Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 154 of 438
Found at i:46730716 original size:6 final size:6
Alignment explanation
Indices: 46730705--46730814 Score: 91
Period size: 6 Copynumber: 17.8 Consensus size: 6
46730695 TATCATAACT
* * *
46730705 AGAATC AGAATC AGAATC AGAATC A-AGTGAC AGAATC AAAATC AGAACC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
46730754 AGAATC AGAATT AGGTAA-C AGAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
46730804 AGAATT AGAAT
1 AGAATC AGAAT
46730815 GTGAATGTAA
Statistics
Matches: 84, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
5 6 0.07
6 66 0.79
7 7 0.08
8 5 0.06
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:46730740 original size:19 final size:19
Alignment explanation
Indices: 46730716--46730785 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
46730706 GAATCAGAAT
*
46730716 CAGAATCAGAATCAAGTGA
1 CAGAATCAGAATCAAGTAA
*
46730735 CAGAATCAAAATC-AG-AA
1 CAGAATCAGAATCAAGTAA
* *
46730752 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAAGTAA
46730772 CAGAATCAGAATCA
1 CAGAATCAGAATCA
46730786 GTATCAGGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.02
18 13 0.31
19 26 0.62
20 2 0.05
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.16
Consensus pattern (19 bp):
CAGAATCAGAATCAAGTAA
Found at i:46730741 original size:31 final size:31
Alignment explanation
Indices: 46730700--46730814 Score: 110
Period size: 31 Copynumber: 3.7 Consensus size: 31
46730690 AACATTATCA
46730700 TAACTAGAATCAGAATCAGAATCAGAATCAAG
1 TAAC-AGAATCAGAATCAGAATCAGAATCAAG
* * *
46730732 TGACAGAATCAAAATCAGAACCAGAATC-AG
1 TAACAGAATCAGAATCAGAATCAGAATCAAG
* * *
46730762 -AATTAGGTAA-CAGAATCAGAATCAGTATCAGG
1 TAA-CA-G-AATCAGAATCAGAATCAGAATCAAG
*
46730794 TAACAGAATCAGAATTAGAAT
1 TAACAGAATCAGAATCAGAAT
46730815 GTGAATGTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
29 1 0.02
30 5 0.08
31 51 0.77
32 7 0.11
33 2 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (31 bp):
TAACAGAATCAGAATCAGAATCAGAATCAAG
Found at i:46730749 original size:37 final size:37
Alignment explanation
Indices: 46730707--46730792 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
46730697 TCATAACTAG
*
46730707 AATCAGAATCAGAATCAGAATCAAGTGACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAAGTAACAGAATCAA
* * * *
46730744 AATCAGAACCAGAATCAGAATTAGGTAACAGAATCAG
1 AATCAGAATCAGAATCAGAATCAAGTAACAGAATCAA
*
46730781 AATCAGTATCAG
1 AATCAGAATCAG
46730793 GTAACAGAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.17
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAAGTAACAGAATCAA
Found at i:46730775 original size:25 final size:25
Alignment explanation
Indices: 46730747--46730814 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
46730737 GAATCAAAAT
* *
46730747 CAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
46730772 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
46730797 CAGAATCAGAATTAGAAT
1 CAGAATCAGAATCAGAAT
46730815 GTGAATGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:46731030 original size:67 final size:67
Alignment explanation
Indices: 46730917--46731070 Score: 272
Period size: 67 Copynumber: 2.3 Consensus size: 67
46730907 CACCACAGAA
* * *
46730917 ATTGCAGCGAGGTTGCCAGATATTGTGACGAAGTCACTAGAACAGATATATGTGGCGAAGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAATCACCAGAACAGATATATGTGGCGAAGCCACC
46730982 AG
66 AG
*
46730984 ATTGTAGCGAGGCTGCCAGATATTGTGACGAAATCACCAGAACAGATATATGTGGCGAAGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAATCACCAGAACAGATATATGTGGCGAAGCCACC
46731049 AG
66 AG
46731051 ATTGCAGCGAGGCTGCCAGA
1 ATTGCAGCGAGGCTGCCAGA
46731071 ACGCTTCCTC
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 82 1.00
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (67 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAATCACCAGAACAGATATATGTGGCGAAGCCACC
AG
Found at i:46731042 original size:27 final size:26
Alignment explanation
Indices: 46731000--46731051 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
46730990 GCGAGGCTGC
*
46731000 CAGATATTGTGACGAAATCACCAGAA
1 CAGATATTGTGACGAAACCACCAGAA
* *
46731026 CAGATATATGTGGCGAAGCCACCAGA
1 CAGATAT-TGTGACGAAACCACCAGA
46731052 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAACCACCAGAA
Found at i:46731329 original size:27 final size:27
Alignment explanation
Indices: 46731299--46731517 Score: 235
Period size: 27 Copynumber: 8.1 Consensus size: 27
46731289 GCAAAATGAC
* * *
46731299 AATTTTACCCCACAAGGGTATCTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
46731326 AATTCTACCCTACAAGGGTATTTTGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
46731353 ATTTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
46731380 AATTCTACCCTACAGGGGTA-TTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* * **
46731406 AATTCTACCTTACTAGGGTATTTTAGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
46731433 AATTCTACCCTACAAGGGTATTTTGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* ** * * *
46731460 AATTTTA-CAAACTAGGGGTGTTTTGGT
1 AATTCTACCCTAC-AAGGGTATTTCGGT
* * *
46731487 AATTCTACCCTATAGGGGTATTTCAGT
1 AATTCTACCCTACAAGGGTATTTCGGT
46731514 AATT
1 AATT
46731518 TCACAATCGA
Statistics
Matches: 161, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 26 0.16
27 133 0.83
28 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCGGT
Found at i:46731343 original size:54 final size:54
Alignment explanation
Indices: 46731285--46731393 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 54
46731275 TTAACACCCT
46731285 AAGGGCAAAATGACAATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTAC
1 AAGGGCAAAATG-CAATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTAC
* *** ** * *
46731339 AAGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC
1 AAGGGCAAAATGCAATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTAC
46731393 A
1 A
46731394 GGGGTATTCG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 4 0.09
54 42 0.91
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (54 bp):
AAGGGCAAAATGCAATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTAC
Found at i:46731424 original size:80 final size:81
Alignment explanation
Indices: 46731299--46731517 Score: 253
Period size: 80 Copynumber: 2.7 Consensus size: 81
46731289 GCAAAATGAC
* * *
46731299 AATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTTGGTATTTCTACCCT
1 AATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCT
46731364 ACAAGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
* * * *
46731380 AATTCTACCCTACAGGGGTAT-TCGGTAATTCTACCTTACTAGGGTATTTTAGTAATTCTACCCT
1 AATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCT
*
46731444 ACAAGGGTATTTTGGT
66 ACAAGGGTATTTCGGT
* ** * * * * * * *
46731460 AATTTTA-CAAACTAGGGGTGTTTTGGTAATTCTACCCTATAGGGGTATTTCAGTAATT
1 AATTCTACCCCAC-AAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATT
46731518 TCACAATCGA
Statistics
Matches: 118, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 3 0.03
80 67 0.57
81 48 0.41
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (81 bp):
AATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCT
ACAAGGGTATTTCGGT
Found at i:46731552 original size:27 final size:27
Alignment explanation
Indices: 46731522--46732180 Score: 788
Period size: 27 Copynumber: 24.4 Consensus size: 27
46731512 GTAATTTCAC
*
46731522 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
46731549 AATCAAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
46731576 AA-CTTAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
46731603 AATCAAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
46731630 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
46731657 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
46731684 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
46731711 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
46731738 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
46731765 AATCGAGGGTAAAACGATAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
46731792 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
46731819 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
46731846 AATTGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
46731873 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
46731900 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** *
46731927 AATCGAGGGTAAAAAAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
46731954 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** * **
46731981 AATCGAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
46732008 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**** *
46732035 AATCGAGGGTAAATTAATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * ** *
46732062 ATTCAAGGGTAAAATAGTAACTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
46732089 AATCGAGGATAAAA-GAGTAATTTTGTA
1 AATCGAGGGTAAAACG-GTAATTCTGTA
* *
46732116 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
46732143 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
46732170 AATCGAGGGTA
1 AATCGAGGGTA
46732181 CTTTTGTAAT
Statistics
Matches: 546, Mismatches: 76, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.01
27 538 0.99
28 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:46733937 original size:37 final size:37
Alignment explanation
Indices: 46733832--46733939 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
46733822 GCTCAGACGA
* * **
46733832 AATCTCCACGCGAAGTCATCGGGTCTTACCTAGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
46733869 ACTCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
46733906 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
46733940 ATTTATTTCC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:46734055 original size:48 final size:48
Alignment explanation
Indices: 46733984--46734513 Score: 846
Period size: 48 Copynumber: 11.0 Consensus size: 48
46733974 TGTTACAACC
* * * * *
46733984 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
46734032 TTCACATTCGCCATTCGGCTTTACGACATATACATAT-ATCATATATTT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCA-CACATATAT
*
46734080 TTCACATTCACCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
46734128 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
46734176 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
46734224 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
46734272 TTCACAGTCGCCATTTGGCTTTACCACATATACATTTCAGACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
46734320 TTCACATTAGCTATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
46734368 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
46734416 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
46734464 TTCACATTAGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
46734512 TT
1 TT
46734514 ATTTATCTTG
Statistics
Matches: 451, Mismatches: 29, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
48 450 1.00
49 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:46736370 original size:40 final size:40
Alignment explanation
Indices: 46736325--46736491 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
46736315 CGGAATATAA
46736325 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
46736365 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
46736405 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
46736445 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46736484 CCGGATAT
1 CCGGATAT
46736492 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46736475 original size:80 final size:79
Alignment explanation
Indices: 46736325--46736491 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
46736315 CGGAATATAA
* *
46736325 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
46736390 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
46736405 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
46736467 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
46736484 CCGGATAT
1 CCGGATAT
46736492 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:46737338 original size:17 final size:19
Alignment explanation
Indices: 46737315--46737360 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
46737305 AAGAAGCATG
46737315 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
46737333 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
46737351 AATCATGCTC
1 AATCATGCTC
46737361 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:46744379 original size:40 final size:40
Alignment explanation
Indices: 46744334--46744500 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
46744324 CGGAATATAA
46744334 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
46744374 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
46744414 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
46744454 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46744493 CCGGATAT
1 CCGGATAT
46744501 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46744484 original size:80 final size:79
Alignment explanation
Indices: 46744334--46744500 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
46744324 CGGAATATAA
* *
46744334 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
46744399 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
46744414 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
46744476 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
46744493 CCGGATAT
1 CCGGATAT
46744501 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:46745346 original size:17 final size:19
Alignment explanation
Indices: 46745323--46745368 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
46745313 AAGAAGCATG
46745323 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
46745341 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
46745359 AATCATGCTC
1 AATCATGCTC
46745369 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:46750227 original size:9 final size:10
Alignment explanation
Indices: 46750220--46750276 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
46750210 AAGAGAAAAC
46750220 AAAGAAAAGA
1 AAAGAAAAGA
46750230 AAAGAAAAAGA
1 AAAG-AAAAGA
*
46750241 AAA-AGAAGAA
1 AAAGAAAAG-A
46750251 AAAGAAAACGA
1 AAAGAAAA-GA
46750262 AATA-AAAAGA
1 AA-AGAAAAGA
46750272 AAAGA
1 AAAGA
46750277 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 5 0.13
10 13 0.33
11 19 0.49
12 2 0.05
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:46750230 original size:5 final size:5
Alignment explanation
Indices: 46750220--46750276 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
46750210 AAGAGAAAAC
*
46750220 AAAGA AAAGA AAAGAA AAAGA AAA-A GAAGAA AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAGA AAAGA AAAG-A AAAGA AAA-GA AA-AGA
46750267 AAAGA AAAGA
1 AAAGA AAAGA
46750277 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 26 0.59
6 13 0.30
7 1 0.02
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:46750353 original size:12 final size:12
Alignment explanation
Indices: 46750345--46750369 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46750335 TTTGAAAAGC
46750345 AAAAAGAAAATG
1 AAAAAGAAAATG
46750357 AAAAAGAAAATG
1 AAAAAGAAAATG
46750369 A
1 A
46750370 GATTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:46750379 original size:30 final size:31
Alignment explanation
Indices: 46750345--46750426 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
46750335 TTTGAAAAGC
*
46750345 AAAAAGAAAATGAAAAAGAAA-ATGAGATTA
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTA
* * * *
46750375 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTA
*
46750405 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
46750427 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 8 0.19
30 25 0.60
31 9 0.21
ACGTcount: A:0.66, C:0.01, G:0.21, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTA
Found at i:46752817 original size:41 final size:40
Alignment explanation
Indices: 46752690--46752834 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
46752680 CTCGCCCAAG
* * *
46752690 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
46752730 GCCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
46752770 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAC
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
46752811 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
46752835 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:46759340 original size:39 final size:39
Alignment explanation
Indices: 46759265--46759408 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
46759255 CCACACAAAG
*
46759265 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * * *
46759305 TCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
46759344 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
46759383 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
46759409 TCGAACATTC
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 87 0.92
40 8 0.08
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:46769491 original size:40 final size:40
Alignment explanation
Indices: 46769442--46769533 Score: 157
Period size: 40 Copynumber: 2.3 Consensus size: 40
46769432 CCAGCATGAT
*
46769442 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAA
* *
46769482 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAA
46769522 TGCTCTTCGGAA
1 TGCTCTTCGGAA
46769534 TTTAGCCGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAA
Found at i:46769588 original size:40 final size:40
Alignment explanation
Indices: 46769446--46769663 Score: 131
Period size: 40 Copynumber: 5.5 Consensus size: 40
46769436 CATGATTGCT
* * * * * *
46769446 CTTCGGGACCTAGCCCGGATA-CATCACTAGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAACCACAAGCACAAATGC
** * * * * *
46769485 TCTTCGGAACTTAGTCCGGATA-CATCACTAGCACGAATGC
1 -CTTCGGGTCTTAGCCCGGATATAACCACAAGCACAAATGC
* *
46769525 TCTTCGGAAT-TTAG-CCGGATATAACCACAAGCACAATTGC
1 -CTTCGG-GTCTTAGCCCGGATATAACCACAAGCACAAATGC
* * * *
46769565 CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACCAC-AAGCACAAATGC
* ** * *
46769605 CTTTCGGGTCTTAGCCCGTATATATTCACTAGCATAAATGC
1 C-TTCGGGTCTTAGCCCGGATATAACCACAAGCACAAATGC
*
46769646 CTTCGGGACTTAGCCCGG
1 CTTCGGGTCTTAGCCCGG
46769664 GTATCATTCA
Statistics
Matches: 146, Mismatches: 25, Indels: 14
0.79 0.14 0.08
Matches are distributed among these distances:
38 1 0.01
39 16 0.11
40 97 0.66
41 32 0.22
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACCACAAGCACAAATGC
Found at i:46771687 original size:48 final size:48
Alignment explanation
Indices: 46771628--46771827 Score: 373
Period size: 48 Copynumber: 4.2 Consensus size: 48
46771618 TGTTACAACA
*
46771628 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
46771676 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
46771724 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
46771772 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
46771820 TTCACATT
1 TTCACATT
46771828 CATCACATCG
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 148 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:46771874 original size:18 final size:18
Alignment explanation
Indices: 46771843--46771878 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46771833 CATCGGCCAT
*
46771843 TAGGCCTTATCACATATA
1 TAGGCCTTACCACATATA
*
46771861 TAGGCTTTACCACATATA
1 TAGGCCTTACCACATATA
46771879 CATATCACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
TAGGCCTTACCACATATA
Found at i:46771883 original size:123 final size:123
Alignment explanation
Indices: 46771740--46771985 Score: 483
Period size: 123 Copynumber: 2.0 Consensus size: 123
46771730 TTAGCCCTTC
46771740 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
46771805 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
46771863 GGCTTTACCACATATACATATCACACATATGTTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
46771928 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
46771986 TACAAATATG
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 122 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.33
Consensus pattern (123 bp):
GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:46771957 original size:57 final size:54
Alignment explanation
Indices: 46771896--46772235 Score: 234
Period size: 49 Copynumber: 6.6 Consensus size: 54
46771886 CACATATGTT
* * * *
46771896 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGTTTCACATTCA
1 TCACATCAGCCATTAGGCCTTACCACATAT--ATAT-ACAAATATGTTTCACATTCA
* *
46771953 TCACATCGGCCATTAGGCCTTATCACATATATATACAAATATGTTTCACATTCA
1 TCACATCAGCCATTAGGCCTTACCACATATATATACAAATATGTTTCACATTCA
* * * *
46772007 TCACATCGGCCATTAGGCCTTATCAC--ATGTATAC-----TCTTTCACATTCA
1 TCACATCAGCCATTAGGCCTTACCACATATATATACAAATATGTTTCACATTCA
* ** * * * *
46772054 TGACATTGGCCATTAGGCCTTATCACATGTATATAC----A-CTTTCCCATTCA
1 TCACATCAGCCATTAGGCCTTACCACATATATATACAAATATGTTTCACATTCA
** * *
46772103 TCACATTGGCCATTAGGCCTTATCACATATATATAC----A-CTTTCACATTCA
1 TCACATCAGCCATTAGGCCTTACCACATATATATACAAATATGTTTCACATTCA
** * * * *
46772152 TCACATTGGCCATTAGGCCTTATCACATATATAT--ATACA-CTTTCACATTCA
1 TCACATCAGCCATTAGGCCTTACCACATATATATACAAATATGTTTCACATTCA
** * *
46772203 TCACATTGGCCATTAGGCCGTATCACATATATA
1 TCACATCAGCCATTAGGCCTTACCACATATATA
46772236 CATCTCATAC
Statistics
Matches: 259, Mismatches: 17, Indels: 20
0.88 0.06 0.07
Matches are distributed among these distances:
47 36 0.14
49 97 0.37
51 45 0.17
52 7 0.03
54 45 0.17
55 4 0.02
57 25 0.10
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (54 bp):
TCACATCAGCCATTAGGCCTTACCACATATATATACAAATATGTTTCACATTCA
Found at i:46772205 original size:51 final size:49
Alignment explanation
Indices: 46771942--46772235 Score: 430
Period size: 49 Copynumber: 5.9 Consensus size: 49
46771932 CACACATATG
* *
46771942 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAAATATG
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC----A-C
* * *
46771996 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATGTATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
46772043 TTTCACATTCATGACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
46772092 TTTCCCATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
46772141 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATATACAC
*
46772192 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
46772236 CATCTCATAC
Statistics
Matches: 223, Mismatches: 13, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
47 35 0.16
49 96 0.43
51 48 0.22
52 7 0.03
54 37 0.17
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:46775278 original size:21 final size:21
Alignment explanation
Indices: 46775252--46775318 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
46775242 TGCCAAATTA
*
46775252 ACACAGGAGTAGAGCTTGAAC
1 ACACAGGAGTGGAGCTTGAAC
46775273 ACACAGGCA-TGGAGCTTGAAC
1 ACACAGG-AGTGGAGCTTGAAC
** *
46775294 ACATGGGCGTGGAGCTTGAAC
1 ACACAGGAGTGGAGCTTGAAC
46775315 ACAC
1 ACAC
46775319 GAAGCTAGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
21 38 0.97
22 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.30, T:0.15
Consensus pattern (21 bp):
ACACAGGAGTGGAGCTTGAAC
Found at i:46782130 original size:26 final size:26
Alignment explanation
Indices: 46782097--46782149 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
46782087 AAAACATAAA
46782097 ATAAAACAACCATGCATTTTGTTCAT
1 ATAAAACAACCATGCATTTTGTTCAT
46782123 ATAAAACAACCATGCATTTTGTTCAT
1 ATAAAACAACCATGCATTTTGTTCAT
46782149 A
1 A
46782150 CTTTTGATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (26 bp):
ATAAAACAACCATGCATTTTGTTCAT
Found at i:46784944 original size:37 final size:37
Alignment explanation
Indices: 46784903--46784977 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
46784893 TGATAAGGTT
46784903 GCACAGGTCGCCCGAGATGACTGTAGACCTACTGTCG
1 GCACAGGTCGCCCGAGATGACTGTAGACCTACTGTCG
46784940 GCACAGGTCGCCCGAGATGACTGTAGACCTACTGTCG
1 GCACAGGTCGCCCGAGATGACTGTAGACCTACTGTCG
46784977 G
1 G
46784978 GTCGGTAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.21, C:0.29, G:0.31, T:0.19
Consensus pattern (37 bp):
GCACAGGTCGCCCGAGATGACTGTAGACCTACTGTCG
Found at i:46788458 original size:46 final size:46
Alignment explanation
Indices: 46788408--46788583 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
46788398 TGGTTGAGCA
46788408 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
46788454 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
46788499 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
46788547 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46788584 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46788564 original size:93 final size:93
Alignment explanation
Indices: 46788405--46788576 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
46788395 GGATGGTTGA
*
46788405 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
46788470 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
46788498 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
46788562 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
46788577 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46805591 original size:7 final size:7
Alignment explanation
Indices: 46805567--46805611 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
46805557 ACCTCATTTG
46805567 ATCCCTC
1 ATCCCTC
**
46805574 ATCATTC
1 ATCCCTC
*
46805581 ATCCCTT
1 ATCCCTC
46805588 ATCCCTC
1 ATCCCTC
46805595 ATCCCTC
1 ATCCCTC
*
46805602 ATCCATC
1 ATCCCTC
46805609 ATC
1 ATC
46805612 ATTCTCTCTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.20, C:0.47, G:0.00, T:0.33
Consensus pattern (7 bp):
ATCCCTC
Found at i:46809193 original size:40 final size:39
Alignment explanation
Indices: 46809148--46809274 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
46809138 CGGAATATAA
46809148 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
46809188 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
46809228 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
46809268 CCGGATA
1 CCGGATA
46809275 AAATTTCCAG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:46809292 original size:40 final size:40
Alignment explanation
Indices: 46809164--46809314 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
46809154 ATAACCATGT
* * *
46809164 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTC-CA
** ** * *
46809204 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
46809244 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
46809284 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATA
46809315 TCATTCAATT
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 84 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
Found at i:46809298 original size:80 final size:80
Alignment explanation
Indices: 46809164--46809313 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
46809154 ATAACCATGT
* *
46809164 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
46809228 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
46809244 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
46809307 CCCGGAT
64 CCCGGAT
46809314 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:46818320 original size:27 final size:28
Alignment explanation
Indices: 46818260--46818313 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
46818250 AAAATAATTA
* *
46818260 AAATTCAATATTTTAATAATTTAAGTAC
1 AAATTTAATATTTTAATAATTAAAGTAC
46818288 AAATTTAATATTTT-ATAATTAAAGTA
1 AAATTTAATATTTTAATAATTAAAGTA
46818314 TGGATTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (28 bp):
AAATTTAATATTTTAATAATTAAAGTAC
Found at i:46823275 original size:108 final size:110
Alignment explanation
Indices: 46823148--46823348 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
46823138 ATAGTTTTGA
* **
46823148 AACTTACCATTGTCATGTCTCGACATGGTCTTACATGGTATCATTTCCTTATG-AA-CTCACCAA
1 AACTTACCAATGTCATGTCTCGACATGGTCTTACATGGTATCATCACCTTA-GAAACCTCACCAA
46823211 -CGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TCGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
46823256 AACTTATCAATGTCATGTCTTGACATGGTCTTACATGGTATCCTCACCTTAGAAACCTTACCAAT
1 AACTTACCAATGTCATGTCTCGACATGGTCTTACATGGTATCATCACCTTAGAAACCTCACCAAT
* *
46823321 TGTCATGCCTTGGCATGGTCTTACATGG
66 CGCCATGCCTTGGCATGGTCTTACATGG
46823349 TATCCTTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.58
109 7 0.09
110 26 0.32
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGTCATGTCTCGACATGGTCTTACATGGTATCATCACCTTAGAAACCTCACCAAT
CGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:46823325 original size:55 final size:53
Alignment explanation
Indices: 46823146--46823356 Score: 210
Period size: 55 Copynumber: 3.9 Consensus size: 53
46823136 GTATAGTTTT
* * * * *
46823146 GAAACTTACCATTGTCATGTCTCGACATGGTCTTACATGGTATCATTTCCTTA
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTA
* * * * * *
46823199 TG-AACTCACCAACGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 -GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCC-TTACC-T-TA
* * * *
46823254 GTAACTTATCAATGTCATGTCTTGACATGGTCTTACATGGTATCCTCACCTTA
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTA
*
46823307 GAAACCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTATCCTTA
1 GAAA-CTTACCAA-TGTCATGCCTTGACATGGTCTTACATGGTATCCTTA
46823357 AACCCTAATG
Statistics
Matches: 126, Mismatches: 24, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
52 1 0.01
53 41 0.33
54 11 0.09
55 71 0.56
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTA
Found at i:46825405 original size:23 final size:23
Alignment explanation
Indices: 46825370--46825460 Score: 67
Period size: 26 Copynumber: 3.8 Consensus size: 23
46825360 CCCATTAAAT
*
46825370 GGCTCTTATTGAGCTTCCTGATA
1 GGCTCTTAGTGAGCTTCCTGATA
* *
46825393 GGCTCTTCGTGAGCTTCTTGATTAAA
1 GGCTCTTAGTGAGCTTCCTGA-T--A
* * * *
46825419 AGTTCTTTGTGAACTTCCTGATTA
1 GGCTCTTAGTGAGCTTCCTGA-TA
46825443 TGGCTCTTA-TGAGCTTCC
1 -GGCTCTTAGTGAGCTTCC
46825461 CGTTATATAG
Statistics
Matches: 52, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
23 18 0.35
24 10 0.19
25 5 0.10
26 19 0.37
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (23 bp):
GGCTCTTAGTGAGCTTCCTGATA
Found at i:46829864 original size:40 final size:40
Alignment explanation
Indices: 46829779--46829929 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
46829769 AAATTGAATG
* * *
46829779 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
46829819 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
46829860 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
46829899 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
46829930 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:46829943 original size:40 final size:40
Alignment explanation
Indices: 46829816--46829945 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
46829806 ATGCTGGAAA
* * * *
46829816 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
46829856 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
46829896 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
46829936 TTATATCCGG
1 TTATATCCGG
46829946 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:46847967 original size:40 final size:40
Alignment explanation
Indices: 46847922--46848051 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
46847912 CGGAATATAA
46847922 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
46847962 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
46848002 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
46848042 CCGGATATAA
1 CCGGATATAA
46848052 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:46848066 original size:40 final size:40
Alignment explanation
Indices: 46847938--46848089 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
46847928 ATAAGCATGT
* * *
46847938 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
46847978 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
46848018 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
46848058 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
46848090 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:46848072 original size:80 final size:80
Alignment explanation
Indices: 46847938--46848089 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
46847928 ATAAGCATGT
* *
46847938 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
46848003 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
46848018 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
46848081 CCCGGATAT
64 CCCGGATAT
46848090 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:46851805 original size:87 final size:88
Alignment explanation
Indices: 46851652--46851821 Score: 191
Period size: 87 Copynumber: 1.9 Consensus size: 88
46851642 CAAATTTTTT
* * * * * * *
46851652 TTTAAAAAAACAAAGTAATTAAGTCCTTTTTTTTTTGCACTCAATTGAATACTTAAATTTTTAAA
1 TTTAAAAAAACAAAGTAACTAAGCCCCTTTTTTTTTGCACCCAATTGAATACTTAAACTGTCAAA
** *
46851717 ATGTATCAAAAAGACCCTCAAAC
66 ATACATCAAAAAAACCCTCAAAC
** * *
46851740 TTTAAAAAAA-AAA-TAACTAAGCCCCCTTTTTTTTTGCACCCAATTGGTTATTTGAACTGTCAA
1 TTTAAAAAAACAAAGTAACTAAG-CCCCTTTTTTTTTGCACCCAATTGAATACTTAAACTGTCAA
46851803 AATACATCAAAAAAACCCT
65 AATACATCAAAAAAACCCT
46851822 TTGACCTTTA
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
86 7 0.10
87 50 0.75
88 10 0.15
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (88 bp):
TTTAAAAAAACAAAGTAACTAAGCCCCTTTTTTTTTGCACCCAATTGAATACTTAAACTGTCAAA
ATACATCAAAAAAACCCTCAAAC
Found at i:46851934 original size:10 final size:10
Alignment explanation
Indices: 46851921--46851991 Score: 69
Period size: 10 Copynumber: 7.4 Consensus size: 10
46851911 ACATGTGAGA
46851921 AAAAAATTAT
1 AAAAAATTAT
*
46851931 AAAAAA-TAG
1 AAAAAATTAT
**
46851940 AAATCA--AT
1 AAAAAATTAT
46851948 A-AAAATTAT
1 AAAAAATTAT
46851957 AAAAAATTAT
1 AAAAAATTAT
*
46851967 TAAAAATTAT
1 AAAAAATTAT
46851977 AAAAAAATTAT
1 -AAAAAATTAT
46851988 AAAA
1 AAAA
46851992 TACATCATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
7 2 0.04
8 2 0.04
9 9 0.18
10 27 0.55
11 9 0.18
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:46851936 original size:11 final size:11
Alignment explanation
Indices: 46851920--46851991 Score: 67
Period size: 11 Copynumber: 6.4 Consensus size: 11
46851910 GACATGTGAG
46851920 AAAAAAATTAT
1 AAAAAAATTAT
**
46851931 AAAAAATAGAAAT
1 AAAAAA-A-TTAT
46851944 CAATAAAAATTAT
1 -AA-AAAAATTAT
46851957 -AAAAAATTAT
1 AAAAAAATTAT
*
46851967 -TAAAAATTAT
1 AAAAAAATTAT
46851977 AAAAAAATTAT
1 AAAAAAATTAT
46851988 AAAA
1 AAAA
46851992 TACATCATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
10 18 0.36
11 20 0.40
12 1 0.02
13 4 0.08
14 3 0.06
15 4 0.08
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (11 bp):
AAAAAAATTAT
Found at i:46851970 original size:20 final size:20
Alignment explanation
Indices: 46851946--46851991 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
46851936 ATAGAAATCA
46851946 ATAAAAATTAT-AAAAAATT
1 ATAAAAATTATAAAAAAATT
46851965 ATTAAAAATTATAAAAAAATT
1 A-TAAAAATTATAAAAAAATT
46851986 ATAAAA
1 ATAAAA
46851992 TACATCATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 15 0.60
21 9 0.36
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAAAAATTATAAAAAAATT
Found at i:46852235 original size:57 final size:57
Alignment explanation
Indices: 46852174--46852309 Score: 138
Period size: 57 Copynumber: 2.4 Consensus size: 57
46852164 GTACAATAAT
* *
46852174 TTTTATAATTTTTTCTGTATTTCTAT-ATATTTTATA-TTTTT-AACGATTTTT-ATAAAA
1 TTTTACAATTTTTT-TATATTTCTATGAT-TTTTATAGTTTTTCAA--ATTTTTAATAAAA
* *
46852231 TTTTACAATTTTTTTATTTTTTTATGATTTTTATAGTTTTTCAAATTTTTAATAAAA
1 TTTTACAATTTTTTTATATTTCTATGATTTTTATAGTTTTTCAAATTTTTAATAAAA
*
46852288 -TTTAAATATATTTTTTATATTT
1 TTTTACA-AT-TTTTTTATATTT
46852310 TTCATTTAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
56 26 0.39
57 28 0.42
58 13 0.19
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (57 bp):
TTTTACAATTTTTTTATATTTCTATGATTTTTATAGTTTTTCAAATTTTTAATAAAA
Found at i:46854120 original size:26 final size:26
Alignment explanation
Indices: 46854091--46854146 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
46854081 TGAAAAGTAA
*
46854091 TTTTAAAAAGTACAGTGAAAAAATAC
1 TTTTAAAAAATACAGTGAAAAAATAC
** *
46854117 TTTTAAAAAATATTGTGGAAAAATAC
1 TTTTAAAAAATACAGTGAAAAAATAC
46854143 TTTT
1 TTTT
46854147 GAGAAGTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (26 bp):
TTTTAAAAAATACAGTGAAAAAATAC
Found at i:46854538 original size:22 final size:21
Alignment explanation
Indices: 46854488--46854544 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
46854478 GTAATTACAT
46854488 ATTAATACATTTATATTATTTTA
1 ATTAATAC-TTT-TATTATTTTA
* *
46854511 A-AAATACTTTTTTTACTTTTA
1 ATTAATACTTTTATTA-TTTTA
*
46854532 ATTAATAATTTTA
1 ATTAATACTTTTA
46854545 AGGCATTTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
20 4 0.15
21 9 0.33
22 13 0.48
23 1 0.04
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTAATACTTTTATTATTTTA
Found at i:46857386 original size:11 final size:11
Alignment explanation
Indices: 46857372--46857411 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
46857362 TGTTTTCTCT
*
46857372 CTATTTTGCTA
1 CTATTTTACTA
46857383 CTATTTTACTA
1 CTATTTTACTA
* *
46857394 TTATGTTACTA
1 CTATTTTACTA
46857405 CTATTTT
1 CTATTTT
46857412 GTTGTTATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:46857664 original size:12 final size:12
Alignment explanation
Indices: 46857634--46857666 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
46857624 TATATATTTT
46857634 AAAATT-ATATA
1 AAAATTAATATA
46857645 AAAA-TAATATA
1 AAAATTAATATA
46857656 AAAATTAATAT
1 AAAATTAATAT
46857667 GGACGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:46860386 original size:49 final size:49
Alignment explanation
Indices: 46860312--46860708 Score: 690
Period size: 49 Copynumber: 8.1 Consensus size: 49
46860302 GTACATAATA
46860312 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
*
46860361 ACATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTG-AAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
* *
46860409 ACATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
46860458 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
* *
46860507 ATATATGTGATAAGGCC-ATTAGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAAT-GGCCGACGTGATGAATGTGAAAATGTAT
46860556 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
* *
46860605 ATATATGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
* *
46860654 GTATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
46860703 ATATAT
1 ATATAT
46860709 ATGTGGTAAA
Statistics
Matches: 332, Mismatches: 13, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
48 49 0.15
49 281 0.85
50 2 0.01
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
Found at i:46860832 original size:37 final size:36
Alignment explanation
Indices: 46860782--46860863 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 36
46860772 AGAAATATGT
46860782 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTACG
1 TCCGGGT-AGACCCGATGACTACGTGTGGAGATTACG
*
46860819 TCCGGGTACGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTA-GACCCGATGACTACGTGTGGAGATTACG
46860856 TCCGGGTA
1 TCCGGGTA
46860864 AGACTTCGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
36 1 0.02
37 42 0.98
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.23
Consensus pattern (36 bp):
TCCGGGTAGACCCGATGACTACGTGTGGAGATTACG
Found at i:46864746 original size:21 final size:21
Alignment explanation
Indices: 46864722--46864774 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
46864712 TCAAAAAGGC
*
46864722 CTTTAAGAAGTAAGTTAGAAG
1 CTTTAAGAAGTAAGCTAGAAG
**
46864743 CTTTAAGAAACAAGCTAGAAG
1 CTTTAAGAAGTAAGCTAGAAG
*
46864764 CTTTAAAAAGT
1 CTTTAAGAAGT
46864775 TCGATACAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.26
Consensus pattern (21 bp):
CTTTAAGAAGTAAGCTAGAAG
Found at i:46865862 original size:21 final size:21
Alignment explanation
Indices: 46865836--46865877 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
46865826 TGTTGATACC
46865836 CATTTATCTTACAAACTCGCT
1 CATTTATCTTACAAACTCGCT
46865857 CATTTATCTTACAAACTCGCT
1 CATTTATCTTACAAACTCGCT
46865878 TTCTCAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.38
Consensus pattern (21 bp):
CATTTATCTTACAAACTCGCT
Found at i:46869305 original size:40 final size:40
Alignment explanation
Indices: 46869260--46869389 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
46869250 CGGAATATAA
46869260 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
46869300 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
46869340 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
46869380 CCGGATATAA
1 CCGGATATAA
46869390 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46869404 original size:40 final size:40
Alignment explanation
Indices: 46869276--46869425 Score: 119
Period size: 40 Copynumber: 3.8 Consensus size: 40
46869266 ATAACCACGT
* * * *
46869276 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTC-CA
* * ** * *
46869316 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATCTCCA
*
46869356 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTCCA
* * * *
46869396 GCATAATTGTCTT-GGGGCTT-AGCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATAT
46869426 CATTCAATTT
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
38 9 0.10
39 8 0.09
40 70 0.79
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTCCA
Found at i:46872820 original size:11 final size:11
Alignment explanation
Indices: 46872804--46872829 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
46872794 CAAGTTCTAG
46872804 AATAACAATTC
1 AATAACAATTC
46872815 AATAACAATTC
1 AATAACAATTC
46872826 AATA
1 AATA
46872830 CTGACGCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAACAATTC
Found at i:46879347 original size:46 final size:46
Alignment explanation
Indices: 46879283--46879432 Score: 167
Period size: 46 Copynumber: 3.1 Consensus size: 46
46879273 ACACACTGTA
*
46879283 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACATTGAT
1 GCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACATTGAT
* * * * *
46879329 GCCATATCCCAGATATGGTCTTATACGGAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAGCTATGGTCTTACAC-GAATCACAT-ATCAC--A--T-TGAT
46879382 GCCATAGCCCAGCTATGGTCTTACAC-AGATCACATATCACATTGAT
1 GCCATAGCCCAGCTATGGTCTTACACGA-ATCACATATCACATTGAT
46879428 GCCAT
1 GCCAT
46879433 GGTCCAACCA
Statistics
Matches: 85, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
46 31 0.36
47 8 0.09
48 5 0.06
49 1 0.01
50 1 0.01
51 6 0.07
52 6 0.07
53 27 0.32
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (46 bp):
GCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACATTGAT
Found at i:46880552 original size:21 final size:21
Alignment explanation
Indices: 46880523--46880595 Score: 110
Period size: 21 Copynumber: 3.5 Consensus size: 21
46880513 CGACACATAA
* *
46880523 GTGCTTGAAATGACACACGAG
1 GTGCCTGAAACGACACACGAG
46880544 GTGCCTGAAACGACACACGAG
1 GTGCCTGAAACGACACACGAG
* *
46880565 GTGCCTGATACGACACACAAG
1 GTGCCTGAAACGACACACGAG
46880586 GTGCCTGAAA
1 GTGCCTGAAA
46880596 TATGACACAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.15
Consensus pattern (21 bp):
GTGCCTGAAACGACACACGAG
Found at i:46880602 original size:23 final size:22
Alignment explanation
Indices: 46880510--46880616 Score: 105
Period size: 21 Copynumber: 5.0 Consensus size: 22
46880500 CCTGATCAGC
* *
46880510 ATACGACACATAA-GTGCTTGA
1 ATACGACACACAAGGTGCCTGA
* *
46880531 A-ATGACACACGAGGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
*
46880552 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACAAGGTGCCTGA
46880572 ATACGACACACAAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTG-A
* * *
46880595 ATATGACACATAAAGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
46880617 TCAGTATAGC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
20 9 0.12
21 45 0.62
22 1 0.01
23 18 0.25
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (22 bp):
ATACGACACACAAGGTGCCTGA
Found at i:46880926 original size:29 final size:28
Alignment explanation
Indices: 46880821--46880956 Score: 192
Period size: 29 Copynumber: 5.0 Consensus size: 28
46880811 AACACACCAG
46880821 TATAATCCTCCAAAACACACCAG-----
1 TATAATCCTCCAAAACACACCAGAATAA
* *
46880844 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
46880872 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
46880900 TATAATCCATCCAAAACACACCAGAATAA
1 TATAATCC-TCCAAAACACACCAGAATAA
46880929 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
46880957 GCACAAAGTG
Statistics
Matches: 103, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
23 23 0.22
28 33 0.32
29 47 0.46
ACGTcount: A:0.47, C:0.31, G:0.04, T:0.18
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:46891270 original size:45 final size:45
Alignment explanation
Indices: 46891218--46891304 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
46891208 TATGTGATCA
*
46891218 AAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCT
1 AAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGACATCT
*
46891263 AAACTCATTGAGTTGTGGTCTAAGTTCATGATGTATGTGACA
1 AAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGACA
46891305 CATGTTTTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.37
Consensus pattern (45 bp):
AAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGACATCT
Found at i:46891291 original size:21 final size:21
Alignment explanation
Indices: 46891222--46891291 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
46891212 TGATCAAAAC
*
46891222 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTAAGT
* * **
46891243 TCA-TGATATATGTGACATCTAAAC
1 TCATTGA-GT-TGTG--GTCTAAGT
46891267 TCATTGAGTTGTGGTCTAAGT
1 TCATTGAGTTGTGGTCTAAGT
46891288 TCAT
1 TCAT
46891292 GATGTATGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
20 3 0.09
21 13 0.37
22 4 0.11
23 4 0.11
24 8 0.23
25 3 0.09
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTAAGT
Found at i:46895270 original size:17 final size:18
Alignment explanation
Indices: 46895248--46895281 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46895238 CACATTGAAG
46895248 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
46895265 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
46895282 CTTCTTTAAA
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:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:46896547 original size:28 final size:28
Alignment explanation
Indices: 46896510--46896603 Score: 116
Period size: 28 Copynumber: 3.4 Consensus size: 28
46896500 AAGTTTACAT
* *
46896510 ACATGCATATGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATCAGGCCCAATC
* * *
46896538 TCATTCATATGGCCCATCGGGCCTAATC
1 ACATTCATATGGCCCATCAGGCCCAATC
* **
46896566 ACTTTCATATGGCCCGCCAGGCCCAATC
1 ACATTCATATGGCCCATCAGGCCCAATC
46896594 ACATTCATAT
1 ACATTCATAT
46896604 TCATGTAATC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATCAGGCCCAATC
Found at i:46902122 original size:47 final size:46
Alignment explanation
Indices: 46902064--46902331 Score: 163
Period size: 47 Copynumber: 5.7 Consensus size: 46
46902054 GGTAAGGTGC
*
46902064 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATATTTCAAGT
1 CGATG-CATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAAGT
* * * * *
46902111 CGATGCAATGTCCCAGACCTGGTCTTACACTGACT-ATCATCTCGTAGC
1 CGATGC-ATGTCCTAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGT
* * * **
46902159 CGATACATGTCCCAGACAT-GTCTTACACTGGCTTATGCCTCAAGGT
1 CGATGCATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAA-GT
* * * * * *
46902205 TGACGCATGT-CTCAGACAT-GTCTTACACTAGCACTTGTCTCAA-T
1 CGATGCATGTCCT-AGACATGGTCTTACACTGGCTCATATCTCAAGT
* * * * *
46902249 ACCGATGCCTTGTCCTAGACATGGTCTTACACTGACT-GTCATCTCGTAGC
1 --CGATG-CATGTCCTAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGT
* * *
46902299 CAATGCATGTCCCAGATAT-GTCTTACACTGGCT
1 CGATGCATGTCCTAGACATGGTCTTACACTGGCT
46902332 TACATAATGT
Statistics
Matches: 170, Mismatches: 37, Indels: 29
0.72 0.16 0.12
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 68 0.40
47 70 0.41
48 28 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
CGATGCATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAAGT
Found at i:46902327 original size:46 final size:46
Alignment explanation
Indices: 46902062--46902373 Score: 176
Period size: 46 Copynumber: 6.7 Consensus size: 46
46902052 TGGGTAAGGT
* * * * *
46902062 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCAT-ATTTC-AA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACT-GTCATCTCGTA
* * *
46902109 GTCGATGCAATGTCCCAGACCTGGTCTTACACTGACTATCATCTCGTA
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTGACTGTCATCTCGTA
* * *
46902157 GCCGATACATGTCCCAGACATGTCTTACACTGGCT-T-ATGCCTC-AA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTGTCAT--CTCGTA
** * * **
46902202 GGTTGACGCATGTCTCAGACATGTCTTACACTAGCACTTGTC-TC-AATA
1 -GCCGATGCATGTCCCAGACATGTCTTACACT-G-AC-TGTCATCTCGTA
* *
46902250 -CCGATGCCTTGTCCTAGACATGGTCTTACACTGACTGTCATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTGTCATCTCGTA
* * * * *
46902297 GCCAATGCATGTCCCAGATATGTCTTACACTGGCT-TACATAAT-GTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTGT-CAT-CTCGTA
** *
46902343 GCTTATGCATGTCCCAGACATGTCTAACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
46902374 AGCCAACAAT
Statistics
Matches: 208, Mismatches: 38, Indels: 39
0.73 0.13 0.14
Matches are distributed among these distances:
44 2 0.01
45 7 0.03
46 97 0.47
47 74 0.36
48 25 0.12
49 1 0.00
50 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTGTCATCTCGTA
Found at i:46902353 original size:140 final size:139
Alignment explanation
Indices: 46902119--46902376 Score: 360
Period size: 140 Copynumber: 1.8 Consensus size: 139
46902109 GTCGATGCAA
* *
46902119 TGTCCCAGACCTGGTCTTACACTGACTATCATCTCGTAGCCGATACATGTCCCAGACATGTCTTA
1 TGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCCAATACATGTCCCAGACATGTCTTA
* * *
46902184 CACTGGCTTATGCCTCAAGGTTGACGCATGTCTCAGACATGTCTTACACTAGCACTTGTCTCAAT
66 CACTGGCTTA-GCATCAAGGTTGACGCATGTCCCAGACATGTCTAACACTAGCACTTGTCTCAAT
46902249 ACCGATGCCT
130 ACCGATGCCT
* * * *
46902259 TGTCCTAGACATGGTCTTACACTGACTGTCATCTCGTAGCCAATGCATGTCCCAGATATGTCTTA
1 TGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCCAATACATGTCCCAGACATGTCTTA
*
46902324 CACTGGCTTA-CAT-AATGTGGCTT-ATGCATGTCCCAGACATGTCTAACACTAGC
66 CACTGGCTTAGCATCAA---GG-TTGACGCATGTCCCAGACATGTCTAACACTAGC
46902377 CAACAATAAC
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
137 2 0.02
138 2 0.02
140 98 0.94
141 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (139 bp):
TGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCCAATACATGTCCCAGACATGTCTTA
CACTGGCTTAGCATCAAGGTTGACGCATGTCCCAGACATGTCTAACACTAGCACTTGTCTCAATA
CCGATGCCT
Found at i:46906557 original size:12 final size:12
Alignment explanation
Indices: 46906540--46906565 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46906530 AAATTGTAGA
46906540 TGTATTATAATT
1 TGTATTATAATT
46906552 TGTATTATAATT
1 TGTATTATAATT
46906564 TG
1 TG
46906566 ATATGAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.58
Consensus pattern (12 bp):
TGTATTATAATT
Found at i:46912104 original size:13 final size:13
Alignment explanation
Indices: 46912086--46912128 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
46912076 CACACACCCG
*
46912086 TGTCAATGGCCTA
1 TGTCAATGGCCCA
* *
46912099 TGTCAATAGCCCG
1 TGTCAATGGCCCA
*
46912112 TGTCAATGGCCCG
1 TGTCAATGGCCCA
46912125 TGTC
1 TGTC
46912129 CCTCACACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.28
Consensus pattern (13 bp):
TGTCAATGGCCCA
Found at i:46913196 original size:46 final size:47
Alignment explanation
Indices: 46913107--46913278 Score: 221
Period size: 47 Copynumber: 3.7 Consensus size: 47
46913097 TATTTCAAGT
46913107 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCATAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-ATCATCTCATAGC
* *
46913155 CGATG-CATATCCCAGACAT-GTCTTACACT-AGCACTCGTCTCAATA-C
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CA-TCATCTC-ATAGC
* *
46913201 CGATGCCATGTCTCAGACATGGTCTTACACTGACTATCATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-ATCATCTCATAGC
46913249 CGATG-CATGTCCCAGACAT-GTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
46913279 GCTTACATAA
Statistics
Matches: 109, Mismatches: 7, Indels: 18
0.81 0.05 0.13
Matches are distributed among these distances:
45 2 0.02
46 34 0.31
47 43 0.39
48 28 0.26
49 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACATCATCTCATAGC
Found at i:46913218 original size:47 final size:46
Alignment explanation
Indices: 46913107--46913323 Score: 221
Period size: 46 Copynumber: 4.7 Consensus size: 46
46913097 TATTTCAAGT
46913107 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCATAGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGAC-ATCATCTCATAGC
* *
46913155 CGATGCATATCCCAGACAT-GTCTTACACT-AGCACTCGTCTCAATA-C
1 CGATGCATGTCCCAGACATGGTCTTACACTGA-CA-TCATCTC-ATAGC
* *
46913201 CGATGCCATGTCTCAGACATGGTCTTACACTGACTATCATCTCGTAGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGAC-ATCATCTCATAGC
* * * * *
46913249 CGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACATAAT-GTGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGACAT-CAT-CTCATAGC
*
46913295 CTATGCATGTCCCAGACAT-GTCTTACACT
1 CGATGCATGTCCCAGACATGGTCTTACACT
46913324 AGCCAACAAT
Statistics
Matches: 147, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
45 3 0.02
46 70 0.48
47 44 0.30
48 28 0.19
49 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGACATCATCTCATAGC
Found at i:46913268 original size:94 final size:94
Alignment explanation
Indices: 46913107--46913277 Score: 315
Period size: 94 Copynumber: 1.8 Consensus size: 94
46913097 TATTTCAAGT
46913107 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCATAGCCGATGCATATCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCATAGCCGATGCATATCCCAGAC
46913172 ATGTCTTACACTAGCACTCGTCTCAATAC
66 ATGTCTTACACTAGCACTCGTCTCAATAC
* * *
46913201 CGATGCCATGTCTCAGACATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCATAGCCGATGCATATCCCAGAC
46913266 ATGTCTTACACT
66 ATGTCTTACACT
46913278 GGCTTACATA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 74 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCATAGCCGATGCATATCCCAGAC
ATGTCTTACACTAGCACTCGTCTCAATAC
Found at i:46917172 original size:40 final size:40
Alignment explanation
Indices: 46917087--46917237 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
46917077 AATTGAATGA
* * *
46917087 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
46917127 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
46917168 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
46917207 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
46917238 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:46917251 original size:40 final size:40
Alignment explanation
Indices: 46917124--46917253 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
46917114 ATGCTGGAAA
* * * *
46917124 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
46917164 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
46917204 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
46917244 TTATATCCGG
1 TTATATCCGG
46917254 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:46925178 original size:40 final size:40
Alignment explanation
Indices: 46925093--46925243 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
46925083 AATTGAATGA
* * *
46925093 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
46925133 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
46925174 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
46925213 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
46925244 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:46925257 original size:40 final size:40
Alignment explanation
Indices: 46925130--46925259 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
46925120 ATGCTGGAAA
* * * *
46925130 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
46925170 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
46925210 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
46925250 TTATATCCGG
1 TTATATCCGG
46925260 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:46933333 original size:30 final size:30
Alignment explanation
Indices: 46933299--46933359 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46933289 TCCTTAACTC
46933299 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
46933329 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
46933359 A
1 A
46933360 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:46938544 original size:28 final size:29
Alignment explanation
Indices: 46938513--46938643 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
46938503 GTGACGAGAT
46938513 TGGCACTAAGTGTGCGTGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
46938541 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ****
46938570 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
46938599 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
46938628 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
46938644 AAATCGAGTA
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
28 26 0.30
29 61 0.70
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:46938580 original size:29 final size:28
Alignment explanation
Indices: 46938513--46938584 Score: 126
Period size: 28 Copynumber: 2.5 Consensus size: 28
46938503 GTGACGAGAT
*
46938513 TGGCACTAAGTGTGCGTGCTGGAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAATA
46938541 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAA-ATA
46938570 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
46938585 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
TGGCACTAAGTGTGCATGCTGGAAAATA
Found at i:46946275 original size:29 final size:29
Alignment explanation
Indices: 46946242--46946315 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
46946232 GTGACGAGAT
46946242 TGGCACTAAGTGTGCGTGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
46946271 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
46946300 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
46946316 AGCTCGAAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:46946331 original size:29 final size:29
Alignment explanation
Indices: 46946299--46946374 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
46946289 CTGGAAATAT
* *
46946299 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * * *
46946328 ATGGCACTATGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
46946357 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
46946375 AATCGAGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:46946332 original size:58 final size:58
Alignment explanation
Indices: 46946242--46946374 Score: 142
Period size: 58 Copynumber: 2.3 Consensus size: 58
46946232 GTGACGAGAT
* * * * *
46946242 TGGCACTAAGTGTGCGTGCTGGAAAAATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCT-GAAATCACA
*** * * * *
46946300 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTATGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCTGAAATCACA
46946358 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
46946375 AATCGAGTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
57 4 0.06
58 58 0.94
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.24
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:46947973 original size:71 final size:71
Alignment explanation
Indices: 46947886--46948047 Score: 297
Period size: 71 Copynumber: 2.3 Consensus size: 71
46947876 GATGTATCCC
46947886 ATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAG
1 ATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAG
46947951 GACACA
66 GACACA
* *
46947957 ATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGACG
1 ATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAG
*
46948022 GACACC
66 GACACA
46948028 ATGTAGACAAGAGAGCTACG
1 ATGTAGACAAGAGAGCTACG
46948048 AGACGAATCG
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 88 1.00
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (71 bp):
ATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAG
GACACA
Found at i:46953364 original size:40 final size:40
Alignment explanation
Indices: 46953319--46953505 Score: 270
Period size: 40 Copynumber: 4.7 Consensus size: 40
46953309 ATAACCACAA
* *
46953319 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
46953359 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACT-
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
46953398 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
46953438 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * *
46953478 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
46953506 GTATCATTCA
Statistics
Matches: 134, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.28
40 95 0.71
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:46953402 original size:79 final size:78
Alignment explanation
Indices: 46953299--46953509 Score: 307
Period size: 79 Copynumber: 2.7 Consensus size: 78
46953289 TCTTCGGAAT
* *
46953299 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CAC-TGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
46953363 AAATGCCTTCGGGTC
64 AAATGCCTTCGGGTC
*
46953378 TTAGCCCGGATATAACAACTGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACA
1 TTAGCCCGGATATAAC-ACTGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
46953443 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
* * * *
46953457 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACT-GCACAAATGCCTTCGGGTCTTAACCCGGGTAT
46953510 CATTCAATTG
Statistics
Matches: 120, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
79 79 0.66
80 41 0.34
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
TTAGCCCGGATATAACACTGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAA
ATGCCTTCGGGTC
Found at i:46963461 original size:40 final size:40
Alignment explanation
Indices: 46963416--46963603 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
46963406 ATAACCACAA
* *
46963416 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
46963456 GCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
46963496 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
46963536 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * * *
46963576 GCATAAATGCCTTTGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
46963604 GTATCATTCA
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 131 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:46963501 original size:80 final size:79
Alignment explanation
Indices: 46963396--46963607 Score: 300
Period size: 80 Copynumber: 2.7 Consensus size: 79
46963386 TCTTCGGAAT
* *
46963396 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
46963460 AAATACCTTCGGGTC
65 AAATACCTTCGGGTC
* *
46963475 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
*
46963540 AAATGCCTTCGGGTC
65 AAATACCTTCGGGTC
* * * * *
46963555 TTAACCCGGATATAATCACTAGCATAAATGCCTTTGGGGCTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
46963608 CATTCAATTG
Statistics
Matches: 118, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 5 0.04
80 112 0.95
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATACCTTCGGGTC
Found at i:46968008 original size:39 final size:39
Alignment explanation
Indices: 46967952--46968127 Score: 280
Period size: 39 Copynumber: 4.5 Consensus size: 39
46967942 ACAAAGCATG
*
46967952 CGGGACTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
46967992 CGGGACTTAGCCCGGATATAACGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
46968031 CAGGACTTAGCCCAGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
46968070 CAGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
46968109 CGGGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
46968128 TTTTCCAGGA
Statistics
Matches: 126, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 118 0.94
40 8 0.06
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:46968167 original size:78 final size:77
Alignment explanation
Indices: 46968085--46968237 Score: 166
Period size: 78 Copynumber: 2.0 Consensus size: 77
46968075 CTTAGCCCGG
* * * * *
46968085 ATATAATACCAGCACGAATGCCTTCGGGACTT-AGCCCGGATATTTTTCCAGGACT-TAGCCTGC
1 ATATAATACCAGCA-GAAAGCCTGC-GGACTTAAGCCCGGATATATTTCCAGCA-TAAAGCCTGC
*
46968148 GGACTTTAAGTCTGA
63 GGACTTCAAGTCTGA
* * * *
46968163 ATATATTTCCAGCATAAAGCCTGCGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCCTGCGG
1 ATATAATACCAGCAGAAAGCCTGCGGACTT-AAGCCCGGATATATTTCCAGCATAAAGCCTGCGG
46968228 ACTTCAAGTC
65 ACTTCAAGTC
46968238 CGGATATTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
76 6 0.10
77 8 0.13
78 48 0.77
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (77 bp):
ATATAATACCAGCAGAAAGCCTGCGGACTTAAGCCCGGATATATTTCCAGCATAAAGCCTGCGGA
CTTCAAGTCTGA
Found at i:46968173 original size:39 final size:39
Alignment explanation
Indices: 46968141--46968251 Score: 186
Period size: 39 Copynumber: 2.8 Consensus size: 39
46968131 TCCAGGACTT
* * *
46968141 AGCCTGCGGACTTTAAGTCTGAATATATTTCCAGCATAA
1 AGCCTGCGGACTTCAAGTCCGGATATATTTCCAGCATAA
46968180 AGCCTGCGGACTTCAAGTCCGGATATATTTCCAGCATAA
1 AGCCTGCGGACTTCAAGTCCGGATATATTTCCAGCATAA
*
46968219 AGCCTGCGGACTTCAAGTCCGGATATTTTTCCA
1 AGCCTGCGGACTTCAAGTCCGGATATATTTCCA
46968252 ATACCATGCA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (39 bp):
AGCCTGCGGACTTCAAGTCCGGATATATTTCCAGCATAA
Found at i:46972086 original size:27 final size:26
Alignment explanation
Indices: 46972044--46972202 Score: 180
Period size: 27 Copynumber: 5.9 Consensus size: 26
46972034 ACGAGGCTGC
* *
46972044 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
*
46972070 GCAGATATTGTGGC-GAAGCCACCAGAA
1 -CAGATATTGTGGCAG-AGCCACCAGAT
46972097 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
46972124 CAGATAATTGTGGCATAGCCACCAGGA-
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
46972151 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
46972178 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
46972203 GACGCTTCCT
Statistics
Matches: 118, Mismatches: 7, Indels: 14
0.85 0.05 0.10
Matches are distributed among these distances:
26 11 0.09
27 100 0.85
28 7 0.06
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:46972203 original size:54 final size:54
Alignment explanation
Indices: 46972062--46972205 Score: 247
Period size: 54 Copynumber: 2.7 Consensus size: 54
46972052 GTGACGAAGT
*
46972062 CACCAGATGCAGAT-ATTGTGGCGA-AGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGC-ATAGCCACCAGGACAGATATATGTGGCAGAGC
46972116 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
46972170 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
46972206 GCTTCCTCCA
Statistics
Matches: 87, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
53 6 0.07
54 81 0.93
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:46972611 original size:8 final size:8
Alignment explanation
Indices: 46972595--46972624 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
46972585 CTCAAAATAC
46972595 CGGCTTTT
1 CGGCTTTT
*
46972603 CGGCATTT
1 CGGCTTTT
46972611 CGGCTTTT
1 CGGCTTTT
46972619 CGGCTT
1 CGGCTT
46972625 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:46973821 original size:26 final size:26
Alignment explanation
Indices: 46973791--46973895 Score: 201
Period size: 26 Copynumber: 4.0 Consensus size: 26
46973781 AATTCCCATA
46973791 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
*
46973817 ATGGAACATTTACCTAACCTATTATC
1 ATGGAACATTTACCTAACCCATTATC
46973843 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
46973869 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
46973895 A
1 A
46973896 ATTTGTATCC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:46977517 original size:48 final size:48
Alignment explanation
Indices: 46977409--46977722 Score: 400
Period size: 48 Copynumber: 6.6 Consensus size: 48
46977399 ACGAGATCCC
* * * * * * *
46977409 GTGTAAGACCACGTCTAGGACATGGCATCGGCATCTGAGATGAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGT-TGATATGTGTGCCA
* * * *
46977458 GTGTTAGACCATGTTTGGGATATGGCATCGGTGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
*
46977506 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
* *
46977554 GTGTAAGACCATGTCTGGGAC-TGGCATCGGCATTAATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
* * *
46977601 ATGTAAGACCATGTTTGGAACATGGCATCGGC-TTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
* * *
46977648 GTGTAAGACCATGTCTAGGACATGGCATCGACGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
* *
46977696 GTGTAAGACTATGT-TTGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
46977723 TGGCACTGAT
Statistics
Matches: 232, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
47 94 0.41
48 111 0.48
49 27 0.12
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
Found at i:46977733 original size:95 final size:95
Alignment explanation
Indices: 46977409--46977735 Score: 399
Period size: 95 Copynumber: 3.4 Consensus size: 95
46977399 ACGAGATCCC
* * * * * * *
46977409 GTGTAAGACCACGTCTAGGACATGGCATCGGCATCTGAGATGAGAGCTAGTGTTAGACCATGTTT
1 GTGTAAGACCATGT-TTGGACATGGCATCGGCA-CTGATATGTGTGCTAGTGTAAGACCATGTCT
* * *
46977474 GGGATATGGCATCGGTGTTGATATGTGTGCCA
64 GGGACATGGCATCGGCGATGATATGTGTGCCA
* **
46977506 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCTAGTGTAAGACCATGTCTG
1 GTGTAAGACCATGT-TTGGACATGGCATCGGCACTGATATGTGTGCTAGTGTAAGACCATGTCTG
*
46977571 GGAC-TGGCATCGGC-ATTAATATGTGTGCCA
65 GGACATGGCATCGGCGA-TGATATGTGTGCCA
* * * *
46977601 ATGTAAGACCATGTTTGGAACATGGCATCGGC-TTGATATGTGTGCCAGTGTAAGACCATGTCTA
1 GTGTAAGACCATGTTTGG-ACATGGCATCGGCACTGATATGTGTGCTAGTGTAAGACCATGTCTG
*
46977665 GGACATGGCATCGACGATGATATGTGTGCCA
65 GGACATGGCATCGGCGATGATATGTGTGCCA
* *
46977696 GTGTAAGACTATGTTTGGACATGGCATTGGCACTGATATG
1 GTGTAAGACCATGTTTGGACATGGCATCGGCACTGATATG
46977736 AGACTTTGTA
Statistics
Matches: 202, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
94 49 0.24
95 93 0.46
96 30 0.15
97 30 0.15
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (95 bp):
GTGTAAGACCATGTTTGGACATGGCATCGGCACTGATATGTGTGCTAGTGTAAGACCATGTCTGG
GACATGGCATCGGCGATGATATGTGTGCCA
Found at i:46977735 original size:142 final size:144
Alignment explanation
Indices: 46977409--46977738 Score: 450
Period size: 142 Copynumber: 2.3 Consensus size: 144
46977399 ACGAGATCCC
* * * * * *
46977409 GTGTAAGACCACGTCTAGGACATGGCATCGGCATCTGAGATGAGAGCTAGTGTTAGACCATGTTT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCA-CTGATATGAGAGCCAATGTAAGACCATGTTT
* * * * *
46977474 GGGATATGGCATCGGTGTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCG
65 GGAACATGGCATCGGTCTTGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACG
* *
46977539 TTGATATGTGTGCTA
130 ATGATATGTGTGCCA
* * * *
46977554 GTGTAAGACCATGTCTGGGAC-TGGCATCGGCATTAATATGTGTGCCAATGTAAGACCATGTTTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATGAGAGCCAATGTAAGACCATGTTTG
46977618 GAACATGGCATCGG-CTTGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACGA
66 GAACATGGCATCGGTCTTGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACGA
46977682 TGATATGTGTGCCA
131 TGATATGTGTGCCA
* * *
46977696 GTGTAAGACTATGT-TTGGACATGGCATTGGCACTGATATGAGA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATGAGA
46977739 CTTTGTATAA
Statistics
Matches: 160, Mismatches: 24, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
141 5 0.03
142 89 0.56
143 36 0.22
144 11 0.07
145 19 0.12
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (144 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATGAGAGCCAATGTAAGACCATGTTTG
GAACATGGCATCGGTCTTGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACGA
TGATATGTGTGCCA
Found at i:46977750 original size:95 final size:95
Alignment explanation
Indices: 46977409--46977774 Score: 373
Period size: 95 Copynumber: 3.8 Consensus size: 95
46977399 ACGAGATCCC
* * * * *
46977409 GTGTAAGACCACGTCTAGGACATGGCATCGGCATCTGAGATGAG-AGCTAGTGTTAGACCATGTT
1 GTGTAAGACCATGT-TTGGACATGGCATCGGCA-CTGATATGAGTA-CTAGTGTAAGACCATGTC
* ** *
46977473 TGGGATATGGCATCGGTGTTGATATGTGTGCCA
63 TGGGACATGGCATCGACGATGATATGTGTGCCA
* ** * *
46977506 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCTAGTGTAAGACCATGTCTG
1 GTGTAAGACCATGT-TTGGACATGGCATCGGCACTGATATGAGTACTAGTGTAAGACCATGTCTG
* *
46977571 GGAC-TGGCATCGGC-ATTAATATGTGTGCCA
65 GGACATGGCATCGACGA-TGATATGTGTGCCA
* * * * * *
46977601 ATGTAAGACCATGTTTGGAACATGGCATCGGC-TTGATATGTGTGCCAGTGTAAGACCATGTCTA
1 GTGTAAGACCATGTTTGG-ACATGGCATCGGCACTGATATGAGTACTAGTGTAAGACCATGTCTG
46977665 GGACATGGCATCGACGATGATATGTGTGCCA
65 GGACATGGCATCGACGATGATATGTGTGCCA
* * * * *
46977696 GTGTAAGACTATGTTTGGACATGGCATTGGCACTGATATGAG-ACTTTGTATAAGACCATATCTG
1 GTGTAAGACCATGTTTGGACATGGCATCGGCACTGATATGAGTAC-TAGTGTAAGACCATGTCTG
* *
46977760 GGATATGGCGTCGAC
65 GGACATGGCATCGAC
46977775 ATGTGGATCC
Statistics
Matches: 230, Mismatches: 32, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
94 50 0.22
95 121 0.53
96 29 0.13
97 30 0.13
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (95 bp):
GTGTAAGACCATGTTTGGACATGGCATCGGCACTGATATGAGTACTAGTGTAAGACCATGTCTGG
GACATGGCATCGACGATGATATGTGTGCCA
Found at i:46997820 original size:48 final size:48
Alignment explanation
Indices: 46997705--46998022 Score: 388
Period size: 48 Copynumber: 6.6 Consensus size: 48
46997695 TGAGATCCCC
* * * *
46997705 TGTAAGACCATGTTTGGGACATGGCATCGACATCCTAGATA--AGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGT--T-GATATGTGTGCCAG
* * * *
46997754 TGTAAGACCATGTATGGGATATGGCATTGGCGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
* * *
46997802 TGTAAAACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
* *
46997850 TGTAAGGCCATGTCTAGGACATGGCATCGACGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
* *
46997898 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
* * * * * *
46997946 TGTAAGGCCATGTTTGGGACATGACATCGATGATGATATGTGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
* *
46997994 TGTAAGATCATGTCTAGGACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
46998023 GCACCGATAT
Statistics
Matches: 231, Mismatches: 36, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
46 4 0.02
47 1 0.00
48 198 0.86
49 28 0.12
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
Found at i:46998048 original size:144 final size:144
Alignment explanation
Indices: 46997705--46998070 Score: 414
Period size: 144 Copynumber: 2.5 Consensus size: 144
46997695 TGAGATCCCC
* * * * * * * *
46997705 TGTAAGACCATGTTTGGGACATGGCATCGACATCCTAGATAAGAGCCAGTGTAAGACCATGTATG
1 TGTAAGACCATGTCTAGGACATGGCATCGACA-CCGATATGAGTGCCAGTATAAGACCATGTCTG
* * *
46997770 GGATATGGCATTGGCGTTGATATGTGTGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACAT
65 GGATATGGCATCGGCATTGATATGTGTGCCAGTGTAAAACCATGTCTGGGACATGACATCGACAT
46997835 TGATATGTGTGCCAA
130 TGATATGTGTGCCAA
* *** * *
46997850 TGTAAGGCCATGTCTAGGACATGGCATCGACGTTGATATGTGTGCCAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTAGGACATGGCATCGACACCGATATGAGTGCCAGTATAAGACCATGTCTGG
* ** * *
46997915 GACATGGCATCGGCATTGATATGTGTGCCAGTGTAAGGCCATGTTTGGGACATGACATCGATGA-
66 GATATGGCATCGGCATTGATATGTGTGCCAGTGTAAAACCATGTCTGGGACATGACATCGA-CAT
* *
46997979 TGATATGTGTGCTAG
130 TGATATGTGTGCCAA
* * * *
46997994 TGTAAGATCATGTCTAGGACATGGCATCGGCACCGATATGAGACT-TCA-TATAAGACCATATCT
1 TGTAAGACCATGTCTAGGACATGGCATCGACACCGATATGAG--TGCCAGTATAAGACCATGTCT
*
46998057 AGGATATGGCATCG
64 GGGATATGGCATCG
46998071 ACATGTAGAT
Statistics
Matches: 184, Mismatches: 34, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
144 152 0.83
145 31 0.17
146 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (144 bp):
TGTAAGACCATGTCTAGGACATGGCATCGACACCGATATGAGTGCCAGTATAAGACCATGTCTGG
GATATGGCATCGGCATTGATATGTGTGCCAGTGTAAAACCATGTCTGGGACATGACATCGACATT
GATATGTGTGCCAA
Found at i:46998070 original size:96 final size:95
Alignment explanation
Indices: 46997705--46998108 Score: 394
Period size: 96 Copynumber: 4.3 Consensus size: 95
46997695 TGAGATCCCC
* * * * * *
46997705 TGTAAGACCATGTTTGGGACATGGCATCGACATCCTAGATA--AGAGCCAGTGTAAGACCATGTA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAT--T-GATATGTGTGCCA-TGTAAGGCCATGTC
* * * * *
46997768 TGGGATATGGCATTGGCGTTGATATGTGTGCCAG
62 TAGGACATGGCATCGACGATGATATGTGTGCCAG
* *
46997802 TGTAAAACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCAATGTAAGGCCATGTCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCC-ATGTAAGGCCATGTCTAG
*
46997867 GACATGGCATCGACGTTGATATGTGTGCCAG
65 GACATGGCATCGACGATGATATGTGTGCCAG
* *
46997898 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAGGCCATGTTTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCA-TGTAAGGCCATGTCTAG
* * *
46997963 GACATGACATCGATGATGATATGTGTGCTAG
65 GACATGGCATCGACGATGATATGTGTGCCAG
* * ** * * * * *
46997994 TGTAAGATCATGTCTAGGACATGGCATCGGCACCGATATGAGACT-TCATATAAGACCATATCTA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTG--TGCCATGTAAGGCCATGTCTA
* *
46998058 GGATATGGCATCGAC-ATG-TA-G-AT-CCA-
64 GGACATGGCATCGACGATGATATGTGTGCCAG
*
46998084 TGTAAGACCATGTCTAGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
46998109 TTTGGTACTT
Statistics
Matches: 266, Mismatches: 35, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
90 24 0.09
91 2 0.01
92 1 0.00
93 1 0.00
94 6 0.02
95 5 0.02
96 192 0.72
97 34 0.13
98 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (95 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCATGTAAGGCCATGTCTAGG
ACATGGCATCGACGATGATATGTGTGCCAG
Found at i:47003790 original size:39 final size:39
Alignment explanation
Indices: 47003743--47003925 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
47003733 AATGTTCGAG
47003743 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
47003782 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGTGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
47003821 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
47003860 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
47003900 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
47003926 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 86 0.69
40 38 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:47011219 original size:39 final size:39
Alignment explanation
Indices: 47011172--47011354 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
47011162 AATGTTCGAG
47011172 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
47011211 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
47011250 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
47011289 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
47011329 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
47011355 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:47017060 original size:49 final size:46
Alignment explanation
Indices: 47016939--47017064 Score: 137
Period size: 49 Copynumber: 2.7 Consensus size: 46
47016929 GGTATAATGC
* * *
47016939 TGATGCCATGTCCAGAAATGGTCTTACACTGGCTCATCCATCAAGT
1 TGATGCCATGTCCAGACATGGTCTTACACTGACTCATCAATCAAGT
* *
47016985 CGATGCCATGTCCCAAACATGGTCTTACACTGACT-ATCGAAATCGAAGT
1 TGATGCCATGT-CCAGACATGGTCTTACACTGACTCATC--AATC-AAGT
**
47017034 TGATGCCATGTCCTAGACATAATCTTACACT
1 TGATGCCATGTCC-AGACATGGTCTTACACT
47017065 AGTTCTCACA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
46 13 0.20
47 20 0.30
48 5 0.08
49 28 0.42
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (46 bp):
TGATGCCATGTCCAGACATGGTCTTACACTGACTCATCAATCAAGT
Found at i:47023389 original size:50 final size:49
Alignment explanation
Indices: 47023266--47023501 Score: 233
Period size: 50 Copynumber: 4.7 Consensus size: 49
47023256 TACAGCTATC
* * * * *
47023266 TGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGATC-AATAAT
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAATCAT
* * * *
47023314 TCGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTCATCAT
1 T-GATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAATCAT
* * * *
47023364 CTGATACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTCAT
1 -TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-TCAT
** * * *
47023415 TGAGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAAT-AGT
1 TGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAATCA-T
*
47023465 ATGATACACGTAGTAGCCTACACTTAGTACTACACAC
1 -TGATACACGTAGTAGCCTGCACTTAGTACTACACAC
47023502 ATGTATTCAC
Statistics
Matches: 152, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.23
50 75 0.49
51 41 0.27
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (49 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAATCAT
Found at i:47023470 original size:101 final size:99
Alignment explanation
Indices: 47023266--47023501 Score: 278
Period size: 101 Copynumber: 2.4 Consensus size: 99
47023256 TACAGCTATC
* * * *
47023266 TGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAATAATTCGGTACACGTAGTAGC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCAATAATTCGGTACACATAGTAGC
* * *
47023331 CTACACTTAGTACTACACACGTGACCTCATCATC
66 CTACACTTAGTACTACACACGCGACCTAATCATA
* * * **
47023365 TGATACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTCATT-GAGTATGCATAGT
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGATC-AA-TAATTCG-GTACACATAGT
* * *
47023429 AGCCTGCACTTAGTACTACACATGCGACTTAAT-AGTA
63 AGCCTACACTTAGTACTACACACGCGACCTAATCA-TA
*
47023466 TGATACACGTAGTAGCCTACACTTAGTACTACACAC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACAC
47023502 ATGTATTCAC
Statistics
Matches: 116, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
99 37 0.32
100 4 0.03
101 75 0.65
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (99 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCAATAATTCGGTACACATAGTAGC
CTACACTTAGTACTACACACGCGACCTAATCATA
Found at i:47030209 original size:2 final size:2
Alignment explanation
Indices: 47030202--47030230 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
47030192 GAGACTAGTC
47030202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47030231 CATGTCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47032260 original size:30 final size:30
Alignment explanation
Indices: 47032226--47032286 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
47032216 TCCTTAACTC
47032226 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
47032256 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
47032286 A
1 A
47032287 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:47034633 original size:27 final size:27
Alignment explanation
Indices: 47034184--47034631 Score: 562
Period size: 27 Copynumber: 16.6 Consensus size: 27
47034174 AAAGTACTCC
47034184 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
47034211 -AAGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
47034238 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
47034265 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
47034292 TGATTTACAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
47034319 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
47034346 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
47034373 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
47034400 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
47034427 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
47034453 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
47034481 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
47034508 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
47034535 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
47034562 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
47034589 TGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
47034616 CGATTTAAAAAATTAC
1 CGATTTACAGAATTAC
47034632 TAAAATACCC
Statistics
Matches: 370, Mismatches: 43, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
26 4 0.01
27 362 0.98
28 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:47040298 original size:30 final size:30
Alignment explanation
Indices: 47040264--47040324 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
47040254 TCCTTAACTC
47040264 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
47040294 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
47040324 A
1 A
47040325 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Done.