Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 109 of 206
Found at i:32295585 original size:106 final size:105
Alignment explanation
Indices: 32295391--32295585 Score: 237
Period size: 106 Copynumber: 1.8 Consensus size: 105
32295381 GATACAGGGT
*
32295391 TCCCGATTGGTTGTGATCCTGCATGTGTTGCAGACACACCACAACTCTTATGAGCATCCCAATAT
1 TCCCGATTGGTTGTGATCCTACATGTGTTGCAGACACACCACAACTCTTATGAGCATCCCAATAT
* * * *
32295456 TTGGCTTTTATAAGCTTCCCGTTAATAGCTCTTTGGAGCA
66 ATGGCTCTCAGAAGCTTCCCGTTAATAGCTCTTTGGAGCA
** ** * * * *
32295496 TCCCGATTTGGTTGTGATCCTACATGTGTTGTGGACACACCGTAGCTTTTATGAGCGTCCCGATA
1 TCCCGA-TTGGTTGTGATCCTACATGTGTTGCAGACACACCACAACTCTTATGAGCATCCCAATA
* * *
32295561 TATGGCTCTCCGGAGCTTCTCGTTA
65 TATGGCTCTCAGAAGCTTCCCGTTA
32295586 TATGGTTCTT
Statistics
Matches: 73, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
105 6 0.08
106 67 0.92
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.34
Consensus pattern (105 bp):
TCCCGATTGGTTGTGATCCTACATGTGTTGCAGACACACCACAACTCTTATGAGCATCCCAATAT
ATGGCTCTCAGAAGCTTCCCGTTAATAGCTCTTTGGAGCA
Found at i:32295765 original size:24 final size:25
Alignment explanation
Indices: 32295738--32295808 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
32295728 TGTCTCGTAT
* *
32295738 GAGCTTCCTGTTA-ATGGCTCTCCG
1 GAGCTTCCTGTTACATGGCTCACAG
* *
32295762 GAGCTTCCTGTTACATGGATCACAT
1 GAGCTTCCTGTTACATGGCTCACAG
*
32295787 GAGCTTCCTGTTATATGGCTCA
1 GAGCTTCCTGTTACATGGCTCA
32295809 AAATAGCTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 13 0.32
25 27 0.68
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (25 bp):
GAGCTTCCTGTTACATGGCTCACAG
Found at i:32295816 original size:25 final size:25
Alignment explanation
Indices: 32295736--32295829 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 25
32295726 ATTGTCTCGT
* **
32295736 ATGAGCTTCCTGTTA-ATGGCTCTC
1 ATGAGCTTCCTGTTACATGGATCAA
** *
32295760 CGGAGCTTCCTGTTACATGGATCAC
1 ATGAGCTTCCTGTTACATGGATCAA
* *
32295785 ATGAGCTTCCTGTTATATGGCTCAAA
1 ATGAGCTTCCTGTTACATGGATC-AA
*
32295811 AT-AGCTTCTTGTTTACATG
1 ATGAGCTTCCTG-TTACATG
32295830 TTTTCAAGAG
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 13 0.23
25 34 0.61
26 9 0.16
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.36
Consensus pattern (25 bp):
ATGAGCTTCCTGTTACATGGATCAA
Found at i:32304458 original size:70 final size:70
Alignment explanation
Indices: 32304345--32304483 Score: 251
Period size: 70 Copynumber: 2.0 Consensus size: 70
32304335 GCTTCCCCTA
32304345 ATTCAAGTTCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
1 ATTCAAGTTCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
32304410 AGTCG
66 AGTCG
* * *
32304415 ATTCAAGTTTGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAGCTTAATTAAGTATTCCAAAT
1 ATTCAAGTTCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
32304480 AGTC
66 AGTC
32304484 AAAAATCATT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (70 bp):
ATTCAAGTTCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
AGTCG
Found at i:32308967 original size:3 final size:3
Alignment explanation
Indices: 32308961--32308995 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
32308951 ATTAACCTAA
32308961 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
32308996 AAGTTGGAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:32314230 original size:23 final size:23
Alignment explanation
Indices: 32314200--32314249 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
32314190 TATGTGATAA
32314200 AGACTGCTTTCTAAACCCATTAC
1 AGACTGCTTTCTAAACCCATTAC
32314223 AGACTGCTTTCTAAACCCATTAC
1 AGACTGCTTTCTAAACCCATTAC
32314246 AGAC
1 AGAC
32314250 ATTATGAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.30, G:0.10, T:0.28
Consensus pattern (23 bp):
AGACTGCTTTCTAAACCCATTAC
Found at i:32317031 original size:14 final size:14
Alignment explanation
Indices: 32317012--32317041 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
32317002 AAAACAAGCC
32317012 AAAATCAAGCCTTA
1 AAAATCAAGCCTTA
32317026 AAAATCAAGCCTTA
1 AAAATCAAGCCTTA
32317040 AA
1 AA
32317042 CATGTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAATCAAGCCTTA
Found at i:32318147 original size:25 final size:25
Alignment explanation
Indices: 32318113--32318225 Score: 115
Period size: 25 Copynumber: 4.6 Consensus size: 25
32318103 ATGAGCTGTA
*
32318113 AACGGTAAGCTCCTCTGAGCTAAAT
1 AACGGTAAGCTCATCTGAGCTAAAT
32318138 AACGGTAAGCTCATCTGAGCTAAAT
1 AACGGTAAGCTCATCTGAGCTAAAT
* * *
32318163 AA-GGTAAGCTCATAC-GAGTTGAGT
1 AACGGTAAGCTCAT-CTGAGCTAAAT
* * *
32318187 AATGGTAAGCTCATAC-GAGCTGAGT
1 AACGGTAAGCTCAT-CTGAGCTAAAT
*
32318212 ATCGGTAAGCTCAT
1 AACGGTAAGCTCAT
32318226 AATAGTTGAA
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
24 19 0.24
25 60 0.76
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (25 bp):
AACGGTAAGCTCATCTGAGCTAAAT
Found at i:32318243 original size:49 final size:49
Alignment explanation
Indices: 32318140--32318243 Score: 115
Period size: 49 Copynumber: 2.1 Consensus size: 49
32318130 AGCTAAATAA
*
32318140 CGGTAAGCTCATCTGAGCTAAATAAGGTAAGCTCATACGAGTTGAGTAAT
1 CGGTAAGCTCATCTGAGCTAAATAAGGTAAGCTCATAAGAGTTGAG-AAT
* * * *
32318190 -GGTAAGCTCATAC-GAGCTGAGTATCGGTAAGCTCATAATAGTTGA-AAT
1 CGGTAAGCTCAT-CTGAGCTAAATA-AGGTAAGCTCATAAGAGTTGAGAAT
32318238 CGGTAA
1 CGGTAA
32318244 CCCTAATGAC
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
48 3 0.07
49 24 0.52
50 19 0.41
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (49 bp):
CGGTAAGCTCATCTGAGCTAAATAAGGTAAGCTCATAAGAGTTGAGAAT
Found at i:32319995 original size:27 final size:27
Alignment explanation
Indices: 32319961--32320388 Score: 529
Period size: 27 Copynumber: 15.9 Consensus size: 27
32319951 ATCTGCACCA
* *
32319961 AAATACCCTCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCG
* *
32319988 AAATACCCCTATAGGATAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
32320015 AAATACCCTCATAGGGTAAAATAACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
32320042 AAATA-CCCTATAGGTTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
*
32320068 AATTACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
32320095 AATTAGCCCCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
32320122 AATTACCCCCATTGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* **
32320149 AATTACCCCCATAGGGTAAAATGATTG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
32320176 AATTACCCCTATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
32320203 AAATACCCCCATAGAGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
32320230 AAATACCCTCATAGGGTAAAATGACC-
1 AAATACCCCCATAGGGTAAAATGACCG
*
32320256 AAATTACCCTCATAGGGT-AAATGACCG
1 AAA-TACCCCCATAGGGTAAAATGACCG
*
32320283 AATTACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
32320310 AATTACCCCCATAGGGTGAAATAACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
32320337 AAATACCCCTATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
32320364 AAATACCTCCATAGGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
32320389 TGTTATACCC
Statistics
Matches: 352, Mismatches: 45, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
26 45 0.13
27 307 0.87
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:32320794 original size:28 final size:28
Alignment explanation
Indices: 32320754--32320870 Score: 182
Period size: 28 Copynumber: 4.2 Consensus size: 28
32320744 ACTATACTGA
32320754 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
*
32320782 TACTGTATTGGGCTAAGACCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
32320810 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
* * * *
32320838 TACTTTATTGGGCTAAAGTCCACACTG-
1 TACTGTATTGGGCTAAGGCCCACATTGT
32320865 TACTGT
1 TACTGT
32320871 TACTGAATAA
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 5 0.06
28 77 0.94
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.33
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:32324623 original size:266 final size:266
Alignment explanation
Indices: 32324149--32324946 Score: 1587
Period size: 266 Copynumber: 3.0 Consensus size: 266
32324139 CACCATCCAA
32324149 TATGCACATCCACAACACATTTTTGACCGAATACTCATTCACAAATGTTCAATTCTAGAATTCCT
1 TATGCACATCCACAACACATTTTTGACCGAATACTCATTCACAAATGTTCAATTCTAGAATTCCT
32324214 TGTCATGTATATCTTTAAATTTACCTAATCACATACATTAGCTTAATCAACTATGTCAAATACCA
66 TGTCATGTATATCTTTAAATTTACCTAATCACATACATTAGCTTAATCAACTATGTCAAATACCA
32324279 TTATTTTATCAAACTTGATATATACAAGCATATATAAGTCCTAACATAATCAACTTCCATACAAT
131 TTATTTTATCAAACTTGATATATACAAGCATATATAAGTCCTAACATAATCAACTTCCATACAAT
32324344 CCAAATATGCATGTCAAATTCACATATGCAATTCAACCATTTAACCATTTCCAGACTACCAGTTC
196 CCAAATATGCATGTCAAATTCACATATGCAATTCAACCATTTAACCATTTCCAGACTACCAGTTC
32324409 AAGTTT
261 AAGTTT
32324415 TATGCACATCCACAACACATTTTTGACCGAATACTCATTCACAAATGTTCAATTCTAGAATTCCT
1 TATGCACATCCACAACACATTTTTGACCGAATACTCATTCACAAATGTTCAATTCTAGAATTCCT
32324480 TGTCATGTATATCTTTAAATTTACCTAATCACATACATTAGCTTAATCAACTATGTCAAATACCA
66 TGTCATGTATATCTTTAAATTTACCTAATCACATACATTAGCTTAATCAACTATGTCAAATACCA
32324545 TTATTTTATCAAACTTGATATATACAAGCATATATAAGTCCTAACATAATCAACTTCCATACAAT
131 TTATTTTATCAAACTTGATATATACAAGCATATATAAGTCCTAACATAATCAACTTCCATACAAT
32324610 CCAAATATGCATGTCAAATTCACATATGCAATTCAACCATTTAACCATTTCCAGACTACCAGTTC
196 CCAAATATGCATGTCAAATTCACATATGCAATTCAACCATTTAACCATTTCCAGACTACCAGTTC
32324675 AAGTTT
261 AAGTTT
32324681 TATGCACATCCACAACACATTTTTGACCGAATACTCATTCACAAATGTTCAATTCTAGAATTCCT
1 TATGCACATCCACAACACATTTTTGACCGAATACTCATTCACAAATGTTCAATTCTAGAATTCCT
32324746 TGTCATGTATATCTTTAAATTTACCTAATCACATACATTAGCTTAATCAACTATGTCAAATACCA
66 TGTCATGTATATCTTTAAATTTACCTAATCACATACATTAGCTTAATCAACTATGTCAAATACCA
32324811 TTATTTTATCAAACTTGATATATACAAGCATATATAAGTCCTAACATAATCAACTTCCATACAAT
131 TTATTTTATCAAACTTGATATATACAAGCATATATAAGTCCTAACATAATCAACTTCCATACAAT
*
32324876 CCAAATATGCATGTCAAATTCACATATCCAATTCAACCATTTAACCATTTCCAGACTACCAGTTC
196 CCAAATATGCATGTCAAATTCACATATGCAATTCAACCATTTAACCATTTCCAGACTACCAGTTC
32324941 AAGTTT
261 AAGTTT
32324947 CAAATACAAC
Statistics
Matches: 531, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
266 531 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.34
Consensus pattern (266 bp):
TATGCACATCCACAACACATTTTTGACCGAATACTCATTCACAAATGTTCAATTCTAGAATTCCT
TGTCATGTATATCTTTAAATTTACCTAATCACATACATTAGCTTAATCAACTATGTCAAATACCA
TTATTTTATCAAACTTGATATATACAAGCATATATAAGTCCTAACATAATCAACTTCCATACAAT
CCAAATATGCATGTCAAATTCACATATGCAATTCAACCATTTAACCATTTCCAGACTACCAGTTC
AAGTTT
Found at i:32336573 original size:45 final size:45
Alignment explanation
Indices: 32336522--32336684 Score: 195
Period size: 45 Copynumber: 3.6 Consensus size: 45
32336512 TACTACGTGT
*
32336522 ACCGGGTACCATTGATTATAAATGTGGTTGTTGTGTGCTGATTCC
1 ACCGGGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCC
*
32336567 ACCGGGTATCATTGATTATAAAGGTGGTTGTTGTGTGCT-ATTTCC
1 ACCGGGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGA-TTCC
* * * * *
32336612 ATCAGGTACTATTGATTATGAAGGTGGTT-TCTATGTGCTGATTCC
1 ACCGGGTACCATTGATTATAAAGGTGGTTGT-TGTGTGCTGATTCC
* * * *
32336657 ACCGAGTATCATTGACTATAAGGGTGGT
1 ACCGGGTACCATTGATTATAAAGGTGGT
32336685 GCTATGTTCT
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
44 2 0.02
45 96 0.97
46 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.37
Consensus pattern (45 bp):
ACCGGGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCC
Found at i:32339062 original size:21 final size:21
Alignment explanation
Indices: 32339038--32339079 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
32339028 TTTATCAAGA
32339038 TAAATATTA-TAAATTTAATAC
1 TAAATATTATTAAA-TTAATAC
*
32339059 TAAATCTTATTAAATTAATAC
1 TAAATATTATTAAATTAATAC
32339080 AATATTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATATTATTAAATTAATAC
Found at i:32340182 original size:50 final size:48
Alignment explanation
Indices: 32340123--32340343 Score: 252
Period size: 50 Copynumber: 4.5 Consensus size: 48
32340113 GGCAGTGAGT
*
32340123 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACAGATTGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GA-TGAGGA
* * *
32340173 GTGCTAGTGTAAGACCATGTCTGGGACATGGCCTCGGCATGGATAGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAT-GAGGA
* * * * *
32340223 GAGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTCGA-GATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATGAGGA
32340270 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT-ATGTGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATGA-G-GA
* *
32340320 -TCCCA-TGTAAGACCATATCTGGGA
1 GTGCCAGTGTAAGACCATGTCTGGGA
32340344 TATGACATTG
Statistics
Matches: 146, Mismatches: 19, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
47 39 0.27
48 22 0.15
49 7 0.05
50 78 0.53
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (48 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATGAGGA
Found at i:32340307 original size:97 final size:99
Alignment explanation
Indices: 32340127--32340308 Score: 287
Period size: 97 Copynumber: 1.8 Consensus size: 99
32340117 GTGAGTGTGC
* *
32340127 CAGTGTAAGACCATGTCTGGGACATGGCATCGACACAGATTGAGGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGACACAGA-TGAGGAGTGCCAGTGTAAGACCATG
*
32340192 TCTGGGACATGGCCTCGGCATGGATAGAGGAGAGT
65 TCTGGGACATGGCATCGGCATGGATAGAGGAGAGT
* * *
32340227 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTC-GA-GATGAGTGCCAGTGTAAGACCATGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGACACAGATGAGGAGTGCCAGTGTAAGACCATGT
32340290 CTGGGACATGGCATCGGCA
66 CTGGGACATGGCATCGGCA
32340309 CCGATATGTG
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
97 41 0.54
99 2 0.03
100 33 0.43
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (99 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGACACAGATGAGGAGTGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCATGGATAGAGGAGAGT
Found at i:32351840 original size:37 final size:37
Alignment explanation
Indices: 32351788--32351868 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
32351778 TCCTGTCTAG
* *
32351788 CCCTACACTCTTGTGGGGATTAAATCGATCCACCCAT
1 CCCTACACTCCTGTGGGGATTAAATCGACCCACCCAT
*
32351825 CCCTACACTCCTGTGGGGATTAGATCGACCCACCCAT
1 CCCTACACTCCTGTGGGGATTAAATCGACCCACCCAT
32351862 CCCTACA
1 CCCTACA
32351869 TGCGACACTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.23
Consensus pattern (37 bp):
CCCTACACTCCTGTGGGGATTAAATCGACCCACCCAT
Found at i:32352085 original size:26 final size:27
Alignment explanation
Indices: 32352050--32352102 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
32352040 ACCATAGCAC
32352050 AAATCAGTCATTTACCCTCGAGGGGCA
1 AAATCAGTCATTTACCCTCGAGGGGCA
*
32352077 AAAT-AGTCATTTACCCTCTAGGGGCA
1 AAATCAGTCATTTACCCTCGAGGGGCA
32352103 TTACGGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCGAGGGGCA
Found at i:32354167 original size:24 final size:23
Alignment explanation
Indices: 32354121--32354169 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
32354111 AATAAAAAGG
**
32354121 ATATTTATACTAATAAATGCTAA
1 ATATTTATACTAATAAAAACTAA
32354144 ATATATTATACTAATAAAAACTAA
1 ATAT-TTATACTAATAAAAACTAA
32354168 AT
1 AT
32354170 CTTCTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (23 bp):
ATATTTATACTAATAAAAACTAA
Found at i:32358408 original size:25 final size:24
Alignment explanation
Indices: 32358380--32358428 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
32358370 AATAACAAGG
* *
32358380 ATAT-TTATTCTAATAAATGCTAA
1 ATATATTATACTAATAAAAGCTAA
*
32358403 ATATATTATACTTATAAAAGCTAA
1 ATATATTATACTAATAAAAGCTAA
32358427 AT
1 AT
32358429 CTTCTAGACG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (24 bp):
ATATATTATACTAATAAAAGCTAA
Found at i:32358765 original size:22 final size:22
Alignment explanation
Indices: 32358740--32358788 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
32358730 TTTCATGGTA
*
32358740 TTATTCAATTAGGCGATGGATT
1 TTATTCAATTAGGCAATGGATT
*
32358762 TTATTCAATTAGGCAATGTATT
1 TTATTCAATTAGGCAATGGATT
32358784 TTATT
1 TTATT
32358789 GTTGATTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (22 bp):
TTATTCAATTAGGCAATGGATT
Found at i:32370373 original size:17 final size:17
Alignment explanation
Indices: 32370351--32370383 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32370341 GTTAGTGCAC
*
32370351 ATTGTCATTGCATTTTT
1 ATTGTCATTACATTTTT
32370368 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
32370384 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:32377753 original size:5 final size:5
Alignment explanation
Indices: 32377743--32377787 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
32377733 TTTAGTCATT
* *
32377743 TTTTA TTTTA TTTTA TTTTA TTTTA TATTT- TTTTG TTTTA GTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA
32377788 ATTATTCCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 3 0.08
5 30 0.83
6 3 0.08
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:32381834 original size:3 final size:3
Alignment explanation
Indices: 32381826--32381908 Score: 96
Period size: 3 Copynumber: 27.7 Consensus size: 3
32381816 TTTTATTCTG
*
32381826 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TCTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * * *
32381872 TTC TTA TTA TTA TT- TTC TTA GTC TTA GTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
32381909 TTTTGTATTT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
2 2 0.03
3 63 0.94
4 2 0.03
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:32383343 original size:24 final size:25
Alignment explanation
Indices: 32383313--32383369 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
32383303 TTTTATTTGC
32383313 TTTTCTTTTTA-TG-TCTATTTTTA
1 TTTTCTTTTTAGTGTTCTATTTTTA
*
32383336 TTATTCTTTTTAGTTGTTTTATTTTTA
1 TT-TTCTTTTTAG-TGTTCTATTTTTA
32383363 TTTTCTT
1 TTTTCTT
32383370 AGACTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 2 0.07
24 9 0.31
26 7 0.24
27 11 0.38
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (25 bp):
TTTTCTTTTTAGTGTTCTATTTTTA
Found at i:32391643 original size:7 final size:7
Alignment explanation
Indices: 32391610--32391652 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
32391600 GCCTGTACCA
32391610 TAAACCC
1 TAAACCC
*
32391617 TAAAACC
1 TAAACCC
*
32391624 TAAAACAC
1 T-AAACCC
32391632 TAAACCC
1 TAAACCC
32391639 TAAACCC
1 TAAACCC
*
32391646 CAAACCC
1 TAAACCC
32391653 CCTTTGTGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 25 0.83
8 5 0.17
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.12
Consensus pattern (7 bp):
TAAACCC
Found at i:32397994 original size:33 final size:33
Alignment explanation
Indices: 32397942--32398009 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
32397932 ATTAAGGTTA
* *
32397942 ATCAAGTTGTCTACATTGATGT-TAAATTGAGTC
1 ATCAAGTTGTCCACATTGATATCTAAA-TGAGTC
**
32397975 ATCAAGTTGTCCATTTTGATATCTAAATGAGTC
1 ATCAAGTTGTCCACATTGATATCTAAATGAGTC
32398008 AT
1 AT
32398010 ACAGTTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (33 bp):
ATCAAGTTGTCCACATTGATATCTAAATGAGTC
Found at i:32408447 original size:50 final size:50
Alignment explanation
Indices: 32408331--32408524 Score: 226
Period size: 50 Copynumber: 3.9 Consensus size: 50
32408321 TAATAATAAC
* * * * ** *
32408331 ATGCCAAAGACATGTCCCTGACATGGTCTTACATGGGATGTTCTCATATCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCG
* * * ** *
32408382 GTGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTGG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCG
* * *
32408432 GTGCCAACGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCG
*
32408482 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
32408525 TTACCCAAAT
Statistics
Matches: 122, Mismatches: 21, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
50 92 0.75
51 30 0.25
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCG
Found at i:32408520 original size:100 final size:101
Alignment explanation
Indices: 32408342--32408524 Score: 269
Period size: 100 Copynumber: 1.8 Consensus size: 101
32408332 TGCCAAAGAC
* ** * * *
32408342 ATGTCCCTGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATG
1 ATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGATGCCAACGCCATGTCCCAGACATG
**
32408407 GTCTTATGGGGGACCTCTCATCTGGGTGCCAACGCT
66 GTCTTACAGGGGACCTCTCATCTGGGTGCCAACGCT
*
32408443 ATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGATGCCAACGCCATGTCCCAGACATG
1 ATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGATGCCAACGCCATGTCCCAGACATG
*
32408507 GTCTTACATGGGACCTCT
66 GTCTTACAGGGGACCTCT
32408525 TTACCCAAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
100 46 0.64
101 26 0.36
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (101 bp):
ATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGATGCCAACGCCATGTCCCAGACATG
GTCTTACAGGGGACCTCTCATCTGGGTGCCAACGCT
Found at i:32415889 original size:50 final size:50
Alignment explanation
Indices: 32415706--32415898 Score: 208
Period size: 50 Copynumber: 3.8 Consensus size: 50
32415696 GATAATAACA
** * *
32415706 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCATATCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * * ** * *
32415757 TGCCCATGCCATGTCCCAAACATGGTTTTACGGGGGACCACTCATCTCAG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
32415807 TGCCAACA-CTATGTCTCAGACATGGTCTTACATAAGACCTCTCATCTCGG
1 TGCCAA-AGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
32415857 TGCCAAGGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
32415899 TTACCCAAAT
Statistics
Matches: 111, Mismatches: 29, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
50 80 0.72
51 31 0.28
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:32417802 original size:26 final size:26
Alignment explanation
Indices: 32417757--32417918 Score: 171
Period size: 26 Copynumber: 6.2 Consensus size: 26
32417747 AGGGGTATAA
* *
32417757 CGGTCATTCTACCCTTCGAGGGTATTT
1 CGGTAATT-TACCCATCGAGGGTATTT
*
32417784 CGGTAATTTACCCATCGAGGGTATGT
1 CGGTAATTTACCCATCGAGGGTATTT
** *
32417810 CGACAATTTACCCATCAAGGGTATTT
1 CGGTAATTTACCCATCGAGGGTATTT
*
32417836 CGGTAATTTACCCATCGAGGTTATTT
1 CGGTAATTTACCCATCGAGGGTATTT
** * *
32417862 TAGTAATTTACCCATCGATGTTATTT
1 CGGTAATTTACCCATCGAGGGTATTT
* * * *
32417888 CGATAACTTAACCATCGAAGGTATTT
1 CGGTAATTTACCCATCGAGGGTATTT
*
32417914 TGGTA
1 CGGTA
32417919 CAGTTAACGA
Statistics
Matches: 112, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 105 0.94
27 7 0.06
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (26 bp):
CGGTAATTTACCCATCGAGGGTATTT
Found at i:32417903 original size:78 final size:79
Alignment explanation
Indices: 32417757--32417918 Score: 193
Period size: 78 Copynumber: 2.1 Consensus size: 79
32417747 AGGGGTATAA
* * * * *
32417757 CGGTCATTCTACCCTTCGAGGGTATTTCGGTAATTTACCCATCGAGGGTATGTCGACAATTTACC
1 CGGTAATTCTACCCATCGAGGGTATTTCAGTAATTTACCCATCGAGGGTATGTCGACAACTTAAC
32417822 CATC-AAGGGTATTT
66 CATCGAA-GGTATTT
* * * * * *
32417836 CGGTAATT-TACCCATCGAGGTTATTTTAGTAATTTACCCATCGATGTTATTTCGATAACTTAAC
1 CGGTAATTCTACCCATCGAGGGTATTTCAGTAATTTACCCATCGAGGGTATGTCGACAACTTAAC
32417900 CATCGAAGGTATTT
66 CATCGAAGGTATTT
*
32417914 TGGTA
1 CGGTA
32417919 CAGTTAACGA
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
78 61 0.87
79 9 0.13
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (79 bp):
CGGTAATTCTACCCATCGAGGGTATTTCAGTAATTTACCCATCGAGGGTATGTCGACAACTTAAC
CATCGAAGGTATTT
Found at i:32431248 original size:31 final size:30
Alignment explanation
Indices: 32431203--32431269 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
32431193 TATATCAGTC
* * *
32431203 ATGCAGTGAACAGTATGTAATATCATTAATCG
1 ATGCAGTGAACAGTA--CAAAATCATTAATCA
32431235 ATGCAGT-AACAGTACAAAATCATTAATCA
1 ATGCAGTGAACAGTACAAAATCATTAATCA
32431264 ATGCAG
1 ATGCAG
32431270 ATATGCAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 18 0.56
31 7 0.22
32 7 0.22
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (30 bp):
ATGCAGTGAACAGTACAAAATCATTAATCA
Found at i:32431690 original size:27 final size:27
Alignment explanation
Indices: 32431660--32431828 Score: 189
Period size: 27 Copynumber: 6.3 Consensus size: 27
32431650 AGGGATATAG
* *
32431660 TAGTCATTTTACCCTATAGTGGTATTT
1 TAGTCATTTTACCCTATGGGGGTATTT
32431687 TAGTCATTTTACCCTATGGGGGTA-TT
1 TAGTCATTTTACCCTATGGGGGTATTT
* *
32431713 TCGATCATTCTACCCTATGGGGGTA-TT
1 TAG-TCATTTTACCCTATGGGGGTATTT
*
32431740 TCGTTCATTTTACCCTATGGGGGTATTT
1 TAG-TCATTTTACCCTATGGGGGTATTT
** * * *
32431768 CGGTTATTTTAACTTATGGGGGTATTT
1 TAGTCATTTTACCCTATGGGGGTATTT
* *
32431795 TGGTCATTTTACCCTATGGGTGTATTT
1 TAGTCATTTTACCCTATGGGGGTATTT
*
32431822 CAGTCAT
1 TAGTCAT
32431829 AATAGTGTAA
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.03
27 115 0.94
28 3 0.02
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
TAGTCATTTTACCCTATGGGGGTATTT
Found at i:32431727 original size:54 final size:54
Alignment explanation
Indices: 32431663--32431822 Score: 214
Period size: 54 Copynumber: 3.0 Consensus size: 54
32431653 GATATAGTAG
* *
32431663 TCATTTTACCCTATAGTGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCGA
* * *
32431717 TCATTCTACCCTATGGGGGTA-TTTCGTTCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTTAG-TCATTTTACCCTATGGGGGTATTTCGA
* * * * *
32431771 TTATTTTAACTTATGGGGGTATTTTGGTCATTTTACCCTATGGGTGTATTTC
1 TCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTC
32431823 AGTCATAATA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 4 0.04
54 85 0.91
55 4 0.04
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.45
Consensus pattern (54 bp):
TCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCGA
Found at i:32431777 original size:81 final size:81
Alignment explanation
Indices: 32431663--32431822 Score: 221
Period size: 81 Copynumber: 2.0 Consensus size: 81
32431653 GATATAGTAG
* * *
32431663 TCATTTTACCCTATAGTGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCC
1 TCATTTTACCCTATAGGGGTATTTCAGTCATTTTAACCTATGGGGGTATTTCGATCATTCTACCC
32431728 TATGGGGGTATTTCGT
66 TATGGGGGTATTTCGT
* * * * * * *
32431744 TCATTTTACCCTATGGGGGTATTTCGGTTATTTTAACTTATGGGGGTATTTTGGTCATTTTACCC
1 TCATTTTACCCTATAGGGGTATTTCAGTCATTTTAACCTATGGGGGTATTTCGATCATTCTACCC
*
32431809 TATGGGTGTATTTC
66 TATGGGGGTATTTC
32431823 AGTCATAATA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.45
Consensus pattern (81 bp):
TCATTTTACCCTATAGGGGTATTTCAGTCATTTTAACCTATGGGGGTATTTCGATCATTCTACCC
TATGGGGGTATTTCGT
Found at i:32432877 original size:36 final size:36
Alignment explanation
Indices: 32432821--32432893 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
32432811 AATATTTATG
* *
32432821 TGCAGTCTCCTAACTGTTCCCTTGTTCAAAACCTAT
1 TGCAATCTCCTAACTATTCCCTTGTTCAAAACCTAT
32432857 TGCAATCTCCTAACTATTCCCTTGTTCAAAACCTAT
1 TGCAATCTCCTAACTATTCCCTTGTTCAAAACCTAT
32432893 T
1 T
32432894 TCTTCTAGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.25, C:0.30, G:0.08, T:0.37
Consensus pattern (36 bp):
TGCAATCTCCTAACTATTCCCTTGTTCAAAACCTAT
Found at i:32434355 original size:30 final size:30
Alignment explanation
Indices: 32434319--32434413 Score: 172
Period size: 30 Copynumber: 3.2 Consensus size: 30
32434309 GTCTTAGCCA
32434319 TGTGTGACACATGGCCATGCGACACGGCCG
1 TGTGTGACACATGGCCATGCGACACGGCCG
*
32434349 TGTGTGACACATGTCCATGCGACACGGCCG
1 TGTGTGACACATGGCCATGCGACACGGCCG
*
32434379 TGTGTGACACATGGTCATGCGACACGGCCG
1 TGTGTGACACATGGCCATGCGACACGGCCG
32434409 TGTGT
1 TGTGT
32434414 CCCCTGTAGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.19, C:0.27, G:0.33, T:0.21
Consensus pattern (30 bp):
TGTGTGACACATGGCCATGCGACACGGCCG
Found at i:32438914 original size:15 final size:15
Alignment explanation
Indices: 32438889--32438923 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
32438879 GACTCTATTT
*
32438889 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
32438903 TAATTAATATTAAGA
1 TAATTAATATTAAGA
32438918 TAATTA
1 TAATTA
32438924 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:32440241 original size:17 final size:15
Alignment explanation
Indices: 32440215--32440248 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
32440205 GTATTGAATT
32440215 AAAAAAATTCGAAAAA
1 AAAAAAATTC-AAAAA
32440231 AAAAGAAATTCAAAAA
1 AAAA-AAATTCAAAAA
32440247 AA
1 AA
32440249 TCAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (15 bp):
AAAAAAATTCAAAAA
Found at i:32441392 original size:28 final size:26
Alignment explanation
Indices: 32441361--32441414 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
32441351 AAATGTGATC
32441361 AAGAAAAGAAAATTGAAAAAGAGAGTGA
1 AAGAAAAGAAAA-TGAAAAAGA-AGTGA
* *
32441389 AAGAAAAGAACATGAGAAAGAAGTGA
1 AAGAAAAGAAAATGAAAAAGAAGTGA
32441415 GTGTCATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 8 0.33
28 11 0.46
ACGTcount: A:0.63, C:0.02, G:0.26, T:0.09
Consensus pattern (26 bp):
AAGAAAAGAAAATGAAAAAGAAGTGA
Found at i:32447337 original size:17 final size:17
Alignment explanation
Indices: 32447315--32447387 Score: 91
Period size: 17 Copynumber: 4.4 Consensus size: 17
32447305 CAACCCAATT
32447315 TTTATTTTTATTTATTA
1 TTTATTTTTATTTATTA
32447332 TTTATTTTTA-TT-TTA
1 TTTATTTTTATTTATTA
32447347 TTT-TATTTTATTTATTA
1 TTTAT-TTTTATTTATTA
32447364 CTTTA-TTTTATTTTATTA
1 -TTTATTTTTA-TTTATTA
32447382 TTTATT
1 TTTATT
32447388 ACTTATTTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.02
15 11 0.22
16 4 0.08
17 22 0.45
18 11 0.22
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTTTATTTATTA
Found at i:32447339 original size:22 final size:21
Alignment explanation
Indices: 32447314--32447377 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 21
32447304 GCAACCCAAT
32447314 TTTTATTTT-TATTTATTATTTA
1 TTTTATTTTAT-TTTATT-TTTA
32447336 TTTTTATTTTATTTTA-TTTTA
1 -TTTTATTTTATTTTATTTTTA
*
32447357 TTTATTACTTTATTTTATTTT
1 -TT-TTATTTTATTTTATTTT
32447378 ATTATTTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 7 0.19
22 13 0.35
23 16 0.43
24 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATTTTATTTTATTTTTA
Found at i:32447347 original size:5 final size:5
Alignment explanation
Indices: 32447314--32447380 Score: 64
Period size: 5 Copynumber: 12.4 Consensus size: 5
32447304 GCAACCCAAT
32447314 TTTTA TTTT- TATTTA TTATTTA TTTTTA TTTTA TTTTA TTTTA TTTATTA
1 TTTTA TTTTA T-TTTA -T-TTTA -TTTTA TTTTA TTTTA TTTTA -TT-TTA
*
32447364 CTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TT
32447381 ATTTATTACT
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
4 1 0.02
5 36 0.65
6 7 0.13
7 11 0.20
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:32447361 original size:32 final size:33
Alignment explanation
Indices: 32447314--32447380 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 33
32447304 GCAACCCAAT
32447314 TTTTATTTTTATTTATTA-TTTATTTTTATTTTA
1 TTTTATTTTTATTTATTACTTTA-TTTTATTTTA
32447347 TTTTA-TTTTATTTATTACTTTATTTTATTTTA
1 TTTTATTTTTATTTATTACTTTATTTTATTTTA
32447379 TT
1 TT
32447381 ATTTATTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 24 0.73
33 9 0.27
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.78
Consensus pattern (33 bp):
TTTTATTTTTATTTATTACTTTATTTTATTTTA
Found at i:32447394 original size:32 final size:31
Alignment explanation
Indices: 32447316--32447394 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 31
32447306 AACCCAATTT
32447316 TTATTTTTATTTATTATTTATTTTTATTTTA
1 TTATTTTTATTTATTATTTATTTTTATTTTA
*
32447347 TTTTATTTTATTTATTACTTTA-TTTTATTTTA
1 TTAT-TTTTATTTATTA-TTTATTTTTATTTTA
*
32447379 TTATTTATTACTTATT
1 TTATTT-TTATTTATT
32447395 TGGATATTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 5 0.12
32 33 0.79
33 4 0.10
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (31 bp):
TTATTTTTATTTATTATTTATTTTTATTTTA
Found at i:32447489 original size:16 final size:17
Alignment explanation
Indices: 32447451--32447495 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
32447441 AAAATGCGAA
*
32447451 GAAAAATGAACAGGTAG
1 GAAAAATGAACAGCTAG
32447468 GAAAAATGAACAGCTAG
1 GAAAAATGAACAGCTAG
*
32447485 GAAAATTGAAC
1 GAAAAATGAAC
32447496 CAAACAGCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.53, C:0.09, G:0.24, T:0.13
Consensus pattern (17 bp):
GAAAAATGAACAGCTAG
Found at i:32448865 original size:50 final size:51
Alignment explanation
Indices: 32448762--32449054 Score: 290
Period size: 50 Copynumber: 5.7 Consensus size: 51
32448752 GGGAATGAGA
* *
32448762 TCCCATGTAAGACCATGTCTAGGACATGGCATTGCCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC--TGAG---ATGAGAGG
* * *
32448818 TCTCATGTAAGACCATGTTTGGGACATGGCGTTGGCATC-GAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGG
*
32448868 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGG
** * * * **
32448918 TCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCA-CTGATATGAGAAA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGG
* * * * * * * * **
32448968 TCTCATGTAAGACCATATCTGGGATATGGAATTGGCA-GT-ACAAGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGG
*
32449017 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
32449055 GTTATTATCA
Statistics
Matches: 202, Mismatches: 33, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
49 39 0.19
50 126 0.62
53 3 0.01
56 34 0.17
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (51 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGG
Found at i:32449003 original size:150 final size:153
Alignment explanation
Indices: 32448768--32449053 Score: 368
Period size: 150 Copynumber: 1.9 Consensus size: 153
32448758 GAGATCCCAT
* **
32448768 GTAAGACCATGTCTAGGACATGGCATTGCCATCATTGAGATTATGAGAGGTCTCATGTAAGACCA
1 GTAAGACCATGTCTAGGACATGGCATGGCCATCA-T-AGATTATGAGAAATCTCATGTAAGACCA
* * ** * **
32448833 TGTTTGGGACATGGCGTTGGCA-T-CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATG
64 TATCTGGGACATGGAATTGGCAGTAC-A-A-GAAACATCCCATGTAAGACCATGTCTGGGACATG
32448896 GCGTTGGCACTGAGATGAGAGGTCCCCC
126 GCGTTGGCACTGAGATGAGAGGTCCCCC
*
32448924 GTAAGACCATGTCTAGGACATGGCATGGGCA-C-T-GA-TATGAGAAATCTCATGTAAGACCATA
1 GTAAGACCATGTCTAGGACATGGCATGGCCATCATAGATTATGAGAAATCTCATGTAAGACCATA
* *
32448985 TCTGGGATATGGAATTGGCAGTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTT
66 TCTGGGACATGGAATTGGCAGTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCGTT
32449050 GGCA
131 GGCA
32449054 TGTTATTATC
Statistics
Matches: 115, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
149 39 0.34
150 40 0.35
151 4 0.03
152 1 0.01
153 1 0.01
155 1 0.01
156 29 0.25
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (153 bp):
GTAAGACCATGTCTAGGACATGGCATGGCCATCATAGATTATGAGAAATCTCATGTAAGACCATA
TCTGGGACATGGAATTGGCAGTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCGTT
GGCACTGAGATGAGAGGTCCCCC
Found at i:32453383 original size:56 final size:55
Alignment explanation
Indices: 32453232--32453384 Score: 209
Period size: 56 Copynumber: 2.7 Consensus size: 55
32453222 TTAAGGGAAT
* * *
32453232 GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCATTGAGATTATGA
1 GAGATCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCATAATTGAGATTATGA
*
32453288 GAGATCCCATGTAAGACCATGTCTGCGACATGGTGTTGGCATAATTGA-AGTTATGA
1 GAGATCCCATGTAAGACCATGTCTG-GACATGGCGTTGGCATAATTGAGA-TTATGA
* *
32453344 GAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCA
1 GAGATCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCA
32453385 CCGAGATGAG
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
55 2 0.02
56 84 0.97
57 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (55 bp):
GAGATCCCATGTAAGACCATGTCTGGACATGGCGTTGGCATAATTGAGATTATGA
Found at i:32453398 original size:50 final size:50
Alignment explanation
Indices: 32453236--32453479 Score: 182
Period size: 50 Copynumber: 4.6 Consensus size: 50
32453226 GGGAATGAGA
* ** *
32453236 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCATTGAGATTATGAGAGA
1 TCCCATGTAAGACCATGTCTGGGACATGGCA-TGG--GCACCGAG---ATGAGAGG
* ** * **
32453292 TCCCATGTAAGACCATGTCTGCGACATGGTGTTGGCATAATTGAAGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGC---ACCG-AG--ATGAGAGG
* * * *
32453348 TCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGG
** * * **
32453398 TCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGG
* *
32453448 TCCCATGTAAGACCATATCTGGGATATGGCAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCAT
32453480 TGTCAGTACA
Statistics
Matches: 157, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
50 75 0.48
52 2 0.01
53 3 0.02
55 2 0.01
56 73 0.46
57 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGG
Found at i:32456628 original size:15 final size:15
Alignment explanation
Indices: 32456603--32456637 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
32456593 GACTCTATTT
*
32456603 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
32456617 TAATTAATATTAAGA
1 TAATTAATATTAAGA
32456632 TAATTA
1 TAATTA
32456638 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:32465954 original size:27 final size:26
Alignment explanation
Indices: 32465923--32465974 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
32465913 ATCAAAAATT
32465923 TATTTTAAAAATAAAAAAATAAAAAAA
1 TATTTT-AAAATAAAAAAATAAAAAAA
*
32465950 TATTTTAAAATTAAAAAATAAAAAA
1 TATTTTAAAATAAAAAAATAAAAAA
32465975 TAAATATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (26 bp):
TATTTTAAAATAAAAAAATAAAAAAA
Found at i:32469912 original size:40 final size:40
Alignment explanation
Indices: 32469867--32470001 Score: 109
Period size: 40 Copynumber: 3.4 Consensus size: 40
32469857 GTTTGGAACA
*
32469867 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTATCC
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCC
* * **
32469907 AAAGCGCCGCTAAAGGTAGAGC-TTCAGCGGCGA-TTAT-C
1 AAAGCGCCACAAAAAATAGAGCATT-AGCGGCGATTTATCC
* * * * *
32469945 AGGAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA-CAT
1 A--AAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATC-C
32469986 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
32470002 CCTAAGACCA
Statistics
Matches: 76, Mismatches: 12, Indels: 15
0.74 0.12 0.15
Matches are distributed among these distances:
38 2 0.03
39 27 0.36
40 46 0.61
41 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (40 bp):
AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCC
Found at i:32470097 original size:41 final size:41
Alignment explanation
Indices: 32470040--32470442 Score: 460
Period size: 41 Copynumber: 9.8 Consensus size: 41
32470030 TTTTTTAAAC
* *
32470040 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCGAGT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAGT
32470081 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAGT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAGT
* * * *
32470122 CTTTAGCGGCGTTTTCGTGTAGGTGCAGCTAATGCTCG-GAT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAG-T
*
32470163 CTTTAGCGGCGTTTTTGTCTAGGCGCAGCTAATGCTCG-GAT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAG-T
*
32470204 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAGTGCTCGAGT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAGT
* * *
32470245 CTTTAGCGGCGTTTTCGTGTAGGTGCCGCTAATGCTCGTA-T
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCG-AGT
*
32470286 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCG-GAT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAG-T
* * * *
32470327 CTTTAGCGGCGTTTTTATAC-AAGCGCCACTAATACTC-AGAT
1 CTTTAGCGGCGTTTTTGT-CTAGGCGCCGCTAATGCTCGAG-T
** * * **
32470368 CTTTAGCGGCGTTTTTAACT-GAGCGCCACTAATTCTCTTGT
1 CTTTAGCGGCGTTTTTGTCTAG-GCGCCGCTAATGCTCGAGT
* * * *
32470409 CTTCAGCGGCGTTTGTATCTAAGCGCCGCTAATG
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATG
32470443 TATTGACCTT
Statistics
Matches: 318, Mismatches: 33, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
40 2 0.01
41 312 0.98
42 4 0.01
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.34
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAGT
Found at i:32470259 original size:123 final size:123
Alignment explanation
Indices: 32470040--32470382 Score: 539
Period size: 123 Copynumber: 2.8 Consensus size: 123
32470030 TTTTTTAAAC
*
32470040 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTC-GAGTCTTTAGCGGCGTTTTTGTCTAGG
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGA-TCTTTAGCGGCGTTTTTGTCTAGG
32470104 CGCCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCGTGTAGGTGCAGCTAATGCTCGGAT
65 CGCCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCGTGTAGGTGCAGCTAATGCTCGGAT
* *
32470163 CTTTAGCGGCGTTTTTGTCTAGGCGCAGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTAGGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTAGGC
* * *
32470228 GCCGCTAGTGCTCGAGTCTTTAGCGGCGTTTTCGTGTAGGTGCCGCTAATGCTCGTAT
66 GCCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCGTGTAGGTGCAGCTAATGCTCGGAT
* * *
32470286 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTATAC-AAG
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGT-CTAGG
* *
32470350 CGCCACTAATACTC-AGATCTTTAGCGGCGTTTT
65 CGCCGCTAATGCTCGAG-TCTTTAGCGGCGTTTT
32470383 TAACTGAGCG
Statistics
Matches: 204, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
122 2 0.01
123 199 0.98
124 3 0.01
ACGTcount: A:0.14, C:0.23, G:0.28, T:0.35
Consensus pattern (123 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTAGGC
GCCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCGTGTAGGTGCAGCTAATGCTCGGAT
Found at i:32470400 original size:123 final size:121
Alignment explanation
Indices: 32470040--32470442 Score: 510
Period size: 123 Copynumber: 3.3 Consensus size: 121
32470030 TTTTTTAAAC
*
32470040 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTC-GAGTCTTTAGCGGCGTTTTTGTCTAGG
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGA-TCTTTAGCGGCGTTTTTGTCTAGG
* *
32470104 CGCCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCGTGTAGGTGCAGCTAATGCTCGGAT
65 CGCCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCGTGTAGG-CCA-CTAATGCTCGTAT
* *
32470163 CTTTAGCGGCGTTTTTGTCTAGGCGCAGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTAGGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTAGGC
* *
32470228 GCCGCTAGTGCTCGAGTCTTTAGCGGCGTTTTCGTGTAGGTGCCGCTAATGCTCGTAT
66 GCCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCGTGTA-G-GCCACTAATGCTCGTAT
* * *
32470286 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTATAC-AAG
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGT-CTAGG
* * * * *
32470350 CGCCACTAATACTC-AGATCTTTAGCGGCGTTTTTAAC-TG-AGCGCCACTAATTCTCTTGT
65 CGCCGCTAATGCTCGAG-TCTTTAGCGGCG-TTTT--CGTGTAG-GCCACTAATGCTCGTAT
* * *
32470409 CTTCAGCGGCGTTTGTATCTAAGCGCCGCTAATG
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATG
32470443 TATTGACCTT
Statistics
Matches: 249, Mismatches: 23, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
122 2 0.01
123 233 0.94
124 10 0.04
125 3 0.01
126 1 0.00
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.34
Consensus pattern (121 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTAGGC
GCCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCGTGTAGGCCACTAATGCTCGTAT
Found at i:32472613 original size:7 final size:7
Alignment explanation
Indices: 32472603--32472681 Score: 50
Period size: 7 Copynumber: 10.4 Consensus size: 7
32472593 AATTTGATGT
32472603 TTAGGGG
1 TTAGGGG
32472610 TTAGGGGG
1 TTA-GGGG
*
32472618 ATTTAGGGT
1 --TTAGGGG
*
32472627 TTAAGGG
1 TTAGGGG
* **
32472634 TTATGCT
1 TTAGGGG
32472641 TTAGGGG
1 TTAGGGG
32472648 TTAGGGG
1 TTAGGGG
32472655 ATTTAGGGG
1 --TTAGGGG
*
32472664 TAAGGGG
1 TTAGGGG
32472671 TTAAGGGG
1 TT-AGGGG
32472679 TTA
1 TTA
32472682 TGGAATTGGG
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
7 31 0.56
8 11 0.20
9 10 0.18
10 3 0.05
ACGTcount: A:0.20, C:0.01, G:0.46, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:32475606 original size:16 final size:16
Alignment explanation
Indices: 32475587--32475622 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
32475577 ATTAATATTA
32475587 TACATAA-TTGACAACT
1 TACATAACTT-ACAACT
32475603 TACATAACTTACAACT
1 TACATAACTTACAACT
32475619 TACA
1 TACA
32475623 ACTTACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.31
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:32475679 original size:31 final size:31
Alignment explanation
Indices: 32475638--32475893 Score: 313
Period size: 31 Copynumber: 8.1 Consensus size: 31
32475628 CATTTTTTTA
* *
32475638 ATTATTCATAAATTACATAACATACATTAAT
1 ATTATACATAAATTACATAACTTACATTAAT
32475669 ATTATACATAAATTACATAACTTACATTAAT
1 ATTATACATAAATTACATAACTTACATTAAT
32475700 ATTATACATAAATTACATAACTTA-ATTAATT
1 ATTATACATAAATTACATAACTTACATTAA-T
* *
32475731 AATATACATAAGTTACATAACTTACATTAAT
1 ATTATACATAAATTACATAACTTACATTAAT
* *
32475762 ATGATACATAAATTACATAACTTAGTTAATTAAT
1 ATTATACATAAATTACATAACTTA---CATTAAT
**
32475796 ATTATACATATGTTACATAACTTACATTAAT
1 ATTATACATAAATTACATAACTTACATTAAT
* *
32475827 ATGATACATAAATTACATAACTTAGTTAATTAAT
1 ATTATACATAAATTACATAACTTA---CATTAAT
*
32475861 ATTATACATAACTTAC--AACTTACA-TAACT
1 ATTATACATAAATTACATAACTTACATTAA-T
32475890 ATTA
1 ATTA
32475894 CGACATACAT
Statistics
Matches: 197, Mismatches: 19, Indels: 20
0.83 0.08 0.08
Matches are distributed among these distances:
28 3 0.02
29 6 0.03
30 5 0.03
31 125 0.63
32 11 0.06
34 47 0.24
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (31 bp):
ATTATACATAAATTACATAACTTACATTAAT
Found at i:32475687 original size:9 final size:9
Alignment explanation
Indices: 32475644--32475846 Score: 73
Period size: 9 Copynumber: 21.6 Consensus size: 9
32475634 TTTAATTATT
32475644 CATAAATTA
1 CATAAATTA
32475653 CATAACA-TA
1 CATAA-ATTA
32475662 CATTAATATTATA
1 CA-TAA-A-T-TA
32475675 CATAAATTA
1 CATAAATTA
*
32475684 CATAACTTA
1 CATAAATTA
32475693 CATTAATATTATA
1 CA-TAA-A-T-TA
32475706 CATAAATTA
1 CATAAATTA
*
32475715 CATAACTTA
1 CATAAATTA
*
32475724 -ATTAATTA
1 CATAAATTA
32475732 -AT--A-TA
1 CATAAATTA
*
32475737 CATAAGTTA
1 CATAAATTA
*
32475746 CATAACTTA
1 CATAAATTA
32475755 CATTAATATGATA
1 CA-TAA-AT--TA
32475768 CATAAATTA
1 CATAAATTA
*
32475777 CATAACTTA
1 CATAAATTA
* *
32475786 -GTTAATTA
1 CATAAATTA
*
32475794 -AT-ATTATA
1 CATAAAT-TA
**
32475802 CATATGTTA
1 CATAAATTA
*
32475811 CATAACTTA
1 CATAAATTA
32475820 CATTAATATGATA
1 CA-TAA-AT--TA
32475833 CATAAATTA
1 CATAAATTA
32475842 CATAA
1 CATAA
32475847 CTTAGTTAAT
Statistics
Matches: 150, Mismatches: 20, Indels: 48
0.69 0.09 0.22
Matches are distributed among these distances:
5 2 0.01
6 3 0.02
7 2 0.01
8 16 0.11
9 73 0.49
10 17 0.11
11 8 0.05
12 13 0.09
13 16 0.11
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.37
Consensus pattern (9 bp):
CATAAATTA
Found at i:32475707 original size:22 final size:22
Alignment explanation
Indices: 32475682--32475844 Score: 66
Period size: 22 Copynumber: 7.6 Consensus size: 22
32475672 ATACATAAAT
*
32475682 TACATAACTTACATTAATATTA
1 TACATAAATTACATTAATATTA
*
32475704 TACATAAATTACA-T-A-ACT-
1 TACATAAATTACATTAATATTA
* *
32475722 TA-ATTAATTA-ATATACATAAGT-
1 TACATAAATTACAT-TA-AT-ATTA
* *
32475744 TACATAACTTACATTAATATGA
1 TACATAAATTACATTAATATTA
32475766 TACATAAATTACA-TAACTTAGTTA
1 TACATAAATTACATTAA--TA-TTA
*
32475790 -A-TTAATATT--A-TACATATGT-
1 TACATAA-ATTACATTA-ATAT-TA
* *
32475809 TACATAACTTACATTAATATGA
1 TACATAAATTACATTAATATTA
32475831 TACATAAATTACAT
1 TACATAAATTACAT
32475845 AACTTAGTTA
Statistics
Matches: 105, Mismatches: 15, Indels: 42
0.65 0.09 0.26
Matches are distributed among these distances:
16 1 0.01
17 7 0.07
18 3 0.03
19 3 0.03
20 8 0.08
21 11 0.10
22 52 0.50
23 16 0.15
24 4 0.04
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.39
Consensus pattern (22 bp):
TACATAAATTACATTAATATTA
Found at i:32475830 original size:65 final size:65
Alignment explanation
Indices: 32475644--32475885 Score: 367
Period size: 65 Copynumber: 3.8 Consensus size: 65
32475634 TTTAATTATT
* *
32475644 CATAAATTACATAAC--A--TACATTAATATTATACATAAATTACATAACTTACATTAATATTAT
1 CATAAATTACATAACTTAGTTA-ATTAATATTATACATAAGTTACATAACTTACATTAATATGAT
32475705 A
65 A
*
32475706 CATAAATTACATAACTTAATTAATT-A-A-TATACATAAGTTACATAACTTACATTAATATGATA
1 CATAAATTACATAACTTAGTTAATTAATATTATACATAAGTTACATAACTTACATTAATATGATA
*
32475768 CATAAATTACATAACTTAGTTAATTAATATTATACATATGTTACATAACTTACATTAATATGATA
1 CATAAATTACATAACTTAGTTAATTAATATTATACATAAGTTACATAACTTACATTAATATGATA
*
32475833 CATAAATTACATAACTTAGTTAATTAATATTATACATAACTTAC--AACTTACAT
1 CATAAATTACATAACTTAGTTAATTAATATTATACATAAGTTACATAACTTACAT
32475886 AACTATTACG
Statistics
Matches: 167, Mismatches: 6, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
62 72 0.43
63 11 0.07
64 3 0.02
65 79 0.47
66 2 0.01
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.38
Consensus pattern (65 bp):
CATAAATTACATAACTTAGTTAATTAATATTATACATAAGTTACATAACTTACATTAATATGATA
Found at i:32475886 original size:16 final size:16
Alignment explanation
Indices: 32475864--32475911 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 16
32475854 AATTAATATT
32475864 ATACATAACTTACAAC
1 ATACATAACTTACAAC
* *
32475880 TTACATAACTATTACGAC
1 ATACATAAC--TTACAAC
32475898 ATACATAACTTACA
1 ATACATAACTTACA
32475912 TAGCATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (16 bp):
ATACATAACTTACAAC
Found at i:32475889 original size:9 final size:9
Alignment explanation
Indices: 32475673--32475889 Score: 57
Period size: 9 Copynumber: 24.0 Consensus size: 9
32475663 ATTAATATTA
*
32475673 TACATAAAT
1 TACATAACT
32475682 TACATAACT
1 TACATAACT
*
32475691 TACATTAATATT
1 TACA-T-A-ACT
*
32475703 ATACATAAAT
1 -TACATAACT
32475713 TACATAACT
1 TACATAACT
32475722 TA-ATTAA-T
1 TACA-TAACT
32475730 TA-AT-A--
1 TACATAACT
*
32475735 TACATAAGT
1 TACATAACT
32475744 TACATAACT
1 TACATAACT
*
32475753 TACATTAATAT
1 TACA-TAA-CT
*
32475764 GATACATAAAT
1 --TACATAACT
32475775 TACATAACT
1 TACATAACT
**
32475784 TAGTTAA-T
1 TACATAACT
*
32475792 TA-AT-ATT
1 TACATAACT
**
32475799 ATACATATGT
1 -TACATAACT
32475809 TACATAACT
1 TACATAACT
*
32475818 TACATTAATAT
1 TACA-TAA-CT
*
32475829 GATACATAAAT
1 --TACATAACT
32475840 TACATAACT
1 TACATAACT
**
32475849 TAGTTAA-T
1 TACATAACT
*
32475857 TA-AT-ATT
1 TACATAACT
32475864 ATACATAACT
1 -TACATAACT
32475874 TAC--AACT
1 TACATAACT
32475881 TACATAACT
1 TACATAACT
32475890 ATTACGACAT
Statistics
Matches: 161, Mismatches: 20, Indels: 54
0.69 0.09 0.23
Matches are distributed among these distances:
5 2 0.01
6 5 0.03
7 13 0.08
8 15 0.09
9 85 0.53
10 12 0.07
11 8 0.05
12 9 0.06
13 12 0.07
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (9 bp):
TACATAACT
Found at i:32475963 original size:26 final size:25
Alignment explanation
Indices: 32475915--32475971 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
32475905 ACTTACATAG
* *
32475915 CATAATTTGACTAATACACAACTTA
1 CATAATTCGACTAATAAACAACTTA
*
32475940 CATAATTCGACATAATAAATAACTTA
1 CATAATTCGAC-TAATAAACAACTTA
32475966 CATAAT
1 CATAAT
32475972 ACATAACTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.32
Consensus pattern (25 bp):
CATAATTCGACTAATAAACAACTTA
Found at i:32475970 original size:16 final size:16
Alignment explanation
Indices: 32475949--32475982 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
32475939 ACATAATTCG
32475949 ACATAATAAATAACTT
1 ACATAATAAATAACTT
*
32475965 ACATAATACATAACTT
1 ACATAATAAATAACTT
32475981 AC
1 AC
32475983 GTAGCTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (16 bp):
ACATAATAAATAACTT
Found at i:32481446 original size:43 final size:42
Alignment explanation
Indices: 32481396--32481648 Score: 231
Period size: 43 Copynumber: 5.9 Consensus size: 42
32481386 TAAAGGTGTT
*
32481396 GGTCTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAG
1 GGTCTTTAGCGGCGTTTTTGG-CAAAGCGCCGCTAAAGATAAG
* * * * *
32481439 GGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCAT
1 GGTCTTTAGCGGCGTTTTTGG-CAAAGCGCCGCTAAAGATAAG
* * * * *
32481482 AGTCTTTAGTGGTGTTTTTGGGAGAAGCGCTGCTAAAGATAAG
1 GGTCTTTAGCGGCGTTTTTGGCA-AAGCGCCGCTAAAGATAAG
*** *
32481525 GGTCTTTAGCGGCGTTTGAAAG-AGAAGCGCCGCTAAAGATTAG
1 GGTCTTTAGCGGCGTTT-TTGGCA-AAGCGCCGCTAAAGATAAG
* *
32481568 GGTCTTTAGCGGCGTTTGT-GCAAGATGCGCCGCTAAAGATCAG
1 GGTCTTTAGCGGCGTTTTTGGCAA-A-GCGCCGCTAAAGATAAG
* ** *
32481611 GGTCTTTAGCGGTGTTTTTTTCTAAAACGCCGCTAAAG
1 GGTCTTTAGCGGCGTTTTTGGC-AAAGCGCCGCTAAAG
32481649 TTAGCGGCGC
Statistics
Matches: 172, Mismatches: 31, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
41 2 0.01
42 3 0.02
43 162 0.94
44 3 0.02
45 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (42 bp):
GGTCTTTAGCGGCGTTTTTGGCAAAGCGCCGCTAAAGATAAG
Found at i:32481502 original size:86 final size:84
Alignment explanation
Indices: 32481358--32481628 Score: 296
Period size: 86 Copynumber: 3.2 Consensus size: 84
32481348 ATCTGCCAAA
* * * **
32481358 TTTAGTGGCGTTTTTTAAAAAA-CGCCACTAAAGGTGTTGGTCTTTAGTGGCGTTTTTGGTCAAA
1 TTTAGCGGCG-TTTTGAAAAAAGCGCCACTAAAGATCATGGTCTTTAGTGGCGTTTTTGG-CAAA
32481422 GCGCCGCTAAAGATAAGGGTC
64 GCGCCGCTAAAGATAAGGGTC
* * * *
32481443 TTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATAGTCTTTAGTGGTGTTTTTGGGAGAA
1 TTTAGCGGCGTTT-TGAAAAAAGCGCCACTAAAGATCATGGTCTTTAGTGGCGTTTTTGGCA-AA
*
32481508 GCGCTGCTAAAGATAAGGGTC
64 GCGCCGCTAAAGATAAGGGTC
* * * * *
32481529 TTTAGCGGCG-TTTGAAAGAGAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGT-GCAAG
1 TTTAGCGGCGTTTTGAAA-A-AAGCGCCACTAAAGATCATGGTCTTTAGTGGCGTTTTTGGCAA-
*
32481592 ATGCGCCGCTAAAGATCAGGGTC
63 A-GCGCCGCTAAAGATAAGGGTC
*
32481615 TTTAGCGGTGTTTT
1 TTTAGCGGCGTTTT
32481629 TTTCTAAAAC
Statistics
Matches: 156, Mismatches: 22, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
84 8 0.05
85 22 0.14
86 123 0.79
87 3 0.02
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (84 bp):
TTTAGCGGCGTTTTGAAAAAAGCGCCACTAAAGATCATGGTCTTTAGTGGCGTTTTTGGCAAAGC
GCCGCTAAAGATAAGGGTC
Found at i:32499771 original size:27 final size:27
Alignment explanation
Indices: 32499733--32499931 Score: 211
Period size: 27 Copynumber: 7.4 Consensus size: 27
32499723 ACCAAAAAAT
*
32499733 AGGGTAAAATGATCGAAATACCCCCAA
1 AGGGTAAAATGACCGAAATACCCCCAA
** *
32499760 AGGGTAAAATGACAAAAATACCCCCAG
1 AGGGTAAAATGACCGAAATACCCCCAA
* *
32499787 AGGGTAAAATGACCGAAATACCCCTAT
1 AGGGTAAAATGACCGAAATACCCCCAA
* *
32499814 AGGGTAAAACGACCGAAATATCCCCAGA
1 AGGGTAAAATGACCGAAATACCCCCA-A
* ** *
32499842 A-GGTAAAATGACCGAAATAACCTTAG
1 AGGGTAAAATGACCGAAATACCCCCAA
** *
32499868 ATTGTAAAGTGACCGAAATACCCCCAA
1 AGGGTAAAATGACCGAAATACCCCCAA
** * *
32499895 AGGGTAAGTTGACCGAAATACCCTCAT
1 AGGGTAAAATGACCGAAATACCCCCAA
32499922 AGGGTAAAAT
1 AGGGTAAAAT
32499932 AACTGTTATA
Statistics
Matches: 139, Mismatches: 31, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
26 1 0.01
27 137 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.17
Consensus pattern (27 bp):
AGGGTAAAATGACCGAAATACCCCCAA
Found at i:32501164 original size:27 final size:27
Alignment explanation
Indices: 32501123--32501215 Score: 134
Period size: 27 Copynumber: 3.4 Consensus size: 27
32501113 TACATTTAGT
*
32501123 GGTAAAATAACTGAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* *
32501150 GGTATAATGATTGAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
*
32501177 GGTAAAATGACCGAAATACCCCCACT-G
1 GGTAAAATGACTGAAATACCCCCA-TAG
32501204 GGTAAAATGACT
1 GGTAAAATGACT
32501216 ATTATACCCC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCCCATAG
Found at i:32504864 original size:3 final size:3
Alignment explanation
Indices: 32504858--32504911 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
32504848 ATAATAATAG
32504858 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
32504906 CAA CAA
1 CAA CAA
32504912 TAATAATAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:32504916 original size:3 final size:3
Alignment explanation
Indices: 32504910--32504951 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
32504900 CAACAACAAC
32504910 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32504952 GAAACATTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32505699 original size:18 final size:17
Alignment explanation
Indices: 32505674--32505718 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
32505664 AGCCTCCTTC
* *
32505674 GAAAAAATAGAATAATA
1 GAAAAAATAAAATAAGA
32505691 GATAAAAATGAAAATAAGA
1 GA-AAAAAT-AAAATAAGA
32505710 GAAAAAATA
1 GAAAAAATA
32505719 CAATTCGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
19 9 0.38
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (17 bp):
GAAAAAATAAAATAAGA
Found at i:32506142 original size:24 final size:24
Alignment explanation
Indices: 32506115--32506175 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
32506105 GGGGGAGTTG
*
32506115 AGGAGAAATCAGTGGAGGGATTCA
1 AGGAGAAATCAGTGGAGAGATTCA
** * **
32506139 AGGAGGGATAAGTGGAGAGATTTT
1 AGGAGAAATCAGTGGAGAGATTCA
32506163 AGGAGAAAATCAG
1 AGGAG-AAATCAG
32506176 GGGATGTGAG
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.39, C:0.05, G:0.38, T:0.18
Consensus pattern (24 bp):
AGGAGAAATCAGTGGAGAGATTCA
Found at i:32508842 original size:19 final size:18
Alignment explanation
Indices: 32508818--32508860 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
32508808 TGGGCTTCAT
32508818 TGGGCCAAAATGGGCTATG
1 TGGGCCAAAATGGGCT-TG
*
32508837 TGGGCC-TAATGGGCTTG
1 TGGGCCAAAATGGGCTTG
*
32508854 TGAGCCA
1 TGGGCCA
32508861 TACGAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 8 0.38
19 6 0.29
ACGTcount: A:0.21, C:0.19, G:0.37, T:0.23
Consensus pattern (18 bp):
TGGGCCAAAATGGGCTTG
Found at i:32509242 original size:27 final size:27
Alignment explanation
Indices: 32509211--32509387 Score: 135
Period size: 27 Copynumber: 6.6 Consensus size: 27
32509201 CCAATATTTA
* *
32509211 TAAAATAACTGTAATAACCTTATAGGG
1 TAAAATAACCGTAATAACCCTATAGGG
*
32509238 TAAAATAACCGTAATACCCCTATAGGG
1 TAAAATAACCGTAATAACCCTATAGGG
* * * *
32509265 TAAAATCACC-AAAAAACCCCCATAGGG
1 TAAAATAACCGTAATAA-CCCTATAGGG
* * * *
32509292 TAAAATGACCGTGAT-GCCTCTGTAGGG
1 TAAAATAACCGTAATAACC-CTATAGGG
32509319 TAAAATAACCGTAAT-ACCCTCATAGGG
1 TAAAATAACCGTAATAACCCT-ATAGGG
* * * * * * *
32509346 TTAAATGATCGAAATACCCCTGTAAGG
1 TAAAATAACCGTAATAACCCTATAGGG
*
32509373 TAAAATGACCGTAAT
1 TAAAATAACCGTAAT
32509388 GCCTCTGGAG
Statistics
Matches: 116, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 7 0.06
27 104 0.90
28 5 0.04
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (27 bp):
TAAAATAACCGTAATAACCCTATAGGG
Found at i:32509269 original size:54 final size:54
Alignment explanation
Indices: 32509211--32509387 Score: 185
Period size: 54 Copynumber: 3.3 Consensus size: 54
32509201 CCAATATTTA
* * * *
32509211 TAAAATAACTGTAATAACCTTATAGGGTAAAATAACCGTAATACCCCTATAGGG
1 TAAAATAACCGTAATAACCTCATAGGGTAAAATGACCGTAATACCCCTGTAGGG
* * * * * * *
32509265 TAAAATCACC-AAAAAACCCCCATAGGGTAAAATGACCGTGATGCCTCTGTAGGG
1 TAAAATAACCGTAATAA-CCTCATAGGGTAAAATGACCGTAATACCCCTGTAGGG
* * * * *
32509319 TAAAATAACCGTAATACCCTCATAGGGTTAAATGATCGAAATACCCCTGTAAGG
1 TAAAATAACCGTAATAACCTCATAGGGTAAAATGACCGTAATACCCCTGTAGGG
*
32509373 TAAAATGACCGTAAT
1 TAAAATAACCGTAAT
32509388 GCCTCTGGAG
Statistics
Matches: 97, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
53 4 0.04
54 90 0.93
55 3 0.03
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (54 bp):
TAAAATAACCGTAATAACCTCATAGGGTAAAATGACCGTAATACCCCTGTAGGG
Found at i:32509346 original size:81 final size:81
Alignment explanation
Indices: 32509233--32509403 Score: 236
Period size: 81 Copynumber: 2.1 Consensus size: 81
32509223 AATAACCTTA
*
32509233 TAGGGTAAAATAACCGTAATACCCCTATAGGGTAAAATCACCAAAAAACCCCCATAGGGTAAAAT
1 TAGGGTAAAATAACCGTAATACCCCTATAGGGTAAAATCACCAAAAAACCCCCATAAGGTAAAAT
*
32509298 GACCGTGATGCCTCTG
66 GACCGTAATGCCTCTG
* * * * * **
32509314 TAGGGTAAAATAACCGTAATA-CCCTCATAGGGTTAAATGATCGAAATACCCCTGTAAGGTAAAA
1 TAGGGTAAAATAACCGTAATACCCCT-ATAGGGTAAAATCACCAAAAAACCCCCATAAGGTAAAA
32509378 TGACCGTAATGCCTCTG
65 TGACCGTAATGCCTCTG
*
32509395 GAGGGTAAA
1 TAGGGTAAA
32509404 TGACTATTTT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 4 0.05
81 75 0.95
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (81 bp):
TAGGGTAAAATAACCGTAATACCCCTATAGGGTAAAATCACCAAAAAACCCCCATAAGGTAAAAT
GACCGTAATGCCTCTG
Found at i:32509401 original size:27 final size:27
Alignment explanation
Indices: 32509233--32509407 Score: 120
Period size: 27 Copynumber: 6.5 Consensus size: 27
32509223 AATAACCTTA
* * * *
32509233 TAGGGTAAAATAACCGTAATACCCCTA
1 TAGGGTAAAATGACCGTAATGCCTCTG
* ** ** * **
32509260 TAGGGTAAAATCACCAAAAAACCCCCA
1 TAGGGTAAAATGACCGTAATGCCTCTG
*
32509287 TAGGGTAAAATGACCGTGATGCCTCTG
1 TAGGGTAAAATGACCGTAATGCCTCTG
* * *
32509314 TAGGGTAAAATAACCGTAATACC-CTCA
1 TAGGGTAAAATGACCGTAATGCCTCT-G
* * * * *
32509341 TAGGGTTAAATGATCGAAATACCCCTG
1 TAGGGTAAAATGACCGTAATGCCTCTG
*
32509368 TAAGGTAAAATGACCGTAATGCCTCTG
1 TAGGGTAAAATGACCGTAATGCCTCTG
*
32509395 GAGGGT-AAATGAC
1 TAGGGTAAAATGAC
32509408 TATTTTACCT
Statistics
Matches: 115, Mismatches: 31, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
26 9 0.08
27 104 0.90
28 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATGCCTCTG
Found at i:32511130 original size:27 final size:26
Alignment explanation
Indices: 32510802--32511135 Score: 258
Period size: 27 Copynumber: 12.4 Consensus size: 26
32510792 CCAAAAATAG
*
32510802 GGTAAAATGACCGAAATACCCCCATAA
1 GGTAAAATGATCGAAATACCCCCAT-A
* *
32510829 GGTAACATGATCGAAATACCCCCAGA
1 GGTAAAATGATCGAAATACCCCCATA
* *
32510855 GAGTAAAATGATCAAAATACCGCCATA
1 G-GTAAAATGATCGAAATACCCCCATA
* * * *
32510882 GGGTAAAATAACCTAAATACCCTCATA
1 -GGTAAAATGATCGAAATACCCCCATA
* *
32510909 GGGTAAAA-CAACAGAAATACCCCCATA
1 -GGTAAAATGATC-GAAATACCCCCATA
*
32510936 GGATAAAACGA-CTGAAATACCCCCATA
1 GG-TAAAATGATC-GAAATACCCCCATA
* *
32510963 GGGTAAAACGATCGAAATAACCCCATA
1 -GGTAAAATGATCGAAATACCCCCATA
* * *
32510990 GGCTAAAACGACCGAAATACCCCCAAAA
1 GG-TAAAATGATCGAAATACCCCC-ATA
* * * * *
32511018 GATAAAATGACCAAAATACCTCCAATG
1 GGTAAAATGATCGAAATACC-CCCATA
**
32511045 GGTAAAATGATCGAAATACCCCTGTA
1 GGTAAAATGATCGAAATACCCCCATA
* * *
32511071 GGGTAAATTGATCGAAATACACTCATAA
1 -GGTAAAATGATCGAAATACCCCCAT-A
* *
32511099 GGTAAAATAATCAAAATACCCCCATA
1 GGTAAAATGATCGAAATACCCCCATA
*
32511125 GTGTAACATGA
1 G-GTAAAATGA
32511136 CTGTTATACT
Statistics
Matches: 248, Mismatches: 46, Indels: 26
0.77 0.14 0.08
Matches are distributed among these distances:
26 13 0.05
27 224 0.90
28 11 0.04
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (26 bp):
GGTAAAATGATCGAAATACCCCCATA
Found at i:32512727 original size:14 final size:14
Alignment explanation
Indices: 32512704--32512735 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
32512694 AAAATCTTTG
32512704 TGAT-ACTCTGATT
1 TGATCACTCTGATT
32512717 TGATCACTCTGATT
1 TGATCACTCTGATT
32512731 TGATC
1 TGATC
32512736 TGTTCTGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.44
Consensus pattern (14 bp):
TGATCACTCTGATT
Found at i:32515027 original size:3 final size:3
Alignment explanation
Indices: 32515021--32515062 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
32515011 TACTATTAAA
32515021 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32515063 CAATTTTTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:32515662 original size:149 final size:150
Alignment explanation
Indices: 32515382--32515671 Score: 413
Period size: 150 Copynumber: 1.9 Consensus size: 150
32515372 AAAAGTTTTC
** *
32515382 ATTTTTTTTAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATTTGTCTTTTGTCATATTAAAGG
1 ATTTTTTAAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTCTTTTGTCATATTAAAGG
*
32515447 AAAAGTTTAAAATTAAAAAAAAAACGTTTTAATCTTTTTCAACTATTTCGAAACAAAGTTTTGAT
66 AAAAGTTTAAAATTAAAAAAAAAACGTTTTAATCTTTTTCAACTATTTCGAAACAAAATTTTGAT
32515512 TTTTAAGAAAAAATAGTTAT
131 TTTTAAGAAAAAATAGTTAT
* *
32515532 ATTTTTTAAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTTTTTTAGTCATTTTAAAG
1 ATTTTTTAAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTCTTTT-GTCATATTAAAG
** ** ** * ** *
32515597 GAAAA-TTTAATTTTTTAAAACCAA-TTTTTGGTCTTTTTCAACTATTTCGAAATAAAATTTTGA
65 GAAAAGTTTAAAATTAAAAAAAAAACGTTTTAATCTTTTTCAACTATTTCGAAACAAAATTTTGA
32515660 TTTTTAAGAAAA
130 TTTTTAAGAAAA
32515672 GTAGTGACTT
Statistics
Matches: 123, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
149 46 0.37
150 61 0.50
151 16 0.13
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (150 bp):
ATTTTTTAAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTCTTTTGTCATATTAAAGG
AAAAGTTTAAAATTAAAAAAAAAACGTTTTAATCTTTTTCAACTATTTCGAAACAAAATTTTGAT
TTTTAAGAAAAAATAGTTAT
Found at i:32516608 original size:27 final size:27
Alignment explanation
Indices: 32516575--32516663 Score: 160
Period size: 27 Copynumber: 3.3 Consensus size: 27
32516565 TAAGTAGGTG
*
32516575 TTACATTTTAATGAAACCATAATGTTT
1 TTACATTTTAATGAAACCATAAGGTTT
32516602 TTACATTTTAATGAAACCATAAGGTTT
1 TTACATTTTAATGAAACCATAAGGTTT
*
32516629 TTACATTTTAAGGAAACCATAAGGTTT
1 TTACATTTTAATGAAACCATAAGGTTT
32516656 TTACATTT
1 TTACATTT
32516664 GAATTTAGGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (27 bp):
TTACATTTTAATGAAACCATAAGGTTT
Found at i:32518545 original size:15 final size:17
Alignment explanation
Indices: 32518502--32518539 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
32518492 GAATGGATTA
* *
32518502 TTATATTGAACGAACTG
1 TTATATTGTATGAACTG
32518519 TTATATTGTATGAACTG
1 TTATATTGTATGAACTG
32518536 TTAT
1 TTAT
32518540 TTTATGCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (17 bp):
TTATATTGTATGAACTG
Found at i:32518550 original size:17 final size:17
Alignment explanation
Indices: 32518512--32518572 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
32518502 TTATATTGAA
32518512 CGAACTGTTATATTGTAT-
1 CGAACTGTTAT-TT-TATG
32518530 -GAACTGTTATTTTATG
1 CGAACTGTTATTTTATG
* *
32518546 CGAACTGCCTATTCTATG
1 CGAACTG-TTATTTTATG
*
32518564 TGAACTGTT
1 CGAACTGTT
32518573 TAATTTGAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
15 3 0.08
16 2 0.06
17 17 0.47
18 14 0.39
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (17 bp):
CGAACTGTTATTTTATG
Found at i:32534790 original size:50 final size:50
Alignment explanation
Indices: 32534679--32534975 Score: 186
Period size: 50 Copynumber: 5.8 Consensus size: 50
32534669 ATTTGGGTAA
* * * *
32534679 AGAGATCCCATGTAAGACCATGTTTGGGACATGATATTGGCATCATTAAAGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTATTGGCA-C---CAAG--ATG
* *
32534735 AGAGGTTCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTATTGGCACCAAGATG
** * * * * *
32534785 AGAGGTCCCCCGTAAGACCATGTCTGAGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTATTGGCACCAAGATG
** * * * * * * *
32534835 AGAACTCCCATGTAAGACCGTATCTGGGATATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTATTGGCACCAAGATG
*** * * * ** *
32534885 AGAACACCCATGTAAGACCATATCTGAGATATGGCT-TTGGCA-GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGG-TATTGGCACCAAGATG
* ** *
32534934 AAACATCTCATGTAAGACCATGTCTGGGACATGGCT-TTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGG-TATTGGCA
32534976 TGTTATTATC
Statistics
Matches: 201, Mismatches: 39, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
49 38 0.19
50 122 0.61
52 3 0.01
55 1 0.00
56 37 0.18
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTATTGGCACCAAGATG
Found at i:32548777 original size:18 final size:18
Alignment explanation
Indices: 32548730--32548791 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
32548720 TATATCTATT
*
32548730 TCTGAATATGAATATGTA
1 TCTGATTATGAATATGTA
* * * *
32548748 TCTCATTTTGAATCTGTG
1 TCTGATTATGAATATGTA
*
32548766 TCTGATTATGAAATATGCA
1 TCTGATTATG-AATATGTA
32548785 TCTGATT
1 TCTGATT
32548792 CTGTATGTGA
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
18 21 0.64
19 12 0.36
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (18 bp):
TCTGATTATGAATATGTA
Found at i:32550570 original size:50 final size:50
Alignment explanation
Indices: 32550465--32550571 Score: 117
Period size: 50 Copynumber: 2.1 Consensus size: 50
32550455 TTATTGAGGT
* * *
32550465 TATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCGGTGGTACTGA
1 TATGAGAGGTCCCACATAAAACCATGTCTGGGACATGGCGGTGGCACCGA
* * * ** *
32550515 GATGAGAGGTCCCCCGTAAAACTGTGTCTGGGACATGGC-ATGGGCACCGA
1 TATGAGAGGTCCCACATAAAACCATGTCTGGGACATGGCGGT-GGCACCGA
32550565 TATGAGA
1 TATGAGA
32550572 ACTCTCATGT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
49 1 0.02
50 45 0.98
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.21
Consensus pattern (50 bp):
TATGAGAGGTCCCACATAAAACCATGTCTGGGACATGGCGGTGGCACCGA
Found at i:32558153 original size:21 final size:21
Alignment explanation
Indices: 32558135--32558185 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
32558125 TACTAATATT
*
32558135 AACACTAATAATGATAATAAA
1 AACAATAATAATGATAATAAA
32558156 AACAATAATAAT-ATGAATAATA
1 AACAATAATAATGAT-AATAA-A
*
32558178 ACCAATAA
1 AACAATAA
32558186 AAAAACTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 16 0.62
22 8 0.31
ACGTcount: A:0.63, C:0.10, G:0.04, T:0.24
Consensus pattern (21 bp):
AACAATAATAATGATAATAAA
Found at i:32558490 original size:12 final size:12
Alignment explanation
Indices: 32558473--32558502 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
32558463 GACTCATGGA
32558473 GAAAGGAGATGT
1 GAAAGGAGATGT
*
32558485 GAAAGGTGATGT
1 GAAAGGAGATGT
32558497 GAAAGG
1 GAAAGG
32558503 GAGACAGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (12 bp):
GAAAGGAGATGT
Found at i:32569173 original size:61 final size:61
Alignment explanation
Indices: 32569078--32569198 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 61
32569068 TCTTAATCTT
* *
32569078 CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAGAATTTGATGTGATAA
1 CAAGCCTCCACGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATAA
*
32569139 CAAGCCTCCACGGTTGGTTTCATGTGATAGAATACTCTTGAATTAAAATTTGATGTGATA
1 CAAGCCTCCACGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATA
32569199 TCTCACATTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (61 bp):
CAAGCCTCCACGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATAA
Found at i:32571419 original size:24 final size:24
Alignment explanation
Indices: 32571374--32571421 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
32571364 TTTTATTTAT
**
32571374 ATAAAACTATAATTTGGACTAATA
1 ATAAAACTATAATTTACACTAATA
* *
32571398 ATAAAGCTATAATTTACTCTAATA
1 ATAAAACTATAATTTACACTAATA
32571422 TGATCTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (24 bp):
ATAAAACTATAATTTACACTAATA
Found at i:32579547 original size:19 final size:19
Alignment explanation
Indices: 32579525--32579569 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
32579515 AAGCACATAG
* * *
32579525 TGGCATATGAGGTGCATCC
1 TGGCACATGAAGTGCACCC
32579544 TGGCACATGAAGTGCACCC
1 TGGCACATGAAGTGCACCC
32579563 TGGCACA
1 TGGCACA
32579570 CAAAACGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (19 bp):
TGGCACATGAAGTGCACCC
Found at i:32579604 original size:19 final size:19
Alignment explanation
Indices: 32579591--32579636 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
32579581 TTGGCGCACG
32579591 AAGTGCATCCTGGCACACA
1 AAGTGCATCCTGGCACACA
* * **
32579610 AGGTGCATCCAGGTGCACA
1 AAGTGCATCCTGGCACACA
32579629 AAGTGCAT
1 AAGTGCAT
32579637 AATCTCATAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (19 bp):
AAGTGCATCCTGGCACACA
Found at i:32586139 original size:22 final size:21
Alignment explanation
Indices: 32586111--32586156 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
32586101 ATTAAATAAG
32586111 TTTTAGT-TTATGTATCTTATTT
1 TTTTAGTGTT-TGTATC-TATTT
*
32586133 TTTTAGTGTTTTTATCTATTT
1 TTTTAGTGTTTGTATCTATTT
32586154 TTT
1 TTT
32586157 AATCTACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 12 0.55
23 2 0.09
ACGTcount: A:0.15, C:0.04, G:0.09, T:0.72
Consensus pattern (21 bp):
TTTTAGTGTTTGTATCTATTT
Found at i:32592309 original size:18 final size:18
Alignment explanation
Indices: 32592286--32592321 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
32592276 TGTGTACAAG
*
32592286 GAAGCTTTATTTAACACA
1 GAAGCTCTATTTAACACA
32592304 GAAGCTCTATTTAACACA
1 GAAGCTCTATTTAACACA
32592322 AACGAACTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (18 bp):
GAAGCTCTATTTAACACA
Found at i:32601108 original size:20 final size:21
Alignment explanation
Indices: 32601080--32601118 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
32601070 AAGTATTTTT
32601080 ATTATTTTTTAATATTTTACA
1 ATTATTTTTTAATATTTTACA
32601101 ATTA-TTTTTAATATTTTA
1 ATTATTTTTTAATATTTTA
32601119 TAAATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTATTTTTTAATATTTTACA
Found at i:32601124 original size:21 final size:21
Alignment explanation
Indices: 32601080--32601124 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
32601070 AAGTATTTTT
*
32601080 ATTATTTTTTAATATTTTACA
1 ATTATTTTTTAATATTTTAAA
32601101 ATTA-TTTTTAATATTTTATAA
1 ATTATTTTTTAATATTTTA-AA
32601122 ATT
1 ATT
32601125 TTATAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTATTTTTTAATATTTTAAA
Found at i:32608183 original size:27 final size:27
Alignment explanation
Indices: 32608144--32608799 Score: 531
Period size: 27 Copynumber: 24.4 Consensus size: 27
32608134 GTAATGGGAC
*
32608144 TAAAATGACCGAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
*
32608171 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* *
32608198 TAAAATGATTGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * **
32608225 TAAAATG-GCTGAAATACCGCTAAAGGG
1 TAAAATGATC-GAAATACCCCCGAAGGG
* * **
32608252 TAAAATGATCGAAATATCGCTAAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
32608279 TAAAATGATCGAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * * *
32608306 TAAAATGACCAAAATACTCGCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * * ** *
32608333 TATAATTATCGAAATGCCCTTGAAGGA
1 TAAAATGATCGAAATACCCCCGAAGGG
* ***
32608360 TAAAATGATCGAAATATCCTTAAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* *
32608387 TAAAATGATCTAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
*
32608414 TAAAATGATCGAAATA-CCCTGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * * *
32608440 TAAATTGATCGAAAGACCCCCGAAAGA
1 TAAAATGATCGAAATACCCCCGAAGGG
* *
32608467 TAAAATTACCGAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * * ***
32608494 TAAACT-ATCAAAATAACCTTAAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * *
32608520 T-AAATGA-CTAAAATACCCTCAAAGGG
1 TAAAATGATC-GAAATACCCCCGAAGGG
** *
32608546 TAAAATGATCGAAATACCCTTGAAAGG
1 TAAAATGATCGAAATACCCCCGAAGGG
32608573 TAAAATGA-CTGAAATA-CCCCGAAGGG
1 TAAAATGATC-GAAATACCCCCGAAGGG
*
32608599 TAAAATGATCGAAATACCCCCGAAGGA
1 TAAAATGATCGAAATACCCCCGAAGGG
* * *
32608626 TAAAATTACCGAAATACCCCCGAAGGA
1 TAAAATGATCGAAATACCCCCGAAGGG
* * **
32608653 TAAAATTACCGAAATACCCCTAAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * ***
32608680 TAAAATTATCAAAAT-CTCCTTAAAGGG
1 TAAAATGATCGAAATAC-CCCCGAAGGG
* *
32608707 TAAAATTA-CTAAAATACCCCCGAAGGGG
1 TAAAATGATC-GAAATACCCCCGAA-GGG
* * * * *
32608735 TAAAATTACCGACATA-TCTCGTAAGGG
1 TAAAATGATCGAAATACCCCCG-AAGGG
* * *
32608762 TAAAATTACCGAAATACCCCCTATAGGG
1 TAAAATGATCGAAATACCCCCGA-AGGG
*
32608790 TGAAATGATC
1 TAAAATGATC
32608800 TTTATACCCC
Statistics
Matches: 519, Mismatches: 92, Indels: 35
0.80 0.14 0.05
Matches are distributed among these distances:
25 4 0.01
26 78 0.15
27 403 0.78
28 33 0.06
29 1 0.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCCGAAGGG
Found at i:32609214 original size:28 final size:28
Alignment explanation
Indices: 32609174--32609252 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
32609164 TAATGTTACT
*
32609174 GTATTTGGTTAAGGCCCACACTGATACC
1 GTATTGGGTTAAGGCCCACACTGATACC
* * * *
32609202 GTATTGGGTTAAGTCCCACAGTGCTACT
1 GTATTGGGTTAAGGCCCACACTGATACC
* * *
32609230 GAATTGGGCTAAGGCCCTCACTG
1 GTATTGGGTTAAGGCCCACACTG
32609253 TACTGTCACT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (28 bp):
GTATTGGGTTAAGGCCCACACTGATACC
Found at i:32616276 original size:27 final size:26
Alignment explanation
Indices: 32616236--32616753 Score: 365
Period size: 27 Copynumber: 19.3 Consensus size: 26
32616226 GTATTGGGCC
* *
32616236 TAAAATGTCTGAAATACCTCCGAAGGG
1 TAAAATGACCGAAATACC-CCGAAGGG
*
32616263 TAAAATGACCGAAATACCCTCGAAGAG
1 TAAAATGACCGAAATACCC-CGAAGGG
* * * * *
32616290 TAAAATTACCAAAATGCCCTTGAAAGG
1 TAAAATGACCGAAATACCC-CGAAGGG
* * *
32616317 TAAAATGATCGAAATACACTCGAAAGG
1 TAAAATGACCGAAATAC-CCCGAAGGG
* *
32616344 TAAAATGATCGAAATACCCTCGATGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
*
32616371 TAAAATGACCGAAATACCCTCGAAAGG
1 TAAAATGACCGAAATACCC-CGAAGGG
**
32616398 TAAAATGACCGAAATACCTTGAAGGG
1 TAAAATGACCGAAATACCCCGAAGGG
* *
32616424 TAAAGTGACCGAAATACCGTCGAAGGG
1 TAAAATGACCGAAATACC-CCGAAGGG
**** *
32616451 TAAAATGACCGAAATATCTTTAAAAGG
1 TAAAATGACCGAAATA-CCCCGAAGGG
* * * *
32616478 TAAAATTACCAAAATACACTCGAAGGT
1 TAAAATGACCGAAATAC-CCCGAAGGG
*
32616505 TAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
* *
32616532 TAAAATGACTGAAATA-CTCGAAGGG
1 TAAAATGACCGAAATACCCCGAAGGG
* * **
32616557 TAAAATGACCAAAATACCCCTAAAATG
1 TAAAATGACCGAAATACCCC-GAAGGG
* * *
32616584 TAAAATTACCAAAATACCCCTGAATGG
1 TAAAATGACCGAAATACCCC-GAAGGG
* **
32616611 TAAAATTA-CGAAAATATCCCTAAAGGG
1 TAAAATGACCG-AAATA-CCCCGAAGGG
* * * * *
32616638 TAAAATTATCAAAATATCTCTGAAGGG
1 TAAAATGACCGAAATA-CCCCGAAGGG
* * *
32616665 TAAAATTACCAAAATACCCTTGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
* ** *
32616692 TAAAATTACCGAAATACCCTTTAAGGA
1 TAAAATGACCGAAATACCC-CGAAGGG
* *
32616719 TAAAATTACCGAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCGA-AGGG
*
32616746 TGAAATGA
1 TAAAATGA
32616754 TCTTTATACC
Statistics
Matches: 406, Mismatches: 71, Indels: 28
0.80 0.14 0.06
Matches are distributed among these distances:
25 21 0.05
26 33 0.08
27 346 0.85
28 6 0.01
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.21
Consensus pattern (26 bp):
TAAAATGACCGAAATACCCCGAAGGG
Found at i:32616324 original size:54 final size:53
Alignment explanation
Indices: 32616261--32616737 Score: 419
Period size: 54 Copynumber: 8.9 Consensus size: 53
32616251 ACCTCCGAAG
* *
32616261 GGTAAAATGACCGAAATACCCTCGAAGAGTAAAATTACCAAAATGCCCTTGAAA
1 GGTAAAATGACCGAAATACCCTCGAAG-GTAAAATGACCAAAATACCCTTGAAA
* * * * * **
32616315 GGTAAAATGATCGAAATACACTCGAAAGGTAAAATGATCGAAATACCCTCGATG
1 GGTAAAATGACCGAAATACCCTCG-AAGGTAAAATGACCAAAATACCCTTGAAA
* *
32616369 GGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGACCGAAATA-CCTTGAAG
1 GGTAAAATGACCGAAATACCCTCG-AAGGTAAAATGACCAAAATACCCTTGAAA
* * * * * *
32616422 GGTAAAGTGACCGAAATACCGTCGAAGGGTAAAATGACCGAAATATCTTTAAAA
1 GGTAAAATGACCGAAATACCCTCGAA-GGTAAAATGACCAAAATACCCTTGAAA
* * * * *
32616476 GGTAAAATTACCAAAATACACTCGAAGGTTAAAATGACCAAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTCGAAGG-TAAAATGACCAAAATACCCTTGAAA
* * *
32616530 GGTAAAATGACTGAAATA--CTCGAAGGGTAAAATGACCAAAATACCCCTAAAA
1 GGTAAAATGACCGAAATACCCTCGAA-GGTAAAATGACCAAAATACCCTTGAAA
* * * * *
32616582 TGTAAAATTACCAAAATACCC-CTGAATGGTAAAATTACGAAAATATCCC-T-AAA
1 GGTAAAATGACCGAAATACCCTC-GAA-GGTAAAATGACCAAAATA-CCCTTGAAA
* * * * * *
32616635 GGGTAAAATTATCAAAATA-TCTCTGAAGGGTAAAATTACCAAAATACCCTTGAAG
1 -GGTAAAATGACCGAAATACCCTC-GAA-GGTAAAATGACCAAAATACCCTTGAAA
* ** * *
32616690 GGTAAAATTACCGAAATACCCTTTAAGGATAAAATTACCGAAATACCC
1 GGTAAAATGACCGAAATACCCTCGAAGG-TAAAATGACCAAAATACCC
32616738 CCATAGGGTG
Statistics
Matches: 352, Mismatches: 56, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
52 43 0.12
53 60 0.17
54 239 0.68
55 10 0.03
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.21
Consensus pattern (53 bp):
GGTAAAATGACCGAAATACCCTCGAAGGTAAAATGACCAAAATACCCTTGAAA
Found at i:32616374 original size:81 final size:80
Alignment explanation
Indices: 32616236--32616736 Score: 460
Period size: 81 Copynumber: 6.2 Consensus size: 80
32616226 GTATTGGGCC
* * * * * * *
32616236 TAAAATGTCTGAAATACCTCCGAAGGGTAAAATGACCGAAATACCCTCGAAGAGTAAAATTACCA
1 TAAAATGACCGAAATACCT-CGAAAGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCG
*
32616301 AAATGCCCTTGAAAGG
65 AAATACCCTTGAAAGG
* * * *
32616317 TAAAATGATCGAAATACACTCGAAAGGTAAAATGATCGAAATACCCTCGATGGGTAAAATGACCG
1 TAAAATGACCGAAATAC-CTCGAAAGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCG
*
32616382 AAATACCCTCGAAAGG
65 AAATACCCTTGAAAGG
* * * * *
32616398 TAAAATGACCGAAATACCTTGAAGGGTAAAGTGACCGAAATACCGTCGAAGGGTAAAATGACCGA
1 TAAAATGACCGAAATACCTCGAAAGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGA
* * *
32616463 AATATCTTTAAAAGG
66 AATACCCTTGAAAGG
* * *
32616478 TAAAATTACCAAAATACACTCG-AAGGTTAAAATGACCAAAATACCCTCGAAGGGTAAAATGACT
1 TAAAATGACCGAAATAC-CTCGAAAGG-TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACC
* *
32616542 GAAATA--CTCGAAGGG
64 GAAATACCCTTGAAAGG
* * * * * * *
32616557 TAAAATGACCAAAATACCCCTAAAATGTAAAATTACCAAAATACCC-CTGAATGGTAAAATTA-C
1 TAAAATGACCGAAATACCTC-GAAAGGTAAAATGACCAAAATACCCTC-GAAGGGTAAAATGACC
32616620 GAAAATATCCC-T-AAAGGG
64 G-AAATA-CCCTTGAAA-GG
* * * * * * * *
32616638 TAAAATTATCAAAATATCTCTGAAGGGTAAAATTACCAAAATACCCTTGAAGGGTAAAATTACCG
1 TAAAATGACCGAAATACCTC-GAAAGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCG
*
32616703 AAATACCCTT-TAAGG
65 AAATACCCTTGAAAGG
*
32616718 ATAAAATTACCGAAATACC
1 -TAAAATGACCGAAATACC
32616737 CCCATAGGGT
Statistics
Matches: 348, Mismatches: 57, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
78 4 0.01
79 56 0.16
80 81 0.23
81 202 0.58
82 5 0.01
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.21
Consensus pattern (80 bp):
TAAAATGACCGAAATACCTCGAAAGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGA
AATACCCTTGAAAGG
Found at i:32617114 original size:28 final size:28
Alignment explanation
Indices: 32617077--32617130 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
32617067 ACTGTAATGT
* *
32617077 TACTGTATTGGGTTAAGGCCCACACTAC
1 TACTGAATTGGGCTAAGGCCCACACTAC
*
32617105 TACTGAATTGGGCTAAGGCCCTCACT
1 TACTGAATTGGGCTAAGGCCCACACT
32617131 GTACTGTCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (28 bp):
TACTGAATTGGGCTAAGGCCCACACTAC
Found at i:32620491 original size:20 final size:21
Alignment explanation
Indices: 32620455--32620493 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32620445 TTGGTATCAT
32620455 TTTTAAGAAAGGTATCGATTA
1 TTTTAAGAAAGGTATCGATTA
*
32620476 TTTTCAGAAA-GTATCGAT
1 TTTTAAGAAAGGTATCGAT
32620494 ACCAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (21 bp):
TTTTAAGAAAGGTATCGATTA
Found at i:32620702 original size:20 final size:21
Alignment explanation
Indices: 32620679--32620726 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
32620669 AATGATTTTA
32620679 ACTTGATTG-AAATCATTGTC
1 ACTTGATTGAAAATCATTGTC
*
32620699 ACTTGGA--GAAAATCATTTTC
1 ACTT-GATTGAAAATCATTGTC
32620719 ACTTGATT
1 ACTTGATT
32620727 TTAAAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 3 0.13
20 18 0.78
21 2 0.09
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (21 bp):
ACTTGATTGAAAATCATTGTC
Found at i:32622588 original size:41 final size:40
Alignment explanation
Indices: 32622484--32622890 Score: 341
Period size: 41 Copynumber: 9.7 Consensus size: 40
32622474 TCTCTAAATG
* * *
32622484 TAAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATGA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * *
32622524 AAAAGGGTTGCT-A-TGCGTCGATTCCCCATATCATTGATTA
1 TAAGGGGTTGCTAAGTGC-T-GATTCCCCGTATCATTGATTA
* *
32622564 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTGTA
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TA
* * * *
32622608 AAAGGGGTTGTTATGTACTGATTCCCCGTATCATTGATTA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * *
32622648 TAAGGTGGTTGCTAAGTGCTGATTCCATCGTGTCCTTGATTGTA
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TA
* * * *
32622692 AAAGGGGTTGTTATGTGCTAATTCCCCGTATCATTGATTA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * * *
32622732 TAAGGTGGTTGATAAGTGCTGATTCCACTGTATCCTTGATTG
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTA
* * *
32622774 TGAAAGGGGTTGCTATGTGCTGATTCCCCGTATTATTAATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * **
32622816 TAAGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACA
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CC-GTAT-CATTGATTA
*
32622860 TGAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGT
32622891 GTAACAGTTA
Statistics
Matches: 293, Mismatches: 54, Indels: 37
0.76 0.14 0.10
Matches are distributed among these distances:
38 3 0.01
39 1 0.00
40 47 0.16
41 68 0.23
42 65 0.22
43 61 0.21
44 48 0.16
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (40 bp):
TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
Found at i:32622640 original size:84 final size:84
Alignment explanation
Indices: 32622484--32622845 Score: 518
Period size: 84 Copynumber: 4.4 Consensus size: 84
32622474 TCTCTAAATG
* * * * *
32622484 TAAGG-GGTTGCTAAGTGCAGATTCC-CCGAATCATTGA-TG-AAAAAGGGTTGCTATGCG-TCG
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTAAAAGGGGTTGCTATGTGCT-G
*
32622544 ATTCCCCATATCATTGATTA
65 ATTCCCCGTATCATTGATTA
* * *
32622564 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTGTAAAAGGGGTTGTTATGTACTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTAAAAGGGGTTGCTATGTGCTGA
32622629 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
* * * *
32622648 TAAGGTGGTTGCTAAGTGCTGATTCCATCGTGTCCTTGATTGTAAAAGGGGTTGTTATGTGCTAA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTAAAAGGGGTTGCTATGTGCTGA
32622713 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
* * *
32622732 TAAGGTGGTTGATAAGTGCTGATTCCACTGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTAAAAGGGGTTGCTATGTGCTGA
* *
32622797 TTCCCCGTATTATTAATTA
66 TTCCCCGTATCATTGATTA
32622816 TAAGGTGGTTGCTAAGTGCTGATTCCACCG
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCG
32622846 GGATCCTTTG
Statistics
Matches: 254, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
80 5 0.02
81 19 0.07
82 9 0.04
83 2 0.01
84 218 0.86
85 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (84 bp):
TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTAAAAGGGGTTGCTATGTGCTGA
TTCCCCGTATCATTGATTA
Found at i:32632346 original size:20 final size:19
Alignment explanation
Indices: 32632283--32632372 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 19
32632273 TCCTAGGTCA
*
32632283 ATTTTGACTTGTTTGAAAATC
1 ATTTTCACTTG-TT-AAAATC
* * *
32632304 ATTTTGA-TGTGTTGAAATG
1 ATTTTCACT-TGTTAAAATC
*
32632323 ATTTTAACTTGATTAAAATC
1 ATTTTCACTTG-TTAAAATC
*
32632343 ATTTTCACTTGGTTAAAATA
1 ATTTTCACTT-GTTAAAATC
32632363 ATTTTCACTT
1 ATTTTCACTT
32632373 ACTTTTAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
19 12 0.21
20 36 0.62
21 10 0.17
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (19 bp):
ATTTTCACTTGTTAAAATC
Found at i:32632367 original size:40 final size:40
Alignment explanation
Indices: 32632282--32632372 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
32632272 GTCCTAGGTC
* * * *
32632282 AATTTTGACTTGTTTGAAAATCATTTTGATGTGTTGAAAT
1 AATTTTAACTTGATTGAAAATCATTTTCATGTGTTAAAAT
*
32632322 GATTTTAACTTGATT-AAAATCATTTTCACT-TGGTTAAAAT
1 AATTTTAACTTGATTGAAAATCATTTTCA-TGT-GTTAAAAT
*
32632362 AATTTTCACTT
1 AATTTTAACTT
32632373 ACTTTTAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
39 13 0.31
40 29 0.69
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (40 bp):
AATTTTAACTTGATTGAAAATCATTTTCATGTGTTAAAAT
Found at i:32633091 original size:44 final size:42
Alignment explanation
Indices: 32633041--32633139 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 42
32633031 TCGCACAGGG
* * * *
32633041 ACATGGTTGTGTGGACAAATCGTGTAC-AATTCAAAGTTTGGGTC
1 ACATGGTTGTGTCG-CAAACCGTGTACAAATT-AAA-TTAGAGTC
* * *
32633085 ACATGGTCGTGTCGCAGACCGTGTGCAAATTAAATTAGAGTC
1 ACATGGTTGTGTCGCAAACCGTGTACAAATTAAATTAGAGTC
32633127 ACATGGTTGTGTC
1 ACATGGTTGTGTC
32633140 ACAGACTATG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
42 18 0.39
43 12 0.26
44 16 0.35
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (42 bp):
ACATGGTTGTGTCGCAAACCGTGTACAAATTAAATTAGAGTC
Found at i:32634553 original size:45 final size:45
Alignment explanation
Indices: 32634504--32634643 Score: 199
Period size: 45 Copynumber: 3.1 Consensus size: 45
32634494 CAGTCTTAAA
* * * *
32634504 CGTTTGAATCCTGATGCCATAACATCTTTTAGCTATGGTCTTACT
1 CGTTTGAATCGTGATGCTAGAACATCTTTCAGCTATGGTCTTACT
*
32634549 CGTTTGAATCGTGATGCTAGAACATCTTTCAGCTATTGTCTTACT
1 CGTTTGAATCGTGATGCTAGAACATCTTTCAGCTATGGTCTTACT
* * *
32634594 CGTTTGAATCGTGGTGCTAGAGCGTCTTTCAGCTATGGTCTTACT
1 CGTTTGAATCGTGATGCTAGAACATCTTTCAGCTATGGTCTTACT
*
32634639 AGTTT
1 CGTTT
32634644 TTCAACCAAC
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 85 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (45 bp):
CGTTTGAATCGTGATGCTAGAACATCTTTCAGCTATGGTCTTACT
Found at i:32639389 original size:45 final size:45
Alignment explanation
Indices: 32639281--32639437 Score: 156
Period size: 45 Copynumber: 3.5 Consensus size: 45
32639271 CCAAGACATG
* * * *
32639281 ACGTCTTTCAACTATGGTCTTATTCACTTTCTG--TCATGTTACCATA
1 ACGTCTTTCAACTATGGTC-T-TCCACATT-TGAATCGTGATACCATA
** *
32639327 GTGTCTTTCAACCATGGTCTTCCACATTTGAATCGTGATACCATA
1 ACGTCTTTCAACTATGGTCTTCCACATTTGAATCGTGATACCATA
** * * *
32639372 ACGTCTTTCAGTTATGGTCTTCCTCATTTGAGTCGTGATGCCATA
1 ACGTCTTTCAACTATGGTCTTCCACATTTGAATCGTGATACCATA
*
32639417 GCGTCTTTCAACTATGGTCTT
1 ACGTCTTTCAACTATGGTCTT
32639438 ACTTATTTTT
Statistics
Matches: 91, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
43 2 0.02
44 6 0.07
45 67 0.74
46 16 0.18
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (45 bp):
ACGTCTTTCAACTATGGTCTTCCACATTTGAATCGTGATACCATA
Found at i:32650653 original size:36 final size:36
Alignment explanation
Indices: 32650613--32650705 Score: 116
Period size: 35 Copynumber: 2.6 Consensus size: 36
32650603 GTATGTCGTC
*
32650613 AATCCAACAAAAACACACCAAATGCTCATAAGAGCT
1 AATCCAACAGAAACACACCAAATGCTCATAAGAGCT
** *
32650649 AATCCTTCCGAAACACACC-AATGCTCATAAGAGCT
1 AATCCAACAGAAACACACCAAATGCTCATAAGAGCT
* * *
32650684 AGTCCAACTGAAATACACCAAA
1 AATCCAACAGAAACACACCAAA
32650706 CAGAGAGTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
35 30 0.64
36 17 0.36
ACGTcount: A:0.45, C:0.29, G:0.10, T:0.16
Consensus pattern (36 bp):
AATCCAACAGAAACACACCAAATGCTCATAAGAGCT
Found at i:32667723 original size:12 final size:12
Alignment explanation
Indices: 32667706--32667749 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
32667696 AGGTAATTGG
32667706 TCAGGAAACACA
1 TCAGGAAACACA
32667718 TCAGGAAACACA
1 TCAGGAAACACA
* *
32667730 TTAGAAAACACA
1 TCAGGAAACACA
32667742 TCAGGAAA
1 TCAGGAAA
32667750 GTCTTTCACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.52, C:0.20, G:0.16, T:0.11
Consensus pattern (12 bp):
TCAGGAAACACA
Found at i:32671857 original size:39 final size:40
Alignment explanation
Indices: 32671787--32671929 Score: 146
Period size: 40 Copynumber: 3.6 Consensus size: 40
32671777 ACGGTTTTAC
* * * ** *
32671787 AAGTTGTGTACCAGCAAAGCTCTTCCCTGAGC-TAAGGAT
1 AAGTTGTGTATCAACAAAGCTCCTCTGTGAGCTTATGGAT
* * * *
32671826 AAGTTGTGTATCAGCATAGCTCCTCTGTGAGCTTTTGGAC
1 AAGTTGTGTATCAACAAAGCTCCTCTGTGAGCTTATGGAT
* *
32671866 AAGTTGTGTATCAACGAAGCTCAC-CTGCGAGCTTATGGAT
1 AAGTTGTGTATCAACAAAGCTC-CTCTGTGAGCTTATGGAT
*
32671906 AAGCTGTGTATCAACAAAGCTCCT
1 AAGTTGTGTATCAACAAAGCTCCT
32671930 TGTCGAAACC
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
39 28 0.33
40 56 0.66
41 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (40 bp):
AAGTTGTGTATCAACAAAGCTCCTCTGTGAGCTTATGGAT
Found at i:32674547 original size:44 final size:44
Alignment explanation
Indices: 32674444--32674604 Score: 142
Period size: 44 Copynumber: 3.6 Consensus size: 44
32674434 TTTTAGTCTG
* * * * * * * *
32674444 CTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAATCTG
1 CTCCACTACAACTTCAGAGAGATAAGATTAG-TAACTTCAACCTA
* ** * *
32674489 CTCCACTGCAACTTCAGAGAGATAAGATTAGTGGCTTTAATCTA
1 CTCCACTACAACTTCAGAGAGATAAGATTAGTAACTTCAACCTA
** * * *
32674533 CTGTACTACAACTTCAGATAGATAAGACTAGTAACTTCAACCTG
1 CTCCACTACAACTTCAGAGAGATAAGATTAGTAACTTCAACCTA
*
32674577 CTCCACTGCAACTTCAGAGAGATAAGAT
1 CTCCACTACAACTTCAGAGAGATAAGAT
32674605 CTGTTATTTA
Statistics
Matches: 93, Mismatches: 23, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
44 65 0.70
45 28 0.30
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (44 bp):
CTCCACTACAACTTCAGAGAGATAAGATTAGTAACTTCAACCTA
Found at i:32674771 original size:136 final size:137
Alignment explanation
Indices: 32674622--32674931 Score: 415
Period size: 136 Copynumber: 2.3 Consensus size: 137
32674612 TTATAGCTTA
* * **
32674622 AATCTGTTGCACTGCAACTTCAAGGAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAAA
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGATATGATCTGCTCTACTGCAACTTCAAA
* * * * *
32674687 GAGATAAGATATGTTATTTATAGCTTTAATTTTTTCCACTGCAACTTTAGGG-AATAAGATTCTC
66 GAGATAAGATATGTAAGTTATAGCTTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGATTCGC
32674751 TATCATC
131 TATCATC
* * *
32674758 AATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGATATGATCTGCTCTACTGCAACTTCAGA
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGATATGATCTGCTCTACTGCAACTTCAAA
* * *
32674823 GAGATAGGATCTGTAAGTTCTAGCTTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGATTCGC
66 GAGATAAGATATGTAAGTTATAGCTTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGATTCGC
*
32674888 TATCTTC
131 TATCATC
* * * ***
32674895 AGTCTACTCCACTACAACTTTTGGGAGATAAGACTTG
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTG
32674932 TAACTTCAAC
Statistics
Matches: 153, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
136 103 0.67
137 50 0.33
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (137 bp):
AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGATATGATCTGCTCTACTGCAACTTCAAA
GAGATAAGATATGTAAGTTATAGCTTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGATTCGC
TATCATC
Done.