATTGAGCTTCGCTTCA-TCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAG
* * * * * * * * * *
32303 ATGATCGCTTCA-TTATTGTGATCCACTTCTCTGTATCTCATCAGGATGATGGATTTGG
65 ATGACCGCATCACTTGTTTTAATCCGCTTCTCTATATCTCATCAAGAAGACGGATTTGG
32361 AGTTTCATTT
Statistics
Matches: 490, Mismatches: 50, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
209 2 0.00
210 445 0.91
211 43 0.09
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (210 bp):
AGTTTCACTCACATTGAGCTTCGCTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGA
TGACCGCATCACTTGTTTTAATCCGCTTCTCTATATCTCATCAAGAAGACGGATTTGGTTCAATT
CTCTGTATCTCATCAGGAAGACGATCGCTTTATTGCTTTAATCCACTTCTCAGTACCTCATCAAG
AAGATGGGGGTTCAA
Found at i:32453 original size:121 final size:123
Alignment explanation
Indices: 32156--32481 Score: 430
Period size: 121 Copynumber: 2.7 Consensus size: 123
32146 TTTGGTTCAA
* * * * * *
32156 TTCTTTGTATCTCATCAGGAAGACGATCGCTTTATTGCTT-TTATCCACTTCT-TAGTATCTCCT
1 TTCTCTGTATCTCATCAGGAAGATGATCGCTTCATT-ATTGTGATCCACTTCTCT-GTATCTCAT
* *
32219 CAGGAAGATGGGGGTTTGAAGTTTCACTCTCATTGAGTTTTGCTTCATTTGATTTGGTCTAC
64 CAGGAAGAT--GGATTTGGAGTTTCACTCTCATTGAGTTTTGCTTCATTTGATTTGGTCTAC
* *
32281 TTCTCTGTATCTTATCAAGAAGATGATCGCTTCATTATTGTGATCCACTTCTCTGTATCTCATCA
1 TTCTCTGTATCTCATCAGGAAGATGATCGCTTCATTATTGTGATCCACTTCTCTGTATCTCATCA
* *
32346 GGATGATGGATTTGGAGTTTCA-TTTGCATTGA-TCTTTGCTTCATTTGATTTGGTCTAC
66 GGAAGATGGATTTGGAGTTTCACTCT-CATTGAGT-TTTGCTTCATTTGATTTGGTCTAC
* *
32404 -T-TCTGTATCTCATCAGGAAGATGACCGCTTCATTATTGTGATTCACTTCTCTGTATCTCATCA
1 TTCTCTGTATCTCATCAGGAAGATGATCGCTTCATTATTGTGATCCACTTCTCTGTATCTCATCA
32467 GGAAGATGGATTTGG
66 GGAAGATGGATTTGG
32482 TCCACTTCTT
Statistics
Matches: 180, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
121 72 0.40
122 4 0.02
123 43 0.24
124 2 0.01
125 58 0.32
126 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (123 bp):
TTCTCTGTATCTCATCAGGAAGATGATCGCTTCATTATTGTGATCCACTTCTCTGTATCTCATCA
GGAAGATGGATTTGGAGTTTCACTCTCATTGAGTTTTGCTTCATTTGATTTGGTCTAC
Found at i:32642 original size:162 final size:159
Alignment explanation
Indices: 32324--32673 Score: 443
Period size: 162 Copynumber: 2.2 Consensus size: 159
32314 ATTATTGTGA
* * ** * * * *
32324 TCCACTTCTCTGTATCTCATCAGGATGAT-GGATTTGGAGTTTCATTTGCATTGATCTTTGCTTC
1 TCCACTTCTTTGTATCTCATCAGGAAGATGGGATTTAAAGTTTCACTCGCATTGAGCTTCGCTTC
* * * * *
32388 ATTTGATTTGGTCTACTTCTGTATCTCATCAGGAAGATGACCGCTTCATTATTGTGATTCACTTC
66 ATTCGATTTGGTCTACTTCTGTATCTCATCAGGAAGATAACCGCATCATTATTGTAATCCACTTC
* * *
32453 TCTGTATCTCATCAGGAAGATGGATTTGG
131 TCTATATCTCATCAGGAACACGGATTTGG
* *
32482 TCCACTTCTTTGTATCTCATCAGGAAGATGGGGGTTTAAATTTTCACTCGCATTGAGCTTCGCTT
1 TCCACTTCTTTGTATCTCATCAGGAAGAT-GGGATTTAAAGTTTCACTCGCATTGAGCTTCGCTT
* ** * *
32547 TA-TCGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATAATTGCATCACTTGTTTTAATCCA
65 CATTCGATTTGGTCTACTTC--TGTATCTCATCAGGAAGATAACCGCATCA-TTATTGTAATCCA
32611 CTTCTCTATATCTCATCAGGAACACGGATTTGG
127 CTTCTCTATATCTCATCAGGAACACGGATTTGG
32644 TCCACTTCTTTGTATCTCATCAGGAAGATG
1 TCCACTTCTTTGTATCTCATCAGGAAGATG
32674 ACCGCTTTAT
Statistics
Matches: 164, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
158 27 0.16
159 16 0.10
160 27 0.16
161 26 0.16
162 68 0.41
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (159 bp):
TCCACTTCTTTGTATCTCATCAGGAAGATGGGATTTAAAGTTTCACTCGCATTGAGCTTCGCTTC
ATTCGATTTGGTCTACTTCTGTATCTCATCAGGAAGATAACCGCATCATTATTGTAATCCACTTC
TCTATATCTCATCAGGAACACGGATTTGG
Found at i:32719 original size:48 final size:48
Alignment explanation
Indices: 32645--32865 Score: 210
Period size: 48 Copynumber: 4.6 Consensus size: 48
32635 CGGATTTGGT
* * *
32645 CCACTTCTTTGTATCTCATCAGGAAGATGACCGCTTTATTATTTTGAC
1 CCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTAATTTAAC
* * *
32693 CCACTTCTCTGTTTCTCATCAAGAAGATGACCG-TTTCATTAATTTAAT
1 CCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTT-ATTAATTTAAC
* * * * * * ** *
32741 CCGCTTTTCTGTATCTCATCAGAAAGATGACTGCCTCATTGGTTTAAT
1 CCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTAATTTAAC
** * * ** *
32789 CTGCTTCTCTGTATCTCATCGGGAAGATGACCTCTTTATTGCTTTGAC
1 CCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTAATTTAAC
* *
32837 TCATTTCTCTGTATCTCATCAGGAAGATG
1 CCACTTCTCTGTATCTCATCAGGAAGATG
32866 GTTTTGAATT
Statistics
Matches: 139, Mismatches: 32, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
47 3 0.02
48 135 0.97
49 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (48 bp):
CCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTAATTTAAC
Found at i:42403 original size:12 final size:12
Alignment explanation
Indices: 42366--42413 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
42356 TCCCTACACA
42366 TTCTTGTCATTTG
1 TTCTTG-CATTTG
* * *
42379 TTCCTGTAATTG
1 TTCTTGCATTTG
42391 TTCTTGCATTTG
1 TTCTTGCATTTG
42403 TTCTTGCATTT
1 TTCTTGCATTT
42414 ATTTTTGGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
12 24 0.83
13 5 0.17
ACGTcount: A:0.10, C:0.17, G:0.15, T:0.58
Consensus pattern (12 bp):
TTCTTGCATTTG
Found at i:46193 original size:30 final size:29
Alignment explanation
Indices: 46155--46585 Score: 357
Period size: 30 Copynumber: 14.6 Consensus size: 29
46145 GGTCAAAACA
*
46155 TAATTTTGGAAAAGTTTAAGGGTAAAAATG
1 TAATTTTGGAAAAGTTT-AGGGTTAAAATG
* * *
46185 TGATTTTGGCAAAGTTTAGGGTTAAAATA
1 TAATTTTGGAAAAGTTTAGGGTTAAAATG
* * *
46214 TGATTTTAGATAAGTTTAGGGTTAAAATG
1 TAATTTTGGAAAAGTTTAGGGTTAAAATG
* *
46243 TAATTTT-AAAGAAGTTTAGGGTCAAAATG
1 TAATTTTGGAA-AAGTTTAGGGTTAAAATG
* * * *
46272 TGATTTTAGAGAAGTTTAAGGGTCAAAATG
1 TAATTTTGGAAAAGTTT-AGGGTTAAAATG
46302 TAATTTTGGAAAAGTTTAGGGGTTAAAATG
1 TAATTTTGGAAAAGTTTA-GGGTTAAAATG
* *
46332 AAATTTTAGAGAAA-TTTAGGGGTTAAAATG
1 TAATTTTGGA-AAAGTTTA-GGGTTAAAATG
*
46362 TAATTTTAGAAAAGTTTAGGGTTAAAATG
1 TAATTTTGGAAAAGTTTAGGGTTAAAATG
* * **
46391 TAATTTT-AAAAAGTTTAGGGATCAAAACA
1 TAATTTTGGAAAAGTTTAGGG-TTAAAATG
* * * * * *
46420 CAATTTTAGAGAAGTTCAGTGTCAAAATG
1 TAATTTTGGAAAAGTTTAGGGTTAAAATG
* * * *
46449 TAATTTTAGAAAGGTTTGGGGGTTAAAATA
1 TAATTTTGGAAAAGTTT-AGGGTTAAAATG
* * *
46479 TAATTTTGGAAAGGTTTGGGAGTTAAAATA
1 TAATTTTGGAAAAGTTTAGG-GTTAAAATG
* * *
46509 TAATTTTGGGAAGGTTTGGGAGTTAAAATG
1 TAATTTTGGAAAAGTTTAGG-GTTAAAATG
* * * *
46539 TGATTTTGGAGAA-TTTCGAGGGTCAAAATA
1 TAATTTTGGAAAAGTTT--AGGGTTAAAATG
46569 TAATATTTGGAAAAGTT
1 TAAT-TTTGGAAAAGTT
46586 CAAGGGTCAA
Statistics
Matches: 334, Mismatches: 53, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
28 13 0.04
29 128 0.38
30 178 0.53
31 13 0.04
32 2 0.01
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.35
Consensus pattern (29 bp):
TAATTTTGGAAAAGTTTAGGGTTAAAATG
Found at i:46485 original size:177 final size:176
Alignment explanation
Indices: 46149--46597 Score: 471
Period size: 177 Copynumber: 2.5 Consensus size: 176
46139 ATACAAGGTC
* * * * *
46149 AAAACATAATTTTG-GAAAAGTTTAAGGGTAAAAATGTGATTTTGGCAAAGTTTAGGGTTAAAAT
1 AAAATATAATTTTGAG-AAA-TTTAGGGGTTAAAATGTGATTTTAGAAAAGTTTAGGGTTAAAAT
* * * *** * *
46213 ATGATTTTAGATAAGTTTAGGGTTAAAATGTAATTTTAAAGAAGTTTAGGGTCAAAATGTGATTT
64 ATAATTTTAGAAAAGTTTAGGGTCAAAACACAATTTTAAAGAAGTTCAGGGTCAAAATGTAATTT
*
46278 TAGAGAAGTTTAAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGG-GTT
129 TAGAGAAGTTTAAGGGTCAAAATATAATTTTGGAAAAGTTT-GGGAGTT
*
46326 AAAATGA-AATTTTAGAGAAATTTAGGGGTTAAAATGTAATTTTAGAAAAGTTTAGGGTTAAAAT
1 AAAAT-ATAATTTT-GAGAAATTTAGGGGTTAAAATGTGATTTTAGAAAAGTTTAGGGTTAAAAT
* * *
46390 GTAATTTTA-AAAAGTTTAGGGATCAAAACACAATTTTAGAGAAGTTCAGTGTCAAAATGTAATT
64 ATAATTTTAGAAAAGTTTAGGG-TCAAAACACAATTTTAAAGAAGTTCAGGGTCAAAATGTAATT
** * *
46454 TTAGA-AAGGTTTGGGGGTTAAAATATAATTTTGGAAAGGTTTGGGAGTT
128 TTAGAGAA-GTTTAAGGGTCAAAATATAATTTTGGAAAAGTTTGGGAGTT
* * * * *
46503 AAAATATAATTTTGGGAAGGTTT-GGGAGTTAAAATGTGATTTTGGAGAA-TTTCGAGGGTCAAA
1 AAAATATAATTTTGAGAA-ATTTAGGG-GTTAAAATGTGATTTTAGAAAAGTTT--AGGGTTAAA
* *
46566 ATATAATATTTGGAAAAGTTCAAGGGTCAAAA
62 ATATAAT-TTTAGAAAAGTT-TAGGGTCAAAA
46598 TATGATTTTT
Statistics
Matches: 227, Mismatches: 31, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
176 27 0.12
177 160 0.70
178 19 0.08
179 4 0.02
180 13 0.06
181 4 0.02
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (176 bp):
AAAATATAATTTTGAGAAATTTAGGGGTTAAAATGTGATTTTAGAAAAGTTTAGGGTTAAAATAT
AATTTTAGAAAAGTTTAGGGTCAAAACACAATTTTAAAGAAGTTCAGGGTCAAAATGTAATTTTA
GAGAAGTTTAAGGGTCAAAATATAATTTTGGAAAAGTTTGGGAGTT
Found at i:49873 original size:29 final size:30
Alignment explanation
Indices: 49820--49881 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
49810 TAATTTACCT
* *
49820 TTTATATTAAAAAATTAGATAAATTAATTCA
1 TTTACATTAAAAAAATAGATAAATTAA-TCA
49851 TTTACATTAAAAAAATA-A-AAATTAATCA
1 TTTACATTAAAAAAATAGATAAATTAATCA
49879 TTT
1 TTT
49882 TGTTAAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 6 0.21
29 7 0.24
30 1 0.03
31 15 0.52
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (30 bp):
TTTACATTAAAAAAATAGATAAATTAATCA
Found at i:50147 original size:10 final size:10
Alignment explanation
Indices: 50113--50210 Score: 55
Period size: 10 Copynumber: 10.0 Consensus size: 10
50103 TTAAACAAAT
50113 TTTAAAATT-
1 TTTAAAATTA
*
50122 TCTAAAATTA
1 TTTAAAATTA
**
50132 AATAAAATTA
1 TTTAAAATTA
50142 TTTAAAAATTA
1 TTT-AAAATTA
*
50153 TTAAAAATTA
1 TTTAAAATTA
*
50163 --TAAAAATA
1 TTTAAAATTA
50171 -TT-AAATT-
1 TTTAAAATTA
*
50178 TTAATAAAAATA
1 TT--TAAAATTA
50190 TTTTAAAATTA
1 -TTTAAAATTA
*
50201 TTAAAAATTA
1 TTTAAAATTA
50211 CATTCAAAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
8 11 0.16
9 9 0.13
10 26 0.38
11 20 0.29
13 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (10 bp):
TTTAAAATTA
Found at i:50151 original size:11 final size:10
Alignment explanation
Indices: 50135--50210 Score: 77
Period size: 10 Copynumber: 7.7 Consensus size: 10
50125 AAAATTAAAT
50135 AAAATTATTTA
1 AAAATTA-TTA
50146 AAAATTATTA
1 AAAATTATTA
50156 AAAATTA-TA
1 AAAATTATTA
50165 AAAA-TATTA
1 AAAATTATTA
** *
50174 AATTTTAATA
1 AAAATTATTA
*
50184 AAAA-TATTTT
1 AAAATTA-TTA
50194 AAAATTATTA
1 AAAATTATTA
50204 AAAATTA
1 AAAATTA
50211 CATTCAAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
8 2 0.04
9 12 0.23
10 30 0.57
11 9 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AAAATTATTA
Found at i:57867 original size:22 final size:23
Alignment explanation
Indices: 57828--57896 Score: 81
Period size: 22 Copynumber: 3.1 Consensus size: 23
57818 CTCTCCGTTA
*
57828 TTTAGCATGTATTGTGCTCTCT-G
1 TTTAGCACGT-TTGTGCTCTCTCG
57851 TTTAGCACGTTTGTGCTCT-TCG
1 TTTAGCACGTTTGTGCTCTCTCG
* *
57873 TTTAGCACCTTGGTGCTCTC-CG
1 TTTAGCACGTTTGTGCTCTCTCG
57895 TT
1 TT
57897 CATTTGTGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.02
22 31 0.76
23 9 0.22
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.45
Consensus pattern (23 bp):
TTTAGCACGTTTGTGCTCTCTCG
Found at i:59721 original size:158 final size:158
Alignment explanation
Indices: 59420--59748 Score: 405
Period size: 158 Copynumber: 2.1 Consensus size: 158
59410 ATAGTTACAG
* * * *
59420 CTCGTGTGAGCATTACAGGTTATATGGGTGTTGGTCTTAGATGTCCTACCAATGGCTGAGGTCCT
1 CTCGTGTGAGCATTACAAGTTATATAGGTGTTGGTCTTAGAGGTCCTACCAATGGCTGAGGTCCG
* * * *
59485 GCATTGGTTGCGAATTTTCCACAGCTCGTGTGAGCAGCATTGCGTAACCCAACATCTCGACCCAC
66 GCATTGATTGCGAATTCTCCACAGCTCATGTGAGCAGCATTGCATAACCCAACATCTCGACCCAC
*
59550 AGCTTGTGCGAGCAGACCCATTTCACAA
131 AGATTGTGCGAGCAGACCCATTTCACAA
* * * ** *
59578 TTCGTGTGAGCATTACAAGTTATCTAGGTGTTGGTCTTAGAGGTCTTACTGATGGCTGAGGTTCG
1 CTCGTGTGAGCATTACAAGTTATATAGGTGTTGGTCTTAGAGGTCCTACCAATGGCTGAGGTCCG
* * * *
59643 GCATAT-ATTGCGGATTCTCCACGGCTCATGTGAGCAGTA-T-CATATAGCCCAACATCTTGACC
66 GCAT-TGATTGCGAATTCTCCACAGCTCATGTGAGCAGCATTGCATA-A-CCCAACATCTCGACC
*
59705 CACA-ATTCGTGTGAGCAGACCCATTTCACAA
128 CACAGATT-GTGCGAGCAGACCCATTTCACAA
*
59736 CTCATGTGAGCAT
1 CTCGTGTGAGCAT
59749 ATATGGTTAC
Statistics
Matches: 145, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
156 3 0.02
157 4 0.03
158 137 0.94
159 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (158 bp):
CTCGTGTGAGCATTACAAGTTATATAGGTGTTGGTCTTAGAGGTCCTACCAATGGCTGAGGTCCG
GCATTGATTGCGAATTCTCCACAGCTCATGTGAGCAGCATTGCATAACCCAACATCTCGACCCAC
AGATTGTGCGAGCAGACCCATTTCACAA
Found at i:71146 original size:24 final size:24
Alignment explanation
Indices: 71130--71180 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
71120 AGTTTGACTT
*
71130 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
*
71154 AAACAAATAAACAGAGTTTAACTG
1 AAACAAATAAACAGAGTTTAATTG
71178 AAA
1 AAA
71181 GATTATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.57, C:0.08, G:0.12, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:73098 original size:24 final size:24
Alignment explanation
Indices: 73070--73120 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
73060 AGCTTGACTC
*
73070 AAACAAATAAACAAAGTTTAATTG
1 AAACAAATAAACAAAGTTTAACTG
*
73094 AAACAAATAAACAGAGTTTAACTG
1 AAACAAATAAACAAAGTTTAACTG
73118 AAA
1 AAA
73121 GATTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (24 bp):
AAACAAATAAACAAAGTTTAACTG
Found at i:76314 original size:293 final size:289
Alignment explanation
Indices: 75791--76343 Score: 973
Period size: 293 Copynumber: 1.9 Consensus size: 289
75781 TTTCATGTCG
** *
75791 TGACATGGGGAATTTGTCATCATGACATCGTCTTCATTTTCCTACAAGTTCCACACTTTTTATTT
1 TGACATGGCAAATTTGTCATCATGACATCGTCTCCATTTTCCTACAAGTTCCACACTTTTTATTT
75856 ATTTATTTATTTTTATTTCATTACCTAAATCGTATTCAGATATCATAATCGTCACTTCAGTTTAC
66 ATTTATTTATTTTTATTTCATTACCTAAATCGTATTCAGATATCATAATCGTCACTTCAGTTTAC
*
75921 ATATCATCCGCTTACATCTATTTCTAATCTCAAGTCCTTATAGAAACATGATATTCAATCAAAGA
131 ATATCATCCGCTTACATCTATTTCTAATCTCAAGTCCTCATAGAAACATGATATTCAATCAAAGA
75986 TAACGAAATTTATAAAATTAACACAAATATTTAAGTTTTACAAATAAGACCATTGGAGGACTTGC
196 TAACGAAATTTATAAAATTAACACAAATATTTAAGTTTTACAAATAAGACCATTGGAGGACTTGC
76051 GCTTACAATTATTTAAGTTTTATTTCAGA
261 GCTTACAATTATTTAAGTTTTATTTCAGA
*
76080 TGACATGGCAAATTTGTCATCATGACGTCGTCTCCATTTTCCTACAAGTTCCACACTTTTTATTT
1 TGACATGGCAAATTTGTCATCATGACATCGTCTCCATTTTCCTACAAGTTCCACAC---TT-TTT
* * *
76145 ATTTATTTATTTATTTTTATTTCATTTCCTAAATCGTATTCAGATGTCATAATC-TCCACTTCAT
62 ATTTATTTATTTATTTTTATTTCATTACCTAAATCGTATTCAGATATCATAATCGT-CACTTCAG
76209 TTTACATATCATCCGCTTACATCTATTTCTAATCTCAAGTCCTCATAGAAACATGATATTCAATC
126 TTTACATATCATCCGCTTACATCTATTTCTAATCTCAAGTCCTCATAGAAACATGATATTCAATC
*
76274 AAAGATAACGAAATTTATAAAATTAACACAAATATTTAAGTTTTACAAATAAGACCATTTGAGGA
191 AAAGATAACGAAATTTATAAAATTAACACAAATATTTAAGTTTTACAAATAAGACCATTGGAGGA
76339 CTTGC
256 CTTGC
76344 ACTTTCAAAA
Statistics
Matches: 250, Mismatches: 9, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
289 52 0.21
292 3 0.01
293 195 0.78
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.39
Consensus pattern (289 bp):
TGACATGGCAAATTTGTCATCATGACATCGTCTCCATTTTCCTACAAGTTCCACACTTTTTATTT
ATTTATTTATTTTTATTTCATTACCTAAATCGTATTCAGATATCATAATCGTCACTTCAGTTTAC
ATATCATCCGCTTACATCTATTTCTAATCTCAAGTCCTCATAGAAACATGATATTCAATCAAAGA
TAACGAAATTTATAAAATTAACACAAATATTTAAGTTTTACAAATAAGACCATTGGAGGACTTGC
GCTTACAATTATTTAAGTTTTATTTCAGA
Found at i:77339 original size:37 final size:37
Alignment explanation
Indices: 77289--77368 Score: 151
Period size: 37 Copynumber: 2.1 Consensus size: 37
77279 TTTCCATGTT
77289 TCTTTGTACTATGTTTCATTCAATCACATAATTGTCA
1 TCTTTGTACTATGTTTCATTCAATCACATAATTGTCA
77326 TCTTTGTACTATGTTTCATTCAATCACATAATTGTCA
1 TCTTTGTACTATGTTTCATTCAATCACATAATTGTCA
77363 TACTTT
1 T-CTTT
77369 TGATTACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 38 0.90
38 4 0.10
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.47
Consensus pattern (37 bp):
TCTTTGTACTATGTTTCATTCAATCACATAATTGTCA
Found at i:77960 original size:23 final size:23
Alignment explanation
Indices: 77928--77971 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
77918 TCTAGCATTT
77928 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
77951 TCTAACTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
77972 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:77964 original size:13 final size:11
Alignment explanation
Indices: 77932--77974 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
77922 GCATTTTCTA
*
77932 AATAAAATAAT
1 AATAAAATATT
77943 AAT-AAATATCT
1 AATAAAATAT-T
77954 AACTAAAATATT
1 AA-TAAAATATT
77966 AATAAAATA
1 AATAAAATA
77975 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:77977 original size:27 final size:27
Alignment explanation
Indices: 77929--78006 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
77919 CTAGCATTTT
77929 CTAAATAA--AATAATAATAAATATCTAA
1 CTAAATAATTAATAA-AAT-AATATCTAA
*
77956 CTAAA-ATATTAATAAAATAATATTTAA
1 CTAAATA-ATTAATAAAATAATATCTAA
*
77983 CTAATTAATTAATAAAA-AATATCT
1 CTAAATAATTAATAAAATAATATCT
78007 TCAAAATATC
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
26 7 0.16
27 28 0.64
28 4 0.09
29 5 0.11
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (27 bp):
CTAAATAATTAATAAAATAATATCTAA
Found at i:93062 original size:23 final size:23
Alignment explanation
Indices: 93032--93080 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
93022 TACCATATTC
93032 ATACTCGAGTTTGAGTAACATTG
1 ATACTCGAGTTTGAGTAACATTG
93055 ATACTCGAGTTTGAGTAACATTG
1 ATACTCGAGTTTGAGTAACATTG
93078 ATA
1 ATA
93081 GAACTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (23 bp):
ATACTCGAGTTTGAGTAACATTG
Found at i:97020 original size:29 final size:28
Alignment explanation
Indices: 96985--97040 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
96975 ATGAATAATG
96985 TATTTAATAATAATTAATTAATTAATTTA
1 TATTTAATAATAATTAATT-ATTAATTTA
* *
97014 TATTTAATATTAATTAATTTTTAATTT
1 TATTTAATAATAATTAATTATTAATTT
97041 GATGATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TATTTAATAATAATTAATTATTAATTTA
Found at i:97027 original size:17 final size:17
Alignment explanation
Indices: 97005--97038 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
96995 TAATTAATTA
*
97005 ATTAATTTATATTTAAT
1 ATTAATTAATATTTAAT
*
97022 ATTAATTAATTTTTAAT
1 ATTAATTAATATTTAAT
97039 TTGATGATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTAATTAATATTTAAT
Found at i:97057 original size:29 final size:28
Alignment explanation
Indices: 96985--97060 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 28
96975 ATGAATAATG
*
96985 TATTTAATAATAATTAATTAATTAATTTA
1 TATTT-ATATTAATTAATTAATTAATTTA
*
97014 TATTTAATATTAATTAATT-TTTAATTTGA
1 TATTT-ATATTAATTAATTAATTAATTT-A
97043 TGATTT-TATTCAATTAAT
1 T-ATTTATATT-AATTAAT
97061 CCAATCGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 11 0.26
29 27 0.64
30 4 0.10
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (28 bp):
TATTTATATTAATTAATTAATTAATTTA
Found at i:97401 original size:6 final size:6
Alignment explanation
Indices: 97390--97467 Score: 58
Period size: 6 Copynumber: 13.7 Consensus size: 6
97380 GATCTAACAG
* * * *
97390 AATTTA AATTT- ATTTTA AGTTTA AATTT- ACTTAA AATTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
97435 -ATTATA AATTT- GAGTTA AATTTA AATTTA AATT
1 AATT-TA AATTTA AATTTA AATTTA AATTTA AATT
97468 AATGTCCAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
4 3 0.05
5 11 0.20
6 38 0.69
7 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:97443 original size:17 final size:17
Alignment explanation
Indices: 97390--97467 Score: 79
Period size: 17 Copynumber: 4.6 Consensus size: 17
97380 GATCTAACAG
*
97390 AATTTAAATTTATTTTA
1 AATTTAAATTTATTATA
*
97407 AGTTTAAATTTACTTA-A
1 AATTTAAATTTA-TTATA
97424 AATTTAAATTTATTATA
1 AATTTAAATTTATTATA
* * *
97441 AATTTGAGTTAAATT-TA
1 AATTTAAATT-TATTATA
97458 AATTTAAATT
1 AATTTAAATT
97468 AATGTCCAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
16 3 0.06
17 42 0.84
18 5 0.10
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (17 bp):
AATTTAAATTTATTATA
Found at i:97461 original size:34 final size:34
Alignment explanation
Indices: 97390--97467 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
97380 GATCTAACAG
* * * *
97390 AATTTAAATTTATTTTAAGTTTAAATTTACTTAA
1 AATTTAAATTTATTATAAATTTAAATTAAATTAA
* * *
97424 AATTTAAATTTATTATAAATTTGAGTTAAATTTA
1 AATTTAAATTTATTATAAATTTAAATTAAATTAA
97458 AATTTAAATT
1 AATTTAAATT
97468 AATGTCCAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (34 bp):
AATTTAAATTTATTATAAATTTAAATTAAATTAA
Found at i:98220 original size:3 final size:3
Alignment explanation
Indices: 98125--98202 Score: 95
Period size: 3 Copynumber: 26.0 Consensus size: 3
98115 ACATTGTTTG
* ** **
98125 TAA TAA GTAT TAA TAA TAA TAA TTT TTT TAA T-A TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
98170 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
98203 CAACAACATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 2 0.03
3 63 0.94
4 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:99508 original size:29 final size:28
Alignment explanation
Indices: 99453--99683 Score: 241
Period size: 30 Copynumber: 7.9 Consensus size: 28
99443 CCCTGGAGGT
99453 CCCTAAACTTCCAAAAAATTCCATTTTTA
1 CCCTAAACTTCC-AAAAATTCCATTTTTA
99482 CTCCTAAACTTCCAAAAATTCCATTTTTTA
1 C-CCTAAACTTCCAAAAATTCCA-TTTTTA
* *
99512 CCACGAAGCTTCCAAAAATTCCA-TTTTA
1 CC-CTAAACTTCCAAAAATTCCATTTTTA
**
99540 CCCTCGACTTCCAAAAATTCCATTTTTGA
1 CCCTAAACTTCCAAAAATTCCATTTTT-A
99569 CCCTAAAACTTCCAAAAATTCCATTTTTA
1 CCCT-AAACTTCCAAAAATTCCATTTTTA
** * * *
99598 CCTCCGAACTTCAAAAAATTTCATTTTCGA
1 CC-CTAAACTTCCAAAAATTCCATTTT-TA
*
99628 CCTCAAAACTTCCAAAAATTCCATTTTTGA
1 CC-CTAAACTTCCAAAAATTCCATTTTT-A
*
99658 CCCTAAAACTTTC-AAAATTACCATTT
1 CCCT-AAACTTCCAAAAATT-CCATTT
99684 GCCCCCGGAT
Statistics
Matches: 171, Mismatches: 20, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
27 16 0.09
28 11 0.06
29 46 0.27
30 98 0.57
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (28 bp):
CCCTAAACTTCCAAAAATTCCATTTTTA
Found at i:99675 original size:59 final size:57
Alignment explanation
Indices: 99457--99683 Score: 260
Period size: 59 Copynumber: 3.9 Consensus size: 57
99447 GGAGGTCCCT
* *
99457 AAACTTCCAAAAAATTCCATTTTTACTCCTAAACTTCCAAAAATTCCATTTTTTACCACG
1 AAACTTCC-AAAAATTCCATTTTTAC-CCTAAACTTCCAAAAATTCCATTTTTGACC-CA
* **
99517 AAGCTTCCAAAAATTCCA-TTTTACCCTCGACTTCCAAAAATTCCATTTTTGACCCTA
1 AAACTTCCAAAAATTCCATTTTTACCCTAAACTTCCAAAAATTCCATTTTTGACCC-A
** * * *
99574 AAACTTCCAAAAATTCCATTTTTACCTCCGAACTTCAAAAAATTTCATTTTCGACCTCA
1 AAACTTCCAAAAATTCCATTTTTACC-CTAAACTTCCAAAAATTCCATTTTTGACC-CA
*
99633 AAACTTCCAAAAATTCCATTTTTGACCCTAAAACTTTC-AAAATTACCATTT
1 AAACTTCCAAAAATTCCATTTTT-ACCCT-AAACTTCCAAAAATT-CCATTT
99684 GCCCCCGGAT
Statistics
Matches: 143, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
56 1 0.01
57 44 0.31
58 13 0.09
59 64 0.45
60 21 0.15
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (57 bp):
AAACTTCCAAAAATTCCATTTTTACCCTAAACTTCCAAAAATTCCATTTTTGACCCA
Found at i:99798 original size:58 final size:57
Alignment explanation
Indices: 99638--99799 Score: 155
Period size: 58 Copynumber: 2.8 Consensus size: 57
99628 CCTCAAAACT
* * * *
99638 TCCAAAAATTCCATTTTTGACCCTAAAACTTT-CAAAATTACCATTTGCCCCCGGATG
1 TCCAAAAATTCCATTTTTAACCC-AAAACTTTCCAAAATTACCATTTACCCACGAATG
* * * * * * * *
99695 TCCAAAAACTCCATTTTCAACCTCGAAACTCTCGAAATTTCCCATTTACCCATGAATG
1 TCCAAAAATTCCATTTTTAACC-CAAAACTTTCCAAAATTACCATTTACCCACGAATG
* * *
99753 TCTAAAAATTCCATTTTTAACCCCAAATTTTCCCAAAATTACCATTT
1 TCCAAAAATTCCATTTTTAACCCAAAACTTT-CCAAAATTACCATTT
99800 TTCCCTCGAG
Statistics
Matches: 81, Mismatches: 21, Indels: 5
0.76 0.20 0.05
Matches are distributed among these distances:
57 31 0.38
58 50 0.62
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (57 bp):
TCCAAAAATTCCATTTTTAACCCAAAACTTTCCAAAATTACCATTTACCCACGAATG
Found at i:99820 original size:28 final size:28
Alignment explanation
Indices: 99785--99846 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
99775 CCAAATTTTC
* *
99785 CCAAAATTACCATTTTTCCCTCGAGAAT
1 CCAAAATTACCATTTTACCCCCGAGAAT
* *
99813 CCAAAATTACCATTTTACCCCCGGGTAT
1 CCAAAATTACCATTTTACCCCCGAGAAT
99841 CCAAAA
1 CCAAAA
99847 GGTCTCATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.31, G:0.08, T:0.27
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCCCGAGAAT
Found at i:99903 original size:16 final size:16
Alignment explanation
Indices: 99884--99917 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
99874 ATTCTTCTTT
99884 TTCATCAATATTTGCA
1 TTCATCAATATTTGCA
99900 TTCATCAATATTTGCA
1 TTCATCAATATTTGCA
99916 TT
1 TT
99918 TAATTTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (16 bp):
TTCATCAATATTTGCA
Found at i:111912 original size:206 final size:205
Alignment explanation
Indices: 111549--112219 Score: 889
Period size: 206 Copynumber: 3.2 Consensus size: 205
111539 ATCCACCAAC
* * * *
111549 AGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACGAGGCTCAA
1 AGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATC----AAACCACGCTCGA
* * * * * *
111614 AGCGAGCGAATCTTCGAACTCCAGCTTCCT-ATTGAGATATTGAGAAGCAGGTCGAAGTAATAAA
62 TGAGAGCAAATCTTCGAACCCCAGCTTCCTGA-TGAGATACTGAGAAGCAGGTCGAAGCAATAAA
*
111678 ATGATTAGCTTCCTAATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAAATACAGAG
126 ATGATTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAAATACAGAG
*
111743 AAGCGAATTGAAACA
191 AAGCGGATTGAAACA
* * *
111758 AACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAAGCCACGCTCGATGT
1 AGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA-CCACGCTCGATGA
* * *
111823 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCAAAGCAATAAAATGG
65 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGA
* * *
111888 TTAGCTTCTTGATGAGATACTGAGAAGTGGATCAAATTCGTCTTCTTGATGAGAA-ACAGAGAAG
130 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGA-AATACAGAGAAG
111952 CGGATTGAAACA
194 CGGATTGAAACA
* *
111964 AGCGATGCTGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCTACGCTTGATGA
1 AGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACC-ACGCTCGATGA
* * ** **
112029 GAGCAAATCTTTGAACCCCAACTTCCTGATGATTTACTGAGAAGCAGGTCGAAGCAATAAAGCGA
65 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGA
* * * *
112094 TTAGCTTCCTGATGAGATACAGAGAAGTGAACCAAA-TCTGTCTTCCCGATGAAATATAGAGAAG
130 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTC-GTCTTCCTGATGAAATACAGAGAAG
* **
112158 TGGATCAAAACA
194 CGGATTGAAACA
* * *
112170 AGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGGCCAAGTCAA
1 AGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
112220 TGAAACCAGA
Statistics
Matches: 408, Mismatches: 48, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
205 9 0.02
206 351 0.86
207 3 0.01
209 45 0.11
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (205 bp):
AGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCACGCTCGATGAG
AGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGAT
TAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAAATACAGAGAAGCG
GATTGAAACA
Found at i:112553 original size:6 final size:6
Alignment explanation
Indices: 112542--112636 Score: 67
Period size: 6 Copynumber: 16.7 Consensus size: 6
112532 GGCCCAACAG
* * * *
112542 AATTTA AATTT- ATTTTA AAATTA AATTT- ATTTTA AGTTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * * *
112587 ACTTAA AATTTA AATTT- -ATTATA AATTT- GAGTTA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATT-TA AATTTA AATTTA AATTTA AATTTA
112633 AATT
1 AATT
112637 AATGTCCAAA
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
4 3 0.04
5 15 0.22
6 46 0.69
7 3 0.04
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (6 bp):
AATTTA
Found at i:112612 original size:17 final size:17
Alignment explanation
Indices: 112542--112636 Score: 95
Period size: 17 Copynumber: 5.6 Consensus size: 17
112532 GGCCCAACAG
*
112542 AATTTAAATTTATTTTA
1 AATTTAAATTTATTATA
* *
112559 AAATTAAATTTATTTTA
1 AATTTAAATTTATTATA
*
112576 AGTTTAAATTTACTTA-A
1 AATTTAAATTTA-TTATA
112593 AATTTAAATTTATTATA
1 AATTTAAATTTATTATA
* * *
112610 AATTTGAGTTAAATT-TA
1 AATTTAAATT-TATTATA
112627 AATTTAAATT
1 AATTTAAATT
112637 AATGTCCAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
16 3 0.05
17 57 0.88
18 5 0.08
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (17 bp):
AATTTAAATTTATTATA
Found at i:113133 original size:3 final size:3
Alignment explanation
Indices: 113127--113171 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
113117 ATAACTGTTT
* * * *
113127 TAA TAA TAA TAA TAA TAA TAA TAA TAT TAC TAA CAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
113172 ACTGTGGTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:113206 original size:10 final size:10
Alignment explanation
Indices: 113191--113218 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
113181 ATAAATGACA
113191 TTAATAATTG
1 TTAATAATTG
113201 TTAATAATTG
1 TTAATAATTG
113211 TTAATAAT
1 TTAATAAT
113219 AATAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (10 bp):
TTAATAATTG
Found at i:114127 original size:29 final size:29
Alignment explanation
Indices: 114081--114278 Score: 218
Period size: 30 Copynumber: 6.7 Consensus size: 29
114071 GTATTTGGTC
**
114081 CTTCCAAAAAATTCCATTTTTACCCTTAAA
1 CTTCC-AAAAATTCCATTTTTACCCCAAAA
* **
114111 CTTCCAAAAATTTCATTTTTACCCCCGAA
1 CTTCCAAAAATTCCATTTTTACCCCAAAA
*
114140 CTTCCAAAAATTCCATTTTCGACCCCAAAA
1 CTTCCAAAAATTCCATTTT-TACCCCAAAA
114170 CTTCCAAAAATTCCATTTTTGACCCCAAAA
1 CTTCCAAAAATTCCATTTTT-ACCCCAAAA
* **
114200 CTTCCAAAAAATCCATTTTTACCCCCGAA
1 CTTCCAAAAATTCCATTTTTACCCCAAAA
* * * *
114229 CCTCCAAAATTTCCATTTTTGACCTCGAAA
1 CTTCCAAAAATTCCATTTTT-ACCCCAAAA
*
114259 CTTTC-AAAATTACCATTTTT
1 CTTCCAAAAATT-CCATTTTT
114279 CTCTCGGATG
Statistics
Matches: 143, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
29 67 0.47
30 76 0.53
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (29 bp):
CTTCCAAAAATTCCATTTTTACCCCAAAA
Found at i:114173 original size:59 final size:59
Alignment explanation
Indices: 114081--114278 Score: 222
Period size: 59 Copynumber: 3.3 Consensus size: 59
114071 GTATTTGGTC
** **
114081 CTTCCAAAAAATTCCATTTTTACCCTTAAACTTCCAAAAATTTCATTTTT-ACCCCCGAA
1 CTTCC-AAAAATTCCATTTTTACCCCAAAACTTCCAAAAATTTCATTTTTGACCCCAAAA
* *
114140 CTTCCAAAAATTCCATTTTCGACCCCAAAACTTCCAAAAATTCCATTTTTGACCCCAAAA
1 CTTCCAAAAATTCCATTTT-TACCCCAAAACTTCCAAAAATTTCATTTTTGACCCCAAAA
* ** * * *
114200 CTTCCAAAAAATCCATTTTTACCCCCGAACCTCC-AAAATTTCCATTTTTGACCTCGAAA
1 CTTCCAAAAATTCCATTTTTACCCCAAAACTTCCAAAAATTT-CATTTTTGACCCCAAAA
*
114259 CTTTC-AAAATTACCATTTTT
1 CTTCCAAAAATT-CCATTTTT
114279 CTCTCGGATG
Statistics
Matches: 119, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
58 25 0.21
59 69 0.58
60 25 0.21
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (59 bp):
CTTCCAAAAATTCCATTTTTACCCCAAAACTTCCAAAAATTTCATTTTTGACCCCAAAA
Found at i:114311 original size:58 final size:58
Alignment explanation
Indices: 114172--114369 Score: 218
Period size: 58 Copynumber: 3.4 Consensus size: 58
114162 CCCCAAAACT
* * * **
114172 TCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAA-AATCCATTTTTACCCCCGAACC
1 TCCAAAAATTCCATTTTTGACCTCAAAACTTTCAAAATTA-CCATTTTT-CCCCCGAATG
* * * * *
114231 TCCAAAATTTCCATTTTTGACCTCGAAACTTTCAAAATTACCATTTTTCTCTCGGATG
1 TCCAAAAATTCCATTTTTGACCTCAAAACTTTCAAAATTACCATTTTTCCCCCGAATG
* * * * *
114289 TCCAAAAACTCCATTTTTGACCTCAAAACTCTCGAAATTACCCTTTTACCCCCGAATG
1 TCCAAAAATTCCATTTTTGACCTCAAAACTTTCAAAATTACCATTTTTCCCCCGAATG
* *
114347 TCTAAAAATTCCATTTTTAACCT
1 TCCAAAAATTCCATTTTTGACCT
114370 TGAATTTTCC
Statistics
Matches: 115, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
58 73 0.63
59 41 0.36
60 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (58 bp):
TCCAAAAATTCCATTTTTGACCTCAAAACTTTCAAAATTACCATTTTTCCCCCGAATG
Found at i:114365 original size:29 final size:28
Alignment explanation
Indices: 114082--114365 Score: 155
Period size: 29 Copynumber: 9.7 Consensus size: 28
114072 TATTTGGTCC
***
114082 TTCCAAAAAATTCCATTTTTACCCTTAAA
1 TTCC-AAAAATTCCATTTTTACCCCCGAA
*
114111 CTTCCAAAAATTTCATTTTTACCCCCGAA
1 -TTCCAAAAATTCCATTTTTACCCCCGAA
* **
114140 CTTCCAAAAATTCCATTTTCGACCCCAAAA
1 -TTCCAAAAATTCCATTTT-TACCCCCGAA
**
114170 CTTCCAAAAATTCCATTTTTGACCCCAAAA
1 -TTCCAAAAATTCCATTTTT-ACCCCCGAA
*
114200 CTTCCAAAAAATCCATTTTTACCCCCGAA
1 -TTCCAAAAATTCCATTTTTACCCCCGAA
* * *
114229 CCTCCAAAATTTCCATTTTTGA-CCTCGAAA
1 -TTCCAAAAATTCCATTTTT-ACCCCCG-AA
* * * *
114259 CTTTC-AAAATTACCATTTTT-CTCTCGGA
1 -TTCCAAAAATT-CCATTTTTACCCCCGAA
* * **
114287 TGTCCAAAAACTCCATTTTTGACCTCAAAA
1 T-TCCAAAAATTCCATTTTT-ACCCCCGAA
* * *
114317 CTCTC-GAAATTACC-CTTTTACCCCCGAA
1 TTC-CAAAAATT-CCATTTTTACCCCCGAA
*
114345 TGTCTAAAAATTCCATTTTTA
1 T-TCCAAAAATTCCATTTTTA
114366 ACCTTGAATT
Statistics
Matches: 199, Mismatches: 40, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
27 1 0.01
28 19 0.10
29 102 0.51
30 77 0.39
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (28 bp):
TTCCAAAAATTCCATTTTTACCCCCGAA
Found at i:114435 original size:27 final size:28
Alignment explanation
Indices: 114379--114439 Score: 97
Period size: 27 Copynumber: 2.2 Consensus size: 28
114369 TTGAATTTTC
*
114379 CCAAAATTACTATTTTGCCCCCGAGAAT
1 CCAAAATTACCATTTTGCCCCCGAGAAT
*
114407 CCAAAATTACCATTTT-CCCCCGAGTAT
1 CCAAAATTACCATTTTGCCCCCGAGAAT
114434 CCAAAA
1 CCAAAA
114440 GGTCTCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 16 0.52
28 15 0.48
ACGTcount: A:0.34, C:0.31, G:0.08, T:0.26
Consensus pattern (28 bp):
CCAAAATTACCATTTTGCCCCCGAGAAT
Found at i:117331 original size:4 final size:4
Alignment explanation
Indices: 117322--117364 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
117312 CCTAGCAAGG
* *
117322 TACA TACA TACA AACCA TACA TGCA TACA TACA TACA TACA TA
1 TACA TACA TACA TA-CA TACA TACA TACA TACA TACA TACA TA
117365 TATATATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 31 0.91
5 3 0.09
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (4 bp):
TACA
Found at i:127751 original size:32 final size:31
Alignment explanation
Indices: 127690--127752 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
127680 TCATATCTAG
* *
127690 AATGAATCTGAACAATTGTTATTTAAATTCA
1 AATGAATCTAAACAATTGTTATTCAAATTCA
* *
127721 AATGAATCTAAACAATTATTTATTCCAATTCA
1 AATGAATCTAAACAATT-GTTATTCAAATTCA
127753 TTCTTTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (31 bp):
AATGAATCTAAACAATTGTTATTCAAATTCA
Found at i:131304 original size:12 final size:12
Alignment explanation
Indices: 131287--131311 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
131277 AACTTATATT
131287 TTTTATTTTTTC
1 TTTTATTTTTTC
131299 TTTTATTTTTTC
1 TTTTATTTTTTC
131311 T
1 T
131312 GTAATTATTA
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:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTTTC
Found at i:133543 original size:22 final size:22
Alignment explanation
Indices: 133513--133559 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
133503 TTTTGCCTAA
133513 TTTCCTTCTTGGAATTAATGCT
1 TTTCCTTCTTGGAATTAATGCT
*
133535 TTTCTTTCTTGGAATTAATGCT
1 TTTCCTTCTTGGAATTAATGCT
133557 TTT
1 TTT
133560 TTGCCTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.15, G:0.13, T:0.55
Consensus pattern (22 bp):
TTTCCTTCTTGGAATTAATGCT
Found at i:135256 original size:96 final size:97
Alignment explanation
Indices: 135083--135265 Score: 239
Period size: 96 Copynumber: 1.9 Consensus size: 97
135073 AAGGATGTTC
* * *
135083 GATTATCTCGATTTGAGGAAAAGGTTACACCTAGTAAGTTAAGGCACAAATTTTCAGAATCGAAG
1 GATTATCTCAATTTGAAGAAAAGATTACACCTAGTAAGTTAAGGCACAAATTTTCAGAATCGAAG
*
135148 ATAAGGATACATTGCCTCGATTAAGGGTATTT
66 ATAAAGATACATTGCCTCGATTAAGGGTATTT
* * *
135180 GATTATTTCAATTTGAAGAAAA-ATTGCACCTAGTAAGTTAAGGCGCAAATTTTC-GAAACTCGA
1 GATTATCTCAATTTGAAGAAAAGATTACACCTAGTAAGTTAAGGCACAAATTTTCAG-AA-TCGA
*
135243 A-ATAACAGA-ACATTGCCTTGATT
64 AGATAA-AGATACATTGCCTCGATT
135266 TTAAAGTTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
95 1 0.01
96 48 0.64
97 26 0.35
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (97 bp):
GATTATCTCAATTTGAAGAAAAGATTACACCTAGTAAGTTAAGGCACAAATTTTCAGAATCGAAG
ATAAAGATACATTGCCTCGATTAAGGGTATTT
Found at i:135538 original size:27 final size:28
Alignment explanation
Indices: 135485--135547 Score: 92
Period size: 27 Copynumber: 2.2 Consensus size: 28
135475 AAAATGAGAC
*
135485 TTTTCGGATACTCGAGGGTAAAATGGTAA
1 TTTT-GGATACTCGAGGGCAAAATGGTAA
*
135514 TTTTGGATTCTCG-GGGCAAAATGGTAA
1 TTTTGGATACTCGAGGGCAAAATGGTAA
135541 TTTTGGA
1 TTTTGGA
135548 AAATTTAGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 20 0.62
28 8 0.25
29 4 0.12
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.35
Consensus pattern (28 bp):
TTTTGGATACTCGAGGGCAAAATGGTAA
Found at i:135685 original size:59 final size:59
Alignment explanation
Indices: 135622--135792 Score: 158
Period size: 59 Copynumber: 2.9 Consensus size: 59
135612 TTTGAGGTTG
* *
135622 AAAATGGATATTTTGG-AGGTTCGAGGGTAAAAATGGTTTTTTTGGAAGTTTCAAGCG-TA
1 AAAATGGATATTTTGGAAGTTTCG-GGGTAAAAATGGATTTTTTGGAAGTTTC-AGCGTTA
* * *
135681 AAAATAG-TATTTTTGGAAGTTTCGGGGTCAAAAATGGGATTTTTT-GAAGTTT-TGGGTTA
1 AAAATGGATA-TTTTGGAAGTTTCGGGGT-AAAAAT-GGATTTTTTGGAAGTTTCAGCGTTA
* *
135740 AAAATGGGAT-TTTTGGAATTTTCGGGGGTAAAAATGGGA-TTTTTGGAATTTTC
1 AAAAT-GGATATTTTGGAAGTTTC-GGGGTAAAAAT-GGATTTTTTGGAAGTTTC
135793 GGGAACCTCC
Statistics
Matches: 94, Mismatches: 8, Indels: 19
0.78 0.07 0.16
Matches are distributed among these distances:
58 9 0.10
59 51 0.54
60 25 0.27
61 9 0.10
ACGTcount: A:0.29, C:0.04, G:0.28, T:0.39
Consensus pattern (59 bp):
AAAATGGATATTTTGGAAGTTTCGGGGTAAAAATGGATTTTTTGGAAGTTTCAGCGTTA
Found at i:135714 original size:30 final size:29
Alignment explanation
Indices: 135622--135795 Score: 181
Period size: 30 Copynumber: 5.9 Consensus size: 29
135612 TTTGAGGTTG
*
135622 AAAAT-GGATATTTTGG-AGGTTCGAGGGTA
1 AAAATGGGAT-TTTTGGAAGTTTCG-GGGTA
** * *
135651 AAAATGGTTTTTTTGGAAGTTTCAAGCGTA
1 AAAATGGGATTTTTGGAAGTTTC-GGGGTA
* *
135681 AAAATAGTATTTTTGGAAGTTTCGGGGTCA
1 AAAATGGGATTTTTGGAAGTTTCGGGGT-A
* * *
135711 AAAATGGGATTTTTTGAAGTTTTGGGTTA
1 AAAATGGGATTTTTGGAAGTTTCGGGGTA
*
135740 AAAATGGGATTTTTGGAATTTTCGGGGGTA
1 AAAATGGGATTTTTGGAAGTTTC-GGGGTA
*
135770 AAAATGGGATTTTTGGAATTTTCGGG
1 AAAATGGGATTTTTGGAAGTTTCGGG
135796 AACCTCCAAG
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
29 38 0.31
30 84 0.69
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (29 bp):
AAAATGGGATTTTTGGAAGTTTCGGGGTA
Found at i:136865 original size:3 final size:3
Alignment explanation
Indices: 136857--136949 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
136847 TTTTCCTTTT
* * * **
136857 TTA TTA TTAA TGA TTA ATA TTA TTA TTA TTA TTA TTAA TGA GGCA GTTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -TTA -TTA
* * * *
136906 TTA CTTC TTC TTC TTC TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
136950 ACTACTTATG
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
3 66 0.88
4 9 0.12
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:137630 original size:24 final size:23
Alignment explanation
Indices: 137593--137638 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
137583 ATTGGACTTG
*
137593 ATTTAAATAGATTTAAATTTTAA
1 ATTTAAATAAATTTAAATTTTAA
137616 ATTTATAATAAATTTAAATTTTA
1 ATTTA-AATAAATTTAAATTTTA
137639 TGTAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTTAAATAAATTTAAATTTTAA
Found at i:137631 original size:17 final size:17
Alignment explanation
Indices: 137606--137685 Score: 81
Period size: 17 Copynumber: 4.6 Consensus size: 17
137596 TAAATAGATT
137606 TAAATTTTAAATTTATAA
1 TAAA-TTTAAATTTATAA
*
137624 TAAATTTAAATTT-TATG
1 TAAATTTAAATTTATA-A
* * *
137641 TAAATTTAAACTTGTGA
1 TAAATTTAAATTTATAA
* *
137658 TAAATTTAATTTTAAAA
1 TAAATTTAAATTTATAA
137675 TAAATTTAAAT
1 TAAATTTAAAT
137686 CTTTGTTGCG
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
16 2 0.04
17 43 0.86
18 5 0.10
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (17 bp):
TAAATTTAAATTTATAA
Found at i:137649 original size:34 final size:34
Alignment explanation
Indices: 137606--137685 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
137596 TAAATAGATT
**
137606 TAAATTTTAAATTTATAATAAATTTAAATTTT-ATG
1 TAAA-TTTAAATTTATAATAAATTT-AATTTTAAAA
* * *
137641 TAAATTTAAACTTGTGATAAATTTAATTTTAAAA
1 TAAATTTAAATTTATAATAAATTTAATTTTAAAA
137675 TAAATTTAAAT
1 TAAATTTAAAT
137686 CTTTGTTGCG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 6 0.16
34 28 0.74
35 4 0.11
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (34 bp):
TAAATTTAAATTTATAATAAATTTAATTTTAAAA
Found at i:138366 original size:205 final size:205
Alignment explanation
Indices: 138086--138880 Score: 1186
Period size: 205 Copynumber: 3.9 Consensus size: 205
138076 TCCCCGTATT
* * ** * * *
138086 TCATCAGGAATCTAATCCGTTCTATTATTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGG
1 TCATCAGGAAGCTAA-CC-TTTTATTGCTTCGACCTGCTTCTCGGTGTCTCATCCGGAAGCTGGG
** *
138151 GTTCGAAGATTTGCTCGA-ATTTAGCAG-GGGTTTGATTTGGTCTTCTTCTCAGTATCTCATTC-
64 GTTCGAAGATTTGCTC-ACATCGAGC-GTGGGTTTGACTTGGTCTTCTTCTCAGTATCTCA-TCA
* * * * * *
138213 GGAAGATGACCGCGTCGTTTGTTTCAGTTCGCTTCTTTGTATCTCATCAGGAAGACGAATTTGGT
126 GGAAGATGACCGCGTCATTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAAACGAATTTGGT
138278 CCACTTCTACATATC
191 CCACTTCTACATATC
* *
138293 TCATCAAGAAGCTAACCTTTTACTGCTTCGACCTGCTTCTCGGTGTCTCATCCGGAAGCTGGGGT
1 TCATCAGGAAGCTAACCTTTTATTGCTTCGACCTGCTTCTCGGTGTCTCATCCGGAAGCTGGGGT
* *
138358 TCGAAGATTTGCTCACATCGAGCGTGGGTTTGACTTGGTCTTCTTCTCAGTATCTCATCAGAAAT
66 TCGAAGATTTGCTCACATCGAGCGTGGGTTTGACTTGGTCTTCTTCTCAGTATCTCATCAGGAAG
* *
138423 ATGATCGTGTCATTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAAACGAATTTGGTCCACT
131 ATGACCGCGTCATTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAAACGAATTTGGTCCACT
*
138488 TCTTA-GTATC
196 TC-TACATATC
* *
138498 TCATCAGGAAGCTAACCTTTTATTGCTTTGACCTGCTTCTCGGTGTCTCATCCGGAAGTTGGGGT
1 TCATCAGGAAGCTAACCTTTTATTGCTTCGACCTGCTTCTCGGTGTCTCATCCGGAAGCTGGGGT
*
138563 TCGAAGATTTGCTCACATCGAGCGTGGGTTTGACTTGGTCTTCTTCTCAATATCTCATCAGGAAG
66 TCGAAGATTTGCTCACATCGAGCGTGGGTTTGACTTGGTCTTCTTCTCAGTATCTCATCAGGAAG
*
138628 ATGACCGCGTCATTTGTTTCAATTCGCTTCTCTGTACCTCATCAGGAAAACGAATTTGGTCCACT
131 ATGACCGCGTCATTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAAACGAATTTGGTCCACT
138693 TCT-CAGTATC
196 TCTACA-TATC
* * *
138703 TCATCAGGAAGTTAACCTTTTATTGCTTCTACCTGCTTCTTGGTGTCTCATCCGGAAGCTGGGGT
1 TCATCAGGAAGCTAACCTTTTATTGCTTCGACCTGCTTCTCGGTGTCTCATCCGGAAGCTGGGGT
*
138768 TCGAAGATTTTCTCACATCGAGCGTGGGTTTGACTTGGTCTTCTTCTCAGTATCTCATCAGGAAG
66 TCGAAGATTTGCTCACATCGAGCGTGGGTTTGACTTGGTCTTCTTCTCAGTATCTCATCAGGAAG
* * *
138833 ATGACCGTGTCGTTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAA
131 ATGACCGCGTCATTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAA
138881 GCTAACCATT
Statistics
Matches: 537, Mismatches: 45, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
204 5 0.01
205 515 0.96
206 4 0.01
207 13 0.02
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (205 bp):
TCATCAGGAAGCTAACCTTTTATTGCTTCGACCTGCTTCTCGGTGTCTCATCCGGAAGCTGGGGT
TCGAAGATTTGCTCACATCGAGCGTGGGTTTGACTTGGTCTTCTTCTCAGTATCTCATCAGGAAG
ATGACCGCGTCATTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAAACGAATTTGGTCCACT
TCTACATATC
Found at i:138983 original size:169 final size:170
Alignment explanation
Indices: 138691--139011 Score: 398
Period size: 169 Copynumber: 1.9 Consensus size: 170
138681 ATTTGGTCCA
* * ** * *
138691 CTTCTCAGTATCTCATCAGGAAGTTAACCTTTTATTGCTTCTACCTGCTTCTTGGTGTCTCATCC
1 CTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCA
* * * * * *
138756 GGAAGCTGGGGTTCGAAGATTTTCTCACATCGAGCGTGGGTTTGACTTGGTCTTCTTC-TC-AGT
66 GGAAGCTGGGGTTCAAAGATTTGCTCACATCAAGCCTGCGTTTCACTTGGTCTTCTTCTTCTAGT
138819 ATCTCATCAGGAAGATGACCGTGTCGTTTGTTTCAATCCG
131 ATCTCATCAGGAAGATGACCGTGTCGTTTGTTTCAATCCG
* *
138859 CTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACTTGCTTCTCAGTATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGCTAACC-TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * * *
138924 AGGAAGCTGGGGTTCAAAGATTTGCTCGCTTTAAGCCT-CGTTTCA-TTGATTTGTTCTTCTTCT
65 AGGAAGCTGGGGTTCAAAGATTTGCTCACATCAAGCCTGCGTTTCACTTG--GTCTTCTTCTTC-
*
138987 TAGTATCTTATCAGGAAGATGACCG
127 TAGTATCTCATCAGGAAGATGACCG
139012 CATCGCTGTT
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
167 3 0.02
168 32 0.25
169 67 0.53
170 2 0.02
172 23 0.18
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (170 bp):
CTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCA
GGAAGCTGGGGTTCAAAGATTTGCTCACATCAAGCCTGCGTTTCACTTGGTCTTCTTCTTCTAGT
ATCTCATCAGGAAGATGACCGTGTCGTTTGTTTCAATCCG
Found at i:139847 original size:31 final size:31
Alignment explanation
Indices: 139788--139852 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
139778 CAGGATGCCC
* *
139788 TTTGCGGGTTTTCATCCTGAACCCCTTTT-T
1 TTTGCGAGTTTTCATCCTCAACCCCTTTTGT
139818 TTTGCGAGTTTTCAT-CTCAATTCCCCTTTTGT
1 TTTGCGAGTTTTCATCCTCAA--CCCCTTTTGT
139850 TTT
1 TTT
139853 TAGGCGAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 4 0.13
30 14 0.47
31 8 0.27
32 4 0.13
ACGTcount: A:0.11, C:0.25, G:0.14, T:0.51
Consensus pattern (31 bp):
TTTGCGAGTTTTCATCCTCAACCCCTTTTGT
Found at i:142477 original size:19 final size:19
Alignment explanation
Indices: 142453--142492 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
142443 ATGTTCTTCC
142453 TCCGTTTGGGATTTCGCAA
1 TCCGTTTGGGATTTCGCAA
142472 TCCGTTTGGGATTTCGCAA
1 TCCGTTTGGGATTTCGCAA
142491 TC
1 TC
142493 ATGTCATCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.38
Consensus pattern (19 bp):
TCCGTTTGGGATTTCGCAA
Found at i:144698 original size:221 final size:221
Alignment explanation
Indices: 144315--144758 Score: 852
Period size: 221 Copynumber: 2.0 Consensus size: 221
144305 GCCCCAGCTG
144315 AGTGGATCCACGATCTTCCCAGCAGATAGTTATAAGTGGGCCTGATATCCATCACTAGAAAATCC
1 AGTGGATCCACGATCTTCCCAGCAGATAGTTATAAGTGGGCCTGATATCCATCACTAGAAAATCC
*
144380 ACATCGTATGTATTCGGCCCAATTTGAAGAGGTATTTCAATCTTTCCCATTACCTTCCTTTCTAT
66 ACATCGTATGTATTCGGCCCAATTTGAAGAGGTATTTCAATCTTTCCCATCACCTTCCTTTCTAT
144445 CCCGTCAAATGCTCTCACTATGTTATTACATCCTTTCATGTGAGAGCTATCAATTGGCAATCTTT
131 CCCGTCAAATGCTCTCACTATGTTATTACATCCTTTCATGTGAGAGCTATCAATTGGCAATCTTT
*
144510 GCAGTGTAGCTAATGGTAGCACATTC
196 GCAGTGTAGCTAACGGTAGCACATTC
*
144536 AGTGGATCCACGGTCTTCCCAGCAGATAGTTATAAGTGGGCCTGATATCCATCACTAGAAAATCC
1 AGTGGATCCACGATCTTCCCAGCAGATAGTTATAAGTGGGCCTGATATCCATCACTAGAAAATCC
*
144601 ACATCGTATGTATTCGGCCCAATTTGAAGAGGTATTTCAATCTTTCCCGTCACCTTCCTTTCTAT
66 ACATCGTATGTATTCGGCCCAATTTGAAGAGGTATTTCAATCTTTCCCATCACCTTCCTTTCTAT
144666 CCCGTCAAATGCTCTCACTATGTTATTACATCCTTTCATGTGAGAGCTATCAATTGGCAATCTTT
131 CCCGTCAAATGCTCTCACTATGTTATTACATCCTTTCATGTGAGAGCTATCAATTGGCAATCTTT
144731 GCAGTGTAGCTAACGGTAGCACATTC
196 GCAGTGTAGCTAACGGTAGCACATTC
144757 AG
1 AG
144759 GGCTGAACCA
Statistics
Matches: 219, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
221 219 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (221 bp):
AGTGGATCCACGATCTTCCCAGCAGATAGTTATAAGTGGGCCTGATATCCATCACTAGAAAATCC
ACATCGTATGTATTCGGCCCAATTTGAAGAGGTATTTCAATCTTTCCCATCACCTTCCTTTCTAT
CCCGTCAAATGCTCTCACTATGTTATTACATCCTTTCATGTGAGAGCTATCAATTGGCAATCTTT
GCAGTGTAGCTAACGGTAGCACATTC
Found at i:150920 original size:24 final size:24
Alignment explanation
Indices: 150888--150937 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
150878 TAACGCGAAG
150888 TAAGATAAACAAGGAGGTAAATGA
1 TAAGATAAACAAGGAGGTAAATGA
*
150912 TAAGATAAATAAGGAGGTAAATGA
1 TAAGATAAACAAGGAGGTAAATGA
150936 TA
1 TA
150938 TGCAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.02, G:0.24, T:0.20
Consensus pattern (24 bp):
TAAGATAAACAAGGAGGTAAATGA
Found at i:151200 original size:29 final size:29
Alignment explanation
Indices: 151120--151221 Score: 102
Period size: 29 Copynumber: 3.5 Consensus size: 29
151110 AAGGTTTAAA
* **
151120 AAAATGG-AATTTTTAGACATTCGAGGTT
1 AAAATGGTAATTTTGAGAGGTTCGAGGTT
* *
151148 AAAAGGGTAATTTTGAGAGTTTCGAGGTT
1 AAAATGGTAATTTTGAGAGGTTCGAGGTT
151177 GAAAATGG-AGATTTTG-GAGGTTCGAGGGTT
1 -AAAATGGTA-ATTTTGAGAGGTTCGA-GGTT
*
151207 AAAATGGTATTTTTG
1 AAAATGGTAATTTTG
151222 GAAGTTTTGA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
28 6 0.10
29 39 0.63
30 17 0.27
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.35
Consensus pattern (29 bp):
AAAATGGTAATTTTGAGAGGTTCGAGGTT
Found at i:151222 original size:29 final size:29
Alignment explanation
Indices: 151120--151401 Score: 220
Period size: 30 Copynumber: 9.6 Consensus size: 29
151110 AAGGTTTAAA
* **
151120 AAAATGGAATTTTTAGACATTCGA-GGTT
1 AAAATGGAATTTTTGGAGTTTCGAGGGTT
*
151148 AAAAGGGTAA-TTTTGAGAGTTTCGA-GGTT
1 AAAATGG-AATTTTTG-GAGTTTCGAGGGTT
*
151177 GAAAATGGAGA-TTTTGGAGGTTCGAGGGTT
1 -AAAATGGA-ATTTTTGGAGTTTCGAGGGTT
* * *
151207 AAAATGGTATTTTTGGAAGTTTTGAGGGTA
1 AAAATGGAATTTTTGG-AGTTTCGAGGGTT
* *
151237 AAAATGGTATTTTTGGAAGTTTTG-GGGTT
1 AAAATGGAATTTTTGG-AGTTTCGAGGGTT
* *
151266 AAAAATGGGATTTTTGGAAGTTT-TAGGGTT
1 -AAAATGGAATTTTTGG-AGTTTCGAGGGTT
*
151296 AAAAATGGAATTTTTGGAAGTTTCG-GGGTA
1 -AAAATGGAATTTTTGG-AGTTTCGAGGGTT
* * * *
151326 AAAATGGAATTTTAGAAGTTT-TAAGGTT
1 AAAATGGAATTTTTGGAGTTTCGAGGGTT
* * *
151354 AAAAATGGGATTTTTTGAAGTTTCGAGGGTA
1 -AAAAT-GGAATTTTTGGAGTTTCGAGGGTT
151385 AAAATGGAATTTTTGGA
1 AAAATGGAATTTTTGGA
151402 CAGTTTGAAA
Statistics
Matches: 212, Mismatches: 28, Indels: 27
0.79 0.10 0.10
Matches are distributed among these distances:
28 19 0.09
29 68 0.32
30 121 0.57
31 4 0.02
ACGTcount: A:0.32, C:0.02, G:0.29, T:0.37
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAGTTTCGAGGGTT
Found at i:151228 original size:59 final size:60
Alignment explanation
Indices: 151119--151407 Score: 292
Period size: 59 Copynumber: 4.9 Consensus size: 60
151109 TAAGGTTTAA
* * * *
151119 AAAAATGGAATTTTTAGACA--TTCGA-GGTTAAAAGGGTAATTTT-GAGAGTTTCGAGGTT
1 AAAAATGGAATTTTTGGA-AGTTTCGAGGGTTAAAATGGTATTTTTGGA-AGTTTTGAGGTT
* * *
151177 GAAAATGGAGA-TTTTGG-AGGTTCGAGGGTTAAAATGGTATTTTTGGAAGTTTTGAGGGT
1 AAAAATGGA-ATTTTTGGAAGTTTCGAGGGTTAAAATGGTATTTTTGGAAGTTTTGAGGTT
* * *
151236 AAAAATGGTATTTTTGGAAGTTTTG-GGGTTAAAAATGGGATTTTTGGAAGTTTT-AGGGTT
1 AAAAATGGAATTTTTGGAAGTTTCGAGGGTT-AAAATGGTATTTTTGGAAGTTTTGA-GGTT
* * * *
151296 AAAAATGGAATTTTTGGAAGTTTCG-GGGTAAAAATGG-AATTTTAGAAGTTTTAAGGTT
1 AAAAATGGAATTTTTGGAAGTTTCGAGGGTTAAAATGGTATTTTTGGAAGTTTTGAGGTT
* * * *
151354 AAAAATGGGATTTTTTGAAGTTTCGAGGGTAAAAATGGAATTTTTGGACAGTTT
1 AAAAATGGAATTTTTGGAAGTTTCGAGGGTTAAAATGGTATTTTTGGA-AGTTT
151408 GAAAACCATG
Statistics
Matches: 197, Mismatches: 21, Indels: 23
0.82 0.09 0.10
Matches are distributed among these distances:
56 1 0.01
58 59 0.30
59 66 0.34
60 66 0.34
61 5 0.03
ACGTcount: A:0.32, C:0.02, G:0.29, T:0.37
Consensus pattern (60 bp):
AAAAATGGAATTTTTGGAAGTTTCGAGGGTTAAAATGGTATTTTTGGAAGTTTTGAGGTT
Found at i:151241 original size:30 final size:30
Alignment explanation
Indices: 151178--151407 Score: 265
Period size: 30 Copynumber: 7.7 Consensus size: 30
151168 TTCGAGGTTG
* * *
151178 AAAATGGAGA-TTTTGG-AGGTTCGAGGGTT
1 AAAATGGA-ATTTTTGGAAGTTTTGAGGGTA
*
151207 AAAATGGTATTTTTGGAAGTTTTGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTTGAGGGTA
*
151237 AAAATGGTATTTTTGGAAGTTTTG-GGGTTA
1 AAAATGGAATTTTTGGAAGTTTTGAGGG-TA
*
151267 AAAATGGGATTTTTGGAAGTTTT-AGGGTTA
1 AAAATGGAATTTTTGGAAGTTTTGAGGG-TA
*
151297 AAAATGGAATTTTTGGAAGTTTCG-GGGTA
1 AAAATGGAATTTTTGGAAGTTTTGAGGGTA
* * *
151326 AAAATGGAA-TTTTAGAAGTTTTAAGGTTA
1 AAAATGGAATTTTTGGAAGTTTTGAGGGTA
* * *
151355 AAAATGGGATTTTTTGAAGTTTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTTGAGGGTA
151385 AAAATGGAATTTTTGGACAGTTT
1 AAAATGGAATTTTTGGA-AGTTT
151408 GAAAACCATG
Statistics
Matches: 175, Mismatches: 18, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
28 12 0.07
29 39 0.22
30 119 0.68
31 5 0.03
ACGTcount: A:0.31, C:0.02, G:0.29, T:0.38
Consensus pattern (30 bp):
AAAATGGAATTTTTGGAAGTTTTGAGGGTA
Found at i:151426 original size:88 final size:85
Alignment explanation
Indices: 151172--151408 Score: 246
Period size: 88 Copynumber: 2.7 Consensus size: 85
151162 GAGAGTTTCG
* * * *
151172 AGGTTGAAAATGGAGA-TTTTGGAGGTTCGAGGGTT-AAAATGGTATTTTTGGAAGTTTTGAGGG
1 AGGTTAAAAATGG-GATTTTTGGAAGTTTGAGGGTTAAAAATGGAATTTTTGGAAG-TTT---GG
* * * *
151235 TAAAAATGGTATTTTTGGAAGTTTTG
61 TAAAAAT-GAAATTTTAGAAGTTTTA
* *
151261 GGGTTAAAAATGGGATTTTTGGAAGTTTTAGGGTTAAAAATGGAATTTTTGGAAGTTTCGGGGTA
1 AGGTTAAAAATGGGATTTTTGGAAGTTTGAGGGTTAAAAATGGAATTTTTGGAAGTTT---GGTA
*
151326 AAAATGGAATTTTAGAAGTTTTA
63 AAAATGAAATTTTAGAAGTTTTA
*
151349 AGGTTAAAAATGGGATTTTTTGAAGTTTCGAGGG-TAAAAATGGAATTTTTGGACAGTTTG
1 AGGTTAAAAATGGGATTTTTGGAAGTTT-GAGGGTTAAAAATGGAATTTTTGGA-AGTTTG
151409 AAAACCATGA
Statistics
Matches: 129, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
86 1 0.01
88 61 0.47
89 49 0.38
90 18 0.14
ACGTcount: A:0.31, C:0.02, G:0.30, T:0.38
Consensus pattern (85 bp):
AGGTTAAAAATGGGATTTTTGGAAGTTTGAGGGTTAAAAATGGAATTTTTGGAAGTTTGGTAAAA
ATGAAATTTTAGAAGTTTTA
Found at i:152229 original size:3 final size:3
Alignment explanation
Indices: 152221--152313 Score: 96
Period size: 3 Copynumber: 29.3 Consensus size: 3
152211 TTTTCCTTTT
*
152221 TTA TTA TTAA TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
152267 TTA TTAA TGA GGCA GTTA TTA CTTA TTA TTA TTA TTA TTA TTT TTA T
1 TTA TT-A TTA -TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T
152314 ACTACTTATA
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
3 67 0.87
4 10 0.13
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:152989 original size:17 final size:16
Alignment explanation
Indices: 152957--153025 Score: 59
Period size: 17 Copynumber: 4.1 Consensus size: 16
152947 ATTAGACTTG
* *
152957 ATTTAAATAGATTTAA
1 ATTTGAATAAATTTAA
152973 ATTTGAAGTAAATTTAA
1 ATTTGAA-TAAATTTAA
152990 ACTTATG-ATAAATTTAA
1 A-TT-TGAATAAATTTAA
* *
153007 TTTTAAAATAAATTTAA
1 ATTT-GAATAAATTTAA
153024 AT
1 AT
153026 CTTTGTTGGG
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
15 1 0.02
16 8 0.19
17 29 0.67
18 3 0.07
19 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTTGAATAAATTTAA
Found at i:154794 original size:19 final size:19
Alignment explanation
Indices: 154770--154806 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
154760 TTATACCAAG
154770 AAAAGATGTTTTAATTAAT
1 AAAAGATGTTTTAATTAAT
154789 AAAAGATGTTTTAATTAA
1 AAAAGATGTTTTAATTAA
154807 CCAGGCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.41
Consensus pattern (19 bp):
AAAAGATGTTTTAATTAAT
Found at i:163890 original size:19 final size:20
Alignment explanation
Indices: 163826--163899 Score: 75
Period size: 19 Copynumber: 3.9 Consensus size: 20
163816 CTTTTCGACA
** *
163826 AAAAATTCAAGGTAATTTTC
1 AAAAATTCAAAATAATTTTT
*
163846 AAAAATTCAAAATAAATTTT
1 AAAAATTCAAAATAATTTTT
*
163866 -AGAATTCAAAAT-ATTTTT
1 AAAAATTCAAAATAATTTTT
163884 AAAAATT-AAAA-AATTT
1 AAAAATTCAAAATAATTT
163900 ATATATTTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
18 13 0.29
19 16 0.36
20 16 0.36
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.36
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTT
Found at i:164692 original size:12 final size:12
Alignment explanation
Indices: 164648--164694 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
164638 AATTGAGCTA
*
164648 TTAAATT-AATA
1 TTAAATTAAATT
164659 TTAAATTAAATT
1 TTAAATTAAATT
164671 TT-AATATAAATT
1 TTAAAT-TAAATT
164683 TTAAATTAAATT
1 TTAAATTAAATT
164695 AAAAAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 10 0.31
12 19 0.59
13 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TTAAATTAAATT
Found at i:164849 original size:22 final size:21
Alignment explanation
Indices: 164824--164869 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
164814 TGATTTTATG
164824 AATTTTATAAATG-GTTTTTTTT
1 AATTTT-TAAA-GAGTTTTTTTT
164846 AA-TTTTAAAGAGTTTTTTTT
1 AATTTTTAAAGAGTTTTTTTT
164866 AATT
1 AATT
164870 CAATTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 1 0.05
20 15 0.68
21 4 0.18
22 2 0.09
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (21 bp):
AATTTTTAAAGAGTTTTTTTT
Found at i:166145 original size:13 final size:15
Alignment explanation
Indices: 166119--166151 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
166109 CAGAACTTAT
166119 AATAAAATTATTTA-
1 AATAAAATTATTTAC
166133 AATAAAA-TATTTAC
1 AATAAAATTATTTAC
166147 AATAA
1 AATAA
166152 TATTCTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAAAATTATTTAC
Found at i:175356 original size:21 final size:22
Alignment explanation
Indices: 175332--175375 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
175322 AGAGGGTCAA
175332 AACA-TGAAAGACACTAAAATT
1 AACATTGAAAGACACTAAAATT
*
175353 AACATTTGAGAGACACTAAAATT
1 AACA-TTGAAAGACACTAAAATT
175376 GAAGTTATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
23 16 0.80
ACGTcount: A:0.52, C:0.14, G:0.11, T:0.23
Consensus pattern (22 bp):
AACATTGAAAGACACTAAAATT
Found at i:178810 original size:48 final size:48
Alignment explanation
Indices: 178758--179224 Score: 376
Period size: 49 Copynumber: 9.5 Consensus size: 48
178748 AGTACTTCAG
* * *
178758 AGACACAAGAGAAAGATCTAAGCCGCAACGACGGAACCAATACCACGA
1 AGACACAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGA
* * * *
178806 AGACATGAAGAGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCATGA
1 AGACA-CAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGA
* * * * * * * *
178855 AGACATAAAGGGAAA-AGTTTAAGTCGTAATGGC-GAACCTAGTACCTC-A
1 AGACA-CAAGGGAAAGA-TCTAAGCCGCAACGACGGATCC-AGTACCACGA
** *
178903 GAGACGTGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGA
1 -AGAC-ACAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGA
* * * *
178953 AGACACAGGGGAAAGATCTAAGCCGCAAC-AGCGGATCAATTACAACGA
1 AGACACAAGGGAAAGATCTAAGCCGCAACGA-CGGATCCAGTACCACGA
* * *
179001 AGATACAAGGGAAAGATCTAAGCTGCAACGACGGATCCAGTACCTCTGA
1 AGACACAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCAC-GA
* * * * *
179050 AGACACGAAAGGGAAAGGTTTAAGTCGCAATG--GTGAACCTAGTATCTCA-G-
1 AGACAC--AAGGGAAAGATCTAAGCCGCAACGACG-GATCC-AGTA-C-CACGA
179100 AGACATCAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGA
1 AGACA-CAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGA
* * *
179149 AGACACAAGGGAAAGGGAAAGATCTAAGTCGCAAC-AGCTGATCCAATACCACGA
1 AGACAC------AAGGGAAAGATCTAAGCCGCAACGA-CGGATCCAGTACCACGA
179203 AGACACAAGGGAAAGATCTAAG
1 AGACACAAGGGAAAGATCTAAG
179225 TTGTAACGAC
Statistics
Matches: 338, Mismatches: 52, Indels: 58
0.75 0.12 0.13
Matches are distributed among these distances:
47 2 0.01
48 103 0.30
49 142 0.42
50 19 0.06
51 26 0.08
52 1 0.00
53 2 0.01
54 43 0.13
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.13
Consensus pattern (48 bp):
AGACACAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGA
Found at i:179003 original size:146 final size:147
Alignment explanation
Indices: 178706--179162 Score: 393
Period size: 146 Copynumber: 3.1 Consensus size: 147
178696 TGAGTACCAT
* * *
178706 GAAGACACGAAAGGGAAAGGTATAAGTTGCAATGACGAACCTAGTACTTCAGAGACACAAGAGAA
1 GAAGACACGAAAGGGAAAAGTATAAGTCGCAATGACGAACCTAGTACCTCAGAGACACAAGAGAA
*
178771 AGATCTAAGCCGCAACGACGGAACCAATACCACGAAGACATGAAGAGAAAGATCTAAGCCGCAAC
66 AGATCTAAGCCGCAACGACGGAACCAATACCACGAAGACATCAAGAGAAAGATCTAAGCCGCAAC
* * * *
178836 GGCGGATCCAGTACCAT
131 AGCGGATCAAGTACAAC
* * * * ** *
178853 GAAGACA-TAAAGGGAAAAGTTTAAGTCGTAATGGCGAACCTAGTACCTCAGAGACGTGAAGGGA
1 GAAGACACGAAAGGGAAAAGTATAAGTCGCAATGACGAACCTAGTACCTCAGAGAC-ACAAGAGA
* * * * *
178917 AAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACA-CAGGGGAAAGATCTAAGCCGCAA
65 AAGATCTAAGCCGCAACGACGGAACCAATACCACGAAGACATCAAGAGAAAGATCTAAGCCGCAA
*
178981 CAGCGGATCAATTACAAC
130 CAGCGGATCAAGTACAAC
* * * * *
178999 GAAGATAC--AAGGG-AAAGATCTAAG-CTGCAACGACGGATCC-AGTACCTCTGAAGACACGAA
1 GAAGACACGAAAGGGAAAAG-TATAAGTC-GCAATGAC-GAACCTAGTACCTCAG-AGACAC--A
* * * * * * *
179059 AGGGAAAGGTTTAAGTCGCAATG--GTGAACCTAGTATCTCA-G-AGACATCAAGGGAAAGATCT
60 AGAGAAAGATCTAAGCCGCAACGACG-GAACC-AATA-C-CACGAAGACATCAAGAGAAAGATCT
* *
179120 AAGCCGCAAC-GACGGATCCAGTACCAC
121 AAGCCGCAACAG-CGGATCAAGTACAAC
179147 GAAGACAC--AAGGGAAA
1 GAAGACACGAAAGGGAAA
179163 GGGAAAGATC
Statistics
Matches: 255, Mismatches: 40, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
144 5 0.02
145 25 0.10
146 92 0.36
147 80 0.31
148 49 0.19
149 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.13
Consensus pattern (147 bp):
GAAGACACGAAAGGGAAAAGTATAAGTCGCAATGACGAACCTAGTACCTCAGAGACACAAGAGAA
AGATCTAAGCCGCAACGACGGAACCAATACCACGAAGACATCAAGAGAAAGATCTAAGCCGCAAC
AGCGGATCAAGTACAAC
Found at i:179114 original size:196 final size:193
Alignment explanation
Indices: 178758--179235 Score: 634
Period size: 196 Copynumber: 2.4 Consensus size: 193
178748 AGTACTTCAG
* * * * *
178758 AGACACAAGAGAAAGATCTAAGCCGCAAC-GACGGAACCAATACCACGAAGACATGAAGAGAAAG
1 AGACACAGGGGAAAGATCTAAGCCGCAACAG-CGG-ATCAATACCACGAAGACA-CAAGGGAAAG
* * * *
178822 ATCTAAGCCGCAACGGCGGATCCAGTACCATGAAGACATAAAGGGAAAAGTTTAAGTCGTAATGG
63 ATCTAAGCTGCAACGACGGATCCAGTACCATGAAGACAGAAAGGGAAAAGTTTAAGTCGCAATGG
* * *
178887 CGAACCTAGTACCTCAGAGACGTGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACG
128 CGAACCTAGTACCTCAGAGACATCAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACG
178952 A
193 A
* *
178953 AGACACAGGGGAAAGATCTAAGCCGCAACAGCGGATCAATTACAACGAAGATACAAGGGAAAGAT
1 AGACACAGGGGAAAGATCTAAGCCGCAACAGCGGATCAA-TACCACGAAGACACAAGGGAAAGAT
* *
179018 CTAAGCTGCAACGACGGATCCAGTACCTCTGAAGACACGAAAGGGAAAGGTTTAAGTCGCAATGG
65 CTAAGCTGCAACGACGGATCCAGTACC-ATGAAGACA-GAAAGGGAAAAGTTTAAGTCGCAATGG
* *
179083 TGAACCTAGTATCTCAGAGACATCAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACG
128 CGAACCTAGTACCTCAGAGACATCAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACG
179148 A
193 A
* *
179149 AGACACAAGGGAAAGGGAAAGATCTAAGTCGCAACAGCTGATCCAATACCACGAAGACACAAGGG
1 AGACAC-A--G---GGGAAAGATCTAAGCCGCAACAGCGGAT-CAATACCACGAAGACACAAGGG
* *
179214 AAAGATCTAAGTTGTAACGACG
59 AAAGATCTAAGCTGCAACGACG
179236 AACCTTATAC
Statistics
Matches: 248, Mismatches: 24, Indels: 15
0.86 0.08 0.05
Matches are distributed among these distances:
194 39 0.16
195 49 0.20
196 92 0.37
197 1 0.00
199 1 0.00
202 63 0.25
203 3 0.01
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.13
Consensus pattern (193 bp):
AGACACAGGGGAAAGATCTAAGCCGCAACAGCGGATCAATACCACGAAGACACAAGGGAAAGATC
TAAGCTGCAACGACGGATCCAGTACCATGAAGACAGAAAGGGAAAAGTTTAAGTCGCAATGGCGA
ACCTAGTACCTCAGAGACATCAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGA
Found at i:179192 original size:54 final size:54
Alignment explanation
Indices: 178911--179217 Score: 189
Period size: 48 Copynumber: 6.1 Consensus size: 54
178901 CAGAGACGTG
* *
178911 AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACAC-A--G-
1 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAATACCACGAAGACACAAGGGA
* *
178961 --GGGAAAGATCTAAGCCGCAAC-AGCGGAT-CAATTACAACGAAGATAC------
1 AAGGGAAAGATCTAAGCCGCAACGA-CGGATCCAA-TACCACGAAGACACAAGGGA
* * *
179007 AAGGGAAAGATCTAAGCTGCAACGACGGATCCAGTACCTCTGAAGACAC----GA
1 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAATACCAC-GAAGACACAAGGGA
* * * * * * * * * **
179058 AAGGGAAAGGTTTAAGTCGCAATG--GTGAACCTAGTATCTC--AGAGAC-A--TC
1 AAGGGAAAGATCTAAGCCGCAACGACG-GATCC-AATACCACGAAGACACAAGGGA
*
179107 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGAAGACACAAGGGA
1 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAATACCACGAAGACACAAGGGA
* *
179161 AAGGGAAAGATCTAAGTCGCAAC-AGCTGATCCAATACCACGAAGACACAAGGGA
1 AAGGGAAAGATCTAAGCCGCAACGA-CGGATCCAATACCACGAAGACACAAGGGA
179215 AAG
1 AAG
179218 ATCTAAGTTG
Statistics
Matches: 205, Mismatches: 32, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
47 2 0.01
48 72 0.35
49 37 0.18
50 8 0.04
51 32 0.16
52 1 0.00
53 1 0.00
54 52 0.25
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.12
Consensus pattern (54 bp):
AAGGGAAAGATCTAAGCCGCAACGACGGATCCAATACCACGAAGACACAAGGGA
Found at i:179290 original size:151 final size:153
Alignment explanation
Indices: 179007--179302 Score: 341
Period size: 151 Copynumber: 1.9 Consensus size: 153
178997 ACGAAGATAC
* * * *
179007 AAGGGAAAGATCTAAGCTGCAACGACGGATCCAGTACCTCTGAAGACACGAAAGGGAAAGGTTTA
1 AAGGGAAAGATCTAAGCTGCAACGACGGATCCAATACCACTGAAGACAC-AAAGGGAAAGATCTA
* ** * * *
179072 AGTCGCAATGGTGAACCTAGTATCTCAGAGACATCAAGGGAAAGATCTAAGCCGCAACGACGGAT
65 AGTCGCAACGACGAACCTAGTACCTCAGAGACATAAAGGGAAAGATCTAAGCCGCAACGACGAAT
*
179137 CCAGTACCACGAAGACACAAGGGA
130 CCAGTACCACAAAGACACAAGGGA
*
179161 AAGGGAAAGATCTAAG-TCGCAAC-AGCTGATCCAATACCAC-GAAGACAC-AAGGGAAAGATCT
1 AAGGGAAAGATCTAAGCT-GCAACGA-CGGATCCAATACCACTGAAGACACAAAGGGAAAGATCT
* * * * * * * *
179222 AAGTTGTAACGACGAACCTTA-TACCTCAGAGACATAAAGGGAAATATTTAAGTCGTAGCGGCGA
64 AAGTCGCAACGACGAACC-TAGTACCTCAGAGACATAAAGGGAAAGATCTAAGCCGCAACGACGA
179286 ATCCAGTACCACAAAGA
128 ATCCAGTACCACAAAGA
179303 TTTGAAGGGA
Statistics
Matches: 119, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
151 74 0.62
152 2 0.02
153 10 0.08
154 33 0.28
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (153 bp):
AAGGGAAAGATCTAAGCTGCAACGACGGATCCAATACCACTGAAGACACAAAGGGAAAGATCTAA
GTCGCAACGACGAACCTAGTACCTCAGAGACATAAAGGGAAAGATCTAAGCCGCAACGACGAATC
CAGTACCACAAAGACACAAGGGA
Found at i:179772 original size:39 final size:39
Alignment explanation
Indices: 179724--179945 Score: 157
Period size: 39 Copynumber: 5.7 Consensus size: 39
179714 CAGCCATTTG
* * * *
179724 ATCTTTTACCTCGAGCTTGGGGCAGATCATCGTCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAACCA
* * *
179763 ATCTCTTACCCCGAGCCTGGGGTAGAT--TGA--AGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAACCA
* *
179798 TTTGATCTTTTACCCCGAGCTTGGGGCAGATCATCATCAACCA
1 ----ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAACCA
* * * * ** *
179841 ATCTCTTACCCCGAGCCAGGGGCAAATTA-CAACCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATC-ATCAACCA
* * * *
179880 ATTTCTTACCCCGAGCTTGAGGCAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAACCA
* * *
179919 ATCTCCTACCTCGAGCCTGAGGCAGAT
1 ATCTCTTACCCCGAGCCTGGGGCAGAT
179946 TGTAATTATC
Statistics
Matches: 138, Mismatches: 35, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
35 4 0.03
37 1 0.01
38 1 0.01
39 125 0.91
40 1 0.01
41 2 0.01
43 4 0.03
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAACCA
Found at i:179807 original size:78 final size:79
Alignment explanation
Indices: 179714--179947 Score: 330
Period size: 78 Copynumber: 3.0 Consensus size: 79
179704 GTGCAAAATG
* *
179714 CAGCCATTTGATCTTTTACCTCGAGCTTGGGGCAGATCATCGTCAACCAATCTCTTACCCCGAGC
1 CAGCCATTTGATCTTTTACCCCGAGCTTGGGGCAGATCATCATCAACCAATCTCTTACCCCGAGC
*
179779 CTGGGGTAGATTGA
66 CTGGGGCAGATTGA
179793 -AGCCATTTGATCTTTTACCCCGAGCTTGGGGCAGATCATCATCAACCAATCTCTTACCCCGAGC
1 CAGCCATTTGATCTTTTACCCCGAGCTTGGGGCAGATCATCATCAACCAATCTCTTACCCCGAGC
* *
179857 CAGGGGCAAATT-A
66 CTGGGGCAGATTGA
* * * * * *
179870 CAACCATTCGAT-TTCTTACCCCGAGCTTGAGGCAGATCACCATCAACCAATCTCCTACCTCGAG
1 CAGCCATTTGATCTT-TTACCCCGAGCTTGGGGCAGATCATCATCAACCAATCTCTTACCCCGAG
*
179934 CCTGAGGCAGATTG
65 CCTGGGGCAGATTG
179948 TAATTATCCA
Statistics
Matches: 138, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
77 3 0.02
78 135 0.98
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (79 bp):
CAGCCATTTGATCTTTTACCCCGAGCTTGGGGCAGATCATCATCAACCAATCTCTTACCCCGAGC
CTGGGGCAGATTGA
Found at i:180384 original size:6 final size:6
Alignment explanation
Indices: 180365--180446 Score: 59
Period size: 6 Copynumber: 14.5 Consensus size: 6
180355 TTTGATTTTC
* **
180365 AAATTT ATATTTT AAATTT AAATTT -GTTTT AAATTT --ATTT AAATTT
1 AAATTT A-AATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
** *
180411 AAATTT -GTTTT AAATTT AAATTT --AGTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAA
180447 ATGGTTTTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
4 7 0.12
5 6 0.11
6 39 0.68
7 5 0.09
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (6 bp):
AAATTT
Found at i:180396 original size:17 final size:17
Alignment explanation
Indices: 180374--180457 Score: 78
Period size: 17 Copynumber: 5.4 Consensus size: 17
180364 CAAATTTATA
180374 TTTTAAATTTAAATTTG
1 TTTTAAATTTAAATTTG
180391 TTTTAAATTT--A----
1 TTTTAAATTTAAATTTG
180402 -TTTAAATTTAAATTTG
1 TTTTAAATTTAAATTTG
180418 TTTTAAATTTAAATTTAG
1 TTTTAAATTTAAATTT-G
* *
180436 --TTAAATTTAAAATGG
1 TTTTAAATTTAAATTTG
180451 TTTTAAA
1 TTTTAAA
180458 CTTGAAATTA
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
10 9 0.16
12 1 0.02
15 2 0.04
16 12 0.22
17 30 0.55
18 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTTAAATTTAAATTTG
Found at i:180405 original size:27 final size:27
Alignment explanation
Indices: 180375--180428 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
180365 AAATTTATAT
180375 TTTAAATTTAAATTTGTTTTAAATTTA
1 TTTAAATTTAAATTTGTTTTAAATTTA
180402 TTTAAATTTAAATTTGTTTTAAATTTA
1 TTTAAATTTAAATTTGTTTTAAATTTA
180429 AATTTAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (27 bp):
TTTAAATTTAAATTTGTTTTAAATTTA
Found at i:180413 original size:16 final size:16
Alignment explanation
Indices: 180392--180446 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
180382 TTAAATTTGT
180392 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
*
180408 TTTAAATTTGTTTTAAA
1 TTTAAATTT-ATTTAAA
*
180425 TTTAAATTTAGTTAAA
1 TTTAAATTTATTTAAA
180441 TTTAAA
1 TTTAAA
180447 ATGGTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
16 20 0.57
17 15 0.43
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:180429 original size:33 final size:34
Alignment explanation
Indices: 180392--180475 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 34
180382 TTAAATTTGT
* *
180392 TTTAAATTTATTTAAATTTAAATTTGTTTTAAA-
1 TTTAAATTTATTTAAATTTAAAATGGTTTTAAAC
*
180425 TTTAAATTTAGTTAAATTTAAAATGGTTTTAAAC
1 TTTAAATTTATTTAAATTTAAAATGGTTTTAAAC
* *
180459 TTGAAATTAAATTTAAA
1 TTTAAATT-TATTTAAA
180476 ATGTCCAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 30 0.70
34 7 0.16
35 6 0.14
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (34 bp):
TTTAAATTTATTTAAATTTAAAATGGTTTTAAAC
Found at i:180439 original size:27 final size:26
Alignment explanation
Indices: 180382--180443 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
180372 TATTTTAAAT
*
180382 TTAAATTTGTTTTAAATTTATTTAAAT
1 TTAAATTTGTTTTAAATTTATTT-AAG
180409 TTAAATTTGTTTTAAATTTAAATTT-AG
1 TTAAATTTGTTTTAAATTT--ATTTAAG
180436 TTAAATTT
1 TTAAATTT
180444 AAAATGGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 28 0.88
29 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (26 bp):
TTAAATTTGTTTTAAATTTATTTAAG
Found at i:182243 original size:29 final size:29
Alignment explanation
Indices: 182196--182390 Score: 137
Period size: 30 Copynumber: 6.7 Consensus size: 29
182186 CCCTAGAGGT
* * *
182196 CCCTT-AACTGTCCAAAAATCACATTTTGA
1 CCCTTAAACTTTCC-AAAATTATATTTTGA
* *
182225 CCCTTAAACTTTCCTAAATTATATTTTGG
1 CCCTTAAACTTTCCAAAATTATATTTTGA
*
182254 CCCCTAAACTTCTCCAAAATTATATTTTGA
1 CCCTTAAACTT-TCCAAAATTATATTTTGA
* **
182284 CCCTCAAACTTTTTGAAAATTATAATTTT-A
1 CCCTTAAAC-TTTCCAAAATTAT-ATTTTGA
** ** *
182314 CCCCCAAACTTTCCAAAATTCCATTTTAA
1 CCCTTAAACTTTCCAAAATTATATTTTGA
** * *
182343 CCC--CGATTTTCCAAAAATTATATTTTTA
1 CCCTTAAACTTTCC-AAAATTATATTTTGA
**
182371 CCCTCGAACTTTCCAAAATT
1 CCCTTAAACTTTCCAAAATT
182391 CCATTTTTTA
Statistics
Matches: 132, Mismatches: 26, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
27 6 0.05
28 20 0.15
29 45 0.34
30 54 0.41
31 7 0.05
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (29 bp):
CCCTTAAACTTTCCAAAATTATATTTTGA
Found at i:182276 original size:30 final size:28
Alignment explanation
Indices: 182218--182460 Score: 136
Period size: 29 Copynumber: 8.3 Consensus size: 28
182208 CAAAAATCAC
* *
182218 ATTTTGACCCTTAAACTTTCCTAAATTAT
1 ATTTT-ACCCCTAAACTTTCCAAAATTAT
*
182247 ATTTTGGCCCCTAAACTTCTCCAAAATTAT
1 ATTTT-ACCCCTAAACTT-TCCAAAATTAT
**
182277 ATTTTGA-CCCTCAAACTTTTTGAAAATTAT
1 ATTTT-ACCCCT-AAAC-TTTCCAAAATTAT
* **
182307 AATTTTACCCCCAAACTTTCCAAAATTCC
1 -ATTTTACCCCTAAACTTTCCAAAATTAT
* *
182336 ATTTTAACCCC--GATTTTCCAAAAATTAT
1 ATTTT-ACCCCTAAACTTTCC-AAAATTAT
*
182364 ATTTTTA-CCCTCGAACTTTCCAAAATTCCAT
1 A-TTTTACCCCT-AAACTTTCCAAAATT--AT
* * ** *
182395 TTTTTA-CCCTGATTTTTCCAAAATTACC
1 ATTTTACCCCTAAACTTTCCAAAATTA-T
** * *
182423 ATTTTACCCCCGAATTTTCAAAAATTATT
1 ATTTTACCCCTAAACTTTCCAAAATTA-T
182452 ATTTTACCC
1 ATTTTACCC
182461 TTGGATGTCT
Statistics
Matches: 172, Mismatches: 27, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
27 10 0.06
28 18 0.10
29 83 0.48
30 49 0.28
31 12 0.07
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (28 bp):
ATTTTACCCCTAAACTTTCCAAAATTAT
Found at i:182329 original size:59 final size:58
Alignment explanation
Indices: 182201--182397 Score: 161
Period size: 59 Copynumber: 3.4 Consensus size: 58
182191 GAGGTCCCTT
* * * * * *
182201 AACTGTCCAAAAATCACATTTTGACCCTTAAACTTTCCT-AAATTAT-ATTTTGGCCCCTA
1 AACTTTCC-AAAATTACATTTTGACCCTCAAACTTT-TTAAAATTATAATTTT-ACCCCCA
*
182260 AACTTCTCCAAAATTATATTTTGACCCTCAAACTTTTTGAAAATTATAATTTTACCCCCA
1 AACTT-TCCAAAATTACATTTTGACCCTCAAACTTTTT-AAAATTATAATTTTACCCCCA
* * * * * * *
182320 AACTTTCCAAAATTCCATTTTAACCC-C-GA-TTTTCCAAAAATTATATTTTTACCCTCG
1 AACTTTCCAAAATTACATTTTGACCCTCAAACTTTT--TAAAATTATAATTTTACCCCCA
*
182377 AACTTTCCAAAATTCCATTTT
1 AACTTTCCAAAATTACATTTT
182398 TTACCCTGAT
Statistics
Matches: 117, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
56 4 0.03
57 40 0.34
58 2 0.02
59 46 0.39
60 20 0.17
61 5 0.04
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (58 bp):
AACTTTCCAAAATTACATTTTGACCCTCAAACTTTTTAAAATTATAATTTTACCCCCA
Found at i:182370 original size:57 final size:57
Alignment explanation
Indices: 182299--182448 Score: 187
Period size: 58 Copynumber: 2.6 Consensus size: 57
182289 AAACTTTTTG
*
182299 AAAATTATAATTTTACCCCCAAACTTTCCAAAATTCCA-TTTTAACCCCGA-TTTTCC
1 AAAATTAT-ATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTTCC
* * *
182355 AAAAATTATATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTTACCCTGATTTTTCC
1 -AAAATTATA-TTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTTCC
* * *
182414 AAAATTACCATTTTACCCCCGAATTTTCAAAAATT
1 AAAATTA-TATTTTACCCCCGAACTTTCCAAAATT
182449 ATTATTTTAC
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
56 1 0.01
57 34 0.42
58 39 0.48
59 7 0.09
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (57 bp):
AAAATTATATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTTCC
Found at i:182381 original size:87 final size:86
Alignment explanation
Indices: 182269--182514 Score: 216
Period size: 87 Copynumber: 2.8 Consensus size: 86
182259 AAACTTCTCC
* **
182269 AAAATTATATTTTGACCCTCAAACTTTTTGAAAATT-ATAATTTTACCCCCAAACTTTCCAAAAT
1 AAAATTATATTTTTACCCTCAAAC-TTTCCAAAATTCAT-ATTTTA-CCCCAAACTTTCCAAAAT
182333 T-CCATTTTAACCCCG-ATTTTCCA
63 TACCATTTTAACCCCGAATTTT-CA
* * ** **
182356 AAAATTATATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTTACCCTGATTTTTCCAAAATTA
1 AAAATTATATTTTTACCCTCAAACTTTCCAAAATT-CATATTTTACCCCAAACTTTCCAAAATTA
*
182421 CCATTTTACCCCCGAATTTTCA
65 CCATTTTAACCCCGAATTTTCA
*** * * *
182443 AAAATTAT-TATTTTACCCTTGGA-TGTCTAAAATTTCAT-TTTTAACCCCGAACTTTTCCAAAA
1 AAAATTATAT-TTTTACCCTCAAACTTTCCAAAA-TTCATATTTT-ACCCCAAAC-TTTCCAAAA
*
182505 TTACTATTTT
62 TTACCATTTT
182515 GCCCCCGGGT
Statistics
Matches: 133, Mismatches: 18, Indels: 16
0.80 0.11 0.10
Matches are distributed among these distances:
85 4 0.03
86 41 0.31
87 81 0.61
88 7 0.05
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.41
Consensus pattern (86 bp):
AAAATTATATTTTTACCCTCAAACTTTCCAAAATTCATATTTTACCCCAAACTTTCCAAAATTAC
CATTTTAACCCCGAATTTTCA
Found at i:182396 original size:29 final size:29
Alignment explanation
Indices: 182309--182506 Score: 133
Period size: 29 Copynumber: 6.9 Consensus size: 29
182299 AAAATTATAA
* *
182309 TTTTACCCCCAAACTTTCCAAAATTCCAT
1 TTTTACCCTCGAACTTTCCAAAATTCCAT
* * **
182338 TTTAACCC-CG-ATTTTCCAAAAATTATAT
1 TTTTACCCTCGAACTTTCC-AAAATTCCAT
182366 TTTTACCCTCGAACTTTCCAAAATTCCATT
1 TTTTACCCTCGAACTTTCCAAAATTCCA-T
**
182396 TTTTACCCT-GATTTTTCCAAAATTACCA-
1 TTTTACCCTCGAACTTTCCAAAATT-CCAT
* * *
182424 TTTTACCCCCGAATTTTCAAAAATT--ATT
1 TTTTACCCTCGAACTTTCCAAAATTCCA-T
* * * * *
182452 ATTTTACCCTTGGA-TGTCTAAAATTTCAT
1 -TTTTACCCTCGAACTTTCCAAAATTCCAT
182481 TTTTAACCC-CGAACTTTTCCAAAATT
1 TTTT-ACCCTCGAAC-TTTCCAAAATT
182507 ACTATTTTGC
Statistics
Matches: 132, Mismatches: 23, Indels: 27
0.73 0.13 0.15
Matches are distributed among these distances:
26 1 0.01
27 6 0.05
28 39 0.30
29 57 0.43
30 29 0.22
ACGTcount: A:0.30, C:0.25, G:0.04, T:0.40
Consensus pattern (29 bp):
TTTTACCCTCGAACTTTCCAAAATTCCAT
Found at i:182431 original size:58 final size:57
Alignment explanation
Indices: 182299--182506 Score: 183
Period size: 57 Copynumber: 3.6 Consensus size: 57
182289 AAACTTTTTG
* * *
182299 AAAATTATAATTTTACCCCCAAACTTTCCAAAATTCCA-TTTTAACCCCGATTTTCCA
1 AAAATTA-AATTTTACCCCCGAACTTTCCAAAATTCCATTTTTTACCCTGATTTTCCA
* *
182356 AAAATTATATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTTACCCTGATTTTTCC-
1 AAAATTA-AATTTTACCCCCGAACTTTCCAAAATTCCATTTTTTACCCTGA-TTTTCCA
* * * * *
182414 AAAATTACCATTTTACCCCCGAATTTTCAAAAATT--ATTATTTTACCCTTGGA-TGTCTA
1 AAAATTA-AATTTTACCCCCGAACTTTCCAAAATTCCATT-TTTTACCC-T-GATTTTCCA
* * * *
182472 AAATTTCATTTTTAACCCCGAACTTTTCCAAAATT
1 AAAATTAAATTTTACCCCCGAAC-TTTCCAAAATT
182507 ACTATTTTGC
Statistics
Matches: 124, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
56 3 0.02
57 58 0.47
58 55 0.44
59 8 0.06
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (57 bp):
AAAATTAAATTTTACCCCCGAACTTTCCAAAATTCCATTTTTTACCCTGATTTTCCA
Found at i:182520 original size:87 final size:88
Alignment explanation
Indices: 182309--182521 Score: 249
Period size: 87 Copynumber: 2.5 Consensus size: 88
182299 AAAATTATAA
* * *
182309 TTTTACCCCCAAAC-TTTCCAAAATT-CCATTTTAACCCCGATTTTCCAAAAATTATATTTTTAC
1 TTTTAACCCCGAACTTTTCCAAAATTACCATTTTACCCCCGATTTTCCAAAAATTATATTTTTAC
*
182372 CCTCGAACTTTCCAAAATTCCAT
66 CCTCGAACTGTCCAAAATTCCAT
* * *
182395 TTTTTACCCTG-ATTTTTCCAAAATTACCATTTTACCCCCGAATTTT-CAAAAATTAT-TATTTT
1 TTTTAACCCCGAACTTTTCCAAAATTACCATTTTACCCCCG-ATTTTCCAAAAATTATAT-TTTT
* * * *
182457 ACCCTTGGA-TGTCTAAAATTTCAT
64 ACCCTCGAACTGTCCAAAATTCCAT
* *
182481 TTTTAACCCCGAACTTTTCCAAAATTACTATTTTGCCCCCG
1 TTTTAACCCCGAACTTTTCCAAAATTACCATTTTACCCCCG
182522 GGTATCCAAA
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
85 1 0.01
86 40 0.38
87 60 0.57
88 5 0.05
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (88 bp):
TTTTAACCCCGAACTTTTCCAAAATTACCATTTTACCCCCGATTTTCCAAAAATTATATTTTTAC
CCTCGAACTGTCCAAAATTCCAT
Found at i:182521 original size:30 final size:30
Alignment explanation
Indices: 182234--182521 Score: 156
Period size: 30 Copynumber: 9.9 Consensus size: 30
182224 ACCCTTAAAC
* * **
182234 TTTCCTAAATTA-TATTTTGGCCCCTAAACT
1 TTTCCAAAATTACTATTTT-ACCCCCGAACT
* * *
182264 TCTCCAAAATTA-TATTTTGACCCTCAAACT
1 TTTCCAAAATTACTATTTT-ACCCCCGAACT
** *
182294 TTTTGAAAATTA-TAATTTTACCCCCAAAC-
1 TTTCCAAAATTACT-ATTTTACCCCCGAACT
* *
182323 TTTCCAAAATT-CCATTTTAACCCCG-A-T
1 TTTCCAAAATTACTATTTTACCCCCGAACT
*
182350 TTTCCAAAAATTA-TATTTTTACCCTCGAAC-
1 TTTCC-AAAATTACTA-TTTTACCCCCGAACT
* * * *
182380 TTTCCAAAATTCCATTTTTTA-CCCTG-ATT
1 TTTCCAAAATTAC-TATTTTACCCCCGAACT
*
182409 TTTCCAAAATTACCATTTTACCCCCGAA-T
1 TTTCCAAAATTACTATTTTACCCCCGAACT
* * ** *
182438 TTTCAAAAATTATTATTTTACCCTTGGA--
1 TTTCCAAAATTACTATTTTACCCCCGAACT
* * * *
182466 TGTCTAAAATTTC-ATTTTTAACCCCGAACT
1 TTTCCAAAATTACTA-TTTTACCCCCGAACT
*
182496 TTTCCAAAATTACTATTTTGCCCCCG
1 TTTCCAAAATTACTATTTTACCCCCG
182522 GGTATCCAAA
Statistics
Matches: 196, Mismatches: 45, Indels: 34
0.71 0.16 0.12
Matches are distributed among these distances:
27 7 0.04
28 41 0.21
29 66 0.34
30 75 0.38
31 7 0.04
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
TTTCCAAAATTACTATTTTACCCCCGAACT
Found at i:182533 original size:58 final size:57
Alignment explanation
Indices: 182411--182551 Score: 133
Period size: 58 Copynumber: 2.4 Consensus size: 57
182401 CCCTGATTTT
* * * ** *
182411 TCCAAAATTACCA-TTTTACCCCCGAATTTTCAAAAATTATTATTTTACCCTTGGATG
1 TCCAAAATT-TCATTTTTAACCCCGAATTTTCAAAAATTACTATTTTACCCCCGGATA
* * * *
182468 TCTAAAATTTCATTTTTAACCCCGAACTTTTCCAAAATTACTATTTTGCCCCCGGGTA
1 TCCAAAATTTCATTTTTAACCCCGAA-TTTTCAAAAATTACTATTTTACCCCCGGATA
*
182526 TCCAAAA-TTCACTTTTTCACCTCCGA
1 TCCAAAATTTCA-TTTTTAACC-CCGA
182552 TTGCTTTATT
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
56 2 0.03
57 24 0.35
58 38 0.56
59 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (57 bp):
TCCAAAATTTCATTTTTAACCCCGAATTTTCAAAAATTACTATTTTACCCCCGGATA
Found at i:182892 original size:96 final size:97
Alignment explanation
Indices: 182750--182931 Score: 253
Period size: 96 Copynumber: 1.9 Consensus size: 97
182740 AAAAACTTTA
* * * *
182750 AAATCGAGGCAATATTCTTTTATTTCGAGTTTTGAAAATTTGTGCCTTAACTTACTAGGCACGAT
1 AAATCGAGGCAATATTCTTTTATCTCGAGTTCTGAAAATTTATGCCTTAACTTACTAGGCACAAT
182815 -TTTCTTCAAATCGAAATAATCAAATATCCTT
66 CTTTCTTCAAATCGAAATAATCAAATATCCTT
* **
182846 AAATCGAGGCAATGTT-TCTTTATCTCTGA-TTCTGAAAATTTATGCCTTAACTTACTAGGTGCA
1 AAATCGAGGCAATATTCT-TTTATCTC-GAGTTCTGAAAATTTATGCCTTAACTTACTAGGCACA
*
182909 ATCTTTCTTCAAATCGAGATAAT
64 ATCTTTCTTCAAATCGAAATAAT
182932 GAACATCCTT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 1 0.01
96 53 0.71
97 21 0.28
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (97 bp):
AAATCGAGGCAATATTCTTTTATCTCGAGTTCTGAAAATTTATGCCTTAACTTACTAGGCACAAT
CTTTCTTCAAATCGAAATAATCAAATATCCTT
Found at i:187418 original size:12 final size:13
Alignment explanation
Indices: 187395--187429 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
187385 GAAAAAATAA
*
187395 AAAAATAAAAAAGG
1 AAAAA-AAAAAGGG
187409 AAAAAAAAAAGGG
1 AAAAAAAAAAGGG
187422 AAAAAAAA
1 AAAAAAAA
187430 GGAGAGGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAGGG
Found at i:187890 original size:48 final size:48
Alignment explanation
Indices: 187819--188106 Score: 260
Period size: 48 Copynumber: 5.8 Consensus size: 48
187809 TCAAAACAAT
* * * *
187819 GATCCAATACCACGAAGACACAAGGGAAAGTTCTAAGCCGTAACGGTG
1 GATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCAATGGTG
* * *
187867 GATCCAGTACCACGAAGATACAAGGGAACGATCTAAGCCGCAATGGCG
1 GATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCAATGGTG
* * * * * *
187915 GATCCATTACCTTCGAAGACACGAAAGGGAAAGGTTTAAGTCGCTATGGT-
1 GATCCAGTACC-ACGAAGACAC--AAGGGAAAGATCTAAGCCGCAATGGTG
* * *
187965 GAACCTATTACGTC-CG-AGACATCAAGGGAAAGATCTAAGCCGCAATAGTG
1 GATCC-AGTAC--CACGAAGACA-CAAGGGAAAGATCTAAGCCGCAATGGTG
* *
188015 GATCCAGTACCACGAAGACACAAGGGAAAGGGAAAGATCTAAGCCGCAACAGCT-
1 GATCCAGTACCACGAAGACAC------AAGGGAAAGATCTAAGCCGCAA-TGGTG
188069 GATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGC
1 GATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGC
188107 TGTAATGACG
Statistics
Matches: 196, Mismatches: 27, Indels: 34
0.76 0.11 0.13
Matches are distributed among these distances:
47 1 0.01
48 71 0.36
49 38 0.19
50 13 0.07
51 28 0.14
53 1 0.01
54 43 0.22
55 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (48 bp):
GATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCAATGGTG
Found at i:188058 original size:54 final size:54
Alignment explanation
Indices: 187988--188098 Score: 197
Period size: 54 Copynumber: 2.1 Consensus size: 54
187978 CCGAGACATC
*
187988 AAGGGAAAGATCTAAGCCGCAATAG-TGGATCCAGTACCACGAAGACACAAGGGA
1 AAGGGAAAGATCTAAGCCGCAACAGCT-GATCCAGTACCACGAAGACACAAGGGA
188042 AAGGGAAAGATCTAAGCCGCAACAGCTGATCCAGTACCACGAAGACACAAGGGA
1 AAGGGAAAGATCTAAGCCGCAACAGCTGATCCAGTACCACGAAGACACAAGGGA
188096 AAG
1 AAG
188099 ATCTAAGCTG
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
54 54 0.98
55 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.27, T:0.10
Consensus pattern (54 bp):
AAGGGAAAGATCTAAGCCGCAACAGCTGATCCAGTACCACGAAGACACAAGGGA
Done.