Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 127 of 228
Found at i:37674198 original size:103 final size:104
Alignment explanation
Indices: 37674016--37674228 Score: 331
Period size: 103 Copynumber: 2.1 Consensus size: 104
37674006 AGTGGATAAG
* *
37674016 TTGTA-GAATTACCGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTATAGGGTAGAATT
1 TTGTAGGAATTACCAAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTATAGGGTAGAATT
** * *
37674080 ACCGAAATGCCCTTGTAGGGTAGAAATACTGAAATACCC
66 ACCGAAATAACCTTGTAGGATAGAAATACCGAAATACCC
*
37674119 TTGTAGGAATT-CCAAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATT
1 TTGTAGGAATTACCAAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTATAGGGTAGAATT
* *
37674183 ACCGAAATAAGCTTGTAGGATAGAATTACCGAAATACCC
66 ACCGAAATAACCTTGTAGGATAGAAATACCGAAATACCC
37674222 TTGTAGG
1 TTGTAGG
37674229 GTAGAAATAC
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 95 0.95
104 5 0.05
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (104 bp):
TTGTAGGAATTACCAAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTATAGGGTAGAATT
ACCGAAATAACCTTGTAGGATAGAAATACCGAAATACCC
Found at i:37674303 original size:27 final size:27
Alignment explanation
Indices: 37674273--37674329 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
37674263 TACCGAGATA
*
37674273 CCCTTATGGG-GTAAAATTACCATTTTG
1 CCCTTA-GGGTGTAAAATGACCATTTTG
* *
37674300 CCCTTAGGGTGTTAAATGACTATTTTG
1 CCCTTAGGGTGTAAAATGACCATTTTG
37674327 CCC
1 CCC
37674330 CTCGTGTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
CCCTTAGGGTGTAAAATGACCATTTTG
Found at i:37674338 original size:27 final size:26
Alignment explanation
Indices: 37674294--37674347 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
37674284 TAAAATTACC
*
37674294 ATTTTGCCCTTAGGGTGTTAAATGACT
1 ATTTTGCCCCTAGGGTG-TAAATGACT
* *
37674321 ATTTTGCCCCTCGTGTGTAAATGACT
1 ATTTTGCCCCTAGGGTGTAAATGACT
37674347 A
1 A
37674348 ACTTGTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTTGCCCCTAGGGTGTAAATGACT
Found at i:37674712 original size:27 final size:26
Alignment explanation
Indices: 37674656--37674712 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
37674646 CAACCTTAAC
* * *
37674656 CCTAAGGGTATATCAGTAATTTTGCT
1 CCTAAGGGTAAATCAGTAATTTTCCA
* *
37674682 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAAGGGTAAATCAGT-AATTTTCCA
37674709 CCTA
1 CCTA
37674713 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAAGGGTAAATCAGTAATTTTCCA
Found at i:37691080 original size:40 final size:38
Alignment explanation
Indices: 37691031--37691251 Score: 234
Period size: 40 Copynumber: 5.6 Consensus size: 38
37691021 TTGAATGATG
* * * *
37691031 TCCGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
37691070 TCCGGACTAAGATCCGAAGGCATTTGT-CGAGATACTAAT
1 TCCGG-CTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
37691109 TCCGGCTAAG-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
37691146 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGG-CTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
37691186 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCC-GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
37691227 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCC-GGCTAAGT-CCGAAGGCATTTG
37691252 AACGAGGAAT
Statistics
Matches: 160, Mismatches: 12, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
36 14 0.09
37 15 0.09
38 10 0.06
39 16 0.10
40 95 0.59
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (38 bp):
TCCGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37691243 original size:80 final size:78
Alignment explanation
Indices: 37691031--37691251 Score: 272
Period size: 80 Copynumber: 2.8 Consensus size: 78
37691021 TTGAATGATG
* * * *
37691031 TCCGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGACTAAGATCCGAAGGCATTT
*
37691095 GTCGAGATACTAAT
65 GTCGAGATACTAAA
*
37691109 TCCGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGACTAAGATCCGAAGGCATTT
*
37691171 GTGCGAGTTACTAAA
65 GT-CGAGATACTAAA
* * *
37691186 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATG-TCCCGAAGGCATT
1 TCC-GGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGACTAAGAT-CCGAAGGCATT
37691250 TG
64 TG
37691252 AACGAGGAAT
Statistics
Matches: 124, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
75 1 0.01
76 38 0.31
77 21 0.17
78 16 0.13
79 1 0.01
80 45 0.36
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (78 bp):
TCCGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGACTAAGATCCGAAGGCATTTG
TCGAGATACTAAA
Found at i:37699024 original size:39 final size:40
Alignment explanation
Indices: 37698923--37699147 Score: 248
Period size: 40 Copynumber: 5.7 Consensus size: 40
37698913 TTGAATGAAG
* * * *
37698923 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
37698963 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
37699003 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
37699042 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
37699082 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
37699123 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37699148 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
39 36 0.22
40 112 0.70
41 12 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:37699055 original size:79 final size:80
Alignment explanation
Indices: 37698923--37699147 Score: 305
Period size: 79 Copynumber: 2.8 Consensus size: 80
37698913 TTGAATGAAG
* * * *
37698923 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
*
37698987 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
*
37699003 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
*
37699067 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAA
* * *
37699082 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCAT
37699145 TTG
64 TTG
37699148 AACGAGGAGC
Statistics
Matches: 130, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
79 65 0.50
80 63 0.48
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:37699147 original size:80 final size:80
Alignment explanation
Indices: 37698923--37699147 Score: 305
Period size: 80 Copynumber: 2.8 Consensus size: 80
37698913 TTGAATGAAG
* * * *
37698923 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGACTAAGATCCGAAGGCATT
*
37698987 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
* *
37699003 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGACTAAGATCCGAAGGCATT
*
37699066 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
37699082 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATG-TCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGACTAAGAT-CCGAAGGCATT
37699146 TG
65 TG
37699148 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 61 0.48
80 64 0.50
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:37699165 original size:80 final size:78
Alignment explanation
Indices: 37698923--37699180 Score: 274
Period size: 80 Copynumber: 3.3 Consensus size: 78
37698913 TTGAATGAAG
* * * *
37698923 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGACTAAGATCCGAAGGCATT
*
37698987 TGTGCGAGATACTAA
65 TGTGCGAG-GACTAA
* *
37699002 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGATCCGAAGGCAT
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGACTAAGATCCGAAGGCAT
*
37699065 TTGTGCGAGTTACTAAA
64 TTGTGCGAG-GACT-AA
* *
37699082 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATG-TCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGACTAAGAT-CCGAAGGCATT
**
37699146 TGAACGAGGAGCTATA
65 TGTGCGAGGA-CTA-A
* *
37699162 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
37699181 TACGTGATTT
Statistics
Matches: 154, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 75 0.49
80 76 0.49
81 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGGACTAA
Found at i:37704134 original size:45 final size:45
Alignment explanation
Indices: 37704078--37704170 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
37704068 TACTATGTGA
* *
37704078 ACCAAACATCATTGATTAGTAAGGTGGTTGCTA-GATGCTGATTCC
1 ACCAAACATCATTGATTAATAAGGTGGTTGCTATG-TGCTGAATCC
*
37704123 ACCAGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCAAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
37704168 ACC
1 ACC
37704171 GAGTATCTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 43 0.98
46 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (45 bp):
ACCAAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:37707085 original size:7 final size:7
Alignment explanation
Indices: 37707073--37707097 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
37707063 TTGAATGTGC
37707073 ATATGGT
1 ATATGGT
37707080 ATATGGT
1 ATATGGT
37707087 ATATGGT
1 ATATGGT
37707094 ATAT
1 ATAT
37707098 TTGGTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (7 bp):
ATATGGT
Found at i:37721050 original size:12 final size:12
Alignment explanation
Indices: 37721033--37721059 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37721023 ATTCCGAAGT
37721033 ATATATATATAC
1 ATATATATATAC
37721045 ATATATATATAC
1 ATATATATATAC
37721057 ATA
1 ATA
37721060 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:37721592 original size:27 final size:28
Alignment explanation
Indices: 37721508--37721603 Score: 131
Period size: 27 Copynumber: 3.4 Consensus size: 28
37721498 CATGAGATTG
* * * *
37721508 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
37721537 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
37721565 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
37721592 GCACTGAGTGTG
1 GCACTAAGTGTG
37721604 TGGACTTAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
29 18 0.29
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:37721618 original size:29 final size:27
Alignment explanation
Indices: 37721508--37721618 Score: 89
Period size: 27 Copynumber: 4.0 Consensus size: 27
37721498 CATGAGATTG
** * *
37721508 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
37721537 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
37721565 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
* *
37721592 GCACTGAGTGTGTGGACTTAA-TATATA
1 GCACTAAGTGTG-CGACTTAATTATATA
37721619 CTTTTGAATC
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 28 0.39
28 27 0.38
29 16 0.23
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:37729524 original size:27 final size:28
Alignment explanation
Indices: 37729437--37729534 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
37729427 CATGAGATTG
* * *
37729437 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-AATTATATA
*
37729466 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
37729494 GCACTAAGTGTGCGAG-TTAATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
*
37729521 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
37729535 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 23 0.37
28 22 0.35
29 18 0.29
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATATA
Found at i:37729545 original size:27 final size:27
Alignment explanation
Indices: 37729437--37729547 Score: 107
Period size: 27 Copynumber: 4.0 Consensus size: 27
37729427 CATGAGATTG
** * *
37729437 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
37729466 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
*
37729494 GCACTAAGTGTGCGAGTTAATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
37729521 GCACTGAGTGTGCGGACTTAA-TATATA
1 GCACTAAGTGTGC-GACTTAATTATATA
37729548 CTTTTGAATC
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 28 0.39
28 28 0.39
29 16 0.22
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:37742225 original size:40 final size:40
Alignment explanation
Indices: 37742188--37742372 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
37742178 GCTACTCGTT
*
37742188 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
37742228 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
37742268 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
37742307 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
37742348 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37742373 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:37742307 original size:79 final size:81
Alignment explanation
Indices: 37742188--37742370 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
37742178 GCTACTCGTT
* ** *
37742188 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
37742252 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
37742268 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
37742331 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
37742348 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
37742371 GACATCATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 4 0.05
79 53 0.60
80 31 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:37750130 original size:40 final size:40
Alignment explanation
Indices: 37750100--37750283 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
37750090 GCTACTCGTT
*
37750100 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
37750140 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
37750180 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
37750219 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
37750260 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
37750284 ACATCATTCA
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 74 0.62
41 14 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:37750211 original size:79 final size:82
Alignment explanation
Indices: 37750100--37750284 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
37750090 GCTACTCGTT
* * *
37750100 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
37750163 GGATTTAGTAACTCA-CA
65 GGATATAGTAACTCAGCA
* **
37750180 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* * *
37750243 GATATGGTCACTTAGCA
66 GATATAGTAACTCAGCA
37750260 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37750285 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.62
80 32 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTCAGCA
Found at i:37761460 original size:27 final size:27
Alignment explanation
Indices: 37761430--37761636 Score: 245
Period size: 27 Copynumber: 7.7 Consensus size: 27
37761420 AGCTGAAAAG
* *
37761430 CCCCCATAGGGTAAATTGACTGAAATA
1 CCCCCATAGGGTAAAATGACCGAAATA
* * *
37761457 CCCCCATAGGGTAAATTAACTGAAATA
1 CCCCCATAGGGTAAAATGACCGAAATA
* *
37761484 CCCCCATAGGGTAAAATGAGCAAAATA
1 CCCCCATAGGGTAAAATGACCGAAATA
37761511 CCCCCATAGGGTAAAATGACCGAAATA
1 CCCCCATAGGGTAAAATGACCGAAATA
* * *
37761538 ACCCC-TAGGGTAGAATGACCAAAATA
1 CCCCCATAGGGTAAAATGACCGAAATA
** *
37761564 CCCTAATAGGGTAAAATGACCAAAATA
1 CCCCCATAGGGTAAAATGACCGAAATA
** * *
37761591 CCCTTATAAGATAAAATGACCGAAATA
1 CCCCCATAGGGTAAAATGACCGAAATA
*
37761618 CCTCCATAGGGTAAAATGA
1 CCCCCATAGGGTAAAATGA
37761637 GTGTTATACC
Statistics
Matches: 155, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 21 0.14
27 134 0.86
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
CCCCCATAGGGTAAAATGACCGAAATA
Found at i:37761906 original size:26 final size:26
Alignment explanation
Indices: 37761871--37761977 Score: 178
Period size: 26 Copynumber: 4.1 Consensus size: 26
37761861 TGCGCCACAT
* * *
37761871 ATACTTTTACTGGCATCTTTGCTACG
1 ATACTATTACTGGCAGCTTTGCTGCG
37761897 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
37761923 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
*
37761949 ATACTATTACTGGCATCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
37761975 ATA
1 ATA
37761978 TTGGTGTGTT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:37762334 original size:28 final size:28
Alignment explanation
Indices: 37762079--37762328 Score: 252
Period size: 28 Copynumber: 8.9 Consensus size: 28
37762069 TATTGCACTG
* * *
37762079 CATTGTTACTTTATTTGGCTAAGACCCA
1 CATTGTTACTGTATTGGGCTAAGGCCCA
* * *
37762107 CACTGATT-CTGTATTAGGCTAAAGCCCA
1 CATTG-TTACTGTATTGGGCTAAGGCCCA
* *
37762135 CACTGATT-TTGTATTGGGCTAAGGCCCA
1 CATTG-TTACTGTATTGGGCTAAGGCCCA
* *
37762163 TATTGTTACTGTTTTGGGCTAAGGCCCA
1 CATTGTTACTGTATTGGGCTAAGGCCCA
* * *
37762191 CATTGTTACTATATTGGGGTAAGTCCCA
1 CATTGTTACTGTATTGGGCTAAGGCCCA
* **
37762219 CATTGTTATTGTATCAGGCTAAGGCCCA
1 CATTGTTACTGTATTGGGCTAAGGCCCA
* * * *
37762247 CATTATTATTGTATTGGGGTAAGACCCA
1 CATTGTTACTGTATTGGGCTAAGGCCCA
* *
37762275 CATTGTTACTATATTGGGCTAAGGTCCA
1 CATTGTTACTGTATTGGGCTAAGGCCCA
* *
37762303 CACTGTTACTGTAATGGGCTAAGGCC
1 CATTGTTACTGTATTGGGCTAAGGCC
37762329 TACACTATAC
Statistics
Matches: 182, Mismatches: 38, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
27 2 0.01
28 178 0.98
29 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (28 bp):
CATTGTTACTGTATTGGGCTAAGGCCCA
Found at i:37763631 original size:53 final size:54
Alignment explanation
Indices: 37763549--37763688 Score: 149
Period size: 53 Copynumber: 2.6 Consensus size: 54
37763539 CAAAGTAGGG
* * *
37763549 TAAAATGATCGAAATA-CTCTCACAGGGTAAAATAAACAAAATACCC-CAGAGGA
1 TAAAATGATCGAAATACCCCT-ATAGGGTAAAATAAACAAAATACCCTCAGAAGA
* * * * * * *
37763602 TAAAATGATCGAAATACCCCTATAAGGTAAAATGACCGAAATACCCTTATAAGC
1 TAAAATGATCGAAATACCCCTATAGGGTAAAATAAACAAAATACCCTCAGAAGA
* *
37763656 TAAAATGACCGAAATACCCCCATAGGGTAAAAT
1 TAAAATGATCGAAATACCCCTATAGGGTAAAAT
37763689 GACTGTTATA
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
53 36 0.50
54 36 0.50
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.19
Consensus pattern (54 bp):
TAAAATGATCGAAATACCCCTATAGGGTAAAATAAACAAAATACCCTCAGAAGA
Found at i:37763701 original size:27 final size:27
Alignment explanation
Indices: 37763602--37763691 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
37763592 CCCCAGAGGA
*
37763602 TAAAATGATCGAAATACCCCTATAAGG
1 TAAAATGACCGAAATACCCCTATAAGG
* *
37763629 TAAAATGACCGAAATACCCTTATAAGC
1 TAAAATGACCGAAATACCCCTATAAGG
* *
37763656 TAAAATGACCGAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCTATAAGG
37763683 TAAAATGAC
1 TAAAATGAC
37763692 TGTTATACCC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.20
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCTATAAGG
Found at i:37764097 original size:28 final size:28
Alignment explanation
Indices: 37764054--37764233 Score: 220
Period size: 28 Copynumber: 6.5 Consensus size: 28
37764044 TTATTGCACT
37764054 ACACTGTTACTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
** * *
37764082 ACACT-AAATCTATATTGGGTTAAGGCCC
1 ACACTGTTA-CTGTATTGGGCTAAGGCCC
* * * *
37764110 AAACTATTACTGTATTGGGTTAAGGCCT
1 ACACTGTTACTGTATTGGGCTAAGGCCC
* * *
37764138 AAACTGTTACTATATTGGGTTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
*
37764166 ACACTGTTACTGTATTGGGCTAAGGCCT
1 ACACTGTTACTGTATTGGGCTAAGGCCC
*
37764194 ACACTGATACTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
37764222 ACACTG-TACTGT
1 ACACTGTTACTGT
37764234 CACTGAATAG
Statistics
Matches: 132, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
27 7 0.05
28 124 0.94
29 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (28 bp):
ACACTGTTACTGTATTGGGCTAAGGCCC
Found at i:37764223 original size:56 final size:56
Alignment explanation
Indices: 37764054--37764233 Score: 256
Period size: 56 Copynumber: 3.2 Consensus size: 56
37764044 TTATTGCACT
* *
37764054 ACACTGTTACTGTATTGGGCTAAGGCCCACACT-AAATCTATATTGGGTTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCTACACTGATA-CTATATTGGGTTAAGGCCC
* * * * *
37764110 AAACTATTACTGTATTGGGTTAAGGCCTAAACTGTTACTATATTGGGTTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCTACACTGATACTATATTGGGTTAAGGCCC
* *
37764166 ACACTGTTACTGTATTGGGCTAAGGCCTACACTGATACTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCTACACTGATACTATATTGGGTTAAGGCCC
37764222 ACACTG-TACTGT
1 ACACTGTTACTGT
37764234 CACTGAATAG
Statistics
Matches: 109, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
55 6 0.06
56 102 0.94
57 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (56 bp):
ACACTGTTACTGTATTGGGCTAAGGCCTACACTGATACTATATTGGGTTAAGGCCC
Found at i:37765135 original size:23 final size:24
Alignment explanation
Indices: 37765094--37765140 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
37765084 CAATAAAATA
37765094 TAAAATTATATTTAATAATTCATTT
1 TAAAATTATATTTAATAATT-ATTT
*
37765119 TAAAA-TAT-TTTATTAATTATTT
1 TAAAATTATATTTAATAATTATTT
37765141 GGGTTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 9 0.43
24 3 0.14
25 5 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TAAAATTATATTTAATAATTATTT
Found at i:37771433 original size:446 final size:446
Alignment explanation
Indices: 37770600--37771499 Score: 1566
Period size: 446 Copynumber: 2.0 Consensus size: 446
37770590 GCGCAATCAG
* *
37770600 ATTTATCAGATTTAACATAAATCAATTCACCATTCTAATAGCCCAAATTAATTCGTTTTTGTTTG
1 ATTTATCAGATTTAACATAAATCAATTCACCATTCTAATAGCCCAAATCAATTCATTTTTGTTTG
*
37770665 CAATTCACTACAACATTGTGTACCATCAACTAATCCATTCCTAGAATAATGTCAAACACATTAAA
66 CAATTCACTACAACATTGTGTACCATCAACCAATCCATTCCTAGAATAATGTCAAACACATTAAA
*
37770730 AGACAATAACATCAAATCAGTAGGAAAGTTATAGCCTTGAATTTTCAGTGGACATTATTTCCAAA
131 AGACAATAACATCAAATCAATAGGAAAGTTATAGCCTTGAATTTTCAGTGGACATTATTTCCAAA
* * *
37770795 CTAGATCAATTATGACACTTTAACCTAATAGGTTCGTTAATTGAATGACATAACCAGTTGACTCA
196 CTAGATCAATTATGACACGTTAACCTAACAGGTTCATTAATTGAATGACATAACCAGTTGACTCA
37770860 ACTGGTAAACTATTTTCTGTTACTAACGTAGTACATATATATGAATGTGTCGACCCATGTTCAAT
261 ACTGGTAAACTATTTTCTGTTACTAACGTAGTACATATATATGAATGTGTCGACCCATGTTCAAT
* *
37770925 CAATGCATACATAGTGACATCAAAGATAGAAAAGGTACTAGAAATAACATCAAGAGCTGAGGCCT
326 CAATGCATACACAGTGACATCAAAGATAGAAAAGGTACCAGAAATAACATCAAGAGCTGAGGCCT
* * * *
37770990 CCTTGCATGCATGGATTGTATAAGTTCTGGTAGGAGCTCAAGCTTTAGACTGAATT
391 CCTTGCATGCATGGATTGCATAAGCTCTGGTAGGAGCTCAAGCTTCAGACCGAATT
37771046 ATTTATCAGATTTAACATAAATCAATTCACCATTCTAATAGCCCAAATCAATTCATTTTTGTTTG
1 ATTTATCAGATTTAACATAAATCAATTCACCATTCTAATAGCCCAAATCAATTCATTTTTGTTTG
* *
37771111 CAATTCACTACAACATTGTGTACCATCAACCAATCCATTCCTAGAATATTGTCAAACTCATTAAA
66 CAATTCACTACAACATTGTGTACCATCAACCAATCCATTCCTAGAATAATGTCAAACACATTAAA
* *
37771176 AGACAATAACATCAAATCAATGGGAAAGTTATAGCCTTGAATTTTTAGTGGACATTATTTCCAAA
131 AGACAATAACATCAAATCAATAGGAAAGTTATAGCCTTGAATTTTCAGTGGACATTATTTCCAAA
* * *
37771241 CTAGATCAATTATGACACGTTAACCTAACGGGTTCATTACTTGAATGACATAACTAGTTGACTCA
196 CTAGATCAATTATGACACGTTAACCTAACAGGTTCATTAATTGAATGACATAACCAGTTGACTCA
*
37771306 ACTGGTAAACTCTTTTCTGTTACTAACGTAGTACATATATATGAATGTGTCGACCCATGTTCAAT
261 ACTGGTAAACTATTTTCTGTTACTAACGTAGTACATATATATGAATGTGTCGACCCATGTTCAAT
* * *
37771371 TAATGCATTCACAGTGACATCAAAGATAGAAAAGGTACCAGCAATAACATCAAGAGCTGAGGCCT
326 CAATGCATACACAGTGACATCAAAGATAGAAAAGGTACCAGAAATAACATCAAGAGCTGAGGCCT
*
37771436 CCTTGCGTGCATGGATTGCATAAGCTCTGGTAGGAGCTCAAGCTTCAGACCGAATT
391 CCTTGCATGCATGGATTGCATAAGCTCTGGTAGGAGCTCAAGCTTCAGACCGAATT
37771492 ATTGTATC
1 ATT-TATC
37771500 TTTGGTTTCT
Statistics
Matches: 428, Mismatches: 25, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
446 424 0.99
447 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (446 bp):
ATTTATCAGATTTAACATAAATCAATTCACCATTCTAATAGCCCAAATCAATTCATTTTTGTTTG
CAATTCACTACAACATTGTGTACCATCAACCAATCCATTCCTAGAATAATGTCAAACACATTAAA
AGACAATAACATCAAATCAATAGGAAAGTTATAGCCTTGAATTTTCAGTGGACATTATTTCCAAA
CTAGATCAATTATGACACGTTAACCTAACAGGTTCATTAATTGAATGACATAACCAGTTGACTCA
ACTGGTAAACTATTTTCTGTTACTAACGTAGTACATATATATGAATGTGTCGACCCATGTTCAAT
CAATGCATACACAGTGACATCAAAGATAGAAAAGGTACCAGAAATAACATCAAGAGCTGAGGCCT
CCTTGCATGCATGGATTGCATAAGCTCTGGTAGGAGCTCAAGCTTCAGACCGAATT
Found at i:37779744 original size:44 final size:44
Alignment explanation
Indices: 37779681--37779768 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
37779671 TTAAAATTTA
*
37779681 CATAGAATTTTTGTGAATTGTGAATAATTATGAAT-TGTACTAGT
1 CATAGAATTTTAGTGAATTGTGAATAATTATG-ATCTGTACTAGT
37779725 CATAGAATTTTAGTGAATTGTGAATAATTATGATCTGTACTAGT
1 CATAGAATTTTAGTGAATTGTGAATAATTATGATCTGTACTAGT
37779769 ATATGAAGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (44 bp):
CATAGAATTTTAGTGAATTGTGAATAATTATGATCTGTACTAGT
Found at i:37808753 original size:16 final size:16
Alignment explanation
Indices: 37808726--37808764 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
37808716 ATATTATTGT
*
37808726 TCATAACTTTTTTCAC
1 TCATATCTTTTTTCAC
*
37808742 TTATATCTTTTTTCAC
1 TCATATCTTTTTTCAC
37808758 TCATATC
1 TCATATC
37808765 ATGAGTGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (16 bp):
TCATATCTTTTTTCAC
Found at i:37809011 original size:15 final size:14
Alignment explanation
Indices: 37808983--37809009 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37808973 TTGTTTAACT
37808983 AAAAATGATTTTTA
1 AAAAATGATTTTTA
37808997 AAAAATGATTTTT
1 AAAAATGATTTTT
37809010 TATGATCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
AAAAATGATTTTTA
Found at i:37823857 original size:11 final size:12
Alignment explanation
Indices: 37823830--37823865 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
37823820 GGGTTTCTCA
37823830 AAAAATGGAAAT
1 AAAAATGGAAAT
*
37823842 AAAAATGGAACT
1 AAAAATGGAAAT
37823854 AAAAATGAGAAA
1 AAAAATG-GAAA
37823866 AGATCTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.67, C:0.03, G:0.17, T:0.14
Consensus pattern (12 bp):
AAAAATGGAAAT
Found at i:37825896 original size:34 final size:34
Alignment explanation
Indices: 37825853--37825939 Score: 129
Period size: 34 Copynumber: 2.6 Consensus size: 34
37825843 CTATAGTGCC
37825853 TTGGTGTGGTGTAGTTATCACTCTATCGAGCCAT
1 TTGGTGTGGTGTAGTTATCACTCTATCGAGCCAT
* * *
37825887 TTGGTGTGGTGTAGTTATCACTTTATTGAGCTAT
1 TTGGTGTGGTGTAGTTATCACTCTATCGAGCCAT
* *
37825921 CTAGTGTGGTGTAGTTATC
1 TTGGTGTGGTGTAGTTATC
37825940 CACGTATCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.17, C:0.13, G:0.28, T:0.43
Consensus pattern (34 bp):
TTGGTGTGGTGTAGTTATCACTCTATCGAGCCAT
Found at i:37833387 original size:15 final size:14
Alignment explanation
Indices: 37833356--37833390 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
37833346 ATTTTGTATG
*
37833356 AAAATTTTAATTTT
1 AAAATTTTAAATTT
37833370 AAAATTTTAAAATTT
1 AAAATTTT-AAATTT
37833385 AAAATT
1 AAAATT
37833391 GAAATGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AAAATTTTAAATTT
Found at i:37834473 original size:61 final size:62
Alignment explanation
Indices: 37834399--37834540 Score: 162
Period size: 61 Copynumber: 2.3 Consensus size: 62
37834389 ATTAAGAAAC
* * * *
37834399 CATCATTGTCAAGCAATCCAAG-GTGGTAAGCAATTGTTACCGGGGAACCTGAGATGGCAAT
1 CATCGTTGTCAAGCAATCCAAGTATGGTAAGCAATTGTTACCAGGCAACCTGAGATGGCAAT
* ** * *
37834460 CATCGTTGTCAAGCAATCC-AGTATGGTAAGCCATTGTTTTCAGGCAACCTGGGATGGCAGT
1 CATCGTTGTCAAGCAATCCAAGTATGGTAAGCAATTGTTACCAGGCAACCTGAGATGGCAAT
* **
37834521 CATTGTTGTCGGGCAATCCA
1 CATCGTTGTCAAGCAATCCA
37834541 GAATGACATT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
60 2 0.03
61 65 0.97
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (62 bp):
CATCGTTGTCAAGCAATCCAAGTATGGTAAGCAATTGTTACCAGGCAACCTGAGATGGCAAT
Found at i:37837521 original size:27 final size:26
Alignment explanation
Indices: 37837490--37837549 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
37837480 TAATATATTT
37837490 AAATTT-TAAATTAAATTATTTTTAAAA
1 AAATTTGTAAATTAAA--ATTTTTAAAA
* *
37837517 AAATTTTGTACATTAAAATTTTTAATA
1 AAA-TTTGTAAATTAAAATTTTTAAAA
37837544 AAATTT
1 AAATTT
37837550 AAGAAGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 3 0.10
27 15 0.52
28 3 0.10
29 8 0.28
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
AAATTTGTAAATTAAAATTTTTAAAA
Found at i:37837534 original size:15 final size:12
Alignment explanation
Indices: 37837507--37837549 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
37837497 AAATTAAATT
*
37837507 ATTTTTAAAAAA
1 ATTTTTAATAAA
37837519 ATTTTGTACATTAAA
1 ATTTT-TA-A-TAAA
37837534 ATTTTTAATAAA
1 ATTTTTAATAAA
37837546 ATTT
1 ATTT
37837550 AAGAAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 13 0.48
13 3 0.11
14 3 0.11
15 8 0.30
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (12 bp):
ATTTTTAATAAA
Found at i:37845153 original size:4 final size:4
Alignment explanation
Indices: 37845139--37845170 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
37845129 TTAAACTAAG
*
37845139 TAAA AAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
37845171 AATAAAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:37849273 original size:15 final size:15
Alignment explanation
Indices: 37849253--37849283 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37849243 ATCGTGAATA
37849253 TTTTTATTAATTATT
1 TTTTTATTAATTATT
37849268 TTTTTATTAATTATT
1 TTTTTATTAATTATT
37849283 T
1 T
37849284 AAGGAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTATTAATTATT
Found at i:37851968 original size:12 final size:13
Alignment explanation
Indices: 37851931--37851963 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
37851921 TACGAATGAC
37851931 ATTTGAATTTGAT
1 ATTTGAATTTGAT
37851944 ATTT-AATTTGAT
1 ATTTGAATTTGAT
37851956 ATTTGAAT
1 ATTTGAAT
37851964 GGATAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (13 bp):
ATTTGAATTTGAT
Found at i:37856005 original size:13 final size:14
Alignment explanation
Indices: 37855987--37856019 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
37855977 TGAGGAAAGT
37855987 AAAGAAAAA-ATAA
1 AAAGAAAAAGATAA
37856000 AAAGAAAAAGATAA
1 AAAGAAAAAGATAA
*
37856014 ACAGAA
1 AAAGAA
37856020 TATTTGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (14 bp):
AAAGAAAAAGATAA
Found at i:37865620 original size:27 final size:26
Alignment explanation
Indices: 37865569--37865681 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
37865559 GAGGTCAATG
*
37865569 AATGACCGAAATACCCTCATAGGGTAA
1 AATGATCGAAATACCC-CATAGGGTAA
* * *
37865596 AATAATTGAAATACCCCTATTGGGTAA
1 AATGATCGAAATACCCC-ATAGGGTAA
* *
37865623 AATGACCGAAATACACCCAAAGGGTAA
1 AATGATCGAAATAC-CCCATAGGGTAA
37865650 AATGATCGAAATACCCACATAGGGTAA
1 AATGATCGAAATACCC-CATAGGGTAA
37865677 AATGA
1 AATGA
37865682 GTGTTATACC
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.04
27 66 0.92
28 3 0.04
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (26 bp):
AATGATCGAAATACCCCATAGGGTAA
Found at i:37865651 original size:54 final size:54
Alignment explanation
Indices: 37865569--37865681 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
37865559 GAGGTCAATG
* * *
37865569 AATGACCGAAATACCCTCATAGGGTAAAATAATTGAAATACCC-CTATTGGGTAA
1 AATGACCGAAATACCCTCAAAGGGTAAAATAATCGAAATACCCAC-ATAGGGTAA
*
37865623 AATGACCGAAATACACC-CAAAGGGTAAAATGATCGAAATACCCACATAGGGTAA
1 AATGACCGAAATAC-CCTCAAAGGGTAAAATAATCGAAATACCCACATAGGGTAA
37865677 AATGA
1 AATGA
37865682 GTGTTATACC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
54 50 0.94
55 3 0.06
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (54 bp):
AATGACCGAAATACCCTCAAAGGGTAAAATAATCGAAATACCCACATAGGGTAA
Found at i:37887973 original size:42 final size:41
Alignment explanation
Indices: 37887916--37888013 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
37887906 TATGTTATCA
* *
37887916 TGTAAGACCACGTCTGGGGCATT-GACATCG-ACTTGTGTTACG
1 TGTAAGACCATGTCTGGGACATTAG-CATCGTA-TT-TGTTACG
*
37887958 TTTAAGACCATGTCTGGGACATTAGCATCGTATTTGTTACG
1 TGTAAGACCATGTCTGGGACATTAGCATCGTATTTGTTACG
37887999 TGTAAGAACC-TGTCT
1 TGTAAG-ACCATGTCT
37888014 CGGATAGTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
41 17 0.35
42 30 0.61
43 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTAGCATCGTATTTGTTACG
Found at i:37892799 original size:27 final size:27
Alignment explanation
Indices: 37892761--37892829 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
37892751 GAGGTCAATG
37892761 AATGACCGAAATACACCAATAGTG-TAA
1 AATGACCGAAATACACCAATAG-GATAA
* *
37892788 AATGACCGAAATACCCCTATAGGATAA
1 AATGACCGAAATACACCAATAGGATAA
37892815 AATGACC-AAA-ACACC
1 AATGACCGAAATACACC
37892830 CCTAAGAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 4 0.11
26 4 0.11
27 30 0.79
ACGTcount: A:0.48, C:0.23, G:0.13, T:0.16
Consensus pattern (27 bp):
AATGACCGAAATACACCAATAGGATAA
Found at i:37892830 original size:27 final size:27
Alignment explanation
Indices: 37892785--37892847 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
37892775 ACCAATAGTG
* *
37892785 TAAAATGACCGAAATACCCCTATAG-GA
1 TAAAATGACCAAAACACCCCTA-AGAGA
37892812 TAAAATGACCAAAACACCCCTAAGAGA
1 TAAAATGACCAAAACACCCCTAAGAGA
*
37892839 TGAAATGAC
1 TAAAATGAC
37892848 TAATATGGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.48, C:0.22, G:0.14, T:0.16
Consensus pattern (27 bp):
TAAAATGACCAAAACACCCCTAAGAGA
Found at i:37901902 original size:11 final size:11
Alignment explanation
Indices: 37901862--37901919 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
37901852 AGAGATGGAG
37901862 GATATGGTGGT
1 GATATGGTGGT
*
37901873 GAAATGGTGGT
1 GATATGGTGGT
* * *
37901884 GGTTTGGTGTT
1 GATATGGTGGT
37901895 GATATGGTGG-
1 GATATGGTGGT
**
37901905 GCGATGGTGGT
1 GATATGGTGGT
37901916 GATA
1 GATA
37901920 CAGTGGAAAA
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
10 8 0.24
11 26 0.76
ACGTcount: A:0.17, C:0.02, G:0.47, T:0.34
Consensus pattern (11 bp):
GATATGGTGGT
Found at i:37904449 original size:18 final size:20
Alignment explanation
Indices: 37904421--37904461 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
37904411 TATATACTCA
37904421 ATTTCACATTTGT-ATAAAT
1 ATTTCACATTTGTCATAAAT
*
37904440 ATTT-ACATTTTTCATAAAT
1 ATTTCACATTTGTCATAAAT
37904459 ATT
1 ATT
37904462 CAATTTAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (20 bp):
ATTTCACATTTGTCATAAAT
Found at i:37904770 original size:17 final size:18
Alignment explanation
Indices: 37904736--37904770 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37904726 TTCAATTTAA
37904736 ATTTTATACAACTTTTGC
1 ATTTTATACAACTTTTGC
*
37904754 ATTTTATTCAA-TTTTGC
1 ATTTTATACAACTTTTGC
37904771 CCCTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (18 bp):
ATTTTATACAACTTTTGC
Found at i:37905936 original size:195 final size:196
Alignment explanation
Indices: 37905603--37906000 Score: 762
Period size: 195 Copynumber: 2.0 Consensus size: 196
37905593 CCTCTCAAGA
37905603 AATTTCATCCTCATAATTTTCCTAAAAAGAGGTGGGGATACTAAGATCTCATCATCTCCTCTAAT
1 AATTTCATCCTCATAATTTTCCTAAAAAGAGGTGGGGATACTAAGATCTCATCATCTCCTCTAAT
* *
37905668 AGCCAAGTTACTTCTTCGACATTGTGGCTATGTTATAAAATTTTCAAAGGTAGAATGCATTTATT
66 AGCCAAGTTACTTCTTCGACATTGTGGCTACGCTATAAAATTTTCAAAGGTAGAATGCATTTATT
37905733 TCTTAACTTTTTCATTCAATGAGCTAAAATTTTTATCGGTTCTTACTCGTATGAAAAATCAAGTT
131 TCTTAACTTTTTCATTCAATGAGCTAAAATTTTTATCGGTTCTTACTCGTATGAAAAATCAAGTT
37905798 G
196 G
37905799 AATTTCATCCTCATAATTTTCCTAAAAAGAGGT-GGGATACTAAGATCTCATCATCTCCTCTAAT
1 AATTTCATCCTCATAATTTTCCTAAAAAGAGGTGGGGATACTAAGATCTCATCATCTCCTCTAAT
*
37905863 AGCCAAGTTACTTCTTCGACATTGTGGCTACGCTATGAAATTTTCAAAGGTAGAATGCATTTATT
66 AGCCAAGTTACTTCTTCGACATTGTGGCTACGCTATAAAATTTTCAAAGGTAGAATGCATTTATT
37905928 TCTTAACTTTTTCATTCAATGAGCTAAAATTTTTATCGGTTCTTACTCGTATGAAAAATCAAGTT
131 TCTTAACTTTTTCATTCAATGAGCTAAAATTTTTATCGGTTCTTACTCGTATGAAAAATCAAGTT
37905993 G
196 G
37905994 AATTTCA
1 AATTTCA
37906001 ATTTCTTTTT
Statistics
Matches: 199, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
195 166 0.83
196 33 0.17
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (196 bp):
AATTTCATCCTCATAATTTTCCTAAAAAGAGGTGGGGATACTAAGATCTCATCATCTCCTCTAAT
AGCCAAGTTACTTCTTCGACATTGTGGCTACGCTATAAAATTTTCAAAGGTAGAATGCATTTATT
TCTTAACTTTTTCATTCAATGAGCTAAAATTTTTATCGGTTCTTACTCGTATGAAAAATCAAGTT
G
Found at i:37906468 original size:37 final size:37
Alignment explanation
Indices: 37906427--37906506 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 37
37906417 TGTTATCAGG
* *
37906427 TGGATTAGGTCTTACGAGCATTTGACGTGTTTTTGGT
1 TGGATTAGATCTTACGAGCATTTGACGTGTTTTCGGT
* * *
37906464 TGGATTAGATCTTATGAGTATTTGGCGTGTTTTCGGT
1 TGGATTAGATCTTACGAGCATTTGACGTGTTTTCGGT
*
37906501 TAGATT
1 TGGATT
37906507 GCTTGTGTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.17, C:0.09, G:0.29, T:0.45
Consensus pattern (37 bp):
TGGATTAGATCTTACGAGCATTTGACGTGTTTTCGGT
Found at i:37929222 original size:20 final size:20
Alignment explanation
Indices: 37929189--37929227 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
37929179 GCCATATGGT
37929189 TTGGCTTGTGTTATGGTATC
1 TTGGCTTGTGTTATGGTATC
37929209 TTGG-TTGTGATTATGGTAT
1 TTGGCTTGTG-TTATGGTAT
37929228 TTTTAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.13, C:0.05, G:0.31, T:0.51
Consensus pattern (20 bp):
TTGGCTTGTGTTATGGTATC
Found at i:37930302 original size:29 final size:28
Alignment explanation
Indices: 37930260--37930354 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 28
37930250 GTGTGCTAAA
*
37930260 CGATAGTTGTAACCGACCCTTTTCATATT
1 CGATGGTTGTAACC-ACCCTTTTCATATT
* * *
37930289 CGATGGTTGAAACCATCCCTTTTAATTAAT
1 CGATGGTTGTAACCA-CCCTTTTCA-TATT
*
37930319 CGATGGTTGTCACCAACCCTTTTCATAGTT
1 CGATGGTTGTAACC-ACCCTTTTCATA-TT
37930349 -GATGGT
1 CGATGGT
37930355 CGCCACCATC
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
28 1 0.02
29 28 0.52
30 24 0.44
31 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (28 bp):
CGATGGTTGTAACCACCCTTTTCATATT
Found at i:37930324 original size:30 final size:29
Alignment explanation
Indices: 37930276--37930380 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
37930266 TTGTAACCGA
* * *
37930276 CCCTTTTCATATTCGATGGTTGAAACCAT
1 CCCTTTTAATAATCGATGGTTGACACCAT
* *
37930305 CCCTTTTAATTAATCGATGGTTGTCACCAA
1 CCCTTTTAA-TAATCGATGGTTGACACCAT
* * * * *
37930335 CCCTTTTCATAGTTGATGGTCGCCACCAT
1 CCCTTTTAATAATCGATGGTTGACACCAT
*
37930364 CCCTTTTTATAATCGAT
1 CCCTTTTAATAATCGAT
37930381 AGCTAGAGCT
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 37 0.61
30 24 0.39
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (29 bp):
CCCTTTTAATAATCGATGGTTGACACCAT
Found at i:37930363 original size:59 final size:58
Alignment explanation
Indices: 37930260--37930382 Score: 158
Period size: 59 Copynumber: 2.1 Consensus size: 58
37930250 GTGTGCTAAA
* *
37930260 CGATAGTTGTAACCGACCCTTTTCATATTCGATGGTTGAAACCATCCCTTTTAATTAAT
1 CGATAGTTGTAACCAACCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTAA-TAAT
* * ** *
37930319 CGATGGTTGTCACCAACCCTTTTCATAGTT-GATGGTCGCCACCATCCCTTTTTATAAT
1 CGATAGTTGTAACCAACCCTTTTCATA-TTCGATGGTCGAAACCATCCCTTTTAATAAT
37930377 CGATAG
1 CGATAG
37930383 CTAGAGCTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 9 0.16
59 44 0.80
60 2 0.04
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.36
Consensus pattern (58 bp):
CGATAGTTGTAACCAACCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTAATAAT
Found at i:37930477 original size:115 final size:116
Alignment explanation
Indices: 37930303--37930554 Score: 332
Period size: 115 Copynumber: 2.2 Consensus size: 116
37930293 GGTTGAAACC
* * *
37930303 ATCCCTTTTAATTAATCGATGGTTGTCACCAACCCTTTTCATAGTTGATGGTCGCCACCATCCCT
1 ATCCCTTTTCA-TATTCGATGGTCGTCACCAACCCTTTTCATAGTTGATGGTCGCCACCAT-CCT
* * *
37930368 TTTT-ATAATCGATAGCTAG-AGCTGTCCATTTTCATAATCGACAGCTGAAGCT
64 TTTTCATAATCGATAG-TAGAAGCTATCCATGTTCATAATCGACAGCCGAAGCT
* *
37930420 ATCCCTTTTCATATTCGATGGTCGTCACCATCCC-TTTCATAGTTGATGGTCGTCACCATCCTTT
1 ATCCCTTTTCATATTCGATGGTCGTCACCAACCCTTTTCATAGTTGATGGTCGCCACCATCCTTT
* * * *
37930484 TTCATAATCGATAGTCGAAGCTATCCCTGTTCATATTCGATAGCCGAAGCT
66 TTCATAATCGATAGTAGAAGCTATCCATGTTCATAATCGACAGCCGAAGCT
*
37930535 ATCCC-TTTCATATTCAATGG
1 ATCCCTTTTCATATTCGATGG
37930555 CCAAAACTAT
Statistics
Matches: 120, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
114 23 0.19
115 67 0.56
116 20 0.17
117 10 0.08
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (116 bp):
ATCCCTTTTCATATTCGATGGTCGTCACCAACCCTTTTCATAGTTGATGGTCGCCACCATCCTTT
TTCATAATCGATAGTAGAAGCTATCCATGTTCATAATCGACAGCCGAAGCT
Found at i:37930518 original size:86 final size:86
Alignment explanation
Indices: 37930396--37930603 Score: 251
Period size: 86 Copynumber: 2.4 Consensus size: 86
37930386 GAGCTGTCCA
* * * *
37930396 TTTTCATAATCGACAG-CTGAAGCTATCCCTTTTCATATTCGATGGTCGTCA-CCATCCCTTTCA
1 TTTTCATAATCGATAGTC-GAAGCTATCCCTTTTCATATTCGATAGCCG-AAGCCATCCCTTTCA
* * *** *
37930459 TAGTT-GATGGTCGTCACCATCCT
64 TA-TTCAATGGCCAAAACCATCCC
* *
37930482 TTTTCATAATCGATAGTCGAAGCTATCCCTGTTCATATTCGATAGCCGAAGCTATCCCTTTCATA
1 TTTTCATAATCGATAGTCGAAGCTATCCCTTTTCATATTCGATAGCCGAAGCCATCCCTTTCATA
*
37930547 TTCAATGGCCAAAACTATCCC
66 TTCAATGGCCAAAACCATCCC
37930568 TTTTCATAATCGATAGTCGAAGCTATCCCTTTTCAT
1 TTTTCATAATCGATAGTCGAAGCTATCCCTTTTCAT
37930604 TGGTCGATGA
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
85 3 0.03
86 101 0.96
87 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (86 bp):
TTTTCATAATCGATAGTCGAAGCTATCCCTTTTCATATTCGATAGCCGAAGCCATCCCTTTCATA
TTCAATGGCCAAAACCATCCC
Found at i:37930525 original size:29 final size:29
Alignment explanation
Indices: 37930362--37930603 Score: 183
Period size: 29 Copynumber: 8.4 Consensus size: 29
37930352 GGTCGCCACC
* * *
37930362 ATCCCTTTTTATAATCGATAG-CTAGAGCT
1 ATCCCTTTTCATATTCGATAGTCGA-AGCT
* * * *
37930391 GTCCATTTTCATAATCGACAG-CTGAAGCT
1 ATCCCTTTTCATATTCGATAGTC-GAAGCT
* * *
37930420 ATCCCTTTTCATATTCGATGGTCGTCA-CC
1 ATCCCTTTTCATATTCGATAGTCG-AAGCT
* * *
37930449 ATCCC-TTTCATAGTT-GATGGTCGTCA-CC
1 ATCCCTTTTCATA-TTCGATAGTCG-AAGCT
* *
37930477 ATCCTTTTTCATAATCGATAGTCGAAGCT
1 ATCCCTTTTCATATTCGATAGTCGAAGCT
* *
37930506 ATCCCTGTTCATATTCGATAGCCGAAGCT
1 ATCCCTTTTCATATTCGATAGTCGAAGCT
* * * * *
37930535 ATCCC-TTTCATATTCAATGGCCAAAACT
1 ATCCCTTTTCATATTCGATAGTCGAAGCT
*
37930563 ATCCCTTTTCATAATCGATAGTCGAAGCT
1 ATCCCTTTTCATATTCGATAGTCGAAGCT
37930592 ATCCCTTTTCAT
1 ATCCCTTTTCAT
37930604 TGGTCGATGA
Statistics
Matches: 173, Mismatches: 32, Indels: 16
0.78 0.14 0.07
Matches are distributed among these distances:
28 49 0.28
29 121 0.70
30 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.36
Consensus pattern (29 bp):
ATCCCTTTTCATATTCGATAGTCGAAGCT
Found at i:37930544 original size:57 final size:57
Alignment explanation
Indices: 37930483--37930599 Score: 153
Period size: 57 Copynumber: 2.1 Consensus size: 57
37930473 CACCATCCTT
* * * * *
37930483 TTTCATAATCGATAGTCGAAGCTATCCCTGTTCATATTCGATAGCCGAAGCTATCCC
1 TTTCATAATCAATAGCCAAAACTATCCCTGTTCATAATCGATAGCCGAAGCTATCCC
* * * *
37930540 TTTCATATTCAATGGCCAAAACTATCCCTTTTCATAATCGATAGTCGAAGCTATCCC
1 TTTCATAATCAATAGCCAAAACTATCCCTGTTCATAATCGATAGCCGAAGCTATCCC
37930597 TTT
1 TTT
37930600 TCATTGGTCG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (57 bp):
TTTCATAATCAATAGCCAAAACTATCCCTGTTCATAATCGATAGCCGAAGCTATCCC
Found at i:37930870 original size:14 final size:14
Alignment explanation
Indices: 37930847--37930898 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
37930837 AAATAACAAC
37930847 TAAT-ATTTAAAAT
1 TAATCATTTAAAAT
* *
37930860 TTATCATTTAACAAA
1 TAATCATTTAA-AAT
*
37930875 TAAT-ATTTCAAAT
1 TAATCATTTAAAAT
37930888 TAATCATTTAA
1 TAATCATTTAA
37930899 CACCTAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 9 0.30
14 16 0.53
15 5 0.17
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (14 bp):
TAATCATTTAAAAT
Found at i:37930872 original size:28 final size:28
Alignment explanation
Indices: 37930840--37930905 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
37930830 TACTTTTAAA
*
37930840 TAACAACTAATATTTAAAATTTATCATT
1 TAACAACTAATATTTAAAATTAATCATT
* *
37930868 TAACAAATAATATTTCAAATTAATCATT
1 TAACAACTAATATTTAAAATTAATCATT
*
37930896 TAACACCTAA
1 TAACAACTAA
37930906 AATCTCAAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (28 bp):
TAACAACTAATATTTAAAATTAATCATT
Found at i:37930913 original size:28 final size:28
Alignment explanation
Indices: 37930856--37930913 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
37930846 CTAATATTTA
* * *
37930856 AAATTTATCATTTAACAAATAATATTTC
1 AAATTAATCATTTAACAAATAAAATCTC
**
37930884 AAATTAATCATTTAACACCTAAAATCTC
1 AAATTAATCATTTAACAAATAAAATCTC
37930912 AA
1 AA
37930914 GGTTCATCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (28 bp):
AAATTAATCATTTAACAAATAAAATCTC
Found at i:37931912 original size:21 final size:21
Alignment explanation
Indices: 37931886--37931926 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37931876 ATTGTTTTGT
*
37931886 TTCTCTTTTCTTTTTACTCTA
1 TTCTCTTATCTTTTTACTCTA
*
37931907 TTCTCTTATCTTTTTTCTCT
1 TTCTCTTATCTTTTTACTCT
37931927 CCTTTTCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.68
Consensus pattern (21 bp):
TTCTCTTATCTTTTTACTCTA
Found at i:37933702 original size:22 final size:21
Alignment explanation
Indices: 37933676--37933716 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
37933666 CCCTAGGTCA
*
37933676 CACGGGCATGTGCCTCCTCCCG
1 CACGGGCATGTACC-CCTCCCG
37933698 CACGGGCATGTACCCCTCC
1 CACGGGCATGTACCCCTCC
37933717 ACATAGGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.12, C:0.46, G:0.24, T:0.17
Consensus pattern (21 bp):
CACGGGCATGTACCCCTCCCG
Found at i:37944717 original size:47 final size:47
Alignment explanation
Indices: 37944651--37944858 Score: 362
Period size: 47 Copynumber: 4.4 Consensus size: 47
37944641 GAAATGATAG
*
37944651 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
37944698 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
37944745 TAAGGCCTAATAGCTGATGTGATGAATGTGAAACTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37944792 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37944839 TAAGGCCTAATAGCCGATGT
1 TAAGGCCTAATAGCCGATGT
37944859 ATATATGTAA
Statistics
Matches: 154, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 154 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:37944862 original size:30 final size:30
Alignment explanation
Indices: 37944826--37944888 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
37944816 AATGTGAAAG
*
37944826 TGTATATATGTGATAAGGCCTAATAGCCGA
1 TGTATATATGTAATAAGGCCTAATAGCCGA
*
37944856 TGTATATATGTAATAAGGCCTAATGGCCGA
1 TGTATATATGTAATAAGGCCTAATAGCCGA
37944886 TGT
1 TGT
37944889 GATGAATGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (30 bp):
TGTATATATGTAATAAGGCCTAATAGCCGA
Found at i:37944872 original size:77 final size:77
Alignment explanation
Indices: 37944779--37944935 Score: 278
Period size: 77 Copynumber: 2.0 Consensus size: 77
37944769 AATGTGAAAC
* *
37944779 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
37944844 CCTAATAGCCGA
66 CCTAATAGCCGA
*
37944856 TGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
*
37944921 CCTAATGGCCGA
66 CCTAATAGCCGA
37944933 TGT
1 TGT
37944936 GTGAATGTGA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (77 bp):
TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATAGCCGA
Found at i:37944888 original size:124 final size:123
Alignment explanation
Indices: 37944732--37944961 Score: 388
Period size: 124 Copynumber: 1.9 Consensus size: 123
37944722 AATGTGAAAG
* * * *
37944732 TGTATATGTGTGATAAGGCCTAATAGCTGATGTGATGAATGTGAAACTGTATATGTGTGATAAGG
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAACTGTATATATGTGATAAGG
37944797 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
66 CCTAATAGCCGATGTG-TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
* *
37944856 TGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAACTGTATATATGTGATAAGG
*
37944921 CCTAATGGCCGATGTGTGAATGTGAAAGTGTATATATGTGA
66 CCTAATAGCCGATGTGTGAATGTGAAAGTGTATATATGTGA
37944962 CAGGGCCGAG
Statistics
Matches: 99, Mismatches: 7, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
123 25 0.25
124 74 0.75
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (123 bp):
TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAACTGTATATATGTGATAAGG
CCTAATAGCCGATGTGTGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
Found at i:37944958 original size:46 final size:47
Alignment explanation
Indices: 37944856--37945012 Score: 217
Period size: 47 Copynumber: 3.4 Consensus size: 47
37944846 TAATAGCCGA
*
37944856 TGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
37944903 TGTATATATGTGATAAGGCCTAATGGCCGATGTG-TGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * * *
37944949 TGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
37944996 TGCATAAATGTGATAAG
1 TGTATATATGTGATAAG
37945013 TCCTGAAGGG
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 40 0.41
47 57 0.59
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
Found at i:37945187 original size:37 final size:37
Alignment explanation
Indices: 37945131--37945209 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
37945121 CCGAGCTCTA
* *
37945131 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
* *
37945168 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37945205 AAGAC
1 AAGAC
37945210 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37954047 original size:29 final size:29
Alignment explanation
Indices: 37954005--37954064 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
37953995 CATATTCTAG
37954005 TGTCAGAATGGGCCTGCTAGTCTGGTGGT
1 TGTCAGAATGGGCCTGCTAGTCTGGTGGT
* * *
37954034 TGTCCGAATGGGCCTGTTGGTCTGGTGGT
1 TGTCAGAATGGGCCTGCTAGTCTGGTGGT
37954063 TG
1 TG
37954065 GTTGTGTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.10, C:0.17, G:0.40, T:0.33
Consensus pattern (29 bp):
TGTCAGAATGGGCCTGCTAGTCTGGTGGT
Found at i:37956615 original size:27 final size:27
Alignment explanation
Indices: 37956579--37956871 Score: 354
Period size: 27 Copynumber: 10.8 Consensus size: 27
37956569 CCCCAAAATA
* *
37956579 GGTAAAATGATCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
37956606 GGTAAAATGATCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
37956633 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
37956660 GATAAAATGACCGAAATAGCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
37956687 GGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
** * *
37956714 GGTAAAAATGATAGAAATACCCCCGTAA
1 GGT-AAAATGACCGAAATACCCCCATAG
* **
37956742 GGTAATAATGATCGAAATAATCCCATAG
1 GGTAA-AATGACCGAAATACCCCCATAG
* *
37956770 GGTAAAATGACTGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* **
37956797 GGTAAAATAACCGAAATA-CCTTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
37956823 GGTAAAATGACCGAAATACCCCCATAT
1 GGTAAAATGACCGAAATACCCCCATAG
* *
37956850 GGTAAAATGACTGATATACCCC
1 GGTAAAATGACCGAAATACCCC
37956872 TTGTAGATGA
Statistics
Matches: 229, Mismatches: 34, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 24 0.10
27 160 0.70
28 45 0.20
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:37956813 original size:137 final size:135
Alignment explanation
Indices: 37956582--37956856 Score: 406
Period size: 136 Copynumber: 2.0 Consensus size: 135
37956572 CAAAATAGGT
* * * *
37956582 AAAATGATCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCCATAAGGTAAAATGACCGA
1 AAAATGATAGAAATACCCCCATAAGGTAAAATGATCGAAATAACCCCATAAGGTAAAATGACCGA
* *
37956647 AATACCCCCATAGGATAAAATGACCGAAATAGCCTCATAGGGTAAAATGACTGAAATACCCCCAT
66 AATACCCCCATAGGATAAAATAACCGAAATA-CCTCATAGGGTAAAATGACCGAAATACCCCCAT
37956712 AGGGTA
130 AGGGTA
* * * *
37956718 AAAATGATAGAAATACCCCCGTAAGGTAATAATGATCGAAATAATCCCATAGGGTAAAATGACTG
1 AAAATGATAGAAATACCCCCATAAGGTAA-AATGATCGAAATAACCCCATAAGGTAAAATGACCG
* * *
37956783 AAATACCCTCATAGGGTAAAATAACCGAAATACCTTATAGGGTAAAATGACCGAAATACCCCCAT
65 AAATACCCCCATAGGATAAAATAACCGAAATACCTCATAGGGTAAAATGACCGAAATACCCCCAT
*
37956848 ATGGTA
130 AGGGTA
37956854 AAA
1 AAA
37956857 TGACTGATAT
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
136 64 0.52
137 60 0.48
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (135 bp):
AAAATGATAGAAATACCCCCATAAGGTAAAATGATCGAAATAACCCCATAAGGTAAAATGACCGA
AATACCCCCATAGGATAAAATAACCGAAATACCTCATAGGGTAAAATGACCGAAATACCCCCATA
GGGTA
Found at i:37961076 original size:40 final size:40
Alignment explanation
Indices: 37961032--37961172 Score: 126
Period size: 40 Copynumber: 3.6 Consensus size: 40
37961022 GTTTGCAATT
37961032 TTGGTGGCTTGTCCACAATATTGGCAATTTATCTGCATTA
1 TTGGTGGCTTGTCCACAATATTGGCAATTTATCTGCATTA
* * * ** ** *
37961072 TTGGTAGCTTGTCCACATTACTGGCAGCTCGTCTGCAATA
1 TTGGTGGCTTGTCCACAATATTGGCAATTTATCTGCATTA
* * * * *
37961112 CTAGTGGCTTGTCCAC-ATTTCTGGC-ATTTATCTGTATTG
1 TTGGTGGCTTGTCCACAATAT-TGGCAATTTATCTGCATTA
*
37961151 TTGGTGGCTTATCCACAA-ATTG
1 TTGGTGGCTTGTCCACAATATTG
37961173 ATGTGTTATT
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
38 2 0.03
39 22 0.30
40 50 0.68
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (40 bp):
TTGGTGGCTTGTCCACAATATTGGCAATTTATCTGCATTA
Found at i:37961100 original size:20 final size:20
Alignment explanation
Indices: 37961067--37961137 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 20
37961057 AATTTATCTG
* *
37961067 CATTATTGGTAGCTTGTCCA
1 CATTACTGGCAGCTTGTCCA
* **
37961087 CATTACTGGCAGCTCGTCTG
1 CATTACTGGCAGCTTGTCCA
* * **
37961107 CAATACTAGTGGCTTGTCCA
1 CATTACTGGCAGCTTGTCCA
*
37961127 CATTTCTGGCA
1 CATTACTGGCA
37961138 TTTATCTGTA
Statistics
Matches: 34, Mismatches: 17, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (20 bp):
CATTACTGGCAGCTTGTCCA
Found at i:37974141 original size:20 final size:20
Alignment explanation
Indices: 37974110--37974174 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
37974100 AGCTAATAAC
*
37974110 GAGCTC-AATGAGTTGAATT
1 GAGCTCGAATGAGTTGACTT
37974129 GAGCTCGAATGAGTTGACTT
1 GAGCTCGAATGAGTTGACTT
*
37974149 GAGCTCGAATGAGCTGACTT
1 GAGCTCGAATGAGTTGACTT
37974169 GAGCTC
1 GAGCTC
37974175 AAGTGAGCTG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
19 6 0.14
20 37 0.86
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (20 bp):
GAGCTCGAATGAGTTGACTT
Found at i:37974181 original size:20 final size:20
Alignment explanation
Indices: 37974110--37974185 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
37974100 AGCTAATAAC
* *
37974110 GAGCTC-AATGAGTTGAATT
1 GAGCTCGAATGAGCTGACTT
*
37974129 GAGCTCGAATGAGTTGACTT
1 GAGCTCGAATGAGCTGACTT
37974149 GAGCTCGAATGAGCTGACTT
1 GAGCTCGAATGAGCTGACTT
37974169 GAGCTC-AAGTGAGCTGA
1 GAGCTCGAA-TGAGCTGA
37974186 ACCACATGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
19 8 0.15
20 45 0.85
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (20 bp):
GAGCTCGAATGAGCTGACTT
Found at i:37978618 original size:21 final size:21
Alignment explanation
Indices: 37978560--37978624 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
37978550 TCTCACTCTC
*
37978560 TTTTTCTTTT-TCAATGTCTT
1 TTTTTCTTTTCTCAATTTCTT
37978580 TTTCTT-TTTCTCTC-ATTTCTT
1 TTT-TTCTTT-TCTCAATTTCTT
*
37978601 TTTTTCTTTTCTCAATTTCAT
1 TTTTTCTTTTCTCAATTTCTT
37978622 TTT
1 TTT
37978625 GGATTTGTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 12 0.32
21 24 0.63
22 2 0.05
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTTCTTTTCTCAATTTCTT
Found at i:37979507 original size:13 final size:13
Alignment explanation
Indices: 37979489--37979514 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37979479 ATGGCCTACA
37979489 ATTTCATGAAAAT
1 ATTTCATGAAAAT
37979502 ATTTCATGAAAAT
1 ATTTCATGAAAAT
37979515 TTCGTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
ATTTCATGAAAAT
Found at i:37980713 original size:50 final size:50
Alignment explanation
Indices: 37980587--37980875 Score: 388
Period size: 50 Copynumber: 5.8 Consensus size: 50
37980577 ATTTGGGTAA
* *
37980587 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
37980637 A-AGGTCCCATGTAAGACCATGTCTGGGACATGGTATTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
37980686 AGAGGTCCCATGTAAGACAATGTCTGGGACATGGTATTAGCA-CGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
37980735 AGAGGT-CCATGTAA-ACGATGTCTGGGAGATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
37980783 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
37980833 AGAACATACCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
37980876 TGTTATTATC
Statistics
Matches: 211, Mismatches: 23, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
47 21 0.10
48 21 0.10
49 65 0.31
50 70 0.33
51 34 0.16
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:37980797 original size:97 final size:100
Alignment explanation
Indices: 37980587--37980875 Score: 388
Period size: 97 Copynumber: 2.9 Consensus size: 100
37980577 ATTTGGGTAA
* * *
37980587 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA-AGGTCCCATGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTACCATGTAA
* *
37980651 GACCATGTCTGGGACATGGTATTGGCATCGAGATG
66 GACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
37980686 AGAGGTCCCATGTAAGACAATGTCTGGGACATGGTATTAGCA-CGAGATGAGAGGT-CCATGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTACCATGTAA
* * *
37980749 -ACGATGTCTGGGAGATGGCGTTGGCACCGAGATG
66 GACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * **
37980783 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATACCATGTA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-AGGTACCATGTA
*
37980848 AGACCATGTCTGGGACATGGCTTTGGCA
65 AGACCATGTCTGGGACATGGCATTGGCA
37980876 TGTTATTATC
Statistics
Matches: 164, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
97 66 0.40
98 24 0.15
99 43 0.26
100 8 0.05
101 23 0.14
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTACCATGTAA
GACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:37982775 original size:46 final size:46
Alignment explanation
Indices: 37982718--37982811 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
37982708 CAAAGAAAAG
*
37982718 ACCTCGACCCACTATCAAGAATGATAGGAACCCTCGTATATGATGA
1 ACCTCGACCCACTATAAAGAATGATAGGAACCCTCGTATATGATGA
* * * *
37982764 ACCTTGACCCACTATAAAGGATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATAAAGAATGATAGGAACCCTCGTATATGATGA
37982810 AC
1 AC
37982812 GACATACTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (46 bp):
ACCTCGACCCACTATAAAGAATGATAGGAACCCTCGTATATGATGA
Found at i:37989646 original size:51 final size:51
Alignment explanation
Indices: 37989589--37989824 Score: 178
Period size: 51 Copynumber: 4.6 Consensus size: 51
37989579 GATGAACACG
**
37989589 TGTGTAGTACTGTGTGAAGGCTACTACATGAATAGATAAATGATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACATGAATAGATAAATGATGGTCACA
* ** * * * *
37989640 TATGTAGTACTAAGTGAAGGCTAC-A-ATGTGTACCA-AGAA-GCTTTGGTTACG
1 TGTGTAGTACTAAGTGAAGGCTACTACATGAATA-GATA-AATG--ATGGTCACA
* * * *
37989691 TGTTTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACATGAATAGATAAATGATGGTCACA
** * ** **
37989742 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAT-ATTTGGTCAGG
1 TGTGTAGTACTAAGTGAAGGCTACTACATGAATAGATAAATGA--TGGTCACA
* *
37989793 TGTGTAGTACTATGTGAAGGCTACTACGTGAA
1 TGTGTAGTACTAAGTGAAGGCTACTACATGAA
37989825 CCGTCAAACT
Statistics
Matches: 145, Mismatches: 30, Indels: 20
0.74 0.15 0.10
Matches are distributed among these distances:
49 8 0.06
50 8 0.06
51 120 0.83
52 4 0.03
53 5 0.03
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGAAGGCTACTACATGAATAGATAAATGATGGTCACA
Found at i:37989762 original size:102 final size:102
Alignment explanation
Indices: 37989585--37989824 Score: 374
Period size: 102 Copynumber: 2.4 Consensus size: 102
37989575 TATCGATGAA
* *
37989585 CACGTGTGTAGTACTGTGTGAAGGCTACTACATGAATAGATAAATGATGGTCACATATGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATAGATAAATGATGGTCACATATGTAGTAC
*
37989650 TAAGTGAAGGCTACAATGTGTACC-AAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAA-AAGATTTGGT
* * * *
37989687 TACGTGTTTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATAGATAAATGATGGTCACATATGTAGTAC
* *
37989752 TAAGTGAAGGCTACTATGTGTACCGAAAATATTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGATTTGGT
*
37989789 CAGGTGTGTAGTACTATGTGAAGGCTACTACGTGAA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAA
37989825 CCGTCAAACT
Statistics
Matches: 125, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
102 123 0.98
103 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATAGATAAATGATGGTCACATATGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAAAAGATTTGGT
Found at i:37989901 original size:101 final size:101
Alignment explanation
Indices: 37989592--37989911 Score: 225
Period size: 102 Copynumber: 3.1 Consensus size: 101
37989582 GAACACGTGT
* * ** * * *
37989592 GTAGTACTGTGTGAAGGCTACTACATGAATAGATAAATGATGGTCACATATGTAGTACTAAGTGA
1 GTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAT-ATGATCACATGTATAGTACTAAGTGA
* * * ** *** * ** *
37989657 AGGCTACAATGTGTACC-AAGAAGCTTTGGTTACGTGT
65 AGGATACTACGTGTACCGAA-AATATAAAGTAAAATGG
* * * *
37989694 TTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAGTGA
1 GTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAT-ATGATCACATGTATAGTACTAAGTGA
* * *** * ** *
37989759 AGGCTACTATGTGTACCGAAAATATTTGGTCAGGTGT
65 AGGATACTACGTGTACCGAAAATATAAAGTAAAATGG
* *
37989796 GTAGTACTATGTGAAGGCTACTACGTGAACCG-TCAAACT-TGATCACGTGTATAGTACTATGTG
1 GTAGTACTATGTGAAGGCTACTACGTGAACCGAT-AAA-TATGATCACATGTATAGTACTAAGTG
* *
37989859 AAGGATACTACGTGTATCGAATGATA-AAAGTAAAATGG
64 AAGGATACTACGTGTACCGAA-AATATAAAGTAAAATGG
*
37989897 GTAGTACTGTGTGAA
1 GTAGTACTATGTGAA
37989912 AAACCCCAAA
Statistics
Matches: 186, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
101 58 0.31
102 125 0.67
103 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (101 bp):
GTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATATGATCACATGTATAGTACTAAGTGAA
GGATACTACGTGTACCGAAAATATAAAGTAAAATGG
Found at i:37990139 original size:37 final size:39
Alignment explanation
Indices: 37990070--37990150 Score: 121
Period size: 38 Copynumber: 2.1 Consensus size: 39
37990060 ATGTGTGGAA
*
37990070 TTGAATTGAATATTGACTTGAAAATGACAAAGTGA-ATT
1 TTGAATTGAATATTGACTTGAAAATGAAAAAGTGATATT
*
37990108 TTGAATTGAATATTGA-TTGAAAGTGAAAAAGTGATATT
1 TTGAATTGAATATTGACTTGAAAATGAAAAAGTGATATT
*
37990146 ATGAA
1 TTGAA
37990151 AAAGTAGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
37 16 0.41
38 23 0.59
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (39 bp):
TTGAATTGAATATTGACTTGAAAATGAAAAAGTGATATT
Found at i:37992675 original size:39 final size:40
Alignment explanation
Indices: 37992630--37992761 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
37992620 GCTCCTCGTT
* * *
37992630 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* **
37992670 C-AATGCCTTCGGGACATAACCCAGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
37992709 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
37992749 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
37992762 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 33 0.42
40 45 0.58
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:37992823 original size:41 final size:41
Alignment explanation
Indices: 37992746--37992823 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37992736 TTAGTATCTC
* * *
37992746 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37992787 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37992824 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38000690 original size:40 final size:40
Alignment explanation
Indices: 38000508--38000730 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
38000498 TCCTCGTTCA
* * * * *
38000508 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
38000547 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38000587 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
38000627 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
38000667 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
38000707 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38000731 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38000739 original size:41 final size:41
Alignment explanation
Indices: 38000662--38000739 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38000652 TTAGTATCTC
* * *
38000662 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38000703 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38000740 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38009631 original size:40 final size:40
Alignment explanation
Indices: 38009601--38009771 Score: 279
Period size: 40 Copynumber: 4.3 Consensus size: 40
38009591 GGACTAAGAT
* * * *
38009601 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
38009641 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
38009681 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * *
38009721 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
38009761 CCGAAGGCATT
1 CCGAAGGCATT
38009772 TGAACGAGGA
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 124 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:38009685 original size:80 final size:80
Alignment explanation
Indices: 38009548--38009773 Score: 294
Period size: 80 Copynumber: 2.8 Consensus size: 80
38009538 TTGAATGCTG
* * * * * * * *
38009548 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGCTAAG-TCCCGAAGGCAT
38009611 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
* *
38009628 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
38009693 GTGCGAGTTATTAAA
66 GTGCGAGATACTAAA
* *
38009708 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTT
38009773 G
66 G
38009774 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 121 0.95
81 6 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:38009762 original size:120 final size:120
Alignment explanation
Indices: 38009548--38009771 Score: 281
Period size: 120 Copynumber: 1.9 Consensus size: 120
38009538 TTGAATGCTG
* * * *
38009548 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTTT
1 TCCGGGCTAAGTCCCGAAGGCTTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATTC
*
38009613 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * * **
38009668 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** *
38009731 TCGTGCGAGTTGTTAAATCCGGGCTATGTCCCGAAGGCATT
64 TCGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATT
38009772 TGAACGAGGA
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
119 1 0.01
120 80 0.92
121 6 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:38009791 original size:80 final size:80
Alignment explanation
Indices: 38009548--38009806 Score: 258
Period size: 80 Copynumber: 3.2 Consensus size: 80
38009538 TTGAATGCTG
* * * * * * * *
38009548 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGCTAAG-TCCCGAAGGCAT
* **
38009611 TTGTGCGAGAT-ACTAAA
64 TCGAACGAG-TGACTAAA
*
38009628 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
** * *
38009693 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * *
38009708 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
*
38009773 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
38009788 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38009807 TACGTGATTT
Statistics
Matches: 154, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
79 18 0.12
80 130 0.84
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:38009791 original size:120 final size:120
Alignment explanation
Indices: 38009548--38009806 Score: 265
Period size: 120 Copynumber: 2.2 Consensus size: 120
38009538 TTGAATGCTG
* * * * *
38009548 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCTTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATTC
* ** * *
38009613 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAA
* * * **
38009668 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * *
38009731 TCGTGCGAGTTGTTAAATCCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TCGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAA
*
38009788 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38009807 TACGTGATTT
Statistics
Matches: 114, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
119 17 0.15
120 91 0.80
121 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAA
Found at i:38022953 original size:30 final size:30
Alignment explanation
Indices: 38022917--38022981 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
38022907 TATGATTGAT
38022917 AAATATGCACCAACTTGAAGGAGGGTGTTG
1 AAATATGCACCAACTTGAAGGAGGGTGTTG
38022947 AAATATGCACCAACTTGAAGGAGGGTGTTG
1 AAATATGCACCAACTTGAAGGAGGGTGTTG
38022977 AAATA
1 AAATA
38022982 CATGAAGCCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.23
Consensus pattern (30 bp):
AAATATGCACCAACTTGAAGGAGGGTGTTG
Found at i:38029400 original size:48 final size:48
Alignment explanation
Indices: 38029348--38029453 Score: 158
Period size: 48 Copynumber: 2.2 Consensus size: 48
38029338 TATTGGCAAT
*
38029348 TATGTGGTGGTTTACCCATGATGTGCTATATAACCGTTCATTGGTATC
1 TATGTGGTGGTTTACCCATGATGTGCTATATAACCGTTCATCGGTATC
* * * * *
38029396 TATGTGGTGGTTTATCCGTGATGTGCTATGTGATCGTTCATCGGTATC
1 TATGTGGTGGTTTACCCATGATGTGCTATATAACCGTTCATCGGTATC
38029444 TATGTGGTGG
1 TATGTGGTGG
38029454 CTTGTCCACA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.41
Consensus pattern (48 bp):
TATGTGGTGGTTTACCCATGATGTGCTATATAACCGTTCATCGGTATC
Found at i:38041473 original size:101 final size:102
Alignment explanation
Indices: 38041356--38041539 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 102
38041346 AAAGTGATGG
*
38041356 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGAAATGAT-A-CGTAACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCG-AATGATAATCGTAACATGTGTAGT
*
38041419 ACTATGTGCAGGCTACTATGCATACTGGATAGTTTCGA
65 ACTATGTGCAAGCTACTATGCATACTGGATAGTTTCGA
* * * * * *
38041457 TCACGTGTGTAGTACTATGTGCGGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATCGTAACATGTGTAGTA
38041522 CTATGTGCAAGCTACTAT
66 CTATGTGCAAGCTACTAT
38041540 ATGAACCGAA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.52
102 31 0.42
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATCGTAACATGTGTAGTA
CTATGTGCAAGCTACTATGCATACTGGATAGTTTCGA
Found at i:38041476 original size:51 final size:49
Alignment explanation
Indices: 38041408--38041539 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 49
38041398 ATGATACGTA
*
38041408 ACATGTGTAGTACTATGTGCAGGCTACTATGCATACTGGATAGT-TTCGATC
1 ACATGTGTAGTACTATGTGCAGGCTACTATGCAT-C-GGATAGTAAT-GATC
* * * * *
38041459 ACGTGTGTAGTACTATGTGCGGGCTACTACGTGTATCGGATGGTAATGGTC
1 ACATGTGTAGTACTATGTGCAGGCTACTA--TGCATCGGATAGTAATGATC
*
38041510 ACATGTGTAGTACTATGTGCAAGCTACTAT
1 ACATGTGTAGTACTATGTGCAGGCTACTAT
38041540 ATGAACCGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
49 1 0.01
51 62 0.90
52 2 0.03
53 4 0.06
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (49 bp):
ACATGTGTAGTACTATGTGCAGGCTACTATGCATCGGATAGTAATGATC
Found at i:38041595 original size:45 final size:45
Alignment explanation
Indices: 38041544--38041638 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
38041534 TACTATATGA
* *
38041544 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
38041589 ACCGAACATTATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
38041634 ACCGA
1 ACCGA
38041639 GGATCTGTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:38047854 original size:40 final size:39
Alignment explanation
Indices: 38047770--38047965 Score: 209
Period size: 39 Copynumber: 4.9 Consensus size: 39
38047760 TTGAATGATG
* *
38047770 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * * *
38047809 ATCCGGACTAAGATCCGAAGGCATTAGTGCAAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
38047850 TCCGGGCTAAGCCCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
38047889 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
38047928 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA
38047966 TAACATGGCT
Statistics
Matches: 136, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 70 0.51
40 55 0.40
41 10 0.07
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:38047944 original size:79 final size:80
Alignment explanation
Indices: 38047770--38047965 Score: 222
Period size: 79 Copynumber: 2.5 Consensus size: 80
38047760 TTGAATGATG
* * *
38047770 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGT-ACTAATATCCGGACTAAGACCCGAAGGCAT
*
38047833 TAGTGCAAGATACTAAT
64 TAGTGCAAGATACTAAA
*
38047850 TCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAG-TACTAATATCCGGACTAAGACCCGAAGGCATT
* * *
38047912 TGTGCGAGTTACTAAA
65 AGTGCAAGATACTAAA
* * *
38047928 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAG-TACTA
38047966 TAACATGGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
78 33 0.33
79 47 0.47
80 20 0.20
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTACTAATATCCGGACTAAGACCCGAAGGCATTA
GTGCAAGATACTAAA
Found at i:38047982 original size:40 final size:40
Alignment explanation
Indices: 38047773--38047988 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 40
38047763 AATGATGTCC
* * * * * *
38047773 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAATCA
* * * * *
38047813 GGACTAAGAT-CCGAAGGC-ATTAGTGCAAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCAATT-GTGCGAGTTACTAAATCA
* * * * *
38047853 GGGCTAAG-CCCGAAGGCATTTGTGTGAGATACTAATTCC
1 GGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAATCA
* *
38047892 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAATCA
*
38047931 GGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA-CA
1 GGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AATCA
* *
38047971 TGGCTATGTCCCGAAGGC
1 GGGCTAAGTCCCGAAGGC
38047989 GTTTGAACGA
Statistics
Matches: 150, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
39 67 0.45
40 76 0.51
41 7 0.05
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAATCA
Found at i:38056113 original size:39 final size:40
Alignment explanation
Indices: 38056012--38056235 Score: 246
Period size: 39 Copynumber: 5.7 Consensus size: 40
38056002 TTGAATGATG
* *
38056012 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
38056051 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
38056092 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
38056131 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
38056170 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
38056209 AACTGGGCTATGTCCCGAAGGCGTTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
38056236 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 75 0.46
40 74 0.46
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:38056217 original size:79 final size:80
Alignment explanation
Indices: 38056012--38056235 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 80
38056002 TTGAATGATG
* * * * *
38056012 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
38056076 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
*
38056092 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
38056154 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * * * *
38056170 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACTGGGCTATGTCCCGAAGGCGTTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
38056235 G
66 G
38056236 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 36 0.29
79 56 0.45
80 32 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:38056242 original size:40 final size:40
Alignment explanation
Indices: 38056012--38056235 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
38056002 TTGAATGATG
* * * *
38056012 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
38056052 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38056092 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
38056131 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38056170 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
38056211 -CTGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38056236 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 74 0.46
40 78 0.48
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38056257 original size:79 final size:79
Alignment explanation
Indices: 38056065--38056268 Score: 209
Period size: 79 Copynumber: 2.6 Consensus size: 79
38056055 GGACTAAGAT
** * * * *
38056065 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
38056129 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** *
38056143 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
* *
38056207 ATAACTGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * * *
38056223 CCGAAGGCGTTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGG
38056269 TACGTGATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 37 0.34
79 47 0.44
80 24 0.22
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:38058383 original size:88 final size:88
Alignment explanation
Indices: 38058234--38058412 Score: 340
Period size: 88 Copynumber: 2.0 Consensus size: 88
38058224 GTTAACAGTA
*
38058234 ATACTAGAATGATTCTAATGTTACAAACAATGAGTGGCATCTAGAAATGCATCATTTCTACCTAA
1 ATACTAGAACGATTCTAATGTTACAAACAATGAGTGGCATCTAGAAATGCATCATTTCTACCTAA
38058299 GTTACAAGAAATCATGATTCGAC
66 GTTACAAGAAATCATGATTCGAC
*
38058322 ATACTAGAACGATTCTAATGTTACAAACAATGAGTGGCATCTAGAAATGCATCATTTCTACCTCA
1 ATACTAGAACGATTCTAATGTTACAAACAATGAGTGGCATCTAGAAATGCATCATTTCTACCTAA
38058387 GTTACAAGAAATCATGATTCGAC
66 GTTACAAGAAATCATGATTCGAC
38058410 ATA
1 ATA
38058413 ACCTTTTCGG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (88 bp):
ATACTAGAACGATTCTAATGTTACAAACAATGAGTGGCATCTAGAAATGCATCATTTCTACCTAA
GTTACAAGAAATCATGATTCGAC
Found at i:38066979 original size:27 final size:27
Alignment explanation
Indices: 38066949--38067126 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38066939 ATATTGAGTC
* * * *
38066949 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
38066976 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38067003 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
38067031 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38067058 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38067085 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38067112 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38067127 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38067088 original size:82 final size:81
Alignment explanation
Indices: 38066970--38067125 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38066960 TGCTATATAA
* *
38066970 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38067035 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38067052 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38067116 CACTTAGTGC
65 CACTTAGTGC
38067126 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38071029 original size:50 final size:50
Alignment explanation
Indices: 38070910--38071034 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 50
38070900 TTATTGAGGT
* * * *
38070910 TATGAGAGGTCCCATGTAAGATCATGTTTGGGACATGGCGTTGGCACCGA
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
* * * ** *
38070960 GATGGGAGGCCCCCCGTAAGACCTTGTCTGGGACATGGCATGGGCACCGA
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
**
38071010 TATGAGAATTCCCATGTAAGACCAT
1 TATGAGAGGTCCCATGTAAGACCAT
38071035 ATCTAGGATA
Statistics
Matches: 57, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
Found at i:38071333 original size:20 final size:20
Alignment explanation
Indices: 38071308--38071346 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
38071298 TGAGTTATTT
38071308 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
38071328 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
38071347 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:38072872 original size:23 final size:23
Alignment explanation
Indices: 38072842--38072885 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
38072832 CTTCCACCTG
38072842 AAGTTAG-AGAGGCTCAAGAAAAT
1 AAGTTAGAAG-GGCTCAAGAAAAT
*
38072865 AAGTTAGAAGGGCTTAAGAAA
1 AAGTTAGAAGGGCTCAAGAAA
38072886 CAACAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.48, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AAGTTAGAAGGGCTCAAGAAAAT
Found at i:38078327 original size:49 final size:49
Alignment explanation
Indices: 38078172--38078411 Score: 255
Period size: 50 Copynumber: 4.7 Consensus size: 49
38078162 TTTTCTGTAC
* * * ** *
38078172 TGCCAAAGCCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAT-GGACCTCTCATCTCGG
* * ***
38078222 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTA-CATGGACCTCTCATCTCGG
38078272 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGACCTCTCATCTCGG
* *
38078321 TGCCAACGCCATGTCCCAGACATTGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAT-GGACCTCTCAT---CTC---GG
* * *
38078377 TGCCAATGTCATGTCTCAGACATGGTCTTACATGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGG
38078412 GATCTCTTTA
Statistics
Matches: 161, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
49 48 0.30
50 78 0.48
53 3 0.02
55 2 0.01
56 30 0.19
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (49 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGACCTCTCATCTCGG
Found at i:38078332 original size:99 final size:101
Alignment explanation
Indices: 38078172--38078411 Score: 277
Period size: 99 Copynumber: 2.3 Consensus size: 101
38078162 TTTTCTGTAC
* * ** * *
38078172 TGCCAAAGCCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATCGGTGCCCATGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACAT-GGACCTCTCATATCGGTGCCAACGCCATGTC
** *
38078237 CCAGACATGGTCTTATGGGGGACCTCTCAT-CTC-GG
65 CCAGACATGGTCTTACAGGGGACCTCTCATACTCAGA
* *
38078272 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGACCTCTCATCTCGGTGCCAACGCCATGTCC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGACCTCTCATATCGGTGCCAACGCCATGTCC
* *
38078337 CAGACATTGTCTTACATGGGACCTCTCATAACCTCAATGA
66 CAGACATGGTCTTACAGGGGACCTCTCAT-A-CTC-A-GA
* * *
38078377 TGCCAATGTCATGTCTCAGACATGGTCTTACATGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGG
38078412 GATCTCTTTA
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
99 52 0.44
100 30 0.25
102 3 0.03
105 33 0.28
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (101 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGACCTCTCATATCGGTGCCAACGCCATGTCC
CAGACATGGTCTTACAGGGGACCTCTCATACTCAGA
Found at i:38081437 original size:11 final size:12
Alignment explanation
Indices: 38081415--38081441 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
38081405 CCCCTTTTTT
38081415 AAAAAGGAAAAA
1 AAAAAGGAAAAA
38081427 AAAAAGGAAAAA
1 AAAAAGGAAAAA
38081439 AAA
1 AAA
38081442 CACTCTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAGGAAAAA
Found at i:38081862 original size:18 final size:18
Alignment explanation
Indices: 38081831--38081881 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
38081821 AACCAAAAGA
*
38081831 GAGTAGAAGCAGCAGTAG
1 GAGTAGAAGTAGCAGTAG
* *
38081849 GAGTAGGAGTAGCAATAG
1 GAGTAGAAGTAGCAGTAG
* *
38081867 TAGTAGCAGTAGCAG
1 GAGTAGAAGTAGCAG
38081882 CGGTAGTAGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.37, C:0.10, G:0.37, T:0.16
Consensus pattern (18 bp):
GAGTAGAAGTAGCAGTAG
Found at i:38081877 original size:6 final size:6
Alignment explanation
Indices: 38081841--38082055 Score: 129
Period size: 6 Copynumber: 36.8 Consensus size: 6
38081831 GAGTAGAAGC
* * * * * * *
38081841 AGCAGT AGGAGT AGGAGT AGCAAT AGTAGT AGCAGT AGCAGC GGTAGT
1 AGCAGT AGCAGT AGCAGT AGCAGT AGCAGT AGCAGT AGCAGT AGCAGT
* * * * * * * *
38081889 AGCAAT AGTAGT AATC-GT AGTAGT AGCAAT AGCAGT AGTAGT CGTAGT
1 AGCAGT AGCAGT -AGCAGT AGCAGT AGCAGT AGCAGT AGCAGT AGCAGT
** * * *
38081937 AGCAGT AATAGT CGTAGT AGCAGT AGCA-- A-CAGT AGCAGT AGCCGT
1 AGCAGT AGCAGT AGCAGT AGCAGT AGCAGT AGCAGT AGCAGT AGCAGT
* * * * * *
38081982 AGTAGC AGTAGT AGCAGT AGCA-- A-CAGT AGCAGT AGCCGT AGTAGC
1 AGCAGT AGCAGT AGCAGT AGCAGT AGCAGT AGCAGT AGCAGT AGCAGT
*
38082027 AGCAGT AGCAGT AGCAGT AGTAGT AGCAG
1 AGCAGT AGCAGT AGCAGT AGCAGT AGCAG
38082056 CAGTAGTAGT
Statistics
Matches: 155, Mismatches: 46, Indels: 16
0.71 0.21 0.07
Matches are distributed among these distances:
3 4 0.03
4 2 0.01
5 3 0.02
6 145 0.94
7 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (6 bp):
AGCAGT
Done.