Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 26 of 310
Found at i:6931910 original size:12 final size:11
Alignment explanation
Indices: 6931893--6931992 Score: 54
Period size: 12 Copynumber: 9.2 Consensus size: 11
6931883 TAAAATTATA
6931893 AATAATATAAT
1 AATAATATAAT
6931904 GAATAATA-AA-
1 -AATAATATAAT
6931914 ACATAA-ATAAT
1 A-ATAATATAAT
6931925 -ATAATAGATAAT
1 AATAAT--ATAAT
*
6931937 ATATGATATACAT
1 A-ATAATATA-AT
*
6931950 -ATCATATAAT
1 AATAATATAAT
6931960 AAGTAATAT-AT
1 AA-TAATATAAT
6931971 AATAA-A-AAT
1 AATAATATAAT
*
6931980 AAAAATATAAT
1 AATAATATAAT
6931991 AA
1 AA
6931993 ATGTTAATAA
Statistics
Matches: 70, Mismatches: 4, Indels: 29
0.68 0.04 0.28
Matches are distributed among these distances:
9 13 0.19
10 12 0.17
11 19 0.27
12 20 0.29
13 2 0.03
14 4 0.06
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (11 bp):
AATAATATAAT
Found at i:6932079 original size:23 final size:22
Alignment explanation
Indices: 6932052--6932114 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 22
6932042 AAATAAGATT
*
6932052 TTTTATATAAATAGATAAATAG
1 TTTTATATAAATAAATAAATAG
* *
6932074 TATTTATA-ATAATATATATATAG
1 T-TTTATATA-AATAAATAAATAG
6932097 TTTT-T-TAAATAAATAAAT
1 TTTTATATAAATAAATAAAT
6932115 TATATATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 9 0.26
21 2 0.06
22 5 0.15
23 18 0.53
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (22 bp):
TTTTATATAAATAAATAAATAG
Found at i:6934286 original size:207 final size:206
Alignment explanation
Indices: 6933764--6934311 Score: 859
Period size: 205 Copynumber: 2.7 Consensus size: 206
6933754 AAATCTACTT
6933764 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAGCGTAAACAC
*
6933829 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *** * * *
6933894 GGATC-TGCTTCAGTATAAACATCTAAAGGTTGGATTTGCTATGTGTCTGTCCTCCGTCGAAGTG
131 GGATCTTGCTTCAGTATAAACAGCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAAGTG
6933958 GAAATGCCAGA
196 GAAATGCCAGA
* * *
6933969 CTCCGATTT-TCTCTCT-ACCAATTCAGATATGCCAAATCATCTTAGATTTGCTTTAGCGTAAAC
1 CTTCGATTTGT-TCTCTGA-CAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAGCGTAAAC
*
6934032 ACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATC
64 ACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
* *
6934097 TTGGATCTTGCTTCAGTCTAATCAGCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAAG
129 TTGGATCTTGCTTCAGTATAAACAGCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAAG
**
6934162 TGGAGCTGCCAGA
194 TGGAAATGCCAGA
* * *
6934175 CTTCGATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTGCTTCATCATAAACA
1 CTTCGATTTGTTCTCTGACAATACAGAGATG-CCAAATCATCTTAGATTTGCTTTAGCGTAAACA
* *
6934240 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATACCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
6934305 TGGATCT
130 TGGATCT
6934312 ACTTCGGCAT
Statistics
Matches: 312, Mismatches: 25, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
204 2 0.01
205 126 0.40
206 83 0.27
207 101 0.32
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAGCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACAGCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAAGTG
GAAATGCCAGA
Found at i:6937532 original size:268 final size:268
Alignment explanation
Indices: 6937055--6937590 Score: 1072
Period size: 268 Copynumber: 2.0 Consensus size: 268
6937045 TCAATGGCTC
6937055 ATAATCTTCTAGAGCCCTACTGGCCAAGAAGTCTACTACCGCACTTCCTTTGATAGACTTCTGAC
1 ATAATCTTCTAGAGCCCTACTGGCCAAGAAGTCTACTACCGCACTTCCTTTGATAGACTTCTGAC
6937120 TTACGTAGACTATATCAAACTCTAAAAGTAAAATTTTCCATCTCGCCATTCTCCCATTTAGAGCC
66 TTACGTAGACTATATCAAACTCTAAAAGTAAAATTTTCCATCTCGCCATTCTCCCATTTAGAGCC
6937185 GTTGACTCTATCATGTATTTTAATGGATCAAGCTTTGAGATGAGCCAAGTGGTATGGTATAGCAT
131 GTTGACTCTATCATGTATTTTAATGGATCAAGCTTTGAGATGAGCCAAGTGGTATGGTATAGCAT
6937250 GTACTGTCTTAATCTTCGAGTTGTCCAGATCAGCGCACAACACAACTTTTCAATTGGTGGATATC
196 GTACTGTCTTAATCTTCGAGTTGTCCAGATCAGCGCACAACACAACTTTTCAATTGGTGGATATC
6937315 TCATTCTA
261 TCATTCTA
6937323 ATAATCTTCTAGAGCCCTACTGGCCAAGAAGTCTACTACCGCACTTCCTTTGATAGACTTCTGAC
1 ATAATCTTCTAGAGCCCTACTGGCCAAGAAGTCTACTACCGCACTTCCTTTGATAGACTTCTGAC
6937388 TTACGTAGACTATATCAAACTCTAAAAGTAAAATTTTCCATCTCGCCATTCTCCCATTTAGAGCC
66 TTACGTAGACTATATCAAACTCTAAAAGTAAAATTTTCCATCTCGCCATTCTCCCATTTAGAGCC
6937453 GTTGACTCTATCATGTATTTTAATGGATCAAGCTTTGAGATGAGCCAAGTGGTATGGTATAGCAT
131 GTTGACTCTATCATGTATTTTAATGGATCAAGCTTTGAGATGAGCCAAGTGGTATGGTATAGCAT
6937518 GTACTGTCTTAATCTTCGAGTTGTCCAGATCAGCGCACAACACAACTTTTCAATTGGTGGATATC
196 GTACTGTCTTAATCTTCGAGTTGTCCAGATCAGCGCACAACACAACTTTTCAATTGGTGGATATC
6937583 TCATTCTA
261 TCATTCTA
6937591 CAGTCAGTGA
Statistics
Matches: 268, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
268 268 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (268 bp):
ATAATCTTCTAGAGCCCTACTGGCCAAGAAGTCTACTACCGCACTTCCTTTGATAGACTTCTGAC
TTACGTAGACTATATCAAACTCTAAAAGTAAAATTTTCCATCTCGCCATTCTCCCATTTAGAGCC
GTTGACTCTATCATGTATTTTAATGGATCAAGCTTTGAGATGAGCCAAGTGGTATGGTATAGCAT
GTACTGTCTTAATCTTCGAGTTGTCCAGATCAGCGCACAACACAACTTTTCAATTGGTGGATATC
TCATTCTA
Found at i:6942740 original size:13 final size:14
Alignment explanation
Indices: 6942712--6942740 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6942702 GACGACGATG
6942712 AATACATCAGACTC
1 AATACATCAGACTC
6942726 AATACATCA-ACTC
1 AATACATCAGACTC
6942739 AA
1 AA
6942741 ATTGCCAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.48, C:0.28, G:0.03, T:0.21
Consensus pattern (14 bp):
AATACATCAGACTC
Found at i:6945329 original size:22 final size:21
Alignment explanation
Indices: 6945286--6945329 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6945276 AACCATTTAA
* * *
6945286 AATCGAGTTTTGGAAAATGGG
1 AATCGACTTTAGGAAAACGGG
6945307 AATCGACTTTAGGAAAAACGGG
1 AATCGACTTTAGG-AAAACGGG
6945329 A
1 A
6945330 GTCGCCACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.23
Consensus pattern (21 bp):
AATCGACTTTAGGAAAACGGG
Found at i:6945860 original size:12 final size:13
Alignment explanation
Indices: 6945842--6945896 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
6945832 TAAAAATATG
6945842 ATATTTAATAATA
1 ATATTTAATAATA
6945855 AT-TTTAA-AATA
1 ATATTTAATAATA
* *
6945866 GTATTTAATATACA
1 ATATTTAATA-ATA
*
6945880 ATATGTAATATATA
1 ATATTTAATA-ATA
6945894 ATA
1 ATA
6945897 ACAAAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
11 5 0.15
12 10 0.29
13 3 0.09
14 16 0.47
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:6945944 original size:24 final size:26
Alignment explanation
Indices: 6945891--6945944 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 26
6945881 TATGTAATAT
* *
6945891 ATAATAACAAAAAATATTTATGAAAGA
1 ATAATAACAAAAAATA-TTATAAAAAA
6945918 ATAATAA-AAAAAATA-TATAAAAAA
1 ATAATAACAAAAAATATTATAAAAAA
6945942 ATA
1 ATA
6945945 TGTAAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.40
26 8 0.32
27 7 0.28
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (26 bp):
ATAATAACAAAAAATATTATAAAAAA
Found at i:6948223 original size:6 final size:6
Alignment explanation
Indices: 6948212--6948251 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
6948202 AAAATGAGAC
*
6948212 TATAAA TATAAA TATACA TATAAA TATAAA TATAAA TATA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATA
6948252 TTGTATACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (6 bp):
TATAAA
Found at i:6951488 original size:26 final size:26
Alignment explanation
Indices: 6951452--6951535 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6951442 CATGAAATTC
6951452 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6951478 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6951504 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6951530 TTATCA
1 TTATCA
6951536 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6956798 original size:26 final size:26
Alignment explanation
Indices: 6956762--6956845 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6956752 CATGAAATTC
6956762 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6956788 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6956814 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6956840 TTATCA
1 TTATCA
6956846 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6960427 original size:47 final size:47
Alignment explanation
Indices: 6960272--6960442 Score: 166
Period size: 48 Copynumber: 3.6 Consensus size: 47
6960262 ACCATGGTTA
* * *
6960272 ATGAGATCCCGTGTAAGAACATGTCTAGGACATGGCATCGGCATCGAGT
1 ATGAGATCCCGTATAAGACCATATCT-GGACATGGCATCGGCATCGA-T
* * * *
6960321 -TGAGATCCCGTATAAGACCATATCAAGGATATGGCTTCGGCATCGTT
1 ATGAGATCCCGTATAAGACCATATC-TGGACATGGCATCGGCATCGAT
* * ** * *
6960368 AAGTGATTTCGTATAAGATCATGTCTGGACATGGCATCGGCA-CTGAT
1 ATGAGATCCCGTATAAGACCATATCTGGACATGGCATCGGCATC-GAT
*
6960415 ATGAGATCTCGTATAAGACCATATCTGG
1 ATGAGATCCCGTATAAGACCATATCTGG
6960443 GATATGACAT
Statistics
Matches: 97, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
46 1 0.01
47 40 0.41
48 56 0.58
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (47 bp):
ATGAGATCCCGTATAAGACCATATCTGGACATGGCATCGGCATCGAT
Found at i:6970291 original size:18 final size:18
Alignment explanation
Indices: 6970270--6970399 Score: 73
Period size: 18 Copynumber: 6.7 Consensus size: 18
6970260 TAATAGTTAG
*
6970270 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
6970288 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
* *
6970306 TTATTTAGTATCAATCAA
1 TTATTCAGTAACAATCAA
*
6970324 TTGATCGGTTATCCAGTAACAGTCAA
1 TT-A-----T-T-CAGTAACAATCAA
*
6970350 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAACAATCA-A
* *
6970369 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
6970387 TTATTCAGTAACA
1 TTATTCAGTAACA
6970400 GTCGATCTTT
Statistics
Matches: 83, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
18 51 0.61
19 16 0.19
20 1 0.01
24 1 0.01
25 2 0.02
26 12 0.14
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:6970526 original size:6 final size:6
Alignment explanation
Indices: 6970515--6970545 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
6970505 TCGAAGCTAA
*
6970515 AACAGT AACAGT AACAGT AACAGT AGCAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
6970546 CGGTACACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:6970608 original size:47 final size:47
Alignment explanation
Indices: 6970533--6970696 Score: 251
Period size: 47 Copynumber: 3.5 Consensus size: 47
6970523 CAGTAACAGT
* **
6970533 AACAGTAGCAGTACGGTACACATTGTACCTCATCGGAACAAATTCAG
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATTCAG
6970580 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATTCAG
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATTCAG
*
6970627 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAA-TCTG
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATTCAG
*
6970673 AAATAGTAACAGTAACGGTA-ACAG
1 -AACAGTAACAGT-ACGGTACACAG
6970697 TAACAATATC
Statistics
Matches: 110, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
46 3 0.03
47 101 0.92
48 6 0.05
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATTCAG
Found at i:6972174 original size:21 final size:22
Alignment explanation
Indices: 6972150--6972196 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
6972140 TTTGGATGTG
*
6972150 TGATATTTTTGTATGA-AAATT
1 TGATATGTTTGTATGATAAATT
* *
6972171 TGAT-TGTTTGTGTGATTAATT
1 TGATATGTTTGTATGATAAATT
6972192 TGATA
1 TGATA
6972197 AAAGGACTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (22 bp):
TGATATGTTTGTATGATAAATT
Found at i:6976228 original size:7 final size:6
Alignment explanation
Indices: 6976201--6976241 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
6976191 AGACCATTGA
*
6976201 TTTTAG TTTTAT TTTTAT TTTTAT TTTTATT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTT
6976242 GCTTTTTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:6976228 original size:18 final size:19
Alignment explanation
Indices: 6976201--6976241 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
6976191 AGACCATTGA
6976201 TTTTAGTTTTA-TTTTTAT
1 TTTTAGTTTTATTTTTTAT
*
6976219 TTTTATTTTTATTTTTTAT
1 TTTTAGTTTTATTTTTTAT
6976238 TTTT
1 TTTT
6976242 GCTTTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTAGTTTTATTTTTTAT
Found at i:6978183 original size:64 final size:64
Alignment explanation
Indices: 6978110--6978320 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
6978100 CTGGACCAGA
*
6978110 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
6978174 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
6978236 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
6978247 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
6978311 GCCCATTTCA
1 GCCCATTTCA
6978321 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:6978322 original size:137 final size:137
Alignment explanation
Indices: 6978076--6978362 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
6978066 TATTGGGCCT
**
6978076 AAGCCCATTCAGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
6978141 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
6978206 CATATGC
131 CATATGC
*
6978213 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
6978278 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
6978343 CATATGC
131 CATATGC
6978350 AAGCCCATTTGGG
1 AAGCCCATTTGGG
6978363 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:6978647 original size:25 final size:27
Alignment explanation
Indices: 6978610--6978662 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
6978600 TCAAACATGC
6978610 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
6978636 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
6978662 A
1 A
6978663 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:6980308 original size:26 final size:26
Alignment explanation
Indices: 6980149--6980300 Score: 286
Period size: 26 Copynumber: 5.8 Consensus size: 26
6980139 TTAAATGCCC
**
6980149 ATCATGGAACATTTACCTAAATCATT
1 ATCATGGAACATTTACCTAACCCATT
6980175 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6980201 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6980227 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6980253 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6980279 ATCATGGAACATTTACCTAACC
1 ATCATGGAACATTTACCTAACC
6980301 TTTTATCAAT
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 124 1.00
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6985221 original size:12 final size:12
Alignment explanation
Indices: 6985204--6985229 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6985194 GCCGTCCACC
6985204 CATTACTAAGCA
1 CATTACTAAGCA
6985216 CATTACTAAGCA
1 CATTACTAAGCA
6985228 CA
1 CA
6985230 ATGCTGCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.27, G:0.08, T:0.23
Consensus pattern (12 bp):
CATTACTAAGCA
Found at i:6985826 original size:19 final size:20
Alignment explanation
Indices: 6985799--6985836 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
6985789 ATACATATAT
* *
6985799 ATATTAAAACAAGT-ATAAC
1 ATATAAAAAAAAGTGATAAC
6985818 ATATAAAAAAAAGTGATAA
1 ATATAAAAAAAAGTGATAA
6985837 TATTCATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (20 bp):
ATATAAAAAAAAGTGATAAC
Found at i:6987476 original size:29 final size:29
Alignment explanation
Indices: 6987434--6987493 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
6987424 CTATTTAAAG
6987434 TTCAACTCTAAAATTCAACAAAAACATCC
1 TTCAACTCTAAAATTCAACAAAAACATCC
6987463 TTCAACTCTAAAATTCAACAAAAACATCC
1 TTCAACTCTAAAATTCAACAAAAACATCC
6987492 TT
1 TT
6987494 TCAAATTAAG
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:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (29 bp):
TTCAACTCTAAAATTCAACAAAAACATCC
Found at i:7003179 original size:26 final size:26
Alignment explanation
Indices: 7003133--7003185 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
7003123 AATTAAAATC
*
7003133 AAGCTAAAAAAAATCTAAATTGGGAA
1 AAGCTAAAAAAAATCTAAATTGAGAA
7003159 AAGC-AAAGAAAAATC-ATAATTGAGAA
1 AAGCTAAA-AAAAATCTA-AATTGAGAA
7003185 A
1 A
7003186 TCAAAACCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.60, C:0.08, G:0.15, T:0.17
Consensus pattern (26 bp):
AAGCTAAAAAAAATCTAAATTGAGAA
Found at i:7010424 original size:192 final size:192
Alignment explanation
Indices: 7010097--7010481 Score: 734
Period size: 192 Copynumber: 2.0 Consensus size: 192
7010087 CGACCTCAGA
*
7010097 TTTGTGGTTCTGAAACCACCATTTCTGATTTAGCTAAAATCGGGTTGTTACAAAGGGTATGGAAA
1 TTTGTGGTTCTGAAACCACCATTTCTGATTTAGCTAAAATCGGGTTGTTACAAAAGGTATGGAAA
*
7010162 AACTTGTGTTTATTTATCATTGAAACCTTTTATGATACCACTATTTTTCTTGTTATTATATTTGC
66 AACTTGTGTTTATTTATCATTGAAACCTTTTATGATACCACTATTTTTCTTCTTATTATATTTGC
7010227 TTGAAATGTCAGTTTCTCATTCAGTTGAATCAAATTAGTACAACTCTTTTTGGGTTTCATTG
131 TTGAAATGTCAGTTTCTCATTCAGTTGAATCAAATTAGTACAACTCTTTTTGGGTTTCATTG
* *
7010289 TTTGTGGTTCTGAAACCACCGTTTCTGATTTAGCTAAAATCGGGTTGTTACAAAAGGTGTGGAAA
1 TTTGTGGTTCTGAAACCACCATTTCTGATTTAGCTAAAATCGGGTTGTTACAAAAGGTATGGAAA
7010354 AACTTGTGTTTATTTATCATTGAAACCTTTTATGATACCACTATTTTTCTTCTTATTATATTTGC
66 AACTTGTGTTTATTTATCATTGAAACCTTTTATGATACCACTATTTTTCTTCTTATTATATTTGC
7010419 TTGAAATGTCAGTTTCTCATTCAGTTGAATCAAATTAGTACAACTCTTTTTGGGTTTCATTG
131 TTGAAATGTCAGTTTCTCATTCAGTTGAATCAAATTAGTACAACTCTTTTTGGGTTTCATTG
7010481 T
1 T
7010482 GGTTTATTTT
Statistics
Matches: 189, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
192 189 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.43
Consensus pattern (192 bp):
TTTGTGGTTCTGAAACCACCATTTCTGATTTAGCTAAAATCGGGTTGTTACAAAAGGTATGGAAA
AACTTGTGTTTATTTATCATTGAAACCTTTTATGATACCACTATTTTTCTTCTTATTATATTTGC
TTGAAATGTCAGTTTCTCATTCAGTTGAATCAAATTAGTACAACTCTTTTTGGGTTTCATTG
Found at i:7011291 original size:12 final size:12
Alignment explanation
Indices: 7011262--7011315 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
7011252 AGGTTGAGGG
7011262 AGAAGAAAATA-A
1 AGAA-AAAATAGA
7011274 AG-AAAAATATG-
1 AGAAAAAATA-GA
7011285 AGAAAAAATAGA
1 AGAAAAAATAGA
* *
7011297 AGAAAAAAGACA
1 AGAAAAAATAGA
7011309 AGAAAAA
1 AGAAAAA
7011316 TGAGAAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 6 0.17
11 4 0.11
12 26 0.72
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (12 bp):
AGAAAAAATAGA
Found at i:7011563 original size:30 final size:31
Alignment explanation
Indices: 7011497--7011572 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
7011487 ATGTTAATGG
7011497 GTGACTGATTTGTCACTTTTCGATAACGTTA
1 GTGACTGATTTGTCACTTTTCGATAACGTTA
* *
7011528 GTGACTGATTTGTTATTTTTCGA-AA-GTTGA
1 GTGACTGATTTGTCACTTTTCGATAACGTT-A
*
7011558 GTGACTAATTTGTCA
1 GTGACTGATTTGTCA
7011573 GCTGCATCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 3 0.08
30 16 0.40
31 21 0.52
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (31 bp):
GTGACTGATTTGTCACTTTTCGATAACGTTA
Found at i:7015660 original size:40 final size:40
Alignment explanation
Indices: 7015583--7015660 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
7015573 TGAAAAAGCG
* * * *
7015583 CCGCTAAAGATCGAGCATTAGCGATGCTTTTTGAAAAATA
1 CCGCTAAAGATCAAGCATTAGCGACGCTTTCTAAAAAATA
*
7015623 CCGCTAAAGATCAAGCATTAGCGGCGCTTTCTAAAAAA
1 CCGCTAAAGATCAAGCATTAGCGACGCTTTCTAAAAAA
7015661 CGCCACTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (40 bp):
CCGCTAAAGATCAAGCATTAGCGACGCTTTCTAAAAAATA
Found at i:7016308 original size:15 final size:14
Alignment explanation
Indices: 7016290--7016341 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
7016280 TAGGAATTAT
7016290 GGTTTATGGTTTAA
1 GGTTTATGGTTTAA
* **
7016304 GGGTTGGGGTTTAA
1 GGTTTATGGTTTAA
*
7016318 GCTTTATGGGTTTAA
1 GGTTTAT-GGTTTAA
7016333 GGTTTATGG
1 GGTTTATGG
7016342 GTCGGGGGTC
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.17, C:0.02, G:0.37, T:0.44
Consensus pattern (14 bp):
GGTTTATGGTTTAA
Found at i:7016323 original size:21 final size:21
Alignment explanation
Indices: 7016290--7016329 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7016280 TAGGAATTAT
* *
7016290 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGCTTTAAGGGTTGG
*
7016311 GGTTTAAGCTTTATGGGTT
1 GGTTTAAGCTTTAAGGGTT
7016330 TAAGGTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.38, T:0.45
Consensus pattern (21 bp):
GGTTTAAGCTTTAAGGGTTGG
Found at i:7016342 original size:15 final size:15
Alignment explanation
Indices: 7016290--7016343 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
7016280 TAGGAATTAT
7016290 GGTTTAT-GGTTTAA
1 GGTTTATGGGTTTAA
* *
7016304 GGGTT-GGGGTTTAA
1 GGTTTATGGGTTTAA
*
7016318 GCTTTATGGGTTTAA
1 GGTTTATGGGTTTAA
7016333 GGTTTATGGGT
1 GGTTTATGGGT
7016344 CGGGGGTCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
14 14 0.44
15 18 0.56
ACGTcount: A:0.17, C:0.02, G:0.37, T:0.44
Consensus pattern (15 bp):
GGTTTATGGGTTTAA
Found at i:7016367 original size:29 final size:29
Alignment explanation
Indices: 7016329--7016398 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
7016319 CTTTATGGGT
*
7016329 TTAA-GGTTTATGGG-TCGGGGGTCAAGGG
1 TTAAGGGTTTATGGGTTAGGGGGTCAA-GG
* * *
7016357 TTAGGGGTTTAAGGGTTAGGGGTTCAAGG
1 TTAAGGGTTTATGGGTTAGGGGGTCAAGG
*
7016386 TTAATGGTTTATG
1 TTAAGGGTTTATG
7016399 TTTTAGGGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
28 3 0.09
29 21 0.64
30 9 0.27
ACGTcount: A:0.20, C:0.04, G:0.41, T:0.34
Consensus pattern (29 bp):
TTAAGGGTTTATGGGTTAGGGGGTCAAGG
Found at i:7016370 original size:15 final size:15
Alignment explanation
Indices: 7016345--7016385 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
7016335 TTTATGGGTC
*
7016345 GGGGGTCAAGGGTTA
1 GGGGTTCAAGGGTTA
*
7016360 GGGGTTTAAGGGTTA
1 GGGGTTCAAGGGTTA
7016375 GGGGTTCAAGG
1 GGGGTTCAAGG
7016386 TTAATGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.20, C:0.05, G:0.51, T:0.24
Consensus pattern (15 bp):
GGGGTTCAAGGGTTA
Found at i:7016750 original size:25 final size:23
Alignment explanation
Indices: 7016701--7016754 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
7016691 ATATCATTTT
*
7016701 ATATTTATATATTGCATACATAA
1 ATATTTATATATTGCATACAAAA
* *
7016724 ATATTTATATATATTCAATATAAAA
1 ATATTTATATAT-TGC-ATACAAAA
7016749 ATATTT
1 ATATTT
7016755 TGATGTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 12 0.46
24 2 0.08
25 12 0.46
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (23 bp):
ATATTTATATATTGCATACAAAA
Found at i:7017075 original size:13 final size:13
Alignment explanation
Indices: 7017059--7017096 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
7017049 AAATCTTCAA
*
7017059 AAAAATTAAAATT
1 AAAAATTAAAAAT
7017072 AAAAATTAAAAAT
1 AAAAATTAAAAAT
*
7017085 AAAAAATAAAAA
1 AAAAATTAAAAA
7017097 AATAAAGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATTAAAAAT
Found at i:7017076 original size:7 final size:7
Alignment explanation
Indices: 7017059--7017112 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
7017049 AAATCTTCAA
7017059 AAAAATT
1 AAAAATT
7017066 -AAAATT
1 AAAAATT
7017072 AAAAATT
1 AAAAATT
*
7017079 AAAAATA
1 AAAAATT
*
7017086 AAAAATA
1 AAAAATT
*
7017093 AAAAAAT
1 AAAAATT
7017100 AAAGAACTT
1 AAA-AA-TT
7017109 AAAA
1 AAAA
7017113 TTTTAATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
6 6 0.15
7 27 0.68
8 3 0.08
9 4 0.10
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (7 bp):
AAAAATT
Found at i:7017258 original size:19 final size:19
Alignment explanation
Indices: 7017219--7017259 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7017209 TTGAAAAAAA
*
7017219 AAATAGAAAAAAATATGTT
1 AAATAGAAAAAAAAATGTT
7017238 AAATATGAAAAAAAAAT-TT
1 AAATA-GAAAAAAAAATGTT
7017257 AAA
1 AAA
7017260 ATTAAGCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (19 bp):
AAATAGAAAAAAAAATGTT
Found at i:7017261 original size:20 final size:20
Alignment explanation
Indices: 7017218--7017261 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
7017208 TTTGAAAAAA
*
7017218 AAAATAGAAAAAAATATGTT
1 AAAATAGAAAAAAAAATGTT
7017238 -AAATATGAAAAAAAAAT-TT
1 AAAATA-GAAAAAAAAATGTT
7017257 AAAAT
1 AAAAT
7017262 TAAGCAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (20 bp):
AAAATAGAAAAAAAAATGTT
Found at i:7017334 original size:41 final size:42
Alignment explanation
Indices: 7017257--7017347 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 42
7017247 AAAAAAATTT
* * *
7017257 AAAATTAAGCAATAGTGGTGTTTTTGAGAAAAACGCCAC-AA
1 AAAATTAAGCAATAATGGCGTTTTTAAGAAAAACGCCACAAA
* ** * *
7017298 AAAATTAAGCTATAATGGCGTTTTTAAGTTAGACGCCGCAAA
1 AAAATTAAGCAATAATGGCGTTTTTAAGAAAAACGCCACAAA
7017340 AAAATTAA
1 AAAATTAA
7017348 CCTACAGTGA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 31 0.76
42 10 0.24
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (42 bp):
AAAATTAAGCAATAATGGCGTTTTTAAGAAAAACGCCACAAA
Found at i:7019596 original size:31 final size:31
Alignment explanation
Indices: 7019561--7019625 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
7019551 AAATAAAGAT
7019561 AAAATAATTTTCTTACTGATTCTTCAAAAAG
1 AAAATAATTTTCTTACTGATTCTTCAAAAAG
*
7019592 AAAATAATTTTGTTACTGATTCTTCAAAAAG
1 AAAATAATTTTCTTACTGATTCTTCAAAAAG
7019623 AAA
1 AAA
7019626 TATATATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (31 bp):
AAAATAATTTTCTTACTGATTCTTCAAAAAG
Found at i:7021213 original size:18 final size:18
Alignment explanation
Indices: 7021153--7021213 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
7021143 GAATTTCAAT
*
7021153 TTTTTTATATTTTTCATGAC
1 TTTTTTA-AATTTT-ATGAC
* ***
7021173 TTTTATAATATTTTATTTT
1 TTTTTTAA-ATTTTATGAC
7021192 TTTTTTAAATTTTATGAC
1 TTTTTTAAATTTTATGAC
7021210 TTTT
1 TTTT
7021214 AGCGGCGTTT
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
18 11 0.35
19 10 0.32
20 10 0.32
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTTAAATTTTATGAC
Found at i:7022072 original size:20 final size:20
Alignment explanation
Indices: 7022035--7022072 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7022025 TTTACTTGAT
*
7022035 TTAGGGTTTTAGGGTTAGGG
1 TTAGGGTTTAAGGGTTAGGG
*
7022055 TTAGGGTTTAAGGTTTAG
1 TTAGGGTTTAAGGGTTAG
7022073 AGTTTATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.42
Consensus pattern (20 bp):
TTAGGGTTTAAGGGTTAGGG
Found at i:7022869 original size:126 final size:126
Alignment explanation
Indices: 7022286--7022933 Score: 895
Period size: 126 Copynumber: 5.1 Consensus size: 126
7022276 TTTTTTATTT
* * * *
7022286 TTTTTCTACAGTAGTATCTGAAAAAATGATTTTGAGAAGACATTTCTAAACAAATAGTGTCTAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* ** * *
7022351 ACACTTCAAACAGGATGCACTGTCAGTAAAATTACTGATAAAAAAAGCTCTCACGTGGATGCTC
66 ACACTTCAAGCAGGATGCACTGTCAACAAAATTACTG---AAAAAAGCTCCCACGTGGACGCTC
*
7022415 TTTTTCTACAGTGGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* * * * ** *
7022480 ACGCTTCAAGCAGGATACATTGTCAACAAAATTACTGAAAAAAGCTCCTACGTGGACATTT
66 ACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
7022541 TTTTTCTAGAGTAGTATCTGAAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTTCAA
1 TTTTTCTACAGTAGTATCTG-AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
* * * *
7022606 AACACTTCAAGAAGGATGAATTGTCAACAAAATTACTGAAAAAAGCTCCCATGTGGACGCTC
65 AACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
7022668 TTTTTCTACAATAATATCT-AAAAAATAATTTTGAGAAGACGCTTT-TGAACAAATAGTGTGCAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACG-TTTCTGAACAAATAGTGTCCAA
*
7022731 AACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
7022793 TTTTTCTACAGTAGTATTTGAAAAAATAGTTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* * * * * * * *
7022858 ACGCTTCAAGCAGGATGCACTATTAAAAAAATTACTGAAAAATGTTCCCACGTGGACGTTT
66 ACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
7022919 TTTTTCTACAGTAGT
1 TTTTTCTACAGTAGT
7022934 TCCTATTTGG
Statistics
Matches: 461, Mismatches: 54, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
125 114 0.25
126 145 0.31
127 111 0.24
129 91 0.20
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
ACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:7026525 original size:18 final size:18
Alignment explanation
Indices: 7026502--7026536 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7026492 GGAAAATGAA
*
7026502 ACATATAAGGGTTAGGAC
1 ACATATAAGGGCTAGGAC
7026520 ACATATAAGGGCTAGGA
1 ACATATAAGGGCTAGGA
7026537 TACGCACCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.11, G:0.29, T:0.20
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAC
Found at i:7026627 original size:30 final size:29
Alignment explanation
Indices: 7026593--7026659 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
7026583 GTTGAAGTGT
* *
7026593 TGGGCCCGGTTACTGTGTTGGCACTGTTGA
1 TGGGCCCGGTGACTGTGTGGGCACTGTT-A
* * *
7026623 TGGGCCCAGTGATTGTGTGGGCGCTGTTA
1 TGGGCCCGGTGACTGTGTGGGCACTGTTA
7026652 TGGGCCCG
1 TGGGCCCG
7026660 CGTCGTCATC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.09, C:0.21, G:0.40, T:0.30
Consensus pattern (29 bp):
TGGGCCCGGTGACTGTGTGGGCACTGTTA
Found at i:7027168 original size:7 final size:7
Alignment explanation
Indices: 7027156--7027205 Score: 73
Period size: 7 Copynumber: 7.0 Consensus size: 7
7027146 TTATATAAAT
7027156 AATACTA
1 AATACTA
7027163 AATACTA
1 AATACTA
7027170 AATACTA
1 AATACTA
7027177 AATACTA
1 AATACTA
*
7027184 AATATTA
1 AATACTA
*
7027191 AATACGA
1 AATACTA
7027198 AATGACTA
1 AAT-ACTA
7027206 TTTTATTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
7 35 0.92
8 3 0.08
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:7028422 original size:25 final size:25
Alignment explanation
Indices: 7028388--7028437 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
7028378 ATTTCATTGA
7028388 GCTCAATTTTAAAACATCAAATATC
1 GCTCAATTTTAAAACATCAAATATC
7028413 GCTCAATTTTAAAACATCAAATATC
1 GCTCAATTTTAAAACATCAAATATC
7028438 CAATCATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (25 bp):
GCTCAATTTTAAAACATCAAATATC
Found at i:7028570 original size:27 final size:27
Alignment explanation
Indices: 7028540--7028606 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
7028530 TTGTCACATT
7028540 TCACTTTGCCATATTTGGCACACTTTA
1 TCACTTTGCCATATTTGGCACACTTTA
*
7028567 TCACTTTGCCATGTTTGGCACACTTTA
1 TCACTTTGCCATATTTGGCACACTTTA
*
7028594 TCACTTTGTCATA
1 TCACTTTGCCATA
7028607 GTTCAACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (27 bp):
TCACTTTGCCATATTTGGCACACTTTA
Found at i:7031173 original size:26 final size:26
Alignment explanation
Indices: 7031140--7031222 Score: 88
Period size: 26 Copynumber: 3.4 Consensus size: 26
7031130 AAAAATTATA
7031140 AAAT-AAAAATTAATTAAAATTGCAT
1 AAATGAAAAATTAATTAAAATTGCAT
* *
7031165 AAATGAAAAA--AATATTAAATAG--T
1 AAATGAAAAATTAAT-TAAAATTGCAT
*
7031188 -ATTGAAAAATTAATTAAAATTGCAT
1 AAATGAAAAATTAATTAAAATTGCAT
7031213 AAATGAAAAA
1 AAATGAAAAA
7031223 AATATTAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
22 8 0.18
23 7 0.16
24 6 0.13
25 11 0.24
26 13 0.29
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (26 bp):
AAATGAAAAATTAATTAAAATTGCAT
Found at i:7031196 original size:22 final size:22
Alignment explanation
Indices: 7031168--7031244 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
7031158 ATTGCATAAA
7031168 TGAAAAAAATATTAAATAGTAT
1 TGAAAAAAATATTAAATAGTAT
* * *
7031190 TGAAAAATTAAT-TAAAATTGCATAAA
1 TGAAAAA--AATATTAAATAG--T-AT
*
7031216 TGAAAAAAATATTAATTAGTAT
1 TGAAAAAAATATTAAATAGTAT
7031238 TGAAAAA
1 TGAAAAA
7031245 TTAAAATTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
22 15 0.36
23 7 0.17
24 6 0.14
25 6 0.14
26 8 0.19
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.31
Consensus pattern (22 bp):
TGAAAAAAATATTAAATAGTAT
Found at i:7031199 original size:48 final size:48
Alignment explanation
Indices: 7031144--7031248 Score: 201
Period size: 48 Copynumber: 2.2 Consensus size: 48
7031134 ATTATAAAAT
7031144 AAAAATTAATTAAAATTGCATAAATGAAAAAAATATTAAATAGTATTG
1 AAAAATTAATTAAAATTGCATAAATGAAAAAAATATTAAATAGTATTG
*
7031192 AAAAATTAATTAAAATTGCATAAATGAAAAAAATATTAATTAGTATTG
1 AAAAATTAATTAAAATTGCATAAATGAAAAAAATATTAAATAGTATTG
7031240 AAAAATTAA
1 AAAAATTAA
7031249 AATTATCACT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (48 bp):
AAAAATTAATTAAAATTGCATAAATGAAAAAAATATTAAATAGTATTG
Found at i:7031229 original size:26 final size:26
Alignment explanation
Indices: 7031152--7031230 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 26
7031142 ATAAAAATTA
7031152 ATTAAAATTGCATAAATGAAAAAAAT
1 ATTAAAATTGCATAAATGAAAAAAAT
* * *
7031178 ATT-AAATAG--T-ATTG-AAAAATT
1 ATTAAAATTGCATAAATGAAAAAAAT
7031199 AATTAAAATTGCATAAATGAAAAAAAT
1 -ATTAAAATTGCATAAATGAAAAAAAT
7031226 ATTAA
1 ATTAA
7031231 TTAGTATTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
21 6 0.15
22 6 0.15
23 6 0.15
25 6 0.15
26 11 0.27
27 6 0.15
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (26 bp):
ATTAAAATTGCATAAATGAAAAAAAT
Found at i:7043594 original size:13 final size:13
Alignment explanation
Indices: 7043576--7043600 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7043566 GTAAGTTTCC
7043576 AAAAATGGAAATG
1 AAAAATGGAAATG
7043589 AAAAATGGAAAT
1 AAAAATGGAAAT
7043601 TTGCAATCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (13 bp):
AAAAATGGAAATG
Found at i:7047123 original size:12 final size:12
Alignment explanation
Indices: 7047106--7047136 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7047096 TAATGAAAGT
7047106 ATAAAAGGAAAA
1 ATAAAAGGAAAA
7047118 ATAAAAGGAAAA
1 ATAAAAGGAAAA
*
7047130 AAAAAAG
1 ATAAAAG
7047137 ACATTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (12 bp):
ATAAAAGGAAAA
Found at i:7047333 original size:13 final size:13
Alignment explanation
Indices: 7047315--7047445 Score: 93
Period size: 13 Copynumber: 10.6 Consensus size: 13
7047305 AAATATCTTT
7047315 ACTCCACTAAACC
1 ACTCCACTAAACC
* **
7047328 ACTCCAACCACTCC
1 ACTCC-ACTAAACC
* *
7047342 A-ACCACTCCAACC
1 ACTCCACT-AAACC
*
7047355 ACTCTACTAAACC
1 ACTCCACTAAACC
*
7047368 ACTACACTAAACC
1 ACTCCACTAAACC
7047381 ACTCCACTAAACC
1 ACTCCACTAAACC
7047394 AC-CC-C--AACC
1 ACTCCACTAAACC
*
7047403 AC-CCTACTAAACT
1 ACTCC-ACTAAACC
7047416 ACTCCACTAAACC
1 ACTCCACTAAACC
7047429 AC-CC-C--AACC
1 ACTCCACTAAACC
7047438 ACTCCACT
1 ACTCCACT
7047446 TGCCTACAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
9 14 0.15
10 2 0.02
11 4 0.04
12 6 0.07
13 53 0.58
14 12 0.13
ACGTcount: A:0.37, C:0.49, G:0.00, T:0.15
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:7047338 original size:9 final size:9
Alignment explanation
Indices: 7047324--7047358 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
7047314 TACTCCACTA
7047324 AACCACTCC
1 AACCACTCC
7047333 AACCACTCC
1 AACCACTCC
7047342 AACCACTCC
1 AACCACTCC
7047351 AACCACTC
1 AACCACTC
7047359 TACTAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.34, C:0.54, G:0.00, T:0.11
Consensus pattern (9 bp):
AACCACTCC
Found at i:7047403 original size:35 final size:35
Alignment explanation
Indices: 7047364--7047445 Score: 130
Period size: 35 Copynumber: 2.3 Consensus size: 35
7047354 CACTCTACTA
*
7047364 AACCACTACACTAAACCACTCCACTAAACCACCCC
1 AACCACTCCACTAAACCACTCCACTAAACCACCCC
*
7047399 AACCAC-CCTACTAAACTACTCCACTAAACCACCCC
1 AACCACTCC-ACTAAACCACTCCACTAAACCACCCC
7047434 AACCACTCCACT
1 AACCACTCCACT
7047446 TGCCTACAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 1 0.02
35 40 0.93
36 2 0.05
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.13
Consensus pattern (35 bp):
AACCACTCCACTAAACCACTCCACTAAACCACCCC
Found at i:7047855 original size:3 final size:3
Alignment explanation
Indices: 7047835--7047926 Score: 68
Period size: 3 Copynumber: 30.3 Consensus size: 3
7047825 GAGCTTTGTT
* * *
7047835 TTA TTA TTT TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
7047879 TTA TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA
1 TTA TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA
7047923 TTA T
1 TTA T
7047927 ATATGCCCTC
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
2 7 0.10
3 56 0.78
4 7 0.10
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:7047901 original size:21 final size:18
Alignment explanation
Indices: 7047835--7047930 Score: 95
Period size: 18 Copynumber: 5.1 Consensus size: 18
7047825 GAGCTTTGTT
*
7047835 TTATTATTTTTATTTTATTA
1 TTATTATTATTA-TTTA-TA
* *
7047855 TTTTTACTATTATTTATA
1 TTATTATTATTATTTATA
*
7047873 TTATTATTATTATTTCTCA
1 TTATTATTATTATTTAT-A
7047892 TGTATATATTATTATTTATA
1 T-TAT-TATTATTATTTATA
7047912 TTATTATTA-TATTATATA
1 TTATTATTATTATT-TATA
7047930 T
1 T
7047931 GCCCTCTCCA
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
17 4 0.06
18 26 0.40
19 9 0.14
20 14 0.22
21 12 0.18
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TTATTATTATTATTTATA
Found at i:7047928 original size:30 final size:30
Alignment explanation
Indices: 7047835--7047930 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 30
7047825 GAGCTTTGTT
* *
7047835 TTATTATTTTTATT-TTATTAT-TTTTACTA
1 TTATTATTTATATTATTATTATATTATA-TA
*
7047864 TTATTTATATTATTATTATTATTTCTCATGTATATA
1 TTA-TTAT-TTA-TATTATTA-TTAT-AT-TATATA
7047900 TTATTATTTATATTATTATTATATTATATA
1 TTATTATTTATATTATTATTATATTATATA
7047930 T
1 T
7047931 GCCCTCTCCA
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
29 3 0.05
30 11 0.20
31 4 0.07
32 7 0.13
33 11 0.20
34 6 0.11
35 4 0.07
36 6 0.11
37 3 0.05
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (30 bp):
TTATTATTTATATTATTATTATATTATATA
Found at i:7048145 original size:12 final size:12
Alignment explanation
Indices: 7048126--7048172 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
7048116 ATTTTTGCTA
7048126 TTAT-TATATAT
1 TTATGTATATAT
* *
7048137 TTGTGTATATTT
1 TTATGTATATAT
7048149 TTATGTATATAT
1 TTATGTATATAT
* *
7048161 ATATTTATATAT
1 TTATGTATATAT
7048173 AGTATTGTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
11 3 0.10
12 26 0.90
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (12 bp):
TTATGTATATAT
Found at i:7048289 original size:12 final size:12
Alignment explanation
Indices: 7048272--7048301 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7048262 GTATTTCTAT
7048272 TATATACATATA
1 TATATACATATA
*
7048284 TATATACATTTA
1 TATATACATATA
7048296 TATATA
1 TATATA
7048302 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:7050177 original size:19 final size:19
Alignment explanation
Indices: 7050155--7050201 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
7050145 CTTCCTTTCT
7050155 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
7050174 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
7050193 TTTGCATTA
1 TTTGCATTA
7050202 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:7053741 original size:82 final size:83
Alignment explanation
Indices: 7053604--7053778 Score: 327
Period size: 82 Copynumber: 2.1 Consensus size: 83
7053594 GAAGTTTTTC
*
7053604 ATATTA-CTCTAGAAGTTTCTGAATAATACAAGAACCTGAAACAGGACTATTGTTTAGAACTCAC
1 ATATTATCTCTAGAAGTTTCTAAATAATACAAGAACCTGAAACAGGACTATTGTTTAGAACTCAC
7053668 CAAGCCTAAGGGTTGGAA
66 CAAGCCTAAGGGTTGGAA
7053686 ATATTATCTCT-GAAGTTTCTAAATAATACAAGAACCTGAAACAGGACTATTGTTTAGAACTCAC
1 ATATTATCTCTAGAAGTTTCTAAATAATACAAGAACCTGAAACAGGACTATTGTTTAGAACTCAC
7053750 CAAGCCTAAGGGTTGGAA
66 CAAGCCTAAGGGTTGGAA
7053768 ATATTATCTCT
1 ATATTATCTCT
7053779 TTGGACTCTT
Statistics
Matches: 91, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
82 87 0.96
83 4 0.04
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (83 bp):
ATATTATCTCTAGAAGTTTCTAAATAATACAAGAACCTGAAACAGGACTATTGTTTAGAACTCAC
CAAGCCTAAGGGTTGGAA
Found at i:7054376 original size:65 final size:60
Alignment explanation
Indices: 7054267--7054391 Score: 187
Period size: 61 Copynumber: 2.0 Consensus size: 60
7054257 TCTACAATAA
*
7054267 CACATTTAGTTAGGAGTATTTGATTCATTTCATAGCATCCTAATTATTTGACATAAAGCAT
1 CACATTTAGTTAGGAGCATTTGATTCATTTCATAGCATCCTAATTATTTGACAT-AAGCAT
*
7054328 CACATTTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATTTAGTTAGGAGCATTTGATTCA-TT---TCATAGCATCCTAATTATTTGACATAAGCAT
7054392 GGATACATGA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 26 0.45
62 2 0.03
64 6 0.10
65 24 0.41
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (60 bp):
CACATTTAGTTAGGAGCATTTGATTCATTTCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:7055176 original size:132 final size:132
Alignment explanation
Indices: 7055009--7056368 Score: 2302
Period size: 132 Copynumber: 10.3 Consensus size: 132
7054999 TCGAAGATTA
** * *
7055009 CAGATTTGGCATCCCTGTATTTATAGGGAACAGATCGAAGATAGTAGATCTGACATTCCTATGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
* *
7055074 TACAATGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTAAAAAC
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAC
7055139 AG
131 AG
* * * **
7055141 TAGATTTGGCATCTCTGTGCTTATAGGGAATAGATCGAAGATAATAGATCTGACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
*
7055206 TACAGTGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAAC
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAC
*
7055271 AA
131 AG
*
7055273 CAGATTTGGCAT-CCTCGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGC
1 CAGATTTGGCATCCCT-GTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* *
7055337 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTACTTATAGTGAACAAGTTGAAAA
65 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
7055402 CAG
130 CAG
*
7055405 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
7055470 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAC
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAC
7055535 AG
131 AG
* ** **
7055537 CAGATTTGACATCCCTGTATTTATAGGGAACAGATCGAAGATAATAGATCTGACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
* * * *
7055602 TACGGTGAAGCAGATCGAAG-----AGCATGGCATCCCAGTGCTTATAGGGAACAAGTTGAAGAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAC
7055662 AG
131 AG
*
7055664 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATCTGACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
*
7055729 TACAGTGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAAC
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAC
*
7055794 AA
131 AG
*
7055796 CAGATTTGGCAT-CCTCGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGC
1 CAGATTTGGCATCCCT-GTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
*
7055860 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTACTTATAGGGAACAAGTTGAAAA
65 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
7055925 CAG
130 CAG
7055928 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
* *
7055993 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAC
7056058 AG
131 AG
*
7056060 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATCTGACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
*
7056125 TACAGTGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAC
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAC
7056190 AG
131 AG
*
7056192 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATCTGACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
*
7056257 TACAGTGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAC
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAC
7056322 AG
131 AG
* *
7056324 CAGATTTGGCATCCCTGTGCTTATAGAGAACAGATCAAAGATAGC
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGC
7056369 GGCCCAAAAC
Statistics
Matches: 1158, Mismatches: 61, Indels: 18
0.94 0.05 0.01
Matches are distributed among these distances:
127 117 0.10
131 5 0.00
132 1030 0.89
133 6 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAC
AG
Found at i:7056220 original size:655 final size:656
Alignment explanation
Indices: 7055001--7056368 Score: 2303
Period size: 655 Copynumber: 2.1 Consensus size: 656
7054991 AGAGCAGATC
** *
7055001 GAAGATTA-CAGATTTGGCATCCCTGTATTTATAGGGAACAGATCGAAGATAGTAGATCTGACAT
1 GAAGA-TAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACAT
*
7055065 TCCTATGCTTACAATGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAA
65 TCCTATGCTTACAATGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAA
** * *
7055130 GTTAAAAACAGTAGATTTGGCATCTCTGTGCTTATAGGGAATAGATCGAAGATAATAGATCTGAC
130 GTTAAAAACAACAGATTTGGCATCTCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGAC
* *
7055195 ATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAGGGAAC
195 ATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTACTTATAGGGAAC
7055260 AAGTTGAAAACAACAGATTTGGCATCCTCGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTG
260 AAGTTGAAAACAACAGATTTGGCATCCTCGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTG
*
7055325 ACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTACTTATAGTGA
325 ACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTACTTATAGGGA
7055390 ACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
390 ACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
7055455 TGACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGG
455 TGACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGG
* *
7055520 GAACAAGTTGAAAACAGCAGATTTGACATCCCTGTATTTATAGGGAACAGATCGAAGATAATAGA
520 GAACAAGTTGAAAACAGCAGATTTGACATCCCTGTACTTATAGGGAACAGATCGAAGATAACAGA
*
7055585 TCTGACATTCCTGTGCTTACGGTGAAGCAGATCGAAG-AGCATGGCATCCCAGTGCTTATAGGGA
585 TCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGTAGCATGGCATCCCAGTGCTTATAGGGA
7055649 ACAAGTT
650 ACAAGTT
*
7055656 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATCTGACATT
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
* *
7055721 CCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAAG
66 CCTATGCTTACAATGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAAG
* *
7055786 TTGAAAACAACAGATTTGGCATC-CTCGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGAC
131 TTAAAAACAACAGATTTGGCATCTCT-GTGCTTATAGGGAACAGATCGAAGATAACAGATCTGAC
*
7055850 ATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTACTTATAGGGAAC
195 ATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTACTTATAGGGAAC
*
7055915 AAGTTGAAAACAGCAGATTTGGCATCC-CTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCT
260 AAGTTGAAAACAACAGATTTGGCATCCTC-GTGCTTATAGGGAACAGATCGAAGATAGCAGATCT
* *
7055979 GACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGG
324 GACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTACTTATAGGG
* * *
7056044 AACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGAT
389 AACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGAT
* *
7056109 CTGACATTCCTGTGCTTACAGTGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGCTTATAG
454 CTGACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAG
* * * *
7056174 GGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAG
519 GGAACAAGTTGAAAACAGCAGATTTGACATCCCTGTACTTATAGGGAACAGATCGAAGATAACAG
* *
7056239 ATCTGACATTCCTGTGCTTACAGTGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGCTTAT
584 ATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAG---T-AGCATGGCATCCCAGTGCTTAT
7056304 AGGGAACAAGTT
645 AGGGAACAAGTT
* * * *
7056316 GAAAACAGCAGATTTGGCATCCCTGTGCTTATAGAGAACAGATCAAAGATAGC
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGC
7056369 GGCCCAAAAC
Statistics
Matches: 666, Mismatches: 39, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
654 5 0.01
655 580 0.87
660 81 0.12
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (656 bp):
GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
CCTATGCTTACAATGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAAG
TTAAAAACAACAGATTTGGCATCTCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACA
TTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTACTTATAGGGAACA
AGTTGAAAACAACAGATTTGGCATCCTCGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGA
CATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTACTTATAGGGAA
CAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCT
GACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGG
AACAAGTTGAAAACAGCAGATTTGACATCCCTGTACTTATAGGGAACAGATCGAAGATAACAGAT
CTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGTAGCATGGCATCCCAGTGCTTATAGGGAA
CAAGTT
Found at i:7056495 original size:13 final size:13
Alignment explanation
Indices: 7056477--7056618 Score: 121
Period size: 13 Copynumber: 11.5 Consensus size: 13
7056467 AAATATCTTT
7056477 ACTCCACTAAACC
1 ACTCCACTAAACC
7056490 ACT-C-C--AACC
1 ACTCCACTAAACC
7056499 ACT-C-C-AA-CC
1 ACTCCACTAAACC
7056508 ACTCCACTAAACC
1 ACTCCACTAAACC
*
7056521 ACTCCAACCACTCCAACC
1 ACT----CCACT-AAACC
7056539 ACTCCACTAAACC
1 ACTCCACTAAACC
*
7056552 ACTACACTAAACC
1 ACTCCACTAAACC
7056565 ACTCCACTAAACC
1 ACTCCACTAAACC
7056578 A--CC-CT-AACC
1 ACTCCACTAAACC
7056587 AC-CCTACTAAACC
1 ACTCC-ACTAAACC
7056600 ACTCCACTAAACC
1 ACTCCACTAAACC
7056613 ACTCCA
1 ACTCCA
7056619 ACCACTCCAC
Statistics
Matches: 110, Mismatches: 4, Indels: 30
0.76 0.03 0.21
Matches are distributed among these distances:
9 19 0.17
10 6 0.05
11 4 0.04
12 5 0.05
13 57 0.52
14 7 0.06
17 5 0.05
18 7 0.06
ACGTcount: A:0.37, C:0.49, G:0.00, T:0.14
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:7056500 original size:9 final size:9
Alignment explanation
Indices: 7056486--7056544 Score: 82
Period size: 9 Copynumber: 6.1 Consensus size: 9
7056476 TACTCCACTA
7056486 AACCACTCC
1 AACCACTCC
7056495 AACCACTCC
1 AACCACTCC
7056504 AACCACTCCAC
1 AACCACT-C-C
7056515 TAAACCACTCC
1 --AACCACTCC
7056526 AACCACTCC
1 AACCACTCC
7056535 AACCACTCC
1 AACCACTCC
7056544 A
1 A
7056545 CTAAACCACT
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
9 35 0.76
10 1 0.02
11 2 0.04
12 1 0.02
13 7 0.15
ACGTcount: A:0.36, C:0.53, G:0.00, T:0.12
Consensus pattern (9 bp):
AACCACTCC
Found at i:7056515 original size:31 final size:31
Alignment explanation
Indices: 7056477--7056627 Score: 197
Period size: 31 Copynumber: 4.9 Consensus size: 31
7056467 AAATATCTTT
7056477 ACTCCACTAAACCACTCCAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACCACTCCAACC
7056508 ACTCCACTAAACCACTCCAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACCACTCCAACC
*
7056539 ACTCCACTAAACCACT---A-CACT-AAACC
1 ACTCCACTAAACCACTCCAACCACTCCAACC
*
7056565 ACTCCACTAAACCAC-CCTAACCACCCTACTAAACC
1 ACTCCACTAAACCACTCC-AACCA--CT-C-CAACC
7056600 ACTCCACTAAACCACTCCAACCACTCCA
1 ACTCCACTAAACCACTCCAACCACTCCA
7056628 CTTGCCTACA
Statistics
Matches: 107, Mismatches: 2, Indels: 22
0.82 0.02 0.17
Matches are distributed among these distances:
26 19 0.18
27 4 0.04
28 1 0.01
29 1 0.01
30 2 0.02
31 48 0.45
32 3 0.03
33 2 0.02
35 25 0.23
36 2 0.02
ACGTcount: A:0.37, C:0.49, G:0.00, T:0.14
Consensus pattern (31 bp):
ACTCCACTAAACCACTCCAACCACTCCAACC
Found at i:7056587 original size:35 final size:35
Alignment explanation
Indices: 7056548--7056629 Score: 123
Period size: 35 Copynumber: 2.3 Consensus size: 35
7056538 CACTCCACTA
*
7056548 AACCACTACACTAAACCACTCCACTAAACCAC-CC
1 AACCACTCCACTAAACCACTCCACTAAACCACTCC
7056582 TAACCAC-CCTACTAAACCACTCCACTAAACCACTCC
1 -AACCACTCC-ACTAAACCACTCCACTAAACCACTCC
7056618 AACCACTCCACT
1 AACCACTCCACT
7056630 TGCCTACAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
34 1 0.02
35 38 0.88
36 4 0.09
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.15
Consensus pattern (35 bp):
AACCACTCCACTAAACCACTCCACTAAACCACTCC
Found at i:7057347 original size:18 final size:19
Alignment explanation
Indices: 7057306--7057367 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 19
7057296 CTATTACTAT
* *
7057306 TATTATTATATATTAGTGTA
1 TATTTTTATATA-TAGTATA
*
7057326 TATTTTTATGTATA-TATA
1 TATTTTTATATATAGTATA
7057344 TA-TTTTATATATAGTAT-
1 TATTTTTATATATAGTATA
7057361 TATTTTT
1 TATTTTT
7057368 TATTACTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 12 0.33
18 12 0.33
19 2 0.06
20 10 0.28
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TATTTTTATATATAGTATA
Found at i:7057483 original size:19 final size:20
Alignment explanation
Indices: 7057425--7057488 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 20
7057415 ATATTTATTA
* *
7057425 TTATATAGTAGTGTGTATTTCT
1 TTATATA-TAGTATATATTT-T
*
7057447 ATTATATACA-TATATATTTT
1 -TTATATATAGTATATATTTT
*
7057467 TTATATATAGTAT-TATTAT
1 TTATATATAGTATATATTTT
7057486 TTA
1 TTA
7057489 CTTTACTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 16 0.46
20 4 0.11
21 7 0.20
22 1 0.03
23 7 0.20
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (20 bp):
TTATATATAGTATATATTTT
Found at i:7060482 original size:10 final size:10
Alignment explanation
Indices: 7060453--7060482 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
7060443 CAAAATTTTA
7060453 TTTTAATATT
1 TTTTAATATT
7060463 TTTTATATATT
1 TTTTA-ATATT
7060474 TTTTAATAT
1 TTTTAATAT
7060483 GCACAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTAATATT
Found at i:7061590 original size:31 final size:30
Alignment explanation
Indices: 7061545--7061625 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
7061535 AATGCGTATG
*
7061545 ATTAAATCAAAATTAAAGTTTCAAC-TATATA
1 ATTAAA-CCAAATTAAAGTTTC-ACGTATATA
* * *
7061576 TTTAAACCACAATTAGAGTTTCACGTGTATA
1 ATTAAACCA-AATTAAAGTTTCACGTATATA
*
7061607 ATTACACCAAATTAAAGTT
1 ATTAAACCAAATTAAAGTT
7061626 CGTGTATGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
30 13 0.32
31 28 0.68
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (30 bp):
ATTAAACCAAATTAAAGTTTCACGTATATA
Found at i:7062288 original size:23 final size:20
Alignment explanation
Indices: 7062260--7062314 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
7062250 AACTATAACA
7062260 AAATATAAATATATTAAATTATT
1 AAATATAAATATATTAAA--A-T
*
7062283 AAATAT---TATGTTAAAAT
1 AAATATAAATATATTAAAAT
7062300 AAATATAAATATATT
1 AAATATAAATATATT
7062315 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
17 7 0.26
18 1 0.04
20 13 0.48
23 6 0.22
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
AAATATAAATATATTAAAAT
Found at i:7064238 original size:16 final size:16
Alignment explanation
Indices: 7064217--7064248 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7064207 ATGACTATAT
7064217 ATAAAACTATAATAAA
1 ATAAAACTATAATAAA
*
7064233 ATAAAACTATATTAAA
1 ATAAAACTATAATAAA
7064249 TTATTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAACTATAATAAA
Found at i:7064758 original size:25 final size:25
Alignment explanation
Indices: 7064679--7064760 Score: 71
Period size: 25 Copynumber: 3.1 Consensus size: 25
7064669 AACACGTCTA
7064679 TATTTTTTTATTT-TTTAAATATTAATAT
1 TATTTTTTTATTTATTTAAA-ATT--T-T
*
7064707 TATATTATTTTA-ATATTTAATAA-TTT
1 TAT-TT-TTTTATTTATTTAA-AATTTT
7064733 TATTTTTTTATTTATTTAAAATTTT
1 TATTTTTTTATTTATTTAAAATTTT
7064758 TAT
1 TAT
7064761 ATCTACCTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
24 7 0.15
25 15 0.33
26 4 0.09
27 1 0.02
28 3 0.07
29 4 0.09
30 11 0.24
31 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
TATTTTTTTATTTATTTAAAATTTT
Found at i:7065550 original size:24 final size:25
Alignment explanation
Indices: 7065500--7065551 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
7065490 AATCTTAAGA
* ** *
7065500 AAATTTTATTCAATTATTTTTATTT
1 AAATTTAATTCAATTATCATTACTT
7065525 AAATTTAATT-AATTATCATTACTT
1 AAATTTAATTCAATTATCATTACTT
7065549 AAA
1 AAA
7065552 AAGTTTTAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (25 bp):
AAATTTAATTCAATTATCATTACTT
Found at i:7069431 original size:17 final size:17
Alignment explanation
Indices: 7069375--7069460 Score: 61
Period size: 17 Copynumber: 4.9 Consensus size: 17
7069365 ACTTAATCAC
*
7069375 TTTAATATTAAATTTAA
1 TTTAATATTAAATTAAA
* *
7069392 TCTAATATT-TATTAAGA
1 TTTAATATTAAATTAA-A
* *
7069409 -TAAATATTAGATTAAA
1 TTTAATATTAAATTAAA
7069425 TTTAATATT-AATATAATCA
1 TTTAATATTAAAT-TAA--A
7069444 CTTTAATATTAAATTAA
1 -TTTAATATTAAATTAA
7069461 TAAAATACTA
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
16 13 0.25
17 24 0.45
19 1 0.02
20 12 0.23
21 3 0.06
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (17 bp):
TTTAATATTAAATTAAA
Found at i:7069474 original size:25 final size:26
Alignment explanation
Indices: 7069426--7069484 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
7069416 TAGATTAAAT
*
7069426 TTAATATTAATATAATCACTTTAATA
1 TTAATATTAATAAAATCACTTTAATA
*
7069452 TTAA-ATTAATAAAAT-ACTATTAAGA
1 TTAATATTAATAAAATCACT-TTAATA
*
7069477 TAAATATT
1 TTAATATT
7069485 TAATTTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 3 0.11
25 18 0.64
26 7 0.25
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (26 bp):
TTAATATTAATAAAATCACTTTAATA
Found at i:7069510 original size:70 final size:72
Alignment explanation
Indices: 7069360--7069510 Score: 215
Period size: 68 Copynumber: 2.2 Consensus size: 72
7069350 TTCAACTATG
** *
7069360 ATTAAACT-TAATCACTTTAATATTAAATTTAATCTAATATTTATTAAGATAAATATTAGATTAA
1 ATTAAACTATAATCACTTTAATATTAAATTTAATAAAATATCTATTAAGATAAATATTAGATTAA
7069424 ATTTAAT
66 ATTTAAT
*
7069431 ATT-AA-TATAATCACTTTAATATTAAA-TTAATAAAATA-CTATTAAGATAAATATTTA-ATTT
1 ATTAAACTATAATCACTTTAATATTAAATTTAATAAAATATCTATTAAGATAAATA-TTAGATTA
7069491 AATTTAAT
65 AATTTAAT
7069499 ATTAAACTATAA
1 ATTAAACTATAA
7069511 AATAATATTA
Statistics
Matches: 72, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
68 28 0.39
69 15 0.21
70 26 0.36
71 3 0.04
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (72 bp):
ATTAAACTATAATCACTTTAATATTAAATTTAATAAAATATCTATTAAGATAAATATTAGATTAA
ATTTAAT
Found at i:7071383 original size:28 final size:27
Alignment explanation
Indices: 7071352--7071408 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
7071342 TAAAATAGAA
* *
7071352 TATACACAAAGATTTAAAATAAATCATG
1 TATACA-AAAAATTTAAAATAAATAATG
*
7071380 TATATAAAAAATTTAAAATAAATAATG
1 TATACAAAAAATTTAAAATAAATAATG
7071407 TA
1 TA
7071409 AAAATAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (27 bp):
TATACAAAAAATTTAAAATAAATAATG
Found at i:7072052 original size:23 final size:23
Alignment explanation
Indices: 7072026--7072074 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
7072016 GCTTCAATAT
*
7072026 TAACAATAACGA-AAATAATAGAA
1 TAACAACAACGACAAATAA-AGAA
*
7072049 TAACAACAATGACAAATAAAGAA
1 TAACAACAACGACAAATAAAGAA
7072072 TAA
1 TAA
7072075 TAATGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.65, C:0.10, G:0.08, T:0.16
Consensus pattern (23 bp):
TAACAACAACGACAAATAAAGAA
Found at i:7072217 original size:26 final size:24
Alignment explanation
Indices: 7072183--7072242 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
7072173 GCAATAATAG
7072183 AATTAATAATAAAAATAAAGTTGATT
1 AATTAATAA-AAAAA-AAAGTTGATT
**
7072209 AATTAATAAAAAAAATGGTTGATT
1 AATTAATAAAAAAAAAAGTTGATT
7072233 AATTAA-AAAA
1 AATTAATAAAA
7072243 GGACTATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 4 0.12
24 14 0.44
25 5 0.16
26 9 0.28
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (24 bp):
AATTAATAAAAAAAAAAGTTGATT
Found at i:7072229 original size:24 final size:23
Alignment explanation
Indices: 7072184--7072242 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
7072174 CAATAATAGA
7072184 ATTAA-TAATAAAAATAAAGTTG
1 ATTAATTAATAAAAATAAAGTTG
7072206 ATTAATTAATAAAAA-AAATGGTTG
1 ATTAATTAATAAAAATAAA--GTTG
7072230 ATTAATTAA-AAAA
1 ATTAATTAATAAAA
7072243 GGACTATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.24
23 13 0.38
24 13 0.38
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (23 bp):
ATTAATTAATAAAAATAAAGTTG
Found at i:7074052 original size:74 final size:75
Alignment explanation
Indices: 7073949--7074239 Score: 478
Period size: 74 Copynumber: 3.9 Consensus size: 75
7073939 CAAACAATAA
* * *
7073949 TTGAAAATACCTCAGTGTACCCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTTG
1 TTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGATTTTTTTG
7074013 AAAGTAGAAT
66 AAAGTAGAAT
* *
7074023 TTGAAAATACCTCGGCGTGTCCCGAGGCTCTACTCACCTCTCGCAA-TATGAGTTGATTTTTTTG
1 TTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGATTTTTTTG
7074087 AAAGTAGAAT
66 AAAGTAGAAT
* * *
7074097 TTGAAAATACCTCGGCGTGTCCCGAGGCTCTACTCACCTCTCGCAATTATGAGTTGATTTTTTTT
1 TTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGATTTTTTTG
7074162 AAAGTAGAAT
66 AAAGTAGAAT
* *
7074172 TTGAAAATACTTCGGCGTGCCCCGAGGTTCAACTCACCTCTCGCAATTATGAGTTGATTTTTTTG
1 TTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGATTTTTTTG
7074237 AAA
66 AAA
7074240 ACAGAAATGA
Statistics
Matches: 205, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
74 115 0.56
75 90 0.44
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (75 bp):
TTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGATTTTTTTG
AAAGTAGAAT
Found at i:7074207 original size:149 final size:149
Alignment explanation
Indices: 7073949--7074239 Score: 476
Period size: 149 Copynumber: 2.0 Consensus size: 149
7073939 CAAACAATAA
*
7073949 TTGAAAATACCTCAGTGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* *
7074014 AAGTAGAATTTGAAAATACCTCGGCGTGTCCCGAGGCTCTACTCACCTCTCGCAA-TATGAGTTG
66 AAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTG
7074078 ATTTTTTTGAAAGTAGAAT
131 ATTTTTTTGAAAGTAGAAT
* ** * *
7074097 TTGAAAATACCTCGGCGTGTCCCGAGGCTCTACTCACCTCTCGCAATTATGAGTTGATTTTTTTT
1 TTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTTG
* *
7074162 AAAGTAGAATTTGAAAATACTTCGGCGTGCCCCGAGGTTCAACTCACCTCTCGCAATTATGAGTT
65 AAAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTT
7074227 GATTTTTTTGAAA
130 GATTTTTTTGAAA
7074240 ACAGAAATGA
Statistics
Matches: 131, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
148 41 0.31
149 69 0.53
150 21 0.16
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (149 bp):
TTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
AAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTG
ATTTTTTTGAAAGTAGAAT
Found at i:7080838 original size:13 final size:13
Alignment explanation
Indices: 7080820--7080847 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7080810 GATAAAAGAG
7080820 CATATAGAATACC
1 CATATAGAATACC
7080833 CATATAGAATACC
1 CATATAGAATACC
7080846 CA
1 CA
7080848 GAAGAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:7083416 original size:50 final size:50
Alignment explanation
Indices: 7083292--7083540 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
7083282 GATAATAACA
* * ** * *
7083292 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
7083343 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
7083393 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
7083443 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
7083498 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
7083541 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:7083470 original size:100 final size:104
Alignment explanation
Indices: 7083291--7083540 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
7083281 TGATAATAAC
**
7083291 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
7083356 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
7083393 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
7083456 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
7083498 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7083541 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:7083656 original size:13 final size:13
Alignment explanation
Indices: 7083635--7083666 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7083625 GCTTGGATCA
*
7083635 TCATCAAATAAAT
1 TCATAAAATAAAT
7083648 TCATAAAATAAAT
1 TCATAAAATAAAT
7083661 TCATAA
1 TCATAA
7083667 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:7083913 original size:30 final size:30
Alignment explanation
Indices: 7083878--7083935 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7083868 CCTCGACTCT
*
7083878 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
7083908 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
7083936 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:7091009 original size:50 final size:50
Alignment explanation
Indices: 7090885--7091133 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
7090875 GATAATAACA
* * ** * *
7090885 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
7090936 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
7090986 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
7091036 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
7091091 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
7091134 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:7091063 original size:100 final size:104
Alignment explanation
Indices: 7090884--7091133 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
7090874 TGATAATAAC
**
7090884 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
7090949 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
7090986 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
7091049 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
7091091 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7091134 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:7091249 original size:13 final size:13
Alignment explanation
Indices: 7091228--7091259 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7091218 GCTTGGATCA
*
7091228 TCATCAAATAAAT
1 TCATAAAATAAAT
7091241 TCATAAAATAAAT
1 TCATAAAATAAAT
7091254 TCATAA
1 TCATAA
7091260 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:7091506 original size:30 final size:30
Alignment explanation
Indices: 7091471--7091528 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7091461 CCTCGACTCT
*
7091471 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
7091501 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
7091529 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:7097625 original size:30 final size:30
Alignment explanation
Indices: 7097584--7097650 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
7097574 AGAATATATA
* *
7097584 TTTTTAGCACTTACATTTTCAATACTTAAT
1 TTTTTAACACTTACATTTTCAACACTTAAT
** *
7097614 TTTTTAACACTTATTTTTTCAACCCTTAAT
1 TTTTTAACACTTACATTTTCAACACTTAAT
7097644 TTTTTAA
1 TTTTTAA
7097651 TTTATCAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.16, G:0.01, T:0.54
Consensus pattern (30 bp):
TTTTTAACACTTACATTTTCAACACTTAAT
Found at i:7097629 original size:14 final size:15
Alignment explanation
Indices: 7097584--7097650 Score: 66
Period size: 15 Copynumber: 4.5 Consensus size: 15
7097574 AGAATATATA
*
7097584 TTTTTAGCACTTACA-
1 TTTTTAACACTTA-AT
* *
7097599 TTTTCAATACTTAAT
1 TTTTTAACACTTAAT
7097614 TTTTTAACACTT-AT
1 TTTTTAACACTTAAT
*
7097628 TTTTTCAACCCTTAAT
1 TTTTT-AACACTTAAT
7097644 TTTTTAA
1 TTTTTAA
7097651 TTTATCAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
14 8 0.19
15 28 0.65
16 7 0.16
ACGTcount: A:0.28, C:0.16, G:0.01, T:0.54
Consensus pattern (15 bp):
TTTTTAACACTTAAT
Found at i:7101277 original size:16 final size:16
Alignment explanation
Indices: 7101258--7101288 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7101248 AGAATGTTCG
7101258 TTTGAGTGAATAAATC
1 TTTGAGTGAATAAATC
*
7101274 TTTGGGTGAATAAAT
1 TTTGAGTGAATAAAT
7101289 TTGATTATAT
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:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (16 bp):
TTTGAGTGAATAAATC
Found at i:7102412 original size:13 final size:14
Alignment explanation
Indices: 7102390--7102423 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
7102380 TTAATGATTT
7102390 TAAA-AAAAATT-A
1 TAAATAAAAATTAA
7102402 TAAATAAAAATTAA
1 TAAATAAAAATTAA
7102416 TAAATAAA
1 TAAATAAA
7102424 CTAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 7 0.35
14 9 0.45
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAATTAA
Found at i:7119709 original size:22 final size:21
Alignment explanation
Indices: 7119674--7119714 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
7119664 AGTCTCTTTA
7119674 TTTTTATTTATAAAATTTATT
1 TTTTTATTTATAAAATTTATT
*
7119695 TTTTTATATTTTAAAATTTA
1 TTTTTAT-TTATAAAATTTA
7119715 AAATTTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTATTTATAAAATTTATT
Found at i:7122529 original size:21 final size:21
Alignment explanation
Indices: 7122503--7122547 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
7122493 CCTTCATCAT
7122503 TGATTATCACGTTACTACGGA
1 TGATTATCACGTTACTACGGA
7122524 TGATTATCACGTTACTACGGA
1 TGATTATCACGTTACTACGGA
7122545 TGA
1 TGA
7122548 CTTTTGAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (21 bp):
TGATTATCACGTTACTACGGA
Found at i:7123693 original size:17 final size:16
Alignment explanation
Indices: 7123662--7123696 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
7123652 AAATAATAAT
7123662 AATTTTATATTTAAAA
1 AATTTTATATTTAAAA
*
7123678 AATTTATATTTTTAAAA
1 AATTT-TATATTTAAAA
7123695 AA
1 AA
7123697 AATATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTTTATATTTAAAA
Found at i:7131746 original size:9 final size:9
Alignment explanation
Indices: 7131696--7131756 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
7131686 CATTTTAATT
7131696 TTTTTA-AA
1 TTTTTATAA
7131704 TTTTTATGAA
1 TTTTTAT-AA
*
7131714 CTTTTT-TAT
1 -TTTTTATAA
*
7131723 TTTTTATTA
1 TTTTTATAA
7131732 TTTTTATAA
1 TTTTTATAA
7131741 TTTTTA-AA
1 TTTTTATAA
7131749 TTATTTAT
1 TT-TTTAT
7131757 TGATGTAACA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 15 0.35
9 20 0.47
10 3 0.07
11 5 0.12
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTTATAA
Found at i:7131755 original size:27 final size:28
Alignment explanation
Indices: 7131703--7131757 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
7131693 ATTTTTTTAA
* *
7131703 ATTTTTATGAACTTTTTTATTTTTTATT
1 ATTTTTATGAACTTTTTAATTATTTATT
7131731 ATTTTTAT-AA-TTTTTAAATTATTTATT
1 ATTTTTATGAACTTTTT-AATTATTTATT
7131758 GATGTAACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.21
27 11 0.46
28 8 0.33
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (28 bp):
ATTTTTATGAACTTTTTAATTATTTATT
Found at i:7135150 original size:16 final size:17
Alignment explanation
Indices: 7135129--7135160 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7135119 TAATATTTAC
7135129 ATATTTATTA-ATAAAT
1 ATATTTATTATATAAAT
7135145 ATATTTATTATATAAA
1 ATATTTATTATATAAA
7135161 ATTTTCATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTTATTATATAAAT
Found at i:7136572 original size:29 final size:30
Alignment explanation
Indices: 7136540--7136596 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
7136530 TGGTTTAATA
*
7136540 TGTAATTGTATATATG-AACTTTGATTTTG
1 TGTAATTGTATACATGAAACTTTGATTTTG
* *
7136569 TGTAATTTTATACATGAAATTTTGATTT
1 TGTAATTGTATACATGAAACTTTGATTT
7136597 GATCCAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.53
Consensus pattern (30 bp):
TGTAATTGTATACATGAAACTTTGATTTTG
Found at i:7136597 original size:29 final size:29
Alignment explanation
Indices: 7136517--7136596 Score: 79
Period size: 31 Copynumber: 2.7 Consensus size: 29
7136507 ATACTAAAAT
* * *
7136517 TATACATGAACTATGGTTTAATATGTAATTG
1 TATACATGAACTTTGATTT--TGTGTAATTG
* *
7136548 TATATATGAACTTTGATTTTGTGTAATTT
1 TATACATGAACTTTGATTTTGTGTAATTG
*
7136577 TATACATGAAATTTTGATTT
1 TATACATG-AACTTTGATTT
7136597 GATCCAATTC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 15 0.37
30 10 0.24
31 16 0.39
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (29 bp):
TATACATGAACTTTGATTTTGTGTAATTG
Found at i:7136822 original size:29 final size:31
Alignment explanation
Indices: 7136754--7136832 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 31
7136744 AAATTAATGT
* * *
7136754 TTCAAGTATACATTTGA-ACCACAATTAGAAT
1 TTCACGTATACAATT-ACACCACAATTAGAAA
**
7136785 TTCACGTATATTATTACACCA-AATTA-AAA
1 TTCACGTATACAATTACACCACAATTAGAAA
*
7136814 TTCATGTATACAATTACAC
1 TTCACGTATACAATTACAC
7136833 ATTAAATCAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 18 0.46
30 6 0.15
31 15 0.38
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (31 bp):
TTCACGTATACAATTACACCACAATTAGAAA
Found at i:7137636 original size:22 final size:22
Alignment explanation
Indices: 7137583--7137636 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
7137573 GAATTAGTTG
* * **
7137583 TTTTCTTGTTGTTTTGCTTTCA
1 TTTTATTGTTGTTTTACTACCA
* *
7137605 TTTCACTGTTGTTTTACTACCA
1 TTTTATTGTTGTTTTACTACCA
7137627 TTTTATTGTT
1 TTTTATTGTT
7137637 ATTATTTGGA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.11, C:0.15, G:0.11, T:0.63
Consensus pattern (22 bp):
TTTTATTGTTGTTTTACTACCA
Found at i:7138625 original size:12 final size:13
Alignment explanation
Indices: 7138593--7138627 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
7138583 ATATTTGTCT
7138593 CTTTCCCCAAGTA
1 CTTTCCCCAAGTA
7138606 CTTTCCCCAAGTA
1 CTTTCCCCAAGTA
*
7138619 CTTCCCCCA
1 CTTTCCCCA
7138628 TTTTCTTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.46, G:0.06, T:0.29
Consensus pattern (13 bp):
CTTTCCCCAAGTA
Found at i:7143569 original size:15 final size:16
Alignment explanation
Indices: 7143549--7143578 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7143539 TATTTAAAAT
7143549 TTAAAA-TTATTATTG
1 TTAAAATTTATTATTG
7143564 TTAAAATTTATTATT
1 TTAAAATTTATTATT
7143579 AAAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTAAAATTTATTATTG
Found at i:7143597 original size:19 final size:18
Alignment explanation
Indices: 7143565--7143600 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
7143555 TTATTATTGT
*
7143565 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
7143583 TAAAATTGTAATATTAAA
1 TAAAATT-TAATATTAAA
7143601 TTATATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:7143632 original size:22 final size:22
Alignment explanation
Indices: 7143568--7143634 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
7143558 TTATTGTTAA
7143568 AATT-TATTATTAAA-AT-AA-
1 AATTATATTATTAAATATAAAT
* * *
7143586 AATTGTAATATTAAAT-TATATT
1 AATTATATTATTAAATATA-AAT
7143608 AATTATATTATTAAATATAAAT
1 AATTATATTATTAAATATAAAT
7143630 AATTA
1 AATTA
7143635 AATAGGTATG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
18 4 0.11
19 10 0.26
21 1 0.03
22 21 0.55
23 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (22 bp):
AATTATATTATTAAATATAAAT
Found at i:7148455 original size:45 final size:45
Alignment explanation
Indices: 7148400--7148489 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
7148390 CTTAAACCTT
*
7148400 GAATTAATGGATTATTACTGGGCATGGGCATTCTTGACTTTGTAG
1 GAATCAATGGATTATTACTGGGCATGGGCATTCTTGACTTTGTAG
7148445 GAATCAATGGATTATTACTGGGCATGGGCATTCTTGACTTTGTAG
1 GAATCAATGGATTATTACTGGGCATGGGCATTCTTGACTTTGTAG
7148490 ACTTCTTCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (45 bp):
GAATCAATGGATTATTACTGGGCATGGGCATTCTTGACTTTGTAG
Found at i:7162822 original size:28 final size:30
Alignment explanation
Indices: 7162779--7162835 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
7162769 TGAGATTGAA
7162779 ATATTAAATAACTTATTAAATGA-TAAATT
1 ATATTAAATAACTTATTAAATGATTAAATT
* *
7162808 ATATT-AATAATTTATTATATGATTAAAT
1 ATATTAAATAACTTATTAAATGATTAAAT
7162836 ATAAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (30 bp):
ATATTAAATAACTTATTAAATGATTAAATT
Found at i:7162864 original size:26 final size:27
Alignment explanation
Indices: 7162798--7162865 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 27
7162788 AACTTATTAA
* * *
7162798 ATGATAAATTATATTAATAATTTATTAT
1 ATGATTAATTATA-TAATAATTAAATAT
*
7162826 ATGATTAAATATA-AATAATTAAATAT
1 ATGATTAATTATATAATAATTAAATAT
7162852 AT-ATTTAATTATAT
1 ATGA-TTAATTATAT
7162866 CAAAAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
25 1 0.03
26 21 0.64
28 11 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (27 bp):
ATGATTAATTATATAATAATTAAATAT
Done.