Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 44 of 322
Found at i:13182736 original size:27 final size:27
Alignment explanation
Indices: 13182706--13182846 Score: 108
Period size: 27 Copynumber: 5.2 Consensus size: 27
13182696 ATTACCGTTT
* **
13182706 TACCCTCGATTTACAAAATTATTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
13182733 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * ***
13182760 TACCACTAG-TTTGTGAAATTATTGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* *
13182787 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
13182814 TA-CCTCTGATTTATAAAATTA-CAGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAA
13182841 TACCCT
1 TACCCT
13182847 TAACTTTCTA
Statistics
Matches: 90, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
26 8 0.09
27 76 0.84
28 6 0.07
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:13182738 original size:54 final size:54
Alignment explanation
Indices: 13182571--13182726 Score: 240
Period size: 54 Copynumber: 2.9 Consensus size: 54
13182561 ATTACCAAAG
* * *
13182571 TACCCTCGATTTACAGAATTACCGTTTTATCCTCAATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCGTTT
* * * *
13182625 TATCCTCAATTTATAGAATTACCATTTTACCCTCAATTTAAAAAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCGTTT
*
13182679 TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTA
1 TACCCTCAATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTA
13182727 TTAAAATACC
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.38
Consensus pattern (54 bp):
TACCCTCAATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCGTTT
Found at i:13182751 original size:81 final size:81
Alignment explanation
Indices: 13182547--13182755 Score: 256
Period size: 81 Copynumber: 2.6 Consensus size: 81
13182537 CTAAAATGTT
** * * *
13182547 CCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTATCCTCAATTTAC
1 CCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTAC
*
13182612 AGAATTACCGTTTTAT
66 AGAATTACCGTTTTAC
* * *** * *
13182628 CCTCAATTTATAGAATTACCATTTTACCCTCAATTTAAAAAATTACCGTTTTACCCTCAATTTAC
1 CCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTAC
13182693 AGAATTACCGTTTTAC
66 AGAATTACCGTTTTAC
* ** * *
13182709 CCTCGATTTACAAAATTATTAAAATACCCTTGGTTTACAAAATTACC
1 CCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACC
13182756 AAAATACCAC
Statistics
Matches: 106, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 106 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (81 bp):
CCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTAC
AGAATTACCGTTTTAC
Found at i:13182791 original size:81 final size:83
Alignment explanation
Indices: 13182706--13182907 Score: 200
Period size: 81 Copynumber: 2.5 Consensus size: 83
13182696 ATTACCGTTT
*
13182706 TACCCTCGATTTACAAAATTATTAAAATACCCTTGGTTTACAAAATTACCA-AAATACCAC-T-A
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTA-CAGAAATACC-CTTAA
* * * *
13182768 GTTTGT-GAAATTATTGAAA
64 CTTTCTAAAAATTATAGAAA
* ** * * *
13182787 TACCCTCAATTTGTAAAATTACCAAAATA-CCTCTGATTTATAAAATTACAGAAATACCCTTAAC
1 TACCCTCGATTTACAAAATTACTAAAATACCCT-TGGTTTACAAAATTACAGAAATACCCTTAAC
13182851 TTTCTAAAAATTATAGAAA
65 TTTCTAAAAATTATAGAAA
* * * *
13182870 TACCATTG-CTTACAAAATTACTGAAATACCCTTGGTTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTT
13182908 GTAGATTTAC
Statistics
Matches: 95, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
80 6 0.06
81 45 0.47
82 25 0.26
83 19 0.20
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (83 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACAGAAATACCCTTAACT
TTCTAAAAATTATAGAAA
Found at i:13182833 original size:54 final size:54
Alignment explanation
Indices: 13182679--13182846 Score: 151
Period size: 54 Copynumber: 3.1 Consensus size: 54
13182669 ATTACCGTTT
* **** * *
13182679 TACCCTCAATTTACAGAATTACCGTTTTACC-CTCGATTTACAAAATTATTAAAA
1 TACCCTCAATTTACAAAATTACCAAAATACCTCT-GATTTATAAAATTATTGAAA
*** * * *
13182733 TACCCTTGGTTTACAAAATTACCAAAATACCACT-AGTTTGTGAAATTATTGAAA
1 TACCCTCAATTTACAAAATTACCAAAATACCTCTGA-TTTATAAAATTATTGAAA
** **
13182787 TACCCTCAATTTGTAAAATTACCAAAATACCTCTGATTTATAAAATTACAGAAA
1 TACCCTCAATTTACAAAATTACCAAAATACCTCTGATTTATAAAATTATTGAAA
13182841 TACCCT
1 TACCCT
13182847 TAACTTTCTA
Statistics
Matches: 89, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
53 1 0.01
54 85 0.96
55 3 0.03
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (54 bp):
TACCCTCAATTTACAAAATTACCAAAATACCTCTGATTTATAAAATTATTGAAA
Found at i:13182863 original size:29 final size:26
Alignment explanation
Indices: 13182801--13182902 Score: 80
Period size: 26 Copynumber: 3.8 Consensus size: 26
13182791 CTCAATTTGT
* * *
13182801 AAAATTACCA-AAATACCTCTGATTTAT
1 AAAATTA-CAGAAATACC-CTTACTTAC
*
13182828 AAAATTACAGAAATACCCTTAACTTTC
1 AAAATTACAGAAATACCCTT-ACTTAC
* * *
13182855 TAAAAATTATAGAAATACCATTGCTTAC
1 --AAAATTACAGAAATACCCTTACTTAC
*
13182883 AAAATTACTGAAATACCCTT
1 AAAATTACAGAAATACCCTT
13182903 GGTTTGTAGA
Statistics
Matches: 60, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
26 21 0.35
27 17 0.28
28 4 0.07
29 18 0.30
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (26 bp):
AAAATTACAGAAATACCCTTACTTAC
Found at i:13183025 original size:27 final size:27
Alignment explanation
Indices: 13182948--13183025 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
13182938 AAATGACTAA
* *
13182948 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
13182975 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
13183002 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
13183026 GAATATGCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:13183903 original size:24 final size:25
Alignment explanation
Indices: 13183827--13183896 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
13183817 GAGGAAGTGC
* *
13183827 AAAAGGGTTATGCCCCAGTTTACCA
1 AAAAGGGTTTTGCCCCAGTTTATCA
*
13183852 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGTTTTGCCCCAGTTTATCA
13183877 AAAAGGGTTTTGCCCCAGTT
1 AAAAGGGTTTTGCCCCAGTT
13183897 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGTTTTGCCCCAGTTTATCA
Found at i:13184152 original size:30 final size:30
Alignment explanation
Indices: 13184116--13184184 Score: 111
Period size: 31 Copynumber: 2.3 Consensus size: 30
13184106 CGCTTACAGT
*
13184116 AGGCTTCGACTAGTGATATGATTTATGAAA
1 AGGCTTCGACCAGTGATATGATTTATGAAA
*
13184146 AGGCTTCGGCCCAGTGATATGATTTATGAAA
1 AGGCTTC-GACCAGTGATATGATTTATGAAA
13184177 AGGCTTCG
1 AGGCTTCG
13184185 GCCCAGTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 8 0.22
31 28 0.78
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (30 bp):
AGGCTTCGACCAGTGATATGATTTATGAAA
Found at i:13184165 original size:31 final size:31
Alignment explanation
Indices: 13184127--13184196 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
13184117 GGCTTCGACT
13184127 AGTGATATGATTTATGAAAAGGCTTCGGCCC
1 AGTGATATGATTTATGAAAAGGCTTCGGCCC
13184158 AGTGATATGATTTATGAAAAGGCTTCGGCCC
1 AGTGATATGATTTATGAAAAGGCTTCGGCCC
13184189 AGT-ATATG
1 AGTGATATG
13184197 TCGAGACTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
30 5 0.13
31 34 0.87
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (31 bp):
AGTGATATGATTTATGAAAAGGCTTCGGCCC
Found at i:13187457 original size:17 final size:17
Alignment explanation
Indices: 13187435--13187470 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13187425 GTAGGTCGTC
*
13187435 TGGGTCACGCGACCATG
1 TGGGTCACACGACCATG
*
13187452 TGGGTCACACGATCATG
1 TGGGTCACACGACCATG
13187469 TG
1 TG
13187471 CCAGGCCGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.25, G:0.33, T:0.22
Consensus pattern (17 bp):
TGGGTCACACGACCATG
Found at i:13187518 original size:41 final size:40
Alignment explanation
Indices: 13187445--13187559 Score: 122
Period size: 41 Copynumber: 2.8 Consensus size: 40
13187435 TGGGTCACGC
* * * *
13187445 GACCATGTGGGTCACACGATCATGTGCCAGGCCGTGTGTCA
1 GACCATGTGGGTCACACGATCGTGTG-TAGGCCGTCTGGCA
*
13187486 GACCATGTGGGTCATACGATCGTGTAGTAGGCCGTCTGGCA
1 GACCATGTGGGTCACACGATCGTGT-GTAGGCCGTCTGGCA
* ** *
13187527 AACCATACGGGTCACATGATCGTGTGGTAGGCC
1 GACCATGTGGGTCACACGATCGTGT-GTAGGCC
13187560 ATGTAGTAGA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
41 61 0.98
42 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (40 bp):
GACCATGTGGGTCACACGATCGTGTGTAGGCCGTCTGGCA
Found at i:13188936 original size:50 final size:50
Alignment explanation
Indices: 13188892--13189046 Score: 229
Period size: 50 Copynumber: 3.1 Consensus size: 50
13188882 AGATAAACAG
* * *
13188892 CCACTGATAAGACTTTGTGGACAATCCACCACTAATATGCAGATATACTA
1 CCACTGATAACACTTTGTGGACAAGCCACCACTAATATGCAAATATACTA
* * * *
13188942 TCACTGATAATACTTTATGGCCAAGCCACCACTAATATGCAAATATACTA
1 CCACTGATAACACTTTGTGGACAAGCCACCACTAATATGCAAATATACTA
* *
13188992 CCACTGATAACACTTTGTGGACAAGCCACCACTGATATGCAAATATACTG
1 CCACTGATAACACTTTGTGGACAAGCCACCACTAATATGCAAATATACTA
13189042 CCACT
1 CCACT
13189047 TACTTCCACC
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 93 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (50 bp):
CCACTGATAACACTTTGTGGACAAGCCACCACTAATATGCAAATATACTA
Found at i:13190251 original size:45 final size:47
Alignment explanation
Indices: 13190175--13190270 Score: 106
Period size: 45 Copynumber: 2.1 Consensus size: 47
13190165 CATTTTGACC
**
13190175 TACTAAATATTTAAATAAATTATCTAGTATTTATTATAAATTATTTA
1 TACTAAATATTTAAATAAATTATAAAGTATTTATTATAAATTATTTA
* * * * **
13190222 TACT-AAT-TTTAACTAAATTATAAATTATTTGTTGTTTATTATTTA
1 TACTAAATATTTAAATAAATTATAAAGTATTTATTATAAATTATTTA
13190267 TACT
1 TACT
13190271 TGGCCAAGTA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
45 34 0.83
46 3 0.07
47 4 0.10
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (47 bp):
TACTAAATATTTAAATAAATTATAAAGTATTTATTATAAATTATTTA
Found at i:13206281 original size:276 final size:276
Alignment explanation
Indices: 13205927--13206432 Score: 641
Period size: 276 Copynumber: 1.8 Consensus size: 276
13205917 ACTCAATTAA
* * *
13205927 TAAAATTACAAAAATATCTTTTCATATTTAAAATAAATTATATTGTTCAAGGGTATTTTAATCTT
1 TAAAATTACAAAAATATCCTTTCATATTTAAAATAAATTATATTATTCAAGAGTATTTTAATCTT
* * * **
13205992 TTTATTTAAAAAAAAAACTTATGGTGGGATTT-AAGCC-CACCAATGTGTAAAACCTTAAATTTA
66 TTTATTAAAAAAAAAAACTTATGGTGAGATTTGAAACCACACCAATACGTAAAACCTTAAATTTA
* * * *
13206055 -C-C-ATAAAAGTTTTATTTTAAAATTATTTATGCATTTTAATTTTATTATTC-GCACTTTATTA
131 TCTCAATAAAAGTTTTATGTT-AAATTATTTATACATCTTAATTTTATTATGCAG-ACTTTATTA
13206116 CCTC-CAACAATTGTATATCTATACTTACTATTATTTAAGTCACTAATTAAGTTAGTGTTTTGAG
194 CC-CACAACAATTGTATATCTA-A---ACTATTATTTAAGTCACTAATTAAGTTAGTGTTTTGAG
13206180 TCAACCGTGACCTATTCGGTTAG
254 TCAACCGTGACCTATTCGGTTAG
* * * * * *
13206203 TAAAATTATAAAAATATCCTTTCGTGTTTAAAATAAGTTATATTATTCGAGAGTA-TTTAGTCTT
1 TAAAATTACAAAAATATCCTTTCATATTTAAAATAAATTATATTATTCAAGAGTATTTTAATCTT
* *
13206267 TTTATCTAAAAAAAAAAACTTATGGTGAGATTTGAAACCACATCAATACGTAAAACTTTAAATTT
66 TTTAT-TAAAAAAAAAAACTTATGGTGAGATTTGAAACCACACCAATACGTAAAACCTTAAATTT
* * *
13206332 ATCATTCAATCAAAGTTTTATGTTGAATTATTTATATATCTTAATTTTATTATGCAGACTTTATT
130 ATC--TCAATAAAAGTTTTATGTTAAATTATTTATACATCTTAATTTTATTATGCAGACTTTATT
* *
13206397 ACCCACATCAGTTGTATATCTAAACTATTATTTAAG
193 ACCCACAACAATTGTATATCTAAACTATTATTTAAG
13206433 ATACTATCAC
Statistics
Matches: 195, Mismatches: 25, Indels: 18
0.82 0.11 0.08
Matches are distributed among these distances:
275 13 0.07
276 72 0.37
277 4 0.02
278 35 0.18
279 1 0.01
281 2 0.01
282 53 0.27
283 15 0.08
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (276 bp):
TAAAATTACAAAAATATCCTTTCATATTTAAAATAAATTATATTATTCAAGAGTATTTTAATCTT
TTTATTAAAAAAAAAAACTTATGGTGAGATTTGAAACCACACCAATACGTAAAACCTTAAATTTA
TCTCAATAAAAGTTTTATGTTAAATTATTTATACATCTTAATTTTATTATGCAGACTTTATTACC
CACAACAATTGTATATCTAAACTATTATTTAAGTCACTAATTAAGTTAGTGTTTTGAGTCAACCG
TGACCTATTCGGTTAG
Found at i:13206673 original size:25 final size:26
Alignment explanation
Indices: 13206645--13206706 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 26
13206635 ATTTTTTCTC
*
13206645 TCCCAGTTAAACATAT-TTTTTAGTT
1 TCCCACTTAAACATATGTTTTTAGTT
* *
13206670 TCCCACTTAAA-TTCTGTTTTTAGTT
1 TCCCACTTAAACATATGTTTTTAGTT
*
13206695 TCACACTTAAAC
1 TCCCACTTAAAC
13206707 TTTGATTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 2 0.06
25 29 0.94
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.45
Consensus pattern (26 bp):
TCCCACTTAAACATATGTTTTTAGTT
Found at i:13207286 original size:16 final size:16
Alignment explanation
Indices: 13207252--13207285 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13207242 TTAAAGATAA
*
13207252 TTTAAAAATATATTTT
1 TTTAAAAAGATATTTT
13207268 TTTAAAAAGAT-TTTT
1 TTTAAAAAGATATTTT
13207283 TTT
1 TTT
13207286 TCACTCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTAAAAAGATATTTT
Found at i:13215438 original size:5 final size:5
Alignment explanation
Indices: 13215428--13215452 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13215418 TCACTTAGTC
13215428 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
13215453 CTTAATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:13217095 original size:9 final size:9
Alignment explanation
Indices: 13217081--13217148 Score: 64
Period size: 9 Copynumber: 7.6 Consensus size: 9
13217071 ATAAGTATAA
13217081 AATTAACCG
1 AATTAACCG
*
13217090 AATTAATCG
1 AATTAACCG
*
13217099 AATTAACTG
1 AATTAACCG
**
13217108 AATTAATTG
1 AATTAACCG
* *
13217117 AATTACCCA
1 AATTAACCG
*
13217126 AATTAACAG
1 AATTAACCG
*
13217135 AATTAATCG
1 AATTAACCG
13217144 AATTA
1 AATTA
13217149 TTTGTATAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (9 bp):
AATTAACCG
Found at i:13217104 original size:18 final size:18
Alignment explanation
Indices: 13217081--13217148 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
13217071 ATAAGTATAA
13217081 AATTAACCGAATTAATCG
1 AATTAACCGAATTAATCG
* *
13217099 AATTAACTGAATTAATTG
1 AATTAACCGAATTAATCG
* *
13217117 AATTACCCAAATTAA-CAG
1 AATTAACCGAATTAATC-G
*
13217135 AATTAATCGAATTA
1 AATTAACCGAATTA
13217149 TTTGTATAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTAACCGAATTAATCG
Found at i:13217111 original size:27 final size:27
Alignment explanation
Indices: 13217081--13217148 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
13217071 ATAAGTATAA
* * * *
13217081 AATTAACCGAATTAATCGAATTAACTG
1 AATTAATCGAATTAACCAAATTAACAG
* *
13217108 AATTAATTGAATTACCCAAATTAACAG
1 AATTAATCGAATTAACCAAATTAACAG
13217135 AATTAATCGAATTA
1 AATTAATCGAATTA
13217149 TTTGTATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTAATCGAATTAACCAAATTAACAG
Found at i:13217239 original size:18 final size:18
Alignment explanation
Indices: 13217216--13217251 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13217206 TTTCTGATTG
13217216 GGTTGGGTAATTGGGTTA
1 GGTTGGGTAATTGGGTTA
*
13217234 GGTTGGGTACTTGGGTTA
1 GGTTGGGTAATTGGGTTA
13217252 ATATATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.03, G:0.44, T:0.39
Consensus pattern (18 bp):
GGTTGGGTAATTGGGTTA
Found at i:13217595 original size:17 final size:17
Alignment explanation
Indices: 13217573--13217614 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
13217563 ATAAATAGAC
13217573 ATTTCATATTATATAAT
1 ATTTCATATTATATAAT
13217590 ATTTCATATTATATAAT
1 ATTTCATATTATATAAT
13217607 A-TTCATAT
1 ATTTCATAT
13217615 CATAAACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTCATATTATATAAT
Found at i:13220911 original size:25 final size:26
Alignment explanation
Indices: 13220862--13220919 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
13220852 ATAAAACCTA
13220862 AAAATAAAATAGTATTGAAAGGAAAT
1 AAAATAAAATAGTATTGAAAGGAAAT
*
13220888 AAAATAAAA-AGTACTTTAAA-GAAAT
1 AAAATAAAATAGTA-TTGAAAGGAAAT
13220913 -AAATAAA
1 AAAATAAA
13220920 GATAAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 7 0.23
25 9 0.30
26 14 0.47
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (26 bp):
AAAATAAAATAGTATTGAAAGGAAAT
Found at i:13228229 original size:25 final size:25
Alignment explanation
Indices: 13228188--13228259 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
13228178 TATGCCCATA
* *
13228188 CGAG-CATGTAAATGGGAAGCTCTTT
1 CGAGCCATGT-AACGGGAAGCTCTTG
13228213 CGAGCCATGTAACGGGAAGCTCTTG
1 CGAGCCATGTAACGGGAAGCTCTTG
* ** *
13228238 CCAGCCAAATATCGGGAAGCTC
1 CGAGCCATGTAACGGGAAGCTC
13228260 AAGAGCGCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 35 0.88
26 5 0.12
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (25 bp):
CGAGCCATGTAACGGGAAGCTCTTG
Found at i:13228269 original size:25 final size:25
Alignment explanation
Indices: 13228240--13228309 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
13228230 AGCTCTTGCC
13228240 AGCCAAATATCGGGAAGCTCAAGAG
1 AGCCAAATATCGGGAAGCTCAAGAG
* * *
13228265 CGCC-ATTAATCGGGAAGCTCATGAG
1 AGCCAAAT-ATCGGGAAGCTCAAGAG
* * *
13228290 AGCTAAATATCAGAAAGCTC
1 AGCCAAATATCGGGAAGCTC
13228310 CTGGGAGCCA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
24 2 0.06
25 31 0.89
26 2 0.06
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.17
Consensus pattern (25 bp):
AGCCAAATATCGGGAAGCTCAAGAG
Found at i:13237698 original size:90 final size:90
Alignment explanation
Indices: 13237570--13237794 Score: 276
Period size: 90 Copynumber: 2.5 Consensus size: 90
13237560 GTTCCATTGC
* * * * * *
13237570 TTCTCACCACCTTGCAAGATGGAGTACAAGGGAAATGTGCAAGCCTAATCTAGAA-CCTAACCCT
1 TTCTCGCCACCTCGAAAGATGGAGTACAAGGGAGATGTGCGAGCCTAACCTAGAATCC-AACCCT
* *
13237634 CCTCTCGAGGTGAAA-AGCCCTATCGA
65 CCTCACGAGGTGAAACA-CCCCATCGA
* * * *
13237660 TTCTCGCCATCTC-ATAAGATGGAGTACGAGGGAGATGTGCGAGCCTGACCTGGAATCCAACCCT
1 TTCTCGCCACCTCGA-AAGATGGAGTACAAGGGAGATGTGCGAGCCTAACCTAGAATCCAACCCT
*
13237724 CCTCACGAGGTGAAACACCCCATCGC
65 CCTCACGAGGTGAAACACCCCATCGA
*
13237750 TTCTCGCCACCTCGAGAGATGGAGTACAAGGGAGATGTGCGAGCC
1 TTCTCGCCACCTCGAAAGATGGAGTACAAGGGAGATGTGCGAGCC
13237795 GCAAGATGGA
Statistics
Matches: 115, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
90 111 0.97
91 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (90 bp):
TTCTCGCCACCTCGAAAGATGGAGTACAAGGGAGATGTGCGAGCCTAACCTAGAATCCAACCCTC
CTCACGAGGTGAAACACCCCATCGA
Found at i:13238842 original size:29 final size:29
Alignment explanation
Indices: 13238808--13238867 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
13238798 AAACCCAAAG
13238808 CCCAACTAAACCATCAACCCAAACTAAAC
1 CCCAACTAAACCATCAACCCAAACTAAAC
*
13238837 CCCAACTAAACCATCAGCCCAAACTAAAC
1 CCCAACTAAACCATCAACCCAAACTAAAC
13238866 CC
1 CC
13238868 AATCCCAACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.45, C:0.43, G:0.02, T:0.10
Consensus pattern (29 bp):
CCCAACTAAACCATCAACCCAAACTAAAC
Found at i:13238857 original size:17 final size:18
Alignment explanation
Indices: 13238806--13238866 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
13238796 CAAAACCCAA
13238806 AGCCC-AACTAAACCATC
1 AGCCCAAACTAAACCATC
*
13238823 AACCCAAACT-AA--A-C
1 AGCCCAAACTAAACCATC
13238837 --CCC-AACTAAACCATC
1 AGCCCAAACTAAACCATC
13238852 AGCCCAAACTAAACC
1 AGCCCAAACTAAACC
13238867 CAATCCCAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 15
0.69 0.02 0.29
Matches are distributed among these distances:
11 4 0.11
12 5 0.14
14 2 0.06
15 2 0.06
17 9 0.26
18 13 0.37
ACGTcount: A:0.46, C:0.41, G:0.03, T:0.10
Consensus pattern (18 bp):
AGCCCAAACTAAACCATC
Found at i:13238877 original size:29 final size:29
Alignment explanation
Indices: 13238808--13238888 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
13238798 AAACCCAAAG
*
13238808 CCCAACTAAACCATCAACCCAAACTAAAC
1 CCCAACCAAACCATCAACCCAAACTAAAC
* *
13238837 CCCAACTAAACCATCAGCCCAAACTAAA-
1 CCCAACCAAACCATCAACCCAAACTAAAC
*
13238865 CCCAATCCCAACCA--AACCCAAACT
1 CCCAA-CCAAACCATCAACCCAAACT
13238889 TTAGACCCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.19
28 5 0.11
29 33 0.70
ACGTcount: A:0.46, C:0.43, G:0.01, T:0.10
Consensus pattern (29 bp):
CCCAACCAAACCATCAACCCAAACTAAAC
Found at i:13240735 original size:19 final size:20
Alignment explanation
Indices: 13240685--13240728 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
13240675 AAATAGATAT
*
13240685 TTATT-TAAATATTAAATTA
1 TTATTATAATTATTAAATTA
*
13240704 TTGTTATAATTATT-AATTA
1 TTATTATAATTATTAAATTA
13240723 TTATTA
1 TTATTA
13240729 ATATTATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTATTATAATTATTAAATTA
Found at i:13253948 original size:19 final size:19
Alignment explanation
Indices: 13253915--13253963 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
13253905 ATTCTAAACT
*
13253915 TTATTTTTTTT-AAAATAA
1 TTATTTTTTTTAAAAAAAA
13253933 TT-TTTTATTTTAAAAAAAA
1 TTATTTT-TTTTAAAAAAAA
13253952 TTATTTTTTTTA
1 TTATTTTTTTTA
13253964 TTTATGTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 13 0.48
20 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATTTTTTTTAAAAAAAA
Found at i:13254554 original size:31 final size:30
Alignment explanation
Indices: 13254490--13254561 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
13254480 TTGACATATC
* * *
13254490 AACTTTGATTTGGTATAATTATACATATGA
1 AACTTTGATTTAGTATAAATATACAAATGA
* *
13254520 AACTTTGATTGTAGTTTAAATATATAAATGA
1 AACTTTGATT-TAGTATAAATATACAAATGA
*
13254551 AACTTTAATTT
1 AACTTTGATTT
13254562 TGATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 11 0.31
31 24 0.69
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (30 bp):
AACTTTGATTTAGTATAAATATACAAATGA
Found at i:13254940 original size:26 final size:25
Alignment explanation
Indices: 13254906--13254959 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
13254896 GAAATTGCCT
**
13254906 AAATTAATTTATT-AATTTTGAAAAA
1 AAATTAATTT-TTCAATTTAAAAAAA
13254931 AAATATAATTTTTCAATTTAAAAAAA
1 AAAT-TAATTTTTCAATTTAAAAAAA
13254957 AAA
1 AAA
13254960 ACCCTTGGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
AAATTAATTTTTCAATTTAAAAAAA
Found at i:13256758 original size:43 final size:43
Alignment explanation
Indices: 13256597--13256801 Score: 247
Period size: 42 Copynumber: 4.8 Consensus size: 43
13256587 GCGTCGCTAA
* * *
13256597 CTTTAGCGGCGCTTTTCCCATAAACGCCGCTAAAGACCATGAT
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * *
13256640 CTTTAGCGGCGC--CTCCCTACAAATGCCACTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCC-ACAAACGCCGCTAAAGACCAAGAC
* *
13256682 CTTTAGCGGCGC-TTCCCCACAAACGTCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * * *
13256724 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGA-TATTGAG
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCA-AGAC
13256767 CTTTAGCGGCGCTTTTTCCCACAAACGCCGCTAAA
1 CTTTAGCGGCGC-TTTTCCCACAAACGCCGCTAAA
13256802 AATATATCGT
Statistics
Matches: 139, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
41 4 0.03
42 64 0.46
43 49 0.35
44 22 0.16
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:13257140 original size:43 final size:43
Alignment explanation
Indices: 13257074--13257164 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
13257064 ATATATGCAA
* * * *
13257074 GGTAATAAAATATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
*
13257117 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
13257160 -GTAAT
1 GGTAAT
13257165 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:13260256 original size:14 final size:15
Alignment explanation
Indices: 13260233--13260265 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13260223 CTTAAACCAG
*
13260233 AATCCCTAA-TCCAT
1 AATCCATAATTCCAT
13260247 AATCCATAATTCCAT
1 AATCCATAATTCCAT
13260262 AATC
1 AATC
13260266 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCATAATTCCAT
Found at i:13260694 original size:41 final size:41
Alignment explanation
Indices: 13260648--13260849 Score: 325
Period size: 41 Copynumber: 5.0 Consensus size: 41
13260638 TCAAAAGCGG
* * *
13260648 GCATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGGCCCAA
1 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGA
* *
13260689 GCATTAGCGGCGCTTTTTAAAAAACGCCGCT-AAGGCCCGA
1 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGA
13260729 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGA
* *
13260770 GCATTAGCGGCGCTTCTTCACAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGA
*
13260811 GCATTAGTGGCGCTTATTCAAAAACGCCGCTAAAGGCCC
1 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCC
13260850 CAAAACTCAG
Statistics
Matches: 150, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 37 0.25
41 113 0.75
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (41 bp):
GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGA
Found at i:13260783 original size:81 final size:82
Alignment explanation
Indices: 13260648--13260849 Score: 334
Period size: 81 Copynumber: 2.5 Consensus size: 82
13260638 TCAAAAGCGG
* * *
13260648 GCATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGGCCCAAGCATTAGCGGCGCTTTTTAAAAAA
1 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCAAGCATTAGCGGCGCTTCTTAAAAAA
13260713 CGCCGCT-AAGGCCCGA
66 CGCCGCTAAAGGCCCGA
* * *
13260729 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTCTTCACAAA
1 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCAAGCATTAGCGGCGCTTCTTAAAAAA
13260794 CGCCGCTAAAGGCCCGA
66 CGCCGCTAAAGGCCCGA
*
13260811 GCATTAGTGGCGCTTATTCAAAAACGCCGCTAAAGGCCC
1 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCC
13260850 CAAAACTCAG
Statistics
Matches: 113, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
81 66 0.58
82 47 0.42
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (82 bp):
GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCAAGCATTAGCGGCGCTTCTTAAAAAA
CGCCGCTAAAGGCCCGA
Found at i:13261031 original size:41 final size:41
Alignment explanation
Indices: 13260903--13261035 Score: 141
Period size: 40 Copynumber: 3.3 Consensus size: 41
13260893 CACTTTTTGG
* **
13260903 AAAA-CGCCGGTAATGCTT-ATTTTTAGCGGCGTTTTCCA-
1 AAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTTAT
* ** *
13260941 AAAAGCGCCGCTAATGCTCGACCTTTAGCAGCG-TTTTTAT
1 AAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTTAT
*
13260981 AAAAGCGCCGCTAATGCTTGATTTTTAGTGGCGTTTTTTAT
1 AAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTTAT
*
13261022 CCAAA-CGCCGCTAA
1 -AAAAGCGCCGCTAA
13261036 AAGCCTATTT
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
38 4 0.05
39 16 0.21
40 38 0.49
41 16 0.21
42 3 0.04
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (41 bp):
AAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTTAT
Found at i:13263160 original size:25 final size:25
Alignment explanation
Indices: 13263122--13263172 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
13263112 ACTTCATTTT
13263122 AGAGGACCGAAACAAAGAAACAATG
1 AGAGGACCGAAACAAAGAAACAATG
*
13263147 AGAGGACCGTAACAAAGAAACAATG
1 AGAGGACCGAAACAAAGAAACAATG
13263172 A
1 A
13263173 CAATAATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.55, C:0.16, G:0.24, T:0.06
Consensus pattern (25 bp):
AGAGGACCGAAACAAAGAAACAATG
Found at i:13263859 original size:15 final size:17
Alignment explanation
Indices: 13263829--13263861 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
13263819 GTCCCCATAC
13263829 TATTAATAATTTTTAAT
1 TATTAATAATTTTTAAT
13263846 TATTAA-AA-TTTTAAT
1 TATTAATAATTTTTAAT
13263861 T
1 T
13263862 CCTAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTAATAATTTTTAAT
Found at i:13268982 original size:9 final size:10
Alignment explanation
Indices: 13268958--13268991 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
13268948 GAAACAAAAC
13268958 AGAAAAATTT
1 AGAAAAATTT
13268968 AGAAAAATTT
1 AGAAAAATTT
*
13268978 A-AAAATTTT
1 AGAAAAATTT
13268987 AGAAA
1 AGAAA
13268992 CATGGGTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (10 bp):
AGAAAAATTT
Found at i:13269127 original size:18 final size:18
Alignment explanation
Indices: 13269104--13269145 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
13269094 GGTCACACGG
13269104 CCGTGTAACTCTCTGAGA
1 CCGTGTAACTCTCTGAGA
13269122 CCGTGTAACTCTCTGAGA
1 CCGTGTAACTCTCTGAGA
13269140 CCGTGT
1 CCGTGT
13269146 CGACCAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.29
Consensus pattern (18 bp):
CCGTGTAACTCTCTGAGA
Found at i:13271644 original size:13 final size:11
Alignment explanation
Indices: 13271608--13271699 Score: 96
Period size: 11 Copynumber: 8.0 Consensus size: 11
13271598 GGTGAAATTA
*
13271608 TTTATTACTAT
1 TTTATTAATAT
*
13271619 TTTAATAATAT
1 TTTATTAATAT
13271630 TTTATTAAGATAT
1 TTTATT-A-ATAT
*
13271643 TTTAATAATAT
1 TTTATTAATAT
13271654 TTTATTAAGATAT
1 TTTATT-A-ATAT
13271667 TTTATTAATAT
1 TTTATTAATAT
*
13271678 TTTATTCATA-
1 TTTATTAATAT
13271688 TTTAGTTAATAT
1 TTTA-TTAATAT
13271700 ACAAGAAAGG
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
10 4 0.06
11 41 0.60
12 4 0.06
13 19 0.28
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (11 bp):
TTTATTAATAT
Found at i:13271646 original size:24 final size:24
Alignment explanation
Indices: 13271616--13271683 Score: 127
Period size: 24 Copynumber: 2.8 Consensus size: 24
13271606 TATTTATTAC
13271616 TATTTTAATAATATTTTATTAAGA
1 TATTTTAATAATATTTTATTAAGA
13271640 TATTTTAATAATATTTTATTAAGA
1 TATTTTAATAATATTTTATTAAGA
*
13271664 TATTTTATTAATATTTTATT
1 TATTTTAATAATATTTTATT
13271684 CATATTTAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (24 bp):
TATTTTAATAATATTTTATTAAGA
Found at i:13271655 original size:35 final size:35
Alignment explanation
Indices: 13271617--13271690 Score: 71
Period size: 35 Copynumber: 2.1 Consensus size: 35
13271607 ATTTATTACT
* *
13271617 ATTTTAATAATATTTTATTAAGATATTTTAATAAT
1 ATTTTAATAATATTTTAATAAGATATTTTATTAAT
* * *
13271652 ATTTTATTAAGATATTTT-ATTA-ATATTTTATTCAT
1 ATTTTAAT-A-ATATTTTAATAAGATATTTTATTAAT
13271687 ATTT
1 ATTT
13271691 AGTTAATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
35 22 0.69
36 3 0.09
37 7 0.22
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (35 bp):
ATTTTAATAATATTTTAATAAGATATTTTATTAAT
Found at i:13272432 original size:6 final size:6
Alignment explanation
Indices: 13272416--13272446 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
13272406 TTCCATTTTA
13272416 TTCTCTT TTCTTT TTCTTT TTCTTT TTCTTT
1 TTCT-TT TTCTTT TTCTTT TTCTTT TTCTTT
13272447 ATATTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTCTTT
Found at i:13274524 original size:26 final size:25
Alignment explanation
Indices: 13274468--13274524 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
13274458 CCAACAATTA
* * * *
13274468 AAAATTATAAAGTCCATAGAGTCCC
1 AAAATTATAAACTCCATAAAATACC
13274493 AGAAATTATAAACTCTCATAAAATACC
1 A-AAATTATAAACTC-CATAAAATACC
13274520 AAAAT
1 AAAAT
13274525 CGTAATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 16 0.62
27 9 0.35
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.25
Consensus pattern (25 bp):
AAAATTATAAACTCCATAAAATACC
Found at i:13280768 original size:13 final size:13
Alignment explanation
Indices: 13280750--13280781 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
13280740 ATATAAGAAA
13280750 ATATTATTATATT
1 ATATTATTATATT
13280763 ATATTATTATATT
1 ATATTATTATATT
13280776 ATATTA
1 ATATTA
13280782 CTATTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:13284036 original size:5 final size:5
Alignment explanation
Indices: 13284026--13284054 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
13284016 AGTGGATGGG
13284026 GATAT GATAT GATAT GATAT GATAT GATA
1 GATAT GATAT GATAT GATAT GATAT GATA
13284055 ATATATGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:13287411 original size:17 final size:18
Alignment explanation
Indices: 13287378--13287411 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13287368 TATCATTTAT
*
13287378 TATTTAACATACTTAATA
1 TATTTAAAATACTTAATA
13287396 TATTTAAAAT-CTTAAT
1 TATTTAAAATACTTAAT
13287412 CGTTCTGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTAAAATACTTAATA
Found at i:13296262 original size:3 final size:3
Alignment explanation
Indices: 13296243--13297091 Score: 1680
Period size: 3 Copynumber: 283.0 Consensus size: 3
13296233 TAGCAGCAAC
* *
13296243 AGA ATA AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296291 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296339 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296387 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296435 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296483 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296531 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296579 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296627 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296675 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296723 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296771 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296819 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296867 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296915 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13296963 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13297011 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13297059 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13297092 TGATGATGAT
Statistics
Matches: 842, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 842 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:13297096 original size:3 final size:3
Alignment explanation
Indices: 13297090--13297122 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
13297080 AGAAGAAGAA
13297090 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
13297123 AAGATATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:13297864 original size:15 final size:15
Alignment explanation
Indices: 13297846--13297887 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
13297836 CAGAACAAAG
13297846 TAGAGCAGAACTGAA
1 TAGAGCAGAACTGAA
*
13297861 TAGAGTAGAACTGAA
1 TAGAGCAGAACTGAA
* *
13297876 TCGAACAGAACT
1 TAGAGCAGAACT
13297888 ACACAGAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.17
Consensus pattern (15 bp):
TAGAGCAGAACTGAA
Found at i:13298229 original size:20 final size:20
Alignment explanation
Indices: 13298204--13298243 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13298194 CTAAGTCTGA
13298204 TGCAATGTGTTATGGCATGC
1 TGCAATGTGTTATGGCATGC
13298224 TGCAATGTGTTATGGCATGC
1 TGCAATGTGTTATGGCATGC
13298244 ATATACAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (20 bp):
TGCAATGTGTTATGGCATGC
Found at i:13311218 original size:21 final size:21
Alignment explanation
Indices: 13311194--13311235 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13311184 AAGAAAGTGT
13311194 TAATTTCTCTCTCTCTCTCTC
1 TAATTTCTCTCTCTCTCTCTC
*
13311215 TAATTTCTGTCTCTCTCTCTC
1 TAATTTCTCTCTCTCTCTCTC
13311236 AACCTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.36, G:0.02, T:0.52
Consensus pattern (21 bp):
TAATTTCTCTCTCTCTCTCTC
Found at i:13311243 original size:21 final size:21
Alignment explanation
Indices: 13311198--13311243 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13311188 AAGTGTTAAT
*
13311198 TTCTCTCTCTCTCTCTCTAAT
1 TTCTCTCTCTCTCTCTCTAAC
*
13311219 TTCTGTCTCTCTCTCTC-AACC
1 TTCTCTCTCTCTCTCTCTAA-C
13311240 TTCT
1 TTCT
13311244 TAGGTCCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.09, C:0.39, G:0.02, T:0.50
Consensus pattern (21 bp):
TTCTCTCTCTCTCTCTCTAAC
Found at i:13318265 original size:12 final size:12
Alignment explanation
Indices: 13318248--13318275 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13318238 GAATGGTTAA
13318248 CATAAAGTGTTG
1 CATAAAGTGTTG
13318260 CATAAAGTGTTG
1 CATAAAGTGTTG
13318272 CATA
1 CATA
13318276 TCTAAGTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (12 bp):
CATAAAGTGTTG
Found at i:13320729 original size:18 final size:18
Alignment explanation
Indices: 13320706--13320740 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13320696 TAAGTAAAGT
* *
13320706 AAATTATATAATATATAA
1 AAATTAAATAAAATATAA
13320724 AAATTAAATAAAATATA
1 AAATTAAATAAAATATA
13320741 TTACAAAAAT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTAAATAAAATATAA
Found at i:13334836 original size:32 final size:34
Alignment explanation
Indices: 13334768--13334846 Score: 126
Period size: 34 Copynumber: 2.4 Consensus size: 34
13334758 CTTCCATTAG
*
13334768 TCCAAATTGGTACCTAAATTATACCCTTTTTTTT
1 TCCAAATTGGTACCAAAATTATACCCTTTTTTTT
*
13334802 TCCAAATTAGTACCAAAATTATA-CC-TTTTTTT
1 TCCAAATTGGTACCAAAATTATACCCTTTTTTTT
13334834 TCCAAATTGGTAC
1 TCCAAATTGGTAC
13334847 ATACTTTTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
32 19 0.45
33 2 0.05
34 21 0.50
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.43
Consensus pattern (34 bp):
TCCAAATTGGTACCAAAATTATACCCTTTTTTTT
Found at i:13335926 original size:9 final size:9
Alignment explanation
Indices: 13335912--13335938 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
13335902 TAAAAACCTA
13335912 TTAAAAAAT
1 TTAAAAAAT
13335921 TTAAAAAAT
1 TTAAAAAAT
13335930 TTAAAAAAT
1 TTAAAAAAT
13335939 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:13340547 original size:18 final size:19
Alignment explanation
Indices: 13340524--13340568 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
13340514 AAATGTACTA
13340524 ATTAATTT-TTTGGACCAC
1 ATTAATTTCTTTGGACCAC
13340542 ATTAATTTCTTTGGACCAC
1 ATTAATTTCTTTGGACCAC
13340561 ATTAATTT
1 ATTAATTT
13340569 AAGATCTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (19 bp):
ATTAATTTCTTTGGACCAC
Found at i:13340614 original size:109 final size:109
Alignment explanation
Indices: 13340492--13340825 Score: 290
Period size: 109 Copynumber: 3.0 Consensus size: 109
13340482 AATTTAAGAT
13340492 GTTGAAAACGAAGATATTTGAAAAATGTACTAATTAATTTTTTGGACCACATTAATTTCTTTGGA
1 GTTGAAAACGAAGATATTTGAAAAATGTACTAATTAATTTTTTGGACCACATTAATTTCTTTGGA
13340557 CCACATTAATTTAAGATCTTGACTCTAATTATTGTATTAATAAC
66 CCACATTAATTTAAGATCTTGACTCTAATTATTGTATTAATAAC
* * * *
13340601 GTTGAAAATGAAGATATTTGGAAAATGTACTAATTACA--------ACAAAATTAATTTTCCCCT
1 GTTGAAAACGAAGATATTTGAAAAATGTACTAATTA-ATTTTTTGGACCACATTAA-TTT---C-
** ** ** * * ** * * * *
13340658 TTTTTAAGATGTTGACTCTAATTTTTTGGACT-AAATTGATTACACTAATTAATTTAAGAT
60 TTTGGACCACATT-AATTTAAGATCTT-GACTCTAATT-ATT---GT-ATTAA--T-A-AC
13340718 GTTGAAAACGAAGATATTTGAAAAATGTACTAATTAATTTTTTGGACCACATTAATTTCTTTGGA
1 GTTGAAAACGAAGATATTTGAAAAATGTACTAATTAATTTTTTGGACCACATTAATTTCTTTGGA
13340783 CCACATTAATTTAAGATCTTGACTCTAATTATTGTATTAATAA
66 CCACATTAATTTAAGATCTTGACTCTAATTATTGTATTAATAA
13340826 AAAGACTCAT
Statistics
Matches: 164, Mismatches: 35, Indels: 52
0.65 0.14 0.21
Matches are distributed among these distances:
102 8 0.05
103 3 0.02
106 1 0.01
107 7 0.04
108 12 0.07
109 42 0.26
110 2 0.01
111 1 0.01
112 1 0.01
113 10 0.06
114 1 0.01
115 1 0.01
116 2 0.01
117 42 0.26
118 12 0.07
119 7 0.04
120 1 0.01
123 3 0.02
124 8 0.05
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (109 bp):
GTTGAAAACGAAGATATTTGAAAAATGTACTAATTAATTTTTTGGACCACATTAATTTCTTTGGA
CCACATTAATTTAAGATCTTGACTCTAATTATTGTATTAATAAC
Found at i:13340773 original size:18 final size:19
Alignment explanation
Indices: 13340750--13340794 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
13340740 AAATGTACTA
13340750 ATTAATTT-TTTGGACCAC
1 ATTAATTTCTTTGGACCAC
13340768 ATTAATTTCTTTGGACCAC
1 ATTAATTTCTTTGGACCAC
13340787 ATTAATTT
1 ATTAATTT
13340795 AAGATCTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (19 bp):
ATTAATTTCTTTGGACCAC
Found at i:13340823 original size:226 final size:227
Alignment explanation
Indices: 13340399--13340825 Score: 820
Period size: 226 Copynumber: 1.9 Consensus size: 227
13340389 GCCTATTTAT
* * *
13340399 TGTATTAATTACAACAAAATTAATTTTTCTCCTTTTTTAGGATGTTGACTCTAATTTTTTGGACT
1 TGTACTAATTACAACAAAATTAATTTTTCCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
13340464 AAATTGATTACACTAATTAATTTAAGATGTTGAAAACGAAGATATTTGAAAAATGTACTAATTAA
66 AAATTGATTACACTAATTAATTTAAGATGTTGAAAACGAAGATATTTGAAAAATGTACTAATTAA
13340529 TTTTTTGGACCACATTAATTTCTTTGGACCACATTAATTTAAGATCTTGACTCTAATTATTGTAT
131 TTTTTTGGACCACATTAATTTCTTTGGACCACATTAATTTAAGATCTTGACTCTAATTATTGTAT
13340594 TAATAACGTTGAAAATGAAGATATTTGGAAAA
196 TAATAACGTTGAAAATGAAGATATTTGGAAAA
13340626 TGTACTAATTACAACAAAATTAA-TTTTCCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
1 TGTACTAATTACAACAAAATTAATTTTTCCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
13340690 AAATTGATTACACTAATTAATTTAAGATGTTGAAAACGAAGATATTTGAAAAATGTACTAATTAA
66 AAATTGATTACACTAATTAATTTAAGATGTTGAAAACGAAGATATTTGAAAAATGTACTAATTAA
13340755 TTTTTTGGACCACATTAATTTCTTTGGACCACATTAATTTAAGATCTTGACTCTAATTATTGTAT
131 TTTTTTGGACCACATTAATTTCTTTGGACCACATTAATTTAAGATCTTGACTCTAATTATTGTAT
13340820 TAATAA
196 TAATAA
13340826 AAAGACTCAT
Statistics
Matches: 197, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
226 175 0.89
227 22 0.11
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (227 bp):
TGTACTAATTACAACAAAATTAATTTTTCCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
AAATTGATTACACTAATTAATTTAAGATGTTGAAAACGAAGATATTTGAAAAATGTACTAATTAA
TTTTTTGGACCACATTAATTTCTTTGGACCACATTAATTTAAGATCTTGACTCTAATTATTGTAT
TAATAACGTTGAAAATGAAGATATTTGGAAAA
Found at i:13350578 original size:38 final size:38
Alignment explanation
Indices: 13350526--13350610 Score: 143
Period size: 38 Copynumber: 2.2 Consensus size: 38
13350516 AACCCGAGCA
* *
13350526 CTAACAGTATTAATTTCTTTAAATTTGAGTTTTTAATGT
1 CTAAC-GTATTAATTTATTTAAATTTAAGTTTTTAATGT
13350565 CTAACGTATTAATTTATTTAAATTTAAGTTTTTAATGT
1 CTAACGTATTAATTTATTTAAATTTAAGTTTTTAATGT
13350603 CTAACGTA
1 CTAACGTA
13350611 CTAACTGAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 39 0.89
39 5 0.11
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.49
Consensus pattern (38 bp):
CTAACGTATTAATTTATTTAAATTTAAGTTTTTAATGT
Found at i:13351769 original size:609 final size:609
Alignment explanation
Indices: 13350609--13351830 Score: 2221
Period size: 609 Copynumber: 2.0 Consensus size: 609
13350599 ATGTCTAACG
* *
13350609 TACTAACTGAATCATGGTATATAGATTCTCTAAATACCACACGGCCAGACACACGGGCGTATCTT
1 TACTAACTGAATCATGGTATACAGATTCTCTAAATACCACACGGCCAGACACACGGGCGTACCTT
* * *
13350674 AGGTCGTGCGAAAACAGGGCAAAATTTTTCCAACACAGGAAGCGATAAAGTTACCACGGCAGTGC
66 AGGTCGTGCGAAAACAGGGAAAAAATTTTCCAACACAGGAAGCGATAAAGTCACCACGGCAGTGC
*
13350739 TACATGGCCGTGGACGAACCTGCCAAACTAGCACGGGCATGCGACACACCCGTGCCTATCATCCA
131 TACATGGCCGTGGACGAACCTGCCAAACTAGCACGGGCATGCGACACACCCGTACCTATCATCCA
*
13350804 TGGGCGAACCTATCAAGTTAACACGGGCATGGGAGAAGCGAACCAAGCGAGACACGACTGCGTGA
196 TGGGCGAACCTATCAAGTTAACACGGGCATGGGAGAAGCGAACCAAACGAGACACGACTGCGTGA
* *
13350869 CACGGGCGTGGGCCGAATGCCAGACGCGCCCATATTCAAAATTCACGAAACACATGGGCAAAAAT
261 CACGGGAGTGGGCCGAATGCCAGACGCGCCCATACTCAAAATTCACGAAACACATGGGCAAAAAT
*
13350934 TATGGCACACGGGCGTGTCCCATAGCCGTGTGACCTAAAATCTTTAAAACCCCTCACTATTCATC
326 TAGGGCACACGGGCGTGTCCCATAGCCGTGTGACCTAAAATCTTTAAAACCCCTCACTATTCATC
*
13350999 ATCTCCCTCCCCAAAAATCCCTAACCCTAGCCGCTGCAACTCCACACACTCTACCCCCACACCCG
391 ATCTCCCTCCCCAAAAATCCCTAACCCTAGCCGCTGCAACTCCACACACCCTACCCCCACACCCG
13351064 TGCGCCGCCTACAACACCGATTTCGACACCCCAAGTTCCTTCTTTTTGCATTTGTTTACTCTTTT
456 TGCGCCGCCTACAACACCGATTTCGACACCCCAAGTTCCTTCTTTTTGCATTTGTTTACTCTTTT
13351129 CTCTCTATTTTCTCTACATATATTACTTATTTCATGATTTCTTTGCTATATTGAACTATTTTTGA
521 CTCTCTATTTTCTCTACATATATTACTTATTTCATGATTTCTTTGCTATATTGAACTATTTTTGA
13351194 ATATTCATAGTTAGAATAATAGAA
586 ATATTCATAGTTAGAATAATAGAA
*
13351218 TACTAACTGAATCATGGTATACAGATTCTCTAAATACCACACGGCCAGGCACACGGGCGTACCTT
1 TACTAACTGAATCATGGTATACAGATTCTCTAAATACCACACGGCCAGACACACGGGCGTACCTT
* * *
13351283 AGGTTGTGCGAAAATAGGGAAAAAATTTTCCAACACAGGAAGCGATAAAGTCGCCACGGCAGTGC
66 AGGTCGTGCGAAAACAGGGAAAAAATTTTCCAACACAGGAAGCGATAAAGTCACCACGGCAGTGC
13351348 TACATGGCCGTGGACGAACCTGCCAAACTAGCACGGGCATGCGACACACCCGTACCTATCATCCA
131 TACATGGCCGTGGACGAACCTGCCAAACTAGCACGGGCATGCGACACACCCGTACCTATCATCCA
* * *
13351413 TGGGTGAACCTATCAAGTTAACACGGGCATGGGAGAAGCGAACCAAACGAGACACGGCTGTGTGA
196 TGGGCGAACCTATCAAGTTAACACGGGCATGGGAGAAGCGAACCAAACGAGACACGACTGCGTGA
13351478 CACGGGAGTGGGCCGAATGCCAGACGCGCCCATACTCAAAATTCACGAAACACATGGGCAAAAAT
261 CACGGGAGTGGGCCGAATGCCAGACGCGCCCATACTCAAAATTCACGAAACACATGGGCAAAAAT
13351543 TAGGGCACACGGGCGTGTCCCATAGCCGTGTGACCTAAAATCTTTAAAACCCCTCACTATTCATC
326 TAGGGCACACGGGCGTGTCCCATAGCCGTGTGACCTAAAATCTTTAAAACCCCTCACTATTCATC
* *
13351608 ATCTTCCTCCTCAAAAATCCCTAACCCTAGCCGCTGCAACTCCACACACCCTACCCCCCACACCC
391 ATCTCCCTCCCCAAAAATCCCTAACCCTAGCCGCTGCAACTCCACACACCCTA-CCCCCACACCC
* *
13351673 GTGCGCCGCTTACAACACCGATTTCGACACCCCAAGTTCCTTCTTTTTGCATTT-TTTATTCTTT
455 GTGCGCCGCCTACAACACCGATTTCGACACCCCAAGTTCCTTCTTTTTGCATTTGTTTACTCTTT
*
13351737 TCTCTCTATTTTCTCTACATATATTGCTTATTTCATGATTTCTTTGCTATATTGAACTATTTTTG
520 TCTCTCTATTTTCTCTACATATATTACTTATTTCATGATTTCTTTGCTATATTGAACTATTTTTG
13351802 AATATTCATAGTTAGAATAATAGAA
585 AATATTCATAGTTAGAATAATAGAA
13351827 TACT
1 TACT
13351831 TTTGCTCTTT
Statistics
Matches: 589, Mismatches: 23, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
609 525 0.89
610 64 0.11
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (609 bp):
TACTAACTGAATCATGGTATACAGATTCTCTAAATACCACACGGCCAGACACACGGGCGTACCTT
AGGTCGTGCGAAAACAGGGAAAAAATTTTCCAACACAGGAAGCGATAAAGTCACCACGGCAGTGC
TACATGGCCGTGGACGAACCTGCCAAACTAGCACGGGCATGCGACACACCCGTACCTATCATCCA
TGGGCGAACCTATCAAGTTAACACGGGCATGGGAGAAGCGAACCAAACGAGACACGACTGCGTGA
CACGGGAGTGGGCCGAATGCCAGACGCGCCCATACTCAAAATTCACGAAACACATGGGCAAAAAT
TAGGGCACACGGGCGTGTCCCATAGCCGTGTGACCTAAAATCTTTAAAACCCCTCACTATTCATC
ATCTCCCTCCCCAAAAATCCCTAACCCTAGCCGCTGCAACTCCACACACCCTACCCCCACACCCG
TGCGCCGCCTACAACACCGATTTCGACACCCCAAGTTCCTTCTTTTTGCATTTGTTTACTCTTTT
CTCTCTATTTTCTCTACATATATTACTTATTTCATGATTTCTTTGCTATATTGAACTATTTTTGA
ATATTCATAGTTAGAATAATAGAA
Found at i:13366802 original size:32 final size:32
Alignment explanation
Indices: 13366733--13366804 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
13366723 CGCCCATATA
*
13366733 GCCCACACAACCCCAATAACCCAACCCGTATG
1 GCCCACACAACCCAAATAACCCAACCCGTATG
* * ** *
13366765 ACCCACACAACCCAAATAACCTAGGCCGTGTG
1 GCCCACACAACCCAAATAACCCAACCCGTATG
13366797 GCCCACAC
1 GCCCACAC
13366805 GGCCTAACTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.33, C:0.44, G:0.12, T:0.10
Consensus pattern (32 bp):
GCCCACACAACCCAAATAACCCAACCCGTATG
Found at i:13367816 original size:21 final size:21
Alignment explanation
Indices: 13367781--13367832 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
13367771 TAGCTTCACG
13367781 TCATTAGCTATTTTTTGATATTT
1 TCATTA-C-ATTTTTTGATATTT
13367804 TCATTACATTTTTTGATATTT
1 TCATTACATTTTTTGATATTT
13367825 TCATTACA
1 TCATTACA
13367833 CACCTATTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 22 0.76
22 1 0.03
23 6 0.21
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.58
Consensus pattern (21 bp):
TCATTACATTTTTTGATATTT
Found at i:13370059 original size:14 final size:13
Alignment explanation
Indices: 13370022--13370064 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
13370012 AAACATTATT
13370022 ATTTAATACATTG
1 ATTTAATACATTG
13370035 A--TAATATCATTG
1 ATTTAATA-CATTG
13370047 ATTTAATTACATTG
1 ATTTAA-TACATTG
13370061 ATTT
1 ATTT
13370065 TGTAAAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 5 0.19
12 6 0.23
13 1 0.04
14 12 0.46
15 2 0.08
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (13 bp):
ATTTAATACATTG
Found at i:13378398 original size:40 final size:40
Alignment explanation
Indices: 13378351--13379248 Score: 1165
Period size: 40 Copynumber: 22.5 Consensus size: 40
13378341 TTTTTCTTTA
13378351 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** * *
13378391 CCAGGCTAAGTTTCAAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
13378431 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** * *
13378471 CCAGGCTAAGTTTCAAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
13378511 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** * *
13378551 CCAGGCTAAGTTTCAAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
13378591 CTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
13378631 CCGGGCTAAG-CCTCGAAGGCATTTGTGAGAGTTACTATAT
1 CCGGGCTAAGTCC-CGAAGGCATTTGTGCGAGTTACTATAT
*
13378671 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** * *
13378711 CCAGGCTAAGTTTCAAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
13378751 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** * *
13378791 CCAGGCTAAGTTTCAAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
13378831 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** * *
13378871 CCAGGCTAAGTTTCAAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
13378911 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** * *
13378951 CCAGGCTAAGTTTCAAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
13378991 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** * *
13379031 CCAGGCTAAGTTTCAAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
13379071 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** * *
13379111 CCAGGCTAAGTTTCAAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
13379151 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
13379191 CCGGGCTAAGTCCCGAAGGCATCTGAGCTAG-TAGCTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
13379230 CCCGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
13379249 TACTTGGTTT
Statistics
Matches: 731, Mismatches: 122, Indels: 11
0.85 0.14 0.01
Matches are distributed among these distances:
39 22 0.03
40 706 0.97
41 3 0.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:13379229 original size:80 final size:80
Alignment explanation
Indices: 13378353--13379201 Score: 1601
Period size: 80 Copynumber: 10.6 Consensus size: 80
13378343 TTTCTTTACC
13378353 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
13378418 TGAGTTACTATATCT
66 TGAGTTACTATATCT
13378433 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
13378498 TGAGTTACTATATCT
66 TGAGTTACTATATCT
13378513 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
13378578 TGAGTTACTATATCT
66 TGAGTTACTATATCT
* * * ** *
13378593 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCTCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCAGGCTAAGTTTCAAAGGCATTTGT
*
13378657 GAGAGTTACTATATCT
65 GTGAGTTACTATATCT
13378673 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
13378738 TGAGTTACTATATCT
66 TGAGTTACTATATCT
13378753 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
13378818 TGAGTTACTATATCT
66 TGAGTTACTATATCT
13378833 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
13378898 TGAGTTACTATATCT
66 TGAGTTACTATATCT
13378913 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
13378978 TGAGTTACTATATCT
66 TGAGTTACTATATCT
13378993 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
13379058 TGAGTTACTATATCT
66 TGAGTTACTATATCT
13379073 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
13379138 TGAGTTACTATATCT
66 TGAGTTACTATATCT
* *
13379153 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGT
13379202 CCCGAAGGCA
Statistics
Matches: 751, Mismatches: 16, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
79 1 0.00
80 749 1.00
81 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTTCAAAGGCATTTGTG
TGAGTTACTATATCT
Found at i:13380839 original size:13 final size:13
Alignment explanation
Indices: 13380821--13380850 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13380811 TTAAACTTGA
13380821 ATGAATTGAGATG
1 ATGAATTGAGATG
13380834 ATGAATTGAGATG
1 ATGAATTGAGATG
13380847 -TGAA
1 ATGAA
13380851 ACTTGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (13 bp):
ATGAATTGAGATG
Found at i:13391179 original size:18 final size:17
Alignment explanation
Indices: 13391156--13391192 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
13391146 TAATAATAAT
*
13391156 AATAATTAAACTAAAAGA
1 AATAATTAAA-GAAAAGA
13391174 AATAATTAAAGAAAAGA
1 AATAATTAAAGAAAAGA
13391191 AA
1 AA
13391193 GTGGAGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.70, C:0.03, G:0.08, T:0.19
Consensus pattern (17 bp):
AATAATTAAAGAAAAGA
Found at i:13391234 original size:11 final size:11
Alignment explanation
Indices: 13391214--13391247 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
13391204 CAAATAAATT
13391214 GAAAAAAAAAA
1 GAAAAAAAAAA
*
13391225 GAAAAGAAAAA
1 GAAAAAAAAAA
13391236 GAAAAAAGAAAA
1 GAAAAAA-AAAA
13391248 AGGAGACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:13396026 original size:19 final size:19
Alignment explanation
Indices: 13395994--13396070 Score: 77
Period size: 19 Copynumber: 4.1 Consensus size: 19
13395984 AAAAGCTATG
*
13395994 TGTTACATGAATGAATTAC
1 TGTTATATGAATGAATTAC
* *
13396013 TGTTATATGGATGAAGTAC
1 TGTTATATGAATGAATTAC
* *
13396032 TGTTTATACGAATGAGTTAC
1 TG-TTATATGAATGAATTAC
13396052 TGTTATCA--AATGAATTAC
1 TGTTAT-ATGAATGAATTAC
13396070 T
1 T
13396071 ATTTACATGA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
18 10 0.21
19 22 0.46
20 16 0.33
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (19 bp):
TGTTATATGAATGAATTAC
Found at i:13396046 original size:20 final size:20
Alignment explanation
Indices: 13396002--13396055 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
13395992 TGTGTTACAT
* *
13396002 GAATGAATTACTG-TTATAT
1 GAATGAAGTACTGTTTATAC
*
13396021 GGATGAAGTACTGTTTATAC
1 GAATGAAGTACTGTTTATAC
13396041 GAATG-AGTTACTGTT
1 GAATGAAG-TACTGTT
13396056 ATCAAATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.39
Consensus pattern (20 bp):
GAATGAAGTACTGTTTATAC
Found at i:13399038 original size:29 final size:28
Alignment explanation
Indices: 13398994--13399083 Score: 121
Period size: 29 Copynumber: 3.1 Consensus size: 28
13398984 TAAGCATGAC
13398994 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTG-ATTGGGCCTGATGGGCCA
13399023 TATAAATGTGATTTGGGCC-GAATGGGCCA
1 TATAAATGTGA-TTGGGCCTG-ATGGGCCA
*
13399052 TATAAATGTGATTAGGCCT-AGTGGGCCA
1 TATAAATGTGATTGGGCCTGA-TGGGCCA
13399080 TATA
1 TATA
13399084 CAAGTATGTG
Statistics
Matches: 56, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
27 1 0.02
28 19 0.34
29 36 0.64
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTGATGGGCCA
Found at i:13401144 original size:16 final size:17
Alignment explanation
Indices: 13401107--13401150 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
13401097 GGAATATAGA
13401107 TTTGAATCCCATCAGTT
1 TTTGAATCCCATCAGTT
13401124 TTTGAATCCCATCAG-T
1 TTTGAATCCCATCAGTT
13401140 TTTGAATCCCA
1 TTTGAATCCCA
13401151 CACACAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (17 bp):
TTTGAATCCCATCAGTT
Found at i:13409262 original size:21 final size:21
Alignment explanation
Indices: 13409187--13409252 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
13409177 GTCTTGAATT
13409187 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
13409208 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
13409233 TGTTAGATATTGAATTTATT
1 TGTTAGATATTGAATTTATT
13409253 TGGTTGGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 14 0.38
22 2 0.05
23 4 0.11
24 2 0.05
25 15 0.41
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:13410545 original size:27 final size:27
Alignment explanation
Indices: 13410508--13410564 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 27
13410498 GCAATATATG
13410508 TAAAAAAAA-TTAAAGTATAAATTTAT
1 TAAAAAAAATTTAAAGTATAAATTTAT
*
13410534 TAAAAAACAATTTAAAGTATATATTTAT
1 TAAAAAA-AATTTAAAGTATAAATTTAT
13410562 TAA
1 TAA
13410565 TATATATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 7 0.25
27 2 0.07
28 19 0.68
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (27 bp):
TAAAAAAAATTTAAAGTATAAATTTAT
Found at i:13410577 original size:18 final size:18
Alignment explanation
Indices: 13410551--13410592 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
13410541 CAATTTAAAG
*
13410551 TATATATTTATTAATATA
1 TATAAATTTATTAATATA
13410569 TATAAATTTATTAATATA
1 TATAAATTTATTAATATA
*
13410587 TGTAAA
1 TATAAA
13410593 AACAGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TATAAATTTATTAATATA
Found at i:13410693 original size:19 final size:19
Alignment explanation
Indices: 13410669--13410706 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13410659 ATCCAAACAC
*
13410669 TAGAAAAGTAAATCATTTT
1 TAGAAAAGAAAATCATTTT
13410688 TAGAAAAGAAAATCATTTT
1 TAGAAAAGAAAATCATTTT
13410707 CCAGAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (19 bp):
TAGAAAAGAAAATCATTTT
Found at i:13411451 original size:179 final size:179
Alignment explanation
Indices: 13411116--13411451 Score: 489
Period size: 179 Copynumber: 1.9 Consensus size: 179
13411106 TCAAGAGTTC
* * *
13411116 TACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCGGAAATGTCGAATAGTGAAATAGAGGTAT
1 TACCATGAAATAAATAATTTTTAGTGAAAAGAGGTCGGAAATATCGAATAGTGAAATAGAGGTAT
* * *
13411181 CTTTAATGAATAAACTGTACTAATTGGCTAAACTAAAATTCTAAAAATTTTATGGTAAGAATATA
66 ATTTAATGAATAAACTGTACTAATTGGCTAAACAAAAATTCTAAAAATTTTATGGTAAGAAGATA
* * *
13411246 TGTGAGTCTAGTTTCTGGTAAAAATTAGTGGTTCTCAATTTGAAGTCGT
131 TATGAGTCTAATTTCTGATAAAAATTAGTGGTTCTCAATTTGAAGTCGT
* * *
13411295 TACCATGAAATAAATAATTTTTAGTGAAAAGAGGTTGGAACTATC-AGATAGTGAAATAGGGGTA
1 TACCATGAAATAAATAATTTTTAGTGAAAAGAGGTCGGAAATATCGA-ATAGTGAAATAGAGGTA
* *
13411359 TATTTAATGAATAAACTGTATTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAAGA
65 TATTTAATGAATAAACTGTACTAATTGGCTAAA-CAAAAATTCTAAAAATTTTATGGTAAGAAGA
*
13411424 TATATGAGTGTAATTT-T-ATATAAAATTA
129 TATATGAGTCTAATTTCTGATA-AAAATTA
13411452 ACGAATATTA
Statistics
Matches: 139, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
178 3 0.02
179 95 0.68
180 41 0.29
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (179 bp):
TACCATGAAATAAATAATTTTTAGTGAAAAGAGGTCGGAAATATCGAATAGTGAAATAGAGGTAT
ATTTAATGAATAAACTGTACTAATTGGCTAAACAAAAATTCTAAAAATTTTATGGTAAGAAGATA
TATGAGTCTAATTTCTGATAAAAATTAGTGGTTCTCAATTTGAAGTCGT
Found at i:13413789 original size:15 final size:14
Alignment explanation
Indices: 13413769--13413813 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
13413759 TATGATACTG
13413769 TATCTTGGATTTCT
1 TATCTTGGATTTCT
*
13413783 CTATCTTGGACTTCT
1 -TATCTTGGATTTCT
*
13413798 TAATCTTGGTTTTCT
1 T-ATCTTGGATTTCT
13413813 T
1 T
13413814 GTTATCTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 1 0.04
15 25 0.96
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (14 bp):
TATCTTGGATTTCT
Found at i:13416413 original size:18 final size:20
Alignment explanation
Indices: 13416377--13416423 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
13416367 AGTTGTAAGT
13416377 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
13416397 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
13416416 ATGATATA
1 AT-ATATA
13416424 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:13416895 original size:50 final size:50
Alignment explanation
Indices: 13416776--13417161 Score: 253
Period size: 50 Copynumber: 7.6 Consensus size: 50
13416766 GTTGTGAGAA
* *
13416776 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACA-GTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--T-A-CCAGGTTGTTAGGT
* * * * *
13416828 CACGTGTGAAGTGCTAAGTGTAGGCTACTACGTGTACCAGGTTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGGTTGTTAGGT
* * ** * * * *
13416878 CGCATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCGATAGTTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGGTTG-TT-AGGT
* * ** * *
13416929 CACGTGTGTACTACTAAGTGCAGGCTACTACATGTA-CTGGATTGGTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGG-TTGTTAGGT
* * * * * * *
13416979 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGCACC-CGTTAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGGTT--GTTAGGT
* * * * * * *
13417030 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGGTTGTTAGGT
** * * * * *
13417080 CATGTGTGTAGTAATAAGTACAGACTACTATGTGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGGTTGTTAGGT
*
13417130 CACATGTGTAGTACTAAAG-CCAGGCTACTATG
1 CACATGTGTAGTACT-AAGTGCAGGCTACTATG
13417162 CATACCAGAG
Statistics
Matches: 253, Mismatches: 70, Indels: 24
0.73 0.20 0.07
Matches are distributed among these distances:
48 2 0.01
49 7 0.03
50 142 0.56
51 72 0.28
52 30 0.12
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGGTTGTTAGGT
Found at i:13416954 original size:51 final size:50
Alignment explanation
Indices: 13416882--13417059 Score: 164
Period size: 51 Copynumber: 3.5 Consensus size: 50
13416872 TTAGGTCGCA
*
13416882 TGTGTAGTACTAAGTGTAGGCTACTATGCATACCCGATAGTTTCAATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAG-TTCAATCACG
* ** * * * * *
13416933 TGTGTACTACTAAGTGCAGGCTACTA--CATGTACTGGATTGGT-AGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCA--TACCCGATAGTTCA-ATCACG
** * * *
13416983 TGTGTAGTACTAAGTGCAGGCTACTATGCGCACCCGTTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAT-AGTTCAATCACG
13417034 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
13417060 CGTGTATCAG
Statistics
Matches: 98, Mismatches: 22, Indels: 14
0.73 0.16 0.10
Matches are distributed among these distances:
49 3 0.03
50 33 0.34
51 61 0.62
52 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAGTTCAATCACG
Found at i:13416978 original size:101 final size:101
Alignment explanation
Indices: 13416827--13417065 Score: 336
Period size: 101 Copynumber: 2.4 Consensus size: 101
13416817 CAGTTTTAGG
* * * *
13416827 TCACGTGTGAAGTGCTAAGTGTAGGCTACTACGTGTACCAGGTTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGGTTGGTAGGTCGCATGTGTAGTAC
* * **
13416892 TAAGTGTAGGCTACTATGCATACCCGATAGTTTCAA
66 TAAGTGCAGGCTACTATGCACACCCGATAACTTCAA
* * *
13416928 TCACGTGTGTACTACTAAGTGCAGGCTACTACATGTA-CTGGATTGGTAGGTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGG-TTGGTAGGTCGCATGTGTAGTA
* * *
13416992 CTAAGTGCAGGCTACTATGCGCACCCGTTAACTTCGA
65 CTAAGTGCAGGCTACTATGCACACCCGATAACTTCAA
13417029 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA
13417066 TCAGATGGAT
Statistics
Matches: 121, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
100 3 0.02
101 118 0.98
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGGTTGGTAGGTCGCATGTGTAGTAC
TAAGTGCAGGCTACTATGCACACCCGATAACTTCAA
Found at i:13417088 original size:101 final size:99
Alignment explanation
Indices: 13416827--13417111 Score: 318
Period size: 101 Copynumber: 2.8 Consensus size: 99
13416817 CAGTTTTAGG
* * * * *
13416827 TCACGTGTGAAGTGCTAAGTGTAGGCTACTACGTGTACCAGGTTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CA-GATGGTAGGTCGCATGTGTAGTAC
* * **
13416892 TAAGTGTAGGCTACTATGCATACCCGATAGTTTCAA
64 TAAGTGCAGGCTACTATGCACACCCGATAACTTCAA
* * *
13416928 TCACGTGTGTACTACTAAGTGCAGGCTACTACATGTACTGGATTGGTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-AGA-TGGTAGGTCGCATGTGTAGTAC
* * *
13416993 TAAGTGCAGGCTACTATGCGCACCCGTTAACTTCGA
64 TAAGTGCAGGCTACTATGCACACCCGATAACTTCAA
* *** *
13417029 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCATGTGTGTAGTAA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGATGG-TAGGTCGCATGTGTAGTAC
* *
13417094 TAAGTACAGACTACTATG
64 TAAGTGCAGGCTACTATG
13417112 TGTACCAGAT
Statistics
Matches: 155, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
100 5 0.03
101 149 0.96
102 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGATGGTAGGTCGCATGTGTAGTACTA
AGTGCAGGCTACTATGCACACCCGATAACTTCAA
Found at i:13417391 original size:16 final size:16
Alignment explanation
Indices: 13417370--13417401 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13417360 AGAATGGAGT
13417370 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
13417386 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
13417402 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:13422454 original size:23 final size:23
Alignment explanation
Indices: 13422400--13422480 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
13422390 CTGAGCTGAT
13422400 AAACGGTAAGCTCCAAAGAGCTG
1 AAACGGTAAGCTCCAAAGAGCTG
* ***
13422423 -AACGATAAGCTCCGTGGAGCTG
1 AAACGGTAAGCTCCAAAGAGCTG
*
13422445 AAACGGTAAGCCCCAAAGAGCTG
1 AAACGGTAAGCTCCAAAGAGCTG
*
13422468 AAATGGTAAGCTC
1 AAACGGTAAGCTC
13422481 ATACGAGCTA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
22 18 0.39
23 28 0.61
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (23 bp):
AAACGGTAAGCTCCAAAGAGCTG
Found at i:13427429 original size:40 final size:40
Alignment explanation
Indices: 13427384--13427731 Score: 687
Period size: 40 Copynumber: 8.7 Consensus size: 40
13427374 GCAAACACAT
*
13427384 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
13427424 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
13427464 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
13427504 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
13427544 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
13427584 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
13427624 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
13427664 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
13427704 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
13427732 TCCAATGCTC
Statistics
Matches: 307, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 307 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:13430228 original size:47 final size:47
Alignment explanation
Indices: 13430159--13430379 Score: 204
Period size: 47 Copynumber: 4.7 Consensus size: 47
13430149 TAAGGTGCCA
* * *
13430159 ATGCCATGTCCCAGACACGGTCTTACACTAGCTCATATCTTAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCG
*
13430206 ATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCCCATAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCAT-ATCTCA-AGCCG
* * * *
13430254 AT-TCATGTCCCAGACAT-GTCTTACACTGGCAT-ACATCTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC-TCATATCTC-AAGCCG
* * * * *
13430300 ATG-AATGTCCCAAACAT-GTCTTACACTAGCTCTTGTCTCAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAA-GCCG
* *
13430346 ATGCCATATCCCAGACATGGTCTTATACTAGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC
13430380 TCGTAATGTG
Statistics
Matches: 143, Mismatches: 20, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.01
46 58 0.41
47 63 0.44
48 20 0.14
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCG
Found at i:13430300 original size:46 final size:46
Alignment explanation
Indices: 13430204--13430326 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 46
13430194 TATCTTAAGT
13430204 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCCCATAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCCCATAGC
* * * *
13430252 CGATTCATGTCCCAGACATGTCTTACACTGGC-ATACATCTCGA-GGC
1 CGATGCATGTCCCAGACATGTCTTACACTGACTAT-CATC-CCATAGC
* *
13430298 CGATGAATGTCCCAAACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
13430327 AGCTCTTGTC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
45 2 0.03
46 44 0.67
47 16 0.24
48 4 0.06
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACTATCATCCCATAGC
Found at i:13430416 original size:140 final size:140
Alignment explanation
Indices: 13430164--13430423 Score: 344
Period size: 140 Copynumber: 1.9 Consensus size: 140
13430154 TGCCAATGCC
* * *
13430164 ATGTCCCAGACACGGTCTTACACTAGCTCATATCTTAAGTCGATGCCATGTCCCAGACATGGTCT
1 ATGTCCCAAACACGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATATCCCAGACATGGTCT
** * *
13430229 TACACTGACTATCATCCCATAGCCGATTCATGTCCCAGACATGTCTTACACTGGCATACATCTCG
66 TACACTGACTATCATAACATAGCCGATACATGCCCCAGACATGTCTTACACTGGCATACATCTCG
13430294 AGGCCGATGA
131 AGGCCGATGA
* * *
13430304 ATGTCCCAAACA-TGTCTTACACTAGCTCTTGTCTCAATGTCGATGCCATATCCCAGACATGGTC
1 ATGTCCCAAACACGGTCTTACACTAGCTCATATCTCAA-GTCGATGCCATATCCCAGACATGGTC
* * * ** *
13430368 TTATACT-AGCTCTCGTAATGTGGCCGATACATGCCCCAGACATGTCTTACACTGGC
65 TTACACTGA-CTATCATAACATAGCCGATACATGCCCCAGACATGTCTTACACTGGC
13430424 TCACACAAGT
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
139 22 0.22
140 80 0.78
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (140 bp):
ATGTCCCAAACACGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATATCCCAGACATGGTCT
TACACTGACTATCATAACATAGCCGATACATGCCCCAGACATGTCTTACACTGGCATACATCTCG
AGGCCGATGA
Found at i:13439430 original size:19 final size:19
Alignment explanation
Indices: 13439384--13439430 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 19
13439374 CTGTTCTGTC
13439384 TTTG-AAAAATCATTATAA
1 TTTGTAAAAATCATTATAA
13439402 TTTGTAAAAA-CATTATAA
1 TTTGTAAAAATCATTATAA
13439420 TTTGTACAAAA
1 TTTGTA-AAAA
13439431 ATGGTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (19 bp):
TTTGTAAAAATCATTATAA
Found at i:13439829 original size:47 final size:47
Alignment explanation
Indices: 13439757--13439860 Score: 163
Period size: 47 Copynumber: 2.2 Consensus size: 47
13439747 TTAGGATTTT
* ** *
13439757 ATGTGATCAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
*
13439804 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
13439851 ATGTGATGAA
1 ATGTGATGAA
13439861 NNNNNNNNNN
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
Found at i:13439857 original size:22 final size:22
Alignment explanation
Indices: 13439786--13439857 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
13439776 GTATATATGA
13439786 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
13439808 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
13439833 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
13439855 GAT
1 GAT
13439858 GAANNNNNNN
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:13441290 original size:47 final size:49
Alignment explanation
Indices: 13441221--13441445 Score: 206
Period size: 47 Copynumber: 4.8 Consensus size: 49
13441211 TAAGGTGCCA
**
13441221 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-ATTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAGACCG
*
13441268 ATGCCATGTCCTAGACATGGTCTTACACT-GACT-ATCATCTCATAG-CCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTCA-AGACCG
* * * * * *
13441316 ATG-CATGTCCTAGACAT-GTCTTACACT-G-GCATACGTCTTAAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-CATCTCAAGACCG
* *
13441362 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAGACCG
* * *
13441408 ATGCCATATCCCAAACATGGTCTTATACTAGCTC-TCAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCAT
13441446 AATGTGGTCG
Statistics
Matches: 150, Mismatches: 17, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
45 4 0.03
46 59 0.39
47 64 0.43
48 23 0.15
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAGACCG
Found at i:13441399 original size:46 final size:46
Alignment explanation
Indices: 13441225--13441445 Score: 191
Period size: 46 Copynumber: 4.7 Consensus size: 46
13441215 GTGCCAATGC
**
13441225 CATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAAATTGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTC-TCATCTCAAGCTGATG
* * *
13441271 CCATGTCCTAGACATGGTCTTACACT-GACTATCATCTCATAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAG-CTCTCATCTCA-AGCTGATG
* * * * *
13441319 CATGTCCTAGACAT-GTCTTACACTGGCAT-ACGTCTTAAGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTAGC-TCTCATCTCAA-GCTGATG
* * *
13441365 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATACCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAA-GCTGATG
* * *
13441411 CCATATCCCAAACATGGTCTTATACTAGCTCTCAT
1 -CATGTCCCAGACATGGTCTTACACTAGCTCTCAT
13441446 AATGTGGTCG
Statistics
Matches: 145, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.01
46 61 0.42
47 60 0.41
48 22 0.15
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAGCTGATG
Found at i:13441426 original size:140 final size:140
Alignment explanation
Indices: 13441225--13441485 Score: 332
Period size: 140 Copynumber: 1.9 Consensus size: 140
13441215 GTGCCAATGC
** * * *
13441225 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAATTGATGCCATGTCCTAGACATGGTC
1 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAACCGATGCCATATCCCAAACATGGTC
* *
13441290 TTACACT-GACTATCAT-CTCATAGCCGATGCATGTCCTAGACATGTCTTACACTGGCATACGTC
66 TTACACTAG-CTATCATAAT-ATAGCCGATGCATGTCCCAGACATGTCTTACACTGGCATACGTC
13441353 TTAAGGCTGATG
129 TTAAGGCTGATG
*
13441365 CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATACCGATGCCATATCCCAAACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-ACCGATGCCATATCCCAAACATGG
* * * * * *
13441428 TCTTATACTAGCTCTCATAATGTGGTCGATGCATGTCCCAGGCATGTCTTACACTGGC
64 TCTTACACTAGCTATCATAATATAGCCGATGCATGTCCCAGACATGTCTTACACTGGC
13441486 TCACGCAAGT
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
138 1 0.01
139 21 0.20
140 79 0.77
141 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAACCGATGCCATATCCCAAACATGGTC
TTACACTAGCTATCATAATATAGCCGATGCATGTCCCAGACATGTCTTACACTGGCATACGTCTT
AAGGCTGATG
Found at i:13441841 original size:27 final size:27
Alignment explanation
Indices: 13441787--13441842 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
13441777 AGACAAATTG
** *
13441787 TTGCAACTTGCTGTCATCTTTCTGAGC
1 TTGCAACTCACTGTCATCTTTCTAAGC
*
13441814 TTGCAACTCACTGTCATCTTTTTAAGC
1 TTGCAACTCACTGTCATCTTTCTAAGC
13441841 TT
1 TT
13441843 CACAGATTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (27 bp):
TTGCAACTCACTGTCATCTTTCTAAGC
Found at i:13444878 original size:31 final size:32
Alignment explanation
Indices: 13444843--13444906 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
13444833 ACTTGGTAAG
*
13444843 TTTACTTTCTGATTA-TTGAGCTTACTAAGCA
1 TTTACTTTCCGATTATTTGAGCTTACTAAGCA
13444874 TTTACTTTCCGATTATTTGAGCTTACTAAGCA
1 TTTACTTTCCGATTATTTGAGCTTACTAAGCA
13444906 T
1 T
13444907 GTAAATGCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.45
Consensus pattern (32 bp):
TTTACTTTCCGATTATTTGAGCTTACTAAGCA
Found at i:13448517 original size:40 final size:40
Alignment explanation
Indices: 13448399--13448522 Score: 178
Period size: 40 Copynumber: 3.1 Consensus size: 40
13448389 CGGATGATAA
*
13448399 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
13448439 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* **
13448479 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTA-CTATAT
13448519 CCGG
1 CCGG
13448523 TTAAATTCCG
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 2 0.03
40 74 0.97
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:13456231 original size:40 final size:40
Alignment explanation
Indices: 13456163--13456314 Score: 225
Period size: 40 Copynumber: 3.8 Consensus size: 40
13456153 CGGATGATAA
13456163 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * *
13456203 CCAGGCTGAGTCTCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
13456243 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* *
13456283 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
13456315 AGCTATATCC
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 98 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:13460120 original size:23 final size:22
Alignment explanation
Indices: 13460060--13460136 Score: 86
Period size: 23 Copynumber: 3.5 Consensus size: 22
13460050 GAGCTATGAT
13460060 CGGTAAGCTCCG-AGAGCTAAA
1 CGGTAAGCTCCGAAGAGCTAAA
*
13460081 CGGTAAGCTCCGTAGAGCTAAA
1 CGGTAAGCTCCGAAGAGCTAAA
*
13460103 GTGGTAAGC-CTCGAAGAGCTGAAA
1 -CGGTAAGCTC-CGAAGAGCT-AAA
*
13460127 CGGTATGCTC
1 CGGTAAGCTC
13460137 ATACGAGCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 12 0.26
22 10 0.21
23 21 0.45
24 4 0.09
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.18
Consensus pattern (22 bp):
CGGTAAGCTCCGAAGAGCTAAA
Found at i:13466634 original size:27 final size:26
Alignment explanation
Indices: 13466594--13466645 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
13466584 CTCACTACAA
*
13466594 TCTGGTGGCCTCGTCACATATATCTGT
1 TCTGGTGACCTCGTCACA-ATATCTGT
*
13466621 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGTCACAATATCTG
13466646 GCAGCCTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACCTCGTCACAATATCTGT
Found at i:13475699 original size:68 final size:68
Alignment explanation
Indices: 13475551--13475708 Score: 162
Period size: 68 Copynumber: 2.3 Consensus size: 68
13475541 CTAGCCGATT
* * * *
13475551 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGTGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGTGACCTAGCTACA
*
13475616 TTTA
65 TATA
* *
13475620 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGTGACCTAGCTA
13475682 CTATATA
63 C-ATATA
13475689 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
13475709 ACACATGATG
Statistics
Matches: 75, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
67 1 0.01
68 34 0.45
69 8 0.11
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGTGACCTAGCTACAT
ATA
Found at i:13483192 original size:68 final size:68
Alignment explanation
Indices: 13483099--13483256 Score: 280
Period size: 68 Copynumber: 2.3 Consensus size: 68
13483089 TTCACTTGGA
* *
13483099 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
13483164 CGT
66 CGT
*
13483167 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACTTCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
13483232 CGT
66 CGT
*
13483235 ATCACACATGTGACCTATCTAC
1 ATCACACATGTGACCTAGCTAC
13483257 TATATAGTAT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 86 1.00
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.32
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:13483289 original size:68 final size:67
Alignment explanation
Indices: 13483099--13483282 Score: 237
Period size: 68 Copynumber: 2.7 Consensus size: 67
13483089 TTCACTTGGA
* * * *
13483099 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATATATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
13483164 CGT
65 CGT
* * *
13483167 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACTTCC
1 ATCACACATGTGACCTAGCTACATATATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
13483232 CGT
65 CGT
*
13483235 ATCACACATGTGACCTATCTACTATATAGTATCT-CGTAGC-CTTCTTGT
1 ATCACACATGTGACCTAGCTAC-ATATA-TATCTACGTAGCTC-TCTTGT
13483283 ACACATGATG
Statistics
Matches: 107, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
67 1 0.01
68 98 0.92
69 4 0.04
70 4 0.04
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (67 bp):
ATCACACATGTGACCTAGCTACATATATATCTACGTAGCTCTCTTGTCTACATGGGATACATCCC
GT
Found at i:13486749 original size:9 final size:9
Alignment explanation
Indices: 13486700--13486825 Score: 84
Period size: 9 Copynumber: 14.7 Consensus size: 9
13486690 TATTACTCAC
*
13486700 ATAATTTAT
1 ATAATTCAT
*
13486709 GTAATTCAT
1 ATAATTCAT
13486718 AT-A-TCAT
1 ATAATTCAT
* *
13486725 AAAATCCAT
1 ATAATTCAT
*
13486734 GTAATTCAT
1 ATAATTCAT
13486743 ATAATTCAT
1 ATAATTCAT
*
13486752 GTAATTCAT
1 ATAATTCAT
*
13486761 GTAATTCAT
1 ATAATTCAT
*
13486770 GTAATTCAT
1 ATAATTCAT
* *
13486779 GTAA--CTT
1 ATAATTCAT
13486786 ATAATTCAT
1 ATAATTCAT
* *
13486795 GTAAATCAT
1 ATAATTCAT
* *
13486804 ATAACTCTT
1 ATAATTCAT
13486813 AT-A-TCAT
1 ATAATTCAT
13486820 ATAATT
1 ATAATT
13486826 TTCATAAATC
Statistics
Matches: 92, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
7 15 0.16
8 4 0.04
9 73 0.79
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.43
Consensus pattern (9 bp):
ATAATTCAT
Found at i:13486752 original size:18 final size:18
Alignment explanation
Indices: 13486707--13486807 Score: 93
Period size: 18 Copynumber: 5.8 Consensus size: 18
13486697 CACATAATTT
13486707 ATGTAATTCATAT-A-TC
1 ATGTAATTCATATAATTC
** * *
13486723 ATAAAATCCATGTAATTC
1 ATGTAATTCATATAATTC
* *
13486741 ATATAATTCATGTAATTC
1 ATGTAATTCATATAATTC
*
13486759 ATGTAATTCATGTAATTC
1 ATGTAATTCATATAATTC
*
13486777 ATGTAA--CTTATAATTC
1 ATGTAATTCATATAATTC
*
13486793 ATGTAAATCATATAA
1 ATGTAATTCATATAA
13486808 CTCTTATATC
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
16 23 0.32
17 1 0.01
18 47 0.66
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.41
Consensus pattern (18 bp):
ATGTAATTCATATAATTC
Found at i:13486819 original size:25 final size:25
Alignment explanation
Indices: 13486762--13486809 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
13486752 GTAATTCATG
* *
13486762 TAATTCATGTAATTCATGTAACTTA
1 TAATTCATGTAAATCATATAACTTA
13486787 TAATTCATGTAAATCATATAACT
1 TAATTCATGTAAATCATATAACT
13486810 CTTATATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (25 bp):
TAATTCATGTAAATCATATAACTTA
Found at i:13486823 original size:34 final size:34
Alignment explanation
Indices: 13486739--13486825 Score: 84
Period size: 34 Copynumber: 2.5 Consensus size: 34
13486729 TCCATGTAAT
* * * *
13486739 TCATATAATTCATGTAATTCATGTAATTCATGTAAT
1 TCATAT-A-TCATATAATTCATGTAAATCATATAAC
* * *
13486775 TCATGTAACTTATAATTCATGTAAATCATATAAC
1 TCATATATCATATAATTCATGTAAATCATATAAC
*
13486809 TCTTATATCATATAATT
1 TCATATATCATATAATT
13486826 TTCATAAATC
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
34 34 0.85
35 1 0.03
36 5 0.12
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.44
Consensus pattern (34 bp):
TCATATATCATATAATTCATGTAAATCATATAAC
Found at i:13487006 original size:23 final size:24
Alignment explanation
Indices: 13486980--13487038 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
13486970 CTGAGTTGAT
*
13486980 AAACGGTAAGCTCC-GTAGACCTG
1 AAACGGTAAGCTCCTGAAGACCTG
* *
13487003 AAACAGTAAGC-CCTGAAGAGCTG
1 AAACGGTAAGCTCCTGAAGACCTG
*
13487026 AAATGGTAAGCTC
1 AAACGGTAAGCTC
13487039 ATACGAGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 2 0.07
23 26 0.90
24 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (24 bp):
AAACGGTAAGCTCCTGAAGACCTG
Found at i:13496349 original size:47 final size:47
Alignment explanation
Indices: 13496296--13496801 Score: 787
Period size: 47 Copynumber: 10.6 Consensus size: 47
13496286 GTATATTTGA
* *
13496296 ATGAATGTGAAAGTGTATATATGTGATAAGGCATAATGGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * *
13496343 ATGAATGTGAAAGCGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
13496390 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
* *
13496439 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
13496486 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
* *
13496535 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
13496582 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
* *
13496631 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
13496678 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * * *
13496725 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
13496772 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
13496802 TCCCGAAGGG
Statistics
Matches: 423, Mismatches: 30, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 288 0.68
49 135 0.32
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:13496458 original size:96 final size:96
Alignment explanation
Indices: 13496296--13496801 Score: 862
Period size: 96 Copynumber: 5.3 Consensus size: 96
13496286 GTATATTTGA
* * *
13496296 ATGAATGTGAAAGTG--TATATATGTGATAAGGCATAATGGCCGATATGATGAATGTGAAAGCGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
13496359 ATATATGTGATAAGGCCGAATGGCCAATGTG
66 ATATATGTGATAAGGCCGAATGGCCAATGTG
13496390 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
13496455 ATATATGTGATAAGGCCGAATGGCCAATGTG
66 ATATATGTGATAAGGCCGAATGGCCAATGTG
13496486 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
13496551 ATATATGTGATAAGGCCGAATGGCCAATGTG
66 ATATATGTGATAAGGCCGAATGGCCAATGTG
13496582 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * *
13496647 ATATATGTGATAAGGCCTAATAGCCGATATG
66 ATATATGTGATAAGGCCGAATGGCCAATGTG
13496678 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * *
13496741 ATATATGTGACAGGGCCGAGTGGCCAACGTG
66 ATATATGTGATAAGGCCGAATGGCCAATGTG
*
13496772 ATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGAATGTGAAAGTGTATATATATGTGATAAG
13496802 TCCCGAAGGG
Statistics
Matches: 392, Mismatches: 16, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
94 110 0.28
95 1 0.00
96 281 0.72
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCGAATGGCCAATGTG
Found at i:13496554 original size:143 final size:141
Alignment explanation
Indices: 13496296--13496801 Score: 787
Period size: 143 Copynumber: 3.5 Consensus size: 141
13496286 GTATATTTGA
** * * *
13496296 ATGAATGTGAAAGTGTATATATGTGATAAGGCATAATGGCCGATATGATGAATGTGAAAGCGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
* *
13496361 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCT
13496426 AATGGCCGATGTG
129 AATGGCCGATGTG
13496439 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--T
*
13496504 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCG
64 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
13496569 AATGGCCAATGTG
129 AATGGCCGATGTG
* *
13496582 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT
* *
13496647 ATATATGTGATAAGGCCTAATAGCCGATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
64 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
13496712 AATGGCCGATGTG
129 AATGGCCGATGTG
* * * * *
13496725 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
*
13496790 AAATGTGATAAG
66 ATATGTGATAAG
13496802 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 23, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
141 54 0.16
143 192 0.57
145 90 0.27
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (141 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
TGGCCGATGTG
Done.