Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold1267
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1050379
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.28
Warning! 150710 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:438819 original size:10 final size:10
Alignment explanation
Indices: 438793--438872 Score: 81
Period size: 8 Copynumber: 9.0 Consensus size: 10
438783 AGATATTTGC
438793 CAAAA-AAAA
1 CAAAACAAAA
*
438802 -AAACCAAAA
1 CAAAACAAAA
438811 CAAAACAAAA
1 CAAAACAAAA
438821 CAAAACAAAA
1 CAAAACAAAA
438831 CAAAAC-AAA
1 CAAAACAAAA
438840 C-AAACAAAA
1 CAAAACAAAA
438849 -AAAA-AAAA
1 CAAAACAAAA
438857 -AAAA-AAAA
1 CAAAACAAAA
438865 -AAAA-AAAA
1 CAAAACAAAA
438873 AAGGGTTTAA
Statistics
Matches: 65, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
8 27 0.42
9 14 0.22
10 24 0.37
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAACAAAA
Found at i:438885 original size:1 final size:1
Alignment explanation
Indices: 438794--438874 Score: 72
Period size: 1 Copynumber: 81.0 Consensus size: 1
438784 GATATTTGCC
** * * * * * * * *
438794 AAAAAAAAAAACCAAAACAAAACAAAACAAAACAAAACAAAACAAACAAACAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
438859 AAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAA
438875 GGGTTTAAAA
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:438897 original size:1 final size:1
Alignment explanation
Indices: 438893--438926 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
438883 AAATTTGGGG
438893 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
438927 CGTGTATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:447984 original size:24 final size:23
Alignment explanation
Indices: 447954--448029 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 23
447944 AAAACATAAA
*
447954 ACATTACATTGTGCATTATATTAT
1 ACATTACATTG-GCATTACATTAT
* *
447978 AGATTACAGTAGGCATTACATTAT
1 ACATTACA-TTGGCATTACATTAT
* * **
448002 ACATTTCATTATGTGTTACATTAT
1 ACATTACATT-GGCATTACATTAT
448026 ACAT
1 ACAT
448030 CTCATCATGA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
23 1 0.02
24 38 0.93
25 2 0.05
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (23 bp):
ACATTACATTGGCATTACATTAT
Found at i:448006 original size:12 final size:12
Alignment explanation
Indices: 447954--448029 Score: 53
Period size: 12 Copynumber: 6.3 Consensus size: 12
447944 AAAACATAAA
*
447954 ACATTACATTGT
1 ACATTACATTAT
* *
447966 GCATTATATTAT
1 ACATTACATTAT
* * *
447978 AGATTACAGTAG
1 ACATTACATTAT
*
447990 GCATTACATTAT
1 ACATTACATTAT
*
448002 ACATTTCATTAT
1 ACATTACATTAT
***
448014 GTGTTACATTAT
1 ACATTACATTAT
448026 ACAT
1 ACAT
448030 CTCATCATGA
Statistics
Matches: 43, Mismatches: 21, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (12 bp):
ACATTACATTAT
Found at i:448714 original size:11 final size:11
Alignment explanation
Indices: 448698--448734 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
448688 ATATTGTGTA
448698 TTTTCAATTAC
1 TTTTCAATTAC
448709 TTTTCAATTAC
1 TTTTCAATTAC
* *
448720 ATCTCAATTAC
1 TTTTCAATTAC
448731 TTTT
1 TTTT
448735 TTCCAAGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTCAATTAC
Found at i:449329 original size:32 final size:32
Alignment explanation
Indices: 449272--449338 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
449262 AAATAAAACT
*
449272 AAAGTAATTGAAATGTAATTAATTACATTTATC
1 AAAGTAATTGAAATGAAATTAATTACATTT-TC
*
449305 AAAGTAATTGAGA-GAAATTAATTACATTTTC
1 AAAGTAATTGAAATGAAATTAATTACATTTTC
449336 AAA
1 AAA
449339 AATCAATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 5 0.16
32 15 0.47
33 12 0.38
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (32 bp):
AAAGTAATTGAAATGAAATTAATTACATTTTC
Found at i:451589 original size:11 final size:11
Alignment explanation
Indices: 451573--451612 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
451563 TAAGCAAGTC
451573 CTTAAAGGTGG
1 CTTAAAGGTGG
*
451584 CTTAAAGGTGA
1 CTTAAAGGTGG
*
451595 CTTAAAGG-AG
1 CTTAAAGGTGG
451605 CTTAAAGG
1 CTTAAAGG
451613 CTATACAACC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:451728 original size:10 final size:11
Alignment explanation
Indices: 451682--451732 Score: 77
Period size: 11 Copynumber: 4.7 Consensus size: 11
451672 TGTCCAAACG
451682 TCTTTAAGCCA
1 TCTTTAAGCCA
*
451693 CCTTTAAGCCA
1 TCTTTAAGCCA
*
451704 CCTTTAAGCCA
1 TCTTTAAGCCA
451715 TCTTTAAG-CA
1 TCTTTAAGCCA
451725 TCTTTAAG
1 TCTTTAAG
451733 TGGCATTTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
10 10 0.26
11 28 0.74
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.35
Consensus pattern (11 bp):
TCTTTAAGCCA
Found at i:451782 original size:22 final size:22
Alignment explanation
Indices: 451725--451782 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
451715 TCTTTAAGCA
* *
451725 TCTTTAAGTGGCATTTACGCTC
1 TCTTTAAGTGGCCTTTACACTC
* *
451747 TCTTTACACT-GCCTTTACACTG
1 TCTTTA-AGTGGCCTTTACACTC
451769 TCTTTAAGTGGCCT
1 TCTTTAAGTGGCCT
451783 ATAAGTCAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 2 0.07
22 25 0.86
23 2 0.07
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.41
Consensus pattern (22 bp):
TCTTTAAGTGGCCTTTACACTC
Found at i:452121 original size:2 final size:2
Alignment explanation
Indices: 452116--452161 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
452106 GTGAAAAAAA
*
452116 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TA TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
452158 TC TC
1 TC TC
452162 AGTTCATCCG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:452573 original size:112 final size:112
Alignment explanation
Indices: 452376--452598 Score: 392
Period size: 112 Copynumber: 2.0 Consensus size: 112
452366 AGTTTTGTTC
* *
452376 GTTTGTGTATATCTAATTAGAGTCTATTGTTTGTCCAACTTAAGAAAACCCCTGGAACTAACACA
1 GTTTGTGTACATCTAATTAAAGTCTATTGTTTGTCCAACTTAAGAAAACCCCTGGAACTAACACA
* *
452441 GAATATACAAGATATACACAACAGTTGTGTCGTGTGCCAAGGTGCAT
66 GAATATACAAGATATACACAACAGGTGTGTCATGTGCCAAGGTGCAT
*
452488 GTTTGTGTACATCTAATTAAAGTCTATTGTTTGTCCAACTTAAGAAAACTCCTGGAACTAACACA
1 GTTTGTGTACATCTAATTAAAGTCTATTGTTTGTCCAACTTAAGAAAACCCCTGGAACTAACACA
*
452553 GAATATACAAGATATACACAACAGGTGTGTCATGTGCCCAGGTGCA
66 GAATATACAAGATATACACAACAGGTGTGTCATGTGCCAAGGTGCA
452599 CGTCAGGGTT
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 105 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (112 bp):
GTTTGTGTACATCTAATTAAAGTCTATTGTTTGTCCAACTTAAGAAAACCCCTGGAACTAACACA
GAATATACAAGATATACACAACAGGTGTGTCATGTGCCAAGGTGCAT
Found at i:453636 original size:11 final size:11
Alignment explanation
Indices: 453622--453673 Score: 86
Period size: 11 Copynumber: 4.7 Consensus size: 11
453612 TTTTTTAATT
453622 GCTTAAAGGTG
1 GCTTAAAGGTG
*
453633 GCTTAAAGGTA
1 GCTTAAAGGTG
453644 GCTTAAAGGTG
1 GCTTAAAGGTG
*
453655 GCTTAGAGGTG
1 GCTTAAAGGTG
453666 GCTTAAAG
1 GCTTAAAG
453674 AAGTTTGGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.29, C:0.10, G:0.35, T:0.27
Consensus pattern (11 bp):
GCTTAAAGGTG
Found at i:453793 original size:11 final size:11
Alignment explanation
Indices: 453777--453808 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
453767 GCAATACATA
453777 TAGCTTAAAGG
1 TAGCTTAAAGG
453788 TAGCTTAAAGG
1 TAGCTTAAAGG
*
453799 TGGCTTAAAG
1 TAGCTTAAAG
453809 ATCGTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (11 bp):
TAGCTTAAAGG
Found at i:453830 original size:11 final size:11
Alignment explanation
Indices: 453814--453852 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
453804 TAAAGATCGT
453814 CTTTAAGCTAC
1 CTTTAAGCTAC
*
453825 CTTTAAAC-AC
1 CTTTAAGCTAC
*
453835 CTTTAAGCTAT
1 CTTTAAGCTAC
453846 CTTTAAG
1 CTTTAAG
453853 GAGGGCTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (11 bp):
CTTTAAGCTAC
Found at i:464889 original size:440 final size:441
Alignment explanation
Indices: 464053--465304 Score: 2062
Period size: 440 Copynumber: 2.8 Consensus size: 441
464043 CCGTAACTTA
*
464053 AATACCCTTTGACATTAAGACTTCAAACTTGGAACATAGGTAGATGGTATTGAGAAGGAGTGCAC
1 AATACCCTTTGACATTAAGACTTCAAACTTGGAACATAGGTAGATGGTATTAAGAAGGAGTGCAC
*
464118 GCCACCAAAAGTTTTGACTTTGACCTATTTT-TTGTTTCAAGGTCAAGCTTTTCATAAAAAATAT
66 GCCACCAAAAGTTTTGACCTTGACCTATTTTGTT-TTTCAAGGTCAAGCTTTTCATAAAAAATAT
*
464182 TGTCCT-GACCATAACACAATACTCCTTTAACATACAGACTTTTAACTTGTATCATAGATAGATG
130 TGT-CTGGACCATAACACAAGACTCCTTTAACATACAGACTTTTAACTTGTATCATAGATAGATG
* * * *
464246 GTATATAACGTAGTTAAACCTTGACAAAATTTTTGACCTTAACCTAGAATTTTTATTTCAAGGTC
194 GTATATAACCTAGTTGAACCTTAACAAAATTTTTGACCTTGACCTAGAATTTTTATTTCAAGGTC
* * * *
464311 ATATTTGAAAAAACTTCATTGTTTAACTTCTGAATATACTTTGACAGAAGGACTTCAAACTTTAT
259 ATATTAGAAAAAACTTCATTGTTCAACTCCTGAATATACTTTGACAGAAGGACTTCAAACTTTAA
*
464376 ACAAAGAACAATAATAATACACTTAGGTGTACTATTGAATAATATTTGACCTTTACCTTGTTTTA
324 ACAAAGAACAATAATAATACACTTAGGTGTACTATTGAATAATATTTGACCTTGACCTTGTTTTA
* *
464441 CTCAAGGTCAAATTAAGAAAAAAATAATAAAAATTTGTCTGGGTCATAAATTT
389 CGCAAGGTCAAATGAAGAAAAAAATAATAAAAATTTGTCTGGGTCATAAATTT
* * * *
464494 AATACCCTTTGCCA-TAAGACTTCAAACTTGGAAGATTGGTGGATGGTATTAAGAAGGAGTGCAC
1 AATACCCTTTGACATTAAGACTTCAAACTTGGAACATAGGTAGATGGTATTAAGAAGGAGTGCAC
464558 GCCACCAAAAGTTTTGACCTTGACCTATTTTGTTTTTCAAGGTCAAGCTTTTCATAAAAAATATT
66 GCCACCAAAAGTTTTGACCTTGACCTATTTTGTTTTTCAAGGTCAAGCTTTTCATAAAAAATATT
464623 GTCTGGACCATAACACAAGACTCCTTTAACATACAGACTTTTAACTTGTATCATAGATAGATGGT
131 GTCTGGACCATAACACAAGACTCCTTTAACATACAGACTTTTAACTTGTATCATAGATAGATGGT
**
464688 ATATAACCTAGTTGAACCTTAACAAAAAATTTGACCTTGACCTAGAATTTTTATTTCAAGGTCAT
196 ATATAACCTAGTTGAACCTTAACAAAATTTTTGACCTTGACCTAGAATTTTTATTTCAAGGTCAT
*
464753 ATTAAAAAAAACTTCATTGTTCAACTCCTGAATATACTTTGACAGAAGGACTTCAAACTTTAAAC
261 ATTAGAAAAAACTTCATTGTTCAACTCCTGAATATACTTTGACAGAAGGACTTCAAACTTTAAAC
* *
464818 AAAGAACAATGATAATACACTTAGGTGTACTTTTGAATAATATTTGACCTTGACCTTGTTTTACG
326 AAAGAACAATAATAATACACTTAGGTGTACTATTGAATAATATTTGACCTTGACCTTGTTTTACG
* ** *
464883 CAAGGTCAAATGAAGAAAAAAGTAATAAATTTTTGTCTGGGTCATAATTTT
391 CAAGGTCAAATGAAGAAAAAAATAATAAAAATTTGTCTGGGTCATAAATTT
* *
464934 AATACCCTTTGACATTAAGACTTCAAACTTGGAACATGGGTAGATGGTATTTAGAAGGAGTGCAC
1 AATACCCTTTGACATTAAGACTTCAAACTTGGAACATAGGTAGATGGTATTAAGAAGGAGTGCAC
* * *
464999 GCCACCAAAAGTTTTGACCTTGACCTTTTTTGTGTTTCAAAGTCAAGCTTTTCATAAAAAATATT
66 GCCACCAAAAGTTTTGACCTTGACCTATTTTGTTTTTCAAGGTCAAGCTTTTCATAAAAAATATT
* *
465064 GTCCGGACCATAACACAAGACTCCTTTAACATACAGACTTTTAACTTGTATC-TTGAATAGATGG
131 GTCTGGACCATAACACAAGACTCCTTTAACATACAGACTTTTAACTTGTATCATAG-ATAGATGG
* * * ** *
465128 TATATAACCTAGTTGAACCGTACCAAAATTTTTGACCTTGACCTAAAAAATTTATTTCAAAGTCA
195 TATATAACCTAGTTGAACCTTAACAAAATTTTTGACCTTGACCTAGAATTTTTATTTCAAGGTCA
*
465193 AATTAGAAAAAACTTCATTGTTCAACTCCTGAATATACTTTGACAGAAGGACTTCAAACTTTAAA
260 TATTAGAAAAAACTTCATTGTTCAACTCCTGAATATACTTTGACAGAAGGACTTCAAACTTTAAA
* *
465258 CAAAGAACAATAATATTACACTTAGGTGTGCTATTGAATAATATTTG
325 CAAAGAACAATAATAATACACTTAGGTGTACTATTGAATAATATTTG
465305 TTAAATTTGC
Statistics
Matches: 756, Mismatches: 51, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
439 2 0.00
440 409 0.54
441 345 0.46
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (441 bp):
AATACCCTTTGACATTAAGACTTCAAACTTGGAACATAGGTAGATGGTATTAAGAAGGAGTGCAC
GCCACCAAAAGTTTTGACCTTGACCTATTTTGTTTTTCAAGGTCAAGCTTTTCATAAAAAATATT
GTCTGGACCATAACACAAGACTCCTTTAACATACAGACTTTTAACTTGTATCATAGATAGATGGT
ATATAACCTAGTTGAACCTTAACAAAATTTTTGACCTTGACCTAGAATTTTTATTTCAAGGTCAT
ATTAGAAAAAACTTCATTGTTCAACTCCTGAATATACTTTGACAGAAGGACTTCAAACTTTAAAC
AAAGAACAATAATAATACACTTAGGTGTACTATTGAATAATATTTGACCTTGACCTTGTTTTACG
CAAGGTCAAATGAAGAAAAAAATAATAAAAATTTGTCTGGGTCATAAATTT
Found at i:470763 original size:13 final size:12
Alignment explanation
Indices: 470737--470771 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
470727 TGTTTTGGGA
470737 TTTTTGGGGGTT
1 TTTTTGGGGGTT
*
470749 TTTTTGGGGTTTT
1 TTTTTGGGG-GTT
470762 TTTTTGGGGG
1 TTTTTGGGGG
470772 GGGGGGGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (12 bp):
TTTTTGGGGGTT
Found at i:470885 original size:2 final size:2
Alignment explanation
Indices: 470878--470930 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
470868 ATCGAATTAA
470878 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
470920 AG AG AG AG AG A
1 AG AG AG AG AG A
470931 TTGCCAGTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:474460 original size:30 final size:30
Alignment explanation
Indices: 474425--474500 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
474415 AATACGTTGC
*
474425 CGGTCCAATAGATCGCACTCTATTGACCGG
1 CGGTCCAATAGATCGAACTCTATTGACCGG
* *
474455 TGGTCCAATAGATCGAAGTCTATTGACCGG
1 CGGTCCAATAGATCGAACTCTATTGACCGG
*
474485 CAGTCCAATAGATCGA
1 CGGTCCAATAGATCGA
474501 GACCAGCGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (30 bp):
CGGTCCAATAGATCGAACTCTATTGACCGG
Found at i:480869 original size:16 final size:16
Alignment explanation
Indices: 480848--480878 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
480838 CACGATTGCA
*
480848 CAGACAGACGGACGGG
1 CAGACAGACAGACGGG
480864 CAGACAGACAGACGG
1 CAGACAGACAGACGG
480879 ACAAGGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.39, T:0.00
Consensus pattern (16 bp):
CAGACAGACAGACGGG
Found at i:482238 original size:2 final size:2
Alignment explanation
Indices: 482231--482265 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
482221 ACGCCTTAAA
482231 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
482266 ATATGAAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:484132 original size:31 final size:32
Alignment explanation
Indices: 484096--484204 Score: 107
Period size: 34 Copynumber: 3.4 Consensus size: 32
484086 TATTCCTGGT
* *
484096 ACGACTTAACAAAATCC-GAATGATTTTAAGC
1 ACGACTTAACAAAATCCTGAATGATTTCAAGA
***
484127 ACGACTTAACAAAATCCTTCCTGATTTCAAGA
1 ACGACTTAACAAAATCCTGAATGATTTCAAGA
*
484159 ACGACTTAACAAAAAAAT-CTGAATG-TGTTCAAGT
1 ACGACTTAAC---AAAATCCTGAATGAT-TTCAAGA
484193 ACGACTTAACAA
1 ACGACTTAACAA
484205 TTATTTTTGG
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
31 19 0.30
32 19 0.30
33 1 0.02
34 20 0.31
35 5 0.08
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (32 bp):
ACGACTTAACAAAATCCTGAATGATTTCAAGA
Found at i:484163 original size:32 final size:31
Alignment explanation
Indices: 484096--484204 Score: 103
Period size: 31 Copynumber: 3.4 Consensus size: 31
484086 TATTCCTGGT
* *
484096 ACGACTTAACAAAATCCGAATGATTTTAAGC
1 ACGACTTAACAAAATCCGAATGATTTCAAGA
***
484127 ACGACTTAACAAAATCCTTCCTGATTTCAAGA
1 ACGACTTAACAAAATCC-GAATGATTTCAAGA
* *
484159 ACGACTTAACAAAAAAATCTGAATG-TGTTCAAGT
1 ACGACTTAAC---AAAATCCGAATGAT-TTCAAGA
484193 ACGACTTAACAA
1 ACGACTTAACAA
484205 TTATTTTTGG
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
31 19 0.30
32 19 0.30
33 1 0.02
34 18 0.29
35 6 0.10
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (31 bp):
ACGACTTAACAAAATCCGAATGATTTCAAGA
Found at i:489125 original size:439 final size:436
Alignment explanation
Indices: 488116--489108 Score: 1072
Period size: 437 Copynumber: 2.3 Consensus size: 436
488106 TCTTCGTAGC
* * * * * *** *
488116 CCCT-TTGGTCCCTTATTTGAGGGGTCA-CTCCTTTTTTCTTGATATCAAATGGAAGATCTTGTA
1 CCCTCTTGGCCCCTAATTTGAGGGGCCAGC-CCCTTTTTCTTGAAATCAAACAAAAGATCTGGTA
* * * * * ** * * * * * *
488179 AATATAAACATATTTTGTTCTACATGTATTCACGAATTGTTGACCGTTCTAGAGATATCCGAACA
65 AATATAAACACATTTTGTT-AACAAGTCTTAAAAAAATATTGACCATTCAAAAGATAGCCGAACA
* * * *
488244 ATTGTGTTTTAGGGGCCGACCCTTAAACTCCTTACCAGGGCCACCAACATAAATGTTTAAGATAC
129 AATGTGTTTTAGGGGCCGACCCTTAAAATCCTTACCAGGGCCACCAACAAAAATGTTTAAGAGAC
* *
488309 CATATCGTTTAGAACATTATTTTAAGCATTTTTTGTTCTATAATGCTTATCAAAATATTTCTCCT
194 CATATCGTTAAGAACATTATTTTAAACATTTTTTGTTCTATAATGCTTATCAAAATATTTCTCCT
* * * * **
488374 TTTCTAGATATTAATGTTCAAAGTTTTGGACATATGGCCCCTTGAAACCCCTAATTACGTATTAT
259 TTTCTAGATATTAATGATCAAAATTTCGGACATATGGCCCCTTGAAACCCCTAATGACGTAACAT
*
488439 ATGACATATGTATGGTACCGTATAGATAAACAGATGTACAATGAACATTTTTGGTTCTATAATTG
324 ATGACATATGCATGGTACCGTATAGATAAACAGATGTACAATGAACATTTTTGGTTCTATAATTG
* * ** *
488504 ATAACAATTTATTTTTCAGCCAAGAGTTATGATAAAAAGAATTTACAG
389 ATAACAAATTATTTTTCAGCAAAGAAATATGACAAAAAGAATTTACAG
* * * * *
488552 CCCTCTTGGCCCCTTATTTGAGGGGCCAGCCCCTTTTTCTTGATATCAAATAAAAGGTCTTGTAA
1 CCCTCTTGGCCCCTAATTTGAGGGGCCAGCCCCTTTTTCTTGAAATCAAACAAAAGATCTGGTAA
* * * * * * * * * *
488617 ATATAAACGCATTTTGTTCAACAAGTGTTCAGAAATTGTTGACCGTTCTAAAGATATCTGAACAA
66 ATATAAACACATTTTGTT-AACAAGTCTTAAAAAAATATTGACCATTCAAAAGATAGCCGAACAA
* * * * *
488682 ATGTGTTTTAGGGGCCGACCCTTAAAATCCTTA-CTGGGACCACCAACAAAAATTTTTTAGGGAG
130 ATGTGTTTTAGGGGCCGACCCTTAAAATCCTTACCAGGG-CCACCAACAAAAATGTTTAAGAGAC
*
488746 CATATTGTTAAGAACATTATTTTAAACATTTTTTGTTCTATAATGCTTATCAAAATATTTCTCCT
194 CATATCGTTAAGAACATTATTTTAAACATTTTTTGTTCTATAATGCTTATCAAAATATTTCTCCT
* * * * *
488811 TTTCTAGATATTTTTAA-GATCAAAATTTCGGACTTTTGGCCCCTTTAAGCCCCTAATGATGTAA
259 TTTCTAGATA---TTAATGATCAAAATTTCGGACATATGGCCCCTTGAAACCCCTAATGACGTAA
* * * *
488875 CATATTACTTA-GACATGGTACTGTTTAGATAAACAGATGTACAATGAACATTTTTGGTTCTATA
321 CATATGACATATG-CATGGTACCGTATAGATAAACAGATGTACAATGAACATTTTTGGTTCTATA
* * * *
488939 ATTGATAACAAATTATTTTTCAGTAAAGAAATATTG-CAAAAATACTTTAGAG
385 ATTGATAACAAATTATTTTTCAGCAAAGAAATA-TGACAAAAAGAATTTACAG
*
488991 CCCTTTTGGCCCCTAATTTGAGGGGCCAGCCCCTTTTT-TCTGAAATCAAACAAAAGATCTAGGT
1 CCCTCTTGGCCCCTAATTTGAGGGGCCAGCCCCTTTTTCT-TGAAATCAAACAAAAGATCT-GGT
* * *
489055 -AATCTAAACA-ACTTTTGCATT-ACATGTCTTAAAAAAATATTTACACATT-AAAAG
64 AAATATAAACACA-TTTTG--TTAACAAGTCTTAAAAAAATATTGAC-CATTCAAAAG
489109 TTAGGGCCGA
Statistics
Matches: 474, Mismatches: 69, Indels: 25
0.83 0.12 0.04
Matches are distributed among these distances:
436 8 0.02
437 230 0.49
438 4 0.01
439 219 0.46
440 11 0.02
441 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (436 bp):
CCCTCTTGGCCCCTAATTTGAGGGGCCAGCCCCTTTTTCTTGAAATCAAACAAAAGATCTGGTAA
ATATAAACACATTTTGTTAACAAGTCTTAAAAAAATATTGACCATTCAAAAGATAGCCGAACAAA
TGTGTTTTAGGGGCCGACCCTTAAAATCCTTACCAGGGCCACCAACAAAAATGTTTAAGAGACCA
TATCGTTAAGAACATTATTTTAAACATTTTTTGTTCTATAATGCTTATCAAAATATTTCTCCTTT
TCTAGATATTAATGATCAAAATTTCGGACATATGGCCCCTTGAAACCCCTAATGACGTAACATAT
GACATATGCATGGTACCGTATAGATAAACAGATGTACAATGAACATTTTTGGTTCTATAATTGAT
AACAAATTATTTTTCAGCAAAGAAATATGACAAAAAGAATTTACAG
Found at i:489573 original size:56 final size:56
Alignment explanation
Indices: 489492--489604 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 56
489482 AATAATAAGG
489492 AAAAGAAACAATAGAATAACAAGAGGGTCTTCCGTCGGAAACGGAAGACCCTAATA
1 AAAAGAAACAATAGAATAACAAGAGGGTCTTCCGTCGGAAACGGAAGACCCTAATA
** *
489548 AAAAGAAACCGTAGAATAACAAGAGGGTCTTCCGTTGGAAACGGAAGACCCTAATA
1 AAAAGAAACAATAGAATAACAAGAGGGTCTTCCGTCGGAAACGGAAGACCCTAATA
489604 A
1 A
489605 TTTCTAGAGC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (56 bp):
AAAAGAAACAATAGAATAACAAGAGGGTCTTCCGTCGGAAACGGAAGACCCTAATA
Found at i:489933 original size:62 final size:62
Alignment explanation
Indices: 489857--489976 Score: 206
Period size: 62 Copynumber: 1.9 Consensus size: 62
489847 TCAAGTACGA
489857 AATAAAAAGAAACAAT-AATATAACAAGAGGGTCTTCCGTTGGAAACGGAAGACCCTAATAAT
1 AATAAAAAGAAACAATGAA-ATAACAAGAGGGTCTTCCGTTGGAAACGGAAGACCCTAATAAT
* *
489919 AATAAAAAGAAACAATGGAATAACAAGAGGGTCTTCCGTTGGAAACGGAAGATCCTAA
1 AATAAAAAGAAACAATGAAATAACAAGAGGGTCTTCCGTTGGAAACGGAAGACCCTAA
489977 AAAGAAACCG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
62 54 0.98
63 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.18
Consensus pattern (62 bp):
AATAAAAAGAAACAATGAAATAACAAGAGGGTCTTCCGTTGGAAACGGAAGACCCTAATAAT
Found at i:490862 original size:357 final size:354
Alignment explanation
Indices: 490207--491238 Score: 1719
Period size: 357 Copynumber: 2.9 Consensus size: 354
490197 TCTTCTGATC
* *
490207 TATCCTAATAAGGTCTGGAATAAGATCTAGCATATGCATGTACAGAATATAAAATATAGTTATGA
1 TATCCTATTAAGGTCTGGAATAAGATCTAGCATATGCATGTACAGAATGTAAAATATAGTTATGA
*
490272 CACTATAAATATTCAACTCAATCTTACTTATCATGAAAAGAAAACAGTTCCCCATTATTTTACTC
66 CACTATAAATATTCAACTCAATCTTACTTATCATAAAAAGAAAACAGTTCCCCATTATTTTACTC
* *
490337 AGAAATGTCTTATCAAGTCTTGTTTGTTTATTTCTTGCATCTGTAAAAAAATGACAGGGAAGCCT
131 AGAAATGTCTTATCAAGTCTTGTTTG--T-TTTCTTGCATCTGTAAGAAACTGACAGGGAAGCCT
490402 CACTCGCCCACAAGCAAGAGCAAAAGGATCGGTCTGAGACACCACCTTTCTCTTACTTGGGTATC
193 CACTCGCCCACAAGCAAGAGCAAAAGGATCGGTCTGAGACACCACCTTTCTCTTACTTGGGTATC
*
490467 AAGATTTGCAACTTACTGCCAGCAAAGCCCTTTCAAAATACTCTTGCATTGTCTCCTGCTTAAAA
258 AAGATCTGCAACTTACTGCCAGCAAAGCCCTTTCAAAATACTCTTGCATTGTCTCCTGCTTAAAA
*
490532 TTCACTTTCAATAAAAATTCTTCTAGTCTATA
323 TTAACTTTCAATAAAAATTCTTCTAGTCTATA
* * * *
490564 TATCCTATTCAGGTCTGGAATAAGATCTAACATATGCATGTACAAAATGT-AAA-ACAGTTATGA
1 TATCCTATTAAGGTCTGGAATAAGATCTAGCATATGCATGTACAGAATGTAAAATATAGTTATGA
*
490627 CACTATAAAAATTCAACTCAATCTTACTTACATGTATCATAAAAAGAAAACAGTTCCCCATTATT
66 CACTATAAATATTCAACTCAA---T-CTTAC-T-TATCATAAAAAGAAAACAGTTCCCCATTATT
490692 TTACTCAGAAATGTCTTATCAAGTCTTGTTTG-TTTCTTGCATCTGTAAGAAACTGACAGGGAAG
125 TTACTCAGAAATGTCTTATCAAGTCTTGTTTGTTTTCTTGCATCTGTAAGAAACTGACAGGGAAG
490756 CCTCACTCGCCCACAAGCAAGAGCAAAAGGATCGGTCTGAGACACCACCTTTCTCTTACTTGGGT
190 CCTCACTCGCCCACAAGCAAGAGCAAAAGGATCGGTCTGAGACACCACCTTTCTCTTACTTGGGT
* * *
490821 ATCAAGATCTGCAACTTACTACCAGCAAAGCCCTTTCAAAATACTCTCGCATTGTCACCTGCTTA
255 ATCAAGATCTGCAACTTACTGCCAGCAAAGCCCTTTCAAAATACTCTTGCATTGTCTCCTGCTTA
* *
490886 AAATTAACTTTCAATAGAAATTCTTCTAGTCTTTA
320 AAATTAACTTTCAATAAAAATTCTTCTAGTCTATA
** * *
490921 TATCCTATTAAGGTCTTAAATAAGACCTGGCATATGCATGTACAGAATGTAAAATATAGTTATGA
1 TATCCTATTAAGGTCTGGAATAAGATCTAGCATATGCATGTACAGAATGTAAAATATAGTTATGA
*
490986 CACTCTAAATATTCAACTCAATCTTACTTATCATAAAAAGAAAACAGTTCCCCATTATTTTACTC
66 CACTATAAATATTCAACTCAATCTTACTTATCATAAAAAGAAAACAGTTCCCCATTATTTTACTC
*
491051 AGAAATGTCTTATCAAGTCTTGTTTGTTTATTTCTTGCACCTGTAAGAAACTGACAGGGAAGCCT
131 AGAAATGTCTTATCAAGTCTTGTTTG--T-TTTCTTGCATCTGTAAGAAACTGACAGGGAAGCCT
*
491116 CACTCGCCCACAAGCAAGAGCAAAAGGATCGGTCTAAGACACCACCTTTCTCTTACTTGGGTATC
193 CACTCGCCCACAAGCAAGAGCAAAAGGATCGGTCTGAGACACCACCTTTCTCTTACTTGGGTATC
491181 AAGATCTGCAACTTACTGCCAGCAAAGCCCTTTCAAAATACTCTTGCATTGTCTCCTG
258 AAGATCTGCAACTTACTGCCAGCAAAGCCCTTTCAAAATACTCTTGCATTGTCTCCTG
491239 TATATTTTTA
Statistics
Matches: 631, Mismatches: 32, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
353 63 0.10
354 1 0.00
355 34 0.05
356 4 0.01
357 429 0.68
358 4 0.01
359 33 0.05
360 1 0.00
361 62 0.10
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (354 bp):
TATCCTATTAAGGTCTGGAATAAGATCTAGCATATGCATGTACAGAATGTAAAATATAGTTATGA
CACTATAAATATTCAACTCAATCTTACTTATCATAAAAAGAAAACAGTTCCCCATTATTTTACTC
AGAAATGTCTTATCAAGTCTTGTTTGTTTTCTTGCATCTGTAAGAAACTGACAGGGAAGCCTCAC
TCGCCCACAAGCAAGAGCAAAAGGATCGGTCTGAGACACCACCTTTCTCTTACTTGGGTATCAAG
ATCTGCAACTTACTGCCAGCAAAGCCCTTTCAAAATACTCTTGCATTGTCTCCTGCTTAAAATTA
ACTTTCAATAAAAATTCTTCTAGTCTATA
Found at i:499554 original size:12 final size:13
Alignment explanation
Indices: 499523--499555 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
499513 AAAAATTTTC
499523 AAGAAATGCAATT
1 AAGAAATGCAATT
499536 AAGAAATGC-ATT
1 AAGAAATGCAATT
*
499548 TAGAAATG
1 AAGAAATG
499556 ACCAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (13 bp):
AAGAAATGCAATT
Found at i:508798 original size:21 final size:21
Alignment explanation
Indices: 508695--508840 Score: 114
Period size: 21 Copynumber: 7.0 Consensus size: 21
508685 TTATGTCGAT
*
508695 TCATTTCGCGACTATATG-TA
1 TCATTTCGCGACGATATGTTA
* * *
508715 GACATTTCGCGCCGATATGTAA
1 -TCATTTCGCGACGATATGTTA
* * * *
508737 TCATATGGCGACGGTATGTGA
1 TCATTTCGCGACGATATGTTA
* * * *
508758 TTATTTTGCAATGATATGTTA
1 TCATTTCGCGACGATATGTTA
508779 TCATTTCGCGACGATATGTTA
1 TCATTTCGCGACGATATGTTA
* * *
508800 TCATTTCGCAACTAAATGTTA
1 TCATTTCGCGACGATATGTTA
* * *
508821 TCATTTTGCGAAGAGATGTT
1 TCATTTCGCGACGATATGTT
508841 TTCGCTTCTC
Statistics
Matches: 95, Mismatches: 29, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
21 94 0.99
22 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (21 bp):
TCATTTCGCGACGATATGTTA
Found at i:522156 original size:2 final size:2
Alignment explanation
Indices: 522149--522174 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
522139 NNNNNNNNNN
522149 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
522175 AAGAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:522428 original size:21 final size:21
Alignment explanation
Indices: 522402--522493 Score: 123
Period size: 21 Copynumber: 4.4 Consensus size: 21
522392 TTATGTCTGC
*
522402 TCATTTCGCAACGATATATTA
1 TCATTTCGCGACGATATATTA
522423 TCATTTCGCGACGATATATTA
1 TCATTTCGCGACGATATATTA
*
522444 TTATTTTC-CGACGATATATTA
1 TCA-TTTCGCGACGATATATTA
* *
522465 TCATTTTGCGACGATTTATTA
1 TCATTTCGCGACGATATATTA
*
522486 TTATTTCG
1 TCATTTCG
522494 ATTAGCGTAC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
20 3 0.05
21 55 0.89
22 4 0.06
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (21 bp):
TCATTTCGCGACGATATATTA
Found at i:522476 original size:42 final size:42
Alignment explanation
Indices: 522412--522491 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
522402 TCATTTCGCA
522412 ACGATATATTATCATTTCGCGACGATATATTATTATTTTCCG
1 ACGATATATTATCATTTCGCGACGATATATTATTATTTTCCG
* *
522454 ACGATATATTATCATTTTGCGACGATTTATTATTATTT
1 ACGATATATTATCATTTCGCGACGATATATTATTATTT
522492 CGATTAGCGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (42 bp):
ACGATATATTATCATTTCGCGACGATATATTATTATTTTCCG
Found at i:526498 original size:75 final size:74
Alignment explanation
Indices: 526404--526571 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 74
526394 TTTTATTGGC
* * * * *
526404 AATATTTTAACAT-ATTTCAATAAAGTTGTACATATG-ATAAATTAAATAC-ATAATTCATGCAC
1 AATATTTGAATATAATTTCAATAAAGTTATACATATGAATAAATT-AATACTAAAATCCATGCAC
*
526466 TTTTATTGATAA
65 TTTCATTG--AA
526478 AATATTTGAATATAATTTCAATAAAGTTATACATATGATTAATAAATTAATACTAAAATCCATGC
1 AATATTTGAATATAATTTCAATAAAGTTATACATATG---AATAAATTAATACTAAAATCCATGC
*
526543 ACTTTCATTGAC
63 ACTTTCATTGAA
526555 AATA-TTGAATATAATTT
1 AATATTTGAATATAATTT
526572 AAAACAAGAA
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
74 11 0.14
75 22 0.27
76 13 0.16
77 5 0.06
78 5 0.06
79 25 0.31
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.40
Consensus pattern (74 bp):
AATATTTGAATATAATTTCAATAAAGTTATACATATGAATAAATTAATACTAAAATCCATGCACT
TTCATTGAA
Found at i:530717 original size:44 final size:44
Alignment explanation
Indices: 530681--530830 Score: 291
Period size: 44 Copynumber: 3.4 Consensus size: 44
530671 ACTACACTGC
*
530681 TAATCAGATAATACACAGGTGTTGATTTATTAACACTACGATGT
1 TAATCAGATAATATACAGGTGTTGATTTATTAACACTACGATGT
530725 TAATCAGATAATATACAGGTGTTGATTTATTAACACTACGATGT
1 TAATCAGATAATATACAGGTGTTGATTTATTAACACTACGATGT
530769 TAATCAGATAATATACAGGTGTTGATTTATTAACACTACGATGT
1 TAATCAGATAATATACAGGTGTTGATTTATTAACACTACGATGT
530813 TAATCAGATAATATACAG
1 TAATCAGATAATATACAG
530831 ATGTCTGTAT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 105 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (44 bp):
TAATCAGATAATATACAGGTGTTGATTTATTAACACTACGATGT
Found at i:530725 original size:22 final size:22
Alignment explanation
Indices: 530700--530813 Score: 74
Period size: 22 Copynumber: 5.2 Consensus size: 22
530690 AATACACAGG
530700 TGTTGATTTATTAACACTACGA
1 TGTTGATTTATTAACACTACGA
* * * * *
530722 TGTT-AATCAGATAATA-TACAGG
1 TGTTGATTTA-TTAACACTAC-GA
530744 TGTTGATTTATTAACACTACGA
1 TGTTGATTTATTAACACTACGA
* * * * *
530766 TGTT-AATCAGATAATA-TACAGG
1 TGTTGATTTA-TTAACACTAC-GA
530788 TGTTGATTTATTAACACTACGA
1 TGTTGATTTATTAACACTACGA
530810 TGTT
1 TGTT
530814 AATCAGATAA
Statistics
Matches: 64, Mismatches: 20, Indels: 16
0.64 0.20 0.16
Matches are distributed among these distances:
21 12 0.19
22 40 0.62
23 12 0.19
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (22 bp):
TGTTGATTTATTAACACTACGA
Found at i:530833 original size:22 final size:22
Alignment explanation
Indices: 530720--530834 Score: 76
Period size: 22 Copynumber: 5.2 Consensus size: 22
530710 TTAACACTAC
530720 GATGTTAATCAGATAATATACA
1 GATGTTAATCAGATAATATACA
* * * * *
530742 GGTGTTGATTTA-TTAACACTAC-
1 GATGTT-AATCAGATAATA-TACA
530764 GATGTTAATCAGATAATATACA
1 GATGTTAATCAGATAATATACA
* * * * *
530786 GGTGTTGATTTA-TTAACACTAC-
1 GATGTT-AATCAGATAATA-TACA
530808 GATGTTAATCAGATAATATACA
1 GATGTTAATCAGATAATATACA
530830 GATGT
1 GATGT
530835 CTGTATACAC
Statistics
Matches: 65, Mismatches: 20, Indels: 16
0.64 0.20 0.16
Matches are distributed among these distances:
21 12 0.18
22 41 0.63
23 12 0.18
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (22 bp):
GATGTTAATCAGATAATATACA
Found at i:532231 original size:65 final size:65
Alignment explanation
Indices: 532127--532362 Score: 402
Period size: 65 Copynumber: 3.6 Consensus size: 65
532117 ACAGAGCAGA
* *
532127 AAACACATGTAGATAAAGAGTAGGGACACCACACAGATGATGAAAATCACCACAACCTGAAACAT
1 AAACACATGTAGATAAAGAGTAGGGACACCACACAGATGATGAAAATCACCACAACCTGAAATAC
*
532192 AAACACATGTAGATAAAGAATATGGG-CACCACACAGATGATGAAAATCACCACAACCTGAAATA
1 AAACACATGTAGATAAAGAGTA-GGGACACCACACAGATGATGAAAATCACCACAACCTGAAATA
532256 C
65 C
* **
532257 AAACACATGAAGATAAAGAGTAGGGACACCACACAGATGATGAAAATCACCACCGCCTGAAATAC
1 AAACACATGTAGATAAAGAGTAGGGACACCACACAGATGATGAAAATCACCACAACCTGAAATAC
532322 AAACACATGTAGATAAAGAGTAGGGACACCACACAGATGAT
1 AAACACATGTAGATAAAGAGTAGGGACACCACACAGATGAT
532363 ACAAACACAT
Statistics
Matches: 161, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
64 3 0.02
65 155 0.96
66 3 0.02
ACGTcount: A:0.47, C:0.21, G:0.18, T:0.14
Consensus pattern (65 bp):
AAACACATGTAGATAAAGAGTAGGGACACCACACAGATGATGAAAATCACCACAACCTGAAATAC
Found at i:532366 original size:43 final size:43
Alignment explanation
Indices: 532318--532405 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
532308 ACCGCCTGAA
* *
532318 ATACAAACACATGTAGATAAAGAGTAGGGACACCACACAGATG
1 ATACAAACACATGTAAATAAAGAGAAGGGACACCACACAGATG
*
532361 ATACAAACACATGTAAATAAAGAGAAGGGGCACCACACAGATG
1 ATACAAACACATGTAAATAAAGAGAAGGGACACCACACAGATG
532404 AT
1 AT
532406 GAAAATTAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.14
Consensus pattern (43 bp):
ATACAAACACATGTAAATAAAGAGAAGGGACACCACACAGATG
Found at i:532395 original size:108 final size:108
Alignment explanation
Indices: 532253--532470 Score: 321
Period size: 108 Copynumber: 2.0 Consensus size: 108
532243 ACAACCTGAA
* **
532253 ATACAAACACATGAAGATAAAGAGTAGGGACACCACACAGATGATGAAAATCACCACCGCCTGAA
1 ATACAAACACATGAAGATAAAGAGAAGGGACACCACACAGATGATGAAAATCACCACAACCTGAA
* *
532318 ATACAAACACATGTAGATAAAGAGTAGGGACACCACACAGATG
66 ATACAAACACAGGTAGATAAAGAGTAGGGACACCACAAAGATG
* * *
532361 ATACAAACACATGTAA-ATAAAGAGAAGGGGCACCACACAGATGATGAAAATTAGCACAACCTGA
1 ATACAAACACATG-AAGATAAAGAGAAGGGACACCACACAGATGATGAAAATCACCACAACCTGA
* **
532425 AATACAAACACAGGTAGATAAAGAGTAGTGATGCCACAAAGATG
65 AATACAAACACAGGTAGATAAAGAGTAGGGACACCACAAAGATG
532469 AT
1 AT
532471 GAAAATCACC
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 96 0.98
109 2 0.02
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (108 bp):
ATACAAACACATGAAGATAAAGAGAAGGGACACCACACAGATGATGAAAATCACCACAACCTGAA
ATACAAACACAGGTAGATAAAGAGTAGGGACACCACAAAGATG
Found at i:532468 original size:65 final size:65
Alignment explanation
Indices: 532361--532633 Score: 357
Period size: 65 Copynumber: 4.2 Consensus size: 65
532351 CACACAGATG
* * * * *
532361 ATACAAACACATGTAAATAAAGAGAAGGGGCACCACACAGATGATGAAAATTAGCACAACCTGAA
1 ATACAAACACATGTAGATAAAGAGAAGGGACACCACACAGATGATGAAAATCACCACCACCTGAA
* * * ** * * *
532426 ATACAAACACAGGTAGATAAAGAGTAGTGATGCCACAAAGATGATGAAAATCACCACCACATAAA
1 ATACAAACACATGTAGATAAAGAGAAGGGACACCACACAGATGATGAAAATCACCACCACCTGAA
* * *
532491 ACATAAACACATGTAGATAAAGAGAAGGGACACCACACAGATGATAAAAATCACCACCACCTGAA
1 ATACAAACACATGTAGATAAAGAGAAGGGACACCACACAGATGATGAAAATCACCACCACCTGAA
* * * * *
532556 ACATAAACACATGTAGATAAAGAGTAGGGGCACCACACAGATGATGAAAATCACCACCATCTGAA
1 ATACAAACACATGTAGATAAAGAGAAGGGACACCACACAGATGATGAAAATCACCACCACCTGAA
532621 ATACAAACACATG
1 ATACAAACACATG
532634 GACAACAATC
Statistics
Matches: 178, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 178 1.00
ACGTcount: A:0.48, C:0.21, G:0.17, T:0.14
Consensus pattern (65 bp):
ATACAAACACATGTAGATAAAGAGAAGGGACACCACACAGATGATGAAAATCACCACCACCTGAA
Found at i:532481 original size:173 final size:173
Alignment explanation
Indices: 532192--532536 Score: 530
Period size: 173 Copynumber: 2.0 Consensus size: 173
532182 CCTGAAACAT
* *
532192 AAACACATGTAGATAAAGAATATGGGCACCACACAGATGATGAAAATCACCACAACCTGAAATAC
1 AAACACATGTAAATAAAGAATAGGGGCACCACACAGATGATGAAAATCACCACAACCTGAAATAC
* * * * * *
532257 AAACACATGAAGATAAAGAGTAGGGACACCACACAGATGATGAAAATCACCACCGCCTGAAATAC
66 AAACACAGGAAGATAAAGAGTAGGGACACCACAAAGATGATGAAAATCACCACCACATAAAACAC
*
532322 AAACACATGTAGATAAAGAGTAGGGACACCACACAGATGATAC
131 AAACACATGTAGATAAAGAGAAGGGACACCACACAGATGATAC
* *
532365 AAACACATGTAAATAAAGAGA-AGGGGCACCACACAGATGATGAAAATTAGCACAACCTGAAATA
1 AAACACATGTAAATAAAGA-ATAGGGGCACCACACAGATGATGAAAATCACCACAACCTGAAATA
* * **
532429 CAAACACAGGTAGATAAAGAGTAGTGATGCCACAAAGATGATGAAAATCACCACCACATAAAACA
65 CAAACACAGGAAGATAAAGAGTAGGGACACCACAAAGATGATGAAAATCACCACCACATAAAACA
*
532494 TAAACACATGTAGATAAAGAGAAGGGACACCACACAGATGATA
130 CAAACACATGTAGATAAAGAGAAGGGACACCACACAGATGATA
532537 AAAATCACCA
Statistics
Matches: 155, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
173 154 0.99
174 1 0.01
ACGTcount: A:0.48, C:0.20, G:0.18, T:0.14
Consensus pattern (173 bp):
AAACACATGTAAATAAAGAATAGGGGCACCACACAGATGATGAAAATCACCACAACCTGAAATAC
AAACACAGGAAGATAAAGAGTAGGGACACCACAAAGATGATGAAAATCACCACCACATAAAACAC
AAACACATGTAGATAAAGAGAAGGGACACCACACAGATGATAC
Found at i:532545 original size:238 final size:237
Alignment explanation
Indices: 532127--532600 Score: 707
Period size: 238 Copynumber: 2.0 Consensus size: 237
532117 ACAGAGCAGA
* * *
532127 AAACACATGTAGATAAAGAGTAGGGACACCACACAGATGATGAAAATCACCACAACCTGAAACAT
1 AAACACATGTAAATAAAGAGAAGGGACACCACACAGATGATGAAAATCACCACAACCTGAAACAC
* * * * *
532192 AAACACATGTAGATAAAGAATATGGGCACCACACAGATGATGAAAATCACCACAACCTGAAATAC
66 AAACACAGGTAGATAAAGAATATGGG-ACCACAAAGATGATGAAAATCACCACAACATAAAACAC
* * * *
532257 AAACACATGAAGATAAAGAGTAGGGACACCACACAGATGATGAAAATCACCACCGCCTGAAATAC
130 AAACACATGAAGATAAAGAGAAGGGACACCACACAGATGATAAAAATCACCACCACCTGAAACAC
532322 AAACACATGTAGATAAAGAGTAGGGACACCACACAGATGATAC
195 AAACACATGTAGATAAAGAGTAGGGACACCACACAGATGATAC
* * * *
532365 AAACACATGTAAATAAAGAGAAGGGGCACCACACAGATGATGAAAATTAGCACAACCTGAAATAC
1 AAACACATGTAAATAAAGAGAAGGGACACCACACAGATGATGAAAATCACCACAACCTGAAACAC
* * *
532430 AAACACAGGTAGATAAAGAGTA-GTGATGCCACAAAGATGATGAAAATCACCACCACATAAAACA
66 AAACACAGGTAGATAAAGAATATGGGA--CCACAAAGATGATGAAAATCACCACAACATAAAACA
* *
532494 TAAACACATGTAGATAAAGAGAAGGGACACCACACAGATGATAAAAATCACCACCACCTGAAACA
129 CAAACACATGAAGATAAAGAGAAGGGACACCACACAGATGATAAAAATCACCACCACCTGAAACA
* *
532559 TAAACACATGTAGATAAAGAGTAGGGGCACCACACAGATGAT
194 CAAACACATGTAGATAAAGAGTAGGGACACCACACAGATGAT
532601 GAAAATCACC
Statistics
Matches: 211, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
236 1 0.00
237 2 0.01
238 208 0.99
ACGTcount: A:0.48, C:0.20, G:0.18, T:0.14
Consensus pattern (237 bp):
AAACACATGTAAATAAAGAGAAGGGACACCACACAGATGATGAAAATCACCACAACCTGAAACAC
AAACACAGGTAGATAAAGAATATGGGACCACAAAGATGATGAAAATCACCACAACATAAAACACA
AACACATGAAGATAAAGAGAAGGGACACCACACAGATGATAAAAATCACCACCACCTGAAACACA
AACACATGTAGATAAAGAGTAGGGACACCACACAGATGATAC
Found at i:538071 original size:1 final size:1
Alignment explanation
Indices: 538065--538093 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
538055 TAAAACAGCG
538065 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
538094 CTATGCACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:538562 original size:12 final size:12
Alignment explanation
Indices: 538542--538618 Score: 58
Period size: 12 Copynumber: 6.6 Consensus size: 12
538532 TTAGTATCTT
* *
538542 ATAGCCACTCTC
1 ATAGTCACTATC
538554 ATAGTCACTATC
1 ATAGTCACTATC
538566 ATA-TCA-TAGTC
1 ATAGTCACTA-TC
538577 ACTA-TCA-TAGTC
1 A-TAGTCACTA-TC
538589 ACTA-TCA-TATC
1 A-TAGTCACTATC
538600 ATAGTCACTATC
1 ATAGTCACTATC
538612 ATAGTCA
1 ATAGTCA
538619 ACAGTCAACA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
10 4 0.07
11 12 0.20
12 43 0.73
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAGTCACTATC
Found at i:538564 original size:76 final size:77
Alignment explanation
Indices: 538438--538732 Score: 356
Period size: 76 Copynumber: 4.0 Consensus size: 77
538428 CCAGTACCTG
538438 ACAGTCAGTATCTCAGAGTTAGTATCTAATAGCCACTCTCATAGTCACTATCATA-TCATAGTCA
1 ACAGTCAGTATCTCAGAGTTAGTATCTAATAGCCACTCTCATAGTCACTATCATAGTCATAGTCA
538502 CTATCATAGTCA
66 CTATCATAGTCA
*
538514 ACAGTCAGTATCTCAGAGTTAGTATCTTATAGCCACTCTCATAGTCACTATCATA-TCATAGTCA
1 ACAGTCAGTATCTCAGAGTTAGTATCTAATAGCCACTCTCATAGTCACTATCATAGTCATAGTCA
538578 CTATCATAGTC-
66 CTATCATAGTCA
* * * * * *
538589 ACTA-TCA-TA--TCATAGTCACTATC--ATAG----TC-AACAGTCAAC-ATCATAGTCAACAG
1 AC-AGTCAGTATCTCAGAGTTAGTATCTAATAGCCACTCTCATAGTC-ACTATCATAGTC-ATAG
538642 TCAAC-ATCATAGTCA
63 TC-ACTATCATAGTCA
538657 ACAGTCAGTATCTCAGAGTTAGTATCTAATAGCCACTCTCATAGTCACTATCATAGTCACTA-TC
1 ACAGTCAGTATCTCAGAGTTAGTATCTAATAGCCACTCTCATAGTCACTATCATAGTCA-TAGTC
538721 A-TATCATAGTCA
65 ACTATCATAGTCA
538733 CTATCATAGT
Statistics
Matches: 186, Mismatches: 13, Indels: 40
0.78 0.05 0.17
Matches are distributed among these distances:
65 11 0.06
66 6 0.03
67 15 0.08
68 7 0.04
69 2 0.01
70 4 0.02
71 11 0.06
72 11 0.06
73 4 0.02
74 2 0.01
75 5 0.03
76 86 0.46
77 7 0.04
78 15 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (77 bp):
ACAGTCAGTATCTCAGAGTTAGTATCTAATAGCCACTCTCATAGTCACTATCATAGTCATAGTCA
CTATCATAGTCA
Found at i:538626 original size:7 final size:7
Alignment explanation
Indices: 538614--538663 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
538604 TCACTATCAT
538614 AGTCAAC
1 AGTCAAC
538621 AGTCAAC
1 AGTCAAC
*
538628 A-TC-AT
1 AGTCAAC
538633 AGTCAAC
1 AGTCAAC
538640 AGTCAAC
1 AGTCAAC
*
538647 A-TC-AT
1 AGTCAAC
538652 AGTCAAC
1 AGTCAAC
538659 AGTCA
1 AGTCA
538664 GTATCTCAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
5 4 0.11
6 8 0.23
7 23 0.66
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.20
Consensus pattern (7 bp):
AGTCAAC
Found at i:538631 original size:19 final size:19
Alignment explanation
Indices: 538609--538663 Score: 110
Period size: 19 Copynumber: 2.9 Consensus size: 19
538599 CATAGTCACT
538609 ATCATAGTCAACAGTCAAC
1 ATCATAGTCAACAGTCAAC
538628 ATCATAGTCAACAGTCAAC
1 ATCATAGTCAACAGTCAAC
538647 ATCATAGTCAACAGTCA
1 ATCATAGTCAACAGTCA
538664 GTATCTCAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.22
Consensus pattern (19 bp):
ATCATAGTCAACAGTCAAC
Found at i:538705 original size:12 final size:12
Alignment explanation
Indices: 538685--538856 Score: 66
Period size: 12 Copynumber: 14.6 Consensus size: 12
538675 TTAGTATCTA
* *
538685 ATAGCCACTCTC
1 ATAGTCACTATC
538697 ATAGTCACTATC
1 ATAGTCACTATC
538709 ATAGTCACTATC
1 ATAGTCACTATC
538721 ATA-TCA-TAGTC
1 ATAGTCACTA-TC
538732 ACTA-TCA-TAGTC
1 A-TAGTCACTA-TC
*
538744 AACAGTCAAC-ATC
1 -ATAGTC-ACTATC
538757 ATAGTCA--A-C
1 ATAGTCACTATC
*
538766 AGTCAGT-A-TCTC
1 A-T-AGTCACTATC
* * *
538778 AGAGTTAGTATC
1 ATAGTCACTATC
* *
538790 TAATAGCCACTCTC
1 -A-TAGTCACTATC
538804 ATAGTCACTATC
1 ATAGTCACTATC
538816 ATAG-CA-TAGTC
1 ATAGTCACTA-TC
538827 ACTA-TCA-TATC
1 A-TAGTCACTATC
538838 ATAGTCACTATC
1 ATAGTCACTATC
538850 ATAGTCA
1 ATAGTCA
538857 ACAGTCAATA
Statistics
Matches: 127, Mismatches: 14, Indels: 38
0.71 0.08 0.21
Matches are distributed among these distances:
9 2 0.02
10 12 0.09
11 22 0.17
12 76 0.60
13 7 0.06
14 8 0.06
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.30
Consensus pattern (12 bp):
ATAGTCACTATC
Found at i:538774 original size:107 final size:108
Alignment explanation
Indices: 538594--538887 Score: 484
Period size: 107 Copynumber: 2.7 Consensus size: 108
538584 TAGTCACTAT
*
538594 CATATCATAGTCACTATCATAGTCAACAGTCAAC-ATCATAGTCAACAGTCAACATCATAGTCAA
1 CATATCATAGTCACTATCATA-TC-ATAGTC-ACTATCATAGTCAACAGTCAACATCATAGTCAA
538658 CAGTCAGTATCTCAGAGTTAGTATCTAATAGCCACTCTCATAGTCA
63 CAGTCAGTATCTCAGAGTTAGTATCTAATAGCCACTCTCATAGTCA
538704 C-TATCATAGTCACTATCATATCATAGTCACTATCATAGTCAACAGTCAACATCATAGTCAACAG
1 CATATCATAGTCACTATCATATCATAGTCACTATCATAGTCAACAGTCAACATCATAGTCAACAG
538768 TCAGTATCTCAGAGTTAGTATCTAATAGCCACTCTCATAGTCA
66 TCAGTATCTCAGAGTTAGTATCTAATAGCCACTCTCATAGTCA
*
538811 CTATCATAGCATAGTCACTATCATATCATAGTCACTATCATAGTCAACAGTCAATATCATAGTCA
1 C-AT-AT--CATAGTCACTATCATATCATAGTCACTATCATAGTCAACAGTCAACATCATAGTCA
*
538876 ACAGTCAATATC
62 ACAGTCAGTATC
538888 ATAGTCAACA
Statistics
Matches: 175, Mismatches: 3, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
106 2 0.01
107 82 0.47
108 2 0.01
109 20 0.11
110 3 0.02
112 66 0.38
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (108 bp):
CATATCATAGTCACTATCATATCATAGTCACTATCATAGTCAACAGTCAACATCATAGTCAACAG
TCAGTATCTCAGAGTTAGTATCTAATAGCCACTCTCATAGTCA
Found at i:538864 original size:7 final size:7
Alignment explanation
Indices: 538838--538935 Score: 81
Period size: 7 Copynumber: 15.4 Consensus size: 7
538828 CTATCATATC
538838 ATAGTCA
1 ATAGTCA
*
538845 CTA-TC-
1 ATAGTCA
538850 ATAGTCA
1 ATAGTCA
*
538857 ACAGTCA
1 ATAGTCA
538864 ATA-TC-
1 ATAGTCA
538869 ATAGTCA
1 ATAGTCA
*
538876 ACAGTCA
1 ATAGTCA
538883 ATA-TC-
1 ATAGTCA
538888 ATAGTCA
1 ATAGTCA
*
538895 ACAGTCA
1 ATAGTCA
538902 ATA-TC-
1 ATAGTCA
538907 ATAGTCA
1 ATAGTCA
*
538914 ACAGTCA
1 ATAGTCA
538921 ATA-TC-
1 ATAGTCA
538926 ATAGTCA
1 ATAGTCA
538933 ATA
1 ATA
538936 TATATCAACG
Statistics
Matches: 71, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
5 14 0.20
6 20 0.28
7 37 0.52
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (7 bp):
ATAGTCA
Found at i:538868 original size:19 final size:19
Alignment explanation
Indices: 538806--538933 Score: 183
Period size: 19 Copynumber: 6.9 Consensus size: 19
538796 CCACTCTCAT
* *
538806 AGTCACTATCATAG-C-AT
1 AGTCAATATCATAGTCAAC
* *
538823 AGTCACTATCATA-TC-AT
1 AGTCAATATCATAGTCAAC
*
538840 AGTCACTATCATAGTCAAC
1 AGTCAATATCATAGTCAAC
538859 AGTCAATATCATAGTCAAC
1 AGTCAATATCATAGTCAAC
538878 AGTCAATATCATAGTCAAC
1 AGTCAATATCATAGTCAAC
538897 AGTCAATATCATAGTCAAC
1 AGTCAATATCATAGTCAAC
538916 AGTCAATATCATAGTCAA
1 AGTCAATATCATAGTCAA
538934 TATATATCAA
Statistics
Matches: 106, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
17 29 0.27
18 2 0.02
19 75 0.71
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (19 bp):
AGTCAATATCATAGTCAAC
Found at i:538874 original size:12 final size:12
Alignment explanation
Indices: 538802--538936 Score: 70
Period size: 12 Copynumber: 11.1 Consensus size: 12
538792 ATAGCCACTC
*
538802 TCATAGTCACTA
1 TCATAGTCAATA
538814 TCATAG-C-ATA
1 TCATAGTCAATA
538824 GTCACTA-TC-ATA
1 -TCA-TAGTCAATA
*
538836 TCATAGTCACTA
1 TCATAGTCAATA
*
538848 TCATAGTCAACA
1 TCATAGTCAATA
538860 GTCAATA-TC-ATA
1 -TC-ATAGTCAATA
*
538872 GTCAACAGTCAATA
1 -TC-ATAGTCAATA
*
538886 TCATAGTCAACA
1 TCATAGTCAATA
538898 GTCAATA-TC-ATA
1 -TC-ATAGTCAATA
*
538910 GTCAACAGTCAATA
1 -TC-ATAGTCAATA
538924 TCATAGTCAATA
1 TCATAGTCAATA
538936 T
1 T
538937 ATATCAACGT
Statistics
Matches: 99, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
10 4 0.04
11 9 0.09
12 58 0.59
13 16 0.16
14 12 0.12
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (12 bp):
TCATAGTCAATA
Found at i:539273 original size:15 final size:12
Alignment explanation
Indices: 539243--539284 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
539233 TCATAGACGG
539243 TAATAATACAGT
1 TAATAATACAGT
539255 TAATAATACAGT
1 TAATAATACAGT
539267 TAATAATACAGT
1 TAATAATACAGT
*
539279 AAATAA
1 TAATAA
539285 AATGATGTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (12 bp):
TAATAATACAGT
Found at i:539444 original size:16 final size:16
Alignment explanation
Indices: 539420--539466 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
539410 ACAACATTAC
539420 AGAGGTTGTTTCAGAA
1 AGAGGTTGTTTCAGAA
*
539436 AGAGTTTGTTTCAGAA
1 AGAGGTTGTTTCAGAA
*
539452 AGAGGCTGTTTCAGA
1 AGAGGTTGTTTCAGA
539467 CAGACGCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.32
Consensus pattern (16 bp):
AGAGGTTGTTTCAGAA
Found at i:539479 original size:16 final size:16
Alignment explanation
Indices: 539444--539485 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
539434 AAAGAGTTTG
* * *
539444 TTTCAGAAAGAGGCTG
1 TTTCAGACAGACGCTA
539460 TTTCAGACAGACGCTA
1 TTTCAGACAGACGCTA
539476 TTTCAGACAG
1 TTTCAGACAG
539486 GTTTAAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (16 bp):
TTTCAGACAGACGCTA
Found at i:543227 original size:34 final size:34
Alignment explanation
Indices: 543181--543490 Score: 575
Period size: 34 Copynumber: 9.1 Consensus size: 34
543171 TCGATACCTC
*
543181 CCTGTGAATTGAAAGGTATAAAAGATAATGTCTA
1 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
* *
543215 CCCGTGAATTGAAAGGTATAAAAGATAATGTCTA
1 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
543249 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
1 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
543283 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
1 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
543317 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
1 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
543351 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
1 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
543385 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
1 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
543419 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
1 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
* *
543453 CCTGTGGATTGAAGGGTATAAAAGATAATATCTA
1 CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
543487 CCTG
1 CCTG
543491 CAGCATGGAC
Statistics
Matches: 271, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 271 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (34 bp):
CCTGTGGATTGAAAGGTATAAAAGATAATGTCTA
Found at i:544134 original size:18 final size:18
Alignment explanation
Indices: 544111--544151 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
544101 ATACTCTGAA
544111 TCCCCTACGATATGGTGT
1 TCCCCTACGATATGGTGT
544129 TCCCCTACGATATGGTGT
1 TCCCCTACGATATGGTGT
544147 TCCCC
1 TCCCC
544152 GATGTTATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.15, C:0.34, G:0.20, T:0.32
Consensus pattern (18 bp):
TCCCCTACGATATGGTGT
Found at i:545418 original size:78 final size:78
Alignment explanation
Indices: 544725--545403 Score: 1061
Period size: 78 Copynumber: 8.7 Consensus size: 78
544715 TTTGGTCACG
* * * *
544725 TTACATTCTCTATCTAATAGTGACGTCCCTATCACAAATCATCAGTAGAGGTTGTCATTGCGTCA
1 TTACAGTCTCTATCTAATAGTGACATCTCTATCACAAATCATCAGTAGAAGTTGTCATTGCGTCA
*
544790 CAATAGCTTCATA
66 CAATAGCGTCATA
** * * *
544803 TGGCAGTCTCTATCTAATAGTGACGTCCCTATCACAAATCATCAGTAAAAGTTGTCATTGCGTCA
1 TTACAGTCTCTATCTAATAGTGACATCTCTATCACAAATCATCAGTAGAAGTTGTCATTGCGTCA
544868 CAATAGCGTCATA
66 CAATAGCGTCATA
** * * *
544881 TGGCAGTCTCTATCTAATAGTGACGTCCCTATCACAAATCATCAGTAAAAGTTGTCATTGCGTCA
1 TTACAGTCTCTATCTAATAGTGACATCTCTATCACAAATCATCAGTAGAAGTTGTCATTGCGTCA
544946 CAATAGCGTCATA
66 CAATAGCGTCATA
* *
544959 TTACAGTCTCTATCTTATAGTGACATCTCTATCACGAATCATCAGTAGAAGTTGTCATTGCGTCA
1 TTACAGTCTCTATCTAATAGTGACATCTCTATCACAAATCATCAGTAGAAGTTGTCATTGCGTCA
*
545024 CAATAGCGGCATA
66 CAATAGCGTCATA
** * * * *
545037 TGGCAGTCTCTATCTAATAGTGACGTCCCTATCACAAATCATCAGTAAAAGTTGTCATTGCATCA
1 TTACAGTCTCTATCTAATAGTGACATCTCTATCACAAATCATCAGTAGAAGTTGTCATTGCGTCA
545102 CAATAGCGTCATA
66 CAATAGCGTCATA
* *
545115 TTACAGTCTCTATCTTATAGTGACATCTCTATCACGAATCATCAGTAGAAGTTGTCATTGCGTCA
1 TTACAGTCTCTATCTAATAGTGACATCTCTATCACAAATCATCAGTAGAAGTTGTCATTGCGTCA
545180 CAATAGCGTCATA
66 CAATAGCGTCATA
* * *
545193 TTACAGTCTCTATCTTATAGTGACATCTCTATCACGAATCATCAGTAGAGGTTGTCATTGCGTCA
1 TTACAGTCTCTATCTAATAGTGACATCTCTATCACAAATCATCAGTAGAAGTTGTCATTGCGTCA
545258 CAATAGCGTCATA
66 CAATAGCGTCATA
* *
545271 TTACAGTCTCTATCTTATAGTGACATCTCTATCACGAATCATCAGTAGAAGTTGTCATTGCGTCA
1 TTACAGTCTCTATCTAATAGTGACATCTCTATCACAAATCATCAGTAGAAGTTGTCATTGCGTCA
545336 CAATAGCGTCATA
66 CAATAGCGTCATA
*
545349 TTACAGTCTCTATCTAATAGTGGCATCTCTATCACAAATCATCAGTAGAAAGTTG
1 TTACAGTCTCTATCTAATAGTGACATCTCTATCACAAATCATCAGTAG-AAGTTG
545404 CGTCACAATA
Statistics
Matches: 564, Mismatches: 36, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
78 558 0.99
79 6 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (78 bp):
TTACAGTCTCTATCTAATAGTGACATCTCTATCACAAATCATCAGTAGAAGTTGTCATTGCGTCA
CAATAGCGTCATA
Found at i:545637 original size:6 final size:7
Alignment explanation
Indices: 545620--545646 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
545610 CAAAAATATT
545620 TTTTTTA
1 TTTTTTA
545627 TTTTTTA
1 TTTTTTA
545634 TTTTTTA
1 TTTTTTA
545641 TTTTTT
1 TTTTTT
545647 TTGGGTATAA
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:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:545637 original size:16 final size:16
Alignment explanation
Indices: 545616--545648 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
545606 AACTCAAAAA
545616 TATTTTTTTTATTTTT
1 TATTTTTTTTATTTTT
545632 TATTTTTTATT-TTTTT
1 TATTTTTT-TTATTTTT
545648 T
1 T
545649 GGGTATAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (16 bp):
TATTTTTTTTATTTTT
Found at i:545719 original size:31 final size:31
Alignment explanation
Indices: 545680--545867 Score: 367
Period size: 31 Copynumber: 6.1 Consensus size: 31
545670 TATCTCTATA
545680 TGCATTATAAATCTCTATAAGATCTTATCAC
1 TGCATTATAAATCTCTATAAGATCTTATCAC
*
545711 TGCTTTATAAATCTCTATAAGATCTTATCAC
1 TGCATTATAAATCTCTATAAGATCTTATCAC
545742 TGCATTATAAATCTCTATAAGATCTTATCAC
1 TGCATTATAAATCTCTATAAGATCTTATCAC
545773 TGCATTATAAATCTCTATAAGATCTTATCAC
1 TGCATTATAAATCTCTATAAGATCTTATCAC
545804 TGCATTATAAATCTCTATAAGATCTTATCAC
1 TGCATTATAAATCTCTATAAGATCTTATCAC
545835 TGCATTATAAATCTCTATAAGATCTTATCAC
1 TGCATTATAAATCTCTATAAGATCTTATCAC
545866 TG
1 TG
545868 TGTATCTAAG
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 155 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (31 bp):
TGCATTATAAATCTCTATAAGATCTTATCAC
Found at i:545735 original size:11 final size:10
Alignment explanation
Indices: 545685--545859 Score: 53
Period size: 10 Copynumber: 16.9 Consensus size: 10
545675 CTATATGCAT
545685 TATAAATCTC
1 TATAAATCTC
545695 TATAAGATCT-
1 TATAA-ATCTC
* * *
545705 TATCACTGCTT
1 TATAAAT-CTC
545716 TATAAATCTC
1 TATAAATCTC
545726 TATAAGATCT-
1 TATAA-ATCTC
* *
545736 TATCACTGCAT-
1 TATAAAT-C-TC
545747 TATAAATCTC
1 TATAAATCTC
545757 TATAAGATCT-
1 TATAA-ATCTC
* *
545767 TATCACTGCAT-
1 TATAAAT-C-TC
545778 TATAAATCTC
1 TATAAATCTC
545788 TATAAGATCT-
1 TATAA-ATCTC
* *
545798 TATCACTGCAT-
1 TATAAAT-C-TC
545809 TATAAATCTC
1 TATAAATCTC
545819 TATAAGATCT-
1 TATAA-ATCTC
* *
545829 TATCACTGCAT-
1 TATAAAT-C-TC
545840 TATAAATCTC
1 TATAAATCTC
545850 TATAAGATCT
1 TATAA-ATCT
545860 TATCACTGTG
Statistics
Matches: 124, Mismatches: 21, Indels: 39
0.67 0.11 0.21
Matches are distributed among these distances:
9 9 0.07
10 62 0.50
11 53 0.43
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (10 bp):
TATAAATCTC
Found at i:546596 original size:2 final size:2
Alignment explanation
Indices: 546589--546649 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
546579 CGATACGCCA
546589 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
546631 TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC T
546650 TCTTCTTCTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:546655 original size:3 final size:3
Alignment explanation
Indices: 546647--546688 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
546637 TCTCTCTCTC
546647 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
546689 AAATATACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:548468 original size:2 final size:2
Alignment explanation
Indices: 548461--548510 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
548451 GAATGCCATG
548461 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
548503 TC TC TC TC
1 TC TC TC TC
548511 GTTTGTGAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:548662 original size:30 final size:31
Alignment explanation
Indices: 548626--548685 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 31
548616 ACCTTTTAAA
548626 AGTTGTTAAAGATTAC-ATATTTATATATTT
1 AGTTGTTAAAGATTACAATATTTATATATTT
*
548656 AGTTGTTTAAGATTACATATATTTATATAT
1 AGTTGTTAAAGATTACA-ATATTTATATAT
548686 AAATCAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 15 0.56
32 12 0.44
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (31 bp):
AGTTGTTAAAGATTACAATATTTATATATTT
Found at i:549868 original size:16 final size:16
Alignment explanation
Indices: 549847--549877 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
549837 ATGGAATTAC
549847 TTCGTTACATCCGTAA
1 TTCGTTACATCCGTAA
*
549863 TTCGTTATATCCGTA
1 TTCGTTACATCCGTA
549878 TAACGAATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.42
Consensus pattern (16 bp):
TTCGTTACATCCGTAA
Found at i:550181 original size:15 final size:16
Alignment explanation
Indices: 550146--550196 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
550136 TCAAAATCAG
550146 TTCGTTATATCCTTAAA
1 TTCGTTATATCC-TAAA
*
550163 TTCGTTATATCC-GAA
1 TTCGTTATATCCTAAA
*
550178 TTCGTTATAACCATAAA
1 TTCGTTATATCC-TAAA
550195 TT
1 TT
550197 TTGCAAAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 13 0.45
17 16 0.55
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (16 bp):
TTCGTTATATCCTAAA
Found at i:551020 original size:15 final size:14
Alignment explanation
Indices: 550993--551030 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
550983 TTAAATCAGT
550993 AAAGTATAT-AACA
1 AAAGTATATAAACA
551006 AAAGTATATACAACA
1 AAAGTATATA-AACA
*
551021 AAAATATATA
1 AAAGTATATA
551031 TTTAAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
15 13 0.59
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (14 bp):
AAAGTATATAAACA
Found at i:552145 original size:70 final size:70
Alignment explanation
Indices: 552032--553387 Score: 1796
Period size: 70 Copynumber: 20.1 Consensus size: 70
552022 TGATGCCATG
* *
552032 GTACCATATAGTGGAGTCACAGGTAAACAGATCCACCTGACTTCTCCTTCTACTGACCAAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
552097 GTAAA
66 GTAAA
*
552102 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCAAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
552167 GTAAA
66 GTAAA
* *
552172 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACAGACGGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
552237 GTAAA
66 GTAAA
* *
552242 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACAGACGGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
552307 GTAAA
66 GTAAA
*
552312 GTACCATATAGTGGAGTCACAGGTAAACAGACCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
552377 GTAAA
66 GTAAA
*
552382 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACGGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
*
552447 ATAAA
66 GTAAA
*
552452 GTACTATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
552517 GTAAA
66 GTAAA
552522 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
552587 GTAAA
66 GTAAA
** *
552592 GTACCATATAGTGGAACCACAGGTAAATAGATCCCCCTGA------CTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
552651 GTAAA
66 GTAAA
**
552656 GTACCATATAGTGGAACCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
552721 GTAAA
66 GTAAA
*
552726 GTACCATATAGTGGAGTCACAGGTAAATAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
552791 GTAAA
66 GTAAA
** *
552796 GTACCATATAGTGGAACCACAGGTAAATAGAT---CC---CTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
552855 GTAAA
66 GTAAA
** *
552860 GTACCATATAGTGGAACCACAGGT----A-A-CCACCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
552919 GTAAA
66 GTAAA
*
552924 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCGTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
**
552989 AGTGGA
66 -GTAAA
* * * * *** * * ** * *
552995 GT--C--ACAG-GTA--AACAGATCCCCCTGA----CTTTCCTTCTAC-T-GA----CCGAGTTA
1 GTACCATATAGTGGAGTCACAGGT-AAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTA
*
553043 TATAAA
65 TGTAAA
553049 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
**
553114 AGTGGA
66 -GTAAA
* * * * * ** * *
553120 GT--C--ACAG-GTA--AACA-G--ATC---CCCCCGACTTTCCTTCTAC-T-GA----CCGAGT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCC--C-TGACTTCTCCTTCTACTGACCGAGT
*
553166 TATATAAA
63 TATGTAAA
553174 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTT-TCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
553238 GTAAA
66 GTAAA
553243 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
553308 GTAAA
66 GTAAA
*
553313 GTACCATATAGTGGAGTCACAGGTAAATAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
553378 GTAAA
66 GTAAA
553383 GTACC
1 GTACC
553388 TACATTATAG
Statistics
Matches: 1141, Mismatches: 84, Indels: 122
0.85 0.06 0.09
Matches are distributed among these distances:
54 8 0.01
55 18 0.02
56 2 0.00
58 10 0.01
59 7 0.01
60 7 0.01
61 27 0.02
62 1 0.00
63 3 0.00
64 192 0.17
65 6 0.01
66 5 0.00
67 12 0.01
68 1 0.00
69 59 0.05
70 774 0.68
71 9 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (70 bp):
GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
GTAAA
Found at i:552284 original size:140 final size:140
Alignment explanation
Indices: 552032--553387 Score: 2117
Period size: 140 Copynumber: 10.0 Consensus size: 140
552022 TGATGCCATG
* *
552032 GTACCATATAGTGGAGTCACAGGTAAACAGATCCACCTGACTTCTCCTTCTACTGACCAAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
*
552097 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCAA
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
552162 GTTATGTAAA
131 GTTATGTAAA
* *
552172 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACAGACGGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
* *
552237 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACAGACGGA
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
552302 GTTATGTAAA
131 GTTATGTAAA
*
552312 GTACCATATAGTGGAGTCACAGGTAAACAGACCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
*
552377 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACGGA
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
*
552442 GTTATATAAA
131 GTTATGTAAA
*
552452 GTACTATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
552517 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
552582 GTTATGTAAA
131 GTTATGTAAA
** *
552592 GTACCATATAGTGGAACCACAGGTAAATAGATCCCCCTGA------CTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
**
552651 GTAAAGTACCATATAGTGGAACCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
552716 GTTATGTAAA
131 GTTATGTAAA
*
552726 GTACCATATAGTGGAGTCACAGGTAAATAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
** *
552791 GTAAAGTACCATATAGTGGAACCACAGGTAAATAGAT---CC---CTTCTCCTTCTACTGACCGA
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
552850 GTTATGTAAA
131 GTTATGTAAA
** *
552860 GTACCATATAGTGGAACCACAGGT----A-A-CCACCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
*
552919 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCGTCTACTGACC--
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
552982 -----G---A
131 GTTATGTAAA
552984 GT----TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTT-TCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
*
553044 ATAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACC--
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
553107 -----G---A
131 GTTATGTAAA
*
553109 GT----TATAGTGGAGTCACAGGTAAACAGATCCCCCCGACTT-TCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
*
553169 ATAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTT-TCCTTCTACTGACCGA
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
553233 GTTATGTAAA
131 GTTATGTAAA
553243 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
*
553308 GTAAAGTACCATATAGTGGAGTCACAGGTAAATAGATCCCCCTGACTTCTCCTTCTACTGACCGA
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
553373 GTTATGTAAA
131 GTTATGTAAA
553383 GTACC
1 GTACC
553388 TACATTATAG
Statistics
Matches: 1141, Mismatches: 41, Indels: 68
0.91 0.03 0.05
Matches are distributed among these distances:
120 16 0.01
124 18 0.02
125 192 0.17
126 10 0.01
127 1 0.00
128 66 0.06
129 1 0.00
130 1 0.00
131 3 0.00
134 202 0.18
137 2 0.00
138 36 0.03
139 67 0.06
140 526 0.46
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (140 bp):
GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
GTTATGTAAA
Found at i:552394 original size:210 final size:209
Alignment explanation
Indices: 552032--553387 Score: 2118
Period size: 210 Copynumber: 6.7 Consensus size: 209
552022 TGATGCCATG
* *
552032 GTACCATATAGTGGAGTCACAGGTAAACAGATCCACCTGACTTCTCCTTCTACTGACCAAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
*
552097 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCAA
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
*
552162 GTTATGTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACAG
131 GTTATGTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTT-TCCTTCTACTG
*
552227 ACGGAGTTATGTAAA
195 ACCGAGTTATGTAAA
* *
552242 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACAGACGGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
*
552307 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGACCCCCCTGACTTCTCCTTCTACTGACCGA
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
552372 GTTATGTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTG
131 GTTATGTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTT-TCCTTCTACTG
* *
552437 ACGGAGTTATATAAA
195 ACCGAGTTATGTAAA
*
552452 GTACTATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
552517 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
** *
552582 GTTATGTAAAGTACCATATAGTGGAACCACAGGTAAATAGATCCCCCTGA-----CTTCTACTGA
131 GTTATGTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTTCCTTCTACTGA
552642 CCGAGTTATGTAAA
196 CCGAGTTATGTAAA
**
552656 GTACCATATAGTGGAACCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
*
552721 GTAAAGTACCATATAGTGGAGTCACAGGTAAATAGATCCCCCTGACTTCTCCTTCTACTGACCGA
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
** * *
552786 GTTATGTAAAGTACCATATAGTGGAACCACAGGTAAATAGAT--CCCT---TCTCCTTCTACTGA
131 GTTATGTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTTCCTTCTACTGA
552846 CCGAGTTATGTAAA
196 CCGAGTTATGTAAA
** *
552860 GTACCATATAGTGGAACCACAGGT----A-A-CCACCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
*
552919 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCGTCTACTGACC--
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
552982 -----G---AGT----TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTTCCTTCTACTGA
131 GTTATGTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTTCCTTCTACTGA
*
553035 CCGAGTTATATAAA
196 CCGAGTTATGTAAA
553049 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACC-------
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
*
553107 G---AGT----TATAGTGGAGTCACAGGTAAACAGATCCCCCCGACTT-TCCTTCTACTGACCGA
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
*
553164 GTTATATAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTTCCTTCTACTGA
131 GTTATGTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTTCCTTCTACTGA
553229 CCGAGTTATGTAAA
196 CCGAGTTATGTAAA
553243 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
1 GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
*
553308 GTAAAGTACCATATAGTGGAGTCACAGGTAAATAGATCCCCCTGACTTCTCCTTCTACTGACCGA
66 GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
553373 GTTATGTAAAGTACC
131 GTTATGTAAAGTACC
553388 TACATTATAG
Statistics
Matches: 1063, Mismatches: 39, Indels: 89
0.89 0.03 0.07
Matches are distributed among these distances:
180 13 0.01
181 36 0.03
184 23 0.02
185 3 0.00
186 4 0.00
188 4 0.00
189 48 0.05
190 3 0.00
191 1 0.00
193 1 0.00
194 121 0.11
195 25 0.02
198 93 0.09
199 1 0.00
200 1 0.00
201 1 0.00
202 4 0.00
204 241 0.23
208 35 0.03
209 30 0.03
210 375 0.35
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (209 bp):
GTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTAT
GTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGA
GTTATGTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTTCCTTCTACTGA
CCGAGTTATGTAAA
Found at i:552997 original size:56 final size:55
Alignment explanation
Indices: 552930--553044 Score: 212
Period size: 56 Copynumber: 2.1 Consensus size: 55
552920 TAAAGTACCA
552930 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCGTCTACTGACCGAGT
1 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTT-TCCGTCTACTGACCGAGT
*
552986 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTTCCTTCTACTGACCGAGT
1 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTTCCGTCTACTGACCGAGT
553041 TATA
1 TATA
553045 TAAAGTACCA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 21 0.36
56 37 0.64
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (55 bp):
TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTTCCGTCTACTGACCGAGT
Found at i:553066 original size:125 final size:126
Alignment explanation
Indices: 552732--553377 Score: 880
Period size: 125 Copynumber: 5.0 Consensus size: 126
552722 TAAAGTACCA
*
552732 TATAGTGGAGTCACAGGTAAATAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTATGTAAAG
1 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTATGTAAAG
** *
552797 TACCATATAGTGGAACCACAGGTAAATAGAT---CC---CTTCTCCTTCTACTGACCGAGT
66 TACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGT
** * * * *
552852 TAT-GTAAAGTACCATATAGTGGAACCACAGGTAACCACCTGACTTCTCCTTCTACTGACCGAGT
1 TATAGTGGAGT--C--ACAG-GTAA--ACA-G-ATCCCCCTGACTTCTCCTTCTACTGACCGAGT
*
552916 TATGTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCGTCTACTGAC
57 TATGTAAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGAC
552981 CGAGT
122 CGAGT
*
552986 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTT-TCCTTCTACTGACCGAGTTATATAAAG
1 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTATGTAAAG
553050 TACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGT
66 TACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGT
* *
553111 TATAGTGGAGTCACAGGTAAACAGATCCCCCCGACTT-TCCTTCTACTGACCGAGTTATATAAAG
1 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTATGTAAAG
553175 TACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTT-TCCTTCTACTGACCGAGTTATG
66 TACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACC-------G
553239 TAAAGT
124 ---AGT
553245 ACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTATGT
1 ----TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTATGT
*
553310 AAAGTACCATATAGTGGAGTCACAGGTAAATAGATCCCCCTGACTTCTCCTTCTACTGACCGAGT
62 AAAGTACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGT
553375 TAT
1 TAT
553378 GTAAAGTACC
Statistics
Matches: 471, Mismatches: 23, Indels: 58
0.85 0.04 0.11
Matches are distributed among these distances:
119 5 0.01
120 3 0.01
121 1 0.00
123 3 0.01
124 17 0.04
125 191 0.41
126 16 0.03
127 2 0.00
128 70 0.15
130 6 0.01
131 6 0.01
133 2 0.00
134 27 0.06
135 5 0.01
138 36 0.08
139 67 0.14
140 14 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (126 bp):
TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTATGTAAAG
TACCATATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGT
Found at i:553122 original size:56 final size:55
Alignment explanation
Indices: 553055--553169 Score: 212
Period size: 56 Copynumber: 2.1 Consensus size: 55
553045 TAAAGTACCA
*
553055 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGT
1 TATAGTGGAGTCACAGGTAAACAGATCCCCCCGACTT-TCCTTCTACTGACCGAGT
553111 TATAGTGGAGTCACAGGTAAACAGATCCCCCCGACTTTCCTTCTACTGACCGAGT
1 TATAGTGGAGTCACAGGTAAACAGATCCCCCCGACTTTCCTTCTACTGACCGAGT
553166 TATA
1 TATA
553170 TAAAGTACCA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 22 0.38
56 36 0.62
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (55 bp):
TATAGTGGAGTCACAGGTAAACAGATCCCCCCGACTTTCCTTCTACTGACCGAGT
Found at i:553222 original size:69 final size:70
Alignment explanation
Indices: 553111--553387 Score: 513
Period size: 69 Copynumber: 4.0 Consensus size: 70
553101 CTGACCGAGT
* *
553111 TATAGTGGAGTCACAGGTAAACAGATCCCCCCGACTT-TCCTTCTACTGACCGAGTTATATAAAG
1 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTATGTAAAG
553175 TACCA
66 TACCA
553180 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTT-TCCTTCTACTGACCGAGTTATGTAAAG
1 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTATGTAAAG
553244 TACCA
66 TACCA
553249 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTATGTAAAG
1 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTATGTAAAG
553314 TACCA
66 TACCA
*
553319 TATAGTGGAGTCACAGGTAAATAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTATGTAAAG
1 TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTATGTAAAG
553384 TACC
66 TACC
553388 TACATTATAG
Statistics
Matches: 204, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
69 104 0.51
70 100 0.49
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (70 bp):
TATAGTGGAGTCACAGGTAAACAGATCCCCCTGACTTCTCCTTCTACTGACCGAGTTATGTAAAG
TACCA
Found at i:559403 original size:22 final size:22
Alignment explanation
Indices: 559378--559613 Score: 141
Period size: 21 Copynumber: 10.9 Consensus size: 22
559368 CTTCTGTAAT
*
559378 TTTTCCTCTGGAA-CTTTGTTAC
1 TTTTCCTCT-AAATCTTTGTTAC
* *
559400 TTTT-CTCTGAATCTTTGTTAT
1 TTTTCCTCTAAATCTTTGTTAC
* *
559421 TTTTTCTCTAAACCTTAT-TT-C
1 TTTTCCTCTAAATCTT-TGTTAC
*
559442 TTTTCCTCTAAATTTTTGTTAC
1 TTTTCCTCTAAATCTTTGTTAC
* *** *
559464 TTTTCCTGTTTGTCTTTGTT-T
1 TTTTCCTCTAAATCTTTGTTAC
* *
559485 TTTTCCTCTGAATCTTTGTTAT
1 TTTTCCTCTAAATCTTTGTTAC
* *
559507 TTTTTCTCTAAACCTTAT-TT-C
1 TTTTCCTCTAAATCTT-TGTTAC
* *
559528 TTTTCCTCTAAATTTTTTGTTAT
1 TTTTCCTCTAAA-TCTTTGTTAC
* *** *
559551 TTTTCCTGTTTGTCTTTGTT-T
1 TTTTCCTCTAAATCTTTGTTAC
*
559572 TTTTCCTCTGAATCTTTGTTA-
1 TTTTCCTCTAAATCTTTGTTAC
559593 TTTTCCCTCTGAAA-CTTTGTT
1 TTTT-CCTCT-AAATCTTTGTT
559614 TACAGGATTG
Statistics
Matches: 166, Mismatches: 35, Indels: 26
0.73 0.15 0.11
Matches are distributed among these distances:
20 4 0.02
21 80 0.48
22 70 0.42
23 12 0.07
ACGTcount: A:0.13, C:0.19, G:0.08, T:0.60
Consensus pattern (22 bp):
TTTTCCTCTAAATCTTTGTTAC
Found at i:559523 original size:86 final size:87
Alignment explanation
Indices: 559400--559596 Score: 371
Period size: 87 Copynumber: 2.3 Consensus size: 87
559390 ACTTTGTTAC
559400 TTTT-CTCTGAATCTTTGTTATTTTTTCTCTAAACCTTATTTCTTTTCCTCTAAA-TTTTTGTTA
1 TTTTCCTCTGAATCTTTGTTATTTTTTCTCTAAACCTTATTTCTTTTCCTCTAAATTTTTTGTTA
559463 CTTTTCCTGTTTGTCTTTGTTT
66 CTTTTCCTGTTTGTCTTTGTTT
559485 TTTTCCTCTGAATCTTTGTTATTTTTTCTCTAAACCTTATTTCTTTTCCTCTAAATTTTTTGTTA
1 TTTTCCTCTGAATCTTTGTTATTTTTTCTCTAAACCTTATTTCTTTTCCTCTAAATTTTTTGTTA
*
559550 TTTTTCCTGTTTGTCTTTGTTT
66 CTTTTCCTGTTTGTCTTTGTTT
559572 TTTTCCTCTGAATCTTTGTTATTTT
1 TTTTCCTCTGAATCTTTGTTATTTT
559597 CCCTCTGAAA
Statistics
Matches: 109, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
85 4 0.04
86 50 0.46
87 55 0.50
ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63
Consensus pattern (87 bp):
TTTTCCTCTGAATCTTTGTTATTTTTTCTCTAAACCTTATTTCTTTTCCTCTAAATTTTTTGTTA
CTTTTCCTGTTTGTCTTTGTTT
Found at i:559611 original size:43 final size:43
Alignment explanation
Indices: 559376--559614 Score: 205
Period size: 43 Copynumber: 5.5 Consensus size: 43
559366 TACTTCTGTA
* *
559376 ATTTTTCCTCTGGAACTTTGTTACTTTT-CTCTGAATCTTTGTT
1 ATTTTTCCTCTGAAACTTTGTT-TTTTTCCTCTGAATCTTTGTT
* * * * *
559419 ATTTTTTCTCT-AAACCTTATTTCTTTTCCTCTAAATTTTTGTT
1 ATTTTTCCTCTGAAACTTTGTTT-TTTTCCTCTGAATCTTTGTT
* * ****
559462 ACTTTTCCTGTTTGTCTTTGTTTTTTTCCTCTGAATCTTTGTT
1 ATTTTTCCTCTGAAACTTTGTTTTTTTCCTCTGAATCTTTGTT
* * * * *
559505 ATTTTTTCTCT-AAACCTTATTTCTTTTCCTCTAAATTTTTTGTT
1 ATTTTTCCTCTGAAACTTTGTTT-TTTTCCTCTGAA-TCTTTGTT
* ****
559549 ATTTTTCCTGTTTGTCTTTGTTTTTTTCCTCTGAATCTTTGTT
1 ATTTTTCCTCTGAAACTTTGTTTTTTTCCTCTGAATCTTTGTT
*
559592 ATTTTCCCTCTGAAACTTTGTTT
1 ATTTTTCCTCTGAAACTTTGTTT
559615 ACAGGATTGC
Statistics
Matches: 148, Mismatches: 42, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
42 17 0.11
43 92 0.62
44 33 0.22
45 6 0.04
ACGTcount: A:0.13, C:0.18, G:0.08, T:0.60
Consensus pattern (43 bp):
ATTTTTCCTCTGAAACTTTGTTTTTTTCCTCTGAATCTTTGTT
Found at i:559762 original size:32 final size:32
Alignment explanation
Indices: 559726--559863 Score: 154
Period size: 32 Copynumber: 4.1 Consensus size: 32
559716 ATCTGGTGAG
**
559726 TACAAACTACATTCTTCTAATCAGTCCTAACT
1 TACAAACTACACCCTTCTAATCAGTCCTAACT
*
559758 TACAAACTACACCCTTCTAACCAGTCCTAACT
1 TACAAACTACACCCTTCTAATCAGTCCTAACT
*
559790 TACACAA-T-CAGTCCTAACTTACACAATCAGTCCTAACT
1 TACA-AACTACA--CC---CTT-C-TAATCAGTCCTAACT
559828 TACAAACTACACCCTTCTAATCAGTCCTAACT
1 TACAAACTACACCCTTCTAATCAGTCCTAACT
559860 TACA
1 TACA
559864 CAATCAGTCC
Statistics
Matches: 90, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
31 2 0.02
32 52 0.58
33 5 0.06
34 3 0.03
36 3 0.03
37 5 0.06
38 18 0.20
39 2 0.02
ACGTcount: A:0.36, C:0.33, G:0.04, T:0.28
Consensus pattern (32 bp):
TACAAACTACACCCTTCTAATCAGTCCTAACT
Found at i:559850 original size:51 final size:51
Alignment explanation
Indices: 559795--559916 Score: 199
Period size: 51 Copynumber: 2.4 Consensus size: 51
559785 TAACTTACAC
559795 AATCAGTCCTAACTTACACAATCAGTCCTAACTTACAAACTACACCCTTCT
1 AATCAGTCCTAACTTACACAATCAGTCCTAACTTACAAACTACACCCTTCT
* * * *
559846 AATCAGTCCTAACTTACACAATCAGTCCTAACTTACACATTACATCCTTTT
1 AATCAGTCCTAACTTACACAATCAGTCCTAACTTACAAACTACACCCTTCT
*
559897 AATCTGTCCTAACTTACACA
1 AATCAGTCCTAACTTACACA
559917 TCACATCCTT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.34, C:0.31, G:0.04, T:0.30
Consensus pattern (51 bp):
AATCAGTCCTAACTTACACAATCAGTCCTAACTTACAAACTACACCCTTCT
Found at i:559857 original size:70 final size:70
Alignment explanation
Indices: 559744--559884 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
559734 ACATTCTTCT
559744 AATCAGTCCTAACTTACAAACTACACCCTTCTAACCAGTCCTAACTTACACAATCAGTCCTAACT
1 AATCAGTCCTAACTTACAAACTACACCCTTCTAACCAGTCCTAACTTACACAATCAGTCCTAACT
559809 TACAC
66 TACAC
*
559814 AATCAGTCCTAACTTACAAACTACACCCTTCTAATCAGTCCTAACTTACACAATCAGTCCTAACT
1 AATCAGTCCTAACTTACAAACTACACCCTTCTAACCAGTCCTAACTTACACAATCAGTCCTAACT
559879 TACAC
66 TACAC
559884 A
1 A
559885 TTACATCCTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.36, C:0.33, G:0.04, T:0.26
Consensus pattern (70 bp):
AATCAGTCCTAACTTACAAACTACACCCTTCTAACCAGTCCTAACTTACACAATCAGTCCTAACT
TACAC
Found at i:559893 original size:19 final size:19
Alignment explanation
Indices: 559779--559884 Score: 129
Period size: 19 Copynumber: 5.9 Consensus size: 19
559769 CCCTTCTAAC
559779 CAGTCCTAACTTACACAAT
1 CAGTCCTAACTTACACAAT
559798 CAGTCCTAACTTACACAAT
1 CAGTCCTAACTTACACAAT
559817 CAGTCCTAACTTACA-AACT
1 CAGTCCTAACTTACACAA-T
*
559836 ACA--CC---CTT-C-TAAT
1 -CAGTCCTAACTTACACAAT
559849 CAGTCCTAACTTACACAAT
1 CAGTCCTAACTTACACAAT
559868 CAGTCCTAACTTACACA
1 CAGTCCTAACTTACACA
559885 TTACATCCTT
Statistics
Matches: 76, Mismatches: 1, Indels: 20
0.78 0.01 0.21
Matches are distributed among these distances:
12 2 0.03
13 1 0.01
14 5 0.07
15 3 0.04
17 3 0.04
18 5 0.07
19 55 0.72
20 2 0.03
ACGTcount: A:0.36, C:0.33, G:0.05, T:0.26
Consensus pattern (19 bp):
CAGTCCTAACTTACACAAT
Found at i:559911 original size:32 final size:32
Alignment explanation
Indices: 559865--559926 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
559855 TAACTTACAC
*
559865 AATCAGTCCTAACTTACACATTACATCCTTTT
1 AATCAGTCCTAACTTACACATCACATCCTTTT
*
559897 AATCTGTCCTAACTTACACATCACATCCTT
1 AATCAGTCCTAACTTACACATCACATCCTT
559927 CTAAATACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.31, C:0.31, G:0.03, T:0.35
Consensus pattern (32 bp):
AATCAGTCCTAACTTACACATCACATCCTTTT
Found at i:560198 original size:32 final size:32
Alignment explanation
Indices: 560175--560741 Score: 819
Period size: 32 Copynumber: 17.6 Consensus size: 32
560165 CTTACACATT
560175 ACATCCTTCTAATCAGTCCTAACTTACATACC
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
* *
560207 ACATCCTTCTAATCGGTCCTAACTAACATACC
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
560239 ACATCCTTCTAATCAGTCCTAACTTACATACC
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
* * * *
560271 ACACCCTTTTTATCAGTCCTTACTTACACATACC
1 ACATCCTTCTAATCAGTCCTAACTT--ACATACC
560305 ACATCCTTCTAATCAGTCCTAACTTACATACC
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
560337 ACATCCTTCTAATCAGTCCTAACTTACATACC
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
* * *
560369 ACACCCTTTTTATCAGTCCTAACTTACACATACC
1 ACATCCTTCTAATCAGTCCTAACTT--ACATACC
* * *
560403 ACATCCTTCTAATCAGTCTTAACTCACATTCC
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
* * * * **
560435 ATATCCTTTTAATCAGTCCTATCTTACACATT
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
560467 ACATCCTTCTAATCAGTCCTAACTTACATACC
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
* * **
560499 ATATCCTTCTAATCAGTCCTAACTTACACATT
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
* *
560531 ACATTCTTCTAATCAGTCCTAACTTACACACC
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
* *
560563 ACATCCTTCTTATCAGTCCTAACTTACACACC
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
* *
560595 ACATCTTTCTTATCAGTCCTAACTTACATACC
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
* *
560627 ATATCCTTTTAATCAGTCCTAACTTACATACC
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
560659 ACATCCTTCTAATCAGTCCTAACTTACATACC
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
560691 ACATCCTTCTAATCAGTCCTAACTTACATACC
1 ACATCCTTCTAATCAGTCCTAACTTACATACC
*
560723 ACATCCTTCTTATCAGTCC
1 ACATCCTTCTAATCAGTCC
560742 CTTTGCAGAA
Statistics
Matches: 476, Mismatches: 55, Indels: 8
0.88 0.10 0.01
Matches are distributed among these distances:
32 421 0.88
34 55 0.12
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.34
Consensus pattern (32 bp):
ACATCCTTCTAATCAGTCCTAACTTACATACC
Found at i:572965 original size:12 final size:12
Alignment explanation
Indices: 572948--572973 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
572938 ACCTTATCGG
572948 AATAACTTTAAT
1 AATAACTTTAAT
572960 AATAACTTTAAT
1 AATAACTTTAAT
572972 AA
1 AA
572974 GGGGCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
AATAACTTTAAT
Found at i:583070 original size:7 final size:7
Alignment explanation
Indices: 583045--583111 Score: 80
Period size: 7 Copynumber: 9.6 Consensus size: 7
583035 TTTAGATATT
583045 GAATCTC
1 GAATCTC
*
583052 GAATTTC
1 GAATCTC
*
583059 AAATCTC
1 GAATCTC
583066 GAATCTC
1 GAATCTC
* *
583073 GTATTTC
1 GAATCTC
583080 GAATCTC
1 GAATCTC
* *
583087 GTATTTC
1 GAATCTC
583094 GAATCTC
1 GAATCTC
583101 GAATCTC
1 GAATCTC
583108 GAAT
1 GAAT
583112 GATCCTTCTC
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.36
Consensus pattern (7 bp):
GAATCTC
Found at i:583070 original size:21 final size:21
Alignment explanation
Indices: 583045--583111 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
583035 TTTAGATATT
*
583045 GAATCTCGAATTTCAAATCTC
1 GAATCTCGAATTTCGAATCTC
*
583066 GAATCTCGTATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
* * *
583087 GTATTTCGAATCTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
583108 GAAT
1 GAAT
583112 GATCCTTCTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.36
Consensus pattern (21 bp):
GAATCTCGAATTTCGAATCTC
Found at i:583582 original size:22 final size:22
Alignment explanation
Indices: 583554--583684 Score: 244
Period size: 22 Copynumber: 6.0 Consensus size: 22
583544 TTCGAGCCGA
583554 AAACTCATATTGTCTAGGGTTT
1 AAACTCATATTGTCTAGGGTTT
583576 AAACTCATATTGTCTAGGGTTT
1 AAACTCATATTGTCTAGGGTTT
*
583598 AAACTCATATTGACTAGGGTTT
1 AAACTCATATTGTCTAGGGTTT
583620 AAACTCATATTGTCTAGGGTTT
1 AAACTCATATTGTCTAGGGTTT
583642 AAACTCATATTGTCTAGGGTTT
1 AAACTCATATTGTCTAGGGTTT
*
583664 AAACTCATATTGTCTGGGGTT
1 AAACTCATATTGTCTAGGGTT
583685 CTTTAAGTTA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 106 1.00
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (22 bp):
AAACTCATATTGTCTAGGGTTT
Found at i:586046 original size:29 final size:28
Alignment explanation
Indices: 586009--586075 Score: 109
Period size: 29 Copynumber: 2.4 Consensus size: 28
585999 CGATAGTTAC
586009 TTTT-CTTTATTGACTTTACGTTTCCTT
1 TTTTACTTTATTGACTTTACGTTTCCTT
*
586036 TGTTTACTTTACTGACTTTACGTTTCCTT
1 T-TTTACTTTATTGACTTTACGTTTCCTT
586065 TTTTACTTTAT
1 TTTTACTTTAT
586076 CTTAATTCAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 1 0.03
28 12 0.33
29 23 0.64
ACGTcount: A:0.13, C:0.18, G:0.07, T:0.61
Consensus pattern (28 bp):
TTTTACTTTATTGACTTTACGTTTCCTT
Found at i:587359 original size:116 final size:116
Alignment explanation
Indices: 587150--587729 Score: 968
Period size: 116 Copynumber: 5.0 Consensus size: 116
587140 CCGGTGCTTT
587150 ATAACAACCAACAGGAACATAATAAACGTCTTCAACAACCAGTGTCTGAATAGACTGACCGGAAC
1 ATAACAACCAACAGGAACATAATAAACGTCTTCAACAACCAGTGTCTGAATAGACTGACCGGAAC
587215 CTTAAAGCAG-AGAGTACAACTGATGATTACAACAATCTATAACAACCAACA
66 CTTAAAGCAGAAGA-TACAACTGATGATTACAACAATCTATAACAACCAACA
* *
587266 ATAACAACCAACAGGAACATAATGAACGTCTCCAACAACCAGTGTCTGAATAGACTGACCGGAAC
1 ATAACAACCAACAGGAACATAATAAACGTCTTCAACAACCAGTGTCTGAATAGACTGACCGGAAC
*
587331 CTTAAAGCAGAAGATACAACTGAGGATTACAACAATCTATAACAACCAACA
66 CTTAAAGCAGAAGATACAACTGATGATTACAACAATCTATAACAACCAACA
* * *
587382 ATAACAACCAACAGGAACATAATGAACTTCTTCAACACCCAGTGTCTGAATAGACTGACCGGAAC
1 ATAACAACCAACAGGAACATAATAAACGTCTTCAACAACCAGTGTCTGAATAGACTGACCGGAAC
*
587447 CTTAAAGCAGAAGATACAACTGAGGATTACAACAATCTATAACAACCAACCA
66 CTTAAAGCAGAAGATACAACTGATGATTACAACAATCTATAACAACCAA-CA
* *
587499 TTATAACAACCAACAGGAACATAATAAACGTCTCCAACAACCAGTGTCTGAATAGACTGACCGAA
1 --ATAACAACCAACAGGAACATAATAAACGTCTTCAACAACCAGTGTCTGAATAGACTGACCGGA
*
587564 ACCTTAAAACAG-AGAGTACAACTGATGATTACAACAATCTATAACAACCAACA
64 ACCTTAAAGCAGAAGA-TACAACTGATGATTACAACAATCTATAACAACCAACA
* *
587617 ATAACAACCAACAGGAACATAATTAACGTCTTCAACAACCAGTGTCTGAATAGACTGACCGAAAC
1 ATAACAACCAACAGGAACATAATAAACGTCTTCAACAACCAGTGTCTGAATAGACTGACCGGAAC
*
587682 CTTAAAGCAGAAAGA-ACCACTGATGATTACAACAATCTATAACAACCA
66 CTTAAAGCAG-AAGATACAACTGATGATTACAACAATCTATAACAACCA
587730 GTGTCTAAAT
Statistics
Matches: 440, Mismatches: 17, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
116 324 0.74
117 5 0.01
118 8 0.02
119 103 0.23
ACGTcount: A:0.45, C:0.24, G:0.13, T:0.18
Consensus pattern (116 bp):
ATAACAACCAACAGGAACATAATAAACGTCTTCAACAACCAGTGTCTGAATAGACTGACCGGAAC
CTTAAAGCAGAAGATACAACTGATGATTACAACAATCTATAACAACCAACA
Found at i:587616 original size:235 final size:232
Alignment explanation
Indices: 587150--587729 Score: 986
Period size: 235 Copynumber: 2.5 Consensus size: 232
587140 CCGGTGCTTT
587150 ATAACAACCAACAGGAACATAATAAACGTCTTCAACAACCAGTGTCTGAATAGACTGACCGGAAC
1 ATAACAACCAACAGGAACATAATAAACGTCTTCAACAACCAGTGTCTGAATAGACTGACCGGAAC
587215 CTTAAAGCAG-AGAGTACAACTGATGATTACAACAATCTATAACAACCAACAATAACAACCAACA
66 CTTAAAGCAGAAGA-TACAACTGATGATTACAACAATCTATAACAACCAACAATAACAACCAACA
* * *
587279 GGAACATAATGAACGTCTCCAACAACCAGTGTCTGAATAGACTGACCGGAACCTTAAAGCAGAAG
130 GGAACATAATAAACGTCTCCAACAACCAGTGTCTGAATAGACTGACCGAAACCTTAAAACAGAAG
587344 ATACAACTGAGGATTACAACAATCTATAACAACCAACA
195 ATACAACTGAGGATTACAACAATCTATAACAACCAACA
* * *
587382 ATAACAACCAACAGGAACATAATGAACTTCTTCAACACCCAGTGTCTGAATAGACTGACCGGAAC
1 ATAACAACCAACAGGAACATAATAAACGTCTTCAACAACCAGTGTCTGAATAGACTGACCGGAAC
*
587447 CTTAAAGCAGAAGATACAACTGAGGATTACAACAATCTATAACAACCAACCATTATAACAACCAA
66 CTTAAAGCAGAAGATACAACTGATGATTACAACAATCTATAACAACCAA-CA--ATAACAACCAA
587512 CAGGAACATAATAAACGTCTCCAACAACCAGTGTCTGAATAGACTGACCGAAACCTTAAAACAG-
128 CAGGAACATAATAAACGTCTCCAACAACCAGTGTCTGAATAGACTGACCGAAACCTTAAAACAGA
*
587576 AGAGTACAACTGATGATTACAACAATCTATAACAACCAACA
193 AGA-TACAACTGAGGATTACAACAATCTATAACAACCAACA
* *
587617 ATAACAACCAACAGGAACATAATTAACGTCTTCAACAACCAGTGTCTGAATAGACTGACCGAAAC
1 ATAACAACCAACAGGAACATAATAAACGTCTTCAACAACCAGTGTCTGAATAGACTGACCGGAAC
*
587682 CTTAAAGCAGAAAGA-ACCACTGATGATTACAACAATCTATAACAACCA
66 CTTAAAGCAG-AAGATACAACTGATGATTACAACAATCTATAACAACCA
587730 GTGTCTAAAT
Statistics
Matches: 328, Mismatches: 14, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
232 106 0.32
233 5 0.02
234 3 0.01
235 210 0.64
236 4 0.01
ACGTcount: A:0.45, C:0.24, G:0.13, T:0.18
Consensus pattern (232 bp):
ATAACAACCAACAGGAACATAATAAACGTCTTCAACAACCAGTGTCTGAATAGACTGACCGGAAC
CTTAAAGCAGAAGATACAACTGATGATTACAACAATCTATAACAACCAACAATAACAACCAACAG
GAACATAATAAACGTCTCCAACAACCAGTGTCTGAATAGACTGACCGAAACCTTAAAACAGAAGA
TACAACTGAGGATTACAACAATCTATAACAACCAACA
Found at i:587776 original size:72 final size:72
Alignment explanation
Indices: 587650--587796 Score: 224
Period size: 72 Copynumber: 2.0 Consensus size: 72
587640 TAACGTCTTC
* *
587650 AACAACCAGTGTCTGAATAGACTGACCGAAACCTTAAAGCAGAAAGAACCACTGATGATTACAAC
1 AACAACCAGTGTCTAAATAGACTGACCGAAACCTTAAAGCAGAAAGAACAACTGATGATTACAAC
587715 AATCTAT
66 AATCTAT
* * * *
587722 AACAACCAGTGTCTAAATTGACTGACCGGAACCTTACAA-CAGAGAGTACAACTGATGATTACAA
1 AACAACCAGTGTCTAAATAGACTGACCGAAACCTTA-AAGCAGAAAGAACAACTGATGATTACAA
587786 CAATCTAT
65 CAATCTAT
587794 AAC
1 AAC
587797 CAGTAATAAC
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 66 0.97
73 2 0.03
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.20
Consensus pattern (72 bp):
AACAACCAGTGTCTAAATAGACTGACCGAAACCTTAAAGCAGAAAGAACAACTGATGATTACAAC
AATCTAT
Found at i:588060 original size:13 final size:13
Alignment explanation
Indices: 587990--588072 Score: 60
Period size: 13 Copynumber: 6.4 Consensus size: 13
587980 TAACATTCAG
*
587990 TGATAACAACCGA
1 TGATAACAACCAA
* *
588003 TGGTAATAACCAA
1 TGATAACAACCAA
*
588016 TGATTGA-AACCAA
1 TGA-TAACAACCAA
* * *
588029 TAATAACAATCAT
1 TGATAACAACCAA
*
588042 TTATAACAACCAA
1 TGATAACAACCAA
* *
588055 TGATAACGATCAA
1 TGATAACAACCAA
588068 TGATA
1 TGATA
588073 TAACAACTCA
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
12 2 0.04
13 49 0.92
14 2 0.04
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (13 bp):
TGATAACAACCAA
Found at i:588194 original size:13 final size:13
Alignment explanation
Indices: 588178--588202 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
588168 AAAACAAAAA
588178 CTATGATAACAAC
1 CTATGATAACAAC
588191 CTATGATAACAA
1 CTATGATAACAA
588203 ACATCTATAA
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:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
CTATGATAACAAC
Found at i:589424 original size:59 final size:59
Alignment explanation
Indices: 588334--589412 Score: 1865
Period size: 59 Copynumber: 18.3 Consensus size: 59
588324 CAGCCGCCCT
* *
588334 ATCCCTCATCCCATTGACAATGAGGGTCAGGTCTACATTACCTTGTATACAGCTGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
* *
588393 ATCCCTCATTCCATTGACCATGAGGGTCAGGTTTACATTACCTTGTATACAGCAGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
* * *
588452 ATCCCTCATTCCATTGACCATGAGGGTCAGGTTTACATTACCTTGTATACAGCTGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
*
588511 ATCCCTCATCCCATTGACAATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
* *
588570 ATCCCTCATTCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCTGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
* *
588629 ATCCCTCATCCCATTGACAATGAGGGTCAGGTCTACATTACCTTGTATACAGCTGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
* *
588688 ATCCCTCATCCCATTGACAATGAGGGTCAGGTCTACATTACCTTGTATACAGCTGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
*
588747 ATCCCTCATCCCATTGACAATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
588806 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
588865 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
*
588924 ATCCCTCATCCCGTTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
588983 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
589042 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
*
589101 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTCGTATACAGCAGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
* * *
589160 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACAATATCTTGAATACAGCAGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
* *
589219 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTCGTATACAGCTGGTAC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
*
589278 A-CCAC-CATTCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
1 ATCC-CTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
* * * *
589336 ATCCCTCATTCCATTGACCATGAGGGTCAGGTCTACATTACCTCGTATACAGCTGGTGC
1 ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
* * *
589395 AGCCCTTATTCCATTGAC
1 ATCCCTCATCCCATTGAC
589413 ACTTGGTGTC
Statistics
Matches: 981, Mismatches: 36, Indels: 6
0.96 0.04 0.01
Matches are distributed among these distances:
58 54 0.06
59 927 0.94
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (59 bp):
ATCCCTCATCCCATTGACCATGAGGGTCAGGTCTACATTACCTTGTATACAGCAGGTAC
Found at i:589729 original size:32 final size:31
Alignment explanation
Indices: 589623--590846 Score: 150
Period size: 32 Copynumber: 38.3 Consensus size: 31
589613 TTATGACATA
* *
589623 TTATAACATACTGTAAA-ACAAATCGCGTTTGT
1 TTATGACATACTG-AAAGACAAGTCGCGTTT-T
* * *
589655 TTATGACATACTGGAGGACAAGTTG-GCTTTT
1 TTATGACATACTGAAAGACAAGTCGCG-TTTT
*
589686 TTATAACATACTGAAAGACAAGTCGCGTTCTAT
1 TTATGACATACTGAAAGACAAGTCGCGTT-T-T
* *
589719 TT-TGACATACTAGATA-ACAAATCG-GCTTTGT
1 TTATGACATACT-GAAAGACAAGTCGCG-TTT-T
* * *
589750 TTATGACAAAGTGTAAGACAAGTCAGC-TTTGT
1 TTATGACATACTGAAAGACAAGTC-GCGTTT-T
* * *
589782 TTAT-ACTTTAGTGTAAGACAAGTCGCGTTTT
1 TTATGAC-ATACTGAAAGACAAGTCGCGTTTT
* * *
589813 TTCTGATATACTGAAGGA-AAGATCG-GCTTTGT
1 TTATGACATACTGAAAGACAAG-TCGCG-TTT-T
* * * *
589845 TTATAACATACT-ATAGGACAAGTCGCATGTGT
1 TTATGACATACTGA-AAGACAAGTCGCGT-TTT
* * ** * * *
589877 TTATAACATAGTGTTACACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * *** * * *
589909 TTATAACATAGTCTTACACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
** * *
589941 TTAT-A-ATACAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATAC--TGAAAGACAAGTCGCGT-TTT
* * ** *
589973 TTATAACATAGTGTTAGACAAGTAGCGTTTGT
1 TTATGACATACTGAAAGACAAGTCGCGTTT-T
* * * * *
590005 TTATAACATAGTGTAAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * * ** *
590037 TTATAACATAGTGTAAGACAAGAAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * * ** * ** *
590069 TTATAACGTAGTGTTACACAAGTAACGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * ** * *
590101 TTATAACATAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * * * * *
590133 CTATAACATAGTGTAAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * ** * *
590165 TTATAACATAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * ** * *
590197 TTATAACATAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * ** * *
590229 TTATAACATAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * * * *
590261 TTATAACATAGTGTAAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * ** * *
590293 TTATAACATAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * * * *
590325 TTATAACATAGTGTAAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * ** * *
590357 TTATAACATAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * * * *
590389 TTATAACATAGTGTAAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * ** * *
590421 TTATAACATAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * *** * *
590453 TTATAACATAGTTCTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * * * *
590485 TTATAACATAGTGTAAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * ** * *
590517 TTATAACATAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * * * *
590549 TTATAACATAGTGTAAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * ** * *
590581 TTATAACATAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * * * *
590613 TTATAACATAGTGTAAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * ** * *
590645 TTATAACATAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * ** * *
590677 TTATAACATAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * ** * *
590709 TTATAACATAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * ** * *
590741 TTATAACATAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * ** * *
590773 TTATAACATAGTGTTAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
* * * * *
590805 TTATAACATAGTGTAAGACAAGTAGCGTGTGT
1 TTATGACATACTGAAAGACAAGTCGCGT-TTT
*
590837 TTATAACATA
1 TTATGACATA
590847 GTGTTAGACA
Statistics
Matches: 1088, Mismatches: 76, Indels: 56
0.89 0.06 0.05
Matches are distributed among these distances:
30 7 0.01
31 57 0.05
32 1008 0.93
33 13 0.01
34 3 0.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (31 bp):
TTATGACATACTGAAAGACAAGTCGCGTTTT
Found at i:589746 original size:63 final size:64
Alignment explanation
Indices: 589623--589773 Score: 164
Period size: 63 Copynumber: 2.4 Consensus size: 64
589613 TTATGACATA
* * * * * *
589623 TTATAACATACTGTAAA-ACAAATCGCGTTTGTTTATGACATACTGGAGGACAAGTTGGCTTT-T
1 TTATAACATACTG-AAAGACAAGTCGCGTTTATTTATGACATACTAGAGAACAAATCGGCTTTGT
*
589686 TTATAACATACTGAAAGACAAGTCGCGTTCTATTT-TGACATACTAGATAACAAATCGGCTTTGT
1 TTATAACATACTGAAAGACAAGTCGCGTT-TATTTATGACATACTAGAGAACAAATCGGCTTTGT
* * * *
589750 TTATGACAAAGTGTAAGACAAGTC
1 TTATAACATACTGAAAGACAAGTC
589774 AGCTTTGTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
62 3 0.04
63 46 0.62
64 25 0.34
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (64 bp):
TTATAACATACTGAAAGACAAGTCGCGTTTATTTATGACATACTAGAGAACAAATCGGCTTTGT
Found at i:589889 original size:95 final size:94
Alignment explanation
Indices: 589639--589904 Score: 249
Period size: 95 Copynumber: 2.8 Consensus size: 94
589629 CATACTGTAA
* * * * *
589639 AACAAATC-GCGTTTGTTTATGACATACTGGAGGACAAGTTGGCTTTTTTATAACATACTGAAAG
1 AACAAATCGGC-TTTGTTTATGACATACTGTAGGACAAG-TCGCTTGTTTATAACATAGTGTAAG
589703 ACAAGTCGCGTTCTATTTTGACATACTAGAT
64 ACAAGTCGCGTTCTATTTTGACATACTAGAT
* * * *
589734 AACAAATCGGCTTTGTTTATGACAAAGTGTAAGACAAGTCAGCTTTGTTTAT-ACTTTAGTGTAA
1 AACAAATCGGCTTTGTTTATGACATACTGTAGGACAAGTC-GC-TTGTTTATAAC-ATAGTGTAA
*
589798 GACAAGTCGCGTT-T-TTTCTGATATACT-GA-
63 GACAAGTCGCGTTCTATTT-TGACATACTAGAT
* *
589827 AGGA-AAGATCGGCTTTGTTTATAACATACTATAGGACAAGTCGCATGTGTTTATAACATAGTGT
1 A--ACAA-ATCGGCTTTGTTTATGACATACTGTAGGACAAGTCGC-T-TGTTTATAACATAGTGT
* * *
589891 TACACAAGTAGCGT
61 AAGACAAGTCGCGT
589905 GTGTTTATAA
Statistics
Matches: 141, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
93 1 0.01
94 11 0.08
95 99 0.70
96 30 0.21
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (94 bp):
AACAAATCGGCTTTGTTTATGACATACTGTAGGACAAGTCGCTTGTTTATAACATAGTGTAAGAC
AAGTCGCGTTCTATTTTGACATACTAGAT
Found at i:590847 original size:32 final size:32
Alignment explanation
Indices: 589842--590857 Score: 1775
Period size: 32 Copynumber: 31.8 Consensus size: 32
589832 AGATCGGCTT
* * * *
589842 TGTTTATAACATACT-ATAGGACAAGTCGCATG
1 TGTTTATAACATAGTGTTA-GACAAGTAGCGTG
*
589874 TGTTTATAACATAGTGTTACACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
* *
589906 TGTTTATAACATAGTCTTACACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
* *
589938 TGTTTATAATACAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
*
589970 TGTTTATAACATAGTGTTAGACAAGTAGCGTT
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
*
590002 TGTTTATAACATAGTGTAAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
* *
590034 TGTTTATAACATAGTGTAAGACAAGAAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
* * *
590066 TGTTTATAACGTAGTGTTACACAAGTAACGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590098 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
* *
590130 TGTCTATAACATAGTGTAAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590162 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590194 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590226 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
*
590258 TGTTTATAACATAGTGTAAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590290 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
*
590322 TGTTTATAACATAGTGTAAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590354 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
*
590386 TGTTTATAACATAGTGTAAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590418 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590450 TGTTTATAACATAGT-TCTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGT-TAGACAAGTAGCGTG
*
590482 TGTTTATAACATAGTGTAAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590514 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
*
590546 TGTTTATAACATAGTGTAAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590578 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
*
590610 TGTTTATAACATAGTGTAAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590642 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590674 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590706 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590738 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590770 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
*
590802 TGTTTATAACATAGTGTAAGACAAGTAGCGTG
1 TGTTTATAACATAGTGTTAGACAAGTAGCGTG
590834 TGTTTATAACATAGTGTTAGACAA
1 TGTTTATAACATAGTGTTAGACAA
590858 AGTTATGACA
Statistics
Matches: 939, Mismatches: 42, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
31 1 0.00
32 935 1.00
33 3 0.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (32 bp):
TGTTTATAACATAGTGTTAGACAAGTAGCGTG
Found at i:594913 original size:21 final size:21
Alignment explanation
Indices: 594887--594965 Score: 86
Period size: 21 Copynumber: 3.8 Consensus size: 21
594877 CTATATGTTG
*
594887 TTGAACAGTTTCAATAAATCA
1 TTGAACAGTTACAATAAATCA
* * *
594908 TTGAACAGTTATAATACACCA
1 TTGAACAGTTACAATAAATCA
* * *
594929 CTGAACAGTTACAATATATTA
1 TTGAACAGTTACAATAAATCA
*
594950 TTGAACTGTTACAATA
1 TTGAACAGTTACAATA
594966 TGTTATAAGA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (21 bp):
TTGAACAGTTACAATAAATCA
Found at i:594966 original size:21 final size:21
Alignment explanation
Indices: 594887--595034 Score: 82
Period size: 21 Copynumber: 6.8 Consensus size: 21
594877 CTATATGTTG
* * *
594887 TTGAACAGTTTCAATAAATCA
1 TTGAACAGTTACAATATATTA
* * **
594908 TTGAACAGTTATAATACACCA
1 TTGAACAGTTACAATATATTA
*
594929 CTGAACAGTTACAATATATTA
1 TTGAACAGTTACAATATATTA
* *
594950 TTGAACTGTTACAATATGTTA
1 TTGAACAGTTACAATATATTA
* *
594971 -TAAGACAGTTGCAATATATGTA
1 TTGA-ACAGTTACAATATAT-TA
* * *
594993 TATTATTAGACGATTACAATATACTA
1 T-TGA--ACA-G-TTACAATATATTA
*
595019 TTGAAGAGTTACAATA
1 TTGAACAGTTACAATA
595035 CATGTATATT
Statistics
Matches: 98, Mismatches: 22, Indels: 14
0.73 0.16 0.10
Matches are distributed among these distances:
20 2 0.02
21 71 0.72
22 3 0.03
23 3 0.03
24 2 0.02
25 4 0.04
26 4 0.04
27 9 0.09
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (21 bp):
TTGAACAGTTACAATATATTA
Found at i:594997 original size:48 final size:47
Alignment explanation
Indices: 594943--595066 Score: 128
Period size: 48 Copynumber: 2.6 Consensus size: 47
594933 ACAGTTACAA
** * *
594943 TATATTATTGAACTGTTACAATATGTTA-T-AAGACAGTTGCAATATATG
1 TATATTATTGAAC-GTTACAATATACTATTGAAG--AGTTACAATACATG
594991 TATATTATT-AGACGATTACAATATACTATTGAAGAGTTACAATACATG
1 TATATTATTGA-ACG-TTACAATATACTATTGAAGAGTTACAATACATG
*
595039 TATATTATTGGACAGTTACAATATACTA
1 TATATTATTGAAC-GTTACAATATACTA
595067 CTATTGGTCA
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
47 2 0.03
48 58 0.89
49 2 0.03
50 3 0.05
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.38
Consensus pattern (47 bp):
TATATTATTGAACGTTACAATATACTATTGAAGAGTTACAATACATG
Found at i:595012 original size:27 final size:27
Alignment explanation
Indices: 594982--595063 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
594972 AAGACAGTTG
594982 CAATATATGTATATTATTAGACGATTA
1 CAATATATGTATATTATTAGACGATTA
* *
595009 CAATATA-CTAT-TGA--AGA-G-TTA
1 CAATATATGTATATTATTAGACGATTA
* *
595030 CAATACATGTATATTATTGGAC-AGTTA
1 CAATATATGTATATTATTAGACGA-TTA
595057 CAATATA
1 CAATATA
595064 CTACTATTGG
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
21 9 0.22
22 4 0.10
23 5 0.12
25 4 0.10
26 3 0.07
27 16 0.39
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (27 bp):
CAATATATGTATATTATTAGACGATTA
Found at i:595148 original size:82 final size:82
Alignment explanation
Indices: 595008--595252 Score: 391
Period size: 82 Copynumber: 2.9 Consensus size: 82
594998 TTAGACGATT
* *
595008 ACAATATACTATTGAAGAGTTACAATACATGTATATTATTGGACAGTTACAATATACTACTATTG
1 ACAATATACTAATGAACAGTTACAATACATGTATATTATTGGACAGTTACAATATACTACTATTG
*
595073 GTCAGTTACAACATACA
66 ATCAGTTACAACATACA
*
595090 ACAAAATACTAATGAACAGTTACAATACATGTATATTATTGGACAGTTACAATATACTACTATTG
1 ACAATATACTAATGAACAGTTACAATACATGTATATTATTGGACAGTTACAATATACTACTATTG
*
595155 ATCAGTTCCAACATACA
66 ATCAGTTACAACATACA
*
595172 ACAATATACTATTGCATTGGACAGTTACAATACATGTATATTATTGGACAGTTACAATATACTAC
1 ACAATATACTA----A-TGAACAGTTACAATACATGTATATTATTGGACAGTTACAATATACTAC
595237 TATTGATCAGTTACAA
61 TATTGATCAGTTACAA
595253 TACAAGTATA
Statistics
Matches: 150, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
82 87 0.58
86 1 0.01
87 62 0.41
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (82 bp):
ACAATATACTAATGAACAGTTACAATACATGTATATTATTGGACAGTTACAATATACTACTATTG
ATCAGTTACAACATACA
Found at i:595240 original size:24 final size:24
Alignment explanation
Indices: 595172--595292 Score: 95
Period size: 27 Copynumber: 4.7 Consensus size: 24
595162 CCAACATACA
595172 ACAATATACTATTGCATTGGACAGTT
1 ACAATATACTATT--ATTGGACAGTT
595198 ACAATACATGTA-TATTATTGGACAGTT
1 ACAAT--A--TACTATTATTGGACAGTT
*
595225 ACAATATACTACTATT-GATCAGTT
1 ACAATATACTATTATTGGA-CAGTT
*
595249 ACAATACAAGTA-TATTACTGGACAGTT
1 ACAAT---A-TACTATTATTGGACAGTT
*
595276 ACAATATACTACTATTG
1 ACAATATACTATTATTG
595293 ATCAGTGACA
Statistics
Matches: 78, Mismatches: 5, Indels: 26
0.72 0.05 0.24
Matches are distributed among these distances:
23 6 0.08
24 23 0.29
25 1 0.01
26 5 0.06
27 32 0.41
28 5 0.06
29 4 0.05
30 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (24 bp):
ACAATATACTATTATTGGACAGTT
Found at i:595256 original size:51 final size:51
Alignment explanation
Indices: 595193--595303 Score: 195
Period size: 51 Copynumber: 2.2 Consensus size: 51
595183 TTGCATTGGA
* *
595193 CAGTTACAATACATGTATATTATTGGACAGTTACAATATACTACTATTGAT
1 CAGTTACAATACAAGTATATTACTGGACAGTTACAATATACTACTATTGAT
595244 CAGTTACAATACAAGTATATTACTGGACAGTTACAATATACTACTATTGAT
1 CAGTTACAATACAAGTATATTACTGGACAGTTACAATATACTACTATTGAT
*
595295 CAGTGACAA
1 CAGTTACAA
595304 CATACAACAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (51 bp):
CAGTTACAATACAAGTATATTACTGGACAGTTACAATATACTACTATTGAT
Found at i:595262 original size:138 final size:133
Alignment explanation
Indices: 595096--595387 Score: 467
Period size: 138 Copynumber: 2.2 Consensus size: 133
595086 TACAACAAAA
* * * *
595096 TACTAATGAACAGTTACAATACATGTATATTATTGGACAGTTACAATATACTACTATTGATCAGT
1 TACTATTGATCAGTTACAATACAAGTATATTACTGGACAGTTACAATATACTACTATTGATCAGT
** *
595161 TCCAACATACAACAATATACTATTGCATTGGACAGTTACAATACATGTATATTATTGGACAGTTA
66 GACAACATACAACAATATACTATTGCA---CACA--TACAATACATGTATATTATTGGACAGTTA
595226 CAATATAC
126 CAATATAC
595234 TACTATTGATCAGTTACAATACAAGTATATTACTGGACAGTTACAATATACTACTATTGATCAGT
1 TACTATTGATCAGTTACAATACAAGTATATTACTGGACAGTTACAATATACTACTATTGATCAGT
*
595299 GACAACATACAACAATATACTATTGCACACATACAATACATGTATATTATTGGACAGTTACAGTA
66 GACAACATACAACAATATACTATTGCACACATACAATACATGTATATTATTGGACAGTTACAATA
595364 TAC
131 TAC
595367 TACTATTGATCAGTTACAATA
1 TACTATTGATCAGTTACAATA
595388 TACAACAATA
Statistics
Matches: 146, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
133 57 0.39
135 3 0.02
138 86 0.59
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.33
Consensus pattern (133 bp):
TACTATTGATCAGTTACAATACAAGTATATTACTGGACAGTTACAATATACTACTATTGATCAGT
GACAACATACAACAATATACTATTGCACACATACAATACATGTATATTATTGGACAGTTACAATA
TAC
Found at i:595303 original size:24 final size:24
Alignment explanation
Indices: 595220--595308 Score: 83
Period size: 24 Copynumber: 3.6 Consensus size: 24
595210 TATTATTGGA
595220 CAGTTACAATATACTACTATTGAT
1 CAGTTACAATATACTACTATTGAT
* *
595244 CAGTTACAATACAAGTA-TATT-ACT
1 CAGTTACAATA-TACTACTATTGA-T
595268 GGACAGTTACAATATACTACTATTGAT
1 ---CAGTTACAATATACTACTATTGAT
* *
595295 CAGTGACAACATAC
1 CAGTTACAATATAC
595309 AACAATATAC
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
23 1 0.02
24 28 0.54
25 3 0.06
26 3 0.06
27 16 0.31
28 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (24 bp):
CAGTTACAATATACTACTATTGAT
Found at i:595306 original size:220 final size:216
Alignment explanation
Indices: 594974--595467 Score: 710
Period size: 220 Copynumber: 2.3 Consensus size: 216
594964 TATGTTATAA
* * **
594974 GACAGTTGCAATATATGTATATTATTAGAC-GATTAC-A-ATA-TACTATTGAAGAGTTACAATA
1 GACAGTTACAATAAATGTATATTATTAGACAG-TTACAATATACTACTATTGATCAGTTACAATA
* * * *
595035 CATGTATATTATTGGACAGTTACAATATACTACTATTGGTCAGTTACAACATACAACAAAATACT
65 CAAGTATATTACTGGACAGTTACAATATACTACTATTGATCAGTGACAACATACAACAAAATACT
** *
595100 AATGAACAGTTACAATACATGTATATTATTGGACAGTTACAATATACTACTATTGATCAGTTCCA
130 AATGAACACATACAATACATGTATATTATTGGACAGTTACAATATACTACTATTGATCAGTTACA
595165 ACATACAACAATATACTATTGCATT
195 ACATACAACAATATACTATTG---T
* *
595190 GGACAGTTACAATACATGTATATTATTGGACAGTTACAATATACTACTATTGATCAGTTACAATA
1 -GACAGTTACAATAAATGTATATTATTAGACAGTTACAATATACTACTATTGATCAGTTACAATA
*
595255 CAAGTATATTACTGGACAGTTACAATATACTACTATTGATCAGTGACAACATACAACAATATACT
65 CAAGTATATTACTGGACAGTTACAATATACTACTATTGATCAGTGACAACATACAACAAAATACT
* * *
595320 ATTGCACACATACAATACATGTATATTATTGGACAGTTACAGTATACTACTATTGATCAGTTACA
130 AATGAACACATACAATACATGTATATTATTGGACAGTTACAATATACTACTATTGATCAGTTACA
*
595385 ATATACAACAATATACTATTGT
195 ACATACAACAATATACTATTGT
* * * *
595407 -ACAGTTACAATAAATGTATATAATTAGACAGCTACAGTATACTACTATTGATCAGTGACAA
1 GACAGTTACAATAAATGTATATTATTAGACAGTTACAATATACTACTATTGATCAGTTACAA
595468 CATACAACAA
Statistics
Matches: 250, Mismatches: 23, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
215 55 0.22
217 32 0.13
218 2 0.01
219 3 0.01
220 158 0.63
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (216 bp):
GACAGTTACAATAAATGTATATTATTAGACAGTTACAATATACTACTATTGATCAGTTACAATAC
AAGTATATTACTGGACAGTTACAATATACTACTATTGATCAGTGACAACATACAACAAAATACTA
ATGAACACATACAATACATGTATATTATTGGACAGTTACAATATACTACTATTGATCAGTTACAA
CATACAACAATATACTATTGT
Found at i:595335 original size:82 final size:82
Alignment explanation
Indices: 595234--595582 Score: 511
Period size: 82 Copynumber: 4.3 Consensus size: 82
595224 TACAATATAC
* * *
595234 TACTATTGATCAGTTACAATACAAGTATATTACTGGACAGTTACAATATACTACTATTGATCAGT
1 TACTATTGAACACTTACAATACAAGTATATTATTGGACAGTTACAATATACTACTATTGATCAGT
595299 GACAACATACAACAATA
66 GACAACATACAACAATA
* * * *
595316 TACTATTGCACACATACAATACATGTATATTATTGGACAGTTACAGTATACTACTATTGATCAGT
1 TACTATTGAACACTTACAATACAAGTATATTATTGGACAGTTACAATATACTACTATTGATCAGT
* *
595381 TACAATATACAACAATA
66 GACAACATACAACAATA
* * * * * *
595398 TACTATTGTACAGTTACAATA-AATGTATATAATTAGACAGCTACAGTATACTACTATTGATCAG
1 TACTATTGAACACTTACAATACAA-GTATATTATTGGACAGTTACAATATACTACTATTGATCAG
595462 TGACAACATACAACAATA
65 TGACAACATACAACAATA
* *
595480 TACTATTGAACAGTTACAATACAGGTATATTATTGGACAGTTACAATATACTACTATTGATCAGT
1 TACTATTGAACACTTACAATACAAGTATATTATTGGACAGTTACAATATACTACTATTGATCAGT
* *
595545 TACAACATTCAACAATA
66 GACAACATACAACAATA
595562 TACTATTGAACACTTACAATA
1 TACTATTGAACACTTACAATA
595583 TATTATTTGG
Statistics
Matches: 238, Mismatches: 27, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
81 1 0.00
82 236 0.99
83 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (82 bp):
TACTATTGAACACTTACAATACAAGTATATTATTGGACAGTTACAATATACTACTATTGATCAGT
GACAACATACAACAATA
Found at i:595404 original size:31 final size:31
Alignment explanation
Indices: 595367--595584 Score: 99
Period size: 31 Copynumber: 7.7 Consensus size: 31
595357 TACAGTATAC
595367 TACTATTGATCAGTTACAATATACAACAATA
1 TACTATTGATCAGTTACAATATACAACAATA
***
595398 TACTATTG-TACAGTTACAATA-A-ATGTATA
1 TACTATTGAT-CAGTTACAATATACAACAATA
* *
595427 TA--ATTAGA-CAGCTACAGTAT---AC----
1 TACTATT-GATCAGTTACAATATACAACAATA
* *
595449 TACTATTGATCAGTGACAACATACAACAATA
1 TACTATTGATCAGTTACAATATACAACAATA
* **
595480 TACTATTGAACAGTTAC-A-ATAC-A-GGTA
1 TACTATTGATCAGTTACAATATACAACAATA
*
595507 TATTATTGGA-CAGTTACAATAT---AC----
1 TACTATT-GATCAGTTACAATATACAACAATA
* *
595531 TACTATTGATCAGTTACAACATTCAACAATA
1 TACTATTGATCAGTTACAATATACAACAATA
* *
595562 TACTATTGAACACTTACAATATA
1 TACTATTGATCAGTTACAATATA
595585 TTATTTGGTA
Statistics
Matches: 139, Mismatches: 22, Indels: 52
0.65 0.10 0.24
Matches are distributed among these distances:
22 2 0.01
23 4 0.03
24 28 0.20
27 32 0.23
28 5 0.04
29 12 0.09
30 3 0.02
31 53 0.38
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
TACTATTGATCAGTTACAATATACAACAATA
Found at i:595456 original size:133 final size:132
Alignment explanation
Indices: 595096--595420 Score: 389
Period size: 138 Copynumber: 2.4 Consensus size: 132
595086 TACAACAAAA
* * ** * * * *
595096 TACTAATGAACAGTTACAATACATGTATATTATTGGACAGTTACAATATACTACTATTGATCAGT
1 TACTATTGATCAGTTACAATACAAATATACTACTGGACAGTTACAATAAACTACTATTAATCAG-
** *
595161 TCCAACATACAACAATATACTATTGCATTGGACAGTTACAATACATGTATATTATTGGACAGTTA
65 GACAACATACAACAATATACTATTGCA---CACA--TACAATACATGTATATTATTGGACAGTTA
595226 CAATATAC
125 CAATATAC
* * * *
595234 TACTATTGATCAGTTACAATACAAGTATATTACTGGACAGTTACAATATACTACTATTGATCAGT
1 TACTATTGATCAGTTACAATACAAATATACTACTGGACAGTTACAATAAACTACTATTAATCAG-
*
595299 GACAACATACAACAATATACTATTGCACACATACAATACATGTATATTATTGGACAGTTACAGTA
65 GACAACATACAACAATATACTATTGCACACATACAATACATGTATATTATTGGACAGTTACAATA
595364 TAC
130 TAC
* *
595367 TACTATTGATCAGTTACAATATACAACAATATACTATTGTACAGTTACAATAAA
1 TACTATTGATCAGTTAC-A-ATAC-A-AATATACTACTGGACAGTTACAATAAA
595421 TGTATATAAT
Statistics
Matches: 170, Mismatches: 13, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
133 53 0.31
134 1 0.01
135 7 0.04
136 1 0.01
137 22 0.13
138 86 0.51
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (132 bp):
TACTATTGATCAGTTACAATACAAATATACTACTGGACAGTTACAATAAACTACTATTAATCAGG
ACAACATACAACAATATACTATTGCACACATACAATACATGTATATTATTGGACAGTTACAATAT
AC
Found at i:595497 original size:24 final size:24
Alignment explanation
Indices: 595470--595551 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 24
595460 AGTGACAACA
595470 TACAACAATATACTATTGAACAGT
1 TACAACAATATACTATTGAACAGT
* * *
595494 TACAATACAGGTATATTATTGGACAGT
1 TAC-A-ACA-ATATACTATTGAACAGT
* *
595521 TACAA-TATACTACTATTGATCAGT
1 TACAACAATA-TACTATTGAACAGT
595545 TACAACA
1 TACAACA
595552 TTCAACAATA
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
23 2 0.05
24 19 0.43
25 2 0.05
26 4 0.09
27 17 0.39
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (24 bp):
TACAACAATATACTATTGAACAGT
Found at i:596446 original size:51 final size:50
Alignment explanation
Indices: 596391--596964 Score: 755
Period size: 51 Copynumber: 11.3 Consensus size: 50
596381 CCATCAATTC
* * * * *
596391 AAGATACATGACA-AAAGCGAGGCTTTTCATATTCGTGCAAACTATCAGTTA
1 AAGATACATGACACTAAG-G-GGCTTTTCATATACATACCAACTATCAGTTA
* * *
596442 AAGATACATGACACTACGGGGGCTTTACATATACATA-CAACGATCAGTTA
1 AAGATACATGACACTA-AGGGGCTTTTCATATACATACCAACTATCAGTTA
* *
596492 AAGATACATGACA-T-GGGGGGTGGGGTTTACATATACATACCAACTATCAGTTA
1 AAGATACATGACACTAAGGGGCT----TTT-CATATACATACCAACTATCAGTTA
* *
596545 AAGATACATGACACTAAGGGGGCTTTACATATGCATACCAACTATCAGTTA
1 AAGATACATGACACTAA-GGGGCTTTTCATATACATACCAACTATCAGTTA
* * *
596596 AAGATACATGACACTAGGGGGGCTTTACATATACATACCAACCATCAGTTA
1 AAGATACATGACACTA-AGGGGCTTTTCATATACATACCAACTATCAGTTA
*
596647 AAGATACATGACACTAAAGGGG-TTTTACATATACATACCAACCATCAGTTA
1 AAGATACATGACACT-AAGGGGCTTTT-CATATACATACCAACTATCAGTTA
* *
596698 AAGATAAATGACACTAAGGGGGCTTTACATATACATACCAACTATCAGTT-
1 AAGATACATGACACTAA-GGGGCTTTTCATATACATACCAACTATCAGTTA
*
596748 AAGATACATGACACTAAGGGGATTTTACATATACATACCAACTATCAGTTA
1 AAGATACATGACACTAAGGGGCTTTT-CATATACATACCAACTATCAGTTA
*
596799 AAGATACATGACACTAAGGGGGTTTTACATATACATACCAACTATCAGTTA
1 AAGATACATGACACTAAGGGGCTTTT-CATATACATACCAACTATCAGTTA
*
596850 AAGATACATGACACTAAGGGGGTTTTACATATACATACCAACTATCAGTTA
1 AAGATACATGACACTAAGGGGCTTTT-CATATACATACCAACTATCAGTTA
*
596901 AAGATACATGACACTAAGGGGGTTTTACATATACATACCAACTATCAGTTA
1 AAGATACATGACACTAAGGGGCTTTT-CATATACATACCAACTATCAGTTA
596952 AAGATACATGACA
1 AAGATACATGACA
596965 ATGGGGGAGG
Statistics
Matches: 478, Mismatches: 27, Indels: 36
0.88 0.05 0.07
Matches are distributed among these distances:
47 6 0.01
49 8 0.02
50 68 0.14
51 346 0.72
52 18 0.04
53 26 0.05
54 1 0.00
56 5 0.01
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (50 bp):
AAGATACATGACACTAAGGGGCTTTTCATATACATACCAACTATCAGTTA
Found at i:596663 original size:102 final size:102
Alignment explanation
Indices: 596430--596964 Score: 878
Period size: 102 Copynumber: 5.2 Consensus size: 102
596420 TATTCGTGCA
* * *
596430 AACTATCAGTTAAAGATACATGACACTACGGGGGCTTTACATATACATA-CAACGATCAGTTAAA
1 AACTATCAGTTAAAGATACATGACACTAAGGGGGTTTTACATATACATACCAACTATCAGTTAAA
** *
596494 GATACATGACA-TGGGGGGTGGGGTTTACATATACATACC
66 GATACATGACACT--AAGG-GGGCTTTACATATACATACC
* *
596533 AACTATCAGTTAAAGATACATGACACTAAGGGGGCTTTACATATGCATACCAACTATCAGTTAAA
1 AACTATCAGTTAAAGATACATGACACTAAGGGGGTTTTACATATACATACCAACTATCAGTTAAA
*
596598 GATACATGACACTAGGGGGGCTTTACATATACATACC
66 GATACATGACACTAAGGGGGCTTTACATATACATACC
* * *
596635 AACCATCAGTTAAAGATACATGACACTAAAGGGGTTTTACATATACATACCAACCATCAGTTAAA
1 AACTATCAGTTAAAGATACATGACACTAAGGGGGTTTTACATATACATACCAACTATCAGTTAAA
*
596700 GATAAATGACACTAAGGGGGCTTTACATATACATACC
66 GATACATGACACTAAGGGGGCTTTACATATACATACC
*
596737 AACTATCAGTT-AAGATACATGACACTAAGGGGATTTTACATATACATACCAACTATCAGTTAAA
1 AACTATCAGTTAAAGATACATGACACTAAGGGGGTTTTACATATACATACCAACTATCAGTTAAA
*
596801 GATACATGACACTAAGGGGGTTTTACATATACATACC
66 GATACATGACACTAAGGGGGCTTTACATATACATACC
596838 AACTATCAGTTAAAGATACATGACACTAAGGGGGTTTTACATATACATACCAACTATCAGTTAAA
1 AACTATCAGTTAAAGATACATGACACTAAGGGGGTTTTACATATACATACCAACTATCAGTTAAA
*
596903 GATACATGACACTAAGGGGGTTTTACATATACATACC
66 GATACATGACACTAAGGGGGCTTTACATATACATACC
596940 AACTATCAGTTAAAGATACATGACA
1 AACTATCAGTTAAAGATACATGACA
596965 ATGGGGGAGG
Statistics
Matches: 410, Mismatches: 19, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
101 96 0.23
102 238 0.58
103 50 0.12
104 25 0.06
105 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (102 bp):
AACTATCAGTTAAAGATACATGACACTAAGGGGGTTTTACATATACATACCAACTATCAGTTAAA
GATACATGACACTAAGGGGGCTTTACATATACATACC
Found at i:596802 original size:203 final size:204
Alignment explanation
Indices: 596434--596964 Score: 870
Period size: 203 Copynumber: 2.6 Consensus size: 204
596424 CGTGCAAACT
* * *
596434 ATCAGTTAAAGATACATGACACTACGGGGGCTTTACATATACATA-CAACGATCAGTTAAAGATA
1 ATCAGTTAAAGATACATGACACTAAGGGGGTTTTACATATACATACCAACCATCAGTTAAAGATA
** *
596498 CATGACA-TGGGGGGTGGGGTTTACATATACATACCAACTATCAGTTAAAGATACATGACACTAA
66 CATGACACT--AAGG-GGGCTTTACATATACATACCAACTATCAGTTAAAGATACATGACACTAA
* * *
596562 GGGGGCTTTACATATGCATACCAACTATCAGTTAAAGATACATGACACTAGGGGGGCTTTACATA
128 GGGGACTTTACATATACATACCAACTATCAGTTAAAGATACATGACACTAAGGGGGCTTTACATA
596627 TACATACCAACC
193 TACATACCAACC
*
596639 ATCAGTTAAAGATACATGACACTAAAGGGGTTTTACATATACATACCAACCATCAGTTAAAGATA
1 ATCAGTTAAAGATACATGACACTAAGGGGGTTTTACATATACATACCAACCATCAGTTAAAGATA
*
596704 AATGACACTAAGGGGGCTTTACATATACATACCAACTATCAGTT-AAGATACATGACACTAAGGG
66 CATGACACTAAGGGGGCTTTACATATACATACCAACTATCAGTTAAAGATACATGACACTAAGGG
* *
596768 GATTTTACATATACATACCAACTATCAGTTAAAGATACATGACACTAAGGGGGTTTTACATATAC
131 GACTTTACATATACATACCAACTATCAGTTAAAGATACATGACACTAAGGGGGCTTTACATATAC
*
596833 ATACCAACT
196 ATACCAACC
*
596842 ATCAGTTAAAGATACATGACACTAAGGGGGTTTTACATATACATACCAACTATCAGTTAAAGATA
1 ATCAGTTAAAGATACATGACACTAAGGGGGTTTTACATATACATACCAACCATCAGTTAAAGATA
*
596907 CATGACACTAAGGGGGTTTTACATATACATACCAACTATCAGTTAAAGATACATGACA
66 CATGACACTAAGGGGGCTTTACATATACATACCAACTATCAGTTAAAGATACATGACA
596965 ATGGGGGAGG
Statistics
Matches: 305, Mismatches: 18, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
203 193 0.63
204 43 0.14
205 44 0.14
206 24 0.08
207 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (204 bp):
ATCAGTTAAAGATACATGACACTAAGGGGGTTTTACATATACATACCAACCATCAGTTAAAGATA
CATGACACTAAGGGGGCTTTACATATACATACCAACTATCAGTTAAAGATACATGACACTAAGGG
GACTTTACATATACATACCAACTATCAGTTAAAGATACATGACACTAAGGGGGCTTTACATATAC
ATACCAACC
Found at i:596833 original size:27 final size:27
Alignment explanation
Indices: 596802--596936 Score: 74
Period size: 27 Copynumber: 5.2 Consensus size: 27
596792 TCAGTTAAAG
596802 ATACATGACACTAAGGGGGTTTTACAT
1 ATACATGACACTAAGGGGGTTTTACAT
*** * *
596829 ATACAT-ACCAACT-A-TCAG--TTAAAG
1 ATACATGA-C-ACTAAGGGGGTTTTACAT
596853 ATACATGACACTAAGGGGGTTTTACAT
1 ATACATGACACTAAGGGGGTTTTACAT
*** * *
596880 ATACAT-ACCAACT-A-TCAG--TTAAAG
1 ATACATGA-C-ACTAAGGGGGTTTTACAT
596904 ATACATGACACTAAGGGGGTTTTACAT
1 ATACATGACACTAAGGGGGTTTTACAT
596931 ATACAT
1 ATACAT
596937 ACCAACTATC
Statistics
Matches: 74, Mismatches: 20, Indels: 28
0.61 0.16 0.23
Matches are distributed among these distances:
23 6 0.08
24 24 0.32
25 4 0.05
26 4 0.05
27 30 0.41
28 6 0.08
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (27 bp):
ATACATGACACTAAGGGGGTTTTACAT
Found at i:597011 original size:153 final size:147
Alignment explanation
Indices: 596430--596966 Score: 664
Period size: 152 Copynumber: 3.5 Consensus size: 147
596420 TATTCGTGCA
* ** *
596430 AACTATCAGTTAAAGATACATGACACTACGGGGGCTTTACATATACATA-CAACGATCAGTTAAA
1 AACTATCAGTT-AAGATACATGACACTAAGGGGATTTTACATATACATACCAACTATCAGTTAAA
** * *
596494 GATACATGAC-ATGGGGGGTGGGGTTTACATATACATACCAACTATCAGTTAAAGATACATGACA
65 GATACATGACAAT--AAGG-GGGCTTTACATATACATACCAAC-ATCACTT----ATACATGACA
*
596558 CTAAGGGGGCTTTACATATGCATACC
122 CTAAGGGGGCTTTACATATACATACC
* ** *
596584 AACTATCAGTTAAAGATACATGACACTAGGGGGGCTTTACATATACATACCAACCATCAGTTAAA
1 AACTATCAGTT-AAGATACATGACACTAAGGGGATTTTACATATACATACCAACTATCAGTTAAA
* * * * *
596649 GATACATGACACTAAAGGGGTTTTACATATACATACCAACCATCAGTTAAAGATAAATGACACTA
65 GATACATGACAATAAGGGGGCTTTACATATACATACCAA-CATCACTT----ATACATGACACTA
596714 AGGGGGCTTTACATATACATACC
125 AGGGGGCTTTACATATACATACC
596737 AACTATCAGTTAAGATACATGACACTAAGGGGATTTTACATATACATACCAACTATCAGTTAAAG
1 AACTATCAGTTAAGATACATGACACTAAGGGGATTTTACATATACATACCAACTATCAGTTAAAG
* * *
596802 ATACATGACACTAAGGGGGTTTTACATATACATACCAACTATCAGTTAAAGATACATGACACTAA
66 ATACATGACAATAAGGGGGCTTTACATATACATACCAAC-ATCACTT----ATACATGACACTAA
*
596867 GGGGGTTTTACATATACATACC
126 GGGGGCTTTACATATACATACC
*
596889 AACTATCAGTTAAAGATACATGACACTAAGGGGGTTTTACATATACATACCAACTATCAGTTAAA
1 AACTATCAGTT-AAGATACATGACACTAAGGGGATTTTACATATACATACCAACTATCAGTTAAA
596954 GATACATGACAAT
65 GATACATGACAAT
596967 GGGGGAGGGG
Statistics
Matches: 360, Mismatches: 18, Indels: 11
0.93 0.05 0.03
Matches are distributed among these distances:
151 1 0.00
152 143 0.40
153 141 0.39
154 50 0.14
155 24 0.07
156 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (147 bp):
AACTATCAGTTAAGATACATGACACTAAGGGGATTTTACATATACATACCAACTATCAGTTAAAG
ATACATGACAATAAGGGGGCTTTACATATACATACCAACATCACTTATACATGACACTAAGGGGG
CTTTACATATACATACC
Found at i:597817 original size:10 final size:10
Alignment explanation
Indices: 597804--597835 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
597794 TGATATTGGG
597804 TATGTAATAA
1 TATGTAATAA
*
597814 TATGTAGTAA
1 TATGTAATAA
597824 TATGTAATAA
1 TATGTAATAA
597834 TA
1 TA
597836 AAATGTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (10 bp):
TATGTAATAA
Done.