Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 125 of 205
Found at i:37503075 original size:23 final size:23
Alignment explanation
Indices: 37503049--37503099 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
37503039 TGCTTAGTGA
37503049 TATTTTCACTTTC-GTGCCCATGT
1 TATTTTCAC-TTCAGTGCCCATGT
* * *
37503072 TATTTTGACTTCATTGCTCATGT
1 TATTTTCACTTCAGTGCCCATGT
37503095 TATTT
1 TATTT
37503100 CGTGTATCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.16, C:0.20, G:0.12, T:0.53
Consensus pattern (23 bp):
TATTTTCACTTCAGTGCCCATGT
Found at i:37503175 original size:17 final size:18
Alignment explanation
Indices: 37503142--37503180 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
37503132 AAGGGCTTTG
37503142 TGAAATAAAAATTTTACA
1 TGAAATAAAAATTTTACA
*
37503160 TGAAAT-AAAGTTTTACA
1 TGAAATAAAAATTTTACA
37503177 TGAA
1 TGAA
37503181 GTGTATGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.33
Consensus pattern (18 bp):
TGAAATAAAAATTTTACA
Found at i:37511456 original size:21 final size:21
Alignment explanation
Indices: 37511429--37511476 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
37511419 GAAACAACTG
37511429 AAAAAAAGACAA-AAATAAAA
1 AAAAAAAGACAACAAATAAAA
*
37511449 ATAAAAAAGAGAAGCAAATAAAA
1 A-AAAAAAGACAA-CAAATAAAA
37511472 AAAAA
1 AAAAA
37511477 CGATGCCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 10 0.42
22 4 0.17
23 9 0.38
ACGTcount: A:0.81, C:0.04, G:0.08, T:0.06
Consensus pattern (21 bp):
AAAAAAAGACAACAAATAAAA
Found at i:37514556 original size:32 final size:32
Alignment explanation
Indices: 37514515--37514578 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
37514505 GCCATCTATT
*
37514515 TTCATTGTTCAACTCTTTGACAACACGAAAAA
1 TTCATTGTTCAACTCTTTGAAAACACGAAAAA
* *
37514547 TTCATTGTTCTACTCTTTGAAAACATGAAAAA
1 TTCATTGTTCAACTCTTTGAAAACACGAAAAA
37514579 ACTAAGAGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (32 bp):
TTCATTGTTCAACTCTTTGAAAACACGAAAAA
Found at i:37519196 original size:277 final size:277
Alignment explanation
Indices: 37518702--37519533 Score: 1333
Period size: 277 Copynumber: 3.0 Consensus size: 277
37518692 CTCATTTAGT
* * * *
37518702 CACAAATTCATTCTACTATAATATTGTCATACTCTCTTTTTGCGAGCTGGTACTGTTTGGGAGAC
1 CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTGGTACTGTTTGGGAGAC
* * * *
37518767 TGCACTGGCGAAGATCGCCTAAGTCATGAGACTTAGACGGGATAAGGTAGGTAACTTTGTGGCAA
66 TGCACTGGAGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTTGTGGCAA
* * * * * * *
37518832 AGTACTTCATTGAAATTCGTCTATACTACGAATTTCCACTTCGCGAGGTGACTATTTGTTTGTTC
131 AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCGCGGGGTGACAATTTCTTTGTTG
* *
37518897 TGGAGAGTGACTGCCTATAAACATGCTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
196 TGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
*
37518962 ATTAAATCAGTGGTTTC
261 ATTAAATCAGTGGTGTC
*
37518979 CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGTGAGCTGGTACTGTTTGGGAGAC
1 CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTGGTACTGTTTGGGAGAC
* * *
37519044 TGCATTGGAGAAGATCGCCAAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTCGTGGCAA
66 TGCACTGGAGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTTGTGGCAA
*
37519109 AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCACGGGGTGACAATTTCTTTGTTG
131 AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCGCGGGGTGACAATTTCTTTGTTG
37519174 TGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
196 TGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
* *
37519239 ATTAAACCGGTGGTGTC
261 ATTAAATCAGTGGTGTC
** *
37519256 TGCAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTAGTACTGTTTGGGAGAC
1 CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTGGTACTGTTTGGGAGAC
* *
37519321 TGCACTGGTGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAATTTTGTGGCAA
66 TGCACTGGAGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTTGTGGCAA
* * * *
37519386 AGTACTTCGTTGAACTTCGTCTATAATGCGAAGTTCCACTTCGCGGGGTGACGATTTCTTTATTG
131 AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCGCGGGGTGACAATTTCTTTGTTG
*
37519451 TAGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
196 TGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
37519516 ATTAAATC-GATGGTGTC
261 ATTAAATCAG-TGGTGTC
37519533 C
1 C
37519534 GCAAGTGTAC
Statistics
Matches: 513, Mismatches: 41, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
276 1 0.00
277 512 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (277 bp):
CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTGGTACTGTTTGGGAGAC
TGCACTGGAGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTTGTGGCAA
AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCGCGGGGTGACAATTTCTTTGTTG
TGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
ATTAAATCAGTGGTGTC
Found at i:37525861 original size:33 final size:33
Alignment explanation
Indices: 37525817--37525881 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
37525807 GAAATAGTCC
37525817 GGGCCTGAGCCCTAAT-CAGTAACAGTACAGTGT
1 GGGCCTGAGCCC-AATACAGTAACAGTACAGTGT
* *
37525850 GGGCCTTAGCCCAATACAGTATCAGTACAGTG
1 GGGCCTGAGCCCAATACAGTAACAGTACAGTG
37525882 CAATTATGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (33 bp):
GGGCCTGAGCCCAATACAGTAACAGTACAGTGT
Found at i:37526011 original size:26 final size:26
Alignment explanation
Indices: 37525978--37526057 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
37525968 AACACACCAA
**
37525978 TATCGCAGCAAAGCTGCCAGTATTAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* *
37526004 TATTGCAGTAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
**
37526030 TATCATAGCAAAGCTGCCAGT-ACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
37526055 TAT
1 TAT
37526058 ACTTCCTCCA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
25 7 0.15
26 39 0.85
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:37535686 original size:16 final size:18
Alignment explanation
Indices: 37535660--37535693 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
37535650 CCAATTTTCG
37535660 TTTACTATCA-TTGCACA
1 TTTACTATCATTTGCACA
37535677 TTTA-TATCATTTGCACA
1 TTTACTATCATTTGCACA
37535694 ATATTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (18 bp):
TTTACTATCATTTGCACA
Found at i:37542150 original size:39 final size:40
Alignment explanation
Indices: 37542079--37542223 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
37542069 GCTCCTCGTT
* *
37542079 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
37542119 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
37542158 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
37542199 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37542224 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 44 0.49
41 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:37557334 original size:47 final size:47
Alignment explanation
Indices: 37557256--37557682 Score: 710
Period size: 47 Copynumber: 9.1 Consensus size: 47
37557246 CCCTTCGGGA
* * * * * * *
37557256 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37557303 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37557350 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37557397 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37557444 CTTATTACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37557491 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37557538 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37557585 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37557632 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37557679 CTTA
1 CTTA
37557683 CTATCATTTC
Statistics
Matches: 363, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 363 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37563478 original size:13 final size:13
Alignment explanation
Indices: 37563460--37563487 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37563450 TTAAGCTTCC
37563460 CATGAAATAACTT
1 CATGAAATAACTT
37563473 CATGAAATAACTT
1 CATGAAATAACTT
37563486 CA
1 CA
37563488 ACCTTGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (13 bp):
CATGAAATAACTT
Found at i:37565312 original size:143 final size:143
Alignment explanation
Indices: 37565054--37565344 Score: 582
Period size: 143 Copynumber: 2.0 Consensus size: 143
37565044 TAACGATTAT
37565054 TGGCACTGAGATTAACCACTTCTTTAGCTCTTCAAAAGCTTCTAAACATGCTTTGTTGAAATCAA
1 TGGCACTGAGATTAACCACTTCTTTAGCTCTTCAAAAGCTTCTAAACATGCTTTGTTGAAATCAA
37565119 ACATTGTATCTTTCTCTATCAACGAACACAACGGTTTAGAAATTTTTAAGAAATCTTTGATAAAC
66 ACATTGTATCTTTCTCTATCAACGAACACAACGGTTTAGAAATTTTTAAGAAATCTTTGATAAAC
37565184 CTTCGATAAAAAC
131 CTTCGATAAAAAC
37565197 TGGCACTGAGATTAACCACTTCTTTAGCTCTTCAAAAGCTTCTAAACATGCTTTGTTGAAATCAA
1 TGGCACTGAGATTAACCACTTCTTTAGCTCTTCAAAAGCTTCTAAACATGCTTTGTTGAAATCAA
37565262 ACATTGTATCTTTCTCTATCAACGAACACAACGGTTTAGAAATTTTTAAGAAATCTTTGATAAAC
66 ACATTGTATCTTTCTCTATCAACGAACACAACGGTTTAGAAATTTTTAAGAAATCTTTGATAAAC
37565327 CTTCGATAAAAAC
131 CTTCGATAAAAAC
37565340 TGGCA
1 TGGCA
37565345 TGGCCTAAGA
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 148 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (143 bp):
TGGCACTGAGATTAACCACTTCTTTAGCTCTTCAAAAGCTTCTAAACATGCTTTGTTGAAATCAA
ACATTGTATCTTTCTCTATCAACGAACACAACGGTTTAGAAATTTTTAAGAAATCTTTGATAAAC
CTTCGATAAAAAC
Found at i:37568968 original size:13 final size:13
Alignment explanation
Indices: 37568950--37568974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37568940 TTAATTTGTA
37568950 AAATTATATTAAC
1 AAATTATATTAAC
37568963 AAATTATATTAA
1 AAATTATATTAA
37568975 TTTGTACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTATATTAAC
Found at i:37571943 original size:27 final size:27
Alignment explanation
Indices: 37571903--37571969 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
37571893 CCATTCTATG
* *
37571903 TTAACATCCTATTAGACTATCCC-GTGT
1 TTAACGTCCCATTAGACTA-CCCTGTGT
* *
37571930 TTAGCGTCCCATTAGGCTACCCTGTGT
1 TTAACGTCCCATTAGACTACCCTGTGT
37571957 TTAACGTCCCATT
1 TTAACGTCCCATT
37571970 GGGCTATCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.09
27 31 0.91
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (27 bp):
TTAACGTCCCATTAGACTACCCTGTGT
Found at i:37572111 original size:45 final size:44
Alignment explanation
Indices: 37572055--37572265 Score: 190
Period size: 45 Copynumber: 4.7 Consensus size: 44
37572045 ACTATCAAAG
* * * * * *
37572055 GATGTCATAGCATCTCTCAGCTATGGTCTTAGTCTTGTTTACCAT
1 GATGCCATAGCATCTTTCAACTATGGTCTTAATCTT-TATATCAT
* * *
37572100 GATGCCATAGCATCTTTCAACTATGGTCTTACTCATTTCTGTCAT
1 GATGCCATAGCATCTTTCAACTATGGTCTTAATC-TTTATATCAT
* * ***
37572145 AATGCCATAGGCATCTTTCAGCTATGGTCTTAAAAATTATATCAT
1 GATGCCATA-GCATCTTTCAACTATGGTCTTAATCTTTATATCAT
* * ** *
37572190 GATGCCATAACATCTTTCAACTATGGTCTTACAAACCAT-TGTCAT
1 GATGCCATAGCATCTTTCAACTATGGTCTT--AATCTTTATATCAT
*
37572235 GATGCCATAACATCTTTCAACTATGGTCTTA
1 GATGCCATAGCATCTTTCAACTATGGTCTTA
37572266 CTCATTTTAG
Statistics
Matches: 140, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
43 1 0.01
44 19 0.14
45 93 0.66
46 27 0.19
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (44 bp):
GATGCCATAGCATCTTTCAACTATGGTCTTAATCTTTATATCAT
Found at i:37572213 original size:90 final size:89
Alignment explanation
Indices: 37572097--37572265 Score: 241
Period size: 90 Copynumber: 1.9 Consensus size: 89
37572087 TCTTGTTTAC
* ** ** *
37572097 CATGATGCCATAGCATCTTTCAACTATGGTCTTACTCA-TTTCTGTCATAATGCCATAGGCATCT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCAT-TGTCATAATGCCATA-ACATCT
*
37572161 TTCAGCTATGGTCTTAAAAATTATAT
64 TTCAACTATGGTCTTAAAAATTATAT
*
37572187 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCATTGTCATGATGCCATAACATCTTT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCATTGTCATAATGCCATAACATCTTT
37572252 CAACTATGGTCTTA
66 CAACTATGGTCTTA
37572266 CTCATTTTAG
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
89 20 0.29
90 49 0.70
91 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (89 bp):
CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCATTGTCATAATGCCATAACATCTTT
CAACTATGGTCTTAAAAATTATAT
Found at i:37572266 original size:45 final size:44
Alignment explanation
Indices: 37572097--37572266 Score: 207
Period size: 45 Copynumber: 3.8 Consensus size: 44
37572087 TCTTGTTTAC
* ** *
37572097 CATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATTTCTGT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAATAT-TGT
* * * * *
37572142 CATAATGCCATAGGCATCTTTCAGCTATGGTCTTAAAAAT-TATAT
1 CATGATGCCATA-ACATCTTTCAACTATGGTCTTACAAATAT-TGT
*
37572187 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCATTGT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAA-TATTGT
37572232 CATGATGCCATAACATCTTTCAACTATGGTCTTAC
1 CATGATGCCATAACATCTTTCAACTATGGTCTTAC
37572267 TCATTTTAGG
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
44 23 0.21
45 62 0.57
46 24 0.22
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (44 bp):
CATGATGCCATAACATCTTTCAACTATGGTCTTACAAATATTGT
Found at i:37576002 original size:20 final size:20
Alignment explanation
Indices: 37575973--37576020 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
37575963 AATAGATGTA
37575973 AAACAGGGGCA-GAGATGTGC
1 AAACAGGGGCACG-GATGTGC
*
37575993 AAATAGGGGCACGGATGTGC
1 AAACAGGGGCACGGATGTGC
37576013 AAACAGGG
1 AAACAGGG
37576021 ACACCAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.15, G:0.40, T:0.10
Consensus pattern (20 bp):
AAACAGGGGCACGGATGTGC
Found at i:37580370 original size:10 final size:9
Alignment explanation
Indices: 37580319--37580378 Score: 52
Period size: 10 Copynumber: 6.3 Consensus size: 9
37580309 GATTTGTATT
37580319 AATTACTTTAA
1 AATTA-TTT-A
37580330 AATTATTTA
1 AATTATTTA
37580339 AA--ATTTA
1 AATTATTTA
*
37580346 TATTCATTTA
1 AATT-ATTTA
37580356 TAATTATATTA
1 -AATTAT-TTA
37580367 AATTATTTA
1 AATTATTTA
37580376 AAT
1 AAT
37580379 ATCATATAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 6 0.14
9 9 0.21
10 16 0.38
11 11 0.26
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (9 bp):
AATTATTTA
Found at i:37581368 original size:26 final size:25
Alignment explanation
Indices: 37581318--37581368 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
37581308 AAATTGCCAG
**
37581318 CAACATTAATTTTTAAAAACCTAAT
1 CAACATTAATTTTTAAAAAAATAAT
*
37581343 CAACATTTATTTCTTAAAAAAATAAT
1 CAACATTAATTT-TTAAAAAAATAAT
37581369 TGGGCTCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (25 bp):
CAACATTAATTTTTAAAAAAATAAT
Found at i:37582896 original size:43 final size:43
Alignment explanation
Indices: 37582849--37583072 Score: 272
Period size: 43 Copynumber: 5.2 Consensus size: 43
37582839 GCACCACTAT
*
37582849 AGAACATGATTTTTAGCAGCGCTTTTATCACAAACGCCGCTAA
1 AGAACATGATCTTTAGCAGCGCTTTTATCACAAACGCCGCTAA
* * *
37582892 AGAACATTACCTTTAGCAGCGCTTTTATCACAAGCGCCGCTAA
1 AGAACATGATCTTTAGCAGCGCTTTTATCACAAACGCCGCTAA
* *
37582935 AGAACATGATCTTTAGCGGCGC-TTTACCCACAAACGCCGCTAAA
1 AGAACATGATCTTTAGCAGCGCTTTTA-TCACAAACGCCGCT-AA
* * * *
37582979 ATAACATGATCTTTGGCGGCGC-TTTACCCACAAACGCCGCTAA
1 AGAACATGATCTTTAGCAGCGCTTTTA-TCACAAACGCCGCTAA
* * * *
37583022 AGATCATTACCTTTAGCAGCGCTTTTATCACAAACGCTGCTAA
1 AGAACATGATCTTTAGCAGCGCTTTTATCACAAACGCCGCTAA
*
37583065 AGATCATG
1 AGAACATG
37583073 TCCTTTAACA
Statistics
Matches: 158, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
42 4 0.03
43 109 0.69
44 45 0.28
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
AGAACATGATCTTTAGCAGCGCTTTTATCACAAACGCCGCTAA
Found at i:37583036 original size:87 final size:87
Alignment explanation
Indices: 37582849--37583079 Score: 263
Period size: 87 Copynumber: 2.7 Consensus size: 87
37582839 GCACCACTAT
** *
37582849 AGAACATGATTTTTAGCAGCGCTTTTATCACAAACGCCGCT-AAAGAACATTACCTTTAGCAGCG
1 AGAACATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAAGAACATGACCTTTAGCAGCG
* *
37582913 CTTTTATCACAAGCGCCGCTAA
66 CTTTTACCACAAACGCCGCTAA
* * * * * * *
37582935 AGAACATGATCTTTAGCGGCGC-TTTACCCACAAACGCCGCTAAAATAACATGATCTTTGGCGGC
1 AGAACATGACCTTTAGCAGCGCTTTTA-TCACAAACGCCGCTAAAAGAACATGACCTTTAGCAGC
37582999 GC-TTTACCCACAAACGCCGCTAA
65 GCTTTTA-CCACAAACGCCGCTAA
* * * * *
37583022 AGATCATTACCTTTAGCAGCGCTTTTATCACAAACGCTGCT-AAAGATCATGTCCTTTA
1 AGAACATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAAGAACATGACCTTTA
37583080 ACAACGTTTA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
85 4 0.03
86 49 0.41
87 63 0.52
88 4 0.03
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (87 bp):
AGAACATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAAGAACATGACCTTTAGCAGCG
CTTTTACCACAAACGCCGCTAA
Found at i:37584511 original size:193 final size:192
Alignment explanation
Indices: 37584115--37584526 Score: 469
Period size: 193 Copynumber: 2.1 Consensus size: 192
37584105 GGTCTATTAT
* * *
37584115 TATGTTCATTAACATCATA-A-AAAATCATCAATTACATCCTAATAACAATTTCAACTCCAAAGT
1 TATGTTCATTAACATCA-ACATAAAAACATCAATTACATCCTAATAACAATTCCAACCCCAAAGT
* * * * * ** *
37584178 TGACTAAAGAAGCTTTGTAGGATATGAAAACACAAGTGCATTTCCATTCAAGTAAATTGTTGTGT
65 TAACTAAAGAAGCATTGCAGGATATCAAAACACAAATGCATTTCCATTCAAGTAAATAATAGTGT
* * *
37584243 TGTAATCACAAAGTTCAAATGAAAACCAATGACTTGAACCCATAAAAAATTCAACTTAGTCTA
130 TGTAATCACAAAGTCCAAATGAAAACCAATGACTTAAACCCATAAAAAATTCAACTTAGTCCA
*
37584306 T-TGTATTCATTAACATCAACATAAAAACATCAATTACTTCCTAATAACAATTCCAACCCCAAAG
1 TATG--TTCATTAACATCAACATAAAAACATCAATTACATCCTAATAACAATTCCAACCCCAAAG
* **
37584370 TTCAATTAAA-AAGCATTGCAGGATA-CACAAATGCAAATGCATTTCCATTCAAGT-AATAATAG
64 TT-AACTAAAGAAGCATTGCAGGATATCA-AAACACAAATGCATTTCCATTCAAGTAAATAATAG
* * * * *
37584432 TGTTTTAATCACAAAGCTCCAAATGTAAACC-ATGACTTAAACCCATTATAGATTACAAACTTAG
127 TGTTGTAATCACAAAG-TCCAAATGAAAACCAATGACTTAAACCCATAAAAAATT-C-AACTTAG
37584496 TCCA
189 TCCA
* *
37584500 TATGCTCATTAACATGAACATTAAAAA
1 TATGTTCATTAACATCAACA-TAAAAA
37584527 AACAATTCTA
Statistics
Matches: 185, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
190 2 0.01
191 2 0.01
192 54 0.29
193 103 0.56
194 22 0.12
195 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.29
Consensus pattern (192 bp):
TATGTTCATTAACATCAACATAAAAACATCAATTACATCCTAATAACAATTCCAACCCCAAAGTT
AACTAAAGAAGCATTGCAGGATATCAAAACACAAATGCATTTCCATTCAAGTAAATAATAGTGTT
GTAATCACAAAGTCCAAATGAAAACCAATGACTTAAACCCATAAAAAATTCAACTTAGTCCA
Found at i:37586644 original size:8 final size:7
Alignment explanation
Indices: 37586626--37586719 Score: 57
Period size: 7 Copynumber: 13.1 Consensus size: 7
37586616 ACTAATTAAT
37586626 CTAAACC
1 CTAAACC
37586633 CTAAACCC
1 CTAAA-CC
37586641 CT-AACC
1 CTAAACC
*
37586647 CTTAAATC
1 C-TAAACC
*
37586655 TTAAACC
1 CTAAACC
*
37586662 C-CAACC
1 CTAAACC
37586668 CTTAAACC
1 C-TAAACC
* *
37586676 GTAAACT
1 CTAAACC
*
37586683 ATAAACC
1 CTAAACC
*
37586690 ATAAACC
1 CTAAACC
37586697 CTAAACC
1 CTAAACC
*
37586704 CATAATCC
1 C-TAAACC
*
37586712 TTAAACC
1 CTAAACC
37586719 C
1 C
37586720 ATAATCTATA
Statistics
Matches: 66, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
6 8 0.12
7 42 0.64
8 16 0.24
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:37586680 original size:21 final size:22
Alignment explanation
Indices: 37586627--37586719 Score: 91
Period size: 21 Copynumber: 4.3 Consensus size: 22
37586617 CTAATTAATC
37586627 TAAACCCTAAACCCCTAACCCT
1 TAAACCCTAAACCCCTAACCCT
* *
37586649 TAAATCTTAAACCCC-AACCCT
1 TAAACCCTAAACCCCTAACCCT
* ** * *
37586670 TAAACCGTAAA-CTATAAACCA
1 TAAACCCTAAACCCCTAACCCT
* *
37586691 TAAACCCTAAACCCATAATCCT
1 TAAACCCTAAACCCCTAACCCT
37586713 TAAACCC
1 TAAACCC
37586720 ATAATCTATA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
20 1 0.02
21 29 0.51
22 27 0.47
ACGTcount: A:0.42, C:0.37, G:0.01, T:0.20
Consensus pattern (22 bp):
TAAACCCTAAACCCCTAACCCT
Found at i:37586733 original size:15 final size:15
Alignment explanation
Indices: 37586684--37586725 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
37586674 CCGTAAACTA
* *
37586684 TAAA-CCATAAACCC
1 TAAACCCATAATCCT
37586698 TAAACCCATAATCCT
1 TAAACCCATAATCCT
37586713 TAAACCCATAATC
1 TAAACCCATAATC
37586726 TATAAACCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACCCATAATCCT
Found at i:37586769 original size:14 final size:14
Alignment explanation
Indices: 37586750--37586801 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
37586740 TAGCATCTTT
*
37586750 TAAACCATAAACGC
1 TAAACCATAAACCC
*
37586764 TAAACCATATACCC
1 TAAACCATAAACCC
* *
37586778 CAAACCATAAACCT
1 TAAACCATAAACCC
*
37586792 TAAACTATAA
1 TAAACCATAA
37586802 TGATAATTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:37586873 original size:19 final size:20
Alignment explanation
Indices: 37586849--37586887 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
37586839 CTTTTACGAT
37586849 TATATAAGA-AATT-ATTTAA
1 TATATAA-ATAATTAATTTAA
37586868 TATATAAATAATTAATTTAA
1 TATATAAATAATTAATTTAA
37586888 ACCGAAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.06
19 11 0.61
20 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
TATATAAATAATTAATTTAA
Found at i:37586994 original size:22 final size:22
Alignment explanation
Indices: 37586954--37587021 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 22
37586944 TCCCTAACGT
** *
37586954 CTAACCCCTAGCCCATAAA-CC
1 CTAACCCCTAAACCTTAAATCC
37586975 CATAACCCCTAAACCTTAAATCC
1 C-TAACCCCTAAACCTTAAATCC
*
37586998 C-AGCCCCTAAACCTT-AATCC
1 CTAACCCCTAAACCTTAAATCC
37587018 CTAA
1 CTAA
37587022 TCCATACTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 6 0.15
21 15 0.38
22 15 0.38
23 3 0.08
ACGTcount: A:0.35, C:0.43, G:0.03, T:0.19
Consensus pattern (22 bp):
CTAACCCCTAAACCTTAAATCC
Found at i:37587018 original size:20 final size:21
Alignment explanation
Indices: 37586980--37587018 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
37586970 AAACCCATAA
37586980 CCCCTAAACCTTAAATCCCAG
1 CCCCTAAACCTTAAATCCCAG
37587001 CCCCTAAACCTT-AATCCC
1 CCCCTAAACCTTAAATCCC
37587019 TAATCCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.31, C:0.46, G:0.03, T:0.21
Consensus pattern (21 bp):
CCCCTAAACCTTAAATCCCAG
Found at i:37587438 original size:41 final size:41
Alignment explanation
Indices: 37587379--37587571 Score: 273
Period size: 41 Copynumber: 4.7 Consensus size: 41
37587369 TAAAATGTTT
* *
37587379 TTAGCGGCGCCTTT-TCAAAAACGCCACTAAAGCCCCCAGCA
1 TTAGCGGCG-CTTTCTCAAAAACGCCGCTAAAGCCACCAGCA
*
37587420 TTAGCGGCGCTTTCTCAAAAACGCCACTAAAGCCACCAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACCAGCA
*
37587461 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACGAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACCAGCA
* * * *
37587502 TTAGCGGTGCTTTCTCAAAAATGCCGCTAAAGCTACCAGGA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACCAGCA
* *
37587543 TTAGCAGCGCTTTTTCAAAAA-GCCGCTAA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAA
37587572 TGCTTGGTTC
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
40 12 0.09
41 128 0.91
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACCAGCA
Found at i:37587610 original size:81 final size:82
Alignment explanation
Indices: 37587379--37587614 Score: 269
Period size: 82 Copynumber: 2.9 Consensus size: 82
37587369 TAAAATGTTT
* * * *
37587379 TTAGCGGCGCCTTT-TCAAAAACGCCACTAAAGCCCCCAGCATTAGCGGCGCTTTCTCAAAAACG
1 TTAGCAGCG-CTTTCTCAAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCTTTCTCAAAAACG
*
37587443 CCACTAAAGCCACCAGCA
65 CCGCTAAAGCCACCAGCA
* * *
37587461 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACGAGCATTAGCGGTGCTTTCTCAAAAATGC
1 TTAGCAGCGCTTTCTCAAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCTTTCTCAAAAACGC
* *
37587526 CGCTAAAGCTACCAGGA
66 CGCTAAAGCCACCAGCA
* * *** ** * * *
37587543 TTAGCAGCGCTTTTTCAAAAA-GCCGCTAATGCTTGGTTCTTTAGCGACGCTTTTTCAAAAACGC
1 TTAGCAGCGCTTTCTCAAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCTTTCTCAAAAACGC
37587607 CGCTAAAG
66 CGCTAAAG
37587615 ACCCGAAAGG
Statistics
Matches: 132, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
81 44 0.33
82 88 0.67
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (82 bp):
TTAGCAGCGCTTTCTCAAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCTTTCTCAAAAACGC
CGCTAAAGCCACCAGCA
Found at i:37593861 original size:40 final size:40
Alignment explanation
Indices: 37593804--37594300 Score: 451
Period size: 40 Copynumber: 12.4 Consensus size: 40
37593794 AATTATTGTA
* * * *
37593804 TGAATGCACATATGTGCCCCTGTTTGGATTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
37593844 TGAATGCACATACGTGCCCCTATTGGTACTTTGGTACTCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
37593884 TAAATTCACATATGTGCCCCTATTTGTACTTCGATACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
37593924 TGAATGCACA-ACATGCCCCTGTTTATACTTCGGTGCCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * * * ** * *
37593963 TGCATGCACATATGTACCCTTATTTGTATTTTAGTACTCA
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
37594003 TGAATTCACATACATGCCCCT-TCTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGT-TTGTACTTCGGTACCCC
* * * * * **
37594043 T-AGATGCACATGCATACCCTTGTTTGTATTTTAGTACCCC
1 TGA-ATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
37594083 TGAATGTACATATGTGCCCCTGTTTGTACTTTGGTACTCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
37594123 TAAATGGACATACGTGCCCCTATTTATACTTCGGTACTCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
37594163 TGAATGCACATATGTGCCGCTGCTTGTACTTCAGTACCCT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
37594203 TGAGTGCACATATGTGCCCCTGTTTGTGCTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
37594243 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCAC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
*
37594283 TGAATGCACATGCGTGCC
1 TGAATGCACATACGTGCC
37594301 ATTTTTTATT
Statistics
Matches: 360, Mismatches: 92, Indels: 10
0.78 0.20 0.02
Matches are distributed among these distances:
39 34 0.09
40 324 0.90
41 2 0.01
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.34
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:37594300 original size:120 final size:119
Alignment explanation
Indices: 37593804--37594293 Score: 509
Period size: 120 Copynumber: 4.1 Consensus size: 119
37593794 AATTATTGTA
** * * ** * *
37593804 TGAATGCACATATGTGCCCCTGTTTGGATTTTGGTACCCCTGAATGCACATACGTGCCCCTATTG
1 TGAATGCACATACATG-CCCTGTTTGTACTTCAGTACCCCTGAATGCACATATGTGCCCCTATTT
* ** *
37593869 GTACTTTGGTACTCCTAAATTCACATATGTGCCCCTATTTGTACTTCGATACCCC
65 GTACTTTGGTACTCCTAAATGCACATACATGCCCCTATTTGTACTTCGGTACCCC
* * * * * *
37593924 TGAATGCACA-ACATGCCCCTGTTTATACTTCGGTGCCCCTGCATGCACATATGTACCCTTATTT
1 TGAATGCACATACATG-CCCTGTTTGTACTTCAGTACCCCTGAATGCACATATGTGCCCCTATTT
* * * * *
37593988 GTATTTTAGTACTCATGAATTCACATACATGCCCCT-TCTTGTACTTCGGTACCCC
65 GTACTTTGGTACTCCTAAATGCACATACATGCCCCTAT-TTGTACTTCGGTACCCC
* * * * * *
37594043 T-AGATGCACATGCATACCCTTGTTTGTATTTTAGTACCCCTGAATGTACATATGTGCCCCTGTT
1 TGA-ATGCACATACATGCCC-TGTTTGTACTTCAGTACCCCTGAATGCACATATGTGCCCCTATT
* * * *
37594107 TGTACTTTGGTACTCCTAAATGGACATACGTGCCCCTATTTATACTTCGGTACTCC
64 TGTACTTTGGTACTCCTAAATGCACATACATGCCCCTATTTGTACTTCGGTACCCC
** * * * *
37594163 TGAATGCACATATGTGCCGCTGCTTGTACTTCAGTACCCTTGAGTGCACATATGTGCCCCTGTTT
1 TGAATGCACATACATGCC-CTGTTTGTACTTCAGTACCCCTGAATGCACATATGTGCCCCTATTT
* * * * *
37594228 GTGCTTTGGTACCCCTGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCAC
65 GTACTTTGGTACTCCTAAATGCACATACATGCCCCTATTTGTACTTCGGTACCCC
37594283 TGAATGCACAT
1 TGAATGCACAT
37594294 GCGTGCCATT
Statistics
Matches: 304, Mismatches: 59, Indels: 14
0.81 0.16 0.04
Matches are distributed among these distances:
118 2 0.01
119 99 0.33
120 200 0.66
121 3 0.01
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.34
Consensus pattern (119 bp):
TGAATGCACATACATGCCCTGTTTGTACTTCAGTACCCCTGAATGCACATATGTGCCCCTATTTG
TACTTTGGTACTCCTAAATGCACATACATGCCCCTATTTGTACTTCGGTACCCC
Found at i:37599144 original size:141 final size:141
Alignment explanation
Indices: 37598901--37599174 Score: 399
Period size: 141 Copynumber: 1.9 Consensus size: 141
37598891 GAGATTCTAC
* * *
37598901 TAGAGGCACATAGTAGTACATATTCTATTCATCCTGGTTGCACTAAGATGTATTGTGATTTGAAA
1 TAGAGGCACATAGTAGTACATATTCCATTCATCCTGGTAGCACGAAGATGTATTGTGATTTGAAA
* * * *
37598966 CAGATGTACTAGATGCTAGGTATAAAACGTGAGATTTGTGAGTTCGTAGATAAATGTTTGATTTG
66 CAGATGTACTAGATGCTAGGTATAAAACCTGAAATTTGTGAGTTCATAGACAAATGTTTGATTTG
37599031 TCAGCAGGAAT
131 TCAGCAGGAAT
* *
37599042 TAGAGGCTCATAGTAGTACCTATTCCATTCAT-CTGAGTAGCACGAAGATGTATTGTGATTTGAA
1 TAGAGGCACATAGTAGTACATATTCCATTCATCCTG-GTAGCACGAAGATGTATTGTGATTTGAA
* * * *
37599106 ACAGATGTACT-GGTGGTCAGGTATGAAACCTGAAATTTGTGAGTTCATAGCCAAATGTTTGATT
65 ACAGATGTACTAGATGCT-AGGTATAAAACCTGAAATTTGTGAGTTCATAGACAAATGTTTGATT
37599170 TGTCA
129 TGTCA
37599175 ATTGGTAAAA
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
140 7 0.06
141 111 0.94
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (141 bp):
TAGAGGCACATAGTAGTACATATTCCATTCATCCTGGTAGCACGAAGATGTATTGTGATTTGAAA
CAGATGTACTAGATGCTAGGTATAAAACCTGAAATTTGTGAGTTCATAGACAAATGTTTGATTTG
TCAGCAGGAAT
Found at i:37604820 original size:120 final size:120
Alignment explanation
Indices: 37604659--37604967 Score: 410
Period size: 120 Copynumber: 2.6 Consensus size: 120
37604649 TTTAGTAACT
*
37604659 CACACAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACC
1 CACA-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACAAATGCCTTCGGGACTTAACC
37604724 CGG-ATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
65 CGGAATTT-GTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
* * * * *
37604780 CACAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGGGGCTTAACC
1 CACAAATGCCTTCGGGACATAACCCGG-ATTTAATAACTCGCACAAATGCCTTCGGGACTTAACC
*
37604844 CGGAATTTGTATCTCGCACAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
65 CGGAATTTGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
* ** * * * * *
37604900 CACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CACAAATGCCTTCGGGA-CATAACCCGGATTTAATAAC-TCGCACAAATGCCTTCGGGACTTAAC
37604963 CCGGA
64 CCGGA
37604968 CAGCATTCAA
Statistics
Matches: 166, Mismatches: 17, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
119 5 0.03
120 141 0.85
121 20 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (120 bp):
CACAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACAAATGCCTTCGGGACTTAACCC
GGAATTTGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
Found at i:37604927 original size:40 final size:40
Alignment explanation
Indices: 37604623--37604914 Score: 412
Period size: 40 Copynumber: 7.3 Consensus size: 40
37604613 GCTCCTCGTT
* * * * * *
37604623 CAAATGCCTTCGGGACATAGCCCGG-TTTTAGTAACTCACA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
* * * *
37604663 C-AATGCCTTCGGGACATAACCCGG-ATTTAATAACTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
* *
37604702 CGAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
*
37604742 CAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
37604782 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
37604822 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
37604862 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
37604902 CAAATGCCTTCGG
1 CAAATGCCTTCGG
37604915 ATCTTAGTCC
Statistics
Matches: 239, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 35 0.15
40 200 0.84
41 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
Found at i:37604976 original size:41 final size:41
Alignment explanation
Indices: 37604899--37604976 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37604889 TTTGTATCTC
* * *
37604899 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37604940 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37604977 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37612825 original size:40 final size:40
Alignment explanation
Indices: 37612727--37613109 Score: 565
Period size: 40 Copynumber: 9.6 Consensus size: 40
37612717 TCCTCGTTCA
* * * * *
37612727 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
37612766 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37612806 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37612846 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37612886 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37612926 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37612966 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
37613006 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
37613046 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
37613086 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37613110 CAGCATTCAA
Statistics
Matches: 320, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 37 0.12
40 275 0.86
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:37618396 original size:21 final size:21
Alignment explanation
Indices: 37618372--37618415 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
37618362 TCAGATAGGC
37618372 CACATGGTTGTGT-GAGTGGGT
1 CACATGGTTGTGTGGA-TGGGT
37618393 CACATGGTTGTGTGGATGGGT
1 CACATGGTTGTGTGGATGGGT
37618414 CA
1 CA
37618416 AACGATCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.16, C:0.11, G:0.41, T:0.32
Consensus pattern (21 bp):
CACATGGTTGTGTGGATGGGT
Found at i:37620987 original size:16 final size:17
Alignment explanation
Indices: 37620963--37620997 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
37620953 GGGAGGACAC
37620963 TTAAAAAAAATTCTGCT
1 TTAAAAAAAATTCTGCT
37620980 TTAAAAAAAATTCTGCT
1 TTAAAAAAAATTCTGCT
37620997 T
1 T
37620998 GTTTTTCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (17 bp):
TTAAAAAAAATTCTGCT
Found at i:37624701 original size:17 final size:18
Alignment explanation
Indices: 37624668--37624702 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
37624658 CTTGTTGACA
37624668 TAAAACTACTAAATAATT
1 TAAAACTACTAAATAATT
*
37624686 TAAAAC-ACTTAATAATT
1 TAAAACTACTAAATAATT
37624703 ATCACAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAACTACTAAATAATT
Found at i:37628088 original size:28 final size:27
Alignment explanation
Indices: 37628024--37628203 Score: 279
Period size: 28 Copynumber: 6.6 Consensus size: 27
37628014 ATATTAAGTC
* *
37628024 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
37628051 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
37628079 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
37628106 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
37628134 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
37628162 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
37628189 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37628204 GCACAATTTA
Statistics
Matches: 143, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
27 66 0.46
28 76 0.53
29 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:37628108 original size:55 final size:55
Alignment explanation
Indices: 37628024--37628203 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
37628014 ATATTAAGTC
* * *
37628024 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
37628079 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
* *
37628134 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATATTCA-ATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCATACT
37628189 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37628204 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 92 0.77
56 27 0.23
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
Found at i:37628163 original size:83 final size:82
Alignment explanation
Indices: 37628024--37628203 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
37628014 ATATTAAGTC
* * *
37628024 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
37628089 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
*
37628106 CGCACACTTAGTGCTACATAATCATACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
* *
37628171 AGTGCTACATATTCAATT
65 AGTGCTACATAGTCAACT
37628189 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37628204 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 22 0.24
83 69 0.76
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:37636401 original size:28 final size:27
Alignment explanation
Indices: 37636340--37636436 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
37636330 TTATTAAGTC
* *
37636340 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
37636367 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
37636395 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
37636422 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37636437 GCACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 38 0.59
28 26 0.41
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:37641725 original size:109 final size:110
Alignment explanation
Indices: 37641533--37641747 Score: 405
Period size: 109 Copynumber: 2.0 Consensus size: 110
37641523 CACTTTATTG
*
37641533 GAGATCCTTCTCATCTTAAAGATAGAAATTCAGAATTATTATCAAATTTAAAATGTAAAAAATTA
1 GAGATCCTTCTCATCTTAAAGATAGAAATTCAGAATTATTATCAAATTTAAAATGCAAAAAATTA
37641598 ACCGATTTTAAATGGTATAAAGATGTCTTTATGACTAGAGTCATA
66 ACCGATTTTAAATGGTATAAAGATGTCTTTATGACTAGAGTCATA
37641643 GAGATCCTTCTCATCTTAAAGA-AGAAATTCAGAATTATTATCAAATTTAAAATGCAAAAAATTA
1 GAGATCCTTCTCATCTTAAAGATAGAAATTCAGAATTATTATCAAATTTAAAATGCAAAAAATTA
*
37641707 ACCGATTTTAAATGGTATAAAGATGTCTTTATGGCTAGAGT
66 ACCGATTTTAAATGGTATAAAGATGTCTTTATGACTAGAGT
37641748 TATGCAAAGA
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
109 81 0.79
110 22 0.21
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.34
Consensus pattern (110 bp):
GAGATCCTTCTCATCTTAAAGATAGAAATTCAGAATTATTATCAAATTTAAAATGCAAAAAATTA
ACCGATTTTAAATGGTATAAAGATGTCTTTATGACTAGAGTCATA
Found at i:37643346 original size:21 final size:22
Alignment explanation
Indices: 37643322--37643366 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
37643312 AGAAAAAGAG
37643322 AAATACAAAAAAG-AATA-AATC
1 AAAT-CAAAAAAGAAATAGAATC
*
37643343 AAATTAAAAAAGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
37643365 AA
1 AA
37643367 CAATTTGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 8 0.38
22 6 0.29
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.16
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:37644441 original size:17 final size:17
Alignment explanation
Indices: 37644419--37644451 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37644409 AAAGGAGGAA
*
37644419 AAGAGCAAGTAGTCCAC
1 AAGAGCAAATAGTCCAC
37644436 AAGAGCAAATAGTCCA
1 AAGAGCAAATAGTCCA
37644452 GTTTACTTCC
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:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (17 bp):
AAGAGCAAATAGTCCAC
Found at i:37646490 original size:41 final size:41
Alignment explanation
Indices: 37646388--37646493 Score: 185
Period size: 41 Copynumber: 2.6 Consensus size: 41
37646378 ACTGGCAATT
* * *
37646388 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
37646429 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
37646470 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
37646494 TTATCTCATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:37652161 original size:74 final size:74
Alignment explanation
Indices: 37652040--37652185 Score: 265
Period size: 74 Copynumber: 2.0 Consensus size: 74
37652030 CTCGAGCTTC
* *
37652040 ATAGTCAGCTTTCCTTTTCTCTTTCCCGAGCTCCTCAGCTTTACAAGCTCGCTCAACAAGTACTA
1 ATAGTCAGCTTTCCTCTTCTATTTCCCGAGCTCCTCAGCTTTACAAGCTCGCTCAACAAGTACTA
37652105 CGAACTCTT
66 CGAACTCTT
*
37652114 ATAGTCAGCTTTCCTCTTCTATTTCCCGAGCTCCTCAGCTTTACAAGCTCGTTCAACAAGTACTA
1 ATAGTCAGCTTTCCTCTTCTATTTCCCGAGCTCCTCAGCTTTACAAGCTCGCTCAACAAGTACTA
37652179 CGAACTC
66 CGAACTC
37652186 CTTTATCTCA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.23, C:0.32, G:0.12, T:0.33
Consensus pattern (74 bp):
ATAGTCAGCTTTCCTCTTCTATTTCCCGAGCTCCTCAGCTTTACAAGCTCGCTCAACAAGTACTA
CGAACTCTT
Found at i:37653653 original size:20 final size:20
Alignment explanation
Indices: 37653628--37653696 Score: 84
Period size: 20 Copynumber: 3.2 Consensus size: 20
37653618 TAATACCTAC
37653628 ATTCGAATATATATATACAT
1 ATTCGAATATATATATACAT
*
37653648 ATTCGAATACATAGCTAATACAT
1 ATTCGAATATATA--T-ATACAT
37653671 ACATTCGAATATATATATACAT
1 --ATTCGAATATATATATACAT
37653693 ATTC
1 ATTC
37653697 ATCATATACA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
20 16 0.38
22 7 0.17
23 7 0.17
25 12 0.29
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.36
Consensus pattern (20 bp):
ATTCGAATATATATATACAT
Found at i:37653660 original size:45 final size:45
Alignment explanation
Indices: 37653608--37653696 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
37653598 TTTATACCTA
*
37653608 AATACATAGCTAATACCTACATTCGAATATATATATACATATTCG
1 AATACATAGCTAATACATACATTCGAATATATATATACATATTCG
37653653 AATACATAGCTAATACATACATTCGAATATATATATACATATTC
1 AATACATAGCTAATACATACATTCGAATATATATATACATATTC
37653697 ATCATATACA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.34
Consensus pattern (45 bp):
AATACATAGCTAATACATACATTCGAATATATATATACATATTCG
Found at i:37653679 original size:25 final size:25
Alignment explanation
Indices: 37653608--37653681 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
37653598 TTTATACCTA
*
37653608 AATACATAGCTAATACCTACATTCG
1 AATACATAGCTAATACATACATTCG
*
37653633 AATATATA--T-ATACAT--ATTCG
1 AATACATAGCTAATACATACATTCG
37653653 AATACATAGCTAATACATACATTCG
1 AATACATAGCTAATACATACATTCG
37653678 AATA
1 AATA
37653682 TATATATACA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
20 12 0.29
22 6 0.15
23 7 0.17
25 16 0.39
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.31
Consensus pattern (25 bp):
AATACATAGCTAATACATACATTCG
Found at i:37655199 original size:18 final size:17
Alignment explanation
Indices: 37655166--37655204 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
37655156 TTGTATAAAT
37655166 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
37655184 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
37655201 TGTG
1 TGTG
37655205 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:37655457 original size:23 final size:23
Alignment explanation
Indices: 37655431--37655504 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
37655421 GTGTTATTGA
37655431 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
37655454 TCAGTTGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
37655476 CCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
37655499 TCAGTG
1 TCAGTG
37655505 TGGCACTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 19 0.44
23 24 0.56
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.34
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:37655485 original size:22 final size:22
Alignment explanation
Indices: 37655432--37655497 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
37655422 TGTTATTGAT
*
37655432 CAGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACA-TC
* *
37655455 CAGTTGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATC
37655477 CAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACAT
37655498 ATCAGTGTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
22 20 0.53
23 18 0.47
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (22 bp):
CAGTGGTAGCTTCGGCTACATC
Found at i:37657052 original size:11 final size:11
Alignment explanation
Indices: 37657038--37657070 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
37657028 ATTTTACTTT
*
37657038 TATATTTAATA
1 TATATATAATA
37657049 TATATATAATA
1 TATATATAATA
37657060 TATATATAATA
1 TATATATAATA
37657071 GCCATCATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATATATAATA
Found at i:37658257 original size:34 final size:34
Alignment explanation
Indices: 37658214--37658390 Score: 185
Period size: 34 Copynumber: 5.1 Consensus size: 34
37658204 AAATGATACC
* *
37658214 AGAAATGATGTATGAACAGGAGAGATTCCCTACA
1 AGAAATGATGTGTGAACAGGAGAGATTCCCTGCA
*
37658248 AGAAATGATGTGTGAACAGGAGAGATTTCCTGCA
1 AGAAATGATGTGTGAACAGGAGAGATTCCCTGCA
* * * * * *
37658282 ACAAAATAATGCGTGAACAAGAAAGATTCCCTCCA
1 A-GAAATGATGTGTGAACAGGAGAGATTCCCTGCA
* *
37658317 AGAAATGATGTGTGAACATGAGAGATTCTCTGCA
1 AGAAATGATGTGTGAACAGGAGAGATTCCCTGCA
* * * *
37658351 ACAAAATAATGTGTGAACAGGAAATATTCCCT-CTA
1 A-GAAATGATGTGTGAACAGGAGAGATTCCCTGC-A
37658386 AGAAA
1 AGAAA
37658391 AGACAAGTGA
Statistics
Matches: 116, Mismatches: 24, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
34 63 0.54
35 53 0.46
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.22
Consensus pattern (34 bp):
AGAAATGATGTGTGAACAGGAGAGATTCCCTGCA
Found at i:37658340 original size:69 final size:69
Alignment explanation
Indices: 37658226--37658390 Score: 251
Period size: 69 Copynumber: 2.4 Consensus size: 69
37658216 AAATGATGTA
* *
37658226 TGAACAGGAGAGATTCCCTACAAGAAATGATGTGTGAACAGGAGAGATT-TCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTCCAAGAAATGATGTGTGAACAGGAGAGATTCT-CTGCAACAAAATA
37658290 ATGCG
65 ATGCG
* *
37658295 TGAACAAGAAAGATTCCCTCCAAGAAATGATGTGTGAACATGAGAGATTCTCTGCAACAAAATAA
1 TGAACAGGAAAGATTCCCTCCAAGAAATGATGTGTGAACAGGAGAGATTCTCTGCAACAAAATAA
*
37658360 TGTG
66 TGCG
* *
37658364 TGAACAGGAAATATTCCCTCTAAGAAA
1 TGAACAGGAAAGATTCCCTCCAAGAAA
37658391 AGACAAGTGA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
69 86 0.99
70 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (69 bp):
TGAACAGGAAAGATTCCCTCCAAGAAATGATGTGTGAACAGGAGAGATTCTCTGCAACAAAATAA
TGCG
Found at i:37662621 original size:37 final size:37
Alignment explanation
Indices: 37662580--37662653 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
37662570 CTCACAACAA
*
37662580 TCCTTTTAGTAGATGGATCAAAGACCCTATACCCTTT
1 TCCTTTTAGTAGATGGATCAAAGACACTATACCCTTT
*
37662617 TCCTTTTAGTAGATGGATCAAAGACACTATACTCTTT
1 TCCTTTTAGTAGATGGATCAAAGACACTATACCCTTT
37662654 CTTCACACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (37 bp):
TCCTTTTAGTAGATGGATCAAAGACACTATACCCTTT
Found at i:37666621 original size:24 final size:25
Alignment explanation
Indices: 37666594--37666645 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 25
37666584 TAGGTTTAGG
37666594 TTTTGTTTTT-TTTT-TCTTTTCATT
1 TTTTGTTTTTGTTTTCTCTTTTC-TT
37666618 TTTTGTTTTTGTTTTCTCTTTTCTT
1 TTTTGTTTTTGTTTTCTCTTTTCTT
37666643 TTT
1 TTT
37666646 AGAGTAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 10 0.38
25 9 0.35
26 7 0.27
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.83
Consensus pattern (25 bp):
TTTTGTTTTTGTTTTCTCTTTTCTT
Found at i:37668932 original size:40 final size:40
Alignment explanation
Indices: 37668849--37669111 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
37668839 TTGAATGCTG
* * * * * *
37668849 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
37668889 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
37668929 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
37668969 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
37669009 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
37669049 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
37669088 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
37669112 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:37669131 original size:79 final size:80
Alignment explanation
Indices: 37668888--37669146 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
37668878 AAGTGAATAT
* * * * * *
37668888 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
37668952 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
37668968 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
37669033 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
37669048 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
37669112 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
37669127 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
37669147 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:37676885 original size:40 final size:40
Alignment explanation
Indices: 37676802--37677064 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
37676792 TTGAATGCTG
* * * * * *
37676802 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
37676842 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
37676882 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
37676922 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
37676962 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
37677002 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
37677041 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
37677065 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:37677084 original size:79 final size:80
Alignment explanation
Indices: 37676841--37677099 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
37676831 AAGTGAATAT
* * * * * *
37676841 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
37676905 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
37676921 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
37676986 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
37677001 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
37677065 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
37677080 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
37677100 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:37680662 original size:54 final size:54
Alignment explanation
Indices: 37680595--37680697 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 54
37680585 AGATTCACAC
* * * * *
37680595 GGGCTATCGCACGGGTTGATAAACAGGCTTGTGAACCAAGTCAGTGAGTCATAT
1 GGGCTAGCACACGGGTTGACAAACAGGCATATGAACCAAGTCAGTGAGTCATAT
** *
37680649 GGGCTAGCACACGGGTTGACACTCAGGCATATGAACCATGTCAGTGAGT
1 GGGCTAGCACACGGGTTGACAAACAGGCATATGAACCAAGTCAGTGAGT
37680698 TACACAGGTG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (54 bp):
GGGCTAGCACACGGGTTGACAAACAGGCATATGAACCAAGTCAGTGAGTCATAT
Found at i:37686065 original size:20 final size:19
Alignment explanation
Indices: 37686042--37686084 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
37686032 GGATTGAGAA
*
37686042 AATTATTTAATTAAAAAATT
1 AATTAATTAA-TAAAAAATT
*
37686062 AATTAATTAATCAAAAATT
1 AATTAATTAATAAAAAATT
37686081 AATT
1 AATT
37686085 TAATATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTAATTAATAAAAAATT
Found at i:37686087 original size:20 final size:17
Alignment explanation
Indices: 37686040--37686088 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
37686030 TTGGATTGAG
37686040 AAAATT-ATTTAATTAA
1 AAAATTAATTTAATTAA
37686056 AAAATTAA-TTAATTAATCA
1 AAAATTAATTTAATT-A--A
37686075 AAAATTAATTTAAT
1 AAAATTAATTTAAT
37686089 ATATAATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 12 0.43
17 2 0.07
19 9 0.32
20 5 0.18
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATTAATTTAATTAA
Found at i:37688715 original size:7 final size:7
Alignment explanation
Indices: 37688699--37688749 Score: 66
Period size: 7 Copynumber: 7.3 Consensus size: 7
37688689 ACTTTTTCAA
*
37688699 TCATCAC
1 TCATCCC
37688706 TCATCCC
1 TCATCCC
37688713 TCATCCC
1 TCATCCC
*
37688720 CCATCCC
1 TCATCCC
*
37688727 CCATCCC
1 TCATCCC
*
37688734 CCATCCC
1 TCATCCC
37688741 TCATCCC
1 TCATCCC
37688748 TC
1 TC
37688750 TCATCTCTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.16, C:0.61, G:0.00, T:0.24
Consensus pattern (7 bp):
TCATCCC
Found at i:37688724 original size:14 final size:14
Alignment explanation
Indices: 37688707--37688762 Score: 76
Period size: 14 Copynumber: 3.9 Consensus size: 14
37688697 AATCATCACT
37688707 CATCCCTCATCCCC
1 CATCCCTCATCCCC
*
37688721 CATCCCCCATCCCC
1 CATCCCTCATCCCC
37688735 CATCCCTCATCCCTC
1 CATCCCTCATCCC-C
*
37688750 TCATCTCTCATCC
1 -CATCCCTCATCC
37688763 TTTCTCTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
14 25 0.68
15 1 0.03
16 11 0.30
ACGTcount: A:0.14, C:0.61, G:0.00, T:0.25
Consensus pattern (14 bp):
CATCCCTCATCCCC
Found at i:37699283 original size:21 final size:21
Alignment explanation
Indices: 37699257--37699299 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
37699247 ATACTATGCA
37699257 TATTGCAGTAACTCACCCGAC
1 TATTGCAGTAACTCACCCGAC
37699278 TATTGCAGTAACTCACCCGAC
1 TATTGCAGTAACTCACCCGAC
37699299 T
1 T
37699300 TATACTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.26
Consensus pattern (21 bp):
TATTGCAGTAACTCACCCGAC
Found at i:37699556 original size:43 final size:43
Alignment explanation
Indices: 37699492--37699613 Score: 163
Period size: 43 Copynumber: 2.8 Consensus size: 43
37699482 ATATCAAAAC
* * * * *
37699492 AACTATACTGGCATACACAGTGCATCATCAGATATACTGAGGT
1 AACTATACTAGCACACACAGTGCATCATCAAATATACCGAAGT
*
37699535 AACTATACTAGCACACGCAGTGCATCATCAAATATACCGAAGT
1 AACTATACTAGCACACACAGTGCATCATCAAATATACCGAAGT
* * *
37699578 AACTATACTAGCACACACAGCGCACCATCGAATATA
1 AACTATACTAGCACACACAGTGCATCATCAAATATA
37699614 TCGTAGGCAC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.21
Consensus pattern (43 bp):
AACTATACTAGCACACACAGTGCATCATCAAATATACCGAAGT
Found at i:37701143 original size:40 final size:39
Alignment explanation
Indices: 37701045--37701227 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 39
37701035 TCCTCGTTCA
* * * *
37701045 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
37701084 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
37701123 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * * * *
37701163 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
37701204 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37701228 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 38 0.31
40 76 0.62
41 8 0.07
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:37707424 original size:27 final size:27
Alignment explanation
Indices: 37707394--37707571 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37707384 ATATTGAGTC
* * * *
37707394 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
37707421 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37707448 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
37707476 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
37707503 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
37707530 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37707557 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37707572 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:37707533 original size:82 final size:81
Alignment explanation
Indices: 37707415--37707570 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37707405 TGCTATATAA
* *
37707415 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
37707480 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37707497 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
37707561 CACTTAGTGC
65 CACTTAGTGC
37707571 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37709424 original size:43 final size:43
Alignment explanation
Indices: 37709349--37709483 Score: 130
Period size: 43 Copynumber: 3.1 Consensus size: 43
37709339 GCTTCATTAG
** * * *
37709349 ATATACCCCAGTAACTATACTAGCACACACAGTGCATCATCGA
1 ATATACCAAAGTAACTATACTTGCACATACAGTGCATTATCGA
* *
37709392 ATATACCAAAGTAACTATACTTGAACATACAGTGTATTATC-A
1 ATATACCAAAGTAACTATACTTGCACATACAGTGCATTATCGA
** * * *
37709434 GATATACGGAAGTAATTATA-TTGCCACTTGCAGTGCATTATCGA
1 -ATATACCAAAGTAACTATACTTG-CACATACAGTGCATTATCGA
37709478 ATATAC
1 ATATAC
37709484 TGTAACAGCT
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
42 4 0.05
43 70 0.93
44 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (43 bp):
ATATACCAAAGTAACTATACTTGCACATACAGTGCATTATCGA
Found at i:37711990 original size:43 final size:43
Alignment explanation
Indices: 37711915--37712185 Score: 224
Period size: 43 Copynumber: 6.3 Consensus size: 43
37711905 GGGATGCTAC
* * * *
37711915 ATATACCAAAGTAACTATACTTGAACATACAATGCATCATCAG
1 ATATACCGAAGTAACTATACTAGCACACACAATGCATCATCAG
* * **
37711958 ATACACCGAAGTAACTATACTGGCACACACAATGCATCATTGG
1 ATATACCGAAGTAACTATACTAGCACACACAATGCATCATCAG
* * * *
37712001 ATATATCGAAGTAACTATACTAGAACATACAATGCATCATCGG
1 ATATACCGAAGTAACTATACTAGCACACACAATGCATCATCAG
* * * * * *
37712044 ATATACCAAAGTAACTATACCACCAGACATAGTGCATCATCAG
1 ATATACCGAAGTAACTATACTAGCACACACAATGCATCATCAG
* * * * * *
37712087 ATATATCGAAGTAACTATACTGGCACAAATAGTTCATCATCAG
1 ATATACCGAAGTAACTATACTAGCACACACAATGCATCATCAG
** * * * *
37712130 ATATATTGATA-TAACTATA-TTGATACATACAGTGCATCATC-G
1 ATATACCGA-AGTAACTATACTAG-CACACACAATGCATCATCAG
37712172 TATATACCGAAGTA
1 -ATATACCGAAGTA
37712186 TAACCTGGAT
Statistics
Matches: 185, Mismatches: 39, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
42 4 0.02
43 180 0.97
44 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (43 bp):
ATATACCGAAGTAACTATACTAGCACACACAATGCATCATCAG
Found at i:37712060 original size:86 final size:86
Alignment explanation
Indices: 37711923--37712107 Score: 262
Period size: 86 Copynumber: 2.2 Consensus size: 86
37711913 ACATATACCA
* * ***
37711923 AAGTAACTATACTTGAACATACAATGCATCATCAGATACACCGAAGTAACTATACTGGCACACAC
1 AAGTAACTATACTAGAACATACAATGCATCATCAGATACACCAAAGTAACTATACCACCACACAC
**
37711988 AATGCATCATTGGATATATCG
66 AATGCATCATCAGATATATCG
* * * *
37712009 AAGTAACTATACTAGAACATACAATGCATCATCGGATATACCAAAGTAACTATACCACCAGACAT
1 AAGTAACTATACTAGAACATACAATGCATCATCAGATACACCAAAGTAACTATACCACCACACAC
*
37712074 AGTGCATCATCAGATATATCG
66 AATGCATCATCAGATATATCG
37712095 AAGTAACTATACT
1 AAGTAACTATACT
37712108 GGCACAAATA
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (86 bp):
AAGTAACTATACTAGAACATACAATGCATCATCAGATACACCAAAGTAACTATACCACCACACAC
AATGCATCATCAGATATATCG
Found at i:37712145 original size:129 final size:128
Alignment explanation
Indices: 37711915--37712185 Score: 332
Period size: 129 Copynumber: 2.1 Consensus size: 128
37711905 GGGATGCTAC
* *
37711915 ATATACCAAAGTAACTATACTTGAACATACAATGCATCATCAGATACACCGAAGTAACTATACTG
1 ATATACCAAAGTAACTATAC-TCAACAGACAATGCATCATCAGATACACCGAAGTAACTATACTG
* **
37711980 GCACACACAATGCATCATTGGATATATCGAAGTAACTATACTAGA-ACATACAATGCATCATCGG
65 GCACAAACAATGCATCATCAGATATATCGAAGTAACTATA-TAGATACATACAATGCATCATCGG
* * *
37712044 ATATACCAAAGTAACTATAC-CACCAGACATAGTGCATCATCAGATATATCGAAGTAACTATACT
1 ATATACCAAAGTAACTATACTCAACAGACA-A-TGCATCATCAGATACACCGAAGTAACTATACT
* * * * * *
37712108 GGCACAAATAGTTCATCATCAGATATATTGATA-TAACTATATTGATACATACAGTGCATCATCG
64 GGCACAAACAATGCATCATCAGATATATCGA-AGTAACTATATAGATACATACAATGCATCATCG
*
37712172 T
128 G
*
37712173 ATATACCGAAGTA
1 ATATACCAAAGTA
37712186 TAACCTGGAT
Statistics
Matches: 122, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
127 6 0.05
128 4 0.03
129 111 0.91
130 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (128 bp):
ATATACCAAAGTAACTATACTCAACAGACAATGCATCATCAGATACACCGAAGTAACTATACTGG
CACAAACAATGCATCATCAGATATATCGAAGTAACTATATAGATACATACAATGCATCATCGG
Found at i:37712148 original size:86 final size:86
Alignment explanation
Indices: 37711923--37712134 Score: 253
Period size: 86 Copynumber: 2.5 Consensus size: 86
37711913 ACATATACCA
* * * * *** * *
37711923 AAGTAACTATACTTGAACATACAATGCATCATCAGATACACCGAAGTAACTATACTGGCACACAC
1 AAGTAACTATACTAGAACAAACAATGCATCATCAGATATACCAAAGTAACTATACCACCAGACAT
* **
37711988 AATGCATCATTGGATATATCG
66 AGTGCATCATCAGATATATCG
* *
37712009 AAGTAACTATACTAGAACATACAATGCATCATCGGATATACCAAAGTAACTATACCACCAGACAT
1 AAGTAACTATACTAGAACAAACAATGCATCATCAGATATACCAAAGTAACTATACCACCAGACAT
37712074 AGTGCATCATCAGATATATCG
66 AGTGCATCATCAGATATATCG
* * * * *
37712095 AAGTAACTATACTGGCACAAATAGTTCATCATCAGATATA
1 AAGTAACTATACTAGAACAAACAATGCATCATCAGATATA
37712135 TTGATATAAC
Statistics
Matches: 107, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 107 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (86 bp):
AAGTAACTATACTAGAACAAACAATGCATCATCAGATATACCAAAGTAACTATACCACCAGACAT
AGTGCATCATCAGATATATCG
Found at i:37713313 original size:33 final size:33
Alignment explanation
Indices: 37713276--37713341 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
37713266 TCGCGAGGTG
37713276 TGCATTATAACTAACCGCCTTCAGACATACTAA
1 TGCATTATAACTAACCGCCTTCAGACATACTAA
37713309 TGCATTATAACTAACCGCCTTCAGACATACTAA
1 TGCATTATAACTAACCGCCTTCAGACATACTAA
37713342 CGTCCCGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.27
Consensus pattern (33 bp):
TGCATTATAACTAACCGCCTTCAGACATACTAA
Found at i:37713342 original size:19 final size:19
Alignment explanation
Indices: 37713285--37713342 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
37713275 GTGCATTATA
37713285 ACTAACCGCCTTCAGACAT
1 ACTAACCGCCTTCAGACAT
* * *
37713304 ACTAA-TGCATT---ATA-
1 ACTAACCGCCTTCAGACAT
37713318 ACTAACCGCCTTCAGACAT
1 ACTAACCGCCTTCAGACAT
37713337 ACTAAC
1 ACTAAC
37713343 GTCCCGAGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 10
0.64 0.14 0.23
Matches are distributed among these distances:
14 5 0.18
15 6 0.21
18 6 0.21
19 11 0.39
ACGTcount: A:0.36, C:0.31, G:0.09, T:0.24
Consensus pattern (19 bp):
ACTAACCGCCTTCAGACAT
Found at i:37716845 original size:17 final size:17
Alignment explanation
Indices: 37716823--37716855 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37716813 CTTTTTAACA
37716823 TTTGATTGATCTTTCTG
1 TTTGATTGATCTTTCTG
37716840 TTTGATTGATCTTTCT
1 TTTGATTGATCTTTCT
37716856 AATATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.61
Consensus pattern (17 bp):
TTTGATTGATCTTTCTG
Found at i:37722095 original size:12 final size:12
Alignment explanation
Indices: 37722075--37722128 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
37722065 CAGTAAAATA
37722075 ATAATAAATAAT
1 ATAATAAATAAT
*
37722087 ATAACAAATAAT
1 ATAATAAATAAT
37722099 A-AATAAATAA-
1 ATAATAAATAAT
37722109 ATAAATAAA-AAT
1 AT-AATAAATAAT
*
37722121 AAAATAAA
1 ATAATAAA
37722129 GAAAAGGGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
10 1 0.03
11 16 0.44
12 19 0.53
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:37722103 original size:4 final size:4
Alignment explanation
Indices: 37722077--37722117 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
37722067 GTAAAATAAT
*
37722077 AATA AAT- AATA TAACA AAT- AATA AATA AATA AATA AATA AA
1 AATA AATA AATA -AATA AATA AATA AATA AATA AATA AATA AA
37722118 AATAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 6 0.19
4 23 0.72
5 3 0.09
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:37722110 original size:15 final size:15
Alignment explanation
Indices: 37722070--37722128 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
37722060 TAGATCAGTA
37722070 AAATAAT-AATAAAT
1 AAATAATAAATAAAT
*
37722084 AATATAACAAAT-AAT
1 AA-ATAATAAATAAAT
37722099 AAATAAATAAATAAAT
1 AAAT-AATAAATAAAT
37722115 AAA-AATAAAATAAA
1 AAATAAT-AAATAAA
37722129 GAAAAGGGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 7 0.18
15 22 0.58
16 9 0.24
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAATAAATAAAT
Found at i:37722125 original size:19 final size:20
Alignment explanation
Indices: 37722070--37722128 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 20
37722060 TAGATCAGTA
*
37722070 AAAT-AATAATAAATAATAT
1 AAATAAATAATAAATAAAAT
*
37722089 -AACAAATAATAAAT-AAAT
1 AAATAAATAATAAATAAAAT
37722107 AAATAAATAA-AAATAAAAT
1 AAATAAATAATAAATAAAAT
37722126 AAA
1 AAA
37722129 GAAAAGGGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 9 0.26
19 25 0.74
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATAAATAATAAATAAAAT
Found at i:37724792 original size:94 final size:92
Alignment explanation
Indices: 37724684--37724852 Score: 257
Period size: 94 Copynumber: 1.8 Consensus size: 92
37724674 CATGTTCCTT
** * *
37724684 CATTAACTAGCTTTAATGTATCAGCTGGATGCATGAATTTCCAGCTGAAAAAAATAGCTCCCTTT
1 CATTAACTAGCTTTAATGTATCAGCTAAATACATGAATTTCCAGCCG-AAAAAA-AGCTCCCTTT
37724749 GTTCAAGCACATTCGGGTACATTGCTCTC
64 GTTCAAGCACATTCGGGTACATTGCTCTC
* *
37724778 CATTAAGTAGCTTTAATGTATCAGCTAAATACATGAATTTCCAGCCGCAAAAAAGCTCCCTTTGT
1 CATTAACTAGCTTTAATGTATCAGCTAAATACATGAATTTCCAGCCGAAAAAAAGCTCCCTTTGT
*
37724843 TCATGCACAT
66 TCAAGCACAT
37724853 GTGGGTGCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
92 21 0.31
93 5 0.07
94 42 0.62
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (92 bp):
CATTAACTAGCTTTAATGTATCAGCTAAATACATGAATTTCCAGCCGAAAAAAAGCTCCCTTTGT
TCAAGCACATTCGGGTACATTGCTCTC
Found at i:37724897 original size:92 final size:93
Alignment explanation
Indices: 37724691--37724918 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 93
37724681 CTTCATTAAC
* ** * * *
37724691 TAGCTTTAATGTATCAGCTGGATGCATGAATTTCCAGCTGAAAAAAATAGCTCCCTTTGTTCAAG
1 TAGCTTCAATGTATCAGCTAAATACATGAATTTCCAGCCG-CAAAAATAGCTCCCTTTGTTCAAG
*
37724756 CACATTCGGGTACATTGCTCTCCATTAAG
65 CACATTCGGGTACATTGCTCTCCAATAAG
* *
37724785 TAGCTTTAATGTATCAGCTAAATACATGAATTTCCAGCCGCAAAAA-AGCTCCCTTTGTTCATGC
1 TAGCTTCAATGTATCAGCTAAATACATGAATTTCCAGCCGCAAAAATAGCTCCCTTTGTTCAAGC
*
37724849 ACATGT-GGGTGCA-TGCT-TCCACAATAA-
66 ACAT-TCGGGTACATTGCTCT-C-CAATAAG
* *
37724876 TAAGCTTCATTG-ATTCAGCTAAATACATGTATGTT-CAGCCGCA
1 T-AGCTTCAATGTA-TCAGCTAAATACATGAAT-TTCCAGCCGCA
37724919 TGAATGTTTA
Statistics
Matches: 117, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
90 1 0.01
91 7 0.06
92 65 0.56
93 8 0.07
94 36 0.31
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (93 bp):
TAGCTTCAATGTATCAGCTAAATACATGAATTTCCAGCCGCAAAAATAGCTCCCTTTGTTCAAGC
ACATTCGGGTACATTGCTCTCCAATAAG
Found at i:37732480 original size:430 final size:430
Alignment explanation
Indices: 37731680--37732539 Score: 1720
Period size: 430 Copynumber: 2.0 Consensus size: 430
37731670 AACCAACCTA
37731680 TGTGCCTAACGAATATGCCACAATTGGCACCTCAATCCAACAATTCAAACTCAAACATAGATTCA
1 TGTGCCTAACGAATATGCCACAATTGGCACCTCAATCCAACAATTCAAACTCAAACATAGATTCA
37731745 TATTTCAACAAGTCCATTATGCCTTCCGAGGCACCATATAACAAGTAGCATAGCATACATGTTTT
66 TATTTCAACAAGTCCATTATGCCTTCCGAGGCACCATATAACAAGTAGCATAGCATACATGTTTT
37731810 GACCATTTTTAGCACCATATAACCATGATTGAAAATTAAGCATATAAACAAGCACAAAGCTATAT
131 GACCATTTTTAGCACCATATAACCATGATTGAAAATTAAGCATATAAACAAGCACAAAGCTATAT
37731875 CAAAACCATTCAACCTAGCACTAACATATCATTATTTAACCACAATACCTTATCAATTTGTAAGC
196 CAAAACCATTCAACCTAGCACTAACATATCATTATTTAACCACAATACCTTATCAATTTGTAAGC
37731940 AAAACACCAACCAAATCAACAAGACAACATTGTCATCAATTACATATATAAGCATATATATACAA
261 AAAACACCAACCAAATCAACAAGACAACATTGTCATCAATTACATATATAAGCATATATATACAA
37732005 AGTTCTCAAAATGCCAACAAGATCAAAGTTAAGCATTGTTTAGCCAAAGACTCCAAAGGTACATG
326 AGTTCTCAAAATGCCAACAAGATCAAAGTTAAGCATTGTTTAGCCAAAGACTCCAAAGGTACATG
37732070 TCATGGCCCAAATTAAACTATCACCAATTCTTGAGTTCAG
391 TCATGGCCCAAATTAAACTATCACCAATTCTTGAGTTCAG
37732110 TGTGCCTAACGAATATGCCACAATTGGCACCTCAATCCAACAATTCAAACTCAAACATAGATTCA
1 TGTGCCTAACGAATATGCCACAATTGGCACCTCAATCCAACAATTCAAACTCAAACATAGATTCA
37732175 TATTTCAACAAGTCCATTATGCCTTCCGAGGCACCATATAACAAGTAGCATAGCATACATGTTTT
66 TATTTCAACAAGTCCATTATGCCTTCCGAGGCACCATATAACAAGTAGCATAGCATACATGTTTT
37732240 GACCATTTTTAGCACCATATAACCATGATTGAAAATTAAGCATATAAACAAGCACAAAGCTATAT
131 GACCATTTTTAGCACCATATAACCATGATTGAAAATTAAGCATATAAACAAGCACAAAGCTATAT
37732305 CAAAACCATTCAACCTAGCACTAACATATCATTATTTAACCACAATACCTTATCAATTTGTAAGC
196 CAAAACCATTCAACCTAGCACTAACATATCATTATTTAACCACAATACCTTATCAATTTGTAAGC
37732370 AAAACACCAACCAAATCAACAAGACAACATTGTCATCAATTACATATATAAGCATATATATACAA
261 AAAACACCAACCAAATCAACAAGACAACATTGTCATCAATTACATATATAAGCATATATATACAA
37732435 AGTTCTCAAAATGCCAACAAGATCAAAGTTAAGCATTGTTTAGCCAAAGACTCCAAAGGTACATG
326 AGTTCTCAAAATGCCAACAAGATCAAAGTTAAGCATTGTTTAGCCAAAGACTCCAAAGGTACATG
37732500 TCATGGCCCAAATTAAACTATCACCAATTCTTGAGTTCAG
391 TCATGGCCCAAATTAAACTATCACCAATTCTTGAGTTCAG
37732540 GATTATTGCT
Statistics
Matches: 430, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
430 430 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.26
Consensus pattern (430 bp):
TGTGCCTAACGAATATGCCACAATTGGCACCTCAATCCAACAATTCAAACTCAAACATAGATTCA
TATTTCAACAAGTCCATTATGCCTTCCGAGGCACCATATAACAAGTAGCATAGCATACATGTTTT
GACCATTTTTAGCACCATATAACCATGATTGAAAATTAAGCATATAAACAAGCACAAAGCTATAT
CAAAACCATTCAACCTAGCACTAACATATCATTATTTAACCACAATACCTTATCAATTTGTAAGC
AAAACACCAACCAAATCAACAAGACAACATTGTCATCAATTACATATATAAGCATATATATACAA
AGTTCTCAAAATGCCAACAAGATCAAAGTTAAGCATTGTTTAGCCAAAGACTCCAAAGGTACATG
TCATGGCCCAAATTAAACTATCACCAATTCTTGAGTTCAG
Found at i:37734190 original size:19 final size:20
Alignment explanation
Indices: 37734153--37734190 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
37734143 CTAAAAAAAT
* *
37734153 GCATTTCAATGACACTCAAA
1 GCATTACAATGACAATCAAA
37734173 GCATTACAA-GACAATCAA
1 GCATTACAATGACAATCAA
37734191 CCTAAAGCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.45, C:0.24, G:0.11, T:0.21
Consensus pattern (20 bp):
GCATTACAATGACAATCAAA
Found at i:37735289 original size:18 final size:18
Alignment explanation
Indices: 37735257--37735291 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37735247 ATTTACAGTA
**
37735257 CCCTAAAATCCAATAAAT
1 CCCTAAAATAAAATAAAT
37735275 CCCTAAAATAAAATAAA
1 CCCTAAAATAAAATAAA
37735292 ATAATACAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (18 bp):
CCCTAAAATAAAATAAAT
Found at i:37748602 original size:50 final size:50
Alignment explanation
Indices: 37748532--37748724 Score: 199
Period size: 50 Copynumber: 3.7 Consensus size: 50
37748522 GATAATAACA
* *
37748532 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
* * * ** * *
37748582 TGCCCATGTCATGTCCCAGACATTGTCTTACGGGGGACCTT-TCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CTTCTCATATCGG
* * * *
37748632 TGCCAACGCCATGTCCCACACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC---GG
37748688 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
37748725 TCTCTTTACC
Statistics
Matches: 113, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 2 0.02
50 72 0.64
51 2 0.02
53 2 0.02
56 35 0.31
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
Found at i:37749497 original size:30 final size:30
Alignment explanation
Indices: 37749461--37749541 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
37749451 TAAAAACAAG
* * *
37749461 GCTTGAAATCACTTACTATGGAGCTTGTAA
1 GCTTGAAAACACTAACTATGGAGCTTGGAA
*
37749491 GCTTGAAAACCCTAACTATGGAGCTTGGAA
1 GCTTGAAAACACTAACTATGGAGCTTGGAA
*
37749521 GCTTGAAAACCCTAACTATGG
1 GCTTGAAAACACTAACTATGG
37749542 CTTCCCCTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (30 bp):
GCTTGAAAACACTAACTATGGAGCTTGGAA
Found at i:37754821 original size:3 final size:3
Alignment explanation
Indices: 37754815--37754849 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
37754805 AGTGATAATA
*
37754815 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
37754850 AGAGCTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:37755994 original size:9 final size:9
Alignment explanation
Indices: 37755980--37756050 Score: 61
Period size: 9 Copynumber: 7.3 Consensus size: 9
37755970 AATGAATTTG
37755980 AAATTATTA
1 AAATTATTA
37755989 AAATTATTTTA
1 AAATTA--TTA
*
37756000 AAATAATTTA
1 AAATTA-TTA
37756010 AAATTATTA
1 AAATTATTA
* *
37756019 AAATGATTTTT
1 AAAT--TATTA
*
37756030 AAATCATTA
1 AAATTATTA
37756039 AAATTATTA
1 AAATTATTA
37756048 AAA
1 AAA
37756051 ATATAAAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
9 26 0.52
10 9 0.18
11 15 0.30
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (9 bp):
AAATTATTA
Found at i:37756003 original size:20 final size:20
Alignment explanation
Indices: 37755986--37756046 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
37755976 TTTGAAATTA
*
37755986 TTAAAATTATTTTAAAA-TAAT
1 TTAAAATTA--TTAAAATTATT
*
37756007 TTAAAATTATTAAAATGATT
1 TTAAAATTATTAAAATTATT
* *
37756027 TTTAAATCATTAAAATTATT
1 TTAAAATTATTAAAATTATT
37756047 AAAAATATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 6 0.18
20 19 0.56
21 9 0.26
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
TTAAAATTATTAAAATTATT
Found at i:37756052 original size:30 final size:30
Alignment explanation
Indices: 37755969--37756050 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 30
37755959 CCATGTCAGC
* *
37755969 AAATGAATTTGAAATTATTAAAATTATTTTA
1 AAAT-AATTTAAAATTATTAAAATGATTTTA
*
37756000 AAATAATTTAAAATTATTAAAATGATTTTT
1 AAATAATTTAAAATTATTAAAATGATTTTA
*
37756030 AAATCA-TTAAAATTATTAAAA
1 AAATAATTTAAAATTATTAAAA
37756051 ATATAAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
29 15 0.32
30 28 0.60
31 4 0.09
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (30 bp):
AAATAATTTAAAATTATTAAAATGATTTTA
Found at i:37759984 original size:18 final size:18
Alignment explanation
Indices: 37759940--37760004 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 18
37759930 GTTTTTTCCG
37759940 AATATATAT-TTTTAAT-
1 AATATATATATTTTAATA
37759956 AA-ATATATATTTTAATA
1 AATATATATATTTTAATA
*
37759973 AATATATGTATTTTAATA
1 AATATATATATTTTAATA
*
37759991 ATTATATATATTTT
1 AATATATATATTTT
37760005 GATAGGAGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
15 6 0.14
16 9 0.21
17 2 0.05
18 26 0.60
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
AATATATATATTTTAATA
Found at i:37760261 original size:11 final size:11
Alignment explanation
Indices: 37760232--37760269 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
37760222 TTTCTTTAAG
37760232 TTTTATA-AAT
1 TTTTATATAAT
*
37760242 TTGTA-ATAAT
1 TTTTATATAAT
37760252 TTTTATATAAT
1 TTTTATATAAT
37760263 TTTTATA
1 TTTTATA
37760270 ACTTCTTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 1 0.04
10 11 0.46
11 12 0.50
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (11 bp):
TTTTATATAAT
Found at i:37760300 original size:17 final size:18
Alignment explanation
Indices: 37760278--37760319 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
37760268 TAACTTCTTA
37760278 CTATTTTTTTCTATT-TT
1 CTATTTTTTTCTATTATT
37760295 CTA-TTTTTTCTATTATT
1 CTATTTTTTTCTATTATT
*
37760312 TTATTTTT
1 CTATTTTT
37760320 AGATTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 11 0.50
17 7 0.32
18 4 0.18
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (18 bp):
CTATTTTTTTCTATTATT
Found at i:37765465 original size:38 final size:39
Alignment explanation
Indices: 37765419--37765516 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
37765409 GAAATCCTTG
* *
37765419 TTATAATTATTTTAATTATAA-TTTACGAT-AGAATATTA
1 TTATAATTATTGTAATTATAACTTTACGATCA-AACATTA
* * *
37765457 TTATAATTATTGTAATTGTAACTTTTCGGTCAAACATTA
1 TTATAATTATTGTAATTATAACTTTACGATCAAACATTA
* *
37765496 TTATAATTATGGGAATTATAA
1 TTATAATTATTGTAATTATAA
37765517 TTATTGTATT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 19 0.38
39 30 0.60
40 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (39 bp):
TTATAATTATTGTAATTATAACTTTACGATCAAACATTA
Found at i:37771430 original size:30 final size:30
Alignment explanation
Indices: 37771394--37771455 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
37771384 TGAGTGAATA
37771394 TAGTTACTAATTACATAAACAAAATTTAAC
1 TAGTTACTAATTACATAAACAAAATTTAAC
*
37771424 TAGTTACTAATTACATAAACAAAGTTTAAC
1 TAGTTACTAATTACATAAACAAAATTTAAC
37771454 TA
1 TA
37771456 AGTATGTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (30 bp):
TAGTTACTAATTACATAAACAAAATTTAAC
Found at i:37777458 original size:14 final size:14
Alignment explanation
Indices: 37777439--37777467 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37777429 AAAACCTTGA
37777439 TTCCTCCTCAAATG
1 TTCCTCCTCAAATG
37777453 TTCCTCCTCAAATG
1 TTCCTCCTCAAATG
37777467 T
1 T
37777468 CAAATTCGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.34, G:0.07, T:0.38
Consensus pattern (14 bp):
TTCCTCCTCAAATG
Found at i:37782234 original size:50 final size:50
Alignment explanation
Indices: 37782180--37782302 Score: 147
Period size: 50 Copynumber: 2.5 Consensus size: 50
37782170 CTCCATTTAC
* * * * *
37782180 GGACAAGCCACCAATGATTTGTAGATAAATTGCCTCTGATAACACTTTGT
1 GGACAAGCCACCAATGATATGCAGATAAACTACCACTGATAACACTTTGT
* * ** *
37782230 GGACAAGCCACCACTAATATGCAGATGTACTACCACTTATAACACTTTGT
1 GGACAAGCCACCAATGATATGCAGATAAACTACCACTGATAACACTTTGT
*
37782280 GGACTAGCCACCAATGATATGCA
1 GGACAAGCCACCAATGATATGCA
37782303 AATATACTGC
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (50 bp):
GGACAAGCCACCAATGATATGCAGATAAACTACCACTGATAACACTTTGT
Found at i:37788246 original size:16 final size:16
Alignment explanation
Indices: 37788236--37788269 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37788226 CTTCACAGTT
37788236 TAGAGTTTTCAAAGTC
1 TAGAGTTTTCAAAGTC
* *
37788252 TATAGTTTTCAAAATC
1 TAGAGTTTTCAAAGTC
37788268 TA
1 TA
37788270 CAGCCTATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (16 bp):
TAGAGTTTTCAAAGTC
Found at i:37794234 original size:73 final size:73
Alignment explanation
Indices: 37794115--37794261 Score: 258
Period size: 73 Copynumber: 2.0 Consensus size: 73
37794105 TAGCCTTCTC
*
37794115 AATCTAGCCTCTACCCCGAGTTTGGAAAGTTACAAAACCTCAAATAACACTATTGATAAACAAGA
1 AATCTAGCCTCTACCCCGAGTTTGGAAAGTTACAAAACCTCAAATAACACCATTGATAAACAAGA
37794180 AGAACATT
66 AGAACATT
** *
37794188 AATCTAGCCTCTACGTCGAGTTTGGCAAGTTACAAAACCTCAAATAACACCATTGATAAACAAGA
1 AATCTAGCCTCTACCCCGAGTTTGGAAAGTTACAAAACCTCAAATAACACCATTGATAAACAAGA
37794253 AGAACATT
66 AGAACATT
37794261 A
1 A
37794262 TGAAAATGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.23
Consensus pattern (73 bp):
AATCTAGCCTCTACCCCGAGTTTGGAAAGTTACAAAACCTCAAATAACACCATTGATAAACAAGA
AGAACATT
Found at i:37794906 original size:146 final size:144
Alignment explanation
Indices: 37794644--37794929 Score: 421
Period size: 146 Copynumber: 2.0 Consensus size: 144
37794634 AATTGCTACC
* * * *
37794644 CAAATTTTATGGTTTCTTTAACCGATAAAAAATTTTACACTCTTTGACCCTTCAAATCCATACCT
1 CAAATTTTATGGCTTCTTTAACCAATAAAAAATTTTACAATCTTTGACCCTTCAAATCCATACAT
* * * * *
37794709 ATAATTACAAAATGCTTCATGGTTTTGAAGTAGTAACTCTAGTTTATCGACTCCACTTCTAAGCT
66 AGAATTACAAAATGCTTCATAGATCTGAAGTACTAACTCTAGTTTATCGACTCCACTTCTAAGCT
37794774 ATGTATTCTGCAAT
131 ATGTATTCTGCAAT
**
37794788 CAAATTTTATGGCTTCTTTAA-CAATAAAAAAATATTTTACAATCTTTGACCCTTCAAATTTATA
1 CAAATTTTATGGCTTCTTTAACCAAT--AAAAA-ATTTTACAATCTTTGACCCTTCAAATCCATA
*
37794852 CATAGAATTACAAAATGCTTCCTAGATCTGAAGTACTAACTCTAGTTTATCGACTCCACTTCTAA
63 CATAGAATTACAAAATGCTTCATAGATCTGAAGTACTAACTCTAGTTTATCGACTCCACTTCTAA
*
37794917 GTTATGTATTCTG
128 GCTATGTATTCTG
37794930 TAGTCAATAC
Statistics
Matches: 126, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
143 3 0.02
144 20 0.16
145 5 0.04
146 98 0.78
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (144 bp):
CAAATTTTATGGCTTCTTTAACCAATAAAAAATTTTACAATCTTTGACCCTTCAAATCCATACAT
AGAATTACAAAATGCTTCATAGATCTGAAGTACTAACTCTAGTTTATCGACTCCACTTCTAAGCT
ATGTATTCTGCAAT
Found at i:37797890 original size:40 final size:40
Alignment explanation
Indices: 37797846--37798109 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
37797836 GCTCCTCGTT
* *
37797846 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
37797886 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
37797926 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
37797966 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
37798006 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
37798045 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
37798086 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37798110 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:37808222 original size:24 final size:24
Alignment explanation
Indices: 37808193--37808238 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
37808183 TCAAATAGAT
37808193 ATAACTC-GACTAACTTTTCAAATG
1 ATAACTCAG-CTAACTTTTCAAATG
37808217 ATAACTCAGCTAACTTTTCAAA
1 ATAACTCAGCTAACTTTTCAAA
37808239 CGACTAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.33
Consensus pattern (24 bp):
ATAACTCAGCTAACTTTTCAAATG
Found at i:37811474 original size:17 final size:17
Alignment explanation
Indices: 37811454--37811487 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37811444 TTTCTCTGTA
37811454 ATTTGCCATTACATTTT
1 ATTTGCCATTACATTTT
37811471 ATTTGCCATTACATTTT
1 ATTTGCCATTACATTTT
37811488 TCTATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTTGCCATTACATTTT
Found at i:37815833 original size:27 final size:27
Alignment explanation
Indices: 37815802--37815979 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37815792 TAAATTGTAC
37815802 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37815829 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37815855 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37815883 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37815911 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37815938 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37815965 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37815980 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37815916 original size:82 final size:81
Alignment explanation
Indices: 37815803--37815958 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37815793 AAATTGTACA
* *
37815803 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
37815867 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37815884 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
37815949 TGCGAGTTGA
65 TGCGAATTGA
37815959 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37815970 original size:82 final size:81
Alignment explanation
Indices: 37815799--37815979 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
37815789 GATTAAATTG
* *
37815799 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
37815864 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37815880 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
37815944 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37815962 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
37815980 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37838502 original size:39 final size:39
Alignment explanation
Indices: 37838426--37838721 Score: 400
Period size: 39 Copynumber: 7.6 Consensus size: 39
37838416 CATATTCACT
* * * * *
37838426 TTTAATCATATATCATATTACACAT-TAATCACCTAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
37838464 TTCAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
37838503 TTTAAACATATATCACAATACTCGTATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
37838542 TTCAAGCATATATCACAATA-TACATATAATCGCATAACA
1 TTTAAGCATATATCACAATACT-CATATAATCACATAACA
*
37838581 TTTAAGCATATATCACCATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
37838620 TTTATGCATATATCACAGTACTCGTATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
37838659 TTCAAGCATATATCATAATA-TACATATAATCACATAACA
1 TTTAAGCATATATCACAATACT-CATATAATCACATAACA
*
37838698 TTTAAGCATACATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
37838722 AAACATCTTA
Statistics
Matches: 225, Mismatches: 28, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
38 22 0.10
39 201 0.89
40 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.31
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:37838589 original size:117 final size:117
Alignment explanation
Indices: 37838432--37838721 Score: 474
Period size: 117 Copynumber: 2.5 Consensus size: 117
37838422 CACTTTTAAT
* * * *
37838432 CATATATCATATTACACAT-TAATCACCTAACATTCAAGCATATATCACAATACTCATATAATCA
1 CATATATCATAATATACATATAATCACATAACATTTAAGCATATATCACAATACTCATATAATCA
37838496 CATAACATTTAAACATATATCACAATACTCGTATAATCACATAACATTCAAG
66 CATAACATTTAAACATATATCACAATACTCGTATAATCACATAACATTCAAG
* * *
37838548 CATATATCACAATATACATATAATCGCATAACATTTAAGCATATATCACCATACTCATATAATCA
1 CATATATCATAATATACATATAATCACATAACATTTAAGCATATATCACAATACTCATATAATCA
** *
37838613 CATAACATTTATGCATATATCACAGTACTCGTATAATCACATAACATTCAAG
66 CATAACATTTAAACATATATCACAATACTCGTATAATCACATAACATTCAAG
*
37838665 CATATATCATAATATACATATAATCACATAACATTTAAGCATACATCACAATACTCA
1 CATATATCATAATATACATATAATCACATAACATTTAAGCATATATCACAATACTCA
37838722 AAACATCTTA
Statistics
Matches: 159, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
116 16 0.10
117 143 0.90
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.30
Consensus pattern (117 bp):
CATATATCATAATATACATATAATCACATAACATTTAAGCATATATCACAATACTCATATAATCA
CATAACATTTAAACATATATCACAATACTCGTATAATCACATAACATTCAAG
Found at i:37843967 original size:18 final size:18
Alignment explanation
Indices: 37843944--37843983 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
37843934 ATTACTAGGT
37843944 CAAAATTCAATATAACAC
1 CAAAATTCAATATAACAC
37843962 CAAAATTCAATATAACAC
1 CAAAATTCAATATAACAC
37843980 CAAA
1 CAAA
37843984 GTGATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (18 bp):
CAAAATTCAATATAACAC
Found at i:37845729 original size:57 final size:57
Alignment explanation
Indices: 37845624--37845749 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
37845614 GAAAAAATGA
* *
37845624 TGCAAGAAAAGATGAGTGAACAGGAAATATTCCCTAATGAATATAGTAAATATTCCC
1 TGCAAGAAAAGACGAGTGAACAGGAAATATTCCCTAATGAATACAGTAAATATTCCC
* * *
37845681 TGCAAGAAAATACGAGTGAACAGGAAATATTTCCTGACA-GAA-ACAGTAAATATTCTC
1 TGCAAGAAAAGACGAGTGAACAGGAAATATTCCCT-A-ATGAATACAGTAAATATTCCC
*
37845738 TGTAAGAAAAGA
1 TGCAAGAAAAGA
37845750 TGCATGAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
57 55 0.92
58 4 0.07
59 1 0.02
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.23
Consensus pattern (57 bp):
TGCAAGAAAAGACGAGTGAACAGGAAATATTCCCTAATGAATACAGTAAATATTCCC
Found at i:37845991 original size:19 final size:18
Alignment explanation
Indices: 37845967--37846011 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
37845957 AACTCATTTA
37845967 TCCAAAGTTTTAAAGTTTC
1 TCCAAA-TTTTAAAGTTTC
*
37845986 TCCAAATTTTTAAGTTT-
1 TCCAAATTTTAAAGTTTC
*
37846003 TCAAAATTT
1 TCCAAATTT
37846012 AAGTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 10 0.42
19 6 0.25
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (18 bp):
TCCAAATTTTAAAGTTTC
Done.