Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 137 of 335
Found at i:40362010 original size:46 final size:46
Alignment explanation
Indices: 40361957--40362129 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
40361947 TGGTTGAGCA
40361957 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
40362003 TCTGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
40362048 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
40362096 CCCGAGCTTGTTGAGTTGAGTTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40362130 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.56
47 27 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:40362113 original size:93 final size:93
Alignment explanation
Indices: 40361954--40362124 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
40361944 GGATGGTTGA
* * *
40361954 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40362019 TGAG-TCTGAGTTCGTGAAATGTAACTAG
66 TGAGTTC-GAGTTCGTGAAATGTAACTAG
* *
40362047 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40362112 TGAGTTCGAGTTC
66 TGAGTTCGAGTTC
40362125 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 70 0.97
94 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTTCGAGTTCGTGAAATGTAACTAG
Found at i:40363696 original size:41 final size:41
Alignment explanation
Indices: 40363635--40364045 Score: 585
Period size: 41 Copynumber: 10.0 Consensus size: 41
40363625 TTGTAAAACA
* * * *
40363635 CAGAGCAATAGCGGCGTTTTTGTTAACACGCCGCTAAAAAT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* * *
40363676 -AGAGTAATAGCGGCGCTTTTTGTTAAAACGCCGCTAAAAAT
1 CAGAGCAATAGCGGCGC-TTTTGGTAAAACGCCGCTAAAAGT
*
40363717 -AGACCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
*
40363757 CAGAGTAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
** ** * *
40363798 GGGAGCAATAGCGGCGCTTCAGATAAAACGCCACTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* *
40363839 -AGGAGCAATAGCGGCGCTTTTGGTAAAATGCCACTAAAAGT
1 CA-GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
*
40363880 CGGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
40363921 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
*
40363962 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCACTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* * *
40364003 CAGAGCAATAGCGGCGCTTTTGATAAAATGCTGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
40364044 CA
1 CA
40364046 TATAACCCCT
Statistics
Matches: 336, Mismatches: 30, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
40 36 0.11
41 300 0.89
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.21
Consensus pattern (41 bp):
CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
Found at i:40364341 original size:15 final size:15
Alignment explanation
Indices: 40364297--40364347 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
40364287 CGGTTTAATA
*
40364297 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
40364311 TCTATAGTTTAGGGT
1 TTTATGGTTTAAGGT
40364326 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
40364341 TTAATGG
1 TTTATGG
40364348 CCATGGGTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:40364936 original size:7 final size:7
Alignment explanation
Indices: 40364926--40365005 Score: 74
Period size: 7 Copynumber: 11.3 Consensus size: 7
40364916 CATTAAACCG
40364926 AAATAAA
1 AAATAAA
40364933 AAAT--A
1 AAATAAA
*
40364938 AACTCAAA
1 AAAT-AAA
40364946 AAATAAA
1 AAATAAA
*
40364953 AATTAAA
1 AAATAAA
40364960 AAATTAAA
1 AAA-TAAA
*
40364968 AAATTAA
1 AAATAAA
* *
40364975 AATTTAA
1 AAATAAA
40364982 AAATAAA
1 AAATAAA
40364989 AAATTAAA
1 AAA-TAAA
40364997 AAATAAA
1 AAATAAA
40365004 AA
1 AA
40365006 CTTAAAAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
5 4 0.07
7 38 0.63
8 18 0.30
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (7 bp):
AAATAAA
Found at i:40364961 original size:8 final size:8
Alignment explanation
Indices: 40364950--40365018 Score: 83
Period size: 8 Copynumber: 9.1 Consensus size: 8
40364940 CTCAAAAAAT
40364950 AAAAATTA
1 AAAAATTA
40364958 AAAAATTA
1 AAAAATTA
40364966 AAAAATT-
1 AAAAATTA
*
40364973 -AAAATTT
1 AAAAATTA
40364980 AAAAA-TA
1 AAAAATTA
40364987 AAAAATTA
1 AAAAATTA
40364995 AAAAA-TA
1 AAAAATTA
*
40365002 AAAACTTA
1 AAAAATTA
*
40365010 AAAATTTA
1 AAAAATTA
40365018 A
1 A
40365019 TATTTAATAT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
6 6 0.11
7 12 0.22
8 36 0.67
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAATTA
Found at i:40364983 original size:29 final size:29
Alignment explanation
Indices: 40364949--40365014 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 29
40364939 ACTCAAAAAA
* *
40364949 TAAAAATTAAAAAATTAAAAAATTAAAATT
1 TAAAAA-TAAAAAATTAAAAAATAAAAACT
40364979 TAAAAATAAAAAATTAAAAAATAAAAACT
1 TAAAAATAAAAAATTAAAAAATAAAAACT
40365008 TAAAAAT
1 TAAAAAT
40365015 TTAATATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 28 0.82
30 6 0.18
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.26
Consensus pattern (29 bp):
TAAAAATAAAAAATTAAAAAATAAAAACT
Found at i:40365025 original size:15 final size:15
Alignment explanation
Indices: 40364943--40365013 Score: 92
Period size: 15 Copynumber: 4.9 Consensus size: 15
40364933 AAATAAACTC
*
40364943 AAAAAA-TAAAAATT
1 AAAAAATTAAAAAAT
40364957 AAAAAATTAAAAAAT
1 AAAAAATTAAAAAAT
* *
40364972 -TAAAATTTAAAAAT
1 AAAAAATTAAAAAAT
40364986 AAAAAATTAAAAAAT
1 AAAAAATTAAAAAAT
*
40365001 AAAAACTTAAAAA
1 AAAAAATTAAAAA
40365014 TTTAATATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
14 18 0.37
15 31 0.63
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAAATTAAAAAAT
Found at i:40365110 original size:18 final size:16
Alignment explanation
Indices: 40365089--40365126 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
40365079 TCCAAAAGAG
40365089 AAAAATAAAAAATATGTT
1 AAAAATAAAAAA-AT-TT
40365107 AAAAATAAAAAAATTT
1 AAAAATAAAAAAATTT
40365123 AAAA
1 AAAA
40365127 TTAATCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 2 0.10
18 12 0.60
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAAATAAAAAAATTT
Found at i:40369219 original size:29 final size:29
Alignment explanation
Indices: 40369185--40369244 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
40369175 TTATGAATGC
40369185 TTACATGTATGGCAAGCTGTTGTTAGCCT
1 TTACATGTATGGCAAGCTGTTGTTAGCCT
40369214 TTACATGTATGGCAAGCTGTTGTTAGCCT
1 TTACATGTATGGCAAGCTGTTGTTAGCCT
40369243 TT
1 TT
40369245 CTTTCTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (29 bp):
TTACATGTATGGCAAGCTGTTGTTAGCCT
Found at i:40369983 original size:19 final size:19
Alignment explanation
Indices: 40369961--40370001 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
40369951 TTTATTGATA
40369961 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
40369979 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
40369998 TTTT
1 TTTT
40370002 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:40373040 original size:40 final size:40
Alignment explanation
Indices: 40372940--40373051 Score: 100
Period size: 40 Copynumber: 2.8 Consensus size: 40
40372930 ATATCTAGTA
** *
40372940 TCCAGTGCCTCATCGGCAT-GTCCAAAGTATAAATTTGCAT
1 TCCA-TGCCTCATCGGCATAAACCAAAGTATAAATTTGCAC
*** *** *
40372980 TTTGTGCCTCATCAATATAAACCAAAGTATAAATTTGCGC
1 TCCATGCCTCATCGGCATAAACCAAAGTATAAATTTGCAC
**
40373020 TCCATGCCTCATCGGCATAAACTGAAGTATAA
1 TCCATGCCTCATCGGCATAAACCAAAGTATAA
40373052 TCTTATACAC
Statistics
Matches: 53, Mismatches: 18, Indels: 2
0.73 0.25 0.03
Matches are distributed among these distances:
39 11 0.21
40 42 0.79
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (40 bp):
TCCATGCCTCATCGGCATAAACCAAAGTATAAATTTGCAC
Found at i:40376396 original size:12 final size:13
Alignment explanation
Indices: 40376379--40376412 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
40376369 CATAAATACC
40376379 TAAAATAAAC-TA
1 TAAAATAAACATA
40376391 TAAAATAAACATA
1 TAAAATAAACATA
*
40376404 AAAAATAAA
1 TAAAATAAA
40376413 AACCAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAAATAAACATA
Found at i:40377113 original size:3 final size:3
Alignment explanation
Indices: 40377105--40377130 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
40377095 ATGTTTGAGA
40377105 TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TG
40377131 TTGGGAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:40377312 original size:3 final size:3
Alignment explanation
Indices: 40377304--40377328 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
40377294 GGCAAGTTGG
40377304 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
40377329 TTTGCCACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:40379246 original size:540 final size:540
Alignment explanation
Indices: 40378228--40379850 Score: 3237
Period size: 540 Copynumber: 3.0 Consensus size: 540
40378218 ATATTTGATG
40378228 GGAAGCAATTGAAGAAGTCTCTAAGATTCAATAAGGAAGTAGTATTGCAAATGATGTTGAAATTA
1 GGAAGCAATTGAAGAAGTCTCTAAGATTCAATAAGGAAGTAGTATTGCAAATGATGTTGAAATTA
40378293 GAAGAGTGACGTCCACTTATATAGCCATCCCCATGCAACGTAACGTAAATTGCAAAATAATTGAT
66 GAAGAGTGACGTCCACTTATATAGCCATCCCCATGCAACGTAACGTAAATTGCAAAATAATTGAT
40378358 TGTAAAGAATCTGTCCTAATTGCTTCATTTCAAGTAAAGAATGATTCAAAGTGATGGCTACGATG
131 TGTAAAGAATCTGTCCTAATTGCTTCATTTCAAGTAAAGAATGATTCAAAGTGATGGCTACGATG
40378423 AAAATCTTCATAGAAACACCTCTCTACTCTCTTATAAAGTAATAAACTAGAATAAATTCAAGGAT
196 AAAATCTTCATAGAAACACCTCTCTACTCTCTTATAAAGTAATAAACTAGAATAAATTCAAGGAT
40378488 TACCCAATCTCTTATATATATCAAGTTGGATTTATCATTTTAATTATTAATTCTTATTATCATAA
261 TACCCAATCTCTTATATATATCAAGTTGGATTTATCATTTTAATTATTAATTCTTATTATCATAA
40378553 TTTAGGTATATTATATGAGTGGGCCAAATTTGATGAAAATGATAATTTTAAAGAAAATTAAGAAA
326 TTTAGGTATATTATATGAGTGGGCCAAATTTGATGAAAATGATAATTTTAAAGAAAATTAAGAAA
40378618 TGGGTCAATTTATGTGATACTTGGGGAAATATGTTGATTTTAGAAAGAGAAGATGAAAACGTGTT
391 TGGGTCAATTTATGTGATACTTGGGGAAATATGTTGATTTTAGAAAGAGAAGATGAAAACGTGTT
40378683 TTACAAGACGCGCTTTTTGACCTTTTTAATATATCAGCTCATTTGATTATATAGTTTAATGTTAG
456 TTACAAGACGCGCTTTTTGACCTTTTTAATATATCAGCTCATTTGATTATATAGTTTAATGTTAG
40378748 TAGTTTTGTCCCTTAGTCTT
521 TAGTTTTGTCCCTTAGTCTT
40378768 GGAAGCAATTGAAGAAGTCTCTAAGATTCAATAAGGAAGTAGTATTGCAAATGATGTTGAAATTA
1 GGAAGCAATTGAAGAAGTCTCTAAGATTCAATAAGGAAGTAGTATTGCAAATGATGTTGAAATTA
40378833 GAAGAGTGACGTCCACTTATATAGCCATCCCCATGCAACGTAACGTAAATTGCAAAATAATTGAT
66 GAAGAGTGACGTCCACTTATATAGCCATCCCCATGCAACGTAACGTAAATTGCAAAATAATTGAT
40378898 TGTAAAGAATCTGTCCTAATTGCTTCATTTCAAGTAAAGAATGATTCAAAGTGATGGCTACGATG
131 TGTAAAGAATCTGTCCTAATTGCTTCATTTCAAGTAAAGAATGATTCAAAGTGATGGCTACGATG
40378963 AAAATCTTCATAGAAACACCTCTCTACTCTCTTATAAAGTAATAAACTAGAATAAATTCAAGGAT
196 AAAATCTTCATAGAAACACCTCTCTACTCTCTTATAAAGTAATAAACTAGAATAAATTCAAGGAT
40379028 TACCCAATCTCTTATATATATCAAGTTGGATTTATCATTTTAATTATTAATTCTTATTATCATAA
261 TACCCAATCTCTTATATATATCAAGTTGGATTTATCATTTTAATTATTAATTCTTATTATCATAA
40379093 TTTAGGTATATTATATGAGTGGGCCAAATTTGATGAAAATGATAATTTTAAAGAAAATTAAGAAA
326 TTTAGGTATATTATATGAGTGGGCCAAATTTGATGAAAATGATAATTTTAAAGAAAATTAAGAAA
40379158 TGGGTCAATTTATGTGATACTTGGGGAAATATGTTGATTTTAGAAAGAGAAGATGAAAACGTGTT
391 TGGGTCAATTTATGTGATACTTGGGGAAATATGTTGATTTTAGAAAGAGAAGATGAAAACGTGTT
40379223 TTACAAGACGCGCTTTTTGACCTTTTTAATATATCAGCTCATTTGATTATATAGTTTAATGTTAG
456 TTACAAGACGCGCTTTTTGACCTTTTTAATATATCAGCTCATTTGATTATATAGTTTAATGTTAG
40379288 TAGTTTTGTCCCTTAGTCTT
521 TAGTTTTGTCCCTTAGTCTT
40379308 GGAAGCAATTGAAGAAGTCTCTAAGATTCAATAAGGAAGTAGTATTGCAAATGATGTTGAAATTA
1 GGAAGCAATTGAAGAAGTCTCTAAGATTCAATAAGGAAGTAGTATTGCAAATGATGTTGAAATTA
*
40379373 GAAGAGTGACGTCCACTTATATAGCCATCACCATGCAACGTAACGTAAATTGCAAAATAATTGAT
66 GAAGAGTGACGTCCACTTATATAGCCATCCCCATGCAACGTAACGTAAATTGCAAAATAATTGAT
40379438 TGTAAAGAATCTGTCCTAATTGCTTCATTTCAAGTAAAGAATGATTCAAAGTGATGGCTACGATG
131 TGTAAAGAATCTGTCCTAATTGCTTCATTTCAAGTAAAGAATGATTCAAAGTGATGGCTACGATG
40379503 AAAATCTTCATAGAAACACCTCTCTACTCTCTTATAAAGTAATAAACTAGAATAAATTCAAGGAT
196 AAAATCTTCATAGAAACACCTCTCTACTCTCTTATAAAGTAATAAACTAGAATAAATTCAAGGAT
40379568 TACCCAATCTCTTATATATATCAAGTTGGATTTATCATTTTAATTATTAATTCTTATTATCATAA
261 TACCCAATCTCTTATATATATCAAGTTGGATTTATCATTTTAATTATTAATTCTTATTATCATAA
40379633 TTTAGGTATATTATATGAGTGGGCCAAATTTGATGAAAATGATAATTTTAAAGAAAATTAAGAAA
326 TTTAGGTATATTATATGAGTGGGCCAAATTTGATGAAAATGATAATTTTAAAGAAAATTAAGAAA
40379698 TGGGTCAATTTATGTGATACTTGGGGAAATATGTTGATTTTAGAAAGAGAAGATGAAAACGTGTT
391 TGGGTCAATTTATGTGATACTTGGGGAAATATGTTGATTTTAGAAAGAGAAGATGAAAACGTGTT
40379763 TTACAAGACGCGCTTTTTGACCTTTTTAATATATCAGCTCATTTGATTATATAGTTTAATGTTAG
456 TTACAAGACGCGCTTTTTGACCTTTTTAATATATCAGCTCATTTGATTATATAGTTTAATGTTAG
40379828 TAGTTTTGTCCCTTAGTCTT
521 TAGTTTTGTCCCTTAGTCTT
40379848 GGA
1 GGA
40379851 TTCGATTATT
Statistics
Matches: 1082, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
540 1082 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (540 bp):
GGAAGCAATTGAAGAAGTCTCTAAGATTCAATAAGGAAGTAGTATTGCAAATGATGTTGAAATTA
GAAGAGTGACGTCCACTTATATAGCCATCCCCATGCAACGTAACGTAAATTGCAAAATAATTGAT
TGTAAAGAATCTGTCCTAATTGCTTCATTTCAAGTAAAGAATGATTCAAAGTGATGGCTACGATG
AAAATCTTCATAGAAACACCTCTCTACTCTCTTATAAAGTAATAAACTAGAATAAATTCAAGGAT
TACCCAATCTCTTATATATATCAAGTTGGATTTATCATTTTAATTATTAATTCTTATTATCATAA
TTTAGGTATATTATATGAGTGGGCCAAATTTGATGAAAATGATAATTTTAAAGAAAATTAAGAAA
TGGGTCAATTTATGTGATACTTGGGGAAATATGTTGATTTTAGAAAGAGAAGATGAAAACGTGTT
TTACAAGACGCGCTTTTTGACCTTTTTAATATATCAGCTCATTTGATTATATAGTTTAATGTTAG
TAGTTTTGTCCCTTAGTCTT
Found at i:40380974 original size:41 final size:43
Alignment explanation
Indices: 40380897--40381073 Score: 180
Period size: 43 Copynumber: 4.2 Consensus size: 43
40380887 AAAAAATGCT
* * **
40380897 GCTAAAGAACATGACCTTTAACGGTGC-TTTCTCCACAAACGCC
1 GCTAAAGAACATGACTTTTAGCGGCACTTTTC-CCACAAACGCC
** * *
40380940 GCTAAAGGTCGT-TC-TTTAGCGGCACTTTTCCCACAAACGCC
1 GCTAAAGAACATGACTTTTAGCGGCACTTTTCCCACAAACGCC
* * *
40380981 GCTAAAGAACATGACTTTTAGTGGCGCTTTCCCCACAAACGCC
1 GCTAAAGAACATGACTTTTAGCGGCACTTTTCCCACAAACGCC
* * * * *
40381024 GCTAAAGAACATGACCTTCAGCGGCACTTTTTCCAAAAACACC
1 GCTAAAGAACATGACTTTTAGCGGCACTTTTCCCACAAACGCC
40381067 GCTAAAG
1 GCTAAAG
40381074 CTCATGAAAT
Statistics
Matches: 109, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
41 28 0.26
42 6 0.06
43 75 0.69
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
GCTAAAGAACATGACTTTTAGCGGCACTTTTCCCACAAACGCC
Found at i:40381080 original size:86 final size:84
Alignment explanation
Indices: 40380897--40381073 Score: 219
Period size: 84 Copynumber: 2.1 Consensus size: 84
40380887 AAAAAATGCT
* ** * * ** ** *
40380897 GCTAAAGAACATGACCTTTAACGGTGCTTTCTCCACAAACGCCGCTAAAGGTCGTTCTTTAGCGG
1 GCTAAAGAACATGACTTTTAGTGGCGCTTTCCCCACAAACGCCGCTAAAGAACGACCTTCAGCGG
* *
40380962 CACTTTTCCCACAAACGCC
66 CACTTTTCCCAAAAACACC
40380981 GCTAAAGAACATGACTTTTAGTGGCGCTTTCCCCACAAACGCCGCTAAAGAACATGACCTTCAGC
1 GCTAAAGAACATGACTTTTAGTGGCGCTTTCCCCACAAACGCCGCTAAAGAAC--GACCTTCAGC
*
40381046 GGCACTTTTTCCAAAAACACC
64 GGCACTTTTCCCAAAAACACC
40381067 GCTAAAG
1 GCTAAAG
40381074 CTCATGAAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
84 46 0.59
86 32 0.41
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (84 bp):
GCTAAAGAACATGACTTTTAGTGGCGCTTTCCCCACAAACGCCGCTAAAGAACGACCTTCAGCGG
CACTTTTCCCAAAAACACC
Found at i:40383972 original size:26 final size:26
Alignment explanation
Indices: 40383936--40384045 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
40383926 TGATACAAAT
*
40383936 TGATAATAGGTTAGGTAAGTGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
40383962 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
40383988 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
40384014 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
40384040 TGATAA
1 TGATAA
40384046 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:40386074 original size:137 final size:136
Alignment explanation
Indices: 40385828--40386113 Score: 509
Period size: 137 Copynumber: 2.1 Consensus size: 136
40385818 GAGTAGTCTC
* *
40385828 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATACT
40385893 GTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
40385958 CTGTTA
131 CTGTTA
40385964 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
* *
40386029 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
40386094 ACTGTTA
130 ACTGTTA
**
40386101 CCTGAATGGGCTT
1 CCCAAATGGGCTT
40386114 AGGCCCAATA
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 20 0.14
137 123 0.86
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:40387333 original size:2 final size:2
Alignment explanation
Indices: 40387326--40387353 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
40387316 TGGCAAGATC
40387326 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
40387354 GTATGTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:40389290 original size:18 final size:19
Alignment explanation
Indices: 40389267--40389312 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
40389257 AGGGATTTTG
*
40389267 GGGGAAATTTAGGGA-TTA
1 GGGGAAATTTAGAGAGTTA
*
40389285 GGGGAAATGTAGAGAGTTA
1 GGGGAAATTTAGAGAGTTA
40389304 -GGGAAATTT
1 GGGGAAATTT
40389313 GTTTTGGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (19 bp):
GGGGAAATTTAGAGAGTTA
Found at i:40389769 original size:14 final size:14
Alignment explanation
Indices: 40389739--40389778 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
40389729 TACTAATTAA
*
40389739 TCTAAACCCTAAACC
1 TCTAAACCCT-ACCC
*
40389754 TCTAACCCCTACCC
1 TCTAAACCCTACCC
40389768 TCTAAACCCTA
1 TCTAAACCCTA
40389779 AATATTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.23
Consensus pattern (14 bp):
TCTAAACCCTACCC
Found at i:40389822 original size:7 final size:7
Alignment explanation
Indices: 40389810--40389894 Score: 75
Period size: 7 Copynumber: 12.0 Consensus size: 7
40389800 AACACATGTC
40389810 CCCTTAA
1 CCCTTAA
40389817 CCCTTAAA
1 CCCTT-AA
40389825 CCAC-TAA
1 CC-CTTAA
40389832 CCCTTAA
1 CCCTTAA
*
40389839 CCCCTAA
1 CCCTTAA
*
40389846 CCCCTAA
1 CCCTTAA
*
40389853 CCCCTAA
1 CCCTTAA
40389860 CCCTTAA
1 CCCTTAA
*
40389867 ACCTTAA
1 CCCTTAA
*
40389874 ACCTTAA
1 CCCTTAA
*
40389881 GCCC-CAA
1 -CCCTTAA
40389888 CCCTTAA
1 CCCTTAA
40389895 ACCATAAACC
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
6 4 0.06
7 55 0.82
8 7 0.10
9 1 0.01
ACGTcount: A:0.33, C:0.45, G:0.01, T:0.21
Consensus pattern (7 bp):
CCCTTAA
Found at i:40389835 original size:22 final size:22
Alignment explanation
Indices: 40389810--40389869 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 22
40389800 AACACATGTC
40389810 CCCTTAACCCTTAAACCACTAA
1 CCCTTAACCCTTAAACCACTAA
* *
40389832 CCCTTAACCCCT-AACCCCTAA
1 CCCTTAACCCTTAAACCACTAA
*
40389853 CCCCTAACCCTTAAACC
1 CCCTTAACCCTTAAACC
40389870 TTAAACCTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 18 0.55
22 15 0.45
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (22 bp):
CCCTTAACCCTTAAACCACTAA
Found at i:40389845 original size:14 final size:14
Alignment explanation
Indices: 40389809--40389894 Score: 93
Period size: 14 Copynumber: 6.0 Consensus size: 14
40389799 TAACACATGT
40389809 CCCCTTAACCCTTAAA
1 CCCC-TAACCCTT-AA
*
40389825 CCACTAACCCTTAA
1 CCCCTAACCCTTAA
*
40389839 CCCCTAACCCCTAA
1 CCCCTAACCCTTAA
40389853 CCCCTAACCCTTAA
1 CCCCTAACCCTTAA
* * *
40389867 ACCTTAAACCTTAA
1 CCCCTAACCCTTAA
40389881 GCCCC-AACCCTTAA
1 -CCCCTAACCCTTAA
40389895 ACCATAAACC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
14 46 0.78
15 10 0.17
16 3 0.05
ACGTcount: A:0.33, C:0.45, G:0.01, T:0.21
Consensus pattern (14 bp):
CCCCTAACCCTTAA
Found at i:40389904 original size:7 final size:7
Alignment explanation
Indices: 40389892--40389962 Score: 52
Period size: 7 Copynumber: 9.9 Consensus size: 7
40389882 CCCCAACCCT
40389892 TAAACCA
1 TAAACCA
40389899 TAAACCA
1 TAAACCA
* *
40389906 TAATCCC
1 TAAACCA
40389913 TAAACCCA
1 TAAA-CCA
*
40389921 TAATCCA
1 TAAACCA
*
40389928 TAAACCT
1 TAAACCA
**
40389935 TAAAATA
1 TAAACCA
*
40389942 TTAACTCA
1 TAAAC-CA
*
40389950 TAAACTA
1 TAAACCA
40389957 TAAACC
1 TAAACC
40389963 CCTAACCCCT
Statistics
Matches: 46, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
7 36 0.78
8 10 0.22
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCA
Found at i:40389921 original size:15 final size:15
Alignment explanation
Indices: 40389886--40389933 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
40389876 CTTAAGCCCC
* *
40389886 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
40389901 AA-CCATAATCCCTA
1 AACCCATAATCCATA
40389915 AACCCATAATCCATA
1 AACCCATAATCCATA
40389930 AACC
1 AACC
40389934 TTAAAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:40389938 original size:22 final size:21
Alignment explanation
Indices: 40389864--40389938 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
40389854 CCCTAACCCT
* * *
40389864 TAAACCTTAAACCTTAAGCCC
1 TAAACCTTAAACCATAAACCA
* *
40389885 CAACCCTTAAACCATAAACCA
1 TAAACCTTAAACCATAAACCA
* * *
40389906 TAATCCCTAAACCCATAATCCA
1 TAAACCTTAAA-CCATAAACCA
40389928 TAAACCTTAAA
1 TAAACCTTAAA
40389939 ATATTAACTC
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 24 0.57
22 18 0.43
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.21
Consensus pattern (21 bp):
TAAACCTTAAACCATAAACCA
Found at i:40389969 original size:7 final size:7
Alignment explanation
Indices: 40389959--40390039 Score: 74
Period size: 7 Copynumber: 11.3 Consensus size: 7
40389949 ATAAACTATA
40389959 AACCCCT
1 AACCCCT
40389966 AACCCCT
1 AACCCCT
*
40389973 ATCCCCTT
1 AACCCC-T
*
40389981 AACCCTT
1 AACCCCT
40389988 AACCCCT
1 AACCCCT
*
40389995 ATCCCCTT
1 AACCCC-T
*
40390003 AACCCTT
1 AACCCCT
40390010 AACCCCT
1 AACCCCT
40390017 -ACCCACT
1 AACCC-CT
*
40390024 AACCACT
1 AACCCCT
*
40390031 AACCTCT
1 AACCCCT
40390038 AA
1 AA
40390040 ATCTTAAACC
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
6 4 0.07
7 43 0.72
8 13 0.22
ACGTcount: A:0.28, C:0.49, G:0.00, T:0.22
Consensus pattern (7 bp):
AACCCCT
Found at i:40389984 original size:22 final size:22
Alignment explanation
Indices: 40389959--40390034 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
40389949 ATAAACTATA
40389959 AACCCCTAACCCCTATCCCCTT
1 AACCCCTAACCCCTATCCCCTT
*
40389981 AACCCTTAACCCCTATCCCCTT
1 AACCCCTAACCCCTATCCCCTT
*
40390003 AACCCTTAACCCCTA-CCCAC-T
1 AACCCCTAACCCCTATCCC-CTT
*
40390024 AACCACTAACC
1 AACCCCTAACC
40390035 TCTAAATCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
21 13 0.26
22 37 0.74
ACGTcount: A:0.28, C:0.51, G:0.00, T:0.21
Consensus pattern (22 bp):
AACCCCTAACCCCTATCCCCTT
Found at i:40390015 original size:15 final size:15
Alignment explanation
Indices: 40389976--40390016 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
40389966 AACCCCTATC
40389976 CCCTTAA-CCCTTAA
1 CCCTTAACCCCTTAA
* *
40389990 CCCCTATCCCCTTAA
1 CCCTTAACCCCTTAA
40390005 CCCTTAACCCCT
1 CCCTTAACCCCT
40390017 ACCCACTAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.22, C:0.51, G:0.00, T:0.27
Consensus pattern (15 bp):
CCCTTAACCCCTTAA
Found at i:40390053 original size:14 final size:15
Alignment explanation
Indices: 40390031--40390090 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 15
40390021 ACTAACCACT
* *
40390031 AACCTCTAAATCTTA
1 AACCACTAAACCTTA
*
40390046 AACC-CTAACCCTTA
1 AACCACTAAACCTTA
*
40390060 AA-CACTAAA-CTCA
1 AACCACTAAACCTTA
40390073 TAACCACTAAACCTTA
1 -AACCACTAAACCTTA
40390089 AA
1 AA
40390091 ATATTAACTC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
13 4 0.11
14 16 0.44
15 13 0.36
16 3 0.08
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (15 bp):
AACCACTAAACCTTA
Found at i:40390088 original size:29 final size:30
Alignment explanation
Indices: 40390044--40390120 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
40390034 CTCTAAATCT
*
40390044 TAAACC-CTAACCCTTAAACACTA-AACTCA
1 TAAACCACTAAACCTTAAACA-TATAACTCA
40390073 T-AACCACTAAACCTTAAA-ATATTAACTCA
1 TAAACCACTAAACCTTAAACATA-TAACTCA
*
40390102 TAAACCA-TAAACCCTAAAC
1 TAAACCACTAAACCTTAAAC
40390121 CATAATGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
27 2 0.05
28 5 0.12
29 29 0.71
30 5 0.12
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (30 bp):
TAAACCACTAAACCTTAAACATATAACTCA
Found at i:40390090 original size:22 final size:20
Alignment explanation
Indices: 40390024--40390090 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 20
40390014 CCTACCCACT
*
40390024 AACCACTAACCTCTAAATCTTA
1 AACCA-TAACC-CTAAACCTTA
*
40390046 AACCCTAACCCTTAAACAC-TA
1 AACCATAACCC-TAAAC-CTTA
40390067 AACTCATAACCACTAAACCTTA
1 AAC-CATAACC-CTAAACCTTA
40390089 AA
1 AA
40390091 ATATTAACTC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
20 1 0.03
21 15 0.41
22 20 0.54
23 1 0.03
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (20 bp):
AACCATAACCCTAAACCTTA
Found at i:40390305 original size:16 final size:16
Alignment explanation
Indices: 40390284--40390314 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40390274 TTTAACATAT
*
40390284 ATTTTTATATTTTTTA
1 ATTTTTAAATTTTTTA
40390300 ATTTTTAAATTTTTT
1 ATTTTTAAATTTTTT
40390315 CTACGTGTCA
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTAAATTTTTTA
Found at i:40390490 original size:39 final size:38
Alignment explanation
Indices: 40390429--40390574 Score: 161
Period size: 39 Copynumber: 3.7 Consensus size: 38
40390419 TGTTTTTTAT
*
40390429 GGCTTTTTAAAAAAAACGCCGCTAATGCTCGATCTATAGCG
1 GGCTTTTT--AAAAAGCGCCGCTAATGCTCGATCTATAG-G
40390470 GCGCTTTTTAAAAA-CGCCGCTAATGCTCGATCTATAGTG
1 G-GCTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAG-G
* * * *
40390509 GAG-TTTTTAAAAAGTGCTGCTAATTCTCGATCTGTAGG
1 G-GCTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGG
40390547 GGCATTTTTAAAAAAGCGCCGCTAATGC
1 GGC-TTTTT-AAAAAGCGCCGCTAATGC
40390575 CACTAAGGCT
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
37 1 0.01
38 12 0.13
39 50 0.55
40 20 0.22
41 1 0.01
42 7 0.08
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (38 bp):
GGCTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGG
Found at i:40390699 original size:40 final size:40
Alignment explanation
Indices: 40390638--40390733 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
40390628 TTCCAAAAAT
* *
40390638 GCCGTTAATGCTAGA-CATATAGCGGCGCTTTGGTAAAAGC
1 GCCGCTAATGCTAGATCATATAGCGGCACTTTGG-AAAAGC
* *
40390678 GCCGCTAATGCTCGATC-TATAGCGGCATTTTGGAAAAGC
1 GCCGCTAATGCTAGATCATATAGCGGCACTTTGGAAAAGC
* *
40390717 GCCACTAATGCTTGATC
1 GCCGCTAATGCTAGATC
40390734 CATAACGGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
39 21 0.43
40 27 0.55
41 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCGCTAATGCTAGATCATATAGCGGCACTTTGGAAAAGC
Found at i:40390726 original size:39 final size:40
Alignment explanation
Indices: 40390655--40390747 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 40
40390645 ATGCTAGACA
** *
40390655 TATAGCGGCGCTTTGGTAAAAGCGCCGCTAATGCTCGATC
1 TATAGCGGCATTTTGGTAAAAGCGCCACTAATGCTCGATC
*
40390695 TATAGCGGCATTTTGG-AAAAGCGCCACTAATGCTTGATC
1 TATAGCGGCATTTTGGTAAAAGCGCCACTAATGCTCGATC
* * *
40390734 CATAACGGTATTTT
1 TATAGCGGCATTTT
40390748 TTATTCAAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.70
40 14 0.30
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (40 bp):
TATAGCGGCATTTTGGTAAAAGCGCCACTAATGCTCGATC
Found at i:40392024 original size:3 final size:3
Alignment explanation
Indices: 40392003--40392047 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
40391993 GATGATAATG
* *
40392003 TAA TAA AAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
40392048 CAACAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:40392148 original size:11 final size:10
Alignment explanation
Indices: 40392132--40392194 Score: 58
Period size: 11 Copynumber: 6.1 Consensus size: 10
40392122 TAATGAGGAC
40392132 AAAAATAAAAT
1 AAAAAT-AAAT
40392143 AAAAATAAAT
1 AAAAATAAAT
40392153 -AAAAT-AAT
1 AAAAATAAAT
**
40392161 AAAAAGGAAT
1 AAAAATAAAT
40392171 AATAAATGAAAT
1 AA-AAAT-AAAT
40392183 AACAAATAAAT
1 AA-AAATAAAT
40392194 A
1 A
40392195 TCAGTAAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 3 0.07
9 9 0.20
10 9 0.20
11 14 0.32
12 9 0.20
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:40392277 original size:3 final size:3
Alignment explanation
Indices: 40392269--40392323 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
40392259 TAAAATGGTT
*
40392269 TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
40392317 TGA TAA T
1 TAA TAA T
40392324 TGAAGTTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:40394781 original size:20 final size:20
Alignment explanation
Indices: 40394753--40394793 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
40394743 GCACCATGTC
40394753 ATTGATGACATGGCAAGTTG
1 ATTGATGACATGGCAAGTTG
* *
40394773 ATTGGTGACATGGCATGTTG
1 ATTGATGACATGGCAAGTTG
40394793 A
1 A
40394794 CCATGCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.10, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGATGACATGGCAAGTTG
Found at i:40397581 original size:27 final size:27
Alignment explanation
Indices: 40397532--40397690 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
40397522 GCGAGGCTGC
* *
40397532 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
40397559 CAGATATTGTGGCAGAGCTACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
40397585 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
40397612 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
40397639 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
40397666 CAAATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
40397691 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:40397622 original size:54 final size:54
Alignment explanation
Indices: 40397550--40397690 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
40397540 GTGACGAAGT
* *
40397550 CACCAGATACAGAT-ATTGTGGCAGAGCTACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
40397604 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
40397658 CACCAAATCAAATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
40397691 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:40399318 original size:26 final size:26
Alignment explanation
Indices: 40399288--40399343 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
40399278 TGAAATGCCC
*
40399288 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
40399314 ATCATGAAATATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
40399340 ATCA
1 ATCA
40399344 ATTTTATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:40400124 original size:19 final size:17
Alignment explanation
Indices: 40400092--40400126 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
40400082 TTAGTGTGAG
40400092 GGTTTTTTAGGGTTTAT
1 GGTTTTTTAGGGTTTAT
40400109 GGTTTTTGTAAGGGTTTA
1 GGTTTTT-T-AGGGTTTA
40400127 GTTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.14, C:0.00, G:0.31, T:0.54
Consensus pattern (17 bp):
GGTTTTTTAGGGTTTAT
Found at i:40400188 original size:16 final size:17
Alignment explanation
Indices: 40400149--40400189 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
40400139 AGGGTGTAAG
40400149 ATTAATTAATTAAATTAA
1 ATTAATTAATTAAA-TAA
40400167 A-T-ATTAATTAAA-AA
1 ATTAATTAATTAAATAA
40400181 ATTAATTAA
1 ATTAATTAA
40400190 ATTTGGGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.14
15 1 0.05
16 15 0.71
17 1 0.05
18 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAATTAATTAAATAA
Found at i:40400472 original size:126 final size:126
Alignment explanation
Indices: 40400292--40400680 Score: 498
Period size: 126 Copynumber: 3.1 Consensus size: 126
40400282 TTTTTGGTTT
* * * * * * * * *
40400292 TTTTTCTTCAGTAGTATCT-GGAAAAAAATTTTAAGAAGAAGTTTCTGAAGAAATAGTATCTAAA
1 TTTTTCTACAGTGGTATCTAAGAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
* *
40400356 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAATGCTCCCACGTGGATGCTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAA-GCTCCCACGTGGACGCTC
*
40400417 TTTTTCTACAGTGGTATCTAAGAAAATAATTTTGAGAAGACGTTTCTGGAA-AAATAGTGTAAAA
1 TTTTTCTACAGTGGTATCTAAGAAAATAATTTTGAGAAGACGTTTCT-GAACAAATAGTGTCAAA
* *
40400481 AACGCTTTAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
** * * * *
40400543 TTTTGATACAGTGGTATCTGAA-AAAATAATTGTGAGATGACCTTTTTGAACAAATAGTGTCAAA
1 TTTTTCTACAGTGGTATCT-AAGAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAA
* * * * *
40400607 AACGCTTCATGTAGTATGCACTTTCAGCAAAATTACTGAAAAAAGCTCACACGTGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
40400669 TTTTTCTACAGT
1 TTTTTCTACAGT
40400681 AGTTCCTATT
Statistics
Matches: 230, Mismatches: 29, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
125 20 0.09
126 199 0.87
127 11 0.05
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTGGTATCTAAGAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:40403744 original size:56 final size:56
Alignment explanation
Indices: 40403650--40403782 Score: 221
Period size: 56 Copynumber: 2.4 Consensus size: 56
40403640 TTCCTTATTC
* *
40403650 AAAACAAATTTTATTCTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
1 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
* * *
40403706 AAAATAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAGATATTA
1 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
40403762 AAAACAACTTTTATTTTATTA
1 AAAACAACTTTTATTTTATTA
40403783 AATGAAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (56 bp):
AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
Found at i:40404206 original size:18 final size:18
Alignment explanation
Indices: 40404180--40404221 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
40404170 GACTAGAAAA
* *
40404180 AGGAAATATATAAGGGTT
1 AGGATATATATAAGGGCT
40404198 AGGATATATATAAGGGCT
1 AGGATATATATAAGGGCT
40404216 AGGATA
1 AGGATA
40404222 CGCACCTGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.29, T:0.26
Consensus pattern (18 bp):
AGGATATATATAAGGGCT
Found at i:40404847 original size:7 final size:7
Alignment explanation
Indices: 40404837--40404873 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
40404827 TTGTATACAT
40404837 AATACTA
1 AATACTA
40404844 AATACTA
1 AATACTA
40404851 AATACTA
1 AATACTA
*
40404858 AATATTA
1 AATACTA
40404865 AATACTA
1 AATACTA
40404872 AA
1 AA
40404874 CACGAAACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (7 bp):
AATACTA
Found at i:40405897 original size:47 final size:48
Alignment explanation
Indices: 40405821--40405919 Score: 137
Period size: 47 Copynumber: 2.0 Consensus size: 48
40405811 ATAAAATTAA
**
40405821 AATTAAAATTGCATAAATGAAAAAAAAATATTAAATTGTATTGAAAAATT
1 AATTAAAATTGCATAAAT--AAAAAAAATATTAAATACTATTGAAAAATT
* *
40405871 AATTAAAATTGCATAAAT-TAAAAAATATTAAATACTATTGAAATATT
1 AATTAAAATTGCATAAATAAAAAAAATATTAAATACTATTGAAAAATT
40405918 AA
1 AA
40405920 AATTATCACT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
47 27 0.60
50 18 0.40
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (48 bp):
AATTAAAATTGCATAAATAAAAAAAATATTAAATACTATTGAAAAATT
Found at i:40406942 original size:60 final size:59
Alignment explanation
Indices: 40406857--40406996 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 59
40406847 TATTTTTTAA
* * *
40406857 ATTTAAAAACGTCACGAAAAGATGT-GAAAAACATCACAAAAAATATTTTAATTTGGTGAG
1 ATTTAAAAACATCACGAAAAAATGTAGAAAAACATCACAAAAAATATTTT-ATTTGGT-AC
* * * *
40406917 ATTTAAAAACATCACTAAAAAATGTGAAAGAAAAACATCACCAAAAATGTTTTGTTTGGTAC
1 ATTTAAAAACATCACGAAAAAATGT---AGAAAAACATCACAAAAAATATTTTATTTGGTAC
40406979 ATTTTAAAAACATCACGA
1 A-TTTAAAAACATCACGA
40406997 TATGTCTCTA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
60 22 0.33
62 2 0.03
63 21 0.31
64 22 0.33
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (59 bp):
ATTTAAAAACATCACGAAAAAATGTAGAAAAACATCACAAAAAATATTTTATTTGGTAC
Found at i:40407447 original size:20 final size:19
Alignment explanation
Indices: 40407408--40407447 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
40407398 AGAACTTTTA
**
40407408 ATATTTTTAAATAATTTTT
1 ATATTTTTAAATAAAATTT
40407427 ATATTTTTAAAATAAAATTT
1 ATATTTTT-AAATAAAATTT
40407447 A
1 A
40407448 AAGTTTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATTTTTAAATAAAATTT
Found at i:40407503 original size:18 final size:18
Alignment explanation
Indices: 40407464--40407503 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
40407454 CTAAATATTC
* * *
40407464 TTTTACTAATTTTTGTAT
1 TTTTAATAATTTTTGCAA
40407482 TTTTAATAATTTTTGCAA
1 TTTTAATAATTTTTGCAA
40407500 TTTT
1 TTTT
40407504 TATTTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTTAATAATTTTTGCAA
Found at i:40410160 original size:14 final size:17
Alignment explanation
Indices: 40410129--40410162 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
40410119 ATTTTATAAA
40410129 TATTAAATATTAATTAT
1 TATTAAATATTAATTAT
40410146 TATT-AATATTATATTAT
1 TATTAAATATTA-ATTAT
40410163 GAAATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTAAATATTAATTAT
Found at i:40413900 original size:25 final size:23
Alignment explanation
Indices: 40413859--40413912 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 23
40413849 CCTTTATCCC
* *
40413859 TTTTAAAATTATTTATAACTTATTTA
1 TTTT-AAATTATATAT-A-TTATATA
40413885 TTTTAAATTATATATATTATATA
1 TTTTAAATTATATATATTATATA
40413908 TTTTA
1 TTTTA
40413913 TAATATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 11 0.42
24 1 0.04
25 10 0.38
26 4 0.15
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTAAATTATATATATTATATA
Found at i:40413912 original size:49 final size:45
Alignment explanation
Indices: 40413859--40413948 Score: 101
Period size: 48 Copynumber: 1.9 Consensus size: 45
40413849 CCTTTATCCC
40413859 TTTTAAAATTATTTATAACTTATTTATTTTAAATTATA-TATATTATATA
1 TTTTAAAA-TATTTATAACTTA--TATTTT--ATTATATTATATTATATA
* * *
40413908 TTTTATAATATTTTTTACTTATATTTTATTATATTATATTA
1 TTTTAAAATATTTATAACTTATATTTTATTATATTATATTA
40413949 CTTCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
44 6 0.16
45 7 0.19
46 6 0.16
48 11 0.30
49 7 0.19
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (45 bp):
TTTTAAAATATTTATAACTTATATTTTATTATATTATATTATATA
Found at i:40413930 original size:23 final size:24
Alignment explanation
Indices: 40413883--40414021 Score: 103
Period size: 25 Copynumber: 5.8 Consensus size: 24
40413873 ATAACTTATT
40413883 TATTTTA-AATTATATATATTA--TA
1 TATTTTATAA-TAT-TATATTACTTA
*
40413906 TATTTTATAATATT-TTTTACTTA
1 TATTTTATAATATTATATTACTTA
*
40413929 TATTTTATTATATTATATTACTTCA
1 TATTTTATAATATTATATTACTT-A
* * * *
40413954 TATTTTCTATTATCATATTAATATA
1 TATTTTATAATATTATATTACT-TA
40413979 TATTTTA-ACATA-TATCATTACTTA
1 TATTTTATA-ATATTAT-ATTACTTA
*
40414003 T-TATTTATTATATTATATT
1 TAT-TTTATAATATTATATT
40414022 TTTTATCACA
Statistics
Matches: 92, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
21 4 0.04
22 1 0.01
23 26 0.28
24 25 0.27
25 35 0.38
26 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (24 bp):
TATTTTATAATATTATATTACTTA
Found at i:40414027 original size:24 final size:24
Alignment explanation
Indices: 40414000--40414064 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
40413990 ATATCATTAC
40414000 TTATTATTTATTATATTATAT-TTT
1 TTATTA-TTATTATATTATATATTT
* * *
40414024 TTATCA-CATAATATTTATATATTT
1 TTATTATTATTATA-TTATATATTT
40414048 TTA-TATTATTATATTAT
1 TTATTATTATTATATTAT
40414065 TTTACATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
22 5 0.16
23 11 0.34
24 16 0.50
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
TTATTATTATTATATTATATATTT
Found at i:40414115 original size:30 final size:31
Alignment explanation
Indices: 40414079--40414155 Score: 92
Period size: 30 Copynumber: 2.5 Consensus size: 31
40414069 CATTTTAACA
40414079 ATATATTATTTCATATTATTATTA-TC-CATT
1 ATATATT-TTTCATATTATTATTATTCACATT
40414109 ATATATTTTTCATGCA-TATTATTATTCACATT
1 ATATATTTTTCAT--ATTATTATTATTCACATT
40414141 AT-TA-TTTTCATATTA
1 ATATATTTTTCATATTA
40414156 AATTGATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
28 1 0.02
29 8 0.19
30 22 0.52
31 5 0.12
32 6 0.14
ACGTcount: A:0.32, C:0.10, G:0.01, T:0.56
Consensus pattern (31 bp):
ATATATTTTTCATATTATTATTATTCACATT
Found at i:40414744 original size:21 final size:21
Alignment explanation
Indices: 40414720--40414761 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
40414710 TTAAAATTTG
40414720 CCATGTTTTATTTCTTATATA
1 CCATGTTTTATTTCTTATATA
40414741 CCATGTTTTATTTCTTATATA
1 CCATGTTTTATTTCTTATATA
40414762 TATGTTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (21 bp):
CCATGTTTTATTTCTTATATA
Found at i:40426723 original size:206 final size:207
Alignment explanation
Indices: 40426185--40426731 Score: 907
Period size: 207 Copynumber: 2.6 Consensus size: 207
40426175 CTAAAGCAAA
*
40426185 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGTTT
*
40426250 TCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
66 TCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
* * * ** *
40426315 AAAGTTTGACGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTGGCCTTCAGATGTTTA
131 GAAGTTTGACATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTA
*
40426380 TACTGAAGTAAG
196 GACTGAAGTAAG
*
40426392 ATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGTTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGTTT
40426457 TCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
66 TCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
* * *
40426522 GAAGTTTGCCATCTCCATATTCTACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTA
131 GAAGTTTGACATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTA
*
40426587 GACTGAAG-CAG
196 GACTGAAGTAAG
* *
40426598 ATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGTTT
** * *
40426663 TTGCGTGCTAACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
66 TCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
40426728 GAAG
131 GAAG
40426732 AAGTAGATTT
Statistics
Matches: 319, Mismatches: 21, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
206 129 0.40
207 190 0.60
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (207 bp):
ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGTTT
TCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
GAAGTTTGACATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTA
GACTGAAGTAAG
Found at i:40430923 original size:44 final size:44
Alignment explanation
Indices: 40430862--40431347 Score: 255
Period size: 44 Copynumber: 11.2 Consensus size: 44
40430852 TAAATTCAGC
*
40430862 CTGTTACCCTACTGCTTAGAGGGTTAAGGCCCTTCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
* * * ** ** * *
40430906 CTGTTTCCCTGCTGCTTAGGGTGTTAA-GATC-T-GTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT-CTTTGA-T
*
40430949 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
* ** * ** *
40430993 CTGTTTCCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT--CTTTGAT
* * *
40431036 CTATTACCCTACTGCTTAGGGGGTTAAAGCCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
* * * ** ** * *
40431080 CTATTTCCCTACTGCTTAGGGGGCT-AGGATC-T-GTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT-CTTTGA-T
* * *
40431123 CTGTTACCCTACTGCTTAAGGGGTTAAGGCCTTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
* * * * ** ** * *
40431167 CTTTTTCCCTACTGCTTAGGAGGCTAA-GATC-T-GTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT-CTTTGA-T
*
40431210 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
* * * * ** ** * *
40431254 CTCTTTCCCTACTGTTTAGGGGGCTAA-GATC-T-GTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT-CTTTGA-T
* * **
40431297 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCGTTCGTCTTCAAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
40431341 CTGTTAC
1 CTGTTAC
40431348 ACCATTCTTT
Statistics
Matches: 315, Mismatches: 102, Indels: 50
0.67 0.22 0.11
Matches are distributed among these distances:
41 10 0.03
42 14 0.04
43 130 0.41
44 138 0.44
45 13 0.04
46 10 0.03
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.35
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
Found at i:40431380 original size:87 final size:87
Alignment explanation
Indices: 40430820--40431345 Score: 845
Period size: 87 Copynumber: 6.0 Consensus size: 87
40430810 ATTTCTAGCA
* * * *
40430820 TGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGAGGG
1 TGTTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
*
40430885 TTAAGGCCCTTCGTCTTTGATC
66 TTAAGGCCCTTCGTCTTCGATC
* * *
40430907 TGTTTCCCTGCTGCTTAGGGTGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
40430972 TTAAGGCCCTTCGTCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
* * *
40430994 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTATTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
*
40431059 TTAAAGCCCTTCGTCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
* * *
40431081 TATTTCCCTACTGCTTAGGGGGCTAGGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGG
1 TGTTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
*
40431146 TTAAGGCCTTTCGTCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
* *
40431168 TTTTTCCCTACTGCTTAGGAGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
40431233 TTAAGGCCCTTCGTCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
* *
40431255 TCTTTCCCTACTGTTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
* * *
40431320 TTAAGGTCGTTCGTCTTCAATC
66 TTAAGGCCCTTCGTCTTCGATC
40431342 TGTT
1 TGTT
40431346 ACACCATTCT
Statistics
Matches: 408, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 408 1.00
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (87 bp):
TGTTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
TTAAGGCCCTTCGTCTTCGATC
Found at i:40445995 original size:10 final size:10
Alignment explanation
Indices: 40445960--40446011 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
40445950 TTAAATTACA
*
40445960 TATATATTA-
1 TATATTTTAT
40445969 TATATTTTAT
1 TATATTTTAT
40445979 TAT-TATTTACT
1 TATAT-TTTA-T
40445990 TATATTTTAT
1 TATATTTTAT
*
40446000 TATATTATAT
1 TATATTTTAT
40446010 TA
1 TA
40446012 CTTCATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
9 9 0.24
10 19 0.51
11 8 0.22
12 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAT
Found at i:40446007 original size:8 final size:8
Alignment explanation
Indices: 40445959--40446128 Score: 87
Period size: 8 Copynumber: 22.0 Consensus size: 8
40445949 TTTAAATTAC
40445959 ATATATATT
1 ATAT-TATT
40445968 ATA-TATT
1 ATATTATT
*
40445975 TTATTATT
1 ATATTATT
40445983 AT-TTACTT
1 ATATTA-TT
40445991 ATATT-TT
1 ATATTATT
40445998 AT-TATATT
1 ATAT-TATT
40446006 ATATTACTT
1 ATATTA-TT
*
40446015 CATATTTTT
1 -ATATTATT
* *
40446024 CTATTATC
1 ATATTATT
*
40446032 ATATTAAT
1 ATATTATT
40446040 ATATT-TT
1 ATATTATT
**
40446047 -TAACA-T
1 ATATTATT
*
40446053 ATATCATT
1 ATATTATT
40446061 AT-TTATT
1 ATATTATT
40446068 AT-TTATT
1 ATATTATT
40446075 ATATTA-T
1 ATATTATT
*
40446082 AT-TTTTT
1 ATATTATT
* *
40446089 ATCA-CATA
1 AT-ATTATT
40446097 ATATT-TAT
1 ATATTAT-T
40446105 ATATTATT
1 ATATTATT
40446113 ATATTATT
1 ATATTATT
40446121 ATATTATT
1 ATATTATT
40446129 TTACATTTTA
Statistics
Matches: 123, Mismatches: 20, Indels: 37
0.68 0.11 0.21
Matches are distributed among these distances:
6 6 0.05
7 40 0.33
8 61 0.50
9 11 0.09
10 5 0.04
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (8 bp):
ATATTATT
Found at i:40446110 original size:81 final size:86
Alignment explanation
Indices: 40445978--40446134 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 86
40445968 ATATATTTTA
* * * * * *
40445978 TTATTATTTACTTATATTTTATTATATTATATTACTTCATATTTTTCTATTATCATATTAATATA
1 TTATTATTTACTTATATTATATTATATTATATCACATAATATTTATATATTATCATATTAATATA
40446043 TT-TTTAACATATATCATTAT
66 TTATTTAACATATATCATTAT
* *
40446063 TTATTATTTA-TTATATTATATT-T-TT-TATCACATAATATTTATATATTATTATATTATTATA
1 TTATTATTTACTTATATTATATTATATTATATCACATAATATTTATATATTATCATATTAATATA
*
40446124 TTATTTTACAT
66 TTATTTAACAT
40446135 TTTAACAATA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
81 31 0.50
82 9 0.15
83 1 0.02
84 11 0.18
85 10 0.16
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (86 bp):
TTATTATTTACTTATATTATATTATATTATATCACATAATATTTATATATTATCATATTAATATA
TTATTTAACATATATCATTAT
Found at i:40446158 original size:49 final size:47
Alignment explanation
Indices: 40446005--40446180 Score: 127
Period size: 49 Copynumber: 3.8 Consensus size: 47
40445995 TTTATTATAT
* * * * * *
40446005 TATATTACTTCATATTTTTCTATTATCATATTAATATATTTTTAAC-A
1 TATATTATTTCATATTATTATATTATTATATTATTTTA-TTTTAACAA
* * *
40446052 TATATCA-TT-AT-TTATTAT-TTATTATATTATATT-TTTTATCACA
1 TATATTATTTCATATTATTATATTATTATATTATTTTATTTTAACA-A
*
40446095 TA-A-TATTTATATATTATTATATTATTATATTATTTTACATTTTAACAA
1 TATATTATTT-CATATTATTATATTATTATATTATTTT--ATTTTAACAA
*
40446143 TATATTATTTCATATTATTATTATCCATTATA-TATTTT
1 TATATTATTTCATATTATTA-TAT-TATTATATTATTTT
40446181 TCATGTATAT
Statistics
Matches: 102, Mismatches: 13, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
41 7 0.07
42 3 0.03
43 14 0.14
44 7 0.07
45 9 0.09
46 16 0.16
47 6 0.06
48 3 0.03
49 17 0.17
50 14 0.14
51 6 0.06
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (47 bp):
TATATTATTTCATATTATTATATTATTATATTATTTTATTTTAACAA
Found at i:40446178 original size:30 final size:31
Alignment explanation
Indices: 40446142--40446218 Score: 99
Period size: 30 Copynumber: 2.5 Consensus size: 31
40446132 CATTTTAACA
40446142 ATATATTATTTCATATTATTATTA-TC-CATT
1 ATATATT-TTTCATATTATTATTATTCACATT
*
40446172 ATATATTTTTCATGTATATTATTATTCACATT
1 ATATATTTTTCATAT-TATTATTATTCACATT
40446204 AT-TA-TTTTCATATTA
1 ATATATTTTTCATATTA
40446219 AATTGATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 9 0.21
30 23 0.55
31 4 0.10
32 6 0.14
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.57
Consensus pattern (31 bp):
ATATATTTTTCATATTATTATTATTCACATT
Found at i:40452903 original size:101 final size:102
Alignment explanation
Indices: 40452741--40452954 Score: 349
Period size: 101 Copynumber: 2.1 Consensus size: 102
40452731 ACTTCTGATC
* * *
40452741 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
40452806 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
** *
40452843 AGTGATAAATGATAAGTGGTAGTGT-AGCTACACTTATCTGATCAGTGACAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
* *
40452907 AGTGGTAGCTTTAGCTACACTTATCTGATCATTGATA
66 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
40452944 AGTGATAAATG
1 AGTGATAAATG
40452955 TGATCAGTGT
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 83 0.80
102 21 0.20
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (102 bp):
AGTGATAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:40452949 original size:51 final size:51
Alignment explanation
Indices: 40452736--40452951 Score: 335
Period size: 51 Copynumber: 4.3 Consensus size: 51
40452726 TGAGTACTTC
* * * *
40452736 TGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
*
40452787 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
* * *
40452838 TGACAAGTGATAAATGATAAGTGGTAG-TGTAGCTACACTTATCTGATCAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
* *
40452888 TGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAT
1 TGATAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
40452939 TGATAAGTGATAA
1 TGATAAGTGATAA
40452952 ATGTGATCAG
Statistics
Matches: 153, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 48 0.31
51 105 0.69
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (51 bp):
TGATAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
Found at i:40460481 original size:40 final size:40
Alignment explanation
Indices: 40460399--40460481 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
40460389 TTCATGCACA
* * ** * *
40460399 CAAGAATTCATGCACATAATTTGTCCGGGTAAAGTACGTG
1 CAAGAATCCATGCACATAATTTGCCCGACTAAAATACATG
40460439 CAAGAATCCATGCACATAAGTTT-CCCGACTAAAATACATG
1 CAAGAATCCATGCACATAA-TTTGCCCGACTAAAATACATG
40460479 CAA
1 CAA
40460482 CAGGAGATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
40 33 0.92
41 3 0.08
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (40 bp):
CAAGAATCCATGCACATAATTTGCCCGACTAAAATACATG
Found at i:40462544 original size:12 final size:13
Alignment explanation
Indices: 40462514--40462562 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
40462504 ATAAAAAATG
40462514 ATATTTAATAATA
1 ATATTTAATAATA
40462527 AT-TTTAA-AATA
1 ATATTTAATAATA
*
40462538 GTATTTAATATATA
1 ATATTTAATA-ATA
*
40462552 ATATATAATAA
1 ATATTTAATAA
40462563 AAAAATTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 5 0.17
12 10 0.33
13 4 0.13
14 11 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:40462878 original size:20 final size:19
Alignment explanation
Indices: 40462842--40463001 Score: 94
Period size: 21 Copynumber: 7.8 Consensus size: 19
40462832 AACTTTTGAT
40462842 AATA-ATAATATAGATAAAAA
1 AATATATAATAT--ATAAAAA
40462862 AATATATAATAGTATAAAAA
1 AATATATAATA-TATAAAAA
* *
40462882 AATGACATAATAATATAAAAT
1 AAT-ATATAAT-ATATAAAAA
40462903 AA-ATATAATATATAATATGAA
1 AATATATAATATATAA-A--AA
* *
40462924 AATATAT-ATGTA-AAAAT
1 AATATATAATATATAAAAA
* *
40462941 AATATATTATATATATAAAT
1 AATATATAATATATA-AAAA
40462961 AATATGAATAATAAATAATAAAATA
1 AATAT--ATAAT--AT-ATAAAA-A
*
40462986 ATTATATAATATATAA
1 AATATATAATATATAA
40463002 TATAAGAATA
Statistics
Matches: 113, Mismatches: 10, Indels: 34
0.72 0.06 0.22
Matches are distributed among these distances:
17 8 0.07
18 10 0.09
19 9 0.08
20 29 0.26
21 30 0.27
22 10 0.09
23 5 0.04
24 5 0.04
25 7 0.06
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (19 bp):
AATATATAATATATAAAAA
Found at i:40462894 original size:24 final size:20
Alignment explanation
Indices: 40462846--40462985 Score: 66
Period size: 20 Copynumber: 7.0 Consensus size: 20
40462836 TTTGATAATA
40462846 ATAAT-ATAGATAAAAAAAT
1 ATAATAATAGATAAAAAAAT
40462865 AT-ATAATAGTATAAAAAAAT
1 ATAATAATAG-ATAAAAAAAT
40462885 GACATAATAAT--ATAAAATAAAT
1 ---ATAATAATAGATAAAA-AAAT
**
40462907 ATAATATATA-ATATGAAAAT
1 ATAATA-ATAGATAAAAAAAT
40462927 AT-AT-AT-G-TAAAAATAAT
1 ATAATAATAGATAAAAA-AAT
* * *
40462944 AT-ATTATATATATAAATAAT
1 ATAATAATAGATA-AAAAAAT
* *
40462964 ATGAATAATAAATAATAAAAT
1 AT-AATAATAGATAAAAAAAT
40462985 A
1 A
40462986 ATTATATAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 32
0.69 0.07 0.24
Matches are distributed among these distances:
16 4 0.04
17 9 0.10
18 4 0.04
19 14 0.15
20 25 0.27
21 19 0.20
22 12 0.13
23 2 0.02
24 5 0.05
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (20 bp):
ATAATAATAGATAAAAAAAT
Found at i:40462941 original size:22 final size:23
Alignment explanation
Indices: 40462890--40463006 Score: 82
Period size: 24 Copynumber: 5.0 Consensus size: 23
40462880 AAAATGACAT
*
40462890 AATAATAT-AAAATAAATATAATA
1 AATAATATGAAAATATATAT-ATA
* *
40462913 TATAATATGAAAATATATATGTA
1 AATAATATGAAAATATATATATA
* *
40462936 AA-AATAAT-ATATTATATATATA
1 AATAAT-ATGAAAATATATATATA
*
40462958 AATAATATGAATAATAAATA-ATAA
1 AATAATATGAA-AATATATATAT-A
*
40462982 AATAATTAT-ATAATATATAATATA
1 AATAA-TATGAAAATATAT-ATATA
40463006 A
1 A
40463007 GAATAAGATT
Statistics
Matches: 73, Mismatches: 12, Indels: 17
0.72 0.12 0.17
Matches are distributed among these distances:
22 18 0.25
23 24 0.33
24 26 0.36
25 5 0.07
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (23 bp):
AATAATATGAAAATATATATATA
Found at i:40462945 original size:37 final size:32
Alignment explanation
Indices: 40462890--40462980 Score: 89
Period size: 37 Copynumber: 2.8 Consensus size: 32
40462880 AAAATGACAT
40462890 AATAATAT--AAAATAAATATAATATATAATATGAA
1 AATAATATGAAAAAT-AATATAATATAT-ATAT--A
*
40462924 AATATATATGTAAAAATAATATATTATATATATA
1 AATA-ATATG-AAAAATAATATAATATATATATA
*
40462958 AATAATATGAATAATAA-ATAATA
1 AATAATATGAAAAATAATATAATA
40462981 AAATAATTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
31 5 0.10
32 7 0.14
33 5 0.10
34 9 0.18
35 4 0.08
36 4 0.08
37 11 0.22
38 5 0.10
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (32 bp):
AATAATATGAAAAATAATATAATATATATATA
Found at i:40472134 original size:20 final size:19
Alignment explanation
Indices: 40472073--40472134 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
40472063 TTATGCCACA
40472073 TCAGTATTTTTATCTTGAATT
1 TCAGTA-TTTTAT-TTGAATT
*
40472094 TCAATATTTTATTCTGAATT
1 TCAGTATTTTATT-TGAATT
* *
40472114 TTAGTATTTTAATTTGGATT
1 TCAGTATTTT-ATTTGAATT
40472134 T
1 T
40472135 GATTTTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.03
20 26 0.74
21 8 0.23
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (19 bp):
TCAGTATTTTATTTGAATT
Found at i:40475397 original size:26 final size:24
Alignment explanation
Indices: 40475368--40475416 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
40475358 AAAATCTGAT
40475368 ATTTTATAATATTTTACATTTTATAC
1 ATTTT-TAATATTTT-CATTTTATAC
* *
40475394 ATTTTTTATATTTTTATTTTATA
1 ATTTTTAATATTTTCATTTTATA
40475417 TAAATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 8 0.38
26 5 0.24
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
ATTTTTAATATTTTCATTTTATAC
Found at i:40475406 original size:18 final size:17
Alignment explanation
Indices: 40475366--40475407 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
40475356 ATAAAATCTG
40475366 ATATTTTATAATATTTT
1 ATATTTTATAATATTTT
* *
40475383 ACATTTTATACATTTTTT
1 ATATTTTATA-ATATTTT
40475401 ATATTTT
1 ATATTTT
40475408 TATTTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATTTTATAATATTTT
Found at i:40483776 original size:43 final size:45
Alignment explanation
Indices: 40483679--40483831 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 45
40483669 ATCGATATGT
* * *
40483679 GATTATATGTAAGACCATGTTTGGGACATTGGCAT--TGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCATGTAATGA
*
40483722 GATTACATGTAAGACCATGTCTGGGACATTGGCATCAT-TAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCATGTAATGA
* * * * * *
40483765 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCA-AT-ATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCATGTAATGA
* *
40483808 GATAACATGTAAGACCATATCTGG
1 GATTACATGTAAGACCATGTCTGG
40483832 AATATGACAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.02
43 86 0.93
44 3 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (45 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCATGTAATGA
Found at i:40488110 original size:42 final size:42
Alignment explanation
Indices: 40488051--40488172 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
40488041 TTAGGGTTAT
* *
40488051 TGAGACTTCGTGTAAGACCATATTTGGGATATGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
* * * *
40488093 TGAGACTTCGTATAAGACCATAGCTGGGCTATTGGCATCAATG
1 TGAGACTTCGTGTAAGACCATATCTGGGATA-TGGCATCAATA
* *
40488136 TGAGA-TCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGAGACT-TCGTGTAAGACCATATCTGGGATATGGCAT
40488173 TGGTATGGTA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 34 0.51
43 33 0.49
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:40488973 original size:47 final size:46
Alignment explanation
Indices: 40488915--40489007 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 46
40488905 ATGTGAACGG
*
40488915 AAGGGTGACAAAATGGCTTGGTAAATAGCCTTATTTTATGTGCATAT
1 AAGGGTGACAAAATGGCTTGGTAAATAGCCTTATTTT-TGTCCATAT
*
40488962 AAGGGTGACAAAATGGCTTGGTAAATAGCCTTGTTTTTGTCCATAT
1 AAGGGTGACAAAATGGCTTGGTAAATAGCCTTATTTTTGTCCATAT
40489008 GGGTAGACAC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 8 0.18
47 36 0.82
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (46 bp):
AAGGGTGACAAAATGGCTTGGTAAATAGCCTTATTTTTGTCCATAT
Found at i:40515976 original size:18 final size:20
Alignment explanation
Indices: 40515934--40515985 Score: 74
Period size: 18 Copynumber: 2.7 Consensus size: 20
40515924 GTTTCACATC
40515934 TCATTTCATCAT-TTCATATT
1 TCATTTC-TCATCTTCATATT
40515954 TCATTTCTCATCTT-ATA-T
1 TCATTTCTCATCTTCATATT
40515972 TCATTTCTCATCTT
1 TCATTTCTCATCTT
40515986 TGCCATTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.48
19 7 0.23
20 9 0.29
ACGTcount: A:0.21, C:0.23, G:0.00, T:0.56
Consensus pattern (20 bp):
TCATTTCTCATCTTCATATT
Found at i:40516239 original size:37 final size:37
Alignment explanation
Indices: 40516181--40516282 Score: 150
Period size: 37 Copynumber: 2.7 Consensus size: 37
40516171 AGCGCTATAT
* *
40516181 AAATTGACACCTAGTGTCTCATCAATTAAACGGAAGC
1 AAATTGACACCCAGTGCCTCATCAATTAAACGGAAGC
** *
40516218 AAATTGACACCCAGTGCCTCATCGGTTAAACTGAAGC
1 AAATTGACACCCAGTGCCTCATCAATTAAACGGAAGC
40516255 AAATTGACACCCAGTGCCTCATCGAATT
1 AAATTGACACCCAGTGCCTCATC-AATT
40516283 CACGTTGAAG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
37 55 0.96
38 2 0.04
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATTGACACCCAGTGCCTCATCAATTAAACGGAAGC
Found at i:40518837 original size:29 final size:29
Alignment explanation
Indices: 40518795--40518853 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
40518785 GTGAGTAAAG
40518795 ATATCGTATCCACGAGGACTAAAATTACT
1 ATATCGTATCCACGAGGACTAAAATTACT
*
40518824 ATATTGTATCCACGAGGACTAAAATTACT
1 ATATCGTATCCACGAGGACTAAAATTACT
40518853 A
1 A
40518854 GTAATTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.29
Consensus pattern (29 bp):
ATATCGTATCCACGAGGACTAAAATTACT
Found at i:40519132 original size:207 final size:207
Alignment explanation
Indices: 40518777--40519193 Score: 798
Period size: 207 Copynumber: 2.0 Consensus size: 207
40518767 ATAAATAGTA
*
40518777 TAGCTACTGTGAGTAAAGATATCGTATCCACGAGGACTAAAATTACTATATTGTATCCACGAGGA
1 TAGCTACTGTGAGTAAAGATATCGTATCCACGAGGACTAAAATTACTATATTGTATCAACGAGGA
40518842 CTAAAATTACTAGTAATTACCATTTTCCTATTATTGAACCGACAAATTGGAGTGATTGATTTAAG
66 CTAAAATTACTAGTAATTACCATTTTCCTATTATTGAACCGACAAATTGGAGTGATTGATTTAAG
*
40518907 CTAAATATACTAAATTAATTAATTAAAGAACTCAGCAGAGAATAAATCAGGAAAATAATTGAATA
131 CTAAATATACTAAATTAATTAACTAAAGAACTCAGCAGAGAATAAATCAGGAAAATAATTGAATA
40518972 ATAACCAAGAAG
196 ATAACCAAGAAG
*
40518984 TAGCTACTGTGAGTAAAGATATCGTATCCACGAGGACTAAAATTACTATATTTTATCAACGAGGA
1 TAGCTACTGTGAGTAAAGATATCGTATCCACGAGGACTAAAATTACTATATTGTATCAACGAGGA
*
40519049 CTAAAATTACTAGTAATTACCATTTTCCTATTATTTAACCGACAAATTGGAGTGATTGATTTAAG
66 CTAAAATTACTAGTAATTACCATTTTCCTATTATTGAACCGACAAATTGGAGTGATTGATTTAAG
40519114 CTAAATATACTAAATTAATTAACTAAAGAACTCAGCAGAGAATAAATCAGGAAAATAATTGAATA
131 CTAAATATACTAAATTAATTAACTAAAGAACTCAGCAGAGAATAAATCAGGAAAATAATTGAATA
40519179 ATAACCAAGAAG
196 ATAACCAAGAAG
40519191 TAG
1 TAG
40519194 AATGATACTC
Statistics
Matches: 206, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
207 206 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (207 bp):
TAGCTACTGTGAGTAAAGATATCGTATCCACGAGGACTAAAATTACTATATTGTATCAACGAGGA
CTAAAATTACTAGTAATTACCATTTTCCTATTATTGAACCGACAAATTGGAGTGATTGATTTAAG
CTAAATATACTAAATTAATTAACTAAAGAACTCAGCAGAGAATAAATCAGGAAAATAATTGAATA
ATAACCAAGAAG
Found at i:40521573 original size:40 final size:40
Alignment explanation
Indices: 40521524--40521742 Score: 212
Period size: 40 Copynumber: 5.5 Consensus size: 40
40521514 ATCGTTAGAT
* * * *
40521524 CAACT-AAACAGACCAAATAGAAGCTCGTAAGAGCTAATA
1 CAACTGAAACACACCAAATAGAAGCTCATAAGAGCTGATC
* * *
40521563 CAACTGAAACACACGAAA-AAAAGCCTCATAAGAGTTGATC
1 CAACTGAAACACACCAAATAGAAG-CTCATAAGAGCTGATC
* * * * *
40521603 CAACCGAAACACCCCAAACAGAAACTCATAAGGGCTGATC
1 CAACTGAAACACACCAAATAGAAGCTCATAAGAGCTGATC
* * * *
40521643 CAAC-AACAACACACCAAACAAAAGCTCATGAGAGCTGATC
1 CAACTGA-AACACACCAAATAGAAGCTCATAAGAGCTGATC
*
40521683 CAA-TCGAAACACGCCAAATAGAAGCTCATAAGAGCTGATC
1 CAACT-GAAACACACCAAATAGAAGCTCATAAGAGCTGATC
* *
40521723 CAACCGAAACACGCCAAATA
1 CAACTGAAACACACCAAATA
40521743 AAGAGTATAA
Statistics
Matches: 147, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
39 10 0.07
40 133 0.90
41 4 0.03
ACGTcount: A:0.46, C:0.27, G:0.15, T:0.12
Consensus pattern (40 bp):
CAACTGAAACACACCAAATAGAAGCTCATAAGAGCTGATC
Found at i:40521734 original size:80 final size:80
Alignment explanation
Indices: 40521536--40521745 Score: 253
Period size: 80 Copynumber: 2.6 Consensus size: 80
40521526 ACTAAACAGA
* * * * * *
40521536 CCAAATAGAAGCTCGTAAGAGCTAATACAACTGAAACACACGAAAAAAAGCCTCATAAGAGTTGA
1 CCAAATAGAAGCTCATAAGAGCTGATCCAACCGAAACACACCAAAAAAAGCCTCATAAGAGCTGA
40521601 TCCAACCGAAACACC
66 TCCAACCGAAACACC
* * * * *
40521616 CCAAACAGAAACTCATAAGGGCTGATCCAA-CAACAACACACCAAACAAAAG-CTCATGAGAGCT
1 CCAAATAGAAGCTCATAAGAGCTGATCCAACCGA-AACACACCAAA-AAAAGCCTCATAAGAGCT
* *
40521679 GATCCAATCGAAACACG
64 GATCCAACCGAAACACC
* *
40521696 CCAAATAGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAATAAAG
1 CCAAATAGAAGCTCATAAGAGCTGATCCAACCGAAACACACCAAAAAAAG
40521746 AGTATAACAC
Statistics
Matches: 108, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 5 0.05
80 96 0.89
81 7 0.06
ACGTcount: A:0.46, C:0.27, G:0.15, T:0.12
Consensus pattern (80 bp):
CCAAATAGAAGCTCATAAGAGCTGATCCAACCGAAACACACCAAAAAAAGCCTCATAAGAGCTGA
TCCAACCGAAACACC
Found at i:40523563 original size:28 final size:27
Alignment explanation
Indices: 40523497--40523566 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
40523487 ATAGTGAGTC
*
40523497 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
*
40523524 CGCACACTTAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
40523552 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40523567 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:40526479 original size:23 final size:23
Alignment explanation
Indices: 40526397--40526483 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
40526387 CCTGATCAGT
*
40526397 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
40526419 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
40526439 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
40526462 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
40526484 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:40534337 original size:23 final size:23
Alignment explanation
Indices: 40534255--40534341 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
40534245 CCTGATCAGT
*
40534255 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
40534277 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
40534297 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
40534320 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
40534342 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:40538385 original size:43 final size:43
Alignment explanation
Indices: 40538320--40538447 Score: 159
Period size: 43 Copynumber: 3.0 Consensus size: 43
40538310 AAATTTATGG
* *
40538320 CGTTTATTAAAAAAACGTCGCTAAAAGTGCTGGCTTTTAGCGA
1 CGTTTATTAAAAAAGCGCCGCTAAAAGTGCTGGCTTTTAGCGA
* * * *
40538363 CGTTTGTTAAAAAAGCACCGCTAAAAGTGCTGCCTTTTAGCGG
1 CGTTTATTAAAAAAGCGCCGCTAAAAGTGCTGGCTTTTAGCGA
* **
40538406 TGTTTCCTAAAAAAGCGCCGCTAAAAGT-CATGGCTTTTAGCG
1 CGTTTATTAAAAAAGCGCCGCTAAAAGTGC-TGGCTTTTAGCG
40538448 GCACTTTCCC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 72 0.99
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (43 bp):
CGTTTATTAAAAAAGCGCCGCTAAAAGTGCTGGCTTTTAGCGA
Found at i:40538867 original size:21 final size:21
Alignment explanation
Indices: 40538843--40538890 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
40538833 CCATCGCTCG
*
40538843 TGCCTCTGCCT-CTCTCGCTGC
1 TGCCTCTACCTCCT-TCGCTGC
* *
40538864 TGCCACTACCTCCTTCTCTGC
1 TGCCTCTACCTCCTTCGCTGC
40538885 TGCCTC
1 TGCCTC
40538891 CGCTCTAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.04, C:0.48, G:0.15, T:0.33
Consensus pattern (21 bp):
TGCCTCTACCTCCTTCGCTGC
Found at i:40544487 original size:9 final size:9
Alignment explanation
Indices: 40544475--40544533 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
40544465 TCCGTAAGTT
*
40544475 GTTATGTAC
1 GTTATGTAA
*
40544484 GTTATGTGA
1 GTTATGTAA
40544493 GTTATGTAA
1 GTTATGTAA
*
40544502 ATTATGTAA
1 GTTATGTAA
**
40544511 GTTATGCGA
1 GTTATGTAA
40544520 GTTATGTAA
1 GTTATGTAA
40544529 GTTAT
1 GTTAT
40544534 TTTTTAAGAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.44
Consensus pattern (9 bp):
GTTATGTAA
Found at i:40544506 original size:27 final size:27
Alignment explanation
Indices: 40544476--40544533 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
40544466 CCGTAAGTTG
* *
40544476 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATGCGAGTTATGTAAA
*
40544503 TTATGTAAGTTATGCGAGTTATGTAAG
1 TTATGTAAGTTATGCGAGTTATGTAAA
40544530 TTAT
1 TTAT
40544534 TTTTTAAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.45
Consensus pattern (27 bp):
TTATGTAAGTTATGCGAGTTATGTAAA
Found at i:40545033 original size:33 final size:33
Alignment explanation
Indices: 40544991--40545057 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
40544981 ATTCATACTT
*
40544991 AAGAACATACGCATTGGAACCAGTAGCAATGAG
1 AAGAACATACGCATTGGAACCAGTAGCAAAGAG
*
40545024 AAGAACATACGCATTGGAACTAGTAGCAAAGAG
1 AAGAACATACGCATTGGAACCAGTAGCAAAGAG
40545057 A
1 A
40545058 TCCAAAGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.15
Consensus pattern (33 bp):
AAGAACATACGCATTGGAACCAGTAGCAAAGAG
Found at i:40547045 original size:25 final size:25
Alignment explanation
Indices: 40547017--40547081 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
40547007 GAGAAGCAAC
40547017 AGAGGGATGCCGACGGAGATGTAGA
1 AGAGGGATGCCGACGGAGATGTAGA
* *
40547042 AGAGGGATGCCGATGGAGATGTAGC
1 AGAGGGATGCCGACGGAGATGTAGA
**
40547067 AGAGGCCTGCCGACG
1 AGAGGGATGCCGACG
40547082 ATGATACAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.28, C:0.17, G:0.43, T:0.12
Consensus pattern (25 bp):
AGAGGGATGCCGACGGAGATGTAGA
Found at i:40549345 original size:40 final size:40
Alignment explanation
Indices: 40549262--40549345 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
40549252 TAAATTACTT
* *
40549262 TTTTGCGGCATTTTTATCATAAACGCCGCTATTGCTTGCC
1 TTTTGCGGCATTTTTATCATAAACGCCGCTAATGCTTGAC
* *
40549302 TTTTGCGGCGTTTTTATCATAAACGCCGCTAATGTTTGAC
1 TTTTGCGGCATTTTTATCATAAACGCCGCTAATGCTTGAC
40549342 TTTT
1 TTTT
40549346 TTATAATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (40 bp):
TTTTGCGGCATTTTTATCATAAACGCCGCTAATGCTTGAC
Found at i:40549371 original size:22 final size:20
Alignment explanation
Indices: 40549344--40549400 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
40549334 TGTTTGACTT
40549344 TTTTATAATTTTTATATTGAA
1 TTTTATAATTTTTATATT-AA
40549365 TTATTAT-ATCTTTTATATTAA
1 TT-TTATAAT-TTTTATATTAA
40549386 TTTTAAATAATTTTT
1 TTTT--ATAATTTTT
40549401 TTAAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.26
22 19 0.61
23 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTATATTAA
Found at i:40549817 original size:7 final size:7
Alignment explanation
Indices: 40549807--40549867 Score: 68
Period size: 7 Copynumber: 8.6 Consensus size: 7
40549797 CCCCAACTCT
40549807 TAAACCA
1 TAAACCA
*
40549814 TAAACTA
1 TAAACCA
40549821 TAAACCA
1 TAAACCA
*
40549828 TAATCCA
1 TAAACCA
40549835 TAAACCCA
1 TAAA-CCA
*
40549843 TAATCCA
1 TAAACCA
*
40549850 TAATCCA
1 TAAACCA
*
40549857 TAAACCT
1 TAAACCA
40549864 TAAA
1 TAAA
40549868 ATAGTAACTC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:40549850 original size:22 final size:22
Alignment explanation
Indices: 40549811--40549862 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
40549801 AACTCTTAAA
*
40549811 CCATAAA-CTATAAACCATAAT
1 CCATAAACCCATAAACCATAAT
*
40549832 CCATAAACCCATAATCCATAAT
1 CCATAAACCCATAAACCATAAT
40549854 CCATAAACC
1 CCATAAACC
40549863 TTAAAATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (22 bp):
CCATAAACCCATAAACCATAAT
Found at i:40550805 original size:41 final size:41
Alignment explanation
Indices: 40550760--40551032 Score: 371
Period size: 41 Copynumber: 6.8 Consensus size: 41
40550750 AGTTATATGA
* *
40550760 CTTTTAGCGGTGTTTTACCAAAAGCGTCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * *
40550801 CTTTTAGCGGCGTTTTACCAAAAGTGTCGCTACTGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
*
40550842 CTTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
*
40550883 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCT-ACGTCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATG-CTCTGT
*
40550924 CTTTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * *
40550965 CTTTTA---GCG--TT-CCAAAAACGCCGCTAGTGCTCTAT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* *
40551000 CTTTTAGTGGCGTTTTACTAAAAGCGCCGCTAA
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAA
40551033 AGCCCTATTT
Statistics
Matches: 206, Mismatches: 18, Indels: 16
0.86 0.08 0.07
Matches are distributed among these distances:
35 26 0.13
36 2 0.01
38 6 0.03
40 4 0.02
41 166 0.81
42 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (41 bp):
CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:40560778 original size:24 final size:25
Alignment explanation
Indices: 40560737--40560784 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
40560727 ATAATCATTT
*
40560737 GAATATATAAAAAGAAAT-TGAAAG
1 GAATAAATAAAAAGAAATCTGAAAG
* *
40560761 GAATAAATAAACATAAATCTGAAA
1 GAATAAATAAAAAGAAATCTGAAA
40560785 CTTATGCGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.62, C:0.04, G:0.12, T:0.21
Consensus pattern (25 bp):
GAATAAATAAAAAGAAATCTGAAAG
Found at i:40567940 original size:20 final size:20
Alignment explanation
Indices: 40567917--40567978 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
40567907 ATTTTTTATA
40567917 TTTTA-AATTTATTATAATTT
1 TTTTACAATTT-TTATAATTT
*
40567937 TTTTACAATTTTTATAAATT
1 TTTTACAATTTTTATAATTT
* *
40567957 TTTAACAATTTTTTTAATTT
1 TTTTACAATTTTTATAATTT
40567977 TT
1 TT
40567979 AAACAACTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 32 0.86
21 5 0.14
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTACAATTTTTATAATTT
Found at i:40567946 original size:11 final size:11
Alignment explanation
Indices: 40567932--40567972 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
40567922 AATTTATTAT
40567932 AATTTTTTTAC
1 AATTTTTTTAC
*
40567943 AATTTTTATA-
1 AATTTTTTTAC
*
40567953 AA-TTTTTAAC
1 AATTTTTTTAC
40567963 AATTTTTTTA
1 AATTTTTTTA
40567973 ATTTTTAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
9 5 0.21
10 4 0.17
11 15 0.62
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (11 bp):
AATTTTTTTAC
Found at i:40567948 original size:10 final size:9
Alignment explanation
Indices: 40567917--40568083 Score: 63
Period size: 10 Copynumber: 17.6 Consensus size: 9
40567907 ATTTTTTATA
40567917 TTTTAAATT
1 TTTTAAATT
*
40567926 TATTATAATTT
1 T-TT-TAAATT
40567937 TTTTACAATT
1 TTTTA-AATT
40567947 TTTATAAATT
1 TTT-TAAATT
*
40567957 TTTAACAATT
1 TTTTA-AATT
*
40567967 TTTTTAA-T
1 TTTTAAATT
**
40567975 TTTTAAACA
1 TTTTAAATT
**
40567984 ACTTAAATT
1 TTTTAAATT
*
40567993 TTTTATATAT
1 TTTTAAAT-T
*
40568003 TTTTAAATAAA
1 TTTTAAAT--T
40568014 TTTTAAATT
1 TTTTAAATT
*
40568023 TTCTAAATAAT
1 TTTTAAAT--T
*
40568034 TTTGGAAATT
1 TTT-TAAATT
*
40568044 TTAT-AA-T
1 TTTTAAATT
40568051 TTTTACAATT
1 TTTTA-AATT
**
40568061 TTTTTTA-T
1 TTTTAAATT
40568069 TTTTAAATAT
1 TTTTAAAT-T
40568079 TTTTA
1 TTTTA
40568084 TGATTTTCGA
Statistics
Matches: 115, Mismatches: 27, Indels: 31
0.66 0.16 0.18
Matches are distributed among these distances:
7 4 0.03
8 15 0.13
9 26 0.23
10 46 0.40
11 20 0.17
12 4 0.03
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (9 bp):
TTTTAAATT
Found at i:40567998 original size:47 final size:48
Alignment explanation
Indices: 40567943--40568075 Score: 125
Period size: 47 Copynumber: 2.8 Consensus size: 48
40567933 ATTTTTTTAC
40567943 AATTTTTATAAATTTTTAACAATTTTTTTAATTTTTAAACAA-CTT-A
1 AATTTTTATAAATTTTTAACAATTTTTTTAATTTTTAAACAATCTTGA
* ** * * *
40567989 AATTTTTTATATATTTTTAA-ATAAATTTTAAATTTTCTAAATAATTTTGGA
1 AA-TTTTTATAAATTTTTAACA-ATTTTTTTAATTTT-TAAACAATCTT-GA
*
40568040 AA-TTTTAT-AATTTTT-ACAATTTTTTTTATTTTTAAA
1 AATTTTTATAAATTTTTAACAATTTTTTTAATTTTTAAA
40568076 TATTTTTATG
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
46 7 0.10
47 38 0.55
48 13 0.19
49 8 0.12
51 3 0.04
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (48 bp):
AATTTTTATAAATTTTTAACAATTTTTTTAATTTTTAAACAATCTTGA
Found at i:40568089 original size:19 final size:19
Alignment explanation
Indices: 40567907--40568090 Score: 70
Period size: 19 Copynumber: 9.8 Consensus size: 19
40567897 TGATTTCCCT
40567907 ATTTTTTAT-A-TTTTA-A
1 ATTTTTTATAATTTTTACA
*
40567923 ATTTATTATAATTTTTTTACA
1 ATTTTTTATAA--TTTTTACA
40567944 A-TTTTTATAAATTTTTAACA
1 ATTTTTTAT-AATTTTT-ACA
40567964 ATTTTTT-TAATTTTTA-A
1 ATTTTTTATAATTTTTACA
**** *
40567981 ACAACTTA-AATTTTTTATA
1 ATTTTTTATAA-TTTTTACA
* *
40568000 TATTTTTAAATAAATTTTA-A
1 -ATTTTT-TATAATTTTTACA
* *
40568020 ATTTTCTAAATAATTTTGGA-A
1 ATTTT-T-TATAATTTT-TACA
40568041 A--TTTTATAATTTTTACA
1 ATTTTTTATAATTTTTACA
*
40568058 ATTTTTT-TTATTTTTA-A
1 ATTTTTTATAATTTTTACA
*
40568075 ATATTTTTATGATTTT
1 AT-TTTTTATAATTTT
40568091 CGAATGATTT
Statistics
Matches: 129, Mismatches: 18, Indels: 39
0.69 0.10 0.21
Matches are distributed among these distances:
16 9 0.07
17 20 0.16
18 21 0.16
19 30 0.23
20 29 0.22
21 18 0.14
22 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTTTATAATTTTTACA
Found at i:40573299 original size:26 final size:25
Alignment explanation
Indices: 40573255--40573317 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
40573245 AATGAATTTC
40573255 TCAAAATTTTAACAGGGGTAAAATAG
1 TCAAAATTTT-ACAGGGGTAAAATAG
* * *
40573281 TGAAAATTTTACTGAGGGTAAGATAG
1 TCAAAATTTTACAG-GGGTAAAATAG
40573307 TCAAAATTTTA
1 TCAAAATTTTA
40573318 TCAAATGGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 3 0.09
26 29 0.91
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTACAGGGGTAAAATAG
Found at i:40574818 original size:15 final size:15
Alignment explanation
Indices: 40574798--40574827 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
40574788 AACCTTCAAC
40574798 ATCTCTATACTCCCT
1 ATCTCTATACTCCCT
40574813 ATCTCTATACTCCCT
1 ATCTCTATACTCCCT
40574828 CAAGCTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (15 bp):
ATCTCTATACTCCCT
Found at i:40575676 original size:3 final size:3
Alignment explanation
Indices: 40575623--40575666 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
40575613 AATTGAGCAT
40575623 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
40575667 CCTTAATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:40578088 original size:5 final size:5
Alignment explanation
Indices: 40578078--40578106 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
40578068 ATAATTATTT
40578078 TTATA TTATA TTATA TTATA TTATA TTAT
1 TTATA TTATA TTATA TTATA TTATA TTAT
40578107 TAGTTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:40580303 original size:94 final size:94
Alignment explanation
Indices: 40580138--40580309 Score: 211
Period size: 94 Copynumber: 1.8 Consensus size: 94
40580128 AATGTTTAAA
* * * * **
40580138 TGTAAGACCATAGTTGGGCTATGACATTTTAGTGAAAAGACCATAACTGGGATATGGCACCGTGA
1 TGTAAGACCATAGTTGGGCTATGACATCTGAGTGAAAAGACCATAACTAGGATATGACACCACGA
40580203 ACGTAAGACCATGGCAGTATATGTATATG
66 ACGTAAGACCATGGCAGTATATGTATATG
* * * **
40580232 TGTAAGACCATAGTTGGGCTATGGCATCCTGA-TGATAAGACCATAACTAGGTTATGACATTACG
1 TGTAAGACCATAGTTGGGCTATGACAT-CTGAGTGAAAAGACCATAACTAGGATATGACACCACG
**
40580296 AGTGTAAGACCATG
65 AACGTAAGACCATG
40580310 TCAGCGGCAT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
94 62 0.97
95 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (94 bp):
TGTAAGACCATAGTTGGGCTATGACATCTGAGTGAAAAGACCATAACTAGGATATGACACCACGA
ACGTAAGACCATGGCAGTATATGTATATG
Found at i:40586912 original size:40 final size:40
Alignment explanation
Indices: 40586867--40586996 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
40586857 CGGAATGCAA
*
40586867 CCGGATATAACCA-TGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACGAATGCCTTCGGGTCTTAGC
* ** *
40586907 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
40586947 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
40586987 CCGGATATAA
1 CCGGATATAA
40586997 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:40598008 original size:26 final size:26
Alignment explanation
Indices: 40597977--40598084 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
40597967 TGAAATGCCC
*
40597977 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
40598003 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
40598029 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
40598055 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
40598081 ATCA
1 ATCA
40598085 ATTTGTACCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:40598734 original size:11 final size:11
Alignment explanation
Indices: 40598720--40598760 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
40598710 TGTTTTCTCC
40598720 CTATTTTGCTA
1 CTATTTTGCTA
*
40598731 CTATTTTACTA
1 CTATTTTGCTA
* *
40598742 TTATGTTGCTA
1 CTATTTTGCTA
40598753 CTATTTTG
1 CTATTTTG
40598761 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:40598844 original size:30 final size:29
Alignment explanation
Indices: 40598797--40598858 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 29
40598787 ACTTATTTTA
40598797 TTGTTAATTTTTTATTATTTTA-AAGACAT
1 TTGTTAATTTTTTATTATTTTAGAA-ACAT
40598826 TTGTTAATTTTGTTATTATTTTAGAAACAT
1 TTGTTAATTTT-TTATTATTTTAGAAACAT
40598856 TTG
1 TTG
40598859 CTTGTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 11 0.35
30 18 0.58
31 2 0.06
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (29 bp):
TTGTTAATTTTTTATTATTTTAGAAACAT
Done.