Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 77 of 133
Found at i:15243863 original size:67 final size:67
Alignment explanation
Indices: 15243667--15243891 Score: 292
Period size: 67 Copynumber: 3.4 Consensus size: 67
15243657 ATTAGTTGGT
* * *
15243667 CCCC-AATGAAATATTAAACCCAATTTAGCTGGCCTTCAAAGAAAGATTTAAGCCTAAATTAGTT
1 CCCCTAATGAAATATTAAGCCCAATTTAGCTAGCCTTCAAAGAAAGATTTAAGCCTAAATTAGCT
15243731 AG
66 AG
* * * *
15243733 CCCCCAATGAAATATTAAGCCCAGTTTAACTAGCCTTCAAAGAAATATTTAAGACC-AAATTAGC
1 CCCCTAATGAAATATTAAGCCCAATTTAGCTAGCCTTCAAAGAAAGATTTAAG-CCTAAATTAGC
*
15243797 TGG
65 TAG
* **
15243800 CCCCTAATGAAATATTAAGCCTAATTTAGCTAGCCTTCAAAGAAAGATTTAAGCCTAGTTTAGCT
1 CCCCTAATGAAATATTAAGCCCAATTTAGCTAGCCTTCAAAGAAAGATTTAAGCCTAAATTAGCT
*
15243865 AA
66 AG
* *
15243867 CCTCTAATGAAAATTTTAAGCCCAA
1 CCCCTAATG-AAATATTAAGCCCAA
15243892 ATTAATTGGC
Statistics
Matches: 136, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
66 6 0.04
67 115 0.85
68 15 0.11
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.28
Consensus pattern (67 bp):
CCCCTAATGAAATATTAAGCCCAATTTAGCTAGCCTTCAAAGAAAGATTTAAGCCTAAATTAGCT
AG
Found at i:15243885 original size:34 final size:34
Alignment explanation
Indices: 15243803--15243888 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
15243793 TAGCTGGCCC
* *
15243803 CTAATG-AAATATTAAGCCTAATTTAGCTAGCCT
1 CTAATGAAAATTTTAAGCCTAATTTAGCTAACCT
* *
15243836 -TCAAAGAAAGA-TTTAAGCCTAGTTTAGCTAACCT
1 CT-AATGAAA-ATTTTAAGCCTAATTTAGCTAACCT
15243870 CTAATGAAAATTTTAAGCC
1 CTAATGAAAATTTTAAGCC
15243889 CAAATTAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
32 1 0.02
33 4 0.09
34 36 0.84
35 2 0.05
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (34 bp):
CTAATGAAAATTTTAAGCCTAATTTAGCTAACCT
Found at i:15243988 original size:35 final size:35
Alignment explanation
Indices: 15243949--15244030 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 35
15243939 TGGTGTTGTC
15243949 TCGATCATTTTTAATGTTTGACTTACGATGTCATT
1 TCGATCATTTTTAATGTTTGACTTACGATGTCATT
** * * * * * *
15243984 TCGATTGTTCTTATTTTTTGGCTTATGGTGTCATT
1 TCGATCATTTTTAATGTTTGACTTACGATGTCATT
*
15244019 CCGATCATTTTT
1 TCGATCATTTTT
15244031 TACTTTTTAA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.17, C:0.15, G:0.16, T:0.52
Consensus pattern (35 bp):
TCGATCATTTTTAATGTTTGACTTACGATGTCATT
Found at i:15245314 original size:16 final size:15
Alignment explanation
Indices: 15245289--15245318 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15245279 AGGAGGGCTA
15245289 GCTTAAAAAAAAAAG
1 GCTTAAAAAAAAAAG
15245304 GCTTCAAAAAAAAAA
1 GCTT-AAAAAAAAAA
15245319 ACTAAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.13
Consensus pattern (15 bp):
GCTTAAAAAAAAAAG
Found at i:15246962 original size:2 final size:2
Alignment explanation
Indices: 15246957--15246981 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15246947 GCACATAAGA
15246957 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
15246982 CACATAAAAA
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:15248350 original size:18 final size:19
Alignment explanation
Indices: 15248307--15248350 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
15248297 CATGCTAATT
* *
15248307 AAATAAAAATAAAAGAAAT
1 AAATAAAAATAAAACAAAC
15248326 AAATAAAAAT-AAACAAAC
1 AAATAAAAATAAAACAAAC
*
15248344 AATTAAA
1 AAATAAA
15248351 TAAGCAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (19 bp):
AAATAAAAATAAAACAAAC
Found at i:15251880 original size:2 final size:2
Alignment explanation
Indices: 15251873--15251897 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15251863 TATAACTTAT
15251873 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15251898 TTCTGCGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15254256 original size:9 final size:8
Alignment explanation
Indices: 15254231--15254260 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
15254221 TATCATGTGC
15254231 TTTTTA-T
1 TTTTTATT
15254238 TTTTTATT
1 TTTTTATT
15254246 TTTTTATT
1 TTTTTATT
15254254 TTTTTAT
1 TTTTTAT
15254261 ATATTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:15254429 original size:21 final size:20
Alignment explanation
Indices: 15254386--15254429 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
15254376 TTTATTCATT
*
15254386 TTTTTAATATTTAATAAATA
1 TTTTTAATATTTAATAAAGA
15254406 TTTTTAAGTATTTTAA-AAAGA
1 TTTTTAA-TA-TTTAATAAAGA
15254427 TTT
1 TTT
15254430 CATATAAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTTTAATATTTAATAAAGA
Found at i:15254668 original size:21 final size:21
Alignment explanation
Indices: 15254644--15254699 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 21
15254634 TTCTTTCCCT
15254644 TTTTTATGTTTTT-GTATTTTC
1 TTTTT-TGTTTTTAGTATTTTC
*
15254665 TTTTTCT-TTTTTAGTTTTTTC
1 TTTTT-TGTTTTTAGTATTTTC
15254686 TTTCTTTGTTTTTA
1 TTT-TTTGTTTTTA
15254700 AATTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 5 0.17
21 17 0.57
22 8 0.27
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (21 bp):
TTTTTTGTTTTTAGTATTTTC
Found at i:15254685 original size:15 final size:15
Alignment explanation
Indices: 15254665--15254698 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15254655 TTGTATTTTC
15254665 TTTTTCTTT-TTTAGT
1 TTTTTCTTTCTTT-GT
15254680 TTTTTCTTTCTTTGT
1 TTTTTCTTTCTTTGT
15254695 TTTT
1 TTTT
15254699 AAATTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTCTTTGT
Found at i:15256319 original size:23 final size:23
Alignment explanation
Indices: 15256292--15256337 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15256282 CCTTTAAGCT
* * *
15256292 TTTTTTATTTTTATTTATTTTTTC
1 TTTTTT-TGTTTATGTACTTTTTC
15256316 TTTTTTTGTTTATGTACTTTTT
1 TTTTTTTGTTTATGTACTTTTT
15256338 AAGATTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.80
Consensus pattern (23 bp):
TTTTTTTGTTTATGTACTTTTTC
Found at i:15256760 original size:2 final size:2
Alignment explanation
Indices: 15256753--15256788 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
15256743 CACATATCTA
* *
15256753 AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15256789 TTTAACAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15259716 original size:17 final size:18
Alignment explanation
Indices: 15259694--15259729 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15259684 TTTTTTGTTC
*
15259694 TTGCTA-TTTACTTTAAT
1 TTGCTATTTTAATTTAAT
15259711 TTGCTATTTTAATTTAAT
1 TTGCTATTTTAATTTAAT
15259729 T
1 T
15259730 CAAGTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.61
Consensus pattern (18 bp):
TTGCTATTTTAATTTAAT
Found at i:15260012 original size:6 final size:6
Alignment explanation
Indices: 15260001--15260026 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15259991 TTAAGTATAA
15260001 TTTTAG TTTTAG TTTTAG TTTTAG TT
1 TTTTAG TTTTAG TTTTAG TTTTAG TT
15260027 AATTCAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (6 bp):
TTTTAG
Found at i:15260886 original size:17 final size:17
Alignment explanation
Indices: 15260864--15260897 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15260854 ATAAGTTAAA
15260864 GGATTAATAAAAGGATT
1 GGATTAATAAAAGGATT
* *
15260881 GGATTATTGAAAGGATT
1 GGATTAATAAAAGGATT
15260898 AGTAGTCCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.32
Consensus pattern (17 bp):
GGATTAATAAAAGGATT
Found at i:15266789 original size:71 final size:73
Alignment explanation
Indices: 15266683--15266837 Score: 172
Period size: 71 Copynumber: 2.2 Consensus size: 73
15266673 TTCTACTAGC
* * * *
15266683 AAACTTATTATTTTTGGGATTGTCACTATTGATGTTGCATTTGTCTT-GGAAAATTGATCATGAT
1 AAACTTATTATATTTGGGATTATCACTATTAATGTTGCACTTGTCTTAGG-AAATTGATCATGAT
15266747 TTTATTGGA
65 TTTATTGGA
* * * **
15266756 AAACTTA-TATATTT-GGATTATTACTATTAATGTTGTACTTGTTTTAGGAAATTGATTTTGATT
1 AAACTTATTATATTTGGGATTATCACTATTAATGTTGCACTTGTCTTAGGAAATTGATCATGATT
* *
15266819 TTATTAGC
66 TTATTGGA
*
15266827 AAATTTATTAT
1 AAACTTATTAT
15266838 TTCTAGTTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
71 50 0.74
72 11 0.16
73 7 0.10
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.49
Consensus pattern (73 bp):
AAACTTATTATATTTGGGATTATCACTATTAATGTTGCACTTGTCTTAGGAAATTGATCATGATT
TTATTGGA
Found at i:15267364 original size:22 final size:22
Alignment explanation
Indices: 15267325--15267369 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
15267315 TATAAGATGA
*
15267325 TATAATTTAATTTAATTTTATC
1 TATAATTTAATTTAATTTGATC
*
15267347 TATAATTTCATATT-ATTTGATC
1 TATAATTTAAT-TTAATTTGATC
15267369 T
1 T
15267370 TATTATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (22 bp):
TATAATTTAATTTAATTTGATC
Found at i:15268797 original size:30 final size:29
Alignment explanation
Indices: 15268752--15268816 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
15268742 ATTTAAGATG
* *
15268752 AAAATTTTTTTAATTTTCAAAATTTTATAT
1 AAAATTGTTTGAATTTTCAAAATTTTA-AT
* *
15268782 AAAATTGTTTGAATTTTTAATATTTTAAT
1 AAAATTGTTTGAATTTTCAAAATTTTAAT
*
15268811 TAAATT
1 AAAATT
15268817 TTTTTAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (29 bp):
AAAATTGTTTGAATTTTCAAAATTTTAAT
Found at i:15269558 original size:23 final size:23
Alignment explanation
Indices: 15269532--15269577 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
15269522 ATAAAATTGT
* *
15269532 AAAAAGTACATAAACAA-AAAAAG
1 AAAAAATAAATAAA-AATAAAAAG
15269555 AAAAAATAAATAAAAATAAAAAG
1 AAAAAATAAATAAAAATAAAAAG
15269578 GGCTCAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (23 bp):
AAAAAATAAATAAAAATAAAAAG
Found at i:15270293 original size:17 final size:15
Alignment explanation
Indices: 15270273--15270315 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 15
15270263 GTTGACAAAT
15270273 AAAAAGAAAAAGAATAA
1 AAAAAGAAAAA-AA-AA
15270290 AAAAAGTAAAAAAAAA
1 AAAAAG-AAAAAAAAA
15270306 AGAAAAGAAA
1 A-AAAAGAAA
15270316 CATAGGGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.25
17 13 0.54
18 5 0.21
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.05
Consensus pattern (15 bp):
AAAAAGAAAAAAAAA
Found at i:15270295 original size:11 final size:11
Alignment explanation
Indices: 15270273--15270311 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
15270263 GTTGACAAAT
15270273 AAAAAGAAAAAG
1 AAAAA-AAAAAG
*
15270285 AATAAAAAAAG
1 AAAAAAAAAAG
15270296 TAAAAAAAAAAG
1 -AAAAAAAAAAG
15270308 AAAA
1 AAAA
15270312 GAAACATAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:15273407 original size:23 final size:22
Alignment explanation
Indices: 15273381--15273424 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
15273371 GATACTCAAA
*
15273381 ATTAAGTTAATCAATTGGAAAAC
1 ATTAAGTCAATCAATT-GAAAAC
*
15273404 ATTAAGTCAATCACTTGAAAA
1 ATTAAGTCAATCAATTGAAAA
15273425 TCAAGGGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (22 bp):
ATTAAGTCAATCAATTGAAAAC
Found at i:15277039 original size:133 final size:133
Alignment explanation
Indices: 15276794--15277049 Score: 381
Period size: 133 Copynumber: 1.9 Consensus size: 133
15276784 GATGCATTAT
* *
15276794 AATAAGGTGGGCTTGAAAAAAGCTCAAATAGTCCAAAGAACTACTTAGATCATCTCTTGAGTCAA
1 AATAAGATGGGCTTGAAAAAAGCTCAAATAGTCCAAAGAACTACCTAGATCATCTCTTGAGTCAA
* * *
15276859 ATGCAGTATAGGATTTTACTTTAAAAGTTAAGTAGGTAAATTCTAGAGCACTTATTCAAAAGCAT
66 ATGCAGTATAGGATTTTACCTCAAAAGTTAAGTAAGTAAATTCTAGAGCACTTATTCAAAAGCAT
15276924 TTG
131 TTG
*
15276927 AATAAGATGGGCTTGAAAAAGGCTCAAATAGTCCAAAGAACTACCTAGATCATCTCTTGAGTCAA
1 AATAAGATGGGCTTGAAAAAAGCTCAAATAGTCCAAAGAACTACCTAGATCATCTCTTGAGTCAA
* ** * *
15276992 ATGCAGTCTAGGATTTTACCTCAAGGGTTGAA-TAAGTGAACTT-TAGAGCATTTATTCA
66 ATGCAGTATAGGATTTTACCTCAAAAGTT-AAGTAAGT-AAATTCTAGAGCACTTATTCA
15277050 TATCTTTGAA
Statistics
Matches: 110, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
133 104 0.95
134 6 0.05
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (133 bp):
AATAAGATGGGCTTGAAAAAAGCTCAAATAGTCCAAAGAACTACCTAGATCATCTCTTGAGTCAA
ATGCAGTATAGGATTTTACCTCAAAAGTTAAGTAAGTAAATTCTAGAGCACTTATTCAAAAGCAT
TTG
Found at i:15280351 original size:13 final size:12
Alignment explanation
Indices: 15280335--15280381 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
15280325 ATCTTTTTTC
15280335 TTTTTTGTTTAT
1 TTTTTTGTTTAT
*
15280347 ATTTTTTATTTAT
1 -TTTTTTGTTTAT
15280360 TTATTTTGCTTT-T
1 TT-TTTTG-TTTAT
15280373 TTTTTTGTT
1 TTTTTTGTT
15280382 GCTACTCGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 2 0.07
12 7 0.23
13 18 0.60
14 3 0.10
ACGTcount: A:0.11, C:0.02, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTGTTTAT
Found at i:15281127 original size:4 final size:4
Alignment explanation
Indices: 15281118--15281149 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
15281108 AAAAGAAAAG
15281118 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
15281150 AAGGTTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:15285308 original size:16 final size:17
Alignment explanation
Indices: 15285284--15285326 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
15285274 CCATATTTGG
* *
15285284 TAGCATTTAGGTT-GAT
1 TAGCTTTTAAGTTAGAT
*
15285300 TAGCTTTTAAGTTAGTT
1 TAGCTTTTAAGTTAGAT
15285317 TAGCTTTTAA
1 TAGCTTTTAA
15285327 ATTTTGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.49
Consensus pattern (17 bp):
TAGCTTTTAAGTTAGAT
Found at i:15290892 original size:145 final size:142
Alignment explanation
Indices: 15290631--15290973 Score: 415
Period size: 145 Copynumber: 2.4 Consensus size: 142
15290621 TTAAAATACT
* * * * * *
15290631 AAAAATTATAAAATATTATAAATTTAAGATATGAAAA-T-ATGAAAATCTGAACTGGAGAATGTC
1 AAAAATTATAAAATATTATAAAATTAAGATCTGAAAATTCATAAAAATCTGAGCTAGAGAATGGC
* * * *
15290694 AAATTAGATAATACTCTTAAAAGAGTATTTTAGTAATTTTACACTTCTGAGGGTACT-GTTATGA
66 AAATTAAAAAATACCCTTAAAAGAGTATTTTAGTAATTTTACACTTCTGAGGGTA-TGGCTATGA
15290758 TTTCAAATGCACC
130 TTTCAAATGCACC
*
15290771 AAAAATTATGAAATATTATAAAATTAAGATCTGAAAAGGTTCATAAAAATCTGAGCTCAG-GAAT
1 AAAAATTATAAAATATTATAAAATTAAGATCTGAAAA--TTCATAAAAATCTGAGCT-AGAGAAT
* * * * *
15290835 GGCAAATTATAAAAATACCCTTATAAGAGTATTTTGGTAATTTTATACTTCTTAGGGTATGGCTG
63 GGCAAATTA-AAAAATACCCTTAAAAGAGTATTTTAGTAATTTTACACTTCTGAGGGTATGGCTA
*
15290900 TGATTTCAAATGTACC
127 TGATTTCAAATGCACC
* * *
15290916 AAAAATCATAAAATATTATGAAATTAAGATCTAAAAAATTTCATAAAAATCTGAGCTA
1 AAAAATTATAAAATATTATAAAATTAAGATCT-GAAAA-TTCATAAAAATCTGAGCTA
15290974 AAAAAAACCA
Statistics
Matches: 173, Mismatches: 22, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
140 34 0.20
143 1 0.01
144 27 0.16
145 107 0.62
146 4 0.02
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (142 bp):
AAAAATTATAAAATATTATAAAATTAAGATCTGAAAATTCATAAAAATCTGAGCTAGAGAATGGC
AAATTAAAAAATACCCTTAAAAGAGTATTTTAGTAATTTTACACTTCTGAGGGTATGGCTATGAT
TTCAAATGCACC
Found at i:15299713 original size:161 final size:160
Alignment explanation
Indices: 15299109--15301810 Score: 1895
Period size: 161 Copynumber: 17.0 Consensus size: 160
15299099 TTTTGTGTTG
* * * * * *
15299109 TTAAAAGGTAAAAATACAATTTTGTAATTATTTTTCTATTTTAATAGTTTACATAGCTTAAATAC
1 TTAAAAGGTAAAAATGCAAATTTGTAGTTA-TTTTCTATTTTAACAGTTTAGATAGCTTCAATAC
* * * * * * *
15299174 ATGATATTAAACTTATT-GAATGATTGAAGTCTATTTTCA-TGATTTATATGTATGAAAAAGTTA
65 ATGATATTAAACTTGTTCGAATGATTGAACTTTGTTTTCACAG-TTGATATGTGTGAAAAAGTTA
* *
15299237 TTG-TT-TGTCTGTTTAAGACTTTTTGTGCCA
129 TTGTTTATGTTTGTTTAGGACTTTTTGTGCCA
* * * *
15299267 TTAAAAGGT-AAAATTCAAATTTATAGTTATTGGTTC-AATTTAAAAGTTTAGATAGCTTCAATA
1 TTAAAAGGTAAAAATGCAAATTTGTAGTTATT--TTCTATTTTAACAGTTTAGATAGCTTCAATA
*
15299330 CATGATATTAAACTTG-TCTGAATGATTAAACTTTGTTTCTGC-CA-TTGATATGTGTGAAAAAG
64 CATGATATTAAACTTGTTC-GAATGATTGAACTTTGTTT-T-CACAGTTGATATGTGTGAAAAAG
* * * * * * *
15299392 TTATGGTTTATATCTATTTAAGACTTTTTATGCCG
126 TTATTGTTTATGTTTGTTTAGGACTTTTTGTGCCA
* * * * * * * * *
15299427 TTAAAGGGCAAAAAGGTAATTTTGTTA-TTATATTTATGTTTTAACAATTTACATAGCTT-AA-A
1 TTAAAAGGTAAAAATGCAAATTTG-TAGTTAT-TTTCTATTTTAACAGTTTAGATAGCTTCAATA
* * * * * * *
15299489 TATGATATTAAATTTGTTCGAATGATTGAACTTGGTTTTTA-TGATTGATGTGTTTGAAAAAGTT
64 CATGATATTAAACTTGTTCGAATGATTGAACTTTGTTTTCACAG-TTGATATGTGTGAAAAAGTT
* * *
15299553 ATTGTTTATGTTCGTTTAGGACTTTCTGTGCTA
128 ATTGTTTATGTTTGTTTAGGACTTTTTGTGCCA
* * * * *
15299586 TTAAAAGGTAAAAATGCAAAATTGTAGTTATTGTTCCATTTTAATAGTTCAAATAGCTTCAATAC
1 TTAAAAGGTAAAAATGCAAATTTGTAGTTATT-TTCTATTTTAACAGTTTAGATAGCTTCAATAC
* *
15299651 ATGATATTAAACTTATTCGAATGATTGAACTTTGTTTTCACAGTTGATATATGTGAAAAAGTTAT
65 ATGATATTAAACTTGTTCGAATGATTGAACTTTGTTTTCACAGTTGATATGTGTGAAAAAGTTAT
* * * *
15299716 GGTTTATATTTGTTTAGGATTTTTTGTTCCA
130 TGTTTATGTTTGTTTAGGACTTTTTGTGCCA
* * * ** * * * * * *
15299747 -CAACA-GTATAAAAAGGTAATTT-T-GTTA--TTCTGTTTTAATAGTTTACATAGCCTAAATAT
1 TTAAAAGGTA-AAAATGCAAATTTGTAGTTATTTTCTATTTTAACAGTTTAGATAGCTTCAATAC
* ** * * * *
15299806 ATGATATTAAACTTGTTCGAATGATTGATCTTAATTTCCACAATTTATATGTGTAAAAAAG---T
65 ATGATATTAAACTTGTTCGAATGATTGAACTTTGTTTTCACAGTTGATATGTGTGAAAAAGTTAT
* * * *
15299868 TGTTTATGTTTGTTTAAGATTTTTTGTGTCG
130 TGTTTATGTTTGTTTAGGACTTTTTGTGCCA
* * * * *
15299899 TTAAAAGGTAAAAATGGAAATTTGCAGTTATTGTTCTATTTTAACAGTTCAAATAGCTTCAACAC
1 TTAAAAGGTAAAAATGCAAATTTGTAGTTATT-TTCTATTTTAACAGTTTAGATAGCTTCAATAC
* * *
15299964 ATGATATTAAACTTG-CCTGAATTATTGAACTTTGTTTTCACAGTTAATATGTGTGAAAAAGTTA
65 ATGATATTAAACTTGTTC-GAATGATTGAACTTTGTTTTCACAGTTGATATGTGTGAAAAAGTTA
*** * * *
15300028 CAATTTATATCTATTTAGGACTTTTTGTGCCA
129 TTGTTTATGTTTGTTTAGGACTTTTTGTGCCA
* * * * * ** * * * * *
15300060 TCAAAGGGCAAAAAGGTAGTTTTTTTGTTATATTTAC-ATTTTAACAGTGTACATAGCTTAAATA
1 TTAAAAGGTAAAAATGCAAATTTGTAGTTAT-TTT-CTATTTTAACAGTTTAGATAGCTTCAATA
* * * * **
15300124 CATGATATTAAACTTGTGCAAATGATTGAACTTAGTTTTCA-TGATTGATACATGTGAAAAAGTT
64 CATGATATTAAACTTGTTCGAATGATTGAACTTTGTTTTCACAG-TTGATATGTGTGAAAAAGTT
** * * * *
15300188 GCTGTTTATGTTTGTTTATGAGTTTTTGTGTCG
128 ATTGTTTATGTTTGTTTAGGACTTTTTGTGCCA
* *
15300221 TTAAAAGGTAAAAATGCAAATTTATAGTTATTGTTCCATTTTAACAGTTTAGATAGCTTCAATAC
1 TTAAAAGGTAAAAATGCAAATTTGTAGTTATT-TTCTATTTTAACAGTTTAGATAGCTTCAATAC
* * * *
15300286 ATGATATTAAACTTGTTTGAATGATTAAACTTTGTTTTCATAGTTGATAAGTGAT-AAAAAGTTA
65 ATGATATTAAACTTGTTCGAATGATTGAACTTTGTTTTCACAGTTGATATGTG-TGAAAAAGTTA
* * * * * * *
15300350 TGGTTTATATCTGTTTAAGACTTTTTATGTCG
129 TTGTTTATGTTTGTTTAGGACTTTTTGTGCCA
* ** * * * ** * ** ** * *
15300382 TT-TAAGGGCAAAAGGTAATTTTGTTCTTATATTTCTGTTTTAGTAGTTTTCATAGCTTAAATAT
1 TTAAAAGGTAAAAATGCAAATTTGTAGTTAT-TTTCTATTTTAACAGTTTAGATAGCTTCAATAC
* * * *
15300446 ATGATATTAAACTTGTTCGAATGATTGAACTTAGTTTCCACAATTGATATGTCT-AAAAACGTTA
65 ATGATATTAAACTTGTTCGAATGATTGAACTTTGTTTTCACAGTTGATATGTGTGAAAAA-GTTA
* * **
15300510 CTATTTATGTTTGTTTAGGACTTTTTGTGCTG
129 TTGTTTATGTTTGTTTAGGACTTTTTGTGCCA
* * *
15300542 TTAAAAGGTAAAAATTCAAATTT-TCAGTTATTTT-TATTTTAACAATTTGGATAGCTTCAATAC
1 TTAAAAGGTAAAAATGCAAATTTGT-AGTTATTTTCTATTTTAACAGTTTAGATAGCTTCAATAC
* * ** *
15300605 ATGATATTAAACTTGTTCGAATGATTAAACTTGGTTTTCATGGTTGATATGTGTGAAAAAGTCAT
65 ATGATATTAAACTTGTTCGAATGATTGAACTTTGTTTTCACAGTTGATATGTGTGAAAAAGTTAT
* * *
15300670 GGTTTATATTTGTTTAGGAC-TTTTATGCCA
130 TGTTTATGTTTGTTTAGGACTTTTTGTGCCA
* * * * * * * *
15300700 TTAAAAAGTAAAAATGCAAGTTTGCAGTCATTGTTCTACTTTAATAGTTCAGATAGCTTCAATGC
1 TTAAAAGGTAAAAATGCAAATTTGTAGTTATT-TTCTATTTTAACAGTTTAGATAGCTTCAATAC
** * * *
15300765 ATGATATTATGCTTGTTTGAATGATTGAA-TTTGGTTTC-CATGATTGATATGTGTGAAAAATTT
65 ATGATATTAAACTTGTTCGAATGATTGAACTTTGTTTTCACA-G-TTGATATGTGTGAAAAAGTT
*** * * * * *
15300828 ACCATTTATGTATGTTTAGCACTTTTTATGTCG
128 ATTGTTTATGTTTGTTTAGGACTTTTTGTGCCA
* * * * * * * * *
15300861 TTAAAGGGTCAAAATGTAAAGTTATAGTTATATTTATGTTTTAACAGTTTAAATAGCTT-ATACA
1 TTAAAAGGTAAAAATGCAAATTTGTAGTTAT-TTTCTATTTTAACAGTTTAGATAGCTTCA-ATA
* * *
15300925 CATGATATTAAACTTGTTCGAATGATTGAACTTGGTTTTCCCAATTTGATA--TGT-AAACAAGT
64 CATGATATTAAACTTGTTCGAATGATTGAACTTTGTTTTCAC-AGTTGATATGTGTGAAA-AAGT
* * *
15300987 TA-TGATTTATGTTTGTTTAAGACCTTTTGTACCA
127 TATTG-TTTATGTTTGTTTAGGACTTTTTGTGCCA
*** * * * * * * *
15301021 TTAAAAAACAAAATTGCAAGTTTGCAATTATTGTTCTATTTTAACAGTTCAAATAGCTTTAATAC
1 TTAAAAGGTAAAAATGCAAATTTGTAGTTATT-TTCTATTTTAACAGTTTAGATAGCTTCAATAC
* * ** * *
15301086 ATGGTAAATATGCTTGTTCGAATGATTGAA-TTTGGTTTTCACAATTGATATGTTTGAAAAAGTT
65 ATGAT-ATTAAACTTGTTCGAATGATTGAACTTT-GTTTTCACAGTTGATATGTGTGAAAAAGTT
* * *
15301150 ATTGTTTACGTATGTTTAGCACTTTTTGTGCCA
128 ATTGTTTATGTTTGTTTAGGACTTTTTGTGCCA
* * * * * * *
15301183 TTAAAAGGTTAAAATG-TAATGTTCG--GTTATACTTATGTTTTAACAGTTTAGATAGCTTAAAC
1 TTAAAAGGTAAAAATGCAAAT-TT-GTAGTTAT-TTTCTATTTTAACAGTTTAGATAGCTTCAAT
* * *
15301245 ACATGATATTAAACTTG-TCTGAATGATTGAAC-TTGGTTTCTATAATTTGATA--TGT-AAATA
63 ACATGATATTAAACTTGTTC-GAATGATTGAACTTTGTTTTC-A-CAGTTGATATGTGTGAAA-A
* *
15301305 AGTTA-CGATTTATGTTTGTTTAAGAC-TTTT-T---A
124 AGTTATTG-TTTATGTTTGTTTAGGACTTTTTGTGCCA
** * * * * * *
15301337 TTATTATGT--AAATGTAAGTTTGCAGTTATTTTTCTATTTTAATAGTTCAGATAGCTTCAATAC
1 TTAAAAGGTAAAAATGCAAATTTGTAGTTA-TTTTCTATTTTAACAGTTTAGATAGCTTCAATAC
*** ** * * **
15301400 ATGATATTATGTTTGTTTAAATGATTGAA-TTTGGTTTC-CATGATTTATATACGTGAAAAAGTT
65 ATGATATTAAACTTGTTCGAATGATTGAACTTTGTTTTCACA-G-TTGATATGTGTGAAAAAGTT
* * * *
15301463 ATTGTTTATGTATGTTTAGCATTTTTTATGCCA
128 ATTGTTTATGTTTGTTTAGGACTTTTTGTGCCA
* * * * * *
15301496 TTAAAGGGTCAAAATG-TAATGTTGTAGTTATATTTATATTTTAACAATTTAGATAGCTTAAACT
1 TTAAAAGGTAAAAATGCAAAT-TTGTAGTTAT-TTTCTATTTTAACAGTTTAGATAGCTTCAA-T
* * *
15301560 -CATGGTATTAAACTTG-TCTGAATGATTGAAC-TTGGTTTCTACAATTTGATA--TGT-AAATA
63 ACATGATATTAAACTTGTTC-GAATGATTGAACTTTGTTTTC-AC-AGTTGATATGTGTGAAA-A
* * * *
15301619 AGTT-GTGATTTATGTCTGTTTAAGACTTTTTGTGCCT
124 AGTTATTG-TTTATGTTTGTTTAGGACTTTTTGTGCCA
* * * ** * * * *
15301656 TTCAAAA-GCATAAATGCAAGTTTACAGTTATTGTTCTATTTTAACAGCTCAAATAGCCTCAATA
1 TT-AAAAGGTAAAAATGCAAATTTGTAGTTATT-TTCTATTTTAACAGTTTAGATAGCTTCAATA
** *
15301720 CATGATATTATGCTTGTTCGAATGATTGAA-TTTGTTTTGCACATTTGATATGTGTGAAAAAGTT
64 CATGATATTAAACTTGTTCGAATGATTGAACTTTGTTTT-CACAGTTGATATGTGTGAAAAAGTT
* * * *
15301784 ACCT-TTTATGTATCTTTAGCACTTTTT
128 A-TTGTTTATGTTTGTTTAGGACTTTTT
15301811 ATGTCATTGT
Statistics
Matches: 1959, Mismatches: 467, Indels: 233
0.74 0.18 0.09
Matches are distributed among these distances:
150 1 0.00
151 1 0.00
152 38 0.02
153 76 0.04
154 34 0.02
155 89 0.05
156 4 0.00
157 56 0.03
158 171 0.09
159 279 0.14
160 473 0.24
161 650 0.33
162 76 0.04
163 9 0.00
164 2 0.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (160 bp):
TTAAAAGGTAAAAATGCAAATTTGTAGTTATTTTCTATTTTAACAGTTTAGATAGCTTCAATACA
TGATATTAAACTTGTTCGAATGATTGAACTTTGTTTTCACAGTTGATATGTGTGAAAAAGTTATT
GTTTATGTTTGTTTAGGACTTTTTGTGCCA
Found at i:15300564 original size:321 final size:321
Alignment explanation
Indices: 15299126--15301810 Score: 2071
Period size: 321 Copynumber: 8.4 Consensus size: 321
15299116 GTAAAAATAC
* *
15299126 AATTTTGTAATTATTTTTCTATTTTAATAGTTTACATAGCTTAAATACATGATATTAAACTTATT
1 AATTTTGTAATTATATTTCTATTTTAATAGTTTACATAGCTTAAATACATGATATTAAACTTGTT
* * * * *
15299191 -GAATGATTGAAGTCTA-TTTTCATGATTTATATGTATGAAAAAGTTATTG-TT-TGTCTGTTTA
66 CGAATGATTGAACT-TAGTTTTCATGATTGATATGTGTGAAAAAGTTACTGTTTATGTTTGTTTA
* ** * *
15299252 AGACTTTTTGTGCCATTAAAAGGT-AAAATTCAAATTTATAGTTATTGGTTC-AATTTAAAAGTT
130 GGACTTTTTGTGCTGTTAAAAGGTAAAAATTCAAATTTATAGTTATT-GTTCTATTTTAACAGTT
* *
15299315 TAGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTAAACTTTGTTTCTGC-CA-TTGA
194 TAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTTGTTT-T-CACAGTTGA
* * * *
15299378 TATGTGTGAAAAAGTTATGGTTTATATCTATTTAAGACTTTTTATGCCGTTAAAGGGCAAAAAGG
257 TAAGTGTGAAAAAGTTATGGTTTATATTTGTTTAAGACTTTTTATGCCATTAAAGGGC-AAAAGG
15299443 T
321 T
* * * * * *
15299444 AATTTTGTTATTATATTTATGTTTTAACAATTTACATAGCTTAAAT--ATGATATTAAATTTGTT
1 AATTTTGTAATTATATTTCTATTTTAATAGTTTACATAGCTTAAATACATGATATTAAACTTGTT
* * * * * *
15299507 CGAATGATTGAACTTGGTTTTTATGATTGATGTGTTTGAAAAAGTTATTGTTTATGTTCGTTTAG
66 CGAATGATTGAACTTAGTTTTCATGATTGATATGTGTGAAAAAGTTACTGTTTATGTTTGTTTAG
* * * * * * * *
15299572 GACTTTCTGTGCTATTAAAAGGTAAAAATGCAAAATTGTAGTTATTGTTCCATTTTAATAGTTCA
131 GACTTTTTGTGCTGTTAAAAGGTAAAAATTCAAATTTATAGTTATTGTTCTATTTTAACAGTTTA
* * *
15299637 AATAGCTTCAATACATGATATTAAACTTATTCGAATGATTGAACTTTGTTTTCACAGTTGATATA
196 GATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTTGTTTTCACAGTTGATA-A
* * * * * ***
15299702 -TGTGAAAAAGTTATGGTTTATATTTGTTTAGGATTTTTTGTTCCA-CAACAGTATAAAAAGGT
260 GTGTGAAAAAGTTATGGTTTATATTTGTTTAAGACTTTTTATGCCATTAA-AG-GGCAAAAGGT
* * *
15299764 AATTTTG----T-TA-TTCTGTTTTAATAGTTTACATAGCCTAAATATATGATATTAAACTTGTT
1 AATTTTGTAATTATATTTCTATTTTAATAGTTTACATAGCTTAAATACATGATATTAAACTTGTT
* * * ** * * *
15299823 CGAATGATTGATCTTAATTTCCACAATTTATATGTGTAAAAAAG-T--TGTTTATGTTTGTTTAA
66 CGAATGATTGAACTTAGTTTTCATGATTGATATGTGTGAAAAAGTTACTGTTTATGTTTGTTTAG
* ** ** *
15299885 GATTTTTTGTG-TCGTTAAAAGGTAAAAATGGAAATTTGCAGTTATTGTTCTATTTTAACAGTTC
131 GACTTTTTGTGCT-GTTAAAAGGTAAAAATTCAAATTTATAGTTATTGTTCTATTTTAACAGTTT
* * ** * * *
15299949 AAATAGCTTCAACACATGATATTAAACTTGCCTGAATTATTGAACTTTGTTTTCACAGTTAATAT
195 AGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTTGTTTTCACAGTTGATAA
*** * * * * *
15300014 GTGTGAAAAAGTTACAATTTATATCTATTTAGGACTTTTTGTGCCATCAAAGGGCAAAAAGGT
260 GTGTGAAAAAGTTATGGTTTATATTTGTTTAAGACTTTTTATGCCATTAAAGGGC-AAAAGGT
* * ** * *
15300077 AGTTTTTTTGTTATATTTAC-ATTTTAACAGTGTACATAGCTTAAATACATGATATTAAACTTGT
1 AATTTTGTAATTATATTT-CTATTTTAATAGTTTACATAGCTTAAATACATGATATTAAACTTGT
* * ** *
15300141 GCAAATGATTGAACTTAGTTTTCATGATTGATACATGTGAAAAAGTTGCTGTTTATGTTTGTTTA
65 TCGAATGATTGAACTTAGTTTTCATGATTGATATGTGTGAAAAAGTTACTGTTTATGTTTGTTTA
* * * *
15300206 TGAGTTTTTGTG-TCGTTAAAAGGTAAAAATGCAAATTTATAGTTATTGTTCCATTTTAACAGTT
130 GGACTTTTTGTGCT-GTTAAAAGGTAAAAATTCAAATTTATAGTTATTGTTCTATTTTAACAGTT
* *
15300270 TAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTAAACTTTGTTTTCATAGTTGATA
194 TAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTTGTTTTCACAGTTGATA
* * * *
15300335 AGTGAT-AAAAAGTTATGGTTTATATCTGTTTAAGACTTTTTATGTCGTTTAAGGGCAAAAGGT
259 AGTG-TGAAAAAGTTATGGTTTATATTTGTTTAAGACTTTTTATGCCATTAAAGGGCAAAAGGT
** * * * *
15300398 AATTTTGTTCTTATATTTCTGTTTTAGTAGTTTTCATAGCTTAAATATATGATATTAAACTTGTT
1 AATTTTGTAATTATATTTCTATTTTAATAGTTTACATAGCTTAAATACATGATATTAAACTTGTT
* ** * *
15300463 CGAATGATTGAACTTAGTTTCCACAATTGATATGTCT-AAAAACGTTACTATTTATGTTTGTTTA
66 CGAATGATTGAACTTAGTTTTCATGATTGATATGTGTGAAAAA-GTTACTGTTTATGTTTGTTTA
*
15300527 GGACTTTTTGTGCTGTTAAAAGGTAAAAATTCAAATTT-TCAGTTATT-TT-TATTTTAACAATT
130 GGACTTTTTGTGCTGTTAAAAGGTAAAAATTCAAATTTAT-AGTTATTGTTCTATTTTAACAGTT
* * * * **
15300589 TGGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTAAACTTGGTTTTCATGGTTGATA
194 TAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTTGTTTTCACAGTTGATA
* * * * ** * *
15300654 TGTGTGAAAAAGTCATGGTTTATATTTGTTTAGGAC-TTTTATGCCATTAAAAAGTAAAAATGC
259 AGTGTGAAAAAGTTATGGTTTATATTTGTTTAAGACTTTTTATGCCATT-AAAGGGCAAAAGGT
* * * * * * * * * **
15300717 AAGTTTGCAGTCAT-TGTTCTACTTTAATAGTTCAGATAGCTTCAATGCATGATATTATGCTTGT
1 AATTTTGTAATTATAT-TTCTATTTTAATAGTTTACATAGCTTAAATACATGATATTAAACTTGT
* * * * * ** *
15300781 TTGAATGATTGAATTTGGTTTCCATGATTGATATGTGTGAAAAATTTACCATTTATGTATGTTTA
65 TCGAATGATTGAACTTAGTTTTCATGATTGATATGTGTGAAAAAGTTACTGTTTATGTTTGTTTA
* * * * * * *
15300846 GCACTTTTTATG-TCGTTAAAGGGTCAAAATGT-AAAGTTATAGTTATAT-TTATGTTTTAACAG
130 GGACTTTTTGTGCT-GTTAAAAGGTAAAAAT-TCAAATTTATAGTTAT-TGTTCTATTTTAACAG
* * * * * *
15300908 TTTAAATAGCTT-ATACACATGATATTAAACTTGTTCGAATGATTGAACTTGGTTTTCCCAATTT
192 TTTAGATAGCTTCA-ATACATGATATTAAACTTGTTTGAATGATTGAACTTTGTTTTCAC-AGTT
* * * * * ***
15300972 GAT-A-TGT-AAACAAGTTATGATTTATGTTTGTTTAAGACCTTTTGTACCATTAAAAAACAAAA
255 GATAAGTGTGAAA-AAGTTATGGTTTATATTTGTTTAAGACTTTTTATGCCATTAAAGGGCAAAA
* *
15301034 TTGC
319 -GGT
* * * * * * * * **
15301038 AAGTTTGCAATTAT-TGTTCTATTTTAACAGTTCAAATAGCTTTAATACATGGTAAATATGCTTG
1 AATTTTGTAATTATAT-TTCTATTTTAATAGTTTACATAGCTTAAATACATGAT-ATTAAACTTG
* * ** * * * *
15301102 TTCGAATGATTGAATTTGGTTTTCACAATTGATATGTTTGAAAAAGTTATTGTTTACGTATGTTT
64 TTCGAATGATTGAACTTAGTTTTCATGATTGATATGTGTGAAAAAGTTACTGTTTATGTTTGTTT
* ** * ** ** * *
15301167 AGCACTTTTTGTGCCATTAAAAGGTTAAAATGT--AATGTT-CGGTTATACTTATGTTTTAACAG
129 AGGACTTTTTGTGCTGTTAAAAGGTAAAAAT-TCAAAT-TTATAGTTATTGTTCTATTTTAACAG
* * * * * *
15301229 TTTAGATAGCTTAAACACATGATATTAAACTTGTCTGAATGATTGAAC-TTGGTTTCTATAATTT
192 TTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTTGTTTTC-A-CAGTT
* * * * * *
15301293 GAT-A-TGT-AAATAAGTTACGATTTATGTTTGTTTAAGACTTTTTAT--TATT--A-TG-TAAA
255 GATAAGTGTGAAA-AAGTTATGGTTTATATTTGTTTAAGACTTTTTATGCCATTAAAGGGCAAAA
*
15301349 TGT
319 GGT
* * * * * * * ***
15301352 AAGTTTGCAGTTATTTTTCTATTTTAATAGTTCAGATAGCTTCAATACATGATATTATGTTTGTT
1 AATTTTGTAATTATATTTCTATTTTAATAGTTTACATAGCTTAAATACATGATATTAAACTTGTT
** * * * * ** * *
15301417 TAAATGATTGAATTTGGTTTCCATGATTTATATACGTGAAAAAGTTATTGTTTATGTATGTTTAG
66 CGAATGATTGAACTTAGTTTTCATGATTGATATGTGTGAAAAAGTTACTGTTTATGTTTGTTTAG
* * * ** * * * * *
15301482 CATTTTTTATGCCATTAAAGGGTCAAAATGT--AATGTTGTAGTTATAT-TTATATTTTAACAAT
131 GACTTTTTGTGCTGTTAAAAGGTAAAAAT-TCAAAT-TTATAGTTAT-TGTTCTATTTTAACAGT
* * * * *
15301544 TTAGATAGCTTAAACT-CATGGTATTAAACTTGTCTGAATGATTGAAC-TTGGTTTCTACAATTT
193 TTAGATAGCTTCAA-TACATGATATTAAACTTGTTTGAATGATTGAACTTTGTTTTC-AC-AGTT
* * * * * * *
15301607 GAT-A-TGT-AAATAAGTTGTGATTTATGTCTGTTTAAGACTTTTTGTGCCTTTCAAA-AGCATA
255 GATAAGTGTGAAA-AAGTTATGGTTTATATTTGTTTAAGACTTTTTATGCCATT-AAAGGGCA-A
* *
15301668 AATGC
317 AAGGT
* ** * * * * * * * **
15301673 AAGTTTACAGTTAT-TGTTCTATTTTAACAGCTCAAATAGCCTCAATACATGATATTATGCTTGT
1 AATTTTGTAATTATAT-TTCTATTTTAATAGTTTACATAGCTTAAATACATGATATTAAACTTGT
* * * *
15301737 TCGAATGATTGAA-TTTGTTTTGCA-CATTTGATATGTGTGAAAAAGTTACCT-TTTATGTATCT
65 TCGAATGATTGAACTTAGTTTT-CATGA-TTGATATGTGTGAAAAAGTTA-CTGTTTATGTTTGT
*
15301799 TTAGCACTTTTT
127 TTAGGACTTTTT
15301811 ATGTCATTGT
Statistics
Matches: 1979, Mismatches: 319, Indels: 135
0.81 0.13 0.06
Matches are distributed among these distances:
312 1 0.00
313 276 0.14
314 194 0.10
315 7 0.00
316 68 0.03
317 43 0.02
318 58 0.03
319 362 0.18
320 206 0.10
321 489 0.25
322 274 0.14
323 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.44
Consensus pattern (321 bp):
AATTTTGTAATTATATTTCTATTTTAATAGTTTACATAGCTTAAATACATGATATTAAACTTGTT
CGAATGATTGAACTTAGTTTTCATGATTGATATGTGTGAAAAAGTTACTGTTTATGTTTGTTTAG
GACTTTTTGTGCTGTTAAAAGGTAAAAATTCAAATTTATAGTTATTGTTCTATTTTAACAGTTTA
GATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTTGTTTTCACAGTTGATAAG
TGTGAAAAAGTTATGGTTTATATTTGTTTAAGACTTTTTATGCCATTAAAGGGCAAAAGGT
Found at i:15300895 original size:801 final size:792
Alignment explanation
Indices: 15299624--15301335 Score: 1750
Period size: 801 Copynumber: 2.1 Consensus size: 792
15299614 TATTGTTCCA
* * * * * * *
15299624 TTTTAATAGTTCAAATAGCTTCAATACATGATATTAAACTTATTCGAATGATTGAACTTTGTTTT
1 TTTTAACAGTTTACATAGCTTAAATACATGATATTAAACTTGTTCGAATGATTGAACTTAGTTTC
* * * * * * *
15299689 CACAGTTGATATATGTGAAAAAGTTA-TGGTTTATATTTGTTTAGGATTTTTTGTTCCACAACAG
66 CACAATTG--ATATGTTAAAAAGTTACT-ATTTATGTTTGTTTAGGACTTTTTGTGCCACAAAAG
* * * *
15299753 TATAAAAAGGTAATTTTGTTATTCTGTTTTAATAGTTTACATAGCCTAAATATATGATATTAAAC
128 TATAAAAAGGTAATTTTGTTATTCTATTTTAACAATTTACATAGCCTAAATACATGATATTAAAC
* * * *
15299818 TTGTTCGAATGATTGATCTTAATTTCCACAATTTATATGTGTAAAAAAGTTGTTTATGTTTGTTT
193 TTGTTCGAATGATTAAACTTAATTTCCACAATTGATATGTGTAAAAAAGTTGTTTATATTTGTTT
* * * * * * * *
15299883 AAGATTTTTTGTGTCGTTAAAAGGTAAAAATGGAAATTTGCAGTTATTGTTCTATTTTAACAGTT
258 AAGATCTTTTATGCCATTAAAAAGTAAAAATGCAAATTTGCAGTCATTGTTCTACTTTAACAGTT
* *
15299948 CAAATAGCTTCAACACATGATATTAAACTTGCCTGAATTATTGAACTTTGTTTTCACAGTTAATA
323 CAAATAGCTTCAACACATGATATTAAACTTGCCTGAATGATTGAACTTTGGTTTCACAGTTAATA
* * *
15300013 TGTGTGAAAAAGTTACAATTTATATCTATTTAGGACTTTTTGTGCCATCAAAGGGCAAAAAGGTA
388 TGTGTGAAAAAGTTACAATTTATATATATTTAGCACTTTTTATGCCATCAAAGGGCAAAAAGGTA
*** * * * *
15300078 GTTTTTTTGTTATATTTACATTTTAACAGTGTACATAGCTTAAATACATGATATTAAACTTGTGC
453 AAGTTATAGTTATATTTACATTTTAACAGTGTAAATAGCTTAAACACATGATATTAAACTTGTGC
** *
15300143 AAATGATTGAACTTAGTTTTCATGA-TTGATACATGTGAAA-AAGTTGCTG-TTTATGTTTGTTT
518 AAATGATTGAACTTAGTTTTCACAATTTGAT--ATGT-AAACAAGTT-ATGATTTATGTTTGTTT
* ** ** * *** * *
15300205 ATGAGTTTTTGTGTCGTTAAAAGGTAAAAATGCAAATTTATAGTTATTGTTCCATTTTAACAGTT
579 AAGACCTTTTGTACCATTAAAAAACAAAAATGCAAATTTACAATTATTGTTCCATTTTAACAGTT
* * * * * *
15300270 TAGATAGCTTCAATACATGAT-ATTAAACTTGTTTGAATGATTAAACTTT-GTTTTCATAGTTGA
644 CAAATAGCTTCAATACATGATAAATAAACTTGTTCGAATGATTAAA-TTTGGTTTTCACAATTGA
* * * * *
15300333 TAAGTGAT-AAAAAGTTATGGTTTATATCTGTTTAAG-ACTTTTTATGTCGTT-TAAGGGCAAAA
708 TAAGT-ATGAAAAAGTTATGGTTTACATATGTTT-AGCACTTTTTATGCCATTAAAAGGGCAAAA
* *
15300395 GGTAATTTTGTTC-TTATATTTCTG
771 GGTAA---TGTTCGTTATACTTATG
** * *
15300419 TTTTAGTAGTTTTCATAGCTTAAATATATGATATTAAACTTGTTCGAATGATTGAACTTAGTTTC
1 TTTTAACAGTTTACATAGCTTAAATACATGATATTAAACTTGTTCGAATGATTGAACTTAGTTTC
***
15300484 CACAATTGATATGTCTAAAAACGTTACTATTTATGTTTGTTTAGGACTTTTTGTGCTGTTAAAAG
66 CACAATTGATATGT-TAAAAA-GTTACTATTTATGTTTGTTTAGGACTTTTTGTGC-CACAAAAG
* * * ** * *
15300549 -GTAAAAA-TTCAAATTTTCAGTTATTTTTATTTTAACAATTTGGATAGCTTCAATACATGATAT
128 TATAAAAAGGT--AATTTT--GTTA-TTCTATTTTAACAATTTACATAGCCTAAATACATGATAT
** * *** *
15300612 TAAACTTGTTCGAATGATTAAACTTGGTTTTCATGGTTGATATGTGTGAAAAAGTCATGGTTTAT
188 TAAACTTGTTCGAATGATTAAACTTAATTTCCACAATTGATATGTGTAAAAAAGT--T-GTTTAT
* *
15300677 ATTTGTTTAGGA-CTTTTATGCCATTAAAAAGTAAAAATGCAAGTTTGCAGTCATTGTTCTACTT
250 ATTTGTTTAAGATCTTTTATGCCATTAAAAAGTAAAAATGCAAATTTGCAGTCATTGTTCTACTT
* * ** ** **
15300741 TAATAGTTCAGATAGCTTCAATGCATGATATTATGCTTGTTTGAATGATTGAA-TTTGGTTTC-C
315 TAACAGTTCAAATAGCTTCAACACATGATATTAAACTTGCCTGAATGATTGAACTTTGGTTTCAC
* * * * * * * *
15300804 ATGATTGATATGTGTGAAAAATTTACCATTTATGTATGTTTAGCACTTTTTATGTCGTTAAAGGG
380 A-G-TTAATATGTGTGAAAAAGTTACAATTTATATATATTTAGCACTTTTTATGCCATCAAAGGG
* ** * *
15300869 TC-AAAATGTAAAGTTATAGTTATATTTATGTTTTAACAGTTTAAATAGCTTATACACATGATAT
443 -CAAAAAGGTAAAGTTATAGTTATATTTACATTTTAACAGTGTAAATAGCTTAAACACATGATAT
* * * *
15300933 TAAACTTGTTCGAATGATTGAACTTGGTTTTCCCAATTTGATATGTAAACAAGTTATGATTTATG
507 TAAACTTGTGCAAATGATTGAACTTAGTTTTCACAATTTGATATGTAAACAAGTTATGATTTATG
* * * *
15300998 TTTGTTTAAGACCTTTTGTACCATTAAAAAACAAAATTGCAAGTTTGCAATTATTGTTCTATTTT
572 TTTGTTTAAGACCTTTTGTACCATTAAAAAACAAAAATGCAAATTTACAATTATTGTTCCATTTT
* * ** *
15301063 AACAGTTCAAATAGCTTTAATACATGGTAAATATGCTTGTTCGAATGATTGAATTTGGTTTTCAC
637 AACAGTTCAAATAGCTTCAATACATGATAAATAAACTTGTTCGAATGATTAAATTTGGTTTTCAC
* * * * * **
15301128 AATTGATATGTTTGAAAAAGTTATTGTTTACGTATGTTTAGCACTTTTTGTGCCATTAAAAGGTT
702 AATTGATAAGTATGAAAAAGTTATGGTTTACATATGTTTAGCACTTTTTATGCCATTAAAAGGGC
*
15301193 AAAATGTAATGTTCGGTTATACTTATG
767 AAAAGGTAATGTTC-GTTATACTTATG
* * *
15301220 TTTTAACAGTTTAGATAGCTTAAACACATGATATTAAACTTG-TCTGAATGATTGAACTTGGTTT
1 TTTTAACAGTTTACATAGCTTAAATACATGATATTAAACTTGTTC-GAATGATTGAACTTAGTTT
* * * *
15301284 CTATAATTTGATATG-TAAATAAGTTACGATTTATGTTTGTTTAAGACTTTTT
65 CCACAA-TTGATATGTTAAA-AAGTTACTATTTATGTTTGTTTAGGACTTTTT
15301336 ATTATTATGT
Statistics
Matches: 746, Mismatches: 143, Indels: 51
0.79 0.15 0.05
Matches are distributed among these distances:
793 6 0.01
794 6 0.01
795 97 0.13
796 11 0.01
798 4 0.01
799 87 0.12
800 138 0.18
801 355 0.48
802 42 0.06
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (792 bp):
TTTTAACAGTTTACATAGCTTAAATACATGATATTAAACTTGTTCGAATGATTGAACTTAGTTTC
CACAATTGATATGTTAAAAAGTTACTATTTATGTTTGTTTAGGACTTTTTGTGCCACAAAAGTAT
AAAAAGGTAATTTTGTTATTCTATTTTAACAATTTACATAGCCTAAATACATGATATTAAACTTG
TTCGAATGATTAAACTTAATTTCCACAATTGATATGTGTAAAAAAGTTGTTTATATTTGTTTAAG
ATCTTTTATGCCATTAAAAAGTAAAAATGCAAATTTGCAGTCATTGTTCTACTTTAACAGTTCAA
ATAGCTTCAACACATGATATTAAACTTGCCTGAATGATTGAACTTTGGTTTCACAGTTAATATGT
GTGAAAAAGTTACAATTTATATATATTTAGCACTTTTTATGCCATCAAAGGGCAAAAAGGTAAAG
TTATAGTTATATTTACATTTTAACAGTGTAAATAGCTTAAACACATGATATTAAACTTGTGCAAA
TGATTGAACTTAGTTTTCACAATTTGATATGTAAACAAGTTATGATTTATGTTTGTTTAAGACCT
TTTGTACCATTAAAAAACAAAAATGCAAATTTACAATTATTGTTCCATTTTAACAGTTCAAATAG
CTTCAATACATGATAAATAAACTTGTTCGAATGATTAAATTTGGTTTTCACAATTGATAAGTATG
AAAAAGTTATGGTTTACATATGTTTAGCACTTTTTATGCCATTAAAAGGGCAAAAGGTAATGTTC
GTTATACTTATG
Found at i:15302175 original size:20 final size:19
Alignment explanation
Indices: 15302130--15302178 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
15302120 GTAAATTTCG
* * *
15302130 GTCAAAGTTGGTCAATAGA
1 GTCAAAATTAGTCAATAAA
*
15302149 GTTAAAATTAGTCAAATAAA
1 GTCAAAATTAGTC-AATAAA
15302169 GTCAAAATTA
1 GTCAAAATTA
15302179 TACAAAACTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (19 bp):
GTCAAAATTAGTCAATAAA
Found at i:15302579 original size:145 final size:139
Alignment explanation
Indices: 15302333--15302867 Score: 468
Period size: 145 Copynumber: 3.7 Consensus size: 139
15302323 AAATGCCTTT
* ** * ** * * * *
15302333 TAGGAGTATTTTCGTAATTTATCCTTCTCGAGCTTGAATTTTAATAAAACTTTTCATATATTAAT
1 TAGG-GTATTTTCATAATTTGCCCTTCT-AAGCTCAAATTTTCATGAAACTTTTCAGATCTTAA-
* * * ** * *
15302398 TTTCATAATATTTCATAATTTTTAATGTATTCGAAATCATAGTAGTACCTCGAAAAGTATGAAAT
63 TTTCATAATATTTCATGATTTTTGATGCATTTAAAATCAAAGCAGTACCTCGAAAA-T-TGAAAT
15302463 TATCAAAATACTCCTA
126 TA-CAAAATAC-CCTA
* *
15302479 TACGGGTATTTTCATAATTTGCCCTTCCTAAGCTCATATTTTCATGAAACTTTTTAGATCTTAAT
1 TA-GGGTATTTTCATAATTTGCCCTT-CTAAGCTCAAATTTTCATGAAACTTTTCAGATCTTAAT
* * * * * *
15302544 TTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAA-CAGCACCTAAGAAATTTGAAGTT
64 TTCATAATATTTCATGATTTTTGATGCATTTAAAATCA-AAGCAGTACCT-CGAAAATTGAAATT
15302608 ACAAAAATACCTCT-
127 AC-AAAATACC-CTA
* * *
15302622 TAGGAGTATTTTCATAATTTGACCTTTTCGAA-CTCAAATTTTCAT-AAAGCTTTTTAGATCTTA
1 TAGG-GTATTTTCATAATTTG-CC-CTTCTAAGCTCAAATTTTCATGAAA-CTTTTCAGATCTTA
* * * *
15302685 ATTTCATAATATTTTATGATTTTTGGTACATTTAAAATCAAAGCAGTACCTCGAGAATTGCAAAA
62 ATTTCATAATATTTCATGATTTTTGATGCATTTAAAATCAAAGCAGTACCTCGAAAATTG--AAA
*
15302750 TTACCAAAATACCCCAA
125 TTA-CAAAATA-CCCTA
* * * * *
15302767 TAAGGGTATTTTCGTAATTTACCCTTTTCGAGCTCAGATTTTCATGAAACTTTTCAGATCTTAAT
1 T-AGGGTATTTTCATAATTTGCCCTTCT-AAGCTCAAATTTTCATGAAACTTTTCAGATCTTAAT
* *
15302832 TTTATTATATTTCATGATTTTTGATGC-TTTAAAATC
64 TTCATAATATTTCATGATTTTTGATGCATTTAAAATC
15302868 CTAAAAATGA
Statistics
Matches: 321, Mismatches: 48, Indels: 42
0.78 0.12 0.10
Matches are distributed among these distances:
142 13 0.04
143 92 0.29
144 45 0.14
145 110 0.34
146 57 0.18
147 4 0.01
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (139 bp):
TAGGGTATTTTCATAATTTGCCCTTCTAAGCTCAAATTTTCATGAAACTTTTCAGATCTTAATTT
CATAATATTTCATGATTTTTGATGCATTTAAAATCAAAGCAGTACCTCGAAAATTGAAATTACAA
AATACCCTA
Found at i:15304442 original size:18 final size:18
Alignment explanation
Indices: 15304415--15304449 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15304405 GTTGTCTTTA
* *
15304415 CATATGGGTCTTGTTTTG
1 CATATAGGTCATGTTTTG
15304433 CATATAGGTCATGTTTT
1 CATATAGGTCATGTTTT
15304450 ATACTTTGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.11, G:0.23, T:0.49
Consensus pattern (18 bp):
CATATAGGTCATGTTTTG
Found at i:15311994 original size:12 final size:12
Alignment explanation
Indices: 15311977--15312004 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15311967 TTTGCATCAA
15311977 GCATTTGTATTT
1 GCATTTGTATTT
15311989 GCATTTGTATTT
1 GCATTTGTATTT
15312001 GCAT
1 GCAT
15312005 CATTTGATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.54
Consensus pattern (12 bp):
GCATTTGTATTT
Found at i:15312686 original size:49 final size:49
Alignment explanation
Indices: 15312614--15312828 Score: 229
Period size: 49 Copynumber: 4.3 Consensus size: 49
15312604 CGGGTAAAAT
* *
15312614 ATTTTCACACAAGATTTTAAAGTTTCAAAGCCTCTATTTGGGAATAGCC
1 ATTTTCAAACAAGATTTTAAAGTTTCAAAGCCTCTATTTGGGAAGAGCC
* *
15312663 ATTTTCAAACAAGATTTTAAAGTTTCAAAGCCTCTTTTTGGGAGGAGCC
1 ATTTTCAAACAAGATTTTAAAGTTTCAAAGCCTCTATTTGGGAAGAGCC
* * **
15312712 ATTTTCAAACAAGATTTTAAAATTTCAAAGCCTCTGTTTAGTGG--GAATC
1 ATTTTCAAACAAGATTTTAAAGTTTCAAAGCCTCTATTT-G-GGAAGAGCC
* * *
15312761 ATTTTCATACAATATTTTTTAAAAAAAGTTTCAAAGCCTCTATTTAAGG-AGAGCC
1 ATTTTCAAACAAGA--TTTT----AAAGTTTCAAAGCCTCTATTT-GGGAAGAGCC
15312816 ATTTTCAAACAAG
1 ATTTTCAAACAAG
15312829 CTCAAAAAAA
Statistics
Matches: 140, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
49 97 0.69
50 1 0.01
51 6 0.04
54 2 0.01
55 34 0.24
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (49 bp):
ATTTTCAAACAAGATTTTAAAGTTTCAAAGCCTCTATTTGGGAAGAGCC
Found at i:15312899 original size:29 final size:29
Alignment explanation
Indices: 15312851--15312918 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
15312841 AAAAGATAAG
*
15312851 ATTTTCAAAACCATTGTTTAAGGGG-AGCC
1 ATTTTCAAAACCATTATTT-AGGGGAAGCC
*
15312880 ATTTTCAAAACCTTTATTTAGGGGAAGCC
1 ATTTTCAAAACCATTATTTAGGGGAAGCC
15312909 ATTTTCAAAA
1 ATTTTCAAAA
15312919 ATAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (29 bp):
ATTTTCAAAACCATTATTTAGGGGAAGCC
Found at i:15314066 original size:143 final size:143
Alignment explanation
Indices: 15313517--15314066 Score: 526
Period size: 144 Copynumber: 3.8 Consensus size: 143
15313507 AAGAAGTATA
* * * *
15313517 AAATTACCAAAATAC-CCTTTAGAGGTATTTTCATAATTTATAC-TTCCCAAGCTCAATTTTAAT
1 AAATTACCAAAATACTCCTTAAGAGGTATTTTCATAATTTCT-CTTTCTCAAGCTCAATTTTCAT
* * * * *
15313580 GAAACTTTCTAGATCTTAATTTCATAATATTTCATGGTTTTTGGTGCATTTGAAGTCGTA-AAGT
65 GAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGATGCATTTGAAATCATAGAAGT
**
15313644 ACCCCAAAAAGTGTG
130 A-CCTTAAAAGTGTG
* * * * ** **
15313659 AAATTATCAAAATA-TCCTTATA-AGGGTATTTTTATAATTTGTCTTTTTGGAGCTTGGATTTTC
1 AAATTACCAAAATACTCCTTA-AGA-GGTATTTTCATAATTTCTCTTTCTCAAGC-TCAATTTTC
*** *
15313722 ATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGACATATTTGAAATCATAGTA
63 ATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGATGCATTTGAAATCATAGAA
* * * *
15313787 GTATCTTAAAAATCTA
128 GTACCTTAAAAGTGTG
* * * ** *
15313803 AAATTACCAAAATACACCTT-AGAAGTATTTTCATAA-TTCGACCTTTCTGTA-TTCCAATTTTC
1 AAATTACCAAAATACTCCTTAAGAGGTATTTTCATAATTTC--TCTTTCTCAAGCT-CAATTTTC
* * * * * *
15313865 ATGAAGCTTTTTAAATTTTAATTTCGTAATATTTCATGATTTTTTATGCATTTGAAATCATAGCA
63 ATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGATGCATTTGAAATCATAGAA
*
15313930 GTACCTTGAAAGTGTG
128 GTACCTTAAAAGTGTG
* *
15313946 AAATTACCAAAATACTCCTGTAAG-GGTATTTTCATAATTTCTCTTTCTCAAGCTCAAAATTTCT
1 AAATTACCAAAATACTCCT-TAAGAGGTATTTTCATAATTTCTCTTTCTCAAGCTC-AATTTTCA
* * * *
15314010 TGAAACTTTTTAGATCTTAATTTTATAATATTTCATAATTTTTGGTGC-TTTAAAATC
64 TGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGATGCATTTGAAATC
15314067 CCAAAAATGA
Statistics
Matches: 324, Mismatches: 68, Indels: 31
0.77 0.16 0.07
Matches are distributed among these distances:
142 22 0.07
143 141 0.44
144 148 0.46
145 13 0.04
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.43
Consensus pattern (143 bp):
AAATTACCAAAATACTCCTTAAGAGGTATTTTCATAATTTCTCTTTCTCAAGCTCAATTTTCATG
AAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGATGCATTTGAAATCATAGAAGTA
CCTTAAAAGTGTG
Found at i:15315702 original size:17 final size:18
Alignment explanation
Indices: 15315664--15315701 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
15315654 GCATGTTGTC
*
15315664 TTTT-CATATGGGTCCTG
1 TTTTGCATATGGGTCATG
15315681 TTTTGCATATGGGTCATG
1 TTTTGCATATGGGTCATG
15315699 TTT
1 TTT
15315702 GATACTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.13, C:0.13, G:0.24, T:0.50
Consensus pattern (18 bp):
TTTTGCATATGGGTCATG
Found at i:15317774 original size:13 final size:13
Alignment explanation
Indices: 15317756--15317781 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15317746 TTAATTGGTT
15317756 CTAAAATTTATTA
1 CTAAAATTTATTA
15317769 CTAAAATTTATTA
1 CTAAAATTTATTA
15317782 AAAAGGTAAG
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:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
CTAAAATTTATTA
Found at i:15330014 original size:12 final size:12
Alignment explanation
Indices: 15329966--15330046 Score: 65
Period size: 12 Copynumber: 6.8 Consensus size: 12
15329956 AATAACATTG
*
15329966 ACTAGATTTGTA
1 ACTAGATTTGAA
* *
15329978 GCTAGAATTGAA
1 ACTAGATTTGAA
* *
15329990 ACT-GAAATGGAA
1 ACTAG-ATTTGAA
*
15330002 ACTAGATTAGAA
1 ACTAGATTTGAA
* *
15330014 ATTGGATTTGAA
1 ACTAGATTTGAA
*
15330026 GCTAGATTTGAA
1 ACTAGATTTGAA
15330038 ACTAGATTT
1 ACTAGATTT
15330047 AAGGTTTATG
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
11 1 0.02
12 51 0.96
13 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (12 bp):
ACTAGATTTGAA
Found at i:15330045 original size:24 final size:24
Alignment explanation
Indices: 15329966--15330046 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 24
15329956 AATAACATTG
* *
15329966 ACTAGATTTGTAGCTAGAATTGAA
1 ACTAGATTTGAAGCTAGATTTGAA
* * * *
15329990 ACT-GAAATGGAAACTAGATTAGAA
1 ACTAG-ATTTGAAGCTAGATTTGAA
* *
15330014 ATTGGATTTGAAGCTAGATTTGAA
1 ACTAGATTTGAAGCTAGATTTGAA
15330038 ACTAGATTT
1 ACTAGATTT
15330047 AAGGTTTATG
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
23 1 0.02
24 40 0.95
25 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (24 bp):
ACTAGATTTGAAGCTAGATTTGAA
Found at i:15330381 original size:16 final size:16
Alignment explanation
Indices: 15330353--15330387 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15330343 ACAATGTTTT
15330353 ATAATAATAAATGAAA
1 ATAATAATAAATGAAA
15330369 ATAA-AATAGAATGAAA
1 ATAATAATA-AATGAAA
15330385 ATA
1 ATA
15330388 CCTATTGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23
Consensus pattern (16 bp):
ATAATAATAAATGAAA
Found at i:15331612 original size:31 final size:31
Alignment explanation
Indices: 15331577--15331641 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
15331567 CAGCACATAG
15331577 CAACTCA-CTCTTTCTCAAGCTTTTAAGCCAA
1 CAACTCACCT-TTTCTCAAGCTTTTAAGCCAA
*
15331608 CAACTCACCTTTTCTCAAGCTTTTAAGTCAA
1 CAACTCACCTTTTCTCAAGCTTTTAAGCCAA
15331639 CAA
1 CAA
15331642 TCATCCAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.32
Consensus pattern (31 bp):
CAACTCACCTTTTCTCAAGCTTTTAAGCCAA
Found at i:15332735 original size:33 final size:33
Alignment explanation
Indices: 15332693--15332818 Score: 128
Period size: 33 Copynumber: 3.8 Consensus size: 33
15332683 CTTATAGCTC
*
15332693 TAACCACATCTTTATTTCCTACCCTTGCTACCT
1 TAACTACATCTTTATTTCCTACCCTTGCTACCT
* * * *
15332726 CAACTACATCTTTATTTCCTACCTTTGTTGCCT
1 TAACTACATCTTTATTTCCTACCCTTGCTACCT
* * * * * *
15332759 TAACGAAATCTTCATTCCCTACCATTGCTTCCT
1 TAACTACATCTTTATTTCCTACCCTTGCTACCT
15332792 TAACTACATCTTTAATTT-CTATCCCTT
1 TAACTACATCTTT-ATTTCCTA-CCCTT
15332819 CATTCCTTAC
Statistics
Matches: 73, Mismatches: 18, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
33 66 0.90
34 7 0.10
ACGTcount: A:0.22, C:0.32, G:0.04, T:0.42
Consensus pattern (33 bp):
TAACTACATCTTTATTTCCTACCCTTGCTACCT
Found at i:15335501 original size:21 final size:22
Alignment explanation
Indices: 15335455--15335503 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
15335445 ACTATAATTT
15335455 AATACTAAATATTTTCAATATAA
1 AATA-TAAATATTTTCAATATAA
* *
15335478 AATATAACTATTTT-AATATTA
1 AATATAAATATTTTCAATATAA
15335499 AATAT
1 AATAT
15335504 TTTTAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 11 0.46
22 9 0.38
23 4 0.17
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (22 bp):
AATATAAATATTTTCAATATAA
Found at i:15335537 original size:37 final size:36
Alignment explanation
Indices: 15335454--15335537 Score: 89
Period size: 37 Copynumber: 2.3 Consensus size: 36
15335444 TACTATAATT
* **
15335454 TAATACTAAATATTTTCAATATAAAATATAACTATTT
1 TAATATTAAATATTTTCAATATAAAATATAAC-ATAA
*
15335491 TAATATTAAATATTTTTAATATTAAAATAATAA-ATAA
1 TAATATTAAATATTTTCAATA-TAAAAT-ATAACATAA
*
15335528 TAATTTTAAA
1 TAATATTAAA
15335538 AATACTATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
37 30 0.75
38 6 0.15
39 4 0.10
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (36 bp):
TAATATTAAATATTTTCAATATAAAATATAACATAA
Found at i:15335629 original size:37 final size:38
Alignment explanation
Indices: 15335587--15335673 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 38
15335577 TAATGCTATT
15335587 TTAAATATTTTAAAATATTAATGTATAAAAATA-AT-AA
1 TTAAATATTTTAAAATATT-ATGTATAAAAATATATAAA
* * *
15335624 TTAAATA--TT-AAATATTATTTTTAATAATATATAAA
1 TTAAATATTTTAAAATATTATGTATAAAAATATATAAA
*
15335659 TTCAATATTTTAAAA
1 TTAAATATTTTAAAA
15335674 ATAAATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
33 10 0.24
34 9 0.22
35 10 0.24
37 9 0.22
38 3 0.07
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (38 bp):
TTAAATATTTTAAAATATTATGTATAAAAATATATAAA
Found at i:15335669 original size:24 final size:25
Alignment explanation
Indices: 15335642--15335703 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
15335632 TAAATATTAT
* * *
15335642 TTTTAATAATATATAA-ATTCAATA
1 TTTTAAAAATAAATAATATTAAATA
*
15335666 TTTTAAAAATAAATAATTTTAAATA
1 TTTTAAAAATAAATAATATTAAATA
*
15335691 TTTTAAAATTAAA
1 TTTTAAAAATAAA
15335704 GATTCCTGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTTAAAAATAAATAATATTAAATA
Found at i:15336087 original size:31 final size:29
Alignment explanation
Indices: 15336028--15336091 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 29
15336018 ATGATAAAAT
**
15336028 AACTTAAAATTAAATTAGATTGAGTTTAA
1 AACTTAAAATTAAATTAGACAGAGTTTAA
15336057 AACTTAAAATTTAGAATTA-ACAGAGATTTAA
1 AACTTAAAA-TTA-AATTAGACAGAG-TTTAA
15336088 AACT
1 AACT
15336092 CGATCACTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 9 0.30
30 7 0.23
31 14 0.47
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.34
Consensus pattern (29 bp):
AACTTAAAATTAAATTAGACAGAGTTTAA
Found at i:15336314 original size:18 final size:18
Alignment explanation
Indices: 15336293--15336333 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
15336283 AAATTATGTT
*
15336293 TTTTTAACTTAAAATATA
1 TTTTTAACTTAAAATAAA
**
15336311 TTTTTATTTTAAAATAAA
1 TTTTTAACTTAAAATAAA
15336329 TTTTT
1 TTTTT
15336334 TTATCTTTTT
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:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTAACTTAAAATAAA
Found at i:15336407 original size:21 final size:20
Alignment explanation
Indices: 15336373--15336411 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
15336363 GTAAAATTTT
15336373 TTAAAAAATAAAAATTAATA
1 TTAAAAAATAAAAATTAATA
*
15336393 TTAAATAAATTAAAATTAA
1 TTAAA-AAATAAAAATTAA
15336412 AATTTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TTAAAAAATAAAAATTAATA
Found at i:15337540 original size:29 final size:28
Alignment explanation
Indices: 15337500--15337563 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
15337490 AAAAAAAGAT
* *
15337500 AAAAATATGAAAAGTCAGAAAAT-TCAA
1 AAAAATAGGAAAAGTAAGAAAATGTCAA
*
15337527 CAAAAACTAGGAAAATTAAGAAAATGTCAA
1 -AAAAA-TAGGAAAAGTAAGAAAATGTCAA
15337557 AAAAATA
1 AAAAATA
15337564 TAAAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 7 0.23
29 20 0.65
30 4 0.13
ACGTcount: A:0.64, C:0.08, G:0.11, T:0.17
Consensus pattern (28 bp):
AAAAATAGGAAAAGTAAGAAAATGTCAA
Found at i:15351520 original size:36 final size:35
Alignment explanation
Indices: 15351324--15351554 Score: 123
Period size: 35 Copynumber: 6.6 Consensus size: 35
15351314 ATTAAATCAA
* * *
15351324 AAGTTAAGAAATAAAGATGACCA-AGATGAAG-CAGT
1 AAGTTAAAAAATAAAGATGATCAGA-ATGAAGTCA-C
* * * * *
15351359 AAGTCAAAAAAGAAAAATGATCAGAATGAAGCCAA
1 AAGTTAAAAAATAAAGATGATCAGAATGAAGTCAC
* * * * *
15351394 AAATGGAGAAAATAAAGATGA-CTAGGAA-AAAGTCGC
1 AAGT-TAAAAAATAAAGATGATC-A-GAATGAAGTCAC
* ** * * *
15351430 AAGTCATGAAA-AAAGATAAT-TGAGATGAAGTCGC
1 AAGTTAAAAAATAAAGATGATCAGA-ATGAAGTCAC
* *
15351464 AAGTTAAAAAATAAAAATGATCAGAATGAAATCAC
1 AAGTTAAAAAATAAAGATGATCAGAATGAAGTCAC
* * * *
15351499 AAGTTAAAAAAATAAGGATGATTAGGATGAAGCCAC
1 AAGTT-AAAAAATAAAGATGATCAGAATGAAGTCAC
*
15351535 AAGTCAAAAAATAAAGATGA
1 AAGTTAAAAAATAAAGATGA
15351555 ACATGATGAA
Statistics
Matches: 147, Mismatches: 38, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
32 2 0.01
33 1 0.01
34 22 0.15
35 66 0.45
36 53 0.36
37 3 0.02
ACGTcount: A:0.55, C:0.09, G:0.20, T:0.17
Consensus pattern (35 bp):
AAGTTAAAAAATAAAGATGATCAGAATGAAGTCAC
Found at i:15351563 original size:35 final size:34
Alignment explanation
Indices: 15351463--15351583 Score: 107
Period size: 35 Copynumber: 3.4 Consensus size: 34
15351453 GATGAAGTCG
* * *
15351463 CAAGTTAAAAAATAAAAATGATCAGAATGAAATCA
1 CAAGTCAAAAAATAAAGATGATCAG-ATGAAACCA
* * * *
15351498 CAAGTTAAAAAAATAAGGATGATTAGGATGAAGCCA
1 CAAG-TCAAAAAATAAAGATGATCA-GATGAAACCA
* *
15351534 CAAGTCAAAAAATAAAGATGAACATGATGAAACCT
1 CAAGTCAAAAAATAAAGATGATCA-GATGAAACCA
* *
15351569 TAAATCAAAAAATAA
1 CAAGTCAAAAAATAA
15351584 GAATGAGCAT
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
35 41 0.59
36 27 0.39
37 1 0.01
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.19
Consensus pattern (34 bp):
CAAGTCAAAAAATAAAGATGATCAGATGAAACCA
Found at i:15351608 original size:35 final size:35
Alignment explanation
Indices: 15351538--15351616 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 35
15351528 AAGCCACAAG
** *
15351538 TCAAAAAATAAAGATGAACATGATGAAACCTTAAA
1 TCAAAAAATAAAGATGAACATGAAAAAACCGTAAA
* *
15351573 TCAAAAAAT-AAGAATGAGCATGAAAAAATCGTAAA
1 TCAAAAAATAAAG-ATGAACATGAAAAAACCGTAAA
15351608 TCAAGAAAA
1 TCAA-AAAA
15351617 AAATACTATC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 3 0.08
35 30 0.81
36 4 0.11
ACGTcount: A:0.59, C:0.10, G:0.13, T:0.18
Consensus pattern (35 bp):
TCAAAAAATAAAGATGAACATGAAAAAACCGTAAA
Found at i:15353108 original size:21 final size:23
Alignment explanation
Indices: 15353070--15353111 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15353060 TTTGTTGATG
*
15353070 ATTTTTTTTATCTCTTTCTTTTT
1 ATTTTTTCTATCTCTTTCTTTTT
15353093 ATTTTTTCT-TCT-TTTCTTT
1 ATTTTTTCTATCTCTTTCTTT
15353112 GTCTCTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 3 0.17
23 8 0.44
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (23 bp):
ATTTTTTCTATCTCTTTCTTTTT
Found at i:15359845 original size:236 final size:235
Alignment explanation
Indices: 15359064--15360053 Score: 1052
Period size: 236 Copynumber: 4.2 Consensus size: 235
15359054 ATTTCAGGCA
* * * *
15359064 ACATTATAATTTTGTCACCAATTTAAAATTTTATCTATAATGAATTTTTTTTTATAGATTTTAGG
1 ACATTATAATTTTGTCACCAATTTAAAATTTTATCTGTGATGAATTTTTTCTAATAGATTTTAGG
* * *
15359129 TGACATTATTAATTTTTGTCACAAATTAAACACTTTAGTTAACTGTTAATGACATTGTAATTTCA
66 TGACATTATTAATTTTTGTCATAAATTAAA-ACTTTAGTTAACTATTAATGACATTGCAATTTCA
* * * * *
15359194 TCACATCAA--TAT-ATAGTATATGATGATAATATAAATGTCACATACTTTTACCACCAAATTTA
130 TCACATCAATTTATGATATTATATGATGATAACATAAATGTCACAAACTTTTACTATCAAATTTA
* * *
15359256 TTGGGTGAAAATTTTTTTGTGACA--TTTTTTATTTTAGGTG
195 TTTGGTGAAAA-TTTTTTATGACATTTTTTTTATTTTATGTG
* ** *
15359296 ACATT-TAAATTTTGTCACTAATTTAAAGCTTTATATGTGATGAA-TTTTTCTAATAGATTTTAG
1 ACATTAT-AATTTTGTCACCAATTTAAAATTTTATCTGTGATGAATTTTTTCTAATAGATTTTAG
* * * * *
15359359 GTGGCGTTATCAATTTTTGTCATAAAATTAACACTTTAGTTAACTATTAATGACATTGCAGTTTC
65 GTGACATTATTAATTTTTGTCAT-AAATTAAAACTTTAGTTAACTATTAATGACATTGCAATTTC
* * * * *
15359424 ATCACCTTTATTTTATGATATTATATGATGATAACATAAATATCACAAACTTTTACTATCAATTT
129 ATCA-CATCAATTTATGATATTATATGATGATAACATAAATGTCACAAACTTTTACTATCAAATT
** *
15359489 TATTTGGTGAAAAATTTTTT-TGTGATGTTTTTTTATTTTAAGTG
193 TATTTGGTG-AAAATTTTTTATGACAT-TTTTTTTATTTTATGTG
* * * * * ** * *
15359533 ACATTATAAATGTGTCACTAATTTAAAAGTTTACCTGTGACAAATGTTTTCTAATAGATTTAAGG
1 ACATTATAATTTTGTCACCAATTTAAAATTTTATCTGTGATGAATTTTTTCTAATAGATTTTAGG
* * * * * *
15359598 TGACATTATTAATTTTTTTCATAGATTGAAAACTCTAGTTAACTATTACTAATATTGCAATTTCA
66 TGACATTATTAATTTTTGTCATAAATT-AAAACTTTAGTTAACTATTAATGACATTGCAATTTCA
* * * * * *
15359663 TTACATCAATTTATGGTGTTATATGACGATAACATAAATGTCATAAACTTTTACTGTCAAATTTA
130 TCACATCAATTTATGATATTATATGATGATAACATAAATGTCACAAACTTTTACTATCAAATTTA
* * *
15359728 TTTGATGGGAAA-TTTTTATGACATTTTTTTTATCTTATGTG
195 TTTGGT-GAAAATTTTTTATGACATTTTTTTTATTTTATGTG
* * * ** *
15359769 ACATTGTAATTTTGTCACCAATTTAAATTTTTATTTGTGACAAATTTTTTCTGATAGATTTTAGG
1 ACATTATAATTTTGTCACCAATTTAAAATTTTATCTGTGATGAATTTTTTCTAATAGATTTTAGG
* ** ** **
15359834 TAATGTTATTAATTTTTGTCATAAATTGAATGCTTTAGTTAACTATTAATGACATTATAATTTCA
66 TGACATTATTAATTTTTGTCATAAATT-AAAACTTTAGTTAACTATTAATGACATTGCAATTTCA
* * * * * *
15359899 TCATATCAATGTT-TGATATTATATGATAATAATATAAATGTCACAAACTTTTACT-GCTGATTT
130 TCACATCAAT-TTATGATATTATATGATGATAACATAAATGTCACAAACTTTTACTATC-AAATT
* * *
15359962 TATTAGGTGAAAATTTTTTATGACAGTTGTTTTATTTTAT-TG
193 TATTTGGTGAAAATTTTTTATGACATTTTTTTTATTTTATGTG
* *
15360004 ACATTATAATTTTGTCATCAATTTTAAAA-TTTATTTGTGATGAATTTTTT
1 ACATTATAATTTTGTCACCAA-TTTAAAATTTTATCTGTGATGAATTTTTT
15360054 TTGATAAATT
Statistics
Matches: 625, Mismatches: 114, Indels: 35
0.81 0.15 0.05
Matches are distributed among these distances:
231 71 0.11
232 46 0.07
234 6 0.01
235 100 0.16
236 212 0.34
237 119 0.19
238 71 0.11
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.46
Consensus pattern (235 bp):
ACATTATAATTTTGTCACCAATTTAAAATTTTATCTGTGATGAATTTTTTCTAATAGATTTTAGG
TGACATTATTAATTTTTGTCATAAATTAAAACTTTAGTTAACTATTAATGACATTGCAATTTCAT
CACATCAATTTATGATATTATATGATGATAACATAAATGTCACAAACTTTTACTATCAAATTTAT
TTGGTGAAAATTTTTTATGACATTTTTTTTATTTTATGTG
Found at i:15359964 original size:473 final size:467
Alignment explanation
Indices: 15359022--15360036 Score: 1114
Period size: 469 Copynumber: 2.2 Consensus size: 467
15359012 TGATAACGTC
* * * * ** * *
15359022 ATTTGGTGGGAAATATTTTTGTGATG-TTTTTTATTTCAGGCAACATTATAATTTTGTCACCAAT
1 ATTTGGT-GAAAATTTTTTTGTGATGTTTTTTTATTTTAAGTGACATTATAAATGTGTCACCAAT
* * ** * * * *
15359086 TTAAAATTTTATCTATAATGAATTTTTTTTTATAGATTTTAGGTGACATTATTAATTTTTGTCAC
65 TTAAAAGTTTACCTATAACAAATGTTTTCTAATAGATTTAAGGTGACATTATTAATTTTTGTCAC
* * * *
15359151 AAATTAAACACTTTAGTTAACTGTTAATGACATTGTAATTTCATCACATCAATATATAGTATATG
130 AAATTAAACACTCTAGTTAACTATTAATAACATTGCAATTTCATCACATCAATATATAGTATATG
* * * * *
15359216 ATGATAATATAAATGTCACATACTTTTACCACCAAATTTATTGGGTGAAAATTTTTTTGTGACAT
195 ACGATAACATAAATGTCACAAACTTTTACCACCAAATTTATTGGATGAAAA-TTTTTTATGACAT
* * **
15359281 TTTTTATTTTAGGTGACATTTAAATTTTGTCACTAATTTAAAGCTTTATATGTGATGAATTTTTC
259 TTTTTATCTTAGGTGACATTTAAATTTTGTCACCAATTTAAAGCTTTATATGTGACAAATTTTTC
**
15359346 TAATAGATTTTAGGTGGCGTTATCAATTTTTGTCATAAAATTAACACTTTAGTTAACTATTAATG
324 TAATAGATTTTAGGTAACGTTATCAATTTTTGTCATAAAATTAACACTTTAGTTAACTATTAATG
* * * ** * *
15359411 ACATTGCAGTTTCATCACCTTTATTTTATGATATTATATGATGATAACATAAATATCACAAACTT
389 ACATTACAATTTCATCACATCAATGTTATGATATTATATGATAATAACATAAATATCACAAACTT
15359476 TTACTATCAATTTT
454 TTACTATCAATTTT
*
15359490 ATTTGGTGAAAAATTTTTTTGTGATGTTTTTTTATTTTAAGTGACATTATAAATGTGTCACTAAT
1 ATTTGGTG-AAAATTTTTTTGTGATGTTTTTTTATTTTAAGTGACATTATAAATGTGTCACCAAT
* * * *
15359555 TTAAAAGTTTACCTGTGACAAATGTTTTCTAATAGATTTAAGGTGACATTATTAATTTTTTTCAT
65 TTAAAAGTTTACCTATAACAAATGTTTTCTAATAGATTTAAGGTGACATTATTAATTTTTGTCAC
* * * * * *
15359620 AGATTGAAA-ACTCTAGTTAACTATTACTAATATTGCAATTTCATTACATCAATTTATGGTGTTA
130 AAATT-AAACACTCTAGTTAACTATTAATAACATTGCAATTTCATCACATCAATATAT--AG-TA
* *** * *
15359684 TATGACGATAACATAAATGTCATAAACTTTTACTGTCAAATTTATTTGATGGGAAA-TTTTTATG
191 TATGACGATAACATAAATGTCACAAACTTTTACCACCAAATTTATTGGAT-GAAAATTTTTTATG
* ** *
15359748 ACATTTTTTTTATCTTATGTGACATTGT-AATTTTGTCACCAATTTAAATTTTTATTTGTGACAA
255 ACA--TTTTTTATCTTAGGTGACATT-TAAATTTTGTCACCAATTTAAAGCTTTATATGTGACAA
* * * **
15359812 ATTTTTTCTGATAGATTTTAGGTAATGTTATTAATTTTTGTCAT-AAATTGAATGCTTTAGTTAA
317 A-TTTTTCTAATAGATTTTAGGTAACGTTATCAATTTTTGTCATAAAATT-AACACTTTAGTTAA
* * * *
15359876 CTATTAATGACATTATAATTTCATCATATCAATGTT-TGATATTATATGATAATAATATAAATGT
380 CTATTAATGACATTACAATTTCATCACATCAATGTTATGATATTATATGATAATAACATAAATAT
* *
15359940 CACAAACTTTTACT-GCTGATTTT
445 CACAAACTTTTACTATC-AATTTT
* * * * * * * *
15359963 ATTAGGTGAAAA-TTTTTTATGACAGTTGTTTTATTTT-ATTGACATTATAATTTTGTCATCAAT
1 ATTTGGTGAAAATTTTTTTGTGA-TGTTTTTTTATTTTAAGTGACATTATAAATGTGTCACCAA-
15360026 TTTAAAA-TTTA
64 TTTAAAAGTTTA
15360037 TTTGTGATGA
Statistics
Matches: 453, Mismatches: 79, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
467 1 0.00
468 22 0.05
469 128 0.28
470 3 0.01
471 44 0.10
472 67 0.15
473 110 0.24
474 78 0.17
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (467 bp):
ATTTGGTGAAAATTTTTTTGTGATGTTTTTTTATTTTAAGTGACATTATAAATGTGTCACCAATT
TAAAAGTTTACCTATAACAAATGTTTTCTAATAGATTTAAGGTGACATTATTAATTTTTGTCACA
AATTAAACACTCTAGTTAACTATTAATAACATTGCAATTTCATCACATCAATATATAGTATATGA
CGATAACATAAATGTCACAAACTTTTACCACCAAATTTATTGGATGAAAATTTTTTATGACATTT
TTTATCTTAGGTGACATTTAAATTTTGTCACCAATTTAAAGCTTTATATGTGACAAATTTTTCTA
ATAGATTTTAGGTAACGTTATCAATTTTTGTCATAAAATTAACACTTTAGTTAACTATTAATGAC
ATTACAATTTCATCACATCAATGTTATGATATTATATGATAATAACATAAATATCACAAACTTTT
ACTATCAATTTT
Found at i:15360063 original size:14 final size:14
Alignment explanation
Indices: 15360030--15360076 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
15360020 ATCAATTTTA
*
15360030 AAATTTATTTGTGAT
1 AAATTT-TTTTTGAT
*
15360045 GAATTTTTTTTGAT
1 AAATTTTTTTTGAT
*
15360059 AAATTTTTGTT-AT
1 AAATTTTTTTTGAT
15360072 AAATT
1 AAATT
15360077 GAACACTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 7 0.25
14 16 0.57
15 5 0.18
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (14 bp):
AAATTTTTTTTGAT
Found at i:15361177 original size:23 final size:23
Alignment explanation
Indices: 15361151--15361194 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
15361141 ATATAAAAAA
*
15361151 TAATTTTAATTGAAGTTTCCCAT
1 TAATTTTAATTCAAGTTTCCCAT
15361174 TAATTTTAATTCAAGTTTCCC
1 TAATTTTAATTCAAGTTTCCC
15361195 CTAAACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.48
Consensus pattern (23 bp):
TAATTTTAATTCAAGTTTCCCAT
Found at i:15371333 original size:23 final size:24
Alignment explanation
Indices: 15371303--15371351 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
15371293 AAGACTTAAT
15371303 GTAAGTGC-AAATATTATTACAAA
1 GTAAGTGCAAAATATTATTACAAA
15371326 GTAAGTGCAAAATATTATTACAAA
1 GTAAGTGCAAAATATTATTACAAA
15371350 GT
1 GT
15371352 TTATTATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.31
Consensus pattern (24 bp):
GTAAGTGCAAAATATTATTACAAA
Found at i:15374201 original size:16 final size:16
Alignment explanation
Indices: 15374177--15374211 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15374167 ATACAAGTTC
* *
15374177 ATACCAATTGTTAAGG
1 ATACAAATTGTTAAAG
15374193 ATACAAATTGTTAAAG
1 ATACAAATTGTTAAAG
15374209 ATA
1 ATA
15374212 TGTTATGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (16 bp):
ATACAAATTGTTAAAG
Found at i:15381748 original size:203 final size:199
Alignment explanation
Indices: 15381090--15381839 Score: 736
Period size: 202 Copynumber: 3.7 Consensus size: 199
15381080 CTAATAACAT
* * * * ** * * * *
15381090 TAATTTTGTCACTAATACTTTGATGATTTATCTTTCATCATTAATATATTAGATTTAATTATTTA
1 TAATTTTGTCACCAATACTGTGACGATTTACCTTTTGTCACTAATATATAAGATTTTATCATTTA
* * *
15381155 TTTTGTGATGATTATAGCCTTTAATGATTTTT-TTCATAAATAGCTAAAGAAAACTAACATTACA
66 TTTTGTGATGATTATAGCCTTCAATGATTTTTCTTCATAAATAGCTGACGAAAACTAACA-T-C-
* * * * * *
15381219 AAAAAAAAAATAAAGCATAATGTGACG-TTGAATTTTATTGTCACGTTTGATGCTATCTTACAAC
128 ---ACAAAAATAAAGCATAAAGTGACGTTTG-ATTTTATTATCAAG-TTGATACTATCTTACAAT
*
15381283 CATTTGTGATGA
188 CATTCGTGATGA
* * * * *
15381295 TAATTATGTTACCAATACTATGACGATTTACTTTTTGTCATTAATATATCAA-ATTTTATCATTT
1 TAATTTTGTCACCAATACTGTGACGATTTACCTTTTGTCACTAATATAT-AAGATTTTATCATTT
* * * * * * *
15381359 ATTTTGTGACGATTATAACCTTCAATGACATTTTTCTTTATAAATAGTTGATGAAAATTAACATA
65 ATTTTGTGATGATTATAGCCTTCAATG--ATTTTTCTTCATAAATAGCTGACGAAAACTAACATC
* * * * * * *
15381424 ATATAAAA-AAAGTATAAGGTGACATTTGATTTTATTATCACATTTGATAGTATCTTATAATCAT
128 ACA-AAAATAAAGCATAAAGTGACGTTTGATTTTATTATCA-AGTTGATACTATCTTACAATCAT
15381488 TCGTGATGA
191 TCGTGATGA
* * * *
15381497 TAATTGTGTCACCAATATTGTGACAATTTACTTTTTGTCACTAATATATAAGATTTTATCATTTA
1 TAATTTTGTCACCAATACTGTGACGATTTACCTTTTGTCACTAATATATAAGATTTTATCATTTA
* *
15381562 TTTTGTGATGATTAGAGCCTTTAATGACATTTTTGCTT-ATAAATAGCTGACGAAAACTAACATC
66 TTTTGTGATGATTATAGCCTTCAATG--ATTTTT-CTTCATAAATAGCTGACGAAAACTAACATC
* * * * * * *
15381626 ACAAAAATTAATGCATAAAGTGACGTTTGATTTTATTATTATAGTAGACATTATTTTACAATCAC
128 ACAAAAA-TAAAGCATAAAGTGACGTTTGATTTTATTATCA-AGTTGATACTATCTTACAATCAT
*
15381691 TGGTGATGA
191 TCGTGATGA
* * * *
15381700 TAATTTTGTCACTAATACTGTAACGATTTACCTTTTGTCACTAATATATAAGATTTTCTCATTTT
1 TAATTTTGTCACCAATACTGTGACGATTTACCTTTTGTCACTAATATATAAGATTTTATCATTTA
* * * *
15381765 TTTTGTGATGAATATAGCCTTCAATGATTTTTTTTTCATAAATAGCTGACAAAAACTAACGTCAC
66 TTTTGTGATGATTATAGCCTTCAATGA-TTTTTCTTCATAAATAGCTGACGAAAACTAACATCAC
*
15381830 AAAAAAAAAG
130 AAAAATAAAG
15381840 TGATGTTTTA
Statistics
Matches: 454, Mismatches: 78, Indels: 30
0.81 0.14 0.05
Matches are distributed among these distances:
201 12 0.03
202 197 0.43
203 141 0.31
205 74 0.16
206 1 0.00
207 7 0.02
208 22 0.05
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (199 bp):
TAATTTTGTCACCAATACTGTGACGATTTACCTTTTGTCACTAATATATAAGATTTTATCATTTA
TTTTGTGATGATTATAGCCTTCAATGATTTTTCTTCATAAATAGCTGACGAAAACTAACATCACA
AAAATAAAGCATAAAGTGACGTTTGATTTTATTATCAAGTTGATACTATCTTACAATCATTCGTG
ATGA
Found at i:15381764 original size:29 final size:30
Alignment explanation
Indices: 15381702--15381764 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
15381692 GGTGATGATA
*
15381702 ATTTTGTCACTAATACTGTAACGATTTACC
1 ATTTTGTCACTAATACTATAACGATTTACC
*
15381732 -TTTTGTCACTAATA-TATAA-GATTTTCTC
1 ATTTTGTCACTAATACTATAACGATTTAC-C
15381760 ATTTT
1 ATTTT
15381765 TTTTGTGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 6 0.21
28 5 0.17
29 18 0.62
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.48
Consensus pattern (30 bp):
ATTTTGTCACTAATACTATAACGATTTACC
Found at i:15386890 original size:15 final size:15
Alignment explanation
Indices: 15386870--15386917 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
15386860 CATTTTCCTT
** *
15386870 TTATTATTATTGTTG
1 TTATTATTATCATTA
15386885 TTATTATTATCATTA
1 TTATTATTATCATTA
*
15386900 TTATTATTACCATTA
1 TTATTATTATCATTA
15386915 TTA
1 TTA
15386918 GAAAAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (15 bp):
TTATTATTATCATTA
Found at i:15386917 original size:3 final size:3
Alignment explanation
Indices: 15386870--15386908 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
15386860 CATTTTCCTT
* * *
15386870 TTA TTA TTA TTG TTG TTA TTA TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15386909 CCATTATTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:15387183 original size:32 final size:33
Alignment explanation
Indices: 15387146--15387210 Score: 123
Period size: 32 Copynumber: 2.0 Consensus size: 33
15387136 CCGATTAAAA
15387146 CTTACCTTTTTGATAAAA-AATTTAAAATTAAT
1 CTTACCTTTTTGATAAAAGAATTTAAAATTAAT
15387178 CTTACCTTTTTGATAAAAGAATTTAAAATTAAT
1 CTTACCTTTTTGATAAAAGAATTTAAAATTAAT
15387211 AAAAACTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 18 0.56
33 14 0.44
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (33 bp):
CTTACCTTTTTGATAAAAGAATTTAAAATTAAT
Found at i:15389666 original size:15 final size:15
Alignment explanation
Indices: 15389644--15389680 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
15389634 TGCAACAAGA
15389644 TTTTTTTATTTTT-T
1 TTTTTTTATTTTTAT
15389658 TTGTTTTTATTTTTAT
1 TT-TTTTTATTTTTAT
15389674 TTTTTTT
1 TTTTTTT
15389681 GGTTTCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.10
15 16 0.76
16 3 0.14
ACGTcount: A:0.08, C:0.00, G:0.03, T:0.89
Consensus pattern (15 bp):
TTTTTTTATTTTTAT
Found at i:15389672 original size:21 final size:21
Alignment explanation
Indices: 15389646--15389690 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
15389636 CAACAAGATT
* *
15389646 TTTTTATTTTTTTTGTTTTTA
1 TTTTTATTTTTTTTGGTTTCA
15389667 TTTTTATTTTTTTTGGTTTCA
1 TTTTTATTTTTTTTGGTTTCA
15389688 TTT
1 TTT
15389691 CAAAACAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.02, G:0.07, T:0.82
Consensus pattern (21 bp):
TTTTTATTTTTTTTGGTTTCA
Found at i:15390229 original size:22 final size:22
Alignment explanation
Indices: 15390204--15390258 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
15390194 TTTTTCTTCT
15390204 CTTTCATTTTCCTTTAACTCTC
1 CTTTCATTTTCCTTTAACTCTC
*
15390226 CTTTCATTTTCCTTTAGCTCTC
1 CTTTCATTTTCCTTTAACTCTC
*
15390248 TTTTCATTTTC
1 CTTTCATTTTC
15390259 ACAAAAACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.11, C:0.29, G:0.02, T:0.58
Consensus pattern (22 bp):
CTTTCATTTTCCTTTAACTCTC
Found at i:15392357 original size:5 final size:6
Alignment explanation
Indices: 15392339--15392369 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
15392329 CTCGAGCTCA
*
15392339 TTATTT TTATTT TTATTT TTATTT TTCTTT T
1 TTATTT TTATTT TTATTT TTATTT TTATTT T
15392370 CACCATAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:15395016 original size:6 final size:7
Alignment explanation
Indices: 15394987--15395017 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
15394977 GAAAAAAAAT
15394987 AACTAAA
1 AACTAAA
15394994 GAACTAAA
1 -AACTAAA
15395002 AACTAAA
1 AACTAAA
15395009 AACTAAA
1 AACTAAA
15395016 AA
1 AA
15395018 AAGAGAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.71, C:0.13, G:0.03, T:0.13
Consensus pattern (7 bp):
AACTAAA
Found at i:15395018 original size:15 final size:16
Alignment explanation
Indices: 15394969--15395018 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
15394959 GCCAATAACT
**
15394969 AAACTAAAGAAAAAAA
1 AAACTAAAGAACTAAA
15394985 ATAACTAAAGAACT-AA
1 A-AACTAAAGAACTAAA
15395001 AAACTAAA-AACTAAA
1 AAACTAAAGAACTAAA
15395016 AAA
1 AAA
15395019 AGAGAAGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 4 0.13
15 12 0.40
16 4 0.13
17 10 0.33
ACGTcount: A:0.74, C:0.10, G:0.04, T:0.12
Consensus pattern (16 bp):
AAACTAAAGAACTAAA
Found at i:15403302 original size:71 final size:71
Alignment explanation
Indices: 15403218--15403356 Score: 188
Period size: 71 Copynumber: 2.0 Consensus size: 71
15403208 GTTTGATAGC
* * * * * *
15403218 AGAAGTTCTACCAATATACAATACTATGCCACCATATTGATAATGGGTATAAAAGAAAAAATGTT
1 AGAAGTTCAACCAATATACAATACTACGCCACCACACTAAGAATGGGTATAAAAGAAAAAATGTT
15403283 AAAAGT
66 AAAAGT
* * * *
15403289 AGAAGTTCAACCAATGTACTATACTACGCCACCACACTAAGAATGGGTATAAGAGAAGAAATGTT
1 AGAAGTTCAACCAATATACAATACTACGCCACCACACTAAGAATGGGTATAAAAGAAAAAATGTT
15403354 AAA
66 AAA
15403357 GCCATTCACT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (71 bp):
AGAAGTTCAACCAATATACAATACTACGCCACCACACTAAGAATGGGTATAAAAGAAAAAATGTT
AAAAGT
Found at i:15403846 original size:11 final size:11
Alignment explanation
Indices: 15403830--15403854 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15403820 TCCCTTTCCC
15403830 TTTTGAAGTAA
1 TTTTGAAGTAA
15403841 TTTTGAAGTAA
1 TTTTGAAGTAA
15403852 TTT
1 TTT
15403855 ATATATTATT
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:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTTGAAGTAA
Found at i:15406625 original size:13 final size:13
Alignment explanation
Indices: 15406607--15406631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15406597 TGAAATGGAC
15406607 TATTTTATTTATT
1 TATTTTATTTATT
15406620 TATTTTATTTAT
1 TATTTTATTTAT
15406632 GAATATTTTC
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTTTATTTATT
Found at i:15410235 original size:35 final size:35
Alignment explanation
Indices: 15410189--15410262 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
15410179 CAATAGGAAG
*
15410189 CAATTTGATAACCCAAGGTTTAAGAAATGGTGTGC
1 CAATTTGATAACCCAAGGTTCAAGAAATGGTGTGC
*
15410224 CAATTTGATAACCCAAGGTTCAAGAAATTGTGTGC
1 CAATTTGATAACCCAAGGTTCAAGAAATGGTGTGC
15410259 CAAT
1 CAAT
15410263 CTTCACATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (35 bp):
CAATTTGATAACCCAAGGTTCAAGAAATGGTGTGC
Found at i:15411071 original size:18 final size:19
Alignment explanation
Indices: 15411038--15411077 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
15411028 CATTAAACAA
*
15411038 AAAACTAAATATAAAATAT
1 AAAACTAAATAGAAAATAT
15411057 AAAACTAAAT-GAAAATAT
1 AAAACTAAATAGAAAATAT
15411075 AAA
1 AAA
15411078 GATATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAACTAAATAGAAAATAT
Found at i:15411084 original size:8 final size:8
Alignment explanation
Indices: 15411044--15411098 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
15411034 ACAAAAAACT
15411044 AAATAT-A
1 AAATATAA
15411051 AAATATAA
1 AAATATAA
* *
15411059 AACTAAATGA
1 AA--ATATAA
15411069 AAATATAA
1 AAATATAA
*
15411077 AGATATAA
1 AAATATAA
15411085 AAATA-AA
1 AAATATAA
15411092 AAATATA
1 AAATATA
15411099 TAGTAATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
7 13 0.34
8 19 0.50
10 6 0.16
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (8 bp):
AAATATAA
Found at i:15411099 original size:25 final size:24
Alignment explanation
Indices: 15411044--15411100 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
15411034 ACAAAAAACT
*
15411044 AAATATAAAATATAAAACTAAATGA
1 AAATATAAAATATAAAAATAAA-GA
15411069 AAATATAAAGATATAAAAATAAA-A
1 AAATATAAA-ATATAAAAATAAAGA
15411093 AATATATA
1 AA-ATATA
15411101 GTAATAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 3 0.10
25 14 0.48
26 12 0.41
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (24 bp):
AAATATAAAATATAAAAATAAAGA
Found at i:15411154 original size:21 final size:18
Alignment explanation
Indices: 15411128--15411174 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 18
15411118 TATTATTATT
15411128 ATAATAAAATATATATAAATA
1 ATAATAAAA-ATA-ATAAA-A
15411149 ATAATAGAAAATAATAAAA
1 ATAATA-AAAATAATAAAA
15411168 AT-ATAAA
1 ATAATAAA
15411175 GAAAAAGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.08
18 3 0.12
19 3 0.12
20 5 0.20
21 9 0.36
22 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
ATAATAAAAATAATAAAA
Found at i:15411161 original size:10 final size:9
Alignment explanation
Indices: 15411128--15411174 Score: 51
Period size: 10 Copynumber: 4.9 Consensus size: 9
15411118 TATTATTATT
15411128 ATAATAAAA
1 ATAATAAAA
15411137 TATATATAAATA
1 -ATA-ATAAA-A
15411149 ATAATAGAAA
1 ATAATA-AAA
15411159 ATAATAAAA
1 ATAATAAAA
15411168 AT-ATAAA
1 ATAATAAA
15411175 GAAAAAGCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 5 0.15
9 5 0.15
10 13 0.38
11 10 0.29
12 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (9 bp):
ATAATAAAA
Found at i:15412712 original size:99 final size:100
Alignment explanation
Indices: 15412514--15412710 Score: 272
Period size: 98 Copynumber: 2.0 Consensus size: 100
15412504 ACTTGTTGTA
* * * *
15412514 TCTCCTTTGCATGTTGGCTGTGTTGGGGAAACCTTGAAACTTTTCATGGCTGTTGCTCTTTTTTT
1 TCTCCTCTGCATATTGGCTGTGTTGGGGAAACCTTGAAACTTTTCATAGCTGTTACTCTTTTTTT
* ** *
15412579 TCATGATTGCCATGTATGGGAGGGGAAAAGAAAAT
66 TCATGATTGCCATGCATGCAAAGGGAAAAGAAAAT
* *
15412614 TCTCCTCTGCATATTGGCTGT-TTTGGGAAACCTTGAAACTTTTCATAGTTGTTACT-TTTTTTT
1 TCTCCTCTGCATATTGGCTGTGTTGGGGAAACCTTGAAACTTTTCATAGCTGTTACTCTTTTTTT
* *
15412677 TCATGATTGCCGTGCATGCAAAGGGAAAGGAAAA
66 TCATGATTGCCATGCATGCAAAGGGAAAAGAAAA
15412711 ATCGAAGCTC
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 35 0.41
99 31 0.36
100 19 0.22
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (100 bp):
TCTCCTCTGCATATTGGCTGTGTTGGGGAAACCTTGAAACTTTTCATAGCTGTTACTCTTTTTTT
TCATGATTGCCATGCATGCAAAGGGAAAAGAAAAT
Found at i:15413520 original size:13 final size:13
Alignment explanation
Indices: 15413502--15413526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15413492 ATCCTATATG
15413502 TAAAATAAAACCT
1 TAAAATAAAACCT
15413515 TAAAATAAAACC
1 TAAAATAAAACC
15413527 CTATAAATGA
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:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAATAAAACCT
Found at i:15414446 original size:19 final size:19
Alignment explanation
Indices: 15414419--15414473 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
15414409 AAGCATTACC
15414419 TAAGTAAAACCCTAAACCT
1 TAAGTAAAACCCTAAACCT
* * *
15414438 TAAGCAAAATCCTGAAGCCT
1 TAAGTAAAACCCT-AAACCT
15414458 T-AGTTAAAACCCTAAA
1 TAAG-TAAAACCCTAAA
15414474 TATACCAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.22
Consensus pattern (19 bp):
TAAGTAAAACCCTAAACCT
Found at i:15415846 original size:21 final size:21
Alignment explanation
Indices: 15415821--15415861 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15415811 ATCGTTAAAT
15415821 TAGATTCTT-AAGTTAATTTAA
1 TAGA-TCTTCAAGTTAATTTAA
15415842 TAGATCTTCAAGTTAATTTA
1 TAGATCTTCAAGTTAATTTA
15415862 TTAAATTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (21 bp):
TAGATCTTCAAGTTAATTTAA
Found at i:15423201 original size:97 final size:97
Alignment explanation
Indices: 15423032--15423213 Score: 303
Period size: 97 Copynumber: 1.9 Consensus size: 97
15423022 TTGATAATTC
*
15423032 TATATTTTAGAGAATTATTCTAGGCTTTATGGTATGAATTTCACCATTCTAGACTTAATTCGAGC
1 TATATTTTAGAGAATTATTCTAGGCTTTATAGTATGAATTTCACCATTCTAGACTTAATTCGAGC
*
15423097 TTGTTCCTTAACAATTTTTTTCAAATTCATTG
66 TTATTCCTTAACAATTTTTTTCAAATTCATTG
* * *
15423129 TATATTTTATAGAATTA-TCTTAGGCTTTATAGTATGAATTTCACCATTCTAGATTTAATTTGAG
1 TATATTTTAGAGAATTATTC-TAGGCTTTATAGTATGAATTTCACCATTCTAGACTTAATTCGAG
15423193 CTTATTCCTTAACAATTTTTT
65 CTTATTCCTTAACAATTTTTT
15423214 GAAAATTCCC
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
96 2 0.03
97 77 0.97
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (97 bp):
TATATTTTAGAGAATTATTCTAGGCTTTATAGTATGAATTTCACCATTCTAGACTTAATTCGAGC
TTATTCCTTAACAATTTTTTTCAAATTCATTG
Found at i:15424360 original size:144 final size:144
Alignment explanation
Indices: 15424100--15424362 Score: 370
Period size: 144 Copynumber: 1.8 Consensus size: 144
15424090 TGCACTATAG
* *
15424100 AAAGTGTGAAATTACCAAAACACCTCTATAAGAGTATTTTCATAATTTGGCCTTCCTGAGCTCAA
1 AAAGTATGAAATTACCAAAACACCTCTATAAGAGTATTTTCATAATTTAGCCTTCCTGAGCTCAA
* * *
15424165 ATTTTTATGAAACTTTTTAGACCTTAATTTCATAATATTTCATGATTTTTGGTACATTTGAAATC
66 ATTTTCATGAAACTTTTCAGACCTGAATTTCATAATATTTCATGATTTTTGGTACATTTGAAATC
15424230 ACAGCAGTACCCAA
131 ACAGCAGTACCCAA
* * * *
15424244 AAAGTATGAAATTATCAAAATACC-CTTATAAGGGTATTTTCGTAATTTAGCCTT-CTCGAGCTC
1 AAAGTATGAAATTACCAAAACACCTC-TATAAGAGTATTTTCATAATTTAGCCTTCCT-GAGCTC
** *
15424307 GGATTTTCATGAAACTTTTCAGATCTGAATCTT-ATAATATTTCATGATTTTTGGTA
64 AAATTTTCATGAAACTTTTCAGACCTGAAT-TTCATAATATTTCATGATTTTTGGTA
15424363 TTTTAAAATC
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
143 3 0.03
144 99 0.95
145 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (144 bp):
AAAGTATGAAATTACCAAAACACCTCTATAAGAGTATTTTCATAATTTAGCCTTCCTGAGCTCAA
ATTTTCATGAAACTTTTCAGACCTGAATTTCATAATATTTCATGATTTTTGGTACATTTGAAATC
ACAGCAGTACCCAA
Found at i:15433587 original size:24 final size:23
Alignment explanation
Indices: 15433557--15433621 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
15433547 AAAATACTAT
15433557 CAAAATATCATAAAAAAATCATG
1 CAAAATATCATAAAAAAATCATG
* *
15433580 CAAGAATATTATAATTAAAA-CATG
1 CAA-AATATCATAA-AAAAATCATG
*
15433604 CAAAA-ATCATGAAAAAAT
1 CAAAATATCATAAAAAAAT
15433622 ATATCTCAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 4 0.12
22 5 0.15
23 5 0.15
24 16 0.47
25 4 0.12
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (23 bp):
CAAAATATCATAAAAAAATCATG
Found at i:15433647 original size:13 final size:13
Alignment explanation
Indices: 15433629--15433688 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
15433619 AATATATCTC
15433629 AATAAATAATGCA
1 AATAAATAATGCA
**
15433642 AATAAATAAACCA
1 AATAAATAATGCA
*
15433655 TATAAA-ATAT-CA
1 AATAAATA-ATGCA
*
15433667 TAATAAATCATGCA
1 -AATAAATAATGCA
15433681 AATAAATA
1 AATAAATA
15433689 CAATAAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
12 3 0.08
13 31 0.86
14 2 0.06
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (13 bp):
AATAAATAATGCA
Found at i:15434389 original size:242 final size:238
Alignment explanation
Indices: 15433925--15434392 Score: 581
Period size: 242 Copynumber: 1.9 Consensus size: 238
15433915 CAAAAAGAGG
* * * **
15433925 GGTCAAACTTACAACCTTATGGTTAATAATCATATACTTTAACTAACTGAGCTACTTTAATTTTT
1 GGTCAAACCTACAACCTTATGGTTAATAATCATATACTCTAACGAAC-GAGCTACTCCAA-TTTT
*
15433990 TTTTATATTTTATTTCTTAAATCTTATAAGTAATGAAATGGATAATTTACAGTGCTTTTAGTTAA
64 TTTTATATTTTATTTCTTAAATCTTATAAGTAATGAAATGGATAATTTACAGTGCTTTTAGTAAA
* * *
15434055 AAATGCCTTAAATGATACAGTCCAAAAAATTGAAAGGTATTATTTAAGGCCTTTTTTTATCAAAA
129 AAATGCCTTAAATAATACA--CAAAAAAAGTGAAAGGTATTATTTAAGGCCTTTTTTTATCAAAA
** *
15434120 ATACCTTAAATAAGTTTTTTAAAAAATATTAAAGCACTAGAATGAGA
192 ATACCTTAAATAACCTCTTTAAAAAATATTAAAGCACTAGAATGAGA
*
15434167 GGTCAAACCTACAACCTTATGGTTAATAATCATATACTCTAATCGATA-GGGCTACTCCAA-TTT
1 GGTCAAACCTACAACCTTATGGTTAATAATCATATACTCTAA-CGA-ACGAGCTACTCCAATTTT
* *
15434230 TTTTATATTTTATTTCTTAAATCTTATAAGTAATGAAATGGATTATTTA-ATGTGTTTTTAGTAA
64 TTTTATATTTTATTTCTTAAATCTTATAAGTAATGAAATGGATAATTTACA-GTGCTTTTAGT--
**
15434294 AAAAAATGCCTTAAATAATACA-AAAAAAAGTG-AAGGCTATTATTTAAGGTATTTTTTTTTAT-
126 AAAAAATGCCTTAAATAATACACAAAAAAAGTGAAAGG-TATTATTTAAGG--CCTTTTTTTATC
* *
15434356 AAAAA-ACGTTTTAAATAACCCTCTTTGAAAAATATTA
188 AAAAATAC--CTTAAATAA-CCTCTTTAAAAAATATTA
15434393 GAGATTATTT
Statistics
Matches: 196, Mismatches: 19, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
238 4 0.02
239 23 0.12
240 66 0.34
241 17 0.09
242 83 0.42
243 2 0.01
244 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (238 bp):
GGTCAAACCTACAACCTTATGGTTAATAATCATATACTCTAACGAACGAGCTACTCCAATTTTTT
TTATATTTTATTTCTTAAATCTTATAAGTAATGAAATGGATAATTTACAGTGCTTTTAGTAAAAA
ATGCCTTAAATAATACACAAAAAAAGTGAAAGGTATTATTTAAGGCCTTTTTTTATCAAAAATAC
CTTAAATAACCTCTTTAAAAAATATTAAAGCACTAGAATGAGA
Found at i:15434462 original size:49 final size:49
Alignment explanation
Indices: 15434369--15434463 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
15434359 AAACGTTTTA
* *
15434369 AATAACCCTCTTTGAAAAATATTAGAGATTATTTAAGGCATTTTTGGCC
1 AATAACCCTCTTTAAAAAATATTAGAGATTATTTAAGACATTTTTGGCC
* * *
15434418 AATAATCCCT-TTTAAAAAATATTATAGATTATTTAATACGTTTTTG
1 AATAA-CCCTCTTTAAAAAATATTAGAGATTATTTAAGACATTTTTG
15434464 ATAAAAAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 36 0.90
50 4 0.10
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.41
Consensus pattern (49 bp):
AATAACCCTCTTTAAAAAATATTAGAGATTATTTAAGACATTTTTGGCC
Found at i:15434623 original size:64 final size:62
Alignment explanation
Indices: 15434418--15434625 Score: 197
Period size: 64 Copynumber: 3.3 Consensus size: 62
15434408 ATTTTTGGCC
* * * ** * *
15434418 AATAATCCCTTT-TAAAAAATATTATAGATTATTTAATACGTTTTTGATAAAAAATGCCTTA
1 AATAATCTCTTTAAAAAAAATATTAAAGATTATTTAAGGCATTTTTGACAAAAAATGCCTTA
* * * * * **
15434479 AATAATATCTTTCAAAAAATTA-AAAAGTATTATTTAAGGCATTTTTAAACAAAAAAAACCTTA
1 AATAATCTCTTTAAAAAAAATATTAAAG-ATTATTTAAGGCATTTTT-GACAAAAAATGCCTTA
** *
15434542 AA-ATATCATCAATAAAAAAAATATTAGAGATTATTTAAGGCATTTTTGGACAAAAAATGCCTTA
1 AATA-ATC-TCTTTAAAAAAAATATTAAAGATTATTTAAGGCATTTTT-GACAAAAAATGCCTTA
15434606 AATAATCTCTTTAAAAAAAA
1 AATAATCTCTTTAAAAAAAA
15434626 GAGAATATTT
Statistics
Matches: 114, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
61 13 0.11
62 23 0.20
63 27 0.24
64 47 0.41
65 4 0.04
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.35
Consensus pattern (62 bp):
AATAATCTCTTTAAAAAAAATATTAAAGATTATTTAAGGCATTTTTGACAAAAAATGCCTTA
Found at i:15436796 original size:7 final size:7
Alignment explanation
Indices: 15436752--15436867 Score: 79
Period size: 7 Copynumber: 17.6 Consensus size: 7
15436742 CCTAATTCTC
15436752 AAACCCT
1 AAACCCT
*
15436759 AAAACCT
1 AAACCCT
15436766 -AACCCT
1 AAACCCT
15436772 AAACTCC-
1 AAAC-CCT
15436779 AAACTCC-
1 AAAC-CCT
15436786 AAACCCT
1 AAACCCT
*
15436793 AAA-CCA
1 AAACCCT
*
15436799 AAACCCC
1 AAACCCT
* *
15436806 AAA-TCA
1 AAACCCT
15436812 AAACCCT
1 AAACCCT
15436819 -AACCCT
1 AAACCCT
*
15436825 AAACCTT
1 AAACCCT
15436832 AAA-CCT
1 AAACCCT
* *
15436838 TAATCCT
1 AAACCCT
15436845 AAA-CCT
1 AAACCCT
15436851 AAACCCT
1 AAACCCT
15436858 -AACCCT
1 AAACCCT
15436864 AAAC
1 AAAC
15436868 TATAAATCCC
Statistics
Matches: 88, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
6 38 0.43
7 48 0.55
8 2 0.02
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:15436867 original size:13 final size:13
Alignment explanation
Indices: 15436753--15436867 Score: 88
Period size: 13 Copynumber: 8.8 Consensus size: 13
15436743 CTAATTCTCA
*
15436753 AACCCTAAAACCT
1 AACCCTAAACCCT
*
15436766 AACCCTAAACTCCA
1 AACCCTAAAC-CCT
15436780 AACTCC-AAACCCT
1 AAC-CCTAAACCCT
* * *
15436793 AAACCAAAACCCC
1 AACCCTAAACCCT
** *
15436806 AAATCAAAACCCT
1 AACCCTAAACCCT
*
15436819 AACCCTAAACCTT
1 AACCCTAAACCCT
* * *
15436832 AAACCTTAATCCT
1 AACCCTAAACCCT
*
15436845 AAACCTAAACCCT
1 AACCCTAAACCCT
15436858 AACCCTAAAC
1 AACCCTAAAC
15436868 TATAAATCCC
Statistics
Matches: 81, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
12 2 0.02
13 68 0.84
14 9 0.11
15 2 0.02
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:15438648 original size:3 final size:3
Alignment explanation
Indices: 15438640--15438708 Score: 58
Period size: 3 Copynumber: 24.0 Consensus size: 3
15438630 TAATTAAATT
* *
15438640 TTA TTA TTA TT- TCA TTA TCTA -CA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA
*
15438685 TTA ATA TT- TTA TTA TT- TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
15438709 ATAATTGCCC
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
2 8 0.15
3 40 0.75
4 5 0.09
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:15438696 original size:21 final size:22
Alignment explanation
Indices: 15438662--15438711 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
15438652 CATTATCTAC
*
15438662 ATTATTATTATTATTATTATT-T
1 ATTAATATTATTATTATT-TTAT
15438684 ATTAATATT-TTATTATTTTAT
1 ATTAATATTATTATTATTTTAT
15438705 ATTAATA
1 ATTAATA
15438712 ATTGCCCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 16 0.62
22 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTAATATTATTATTATTTTAT
Found at i:15438704 original size:19 final size:19
Alignment explanation
Indices: 15438663--15438701 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15438653 ATTATCTACA
*
15438663 TTATTATTATTATTATTAT
1 TTATTAATATTATTATTAT
15438682 TTATTAATATT-TTATTAT
1 TTATTAATATTATTATTAT
15438700 TT
1 TT
15438702 TATATTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATTAATATTATTATTAT
Found at i:15439630 original size:12 final size:12
Alignment explanation
Indices: 15439615--15439645 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
15439605 TTTTCATTCC
15439615 TTTTTGCTTTTT
1 TTTTTGCTTTTT
15439627 TTTTT-CTTTTT
1 TTTTTGCTTTTT
15439638 TTTTTGCT
1 TTTTTGCT
15439646 CCAAAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (12 bp):
TTTTTGCTTTTT
Found at i:15440478 original size:145 final size:144
Alignment explanation
Indices: 15440216--15440486 Score: 363
Period size: 145 Copynumber: 1.9 Consensus size: 144
15440206 ATTTTAAAAT
*
15440216 ACCAAAAATCATGAAATACTATAAACTTGAGATATGAAAAGTTTCATAAAAATCCAACTCGAGAA
1 ACCAAAAATCATGAAATACTATAAACTTAAGATATGAAAAGTTTCATAAAAATCCAACTCGAGAA
* * *
15440281 GGTCAAATTATGAAAATACCTTTATAGGGGTATTTCAGTAGTTTTACATTTTT-TGTGGTACTAC
66 GGTCAAATTATGAAAATACCCTTATAGGGGTATTTCAGTAATTTCACATTTTTCT-TGGTACTAC
15440345 TATGATTTCAAATGC
130 TATGATTTCAAATGC
* * * * *
15440360 ACCAAAAATCATGAAATATTATGAAA-TTAAGATCT-AAAAGGTTTCATGAAAATTCGAGCTCGA
1 ACCAAAAATCATGAAATACTAT-AAACTTAAGATATGAAAA-GTTTCAT-AAAAATCCAACTCGA
*
15440423 GAAAGGT-AAATTATGAAAATACCCTTATAGGGGTATTT-TGATAATTTCACATTTTTCTTGGTA
63 G-AAGGTCAAATTATGAAAATACCCTTATAGGGGTATTTCAG-TAATTTCACATTTTTCTTGGTA
15440486 C
126 C
15440487 AATAAAAATT
Statistics
Matches: 111, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
143 4 0.04
144 36 0.32
145 65 0.59
146 6 0.05
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (144 bp):
ACCAAAAATCATGAAATACTATAAACTTAAGATATGAAAAGTTTCATAAAAATCCAACTCGAGAA
GGTCAAATTATGAAAATACCCTTATAGGGGTATTTCAGTAATTTCACATTTTTCTTGGTACTACT
ATGATTTCAAATGC
Found at i:15441035 original size:26 final size:26
Alignment explanation
Indices: 15441002--15441060 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
15440992 CACATGTTAG
15441002 AAAATAAAGAATGACCAT-G-AAGTCAA
1 AAAATAAAGAATGA-C-TGGAAAGTCAA
15441028 AAAATAAAGAATGACTGGAAAGTCAA
1 AAAATAAAGAATGACTGGAAAGTCAA
15441054 AAAATAA
1 AAAATAA
15441061 GAAATGATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
24 1 0.03
25 2 0.06
26 28 0.90
ACGTcount: A:0.61, C:0.08, G:0.15, T:0.15
Consensus pattern (26 bp):
AAAATAAAGAATGACTGGAAAGTCAA
Found at i:15441236 original size:35 final size:34
Alignment explanation
Indices: 15441153--15441236 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 34
15441143 GAGATGATAT
*
15441153 TGCAAGTCAAAAAATAACGAATGATTGGACAACAC
1 TGCAAGTC-AAAAATAACGAATGATTGGACAAAAC
* * *
15441188 TACAAGTTAAAAAATAAGGAATGATTGGGACAAAA-
1 TGCAAG-TCAAAAATAACGAATGATT-GGACAAAAC
15441223 TCGCAAGTCAAAAA
1 T-GCAAGTCAAAAA
15441237 ACAAAGAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
35 28 0.70
36 12 0.30
ACGTcount: A:0.51, C:0.13, G:0.18, T:0.18
Consensus pattern (34 bp):
TGCAAGTCAAAAATAACGAATGATTGGACAAAAC
Found at i:15441433 original size:37 final size:36
Alignment explanation
Indices: 15441047--15441604 Score: 177
Period size: 36 Copynumber: 15.5 Consensus size: 36
15441037 AATGACTGGA
* ** * *
15441047 AAGTCAAAAAATAAGAAATGATCAAGATGATATCGT
1 AAGTCAAAAAATAAAAAATGATCGGGATGACAACGT
* *
15441083 AAGTCAAAAAATGAAAAATGAAT-AGGATGAC-ACTGT
1 AAGTCAAAAAATAAAAAATG-ATCGGGATGACAAC-GT
* * * ** *
15441119 AAGTCAAAAAATAATAAAATGACCGAGATGATATTGC
1 AAGTCAAAAAATAA-AAAATGATCGGGATGACAACGT
** * **
15441156 AAGTCAAAAAATAACGAATGAT-TGGACAAC-AC-T
1 AAGTCAAAAAATAAAAAATGATCGGGATGACAACGT
* ** * * * *
15441189 ACAAGTTAAAAAATAAGGAATGATTGGGA-CAAAATCGC
1 --AAGTCAAAAAATAAAAAATGATCGGGATGACAA-CGT
* * * * *
15441227 AAGTCAAAAAACAAAGAGTGATTGGGATGA-TACTGT
1 AAGTCAAAAAATAAAAAATGATCGGGATGACAAC-GT
** * *
15441263 AAGTCAAAAAATAATAAAA-GAATCAAGACGACACCGT
1 AAGTCAAAAAATAA-AAAATG-ATCGGGATGACAACGT
* * * * * * * * * *
15441300 AAATTAGAAAATAAAGAGTGACCAGGATAACACCAT
1 AAGTCAAAAAATAAAAAATGATCGGGATGACAACGT
* ** * *
15441336 AAGTCAGAAAATAAGGAACGA-CTGGGATGACATCGT
1 AAGTCAAAAAATAAAAAATGATC-GGGATGACAACGT
* * *
15441372 AAGTCAAAAAATAAAGAGTGATCGGGACGACAACGT
1 AAGTCAAAAAATAAAAAATGATCGGGATGACAACGT
* * * *
15441408 AAGTGAAAAGATAATAAAATGATCGGGATGACACCAT
1 AAGTCAAAAAATAA-AAAATGATCGGGATGACAACGT
* *** * * * * * *
15441445 AGGTTTGAAAATAAAGAATGATTGGGACGCCACCAT
1 AAGTCAAAAAATAAAAAATGATCGGGATGACAACGT
* ** * **
15441481 AAGTC-CAAAAT-AAAAATGATTAGGATGACACCAC
1 AAGTCAAAAAATAAAAAATGATCGGGATGACAACGT
** * * * *
15441515 AAGT-AAAAAATAAGGAATGACCAGGATGACATCGC
1 AAGTCAAAAAATAAAAAATGATCGGGATGACAACGT
* ** *
15441550 AAGTCAAAAAATAATAAAATGACCATGATGACATCGT
1 AAGTCAAAAAATAA-AAAATGATCGGGATGACAACGT
*
15441587 AAGTCAGAAAATAAAAAA
1 AAGTCAAAAAATAAAAAA
15441605 CGACCAAGAT
Statistics
Matches: 391, Mismatches: 107, Indels: 48
0.72 0.20 0.09
Matches are distributed among these distances:
34 27 0.07
35 53 0.14
36 200 0.51
37 110 0.28
38 1 0.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.18
Consensus pattern (36 bp):
AAGTCAAAAAATAAAAAATGATCGGGATGACAACGT
Found at i:15441455 original size:145 final size:145
Alignment explanation
Indices: 15441198--15441461 Score: 325
Period size: 145 Copynumber: 1.8 Consensus size: 145
15441188 TACAAGTTAA
* * * * *
15441198 AAAATAAGGAATGATTGGGACAAAATCGCAAGTCAAAAAACAAAGAGTGATTGGGATGATACTGT
1 AAAATAAGGAACGACTGGGACAAAATCGCAAGTCAAAAAACAAAGAGTGATCGGGACGAAACTGT
*
15441263 AAGTCAAAAAATAATAAAAGAATCAAGACGACACCGTAAATTAGAAAATAAAGAGTGACCAGGAT
66 AAGTCAAAAAATAATAAAAGAATCAAGACGACACCATAAATTAGAAAATAAAGAGTGACCAGGAT
15441328 AACACCATAAGTCAG
131 AACACCATAAGTCAG
** * * *
15441343 AAAATAAGGAACGACTGGGATGACATCGTAAGTCAAAAAATAAAGAGTGATCGGGACGACAAC-G
1 AAAATAAGGAACGACTGGGACAAAATCGCAAGTCAAAAAACAAAGAGTGATCGGGACGA-AACTG
* * ** * ** *
15441407 TAAGTGAAAAGATAATAAAATG-ATCGGGATGACACCATAGGTTTGAAAATAAAGA
65 TAAGTCAAAAAATAATAAAA-GAATCAAGACGACACCATAAATTAGAAAATAAAGA
15441462 ATGATTGGGA
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
145 95 0.97
146 3 0.03
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.17
Consensus pattern (145 bp):
AAAATAAGGAACGACTGGGACAAAATCGCAAGTCAAAAAACAAAGAGTGATCGGGACGAAACTGT
AAGTCAAAAAATAATAAAAGAATCAAGACGACACCATAAATTAGAAAATAAAGAGTGACCAGGAT
AACACCATAAGTCAG
Found at i:15441484 original size:73 final size:70
Alignment explanation
Indices: 15441379--15441513 Score: 162
Period size: 73 Copynumber: 1.9 Consensus size: 70
15441369 CGTAAGTCAA
* * * *
15441379 AAAATAAAGAGTGATCGGGACGACAACGTAAGTGAAAAGATAATAAAATGATCGGGATGACACCA
1 AAAATAAAGAATGATCGGGACGACAACATAAGTCAAAA-AT-A-AAAATGATCAGGATGACACCA
15441444 TAGGTTTG
63 TAGGTTTG
* * * * *
15441452 AAAATAAAGAATGATTGGGACGCCACCATAAGTCCAAAATAAAAATGATTAGGATGACACCA
1 AAAATAAAGAATGATCGGGACGACAACATAAGTCAAAAATAAAAATGATCAGGATGACACCA
15441514 CAAGTAAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
70 19 0.36
71 1 0.02
72 2 0.04
73 31 0.58
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.19
Consensus pattern (70 bp):
AAAATAAAGAATGATCGGGACGACAACATAAGTCAAAAATAAAAATGATCAGGATGACACCATAG
GTTTG
Found at i:15441492 original size:35 final size:35
Alignment explanation
Indices: 15441452--15441563 Score: 100
Period size: 35 Copynumber: 3.2 Consensus size: 35
15441442 CATAGGTTTG
* * * **
15441452 AAAATAAAGAATGATTGGGACGCCACCATAAGTCC
1 AAAATAAAGAATGATTAGGACGACACCACAAGTAA
*
15441487 AAAATAAA-AATGATTAGGATGACACCACAAGTAA
1 AAAATAAAGAATGATTAGGACGACACCACAAGTAA
* ** * * *
15441521 AAAATAAGGAATGACCAGGATGACATCGCAAGTCAA
1 AAAATAAAGAATGATTAGGACGACACCACAAGT-AA
15441557 AAAATAA
1 AAAATAA
15441564 TAAAATGACC
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 27 0.42
35 28 0.44
36 9 0.14
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.16
Consensus pattern (35 bp):
AAAATAAAGAATGATTAGGACGACACCACAAGTAA
Found at i:15441513 original size:34 final size:34
Alignment explanation
Indices: 15441262--15441645 Score: 113
Period size: 36 Copynumber: 10.6 Consensus size: 34
15441252 GATGATACTG
* * * *
15441262 TAAGTCAAAAAATAATAAAAGAATCAAGACGACACCG
1 TAAGT-AAAAAATAA-AAATG-ATCAGGATGACACCA
* * * * *
15441299 TAAATTAGAAAATAAAGAGTGACCAGGATAACACCA
1 T-AAGTAAAAAATAAA-AATGATCAGGATGACACCA
* * * * * *
15441335 TAAGTCAGAAAATAAGGAACGA-CTGGGATGACATCG
1 TAAGT-AAAAAATAA-AAATGATC-AGGATGACACCA
* * * * *
15441371 TAAGTCAAAAAATAAAGAGTGATCGGGACGACAACG
1 TAAGT-AAAAAATAAA-AATGATCAGGATGACACCA
* *
15441407 TAAGTGAAAAGATAATAAAATGATCGGGATGACACCA
1 TAAGT-AAAAAAT-A-AAAATGATCAGGATGACACCA
* ** ** * *
15441444 TAGGTTTGAAAATAAAGAATGATTGGGACGCCACCA
1 TAAG-TAAAAAATAAA-AATGATCAGGATGACACCA
** *
15441480 TAAGTCCAAAATAAAAATGATTAGGATGACACCA
1 TAAGTAAAAAATAAAAATGATCAGGATGACACCA
* * * * *
15441514 CAAGTAAAAAATAAGGAATGACCAGGATGACATCG
1 TAAGTAAAAAATAA-AAATGATCAGGATGACACCA
* * * * *
15441549 CAAGTCAAAAAATAATAAAATGACCATGATGACATCG
1 TAAGT-AAAAAAT-A-AAAATGATCAGGATGACACCA
* * * * *
15441586 TAAGTCAGAAAATAAAAAACGACCAAGATAACACCA
1 TAAGT-AAAAAAT-AAAAATGATCAGGATGACACCA
*
15441622 CAAGTTAAAAAATAATAAAATGAT
1 TAAG-TAAAAAAT-A-AAAATGAT
15441646 TGAGGCAACA
Statistics
Matches: 267, Mismatches: 63, Indels: 34
0.73 0.17 0.09
Matches are distributed among these distances:
34 27 0.10
35 35 0.13
36 124 0.46
37 74 0.28
38 7 0.03
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.17
Consensus pattern (34 bp):
TAAGTAAAAAATAAAAATGATCAGGATGACACCA
Found at i:15441634 original size:36 final size:37
Alignment explanation
Indices: 15441504--15441644 Score: 144
Period size: 36 Copynumber: 3.9 Consensus size: 37
15441494 AAATGATTAG
** *
15441504 GATGACACCACAAGT-AAAAAATAA-GGAATGACCAG
1 GATGACACCACAAGTCAAAAAATAATAAAATGACCAA
* * *
15441539 GATGACATCGCAAGTCAAAAAATAATAAAATGACCAT
1 GATGACACCACAAGTCAAAAAATAATAAAATGACCAA
* ** * *
15441576 GATGACATCGTAAGTCAGAAAATAA-AAAACGACCAA
1 GATGACACCACAAGTCAAAAAATAATAAAATGACCAA
* *
15441612 GATAACACCACAAGTTAAAAAATAATAAAATGA
1 GATGACACCACAAGTCAAAAAATAATAAAATGA
15441645 TTGAGGCAAC
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
35 13 0.15
36 37 0.43
37 37 0.43
ACGTcount: A:0.54, C:0.16, G:0.15, T:0.16
Consensus pattern (37 bp):
GATGACACCACAAGTCAAAAAATAATAAAATGACCAA
Found at i:15442806 original size:11 final size:11
Alignment explanation
Indices: 15442785--15442818 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
15442775 CTCTTTTCTC
15442785 TTTTA-TTTTT
1 TTTTATTTTTT
*
15442795 TTTTGTTTTTT
1 TTTTATTTTTT
15442806 TTTTATTTTTT
1 TTTTATTTTTT
15442817 TT
1 TT
15442819 GAAGGATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.91
Consensus pattern (11 bp):
TTTTATTTTTT
Found at i:15442943 original size:156 final size:156
Alignment explanation
Indices: 15442657--15442965 Score: 421
Period size: 156 Copynumber: 2.0 Consensus size: 156
15442647 CATTCTATCA
* * *
15442657 TTTTTTGAAGGATTTTCTCTTAGCTCTACCTTCATTTAAGCTGCCCTTTTAGGTTTTCAACTTAA
1 TTTTTTGAAGGATTTCCTCTTAGCTCAACCTTCATTTAAGCTGCCCTGTTAGGTTTTCAACTTAA
* *
15442722 ATGATCATTCTTTTGGTTCAAACCACCTTTTTTAGGTTTTCAATCTAAACCATCTCTTTTCTCTT
66 ACGATCATTCTTTTGATTCAAACCACCTTTTTTAGGTTTTCAATCTAAACCATCTCTTTTCTCTT
15442787 TTATTTTTTT-TTGTTTTT-TTTTTATT
131 TT-TTTTTTTGTT-TTTTTATTTTTATT
* * *
15442813 TTTTTTGAAGGATTTCCTCTTAGCTCAACTTTCATTTAA-ATCGCCCTGTTAGGTTTTCAGCTTA
1 TTTTTTGAAGGATTTCCTCTTAGCTCAACCTTCATTTAAGCT-GCCCTGTTAGGTTTTCAACTTA
* * * **
15442877 AACGATCATTTTTTTTATTCAAACTATCCTTTTTTTTTGTTTTCAATCTAAACCATCT-TTTT-T
65 AACGATCATTCTTTTGATTCAAACCA-CC-TTTTTTAGGTTTTCAATCTAAACCATCTCTTTTCT
15442940 CTTTTTTTTTTTGTTTTTTTATTTTT
128 CTTTTTTTTTTTGTTTTTTTATTTTT
15442966 GAAAGATTTC
Statistics
Matches: 135, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
155 13 0.10
156 90 0.67
157 6 0.04
158 26 0.19
ACGTcount: A:0.19, C:0.17, G:0.08, T:0.56
Consensus pattern (156 bp):
TTTTTTGAAGGATTTCCTCTTAGCTCAACCTTCATTTAAGCTGCCCTGTTAGGTTTTCAACTTAA
ACGATCATTCTTTTGATTCAAACCACCTTTTTTAGGTTTTCAATCTAAACCATCTCTTTTCTCTT
TTTTTTTTTGTTTTTTTATTTTTATT
Found at i:15446431 original size:18 final size:18
Alignment explanation
Indices: 15446405--15446445 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
15446395 ATAGTCTTCT
*
15446405 AACTTAACATCATTATCA
1 AACTCAACATCATTATCA
15446423 AACTCAACATCATTATCA
1 AACTCAACATCATTATCA
15446441 AACTC
1 AACTC
15446446 GCTAATGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (18 bp):
AACTCAACATCATTATCA
Found at i:15453285 original size:16 final size:16
Alignment explanation
Indices: 15453264--15453294 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15453254 TTTTTTTTTG
15453264 AAAAATTAAAATAAAA
1 AAAAATTAAAATAAAA
*
15453280 AAAAATTAAATTAAA
1 AAAAATTAAAATAAA
15453295 TATAAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATTAAAATAAAA
Found at i:15457084 original size:17 final size:16
Alignment explanation
Indices: 15457064--15457099 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
15457054 TGATTTGTTT
15457064 AAAAAAAAAAAGAAAGA
1 AAAAAAAAAAAGAAA-A
*
15457081 AAAAAAAAGAAGAAAA
1 AAAAAAAAAAAGAAAA
15457097 AAA
1 AAA
15457100 GAGAAAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGAAAA
Found at i:15457085 original size:14 final size:14
Alignment explanation
Indices: 15457066--15457105 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
15457056 ATTTGTTTAA
15457066 AAAAAAAAAGAAAG
1 AAAAAAAAAGAAAG
15457080 AAAAAAAAAG-AAG
1 AAAAAAAAAGAAAG
*
15457093 AAAAAAAGAGAAA
1 AAAAAAAAAGAAA
15457106 AGGAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAG
Found at i:15457089 original size:10 final size:10
Alignment explanation
Indices: 15457064--15457106 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
15457054 TGATTTGTTT
15457064 AAAAAA-AAA
1 AAAAAAGAAA
*
15457073 AAGAAAGAAA
1 AAAAAAGAAA
15457083 AAAAAAGAAGA
1 AAAAAAGAA-A
15457094 AAAAAAGAGAA
1 AAAAAAGA-AA
15457105 AA
1 AA
15457107 GGAATTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 5 0.17
10 11 0.38
11 12 0.41
12 1 0.03
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:15457734 original size:17 final size:18
Alignment explanation
Indices: 15457694--15457735 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
15457684 TAAAAAAAAT
*
15457694 AAAAAAATAAAAAAGTTG
1 AAAAAAATAAAAAAGCTG
*
15457712 -AAAAAATGAAAAA-CTG
1 AAAAAAATAAAAAAGCTG
15457728 AAAAAAAT
1 AAAAAAAT
15457736 TGTTTCGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.14
Consensus pattern (18 bp):
AAAAAAATAAAAAAGCTG
Found at i:15459641 original size:34 final size:33
Alignment explanation
Indices: 15459547--15459657 Score: 102
Period size: 34 Copynumber: 3.4 Consensus size: 33
15459537 AAAAGAATGA
* *
15459547 AAGCTTAGATTAGCTAGCACTAAGGA-GA-ATT
1 AAGCCTAGATTAGCTAGCACTGAGGATGAGATT
* * * * **
15459578 CAG-CTCAGATTAGCTGGTATTGAATATGAGATTT
1 AAGCCT-AGATTAGCTAGCACTGAGGATGAGA-TT
15459612 AAGCCTAGATTAGCTAGCACTGAGGATGAGATT
1 AAGCCTAGATTAGCTAGCACTGAGGATGAGATT
*
15459645 AAGTCTAGATTAG
1 AAGCCTAGATTAG
15459658 TTGGCACCAA
Statistics
Matches: 60, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
30 1 0.02
31 16 0.27
32 2 0.03
33 15 0.25
34 24 0.40
35 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (33 bp):
AAGCCTAGATTAGCTAGCACTGAGGATGAGATT
Found at i:15460482 original size:8 final size:8
Alignment explanation
Indices: 15460453--15460501 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
15460443 GCCAATAACT
15460453 AAACTAAA
1 AAACTAAA
15460461 GAAA-TAAA
1 -AAACTAAA
15460469 AGAACTAAA
1 A-AACTAAA
15460478 AAACTAAA
1 AAACTAAA
*
15460486 GAACT-AA
1 AAACTAAA
15460493 AAACTAAA
1 AAACTAAA
15460501 A
1 A
15460502 GAGAGAAGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
7 7 0.20
8 20 0.57
9 8 0.23
ACGTcount: A:0.71, C:0.10, G:0.06, T:0.12
Consensus pattern (8 bp):
AAACTAAA
Found at i:15460484 original size:25 final size:23
Alignment explanation
Indices: 15460453--15460501 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 23
15460443 GCCAATAACT
15460453 AAACTAAAGAAATAAAAGAACTAAA
1 AAACTAAAGAAAT-AAA-AACTAAA
*
15460478 AAACTAAAGAACTAAAAACTAAA
1 AAACTAAAGAAATAAAAACTAAA
15460501 A
1 A
15460502 GAGAGAAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.35
24 3 0.13
25 12 0.52
ACGTcount: A:0.71, C:0.10, G:0.06, T:0.12
Consensus pattern (23 bp):
AAACTAAAGAAATAAAAACTAAA
Done.