Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 165 of 332
Found at i:54561435 original size:26 final size:26
Alignment explanation
Indices: 54561384--54561435 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
54561374 AAACGAATAA
* *
54561384 ATTCAACTTAATTCAATATTTAATTT
1 ATTCAACTTAATCCAATATTCAATTT
*
54561410 ATTCAATTTAATCCAA-ATTCATATTT
1 ATTCAACTTAATCCAATATTCA-ATTT
54561436 TAAAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTCAACTTAATCCAATATTCAATTT
Found at i:54575770 original size:40 final size:40
Alignment explanation
Indices: 54575726--54575911 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
54575716 GCTCCTCGTT
*
54575726 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCACA
* *
54575766 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
* * *
54575806 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
* * * * *
54575846 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CA
54575887 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54575912 CATCATTCAA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.89
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
Found at i:54579463 original size:43 final size:43
Alignment explanation
Indices: 54579307--54579464 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
54579297 ATGTGTTCTT
* * * *
54579307 GTGTAAGACCAGGTCTGGGATGTTGGCATCGACT-TATGATTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATC-AATATTTGA-TTAC
* * ** *
54579351 GTGTAAGAGCACATCTGGGACGTTGGCAT-TGTATTTGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCAATATTTGATTAC
* **
54579393 GTATAAGACC-CTGTCTGGGACAATGGCATCAATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGACGTTGGCATCAATATTTGATTAC
* *
54579436 ATGTAAGACCACGTCTGGGATGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
54579465 TGTACAAGCT
Statistics
Matches: 89, Mismatches: 21, Indels: 9
0.75 0.18 0.08
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 36 0.40
44 26 0.29
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCAATATTTGATTAC
Found at i:54581454 original size:38 final size:38
Alignment explanation
Indices: 54581403--54581482 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 38
54581393 ATCAAGCTTG
* * *
54581403 CTAGGCACTAAGCCTGAA-TAACACCA-GCACTGAGCCTT
1 CTAGGCACAAAGCCT-AATTAACA-CATGCACTAAGCCTA
*
54581441 CTAGGTACAAAGCCTAATTAACACATGCACTAAGCCTA
1 CTAGGCACAAAGCCTAATTAACACATGCACTAAGCCTA
54581479 CTAG
1 CTAG
54581483 CCACTAAACC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 4 0.11
38 32 0.89
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.20
Consensus pattern (38 bp):
CTAGGCACAAAGCCTAATTAACACATGCACTAAGCCTA
Found at i:54584672 original size:20 final size:20
Alignment explanation
Indices: 54584647--54584691 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
54584637 AGGGACTAAA
* *
54584647 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
54584667 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
54584687 ATGAA
1 ATGAA
54584692 TACATTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:54591491 original size:32 final size:33
Alignment explanation
Indices: 54591455--54591526 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
54591445 GTGTGCGAGG
* *
54591455 CACGGGCTAGACCAAT-TGAGCCGTGTGATCCA
1 CACGGGCAAGACCAATCTGAGCCGTGTGAGCCA
* * *
54591487 CACGGGCAAGGCCAATCTGGGTCGTGTGAGCCA
1 CACGGGCAAGACCAATCTGAGCCGTGTGAGCCA
54591520 CACGGGC
1 CACGGGC
54591527 GTGTGGGCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.41
33 20 0.59
ACGTcount: A:0.22, C:0.29, G:0.33, T:0.15
Consensus pattern (33 bp):
CACGGGCAAGACCAATCTGAGCCGTGTGAGCCA
Found at i:54595560 original size:40 final size:40
Alignment explanation
Indices: 54595424--54595564 Score: 214
Period size: 40 Copynumber: 3.5 Consensus size: 40
54595414 CGGATGTAAC
* *
54595424 AACCAGCACGAATGCCTTCGGGACTTAGCCTGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
54595464 AACCCA-CACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AA-CCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
54595504 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
54595544 AACTAGCAC-AATTGCCTTCGG
1 AACCAGCACGAA-TGCCTTCGG
54595565 ATCTTAGTCC
Statistics
Matches: 93, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
39 4 0.04
40 86 0.92
41 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:54602861 original size:40 final size:40
Alignment explanation
Indices: 54602803--54602983 Score: 195
Period size: 40 Copynumber: 4.5 Consensus size: 40
54602793 TCGGATTAAC
* * *
54602803 AACCAGCATGAATACCTTCGGGACTTAGCCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
54602843 AACCCGTACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
54602883 AACCAGCATGAATGCCTTCGGGACTTAACCCGATTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* ** * *
54602923 AACTAGCAC-AATTGCCTTC-GGATCTTAGTCCGGATATAGT
1 AACCAGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAAT
* * *
54602963 GACTAGCACAAATGCCTTCGG
1 AACCAGCACGAATGCCTTCGG
54602984 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 5 0.04
40 112 0.93
41 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:54602984 original size:40 final size:40
Alignment explanation
Indices: 54602924--54602999 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
54602914 GATTATAATA
*
54602924 ACTAGCACAATTGCCTTCGGATCTTAGTCCGGATATAGTG
1 ACTAGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTG
54602964 ACTAGCACAAATGCCTTCGGATCTTAGTCCGGATAT
1 ACTAGCACAAATGCCTTCGGATCTTAGTCCGGATAT
54603000 CATCCGAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (40 bp):
ACTAGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTG
Found at i:54604655 original size:43 final size:42
Alignment explanation
Indices: 54604606--54604726 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
54604596 ATATGTGTTC
* *
54604606 TCGTGTAAGACCACATCTGGGACTTTGGCATCGATTTTTGAT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTTTGAT
* * ** *
54604648 TACGTGTAAGACCATGTATGGGACATCAGCATCG-TATTTGAT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGATTTTTGAT
* *
54604690 TCATGTAAGACC-CTGTCTGGGACAGTGGCATCGATTT
1 TCGTGTAAGACCAC-GTCTGGGACATTGGCATCGATTT
54604727 ATCGATATGT
Statistics
Matches: 62, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
41 25 0.40
42 11 0.18
43 26 0.42
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTTTGAT
Found at i:54604721 original size:41 final size:41
Alignment explanation
Indices: 54604609--54604726 Score: 114
Period size: 41 Copynumber: 2.8 Consensus size: 41
54604599 TGTGTTCTCG
** * * *
54604609 TGTAAGACCACATCTGGGACTTTGGCATCGATTTTTGATTACG
1 TGTAAGACCATGTCTGGGAC-ATGGCATCG-TATTTGATTACA
* *
54604652 TGTAAGACCATGTATGGGACATCAGCATCGTATTTGATT-CA
1 TGTAAGACCATGTCTGGGACAT-GGCATCGTATTTGATTACA
*
54604693 TGTAAGACCCTGTCTGGGACAGTGGCATCG-ATTT
1 TGTAAGACCATGTCTGGGACA-TGGCATCGTATTT
54604727 ATCGATATGT
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
40 4 0.06
41 26 0.41
42 10 0.16
43 23 0.37
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATGGCATCGTATTTGATTACA
Found at i:54612356 original size:22 final size:22
Alignment explanation
Indices: 54612330--54612374 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
54612320 TGCTGTGATA
*
54612330 TCTACCGCGTTCAGCCGTCCTG
1 TCTACCGCATTCAGCCGTCCTG
* * *
54612352 TCTACGGCATTGAGCCGTTCTG
1 TCTACCGCATTCAGCCGTCCTG
54612374 T
1 T
54612375 TGACTTAGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.11, C:0.33, G:0.24, T:0.31
Consensus pattern (22 bp):
TCTACCGCATTCAGCCGTCCTG
Found at i:54614962 original size:43 final size:41
Alignment explanation
Indices: 54614892--54615008 Score: 117
Period size: 43 Copynumber: 2.8 Consensus size: 41
54614882 ATGATTTCAA
* * * ** *
54614892 TATGTGTTCTCGTGTAAAACCACGTCTGGGATGTTAGCATCG
1 TATGTGAT-TCGTGTAAGACCATGTCTGGGACATCAGCATCG
54614934 ATATGTGATTACGTGTAAGACCATGTCTGGGACATCAGCATCG
1 -TATGTGATT-CGTGTAAGACCATGTCTGGGACATCAGCATCG
* * * *
54614977 TATTTGATTCATGTACGACCCTGTCTGGGACA
1 TATGTGATTCGTGTAAGACCATGTCTGGGACA
54615009 GTGGCATCGA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 20 0.32
42 9 0.14
43 34 0.54
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (41 bp):
TATGTGATTCGTGTAAGACCATGTCTGGGACATCAGCATCG
Found at i:54620434 original size:37 final size:37
Alignment explanation
Indices: 54620321--54620435 Score: 176
Period size: 37 Copynumber: 3.1 Consensus size: 37
54620311 ACCTTTAGCT
* * *
54620321 CGGACGTAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
* *
54620358 CGAACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
*
54620395 CGGACATAATCTCCACACGTAGTCATCGGGTCTCACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
54620432 CGGA
1 CGGA
54620436 ATATATTTCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:54620650 original size:47 final size:47
Alignment explanation
Indices: 54620598--54621018 Score: 637
Period size: 47 Copynumber: 9.0 Consensus size: 47
54620588 TTTCACACTA
* * * * * *
54620598 GCCATTCGGCTTTACCGCATATATGCATTTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
54620645 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
54620692 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
54620739 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
54620786 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
54620833 GCCATTCGG-CTTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTT-ATCACATATATGCATGTTCACATTCATCACATTG
* *
54620880 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
54620927 GCCATTCGGCCTTATCACACATATGAATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
54620974 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
54621019 AAAATCCTAA
Statistics
Matches: 339, Mismatches: 33, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
46 3 0.01
47 333 0.98
48 3 0.01
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:54620797 original size:141 final size:141
Alignment explanation
Indices: 54620615--54621019 Score: 722
Period size: 141 Copynumber: 2.9 Consensus size: 141
54620605 GGCTTTACCG
*
54620615 CATATATGCATTTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
1 CATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
* * *
54620680 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTGGCCATT
66 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAGGCCATT
54620745 CGGCCTCATCA
131 CGGCCTCATCA
*
54620756 CATATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
1 CATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
54620821 TTCATCACATTGGCCATTCGG-CTTCATCACATATATGCATGTTCACATTCATCACATAGGCCAT
66 TTCATCACATTGGCCATTCGGCCTT-ATCACATATATGCATGTTCACATTCATCACATAGGCCAT
*
54620885 TCGGCCTTATCA
130 TCGGCCTCATCA
*
54620897 CATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGAATGCTCACA
1 CATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
*
54620962 TTCATCACATTGGCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATA
66 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATA
54621020 AAATCCTAAA
Statistics
Matches: 253, Mismatches: 9, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
140 3 0.01
141 248 0.98
142 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (141 bp):
CATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAGGCCATT
CGGCCTCATCA
Found at i:54621019 original size:25 final size:25
Alignment explanation
Indices: 54620750--54620878 Score: 80
Period size: 25 Copynumber: 5.4 Consensus size: 25
54620740 CCATTCGGCC
54620750 TCATCACATATATGCATGTTCACAT
1 TCATCACATATATGCATGTTCACAT
* * * *
54620775 TCACCACAT-T-GGCCA--TTCGGCCT
1 TCATCACATATATG-CATGTTC-ACAT
* *
54620798 T-ATCACACATATGCATGCTCACAT
1 TCATCACATATATGCATGTTCACAT
* *
54620822 TCATCACAT-T-GGCCA--TTCGGC-T
1 TCATCACATATATG-CATGTTC-ACAT
54620844 TCATCACATATATGCATGTTCACAT
1 TCATCACATATATGCATGTTCACAT
54620869 TCATCACATA
1 TCATCACATA
54620879 GGCCATTCGG
Statistics
Matches: 74, Mismatches: 16, Indels: 28
0.63 0.14 0.24
Matches are distributed among these distances:
22 20 0.27
23 12 0.16
24 12 0.16
25 30 0.41
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (25 bp):
TCATCACATATATGCATGTTCACAT
Found at i:54625102 original size:40 final size:40
Alignment explanation
Indices: 54625069--54625408 Score: 437
Period size: 40 Copynumber: 8.5 Consensus size: 40
54625059 CCAGCATGAT
* * * *
54625069 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
54625109 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
54625149 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
54625189 TGCTCTTCGGGATTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
54625229 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGAACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
54625269 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
54625309 TGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
54625349 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
54625389 TGCTTTTCGGGATTTAGCCC
1 TGCTCTTCGGGACTTAGCCC
54625409 AGACATTTCA
Statistics
Matches: 258, Mismatches: 42, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 258 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:54625411 original size:80 final size:79
Alignment explanation
Indices: 54625069--54625398 Score: 489
Period size: 80 Copynumber: 4.1 Consensus size: 79
54625059 CCAGCATGAT
* * * * * * *
54625069 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGC-CGGATA
54625134 TATCACTAGCACGAA
65 TATCACTAGCACGAA
*
54625149 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCTGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCC-GGATA
54625214 TATCACTAGCACGAA
65 TATCACTAGCACGAA
* *
54625229 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGAACGAATGCTCTTCGGGATTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAG-CCGGATA
54625294 TATCACTAGCACGAA
65 TATCACTAGCACGAA
* * *
54625309 TGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAG-CCGGATA
*
54625374 CATCACTAGCACGAA
65 TATCACTAGCACGAA
*
54625389 TGCTTTTCGG
1 TGCTCTTCGG
54625399 GATTTAGCCC
Statistics
Matches: 231, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
79 1 0.00
80 228 0.99
81 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCGGATAT
ATCACTAGCACGAA
Found at i:54626732 original size:37 final size:37
Alignment explanation
Indices: 54626689--54626796 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
54626679 GCTCGGACGT
* *
54626689 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
** *
54626726 AATCTCCACACGTAGTCATCGGGTCTTACCCAAACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
54626763 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
54626797 ATATATTTCC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:54627011 original size:47 final size:47
Alignment explanation
Indices: 54626959--54627379 Score: 637
Period size: 47 Copynumber: 9.0 Consensus size: 47
54626949 TTTCACACTA
* * * * * *
54626959 GCCATTCGGCTTTATCGCATATATGCATTTTCATATTCACCACAATG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
54627006 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
54627053 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
54627100 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
54627147 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
54627194 GCCATTCGG-CTTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTT-ATCACATATATGCATGTTCACATTCATCACATTG
* * *
54627241 GCCATTCAGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
54627288 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
54627335 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
54627380 AAAATCCTAA
Statistics
Matches: 339, Mismatches: 33, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
46 3 0.01
47 333 0.98
48 3 0.01
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:54627158 original size:141 final size:141
Alignment explanation
Indices: 54626951--54627380 Score: 729
Period size: 141 Copynumber: 3.0 Consensus size: 141
54626941 CCTACATATT
* * * *
54626951 TCACACTA-GCCATTCGGCTTTATCGCATATATGCATTTTCATATTCACCACAATGGCCATTCGG
1 TCACA-TAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGG
54627015 CCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA
65 CCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA
* *
54627080 TGCTCACATTTA
130 TGTTCACATTCA
* * *
54627092 TCACATTGGCCATTCGGCCTCATCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGC
1 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
54627157 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGG-CTTCATCACATATATGCA
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTT-ATCACATATATGCA
54627221 TGTTCACATTCA
130 TGTTCACATTCA
*
54627233 TCACATAGGCCATTCAGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
*
54627298 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTCATCACATATATGCAT
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
54627363 GTTCACATTCA
131 GTTCACATTCA
54627374 TCACATA
1 TCACATA
54627381 AAATCCTAAA
Statistics
Matches: 272, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
140 4 0.01
141 266 0.98
142 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.32
Consensus pattern (141 bp):
TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
GTTCACATTCA
Found at i:54631952 original size:19 final size:19
Alignment explanation
Indices: 54631928--54631966 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
54631918 AATACTTATT
*
54631928 TATTATTTA-TACATGTGTA
1 TATTA-TTAGTACATATGTA
54631947 TATTATTAGTACATATGTA
1 TATTATTAGTACATATGTA
54631966 T
1 T
54631967 CCATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAGTACATATGTA
Found at i:54632014 original size:15 final size:14
Alignment explanation
Indices: 54631991--54632029 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
54631981 ACACTTTTCT
54631991 TTTATTTATTATAC
1 TTTATTTATTATAC
*
54632005 TTTATATTATTATATT
1 TTTAT-TTATTATA-C
54632021 TTTATTTAT
1 TTTATTTAT
54632030 AATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 12 0.55
16 5 0.23
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTATTATAC
Found at i:54636307 original size:11 final size:11
Alignment explanation
Indices: 54636283--54636316 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
54636273 AATCCCTAGT
*
54636283 TTTTCCTTTTTC
1 TTTT-CTTTCTC
54636295 TTTTCTTTCTC
1 TTTTCTTTCTC
54636306 TTTTCTTTCTC
1 TTTTCTTTCTC
54636317 CCCATTTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTCTTTCTC
Found at i:54636433 original size:19 final size:19
Alignment explanation
Indices: 54636409--54636447 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
54636399 AATACTTATT
*
54636409 TATTATTTA-TACATGTGTA
1 TATTA-TTAGTACATATGTA
54636428 TATTATTAGTACATATGTA
1 TATTATTAGTACATATGTA
54636447 T
1 T
54636448 CCATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAGTACATATGTA
Found at i:54636495 original size:15 final size:14
Alignment explanation
Indices: 54636472--54636510 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
54636462 ACACTTTTCT
54636472 TTTATTTATTATAC
1 TTTATTTATTATAC
*
54636486 TTTATATTATTATATT
1 TTTAT-TTATTATA-C
54636502 TTTATTTAT
1 TTTATTTAT
54636511 AATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 12 0.55
16 5 0.23
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTATTATAC
Found at i:54636607 original size:18 final size:18
Alignment explanation
Indices: 54636584--54636621 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
54636574 TACACATGTA
54636584 TTTATACTTACCACACAC
1 TTTATACTTACCACACAC
54636602 TTTATACTTACCACACAC
1 TTTATACTTACCACACAC
54636620 TT
1 TT
54636622 GTCACATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.37
Consensus pattern (18 bp):
TTTATACTTACCACACAC
Found at i:54648374 original size:28 final size:26
Alignment explanation
Indices: 54648334--54648393 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 26
54648324 TCGAATAAAA
* *
54648334 AAATTTCGAGTTAATATTTTATGATTTG
1 AAATTTCGAGTTAA-AATTT-CGATTTG
54648362 AAATTTCGAGTTAAAATTTCGATTTG
1 AAATTTCGAGTTAAAATTTCGATTTG
54648388 AAATTT
1 AAATTT
54648394 TCTCGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.40
27 4 0.13
28 14 0.47
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (26 bp):
AAATTTCGAGTTAAAATTTCGATTTG
Found at i:54649948 original size:42 final size:42
Alignment explanation
Indices: 54649901--54649998 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 42
54649891 CATAGTTCAA
*
54649901 CTATGGTCTTACACATCTTCACATAAT-GACGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACAT-ATCGACGCCATAGCCCAG
* *
54649943 CTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACATATCGACGCCATAGCCCAG
54649985 CTATGGTCTTACAC
1 CTATGGTCTTACAC
54649999 GAACCACATA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 2 0.04
42 50 0.96
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.30
Consensus pattern (42 bp):
CTATGGTCTTACACATATTCACATATCGACGCCATAGCCCAG
Found at i:54650072 original size:47 final size:46
Alignment explanation
Indices: 54649969--54650092 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
54649959 ATTCATATAT
* * * *
54649969 CGATGCCATAGCCCAGCTATGGTCTTACACGAACCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAACCACATATCACAC
* * * *
54650015 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAACCACATATCACAC
*
54650062 CGATGCCATATCCTAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
54650093 GAAATAACTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 27 0.40
47 40 0.60
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAACCACATATCACAC
Found at i:54650111 original size:7 final size:7
Alignment explanation
Indices: 54650099--54650125 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
54650089 TACGGAAATA
54650099 ACTTGTC
1 ACTTGTC
54650106 ACTTGTC
1 ACTTGTC
54650113 ACTTGTC
1 ACTTGTC
54650120 ACTTGT
1 ACTTGT
54650126 AGCCGAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (7 bp):
ACTTGTC
Found at i:54650167 original size:31 final size:31
Alignment explanation
Indices: 54650132--54650303 Score: 224
Period size: 31 Copynumber: 5.5 Consensus size: 31
54650122 TTGTAGCCGA
* *
54650132 AGCTACCACTATTCACTAATCAGGTAGACGG
1 AGCTACCACTTTTCACTGATCAGGTAGACGG
* *
54650163 AGCTACCATTTTTTCACTGATCAGGTAGCCGG
1 AGCTACCA-CTTTTCACTGATCAGGTAGACGG
*
54650195 AGCTA-CACTTTTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGACGG
* *
54650225 AACTACCACTTTTCACTGATCAGGTA-ACAGA
1 AGCTACCACTTTTCACTGATCAGGTAGAC-GG
*
54650256 AGCTACCACTTTTCACTGATCAGGTAG-CTGA
1 AGCTACCACTTTTCACTGATCAGGTAGAC-GG
54650287 AGCTACCACTTTTCACT
1 AGCTACCACTTTTCACT
54650304 TGTCATTTGT
Statistics
Matches: 127, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
30 27 0.21
31 76 0.60
32 24 0.19
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGACGG
Found at i:54650297 original size:93 final size:93
Alignment explanation
Indices: 54650124--54650303 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 93
54650114 CTTGTCACTT
* *
54650124 GTAGCCGAAGCTACCACTATTCACTAATCAGGTAGACGGAGCTACCATTTTTTCACTGATCAGGT
1 GTAGCCGAAGCTACCACTATTCACTAATCAGGTAGACGAAGCTACCATCTTTTCACTGATCAGGT
*
54650189 AGCCGGAGCTACACTTTTCACTGATCAG
66 AGCCGAAGCTACACTTTTCACTGATCAG
* *
54650217 GTAGCCGGAA-CTACCACTTTTCACTGATCAGGTA-ACAGAAGCTACCA-CTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTATTCACTAATCAGGTAGAC-GAAGCTACCATCTTTTCACTGATCAG
*
54650279 GTAGCTGAAGCTACCACTTTTCACT
64 GTAGCCGAAGCTA-CACTTTTCACT
54650304 TGTCATTTGT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
92 27 0.35
93 48 0.62
94 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (93 bp):
GTAGCCGAAGCTACCACTATTCACTAATCAGGTAGACGAAGCTACCATCTTTTCACTGATCAGGT
AGCCGAAGCTACACTTTTCACTGATCAG
Found at i:54650385 original size:50 final size:51
Alignment explanation
Indices: 54650279--54650402 Score: 189
Period size: 50 Copynumber: 2.5 Consensus size: 51
54650269 CACTGATCAG
* * *
54650279 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
54650330 GTAGCCGAAGCTATCACTTATCACTT-TCACTTTTTC-TTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
54650380 GTAGCCGAAGCTATCACTTATCA
1 GTAGCCGAAGCTATCACTTATCA
54650403 TGTGACGGCC
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
50 40 0.59
51 28 0.41
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:54652369 original size:39 final size:39
Alignment explanation
Indices: 54652313--54652490 Score: 221
Period size: 39 Copynumber: 4.5 Consensus size: 39
54652303 GCATGATATT
*
54652313 TGGAAATATATCTGGACTTAAGGTCCGCAAGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAAGCTATATGC
* *
54652352 TGGAATTATATCCGGACTTAAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAAGCTATATGC
*
54652391 TAGAAATATATCCGGACTTAAGGTCCGCAAGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAAGCTATATGC
* ** * * * * **
54652430 TGGAATTATAATCTAGACTTAAGGTTCACAGGTTACGTGC
1 TGGAAATAT-ATCCGGACTTAAGGTCCGCAAGCTATATGC
*
54652470 TGGAAATATATCCGGGCTTAA
1 TGGAAATATATCCGGACTTAA
54652491 AGTTCCGAAG
Statistics
Matches: 118, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
39 88 0.75
40 30 0.25
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (39 bp):
TGGAAATATATCCGGACTTAAGGTCCGCAAGCTATATGC
Found at i:54655424 original size:29 final size:29
Alignment explanation
Indices: 54655366--54655424 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
54655356 GAATAGGAGG
*
54655366 AGAGTAAAAGTTTTGGGGGAAAGTGGAAA
1 AGAGTAAAAGTTTTGGGGGAAAGTGAAAA
54655395 AGAGTAAAA-TCTTTGGGGGAAAAGT-AAAA
1 AGAGTAAAAGT-TTTGGGGG-AAAGTGAAAA
54655424 A
1 A
54655425 TATTTGATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 1 0.04
29 21 0.78
30 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.32, T:0.20
Consensus pattern (29 bp):
AGAGTAAAAGTTTTGGGGGAAAGTGAAAA
Found at i:54660002 original size:40 final size:40
Alignment explanation
Indices: 54659699--54660001 Score: 455
Period size: 40 Copynumber: 7.6 Consensus size: 40
54659689 CGGATGATAA
* * * *
54659699 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTGGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
54659739 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54659779 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54659819 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54659859 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54659899 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54659939 CCGGGCTAAGTCCCGAAGGCATTGGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54659979 CCAGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
54660002 GAGCAAGTAG
Statistics
Matches: 244, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 1 0.00
40 243 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54662306 original size:25 final size:25
Alignment explanation
Indices: 54662278--54662358 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
54662268 AACCCTTTCT
54662278 TGAGCCTTATAACGGGAAGCTCATG
1 TGAGCCTTATAACGGGAAGCTCATG
* * * * *
54662303 TGAGCCATGTAACGAGAAGATTAT-
1 TGAGCCTTATAACGGGAAGCTCATG
* * *
54662327 TCAGGCTGTATAACAGGAAGCTCATG
1 TGAGCCT-TATAACGGGAAGCTCATG
*
54662353 TAAGCC
1 TGAGCC
54662359 AATAATGGAT
Statistics
Matches: 39, Mismatches: 15, Indels: 3
0.68 0.26 0.05
Matches are distributed among these distances:
24 4 0.10
25 31 0.79
26 4 0.10
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (25 bp):
TGAGCCTTATAACGGGAAGCTCATG
Found at i:54662488 original size:26 final size:26
Alignment explanation
Indices: 54662450--54662524 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
54662440 GAAACTTCAG
* *
54662450 AGAGCCATAAATCAGGAAGCTCACAA
1 AGAGCCTTTAATCAGGAAGCTCACAA
*
54662476 AGAGCCTTTAATC-GGAAAGCTCACGA
1 AGAGCCTTTAATCAGG-AAGCTCACAA
* *
54662502 AGAGCCATATAA-CAGGACGCTCA
1 AGAGCC-TTTAATCAGGAAGCTCA
54662525 TAAGAGCTGC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
25 2 0.05
26 33 0.80
27 6 0.15
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (26 bp):
AGAGCCTTTAATCAGGAAGCTCACAA
Found at i:54670065 original size:16 final size:16
Alignment explanation
Indices: 54670044--54670075 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
54670034 GGAAGGTCTG
54670044 AATGAGGACATCAAGT
1 AATGAGGACATCAAGT
54670060 AATGAGGACATCAAGT
1 AATGAGGACATCAAGT
54670076 TGTTGATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (16 bp):
AATGAGGACATCAAGT
Found at i:54675315 original size:42 final size:42
Alignment explanation
Indices: 54675269--54675403 Score: 130
Period size: 43 Copynumber: 3.1 Consensus size: 42
54675259 CCCGAATTCA
* * *
54675269 TTCACCAACAGTTCGCCTACTAGGCTCGAAGCCCG-ATA-TCAT
1 TTCACCAGCA-TTCGCATGCTAGGCTCGAAGCCCGAATAGT-AT
* * *
54675311 TTCACCGGCATATAGCTTGCTAGGCTCGAAAGCCCGAATAGTAT
1 TTCACCAGCAT-TCGCATGCTAGGCTCG-AAGCCCGAATAGTAT
* *
54675355 CTCACCAGCATTTCGCATGCTAGGCTCGAAGCCTGAATAGTAT
1 TTCACCAGCA-TTCGCATGCTAGGCTCGAAGCCCGAATAGTAT
*
54675398 CTCACC
1 TTCACC
54675404 GACATTATAG
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
41 1 0.01
42 21 0.27
43 27 0.35
44 27 0.35
45 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (42 bp):
TTCACCAGCATTCGCATGCTAGGCTCGAAGCCCGAATAGTAT
Found at i:54675442 original size:88 final size:86
Alignment explanation
Indices: 54675270--54675454 Score: 230
Period size: 88 Copynumber: 2.1 Consensus size: 86
54675260 CCGAATTCAT
* * * * * *
54675270 TCACCAACAGTTCGCCTACTAGGCTCGAAGCCCGATATCATTTCACCGGCATATAGCTTGCTAGG
1 TCACCAGCATTTCGCATACTAGGCTCGAAGCCCGATATCATCTCACCGACATATAGCCTGCTAGG
*
54675335 CTCGAAAGCCCGAATAGTATC
66 CTCAAAAGCCCGAATAGTATC
* *
54675356 TCACCAGCATTTCGCATGCTAGGCTCGAAGCCTGAATAGT-ATCTCACCGACATTATAGCCTGCT
1 TCACCAGCATTTCGCATACTAGGCTCGAAGCCCG-ATA-TCATCTCACCGACA-TATAGCCTGCT
54675420 A-GCTCAAAAGGCCCGAATAGTATC
63 AGGCTCAAAA-GCCCGAATAGTATC
*
54675444 TCACCGGCATT
1 TCACCAGCATT
54675455 ATAGCCTGCT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
86 29 0.34
87 20 0.24
88 36 0.42
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (86 bp):
TCACCAGCATTTCGCATACTAGGCTCGAAGCCCGATATCATCTCACCGACATATAGCCTGCTAGG
CTCAAAAGCCCGAATAGTATC
Found at i:54675446 original size:45 final size:44
Alignment explanation
Indices: 54675283--54675486 Score: 206
Period size: 44 Copynumber: 4.7 Consensus size: 44
54675273 CCAACAGTTC
* * * *
54675283 GCCTACTAGGCTCGAAGCCCG-ATA-TCATTTCACCGGCA-TATA
1 GCCTGCTAGGCTCAAAGCCCGAATAGT-ATCTCACCGACATTATA
* *
54675325 GCTTGCTAGGCTCGAAAGCCCGAATAGTATCTCACC-AGCATT-TC
1 GCCTGCTAGGCTC-AAAGCCCGAATAGTATCTCACCGA-CATTATA
* * *
54675369 GCATGCTAGGCTCGAAGCCTGAATAGTATCTCACCGACATTATA
1 GCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGACATTATA
*
54675413 GCCTGCTA-GCTCAAAAGGCCCGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTC-AAA-GCCCGAATAGTATCTCACCGACATTATA
*
54675458 GCCTGCTA-GTTCAAAGGCCCGAATAGTAT
1 GCCTGCTAGGCTCAAA-GCCCGAATAGTAT
54675487 TGTGCGATAT
Statistics
Matches: 138, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
42 11 0.08
43 35 0.25
44 53 0.38
45 39 0.28
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (44 bp):
GCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGACATTATA
Found at i:54676240 original size:46 final size:47
Alignment explanation
Indices: 54676152--54676292 Score: 214
Period size: 46 Copynumber: 3.0 Consensus size: 47
54676142 AAAATTTTCT
* * * *
54676152 TTAACTAAGTAACTTATCCGAAAATAATAAGGGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
54676199 TTAACTAAGTAACTT-TCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
* *
54676245 TTAACTAAGTAACTTATCCAGAAATATTAAAAGC-AATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
54676291 TT
1 TT
54676293 TATATTCAAC
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
46 56 0.64
47 31 0.36
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:54682816 original size:12 final size:12
Alignment explanation
Indices: 54682799--54682823 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54682789 AAAACCCGAA
54682799 TTCATTCACCGG
1 TTCATTCACCGG
54682811 TTCATTCACCGG
1 TTCATTCACCGG
54682823 T
1 T
54682824 ATTTCGCCTG
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:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (12 bp):
TTCATTCACCGG
Found at i:54682881 original size:43 final size:44
Alignment explanation
Indices: 54682816--54683034 Score: 248
Period size: 45 Copynumber: 5.0 Consensus size: 44
54682806 ACCGGTTCAT
* * * *
54682816 TCACCGGTATT-TCGCCTGCTAGGCTCAAAGCCTG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGT-ATC
* *
54682858 TCACTGGCATTATAGCCTACTAGGCTCGAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGCCCGAATAGTATC
* ** * *
54682903 TCACCGGTATT-TCTCCTGCTAGGCTCGAAGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATC
* *
54682946 TCACCAGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTATC
*
54682991 TCACCGGCATTATAGCCTGCTAGGCCCAAAGGCCCGAATAGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTAT
54683035 TGTGTGATAT
Statistics
Matches: 148, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
42 9 0.06
43 37 0.25
44 33 0.22
45 68 0.46
46 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATC
Found at i:54682985 original size:88 final size:88
Alignment explanation
Indices: 54682816--54683034 Score: 282
Period size: 88 Copynumber: 2.5 Consensus size: 88
54682806 ACCGGTTCAT
** * **
54682816 TCACCGGTATTTCGCCTGCTAGGCTCAAAG-CCTGATA-TCATTTCACTGGCATTATAGCCTACT
1 TCACCGGTATTTCGCCTGCTAGGCTCAAAGCCCAAATAGT-ATCTCACCAGCATTATAGCCTACT
54682879 AGGCTCGAAAGCCCGAATAGTATC
65 AGGCTCGAAAGCCCGAATAGTATC
* *
54682903 TCACCGGTATTTCTCCTGCTAGGCTCGAAGCCCAAATAGTATCTCACCAGCATTATAGCCTACTA
1 TCACCGGTATTTCGCCTGCTAGGCTCAAAGCCCAAATAGTATCTCACCAGCATTATAGCCTACTA
54682968 GGCTC-AAAGGCCCGAATAGTATC
66 GGCTCGAAA-GCCCGAATAGTATC
* * * *
54682991 TCACCGGCATTATAGCCTGCTAGGCCCAAAGGCCCGAATAGTAT
1 TCACCGGTATT-TCGCCTGCTAGGCTCAAA-GCCCAAATAGTAT
54683035 TGTGTGATAT
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
87 31 0.27
88 56 0.49
89 15 0.13
90 12 0.11
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (88 bp):
TCACCGGTATTTCGCCTGCTAGGCTCAAAGCCCAAATAGTATCTCACCAGCATTATAGCCTACTA
GGCTCGAAAGCCCGAATAGTATC
Found at i:54683899 original size:46 final size:46
Alignment explanation
Indices: 54683813--54683998 Score: 266
Period size: 46 Copynumber: 4.0 Consensus size: 46
54683803 AAAATTTTCT
* * *
54683813 TTAACTAAGTAACTTATCCGGAAATAATAAGGGAAAATTTAACAAGC
1 TTAACTAAGTAACTT-TCCAGAAATATTAAGAGAAAATTTAACAAGC
*
54683860 TTAACTAAGTAACTTTCTAGAAATATTAAGAGAAAATTTAACAAGC
1 TTAACTAAGTAACTTTCCAGAAATATTAAGAGAAAATTTAACAAGC
* * * *
54683906 TTAACTAAGTAACTTTTCGGAAATATTAAGAGCAAATTTAACGAGC
1 TTAACTAAGTAACTTTCCAGAAATATTAAGAGAAAATTTAACAAGC
* *
54683952 TTAACTAAGTAACTATCCAGAAATATTAAGAG-CAATTTAACAAGC
1 TTAACTAAGTAACTTTCCAGAAATATTAAGAGAAAATTTAACAAGC
54683997 TT
1 TT
54683999 TAAATTCAAC
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 13 0.10
46 97 0.78
47 15 0.12
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (46 bp):
TTAACTAAGTAACTTTCCAGAAATATTAAGAGAAAATTTAACAAGC
Found at i:54691516 original size:65 final size:65
Alignment explanation
Indices: 54691426--54691571 Score: 161
Period size: 65 Copynumber: 2.2 Consensus size: 65
54691416 ATATCAGAAG
* * * *
54691426 GCTCATAAAGAGCTGCGTTTGTGTCCACAACATATACAGGTTCACAACTA-ATCGCAT-AACAGG
1 GCTCACAAAGAGCTGCATTTGTGTCCACAACATATACAGGATCACAAC-AGATC-AATAAACAGG
54691489 AC
64 AC
* * * ** * *
54691491 GCTTACAAAGAGCTGTATTTTTGTCCGTAACATATGCAGGATCACAACAGATCAATAAACAGGAT
1 GCTCACAAAGAGCTGCATTTGTGTCCACAACATATACAGGATCACAACAGATCAATAAACAGGAC
54691556 GCTCACAAAGAGCTGC
1 GCTCACAAAGAGCTGC
54691572 GATAGTTGCA
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
64 3 0.05
65 63 0.95
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (65 bp):
GCTCACAAAGAGCTGCATTTGTGTCCACAACATATACAGGATCACAACAGATCAATAAACAGGAC
Found at i:54694273 original size:46 final size:46
Alignment explanation
Indices: 54694223--54694398 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
54694213 TGGTTGAGCA
54694223 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** * *
54694269 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
54694316 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
54694362 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54694399 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54700515 original size:20 final size:19
Alignment explanation
Indices: 54700460--54700516 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
54700450 TGCAACCGGT
*
54700460 ATATACATATAGCAATTTAAA
1 ATATA-ATATA-CAATTAAAA
* *
54700481 ATACAAGTATTCAATTAAAA
1 ATATAA-TATACAATTAAAA
54700501 ATATATATATACAATT
1 ATATA-ATATACAATT
54700517 TAATTACACG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 21 0.72
21 8 0.28
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.35
Consensus pattern (19 bp):
ATATAATATACAATTAAAA
Found at i:54713970 original size:42 final size:43
Alignment explanation
Indices: 54713912--54714027 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
54713902 TAGGGTTACT
* *
54713912 GAGATTACGTGTAAGACCATATTTGGGATATAG-CATCGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATATAGCCATCGATAC
* * * * *
54713954 GAGACTT-TGTGTAAGACCATAGCTAGGCTATTGCCATCGATAC
1 GAGA-TTACGTGTAAGACCATATCTGGGATATAGCCATCGATAC
*
54713997 GAGATTACATGTAAGACCATATCTGGGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATAT
54714028 GACATTTGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (43 bp):
GAGATTACGTGTAAGACCATATCTGGGATATAGCCATCGATAC
Found at i:54714632 original size:26 final size:26
Alignment explanation
Indices: 54714596--54714649 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
54714586 AGGCTTGCAA
54714596 ATTGATAGAGCAAGCAATGTGACTGG
1 ATTGATAGAGCAAGCAATGTGACTGG
54714622 ATTGATAGAGCAAGCAATGTGACTGG
1 ATTGATAGAGCAAGCAATGTGACTGG
54714648 AT
1 AT
54714650 AAGTTATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.24
Consensus pattern (26 bp):
ATTGATAGAGCAAGCAATGTGACTGG
Found at i:54717531 original size:68 final size:68
Alignment explanation
Indices: 54717383--54717540 Score: 178
Period size: 68 Copynumber: 2.3 Consensus size: 68
54717373 CTAGCCAATT
* * *
54717383 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGGATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGGATCACACATGCGACCTAGCTACA
*
54717448 TTTA
65 CTTA
* * *
54717452 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGGATCACACATGCGACCTAGCTA
54717514 CTACTTA
63 C-ACTTA
54717521 GTATCTCGTAGCTCTCTTGT
1 -TATCTCGTAGCTCTCTTGT
54717541 ACACATGATG
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
68 36 0.47
69 8 0.11
70 6 0.08
71 26 0.34
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGGATCACACATGCGACCTAGCTACAC
TTA
Found at i:54718388 original size:25 final size:25
Alignment explanation
Indices: 54718360--54718410 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
54718350 GGGAACATGT
*
54718360 AAGTTTTAGCCAAGCTTAAATGAAG
1 AAGTTTCAGCCAAGCTTAAATGAAG
*
54718385 AAGTTTCGGCCAAGCTTAAATGAAG
1 AAGTTTCAGCCAAGCTTAAATGAAG
54718410 A
1 A
54718411 TGAACACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (25 bp):
AAGTTTCAGCCAAGCTTAAATGAAG
Found at i:54720103 original size:29 final size:27
Alignment explanation
Indices: 54720048--54720103 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
54720038 TACTATAGAT
*
54720048 CATAAAATAATATAAAAATATTTTTTC
1 CATAAAATAATATAAAAATAATTTTTC
54720075 CATAAAATAATATAAAAAAATAATTTTTC
1 CATAAAATAATAT--AAAAATAATTTTTC
54720104 TTTCGAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 13 0.50
29 13 0.50
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (27 bp):
CATAAAATAATATAAAAATAATTTTTC
Found at i:54725309 original size:17 final size:17
Alignment explanation
Indices: 54725287--54725325 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
54725277 TAATAGAGGG
*
54725287 TAAAATGGGAATTTAAT
1 TAAAATGGGAATTTAAA
**
54725304 TAAAATGTTAATTTAAA
1 TAAAATGGGAATTTAAA
54725321 TAAAA
1 TAAAA
54725326 CCAAAAGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (17 bp):
TAAAATGGGAATTTAAA
Found at i:54733841 original size:52 final size:52
Alignment explanation
Indices: 54733748--54733918 Score: 192
Period size: 50 Copynumber: 3.4 Consensus size: 52
54733738 TATCCTAAAT
* *
54733748 ATGGTCTTACAT--GAT-A-ATACATATCGATGCCAATGCCATGTCCCAGGC
1 ATGGTCTTACATGGGATCACATAAATATCGATGCCAATGCCATGTCCCAGAC
* * * *
54733796 ATGGTCTTACATAGGATCACATAAATATCGGTGCCAATGCTATGTCCTAGAC
1 ATGGTCTTACATGGGATCACATAAATATCGATGCCAATGCCATGTCCCAGAC
* * * * * *
54733848 ATAGTCTTACATGGGA-C-CATACATATTGATGCCAATGCCATATCCCAAAT
1 ATGGTCTTACATGGGATCACATAAATATCGATGCCAATGCCATGTCCCAGAC
54733898 ATGGTCTTACATGGGATCACA
1 ATGGTCTTACATGGGATCACA
54733919 CGTACTAACA
Statistics
Matches: 101, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
48 12 0.12
50 43 0.43
51 3 0.03
52 43 0.43
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (52 bp):
ATGGTCTTACATGGGATCACATAAATATCGATGCCAATGCCATGTCCCAGAC
Found at i:54737266 original size:40 final size:40
Alignment explanation
Indices: 54737210--54737421 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
54737200 CATTTGAATG
* *
54737210 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
54737250 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
54737290 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * * *
54737330 TTATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
54737370 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
54737410 ATATCC-GGCTAA
1 ATATCCGGGCTAA
54737422 ATTCCGAAGA
Statistics
Matches: 140, Mismatches: 30, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
39 8 0.06
40 130 0.93
41 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:54737350 original size:80 final size:79
Alignment explanation
Indices: 54737214--54737430 Score: 319
Period size: 80 Copynumber: 2.7 Consensus size: 79
54737204 TGAATGATAT
*
54737214 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCC-GGCTAAGATCCGAAGGCATTTG
* *
54737279 TGCGAGTTGCTATAC
65 TGCGAGTTACTAAAC
54737294 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGG-CTAAGATCCGAAGGCATTTG
*
54737359 TGCGAGTTACTAAAT
65 TGCGAGTTACTAAAC
* * * * *
54737374 CCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCCGGCTAA-ATTCCGAAG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGA-TCCGAAG
54737431 AAACTTGGGT
Statistics
Matches: 126, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
78 1 0.01
79 13 0.10
80 112 0.89
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGATCCGAAGGCATTTGT
GCGAGTTACTAAAC
Found at i:54742749 original size:15 final size:15
Alignment explanation
Indices: 54742720--54742792 Score: 55
Period size: 15 Copynumber: 5.0 Consensus size: 15
54742710 TGTATTTACT
*
54742720 TAATATATAAGTAAAA
1 TAATA-ATAATTAAAA
*
54742736 TAATAATAATTAAAG
1 TAATAATAATTAAAA
* *
54742751 T-ATATTATATTAATA
1 TAATAATA-ATTAAAA
54742766 TAATAAT-A-TAAAA
1 TAATAATAATTAAAA
*
54742779 T-ATAATAAATAAAA
1 TAATAATAATTAAAA
54742793 GACAAGTGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
12 5 0.11
13 6 0.13
14 11 0.24
15 15 0.33
16 9 0.20
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
TAATAATAATTAAAA
Found at i:54742851 original size:19 final size:19
Alignment explanation
Indices: 54742816--54742854 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
54742806 TGATATATGG
*
54742816 ATACATATGTTCTAATAAT
1 ATACATATGTTCAAATAAT
54742835 ATACATATGTAT-AAATAAT
1 ATACATATGT-TCAAATAAT
54742854 A
1 A
54742855 AATAAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (19 bp):
ATACATATGTTCAAATAAT
Found at i:54742941 original size:20 final size:19
Alignment explanation
Indices: 54742908--54742945 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
54742898 TAAAGAAACA
54742908 AAAGAAATAAGAAATGAAAT
1 AAAGAAATAAGAAA-GAAAT
54742928 AAAGAAA-AAGGAAAGAAA
1 AAAGAAATAA-GAAAGAAA
54742946 GAAGGCCACG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (19 bp):
AAAGAAATAAGAAAGAAAT
Found at i:54742946 original size:15 final size:16
Alignment explanation
Indices: 54742908--54742949 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
54742898 TAAAGAAACA
* *
54742908 AAAGAAATAAGAAATG
1 AAAGAAAGAAGAAAGG
*
54742924 AAATAAAGAA-AAAGG
1 AAAGAAAGAAGAAAGG
54742939 AAAGAAAGAAG
1 AAAGAAAGAAG
54742950 GCCACGGTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (16 bp):
AAAGAAAGAAGAAAGG
Found at i:54743593 original size:39 final size:39
Alignment explanation
Indices: 54743539--54743613 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
54743529 GACAATGGGA
* *
54743539 GTTAGCTCGAGAAAATAAGGTTTGTATTTTTATAAACTG
1 GTTAGCTCGAGAAAATAAGGTTTATATTTCTATAAACTG
54743578 GTTAGCTCGAGAAAATAAGGTTTATATTTCTATAAA
1 GTTAGCTCGAGAAAATAAGGTTTATATTTCTATAAA
54743614 TTGAACTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (39 bp):
GTTAGCTCGAGAAAATAAGGTTTATATTTCTATAAACTG
Found at i:54744303 original size:18 final size:18
Alignment explanation
Indices: 54744289--54744332 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
54744279 GGAATAATTA
54744289 ACTGTTATTGAATAAATG
1 ACTGTTATTGAATAAATG
* * *
54744307 ACTGTTACTGCATAACTG
1 ACTGTTATTGAATAAATG
54744325 ACTGTTAT
1 ACTGTTAT
54744333 AGAGTGTCAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (18 bp):
ACTGTTATTGAATAAATG
Found at i:54745660 original size:19 final size:15
Alignment explanation
Indices: 54745620--54745656 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
54745610 TGGGAGTTAG
54745620 TTTCTTTGTGCAAGA
1 TTTCTTTGTGCAAGA
54745635 TTTCTTTGTGCAAGA
1 TTTCTTTGTGCAAGA
54745650 TTTCTTT
1 TTTCTTT
54745657 CTTTTGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.54
Consensus pattern (15 bp):
TTTCTTTGTGCAAGA
Found at i:54746332 original size:24 final size:24
Alignment explanation
Indices: 54746305--54746353 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
54746295 ACTGTCACTG
*
54746305 TCATCATAGTTTGCACTATTACTA
1 TCATCATAGCTTGCACTATTACTA
54746329 TCATCATAGCTTGCACTATTACTA
1 TCATCATAGCTTGCACTATTACTA
54746353 T
1 T
54746354 ATAGACACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (24 bp):
TCATCATAGCTTGCACTATTACTA
Found at i:54747581 original size:11 final size:12
Alignment explanation
Indices: 54747557--54747583 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
54747547 GACTAAAAAT
54747557 AAATTAAATAAA
1 AAATTAAATAAA
54747569 AAATTAAATAAA
1 AAATTAAATAAA
54747581 AAA
1 AAA
54747584 GAGTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAATTAAATAAA
Found at i:54755967 original size:8 final size:8
Alignment explanation
Indices: 54755949--54755985 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
54755939 AAAAATTCAA
54755949 GATTTCGG
1 GATTTCGG
**
54755957 GATTTTTG
1 GATTTCGG
54755965 GATTTCGG
1 GATTTCGG
54755973 GATTTCGG
1 GATTTCGG
54755981 GATTT
1 GATTT
54755986 TTGGGGCCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.14, C:0.08, G:0.32, T:0.46
Consensus pattern (8 bp):
GATTTCGG
Found at i:54771728 original size:15 final size:16
Alignment explanation
Indices: 54771708--54771740 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
54771698 AAAACTTTAC
*
54771708 TTAAAATATTAAA-AA
1 TTAAAATAATAAACAA
54771723 TTAAAATAATAAACAA
1 TTAAAATAATAAACAA
54771739 TT
1 TT
54771741 GTAAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAAATAATAAACAA
Found at i:54776441 original size:39 final size:39
Alignment explanation
Indices: 54776396--54776555 Score: 230
Period size: 39 Copynumber: 4.1 Consensus size: 39
54776386 AATTATATTA
* * *
54776396 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
*
54776435 CCAGCACGAAGCCTACGGGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
* * *
54776474 CCAACACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
* * *
54776513 CTAGCACGAAGCCTGTGAGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
54776552 CCAG
1 CCAG
54776556 TGTCTTGCAT
Statistics
Matches: 106, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 106 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
Found at i:54780211 original size:47 final size:47
Alignment explanation
Indices: 54780150--54780533 Score: 440
Period size: 47 Copynumber: 8.4 Consensus size: 47
54780140 CAGCCAAGAC
54780150 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
54780197 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
54780244 AGTGTATATATGTGATAAGGCCTAATAG--AATGTGA--AA-GTGTATA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-A-A
* * * * *
54780288 TGTGTGATA-A-G-GCCTAATGGCC-GAT-G-TGATG-AATG--TG--AA
1 AGTGT-ATATATGTG-ATAA-GGCCTAATGGCCGATGTGATGAATGTGAA
*
54780327 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
54780374 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
54780421 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
54780468 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
54780515 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
54780534 TCCCGAAGGG
Statistics
Matches: 288, Mismatches: 29, Indels: 40
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.01
39 9 0.03
40 7 0.02
41 2 0.01
42 10 0.03
43 16 0.06
44 10 0.03
45 11 0.04
47 220 0.76
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:54780255 original size:94 final size:94
Alignment explanation
Indices: 54780150--54780533 Score: 574
Period size: 94 Copynumber: 4.2 Consensus size: 94
54780140 CAGCCAAGAC
*
54780150 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
54780215 GGCCTAATGGCCGATGTGATGAATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
*
54780244 AGTGTATATATGTGATAAGGCCT-A------A--T-A-GAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
54780298 GGCCTAATGGCCGATGTGATGAATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
*
54780327 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
54780392 GGCCTAATAGCCGATGTGATGAATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
* *
54780421 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * *
54780486 GGCCGAGTGGCCAACGTGATGGATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
* *
54780515 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
54780534 TCCCGAAGGG
Statistics
Matches: 265, Mismatches: 14, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
83 78 0.29
84 2 0.01
85 1 0.00
87 1 0.00
90 1 0.00
92 1 0.00
93 2 0.01
94 179 0.68
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:54780282 original size:36 final size:36
Alignment explanation
Indices: 54780235--54780305 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
54780225 CCGATGTGAT
54780235 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
*
54780271 GAATGTGAAAGTGTATATGTGTGATAAGGCCTAAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
54780306 GGCCGATGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.31
Consensus pattern (36 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
Found at i:54780383 original size:130 final size:135
Alignment explanation
Indices: 54780150--54780533 Score: 580
Period size: 130 Copynumber: 2.8 Consensus size: 135
54780140 CAGCCAAGAC
54780150 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
54780215 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC-TA-A-T-A-GAAT
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCATACAGTGATGAAT
54780275 GTGAA
131 GTGAA
*
54780280 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
54780345 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC--ATA--C-A-GTG
54780410 ATGAATGTGAA
125 ATGAATGTGAA
* * *
54780421 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
* * * * * * *
54780486 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
54780534 TCCCGAAGGG
Statistics
Matches: 231, Mismatches: 12, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
130 115 0.50
133 2 0.01
137 1 0.00
139 1 0.00
140 1 0.00
141 111 0.48
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (135 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCATACAGTGATGAAT
GTGAA
Found at i:54780710 original size:37 final size:37
Alignment explanation
Indices: 54780654--54780732 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
54780644 CCGAGCTCTA
* *
54780654 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
54780691 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
54780728 AAGAC
1 AAGAC
54780733 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:54782652 original size:43 final size:43
Alignment explanation
Indices: 54782604--54782706 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
54782594 TTGGTTTTCA
54782604 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
54782647 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
54782690 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
54782707 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:54782723 original size:29 final size:29
Alignment explanation
Indices: 54782688--54782761 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
54782678 GTTGTGAGAT
* *
54782688 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
54782717 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
54782746 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54782762 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:54783214 original size:79 final size:79
Alignment explanation
Indices: 54783072--54783424 Score: 360
Period size: 79 Copynumber: 4.5 Consensus size: 79
54783062 TCGAATGATG
** *
54783072 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATATCCGG-CTAAG-TCCCGAAGAGC
** * *
54783133 ATTGGTGCGAGTTACT-AA
62 ATTCATGCGAGTGA-TGTA
* * *
54783151 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCCGGCTAAGTCCCGAAGAGCATTC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGCTAAGTCCCGAAGAGCATTC
*
54783216 ATGCTAGTGATGTA
66 ATGCGAGTGATGTA
* *
54783230 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCC-GGCTAAGTCCCGAAGAGCATT
*
54783295 CATGCTAGTGATGTA
65 CATGCGAGTGATGTA
* * * *
54783310 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAA-ACCCCAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCG-GCTAAGTCCCGAAGAGCATT
* * *
54783374 CGTGCTG-GTGTTATA
65 CATGC-GAGTGATGTA
* * * *
54783389 TCCGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
54783425 CGTGTATTCG
Statistics
Matches: 236, Mismatches: 30, Indels: 16
0.84 0.11 0.06
Matches are distributed among these distances:
77 1 0.00
78 12 0.05
79 129 0.55
80 88 0.37
81 6 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGCTAAGTCCCGAAGAGCATTC
ATGCGAGTGATGTA
Found at i:54783249 original size:40 final size:40
Alignment explanation
Indices: 54783072--54783424 Score: 378
Period size: 40 Copynumber: 8.9 Consensus size: 40
54783062 TCGAATGATG
** *
54783072 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * *
54783112 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
* * *
54783151 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
54783191 TCC-GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
54783230 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
54783270 TCCGGGCTAAGTCCCGAGGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
54783310 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * * * *
54783350 TCCGTGCTAA-ACCCCAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
54783389 TCCGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
54783425 CGTGTATTCG
Statistics
Matches: 268, Mismatches: 38, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.00
39 87 0.32
40 173 0.65
41 7 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:54783292 original size:119 final size:119
Alignment explanation
Indices: 54783152--54783419 Score: 385
Period size: 119 Copynumber: 2.3 Consensus size: 119
54783142 AGTTACTAAA
54783152 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCC-GGCTAAGTCCCGAAGAGCATTC
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCCGGGCTAAGTCCCGAAGAGCATTC
* ** *
54783216 ATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATAT
66 ATGCTAGTGATATATCCGGGCTAA-ACCCCAAGAGCATTCATGCTAGTGATATAT
* * *
54783271 CCGGGCTAAGTCCCGAGGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTC
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCCGGGCTAAGTCCCGAAGAGCATTC
* * * * *
54783336 GTGCTAGTGATATATCCGTGCTAAACCCCAAGAGCATTCGTGCTGGTGTTATAT
66 ATGCTAGTGATATATCCGGGCTAAACCCCAAGAGCATTCATGCTAGTGATATAT
* * *
54783390 CCGGGCTAGGTCCCGAAGAGTAATCATGCT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCT
54783420 GGTGACGTGT
Statistics
Matches: 132, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
119 90 0.68
120 42 0.32
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCCGGGCTAAGTCCCGAAGAGCATTC
ATGCTAGTGATATATCCGGGCTAAACCCCAAGAGCATTCATGCTAGTGATATAT
Found at i:54783312 original size:80 final size:80
Alignment explanation
Indices: 54783152--54783424 Score: 379
Period size: 79 Copynumber: 3.4 Consensus size: 80
54783142 AGTTACTAAA
* *
54783152 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCC-GGCTAAGTCCCGAAGAGCATTC
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTC
54783216 ATGCTAGTGATGTAT
66 ATGCTAGTGATGTAT
* *
54783231 CCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTC
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTC
54783296 ATGCTAGTGATGTAT
66 ATGCTAGTGATGTAT
* * * * *
54783311 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAA-ACCCCAAGAGCATTC
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTC
* * * *
54783375 GTGCTGGTGTTATAT
66 ATGCTAGTGATGTAT
* * * *
54783390 CCGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
54783425 CGTGTATTCG
Statistics
Matches: 174, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
79 91 0.52
80 83 0.48
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTC
ATGCTAGTGATGTAT
Found at i:54787014 original size:47 final size:47
Alignment explanation
Indices: 54786953--54787334 Score: 422
Period size: 47 Copynumber: 8.4 Consensus size: 47
54786943 CAGCCAAGAC
54786953 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
54787000 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
54787047 AGTGTATATATGTGATAAGGCCTAATAG--AATGTGA--AA-GTGTATA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-A-A
* * * * *
54787091 TGTGTGATA-A-G-GCCTAATGGCC-GAT-G-TGATG-AATG--TG--AA
1 AGTGT-ATATATGTG-ATAA-GGCCTAATGGCCGATGTGATGAATGTGAA
*
54787130 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
54787177 AGTGTATATATGTGATAAGGCCTAAT-GTCGATGTGATGAATGTG-A
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
54787222 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
54787269 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
54787316 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
54787335 TCCCGAAGGG
Statistics
Matches: 284, Mismatches: 29, Indels: 44
0.80 0.08 0.12
Matches are distributed among these distances:
38 3 0.01
39 9 0.03
40 7 0.02
41 2 0.01
42 10 0.04
43 16 0.06
44 10 0.04
45 38 0.13
46 34 0.12
47 155 0.55
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:54787085 original size:36 final size:36
Alignment explanation
Indices: 54787038--54787108 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
54787028 CCGATGTGAT
54787038 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
*
54787074 GAATGTGAAAGTGTATATGTGTGATAAGGCCTAAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
54787109 GGCCGATGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.31
Consensus pattern (36 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
Found at i:54787130 original size:83 final size:85
Alignment explanation
Indices: 54786987--54787334 Score: 389
Period size: 83 Copynumber: 3.9 Consensus size: 85
54786977 ATGGCCGATG
54786987 TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
54787052 ATATATGTGATAAGGCCTAA
66 ATATATGTGATAAGGCCTAA
54787072 T-A-GAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
54787135 ATATGTGTGATAAGGCCTAATGGCCGA
66 ATATATGTGATAAGGCCT-A------A
* *
54787162 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GTCGATGTGATGAATGTG-AAGT
1 --TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
54787225 GTATATATGTGATAAGGCCTAATGGCCGA
64 GTATATATGTGATAAGGCCT-A------A
* * * * * * * *
54787254 TGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGT
1 --TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* *
54787319 GCATAAATGTGATAAG
64 GTATATATGTGATAAG
54787335 TCCCGAAGGG
Statistics
Matches: 236, Mismatches: 14, Indels: 17
0.88 0.05 0.06
Matches are distributed among these distances:
83 78 0.33
84 2 0.01
85 1 0.00
90 1 0.00
92 70 0.30
93 32 0.14
94 52 0.22
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (85 bp):
TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCTAA
Found at i:54787186 original size:130 final size:134
Alignment explanation
Indices: 54786953--54787334 Score: 576
Period size: 130 Copynumber: 2.8 Consensus size: 134
54786943 CAGCCAAGAC
54786953 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
54787018 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT-A-A-T-A-GAAT
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAGAGTGATGAAT
54787078 GTGAA
131 GTG-A
*
54787083 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
54787148 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGTCGATGTGA
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA----GA-GTGA
54787213 TGAATGTGA
126 TGAATGTGA
* * *
54787222 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
* * * * * * *
54787287 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
54787335 TCCCGAAGGG
Statistics
Matches: 230, Mismatches: 12, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
130 116 0.50
131 1 0.00
136 1 0.00
138 1 0.00
139 104 0.45
140 7 0.03
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (134 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAGAGTGATGAAT
GTGA
Found at i:54787236 original size:139 final size:140
Alignment explanation
Indices: 54787074--54787334 Score: 416
Period size: 139 Copynumber: 1.9 Consensus size: 140
54787064 AGGCCTAATA
*
54787074 GAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * *
54787139 GTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
66 ATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATAAATGTGATAAGGCCTAATG
54787204 TCGATGTGAT
131 TCGATGTGAT
54787214 GAATGTG-AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
54787278 ATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 ATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATAAATGTGATAAG
54787335 TCCCGAAGGG
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
139 103 0.94
140 7 0.06
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (140 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATAAATGTGATAAGGCCTAATG
TCGATGTGAT
Found at i:54787264 original size:92 final size:94
Alignment explanation
Indices: 54787074--54787334 Score: 400
Period size: 92 Copynumber: 2.8 Consensus size: 94
54787064 AGGCCTAATA
*
54787074 GAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
54787139 GTGTGATAAGGCCTAATGGCCGATGTGAT
66 ATGTGATAAGGCCTAATGGCCGATGTGAT
*
54787168 GAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GTCGATGTGATGAATGTG-AAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
54787231 ATGTGATAAGGCCTAATGGCCGATGTGAT
66 ATGTGATAAGGCCTAATGGCCGATGTGAT
* * * * * * * * *
54787260 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAA
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
54787325 ATGTGATAAG
66 ATGTGATAAG
54787335 TCCCGAAGGG
Statistics
Matches: 152, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
92 69 0.45
93 31 0.20
94 52 0.34
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (94 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:54787509 original size:37 final size:37
Alignment explanation
Indices: 54787453--54787531 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
54787443 CCGAGCTCTA
* *
54787453 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
54787490 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
54787527 AAGAC
1 AAGAC
54787532 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:54791255 original size:30 final size:30
Alignment explanation
Indices: 54791207--54791282 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
54791197 TGGTTGACAC
* *
54791207 ATCCC-TTTCAATAATTCGATAACTGAAGTT
1 ATCCCTTTTC-ATAATTCGACAACCGAAGTT
* * *
54791237 TTCCCTTTTCATAGTTCGACAGCCGAAGTT
1 ATCCCTTTTCATAATTCGACAACCGAAGTT
54791267 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
54791283 TGATGGTCGT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 34 0.89
31 4 0.11
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGACAACCGAAGTT
Found at i:54791411 original size:29 final size:30
Alignment explanation
Indices: 54791267--54791428 Score: 134
Period size: 30 Copynumber: 5.4 Consensus size: 30
54791257 AGCCGAAGTT
* *
54791267 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
* * * * * * *
54791297 ATCTCTTTTCATAATTTGATAGCCG-AAGCT
1 ATCCCTTTTCATAGTTCGATGGTCGTCA-CC
* * * *
54791327 ATCCCCTTTCATAGATCGATAG-C-TGAAGCC
1 ATCCCTTTTCATAGTTCGATGGTCGT-CA-CC
54791357 ATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
* *
54791387 ATTCCTTTTCATTGTT-GATGGTCGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
54791416 ATCCCTTTTCATA
1 ATCCCTTTTCATA
54791429 ATCGATAGCC
Statistics
Matches: 108, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
29 26 0.24
30 79 0.73
31 2 0.02
32 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATGGTCGTCACC
Found at i:54791448 original size:29 final size:30
Alignment explanation
Indices: 54791416--54791486 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
54791406 GGTCGTCACC
54791416 ATCCCTTTTCAT-AATCGATAGCCAAAGCT
1 ATCCCTTTTCATGAATCGATAGCCAAAGCT
* *
54791445 ATCCCTTTTCATGGATCGATAGCCGAAGCT
1 ATCCCTTTTCATGAATCGATAGCCAAAGCT
54791475 ATCCCTTTTCAT
1 ATCCCTTTTCAT
54791487 TTGTCGATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 12 0.31
30 27 0.69
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (30 bp):
ATCCCTTTTCATGAATCGATAGCCAAAGCT
Found at i:54791892 original size:11 final size:11
Alignment explanation
Indices: 54791878--54791917 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
54791868 TATTTTCTCC
54791878 CTATTTTGCTA
1 CTATTTTGCTA
*
54791889 CTATTTTACTA
1 CTATTTTGCTA
* *
54791900 TTATGTTGCTA
1 CTATTTTGCTA
54791911 CTATTTT
1 CTATTTT
54791918 ATTGTTATTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:54791989 original size:30 final size:30
Alignment explanation
Indices: 54791955--54792017 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
54791945 ACTTATTTTA
54791955 TTGTTAACTTTGTTATTATTTTAAAGACAT
1 TTGTTAACTTTGTTATTATTTTAAAGACAT
* * *
54791985 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAACTTTGTTATTATTTTAAAGACAT
54792015 TTG
1 TTG
54792018 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAACTTTGTTATTATTTTAAAGACAT
Found at i:54793435 original size:10 final size:10
Alignment explanation
Indices: 54793377--54793538 Score: 72
Period size: 9 Copynumber: 17.6 Consensus size: 10
54793367 CTTACTAGTC
54793377 ATTTTTAAT-
1 ATTTTTAATA
* *
54793386 ATTTCTGATA
1 ATTTTTAATA
54793396 ATTTCTTAAATA
1 ATTT-TT-AATA
54793408 A-TTTT-AT-
1 ATTTTTAATA
*
54793415 -TTTTTTA-A
1 ATTTTTAATA
54793423 ATTTTTAATA
1 ATTTTTAATA
54793433 A-TTTTAATA
1 ATTTTTAATA
**
54793442 ATTTTTTGTA
1 ATTTTTAATA
54793452 ATTTTT-ATA
1 ATTTTTAATA
54793461 ATTTTT--T-
1 ATTTTTAATA
54793468 ATTATTTAA-A
1 ATT-TTTAATA
*
54793478 A-ATTT-AT-
1 ATTTTTAATA
54793485 ATTTTT-ATA
1 ATTTTTAATA
*
54793494 ATTTTGAAT-
1 ATTTTTAATA
54793503 ATTTTT-ATA
1 ATTTTTAATA
* **
54793512 TTTTTTTGTA
1 ATTTTTAATA
54793522 CATTTTTAATA
1 -ATTTTTAATA
54793533 ATTTTT
1 ATTTTT
54793539 TTGTCTGGCC
Statistics
Matches: 116, Mismatches: 17, Indels: 39
0.67 0.10 0.23
Matches are distributed among these distances:
7 9 0.08
8 17 0.15
9 45 0.39
10 31 0.27
11 10 0.09
12 4 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:54793466 original size:9 final size:9
Alignment explanation
Indices: 54793416--54793538 Score: 78
Period size: 10 Copynumber: 13.6 Consensus size: 9
54793406 TAATTTTATT
54793416 TTTTTA-AA
1 TTTTTATAA
54793424 TTTTTAATAA
1 TTTTT-ATAA
*
54793434 TTTTAATAA
1 TTTTTATAA
*
54793443 TTTTTTGTAA
1 -TTTTTATAA
54793453 TTTTTATAA
1 TTTTTATAA
54793462 TTTTT-T-A
1 TTTTTATAA
54793469 TTATTTA-AA
1 TT-TTTATAA
**
54793478 AATTTAT-A
1 TTTTTATAA
54793486 TTTTTATAA
1 TTTTTATAA
*
54793495 TTTTGA-ATA
1 TTTTTATA-A
*
54793504 TTTTTATATT
1 TTTTTATA-A
*
54793514 TTTTTGTACA
1 TTTTTATA-A
54793524 TTTTTAATAA
1 TTTTT-ATAA
54793534 TTTTT
1 TTTTT
54793539 TTGTCTGGCC
Statistics
Matches: 89, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
7 3 0.03
8 20 0.22
9 31 0.35
10 33 0.37
11 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:54793497 original size:71 final size:73
Alignment explanation
Indices: 54793401--54793539 Score: 196
Period size: 72 Copynumber: 1.9 Consensus size: 73
54793391 TGATAATTTC
* *
54793401 TTAAATAATTTTATTTTTTTAAATTTTTAATAATTTTAATAATTTTTTGTA-ATTTTT-ATAATT
1 TTAAATAATTTTATTTTTATAAATTTTGAAT-ATTTTAATAATTTTTTGTACATTTTTAATAATT
54793464 TTTTATTAT
65 TTTTATTAT
* *
54793473 TTAAA-AATTTATATTTTTAT-AATTTTGAATATTTTTATATTTTTTTGTACATTTTTAATAATT
1 TTAAATAATTT-TATTTTTATAAATTTTGAATATTTTAATAATTTTTTGTACATTTTTAATAATT
54793536 TTTT
65 TTTT
54793540 TGTCTGGCCA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
70 17 0.28
71 20 0.33
72 23 0.38
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (73 bp):
TTAAATAATTTTATTTTTATAAATTTTGAATATTTTAATAATTTTTTGTACATTTTTAATAATTT
TTTATTAT
Found at i:54793539 original size:22 final size:20
Alignment explanation
Indices: 54793503--54793542 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
54793493 AATTTTGAAT
54793503 ATTTTTATATTTTTTTGTAC
1 ATTTTTATATTTTTTTGTAC
54793523 ATTTTTAATAATTTTTTTGT
1 ATTTTT-AT-ATTTTTTTGT
54793543 CTGGCCAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (20 bp):
ATTTTTATATTTTTTTGTAC
Found at i:54793810 original size:13 final size:13
Alignment explanation
Indices: 54793794--54793818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54793784 TTAACATTTA
54793794 TTTTTGAAAAGTG
1 TTTTTGAAAAGTG
54793807 TTTTTGAAAAGT
1 TTTTTGAAAAGT
54793819 TCAGTGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TTTTTGAAAAGTG
Found at i:54796896 original size:30 final size:30
Alignment explanation
Indices: 54796862--54796922 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
54796852 TCCTTAATTC
54796862 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
54796892 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
54796922 A
1 A
54796923 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:54798052 original size:19 final size:18
Alignment explanation
Indices: 54798010--54798054 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
54798000 GATGAATTGG
*
54798010 TTTTCTATATTTTTAACA
1 TTTTTTATATTTTTAACA
*
54798028 TCTTTTTATATTTTTATATA
1 T-TTTTTATATTTTTA-ACA
54798048 TTTTTTA
1 TTTTTTA
54798055 ATAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 19 0.83
20 3 0.13
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTATATTTTTAACA
Found at i:54799279 original size:24 final size:23
Alignment explanation
Indices: 54799251--54799380 Score: 100
Period size: 24 Copynumber: 5.3 Consensus size: 23
54799241 TAAAGAAATG
54799251 AAATAAATAATATAAAATAATTTA
1 AAATAAATAATATAAAA-AATTTA
* *
54799275 AAATAAATAATACATAAAATTTTA
1 AAATAAATAATATA-AAAAATTTA
* *
54799299 AAGTAAATGATGTATAAAAAATTTTA
1 AAATAAAT-A-ATATAAAAAA-TTTA
*
54799325 AAATGAACATTATATAAAAAA-TTA
1 AAAT-AA-ATAATATAAAAAATTTA
** *
54799349 AAATGGATAATAAATAAAAATTTAA
1 AAATAAATAATATA-AAAAATTT-A
54799374 AAATAAA
1 AAATAAA
54799381 CAGTATATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
22 6 0.07
23 5 0.06
24 34 0.41
25 14 0.17
26 19 0.23
27 2 0.02
28 2 0.02
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (23 bp):
AAATAAATAATATAAAAAATTTA
Found at i:54799340 original size:26 final size:26
Alignment explanation
Indices: 54799260--54799397 Score: 81
Period size: 24 Copynumber: 5.5 Consensus size: 26
54799250 GAAATAAATA
* *
54799260 ATATAAAATAA-TTTAAAATAAATAAT
1 ATATAAAA-AATTTTAAAATGAACAAT
* * * **
54799286 ACAT--AAAATTTTAAAGTAAATGAT
1 ATATAAAAAATTTTAAAATGAACAAT
* *
54799310 GTATAAAAAATTTTAAAATGAACATT
1 ATATAAAAAATTTTAAAATGAACAAT
* *
54799336 ATATAAAAAA--TTAAAATGGATAAT
1 ATATAAAAAATTTTAAAATGAACAAT
* * * *
54799360 AAAT-AAAAATTTAAAAATAAACAGT
1 ATATAAAAAATTTTAAAATGAACAAT
54799385 ATATATAAAAATT
1 ATATA-AAAAATT
54799398 CAATATAGAC
Statistics
Matches: 84, Mismatches: 21, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
23 7 0.08
24 31 0.37
25 12 0.14
26 27 0.32
27 7 0.08
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (26 bp):
ATATAAAAAATTTTAAAATGAACAAT
Found at i:54799418 original size:51 final size:49
Alignment explanation
Indices: 54799315--54799411 Score: 122
Period size: 49 Copynumber: 1.9 Consensus size: 49
54799305 ATGATGTATA
* * * * *
54799315 AAAAATTTTAAAATGAACATTATATAAAAAATTAAAATGGATAATAAAT
1 AAAAATTTAAAAATAAACAGTATATAAAAAATTAAAATAGACAATAAAT
*
54799364 AAAAATTTAAAAATAAACAGTATATATAAAAATTCAATATAGACAATA
1 AAAAATTTAAAAATAAACAGTATATA-AAAAATT-AAAATAGACAATA
54799412 TGTAAAAGAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
49 23 0.57
50 7 0.17
51 10 0.25
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (49 bp):
AAAAATTTAAAAATAAACAGTATATAAAAAATTAAAATAGACAATAAAT
Found at i:54800829 original size:22 final size:21
Alignment explanation
Indices: 54800787--54800829 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
54800777 TAGTTCATAC
* * *
54800787 AAAATTAAAAGTGAAACTAAA
1 AAAATTAAAAATAAAAATAAA
54800808 AAAAGTTAAAAATAAAAATAAA
1 AAAA-TTAAAAATAAAAATAAA
54800830 CTCTTGTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (21 bp):
AAAATTAAAAATAAAAATAAA
Found at i:54803053 original size:40 final size:39
Alignment explanation
Indices: 54802961--54803053 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 39
54802951 TATAGAGTAT
* * *
54802961 TAGCGGCGTTTTCGAAAAAACGCAGTTAAATGTCGACCTA
1 TAGCGGCGTTTT-TAAAAAACGCAGCTAAAGGTCGACCTA
* * *
54803001 TAGCGGCGTTTTTAAAAAAGCGCCGCTAAAGGTCTACTTA
1 TAGCGGCGTTTTTAAAAAA-CGCAGCTAAAGGTCGACCTA
54803041 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
54803054 TTCGAAATCC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 6 0.13
40 40 0.87
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (39 bp):
TAGCGGCGTTTTTAAAAAACGCAGCTAAAGGTCGACCTA
Found at i:54803869 original size:16 final size:16
Alignment explanation
Indices: 54803835--54803878 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
54803825 ATGATTTTCT
*
54803835 CTAAACCC-TAACGCA
1 CTAAACCCTTAAAGCA
*
54803850 CTAAACCCTTAAATCA
1 CTAAACCCTTAAAGCA
*
54803866 CTAAACCTTTAAA
1 CTAAACCCTTAAA
54803879 CCCGTAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (16 bp):
CTAAACCCTTAAAGCA
Found at i:54804021 original size:22 final size:22
Alignment explanation
Indices: 54803984--54804037 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
54803974 CTTAAATCTC
54803984 AAAC-CTTAAACTATAAACCCT
1 AAACTCTTAAACTATAAACCCT
54804005 AAACTCTTAAA-TCATAAACCCT
1 AAACTCTTAAACT-ATAAACCCT
*
54804027 AAAATCTTAAA
1 AAACTCTTAAA
54804038 AATAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (22 bp):
AAACTCTTAAACTATAAACCCT
Found at i:54804539 original size:42 final size:42
Alignment explanation
Indices: 54804493--54804621 Score: 186
Period size: 42 Copynumber: 3.1 Consensus size: 42
54804483 TCAAGGTTTA
* * * * * *
54804493 GGGTATTGGGTTCAGAATTTAGTTTATAAGGTTTAGAGTATT
1 GGGTATTAGGTTTAGGATTTAGTCTATAGGGTTTAGGGTATT
54804535 GGGTATTAGGTTTAGGATTTAGTCTATAGGGTTTAGGGTATT
1 GGGTATTAGGTTTAGGATTTAGTCTATAGGGTTTAGGGTATT
* *
54804577 GGGTATTTGGTTTAGGGTTTAGTCTATAGGGTTTAGGGTATT
1 GGGTATTAGGTTTAGGATTTAGTCTATAGGGTTTAGGGTATT
54804619 GGG
1 GGG
54804622 GCTTAGTCTA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.21, C:0.02, G:0.34, T:0.43
Consensus pattern (42 bp):
GGGTATTAGGTTTAGGATTTAGTCTATAGGGTTTAGGGTATT
Found at i:54804569 original size:14 final size:14
Alignment explanation
Indices: 54804547--54804612 Score: 55
Period size: 14 Copynumber: 4.7 Consensus size: 14
54804537 GTATTAGGTT
*
54804547 TAGGATTTAGTCTA
1 TAGGGTTTAGTCTA
**
54804561 TAGGGTTTAGGGTA
1 TAGGGTTTAGTCTA
* *
54804575 TTGGGTATTTGGT-T-
1 TAGGG--TTTAGTCTA
54804589 TAGGGTTTAGTCTA
1 TAGGGTTTAGTCTA
54804603 TAGGGTTTAG
1 TAGGGTTTAG
54804613 GGTATTGGGG
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
12 5 0.12
13 1 0.03
14 29 0.73
15 1 0.03
16 4 0.10
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.44
Consensus pattern (14 bp):
TAGGGTTTAGTCTA
Found at i:54804593 original size:21 final size:21
Alignment explanation
Indices: 54804517--54804621 Score: 81
Period size: 21 Copynumber: 5.0 Consensus size: 21
54804507 GAATTTAGTT
* *
54804517 TATAAGGTTTAGAGTATTGGG
1 TATAGGGTTTAGGGTATTGGG
* **
54804538 TATTA-GGTTTAGGAT-TTAGTC
1 TA-TAGGGTTTAGGGTATT-GGG
54804559 TATAGGGTTTAGGGTATTGGG
1 TATAGGGTTTAGGGTATTGGG
** **
54804580 TATTTGGTTTAGGGT-TTAGTC
1 TATAGGGTTTAGGGTATT-GGG
54804601 TATAGGGTTTAGGGTATTGGG
1 TATAGGGTTTAGGGTATTGGG
54804622 GCTTAGTCTA
Statistics
Matches: 63, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
20 6 0.10
21 51 0.81
22 6 0.10
ACGTcount: A:0.21, C:0.02, G:0.34, T:0.43
Consensus pattern (21 bp):
TATAGGGTTTAGGGTATTGGG
Found at i:54805063 original size:84 final size:84
Alignment explanation
Indices: 54804965--54805165 Score: 303
Period size: 84 Copynumber: 2.4 Consensus size: 84
54804955 GGTAGTGGAT
* * *
54804965 TTAGTGGTGCTATCTTATAAACGCCACTAAAAATATGTGAAACCGAATGAAAACTACGTCATTTT
1 TTAGTGGTGCTATCTTATAAACGCCACTAAAAATATGAGAAACCAAATGAAAACTACGCCATTTT
54805030 ATGTGGCGCGGTTTAGGAA
66 ATGTGGCGCGGTTTAGGAA
* * *
54805049 TTAGTGGTGCTATCTTATAAACGCCACTAAAAATATGAGAAACCAAATGAAAGCTATGCCGTTTT
1 TTAGTGGTGCTATCTTATAAACGCCACTAAAAATATGAGAAACCAAATGAAAACTACGCCATTTT
* *
54805114 ATTTTGCGCGGTTTAGGAA
66 ATGTGGCGCGGTTTAGGAA
* * *
54805133 TTAGTGGCGCTATCTTAGAAACGCCACAAAAAA
1 TTAGTGGTGCTATCTTATAAACGCCACTAAAAA
54805166 ACTGAATTAC
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 106 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (84 bp):
TTAGTGGTGCTATCTTATAAACGCCACTAAAAATATGAGAAACCAAATGAAAACTACGCCATTTT
ATGTGGCGCGGTTTAGGAA
Found at i:54805547 original size:16 final size:16
Alignment explanation
Indices: 54805522--54805554 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
54805512 GGAACGTAGA
54805522 TTTCTATTGTTAATGC
1 TTTCTATTGTTAATGC
*
54805538 TTTCTGTTGTTAATGC
1 TTTCTATTGTTAATGC
54805554 T
1 T
54805555 CAGCACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (16 bp):
TTTCTATTGTTAATGC
Found at i:54808439 original size:13 final size:13
Alignment explanation
Indices: 54808421--54808450 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
54808411 CTACATAATA
54808421 CATAAATATATAT
1 CATAAATATATAT
54808434 CATAAATATATAT
1 CATAAATATATAT
54808447 CATA
1 CATA
54808451 TCATAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:54808510 original size:9 final size:9
Alignment explanation
Indices: 54808452--54808533 Score: 67
Period size: 9 Copynumber: 9.1 Consensus size: 9
54808442 TATATCATAT
*
54808452 CATAAGTTA
1 CATAACTTA
*
54808461 CATAAGTTA
1 CATAACTTA
*
54808470 CATACCTTA
1 CATAACTTA
*
54808479 CATAAATGTA
1 CATAACT-TA
* * *
54808489 TATCA-TAA
1 CATAACTTA
54808497 CATAACTTA
1 CATAACTTA
54808506 CATAACTTA
1 CATAACTTA
*
54808515 CAAAACTTA
1 CATAACTTA
*
54808524 CTTAACTTA
1 CATAACTTA
54808533 C
1 C
54808534 GTAATACATA
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
8 4 0.07
9 49 0.84
10 5 0.09
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:54808524 original size:45 final size:45
Alignment explanation
Indices: 54808434--54808524 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
54808424 AAATATATAT
* * * * *
54808434 CATAAATATATATCATATCATAAGTTACATAAGTTACATACCTTA
1 CATAAATATATATCATAACATAACTTACATAACTTACAAAACTTA
*
54808479 CATAAATGTATATCATAACATAACTTACATAACTTACAAAACTTA
1 CATAAATATATATCATAACATAACTTACATAACTTACAAAACTTA
54808524 C
1 C
54808525 TTAACTTACG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (45 bp):
CATAAATATATATCATAACATAACTTACATAACTTACAAAACTTA
Found at i:54813518 original size:13 final size:14
Alignment explanation
Indices: 54813502--54813530 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
54813492 TTATAAACAT
54813502 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
54813515 TTATAATGGTTTAA
1 TTATAATGGTTTAA
54813529 TT
1 TT
54813531 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:54813974 original size:21 final size:21
Alignment explanation
Indices: 54813939--54813993 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
54813929 ACTTAGAGTG
*
54813939 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
* *
54813960 GCGGTAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
54813981 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
54813994 TGGAAACAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.18, G:0.51, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Done.