Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 18 of 427
Found at i:4987411 original size:27 final size:25
Alignment explanation
Indices: 4987352--4987412 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
4987342 TAATAAACAA
*
4987352 ATTTTTTAA-AAAAAATAATAATAT
1 ATTTTATAATAAAAAATAATAATAT
**
4987376 ATTGGATAATAAAAAATAATATATACT
1 ATTTTATAATAAAAAATAATA-ATA-T
4987403 ATTTTATAAT
1 ATTTTATAAT
4987413 TAATATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 6 0.21
25 11 0.38
26 3 0.10
27 9 0.31
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTTTATAATAAAAAATAATAATAT
Found at i:4990323 original size:39 final size:39
Alignment explanation
Indices: 4990263--4990345 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
4990253 TTTGTTGGCT
*
4990263 AAACCATTCTGAGATTCCACTTCCGGGCATAATAATATC
1 AAACCATTCTGAGATTCCACTTCCAGGCATAATAATATC
* * *
4990302 AAACCATTCTGGGATTTCACTTCCAGGCATAGTAATATC
1 AAACCATTCTGAGATTCCACTTCCAGGCATAATAATATC
4990341 AAACC
1 AAACC
4990346 TTTTCCTTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (39 bp):
AAACCATTCTGAGATTCCACTTCCAGGCATAATAATATC
Found at i:4995458 original size:21 final size:21
Alignment explanation
Indices: 4995409--4995467 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
4995399 ATAATAAATT
*
4995409 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
4995429 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
4995451 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
4995468 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:4996047 original size:38 final size:38
Alignment explanation
Indices: 4995987--4996066 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 38
4995977 CAGTATTTAA
*
4995987 TTAATTTTTTAATTTTTAAAAAATATTTTTTATAATTT
1 TTAATTTTTTAATTTTTAAAAAATATTTTTTATAAATT
*
4996025 TTAATATTTTTAATTTTT-AAAAATATTTTTTTTAAATT
1 TTAAT-TTTTTAATTTTTAAAAAATATTTTTTATAAATT
4996063 TTAA
1 TTAA
4996067 AACATTAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
38 27 0.69
39 12 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (38 bp):
TTAATTTTTTAATTTTTAAAAAATATTTTTTATAAATT
Found at i:4996698 original size:18 final size:18
Alignment explanation
Indices: 4996661--4996701 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4996651 ATGGCCCTCC
** *
4996661 AAAATTTAATTTTTTTTA
1 AAAATTTAATCCTTTGTA
4996679 AAAATTTAATCCTTTGTA
1 AAAATTTAATCCTTTGTA
4996697 AAAAT
1 AAAAT
4996702 ACTATGACCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (18 bp):
AAAATTTAATCCTTTGTA
Found at i:4997277 original size:15 final size:14
Alignment explanation
Indices: 4997246--4997284 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
4997236 GTTAGCCAGT
*
4997246 AAAATATTTTATGA
1 AAAATAATTTATGA
*
4997260 AAAATAATTTCTGA
1 AAAATAATTTATGA
4997274 AAAATAATTTA
1 AAAATAATTTA
4997285 CTTTTCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (14 bp):
AAAATAATTTATGA
Found at i:4997297 original size:19 final size:19
Alignment explanation
Indices: 4997267--4997311 Score: 81
Period size: 19 Copynumber: 2.3 Consensus size: 19
4997257 TGAAAAATAA
4997267 TTTCTGAAAAATAATTTACT
1 TTTCT-AAAAATAATTTACT
4997287 TTTCTAAAAATAATTTACT
1 TTTCTAAAAATAATTTACT
4997306 TTTCTA
1 TTTCTA
4997312 GTGTTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (19 bp):
TTTCTAAAAATAATTTACT
Found at i:4999014 original size:25 final size:25
Alignment explanation
Indices: 4998963--4999015 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
4998953 TTGATCACTC
* **
4998963 AAACTCATCTTTTGAGTTGGAATAA
1 AAACTCATCCTTTGAGAGGGAATAA
4998988 AAACTCATCCTTTGAGAAGGGAA-AA
1 AAACTCATCCTTTGAG-AGGGAATAA
4999013 AAA
1 AAA
4999016 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (25 bp):
AAACTCATCCTTTGAGAGGGAATAA
Found at i:4999265 original size:28 final size:28
Alignment explanation
Indices: 4999234--4999290 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
4999224 CAATTAAAAG
4999234 TATATTTTCTTAATCAAGACTGCATCGA
1 TATATTTTCTTAATCAAGACTGCATCGA
*
4999262 TATATTTTCTTAATCAAGGCTGCATCGA
1 TATATTTTCTTAATCAAGACTGCATCGA
4999290 T
1 T
4999291 CATCTCCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (28 bp):
TATATTTTCTTAATCAAGACTGCATCGA
Found at i:5000555 original size:14 final size:14
Alignment explanation
Indices: 5000536--5000563 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5000526 AAAAAAGCCT
5000536 GAAAACCTTTTACA
1 GAAAACCTTTTACA
5000550 GAAAACCTTTTACA
1 GAAAACCTTTTACA
5000564 TGTTACCAAA
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:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
GAAAACCTTTTACA
Found at i:5001230 original size:41 final size:40
Alignment explanation
Indices: 5001175--5001328 Score: 218
Period size: 40 Copynumber: 3.8 Consensus size: 40
5001165 AAAAGCCACA
5001175 AATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAATAGAGC
1 AATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAATAGAGC
* * * *
5001215 AATAGCTGCGTTTTTTGCGAAGCGCCGCTAAAAACAGAGC
1 AATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAATAGAGC
*** *
5001255 AATAGTAACGTTTTTAGCAAAGCGCCGCTAAAAAATAGAGC
1 AATAGCGGCGTTTTTGGCAAAGCGCCGCT-AAAAATAGAGC
*
5001296 AATAGCGGCGTTTTTGACAAAGCGCCGCTAAAA
1 AATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAA
5001329 GTCATATAAC
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 64 0.65
41 34 0.35
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (40 bp):
AATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAATAGAGC
Found at i:5001936 original size:21 final size:21
Alignment explanation
Indices: 5001880--5001925 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
5001870 TTTAATCGTT
* * *
5001880 TAAAGTTTAGATGATAAGGGG
1 TAAAGGTTAGAGGTTAAGGGG
*
5001901 TAAGGGTTAGAGGTTAAGGGG
1 TAAAGGTTAGAGGTTAAGGGG
5001922 TAAA
1 TAAA
5001926 AGTTTAGGGT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.26
Consensus pattern (21 bp):
TAAAGGTTAGAGGTTAAGGGG
Found at i:5002070 original size:19 final size:20
Alignment explanation
Indices: 5002035--5002078 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
5002025 CAAATTTTAA
*
5002035 AAAAATATTGATAAATAAAT
1 AAAAACATTGATAAATAAAT
5002055 AAAAACATTGAT-AATAAAT
1 AAAAACATTGATAAATAAAT
5002074 AAAAA
1 AAAAA
5002079 TGAAATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAAACATTGATAAATAAAT
Found at i:5002334 original size:6 final size:6
Alignment explanation
Indices: 5002318--5002348 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
5002308 ACCCATACGA
*
5002318 TCCCTT CCCCTT TCCCTT TCCCTT TCCCTT T
1 TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT T
5002349 GGTTTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (6 bp):
TCCCTT
Found at i:5005780 original size:19 final size:21
Alignment explanation
Indices: 5005752--5005799 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
5005742 TTATTATTTA
5005752 TTTTAGTTTTGATTATAA-AT
1 TTTTAGTTTTGATTATAATAT
* *
5005772 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTATAATAT
5005792 TTTTAGTT
1 TTTTAGTT
5005800 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTATAATAT
Found at i:5005781 original size:20 final size:20
Alignment explanation
Indices: 5005740--5005799 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
5005730 TTAATCTAAT
*
5005740 TTTTATTAT-TTA-TTTTAG
1 TTTTATTATAATATTTTTAG
*
5005758 TTTTGATTATAA-ATTTTTAT
1 TTTT-ATTATAATATTTTTAG
*
5005778 TTTTATTTTAATATTTTTAG
1 TTTTATTATAATATTTTTAG
5005798 TT
1 TT
5005800 AAAATTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 4 0.12
19 12 0.35
20 18 0.53
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTTATTATAATATTTTTAG
Found at i:5005874 original size:19 final size:17
Alignment explanation
Indices: 5005846--5005904 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
5005836 TTGATAATGA
5005846 ATTTTA-ATTTTTTTAT
1 ATTTTATATTTTTTTAT
* *
5005862 ATTTTCATGATTTTATAAT
1 ATTTT-AT-ATTTTTTTAT
* *
5005881 ATTTTATTTTTTTTTAA
1 ATTTTATATTTTTTTAT
5005898 ATTTTAT
1 ATTTTAT
5005905 TACCTTTAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 5 0.15
17 14 0.41
18 2 0.06
19 13 0.38
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (17 bp):
ATTTTATATTTTTTTAT
Found at i:5010081 original size:62 final size:62
Alignment explanation
Indices: 5009984--5010107 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
5009974 TGCACAGTAT
*
5009984 GATTGATTTTGTTGGGGTTTTGACAGTAGTAAAAGAAGATAACAAGACAGAGAACAAAAGAG
1 GATTGATTTTGTTGGGGTTTTGACAGTAGCAAAAGAAGATAACAAGACAGAGAACAAAAGAG
*
5010046 GATTGATTTTGTTGGGGTTTTGACAGTAGCAAAAGAAGATAACAAGACAGAGAGCAAAAGAG
1 GATTGATTTTGTTGGGGTTTTGACAGTAGCAAAAGAAGATAACAAGACAGAGAACAAAAGAG
5010108 CAAGAAGCTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.41, C:0.07, G:0.28, T:0.23
Consensus pattern (62 bp):
GATTGATTTTGTTGGGGTTTTGACAGTAGCAAAAGAAGATAACAAGACAGAGAACAAAAGAG
Found at i:5010903 original size:19 final size:19
Alignment explanation
Indices: 5010879--5010917 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
5010869 TCACAATTTT
5010879 ATATAATCTTTTCTCTATC
1 ATATAATCTTTTCTCTATC
5010898 ATATAATCTTTTCTCTATC
1 ATATAATCTTTTCTCTATC
5010917 A
1 A
5010918 CTAGTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATAATCTTTTCTCTATC
Found at i:5016956 original size:9 final size:9
Alignment explanation
Indices: 5016944--5017007 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
5016934 GTATTTAATT
5016944 AATTTTTAA
1 AATTTTTAA
5016953 AATTTTTAAAA
1 AATTTTT--AA
*
5016964 ATATTTTTAT
1 A-ATTTTTAA
5016974 AATTTTTAA
1 AATTTTTAA
*
5016983 TATTTTT-A
1 AATTTTTAA
*
5016991 AATTTTAAA
1 AATTTTTAA
5017000 AATATTTT
1 AAT-TTTT
5017008 TTATTTTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 6 0.14
9 24 0.55
10 5 0.11
11 3 0.07
12 6 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATTTTTAA
Found at i:5016997 original size:37 final size:38
Alignment explanation
Indices: 5016945--5017019 Score: 118
Period size: 37 Copynumber: 2.0 Consensus size: 38
5016935 TATTTAATTA
5016945 ATTTTTAAAATTTTTAAAAATATTTTTATAATTTTTAAT
1 ATTTTTAAAATTTTTAAAAATATTTTT-TAATTTTTAAT
*
5016984 ATTTTT-AAA-TTTTAAAAATATTTTTTATTTTTTAAT
1 ATTTTTAAAATTTTTAAAAATATTTTTTAATTTTTAAT
5017020 TTAAAAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
36 10 0.29
37 16 0.46
38 3 0.09
39 6 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (38 bp):
ATTTTTAAAATTTTTAAAAATATTTTTTAATTTTTAAT
Found at i:5016998 original size:16 final size:18
Alignment explanation
Indices: 5016963--5017019 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
5016953 AATTTTTAAA
5016963 AATATTTTTATAATTTTT
1 AATATTTTTATAATTTTT
*
5016981 AATATTTTTA-AATTTTAAA
1 AATATTTTTATAATTTT--T
*
5017000 AATATTTTT-TATTTTTT
1 AATATTTTTATAATTTTT
5017017 AAT
1 AAT
5017020 TTAAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 9 0.27
18 10 0.30
19 14 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
AATATTTTTATAATTTTT
Found at i:5023869 original size:9 final size:9
Alignment explanation
Indices: 5023855--5023884 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
5023845 TTTCAGGAAC
5023855 TTTTTAAAA
1 TTTTTAAAA
5023864 TTTTTAAAA
1 TTTTTAAAA
5023873 -TTTTAAAA
1 TTTTTAAAA
5023881 TTTT
1 TTTT
5023885 GGATAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:5024181 original size:17 final size:16
Alignment explanation
Indices: 5024155--5024187 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
5024145 TTTACAAATG
5024155 AAAAAAAATAATTATA
1 AAAAAAAATAATTATA
5024171 AAAAAATAATAATTATA
1 AAAAAA-AATAATTATA
5024188 TTAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAAAAATAATTATA
Found at i:5028826 original size:44 final size:45
Alignment explanation
Indices: 5028767--5028859 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 45
5028757 ATACCATCAC
* *
5028767 AAATATTGAACTAAACTGAGTAATAGAAAAATAATTTAAATATAA
1 AAATATTGAACTAAACCGAATAATAGAAAAATAATTTAAATATAA
* ** *
5028812 AAAT-TTGGACTAAACCGAATAATAGAATGATAATTTAAATATTA
1 AAATATTGAACTAAACCGAATAATAGAAAAATAATTTAAATATAA
5028856 AAAT
1 AAAT
5028860 GAAAAAAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 38 0.90
45 4 0.10
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (45 bp):
AAATATTGAACTAAACCGAATAATAGAAAAATAATTTAAATATAA
Found at i:5029045 original size:13 final size:14
Alignment explanation
Indices: 5029029--5029062 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
5029019 TTTAAAGGTT
5029029 TATTTTATAAA-TA
1 TATTTTATAAATTA
5029042 TATTTT-TAAATTA
1 TATTTTATAAATTA
5029055 TATTTTAT
1 TATTTTAT
5029063 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 14 0.74
14 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTTTATAAATTA
Found at i:5029058 original size:26 final size:25
Alignment explanation
Indices: 5029012--5029062 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
5029002 ATGACCTGAT
5029012 AATATATTTTAAAGGTTTATTTTATA
1 AATATATTTTAAA-GTTTATTTTATA
5029038 AATATATTTTTAAA-TTATATTTTAT
1 AATATA-TTTTAAAGTT-TATTTTAT
5029063 TTTATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 2 0.09
26 14 0.61
27 7 0.30
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (25 bp):
AATATATTTTAAAGTTTATTTTATA
Found at i:5030025 original size:19 final size:18
Alignment explanation
Indices: 5030001--5030073 Score: 62
Period size: 19 Copynumber: 3.9 Consensus size: 18
5029991 TTTTGGAAGG
5030001 TTTAAATAAAAATATTAAA
1 TTTAAA-AAAAATATTAAA
*
5030020 TTTAAAAAATAAGATTTAATA
1 TTTAAAAAA-AATA-TTAA-A
*
5030041 TTT-TAAAAAATA-T-AA
1 TTTAAAAAAAATATTAAA
5030056 TTTAAATAAAAATATTAA
1 TTTAAA-AAAAATATTAA
5030074 TCTCATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
15 4 0.09
16 2 0.05
17 8 0.19
18 4 0.09
19 13 0.30
20 8 0.19
21 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (18 bp):
TTTAAAAAAAATATTAAA
Found at i:5030031 original size:22 final size:23
Alignment explanation
Indices: 5030004--5030060 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
5029994 TGGAAGGTTT
5030004 AAATAAAAATATTAA-A-TTTAAA
1 AAATAAAAAT-TTAATATTTTAAA
*
5030026 AAAT-AAGATTTAATATTTTAAA
1 AAATAAAAATTTAATATTTTAAA
*
5030048 AAAT-ATAATTTAA
1 AAATAAAAATTTAA
5030061 ATAAAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 4 0.13
21 5 0.17
22 21 0.70
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAAAATTTAATATTTTAAA
Found at i:5048452 original size:21 final size:21
Alignment explanation
Indices: 5048428--5048493 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
5048418 ATTTATTTTT
5048428 TAAAATTCTTTTTAATATTTG
1 TAAAATTCTTTTTAATATTTG
* ** * *
5048449 TAAACTAAATATTT-AT-TTTT
1 TAAAAT-TCTTTTTAATATTTG
*
5048469 TAAAATTCTTTTTAATAGTTG
1 TAAAATTCTTTTTAATATTTG
5048490 TAAA
1 TAAA
5048494 CATCAAACAT
Statistics
Matches: 31, Mismatches: 11, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
19 4 0.13
20 10 0.32
21 13 0.42
22 4 0.13
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (21 bp):
TAAAATTCTTTTTAATATTTG
Found at i:5048458 original size:41 final size:41
Alignment explanation
Indices: 5048413--5048494 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
5048403 GCAATGTAAT
*
5048413 TAAATATTTATTTTTTAAAATTCTTTTTAATATTTGTAAAC
1 TAAATATTTATTTTTTAAAATTCTTTTTAATAGTTGTAAAC
5048454 TAAATATTTATTTTTTAAAATTCTTTTTAATAGTTGTAAAC
1 TAAATATTTATTTTTTAAAATTCTTTTTAATAGTTGTAAAC
5048495 ATCAAACATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.55
Consensus pattern (41 bp):
TAAATATTTATTTTTTAAAATTCTTTTTAATAGTTGTAAAC
Found at i:5051221 original size:11 final size:11
Alignment explanation
Indices: 5051194--5051236 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
5051184 TGACCTTTCC
5051194 AAGGTATGGG-
1 AAGGTATGGGA
*
5051204 TAGGTATGGGA
1 AAGGTATGGGA
*
5051215 AAGGTATGGGC
1 AAGGTATGGGA
5051226 AAGGTATGGGA
1 AAGGTATGGGA
5051237 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:5051233 original size:22 final size:21
Alignment explanation
Indices: 5051194--5051236 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
5051184 TGACCTTTCC
*
5051194 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
5051215 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
5051237 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:5055868 original size:11 final size:11
Alignment explanation
Indices: 5055841--5055883 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
5055831 TGACCTTTCC
5055841 AAGGTATGGG-
1 AAGGTATGGGA
*
5055851 TAGGTATGGGA
1 AAGGTATGGGA
*
5055862 AAGGTATGGGC
1 AAGGTATGGGA
5055873 AAGGTATGGGA
1 AAGGTATGGGA
5055884 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:5055880 original size:22 final size:21
Alignment explanation
Indices: 5055841--5055883 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
5055831 TGACCTTTCC
*
5055841 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
5055862 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
5055884 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:5056031 original size:4 final size:4
Alignment explanation
Indices: 5056022--5056054 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
5056012 GTGTCCATGG
5056022 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
5056055 CTTTCTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:5057992 original size:32 final size:32
Alignment explanation
Indices: 5057951--5058014 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
5057941 AGTTAGGATG
*
5057951 ATAGCAATTCTGATTTAGAGCGACCTTGAGAA
1 ATAGCAATTCTGATTTAAAGCGACCTTGAGAA
*
5057983 ATAGCAATTCTGATTTAAAGCGATCTTGAGAA
1 ATAGCAATTCTGATTTAAAGCGACCTTGAGAA
5058015 GGTTCTTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (32 bp):
ATAGCAATTCTGATTTAAAGCGACCTTGAGAA
Found at i:5063123 original size:40 final size:38
Alignment explanation
Indices: 5063079--5063207 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 38
5063069 GACTCGCTCA
* *
5063079 AATGCCTTCGGGACGAAGCCCGGTTATATCGACTTGCACG
1 AATGCCTTCGGGACTAAGCCCGGTT-TAT-AACTTGCACG
5063119 AATGCCTTCGGGACTTAA-CCCGGGTTTAGTAACTTGCAC-
1 AATGCCTTCGGGAC-TAAGCCC-GGTTTA-TAACTTGCACG
* * *
5063158 AAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTAAGCCCGG-TTTA-TAACTTGCACG
5063197 AATGCCTTCGG
1 AATGCCTTCGG
5063208 ATCCTAGTCC
Statistics
Matches: 76, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
37 4 0.05
38 16 0.21
39 22 0.29
40 27 0.36
41 7 0.09
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (38 bp):
AATGCCTTCGGGACTAAGCCCGGTTTATAACTTGCACG
Found at i:5063207 original size:78 final size:80
Alignment explanation
Indices: 5063077--5063260 Score: 214
Period size: 78 Copynumber: 2.3 Consensus size: 80
5063067 ACGACTCGCT
** ** * *
5063077 CAAATGCCTTCGGGACGAAGCCCGG-TTATATCGACTTGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
5063140 GGGTTTAGTAACTT-GCA
63 GGATATAGTAACTTAGCA
**
5063157 CAAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
*
5063221 TATAGTCACTTAGCA
66 TATAGTAACTTAGCA
5063236 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
5063261 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
77 3 0.03
78 43 0.48
79 29 0.33
80 14 0.16
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
TATAGTAACTTAGCA
Found at i:5063244 original size:40 final size:37
Alignment explanation
Indices: 5063110--5063260 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 37
5063100 GGTTATATCG
* * * *
5063110 ACTTGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTTGCAC-AAAGCCTTC-GGA-TTAGCCCGGATATAGTA
* *
5063150 ACTTGCACAAAGCCTTCGGGATTAGCCCGGATTTATTA
1 ACTTGCACAAAGCCTTC-GGATTAGCCCGGATATAGTA
* * * *
5063188 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTC
1 ACTTGCAC-AAAGCCTTCGGAT--TAGCCCGGATATAGTA
5063228 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 ACTT-GCACAAAGCCTTC-GGA-TTAGCCCGGA
5063261 CATCATTCGA
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 25 0.27
39 20 0.22
40 39 0.42
41 7 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (37 bp):
ACTTGCACAAAGCCTTCGGATTAGCCCGGATATAGTA
Found at i:5071179 original size:40 final size:38
Alignment explanation
Indices: 5071133--5071261 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 38
5071123 AACTCGCTCA
* *
5071133 AATGCCTTCGGGACGAAGCCCGGTTATATCGACTTGCACG
1 AATGCCTTCGGGACTAAGCCCGGTT-TAT-AACTTGCACG
5071173 AATGCCTTCGGGACTTAA-CCCGGGTTTAGTAACTTGCAC-
1 AATGCCTTCGGGAC-TAAGCCC-GGTTTA-TAACTTGCACG
* * *
5071212 AAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTAAGCCCGG-TTTA-TAACTTGCACG
5071251 AATGCCTTCGG
1 AATGCCTTCGG
5071262 ATCCTAGTCC
Statistics
Matches: 76, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
37 4 0.05
38 16 0.21
39 22 0.29
40 27 0.36
41 7 0.09
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (38 bp):
AATGCCTTCGGGACTAAGCCCGGTTTATAACTTGCACG
Found at i:5071261 original size:78 final size:80
Alignment explanation
Indices: 5071131--5071314 Score: 214
Period size: 78 Copynumber: 2.3 Consensus size: 80
5071121 ACAACTCGCT
** ** * *
5071131 CAAATGCCTTCGGGACGAAGCCCGG-TTATATCGACTTGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
5071194 GGGTTTAGTAACTT-GCA
63 GGATATAGTAACTTAGCA
**
5071211 CAAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
*
5071275 TATAGTCACTTAGCA
66 TATAGTAACTTAGCA
5071290 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
5071315 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
77 3 0.03
78 43 0.48
79 29 0.33
80 14 0.16
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
TATAGTAACTTAGCA
Found at i:5071298 original size:40 final size:37
Alignment explanation
Indices: 5071164--5071314 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 37
5071154 GGTTATATCG
* * * *
5071164 ACTTGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTTGCAC-AAAGCCTTC-GGA-TTAGCCCGGATATAGTA
* *
5071204 ACTTGCACAAAGCCTTCGGGATTAGCCCGGATTTATTA
1 ACTTGCACAAAGCCTTC-GGATTAGCCCGGATATAGTA
* * * *
5071242 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTC
1 ACTTGCAC-AAAGCCTTCGGAT--TAGCCCGGATATAGTA
5071282 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 ACTT-GCACAAAGCCTTC-GGA-TTAGCCCGGA
5071315 CATCATTCGA
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 25 0.27
39 20 0.22
40 39 0.42
41 7 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (37 bp):
ACTTGCACAAAGCCTTCGGATTAGCCCGGATATAGTA
Found at i:5078668 original size:18 final size:18
Alignment explanation
Indices: 5078649--5078723 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 18
5078639 CCTAACTACT
* * *
5078649 GTATACGTGAACAGTACT
1 GTATACGTAAATAGTACC
*
5078667 GTATATGTAAATAGTACC
1 GTATACGTAAATAGTACC
*
5078685 GTATACGTAAATAGTGCC
1 GTATACGTAAATAGTACC
* *
5078703 GTATACGTGAATAGTGCC
1 GTATACGTAAATAGTACC
5078721 GTA
1 GTA
5078724 AATGGTCGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTAAATAGTACC
Found at i:5080325 original size:22 final size:22
Alignment explanation
Indices: 5080299--5080340 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5080289 ATGCTGCAAA
* *
5080299 ACCATGCAATTTTCAGCAATTT
1 ACCATGCAATTGTCAACAATTT
5080321 ACCATGCAATTGTCAACAAT
1 ACCATGCAATTGTCAACAAT
5080341 ATAGATATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.31
Consensus pattern (22 bp):
ACCATGCAATTGTCAACAATTT
Found at i:5082141 original size:21 final size:21
Alignment explanation
Indices: 5082115--5082166 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
5082105 GACATTATTC
*
5082115 AAAAATATATATTAAAAAAGT
1 AAAAATATAAATTAAAAAAGT
* *
5082136 AAAAATTTAAATTAAAAAATT
1 AAAAATATAAATTAAAAAAGT
*
5082157 AAAACTATAA
1 AAAAATATAA
5082167 CTTATAATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATATAAATTAAAAAAGT
Found at i:5082344 original size:15 final size:14
Alignment explanation
Indices: 5082313--5082347 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
5082303 AAGTAAGTTA
5082313 TTTATAATTTTTAT
1 TTTATAATTTTTAT
*
5082327 TTTATATTTTTATAT
1 TTTATAATTTT-TAT
5082342 TTTATA
1 TTTATA
5082348 GTTATTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATAATTTTTAT
Found at i:5090911 original size:10 final size:10
Alignment explanation
Indices: 5090892--5090941 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
5090882 TGAAATTCTA
5090892 AAAGATAAAT
1 AAAGATAAAT
5090902 ACAA-ATAAAT
1 A-AAGATAAAT
*
5090912 AAAGATAATT
1 AAAGATAAAT
5090922 AAAGATAAAT
1 AAAGATAAAT
5090932 GAAA-ATAAAT
1 -AAAGATAAAT
5090942 CCTAAAATTA
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:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:5091312 original size:30 final size:30
Alignment explanation
Indices: 5091276--5091379 Score: 102
Period size: 30 Copynumber: 3.5 Consensus size: 30
5091266 GTCGCAGAGC
*
5091276 AGTTCATATCACCCGGACATTAGTGGTTCA
1 AGTTCATATCACCCGGACATTAGCGGTTCA
* ** * *
5091306 AGTTCATATCACTCGGACATGGGCAGTTCG
1 AGTTCATATCACCCGGACATTAGCGGTTCA
**
5091336 AGTTCATATCACCTAGACA-TAGGCGGTTCA
1 AGTTCATATCACCCGGACATTA-GCGGTTCA
* *
5091366 AGTTTATTTCACCC
1 AGTTCATATCACCC
5091380 AGAGCAACCA
Statistics
Matches: 57, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATTAGCGGTTCA
Found at i:5094766 original size:12 final size:13
Alignment explanation
Indices: 5094713--5094764 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 13
5094703 AATGTTTGAA
5094713 TATATTT-AAAAT
1 TATATTTAAAAAT
5094725 TA-ATTTAAAAAT
1 TATATTTAAAAAT
5094737 TAATAATTTATAAAAAT
1 T-AT-A-TT-TAAAAAT
5094754 TATATTTAAAA
1 TATATTTAAAA
5094765 TTTTAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
11 4 0.12
12 8 0.24
13 6 0.18
14 2 0.06
15 2 0.06
16 4 0.12
17 8 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATATTTAAAAAT
Found at i:5094792 original size:31 final size:29
Alignment explanation
Indices: 5094673--5094806 Score: 96
Period size: 31 Copynumber: 4.4 Consensus size: 29
5094663 ATAAAATATT
*
5094673 AATTTTAAAAATTTT-AAATTTAATTTAAAA
1 AATTTTAAAAATTTTAAAATATAATTT--AA
* *
5094703 AATGTTTGAATATATTTAAAAT-TAATTTAA
1 AAT-TTTAAAAAT-TTTAAAATATAATTTAA
* *
5094733 AA-ATTAATAATTTATAAAA-ATTATATTTAA
1 AATTTTAAAAATTT-TAAAATA-TA-ATTTAA
5094763 AATTTTAAAAATATTTAAAATATACATTTAA
1 AATTTTAAAAAT-TTTAAAATATA-ATTTAA
5094794 AATATTATAAAAA
1 AAT-TT-TAAAAA
5094807 AATAATAAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
27 2 0.02
28 10 0.12
29 2 0.02
30 15 0.18
31 30 0.36
32 14 0.17
33 10 0.12
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (29 bp):
AATTTTAAAAATTTTAAAATATAATTTAA
Found at i:5094985 original size:21 final size:21
Alignment explanation
Indices: 5094892--5094987 Score: 58
Period size: 20 Copynumber: 4.5 Consensus size: 21
5094882 ACAAATTTAA
* *
5094892 ATATTTAAAAT-TTAAAATAT
1 ATATTTAAAATATTTAAATGT
* **
5094912 ACATTTAAAATATTATAAAACT
1 ATATTTAAAATATT-TAAATGT
5094934 A-A--TAACAA-ATTTGAAATGT
1 ATATTTAA-AATATTT-AAATGT
5094953 CATATTTTTAAAATATTTAAATGT
1 -ATA--TTTAAAATATTTAAATGT
5094977 ATATTTAAAAT
1 ATATTTAAAAT
5094988 TAAAAAAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
18 1 0.02
19 10 0.17
20 13 0.22
21 12 0.20
22 5 0.08
23 3 0.05
24 8 0.14
25 7 0.12
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (21 bp):
ATATTTAAAATATTTAAATGT
Found at i:5097544 original size:22 final size:21
Alignment explanation
Indices: 5097514--5097560 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
5097504 TACAAATTAA
5097514 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
5097536 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
5097557 ATCT
1 ATCT
5097561 AAAATTGCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:5097569 original size:19 final size:21
Alignment explanation
Indices: 5097531--5097569 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
5097521 AGATTACAAG
*
5097531 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAAATTGCAT
5097552 ATCATATC-T-AAAATTGCA
1 ATCATATCTTCAAAATTGCA
5097570 CATCCTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (21 bp):
ATCATATCTTCAAAATTGCAT
Found at i:5098046 original size:44 final size:45
Alignment explanation
Indices: 5097924--5098123 Score: 231
Period size: 45 Copynumber: 4.5 Consensus size: 45
5097914 GGAAGGCGAT
* * * *
5097924 ATCTGCTATCTTTGATCTGCTCCTCATCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
5097969 ATCTGTTATTTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * *
5098014 ATTTGCT-TCTTCAATCTGCCCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * *
5098058 ATCTGTTATCTCCGATTTGCTCCCCGTTTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
5098103 ATCTGTCATATTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
5098124 TCGATGTAAA
Statistics
Matches: 130, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
44 38 0.29
45 92 0.71
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:5098317 original size:46 final size:46
Alignment explanation
Indices: 5098246--5098465 Score: 168
Period size: 46 Copynumber: 4.8 Consensus size: 46
5098236 CATGCTGAAA
* *
5098246 TCTTCAATCTGCTTCACTGTAAACACAGGAATGTCAAATCTGCTATG
1 TCTTCGATCTG-TTCCCTGTAAACACAGGAATGTCAAATCTGCTATG
* *
5098293 TCTTCGATCTGTTCCCTGTAAACACAGGGAT-ACTAAATCTGCTA--
1 TCTTCGATCTGTTCCCTGTAAACACAGGAATGTC-AAATCTGCTATG
* * * * * * **
5098337 TCTTC-AACTTGTTCCTTATAAACACAGGGATG-C-CA--TGTTAAAA
1 TCTTCGATC-TGTTCCCTGTAAACACAGGAATGTCAAATCTGCT-ATG
* * * * *
5098380 TCTTTGATCTGCTTCGCTGTAAGCACAAGAATGTCAGATCTGCTATG
1 TCTTCGATCTG-TTCCCTGTAAACACAGGAATGTCAAATCTGCTATG
* *
5098427 TCTTCGATCTGTTTCCTGTAAACACAGGAATGCCAAATC
1 TCTTCGATCTGTTCCCTGTAAACACAGGAATGTCAAATC
5098466 ATTTTGGATC
Statistics
Matches: 133, Mismatches: 28, Indels: 25
0.72 0.15 0.13
Matches are distributed among these distances:
40 3 0.02
41 1 0.01
42 1 0.01
43 8 0.06
44 43 0.32
45 2 0.02
46 51 0.38
47 21 0.16
48 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (46 bp):
TCTTCGATCTGTTCCCTGTAAACACAGGAATGTCAAATCTGCTATG
Found at i:5098359 original size:44 final size:43
Alignment explanation
Indices: 5098193--5098367 Score: 133
Period size: 44 Copynumber: 4.0 Consensus size: 43
5098183 TGGAGATGCC
* *
5098193 AAATCTACTATCTTCAA-CTTGCTCCCTATAAACACAGGGATGC-
1 AAATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGAT-CT
* ** * * * *
5098236 -CATGCTGAAATCTTCAATCTGCTTCACTGTAAACACAGGAATGT
1 AAAT-CTGCTATCTTCAATCTG-TTCCCTATAAACACAGGGATCT
* *
5098280 CAAATCTGCTATGTCTTCGATCTGTTCCCTGTAAACACAGGGATACT
1 -AAATCTGCTA--TCTTCAATCTGTTCCCTATAAACACAGGGAT-CT
*
5098327 AAATCTGCTATCTTCAA-CTTGTTCCTTATAAACACAGGGAT
1 AAATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGAT
5098368 GCCATGTTAA
Statistics
Matches: 103, Mismatches: 19, Indels: 19
0.73 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 13 0.13
44 43 0.42
45 4 0.04
46 30 0.29
47 11 0.11
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (43 bp):
AAATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATCT
Found at i:5098465 original size:134 final size:134
Alignment explanation
Indices: 5098188--5098465 Score: 421
Period size: 134 Copynumber: 2.1 Consensus size: 134
5098178 GAATATGGAG
*
5098188 ATGCCAAATCTACTATCTTCAACTTGCTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAA
1 ATGCCAAATCTACTATCTTCAACTTGCTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCAA
*
5098253 TCTGCTTCACTGTAAACACAGGAATGTCAAATCTGCTATGTCTTCGATCTGTTCCCTGTAAACAC
66 TCTGCTTCACTGTAAACACAAGAATGTCAAATCTGCTATGTCTTCGATCTGTTCCCTGTAAACAC
*
5098318 AGGG
131 AGGA
* * * * * * **
5098322 ATACTAAATCTGCTATCTTCAACTTGTTCCTTATAAACACAGGGATGCCATGTTAAAATCTTTGA
1 ATGCCAAATCTACTATCTTCAACTTGCTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCAA
* * * *
5098387 TCTGCTTCGCTGTAAGCACAAGAATGTCAGATCTGCTATGTCTTCGATCTGTTTCCTGTAAACAC
66 TCTGCTTCACTGTAAACACAAGAATGTCAAATCTGCTATGTCTTCGATCTGTTCCCTGTAAACAC
5098452 AGGA
131 AGGA
5098456 ATGCCAAATC
1 ATGCCAAATC
5098466 ATTTTGGATC
Statistics
Matches: 127, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
134 127 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (134 bp):
ATGCCAAATCTACTATCTTCAACTTGCTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCAA
TCTGCTTCACTGTAAACACAAGAATGTCAAATCTGCTATGTCTTCGATCTGTTCCCTGTAAACAC
AGGA
Found at i:5098576 original size:44 final size:44
Alignment explanation
Indices: 5098518--5099784 Score: 541
Period size: 44 Copynumber: 29.0 Consensus size: 44
5098508 GTTGTTCTTC
* * * *
5098518 TCTTTGATATGCTCTCTGACAATACAGAGATGCCAAATCTTCTA
1 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTA
* *
5098562 TCTTCGATCTGCTCTCTGCCAATACAAAGACGCCAAATCTAT-TA
1 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATC-ATCTA
* * *
5098606 TCTTCGATCTGCTCTCTGCCAATACAGAGATGTCAAATCTAT-TA
1 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATC-ATCTA
* * * *
5098650 TCTTCAATCTGCTCTCTGCCAATATAGAGATGCC-AA--ATC-A
1 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTA
* * * * *
5098690 TCTTAGA-CTTGCT-T-TAACGTAA-ACACGTGAAAGCCAAATCAACTA
1 TCTTCGATC-TGCTCTCTGAC--AATACA-GAG-ACGCCAAATCATCTA
* *
5098735 TGTCTTCGATCTGCTCCCTGCCAATACAGAGACGCC-AA--ATC-A
1 --TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTA
* * * * *
5098777 TCTTAGATTTGCT-TCAATGTA-AACACATGA-AAGCCAAATCAGCTA
1 TCTTCGATCTGCTCTC--TG-ACAATACA-GAGACGCCAAATCATCTA
* * * *
5098822 TGTCTTCGATCTGCTGC-CTGCCAATACAGAAATGCCAAATC-TGGTA
1 --TCTTCGATCTGCT-CTCTGACAATACAGAGACGCCAAATCAT-CTA
* *
5098868 TCTTCGATCTGCTCTCTGACAATACAGAGACGCTAAATCATCTG
1 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTA
* * *
5098912 TCTTTGATCTGCTCTCTGCCAATACAGAGATGCC-AA--ATC-A
1 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTA
* * * * * * * *
5098952 TCTTAGATTTACT-TC-AACGTAA-ACACGTGAAAGCTAAATCAGCTA
1 TCTTCGATCTGCTCTCTGAC--AATACA-GAG-ACGCCAAATCATCTA
*
5098997 TGTCTTCGATCTGCTCTCTG-CTAATATAGAGACGCC-AA--ATC-A
1 --TCTTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATCATCTA
* * * * * *
5099039 TCTTAGATTTGCT-TC-AACGTAA-ACACGTGAAAGCCAAATCAGCTA
1 TCTTCGATCTGCTCTCTGAC--AATACA-GAG-ACGCCAAATCATCTA
* * * * *
5099084 TGTCTTTGATCTGCTCCCTGCCAATACAGAGACACCAAATC-TGGTA
1 --TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT-CTA
* *
5099130 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTG
1 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTA
* * *
5099174 TCTTCGATCTGTTCTCTGCCAATACAGAGATGCC-AA--ATC-A
1 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTA
* * * *
5099214 TCTTAGATTTGCT-TC-AACGTAA-ACACGTGAGA-GCCAAATCAGCTA
1 TCTTCGATCTGCTCTCTGAC--AATACA---GAGACGCCAAATCATCTA
* * *
5099259 TGTCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC-TGGTA
1 --TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT-CTA
* *
5099305 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTG
1 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTA
* *
5099349 TCTTCGATCTGCTCTCT-ACCAATACAGATATGCC-AA--AT-TA
1 TCTTCGATCTGCTCTCTGA-CAATACAGAGACGCCAAATCATCTA
* * * * * * *
5099389 TCTTAGATTTGCT-TC-AACATAAACACGTGAAAGCCAAATCAGCTA
1 TCTTCGATCTGCTCTCTGACA-ATACA-GAG-ACGCCAAATCATCTA
* * *
5099434 TGTCTTCGATCTGCTC-CTTGCCAATATAGAGACGCCAAATC-TGGTA
1 --TCTTCGATCTGCTCTC-TGACAATACAGAGACGCCAAATCAT-CTA
* *
5099480 TATTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTA
1 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTA
*
5099524 TCTTCGATCTGCTCTCT-ACCAATACAGAGATGCC-AA--AT-TA
1 TCTTCGATCTGCTCTCTGA-CAATACAGAGACGCCAAATCATCTA
** * * * ** *
5099564 TCTTATATTTGCT-T-TAACGTAA-ACACGTGAAAACCAAATCAGCTA
1 TCTTCGATCTGCTCTCTGAC--AATACA-GAG-ACGCCAAATCATCTA
* * * *
5099609 TGTCTTTGATCTGCTTTCTGCCAATATAGAGACGCCAAATCA--T-
1 --TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTA
* * * * * *
5099652 T-TTAGATTTGCT-TC-AACGTAA-ACACGTGAAAGCCAAATCAGCTA
1 TCTTCGATCTGCTCTCTGAC--AATACA-GAG-ACGCCAAATCATCTA
* *
5099696 TGTCTTCGATCTGCT-TCCTGCCAATACAGAGACGCCAAATC-TGGTA
1 --TCTTCGATCTGCTCT-CTGACAATACAGAGACGCCAAATCAT-CTA
* *
5099742 TCTTCGATCTGCTCCCTGACAATATAGAGACGCCAAATCATCT
1 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCT
5099785 TGGATCTGCT
Statistics
Matches: 920, Mismatches: 176, Indels: 254
0.68 0.13 0.19
Matches are distributed among these distances:
38 9 0.01
39 36 0.04
40 111 0.12
41 53 0.06
42 22 0.02
43 18 0.02
44 421 0.46
45 26 0.03
46 77 0.08
47 110 0.12
48 28 0.03
49 9 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTA
Found at i:5098758 original size:175 final size:175
Alignment explanation
Indices: 5098562--5099649 Score: 1264
Period size: 175 Copynumber: 6.2 Consensus size: 175
5098552 AAATCTTCTA
* * ** * *
5098562 TCTTCGATCTGCTCTCTGCCAATACAAAGACGCCAAATCTATTATCTTCGATCTGCTCTCTGCCA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCCTGACA
* * * * *
5098627 ATACAGAGATGTCAAATCTAT-TATCTTCAATCTGCTCTCTGCCAATATAGAGATGCCAAATCAT
66 ATACAGAGACGCCAAATC-ATCTGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
* * *
5098691 CTTAGACTTGCTTTAACGTAAACACGTGAAAGCCAAATCAACTATG
130 CTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
* * **
5098737 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC----ATCTTAGATTTGCTTCAATGTA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCTGC-TCCCTG-A
* * * *
5098798 -AACACATGA-AAGCCAAATCAGCTATGTCTTCGATCTGCTGC-CTGCCAATACAGAAATGCCAA
64 CAATACA-GAGACGCCAAATCA--TCTGTCTTCGATCTGCT-CTCTGCCAATACAGAGATGCCAA
* * * * * * *
5098860 ATCTGGTATCTTCGATCTGCTCTCTGAC--AATACA-GAG-ACGCTAAATCA--TCTG
125 ATC----ATCTTAGATTTGCT-TC-AACGTAA-ACACGTGAAAGCCAAATCAGCTATG
* * * * * * *
5098912 TCTTTGATCTGCTCTCTGCCAATACAGAGATGCCAAATC----ATCTTAGATTTACTTCAAC-G-
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCTGC-TC-CCTGA
* * * * * * * *
5098971 TAA-ACACGTGAAAGCTAAATCAGCTATGTCTTCGATCTGCTCTCTGCTAATATAGAGACGCCAA
64 CAATACA-GAG-ACGCCAAATCA--TCTGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAA
5099035 ATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
125 ATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
* *
5099086 TCTTTGATCTGCTCCCTGCCAATACAGAGACACCAAATCTGGTATCTTCGATCTGCTCCCTGACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCCTGACA
*
5099151 ATACAGAGACGCCAAATCATCTGTCTTCGATCTGTTCTCTGCCAATACAGAGATGCCAAATCATC
66 ATACAGAGACGCCAAATCATCTGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCATC
*
5099216 TTAGATTTGCTTCAACGTAAACACGTGAGAGCCAAATCAGCTATG
131 TTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
5099261 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCCTGACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCCTGACA
* * *
5099326 ATACAGAGACGCCAAATCATCTGTCTTCGATCTGCTCTCTACCAATACAGATATGCCAAATTATC
66 ATACAGAGACGCCAAATCATCTGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCATC
*
5099391 TTAGATTTGCTTCAACATAAACACGTGAAAGCCAAATCAGCTATG
131 TTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
* * *
5099436 TCTTCGATCTGCTCCTTGCCAATATAGAGACGCCAAATCTGGTATATTCGATCTGCTCCCTGACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCCTGACA
* * *
5099501 ATACAGAGACGCCAAATCATCTATCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAATTATC
66 ATACAGAGACGCCAAATCATCTGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCATC
* * *
5099566 TTATATTTGCTTTAACGTAAACACGTGAAAACCAAATCAGCTATG
131 TTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
* ** *
5099611 TCTTTGATCTGCTTTCTGCCAATATAGAGACGCCAAATC
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC
5099650 ATTTTAGATT
Statistics
Matches: 801, Mismatches: 80, Indels: 64
0.85 0.08 0.07
Matches are distributed among these distances:
169 2 0.00
170 5 0.01
171 28 0.03
172 26 0.03
173 7 0.01
174 77 0.10
175 595 0.74
176 2 0.00
177 21 0.03
178 29 0.04
179 7 0.01
180 2 0.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (175 bp):
TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCCTGACA
ATACAGAGACGCCAAATCATCTGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCATC
TTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
Found at i:5098848 original size:262 final size:260
Alignment explanation
Indices: 5098562--5099649 Score: 1174
Period size: 262 Copynumber: 4.1 Consensus size: 260
5098552 AAATCTTCTA
** *
5098562 TCTTCGATCTGCTCTCTGCCAATACAAAGACGCCAAATCTATTATCTTCGATCTGCTCTCTGCCA
1 TCTTCGATCTGCTC-CTGCCAATACAAAGACGCCAAATCTGGTATCTTCGATCTGCTCTCTGACA
* * * *
5098627 ATACAGAGATGTCAAATCTAT-TATCTTCAATCTGCTCTCTGCCAATATAGAGATGCCAAATCAT
65 ATACAGAGACG-CAAATC-ATCTGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
* * *
5098691 CTTAGACTTGCTTTAACGTAAACACGTGAAAGCCAAATCAACTATGTCTTCGATCTGCTCCCTGC
128 CTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGC
*
5098756 CAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAATGTAAACACATGAAAGCCAAATCAGCT
193 CAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGCT
5098821 ATG
258 ATG
*
5098824 TCTTCGATCTGCTGCCTGCCAATACAGAA-ATGCCAAATCTGGTATCTTCGATCTGCTCTCTGAC
1 TCTTCGATCTGCT-CCTGCCAATACA-AAGACGCCAAATCTGGTATCTTCGATCTGCTCTCTGAC
*
5098888 AATACAGAGACGCTAAATCATCTGTCTTTGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
64 AATACAGAGACGC-AAATCATCTGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
* * *
5098953 CTTAGATTTACTTCAACGTAAACACGTGAAAGCTAAATCAGCTATGTCTTCGATCTGCTCTCTGC
128 CTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGC
* * *
5099018 TAATATAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCT
193 CAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGCT
5099083 ATG
258 ATG
* * * *
5099086 TCTTTGATCTGCTCCCTGCCAATACAGAGACACCAAATCTGGTATCTTCGATCTGCTCCCTGACA
1 TCTTCGATCTGCT-CCTGCCAATACAAAGACGCCAAATCTGGTATCTTCGATCTGCTCTCTGACA
*
5099151 ATACAGAGACGCCAAATCATCTGTCTTCGATCTGTTCTCTGCCAATACAGAGATGCCAAATCATC
65 ATACAGAGACG-CAAATCATCTGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCATC
*
5099216 TTAGATTTGCTTCAACGTAAACACGTGAGAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGCC
129 TTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGCC
* * * * *
5099281 AATACAGAGACGCCAAATCTGGTATCTTCGATCTGC-TC--CCTGACAATACA-GAGACGCCAAA
194 AATACAGAGACGCCAAATC----ATCTTAGATTTGCTTCAACGT-A-AACACATGA-AAGCCAAA
*
5099342 TCA--TCTG
252 TCAGCTATG
* * * * * * *
5099349 TCTTCGATCTGCTCTCTACCAATACAGATATGCCAAA--T--TATCTTAGATTTGCT-TC-AACA
1 TCTTCGATCTGCTC-CTGCCAATACAAAGACGCCAAATCTGGTATCTTCGATCTGCTCTCTGACA
* * * * * *
5099408 TAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTC-CTTGCCAATATAGAGACGCCAA
65 -ATACA-GAG-ACG-CAAATCA--TCTGTCTTCGATCTGCTCTC-TGCCAATACAGAGATGCCAA
* * * * * * * *
5099472 ATCTGGTATATTCGATCTGC-TC--CCTGACAATAC-AGAGACGCCAAATCATCTA--TCTTCGA
123 ATC----ATCTTAGATTTGCTTCAACGT-A-AACACGTGA-AAGCCAAATCAGCTATGTCTTCGA
* * * * * * *
5099531 TCTGCTCTCTACCAATACAGAGATGCCAAATTATCTTATATTTGCTTTAACGTAAACACGTGAAA
181 TCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAA
*
5099596 ACCAAATCAGCTATG
246 GCCAAATCAGCTATG
* * * *
5099611 TCTTTGATCTGCTTTCTGCCAATATAGAGACGCCAAATC
1 TCTTCGATCTGC-TCCTGCCAATACAAAGACGCCAAATC
5099650 ATTTTAGATT
Statistics
Matches: 705, Mismatches: 85, Indels: 70
0.82 0.10 0.08
Matches are distributed among these distances:
257 3 0.00
258 5 0.01
259 25 0.04
260 24 0.03
261 9 0.01
262 501 0.71
263 77 0.11
264 6 0.01
265 34 0.05
266 21 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (260 bp):
TCTTCGATCTGCTCCTGCCAATACAAAGACGCCAAATCTGGTATCTTCGATCTGCTCTCTGACAA
TACAGAGACGCAAATCATCTGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCATCTT
AGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGCCAA
TACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATG
Found at i:5099211 original size:437 final size:432
Alignment explanation
Indices: 5098562--5099784 Score: 1509
Period size: 437 Copynumber: 2.8 Consensus size: 432
5098552 AAATCTTCTA
* * * * * *
5098562 TCTTCGATCTGCT-CTCTGCCAATACAAAGACGCCAAATCTATTATCTTCGATCTGCTCTCTGCC
1 TCTTCGATCTGCTCCT-TGCCAATATAGAGACGCCAAATCGA-TA--TTAGATCTGCTCCCTGAC
* * * * * * * * ** *
5098626 AATACAGAGATGTCAAATCTA-TTATCTTCAATCTGCTCTCTGCCAATATAGAGATGCCAAATCA
62 AACACAGAGAAGCCAAATC-AGCTATCTTCGATCTGCTCCCTACCAATACAGAGACACCAAATTA
* * * * *
5098690 TCTTAGA-CTTGCTTTAACGTAAACACGTGAAAGCCAAATCAACTATGTCTTCGATCTGCTCCCT
126 TCTTAGATC-TGCTCTAACG-AAACACGAGAAAACCAAATC-ACTATGTCTTCGATCTGTTCTCT
* *
5098754 GCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAATGTAAACACATGAAAGCCAAATCAG
188 GCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAG
* * * *
5098819 CTATGTCTTCGATCTGCTGCCTGCCAATACAGAAATGCCAAATCTGGTATCTTCGATCTGCTCTC
253 CTATGTCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCC
* * *
5098884 TGACAATACAGAGACGCTAAATCATCTGTCTTTGATCTGCTCTCTGCCAATACAGAGATGCCAAA
318 TGACAATACAGAGACGCCAAATCATCTGTCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAA
* *
5098949 TCATCTTAGATTTACTTCAACGTAAACACGTGAAAGCTAAATCAGCTATG
383 TCATCTTAGATTTACTTCAACATAAACACGTGAAAGCCAAATCAGCTATG
* * * *
5098999 TCTTCGATCTGCT-CTCTGCTAATATAGAGACGCCAAATC-ATCTTAGATTTGCTTCAAC-GTA-
1 TCTTCGATCTGCTCCT-TGCCAATATAGAGACGCCAAATCGATATTAGATCTGC-TC-CCTG-AC
* * *
5099060 AACAC-GTGAAAGCCAAATCAGCTATGTCTTTGATCTGCTCCCTGCCAATACAGAGACACCAAAT
62 AACACAGAG-AAGCCAAATCAGCTA--TCTTCGATCTGCTCCCTACCAATACAGAGACACCAAA-
* * ** *
5099124 CTGGTATCTTCGATCTGCTCCCTGAC-AATACA-GAG-ACGCCAAATCA-TCTGTCTTCGATCTG
123 -T--TATCTTAGATCTGCT--CTAACGAA-ACACGAGAAAACCAAATCACTATGTCTTCGATCTG
* *
5099185 TTCTCTGCCAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAGAGCCA
182 TTCTCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCA
5099250 AATCAGCTATGTCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCT
247 AATCAGCTATGTCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCT
*
5099315 GCTCCCTGACAATACAGAGACGCCAAATCATCTGTCTTCGATCTGCTCTCTACCAATACAGATAT
312 GCTCCCTGACAATACAGAGACGCCAAATCATCTGTCTTCGATCTGCTCTCTACCAATACAGAGAT
* *
5099380 GCCAAATTATCTTAGATTTGCTTCAACATAAACACGTGAAAGCCAAATCAGCTATG
377 GCCAAATCATCTTAGATTTACTTCAACATAAACACGTGAAAGCCAAATCAGCTATG
*
5099436 TCTTCGATCTGCTCCTTGCCAATATAGAGACGCCAAATCTGGTATATTCGATCTGCTCCCTGACA
1 TCTTCGATCTGCTCCTTGCCAATATAGAGACGCCAAATC--G-ATATTAGATCTGCTCCCTGACA
* * * * **
5099501 ATACAGAGACGCCAAATCATCTATCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAATTATC
63 ACACAGAGAAGCCAAATCAGCTATCTTCGATCTGCTCCCTACCAATACAGAGACACCAAATTATC
* * * * *
5099566 TTATATTTGCTTTAACGTAAACACGTGAAAACCAAATCAGCTATGTCTTTGATCTGCTT-TCTGC
128 TTAGATCTGCTCTAACG-AAACACGAGAAAACCAAATCA-CTATGTCTTCGATCTG-TTCTCTGC
* *
5099630 CAATATAGAGACGCCAAATCATTTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCT
190 CAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCT
*
5099695 ATGTCTTCGATCTGCTTCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCCTG
255 ATGTCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCCTG
*
5099760 ACAATATAGAGACGCCAAATCATCT
320 ACAATACAGAGACGCCAAATCATCT
5099785 TGGATCTGCT
Statistics
Matches: 682, Mismatches: 74, Indels: 60
0.84 0.09 0.07
Matches are distributed among these distances:
432 3 0.00
433 14 0.02
434 33 0.05
435 11 0.02
436 33 0.05
437 485 0.71
438 38 0.06
439 11 0.02
440 35 0.05
441 16 0.02
442 3 0.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (432 bp):
TCTTCGATCTGCTCCTTGCCAATATAGAGACGCCAAATCGATATTAGATCTGCTCCCTGACAACA
CAGAGAAGCCAAATCAGCTATCTTCGATCTGCTCCCTACCAATACAGAGACACCAAATTATCTTA
GATCTGCTCTAACGAAACACGAGAAAACCAAATCACTATGTCTTCGATCTGTTCTCTGCCAATAC
AGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCT
TCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCCTGACAATA
CAGAGACGCCAAATCATCTGTCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAATCATCTTA
GATTTACTTCAACATAAACACGTGAAAGCCAAATCAGCTATG
Found at i:5099440 original size:131 final size:131
Alignment explanation
Indices: 5099305--5099797 Score: 420
Period size: 131 Copynumber: 3.8 Consensus size: 131
5099295 AAATCTGGTA
* * *
5099305 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCAT-CTGTCTTCGATCTGCTCTCT-AC
1 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATC-TGGTATCTTCGATCTGCTCCCTGA-
* * * *
5099368 CAATACAGATATGCCAAATTATCTTAGATTTGCTTCAACATAAACACGTGAAAGCCAAATCAGCT
64 CAATACAGAGACGCCAAATCATCTTAGATCTGCTTCAACATAAACACGTGAAAGCCAAATCAGCT
5099433 ATG
129 ATG
* * * *
5099436 TCTTCGATCTGCTCCTTGCCAATATAGAGACGCCAAATCTGGTATATTCGATCTGCTCCCTGACA
1 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCCTGACA
* * * * *
5099501 ATACAGAGACGCCAAATCATCTATCTTCGATCTGCTCTCTACCA-ATACA-GAG-ATGCCAAAT-
66 ATACAGAGACGCC-AA--ATC-ATCTTAGATCTGCT-TC-AACATAAACACGTGAAAGCCAAATC
5099562 ---TA--
125 AGCTATG
** * * * * ** * * * **
5099564 TCTTATATTTGCT--TTAACGTAA-ACACGTGAAAACCAAATCAGCTATGTCTTTGATCTGCTTT
1 TCTTCGATCTGCTCCCTGAC--AATACA-GAG-ACGCCAAATCTGGTA--TCTTCGATCTGCTCC
* * * * *
5099626 CTGCCAATATAGAGACGCCAAATCATTTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATC
60 CTGACAATACAGAGACGCCAAATCATCTTAGATCTGCTTCAACATAAACACGTGAAAGCCAAATC
5099691 AGCTATG
125 AGCTATG
* *
5099698 TCTTCGATCTGCTTCCTGCCAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCCTGACA
1 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCCTGACA
* *
5099763 ATATAGAGACGCCAAATCATCTTGGATCTGCTTCA
66 ATACAGAGACGCCAAATCATCTTAGATCTGCTTCA
5099798 GTGTAAATAC
Statistics
Matches: 277, Mismatches: 59, Indels: 52
0.71 0.15 0.13
Matches are distributed among these distances:
125 2 0.01
126 9 0.03
127 15 0.05
128 25 0.09
129 11 0.04
130 5 0.02
131 142 0.51
132 5 0.02
133 11 0.04
134 24 0.09
135 17 0.06
136 8 0.03
137 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (131 bp):
TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCCTGACA
ATACAGAGACGCCAAATCATCTTAGATCTGCTTCAACATAAACACGTGAAAGCCAAATCAGCTAT
G
Found at i:5100757 original size:21 final size:20
Alignment explanation
Indices: 5100740--5100788 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
5100730 GGCCTCTCTA
5100740 TTTTTTTTCTTTTTCTCTTT
1 TTTTTTTTCTTTTTCTCTTT
*
5100760 TTCTTTTTTTTTTTTCTCTTT
1 TT-TTTTTTCTTTTTCTCTTT
5100781 TTTTTTTT
1 TTTTTTTT
5100789 GAAATAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (20 bp):
TTTTTTTTCTTTTTCTCTTT
Found at i:5100758 original size:8 final size:8
Alignment explanation
Indices: 5100741--5100782 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
5100731 GCCTCTCTAT
*
5100741 TTTTTTTC
1 TTTTTCTC
5100749 TTTTTCTC
1 TTTTTCTC
5100757 TTTTTCT-
1 TTTTTCTC
5100764 TTTTT-T-
1 TTTTTCTC
5100770 TTTTTCTC
1 TTTTTCTC
5100778 TTTTT
1 TTTTT
5100783 TTTTTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 6 0.19
7 6 0.19
8 19 0.61
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTCTC
Found at i:5100787 original size:19 final size:19
Alignment explanation
Indices: 5100734--5100788 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 19
5100724 CACCTTGGCC
* *
5100734 TCTCTATTTTTTTTCTTTT
1 TCTCTTTTTTTTTTTTTTT
5100753 TCTCTTTTTCTTTTTTTTTTT
1 TCTC-TTTT-TTTTTTTTTTT
5100774 TCTCTTTTTTTTTTT
1 TCTCTTTTTTTTTTT
5100789 GAAATAGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 11 0.34
20 7 0.22
21 14 0.44
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (19 bp):
TCTCTTTTTTTTTTTTTTT
Found at i:5106271 original size:19 final size:20
Alignment explanation
Indices: 5106237--5106279 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 20
5106227 AGATTACAAG
5106237 ATCATATCTTTAAGATTGCAT
1 ATCATATC-TTAAGATTGCAT
5106258 ATCATATC-TAAGATTGCAT
1 ATCATATCTTAAGATTGCAT
5106277 ATC
1 ATC
5106280 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.64
21 8 0.36
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (20 bp):
ATCATATCTTAAGATTGCAT
Found at i:5108606 original size:17 final size:17
Alignment explanation
Indices: 5108568--5108605 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
5108558 TTTGTGGAAC
5108568 TTTTTAAATTTTTAATA
1 TTTTTAAATTTTTAATA
* *
5108585 ATTTT-AATTTTTTATA
1 TTTTTAAATTTTTAATA
5108601 TTTTT
1 TTTTT
5108606 TTGAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTAAATTTTTAATA
Found at i:5108663 original size:24 final size:23
Alignment explanation
Indices: 5108628--5108679 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
5108618 ATAACTAATT
* *
5108628 TTTTTAATTTAT-TAATTTTTATA
1 TTTTAAATTTATATAATATTT-TA
5108651 TTTTAAATATTATATAATATTTTA
1 TTTTAAAT-TTATATAATATTTTA
5108675 TTTTA
1 TTTTA
5108680 TTTTTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.28
24 11 0.44
25 7 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTAAATTTATATAATATTTTA
Found at i:5112782 original size:74 final size:75
Alignment explanation
Indices: 5112535--5112774 Score: 374
Period size: 75 Copynumber: 3.2 Consensus size: 75
5112525 GATATATTTG
* * * *
5112535 ACTAGAGCTAGGCTCATAATCATTATCGTTGGTTTATCAAACTAGCACTGGGTGTAAATATTGTT
1 ACTAGAGCTGGGCTCATAATCATTATCGTCGGTTTATCAGACTAGCACTGGGTGCAAATATTGTT
5112600 GGTTAATCCA
66 GGTTAATCCA
* * * *
5112610 ACTAGAGCTGGGTTCATAATCATTATTGTCGGTTTATCCGACTAGCACTGGGTGCAAATATTGGT
1 ACTAGAGCTGGGCTCATAATCATTATCGTCGGTTTATCAGACTAGCACTGGGTGCAAATATTGTT
*
5112675 GGTTAATCTA
66 GGTTAATCCA
*
5112685 ACTAGAGCTGGGCTCATAATCATTATCGTCGG-TTATCTGACTAGCACTGGGTGCAAATATTGTT
1 ACTAGAGCTGGGCTCATAATCATTATCGTCGGTTTATCAGACTAGCACTGGGTGCAAATATTGTT
5112749 GGTTAATCCA
66 GGTTAATCCA
*
5112759 ACTAGAGTTGGGCTCA
1 ACTAGAGCTGGGCTCA
5112775 CTTTCATTTT
Statistics
Matches: 150, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
74 54 0.36
75 96 0.64
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (75 bp):
ACTAGAGCTGGGCTCATAATCATTATCGTCGGTTTATCAGACTAGCACTGGGTGCAAATATTGTT
GGTTAATCCA
Found at i:5112810 original size:149 final size:150
Alignment explanation
Indices: 5112535--5112815 Score: 395
Period size: 149 Copynumber: 1.9 Consensus size: 150
5112525 GATATATTTG
* *
5112535 ACTAGAGCTAGGCTCATAATCATTATCGTTGGTTTATCAAACTAGCACTGGGTGTAAATATTGTT
1 ACTAGAGCTAGGCTCATAATCATTATCGTCGGTTTATCAAACTAGCACTGGGTGCAAATATTGTT
* * * *
5112600 GGTTAATCCAACTAGAGCTGGGTTCATAATCATTATTGTCGGTTTATCCGACTAGCACTGGGTGC
66 GGTTAATCCAACTAGAGCTGGGCTCATAATCATTATTGTCAGTTAATCCGACTAGCACTGGGCGC
5112665 AAATATTGGTGGTTAATCTA
131 AAATATTGGTGGTTAATCTA
* **
5112685 ACTAGAGCTGGGCTCATAATCATTATCGTCGG-TTATCTGACTAGCACTGGGTGCAAATATTGTT
1 ACTAGAGCTAGGCTCATAATCATTATCGTCGGTTTATCAAACTAGCACTGGGTGCAAATATTGTT
* * * * * * *
5112749 GGTTAATCCAACTAGAGTTGGGCTCACT-TTCATTTTTTTCAGTTAATCTGATTAGCGCTGGGCG
66 GGTTAATCCAACTAGAGCTGGGCTCA-TAATCATTATTGTCAGTTAATCCGACTAGCACTGGGCG
5112813 CAA
130 CAA
5112816 CCCCTTTTTG
Statistics
Matches: 114, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
149 83 0.73
150 31 0.27
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (150 bp):
ACTAGAGCTAGGCTCATAATCATTATCGTCGGTTTATCAAACTAGCACTGGGTGCAAATATTGTT
GGTTAATCCAACTAGAGCTGGGCTCATAATCATTATTGTCAGTTAATCCGACTAGCACTGGGCGC
AAATATTGGTGGTTAATCTA
Found at i:5116360 original size:43 final size:42
Alignment explanation
Indices: 5116314--5116449 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 42
5116304 TGTAATTATG
*
5116314 TGTAAGACCATGTCTGGGACATTGGCATCATTATGTGATTACG
1 TGTAAGACCATGTCTGGG-CATTGGCATCATTATGTGATTACA
* * * *
5116357 TGT-AGATCATGTCTGGGGCATTGGCATCGTTATTTGATTTCA
1 TGTAAGACCATGTCT-GGGCATTGGCATCATTATGTGATTACA
* *
5116399 TGTAAGACCATAG-CTAGGCTATTGGCATCGA-TATGTGATAACA
1 TGTAAGACCAT-GTCTGGGC-ATTGGCATC-ATTATGTGATTACA
5116442 TGTAAGAC
1 TGTAAGAC
5116450 TATATTTGGG
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
42 36 0.47
43 40 0.52
44 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGCATTGGCATCATTATGTGATTACA
Found at i:5121306 original size:44 final size:44
Alignment explanation
Indices: 5121256--5121342 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
5121246 GTTTAGTAAT
5121256 TAAAACCATAAATCTCAAGTATGAGATTTTGTAAGGGAGAAAAC
1 TAAAACCATAAATCTCAAGTATGAGATTTTGTAAGGGAGAAAAC
5121300 TAAAACCATAAATCTCAAGTATGAGATTTTGTAAGGGAGAAAA
1 TAAAACCATAAATCTCAAGTATGAGATTTTGTAAGGGAGAAAA
5121343 TAGAGATTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.25
Consensus pattern (44 bp):
TAAAACCATAAATCTCAAGTATGAGATTTTGTAAGGGAGAAAAC
Found at i:5127580 original size:16 final size:17
Alignment explanation
Indices: 5127559--5127591 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
5127549 TCGAAACTTT
5127559 ATTTTAAT-ATTTTTAA
1 ATTTTAATAATTTTTAA
5127575 ATTTTAATAATTTTTAA
1 ATTTTAATAATTTTTAA
5127592 TCATTGGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTAATAATTTTTAA
Found at i:5135628 original size:25 final size:25
Alignment explanation
Indices: 5135599--5135647 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
5135589 AATCTTTCTT
*
5135599 TTTATT-TTTTTTTTTTCTTTTATTA
1 TTTATTATTTTCTTTTT-TTTTATTA
5135624 TTTATTATTTTCTTTTTTTTTATT
1 TTTATTATTTTCTTTTTTTTTATT
5135648 TTATTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.12, C:0.04, G:0.00, T:0.84
Consensus pattern (25 bp):
TTTATTATTTTCTTTTTTTTTATTA
Found at i:5135839 original size:43 final size:41
Alignment explanation
Indices: 5135757--5135846 Score: 110
Period size: 41 Copynumber: 2.1 Consensus size: 41
5135747 TCCATGCTGT
* * * *
5135757 CAAACAGTTCTATTCCAGCCAGAATGCCATATCTCTGCAGC
1 CAAACAGTCCTATTCCAGCCAGAATCCCAAAACTCTGCAGC
5135798 CAAACAGTCCTATTCCAGCCATAGAATCCCCAAAAC-CTGCAGC
1 CAAACAGTCCTATTCCAGCC--AGAAT-CCCAAAACTCTGCAGC
5135841 CAAACA
1 CAAACA
5135847 CCCCTTTTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 19 0.45
43 18 0.43
44 5 0.12
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.19
Consensus pattern (41 bp):
CAAACAGTCCTATTCCAGCCAGAATCCCAAAACTCTGCAGC
Found at i:5141290 original size:2 final size:2
Alignment explanation
Indices: 5141285--5141314 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
5141275 AAAAAAAAAA
5141285 AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5141315 GAATATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5141304 original size:13 final size:13
Alignment explanation
Indices: 5141286--5141311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5141276 AAAAAAAAAA
5141286 TATATATATATAT
1 TATATATATATAT
5141299 TATATATATATAT
1 TATATATATATAT
5141312 ATAGAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Found at i:5141305 original size:15 final size:15
Alignment explanation
Indices: 5141285--5141313 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5141275 AAAAAAAAAA
5141285 ATATATATATATATT
1 ATATATATATATATT
5141300 ATATATATATATAT
1 ATATATATATATAT
5141314 AGAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATATATATATATT
Found at i:5158010 original size:35 final size:35
Alignment explanation
Indices: 5157971--5158041 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
5157961 CGTCATGCCC
*
5157971 AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
1 AGCGTCGTGCCCACGACTCCAGCCGCGACAAAATA
*
5158006 AGCGTCGTGCCCACGACTCCAGCCGTGACAAAATA
1 AGCGTCGTGCCCACGACTCCAGCCGCGACAAAATA
5158041 A
1 A
5158042 AAAAAACTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.28, C:0.35, G:0.24, T:0.13
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAGCCGCGACAAAATA
Found at i:5160223 original size:2 final size:2
Alignment explanation
Indices: 5160216--5160244 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
5160206 AAAATAGACC
5160216 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5160245 ATAGACTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5162251 original size:2 final size:2
Alignment explanation
Indices: 5162238--5162276 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
5162228 TAAAACATAC
*
5162238 AT AT AC AT AT AT AT 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 AT AT AT AT AT AT AT A
5162277 CATGACATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:5162787 original size:11 final size:11
Alignment explanation
Indices: 5162771--5162800 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
5162761 TAACATTAAG
5162771 AATATATATAT
1 AATATATATAT
*
5162782 AATATAAATAT
1 AATATATATAT
5162793 AATATATA
1 AATATATA
5162801 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:5162956 original size:2 final size:2
Alignment explanation
Indices: 5162949--5162973 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5162939 ATAAAGAAAA
5162949 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
5162974 GCTAAATATA
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:5163284 original size:11 final size:12
Alignment explanation
Indices: 5163239--5163293 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 12
5163229 GAAAAATGTA
5163239 ATTA-ATTTTTT
1 ATTATATTTTTT
5163250 -TTATATTTGTTTT
1 ATTATA-TT-TTTT
*
5163263 GTATATATATTTTT
1 AT-TATAT-TTTTT
5163277 ATTATATTTTTT
1 ATTATATTTTTT
5163289 ATTAT
1 ATTAT
5163294 GATGTATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
10 3 0.08
11 1 0.03
12 12 0.32
13 9 0.24
14 7 0.19
15 5 0.14
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (12 bp):
ATTATATTTTTT
Found at i:5163341 original size:6 final size:6
Alignment explanation
Indices: 5163332--5163382 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
5163322 CGAAAAAGAA
* *
5163332 AAAAAT AAAAAT AAAAAT AAAAAT AAGAAT -AAAAT AATAAA- GAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT AAAAAT
5163379 AAAA
1 AAAA
5163383 TCACCTTTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
5 7 0.18
6 28 0.74
7 3 0.08
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:5163365 original size:29 final size:29
Alignment explanation
Indices: 5163327--5163382 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
5163317 AGATTCGAAA
5163327 AAGAAAAAAATAA-AAATAAAAATAAAAAT
1 AAGAAAAAAATAATAAA-AAAAATAAAAAT
* *
5163356 AAGAATAAAATAATAAAGAAAATAAAA
1 AAGAAAAAAATAATAAAAAAAATAAAA
5163383 TCACCTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.14
Consensus pattern (29 bp):
AAGAAAAAAATAATAAAAAAAATAAAAAT
Found at i:5163640 original size:15 final size:14
Alignment explanation
Indices: 5163622--5163655 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
5163612 TTCTTCTTTT
5163622 TTTTTTGGGGTTAGG
1 TTTTTTGGGG-TAGG
5163637 TTTTTTGGGGTAGG
1 TTTTTTGGGGTAGG
5163651 TTTTT
1 TTTTT
5163656 CTTTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.06, C:0.00, G:0.35, T:0.59
Consensus pattern (14 bp):
TTTTTTGGGGTAGG
Found at i:5163655 original size:42 final size:44
Alignment explanation
Indices: 5163609--5163690 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 44
5163599 TAGGTTTTTC
*
5163609 TTTTTC-TTCTTTTTTTTTTGGGGTTAG-GTTTTTTGGGGTAGG
1 TTTTTCTTTCTTTTTTTTTTGGGGATAGTGTTTTTTGGGGTAGG
* *
5163651 TTTTTCTTTTTTTTTTTTTTGGGGATAGTTTTTTTTGGGG
1 TTTTTCTTTCTTTTTTTTTTGGGGATAGTGTTTTTTGGGG
5163691 GGGCTTAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 6 0.17
43 19 0.54
44 10 0.29
ACGTcount: A:0.05, C:0.04, G:0.26, T:0.66
Consensus pattern (44 bp):
TTTTTCTTTCTTTTTTTTTTGGGGATAGTGTTTTTTGGGGTAGG
Found at i:5164612 original size:72 final size:71
Alignment explanation
Indices: 5164491--5164783 Score: 325
Period size: 72 Copynumber: 4.1 Consensus size: 71
5164481 ATTTTTTTTT
* ** **
5164491 TTTTGAAAACAGAAATTGCAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
1 TTTTGAAAACAGAAATTG-AAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
5164555 GAGTTGAA
65 GAGTTG-A
*
5164563 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTTAACTCACCTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
5164628 AGTTGA
66 AGTTGA
*
5164634 TTTTTTTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
1 ------TTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCG
*
5164699 CCATATGA---G-
59 CAATATGAGTTGA
* * * *
5164708 --TTGAAAA-A-AAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATG
1 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
*
5164769 AGCTGA
66 AGTTGA
5164775 TTTTGAAAA
1 TTTTGAAAA
5164784 AGTAGAAATT
Statistics
Matches: 192, Mismatches: 15, Indels: 31
0.81 0.06 0.13
Matches are distributed among these distances:
63 48 0.25
64 1 0.01
65 3 0.02
66 5 0.03
69 7 0.04
71 4 0.02
72 60 0.31
75 1 0.01
77 6 0.03
78 57 0.30
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (71 bp):
TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGA
Found at i:5164683 original size:78 final size:77
Alignment explanation
Indices: 5164452--5164711 Score: 352
Period size: 78 Copynumber: 3.4 Consensus size: 77
5164442 GTGATCTAAA
*
5164452 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTTTTTGAAAACAGAAATTGCAAA-TAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTTTTGAAAACAGAAATTG-AAATTAC
* *
5164516 CTCAACGTGTCTTGAG
62 CTCAGCGTGTCCTGAG
** *
5164532 GCTCAACTCATTTCTCGCAATATGAGTTGA-----ATTTTGAAAACAGAAATTGAAATTACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAACAGAAATTGAAATTACCTCA
*
5164592 GCGTGTCCCGAG
66 GCGTGTCCTGAG
*
5164604 GCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGACAAACAGAAATTGAAATTACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGA-AAACAGAAATTGAAATTACCTC
5164669 AGCGTGTCCTGAG
65 AGCGTGTCCTGAG
*
5164682 GCTCAACTCACCTCTCGCCATATGAGTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA
5164712 AAAAAAATTA
Statistics
Matches: 159, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
71 3 0.02
72 61 0.38
77 6 0.04
78 62 0.39
80 27 0.17
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (77 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAACAGAAATTGAAATTACCTCA
GCGTGTCCTGAG
Found at i:5164943 original size:14 final size:14
Alignment explanation
Indices: 5164924--5164958 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5164914 GATTTTTTTT
* *
5164924 TTGAAAAGTAGGAA
1 TTGAAAAGCAGAAA
5164938 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
5164952 TTGAAAA
1 TTGAAAA
5164959 TAGCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.23, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:5165259 original size:74 final size:71
Alignment explanation
Indices: 5165070--5165382 Score: 285
Period size: 74 Copynumber: 4.3 Consensus size: 71
5165060 TCAATTTTCT
* * * * * *
5165070 AAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAGTATGAGTTGA
1 AAACACAAATTAAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
5165135 -TTTTG
66 TTTTTG
* * * * * * *
5165140 GAACATAAATTGAAATTACATCAACGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
1 AAACACAAATTAAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
5165203 TTTTTG
66 TTTTTG
* **
5165209 AAACAACAGGAATTAAAAACACCTCAGCGTGACCTGAGGCTTGACTCACCTCTCGCAATATGAGT
1 AAAC-ACA--AATTAAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG-
*
5165274 CAAT-TTTTTTG
62 C--TGATTTTTG
* * ** **
5165285 AAACATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGAATT
1 AAACACAAATTAAAAATACCTCAGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCT
5165350 GATTTTTG
64 GATTTTTG
*
5165358 AAA-ACATGAATTAAAGATACCTCAG
1 AAACACA--AATTAAAAATACCTCAG
5165383 AGTACCCAAA
Statistics
Matches: 195, Mismatches: 34, Indels: 24
0.77 0.13 0.09
Matches are distributed among these distances:
68 32 0.16
69 8 0.04
70 23 0.12
72 18 0.09
73 25 0.13
74 44 0.23
75 34 0.17
76 10 0.05
77 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (71 bp):
AAACACAAATTAAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
TTTTTG
Found at i:5165338 original size:75 final size:71
Alignment explanation
Indices: 5165032--5165382 Score: 282
Period size: 74 Copynumber: 4.9 Consensus size: 71
5165022 AGAAATTAAA
* * * * * *
5165032 AGGCTTAACTCATCTTTCGCAAGATGAGTCAATTTTCT-AAACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTC-TTTTTTTGAAACATAAACTAAAAATACCTCAGCG
* *
5165096 TGCCCCG
65 TGACCTG
* ** * * * * * *
5165103 AGGCTCAACTCACCTCTCGCAGTATGAGT-TGATTTTGGAACATAAATTGAAATTACATCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTCTTTTTTTGAAACATAAACTAAAAATACCTCAGCGT
*
5165167 --CTTG
66 GACCTG
* * * *
5165171 AGGCTCAACTCACCTCTCGCAATATGAG-CTGATTTTTGAAACAACAGGAATTAAAAACACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTCT-TTTTTTGAAAC-ATA--AACTAAAAATACCTCA
5165235 GCGTGACCTG
62 GCGTGACCTG
**
5165245 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTTTGAAACATAAACTAAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTC--TTTTTTTGAAACATAAACTAAAAATACCTCAGC
5165310 GTGTGACCTG
64 --GTGACCTG
** * * * * *
5165320 AGGCTCAACTCATTTCTCGCAATATGAAT-TGATTTTTGAAAACATGAATTAAAGATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCT-TTTTTTG-AAACATAAACTAAAAATACCTCAG
5165383 AGTACCCAAA
Statistics
Matches: 222, Mismatches: 43, Indels: 27
0.76 0.15 0.09
Matches are distributed among these distances:
68 30 0.14
69 11 0.05
70 23 0.10
71 24 0.11
72 16 0.07
73 22 0.10
74 50 0.23
75 35 0.16
76 10 0.05
77 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCTTTTTTTGAAACATAAACTAAAAATACCTCAGCGT
GACCTG
Found at i:5177432 original size:11 final size:11
Alignment explanation
Indices: 5177416--5177445 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
5177406 TAACATTAAG
5177416 AATATATATAT
1 AATATATATAT
*
5177427 AATATAAATAT
1 AATATATATAT
5177438 AATATATA
1 AATATATA
5177446 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:5177642 original size:18 final size:19
Alignment explanation
Indices: 5177599--5177652 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
5177589 GAAAATATAT
*
5177599 ATATATATATATATATAGTTA
1 ATATATA-ATATA-ATAGATA
5177620 A-ATATAATATAATA-ATA
1 ATATATAATATAATAGATA
*
5177637 ATATATAAAATAATAG
1 ATATATAATATAATAG
5177653 TGATAACAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 3 0.10
18 15 0.52
19 5 0.17
20 5 0.17
21 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (19 bp):
ATATATAATATAATAGATA
Found at i:5177658 original size:24 final size:24
Alignment explanation
Indices: 5177618--5177672 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
5177608 TATATATAGT
*
5177618 TAAATATAATATAATAATAATATA
1 TAAATATAATATAATAACAATATA
*
5177642 TAAA-ATAATAGTGATAACAATAT-
1 TAAATATAATA-TAATAACAATATA
*
5177665 TACATATA
1 TAAATATA
5177673 TAACATGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (24 bp):
TAAATATAATATAATAACAATATA
Found at i:5177929 original size:12 final size:12
Alignment explanation
Indices: 5177878--5177933 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 12
5177868 GAAAAATGTA
5177878 ATTA-ATTTTTT
1 ATTATATTTTTT
*
5177889 TTTATATTTGTTTT
1 ATTATA-TT-TTTT
*
5177903 GTATATATATTTTT
1 AT-TATAT-TTTTT
5177917 ATTATATTTTTT
1 ATTATATTTTTT
5177929 ATTAT
1 ATTAT
5177934 GATGTATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 3 0.08
12 11 0.30
13 7 0.19
14 11 0.30
15 5 0.14
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (12 bp):
ATTATATTTTTT
Found at i:5178005 original size:17 final size:17
Alignment explanation
Indices: 5177979--5178023 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
5177969 AAAAAGGAAA
*
5177979 AAAATAAAAATAA-AAAT
1 AAAAT-AAAATAATAAAG
5177996 AAGAATAAAATAATAAAG
1 AA-AATAAAATAATAAAG
5178014 AAAATAAAAT
1 AAAATAAAAT
5178024 CACCTTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (17 bp):
AAAATAAAATAATAAAG
Found at i:5178281 original size:16 final size:15
Alignment explanation
Indices: 5178262--5178296 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
5178252 TTCTTCTTTC
*
5178262 TTTTTTTGGGTTAGG
1 TTTTTTTGGGGTAGG
5178277 TTTTTTTGGGGTAGG
1 TTTTTTTGGGGTAGG
5178292 TTTTT
1 TTTTT
5178297 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.00, G:0.31, T:0.63
Consensus pattern (15 bp):
TTTTTTTGGGGTAGG
Found at i:5178305 original size:49 final size:50
Alignment explanation
Indices: 5178238--5178336 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 50
5178228 CTTTTTTTGT
*
5178238 TAGGTTTTTCTTTTTTCTTCTTTCTTTTTTTGGGTTAGGTTTTTTTGGGG
1 TAGGTTTTTCTTTTTTCTTCTTTCTTTTTTTGGGATAGGTTTTTTTGGGG
* * *
5178288 TAGGTTTTTC-TTTTTCTTTTTTTTTTTTTTGGGATAGTTTTTTTTGGGG
1 TAGGTTTTTCTTTTTTCTTCTTTCTTTTTTTGGGATAGGTTTTTTTGGGG
5178337 GGCTTAATGG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 35 0.78
50 10 0.22
ACGTcount: A:0.05, C:0.06, G:0.21, T:0.68
Consensus pattern (50 bp):
TAGGTTTTTCTTTTTTCTTCTTTCTTTTTTTGGGATAGGTTTTTTTGGGG
Found at i:5179181 original size:2 final size:2
Alignment explanation
Indices: 5179174--5179208 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5179164 TTGAACAAAA
5179174 AT AT AT AT AT 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 AT AT AT AT AT A
5179209 AATGAACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5180304 original size:13 final size:13
Alignment explanation
Indices: 5180288--5180317 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
5180278 TATATTGTAG
5180288 CATATTATTATAT
1 CATATTATTATAT
5180301 CATATTATTATAT
1 CATATTATTATAT
5180314 CATA
1 CATA
5180318 CTTGGATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (13 bp):
CATATTATTATAT
Found at i:5183928 original size:175 final size:176
Alignment explanation
Indices: 5183631--5183981 Score: 544
Period size: 175 Copynumber: 2.0 Consensus size: 176
5183621 AAGAAAAAGT
* * * *
5183631 TAGTTTTGTAAAAGTTATACCTTCTCCTTGAAATGTATTAATTCTAATTGTGAATTGGGAAGTCC
1 TAGTTTTGTAAAAGTTATACCTTCTCCTTGAAATGTATTAATTCTAATAGTAAATTGAGAAATCC
* * * * *
5183696 TTAATGGTGGAAAGCTAAGGTAGTGGAGATATGCAATTAGTGCCGAACGATTATAAACCGAAGTG
66 TTAATGGTGGAAAGCTAAGGTAGTGGAGATAGGCAATTAGGGCCAAACCATTATAAACCAAAGTG
*
5183761 TTCAAGT-TTTTCTTTCATTTTCTTATCATTTAGAAAAGTTTGTAGA
131 TTCAA-TCTTTACTTTCATTTTCTTATCATTTAGAAAAGTTTGTAGA
*
5183807 TAGTTTTGTAAAAGTTATACCTTCTCCTTGAAATGTATTAATT-TTATAGTAAATTGAGAAATCC
1 TAGTTTTGTAAAAGTTATACCTTCTCCTTGAAATGTATTAATTCTAATAGTAAATTGAGAAATCC
* * * *
5183871 TTAATGGTGGAAAGCTAAGGTAGTGGAGATAGGTAATTGGGGCCAAACCATTATAAACTAAAGTT
66 TTAATGGTGGAAAGCTAAGGTAGTGGAGATAGGCAATTAGGGCCAAACCATTATAAACCAAAGTG
5183936 TTCAATCTTTACTTTCATTTTCTTATCATTTAGAAAAGTTTGTAGA
131 TTCAATCTTTACTTTCATTTTCTTATCATTTAGAAAAGTTTGTAGA
5183982 ATTTTTTTAA
Statistics
Matches: 159, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
174 1 0.01
175 115 0.72
176 43 0.27
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (176 bp):
TAGTTTTGTAAAAGTTATACCTTCTCCTTGAAATGTATTAATTCTAATAGTAAATTGAGAAATCC
TTAATGGTGGAAAGCTAAGGTAGTGGAGATAGGCAATTAGGGCCAAACCATTATAAACCAAAGTG
TTCAATCTTTACTTTCATTTTCTTATCATTTAGAAAAGTTTGTAGA
Found at i:5185614 original size:28 final size:28
Alignment explanation
Indices: 5185574--5185652 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
5185564 GCAATCAAAT
* * *
5185574 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
5185602 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
5185630 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
5185653 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:5191381 original size:17 final size:16
Alignment explanation
Indices: 5191346--5191397 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
5191336 GGGAAAAAAC
*
5191346 AAAGGAAAGAGAAATG
1 AAAGGAAAAAGAAATG
*
5191362 AAATGAAAAAGAATATG
1 AAAGGAAAAAGAA-ATG
*
5191379 AAAGGAAAAAGAAGTG
1 AAAGGAAAAAGAAATG
5191395 AAA
1 AAA
5191398 AATTAAGAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 16 0.52
17 15 0.48
ACGTcount: A:0.65, C:0.00, G:0.25, T:0.10
Consensus pattern (16 bp):
AAAGGAAAAAGAAATG
Found at i:5202586 original size:5 final size:5
Alignment explanation
Indices: 5202576--5202626 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
5202566 TAGGACATGT
* * * *
5202576 TATGA TATGA TATGA TATGT TATAA TA-CA TTATGA TATGA TAAGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA -TATGA TATGA TATGA TATGA
5202626 T
1 T
5202627 CAGAATGAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
4 1 0.03
5 35 0.95
6 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (5 bp):
TATGA
Found at i:5205557 original size:74 final size:74
Alignment explanation
Indices: 5205412--5205559 Score: 176
Period size: 74 Copynumber: 2.0 Consensus size: 74
5205402 TAAATAATGA
*** * *** *
5205412 GGTGAATTTATTATTTACTTTTTAAAGGAAAATATATTGTTATGTATTTGGTATTAGTATTTATG
1 GGTGAATTTATTATTTACTTTTTAAAGGAAAATATATAAATATGAATCAAGTAATAGTATTTATG
5205477 TATATTTAT
66 TATATTTAT
5205486 GGTGAATTTATTATTTACTTTTTAAAGGAAAATCATATAAATAT-AATCAAGTAATAGGTA-TTA
1 GGTGAATTTATTATTTACTTTTTAAAGGAAAAT-ATATAAATATGAATCAAGTAATA-GTATTTA
5205549 T-TAGTATTTAT
64 TGTA-TATTTAT
5205560 TTCACCTGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
73 2 0.03
74 51 0.81
75 10 0.16
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.48
Consensus pattern (74 bp):
GGTGAATTTATTATTTACTTTTTAAAGGAAAATATATAAATATGAATCAAGTAATAGTATTTATG
TATATTTAT
Found at i:5211521 original size:12 final size:13
Alignment explanation
Indices: 5211494--5211526 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
5211484 AGCCCCAGCC
5211494 TTTATTCTATTTTA
1 TTTATT-TATTTTA
5211508 TTTATTTA-TTTA
1 TTTATTTATTTTA
5211520 TTTATTT
1 TTTATTT
5211527 CCCATTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 2 0.11
14 6 0.32
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:5211817 original size:7 final size:7
Alignment explanation
Indices: 5211807--5211846 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
5211797 TTTGATCATC
5211807 TGTTTTT
1 TGTTTTT
5211814 TGTTTTT
1 TGTTTTT
5211821 TGTTTTT
1 TGTTTTT
5211828 TG-TTTT
1 TGTTTTT
* *
5211834 GGGTTTT
1 TGTTTTT
5211841 TGTTTT
1 TGTTTT
5211847 CTGGGTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (7 bp):
TGTTTTT
Found at i:5211833 original size:13 final size:13
Alignment explanation
Indices: 5211807--5211846 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
5211797 TTTGATCATC
5211807 TGTTTTTTGTTTTT
1 TGTTTTTTG-TTTT
5211821 TGTTTTTTGTTTT
1 TGTTTTTTGTTTT
* *
5211834 GGGTTTTTGTTTT
1 TGTTTTTTGTTTT
5211847 CTGGGTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (13 bp):
TGTTTTTTGTTTT
Found at i:5215191 original size:6 final size:6
Alignment explanation
Indices: 5215172--5215220 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
5215162 TTTTTAATTA
* *
5215172 TTTTAT TTTCAT TTTTAT TTTATAT TATTTCT CTTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTT-TAT T-TTTAT -TTTTAT TTTTAT TTTT
5215221 CTATTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 23 0.64
7 10 0.28
8 3 0.08
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:5215194 original size:22 final size:22
Alignment explanation
Indices: 5215170--5215219 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
5215160 ATTTTTTAAT
5215170 TATTTTATTT-TCATTTT-TATTT
1 TATTTTATTTCTC-TTTTAT-TTT
*
5215192 TATATTATTTCTCTTTTATTTT
1 TATTTTATTTCTCTTTTATTTT
5215214 TATTTT
1 TATTTT
5215220 TCTATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (22 bp):
TATTTTATTTCTCTTTTATTTT
Found at i:5215198 original size:27 final size:26
Alignment explanation
Indices: 5215163--5215219 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
5215153 AAAAAATATT
5215163 TTTTAATTATTT-TATTTTCATTTTTA
1 TTTTAATTATTTCTATTTT-ATTTTTA
*
5215189 TTTTATATTATTTCTCTTTTATTTTTA
1 TTTTA-ATTATTTCTATTTTATTTTTA
5215216 TTTT
1 TTTT
5215220 TCTATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 5 0.18
27 18 0.64
28 5 0.18
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTAATTATTTCTATTTTATTTTTA
Found at i:5215230 original size:17 final size:18
Alignment explanation
Indices: 5215170--5215231 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 18
5215160 ATTTTTTAAT
5215170 TATTTTATTTTCA-TTTT-
1 TATTTTATTTT-ATTTTTC
*
5215187 TATTTTATATTA--TTTC
1 TATTTTATTTTATTTTTC
*
5215203 TCTTTTATTTTTATTTTTC
1 TATTTTA-TTTTATTTTTC
5215222 TATTTT-TTTT
1 TATTTTATTTT
5215232 CTCTTCTTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 3 0.08
16 7 0.19
17 18 0.49
19 9 0.24
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (18 bp):
TATTTTATTTTATTTTTC
Found at i:5218004 original size:2 final size:2
Alignment explanation
Indices: 5217997--5218034 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
5217987 TTGCTTCCAT
* *
5217997 CA CA CA CA CA CA CA CA CA CA CA CA CA CG CA CA CG CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
5218035 AAAAAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.50, G:0.05, T:0.00
Consensus pattern (2 bp):
CA
Found at i:5218722 original size:9 final size:9
Alignment explanation
Indices: 5218684--5218727 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
5218674 AAAATTAGGG
5218684 AATTTATTAT
1 AATTT-TTAT
5218694 -ATTTTTA-
1 AATTTTTAT
5218701 AA-TTTTA-
1 AATTTTTAT
5218708 AATTTTTAT
1 AATTTTTAT
5218717 AATTTTTAT
1 AATTTTTAT
5218726 AA
1 AA
5218728 AAAATAACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 7 0.23
8 9 0.29
9 15 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:5220514 original size:6 final size:6
Alignment explanation
Indices: 5220488--5220535 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
5220478 AATACCTAAT
* * * *
5220488 CAGTAA TCAGTAA CGGTAG CAGTAG CAGTAA CAGTAA CAGTAA AAGTA
1 CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
5220536 TTCAACACAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
6 30 0.83
7 6 0.17
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.19
Consensus pattern (6 bp):
CAGTAA
Found at i:5220581 original size:45 final size:44
Alignment explanation
Indices: 5220515--5220625 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 44
5220505 AGCAGTAGCA
* *
5220515 GTAACAGTAACAGTAAAAGTATTCAACACACAAAGTG-CTGAATCT
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTC-GAAT-T
*
5220560 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATT
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATT
5220604 GATAACAGTAACGGTAACAGTA
1 G-TAACAGTAACGGTAACAGTA
5220626 ACAGTAGTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
44 2 0.03
45 58 0.95
46 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (44 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATT
Found at i:5220615 original size:51 final size:45
Alignment explanation
Indices: 5220513--5220640 Score: 130
Period size: 45 Copynumber: 2.7 Consensus size: 45
5220503 GTAGCAGTAG
* *
5220513 CAGTAACAGTAACAGTAAAAGTATTCAACACACAAAGTGCTGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAA
* * *
5220558 CTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATTGATAA
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTG-C----TGA-AA
* * *
5220609 CAGTAACGGTAACAGTAACAGTAGTCAGCACA
1 CAGTAACAGTAACAGTAACAGTATTCAACACA
5220641 TAAGTGCATG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
45 35 0.53
46 1 0.02
50 3 0.05
51 27 0.41
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAA
Done.