Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 126 of 144
Found at i:39079109 original size:68 final size:70
Alignment explanation
Indices: 39079029--39079160 Score: 169
Period size: 68 Copynumber: 1.9 Consensus size: 70
39079019 TTAAACACAA
* *
39079029 AATTAATTTAAAAAAAGTAAACCCTAATTTAATTAA-TTTTCTT-AAAAACTCTAAACCCTAATT
1 AATTAATTTAAAAAAACTAAAACCTAATTTAATTAATTTTTCTTAAAAAACTCTAAACCCTAATT
39079092 TAATT
66 TAATT
* *** * *
39079097 AATTTATTTAAAACCCCTAAAACCTAATTTAATTAATTTTTTTTAAAAAAATTCTAAACCCTAA
1 AATTAATTTAAAAAAACTAAAACCTAATTTAATTAATTTTTCTT-AAAAAACTCTAAACCCTAA
39079161 ACTAAAAAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
68 30 0.57
69 6 0.11
71 17 0.32
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.39
Consensus pattern (70 bp):
AATTAATTTAAAAAAACTAAAACCTAATTTAATTAATTTTTCTTAAAAAACTCTAAACCCTAATT
TAATT
Found at i:39081771 original size:13 final size:13
Alignment explanation
Indices: 39081753--39081778 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39081743 ATATTCTTAC
39081753 ATATATTATTTTT
1 ATATATTATTTTT
39081766 ATATATTATTTTT
1 ATATATTATTTTT
39081779 TTTAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATATTATTTTT
Found at i:39083067 original size:33 final size:33
Alignment explanation
Indices: 39083025--39083092 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
39083015 ATACAAGACC
39083025 ATACCGATCATGTCTTCTCTTCAATAAATGCGT
1 ATACCGATCATGTCTTCTCTTCAATAAATGCGT
39083058 ATACCGATCATGTCTTCTCTTCAATAAATGCGT
1 ATACCGATCATGTCTTCTCTTCAATAAATGCGT
39083091 AT
1 AT
39083093 CGAAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (33 bp):
ATACCGATCATGTCTTCTCTTCAATAAATGCGT
Found at i:39083869 original size:17 final size:17
Alignment explanation
Indices: 39083836--39083873 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
39083826 CACACGGGCA
* *
39083836 ATCCACATGGTTGTGTG
1 ATCCACATGGATATGTG
39083853 ATCCACATGGATATGTG
1 ATCCACATGGATATGTG
39083870 -TCCA
1 ATCCA
39083874 GGGCATGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (17 bp):
ATCCACATGGATATGTG
Found at i:39095207 original size:16 final size:16
Alignment explanation
Indices: 39095186--39095217 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39095176 ATTTTGTTGC
*
39095186 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
39095202 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
39095218 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:39095486 original size:51 final size:52
Alignment explanation
Indices: 39095425--39095623 Score: 208
Period size: 51 Copynumber: 3.9 Consensus size: 52
39095415 ATTAATGATA
* * *
39095425 CCGGTTCACGTAGTAGCCTGCACATAATACTAAACATGTGACCATCA-CTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCAGCTAT
* * * * * *
39095476 CCGGTACACGTAGTAGCCTGCATAGAGTACTATACACGTGATCA-AAGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCAGCTAT
* * * * * *
39095527 CCGGTACGCATAGTAGTCTGCACATAGTACTACACATGCGACC-T-ATCTTT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCAGCTAT
* * *
39095577 CTGGTACGCGTAGTAGCCTGCACATACTACTACACATGTGACCATCA
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCA
39095624 CTTTCACTTT
Statistics
Matches: 120, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
50 43 0.36
51 76 0.63
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (52 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCAGCTAT
Found at i:39106827 original size:163 final size:161
Alignment explanation
Indices: 39106365--39106831 Score: 625
Period size: 163 Copynumber: 2.9 Consensus size: 161
39106355 TCAATGGAAT
*
39106365 TTGAAGAGAGAAGATTAAATTTGGGGTGTTAGCTAGGTTCTTTGCGGTTTTTTTTAATAAG-G-T
1 TTGAAGAGAGAAGATTAAATTTGGAGTGTTAGCTAGGTTCTTTGCGGTTTTTTTTAATAAGTGCT
* * * * *
39106428 GTTGTCTTTAGGTGGTTATTGACAATGGTTTGTTTTGTTGGTCTTGCTGTCGATTATATAGACAT
66 TTTGTCTTGAGGTGCTTATCGACAATGGTTTGTTTTGTTGATCTTGCTGTCGATTATATAGACAT
*
39106493 TGAAAGACTTTTAATAAGGACCTAGTAGAAA
131 TGAGAGACTTTTAATAAGGACCTAGTAGAAA
* * *
39106524 TTGAAGAGAGAAGATTAAATATGGAGTGTTAGCTAAGTTCTTTGCAGTGGTTTTTTTAATAAGGT
1 TTGAAGAGAGAAGATTAAATTTGGAGTGTTAGCTAGGTTCTTTGC-G-GTTTTTTTTAATAA-GT
* * * * *
39106589 GCTTTT-TCTTGAGGTGCTTATCAACAATGGTTTGTTTCGTTGATCTTGTTGTCGATTACACAGA
63 GCTTTTGTCTTGAGGTGCTTATCGACAATGGTTTGTTTTGTTGATCTTGCTGTCGATTATATAGA
* * *
39106653 CGTTAAGAGACTTTTAATAAGGACTTAGTAGAAA
128 CATTGAGAGACTTTTAATAAGGACCTAGTAGAAA
* * *
39106687 TTGAAGAGATAAGATTAAATTTGGAGTGTGAGCTAGGTTCTTTGCGGTCTTTTTTTACTACAGTG
1 TTGAAGAGAGAAGATTAAATTTGGAGTGTTAGCTAGGTTCTTTGCGGT-TTTTTTTAATA-AGTG
* * * *
39106752 CTTTTGTCTTGAGGTGCTTATCGACAATGATTTTTTTTGTTGATCTTGCTATGGATTATATAGAC
64 CTTTTGTCTTGAGGTGCTTATCGACAATGGTTTGTTTTGTTGATCTTGCTGTCGATTATATAGAC
* *
39106817 CTCGAGAGACTTTTA
129 ATTGAGAGACTTTTA
39106832 CTACTATAGT
Statistics
Matches: 264, Mismatches: 36, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
159 42 0.16
160 1 0.00
161 14 0.05
162 20 0.08
163 184 0.70
164 3 0.01
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.41
Consensus pattern (161 bp):
TTGAAGAGAGAAGATTAAATTTGGAGTGTTAGCTAGGTTCTTTGCGGTTTTTTTTAATAAGTGCT
TTTGTCTTGAGGTGCTTATCGACAATGGTTTGTTTTGTTGATCTTGCTGTCGATTATATAGACAT
TGAGAGACTTTTAATAAGGACCTAGTAGAAA
Found at i:39109540 original size:25 final size:25
Alignment explanation
Indices: 39109493--39109541 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
39109483 AATTAATGAA
*
39109493 TATTTTATATATTTTTAAATTTTAT
1 TATTTTATATATTTATAAATTTTAT
*
39109518 TATTTTATAT-TTATATAATTTTTA
1 TATTTTATATATT-TATAAATTTTA
39109542 ATATATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
TATTTTATATATTTATAAATTTTAT
Found at i:39126099 original size:6 final size:6
Alignment explanation
Indices: 39126089--39126135 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
39126079 AATAATTTGT
* *
39126089 CATTTT CATTTC TATTTC CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
39126136 GGAGAAAACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.55
Consensus pattern (6 bp):
CATTTC
Found at i:39127889 original size:33 final size:33
Alignment explanation
Indices: 39127852--39127915 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
39127842 TAACAGTCTG
* *
39127852 GGCCTAAGCCCTATTCAGTAACAGTACAGTGTA
1 GGCCTAAGCCCAATACAGTAACAGTACAGTGTA
* * *
39127885 GGCCTTAGCCCAATACAGTAATAGTATAGTG
1 GGCCTAAGCCCAATACAGTAACAGTACAGTG
39127916 CAATAATGCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (33 bp):
GGCCTAAGCCCAATACAGTAACAGTACAGTGTA
Found at i:39135274 original size:26 final size:26
Alignment explanation
Indices: 39135218--39135293 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
39135208 CAACACACCA
* *
39135218 ATATCGCAGCAAAGCTGCTAGTAATG
1 ATATCGCAGCAAAGCTGCCAGTAATC
* *
39135244 ATATCGCAGCGATGCTGCCAGT-ATC
1 ATATCGCAGCAAAGCTGCCAGTAATC
* * *
39135269 AGTATCGCAGTAAAGTTTCCAGTAA
1 A-TATCGCAGCAAAGCTGCCAGTAA
39135294 CAGTATATGT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
25 3 0.08
26 35 0.90
27 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (26 bp):
ATATCGCAGCAAAGCTGCCAGTAATC
Found at i:39137493 original size:24 final size:24
Alignment explanation
Indices: 39137447--39137502 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
39137437 TTACATTTAC
**
39137447 TATTTATTAGCATAGTATATTTGA
1 TATTTATTAGCATAAAATATTTGA
* * *
39137471 TATTTATTGGCATAAAATCTTTGT
1 TATTTATTAGCATAAAATATTTGA
39137495 TATTTATT
1 TATTTATT
39137503 TCCATAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (24 bp):
TATTTATTAGCATAAAATATTTGA
Found at i:39145927 original size:27 final size:27
Alignment explanation
Indices: 39145869--39145931 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
39145859 ACTGTACCCC
*
39145869 AATACCCTCGATGGGTAAAATTACCTGA
1 AATACCCCCGATGGGTAAAATTACCT-A
39145897 AATACCCCCGATGGGT-AAATCTACC-A
1 AATACCCCCGATGGGTAAAAT-TACCTA
39145923 TAATACCCC
1 -AATACCCC
39145932 ATTAGCGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 1 0.03
27 12 0.38
28 19 0.59
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (27 bp):
AATACCCCCGATGGGTAAAATTACCTA
Found at i:39146098 original size:27 final size:26
Alignment explanation
Indices: 39146060--39146119 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 26
39146050 ATGGAGGAAG
39146060 TACTGCTTCTGGTGG-TTCTGCCACA-A
1 TACTG-TTCTGGTGGCTT-TGCCACATA
39146086 TTACTGTTGCTGGTGGCTTTGCCACATA
1 -TACTGTT-CTGGTGGCTTTGCCACATA
39146114 TACTGT
1 TACTGT
39146120 ACAGGTAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
26 2 0.07
27 25 0.83
28 3 0.10
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
TACTGTTCTGGTGGCTTTGCCACATA
Found at i:39156895 original size:16 final size:16
Alignment explanation
Indices: 39156874--39156904 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39156864 TTCACTATTA
*
39156874 TATCTTTTGTATTTTC
1 TATCTTTTATATTTTC
39156890 TATCTTTTATATTTT
1 TATCTTTTATATTTT
39156905 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.03, T:0.71
Consensus pattern (16 bp):
TATCTTTTATATTTTC
Found at i:39163425 original size:20 final size:21
Alignment explanation
Indices: 39163400--39163439 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
39163390 TATTTTCAGT
39163400 GGTATCGTGATATCC-CCTTA
1 GGTATCGTGATATCCACCTTA
39163420 GGTATCGTGATATCCACCTT
1 GGTATCGTGATATCCACCTT
39163440 CCAAAGAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (21 bp):
GGTATCGTGATATCCACCTTA
Found at i:39169345 original size:13 final size:13
Alignment explanation
Indices: 39169327--39169353 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39169317 AGAAATTGAG
39169327 AAATTGAACACAT
1 AAATTGAACACAT
39169340 AAATTGAACACAT
1 AAATTGAACACAT
39169353 A
1 A
39169354 GAAAATCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
AAATTGAACACAT
Found at i:39173191 original size:6 final size:6
Alignment explanation
Indices: 39173180--39173213 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
39173170 TTTGTGCTTA
39173180 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
39173214 AAACCATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:39174228 original size:20 final size:20
Alignment explanation
Indices: 39174185--39174229 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
39174175 TAATATATGA
* * *
39174185 AAATATGACACTAAAAATGT
1 AAATGTGACACTAAAAAGGC
39174205 AAATGTGACACTAAAAAGGC
1 AAATGTGACACTAAAAAGGC
39174225 AAATG
1 AAATG
39174230 AACCTAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.11, G:0.16, T:0.20
Consensus pattern (20 bp):
AAATGTGACACTAAAAAGGC
Found at i:39180813 original size:17 final size:18
Alignment explanation
Indices: 39180791--39180826 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
39180781 GTGGTTTTTG
*
39180791 TAATAATTTCAAAA-AAA
1 TAATAAATTCAAAATAAA
39180808 TAATAAATTCAAAATAAA
1 TAATAAATTCAAAATAAA
39180826 T
1 T
39180827 TCTCAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
TAATAAATTCAAAATAAA
Found at i:39189185 original size:50 final size:50
Alignment explanation
Indices: 39189129--39189264 Score: 130
Period size: 50 Copynumber: 2.7 Consensus size: 50
39189119 GTTAAGGAGG
* * * *
39189129 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTGTC-GGAGAAA
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAACTGCACCGCCAGG-GAAA
* * * * ** * * *
39189179 TTAGATCTGCCGTTGTGACTTGAATCTGGTCCACTGCGCCGCCAGGGAAG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAACTGCACCGCCAGGGAAA
*
39189229 TAAGATCCGCCGTTGTGGCTTCAATCTTTTCCACTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAACTG
39189265 TAATGCTAAA
Statistics
Matches: 66, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
50 64 0.97
51 2 0.03
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (50 bp):
TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAACTGCACCGCCAGGGAAA
Found at i:39189569 original size:88 final size:88
Alignment explanation
Indices: 39189457--39190157 Score: 1078
Period size: 88 Copynumber: 8.0 Consensus size: 88
39189447 AAGACTGATG
* * * ** *
39189457 TCTTTGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCCATTTTTGACCTACTCAACTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
* *
39189522 TGCCGAGGGAGACAAGACTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
** * * * *
39189545 TCTTCGATCTGCTTCTCCATCAGTACAGAAAGGCAAGATATGCTATTTTCAACCTATTCCACTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
* * *
39189610 TTCCCAAGAAGACAAGGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
* * *
39189633 TCTTCGATCTGCTTCTCTGTCAATACAGGAAGGCAAGATCTGCTATTTTCAACCTATTCCACTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
*
39189698 TTCCCAGGGAGACAAGGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
* * *
39189721 TCTTCGATCTGCTTCTCTGTAAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCTCTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
*
39189786 TGCCCAGAGAGACAAGGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
* **
39189809 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCTTTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
39189874 TGCCCAGGGAGACAAGGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
*
39189897 TCTTTGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
* *
39189962 TACCCAGGGAGACAAAGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
39189985 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
* *
39190050 TGCCTAGGGAGACAAGGCTAGTA
66 TGCCCAGGGAGACAAGGCTGGTA
* * *
39190073 TCTTTGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATTTGCCATTTTCAACCTACTCCACTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
39190138 TGCCCAGGGAGACAAGGCTG
66 TGCCCAGGGAGACAAGGCTG
39190158 AAGTTTCACC
Statistics
Matches: 564, Mismatches: 49, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 564 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
TGCCCAGGGAGACAAGGCTGGTA
Found at i:39191432 original size:20 final size:21
Alignment explanation
Indices: 39191397--39191437 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
39191387 CATTTTTACT
*
39191397 TTTTTCCATTTTTTATTTTCA
1 TTTTTCCATTTATTATTTTCA
39191418 TTTTTCCA-TTATTATTTTCA
1 TTTTTCCATTTATTATTTTCA
39191438 CATATTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTCCATTTATTATTTTCA
Found at i:39191950 original size:11 final size:10
Alignment explanation
Indices: 39191933--39192001 Score: 50
Period size: 11 Copynumber: 6.3 Consensus size: 10
39191923 CCCGGTAGAG
39191933 TTTTTTTGTT
1 TTTTTTTGTT
*
39191943 TCTTTTTTATT
1 T-TTTTTTGTT
39191954 TTTGTTTT-TT
1 TTT-TTTTGTT
39191964 GTTTTTTTGTT
1 -TTTTTTTGTT
39191975 CATTTTTTGTGTT
1 --TTTTTT-TGTT
*
39191988 TTTCTTTTCTT
1 TTT-TTTTGTT
39191999 TTT
1 TTT
39192002 CCTTTTTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
10 9 0.18
11 27 0.55
12 9 0.18
13 4 0.08
ACGTcount: A:0.03, C:0.06, G:0.09, T:0.83
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:39191995 original size:27 final size:26
Alignment explanation
Indices: 39191932--39192009 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 26
39191922 CCCCGGTAGA
*
39191932 GTTTTTT-TGTTTCTTTTTTATTTT-T
1 GTTTTTTCT-TTTCTTTTTCATTTTTT
*
39191957 GTTTTTTGTTTT-TTTGTTCATTTTTT
1 GTTTTTTCTTTTCTTT-TTCATTTTTT
*
39191983 GTGTTTTTCTTTTCTTTTTCCTTTTTT
1 GT-TTTTTCTTTTCTTTTTCATTTTTT
39192010 TTTGAATCCG
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
24 3 0.07
25 17 0.38
26 4 0.09
27 18 0.40
28 3 0.07
ACGTcount: A:0.03, C:0.08, G:0.09, T:0.81
Consensus pattern (26 bp):
GTTTTTTCTTTTCTTTTTCATTTTTT
Found at i:39192001 original size:32 final size:32
Alignment explanation
Indices: 39191933--39192001 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
39191923 CCCGGTAGAG
* *
39191933 TTTTTTTGTTTCTTTTTTATTTTTGTTTTTTG
1 TTTTTTTGTTTCTTTTTTATTTTTGTCTTTTC
*
39191965 TTTTTTTG-TTCATTTTTTGTGTTTT-TCTTTTC
1 TTTTTTTGTTTC-TTTTTTAT-TTTTGTCTTTTC
39191997 TTTTT
1 TTTTT
39192002 CCTTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 3 0.09
32 25 0.78
33 4 0.12
ACGTcount: A:0.03, C:0.06, G:0.09, T:0.83
Consensus pattern (32 bp):
TTTTTTTGTTTCTTTTTTATTTTTGTCTTTTC
Found at i:39195837 original size:27 final size:28
Alignment explanation
Indices: 39195785--39195837 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
39195775 CGAAACCATT
* **
39195785 TTTTTAAAAACAAAAACTAGTTGTCGAC
1 TTTTAAAAAACAAAAACTAGGAGTCGAC
39195813 TTTTAAAAAACAAAAACT-GGAGTCG
1 TTTTAAAAAACAAAAACTAGGAGTCG
39195838 CCACCGATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.28
Consensus pattern (28 bp):
TTTTAAAAAACAAAAACTAGGAGTCGAC
Found at i:39200135 original size:38 final size:38
Alignment explanation
Indices: 39200084--39200160 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
39200074 GCTCATTGTG
39200084 TTGAACTGAGGCCTCCACGAACAATAGAATGCTACTAT
1 TTGAACTGAGGCCTCCACGAACAATAGAATGCTACTAT
*
39200122 TTGAACTGAGGCCTCCATGAACAATAGAATGCTACTAT
1 TTGAACTGAGGCCTCCACGAACAATAGAATGCTACTAT
39200160 T
1 T
39200161 CCAAGGTGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (38 bp):
TTGAACTGAGGCCTCCACGAACAATAGAATGCTACTAT
Found at i:39205820 original size:50 final size:50
Alignment explanation
Indices: 39205759--39205865 Score: 144
Period size: 50 Copynumber: 2.1 Consensus size: 50
39205749 ACATGGGAGT
* *
39205759 TCTCATATCGGTGCCCATGCCATCTCCCAAACATGGTCTTACGA-GGGACC
1 TCTCATATCGGTGCCAACGCCATCTCCCAAACATGGTCTTA-GATGGGACC
* * * *
39205809 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACC
1 TCTCATATCGGTGCCAACGCCATCTCCCAAACATGGTCTTAGATGGGACC
39205859 TCTCATA
1 TCTCATA
39205866 ATCTCAATGA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
49 1 0.02
50 48 0.98
ACGTcount: A:0.21, C:0.33, G:0.20, T:0.26
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACGCCATCTCCCAAACATGGTCTTAGATGGGACC
Found at i:39210494 original size:15 final size:16
Alignment explanation
Indices: 39210467--39210496 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39210457 AGTAACAATT
39210467 AATATATATTATATAA
1 AATATATATTATATAA
39210483 AATATA-ATTATATA
1 AATATATATTATATA
39210497 TTATTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:39217109 original size:2 final size:2
Alignment explanation
Indices: 39217104--39217155 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
39217094 AAGTGAGTGT
* * * *
39217104 GA GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA AA GA GA GT GT
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
39217146 GA GA GA GA GA
1 GA GA GA GA GA
39217156 TGTGTGGGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.46, C:0.00, G:0.50, T:0.04
Consensus pattern (2 bp):
GA
Found at i:39219290 original size:19 final size:19
Alignment explanation
Indices: 39219266--39219303 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
39219256 TACACAGTCT
39219266 CCCAATCTCTTTTAACCAA
1 CCCAATCTCTTTTAACCAA
39219285 CCCAATCTCTTTTAACCAA
1 CCCAATCTCTTTTAACCAA
39219304 TCACCGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.37, G:0.00, T:0.32
Consensus pattern (19 bp):
CCCAATCTCTTTTAACCAA
Found at i:39219842 original size:22 final size:22
Alignment explanation
Indices: 39219804--39219859 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
39219794 TTCGACCCAA
* *
39219804 GTACCTCA-CCTTATTCATGGG
1 GTACCTCACCCTTATTCAAGAG
*
39219825 GTACCTCACCCTTTTTCAAGAG
1 GTACCTCACCCTTATTCAAGAG
39219847 GTA-CTGCACCCTT
1 GTACCT-CACCCTT
39219860 CTAGCTGAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (22 bp):
GTACCTCACCCTTATTCAAGAG
Found at i:39223785 original size:24 final size:24
Alignment explanation
Indices: 39223753--39223810 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
39223743 TCATTAGGTA
*
39223753 TTACTGATTTCAAG-TCATATGAGC
1 TTACCGATTTC-AGCTCATATGAGC
* **
39223777 TTATCGATTTCAGCTTGTATGAGC
1 TTACCGATTTCAGCTCATATGAGC
39223801 TTACCGATTT
1 TTACCGATTT
39223811 ATAGCTAGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (24 bp):
TTACCGATTTCAGCTCATATGAGC
Found at i:39223854 original size:25 final size:25
Alignment explanation
Indices: 39223788--39223854 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
39223778 TATCGATTTC
* * *
39223788 AGCTTGTATGAGCTTACCGATTTAT
1 AGCTAGTATGAGCATACCGATTCAT
39223813 AGCTAGTGA-GAGCATACCGATTCAT
1 AGCTAGT-ATGAGCATACCGATTCAT
* *
39223838 AGCTCGTATGAGAATAC
1 AGCTAGTATGAGCATAC
39223855 ATGTACAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (25 bp):
AGCTAGTATGAGCATACCGATTCAT
Found at i:39224994 original size:12 final size:12
Alignment explanation
Indices: 39224977--39225056 Score: 106
Period size: 12 Copynumber: 6.7 Consensus size: 12
39224967 TCAAAAGGTT
39224977 GCACACGGCCTA
1 GCACACGGCCTA
* *
39224989 GCACACAGCCTG
1 GCACACGGCCTA
* * *
39225001 GCACATGGCTTG
1 GCACACGGCCTA
39225013 GCACACGGCCTA
1 GCACACGGCCTA
*
39225025 GCACACGACCTA
1 GCACACGGCCTA
39225037 GCACACGGCCTA
1 GCACACGGCCTA
39225049 GCACACGG
1 GCACACGG
39225057 GCGTGTGAGG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 58 1.00
ACGTcount: A:0.25, C:0.39, G:0.26, T:0.10
Consensus pattern (12 bp):
GCACACGGCCTA
Found at i:39227889 original size:82 final size:82
Alignment explanation
Indices: 39227786--39227955 Score: 313
Period size: 82 Copynumber: 2.1 Consensus size: 82
39227776 GTTTGGAATT
*
39227786 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
* *
39227851 CTAGTAGGCTAAGTGTC
66 CTAGCAGGCTAAGTGCC
39227868 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
39227933 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
39227950 GGTGAT
1 GGTGAT
39227956 CCGAATATGA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 85 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:39227956 original size:41 final size:41
Alignment explanation
Indices: 39227786--39227955 Score: 268
Period size: 41 Copynumber: 4.1 Consensus size: 41
39227776 GTTTGGAATT
*
39227786 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * * *
39227827 GGTGATTTGAATCAGGCTATAAGCCTAGTAGGCTAAGTGTC
1 GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
39227868 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
39227909 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
39227950 GGTGAT
1 GGTGAT
39227956 CCGAATATGA
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 116 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (41 bp):
GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:39228254 original size:37 final size:37
Alignment explanation
Indices: 39228171--39228254 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 37
39228161 AGGTGGATAT
* * *
39228171 ATATTTGTATGCATTTGGCATAGATAGATATAAGTGT
1 ATATGTGTATGCATTCGGCATAGATAGATATAAGTGA
* * *
39228208 ATA-GATGTATGCATTCGGCATAGGTGGGTATAAGTGA
1 ATATG-TGTATGCATTCGGCATAGATAGATATAAGTGA
39228245 ATATGTGTAT
1 ATATGTGTAT
39228255 TCGGCCTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
37 38 0.97
38 1 0.03
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (37 bp):
ATATGTGTATGCATTCGGCATAGATAGATATAAGTGA
Found at i:39245166 original size:20 final size:20
Alignment explanation
Indices: 39245141--39245180 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
39245131 TGTTGTCAAG
39245141 TTGACTCTCGACACCAACTC
1 TTGACTCTCGACACCAACTC
39245161 TTGACTCTCGACACCAACTC
1 TTGACTCTCGACACCAACTC
39245181 AGTCACACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.40, G:0.10, T:0.25
Consensus pattern (20 bp):
TTGACTCTCGACACCAACTC
Found at i:39249619 original size:23 final size:26
Alignment explanation
Indices: 39249593--39249654 Score: 87
Period size: 25 Copynumber: 2.5 Consensus size: 26
39249583 GCCCTCCCAA
39249593 AAAAAACCTAA-CC-AAAA-AAAAAG
1 AAAAAACCTAACCCAAAAAGAAAAAG
39249616 AAAAAACCTAACCCAAAAAGAAAAAG
1 AAAAAACCTAACCCAAAAAGAAAAAG
*
39249642 -AAAAACGTAACCC
1 AAAAAACCTAACCC
39249655 CCCAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
23 11 0.31
24 2 0.06
25 16 0.46
26 6 0.17
ACGTcount: A:0.68, C:0.21, G:0.06, T:0.05
Consensus pattern (26 bp):
AAAAAACCTAACCCAAAAAGAAAAAG
Found at i:39249619 original size:24 final size:27
Alignment explanation
Indices: 39249592--39249646 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 27
39249582 AGCCCTCCCA
39249592 AAAAAAACCTAA-CC-AAAA-AAAAAG
1 AAAAAAACCTAACCCAAAAAGAAAAAG
39249616 -AAAAAACCTAACCCAAAAAGAAAAAG
1 AAAAAAACCTAACCCAAAAAGAAAAAG
39249642 AAAAA
1 AAAAA
39249647 CGTAACCCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 11 0.41
24 2 0.07
25 4 0.15
26 6 0.22
27 4 0.15
ACGTcount: A:0.75, C:0.16, G:0.05, T:0.04
Consensus pattern (27 bp):
AAAAAAACCTAACCCAAAAAGAAAAAG
Found at i:39249665 original size:26 final size:25
Alignment explanation
Indices: 39249593--39249665 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
39249583 GCCCTCCCAA
39249593 AAAAAACCTAA--CCAAAAAAAAAG
1 AAAAAACCTAACCCCAAAAAAAAAG
*
39249616 AAAAAACCTAACCCAAAAAGAAAAAG
1 AAAAAACCTAACCCCAAAA-AAAAAG
* *
39249642 -AAAAACGTAACCCCCCAAAAAAAA
1 AAAAAACCTAA-CCCCAAAAAAAAA
39249666 CCAAGAAACC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
23 11 0.26
25 19 0.45
26 12 0.29
ACGTcount: A:0.68, C:0.22, G:0.05, T:0.04
Consensus pattern (25 bp):
AAAAAACCTAACCCCAAAAAAAAAG
Found at i:39264312 original size:40 final size:39
Alignment explanation
Indices: 39264224--39264312 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 39
39264214 GTGCCAATCA
* **
39264224 CAGAAT-CAGTTAGGGCCTTAGCCCATTCAGATACAGTCT
1 CAGAATACA-TTAAGGCCTTAGCCCATTCAGATACAGAAT
*
39264263 CAGAAATACATTAAGGCCTTGGCCCATATCAGATACAGAAT
1 CAG-AATACATTAAGGCCTTAGCCCAT-TCAGATACAGAAT
39264304 GCAG-ATACA
1 -CAGAATACA
39264313 GTAAATCAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
39 3 0.07
40 23 0.55
41 13 0.31
42 3 0.07
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (39 bp):
CAGAATACATTAAGGCCTTAGCCCATTCAGATACAGAAT
Found at i:39266592 original size:50 final size:50
Alignment explanation
Indices: 39266475--39266616 Score: 196
Period size: 50 Copynumber: 2.8 Consensus size: 50
39266465 ATACCCAGTT
**
39266475 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCTAGCTATCCGGTA
* * * *
39266526 CACATAGTAGCTTGCACATAGTACTACACATGCGACCTATC-ATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCTAGCTA-TCCGGTA
*
39266576 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCTAGC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCTAGC
39266617 ATCTTTACTC
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 1 0.01
50 46 0.58
51 32 0.41
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCTAGCTATCCGGTA
Found at i:39275586 original size:19 final size:19
Alignment explanation
Indices: 39275562--39275672 Score: 186
Period size: 19 Copynumber: 5.8 Consensus size: 19
39275552 AACCTTCAGG
39275562 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
39275581 GATATGAAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
39275600 AATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
39275619 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
39275638 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
39275657 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
39275673 AGATATGATT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 84 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:39275698 original size:22 final size:21
Alignment explanation
Indices: 39275562--39275698 Score: 114
Period size: 19 Copynumber: 6.9 Consensus size: 21
39275552 AACCTTCAGG
*
39275562 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
39275581 GATATGAAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
39275600 AATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
39275619 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
39275638 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
39275657 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
39275679 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
39275699 TTAATTTGTA
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
19 81 0.78
22 12 0.12
23 11 0.11
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:39281121 original size:132 final size:132
Alignment explanation
Indices: 39280945--39281472 Score: 925
Period size: 132 Copynumber: 4.0 Consensus size: 132
39280935 TTGATAGCGA
* * *
39280945 AGCAGATCGAAGATGGCGGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGCAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTAGAGTGGAGTACATTGAAGCCAGTAAT
*
39281010 TCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
39281075 GG
131 GG
* * *
39281077 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTAGAGTGGACTAAATTAAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTAGAGTGGAGTACATTGAAGCCAGTAAT
39281142 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
39281207 GG
131 GG
* *
39281209 AGCAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTAGAGTGGAGTACATTGAAGCCAGTAAT
*
39281274 TCTACTTCCCTGGACAACAGTGGAATAGATT-AAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
39281338 GG
131 GG
* *
39281340 AGCAGATCGAAGATGGCGAATTTTACCTCCTTGTGGTT-GTAGTGGAGTACATTGAAGCCAGTAA
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTAG-AGTGGAGTACATTGAAGCCAGTAA
39281404 TTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
65 TTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
39281469 TGG
130 TGG
39281472 A
1 A
39281473 ATAGGTTGAA
Statistics
Matches: 376, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
131 125 0.33
132 251 0.67
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTAGAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:39281414 original size:263 final size:264
Alignment explanation
Indices: 39280945--39281472 Score: 934
Period size: 263 Copynumber: 2.0 Consensus size: 264
39280935 TTGATAGCGA
* *
39280945 AGCAGATCGAAGATGGCGGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGCAAT
1 AGCAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGCAAT
39281010 TCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
*
39281075 GGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTAGAGTGGACTAAATTAAAGCCAGTA
131 GGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTAGAGTGGACTAAATTAAAGCCAGTA
39281140 ATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
196 ATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
39281205 GTGG
261 GTGG
* *
39281209 AGCAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGCAAT
* *
39281274 TCTACTTCCCTGGACAACAGTGGAATAGATT-AAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
* * * *
39281338 GGAGCAGATCGAAGATGGCGAATTTTACCTCCTTGTGGTT-GTAGTGGAGTACATTGAAGCCAGT
131 GGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTAG-AGTGGACTAAATTAAAGCCAGT
39281402 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
195 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
39281467 AGTGG
260 AGTGG
39281472 A
1 A
39281473 ATAGGTTGAA
Statistics
Matches: 252, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
262 1 0.00
263 160 0.63
264 91 0.36
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (264 bp):
AGCAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGCAAT
TCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTAGAGTGGACTAAATTAAAGCCAGTA
ATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
GTGG
Found at i:39281839 original size:19 final size:19
Alignment explanation
Indices: 39281815--39281962 Score: 233
Period size: 19 Copynumber: 7.8 Consensus size: 19
39281805 ATCTTCATGA
39281815 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
39281834 ATATGCAATCTTAGATATA
1 ATATGCAATCTTAGATATG
**
39281853 ATATATAATCTTAGATATG
1 ATATGCAATCTTAGATATG
39281872 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
**
39281891 ATATATAATCTTAGATATG
1 ATATGCAATCTTAGATATG
39281910 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
**
39281929 ATATATAATCTTAGATATG
1 ATATGCAATCTTAGATATG
39281948 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
39281963 AGATATGATT
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 115 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:39281863 original size:38 final size:38
Alignment explanation
Indices: 39281821--39281962 Score: 275
Period size: 38 Copynumber: 3.7 Consensus size: 38
39281811 ATGAATATGC
*
39281821 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
39281859 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
39281897 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
39281935 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
39281963 AGATATGATT
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 103 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATGATATAT
Found at i:39281988 original size:22 final size:21
Alignment explanation
Indices: 39281815--39281988 Score: 142
Period size: 19 Copynumber: 8.9 Consensus size: 21
39281805 ATCTTCATGA
*
39281815 ATATGCAATCTT--AGATATG
1 ATATGTAATCTTAGAGATATG
* *
39281834 ATATGCAATCTT--AGATATA
1 ATATGTAATCTTAGAGATATG
*
39281853 ATATATAATCTT--AGATATG
1 ATATGTAATCTTAGAGATATG
*
39281872 ATATGCAATCTT--AGATATG
1 ATATGTAATCTTAGAGATATG
*
39281891 ATATATAATCTT--AGATATG
1 ATATGTAATCTTAGAGATATG
*
39281910 ATATGCAATCTT--AGATATG
1 ATATGTAATCTTAGAGATATG
*
39281929 ATATATAATCTT--AGATATG
1 ATATGTAATCTTAGAGATATG
*
39281948 ATATGCAATCTTAGAAGATATG
1 ATATGTAATCTTAG-AGATATG
*
39281970 ATTTTGTAATCTTAGAGAT
1 A-TATGTAATCTTAGAGAT
39281989 TTAATTTGTA
Statistics
Matches: 135, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
19 112 0.83
22 12 0.09
23 11 0.08
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGTAATCTTAGAGATATG
Found at i:39286522 original size:69 final size:67
Alignment explanation
Indices: 39286405--39286538 Score: 198
Period size: 69 Copynumber: 2.0 Consensus size: 67
39286395 TTTAATAGAT
* *
39286405 TTAATATTAATTTAATTTAATAATTTTCTTAATAGTATTTTATTAATTTAACATTAAAGTGATTA
1 TTAATATTAATTTAATCTAATAATTTTCTTAATAGTATTATATTAATTTAACATTAAAGTGATTA
39286470 TC
66 TC
* *
39286472 TTAATATTAAATTTAATCTAAT-ATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGA
1 TTAATATT-AATTTAATCTAATAATTT-TCTTAAT-AGTATTATATTAATTTAACATTAAAGTGA
39286536 TTA
63 TTA
39286539 AGTTTAATCA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
67 12 0.20
68 18 0.30
69 30 0.50
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (67 bp):
TTAATATTAATTTAATCTAATAATTTTCTTAATAGTATTATATTAATTTAACATTAAAGTGATTA
TC
Found at i:39286541 original size:32 final size:32
Alignment explanation
Indices: 39286438--39286541 Score: 75
Period size: 32 Copynumber: 3.1 Consensus size: 32
39286428 TTTTCTTAAT
* *
39286438 AGTATTTTATTAATTTAACATTAAAGTGATTA
1 AGTATTATATTAATTTAATATTAAAGTGATTA
* * * ***
39286470 TCTTAATATTAAATTTAATCTAATATTTATCTTGA-TA
1 ----AGTATTATA-TTAATTTAATA-TTAAAGTGATTA
39286507 AGTATTATATTAATTTAATATTAAAGTGATTA
1 AGTATTATATTAATTTAATATTAAAGTGATTA
39286539 AGT
1 AGT
39286542 TTAATCATAG
Statistics
Matches: 51, Mismatches: 14, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
31 6 0.12
32 15 0.29
33 7 0.14
36 6 0.12
37 11 0.22
38 6 0.12
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (32 bp):
AGTATTATATTAATTTAATATTAAAGTGATTA
Found at i:39289056 original size:49 final size:49
Alignment explanation
Indices: 39288993--39289114 Score: 138
Period size: 49 Copynumber: 2.5 Consensus size: 49
39288983 CGCTAAACAG
* *
39288993 GTTAACAACTAACATGCCCTACCAAAAACCTAGCACT-CACGCCAATCTA
1 GTTAGCAACTAACATGCCCTACCAAAAACCCAGCA-TGCACGCCAATCTA
* *** ** * *
39289042 GTTAGCAACTAACATGCGCTACCAGTGACCCCTCATGCACTCCAATCTG
1 GTTAGCAACTAACATGCCCTACCAAAAACCCAGCATGCACGCCAATCTA
39289091 GTTAGCAACTAACATGCCCTACCA
1 GTTAGCAACTAACATGCCCTACCA
39289115 GTGGACCTTG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.02
49 60 0.98
ACGTcount: A:0.33, C:0.34, G:0.12, T:0.20
Consensus pattern (49 bp):
GTTAGCAACTAACATGCCCTACCAAAAACCCAGCATGCACGCCAATCTA
Found at i:39294718 original size:30 final size:30
Alignment explanation
Indices: 39294670--39294777 Score: 89
Period size: 29 Copynumber: 3.7 Consensus size: 30
39294660 TAAAAAATAT
*
39294670 ATAATTAATTA-AATTATTTTTATATAAAA
1 ATAATTAATTACCATTATTTTTATATAAAA
* ** * *
39294699 ATAATTATTTACCATTATTTAAAATTTCATAA
1 ATAATTAATTACCATTATTT-TTATAT-AAAA
*
39294731 AT--TTAATTA-AATTATTTTTATATAAAA
1 ATAATTAATTACCATTATTTTTATATAAAA
* *
39294758 TTAATTAGTTACCATTATTT
1 ATAATTAATTACCATTATTT
39294778 AAAAATTTTT
Statistics
Matches: 58, Mismatches: 15, Indels: 11
0.69 0.18 0.13
Matches are distributed among these distances:
27 4 0.07
28 3 0.05
29 23 0.40
30 20 0.34
31 3 0.05
32 5 0.09
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.50
Consensus pattern (30 bp):
ATAATTAATTACCATTATTTTTATATAAAA
Found at i:39298559 original size:25 final size:26
Alignment explanation
Indices: 39298531--39298580 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
39298521 CACAATAAAA
**
39298531 TATAACAATTTAAT-ATAAAATATCT
1 TATAACAAAATAATAATAAAATATCT
*
39298556 TATAATAAAATAATAATAAAATATC
1 TATAACAAAATAATAATAAAATATC
39298581 CAACCAATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (26 bp):
TATAACAAAATAATAATAAAATATCT
Found at i:39300514 original size:13 final size:13
Alignment explanation
Indices: 39300496--39300525 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
39300486 AAGCTTATGA
39300496 AGTAGATATGAGG
1 AGTAGATATGAGG
39300509 AGTAGATATGAGG
1 AGTAGATATGAGG
39300522 AGTA
1 AGTA
39300526 ATCTATTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (13 bp):
AGTAGATATGAGG
Found at i:39300943 original size:9 final size:9
Alignment explanation
Indices: 39300929--39300984 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
39300919 TTGCTTAAAT
39300929 AATAAAAAA
1 AATAAAAAA
39300938 AATAAAATAA
1 AATAAAA-AA
39300948 AAT---AAA
1 AATAAAAAA
39300954 AATGAAAAAA
1 AAT-AAAAAA
**
39300964 TTTAAAAAA
1 AATAAAAAA
39300973 AATAAAAAA
1 AATAAAAAA
39300982 AAT
1 AAT
39300985 CATACAAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 5 0.13
7 1 0.03
9 23 0.61
10 9 0.24
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (9 bp):
AATAAAAAA
Found at i:39300963 original size:19 final size:18
Alignment explanation
Indices: 39300932--39300981 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
39300922 CTTAAATAAT
39300932 AAAAAAAAT--AAAA-TA
1 AAAAAAAATAAAAAATTA
*
39300947 AAATAAAAATGAAAAAATTT
1 AAA-AAAAAT-AAAAAATTA
39300967 AAAAAAAATAAAAAA
1 AAAAAAAATAAAAAA
39300982 AATCATACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 3 0.10
16 6 0.21
18 6 0.21
19 10 0.34
20 4 0.14
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (18 bp):
AAAAAAAATAAAAAATTA
Found at i:39300982 original size:19 final size:17
Alignment explanation
Indices: 39300929--39300982 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 17
39300919 TTGCTTAAAT
*
39300929 AATAAAAAAAATAAAAT
1 AATAAAAAAAATAAAAA
*
39300946 AA-AATAAAAATGAAAAA
1 AATAAAAAAAAT-AAAAA
*
39300963 ATTTAAAAAAAATAAAAA
1 A-ATAAAAAAAATAAAAA
39300981 AA
1 AA
39300983 ATCATACAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 8 0.28
17 7 0.24
18 6 0.21
19 8 0.28
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (17 bp):
AATAAAAAAAATAAAAA
Found at i:39301928 original size:18 final size:20
Alignment explanation
Indices: 39301891--39301931 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
39301881 ATGCTAATAT
*
39301891 ATGCAAATGTGACACTAAAC
1 ATGCAAATGTAACACTAAAC
39301911 ATGCAAATG-AAC-CTAAAC
1 ATGCAAATGTAACACTAAAC
39301929 ATG
1 ATG
39301932 ATGTTTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 2 0.10
20 9 0.45
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.20
Consensus pattern (20 bp):
ATGCAAATGTAACACTAAAC
Found at i:39304769 original size:19 final size:19
Alignment explanation
Indices: 39304745--39304833 Score: 142
Period size: 19 Copynumber: 4.7 Consensus size: 19
39304735 AATCTTTAAG
*
39304745 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
*
39304764 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
39304783 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
39304802 GATATGTAATCTTTGATAT
1 GATATGCAATCTTAGATAT
39304821 GATATGCAATCTT
1 GATATGCAATCTT
39304834 GGAAGATATG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 64 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:39304789 original size:38 final size:38
Alignment explanation
Indices: 39304745--39304858 Score: 165
Period size: 38 Copynumber: 2.9 Consensus size: 38
39304735 AATCTTTAAG
39304745 GATATGCAATCTTAAATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAAATATGATATGTAATCTTAGATAT
* *
39304783 GATATGCAATCTTAGATATGATATGTAATCTTTGATAT
1 GATATGCAATCTTAAATATGATATGTAATCTTAGATAT
*
39304821 GATATGCAATCTTGGAAGATATGATTTTGTAATCTTAG
1 GATATGCAATCTT--AA-ATATGA-TATGTAATCTTAG
39304859 CCGTTGATGT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
38 49 0.73
40 1 0.01
41 6 0.09
42 11 0.16
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (38 bp):
GATATGCAATCTTAAATATGATATGTAATCTTAGATAT
Found at i:39305055 original size:23 final size:23
Alignment explanation
Indices: 39305011--39305055 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
39305001 TCTTATTTTG
* *
39305011 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
*
39305034 TTGATTTGTATATTATTGATTT
1 TTGATTTGTATATAATTGATTT
39305056 CAAATCTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:39305299 original size:13 final size:13
Alignment explanation
Indices: 39305281--39305310 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
39305271 ATCTTGTATC
39305281 ATTATTATTATTT
1 ATTATTATTATTT
39305294 ATTATTATTATTT
1 ATTATTATTATTT
39305307 -TTAT
1 ATTAT
39305311 ATTCATGCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTATTATTATTT
Found at i:39305794 original size:40 final size:39
Alignment explanation
Indices: 39305689--39305795 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 39
39305679 AAAATTTTAT
39305689 ATGTAAACCCATGTGTATGTCTTTTATTCTTTATAATTTC
1 ATGTAAACCCATGTGTATGTCTTTT-TTCTTTATAATTTC
* * * *
39305729 ATGTATA--TATTTTGTACCT-TTTTTTTCTCTTTATAATTTC
1 ATGTAAACCCA-TGTGTA--TGTCTTTTT-TCTTTATAATTTC
39305769 ATGTAAACCCATGTGTATGTCTTTTTT
1 ATGTAAACCCATGTGTATGTCTTTTTT
39305796 TTCTCTTTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
38 1 0.02
39 8 0.15
40 36 0.69
41 6 0.12
42 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.09, T:0.54
Consensus pattern (39 bp):
ATGTAAACCCATGTGTATGTCTTTTTTCTTTATAATTTC
Found at i:39306997 original size:17 final size:18
Alignment explanation
Indices: 39306970--39307003 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
39306960 AAACTTGAGA
*
39306970 ATTTATTTTGAATTTATT
1 ATTTATTTTGAAATTATT
39306988 ATTT-TTTTGAAATTAT
1 ATTTATTTTGAAATTAT
39307004 GAAAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATTTATTTTGAAATTATT
Found at i:39310982 original size:23 final size:23
Alignment explanation
Indices: 39310956--39310999 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
39310946 TTTTGGCTAT
39310956 CTTATCAT-GCATGTTTTGAATGA
1 CTTAT-ATGGCATGTTTTGAATGA
*
39310979 CTTATATGGTATGTTTTGAAT
1 CTTATATGGCATGTTTTGAAT
39311000 TGGTATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.25, C:0.09, G:0.18, T:0.48
Consensus pattern (23 bp):
CTTATATGGCATGTTTTGAATGA
Found at i:39320408 original size:40 final size:40
Alignment explanation
Indices: 39320364--39320451 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
39320354 AGCATGAATA
39320364 TGCATTCAGGGGTACCGAAGTACAAACAGGGACACATATG
1 TGCATTCAGGGGTACCGAAGTACAAACAGGGACACATATG
* * *
39320404 TGCATTTAGGGGTACTGAAGTACAAACAGGGGCACATATG
1 TGCATTCAGGGGTACCGAAGTACAAACAGGGACACATATG
39320444 TGCATTCA
1 TGCATTCA
39320452 TACAATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (40 bp):
TGCATTCAGGGGTACCGAAGTACAAACAGGGACACATATG
Found at i:39324618 original size:25 final size:24
Alignment explanation
Indices: 39324573--39324628 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
39324563 TTCCTGATAT
*
39324573 ATGGCTCTTCGAAGCTTCCCGATTA
1 ATGGCTCTCCGAAGCTTCCCG-TTA
*
39324598 ATGGCTCTCCGGAG-TTACCCGTTA
1 ATGGCTCTCCGAAGCTT-CCCGTTA
*
39324622 TTGGCTC
1 ATGGCTC
39324629 GCATGAGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.16, C:0.29, G:0.23, T:0.32
Consensus pattern (24 bp):
ATGGCTCTCCGAAGCTTCCCGTTA
Found at i:39324651 original size:24 final size:26
Alignment explanation
Indices: 39324624--39324688 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
39324614 ACCCGTTATT
*
39324624 GGCTCGCATGAGCTTCTCGA-T-TAC
1 GGCTCGCATGAGCTTCTCCATTATAC
39324648 GGCTC-CTATGAGCTT-TCCATTATAC
1 GGCTCGC-ATGAGCTTCTCCATTATAC
* *
39324673 AGCTCGAATGAGCTTC
1 GGCTCGCATGAGCTTC
39324689 CCGCTACATG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
23 4 0.12
24 14 0.42
25 15 0.45
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.31
Consensus pattern (26 bp):
GGCTCGCATGAGCTTCTCCATTATAC
Found at i:39331484 original size:17 final size:17
Alignment explanation
Indices: 39331462--39331517 Score: 94
Period size: 17 Copynumber: 3.3 Consensus size: 17
39331452 GAGCCACCCA
39331462 TGTGGGGCACACGCCCG
1 TGTGGGGCACACGCCCG
*
39331479 TGTGGGGCACAAGCCCG
1 TGTGGGGCACACGCCCG
*
39331496 TGTGGGGCAGACGCCCG
1 TGTGGGGCACACGCCCG
39331513 TGTGG
1 TGTGG
39331518 CCACGAAACC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.12, C:0.29, G:0.45, T:0.14
Consensus pattern (17 bp):
TGTGGGGCACACGCCCG
Found at i:39341809 original size:25 final size:24
Alignment explanation
Indices: 39341781--39341934 Score: 96
Period size: 24 Copynumber: 6.3 Consensus size: 24
39341771 CTTATGAGTG
*
39341781 TCCCGATAATAGGCTCTCACGAGCT
1 TCCCGATAATA-GCTCTCATGAGCT
* * *
39341806 TCCCGTTATTAGCTCTCATGAGCA
1 TCCCGATAATAGCTCTCATGAGCT
* * * *
39341830 TCCCGATATTGGCTTTCTTGAGCT
1 TCCCGATAATAGCTCTCATGAGCT
** *
39341854 TCTTGATATATAGCTCTTC-GGAGCT
1 TCCCGATA-ATAGCTC-TCATGAGCT
**
39341879 TCCCGATTAATAGCTCTCCGGAG-T
1 TCCCGA-TAATAGCTCTCATGAGCT
* * *
39341903 TACCCGTTATTAGCTCGCATGAGCT
1 T-CCCGATAATAGCTCTCATGAGCT
*
39341928 TCTCGAT
1 TCCCGAT
39341935 TACGGCTTTT
Statistics
Matches: 99, Mismatches: 24, Indels: 13
0.73 0.18 0.10
Matches are distributed among these distances:
24 56 0.57
25 39 0.39
26 4 0.04
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.34
Consensus pattern (24 bp):
TCCCGATAATAGCTCTCATGAGCT
Found at i:39341822 original size:24 final size:24
Alignment explanation
Indices: 39341793--39341929 Score: 98
Period size: 24 Copynumber: 5.6 Consensus size: 24
39341783 CCGATAATAG
*
39341793 GCTCTCACGAGCTTCCCGTTATTA
1 GCTCTCATGAGCTTCCCGTTATTA
* * *
39341817 GCTCTCATGAGCATCCCGATATTG
1 GCTCTCATGAGCTTCCCGTTATTA
* * ** *
39341841 GCTTTCTTGAGCTTCTTGATATATA
1 GCTCTCATGAGCTTCCCGTTAT-TA
* *
39341866 GCTCTTC-GGAGCTTCCCGATTAATA
1 GCTC-TCATGAGCTTCCCG-TTATTA
**
39341891 GCTCTCCGGAG-TTACCCGTTATTA
1 GCTCTCATGAGCTT-CCCGTTATTA
*
39341915 GCTCGCATGAGCTTC
1 GCTCTCATGAGCTTC
39341930 TCGATTACGG
Statistics
Matches: 87, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
24 55 0.63
25 28 0.32
26 4 0.05
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (24 bp):
GCTCTCATGAGCTTCCCGTTATTA
Found at i:39345115 original size:22 final size:23
Alignment explanation
Indices: 39345074--39345116 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
39345064 AATTTTAAGT
*
39345074 ATAAAAATTAACATTTTAAAAAG
1 ATAAAAATTAACATTATAAAAAG
*
39345097 ATAAATATT-ACATTATAAAA
1 ATAAAAATTAACATTATAAAA
39345117 TTTGCTCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (23 bp):
ATAAAAATTAACATTATAAAAAG
Found at i:39357668 original size:42 final size:42
Alignment explanation
Indices: 39357548--39357707 Score: 212
Period size: 42 Copynumber: 3.8 Consensus size: 42
39357538 ACGTCGCTAA
* * * * *
39357548 CTTTTGCGGCGCTTACAGAAAAAACGCCGCTAAAGGTCAAGTT
1 CTTTAGCGGCGCTTA-GGAAAAAACGCCGCTAATGATCATGTT
*
39357591 CTTTAGCGGCGCTGAGGAAAAAAACGCCGCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAATGATCATGTT
* *
39357634 CTTTAGCAGCGCTTAGGAAAAAATGCCGCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAATGATCATGTT
* *
39357676 CTTTAGCGGCGCTTGGGAAAACACGCCGCTAA
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAA
39357708 AGAACATGAT
Statistics
Matches: 103, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
42 53 0.51
43 50 0.49
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAATGATCATGTT
Found at i:39357780 original size:42 final size:43
Alignment explanation
Indices: 39357721--39357838 Score: 157
Period size: 43 Copynumber: 2.8 Consensus size: 43
39357711 ACATGATCTT
* **
39357721 CGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTGGT-AAAAAA
1 CGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTCATCAAAAAA
* * *
39357763 CGCCGCTAAAAGTAATGTTCTTTAGCGTCGCTTCATCTACAAA
1 CGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTCATCAAAAAA
* *
39357806 CGCCGCTAAAAGTAGTGTTCTTTCGCGGCGCTT
1 CGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTT
39357839 ATTTCACAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (43 bp):
CGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTCATCAAAAAA
Found at i:39357848 original size:43 final size:42
Alignment explanation
Indices: 39357721--39357840 Score: 152
Period size: 42 Copynumber: 2.8 Consensus size: 42
39357711 ACATGATCTT
* * * *
39357721 CGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTGGT-AAAAAA
1 CGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTT-ATCTACAAA
*
39357763 CGCCGCTAAAAGTAATGTTCTTTAGCGTCGCTTCATCTACAAA
1 CGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTT-ATCTACAAA
* *
39357806 CGCCGCTAAAAGTAGTGTTCTTTCGCGGCGCTTAT
1 CGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAT
39357841 TTCACAAATG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 34 0.50
43 34 0.50
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (42 bp):
CGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTATCTACAAA
Found at i:39358292 original size:12 final size:12
Alignment explanation
Indices: 39358275--39358302 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
39358265 TTTTGAACCT
39358275 CTGCTTCTCTCG
1 CTGCTTCTCTCG
39358287 CTGCTTCTCTCG
1 CTGCTTCTCTCG
39358299 CTGC
1 CTGC
39358303 GGCATCTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.18, T:0.39
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:39358311 original size:21 final size:21
Alignment explanation
Indices: 39358287--39358344 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
39358277 GCTTCTCTCG
*
39358287 CTGCTTCTCTCGCTGCGGCAT
1 CTGCTTCTCTCGCTGCAGCAT
*
39358308 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCAT
* *
39358329 CTGTTTCCCTCGCTGC
1 CTGCTTCTCTCGCTGC
39358345 CGCCTCTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.03, C:0.41, G:0.21, T:0.34
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCAT
Found at i:39358349 original size:21 final size:21
Alignment explanation
Indices: 39358287--39358351 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
39358277 GCTTCTCTCG
* * *
39358287 CTGCTTCTCTCGCTGCGGCAT
1 CTGCTTCCCTCGCTGCAGCCT
*
39358308 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
* *
39358329 CTGTTTCCCTCGCTGCCGCCT
1 CTGCTTCCCTCGCTGCAGCCT
39358350 CT
1 CT
39358352 ATTTTAAGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.03, C:0.43, G:0.20, T:0.34
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCT
Found at i:39360722 original size:13 final size:13
Alignment explanation
Indices: 39360704--39360733 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
39360694 TTCACTTCAT
39360704 TATTAATACCAAA
1 TATTAATACCAAA
*
39360717 TATTAATATCAAA
1 TATTAATACCAAA
39360730 TATT
1 TATT
39360734 TAACAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (13 bp):
TATTAATACCAAA
Found at i:39361506 original size:11 final size:11
Alignment explanation
Indices: 39361490--39361517 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
39361480 CTAATAAATC
39361490 ATAAAATACCA
1 ATAAAATACCA
39361501 ATAAAATACCA
1 ATAAAATACCA
39361512 ATAAAA
1 ATAAAA
39361518 CATAAAGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.14, G:0.00, T:0.18
Consensus pattern (11 bp):
ATAAAATACCA
Found at i:39363580 original size:7 final size:7
Alignment explanation
Indices: 39363568--39363706 Score: 75
Period size: 7 Copynumber: 19.0 Consensus size: 7
39363558 TACCCTTGAC
39363568 ACCCTAA
1 ACCCTAA
39363575 ACCCTAA
1 ACCCTAA
39363582 ATCCCTAA
1 A-CCCTAA
*
39363590 CCCCTAA
1 ACCCTAA
*
39363597 CCCCTAA
1 ACCCTAA
*
39363604 ATCTCCTAG
1 A-C-CCTAA
*
39363613 CCCCTAA
1 ACCCTAA
*
39363620 ATTCCT-A
1 A-CCCTAA
39363627 ACCCTTAA
1 ACCC-TAA
*
39363635 CCCCTAA
1 ACCCTAA
* *
39363642 ATCCTTA
1 ACCCTAA
39363649 ACCCTTAA
1 ACCC-TAA
*
39363657 CCCCTAA
1 ACCCTAA
*
39363664 CCCCTAA
1 ACCCTAA
39363671 ATCCCTAA
1 A-CCCTAA
*
39363679 CCCCTAA
1 ACCCTAA
*
39363686 ACCTTATA
1 ACCCTA-A
*
39363694 TCCC-AA
1 ACCCTAA
39363700 ACCCTAA
1 ACCCTAA
39363707 TCCATACCCC
Statistics
Matches: 100, Mismatches: 22, Indels: 20
0.70 0.15 0.14
Matches are distributed among these distances:
6 6 0.06
7 61 0.61
8 29 0.29
9 4 0.04
ACGTcount: A:0.33, C:0.44, G:0.01, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:39363589 original size:15 final size:15
Alignment explanation
Indices: 39363568--39363706 Score: 83
Period size: 15 Copynumber: 9.5 Consensus size: 15
39363558 TACCCTTGAC
39363568 ACCCTAAA-CCCTAA
1 ACCCTAAACCCCTAA
39363582 ATCCCT-AACCCCTAA
1 A-CCCTAAACCCCTAA
* * *
39363597 CCCCTAAATCTCCTAG
1 ACCCTAAA-CCCCTAA
* **
39363613 CCCCTAAATTCCT-A
1 ACCCTAAACCCCTAA
*
39363627 ACCCTTAACCCCTAA
1 ACCCTAAACCCCTAA
* * *
39363642 ATCCTTAACCCTTAA
1 ACCCTAAACCCCTAA
*
39363657 CCCCT-AACCCCTAA
1 ACCCTAAACCCCTAA
39363671 ATCCCT-AACCCCTAA
1 A-CCCTAAACCCCTAA
* * *
39363686 ACCTTATATCCC-AA
1 ACCCTAAACCCCTAA
39363700 ACCCTAA
1 ACCCTAA
39363707 TCCATACCCC
Statistics
Matches: 98, Mismatches: 20, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
14 34 0.35
15 51 0.52
16 13 0.13
ACGTcount: A:0.33, C:0.44, G:0.01, T:0.22
Consensus pattern (15 bp):
ACCCTAAACCCCTAA
Found at i:39363596 original size:22 final size:22
Alignment explanation
Indices: 39363569--39363703 Score: 132
Period size: 22 Copynumber: 6.1 Consensus size: 22
39363559 ACCCTTGACA
39363569 CCCTAAACCCTAAATCCCTAAC
1 CCCTAAACCCTAAATCCCTAAC
* *
39363591 CCCTAACCCCTAAATCTCCTAGC
1 CCCTAAACCCTAAATC-CCTAAC
*
39363614 CCCTAAATTCCT-AA-CCCTTAAC
1 CCCTAAA-CCCTAAATCCC-TAAC
* *
39363636 CCCTAAATCCTTAA-CCCTTAAC
1 CCCTAAACCCTAAATCCC-TAAC
*
39363658 CCCTAACCCCTAAATCCCTAAC
1 CCCTAAACCCTAAATCCCTAAC
* * *
39363680 CCCTAAACCTTATATCCCAAAC
1 CCCTAAACCCTAAATCCCTAAC
39363702 CC
1 CC
39363704 TAATCCATAC
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
21 6 0.06
22 71 0.74
23 16 0.17
24 3 0.03
ACGTcount: A:0.32, C:0.45, G:0.01, T:0.22
Consensus pattern (22 bp):
CCCTAAACCCTAAATCCCTAAC
Found at i:39363616 original size:16 final size:15
Alignment explanation
Indices: 39363592--39363630 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
39363582 ATCCCTAACC
39363592 CCTAACCCCTAAATCT
1 CCTAACCCCTAAAT-T
*
39363608 CCTAGCCCCTAAATT
1 CCTAACCCCTAAATT
39363623 CCTAACCC
1 CCTAACCC
39363631 TTAACCCCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.28, C:0.46, G:0.03, T:0.23
Consensus pattern (15 bp):
CCTAACCCCTAAATT
Found at i:39364710 original size:42 final size:42
Alignment explanation
Indices: 39364663--39364845 Score: 153
Period size: 41 Copynumber: 4.4 Consensus size: 42
39364653 GCTTCAACAA
*
39364663 AAACGCCGCTAAAACCCCTAACATTAGCGACGCTTATCATAG
1 AAACGCCGCTAAAACCCCTAACATTAGCGGCGCTTATCATAG
** * * * *
39364705 AAACGCCGCTAAAAGTCTTAACTTTAGCGTCGCTTAT-ATAC
1 AAACGCCGCTAAAACCCCTAACATTAGCGGCGCTTATCATAG
** * * *
39364746 AAACGCCGCTAAAAGACCAAATATTAGCGGCGC-T-TCAAAG
1 AAACGCCGCTAAAACCCCTAACATTAGCGGCGCTTATCATAG
* * *
39364786 AAATCGCCGCTAAATA-CCTTAACTTTAGCGGCGGTTGATCA-A-
1 AAA-CGCCGCTAAA-ACCCCTAACATTAGCGGCGCTT-ATCATAG
*
39364828 AAACGCCACTAAAACCCC
1 AAACGCCGCTAAAACCCC
39364846 CGACCATTAG
Statistics
Matches: 112, Mismatches: 22, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
39 1 0.01
40 7 0.06
41 63 0.56
42 37 0.33
43 1 0.01
44 3 0.03
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.21
Consensus pattern (42 bp):
AAACGCCGCTAAAACCCCTAACATTAGCGGCGCTTATCATAG
Found at i:39364832 original size:82 final size:82
Alignment explanation
Indices: 39364650--39364842 Score: 205
Period size: 82 Copynumber: 2.3 Consensus size: 82
39364640 TGTTTTTTGT
* * * *
39364650 GGCGCTTCAACAAAAACGCCGCTAAAACCCCTAACATTAGCGACGCTTATCATAGAAACGCCGCT
1 GGCGCTT-ATCAAAAACGCCGCTAAAACACCAAACATTAGCGACGCTTATCAAAGAAACGCCGCT
*
39364715 AAAAGTCTTAACTTTAGC
65 AAAAGCCTTAACTTTAGC
* * * *
39364733 GTCGCTTAT-ATACAAACGCCGCTAAAAGACCAAATATTAGCGGCGC-T-TCAAAGAAATCGCCG
1 GGCGCTTATCA-A-AAACGCCGCTAAAACACCAAACATTAGCGACGCTTATCAAAGAAA-CGCCG
39364795 CTAAATA-CCTTAACTTTAGC
63 CTAAA-AGCCTTAACTTTAGC
* *
39364815 GGCGGTTGATCAAAAACGCCACTAAAAC
1 GGCGCTT-ATCAAAAACGCCGCTAAAAC
39364843 CCCCGACCAT
Statistics
Matches: 91, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
81 9 0.10
82 43 0.47
83 38 0.42
84 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.21
Consensus pattern (82 bp):
GGCGCTTATCAAAAACGCCGCTAAAACACCAAACATTAGCGACGCTTATCAAAGAAACGCCGCTA
AAAGCCTTAACTTTAGC
Found at i:39367393 original size:15 final size:16
Alignment explanation
Indices: 39367362--39367393 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
39367352 TCTTTGAAAG
39367362 TAAAATTTGGCTTTAA
1 TAAAATTTGGCTTTAA
39367378 TAAAATTTGG-TTTAA
1 TAAAATTTGGCTTTAA
39367393 T
1 T
39367394 TTTGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (16 bp):
TAAAATTTGGCTTTAA
Found at i:39367496 original size:11 final size:12
Alignment explanation
Indices: 39367474--39367503 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
39367464 TAGCGGATTT
39367474 ATTTTAAAAAAA
1 ATTTTAAAAAAA
39367486 ATTTTAAAAAAA
1 ATTTTAAAAAAA
*
39367498 TTTTTA
1 ATTTTA
39367504 CTGTAATTTT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTTTAAAAAAA
Found at i:39369225 original size:23 final size:22
Alignment explanation
Indices: 39369189--39369233 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
39369179 ACAAAGAACT
39369189 GAAATAAACCTAAAGC-CTAAAA
1 GAAATAAACCTAAA-CACTAAAA
*
39369211 GAAATGAAAGCTAAACACTAAAA
1 GAAAT-AAACCTAAACACTAAAA
39369234 TTTCAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.60, C:0.16, G:0.11, T:0.13
Consensus pattern (22 bp):
GAAATAAACCTAAACACTAAAA
Found at i:39370999 original size:35 final size:35
Alignment explanation
Indices: 39370960--39371038 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
39370950 TGGTATTCGA
* * *
39370960 CAGGTCTTTCGGGGCGACACTGA-GGAAACGGTTAT
1 CAGGTCCTTCGGGGCAACACT-ATGGAAAAGGTTAT
39370995 CAGGTCCTTCGGGGCAACACTATGGAAAAGGTTAT
1 CAGGTCCTTCGGGGCAACACTATGGAAAAGGTTAT
39371030 CAGGTCCTT
1 CAGGTCCTT
39371039 TTAGGTGATA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 1 0.03
35 39 0.98
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (35 bp):
CAGGTCCTTCGGGGCAACACTATGGAAAAGGTTAT
Found at i:39376073 original size:50 final size:49
Alignment explanation
Indices: 39376008--39376196 Score: 200
Period size: 51 Copynumber: 3.8 Consensus size: 49
39375998 AAATTGAAAG
* *
39376008 TGATGGTCACGTGTGTAGTACTATGTGCAGGCTATTACGTGTACCAGAA
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
* * * * *
39376057 TGATAGGTCGCATGTGTAGTACTATGTGCAAGCTACTATGCGTACC-GGA
1 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
* * * * *
39376106 TAGCTTCGATCACGTCTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATA
1 T-G-AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A
*
39376159 GTGATGGTCACATGTGTAGTACTATGTGCAGACTACTA
1 -TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
39376197 TGTGAACCGG
Statistics
Matches: 111, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 7 0.06
50 36 0.32
51 63 0.57
52 2 0.02
53 2 0.02
54 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (49 bp):
TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
Found at i:39376130 original size:101 final size:102
Alignment explanation
Indices: 39376014--39376198 Score: 295
Period size: 101 Copynumber: 1.8 Consensus size: 102
39376004 AAAGTGATGG
* * *
39376014 TCACGTGTGTAGTACTATGTGCAGGCTATTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTCTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
39376077 ACTATGTGCA-AGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTGCAGA-CTACTATGCGTACCGGATAGCTTCGA
*
39376115 TCACGTCTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
1 TCACGTCTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
39376180 CTATGTGCAGACTACTATG
66 CTATGTGCAGACTACTATG
39376199 TGAACCGGTA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
101 39 0.51
102 33 0.43
103 5 0.06
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTCTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGACTACTATGCGTACCGGATAGCTTCGA
Found at i:39376236 original size:101 final size:100
Alignment explanation
Indices: 39376021--39376206 Score: 259
Period size: 102 Copynumber: 1.8 Consensus size: 100
39376011 TGGTCACGTG
* *
39376021 TGTAGTACTATGTGCAGGCTATTACGTGTACCAGAATGATAGGTCGCATGTGTAGTACTATGTGC
1 TGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATGTGC
* * *
39376086 AAGCTACTATGCGTACCGGATAGCTTCGATCACGTC
66 AAGCTACTATGCGAACCGGATAGCTTCAATCAC-TA
*
39376122 TGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGAT-GGTCACATGTGTAGTACTATGT
1 TGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGTACTATGT
*
39376186 GC-AGACTACTATGTGAACCGG
64 GCAAG-CTACTATGCGAACCGG
39376207 TATCATTAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
101 35 0.45
102 38 0.49
103 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
TGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATGTGC
AAGCTACTATGCGAACCGGATAGCTTCAATCACTA
Found at i:39376445 original size:16 final size:16
Alignment explanation
Indices: 39376424--39376455 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
39376414 TGATTGAAAG
39376424 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
39376440 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
39376456 GCAACAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:39381925 original size:51 final size:49
Alignment explanation
Indices: 39381769--39381946 Score: 150
Period size: 51 Copynumber: 3.5 Consensus size: 49
39381759 TATGGTCATG
* * * * *
39381769 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAAGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACATGCATCGGATAGTGAT--G-CACA
*
39381819 TGTGTAGTACTATGTGCAGGCTACT--ATGCGTATCGGATAGCTTCGAT-CACG
1 TGTGTAGTACTATGTGCAGGCTACTACATGC--ATCGGATAG--T-GATGCACA
*
39381870 TGTGTAGTACTATGTGCAGGCTACTACATGCATTGGATAGTGATGGCCACA
1 TGTGTAGTACTATGTGCAGGCTACTACATGCATCGGATAGTGAT-G-CACA
* *
39381921 TGTGTAGTGCTGTGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
39381947 TGTGAACCGG
Statistics
Matches: 106, Mismatches: 10, Indels: 23
0.76 0.07 0.17
Matches are distributed among these distances:
48 5 0.05
49 1 0.01
50 29 0.27
51 63 0.59
53 4 0.04
54 1 0.01
55 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACATGCATCGGATAGTGATGCACA
Found at i:39382030 original size:15 final size:14
Alignment explanation
Indices: 39382003--39382033 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
39381993 CGGGCTCATA
39382003 AAAAATAATAAACC
1 AAAAATAATAAACC
*
39382017 AAAAATAATAAAAC
1 AAAAATAATAAACC
39382031 AAA
1 AAA
39382034 GTCCAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATAATAAACC
Found at i:39382159 original size:19 final size:19
Alignment explanation
Indices: 39382135--39382188 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
39382125 AATCTTCAAG
39382135 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
39382154 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
39382173 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
39382189 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:39382164 original size:36 final size:36
Alignment explanation
Indices: 39382124--39382195 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
39382114 TATGGGAACA
39382124 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
39382160 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
39382196 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:39382179 original size:38 final size:40
Alignment explanation
Indices: 39382135--39382211 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
39382125 AATCTTCAAG
39382135 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
39382173 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
39382212 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:39390191 original size:11 final size:11
Alignment explanation
Indices: 39390175--39390199 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39390165 ATTAACCATT
39390175 TCACACATTCA
1 TCACACATTCA
39390186 TCACACATTCA
1 TCACACATTCA
39390197 TCA
1 TCA
39390200 TTATAAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (11 bp):
TCACACATTCA
Found at i:39399268 original size:19 final size:19
Alignment explanation
Indices: 39399225--39399262 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
39399215 GGTTTTGGGT
*
39399225 TCTCAAGCCCAATTTTCTA
1 TCTCAAGCCCAATTTTCAA
*
39399244 TCTCAAGTCCAATTTTCAA
1 TCTCAAGCCCAATTTTCAA
39399263 GTTCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.37
Consensus pattern (19 bp):
TCTCAAGCCCAATTTTCAA
Found at i:39399414 original size:13 final size:13
Alignment explanation
Indices: 39399396--39399429 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
39399386 AAGATTTTCC
39399396 AAAATTTTTCAAT
1 AAAATTTTTCAAT
*
39399409 AAAATTTTTTAAT
1 AAAATTTTTCAAT
*
39399422 CAAATTTT
1 AAAATTTT
39399430 CTAGTTGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (13 bp):
AAAATTTTTCAAT
Found at i:39412868 original size:17 final size:18
Alignment explanation
Indices: 39412837--39412870 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
39412827 TATTATATTT
*
39412837 ATCTATATATGCATATGC
1 ATCTATATATACATATGC
39412855 ATCT-TATATACATATG
1 ATCTATATATACATATG
39412871 TTACATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (18 bp):
ATCTATATATACATATGC
Found at i:39418697 original size:44 final size:44
Alignment explanation
Indices: 39418648--39418735 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
39418638 CAAATCCTAC
* * *
39418648 CTCACAAGGAATCAATAGAAATTGTGATCTTAGAGGAGGGTAAA
1 CTCACAAGGAATCAATAGAAATTATGAGCTTAGAGGAAGGTAAA
*
39418692 CTCACAGGGAATCAATAGAAATTATGAGCTTAGAGGAAGGTAAA
1 CTCACAAGGAATCAATAGAAATTATGAGCTTAGAGGAAGGTAAA
39418736 GAGGTGAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.22
Consensus pattern (44 bp):
CTCACAAGGAATCAATAGAAATTATGAGCTTAGAGGAAGGTAAA
Found at i:39427929 original size:271 final size:271
Alignment explanation
Indices: 39427446--39427987 Score: 1039
Period size: 271 Copynumber: 2.0 Consensus size: 271
39427436 TAAGTTCTTG
39427446 AAGAGAGAGATCATATGTCGGTATGGAATGCCTGAAAGAATCATATCCGACAATACGCTGAATTT
1 AAGAGAGAGATCATATGTCGGTATGGAATGCCTGAAAGAATCATATCCGACAATACGCTGAATTT
*
39427511 GAACAACAGCTCAATAGCAGAGGTCTGCAGTCAATTCAAGATCAGACATCACAATTCGTCGCTGT
66 GAACAACAGCTCAATAGCAGAGGTCTGCAGTCAATTCAAGATCAGACATCACAATTCGTCGCCGT
39427576 ATCGCCCGAAAATGAATGGTGCAGTAGAAGCGACCAATAAAAATATAAAGAAGATTGTAGGGAAG
131 ATCGCCCGAAAATGAATGGTGCAGTAGAAGCGACCAATAAAAATATAAAGAAGATTGTAGGGAAG
*
39427641 ATGACTGAGACTTACAGGGACTGGCACGAGAAATTACCGTTTGCCCTCCTTGCTTATCGAACGTC
196 AAGACTGAGACTTACAGGGACTGGCACGAGAAATTACCGTTTGCCCTCCTTGCTTATCGAACGTC
39427706 AACTAGGACAT
261 AACTAGGACAT
39427717 AAGAGAGAGATCATATGTCGGTATGGAATGCCTGAAAGAATCATATCCGACAATACGCTGAATTT
1 AAGAGAGAGATCATATGTCGGTATGGAATGCCTGAAAGAATCATATCCGACAATACGCTGAATTT
* *
39427782 GAACAACAGCTCAATAGCAGAGGTCTGTAGTCAATTCAAGATCAGACATCACAATTCGTTGCCGT
66 GAACAACAGCTCAATAGCAGAGGTCTGCAGTCAATTCAAGATCAGACATCACAATTCGTCGCCGT
*
39427847 ATCGCCCGAAAATGAATGGTGCAGTAGAAGCGGCCAATAAAAATATAAAGAAGATTGTAGGGAAG
131 ATCGCCCGAAAATGAATGGTGCAGTAGAAGCGACCAATAAAAATATAAAGAAGATTGTAGGGAAG
39427912 AAGACTGAGACTTACAGGGACTGGCACGAGAAATTACCGTTTGCCCTCCTTGCTTATCGAACGTC
196 AAGACTGAGACTTACAGGGACTGGCACGAGAAATTACCGTTTGCCCTCCTTGCTTATCGAACGTC
39427977 AACTAGGACAT
261 AACTAGGACAT
39427988 CCACTGGGGC
Statistics
Matches: 266, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
271 266 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.22
Consensus pattern (271 bp):
AAGAGAGAGATCATATGTCGGTATGGAATGCCTGAAAGAATCATATCCGACAATACGCTGAATTT
GAACAACAGCTCAATAGCAGAGGTCTGCAGTCAATTCAAGATCAGACATCACAATTCGTCGCCGT
ATCGCCCGAAAATGAATGGTGCAGTAGAAGCGACCAATAAAAATATAAAGAAGATTGTAGGGAAG
AAGACTGAGACTTACAGGGACTGGCACGAGAAATTACCGTTTGCCCTCCTTGCTTATCGAACGTC
AACTAGGACAT
Found at i:39429302 original size:44 final size:44
Alignment explanation
Indices: 39429150--39429304 Score: 159
Period size: 44 Copynumber: 3.5 Consensus size: 44
39429140 GAGCAGGTTG
*
39429150 AAAGATAACAGATCATGTCTTCATGTACTGGCGTGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
* * * *** * *
39429194 ATAGATACCAGATCTTGTCTCCCCATACTAGTG-GTGGAGTAGGTC
1 AAAGATAACAGATCTTGTCTTCATGTACT-G-GCGTGAAGTAGATC
* *
39429239 AAAGAAAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
** *
39429283 AAAGATAGTAGGTCTTGTCTTC
1 AAAGATAACAGATCTTGTCTTC
39429305 CTATATTGGT
Statistics
Matches: 84, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
43 1 0.01
44 50 0.60
45 32 0.38
46 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
Found at i:39431079 original size:17 final size:18
Alignment explanation
Indices: 39431048--39431081 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
39431038 TATTATATTT
*
39431048 ATCTATATATGCATATGC
1 ATCTATATATACATATGC
39431066 ATCT-TATATACATATG
1 ATCTATATATACATATG
39431082 TTACATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (18 bp):
ATCTATATATACATATGC
Found at i:39437743 original size:29 final size:29
Alignment explanation
Indices: 39437703--39437772 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
39437693 ATAAAATTAA
39437703 ATAGTT-GAATGATCATTTTGTAA-TATTTC
1 ATAGTTAG-ATGATCATTTTGTAACT-TTTC
39437732 ATAGTTAGATGATCATTTTGTAACTTTTC
1 ATAGTTAGATGATCATTTTGTAACTTTTC
*
39437761 ATAATTAGATGA
1 ATAGTTAGATGA
39437773 CTAAAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
29 36 0.95
30 2 0.05
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (29 bp):
ATAGTTAGATGATCATTTTGTAACTTTTC
Found at i:39449190 original size:25 final size:24
Alignment explanation
Indices: 39449141--39449194 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
39449131 GTCATTAGGG
* *
39449141 TTACCGATTCTAGCACTTATGAGC
1 TTACCGATACTAGCACGTATGAGC
*
39449165 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGATACT-AGCACGTATGAGC
39449190 TTACC
1 TTACC
39449195 ATTATTCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (24 bp):
TTACCGATACTAGCACGTATGAGC
Found at i:39449469 original size:19 final size:19
Alignment explanation
Indices: 39449447--39449489 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
39449437 CCCAAATTCC
39449447 AAAATAATTA-AACAGCCCAA
1 AAAATAATTACAA-A-CCCAA
39449467 AAAATAAATTACAAACCCAA
1 AAAAT-AATTACAAACCCAA
39449487 AAA
1 AAA
39449490 TAAAAAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 13 0.62
21 6 0.29
22 2 0.10
ACGTcount: A:0.65, C:0.19, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAATAATTACAAACCCAA
Found at i:39459598 original size:28 final size:28
Alignment explanation
Indices: 39459550--39459619 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
39459540 CAAATTATTT
*
39459550 TAAAATTATTAAAATTATTTTTT-TAATA
1 TAAAATTATT-AAATTATTTTTTGAAATA
*
39459578 TAAAATTATTATATTATTTTTTTGAAATA
1 TAAAATTATTAAATTA-TTTTTTGAAATA
39459607 TAAAATTATTAAA
1 TAAAATTATTAAA
39459620 ATAGATCGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.14
28 16 0.43
29 16 0.43
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (28 bp):
TAAAATTATTAAATTATTTTTTGAAATA
Found at i:39459609 original size:29 final size:27
Alignment explanation
Indices: 39459550--39459619 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 27
39459540 CAAATTATTT
39459550 TAAAATTATTAAAATTATTTTTTTAATA
1 TAAAATTATT-AAATTATTTTTTTAATA
*
39459578 TAAAATTATTATATTATTTTTTTGAAATA
1 TAAAATTATTAAATTATTTTTTT--AATA
39459607 TAAAATTATTAAA
1 TAAAATTATTAAA
39459620 ATAGATCGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 12 0.32
28 10 0.26
29 16 0.42
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
TAAAATTATTAAATTATTTTTTTAATA
Found at i:39460390 original size:36 final size:37
Alignment explanation
Indices: 39460338--39460413 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 37
39460328 AATGTTCTAT
*
39460338 TTTAATAATTTTATATTTCAAAAAATAA-TATAATAA
1 TTTAATAATTTTATATTTAAAAAAATAATTATAATAA
* *
39460374 TTTAGTAATTTTATATTTAAAAAAATAATTTTAATAA
1 TTTAATAATTTTATATTTAAAAAAATAATTATAATAA
39460411 TTT
1 TTT
39460414 TAAAAACATT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
36 26 0.72
37 10 0.28
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (37 bp):
TTTAATAATTTTATATTTAAAAAAATAATTATAATAA
Found at i:39460753 original size:11 final size:13
Alignment explanation
Indices: 39460723--39460752 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
39460713 TATGATAGTG
39460723 TTTTTTAATATAA
1 TTTTTTAATATAA
39460736 TTTTTTAATAT-A
1 TTTTTTAATATAA
39460748 TTTTT
1 TTTTT
39460753 AGTCTCTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTTAATATAA
Found at i:39460844 original size:18 final size:16
Alignment explanation
Indices: 39460815--39460848 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 16
39460805 ATATATTTTT
39460815 TAAAAATTATTTGTAAA
1 TAAAAATTATTT-TAAA
39460832 TAAAAATTAATTTTAAA
1 TAAAAATT-ATTTTAAA
39460849 AAATTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TAAAAATTATTTTAAA
Found at i:39466464 original size:34 final size:34
Alignment explanation
Indices: 39466419--39466495 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
39466409 AAAGGGTGTT
*
39466419 ACACCAGATGCTCGTAAGAGCTAATCCATCCAGC
1 ACACCAAATGCTCGTAAGAGCTAATCCATCCAGC
* *
39466453 ACACCAAATGCTCGTATGAGCTAATCCATCTAGC
1 ACACCAAATGCTCGTAAGAGCTAATCCATCCAGC
39466487 ACACCAAAT
1 ACACCAAAT
39466496 AACAATGTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.19
Consensus pattern (34 bp):
ACACCAAATGCTCGTAAGAGCTAATCCATCCAGC
Done.