Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 30 of 333
Found at i:8473443 original size:18 final size:20
Alignment explanation
Indices: 8473420--8473456 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8473410 TTATAGGGGG
8473420 TTTTGGT-G-AAGTAAAAGT
1 TTTTGGTAGAAAGTAAAAGT
8473438 TTTTGGTAGAAAGTAAAAG
1 TTTTGGTAGAAAGTAAAAG
8473457 GAAAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.27, T:0.35
Consensus pattern (20 bp):
TTTTGGTAGAAAGTAAAAGT
Found at i:8473476 original size:54 final size:54
Alignment explanation
Indices: 8473372--8473489 Score: 132
Period size: 54 Copynumber: 2.2 Consensus size: 54
8473362 GGGATTTAGC
* * * *
8473372 GGAAGTAAAAGTTTTAGGGGAAAATAAAAGAATAATTTTTATAGGGGGTTTTGG
1 GGAAGTAAAAGTTTTAGGAGAAAATAAAAGAATAAATATTATAGGAGGTTTTGG
* * *
8473426 TGAAGTAAAAGTTTTTGGTAGAAAGTAAAAGGAA-AAATATT-TAGGAGGTTTTGG
1 GGAAGTAAAAGTTTTAGG-AGAAAATAAAA-GAATAAATATTATAGGAGGTTTTGG
8473480 GGAAAGTAAA
1 GG-AAGTAAA
8473490 TTTTTTGAGG
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
54 29 0.55
55 21 0.40
56 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.30
Consensus pattern (54 bp):
GGAAGTAAAAGTTTTAGGAGAAAATAAAAGAATAAATATTATAGGAGGTTTTGG
Found at i:8473507 original size:74 final size:73
Alignment explanation
Indices: 8473427--8473593 Score: 185
Period size: 75 Copynumber: 2.2 Consensus size: 73
8473417 GGGTTTTGGT
* *
8473427 GAAGTAAAAGTTTTTGGTAGAAAGT-AAAAGGAAAAATA-TTTAGGAGGTTTTGGGGAAAGTAAA
1 GAAGTAAAAG-TTTTGGAAGAAAGTAAAAAGGAAAAA-AGTTTAGGAGGGTTTGGGGAAAGTAAA
* *
8473490 TTTTTTGAGGG
64 -ATTTGGAGGG
* * * *
8473501 GAAGTAAAAGTTTTGAGAATAAAGTAAAAAGGAAAAAAGTTTTGGGGGGTTTGGGGAAATTAAAA
1 GAAGTAAAAGTTTTG-GAAGAAAGTAAAAAGGAAAAAAGTTTAGGAGGGTTTGGGGAAAGTAAAA
8473566 TTTGGAGGG
65 TTTGGAGGG
*
8473575 GAAAGAAAAAGGTTTTGGA
1 G-AAGTAAAA-GTTTTGGA
8473594 GTGGTCGGGA
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
73 5 0.06
74 27 0.34
75 41 0.52
76 6 0.08
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (73 bp):
GAAGTAAAAGTTTTGGAAGAAAGTAAAAAGGAAAAAAGTTTAGGAGGGTTTGGGGAAAGTAAAAT
TTGGAGGG
Found at i:8473514 original size:19 final size:19
Alignment explanation
Indices: 8473473--8473517 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8473463 TATTTAGGAG
*
8473473 GTTTTG-GGGAAAGTAAAT
1 GTTTTGAGGGAAAGTAAAA
* *
8473491 TTTTTGAGGGGAAGTAAAA
1 GTTTTGAGGGAAAGTAAAA
8473510 GTTTTGAG
1 GTTTTGAG
8473518 AATAAAGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.36
Consensus pattern (19 bp):
GTTTTGAGGGAAAGTAAAA
Found at i:8474438 original size:12 final size:12
Alignment explanation
Indices: 8474417--8474448 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
8474407 GAGACCATTA
*
8474417 TTTTTCTTTTCT
1 TTTTTTTTTTCT
8474429 TTTTTTTTTTCT
1 TTTTTTTTTTCT
8474441 TTTTTTTT
1 TTTTTTTT
8474449 CTTTCCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTTCT
Found at i:8474439 original size:17 final size:16
Alignment explanation
Indices: 8474417--8474448 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
8474407 GAGACCATTA
8474417 TTTTTCTTTTCTTTTTT
1 TTTTTCTTTT-TTTTTT
8474434 TTTTTCTTTTTTTTT
1 TTTTTCTTTTTTTTT
8474449 CTTTCCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTT
Found at i:8474540 original size:114 final size:116
Alignment explanation
Indices: 8474345--8474557 Score: 349
Period size: 114 Copynumber: 1.9 Consensus size: 116
8474335 GCTCGATTGG
**
8474345 GGGCCTATTTAAATTTTATTCTCTCTTGGGCTGTTCAAAGCCCACCCGATTTTGGTCTATTTGAG
1 GGGCCTATTTAAATTTTATTCTCTCTTGGGCCATTCAAAGCCCACCCGATTTTGGTCTATTTGAG
*
8474410 ACCATTATTTTTCTTTTCTTTTTTTTT-TTCTTTTTTTTTCTTTCCTTTTT
66 ACCATTACTTTTCTTTTCTTTTTTTTTCTTCTTTTTTTTTCTTTCCTTTTT
* * *
8474460 GGGCCTATTTAAATTTT-TTTTCTCTTGGGCCATTCGAAGCCCATCCGATTTTGGTCTATTTGAG
1 GGGCCTATTTAAATTTTATTCTCTCTTGGGCCATTCAAAGCCCACCCGATTTTGGTCTATTTGAG
*
8474524 ACCTTTACTTTTCTTTTCTTTTTTTTTCTTCTTT
66 ACCATTACTTTTCTTTTCTTTTTTTTTCTTCTTT
8474558 CCTTTTTCGG
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
114 67 0.74
115 23 0.26
ACGTcount: A:0.13, C:0.20, G:0.12, T:0.55
Consensus pattern (116 bp):
GGGCCTATTTAAATTTTATTCTCTCTTGGGCCATTCAAAGCCCACCCGATTTTGGTCTATTTGAG
ACCATTACTTTTCTTTTCTTTTTTTTTCTTCTTTTTTTTTCTTTCCTTTTT
Found at i:8475173 original size:143 final size:146
Alignment explanation
Indices: 8474970--8475255 Score: 445
Period size: 143 Copynumber: 2.0 Consensus size: 146
8474960 AATAGTTTAA
* *
8474970 AAATGAGAAAGTTTAGATTTTGGAAAAATAAAAATATGTTTTTTAATTATTTTAAAGGAAAGTTT
1 AAATGAGAAAGTTTAAATTTTGGAAAAATAAAAATATGTTTTTTAATTATTTAAAAGGAAAGTTT
*
8475035 AAAATTTTAAAACAAAGTTTTGA-TTTTTTAACTACTTCAAAGTAAAAGCTTTAATCTTTAAGAA
66 AAAATTTTAAAACAAAGTTTTGATTTTTTTAACTACTTCAAAGTAAAAGATTTAATCTTTAAGAA
8475099 AAATAGTATTTTTTTC
131 AAATAGTATTTTTTTC
* * *
8475115 AAATGAGAAAGTTTAAATTTT-G-AAAA-AAAAATCTTTTTTTTTAGTTATTTAAAAGGAAAGTT
1 AAATGAGAAAGTTTAAATTTTGGAAAAATAAAAAT-ATGTTTTTTAATTATTTAAAAGGAAAGTT
* * *
8475177 TAAATTTTTAAAACAAAGTTTTGATTTTTTTAACTACTTCAAAGTAAAATATTTAATCTTTAATA
65 TAAAATTTTAAAACAAAGTTTTGATTTTTTTAACTACTTCAAAGTAAAAGATTTAATCTTTAAGA
*
8475242 AAAATAGTGTTTTT
130 AAAATAGTATTTTT
8475256 GTAACACCCC
Statistics
Matches: 129, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
142 6 0.05
143 52 0.40
144 51 0.40
145 20 0.16
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (146 bp):
AAATGAGAAAGTTTAAATTTTGGAAAAATAAAAATATGTTTTTTAATTATTTAAAAGGAAAGTTT
AAAATTTTAAAACAAAGTTTTGATTTTTTTAACTACTTCAAAGTAAAAGATTTAATCTTTAAGAA
AAATAGTATTTTTTTC
Found at i:8477732 original size:20 final size:19
Alignment explanation
Indices: 8477709--8477760 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
8477699 AAGATTTTGA
*
8477709 TTTTTAAGAAAAATAATGAT
1 TTTTTAA-AAAAATAATAAT
**
8477729 TTTTTAAATAAAATTTTAAT
1 TTTTTAAA-AAAATAATAAT
8477749 TTTTTAAAAAAA
1 TTTTTAAAAAAA
8477761 ATTAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (19 bp):
TTTTTAAAAAAATAATAAT
Found at i:8478283 original size:19 final size:20
Alignment explanation
Indices: 8478243--8478286 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
8478233 TTTTGGGGGG
**
8478243 TTTG-GGGGAAAGTAAATTT
1 TTTGAGGGGAAAGTAAAAGT
8478262 TTTGAGGGG-AAGTAAAAGT
1 TTTGAGGGGAAAGTAAAAGT
8478281 TTTGAG
1 TTTGAG
8478287 AATAAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (20 bp):
TTTGAGGGGAAAGTAAAAGT
Found at i:8478350 original size:75 final size:74
Alignment explanation
Indices: 8478195--8478353 Score: 216
Period size: 75 Copynumber: 2.1 Consensus size: 74
8478185 TGGGTCTTAA
* *
8478195 GGAAGTAAAAGTTTTTGGGAGAAAGTAAAAGGAAAAAATTTTGGGGGGTTTGGGGGAAAGTAAAT
1 GGAAGTAAAAGTTTTTGGAAGAAAGTAAAAGGAAAAAATTTTAGGGGGTTTGGGGGAAAGTAAAT
*
8478260 TTTTTGAGG
66 TTTTGGAGG
* *
8478269 GGAAGTAAAAG-TTTTGAGAATAAAGTAAAAAGGAAAAAAGTTTTAGGGGGTTT-GGGGAAATTA
1 GGAAGTAAAAGTTTTTG-GAAGAAAGT-AAAAGGAAAAAA-TTTTAGGGGGTTTGGGGGAAAGTA
8478332 AA-TTTTGGAGG
63 AATTTTTGGAGG
8478343 GGAAAGTAAAA
1 GG-AAGTAAAA
8478354 AGGTTTGGGG
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
73 5 0.07
74 28 0.37
75 31 0.41
76 12 0.16
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (74 bp):
GGAAGTAAAAGTTTTTGGAAGAAAGTAAAAGGAAAAAATTTTAGGGGGTTTGGGGGAAAGTAAAT
TTTTGGAGG
Found at i:8481895 original size:18 final size:18
Alignment explanation
Indices: 8481873--8481920 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
8481863 AGTAATATTT
*
8481873 ATTTATTCAGTATCAGT-
1 ATTTATTCAGTAACAGTC
*
8481890 AGTTTATTCTGTAACAGTC
1 A-TTTATTCAGTAACAGTC
*
8481909 AATTATTCAGTA
1 ATTTATTCAGTA
8481921 GCAGACAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.92
19 1 0.04
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (18 bp):
ATTTATTCAGTAACAGTC
Found at i:8483156 original size:17 final size:18
Alignment explanation
Indices: 8483134--8483172 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
8483124 ACCTCAATTT
8483134 TTTCTTTTC-TCCCTTTC
1 TTTCTTTTCTTCCCTTTC
*
8483151 TTTC-TTTCTTTCCTTTC
1 TTTCTTTTCTTCCCTTTC
8483168 TTTCT
1 TTTCT
8483173 CCCCTGTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTCTTTTCTTCCCTTTC
Found at i:8484387 original size:20 final size:20
Alignment explanation
Indices: 8484340--8484390 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
8484330 AATATGTTTT
* * *
8484340 TTTTAGTTTTTAAAGGAAAG
1 TTTTAATTTTTAAAAGAAAA
* *
8484360 TTTAAATTTTTAAAATAAAA
1 TTTTAATTTTTAAAAGAAAA
8484380 TTTTAATTTTT
1 TTTTAATTTTT
8484391 TTTAAACTAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (20 bp):
TTTTAATTTTTAAAAGAAAA
Found at i:8484514 original size:147 final size:147
Alignment explanation
Indices: 8484305--8484594 Score: 410
Period size: 149 Copynumber: 2.0 Consensus size: 147
8484295 AAAAAATGAG
*
8484305 AAAGTTTAGATTTTGCAAAAATAAAAATATGTTTTTTTTAGTTTTTAAAGGAAAGTTTAAATTTT
1 AAAGTTTAGATTTTGCAAAAATAAAAATATGTTTTTTTTAGTTTTTAAAGAAAAGTTTAAATTTT
* * **
8484370 TAAAATAAAATTTT-AA-TT-TTTTTTAAACTACTTCAAATTAAAAGTTTTAATCTTTAAGAAAA
66 TAAAACAAAATTTTGAACTTCTTTTTT-AACTACTTCAAAGTAAAAACTTTAATCTTTAAGAAAA
8484432 ATAGTATTTTTTTAATTAA
130 ATAGT-TTTTTTTAATTAA
* * * *
8484451 AAAGTTTAGTTTTTTG-TAAAATAAAAATTTG-TTTTTTTAGTTATTTTAATGAAAAGTTTAAAT
1 AAAGTTTAG-ATTTTGCAAAAATAAAAATATGTTTTTTTTAG-T-TTTTAAAGAAAAGTTTAAAT
*
8484514 TTTTAAAACAAAATTTTGAACTTCTTTTTTAACTACTTCAAAGTAAAAACTTTAATCTTTAATAA
63 TTTTAAAACAAAATTTTGAACTTCTTTTTTAACTACTTCAAAGTAAAAACTTTAATCTTTAAGAA
8484579 AAATAGTTTTTTTTAA
128 AAATAGTTTTTTTTAA
8484595 AAAAAGGAGA
Statistics
Matches: 128, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
145 9 0.07
146 23 0.18
147 39 0.30
148 11 0.09
149 40 0.31
150 6 0.05
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.47
Consensus pattern (147 bp):
AAAGTTTAGATTTTGCAAAAATAAAAATATGTTTTTTTTAGTTTTTAAAGAAAAGTTTAAATTTT
TAAAACAAAATTTTGAACTTCTTTTTTAACTACTTCAAAGTAAAAACTTTAATCTTTAAGAAAAA
TAGTTTTTTTTAATTAA
Found at i:8484623 original size:27 final size:27
Alignment explanation
Indices: 8484602--8484656 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
8484592 TAAAAAAAGG
*
8484602 AGAAAATTTAGATTTTGAAAAATAAAA
1 AGAAAATTTAAATTTTGAAAAATAAAA
* *
8484629 ATAAAGTTTAAATTTTGAAAAATAAAA
1 AGAAAATTTAAATTTTGAAAAATAAAA
8484656 A
1 A
8484657 TCTATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (27 bp):
AGAAAATTTAAATTTTGAAAAATAAAA
Found at i:8494435 original size:24 final size:24
Alignment explanation
Indices: 8494408--8494469 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 24
8494398 ATAAATTTTT
*
8494408 TTATAATTAAAAATTTAAAA-ATAA
1 TTATAATTAAAAA-TTAAAATAAAA
8494432 TTATAATT-AAAATTAAAATTAAAA
1 TTATAATTAAAAATTAAAA-TAAAA
8494456 TTACTAATTAAAAA
1 TTA-TAATTAAAAA
8494470 ATTTGTGCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 6 0.18
23 4 0.12
24 14 0.42
25 5 0.15
26 4 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
TTATAATTAAAAATTAAAATAAAA
Found at i:8494439 original size:6 final size:6
Alignment explanation
Indices: 8494430--8494468 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
8494420 ATTTAAAAAT
* *
8494430 AATTAT AATTAA AATTAA AATTAA AATTACT AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AATTA-A AATTAA AA
8494469 AATTTGTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (6 bp):
AATTAA
Found at i:8494451 original size:12 final size:12
Alignment explanation
Indices: 8494408--8494468 Score: 63
Period size: 12 Copynumber: 5.0 Consensus size: 12
8494398 ATAAATTTTT
8494408 TTATAATTAAAAA
1 TTATAATT-AAAA
*
8494421 TT-TAA-AAATAA
1 TTATAATTAA-AA
8494432 TTATAATTAAAA
1 TTATAATTAAAA
*
8494444 TTAAAATTAAAA
1 TTATAATTAAAA
8494456 TTACTAATTAAAA
1 TTA-TAATTAAAA
8494469 AATTTGTGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 2 0.05
11 4 0.10
12 22 0.55
13 12 0.30
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
TTATAATTAAAA
Found at i:8495083 original size:17 final size:18
Alignment explanation
Indices: 8495051--8495084 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8495041 CGAAGTCATG
8495051 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
8495069 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
8495085 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:8497808 original size:4 final size:4
Alignment explanation
Indices: 8497801--8497838 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
8497791 TAAATAAACA
*
8497801 AATG AATG AATG AATG AATG GATG AATG AATG AATG AA
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AA
8497839 ATATGGGCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:8507994 original size:12 final size:13
Alignment explanation
Indices: 8507957--8507991 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
8507947 AAATATTTGA
8507957 CTTGTTTTTAATT
1 CTTGTTTTTAATT
*
8507970 ATGTGTTTTTAATT
1 CT-TGTTTTTAATT
8507984 CTTGTTTT
1 CTTGTTTT
8507992 AATATTCCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (13 bp):
CTTGTTTTTAATT
Found at i:8509713 original size:3 final size:3
Alignment explanation
Indices: 8509705--8509729 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8509695 TTATTTGATC
8509705 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
8509730 TTAAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8513501 original size:15 final size:15
Alignment explanation
Indices: 8513481--8513511 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8513471 CGTTTGGTTT
8513481 ACTGTAATGGAATAG
1 ACTGTAATGGAATAG
*
8513496 ACTGTAATTGAATAG
1 ACTGTAATGGAATAG
8513511 A
1 A
8513512 GTTGCAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (15 bp):
ACTGTAATGGAATAG
Found at i:8514187 original size:14 final size:14
Alignment explanation
Indices: 8514168--8514198 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8514158 TACAAACACA
8514168 AAAAAATACAAAAT
1 AAAAAATACAAAAT
8514182 AAAAAATACAAAAT
1 AAAAAATACAAAAT
8514196 AAA
1 AAA
8514199 TTCACTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAAATACAAAAT
Found at i:8514649 original size:28 final size:30
Alignment explanation
Indices: 8514603--8514662 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
8514593 AAAAGACTTG
8514603 AAAATTAAATATAACTTAACTTTAAT-TTTT
1 AAAATTAAATATAACTTAA-TTTAATATTTT
* *
8514633 AAAATTATAT-TAA-TTAATTTATTATTTT
1 AAAATTAAATATAACTTAATTTAATATTTT
8514661 AA
1 AA
8514663 CTATTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 10 0.37
29 3 0.11
30 9 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (30 bp):
AAAATTAAATATAACTTAATTTAATATTTT
Found at i:8519283 original size:51 final size:51
Alignment explanation
Indices: 8519212--8519325 Score: 192
Period size: 51 Copynumber: 2.2 Consensus size: 51
8519202 CTGATCACAT
*
8519212 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTGCCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
8519263 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
8519314 TTGTCGCTTGTC
1 TTATCACTTGTC
8519326 GCTTGTCACT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:8537688 original size:51 final size:51
Alignment explanation
Indices: 8537628--8537730 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
8537618 TCCTTACTTG
8537628 AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATAAA
1 AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATAAA
8537679 AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATAAA
1 AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATAAA
8537730 A
1 A
8537731 TTTCTCTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.39
Consensus pattern (51 bp):
AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATAAA
Found at i:8539735 original size:23 final size:23
Alignment explanation
Indices: 8539709--8539762 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
8539699 CTAGATTTTT
*
8539709 TTCTAAATATTATTATTAAAAAA
1 TTCTAAATATTATTACTAAAAAA
*
8539732 TTCTAAATATTATTACTAAATAA
1 TTCTAAATATTATTACTAAAAAA
8539755 TTCTAAAT
1 TTCTAAAT
8539763 TTAAAAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
TTCTAAATATTATTACTAAAAAA
Found at i:8545144 original size:14 final size:14
Alignment explanation
Indices: 8545127--8545154 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8545117 CAATTTATGC
8545127 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
8545141 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
8545155 CTTTAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTTATTTTTA
Found at i:8547093 original size:2 final size:2
Alignment explanation
Indices: 8547086--8547110 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8547076 TTGGTGATCC
8547086 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8547111 AGATGAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8552251 original size:17 final size:18
Alignment explanation
Indices: 8552218--8552252 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8552208 AAATTAGAGG
*
8552218 AGAATTTATGAGAGAAAA
1 AGAATTGATGAGAGAAAA
8552236 AGAATTGATG-GAGAAAA
1 AGAATTGATGAGAGAAAA
8552253 TTTGATGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.00, G:0.26, T:0.20
Consensus pattern (18 bp):
AGAATTGATGAGAGAAAA
Found at i:8552852 original size:11 final size:11
Alignment explanation
Indices: 8552836--8552860 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8552826 TTTTTTTAAG
8552836 ACTAATATACT
1 ACTAATATACT
8552847 ACTAATATACT
1 ACTAATATACT
8552858 ACT
1 ACT
8552861 TTCGAGCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (11 bp):
ACTAATATACT
Found at i:8553032 original size:12 final size:12
Alignment explanation
Indices: 8553015--8553039 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8553005 ATAACACCCT
8553015 TTTTGTCGCTTG
1 TTTTGTCGCTTG
8553027 TTTTGTCGCTTG
1 TTTTGTCGCTTG
8553039 T
1 T
8553040 AAATGAAGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.16, G:0.24, T:0.60
Consensus pattern (12 bp):
TTTTGTCGCTTG
Found at i:8558498 original size:40 final size:40
Alignment explanation
Indices: 8558450--8558637 Score: 331
Period size: 40 Copynumber: 4.7 Consensus size: 40
8558440 GCAAACACAT
* * *
8558450 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
8558490 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
8558530 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
8558570 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
8558610 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
8558638 TCCAATGCTC
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:8573770 original size:10 final size:10
Alignment explanation
Indices: 8573757--8573804 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
8573747 TTATTTTCAT
8573757 TTATCTTTAA
1 TTATCTTTAA
8573767 TTATCTTTAA
1 TTATCTTTAA
*
8573777 TTATCTTTAT
1 TTATCTTTAA
*
8573787 TTAT-TTGTAT
1 TTATCTT-TAA
8573797 TTATCTTT
1 TTATCTTT
8573805 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:8580192 original size:15 final size:16
Alignment explanation
Indices: 8580154--8580185 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8580144 CAACCCAACC
8580154 TTTAT-TTTTACTTAT
1 TTTATATTTTACTTAT
8580169 TTTATATTTT-CTTAT
1 TTTATATTTTACTTAT
8580184 TT
1 TT
8580186 CTTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTATATTTTACTTAT
Found at i:8580197 original size:19 final size:20
Alignment explanation
Indices: 8580173--8580217 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
8580163 ACTTATTTTA
* *
8580173 TATTTTCTTATTTCTTA-TT
1 TATTTTATTATTTATTACTT
8580192 TATTTTATTATTTATTACTT
1 TATTTTATTATTTATTACTT
8580212 TATTTT
1 TATTTT
8580218 TGGATATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (20 bp):
TATTTTATTATTTATTACTT
Found at i:8582900 original size:96 final size:97
Alignment explanation
Indices: 8582736--8582919 Score: 271
Period size: 96 Copynumber: 1.9 Consensus size: 97
8582726 TTTTTAAGAA
* * * * *
8582736 TGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATATCTCTTTGCGTTAAAAGGTTCG
1 TGTGTTGGGCTGAGTAACCGAGATGAGGTGCTTGACTGTCATATCTCTTCGCGTCAAAAGGTTCG
*
8582801 ATATGTTATTAAG-AAAAATAAAAGTTAGGAG
66 ATATATTATTAAGCAAAAATAAAAGTTAGGAG
* * *
8582832 TGTGTTGGGTTGAGTAACCGAGATGGGGTGCTTGACTGTCATCTCTCTTCGCGTCAAAAGGTTCG
1 TGTGTTGGGCTGAGTAACCGAGATGAGGTGCTTGACTGTCATATCTCTTCGCGTCAAAAGGTTCG
*
8582897 ATATATTCTTAAGCAAAAATAAA
66 ATATATTATTAAGCAAAAATAAA
8582920 TAAATATTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
96 68 0.88
97 9 0.12
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (97 bp):
TGTGTTGGGCTGAGTAACCGAGATGAGGTGCTTGACTGTCATATCTCTTCGCGTCAAAAGGTTCG
ATATATTATTAAGCAAAAATAAAAGTTAGGAG
Found at i:8583571 original size:10 final size:10
Alignment explanation
Indices: 8583556--8583605 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
8583546 TAATTTTAGA
8583556 ATTTAT-TTT
1 ATTTATCTTT
8583565 CATTTATCTTT
1 -ATTTATCTTT
*
8583576 AATTATCTTT
1 ATTTATCTTT
8583586 ATTTAT-TTGT
1 ATTTATCTT-T
8583596 ATTTATCTTT
1 ATTTATCTTT
8583606 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:8590599 original size:7 final size:7
Alignment explanation
Indices: 8590587--8590611 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8590577 TTTGACCCAT
8590587 TTTCTTG
1 TTTCTTG
8590594 TTTCTTG
1 TTTCTTG
8590601 TTTCTTG
1 TTTCTTG
8590608 TTTC
1 TTTC
8590612 AATTTAGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.12, T:0.72
Consensus pattern (7 bp):
TTTCTTG
Found at i:8594319 original size:29 final size:30
Alignment explanation
Indices: 8594256--8594334 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 30
8594246 TTTTAGATTT
* *
8594256 TTTTACATATATATTTTGAATTTTTAGAAATTA
1 TTTTA-ATATA-ATTTT-TATTTTTAGAAAATA
*
8594289 -TTTATTTATAATTTTTATTTTTA-AAAATA
1 TTTTA-ATATAATTTTTATTTTTAGAAAATA
8594318 TTTTAATATAATTTTTA
1 TTTTAATATAATTTTTA
8594335 ATATTTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 16 0.40
30 11 0.28
31 5 0.12
32 8 0.20
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (30 bp):
TTTTAATATAATTTTTATTTTTAGAAAATA
Found at i:8594359 original size:20 final size:19
Alignment explanation
Indices: 8594336--8594374 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
8594326 TAATTTTTAA
* *
8594336 TATTTTTAATATTTTATTTT
1 TATTTTAAAGATTTT-TTTT
8594356 TATTTTAAAGATTTTTTTT
1 TATTTTAAAGATTTTTTTT
8594375 AAAAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TATTTTAAAGATTTTTTTT
Found at i:8594360 original size:29 final size:29
Alignment explanation
Indices: 8594314--8594371 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
8594304 TATTTTTAAA
* *
8594314 AATATTTTAATATAATTTTTAATATTTTT
1 AATATTTTAATATAATTTTAAAGATTTTT
* * *
8594343 AATATTTTATTTTTATTTTAAAGATTTTT
1 AATATTTTAATATAATTTTAAAGATTTTT
8594372 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (29 bp):
AATATTTTAATATAATTTTAAAGATTTTT
Found at i:8595597 original size:11 final size:11
Alignment explanation
Indices: 8595581--8595607 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8595571 ATTTTTGTTA
8595581 GACACTCGTTC
1 GACACTCGTTC
8595592 GACACTCGTTC
1 GACACTCGTTC
8595603 GACAC
1 GACAC
8595608 GAGTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.22
Consensus pattern (11 bp):
GACACTCGTTC
Found at i:8595996 original size:14 final size:14
Alignment explanation
Indices: 8595977--8596043 Score: 107
Period size: 14 Copynumber: 4.7 Consensus size: 14
8595967 GTTTGCAGGT
* *
8595977 AAAATGTTTTCAGG
1 AAAATGATTTCTGG
8595991 AAAATGATTTCTGG
1 AAAATGATTTCTGG
8596005 AAAATGATTTCTTGG
1 AAAATGATTTC-TGG
8596020 AAAATGATTTCTGG
1 AAAATGATTTCTGG
8596034 AAAATGATTT
1 AAAATGATTT
8596044 ACTTTTCTGT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
14 36 0.72
15 14 0.28
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:8596524 original size:22 final size:22
Alignment explanation
Indices: 8596499--8596587 Score: 83
Period size: 22 Copynumber: 4.0 Consensus size: 22
8596489 ATCCAATTGC
*
8596499 ATAACTAATATTACACCATATG
1 ATAACTAATATTACACCACATG
*
8596521 ATAACTAATATTACGCCACATG
1 ATAACTAATATTACACCACATG
* **
8596543 ATAACAACAATATT-GTCCA-AGTG
1 ATAAC--TAATATTACACCACA-TG
8596566 CATAACTAATATTACACCACAT
1 -ATAACTAATATTACACCACAT
8596588 TAAAAGTATC
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
22 32 0.60
23 9 0.17
24 12 0.23
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:8597605 original size:27 final size:30
Alignment explanation
Indices: 8597539--8597611 Score: 89
Period size: 32 Copynumber: 2.5 Consensus size: 30
8597529 GTCAATCATT
*
8597539 TCAATATCCAACAAGCTTAAAACATAATAAAC
1 TCAATATCTAACAAGCTTAAAAC--AATAAAC
*
8597571 TCAATATCTAACAAGCTTGAAAC-AT-AA-
1 TCAATATCTAACAAGCTTAAAACAATAAAC
8597598 TCAATATCTAACAA
1 TCAATATCTAACAA
8597612 AATCAAGACA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.36
28 2 0.05
29 2 0.05
32 21 0.54
ACGTcount: A:0.51, C:0.21, G:0.04, T:0.25
Consensus pattern (30 bp):
TCAATATCTAACAAGCTTAAAACAATAAAC
Found at i:8599766 original size:3 final size:3
Alignment explanation
Indices: 8599758--8599782 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8599748 TAAGGTTGAG
8599758 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
8599783 TTTTTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:8602017 original size:17 final size:17
Alignment explanation
Indices: 8601961--8602020 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
8601951 AAGGAAAAAG
*
8601961 GGAAGAGATTTGAAGAAC
1 GGAAGA-ATTTGAAGAAT
* ***
8601979 GAAAGAAGAAGAAGACAT
1 GGAAGAATTTGAAGA-AT
8601997 GGAAGAATTTGAAGAAT
1 GGAAGAATTTGAAGAAT
8602014 GGAAGAA
1 GGAAGAA
8602021 AAAGAAGGCA
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
17 15 0.47
18 17 0.53
ACGTcount: A:0.52, C:0.03, G:0.32, T:0.13
Consensus pattern (17 bp):
GGAAGAATTTGAAGAAT
Found at i:8602674 original size:20 final size:20
Alignment explanation
Indices: 8602637--8602676 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8602627 CTTGGATTAG
*
8602637 ATTAAATTAATCTCTTTATT
1 ATTAAATTAATCTATTTATT
* *
8602657 ATTAAGTTAATTTATTTATT
1 ATTAAATTAATCTATTTATT
8602677 TTTATATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (20 bp):
ATTAAATTAATCTATTTATT
Found at i:8603783 original size:16 final size:16
Alignment explanation
Indices: 8603762--8603795 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
8603752 CCCTCTTATT
8603762 TATAATTATTGTTTAA
1 TATAATTATTGTTTAA
8603778 TATAATTATTGTTTAA
1 TATAATTATTGTTTAA
8603794 TA
1 TA
8603796 CGAGCAAGGG
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:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TATAATTATTGTTTAA
Found at i:8605708 original size:131 final size:130
Alignment explanation
Indices: 8605540--8605774 Score: 337
Period size: 131 Copynumber: 1.8 Consensus size: 130
8605530 CTTTAAATCA
** * *
8605540 TTTTATTTTAAAATTTGTACTTTGATTTTTAAAAGGATATTCGGTTGTTTAGATCCAACGAGAAA
1 TTTTATTTTAAAATTTGTACTTTGAAATTTAAAAGGATATTCGGCTATTTAGATCCAACGAGAAA
*
8605605 AATCGAAACCCCGTAAGTTAGGGCACGACCTTCTTGAATTTCTAAACACGGAATATTGCTTTTAC
66 AATCGAAACCCCGTAAGTTAGGGCACGACCTTCTCGAATTTCTAAACACGGAATATTGCTTTTAC
* * * *
8605670 TTTTA-TTTAAAATTCATGTATTTTGAAATTTAAAAGGATGTTCGGCTATTTAGGTTCAACGAGA
1 TTTTATTTTAAAATT--TGTACTTTGAAATTTAAAAGGATATTCGGCTATTTAGATCCAACGAGA
* * *
8605734 AAATTCGAAACCCCGTAAGTTAGGGTACGATCTTCTCGAAT
64 AAAATCGAAACCCCGTAAGTTAGGGCACGACCTTCTCGAAT
8605775 CTCCAAAATT
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
129 9 0.10
130 5 0.05
131 77 0.85
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (130 bp):
TTTTATTTTAAAATTTGTACTTTGAAATTTAAAAGGATATTCGGCTATTTAGATCCAACGAGAAA
AATCGAAACCCCGTAAGTTAGGGCACGACCTTCTCGAATTTCTAAACACGGAATATTGCTTTTAC
Found at i:8606346 original size:21 final size:21
Alignment explanation
Indices: 8606321--8606362 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
8606311 AGTAAATGAA
8606321 GACCAAATTGGAATTAAAATG
1 GACCAAATTGGAATTAAAATG
8606342 GACCAAATTGGAATTAAAATG
1 GACCAAATTGGAATTAAAATG
8606363 AACTTAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.24
Consensus pattern (21 bp):
GACCAAATTGGAATTAAAATG
Found at i:8608158 original size:143 final size:143
Alignment explanation
Indices: 8607967--8608514 Score: 744
Period size: 143 Copynumber: 3.8 Consensus size: 143
8607957 GATTCGTAAC
* * * * * *
8607967 TTGTAGCTTTAATCTGCTCCACCGCAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* *
8608032 GCTGCAACTCCAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTTAGAAAGATAA
66 GCTGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGAAAGATAA
*
8608097 GATTCACCATAAT
131 GATCCACCATAAT
* * * * * *
8608110 TTGTAGCTTTAATATATTCCACTGCAATGTCATGGAAATAAGATTCGCTGTCTTTAGTTTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * * *
8608175 ACTACAACTTCA-AGGAGATAAAGCTGGTGGCTTTAATCTACTCCACTGCAACTTCA-AGAAGAT
66 GCTGCAACTTCAGA-GAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGA-AAGAT
* *
8608238 AAGATCCGCCACAAT
129 AAGATCCACCATAAT
8608253 TTGTAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * * * * *
8608318 GCTGCAACATT-AGGGAAATAAGGTTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAGATA
66 GCTGCAAC-TTCAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGAAAGATA
8608382 AGATCCACCATAAT
130 AGATCCACCATAAT
*
8608396 TTGTAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGATTCACTGTCTTCAGTCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * * *
8608461 GCTGCAACTTCAG-GAAGATAAGGCTAGTGGCTTCAATTTGCTCCACTGCTACTT
66 GCTGCAACTTCAGAG-AGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTT
8608515 TAAGTAGATG
Statistics
Matches: 353, Mismatches: 45, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
142 5 0.01
143 346 0.98
144 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (143 bp):
TTGTAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
GCTGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGAAAGATAA
GATCCACCATAAT
Found at i:8608383 original size:44 final size:44
Alignment explanation
Indices: 8608258--8608514 Score: 151
Period size: 44 Copynumber: 5.6 Consensus size: 44
8608248 ACAATTTGTA
* * *
8608258 GCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGATTCGCTG
1 GCTTCAATCTGCTCCACTGCAACTTC-AGGAAATAAGATTCGCTG
* * * * *
8608303 TCTTCAGTCTGCTCCGCTGCAACATT-AGGGAAATAAGGTT-GGTG
1 GCTTCAATCTGCTCCACTGCAAC-TTCA-GGAAATAAGATTCGCTG
* * *
8608347 GCTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGATCCACCATAATTTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGAA-ATAAGATTC-GC------TG
* * * *
8608399 TAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGATTCACTG
1 --GCTTCAATCTGCTCCACTGCAACTTC-AGGAAATAAGATTCGCTG
* * * ** *
8608446 TCTTCAGTCTGCTCCGCTGCAACTTCAGGAAGATAAGGCTAG-TG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGAA-ATAAGATTCGCTG
* *
8608490 GCTTCAATTTGCTCCACTGCTACTT
1 GCTTCAATCTGCTCCACTGCAACTT
8608515 TAAGTAGATG
Statistics
Matches: 159, Mismatches: 37, Indels: 33
0.69 0.16 0.14
Matches are distributed among these distances:
43 6 0.04
44 57 0.36
45 55 0.35
46 1 0.01
47 2 0.01
52 2 0.01
53 1 0.01
54 30 0.19
55 5 0.03
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGAAATAAGATTCGCTG
Found at i:8609917 original size:26 final size:26
Alignment explanation
Indices: 8609888--8609969 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
8609878 TGGTACAAAT
8609888 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
8609914 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
8609940 TGATAATGGGTTAGGTATATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
8609966 TGAT
1 TGAT
8609970 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:8612650 original size:6 final size:6
Alignment explanation
Indices: 8612641--8612750 Score: 93
Period size: 6 Copynumber: 18.0 Consensus size: 6
8612631 TTAGCCTCTC
* *
8612641 CTTTTT C-TTTT CTTTTT CTTTTT -TCTTTT CTTTTT TTGTTTT TTCTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CT-TTTT CTTTTT CT-TTTT CT-TTTT
*
8612690 C-TTTT CTTTTTT CTTTTT CTTTTTAT TTTTTT CTTTTT -TTTTT CTTTTT
1 CTTTTT C-TTTTT CTTTTT C-TTTT-T CTTTTT CTTTTT CTTTTT CTTTTT
* *
8612739 ATTTTT ATTTTT
1 CTTTTT CTTTTT
8612751 TTAAGGTGAA
Statistics
Matches: 89, Mismatches: 6, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
5 16 0.18
6 48 0.54
7 24 0.27
8 1 0.01
ACGTcount: A:0.03, C:0.12, G:0.01, T:0.85
Consensus pattern (6 bp):
CTTTTT
Found at i:8612657 original size:1 final size:1
Alignment explanation
Indices: 8612642--8612752 Score: 78
Period size: 1 Copynumber: 111.0 Consensus size: 1
8612632 TAGCCTCTCC
* * * * * * * * * *
8612642 TTTTTCTTTTCTTTTTCTTTTTTCTTTTCTTTTTTTGTTTTTTCTTTTCTTTTCTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * *
8612707 TCTTTTTATTTTTTTCTTTTTTTTTTCTTTTTATTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8612753 AAGGTGAAGT
Statistics
Matches: 78, Mismatches: 32, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 78 1.00
ACGTcount: A:0.03, C:0.11, G:0.01, T:0.86
Consensus pattern (1 bp):
T
Found at i:8612684 original size:38 final size:37
Alignment explanation
Indices: 8612642--8612752 Score: 154
Period size: 37 Copynumber: 3.0 Consensus size: 37
8612632 TAGCCTCTCC
8612642 TTTTTCTTTTCTTTTTCTTTTTTCTTTTCTTTTTTTGT
1 TTTTTCTTTTCTTTTTCTTTTTTCTTTTCTTTTTTT-T
*
8612680 TTTTTCTTTTC-TTTTCTTTTTTCTTTTTCTTTTTATT
1 TTTTTCTTTTCTTTTTCTTTTTTC-TTTTCTTTTTTTT
* *
8612717 TTTTTCTTTTTTTTTTCTTTTTAT-TTTTATTTTTTT
1 TTTTTCTTTTCTTTTTCTTTTT-TCTTTTCTTTTTTT
8612753 AAGGTGAAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
37 33 0.50
38 32 0.48
39 1 0.02
ACGTcount: A:0.03, C:0.11, G:0.01, T:0.86
Consensus pattern (37 bp):
TTTTTCTTTTCTTTTTCTTTTTTCTTTTCTTTTTTTT
Found at i:8612690 original size:43 final size:42
Alignment explanation
Indices: 8612644--8612751 Score: 137
Period size: 44 Copynumber: 2.5 Consensus size: 42
8612634 GCCTCTCCTT
* *
8612644 TTTCTTTTCTTTTTCTTTTTTC-TTTTCTTTTTTTGTTTTTTCT
1 TTTCTTTTCTTTTT-TTTTTTCTTTTTATTTTTTTCTTTTTT-T
8612687 TTTCTTTTCTTTTTTCTTTTTCTTTTTATTTTTTTCTTTTTTT
1 TTTCTTTTCTTTTTT-TTTTTCTTTTTATTTTTTTCTTTTTTT
*
8612730 TTTCTTTTTATTTTTATTTTTT
1 TTTC-TTTTCTTTTT-TTTTTT
8612752 TAAGGTGAAG
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
42 1 0.02
43 25 0.43
44 31 0.53
45 1 0.02
ACGTcount: A:0.03, C:0.11, G:0.01, T:0.85
Consensus pattern (42 bp):
TTTCTTTTCTTTTTTTTTTTCTTTTTATTTTTTTCTTTTTTT
Found at i:8614336 original size:88 final size:81
Alignment explanation
Indices: 8614185--8614342 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 81
8614175 AGGAATATCC
* *
8614185 AAAGAATAAAAGAATTTAAGAATAATTATTTATATGGTATGATCATGAATGAAGAATAAAAGAAT
1 AAAGAACAAAAGAATTTAAGAATAATTATTTATATGGTATGATAATGAATGAAGAATAAAAGAAT
8614250 ATTTGAAAGGAAGTCT
66 ATTTGAAAGGAAGTCT
*
8614266 AAAGAACAAAAGAATTTAAGAATAATTATCTGTATA-GGATGATTATGAATGAAATGGAAAGAAT
1 AAAGAACAAAAGAATTTAAGAATAATTAT-T-TATATGG-T-ATGAT-AATG-AAT-G-AAGAAT
8614330 AAAAGAATATTTG
58 AAAAGAATATTTG
8614343 CTCAAAGTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
81 28 0.42
82 3 0.05
83 5 0.08
84 4 0.06
85 3 0.05
86 3 0.05
87 1 0.02
88 19 0.29
ACGTcount: A:0.51, C:0.03, G:0.18, T:0.28
Consensus pattern (81 bp):
AAAGAACAAAAGAATTTAAGAATAATTATTTATATGGTATGATAATGAATGAAGAATAAAAGAAT
ATTTGAAAGGAAGTCT
Found at i:8616931 original size:131 final size:130
Alignment explanation
Indices: 8616763--8616997 Score: 357
Period size: 131 Copynumber: 1.8 Consensus size: 130
8616753 CTTTAAATTA
** * *
8616763 TTTTATTTTAAAATTTGTACTTTGATTTTTAAAAGGATATTCGGTTGTTTAGATCCAACGAGAAA
1 TTTTATTTTAAAATTTGTACTTTGAAATTTAAAAGGATATTCGGCTATTTAGATCCAACGAGAAA
8616828 AATTGAAACCCCGTAAGTTAGGGTACGA-CTTTCTCGAATTTCTAAACACGGAATATTGCTTTTA
66 AATTGAAACCCCGTAAGTTAGGGTACGATC-TTCTCGAATTTCTAAACACGGAATATTGCTTTTA
8616892 C
130 C
* * * *
8616893 TTTTA-TTTAAAATTCATGTATTTTGAAATTTAAAAGGATGTTCGGCTATTTAGGTTCAACGAGA
1 TTTTATTTTAAAATT--TGTACTTTGAAATTTAAAAGGATATTCGGCTATTTAGATCCAACGAGA
8616957 AAAATTGAAACCCCGTAAGTTAGGGTACGATCTTCTCGAAT
64 AAAATTGAAACCCCGTAAGTTAGGGTACGATCTTCTCGAAT
8616998 CTCCAAAATT
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
129 9 0.10
130 5 0.05
131 79 0.84
132 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.37
Consensus pattern (130 bp):
TTTTATTTTAAAATTTGTACTTTGAAATTTAAAAGGATATTCGGCTATTTAGATCCAACGAGAAA
AATTGAAACCCCGTAAGTTAGGGTACGATCTTCTCGAATTTCTAAACACGGAATATTGCTTTTAC
Found at i:8619776 original size:173 final size:173
Alignment explanation
Indices: 8619487--8619831 Score: 690
Period size: 173 Copynumber: 2.0 Consensus size: 173
8619477 CTCCTCAAAA
8619487 TGGTTCCAACTCATAAACCACTTCACTATTTTCAACCATGTTTCCTCGAAAGAAAAAAAATGCTA
1 TGGTTCCAACTCATAAACCACTTCACTATTTTCAACCATGTTTCCTCGAAAGAAAAAAAATGCTA
8619552 TAAACAGCAACTCAGAGACGTTAAACTCAACGCTTGTTACAATATCGTTTCAAAGAGTTGGTTAT
66 TAAACAGCAACTCAGAGACGTTAAACTCAACGCTTGTTACAATATCGTTTCAAAGAGTTGGTTAT
8619617 TCTTTCTTTATTTCTTTCTGTAGGTATTAGGATGTTTGGTAGT
131 TCTTTCTTTATTTCTTTCTGTAGGTATTAGGATGTTTGGTAGT
8619660 TGGTTCCAACTCATAAACCACTTCACTATTTTCAACCATGTTTCCTCGAAAGAAAAAAAATGCTA
1 TGGTTCCAACTCATAAACCACTTCACTATTTTCAACCATGTTTCCTCGAAAGAAAAAAAATGCTA
8619725 TAAACAGCAACTCAGAGACGTTAAACTCAACGCTTGTTACAATATCGTTTCAAAGAGTTGGTTAT
66 TAAACAGCAACTCAGAGACGTTAAACTCAACGCTTGTTACAATATCGTTTCAAAGAGTTGGTTAT
8619790 TCTTTCTTTATTTCTTTCTGTAGGTATTAGGATGTTTGGTAG
131 TCTTTCTTTATTTCTTTCTGTAGGTATTAGGATGTTTGGTAG
8619832 CTATGTAAAG
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 172 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (173 bp):
TGGTTCCAACTCATAAACCACTTCACTATTTTCAACCATGTTTCCTCGAAAGAAAAAAAATGCTA
TAAACAGCAACTCAGAGACGTTAAACTCAACGCTTGTTACAATATCGTTTCAAAGAGTTGGTTAT
TCTTTCTTTATTTCTTTCTGTAGGTATTAGGATGTTTGGTAGT
Found at i:8623719 original size:30 final size:31
Alignment explanation
Indices: 8623685--8623749 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
8623675 CGTAACTAAA
*
8623685 AAAAGTTATAAATTAA-TTACTAAACTATTC
1 AAAAGTTATAAATTAAGTCACTAAACTATTC
* * * *
8623715 AAAAGTTTTCATTTAAGTCAGTAAACTATTC
1 AAAAGTTATAAATTAAGTCACTAAACTATTC
8623746 AAAA
1 AAAA
8623750 ATATTCATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (31 bp):
AAAAGTTATAAATTAAGTCACTAAACTATTC
Found at i:8623742 original size:31 final size:31
Alignment explanation
Indices: 8623705--8623765 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
8623695 AATTAATTAC
* * *
8623705 TAAACTATTCAAAAGTTTTCATTTAAGTCAG
1 TAAACTATTCAAAAATATTCATTAAAGTCAG
8623736 TAAACTATTCAAAAATATTCATTAAAGTCA
1 TAAACTATTCAAAAATATTCATTAAAGTCA
8623766 CTGAGTTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (31 bp):
TAAACTATTCAAAAATATTCATTAAAGTCAG
Found at i:8633110 original size:57 final size:57
Alignment explanation
Indices: 8633044--8633153 Score: 220
Period size: 57 Copynumber: 1.9 Consensus size: 57
8633034 AAGAGTAGTT
8633044 ATTAAATGTAAAGAGTAACCATTAAATTTGACATCAACGAACATGAGTATAAGAGTC
1 ATTAAATGTAAAGAGTAACCATTAAATTTGACATCAACGAACATGAGTATAAGAGTC
8633101 ATTAAATGTAAAGAGTAACCATTAAATTTGACATCAACGAACATGAGTATAAG
1 ATTAAATGTAAAGAGTAACCATTAAATTTGACATCAACGAACATGAGTATAAG
8633154 GGTATATACA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.26
Consensus pattern (57 bp):
ATTAAATGTAAAGAGTAACCATTAAATTTGACATCAACGAACATGAGTATAAGAGTC
Found at i:8635918 original size:20 final size:20
Alignment explanation
Indices: 8635889--8635926 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8635879 TTAAAAATAT
*
8635889 ATATAGAAATTTATAAAAGA
1 ATATAGAAATATATAAAAGA
*
8635909 ATATATAAATATATAAAA
1 ATATAGAAATATATAAAA
8635927 TTGAGAAACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
ATATAGAAATATATAAAAGA
Found at i:8639366 original size:38 final size:40
Alignment explanation
Indices: 8639257--8639370 Score: 187
Period size: 40 Copynumber: 2.9 Consensus size: 40
8639247 ATTTGATGTG
8639257 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
8639297 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
* * *
8639337 TATCTGGG-TTAAA-TCTCGCAGGCTTCGTGCTGGT
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGT
8639371 GATGTATATT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 19 0.27
39 5 0.07
40 47 0.66
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
Found at i:8639407 original size:16 final size:16
Alignment explanation
Indices: 8639381--8639426 Score: 83
Period size: 16 Copynumber: 2.8 Consensus size: 16
8639371 GATGTATATT
8639381 CAGGCCTTCGTGCCTAG
1 CAGG-CTTCGTGCCTAG
8639398 CAGGCTTCGTGCCTAG
1 CAGGCTTCGTGCCTAG
8639414 CAGGCTTCGTGCC
1 CAGGCTTCGTGCC
8639427 GGTGATGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.11, C:0.35, G:0.30, T:0.24
Consensus pattern (16 bp):
CAGGCTTCGTGCCTAG
Found at i:8639446 original size:59 final size:59
Alignment explanation
Indices: 8639354--8639469 Score: 205
Period size: 59 Copynumber: 2.0 Consensus size: 59
8639344 GTTAAATCTC
*
8639354 GCAGGCTTCGTGCTGGTGATGTATATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTATATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCTA
* *
8639413 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCC
1 GCAGGCTTCGTGCCGGTGATGTATATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCC
8639470 GGTGATGTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.11, C:0.27, G:0.33, T:0.29
Consensus pattern (59 bp):
GCAGGCTTCGTGCCGGTGATGTATATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCTA
Found at i:8639947 original size:43 final size:43
Alignment explanation
Indices: 8639402--8639934 Score: 922
Period size: 43 Copynumber: 12.4 Consensus size: 43
8639392 GCCTAGCAGG
8639402 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
8639445 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
*
8639488 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTACTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
*
8639531 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTACTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
*
8639574 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTACTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
* *
8639617 CTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTGTACTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
* * * *
8639660 CTTCGTGTCTAGCAGGCTTCGTACTGGTGATGTGTATTCGGAC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
* *
8639703 CTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTGTATTCAGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
*
8639746 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTATATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
8639789 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
* * *
8639832 CTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTGTTTTCGAGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
*
8639875 CTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
8639918 CTTCGTGCCTAGCAGGC
1 CTTCGTGCCTAGCAGGC
8639935 GTAATGCCGG
Statistics
Matches: 464, Mismatches: 26, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 464 1.00
ACGTcount: A:0.11, C:0.26, G:0.33, T:0.30
Consensus pattern (43 bp):
CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
Found at i:8645030 original size:5 final size:5
Alignment explanation
Indices: 8645020--8645044 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
8645010 TAAAATTAAA
8645020 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
8645045 TAAAGACGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:8649491 original size:48 final size:48
Alignment explanation
Indices: 8649436--8649667 Score: 224
Period size: 48 Copynumber: 4.9 Consensus size: 48
8649426 CATTGGTTTG
* * * * *
8649436 ATGAGATCCCGTATAAGACCATATCTAGGATATGACATCGGCATCGAT
1 ATGAGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGAT
* * * * *
8649484 GTGAGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGTT
1 ATGAGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGAT
* *
8649532 ATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGAT
1 ATGAGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGAT
* * * *
8649580 ATGAGA-CATCGTGTAAGACCATAGCTAGG-CTATCGGC-TTCG-AT--AT
1 ATGAGATC-CCATGTAAGACCATATCTAGGAC-AT-GGCATTGGCATCGAT
* * *
8649625 ATGTGATCCCATGTAAGACCATATCTCGGATATGGCATTGGCA
1 ATGAGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCA
8649668 CCTTACCATG
Statistics
Matches: 149, Mismatches: 28, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
44 3 0.02
45 29 0.19
46 2 0.01
47 4 0.03
48 108 0.72
49 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (48 bp):
ATGAGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGAT
Found at i:8652658 original size:20 final size:21
Alignment explanation
Indices: 8652633--8652672 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8652623 CTCTTGTAAC
*
8652633 AGGGC-ACACGCTCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
8652653 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
8652673 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:8653978 original size:48 final size:47
Alignment explanation
Indices: 8653923--8654135 Score: 207
Period size: 46 Copynumber: 4.5 Consensus size: 47
8653913 AAGCTAACGC
* * *
8653923 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCCGATG
** * *
8653971 CATGTCCCAGACATGTCTTACACTAGCTTT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCCGATG
* * * * **
8654017 CATGTCTCAGACATGTCTCACACTGGCTTAAATATCTCGAGGCTAATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCCGATG
* * ***
8654065 CATGTCCCAGACATGTCTTACACTGGCTCTTATA-CT-GTGATTGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TTATATCTCGAGGCCGATG
*
8654111 CATGTCCCAGACATTTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
8654136 TCACACATAT
Statistics
Matches: 136, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
46 66 0.49
47 3 0.02
48 66 0.49
49 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCCGATG
Found at i:8659799 original size:57 final size:56
Alignment explanation
Indices: 8659738--8659860 Score: 149
Period size: 56 Copynumber: 2.2 Consensus size: 56
8659728 TTAACCTAAG
* * *
8659738 CTGGTAATCCAGATTAAA-CTCTTTAGAGTATTTGTCACAGAAAGGATTTAGCCTGGA
1 CTGGTAATCCAGA-CAAAGCTC-TTAGAGCATATGTCACAGAAAGGATTTAGCCTGGA
** * *
8659795 CTGGTAATCTTGACAAAGCTCTTAGAGCATATGTTACAGACAGGATTTAGCCTGGA
1 CTGGTAATCCAGACAAAGCTCTTAGAGCATATGTCACAGAAAGGATTTAGCCTGGA
*
8659851 CTAGTAATCC
1 CTGGTAATCC
8659861 TGTTGTATGA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
56 42 0.75
57 14 0.25
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (56 bp):
CTGGTAATCCAGACAAAGCTCTTAGAGCATATGTCACAGAAAGGATTTAGCCTGGA
Found at i:8659932 original size:64 final size:64
Alignment explanation
Indices: 8659827--8659954 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 64
8659817 TAGAGCATAT
* * *
8659827 GTTACAGACAGGATTTAGCCTGGACTAGTAATCCTGTTGTATGATATGTGGCTCGAGAATGTGC
1 GTTACAGACAGGATTTAGCCTGGACTAGTAATCCTGCTGTATGATATGTGGCTCAAAAATGTGC
* * *
8659891 GTTACAGGCAGGATTTAGCTTGGACTGGTAATCCTGCTGTATGATATGTGGCTCAAAAATGTGC
1 GTTACAGACAGGATTTAGCCTGGACTAGTAATCCTGCTGTATGATATGTGGCTCAAAAATGTGC
8659955 TCTCAGAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (64 bp):
GTTACAGACAGGATTTAGCCTGGACTAGTAATCCTGCTGTATGATATGTGGCTCAAAAATGTGC
Found at i:8662188 original size:38 final size:40
Alignment explanation
Indices: 8662144--8662336 Score: 159
Period size: 39 Copynumber: 5.0 Consensus size: 40
8662134 TGAAACCAAT
* *
8662144 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGG-TATAA
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* * *
8662182 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* * * *
8662221 TTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATATAA
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* ** *
8662260 TTCCAGCAC-ATAGCCTGC-GGACCCTAAGTCCGGATATAA
1 TACCAGCACGA-AGCCTGCGGGACTTTAAGCCCGGATATAA
* ** *
8662299 TTCCAGCAC-ATAGCCTGC-GGACCCTAAGTCCGGATATA
1 TACCAGCACGA-AGCCTGCGGGACTTTAAGCCCGGATATA
8662337 CATCACTGAA
Statistics
Matches: 137, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 20 0.15
39 117 0.85
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
Found at i:8662259 original size:78 final size:78
Alignment explanation
Indices: 8662173--8662336 Score: 208
Period size: 78 Copynumber: 2.1 Consensus size: 78
8662163 GAATTTAAAC
* * * * *
8662173 CCGG-TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGC
1 CCGGATATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAGCACATAGC
*
8662235 CTGCGGACCTTAAGT
64 CTGCGGACCCTAAGT
* * *
8662250 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
8662315 GCGGACCCTAAGT
66 GCGGACCCTAAGT
8662328 CCGGATATA
1 CCGGATATA
8662337 CATCACTGAA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
77 8 0.11
78 67 0.89
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:8662319 original size:39 final size:39
Alignment explanation
Indices: 8662211--8662336 Score: 216
Period size: 39 Copynumber: 3.2 Consensus size: 39
8662201 GGACTTTAGC
* * * *
8662211 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
8662250 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
8662289 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
8662328 CCGGATATA
1 CCGGATATA
8662337 CATCACTGAA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:8665120 original size:22 final size:22
Alignment explanation
Indices: 8665090--8665134 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8665080 TAAGCATATG
*
8665090 ATTTGGATAAATGTACTTTACA
1 ATTTCGATAAATGTACTTTACA
*
8665112 ATTTCGATAAGTGTACTTTACA
1 ATTTCGATAAATGTACTTTACA
8665134 A
1 A
8665135 AAGCATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
ATTTCGATAAATGTACTTTACA
Found at i:8667969 original size:51 final size:50
Alignment explanation
Indices: 8667907--8668055 Score: 192
Period size: 51 Copynumber: 2.9 Consensus size: 50
8667897 CTACGTGTAG
* * *
8667907 CAGCAACATTATCTAGTCCATTTGATGTTGCAAAGTCATCAGCATATTCAT
1 CAGCAACATTATCTACTCCATCTGATGTTGCAAAATCA-CAGCATATTCAT
* * *
8667958 CCGCAACATTAT-TCACTCTATCTGATGTTGCAAAATCACCAACATATTCAT
1 CAGCAACATTATCT-ACTCCATCTGATGTTGCAAAATCA-CAGCATATTCAT
*
8668009 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATAT
1 CAGCAACATTATCTACTCCATCTGATGTTGCAAAATCAC-AGCATAT
8668056 CCATTACCAG
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
50 2 0.02
51 82 0.98
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.31
Consensus pattern (50 bp):
CAGCAACATTATCTACTCCATCTGATGTTGCAAAATCACAGCATATTCAT
Found at i:8668236 original size:33 final size:33
Alignment explanation
Indices: 8668187--8668256 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
8668177 CATCAGCTTG
* *
8668187 TACCTTTCCTACATCACCTTCCTCACCAGATTC
1 TACCTTTCCTAAATCACCTTCATCACCAGATTC
* *
8668220 TACCTTTTCTAAATCACCTTCATCATCAGATTC
1 TACCTTTCCTAAATCACCTTCATCACCAGATTC
8668253 TACC
1 TACC
8668257 CCTTTATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.37, G:0.03, T:0.36
Consensus pattern (33 bp):
TACCTTTCCTAAATCACCTTCATCACCAGATTC
Found at i:8668269 original size:33 final size:33
Alignment explanation
Indices: 8668196--8668270 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
8668186 GTACCTTTCC
* * *
8668196 TACATCACCTTCCTCACCAGATTCTACCTTTTC
1 TACATCACCTTCATCACCAGATTCTACCCTTTA
* *
8668229 TAAATCACCTTCATCATCAGATTCTACCCCTTTA
1 TACATCACCTTCATCACCAGATTCTA-CCCTTTA
8668263 T-CATCACC
1 TACATCACC
8668271 CTCCCCATCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.25, C:0.37, G:0.03, T:0.35
Consensus pattern (33 bp):
TACATCACCTTCATCACCAGATTCTACCCTTTA
Found at i:8669342 original size:18 final size:16
Alignment explanation
Indices: 8669299--8669334 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8669289 GAATGCTATC
* *
8669299 GATTTAGGTATTTGAA
1 GATTTAGGGACTTGAA
8669315 GATTTAGGGACTTGAA
1 GATTTAGGGACTTGAA
8669331 GATT
1 GATT
8669335 GTTAGGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.39
Consensus pattern (16 bp):
GATTTAGGGACTTGAA
Found at i:8670329 original size:15 final size:15
Alignment explanation
Indices: 8670309--8670340 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8670299 CATTTCACTA
*
8670309 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
8670324 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
8670339 TT
1 TT
8670341 TACATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:8673015 original size:43 final size:43
Alignment explanation
Indices: 8672954--8673040 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
8672944 ATAGTTTCCT
8672954 TTGGTTTTGATCATGTCTCCACTAGAACCATCGAATAATACAA
1 TTGGTTTTGATCATGTCTCCACTAGAACCATCGAATAATACAA
8672997 TTGGTTTTGATCATGTCTCCACTAGAACCATCGAATAATACAA
1 TTGGTTTTGATCATGTCTCCACTAGAACCATCGAATAATACAA
8673040 T
1 T
8673041 CAACCTTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (43 bp):
TTGGTTTTGATCATGTCTCCACTAGAACCATCGAATAATACAA
Found at i:8673517 original size:21 final size:21
Alignment explanation
Indices: 8673491--8673534 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
8673481 TCTAACACAA
8673491 GAGAAATTAAGTAGTTAAAGG
1 GAGAAATTAAGTAGTTAAAGG
8673512 GAGAAATTAAGTAGTTAAAGG
1 GAGAAATTAAGTAGTTAAAGG
8673533 GA
1 GA
8673535 TAAAAGAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.23
Consensus pattern (21 bp):
GAGAAATTAAGTAGTTAAAGG
Found at i:8678859 original size:26 final size:26
Alignment explanation
Indices: 8678823--8678877 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
8678813 TCTTTATACT
8678823 TTTAGAATTTACTCTTTATTTTTCAA
1 TTTAGAATTTACTCTTTATTTTTCAA
*
8678849 TTTAGAATTTACTCTTTATTTTTTAA
1 TTTAGAATTTACTCTTTATTTTTCAA
8678875 TTT
1 TTT
8678878 TCAAAATTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTAGAATTTACTCTTTATTTTTCAA
Found at i:8681370 original size:160 final size:162
Alignment explanation
Indices: 8681196--8681510 Score: 368
Period size: 162 Copynumber: 2.0 Consensus size: 162
8681186 ATTTTATACT
* * * * ** * *
8681196 TAATCTATATTATATAAAATCTAACTCTTAA-GGAGTCATAAAAGT-AA-ATAGGGGTATAAATT
1 TAATATATATTATATAAAA-CCAACTCCTAACAGAAACATAAAAGTAAACATAGGGATATAAATG
* * * * *
8681258 ATTTTTTAATTTTTTTTAAAATATACATTCCGTTTCTAGTAAATAAACAGGGTTAT-AGTAGATT
65 ATTTTTTAATTTATATTAAAATATACATTCCGTTTCTAGAAAATAAACAGGATTATGA-TAGACT
* *
8681322 TTTATTAAGTTAAAATTTGTATGTCTATATAATA
129 TTTAGTAAGTTAAAATTTGTATATCTATATAATA
* *
8681356 TAATATATATTATATAAAACCAATTCCTAACAGAAACATAAGAGTAAACATAGGGATATAAATGA
1 TAATATATATTATATAAAACCAACTCCTAACAGAAACATAAAAGTAAACATAGGGATATAAATGA
* * * * *
8681421 TTTTTTAATTTATATTAATATATACTTTCTGTTTCTAGAAAATAAATAGGATTGTGATAGACTTT
66 TTTTTTAATTTATATTAAAATATACATTCCGTTTCTAGAAAATAAACAGGATTATGATAGACTTT
* *
8681486 TAGTATGTTATAATTTGTATATCTA
131 TAGTAAGTTAAAATTTGTATATCTA
8681511 CGTAATATTT
Statistics
Matches: 127, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
159 8 0.06
160 28 0.22
161 2 0.02
162 88 0.69
163 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.41
Consensus pattern (162 bp):
TAATATATATTATATAAAACCAACTCCTAACAGAAACATAAAAGTAAACATAGGGATATAAATGA
TTTTTTAATTTATATTAAAATATACATTCCGTTTCTAGAAAATAAACAGGATTATGATAGACTTT
TAGTAAGTTAAAATTTGTATATCTATATAATA
Found at i:8687192 original size:16 final size:17
Alignment explanation
Indices: 8687163--8687202 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
8687153 TTTAAAATTT
*
8687163 ATAAAAATATTAAAAAA
1 ATAAAAATACTAAAAAA
*
8687180 ATAAAAAT-CTAAAGAA
1 ATAAAAATACTAAAAAA
8687196 ATAAAAA
1 ATAAAAA
8687203 GTTCATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (17 bp):
ATAAAAATACTAAAAAA
Found at i:8687706 original size:5 final size:5
Alignment explanation
Indices: 8687696--8687723 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8687686 ATTGTGATTC
8687696 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
8687724 AACGATGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:8692230 original size:51 final size:49
Alignment explanation
Indices: 8692112--8692234 Score: 120
Period size: 51 Copynumber: 2.4 Consensus size: 49
8692102 AAAGGACTAG
* * *
8692112 TTTTTAAAAATTTTCATTAAATCCTTTAAAATTTTTATTAGCCTTCAAAG
1 TTTTTAAAAA-TTTCATTAAATCCTTTAAAATTTTAATTAACCTTCAAAA
* * * ** * *
8692162 TTTTTGAAATTTCTCATTGGAATTTTTTATAATTTTAATTAAACCTTTAAAA
1 TTTTTAAAAATT-TCATT-AAATCCTTTAAAATTTTAATT-AACCTTCAAAA
8692214 TTTTTAAAAATTTCATTAAAT
1 TTTTTAAAAATTTCATTAAAT
8692235 TCCAAATTTT
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
49 2 0.04
50 16 0.28
51 21 0.37
52 18 0.32
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (49 bp):
TTTTTAAAAATTTCATTAAATCCTTTAAAATTTTAATTAACCTTCAAAA
Found at i:8696522 original size:19 final size:18
Alignment explanation
Indices: 8696481--8696523 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
8696471 TTTAGATATA
*
8696481 AAATAATAAAATATGTAT
1 AAATAATAAAATATGGAT
* *
8696499 TAATAATTATAATATGGAT
1 AAATAA-TAAAATATGGAT
8696518 AAATAA
1 AAATAA
8696524 GATAAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (18 bp):
AAATAATAAAATATGGAT
Found at i:8700496 original size:39 final size:39
Alignment explanation
Indices: 8700450--8700589 Score: 199
Period size: 39 Copynumber: 3.6 Consensus size: 39
8700440 ACTCTGATAA
*
8700450 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
8700489 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * * *
8700528 GCTTCAGCTAGACTTCGGGCTGCAGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
** *
8700567 GCTTCAACTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
8700590 AGATCACGAT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:8701494 original size:16 final size:16
Alignment explanation
Indices: 8701475--8701507 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8701465 GAATAATCTC
*
8701475 TGTTTCTTTTCTTCTT
1 TGTTTCTTTTATTCTT
8701491 TGTTTCTTTTATTCTT
1 TGTTTCTTTTATTCTT
8701507 T
1 T
8701508 TACTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTTATTCTT
Found at i:8706093 original size:2 final size:2
Alignment explanation
Indices: 8706088--8706113 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8706078 GTGGGGGAAA
8706088 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
8706114 TATCCATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8707384 original size:24 final size:25
Alignment explanation
Indices: 8707357--8707405 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
8707347 CTTTTTTTAT
*
8707357 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
8707381 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
8707406 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:8707398 original size:25 final size:23
Alignment explanation
Indices: 8707369--8707414 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
8707359 AATAAAAAAC
*
8707369 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
8707394 TTTAAAACATAAAAACAAATA
1 TTTAAAACATAAAAACAAATA
8707415 TTAACATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:8707565 original size:12 final size:13
Alignment explanation
Indices: 8707548--8707581 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
8707538 TTTTAAAAAT
8707548 AATTTAATATT-A
1 AATTTAATATTAA
8707560 AATTTAATATTAA
1 AATTTAATATTAA
8707573 AATTTAATA
1 AATTTAATA
8707582 CTTATAGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTTAATATTAA
Found at i:8708066 original size:21 final size:21
Alignment explanation
Indices: 8708027--8708066 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8708017 GTAATTTTGT
* * *
8708027 TTAGAACATTAATTGAATGTA
1 TTAGAACATGAAATAAATGTA
8708048 TTAGAACATGAAATAAATG
1 TTAGAACATGAAATAAATG
8708067 AAAACGACGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (21 bp):
TTAGAACATGAAATAAATGTA
Found at i:8709793 original size:4 final size:4
Alignment explanation
Indices: 8709784--8709822 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
8709774 ACTATGTGCT
8709784 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
8709823 GAAATTGTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:8711858 original size:27 final size:26
Alignment explanation
Indices: 8711784--8711877 Score: 98
Period size: 26 Copynumber: 3.6 Consensus size: 26
8711774 TATGTCATTC
* * * *
8711784 TTTAATTTGCTTTGTGTATTATTGAT
1 TTTAAATTGTTTTATGTATTATTCAT
* * ** *
8711810 TTTAAAATGCTTTATACATTATTTAT
1 TTTAAATTGTTTTATGTATTATTCAT
8711836 TTTAAACTTGTTTTATGTATTATTCAT
1 TTTAAA-TTGTTTTATGTATTATTCAT
8711863 TTTAAATTGTTTTAT
1 TTTAAATTGTTTTAT
8711878 TGTTTACTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 35 0.62
27 21 0.38
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.60
Consensus pattern (26 bp):
TTTAAATTGTTTTATGTATTATTCAT
Found at i:8713818 original size:13 final size:13
Alignment explanation
Indices: 8713800--8713824 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8713790 TTTAGATTGA
8713800 GATTTAATTAATT
1 GATTTAATTAATT
8713813 GATTTAATTAAT
1 GATTTAATTAAT
8713825 ATTAATTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
GATTTAATTAATT
Found at i:8715385 original size:27 final size:27
Alignment explanation
Indices: 8715327--8715387 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
8715317 ATATTTCTTA
*
8715327 GAATTTTTATAATTTTTTAAAAAATAT
1 GAATTTTGATAATTTTTTAAAAAATAT
* * *
8715354 AAATTTTGA-AATTTTTATAAAAATTTT
1 GAATTTTGATAATTTTT-TAAAAAATAT
8715381 GAATTTT
1 GAATTTT
8715388 AAAAAATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (27 bp):
GAATTTTGATAATTTTTTAAAAAATAT
Found at i:8715387 original size:19 final size:18
Alignment explanation
Indices: 8715354--8715399 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 18
8715344 TAAAAAATAT
8715354 AAATTTTGAAATTTTTATAA
1 AAATTTTGAAA-TTTTA-AA
8715374 AAATTTTG-AATTTTAAA
1 AAATTTTGAAATTTTAAA
8715391 AAATATTTG
1 AAAT-TTTG
8715400 GAAAATTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.24
18 9 0.36
19 2 0.08
20 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (18 bp):
AAATTTTGAAATTTTAAA
Found at i:8720659 original size:21 final size:21
Alignment explanation
Indices: 8720635--8720678 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8720625 TTAAACACTA
*
8720635 AGAGTCCTATCCTAATCACAT
1 AGAGTCCTATCCCAATCACAT
* *
8720656 AGAGTCTTATCCCATTCACAT
1 AGAGTCCTATCCCAATCACAT
8720677 AG
1 AG
8720679 CTCATTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (21 bp):
AGAGTCCTATCCCAATCACAT
Found at i:8728298 original size:15 final size:15
Alignment explanation
Indices: 8728278--8728308 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8728268 TTGAGTTAAT
8728278 TATTCAATTTAGTGC
1 TATTCAATTTAGTGC
8728293 TATTCAATTTAGTGC
1 TATTCAATTTAGTGC
8728308 T
1 T
8728309 TAAAATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (15 bp):
TATTCAATTTAGTGC
Found at i:8729238 original size:53 final size:53
Alignment explanation
Indices: 8729158--8729266 Score: 193
Period size: 53 Copynumber: 2.1 Consensus size: 53
8729148 AGAGAATAAC
*
8729158 AACCCTTAACAGCCTGGCAATGGTTACTTAAAACGGTGCGTTTTGTGCGAAA-A
1 AACCCTTAACAGCCTGGCAACGGTTACTTAAAACGGTGCGTTTTGTGC-AAACA
8729211 AACCCTTAACAGCCTGGCAACGGTTACTTAAAACGGTGCGTTTTGTGCAAACA
1 AACCCTTAACAGCCTGGCAACGGTTACTTAAAACGGTGCGTTTTGTGCAAACA
8729264 AAC
1 AAC
8729267 TAAGCCAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
52 3 0.06
53 51 0.94
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (53 bp):
AACCCTTAACAGCCTGGCAACGGTTACTTAAAACGGTGCGTTTTGTGCAAACA
Found at i:8730664 original size:11 final size:11
Alignment explanation
Indices: 8730631--8730664 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
8730621 GAACAAAAGT
8730631 AGCAAAAC-AA
1 AGCAAAACAAA
8730641 AGCTAAAACAAA
1 AGC-AAAACAAA
8730653 AGCAAAACAAA
1 AGCAAAACAAA
8730664 A
1 A
8730665 ATAACTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 14 0.64
12 5 0.23
ACGTcount: A:0.71, C:0.18, G:0.09, T:0.03
Consensus pattern (11 bp):
AGCAAAACAAA
Found at i:8734347 original size:2 final size:2
Alignment explanation
Indices: 8734340--8734365 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8734330 AGAAGGAAAA
8734340 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8734366 GAATGACTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8734717 original size:35 final size:35
Alignment explanation
Indices: 8734691--8734920 Score: 266
Period size: 35 Copynumber: 6.6 Consensus size: 35
8734681 CATGGCAAAG
*
8734691 TGTGAAACATAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* *
8734726 TGTGAAATGTAGGTATGATATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* * * *
8734761 TGTGAAACGTAAGTATGGTATTAACCATACCAAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* *
8734796 TGTGAAACGTAGGTATAGAATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* *
8734831 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
** * ** * *
8734866 TAAG-AACATAGGTATGACAT-TTACCATACCAAGT
1 TGTGAAACGTAGGTATGGTATCAT-CCATACCGAGT
*
8734900 TGTGAAATGTAGGTATGGTAT
1 TGTGAAACGTAGGTATGGTAT
8734921 TTCAATAAGG
Statistics
Matches: 160, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
33 1 0.01
34 24 0.15
35 135 0.84
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
Found at i:8737445 original size:23 final size:23
Alignment explanation
Indices: 8737415--8737499 Score: 88
Period size: 21 Copynumber: 3.9 Consensus size: 23
8737405 GCTTTACCGA
* *
8737415 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
8737438 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
8737459 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
8737481 T-AGGCACTTTATGTGTCGT
1 TCAGGCACCTCATGTGTCGT
8737500 GTACTGATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
21 35 0.65
22 1 0.02
23 18 0.33
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:8740809 original size:12 final size:11
Alignment explanation
Indices: 8740774--8740807 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
8740764 AAACAAATGC
8740774 AGCAAAAC-AA
1 AGCAAAACAAA
8740784 AGCTAAAACAAA
1 AGC-AAAACAAA
8740796 AGCAAAACAAA
1 AGCAAAACAAA
8740807 A
1 A
8740808 AGAACTGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 14 0.64
12 5 0.23
ACGTcount: A:0.71, C:0.18, G:0.09, T:0.03
Consensus pattern (11 bp):
AGCAAAACAAA
Found at i:8747636 original size:31 final size:31
Alignment explanation
Indices: 8747598--8747777 Score: 274
Period size: 31 Copynumber: 5.8 Consensus size: 31
8747588 ACAAATGACA
*
8747598 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
8747629 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
8747660 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
8747691 AGTAAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
8747722 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
8747753 AAT-AAATAGTGGTAGCTTCGGCTAC
1 AGTGAAA-AGTGGTAGCTTCGGCTAC
8747778 AAGTGACAAG
Statistics
Matches: 137, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
30 5 0.04
31 130 0.95
32 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:8747867 original size:46 final size:43
Alignment explanation
Indices: 8747807--8747946 Score: 151
Period size: 42 Copynumber: 3.2 Consensus size: 43
8747797 ATTTCCGTAG
* * *
8747807 AAGACCATATCTGGGATATGGCATCAATGAGATATGTGAT-TCGTGT
1 AAGACCATAGCTGGGCTATGGCATC-A-GAGATATG-AATAT-GTGT
*
8747853 AAGACCATAGCTGGGCTATGGCATC-GATATATGAATATGTGT
1 AAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTGT
* * * *
8747895 AAGACCATAGCCGGGCTATGGCATCAG-TATGTGAAGATGTGT
1 AAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTGT
8747937 AAGACCATAG
1 AAGACCATAG
8747947 TTGAACTATG
Statistics
Matches: 85, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
42 53 0.62
43 9 0.11
46 23 0.27
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (43 bp):
AAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTGT
Found at i:8747957 original size:42 final size:42
Alignment explanation
Indices: 8747849--8747946 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 42
8747839 TATGTGATTC
*
8747849 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
* *
8747891 GTGTAAGACCATAGCCGGGCTATGGCATC-AGTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGAT
8747933 GTGTAAGACCATAG
1 GTGTAAGACCATAG
8747947 TTGAACTATG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.02
42 51 0.98
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.26
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
Found at i:8759730 original size:21 final size:22
Alignment explanation
Indices: 8759701--8759747 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
8759691 CAGAAGGAGT
*
8759701 GAGTAGTACTTCACAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
*
8759723 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
8759744 GAGT
1 GAGT
8759748 TTGAGCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCACAGCAGGTG
Found at i:8764280 original size:29 final size:29
Alignment explanation
Indices: 8764240--8764305 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 29
8764230 TAGAGTTTCA
*
8764240 CATGTAT-CATTGCAC-TAAATTAAAGTT
1 CATGTATACATTGCACATAAATCAAAGTT
8764267 CATGTATACAATTGCACATTAAATCAAAGTT
1 CATGTATAC-ATTGCACA-TAAATCAAAGTT
*
8764298 CACGTATA
1 CATGTATA
8764306 ATTTTGAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 7 0.21
28 1 0.03
29 7 0.21
31 18 0.55
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (29 bp):
CATGTATACATTGCACATAAATCAAAGTT
Done.