Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 47 of 173
Found at i:12871523 original size:20 final size:19
Alignment explanation
Indices: 12871486--12871524 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
12871476 ACCTTTTATT
*
12871486 ATTATGTGTAGTGCTAGTG
1 ATTATGTGTAGGGCTAGTG
*
12871505 ATTATGCTGTAGGGGTAGTG
1 ATTATG-TGTAGGGCTAGTG
12871525 TTAGGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.05, G:0.36, T:0.38
Consensus pattern (19 bp):
ATTATGTGTAGGGCTAGTG
Found at i:12881696 original size:25 final size:27
Alignment explanation
Indices: 12881668--12881720 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
12881658 ACAGCCATAC
*
12881668 ATAACATA-GAGCAT-ATAGTCATTTT
1 ATAACATAGGAGAATAATAGTCATTTT
*
12881693 ATAACATAGGGGAATAATAGTCATTTT
1 ATAACATAGGAGAATAATAGTCATTTT
12881720 A
1 A
12881721 CCACGTGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 4 0.17
27 12 0.50
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (27 bp):
ATAACATAGGAGAATAATAGTCATTTT
Found at i:12881736 original size:27 final size:27
Alignment explanation
Indices: 12881682--12881745 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
12881672 CATAGAGCAT
*
12881682 ATAGTCATTTTATAACATAGGGGAATA
1 ATAGTCATTTTACAACATAGGGGAATA
* *
12881709 ATAGTCATTTTACCACGT-GGGGACATA
1 ATAGTCATTTTACAACATAGGGGA-ATA
*
12881736 ACAGTCATTT
1 ATAGTCATTT
12881746 CATATCAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (27 bp):
ATAGTCATTTTACAACATAGGGGAATA
Found at i:12885468 original size:38 final size:38
Alignment explanation
Indices: 12885415--12885763 Score: 245
Period size: 38 Copynumber: 8.9 Consensus size: 38
12885405 AAGGTAACGT
* *
12885415 TATTCGGGCTCCGTGCTTAGCAGGCTTTGTGCCGGTGA
1 TATTCGGGCTTCGTGCCTAGCAGGCTTTGTGCCGGTGA
* *
12885453 TATTCGGGCTTCGTGCTTAGCAGGCTTTGTGCCAGTGA
1 TATTCGGGCTTCGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * *
12885491 TATTCGGGCTCCGTGCCTAGTAGGATTTGTGCCAGTGA
1 TATTCGGGCTTCGTGCCTAGCAGGCTTTGTGCCGGTGA
* *
12885529 TATTCGGGC-TCTGTGCCTAGAAGGCTTTGTGTCGGTGA
1 TATTCGGGCTTC-GTGCCTAGCAGGCTTTGTGCCGGTGA
* * *
12885567 TATTCAGGC-TCTGTGCCTAGCAGGCTTCGTGCCGATGTA
1 TATTCGGGCTTC-GTGCCTAGCAGGCTTTGTGCCGGTG-A
* * * * * *
12885606 TTATATCAGGC-TCTGTGTCTAGTAGACTTCGTGCCGCTGTA
1 -TAT-TCGGGCTTC-GTGCCTAGCAGGCTTTGTGCCGGTG-A
* * * *
12885647 GTATATCAGGCTTTGTACCTAGCAGGCTTTGTGCCGATGTA
1 -TAT-TCGGGCTTCGTGCCTAGCAGGCTTTGTGCCGGTG-A
* * * * *
12885688 TTATATCAGACTTTGTACCTAGTAGGCTTTGTGCCGGTGTA
1 -TAT-TCGGGCTTCGTGCCTAGCAGGCTTTGTGCCGGTG-A
* * * * *
12885729 TTATATCAGGCTTCGAGCATGGCAGTCTTTGTGCC
1 -TAT-TCGGGCTTCGTGCCTAGCAGGCTTTGTGCC
12885764 AATGTATTGT
Statistics
Matches: 266, Mismatches: 40, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
37 1 0.00
38 133 0.50
39 1 0.00
40 3 0.01
41 127 0.48
42 1 0.00
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (38 bp):
TATTCGGGCTTCGTGCCTAGCAGGCTTTGTGCCGGTGA
Found at i:12885759 original size:41 final size:41
Alignment explanation
Indices: 12885432--12885779 Score: 231
Period size: 41 Copynumber: 8.8 Consensus size: 41
12885422 GCTCCGTGCT
* * * * *
12885432 TAGCAGGCTTTGTGCCGGTG-A-TAT-TCGGGCTTCGTGCT
1 TAGCAGGCTTTGTGCCGATGTATTATATCAGGCTTTGTACC
* ** *
12885470 TAGCAGGCTTTGTGCC-A-GTGA-TAT-TCGGGCTCCGTGCC
1 TAGCAGGCTTTGTGCCGATGT-ATTATATCAGGCTTTGTACC
* * * * *
12885508 TAGTAGGATTTGTGCC-A-GTGA-TAT-TCGGGCTCTGTGCC
1 TAGCAGGCTTTGTGCCGATGT-ATTATATCAGGCTTTGTACC
* * * * *
12885546 TAGAAGGCTTTGTGTCGGTG-A-TAT-TCAGGCTCTGTGCC
1 TAGCAGGCTTTGTGCCGATGTATTATATCAGGCTTTGTACC
* * **
12885584 TAGCAGGCTTCGTGCCGATGTATTATATCAGGCTCTGTGTC
1 TAGCAGGCTTTGTGCCGATGTATTATATCAGGCTTTGTACC
* * * * *
12885625 TAGTAGACTTCGTGCCGCTGTAGTATATCAGGCTTTGTACC
1 TAGCAGGCTTTGTGCCGATGTATTATATCAGGCTTTGTACC
*
12885666 TAGCAGGCTTTGTGCCGATGTATTATATCAGACTTTGTACC
1 TAGCAGGCTTTGTGCCGATGTATTATATCAGGCTTTGTACC
* * * *
12885707 TAGTAGGCTTTGTGCCGGTGTATTATATCAGGCTTCG-AGCA
1 TAGCAGGCTTTGTGCCGATGTATTATATCAGGCTTTGTA-CC
* * * *
12885748 TGGCAGTCTTTGTGCCAATGTATTGTATCAGG
1 TAGCAGGCTTTGTGCCGATGTATTATATCAGG
12885780 TAAGTTGTAC
Statistics
Matches: 262, Mismatches: 40, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
36 1 0.00
38 113 0.43
39 1 0.00
40 5 0.02
41 142 0.54
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.34
Consensus pattern (41 bp):
TAGCAGGCTTTGTGCCGATGTATTATATCAGGCTTTGTACC
Found at i:12885759 original size:82 final size:81
Alignment explanation
Indices: 12885474--12885778 Score: 261
Period size: 82 Copynumber: 3.8 Consensus size: 81
12885464 CGTGCTTAGC
* * * * * *
12885474 AGGCTTTGTGCCAGTG-ATAT-TCGGGCTCCGTGCCTAGTAGGATTTGTGCC-A-GTGA-TAT-T
1 AGGCTTTGTGCCGGTGTATATATCAGGCTTCGAGCCTAGCAGGCTTTGTGCCGATGT-ATTATAT
* * * *
12885533 CGGGCTCTGTGCCTAGA
65 CAGACTCTGTACCTAGT
* * *
12885550 AGGCTTTGTGTCGGTG-ATAT-TCAGGC-TCTGTGCCTAGCAGGCTTCGTGCCGATGTATTATAT
1 AGGCTTTGTGCCGGTGTATATATCAGGCTTC-GAGCCTAGCAGGCTTTGTGCCGATGTATTATAT
* **
12885612 CAGGCTCTGTGTCTAGT
65 CAGACTCTGTACCTAGT
* * * *
12885629 AGACTTCGTGCCGCTGTAGTATATCAGGCTTTGTA-CCTAGCAGGCTTTGTGCCGATGTATTATA
1 AGGCTTTGTGCCGGTGTA-TATATCAGGCTTCG-AGCCTAGCAGGCTTTGTGCCGATGTATTATA
*
12885693 TCAGACTTTGTACCTAGT
64 TCAGACTCTGTACCTAGT
* * * * *
12885711 AGGCTTTGTGCCGGTGTATTATATCAGGCTTCGAGCATGGCAGTCTTTGTGCCAATGTATTGTAT
1 AGGCTTTGTGCCGGTGTA-TATATCAGGCTTCGAGCCTAGCAGGCTTTGTGCCGATGTATTATAT
12885776 CAG
65 CAG
12885779 GTAAGTTGTA
Statistics
Matches: 187, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
75 1 0.01
76 41 0.22
77 2 0.01
78 5 0.03
79 27 0.14
80 1 0.01
81 4 0.02
82 105 0.56
83 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (81 bp):
AGGCTTTGTGCCGGTGTATATATCAGGCTTCGAGCCTAGCAGGCTTTGTGCCGATGTATTATATC
AGACTCTGTACCTAGT
Found at i:12892600 original size:24 final size:24
Alignment explanation
Indices: 12892546--12892593 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
12892536 CCTGTAGTCC
*
12892546 ATCGGGACTGTAAACACAAGGTCT
1 ATCGGGACTGTAAACACAACGTCT
*
12892570 ATCGGGACTGTAAACACGACGTCT
1 ATCGGGACTGTAAACACAACGTCT
12892594 GTTGGGATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (24 bp):
ATCGGGACTGTAAACACAACGTCT
Found at i:12892900 original size:25 final size:25
Alignment explanation
Indices: 12892871--12892932 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
12892861 AAAAAGCTTT
*
12892871 TGTGGCGAATTATCTAAAAATCCT-
1 TGTGGCGAATTATCCAAAAATCCTG
*
12892895 TGGTGGCTAATTATCCAAAAATCCTG
1 T-GTGGCGAATTATCCAAAAATCCTG
*
12892921 TGTGGCGTATTA
1 TGTGGCGAATTA
12892933 CCTGGAAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (25 bp):
TGTGGCGAATTATCCAAAAATCCTG
Found at i:12899305 original size:25 final size:25
Alignment explanation
Indices: 12899275--12899348 Score: 121
Period size: 25 Copynumber: 3.0 Consensus size: 25
12899265 ATTTCGACCC
12899275 ACAGCTCGTGTGAGCATACCGATTT
1 ACAGCTCGTGTGAGCATACCGATTT
* *
12899300 ACAGCTCGTGAGAGCATACCGATCT
1 ACAGCTCGTGTGAGCATACCGATTT
*
12899325 ATAGCTCGTGTGAGCATACCGATT
1 ACAGCTCGTGTGAGCATACCGATT
12899349 CATATCTTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACCGATTT
Found at i:12903370 original size:24 final size:24
Alignment explanation
Indices: 12903322--12903368 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
12903312 ACTGGTCATA
*
12903322 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
12903346 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
12903369 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:12904513 original size:54 final size:54
Alignment explanation
Indices: 12904425--12904704 Score: 320
Period size: 54 Copynumber: 5.2 Consensus size: 54
12904415 CCCTAAAAGA
*
12904425 GGTAAAATGATCGAAATA-CCTCCATAGGATAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGATCAAAATACCCT-CATAGGATAAAATGACTGAAATACCCCCATAG
* * *
12904479 GATAACATGATCAAAATACCCTCATAGGATAAAATGA-TCAAAATACCCCCATAG
1 GGTAAAATGATCAAAATACCCTCATAGGATAAAATGACT-GAAATACCCCCATAG
* * * * * * *
12904533 GGCAAAACGATCGAAATACCCTTATAGGGTAAAATGA-TCGAAATACCCTCATAT
1 GGTAAAATGATCAAAATACCCTCATAGGATAAAATGACT-GAAATACCCCCATAG
* * * *
12904587 GGTAAAATGACCAAAATACCC-CTATAGGGTAAAATGACTCAAATACCCTCATAG
1 GGTAAAATGATCAAAATACCCTC-ATAGGATAAAATGACTGAAATACCCCCATAG
*
12904641 GGTAAAATGACCAAAATACCACT-ATAAGG-TAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGATCAAAATACC-CTCAT-AGGATAAAATGACTGAAATACCCCCATAG
12904695 GGTAAAATGA
1 GGTAAAATGA
12904705 CTATTATACC
Statistics
Matches: 196, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
53 1 0.01
54 187 0.95
55 8 0.04
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.20
Consensus pattern (54 bp):
GGTAAAATGATCAAAATACCCTCATAGGATAAAATGACTGAAATACCCCCATAG
Found at i:12904715 original size:27 final size:27
Alignment explanation
Indices: 12904425--12904706 Score: 281
Period size: 27 Copynumber: 10.4 Consensus size: 27
12904415 CCCTAAAAGA
*
12904425 GGTAAAATGA-TCGAAATACCTCCATAG
1 GGTAAAATGACTC-AAATACCCCCATAG
* *
12904452 GATAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACTCAAATACCCCCATAG
* * *
12904479 GATAACATGA-TCAAAATACCCTCATAG
1 GGTAAAATGACTC-AAATACCCCCATAG
*
12904506 GATAAAATGA-TCAAAATACCCCCATAG
1 GGTAAAATGACTC-AAATACCCCCATAG
* * **
12904533 GGCAAAACGA-TCGAAATACCCTTATAG
1 GGTAAAATGACTC-AAATACCCCCATAG
* *
12904560 GGTAAAATGA-TCGAAATACCCTCATAT
1 GGTAAAATGACTC-AAATACCCCCATAG
*
12904587 GGTAAAATGAC-CAAAATACCCCTATAG
1 GGTAAAATGACTC-AAATACCCCCATAG
*
12904614 GGTAAAATGACTCAAATACCCTCATAG
1 GGTAAAATGACTCAAATACCCCCATAG
* * *
12904641 GGTAAAATGAC-CAAAATACCACTATAA
1 GGTAAAATGACTC-AAATACCCCCATAG
*
12904668 GGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACTCAAATACCCCCATAG
12904695 GGTAAAATGACT
1 GGTAAAATGACT
12904707 ATTATACCCT
Statistics
Matches: 217, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.01
27 213 0.98
28 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACTCAAATACCCCCATAG
Found at i:12904716 original size:81 final size:81
Alignment explanation
Indices: 12904424--12904706 Score: 358
Period size: 81 Copynumber: 3.5 Consensus size: 81
12904414 ACCCTAAAAG
* * * * * * *
12904424 AGGTAAAATGATCGAAATACCTCCATAGGATAAAATGACTGAAATACCCCCATAGGATAACATGA
1 AGGTAAAATGATCAAAATACCCCCATAGGGTAAAATGACTCAAATACCCTCATAGGGTAAAATGA
12904489 TCAAAATACCCTCAT-
66 TCAAAATACCCTCATA
* * *
12904504 AGGATAAAATGATCAAAATACCCCCATAGGGCAAAACGA-TCGAAATACCCTTATAGGGTAAAAT
1 AGG-TAAAATGATCAAAATACCCCCATAGGGTAAAATGACTC-AAATACCCTCATAGGGTAAAAT
*
12904568 GATCGAAATACCCTCATA
64 GATCAAAATACCCTCATA
* * *
12904586 TGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACTCAAATACCCTCATAGGGTAAAATGA
1 AGGTAAAATGATCAAAATACCCCCATAGGGTAAAATGACTCAAATACCCTCATAGGGTAAAATGA
*
12904651 CCAAAATACCACT-ATA
66 TCAAAATACC-CTCATA
*
12904667 AGGTAAAATGA-CTGAAATACCCCCATAGGGTAAAATGACT
1 AGGTAAAATGATC-AAAATACCCCCATAGGGTAAAATGACT
12904707 ATTATACCCT
Statistics
Matches: 175, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
80 5 0.03
81 164 0.94
82 6 0.03
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.20
Consensus pattern (81 bp):
AGGTAAAATGATCAAAATACCCCCATAGGGTAAAATGACTCAAATACCCTCATAGGGTAAAATGA
TCAAAATACCCTCATA
Found at i:12910081 original size:27 final size:27
Alignment explanation
Indices: 12910049--12910297 Score: 256
Period size: 27 Copynumber: 9.2 Consensus size: 27
12910039 ATTCATGGGC
*
12910049 AAATGATCGAAATACCCTCGAATGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
12910076 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
* * *
12910103 AAATGA-CTAAAATACCTTTGAAGGGTA
1 AAATGATC-GAAATACCCTCGAAGGGTA
* *
12910130 AAATGACCAAAATA-CCTCCGAAGGGTA
1 AAATGATCGAAATACCCT-CGAAGGGTA
** *
12910157 AAATGA-CTGAAATACTTTCGAAGGATA
1 AAATGATC-GAAATACCCTCGAAGGGTA
* * *
12910184 AAATGATCAAAATACCCCCAAAGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
12910211 AAATGA-CTGAAATACCCTCGAAGGGTA
1 AAATGATC-GAAATACCCTCGAAGGGTA
* * ***
12910238 AAATGATCAAAATACCCTCAAATTTTA
1 AAATGATCGAAATACCCTCGAAGGGTA
*
12910265 AAATGATCGAAATACCC-CCATAGGGTA
1 AAATGATCGAAATACCCTCGA-AGGGTA
12910292 AAATGA
1 AAATGA
12910298 CTGTTATACC
Statistics
Matches: 184, Mismatches: 29, Indels: 18
0.80 0.13 0.08
Matches are distributed among these distances:
26 7 0.04
27 173 0.94
28 4 0.02
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.21
Consensus pattern (27 bp):
AAATGATCGAAATACCCTCGAAGGGTA
Found at i:12910131 original size:54 final size:54
Alignment explanation
Indices: 12910049--12910297 Score: 290
Period size: 54 Copynumber: 4.6 Consensus size: 54
12910039 ATTCATGGGC
* *
12910049 AAATGA-TCGAAATACCCTCGAATGGTAAAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTCGAAGGGTA
* * * *
12910103 AAATGACTAAAATACCTTTGAAGGGTAAAATGACCAAAATA-CCTCCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCT-CGAAGGGTA
** * * *
12910157 AAATGACTGAAATACTTTCGAAGGATAAAATGATCAAAATACCCCCAAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTCGAAGGGTA
* ***
12910211 AAATGACTGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTCAAATTTTA
1 AAATGACTGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTCGAAGGGTA
*
12910265 AAATGA-TCGAAATACCC-CCATAGGGTAAAATGA
1 AAATGACT-GAAATACCCTCGA-AGGGTAAAATGA
12910298 CTGTTATACC
Statistics
Matches: 169, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
53 6 0.04
54 160 0.95
55 3 0.02
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.21
Consensus pattern (54 bp):
AAATGACTGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTCGAAGGGTA
Found at i:12910186 original size:81 final size:81
Alignment explanation
Indices: 12910049--12910298 Score: 290
Period size: 81 Copynumber: 3.1 Consensus size: 81
12910039 ATTCATGGGC
* * *
12910049 AAATGATCGAAATACCCTCGAATGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGA-CTAA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGATAAAATGATC-AA
****
12910113 AATACCTTTGAAGGGTA
65 AATACCCCCAAAGGGTA
* **
12910130 AAATGACCAAAATA-CCTCCGAAGGGTAAAATGA-CTGAAATACTTTCGAAGGATAAAATGATCA
1 AAATGACCGAAATACCCT-CGAAGGGTAAAATGATC-GAAATACCCTCGAAGGATAAAATGATCA
12910193 AAATACCCCCAAAGGGTA
64 AAATACCCCCAAAGGGTA
* * * *** *
12910211 AAATGACTGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTCAAATTTTAAAATGATCGAA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGATAAAATGATCAAA
*
12910276 ATACCCCCATAGGGTA
66 ATACCCCCAAAGGGTA
12910292 AAATGAC
1 AAATGAC
12910299 TGTTATACCC
Statistics
Matches: 143, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
80 4 0.03
81 134 0.94
82 5 0.03
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.21
Consensus pattern (81 bp):
AAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGATAAAATGATCAAA
ATACCCCCAAAGGGTA
Found at i:12926141 original size:10 final size:9
Alignment explanation
Indices: 12926116--12926237 Score: 66
Period size: 9 Copynumber: 12.7 Consensus size: 9
12926106 ACAGATAAAA
*
12926116 ATAAAAATCA
1 ATAAAAAT-T
*
12926126 ATAAAAGTT
1 ATAAAAATT
12926135 ATAAAAATT
1 ATAAAAATT
12926144 ATAAAAATT
1 ATAAAAATT
**
12926153 ATGAAATTTT
1 AT-AAAAATT
12926163 AATAAAAA-T
1 -ATAAAAATT
*
12926172 ATAAAAAAAT
1 AT-AAAAATT
**
12926182 ATTAAATTTTT
1 A-TAAA-AATT
12926193 ATTAAAAATT
1 A-TAAAAATT
*
12926203 AGAAAAATATT
1 A-TAAAA-ATT
*
12926214 ATAAAAAAT
1 ATAAAAATT
*
12926223 GTAAAAATT
1 ATAAAAATT
12926232 ATAAAA
1 ATAAAA
12926238 TATATAGAAA
Statistics
Matches: 86, Mismatches: 19, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
8 2 0.02
9 39 0.45
10 31 0.36
11 14 0.16
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:12926147 original size:18 final size:19
Alignment explanation
Indices: 12926116--12926178 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
12926106 ACAGATAAAA
*
12926116 ATAAAAATCAATAAAAGTT
1 ATAAAAATCAATAAAAATT
*
12926135 ATAAAAAT-TATAAAAATT
1 ATAAAAATCAATAAAAATT
** *
12926153 ATGAAATTTTAATAAAAA-T
1 AT-AAAAATCAATAAAAATT
12926172 ATAAAAA
1 ATAAAAA
12926179 AATATTAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
18 13 0.37
19 15 0.43
20 7 0.20
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (19 bp):
ATAAAAATCAATAAAAATT
Found at i:12926211 original size:29 final size:28
Alignment explanation
Indices: 12926135--12926214 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
12926125 AATAAAAGTT
* *
12926135 ATAAAAATTATAAAAATTATGAAATTTTA
1 ATAAAAATTA-AAAAAATATTAAATTTTA
12926164 ATAAAAATATAAAAAAATATTAAATTTTTA
1 ATAAAAAT-TAAAAAAATATTAAA-TTTTA
* *
12926194 TTAAAAATTAGAAAAATATTA
1 ATAAAAATTAAAAAAATATTA
12926215 TAAAAAATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 31 0.69
30 14 0.31
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (28 bp):
ATAAAAATTAAAAAAATATTAAATTTTA
Found at i:12926248 original size:10 final size:9
Alignment explanation
Indices: 12926206--12926267 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 9
12926196 AAAAATTAGA
12926206 AAAATATTAT
1 AAAATA-TAT
* *
12926216 AAAAAATGT
1 AAAATATAT
12926225 AAAA-ATTAT
1 AAAATA-TAT
12926234 AAAATATAT
1 AAAATATAT
*
12926243 AGAAATATAG
1 A-AAATATAT
12926253 AAAGATATAT
1 AAA-ATATAT
12926263 AAAAT
1 AAAAT
12926268 TTTATAAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 1 0.02
9 20 0.47
10 22 0.51
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (9 bp):
AAAATATAT
Found at i:12926248 original size:18 final size:17
Alignment explanation
Indices: 12926211--12926268 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
12926201 TTAGAAAAAT
* *
12926211 ATTATAAAAAATGTAAAA
1 ATTATAAAATATAT-AAA
12926229 ATTATAAAATATATAGAA
1 ATTATAAAATATATA-AA
*
12926247 ATATAGAAAGATATATAAA
1 AT-TATAAA-ATATATAAA
12926266 ATT
1 ATT
12926269 TTATAAAGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 1 0.03
18 17 0.50
19 9 0.26
20 7 0.21
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (17 bp):
ATTATAAAATATATAAA
Found at i:12926276 original size:20 final size:20
Alignment explanation
Indices: 12926230--12926276 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
12926220 AATGTAAAAA
12926230 TTATAAA-ATATATAGAAAT
1 TTATAAAGATATATAGAAAT
* *
12926249 ATAGAAAGATATATA-AAATT
1 TTATAAAGATATATAGAAA-T
12926269 TTATAAAG
1 TTATAAAG
12926277 TCGTTAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (20 bp):
TTATAAAGATATATAGAAAT
Found at i:12926533 original size:19 final size:19
Alignment explanation
Indices: 12926505--12926541 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12926495 TTAAAGGGTC
12926505 TTTTTGATTCATTTTATAA
1 TTTTTGATTCATTTTATAA
* *
12926524 TTTTTTATTCTTTTTATA
1 TTTTTGATTCATTTTATA
12926542 CAATTTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTTGATTCATTTTATAA
Found at i:12926552 original size:9 final size:9
Alignment explanation
Indices: 12926535--12926567 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
12926525 TTTTTATTCT
12926535 TTTTATACAA
1 TTTT-TACAA
12926545 TTTTTACAA
1 TTTTTACAA
12926554 TTTTTACAA
1 TTTTTACAA
12926563 TTTTT
1 TTTTT
12926568 TACGATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTACAA
Found at i:12926570 original size:10 final size:10
Alignment explanation
Indices: 12926534--12926575 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
12926524 TTTTTTATTC
12926534 TTTTTATACAA
1 TTTTT-TACAA
12926545 -TTTTTACAA
1 TTTTTTACAA
12926554 -TTTTTACAA
1 TTTTTTACAA
*
12926563 TTTTTTACGA
1 TTTTTTACAA
12926573 TTT
1 TTT
12926576 ATATTTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 14 0.48
10 15 0.52
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTTTACAA
Found at i:12926652 original size:19 final size:20
Alignment explanation
Indices: 12926598--12926635 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
12926588 ATTTTTGGTA
*
12926598 AAATTTAAAT-ATTTTTATT
1 AAATTTTAATAATTTTTATT
12926617 AAATTTTAATAATTTTTAT
1 AAATTTTAATAATTTTTAT
12926636 AACTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AAATTTTAATAATTTTTATT
Found at i:12926887 original size:89 final size:88
Alignment explanation
Indices: 12926792--12927009 Score: 233
Period size: 88 Copynumber: 2.5 Consensus size: 88
12926782 TGCATTTTGG
* * * *
12926792 AATTGAGTGGAAAAAAAATTAGGGGATTAATTGCTTTTTTTGAAAAACTTTAAGGGTC-TTTTTG
1 AATTGAGTGCAAAAAAAAGTA-GGGATTAATTGTTTTTTTTGAAAAACTTTAAGGG-CAATTTTG
* *
12926856 ATACATTTTGATAGTTTAAATACCC
64 ATACATTTTGAAAGTTCAAATACCC
* * * * * * **
12926881 AGTTGAGTTCAAAAAGAAGCAATGGCTTAATT-TTTTTTTTGAAAATGTTTAAGGGCAATTTTGA
1 AATTGAGTGCAAAAAAAAG-TAGGGATTAATTGTTTTTTTTGAAAAACTTTAAGGGCAATTTTGA
* *
12926945 TGCATTTTGAAAGTTCAAGTACCC
65 TACATTTTGAAAGTTCAAATACCC
*
12926969 AATTGAGTGCAAATAAAAGTAGGGACTTAATTGTTTTTTTT
1 AATTGAGTGCAAAAAAAAGTAGGGA-TTAATTGTTTTTTTT
12927010 TTTAAGTTTG
Statistics
Matches: 102, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
87 4 0.04
88 67 0.66
89 30 0.29
90 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (88 bp):
AATTGAGTGCAAAAAAAAGTAGGGATTAATTGTTTTTTTTGAAAAACTTTAAGGGCAATTTTGAT
ACATTTTGAAAGTTCAAATACCC
Found at i:12927118 original size:20 final size:19
Alignment explanation
Indices: 12927090--12927141 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
12927080 GAAAATTTTA
*
12927090 TAATT-TTTTTGAACT-TT
1 TAATTATTTTTGAAATCTT
*
12927107 TAAATTTATTTTTAAAATCTT
1 T-AA-TTATTTTTGAAATCTT
12927128 TAATTATTTTTGAA
1 TAATTATTTTTGAA
12927142 GCTTGTTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.04
18 2 0.07
19 12 0.43
20 10 0.36
21 3 0.11
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (19 bp):
TAATTATTTTTGAAATCTT
Found at i:12927671 original size:58 final size:59
Alignment explanation
Indices: 12927578--12927747 Score: 188
Period size: 58 Copynumber: 2.9 Consensus size: 59
12927568 AATATCAAGG
**
12927578 ACTAACTTGGACAAAAAAAAGTTCAAGTCTCAATGTGAGAACAATTGTCAAGTTTAGGA
1 ACTAACTTGGACAAAAAAAAGTTCAACCCTCAATGTGAGAACAATTGTCAAGTTTAGGA
* * * *
12927637 ATTAACTTGGA-AAAAAAAAGTTTAGACCCT-AATGTGGGAACAATTGTCAAGTTTAGGG
1 ACTAACTTGGACAAAAAAAAGTTCA-ACCCTCAATGTGAGAACAATTGTCAAGTTTAGGA
* ** *
12927695 ACTAACTTAGACTCAAAAAA-TTCAAACCC-CAATATGAGAA-AACTTGTCAAGTT
1 ACTAACTTGGACAAAAAAAAGTTC-AACCCTCAATGTGAGAACAA-TTGTCAAGTT
12927748 GAAAACCCAA
Statistics
Matches: 93, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
57 2 0.02
58 71 0.76
59 20 0.22
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (59 bp):
ACTAACTTGGACAAAAAAAAGTTCAACCCTCAATGTGAGAACAATTGTCAAGTTTAGGA
Found at i:12929239 original size:29 final size:29
Alignment explanation
Indices: 12929197--12929271 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
12929187 GATATTAGGA
*
12929197 ATTATCAAGCACTATGTGCTAGTGTTTAT
1 ATTATCAGGCACTATGTGCTAGTGTTTAT
12929226 ATTATCAGGCACTATGTGCTAGTGTTTAT
1 ATTATCAGGCACTATGTGCTAGTGTTTAT
* *
12929255 ATTATTAGGTACTATGT
1 ATTATCAGGCACTATGT
12929272 ACCAATACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.43
Consensus pattern (29 bp):
ATTATCAGGCACTATGTGCTAGTGTTTAT
Found at i:12933097 original size:12 final size:12
Alignment explanation
Indices: 12933080--12933110 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
12933070 ATGAAAAAAG
12933080 AAAAAATTGAGA
1 AAAAAATTGAGA
12933092 AAAAAATTGAGA
1 AAAAAATTGAGA
12933104 AACAAAA
1 AA-AAAA
12933111 AGAGAGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.71, C:0.03, G:0.13, T:0.13
Consensus pattern (12 bp):
AAAAAATTGAGA
Found at i:12937603 original size:13 final size:13
Alignment explanation
Indices: 12937585--12937610 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12937575 GTTAAGTATC
12937585 ATTTTAAATCATA
1 ATTTTAAATCATA
12937598 ATTTTAAATCATA
1 ATTTTAAATCATA
12937611 TTTAATCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTTAAATCATA
Found at i:12949182 original size:17 final size:18
Alignment explanation
Indices: 12949149--12949183 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12949139 GTGTGGTTCA
*
12949149 CCCGTGTGGGCCTACACG
1 CCCGTGTGGGCCCACACG
12949167 CCCGTGT-GGCCCACACG
1 CCCGTGTGGGCCCACACG
12949184 ATCCAATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.11, C:0.43, G:0.31, T:0.14
Consensus pattern (18 bp):
CCCGTGTGGGCCCACACG
Found at i:12956026 original size:26 final size:28
Alignment explanation
Indices: 12955983--12956038 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
12955973 CATAATTTGG
*
12955983 TTTAACTAATTAGTTA-TTATTTTGTGA
1 TTTAACTAATTAGTTATTTATGTTGTGA
12956010 TTTAA-TAATTA-TCTATTTATGTTGTGA
1 TTTAACTAATTAGT-TATTTATGTTGTGA
12956037 TT
1 TT
12956039 GAGTTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 1 0.04
26 8 0.31
27 17 0.65
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.57
Consensus pattern (28 bp):
TTTAACTAATTAGTTATTTATGTTGTGA
Found at i:12961499 original size:28 final size:27
Alignment explanation
Indices: 12961465--12961562 Score: 153
Period size: 28 Copynumber: 3.6 Consensus size: 27
12961455 GTACAATGTG
12961465 GGCCTTAGCCCAATACAGTAA-CAGTGT
1 GGCCTTAGCCCAATACAG-AATCAGTGT
*
12961492 AAGCCTTAGCCCAATACAGAATCAGTGT
1 -GGCCTTAGCCCAATACAGAATCAGTGT
12961520 GGGCCTTAGCCCAATACAGAATCAGTGT
1 -GGCCTTAGCCCAATACAGAATCAGTGT
12961548 GGCCTTAGCCCAATA
1 GGCCTTAGCCCAATA
12961563 TAGTAACAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 17 0.26
28 49 0.74
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (27 bp):
GGCCTTAGCCCAATACAGAATCAGTGT
Found at i:12961980 original size:27 final size:27
Alignment explanation
Indices: 12961932--12962294 Score: 304
Period size: 27 Copynumber: 13.4 Consensus size: 27
12961922 AAGGCCATAA
**
12961932 CAGTCATTTTATCTCCTA--GGGGTATAA
1 CAGTCATTTTA-C-CCTATGGGGGTATTT
*
12961959 CACTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
12961986 CGGTCATTTTACCCTATCGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** * * * *
12962013 TGGTCATTCTACCTTATGGGGGAATCT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
12962040 CAGTCATTTTACCCTATGCGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** *
12962067 TGGTCATTTTACCCTATGAGGGTA-TT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * * *
12962093 CCGATCATTGTACCCTATGAGGGAATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
**
12962121 CAGTCATTTTACCCTATAAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
12962148 CAATCATTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
12962175 CGGTCATTTTACCCTATAGAGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
12962202 CTA-TTATTTTATCTTATGGGGGTATTT
1 C-AGTCATTTTACCCTATGGGGGTATTT
* ** *
12962229 CAGTCATTTTATCCTATAAGGGTGTTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* **
12962256 C-GATCATTCTACCCTATAAGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
**
12962283 TGGTCATTTTAC
1 CAGTCATTTTAC
12962295 TCGATGGAGT
Statistics
Matches: 277, Mismatches: 51, Indels: 16
0.81 0.15 0.05
Matches are distributed among these distances:
25 4 0.01
26 6 0.02
27 262 0.95
28 5 0.02
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:12962020 original size:54 final size:53
Alignment explanation
Indices: 12961962--12962294 Score: 337
Period size: 54 Copynumber: 6.2 Consensus size: 53
12961952 GGTATAACAC
** * *
12961962 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATCGGGGTATTTTGG
1 TCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTAT-GGGGTATTTCGG
* * ** * * *
12962016 TCATTCTACCTTATGGGGGAATCTC-AGTCATTTTACCCTATGCGGGTATTTTGG
1 TCATTTTACCCTATAAGGGTATTTCGA-TCATTTTACCCTATG-GGGTATTTCGG
* * * * *
12962070 TCATTTTACCCTATGAGGGTATTCCGATCATTGTACCCTATGAGGGAATTTCAG
1 TCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATG-GGGTATTTCGG
*
12962124 TCATTTTACCCTATAAGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTAT-GGGGTATTTCGG
* * * * *
12962178 TCATTTTACCCTAT-AGAGGTATTTCTATTATTTTATCTTATGGGGGTATTTCAG
1 TCATTTTACCCTATAAG-GGTATTTCGATCATTTTACCCTAT-GGGGTATTTCGG
* * * * *
12962232 TCATTTTATCCTATAAGGGTGTTTCGATCATTCTACCCTATAAGGGTATTTTGG
1 TCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTAT-GGGGTATTTCGG
12962286 TCATTTTAC
1 TCATTTTAC
12962295 TCGATGGAGT
Statistics
Matches: 233, Mismatches: 40, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
53 3 0.01
54 226 0.97
55 4 0.02
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (53 bp):
TCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATGGGGTATTTCGG
Found at i:12962280 original size:81 final size:81
Alignment explanation
Indices: 12961962--12962294 Score: 364
Period size: 81 Copynumber: 4.1 Consensus size: 81
12961952 GGTATAACAC
* ** * * *
12961962 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATCGGGGTATTTTGGTCATTCTACCT
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTCTACCC
* *
12962027 TATGGGGGAATCTCAG
66 TATGAGGGAATTTCAG
* ** * * *
12962043 TCATTTTACCCTATGCGGGTATTTTGGTCATTTTACCCTATGAGGGTATTCCGATCATTGTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTCTACCC
12962108 TATGAGGGAATTTCAG
66 TATGAGGGAATTTCAG
** * * * *
12962124 TCATTTTACCCTATAAGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTCTACCC
*
12962189 TAT-AGAGGTATTTCTA-
66 TATGAG-GGAATTTC-AG
* * * * *
12962205 TTATTTTATCTTATGGGGGTATTTCAGTCATTTTATCCTATAAGGGTGTTTCGATCATTCTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTCTACCC
* * **
12962270 TATAAGGGTATTTTGG
66 TATGAGGGAATTTCAG
12962286 TCATTTTAC
1 TCATTTTAC
12962295 TCGATGGAGT
Statistics
Matches: 211, Mismatches: 37, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
80 2 0.01
81 206 0.98
82 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTCTACCC
TATGAGGGAATTTCAG
Found at i:12964799 original size:28 final size:28
Alignment explanation
Indices: 12964756--12964842 Score: 140
Period size: 28 Copynumber: 3.1 Consensus size: 28
12964746 CAGCAACAGT
*
12964756 ACAGTGTGGGCTTTAGCCCAATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
12964784 ACAGTGTGGGCCTTAGCCCAATACAA-A
1 ACAGTGTGGGCCTTAGCCCAATACAATA
*
12964811 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAATA
12964840 ACA
1 ACA
12964843 ATGTAGTGCA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
27 2 0.04
28 51 0.93
29 2 0.04
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAATA
Found at i:12964971 original size:23 final size:25
Alignment explanation
Indices: 12964947--12964995 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
12964937 AACACACCAA
*
12964947 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAACAAAGCTGCCAGTAA-AG
*
12964973 TATCGCAACAAAGCTGCTAGTAA
1 TATCGCAACAAAGCTGCCAGTAA
12964996 CAATATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (25 bp):
TATCGCAACAAAGCTGCCAGTAAAG
Found at i:12965422 original size:134 final size:134
Alignment explanation
Indices: 12965235--12965561 Score: 394
Period size: 134 Copynumber: 2.4 Consensus size: 134
12965225 GGGTATAACA
** * * *
12965235 GTCATTTTACCCTATAGAAGTATTTCAGTCATTTTA-CCTAATAGGGGTATTTCGGTCATTCTAC
1 GTCATTTTACCCTAT-GGGGTATTTCTGTAATTTTACCCT-ATGGGGGTATTTCGGTCATTCTAC
12965299 CCAATGGGGGTATTTCGGTCATTTCATCC-TATGG-GGGTATCTCAGTCATTCTACCCTATAAGG
64 CCAATGGGGGTATTTCGGTCATTTCA-CCATA-GGAGGGTATCTCAGTCATTCTACCCTAT-AGG
12965362 -GTATTTCG
126 AGTATTTCG
* *
12965370 GTCATTTTATCCTATGGGGTATTTC-GATAATTTTACCCTATGGGGGTATTTCGGTCATTCTATC
1 GTCATTTTACCCTATGGGGTATTTCTG-TAATTTTACCCTATGGGGGTATTTCGGTCATTCTACC
** * * * * * * *
12965434 CTGTGGGGGTATTTTGGTCATTTTACCATAGGAGGGTATTTCAGTCATTTTATCCTATGGGAGTG
65 CAATGGGGGTATTTCGGTCATTTCACCATAGGAGGGTATCTCAGTCATTCTACCCTATAGGAGTA
12965499 TTTCG
130 TTTCG
* * *
12965504 GTCATTTTACCCTATGGGGTATTTCTGTCATTTTACCCTATGGAGGTATTTTGGTCAT
1 GTCATTTTACCCTATGGGGTATTTCTGTAATTTTACCCTATGGGGGTATTTCGGTCAT
12965562 AATAGTGTAA
Statistics
Matches: 167, Mismatches: 19, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
133 7 0.04
134 142 0.85
135 18 0.11
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (134 bp):
GTCATTTTACCCTATGGGGTATTTCTGTAATTTTACCCTATGGGGGTATTTCGGTCATTCTACCC
AATGGGGGTATTTCGGTCATTTCACCATAGGAGGGTATCTCAGTCATTCTACCCTATAGGAGTAT
TTCG
Found at i:12965553 original size:107 final size:107
Alignment explanation
Indices: 12965254--12965561 Score: 404
Period size: 107 Copynumber: 2.9 Consensus size: 107
12965244 CCCTATAGAA
* *
12965254 GTATTTCAGTCATTTTA-CCTAATAGGGGTATTTCGGTCATTCTACCCAATGGGGGTATTTCGGT
1 GTATTTCAGTCATTTTATCCT-AT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGT
* * ** * *
12965318 CATTTCATCCTATGGGGGTATCTCAGTCATTCTACCCTATAAGG
64 CATTTTATCCTATGGGGGTATTTTGGTCATTCTACCATAGAAGG
* * *
12965362 GTATTTCGGTCATTTTATCCTATGGGGTATTTCGATAATTTTACCCTATGGGGGTATTTCGGTCA
1 GTATTTCAGTCATTTTATCCTATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCA
* * * *
12965427 TTCTATCCTGTGGGGGTATTTTGGTCATTTTACCATAGGAGG
66 TTTTATCCTATGGGGGTATTTTGGTCATTCTACCATAGAAGG
* *
12965469 GTATTTCAGTCATTTTATCCTATGGGAGTGTTTCGGTCATTTTACCCTAT-GGGGTATTTCTGTC
1 GTATTTCAGTCATTTTATCCTATGGG-GTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTC
* *
12965533 ATTTTACCCTATGGAGGTATTTTGGTCAT
65 ATTTTATCCTATGGGGGTATTTTGGTCAT
12965562 AATAGTGTAA
Statistics
Matches: 174, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
107 133 0.76
108 38 0.22
109 3 0.02
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (107 bp):
GTATTTCAGTCATTTTATCCTATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCA
TTTTATCCTATGGGGGTATTTTGGTCATTCTACCATAGAAGG
Found at i:12965560 original size:27 final size:26
Alignment explanation
Indices: 12965235--12965561 Score: 323
Period size: 27 Copynumber: 12.2 Consensus size: 26
12965225 GGGTATAACA
** *
12965235 GTCATTTTACCCTATAGAAGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
12965262 GTCATTTTA-CCTAATAGGGGTATTTCG
1 GTCATTTTACCCT-AT-GGGGTATTTCG
* *
12965289 GTCATTCTACCCAATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * * *
12965316 GTCATTTCATCCTATGGGGGTATCTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
12965343 GTCATTCTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
12965370 GTCATTTTATCCTATGGGGTATTTCG
1 GTCATTTTACCCTATGGGGTATTTCG
* *
12965396 ATAATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * * *
12965423 GTCATTCTATCCTGTGGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
12965450 GTCATTTTACCATAGGAGGGTATTTCA
1 GTCATTTTACCCTATG-GGGTATTTCG
* *
12965477 GTCATTTTATCCTATGGGAGTGTTTCG
1 GTCATTTTACCCTATGGG-GTATTTCG
*
12965504 GTCATTTTACCCTATGGGGTATTTCT
1 GTCATTTTACCCTATGGGGTATTTCG
*
12965530 GTCATTTTACCCTATGGAGGTATTTTG
1 GTCATTTTACCCTATGG-GGTATTTCG
12965557 GTCAT
1 GTCAT
12965562 AATAGTGTAA
Statistics
Matches: 246, Mismatches: 48, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
26 51 0.21
27 193 0.78
28 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:12972913 original size:26 final size:26
Alignment explanation
Indices: 12972883--12972933 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
12972873 TGGAGAACCA
12972883 TTAATCAGGAAGCTCACAAAGAGCCT
1 TTAATCAGGAAGCTCACAAAGAGCCT
12972909 TTAATCAGGAAGCTCACAAAGAGCC
1 TTAATCAGGAAGCTCACAAAGAGCC
12972934 ATATAATGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.18
Consensus pattern (26 bp):
TTAATCAGGAAGCTCACAAAGAGCCT
Found at i:12972950 original size:26 final size:26
Alignment explanation
Indices: 12972884--12972940 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
12972874 GGAGAACCAT
*
12972884 TAATCAGGAAGCTCACAAAGAGCCTT
1 TAATCAGGAAGCTCACAAAGAGCCTA
12972910 TAATCAGGAAGCTCACAAAGAGCCATA
1 TAATCAGGAAGCTCACAAAGAGCC-TA
12972937 TAAT
1 TAAT
12972941 GGGACGCTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (26 bp):
TAATCAGGAAGCTCACAAAGAGCCTA
Found at i:12973977 original size:16 final size:13
Alignment explanation
Indices: 12973943--12973970 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12973933 TTTTATTTTA
12973943 TTATTTATCATCT
1 TTATTTATCATCT
12973956 TTATTTATCATCT
1 TTATTTATCATCT
12973969 TT
1 TT
12973971 CCAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:12982373 original size:18 final size:18
Alignment explanation
Indices: 12982346--12982387 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
12982336 TTTTCAAGTT
*
12982346 GGTTATGTTAAAGGTTTC
1 GGTTACGTTAAAGGTTTC
12982364 GGTTACGTTAAAGGTTTC
1 GGTTACGTTAAAGGTTTC
*
12982382 AGTTAC
1 GGTTAC
12982388 ATGAGAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (18 bp):
GGTTACGTTAAAGGTTTC
Found at i:12984634 original size:5 final size:5
Alignment explanation
Indices: 12984626--12984659 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
12984616 TTAGATTAGG
12984626 TTTCT TTTCT TTTCT TTTCCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTT-CT TTTCT TTTCT TTT
12984660 TTTCTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:12984648 original size:16 final size:16
Alignment explanation
Indices: 12984629--12984659 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12984619 GATTAGGTTT
12984629 CTTTTCTTTTCTTTTC
1 CTTTTCTTTTCTTTTC
12984645 CTTTTCTTTTCTTTT
1 CTTTTCTTTTCTTTT
12984660 TTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
CTTTTCTTTTCTTTTC
Found at i:12984713 original size:24 final size:24
Alignment explanation
Indices: 12984667--12984713 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
12984657 TTTTTTCTTA
* * *
12984667 TTTTTAGATTAGGTTTTCCTTTTC
1 TTTTTAGAATAGATTTTACTTTTC
*
12984691 TTTTTAGAATAGATTTTATTTTT
1 TTTTTAGAATAGATTTTACTTTT
12984714 TGTTGTTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.19, C:0.06, G:0.11, T:0.64
Consensus pattern (24 bp):
TTTTTAGAATAGATTTTACTTTTC
Found at i:12985596 original size:7 final size:7
Alignment explanation
Indices: 12985568--12985599 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
12985558 AAAGAGAAAG
12985568 TTAAAAGT
1 TTAAAA-T
12985576 TTAAAAT
1 TTAAAAT
12985583 TTAAAAT
1 TTAAAAT
12985590 TTAAAAT
1 TTAAAAT
12985597 TTA
1 TTA
12985600 TGGACAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (7 bp):
TTAAAAT
Found at i:12989697 original size:48 final size:48
Alignment explanation
Indices: 12989641--12989734 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
12989631 GTGGTTTTGA
12989641 ATCGACGCTGTGAGTGTGCGAACTCGTGGTTACACAAGCGAGGTAAAG
1 ATCGACGCTGTGAGTGTGCGAACTCGTGGTTACACAAGCGAGGTAAAG
12989689 ATCGACGCTGTGAGTGTGCGAACTCGTGGTTACACAAGCGAGGTAA
1 ATCGACGCTGTGAGTGTGCGAACTCGTGGTTACACAAGCGAGGTAA
12989735 GGGTTTTGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.27, C:0.19, G:0.33, T:0.21
Consensus pattern (48 bp):
ATCGACGCTGTGAGTGTGCGAACTCGTGGTTACACAAGCGAGGTAAAG
Found at i:12992134 original size:57 final size:57
Alignment explanation
Indices: 12992050--12992159 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
12992040 AGAAATGGTG
* * *
12992050 AAATGGATAAATAGGAAACATTTGGAAATGATTATGGTTTTCTCAAAAATGAACATGA
1 AAATGGAGAAATA-GAAACATTCGGAAATGAATATGGTTTTCTCAAAAATGAACATGA
* *
12992108 AAATGGAGAAAT-GAAATCATTCGGAAATGAATGTGGTTTTCTCCAAAATGAA
1 AAATGGAGAAATAGAAA-CATTCGGAAATGAATATGGTTTTCTCAAAAATGAA
12992160 AAGGACTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 4 0.09
57 31 0.67
58 11 0.24
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (57 bp):
AAATGGAGAAATAGAAACATTCGGAAATGAATATGGTTTTCTCAAAAATGAACATGA
Found at i:12996281 original size:22 final size:22
Alignment explanation
Indices: 12996253--12996301 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
12996243 TTAATCTGAA
*
12996253 TATGTATGTATATGAAATGGTT
1 TATGTATGTATATGAAATGGTC
12996275 TATGTATGTATATGAAATGGTC
1 TATGTATGTATATGAAATGGTC
12996297 TATGT
1 TATGT
12996302 TATTAAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (22 bp):
TATGTATGTATATGAAATGGTC
Found at i:12998126 original size:23 final size:25
Alignment explanation
Indices: 12998100--12998147 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
12998090 ACTATAAATA
* *
12998100 CTCATTTAAC-AATTAAA-ATTTCT
1 CTCATATAACTAATCAAACATTTCT
12998123 CTCATATAACTAATCAAACATTTCT
1 CTCATATAACTAATCAAACATTTCT
12998148 TAGAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 6 0.29
25 6 0.29
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (25 bp):
CTCATATAACTAATCAAACATTTCT
Found at i:12998378 original size:23 final size:23
Alignment explanation
Indices: 12998352--12998473 Score: 165
Period size: 23 Copynumber: 5.3 Consensus size: 23
12998342 ATAAGTGACA
12998352 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
** *
12998375 CACTGATATGTAGTTGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
12998398 CACTGAAATGTAGCCGAAGCGAC
1 CACTGATATGTAGCCGAAGCTAC
*
12998421 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
12998444 CACTGA-ATTGTAGCCGAAGCTGC
1 CACTGATA-TGTAGCCGAAGCTAC
12998467 CACTGAT
1 CACTGAT
12998474 CAATAACACT
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
22 1 0.01
23 83 0.99
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:12998423 original size:46 final size:46
Alignment explanation
Indices: 12998352--12998473 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
12998342 ATAAGTGACA
* * **
12998352 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGTTGTAGCTAC
1 CACTGAAATGTAGCCGAAGCGACCACTGATATGTAGCCGTAGCTAC
12998398 CACTGAAATGTAGCCGAAGCGACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCGACCACTGATATGTAGCCGTAGCTAC
*
12998444 CACTGAATTGTAGCCGAAGCTG-CCACTGAT
1 CACTGAAATGTAGCCGAAGC-GACCACTGAT
12998474 CAATAACACT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
46 69 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCGACCACTGATATGTAGCCGTAGCTAC
Found at i:13005091 original size:33 final size:33
Alignment explanation
Indices: 13005049--13005114 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
13005039 CTAAAGTCAA
13005049 AACAGGGGACTTTAAAAACCATTCTGACCCTAT
1 AACAGGGGACTTTAAAAACCATTCTGACCCTAT
13005082 AACAGGGGACTTTAAAAACCATTCTGACCCTAT
1 AACAGGGGACTTTAAAAACCATTCTGACCCTAT
13005115 CTCACTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (33 bp):
AACAGGGGACTTTAAAAACCATTCTGACCCTAT
Found at i:13011716 original size:29 final size:30
Alignment explanation
Indices: 13011662--13011740 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 30
13011652 TTTGAACCAT
* * *
13011662 AATTAAAGTTTAATGTGTATAATTG-CATCA
1 AATTAAAG-TTCATGTATACAATTGACATCA
*
13011692 AATTAAAGTTCATGTATACAATTGCACATTA
1 AATTAAAGTTCATGTATACAATTG-ACATCA
* *
13011723 AACTAAAATTCATGTATA
1 AATTAAAGTTCATGTATA
13011741 ATTTTGAGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 13 0.32
30 8 0.20
31 20 0.49
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (30 bp):
AATTAAAGTTCATGTATACAATTGACATCA
Found at i:13013991 original size:57 final size:57
Alignment explanation
Indices: 13013885--13013992 Score: 153
Period size: 57 Copynumber: 1.9 Consensus size: 57
13013875 CAAATGGGAA
* * *
13013885 AACGTAGGTTCAAACATTGGAGACAATATTGTTGAGAGGGGCAGCCACGAAGCGCAG
1 AACGTAGGTTCAAACATTGAAGACAATATTGTTGAGAGGAGCAACCACGAAGCGCAG
* * * *
13013942 AACGTAGGTTCGAACCTTGAATACAATATTGTTGAGAGGAGCAATCACGAA
1 AACGTAGGTTCAAACATTGAAGACAATATTGTTGAGAGGAGCAACCACGAA
13013993 CCCCTAATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 44 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (57 bp):
AACGTAGGTTCAAACATTGAAGACAATATTGTTGAGAGGAGCAACCACGAAGCGCAG
Found at i:13014834 original size:28 final size:28
Alignment explanation
Indices: 13014802--13014857 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
13014792 TAGTCCAAAT
13014802 TTGGAGATAACTAAATTCAGACCTACAA
1 TTGGAGATAACTAAATTCAGACCTACAA
13014830 TTGGAGATAACTAAATTCAGACCTACAA
1 TTGGAGATAACTAAATTCAGACCTACAA
13014858 GGAAAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (28 bp):
TTGGAGATAACTAAATTCAGACCTACAA
Found at i:13015217 original size:9 final size:9
Alignment explanation
Indices: 13015205--13015285 Score: 63
Period size: 9 Copynumber: 8.3 Consensus size: 9
13015195 AAATTTTAAT
13015205 AAAATTATA
1 AAAATTATA
*
13015214 AAAATAATTA
1 AAAATTA-TA
13015224 AAAATTATAAA
1 AAAATTAT--A
13015235 AATAATTATA
1 AA-AATTATA
**
13015245 AAAACAATA
1 AAAATTATA
*
13015254 AAAATTTGTA
1 AAAA-TTATA
*
13015264 AAATTTTATA
1 AAA-ATTATA
13015274 AAAATTATA
1 AAAATTATA
13015283 AAA
1 AAA
13015286 TGCATCAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
9 24 0.43
10 23 0.41
11 3 0.05
12 6 0.11
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:13015229 original size:19 final size:20
Alignment explanation
Indices: 13015203--13015286 Score: 86
Period size: 19 Copynumber: 4.3 Consensus size: 20
13015193 ATAAATTTTA
13015203 ATAAAATTATAAAAATAATT
1 ATAAAATTATAAAAATAATT
13015223 A-AAAATTATAAAAATAATT
1 ATAAAATTATAAAAATAATT
**
13015242 ATAAAAACAATAAAAAT--TT
1 AT-AAAATTATAAAAATAATT
* * *
13015261 GTAAAATTTTATAAA-AATT
1 ATAAAATTATAAAAATAATT
13015280 ATAAAAT
1 ATAAAAT
13015287 GCATCAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
18 9 0.17
19 30 0.58
20 1 0.02
21 12 0.23
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (20 bp):
ATAAAATTATAAAAATAATT
Found at i:13015265 original size:10 final size:10
Alignment explanation
Indices: 13015195--13015285 Score: 57
Period size: 10 Copynumber: 9.2 Consensus size: 10
13015185 AAAAGTTTAT
13015195 AAATTT-TAA
1 AAATTTATAA
*
13015204 TAAAATTATAA
1 -AAATTTATAA
*
13015215 AAA-TAATTAA
1 AAATTTA-TAA
13015225 AAA-TTATAA
1 AAATTTATAA
13015234 AAATAATTATAA
1 AAAT--TTATAA
**
13015246 AAA-CAATAA
1 AAATTTATAA
*
13015255 AAATTTGTAA
1 AAATTTATAA
*
13015265 AATTTTATAA
1 AAATTTATAA
13015275 AAA-TTATAA
1 AAATTTATAA
13015284 AA
1 AA
13015286 TGCATCAAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.36
10 29 0.45
11 3 0.05
12 9 0.14
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (10 bp):
AAATTTATAA
Found at i:13015266 original size:31 final size:30
Alignment explanation
Indices: 13015195--13015266 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
13015185 AAAAGTTTAT
* *
13015195 AAATTTTAATAAAATTATAAAAATAATTAA
1 AAATTTTAAAAAAATTATAAAAACAATTAA
*
13015225 AAATTATAAAAATAATTATAAAAACAA-TAA
1 AAATTTTAAAAA-AATTATAAAAACAATTAA
13015255 AAATTTGTAAAA
1 AAATTT-TAAAA
13015267 TTTTATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 18 0.50
31 18 0.50
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (30 bp):
AAATTTTAAAAAAATTATAAAAACAATTAA
Found at i:13015486 original size:8 final size:8
Alignment explanation
Indices: 13015465--13015582 Score: 94
Period size: 8 Copynumber: 13.5 Consensus size: 8
13015455 TTTTTTCGAA
13015465 TTTTATAAT
1 TTTTAT-AT
*
13015474 ATTTTCTAT
1 -TTTTATAT
*
13015483 TTTTATAC
1 TTTTATAT
13015491 TTTTATAT
1 TTTTATAT
13015499 TTTTATATT
1 TTTTATA-T
13015508 TTTTATAT
1 TTTTATAT
13015516 TTTTATAT
1 TTTTATAT
13015524 TTTTATTAAT
1 TTTTA-T-AT
*
13015534 ATTTAATATT
1 -TTTTATA-T
13015544 TTTTATAACT
1 TTTTAT-A-T
*
13015554 TTTATTTAT
1 TTT-TATAT
13015563 TTTTAT-T
1 TTTTATAT
13015570 TTTTATCAT
1 TTTTAT-AT
13015579 TTTT
1 TTTT
13015583 TTGCCACATG
Statistics
Matches: 90, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
7 7 0.08
8 36 0.40
9 26 0.29
10 15 0.17
11 6 0.07
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTATAT
Found at i:13015502 original size:17 final size:17
Alignment explanation
Indices: 13015465--13015583 Score: 100
Period size: 17 Copynumber: 6.8 Consensus size: 17
13015455 TTTTTTCGAA
* *
13015465 TTTTATAATATTTTCTAT
1 TTTTAT-ATTTTTTATAT
*
13015483 TTTTATA-CTTTTATAT
1 TTTTATATTTTTTATAT
13015499 TTTTATATTTTTTATAT
1 TTTTATATTTTTTATAT
13015516 TTTTATA-TTTTTATTAAT
1 TTTTATATTTTTTA-T-AT
* *
13015534 ATTTAATATTTTTTATAAC
1 -TTTTATATTTTTTAT-AT
*
13015553 TTTTATTTATTTTTAT-T
1 TTTTATAT-TTTTTATAT
13015570 TTTTATCATTTTTT
1 TTTTAT-ATTTTTT
13015584 TGCCACATGT
Statistics
Matches: 85, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
16 20 0.24
17 28 0.33
18 15 0.18
19 16 0.19
20 6 0.07
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATATTTTTTATAT
Found at i:13015581 original size:36 final size:32
Alignment explanation
Indices: 13015465--13015583 Score: 112
Period size: 33 Copynumber: 3.4 Consensus size: 32
13015455 TTTTTTCGAA
* * *
13015465 TTTTATAATATTTTCTATTTTTATACTTTTATAT
1 TTTTAT-ATTTTTTATATTTTTATATTTTTAT-T
13015499 TTTTATATTTTTTATATTTTTATATTTTTATT
1 TTTTATATTTTTTATATTTTTATATTTTTATT
*
13015531 AATATTTAATATTTTTTATAACTTTTATTTATTTTTATT
1 --T-TTT-ATATTTTTTAT-A-TTTT-TATATTTTTATT
13015570 TTTTATCATTTTTT
1 TTTTAT-ATTTTTT
13015584 TGCCACATGT
Statistics
Matches: 73, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
32 1 0.01
33 22 0.30
34 7 0.10
35 5 0.07
36 21 0.29
37 2 0.03
38 4 0.05
39 11 0.15
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.71
Consensus pattern (32 bp):
TTTTATATTTTTTATATTTTTATATTTTTATT
Found at i:13015802 original size:91 final size:91
Alignment explanation
Indices: 13015694--13015860 Score: 230
Period size: 91 Copynumber: 1.8 Consensus size: 91
13015684 GGGCCTTTTT
* * * *
13015694 ATTTTGACAGTTCAAGTA-TCCAATTGAGTGCA-AAAAAAAACGCAAGGGTTTAATTGTTTGTTT
1 ATTTTGAAAGTTCAAGTACT-CAATTGAGTGCAGAAAAAAAA-ACAAGGGCTTAATTATTTGTTT
*
13015757 TGAAAAAGTTTGAGGGTCTTTTTCATGC
64 TGAAAAAATTTGAGGGTCTTTTTCATGC
* * *
13015785 ATTTTGAAAGTTTAAGTACTCAATTGAGTGTAGAAAAAAAAACAAGGGCTTAATTATTTTTTTTG
1 ATTTTGAAAGTTCAAGTACTCAATTGAGTGCAGAAAAAAAAACAAGGGCTTAATTATTTGTTTTG
13015850 AAAAAATTTGA
66 AAAAAATTTGA
13015861 AGACTTTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
91 57 0.86
92 9 0.14
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.37
Consensus pattern (91 bp):
ATTTTGAAAGTTCAAGTACTCAATTGAGTGCAGAAAAAAAAACAAGGGCTTAATTATTTGTTTTG
AAAAAATTTGAGGGTCTTTTTCATGC
Found at i:13016912 original size:22 final size:24
Alignment explanation
Indices: 13016886--13016929 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
13016876 ATTTTATTCA
13016886 ACTTTAATTT-TTAT-TCAAAAAC
1 ACTTTAATTTGTTATATCAAAAAC
13016908 ACTTTAATTTGTTATATCAAAA
1 ACTTTAATTTGTTATATCAAAA
13016930 CTTATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (24 bp):
ACTTTAATTTGTTATATCAAAAAC
Found at i:13017532 original size:26 final size:25
Alignment explanation
Indices: 13017468--13017533 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
13017458 AGATGAATTG
* * *
13017468 ATTTAAATTTTTTATTTCTTATTACA
1 ATTT-AATTTTTTATTGCTTATAAAA
*
13017494 ATTTATTATTTTTATTGCTTATAAAA
1 ATTTAAT-TTTTTATTGCTTATAAAA
13017520 ATTTAATTCTTTTA
1 ATTTAATT-TTTTA
13017534 CAATTAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 3 0.09
26 30 0.91
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTTAATTTTTTATTGCTTATAAAA
Found at i:13021068 original size:29 final size:30
Alignment explanation
Indices: 13021015--13021080 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 30
13021005 AATAAACACC
*
13021015 AAAAATTTATTTTAAAAATAAAAAAAAATAA
1 AAAAATGTATTTTAAAAAT-AAAAAAAATAA
13021046 AAAAATGTATTTTAAAAAT-AAAAAAATAA
1 AAAAATGTATTTTAAAAATAAAAAAAATAA
13021075 AAAAAT
1 AAAAAT
13021081 TAATTATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 16 0.47
31 18 0.53
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (30 bp):
AAAAATGTATTTTAAAAATAAAAAAAATAA
Found at i:13023312 original size:25 final size:25
Alignment explanation
Indices: 13023283--13023332 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
13023273 AACAAAGATT
13023283 AATTTCTTGTCGGCTATGTGTTTGC
1 AATTTCTTGTCGGCTATGTGTTTGC
13023308 AATTTCTTGTCGGCTATGTGTTTGC
1 AATTTCTTGTCGGCTATGTGTTTGC
13023333 TCTTCTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.16, G:0.24, T:0.48
Consensus pattern (25 bp):
AATTTCTTGTCGGCTATGTGTTTGC
Found at i:13023834 original size:29 final size:27
Alignment explanation
Indices: 13023801--13023892 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 27
13023791 TTTAAAAATA
13023801 ATTATATTAAGAATGTTATTAAATTATAT
1 ATTATATTAA-AAT-TTATTAAATTATAT
* * *
13023830 ATTATTTTATTAAATTATATTTAATAATA-
1 ATTATATTA--AAATT-TATTAAATTATAT
*
13023859 ATTATGTTAAAATATTATTAAATTATAT
1 ATTATATTAAAAT-TTATTAAATTATAT
13023887 AATTAT
1 -ATTAT
13023893 TTTTATTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
27 14 0.27
28 1 0.02
29 22 0.43
30 13 0.25
31 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (27 bp):
ATTATATTAAAATTTATTAAATTATAT
Found at i:13023839 original size:59 final size:58
Alignment explanation
Indices: 13023764--13023938 Score: 187
Period size: 59 Copynumber: 3.0 Consensus size: 58
13023754 TTTAATATTA
* * *
13023764 TATATTATGATTTTTATTAATTCATATTTTAAAAATAATTATATTAAGAATGTTATTAAAT
1 TATATAATTATTTTTATTAATT-ATA-TTTAAAAATAATTATATTAA-AATATTATTAAAT
* *
13023825 TATAT-ATTA-TTTTATTAAATTATATTTAATAATAATTATGTTAAAATATTATTAAAT
1 TATATAATTATTTTTATT-AATTATATTTAAAAATAATTATATTAAAATATTATTAAAT
* ** *
13023882 TATATAATTATTTTTATTAAACTATATTTAGTAATAATCT-TATTAAAAT-TTAATAAA
1 TATATAATTATTTTTATT-AATTATATTTAAAAATAAT-TATATTAAAATATTATTAAA
13023939 AATAACAATA
Statistics
Matches: 102, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
57 17 0.17
58 29 0.28
59 43 0.42
60 8 0.08
61 5 0.05
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.51
Consensus pattern (58 bp):
TATATAATTATTTTTATTAATTATATTTAAAAATAATTATATTAAAATATTATTAAAT
Found at i:13024119 original size:16 final size:16
Alignment explanation
Indices: 13024098--13024148 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
13024088 TGAATTATTG
*
13024098 ATTGCAGTTCTATTCC
1 ATTGCAGCTCTATTCC
*
13024114 ATTGCAGCTATATTCC
1 ATTGCAGCTCTATTCC
* *
13024130 ATTACAGCCCTATTCC
1 ATTGCAGCTCTATTCC
13024146 ATT
1 ATT
13024149 CACCCCAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (16 bp):
ATTGCAGCTCTATTCC
Found at i:13024535 original size:23 final size:24
Alignment explanation
Indices: 13024484--13024541 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
13024474 ATTTTCATCA
13024484 TATTATTAAATTTACATTTAAAAT
1 TATTATTAAATTTACATTTAAAAT
* *
13024508 AATTA-TAATATTTA-ATTTAGAAT
1 TATTATTAA-ATTTACATTTAAAAT
13024531 TATTAGTTAAA
1 TATTA-TTAAA
13024542 AATTACGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 15 0.54
24 10 0.36
25 3 0.11
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (24 bp):
TATTATTAAATTTACATTTAAAAT
Found at i:13024596 original size:23 final size:23
Alignment explanation
Indices: 13024562--13024616 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 23
13024552 AATAAAAGTG
13024562 ATAATTATACATTTAAAAATAATT
1 ATAATT-TACATTTAAAAATAATT
13024586 ATAATTTACATTTAAAAATAATT
1 ATAATTTACATTTAAAAATAATT
13024609 ATAATTTA
1 ATAATTTA
13024617 ATAAAAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 25 0.81
24 6 0.19
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATAATTTACATTTAAAAATAATT
Found at i:13024625 original size:23 final size:23
Alignment explanation
Indices: 13024562--13024625 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
13024552 AATAAAAGTG
**
13024562 ATAATTATACATTTAAAAATAATT
1 ATAATT-TACATAAAAAAATAATT
**
13024586 ATAATTTACATTTAAAAATAATT
1 ATAATTTACATAAAAAAATAATT
13024609 ATAATTTA-ATAAAAAAA
1 ATAATTTACATAAAAAAA
13024626 GTATGGTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.18
23 25 0.66
24 6 0.16
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAATTTACATAAAAAAATAATT
Found at i:13030776 original size:6 final size:6
Alignment explanation
Indices: 13030767--13030806 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
13030757 AAAAAAGAAA
* * *
13030767 AAAATC AAAATC AAAATA AAAAAC AAAATC AAAAAC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
13030807 AAGGAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.78, C:0.12, G:0.00, T:0.10
Consensus pattern (6 bp):
AAAATC
Found at i:13030807 original size:18 final size:19
Alignment explanation
Indices: 13030765--13030800 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
13030755 AGAAAAAAGA
13030765 AAAAAATCAAAATCAAAAT
1 AAAAAATCAAAATCAAAAT
13030784 AAAAAA-CAAAATCAAAA
1 AAAAAATCAAAATCAAAA
13030801 ACAAAAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAAAATCAAAATCAAAAT
Found at i:13030827 original size:29 final size:28
Alignment explanation
Indices: 13030791--13030857 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
13030781 AATAAAAAAC
13030791 AAAATCAAAAACAAAAAAGGAA-AAAA-GA
1 AAAATCAAAAAC-AAAAA-GAAGAAAAGGA
**
13030819 AAATATCAAAGTCAAAAAGAAGAAAAGGA
1 AAA-ATCAAAAACAAAAAGAAGAAAAGGA
13030848 AAAATCAAAA
1 AAAATCAAAA
13030858 TTAAAGTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 3 0.09
28 18 0.55
29 12 0.36
ACGTcount: A:0.73, C:0.07, G:0.12, T:0.07
Consensus pattern (28 bp):
AAAATCAAAAACAAAAAGAAGAAAAGGA
Found at i:13030906 original size:6 final size:6
Alignment explanation
Indices: 13030866--13030890 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13030856 AATTAAAGTC
13030866 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
13030891 GAGAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:13031798 original size:21 final size:21
Alignment explanation
Indices: 13031769--13031810 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13031759 AAAGAATAAA
13031769 AAAAGGAAAAA-TGAAAAAATG
1 AAAAGGAAAAAGT-AAAAAATG
*
13031790 AAAATGAAAAAGTAAAAAATG
1 AAAAGGAAAAAGTAAAAAATG
13031811 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (21 bp):
AAAAGGAAAAAGTAAAAAATG
Found at i:13031807 original size:14 final size:14
Alignment explanation
Indices: 13031768--13031807 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13031758 AAAAGAATAA
*
13031768 AAAAAGGAAAAATG
1 AAAAAGTAAAAATG
* *
13031782 AAAAAATGAAAATG
1 AAAAAGTAAAAATG
13031796 AAAAAGTAAAAA
1 AAAAAGTAAAAA
13031808 ATGGAGAGGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (14 bp):
AAAAAGTAAAAATG
Found at i:13033371 original size:88 final size:88
Alignment explanation
Indices: 13033046--13033708 Score: 838
Period size: 88 Copynumber: 7.6 Consensus size: 88
13033036 AACAGATTAG
* * * *
13033046 TGAAGATAGCAAATATTGTCTTCCTACGATGACAGCGAAGCAGATCGAAGATTCCAGCCTTG-CT
1 TGAAGATAGCAGATCTTGCCTTCCTACGATGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
* *
13033110 CCATCAGTTGCAGTGGAGCAGGT
66 CCCTCGGTTGCAGTGGAGCAGGT
* * * *
13033133 TGAAGATAGCAG-TCTTGCCTTCCTGCGATGATATCGAAGCAGATCGGAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTACGATGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
* * *
13033197 CCCTCGATTGCAGTAGAGTAGGT
66 CCCTCGGTTGCAGTGGAGCAGGT
* *
13033220 TGAAGATAGCAGATCTTGCC-TCCTACGATGACAGTGAAGTAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTACGATGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
*
13033284 CTCTCGGTTGCAGTGGAGCAGGT
66 CCCTCGGTTGCAGTGGAGCAGGT
* * * *
13033307 TGAAGATAGTAGATCTTGCCTTCCTACAATGACAGCGAAGCAGATCGGAGTTACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTACGATGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
* *
13033372 CCCTCAGTTACAGTGGAGCAGGT
66 CCCTCGGTTGCAGTGGAGCAGGT
*
13033395 TGAAGATAGCAGATCTTGCCTTCCTGCGATGACAGCGAAGCAGATC-AGAGATACCAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTACGATGACAGCGAAGCAGATCGA-AGATACCAGCCTTGCC
*
13033459 TCCCTCGGTAGCAGTGGAGCAGGT
65 TCCCTCGGTTGCAGTGGAGCAGGT
* * * * * * **
13033483 TAAAAATAACAGATCTTGCCTTCCTGC-ATAGACAGCGAAGCAAATCAAAGACCCCAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTACGAT-GACAGCGAAGCAGATCGAAGATACCAGCCTTGCC
* *
13033547 TCCATCGGTTGCAGTGGAGTAGGT
65 TCCCTCGGTTGCAGTGGAGCAGGT
* * * * * * *
13033571 TAAAGATAGCAGATCTTGCCTTTCTGC-ATTGACAGCGAAGCAGATCGAAGACAACAACCTTGTC
1 TGAAGATAGCAGATCTTGCCTTCCTACGA-TGACAGCGAAGCAGATCGAAGATACCAGCCTTGCC
13033635 TCCCTCGGTTGCAGTGGAGCA-GT
65 TCCCTCGGTTGCAGTGGAGCAGGT
* * **
13033658 TGAAGATAGAAGATCTTGCTTTCCTAC-ATGACAATGAAGCAGATCGAAGAT
1 TGAAGATAGCAGATCTTGCCTTCCTACGATGACAGCGAAGCAGATCGAAGAT
13033709 TATAAGTCCT
Statistics
Matches: 501, Mismatches: 68, Indels: 15
0.86 0.12 0.03
Matches are distributed among these distances:
86 62 0.12
87 146 0.29
88 291 0.58
89 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTACGATGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
CCCTCGGTTGCAGTGGAGCAGGT
Found at i:13033457 original size:44 final size:44
Alignment explanation
Indices: 13033065--13033465 Score: 208
Period size: 44 Copynumber: 9.2 Consensus size: 44
13033055 CAAATATTGT
*
13033065 CTTCCTACGATGACAGCGAAGCAGATC-GAAGATTCCAGCCTTG-
1 CTTCCT-CGATGACAGCGAAGCAGATCTGAAGATACCAGCCTTGC
* * * * * *
13033108 C-TCCATCAGTTG-CAGTGGAGCAGGT-TGAAGATAGCAGTCTTGC
1 CTTCC-TC-GATGACAGCGAAGCAGATCTGAAGATACCAGCCTTGC
* * *
13033151 CTTCCTGCGATGATATCGAAGCAGATC-GGAGATACCAGCCTTGC
1 CTTCCT-CGATGACAGCGAAGCAGATCTGAAGATACCAGCCTTGC
* * * * * *
13033195 CTCCCTCGATTG-CAG-TAGAGTAGGT-TGAAGATAGCAGATCTTGC
1 CTTCCTCGA-TGACAGCGA-AGCAGATCTGAAGATACCAG-CCTTGC
* *
13033239 C-TCCTACGATGACAGTGAAGTAGATC-GAAGATACCAGCCTTGC
1 CTTCCT-CGATGACAGCGAAGCAGATCTGAAGATACCAGCCTTGC
* * * * ** *
13033282 C-TCTCTCGGTTG-CAGTGGAGCAGGT-TGAAGATAGTAGATCTTGC
1 CTTC-CTC-GATGACAGCGAAGCAGATCTGAAGATACCAG-CCTTGC
* * *
13033326 CTTCCTACAATGACAGCGAAGCAGATC-GGAGTTACCAGCCTTGC
1 CTTCCT-CGATGACAGCGAAGCAGATCTGAAGATACCAGCCTTGC
* * * * * * *
13033370 CTCCCTC-AGTTACAGTGGAGCAGGT-TGAAGATAGCAGATCTTGC
1 CTTCCTCGA-TGACAGCGAAGCAGATCTGAAGATACCAG-CCTTGC
*
13033414 CTTCCTGCGATGACAGCGAAGCAGATCAG-AGATACCAGCCTTGC
1 CTTCCT-CGATGACAGCGAAGCAGATCTGAAGATACCAGCCTTGC
*
13033458 CTCCCTCG
1 CTTCCTCG
13033466 GTAGCAGTGG
Statistics
Matches: 263, Mismatches: 65, Indels: 60
0.68 0.17 0.15
Matches are distributed among these distances:
42 29 0.11
43 84 0.32
44 106 0.40
45 42 0.16
46 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.23
Consensus pattern (44 bp):
CTTCCTCGATGACAGCGAAGCAGATCTGAAGATACCAGCCTTGC
Found at i:13033501 original size:44 final size:44
Alignment explanation
Indices: 13033190--13033591 Score: 140
Period size: 44 Copynumber: 9.2 Consensus size: 44
13033180 AGATACCAGC
* * * * *
13033190 CTTGCCTCCCTCGATTGCAGTAGAGTAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGATAGCAGTGGAGCAGGTTAAAGATAACAGAT
* * * ** * *
13033234 CTTGCCT-CCTACGAT-GACAGTGAAGTAGATCGAAGATACCAG-C
1 CTTGCCTCCCT-CGATAG-CAGTGGAGCAGGTTAAAGATAACAGAT
* * * * **
13033277 CTTGCCTCTCTCGGTTGCAGTGGAGCAGGTTGAAGATAGTAGAT
1 CTTGCCTCCCTCGATAGCAGTGGAGCAGGTTAAAGATAACAGAT
* * * * * *** * * *
13033321 CTTGCCTTCCTACAAT-GACAGCGAAGCAGATCGGAGTTACCAG-C
1 CTTGCCTCCCT-CGATAG-CAGTGGAGCAGGTTAAAGATAACAGAT
* * *
13033365 CTTGCCTCCCTCAGTTA-CAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTC-GATAGCAGTGGAGCAGGTTAAAGATAACAGAT
* * * * * * * *
13033409 CTTGCCTTCCTGCGAT-GACAGCGAAGCAGATCAGAGATACCAG-C
1 CTTGCCTCCCT-CGATAG-CAGTGGAGCAGGTTAAAGATAACAGAT
* *
13033453 CTTGCCTCCCTCGGTAGCAGTGGAGCAGGTTAAAAATAACAGAT
1 CTTGCCTCCCTCGATAGCAGTGGAGCAGGTTAAAGATAACAGAT
* * * ** * *** *
13033497 CTTGCCTTCCT-GCATAGACAGCGAAGCAAATCAAAGACCCCAG-C
1 CTTGCCTCCCTCG-ATAG-CAGTGGAGCAGGTTAAAGATAACAGAT
* * * * *
13033541 CTTGCCTCCATCGGTTGCAGTGGAGTAGGTTAAAGATAGCAGAT
1 CTTGCCTCCCTCGATAGCAGTGGAGCAGGTTAAAGATAACAGAT
13033585 CTTGCCT
1 CTTGCCT
13033592 TTCTGCATTG
Statistics
Matches: 254, Mismatches: 85, Indels: 38
0.67 0.23 0.10
Matches are distributed among these distances:
43 90 0.35
44 109 0.43
45 55 0.22
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.23
Consensus pattern (44 bp):
CTTGCCTCCCTCGATAGCAGTGGAGCAGGTTAAAGATAACAGAT
Found at i:13033847 original size:40 final size:40
Alignment explanation
Indices: 13033801--13033890 Score: 180
Period size: 40 Copynumber: 2.2 Consensus size: 40
13033791 GAATACGGCA
13033801 AATCCTATCTTCAAGTATAATGAAGCAGATTGAATCCGAT
1 AATCCTATCTTCAAGTATAATGAAGCAGATTGAATCCGAT
13033841 AATCCTATCTTCAAGTATAATGAAGCAGATTGAATCCGAT
1 AATCCTATCTTCAAGTATAATGAAGCAGATTGAATCCGAT
13033881 AATCCTATCT
1 AATCCTATCT
13033891 CCCTGAGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (40 bp):
AATCCTATCTTCAAGTATAATGAAGCAGATTGAATCCGAT
Found at i:13033949 original size:44 final size:45
Alignment explanation
Indices: 13033881--13034077 Score: 134
Period size: 44 Copynumber: 4.2 Consensus size: 45
13033871 TGAATCCGAT
*
13033881 AATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGA
* * * * * *
13033925 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGA-TTACAGT-G-G-AG--CGGATTAAAAT-AA---AGA
* * ** *
13033979 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAGA
*
13034023 AATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGA
*
13034067 GATCTTATCTC
1 AATCTTATCTC
13034078 TCTAAAGTTA
Statistics
Matches: 114, Mismatches: 24, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
43 4 0.04
44 63 0.55
45 3 0.03
46 1 0.01
47 2 0.02
49 10 0.09
50 4 0.04
51 2 0.02
52 1 0.01
53 3 0.03
54 20 0.18
55 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (45 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGA
Found at i:13034045 original size:98 final size:97
Alignment explanation
Indices: 13033866--13034047 Score: 217
Period size: 98 Copynumber: 1.9 Consensus size: 97
13033856 TATAATGAAG
* * * * *
13033866 CAGATTGAATCCGATAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCCGATAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGAATCCT
*
13033931 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
* **
13033964 CAGATTGAAGCCAGA-AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATC
1 CAGATTGAAGCC-GATAATCCTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAATAAG-AATC
13034027 CTATCTCCCTG-AGATTACAGT
63 CTATCTCCCTGAAG-TTACAGT
13034048 GGAGCGGATT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
97 4 0.06
98 62 0.87
99 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (97 bp):
CAGATTGAAGCCGATAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGAATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:13034213 original size:50 final size:49
Alignment explanation
Indices: 13034154--13034419 Score: 210
Period size: 50 Copynumber: 5.3 Consensus size: 49
13034144 AAGAATTACA
* *
13034154 GCGAATCTTACTTCGCTGGTAATGCAGTGGAACAGATTAAAGCCACATCG
1 GCGAATCTTACTTC-CTGGCAATGCAGTGGAAAAGATTAAAGCCACATCG
* * * * ** * *
13034204 GTGAATCTTACTTCCACGACATTGCAGTTAAAAAGATTAAAGCCACAGCA
1 GCGAATCTTACTTCC-TGGCAATGCAGTGGAAAAGATTAAAGCCACATCG
* * * *
13034254 GCAAATCTTACCTTCCTGGCGATGTAGTGGAACAGATTAAAGCCACATCG
1 GCGAATCTTA-CTTCCTGGCAATGCAGTGGAAAAGATTAAAGCCACATCG
* * * * * **
13034304 GTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCAC-TGCG
1 GCGAATCTTACTT-CCTGGCAATGCAGTGGAAAAGATTAAAGCCACAT-CG
*** * * * * *
13034354 GCGAATCTTACTTCCCTGGTGTTGCAGTGGAATAGATTGAAGCTACAACA
1 GCGAATCTTACTT-CCTGGCAATGCAGTGGAAAAGATTAAAGCCACATCG
13034404 GCGAATCTTACTTCCT
1 GCGAATCTTACTTCCT
13034420 CGACATCACA
Statistics
Matches: 165, Mismatches: 46, Indels: 11
0.74 0.21 0.05
Matches are distributed among these distances:
49 8 0.05
50 152 0.92
51 5 0.03
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (49 bp):
GCGAATCTTACTTCCTGGCAATGCAGTGGAAAAGATTAAAGCCACATCG
Found at i:13034330 original size:100 final size:99
Alignment explanation
Indices: 13034152--13034444 Score: 381
Period size: 100 Copynumber: 2.9 Consensus size: 99
13034142 CGAAGAATTA
*
13034152 CAGCGAATCTTACTTCGCTGGTAATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTACTT
1 CAGCGAATCTTACTTC-CTGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTACTT
13034217 CCACGACATTGCAGTTAAAAAGATTAAAGCCACAG
65 CCACGACATTGCAGTTAAAAAGATTAAAGCCACAG
* * * *
13034252 CAGCAAATCTTACCTTCCTGGCGATGTAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTT
1 CAGCGAATCTTA-CTTCCTGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTACTT
* *
13034317 CCCCGACATTGCAGTTAAAAAGATTAAAGCCACTG
65 CCACGACATTGCAGTTAAAAAGATTAAAGCCACAG
* * * * * * * *
13034352 CGGCGAATCTTACTTCCCTGGTGTTGCAGTGGAATAGATTGAAGCTACAACAGCGAATCTTACTT
1 CAGCGAATCTTACTT-CCTGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTACTT
* ** *
13034417 CCTCGACATCACAGTT-AAACGATTAAAG
65 CCACGACATTGCAGTTAAAAAGATTAAAG
13034445 TTACGAGTCA
Statistics
Matches: 168, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
99 14 0.08
100 150 0.89
101 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (99 bp):
CAGCGAATCTTACTTCCTGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTACTTC
CACGACATTGCAGTTAAAAAGATTAAAGCCACAG
Found at i:13037653 original size:44 final size:44
Alignment explanation
Indices: 13037549--13037762 Score: 241
Period size: 44 Copynumber: 4.6 Consensus size: 44
13037539 TACGTATGAT
* *
13037549 CACTTATCACTTGTCCCTGATCAGACAAGTGTAGCT-AAGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
13037592 CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CAC-T-T-A----TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
13037643 CACTTATCACTTGTCACTGATTAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
13037687 CACTTATCACTTGCTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CAC-T-T-A--T-C-ACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
*
13037738 TACTTATCACTTGTCACTGATCAGA
1 CACTTATCACTTGTCACTGATCAGA
13037763 AATATTCAAA
Statistics
Matches: 147, Mismatches: 9, Indels: 29
0.79 0.05 0.16
Matches are distributed among these distances:
43 3 0.02
44 56 0.38
45 3 0.02
46 3 0.02
47 1 0.01
48 2 0.01
49 3 0.02
50 31 0.21
51 45 0.31
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (44 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:13037698 original size:51 final size:51
Alignment explanation
Indices: 13037547--13037755 Score: 258
Period size: 51 Copynumber: 4.3 Consensus size: 51
13037537 CTTACGTATG
* * *
13037547 ATCACTTATCACTTGTCCCTGATCAGACAAGTGTAGCT-AAGCTACCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
*
13037597 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGC--T-AC--
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
* *
13037643 --CACTTATCACTTGTCACTGATTAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
*
13037692 ATCACTT-GCTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTA-CTACTT
1 ATCACTTATC-ACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATC-ACTT
*
13037743 ATCACTTGTCACT
1 ATCACTTATCACT
13037756 GATCAGAAAT
Statistics
Matches: 137, Mismatches: 11, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
44 38 0.28
46 1 0.01
47 2 0.01
48 2 0.01
50 37 0.27
51 56 0.41
52 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
Found at i:13037712 original size:95 final size:94
Alignment explanation
Indices: 13037549--13037762 Score: 358
Period size: 95 Copynumber: 2.3 Consensus size: 94
13037539 TACGTATGAT
*
13037549 CACTTATCACTTGTCCCTGATCAGACAAGTGTAGCTAAGCTACCACTTATCACTTGTCACTTGTC
1 CACTTATCACTTGTCACTGATCAGACAAGTGTAGCTAAGCTACCACTTATCACTTGTCACTTGTC
13037614 ACTGATCAGATAAGTGTAGCTAAAGCTAC
66 ACTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
13037643 CACTTATCACTTGTCACTGATTAGATAAGTGTAGCTGAAGCTATCACTTATCACTTG-CTACTTG
1 CACTTATCACTTGTCACTGATCAGACAAGTGTAGCT-AAGCTACCACTTATCACTTGTC-ACTTG
13037707 TCACTGATCAGATAAGTGTAGCTAAAGCTAC
64 TCACTGATCAGATAAGTGTAGCTAAAGCTAC
*
13037738 TACTTATCACTTGTCACTGATCAGA
1 CACTTATCACTTGTCACTGATCAGA
13037763 AATATTCAAA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
94 34 0.30
95 78 0.70
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (94 bp):
CACTTATCACTTGTCACTGATCAGACAAGTGTAGCTAAGCTACCACTTATCACTTGTCACTTGTC
ACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:13039321 original size:22 final size:22
Alignment explanation
Indices: 13039294--13039363 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
13039284 TTAACTTGAT
13039294 TTTCTCTCTCCTCCAGCTTCTA
1 TTTCTCTCTCCTCCAGCTTCTA
** * *
13039316 TTTCTCGAAT-CT--AACTT-GA
1 TTTCTC-TCTCCTCCAGCTTCTA
13039335 TTTTCTCTCTCCTCCAGCTTCTA
1 -TTTCTCTCTCCTCCAGCTTCTA
13039358 TTTCTC
1 TTTCTC
13039364 GAATCTAACT
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
19 2 0.06
20 12 0.35
22 18 0.53
23 2 0.06
ACGTcount: A:0.13, C:0.34, G:0.06, T:0.47
Consensus pattern (22 bp):
TTTCTCTCTCCTCCAGCTTCTA
Found at i:13039332 original size:42 final size:42
Alignment explanation
Indices: 13039285--13039382 Score: 187
Period size: 42 Copynumber: 2.3 Consensus size: 42
13039275 TTTCAATCTT
13039285 TAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTCTCGAATC
1 TAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTCTCGAATC
13039327 TAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTCTCGAATC
1 TAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTCTCGAATC
*
13039369 TAACTTGATATTCT
1 TAACTTGATTTTCT
13039383 AACTCTCCAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.18, C:0.29, G:0.07, T:0.46
Consensus pattern (42 bp):
TAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTCTCGAATC
Found at i:13041911 original size:30 final size:30
Alignment explanation
Indices: 13041865--13041958 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
13041855 TTTTATTATG
*
13041865 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
13041896 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
13041926 CCAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
13041956 CCA
1 CCA
13041959 TAAATATGGA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 54 0.89
31 7 0.11
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:13041920 original size:15 final size:15
Alignment explanation
Indices: 13041875--13041952 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
13041865 CCAATATCTC
13041875 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
13041890 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
13041905 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
13041920 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
13041935 GATACCCATATCTTT
1 GATACCCATATCTTT
13041950 GAT
1 GAT
13041953 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:13046250 original size:3 final size:3
Alignment explanation
Indices: 13046242--13046267 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13046232 AAAGAAAGAA
13046242 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
13046268 AGGCAGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13049920 original size:31 final size:32
Alignment explanation
Indices: 13049884--13049948 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
13049874 CTTAGATAAT
13049884 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
13049915 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
13049947 TT
1 TT
13049949 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:13050522 original size:18 final size:19
Alignment explanation
Indices: 13050494--13050588 Score: 84
Period size: 18 Copynumber: 4.7 Consensus size: 19
13050484 TTCTTTAAAT
13050494 AAAAGCAAAAAAAAGCAAA
1 AAAAGCAAAAAAAAGCAAA
13050513 AAAAGC-AAAAAAAGCAAA
1 AAAAGCAAAAAAAAGCAAA
* *
13050531 AAAGCGCAAAAAGAGAGAGTAAA
1 AAA-AGCAAAAA-A-A-AGCAAA
** *
13050554 AAGCGCAAAAAAAAAACAAAA
1 AAAAGC-AAAAAAAAGC-AAA
13050575 AAAAGCAAAAAAAA
1 AAAAGCAAAAAAAA
13050589 AAGCGCAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
18 15 0.24
19 8 0.13
20 13 0.21
21 9 0.15
22 5 0.08
23 12 0.19
ACGTcount: A:0.75, C:0.11, G:0.14, T:0.01
Consensus pattern (19 bp):
AAAAGCAAAAAAAAGCAAA
Found at i:13050535 original size:8 final size:9
Alignment explanation
Indices: 13050494--13050533 Score: 71
Period size: 9 Copynumber: 4.3 Consensus size: 9
13050484 TTCTTTAAAT
13050494 AAAAGCAAAA
1 AAAAGC-AAA
13050504 AAAAGCAAA
1 AAAAGCAAA
13050513 AAAAGCAAA
1 AAAAGCAAA
13050522 AAAAGCAAA
1 AAAAGCAAA
13050531 AAA
1 AAA
13050534 GCGCAAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 24 0.80
10 6 0.20
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAGCAAA
Found at i:13050566 original size:12 final size:12
Alignment explanation
Indices: 13050551--13050649 Score: 94
Period size: 12 Copynumber: 8.4 Consensus size: 12
13050541 AAGAGAGAGT
13050551 AAAAAGCGCAAA
1 AAAAAGCGCAAA
**
13050563 AAAAA-AACAAA
1 AAAAAGCGCAAA
**
13050574 AAAAAGCAAAAA
1 AAAAAGCGCAAA
13050586 AAAAAGCGCAAA
1 AAAAAGCGCAAA
* * **
13050598 AAAGAGAG-AGT
1 AAAAAGCGCAAA
13050609 AAAAAGCGCAAA
1 AAAAAGCGCAAA
**
13050621 AAAAAGCAAAAA
1 AAAAAGCGCAAA
13050633 AAAAAGCGCAAA
1 AAAAAGCGCAAA
13050645 AAAAA
1 AAAAA
13050650 AGTTGCCTAC
Statistics
Matches: 67, Mismatches: 18, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
11 16 0.24
12 51 0.76
ACGTcount: A:0.74, C:0.11, G:0.14, T:0.01
Consensus pattern (12 bp):
AAAAAGCGCAAA
Found at i:13050635 original size:10 final size:10
Alignment explanation
Indices: 13050494--13050588 Score: 79
Period size: 10 Copynumber: 9.4 Consensus size: 10
13050484 TTCTTTAAAT
13050494 AAAAGCAAAA
1 AAAAGCAAAA
13050504 AAAAGC-AAA
1 AAAAGCAAAA
13050513 AAAAGC-AAA
1 AAAAGCAAAA
13050522 AAAAGCAAAA
1 AAAAGCAAAA
**
13050532 AAGCGCAAAA
1 AAAAGCAAAA
*
13050542 AGAGAGAG-TAAA
1 A-A-A-AGCAAAA
**
13050554 AAGCGCAAAAA
1 AAAAGC-AAAA
*
13050565 AAAAACAAAA
1 AAAAGCAAAA
13050575 AAAAGCAAAA
1 AAAAGCAAAA
13050585 AAAA
1 AAAA
13050589 AAGCGCAAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
9 19 0.28
10 35 0.52
11 8 0.12
12 4 0.06
13 1 0.01
ACGTcount: A:0.75, C:0.11, G:0.14, T:0.01
Consensus pattern (10 bp):
AAAAGCAAAA
Found at i:13050635 original size:58 final size:57
Alignment explanation
Indices: 13050498--13050651 Score: 195
Period size: 58 Copynumber: 2.6 Consensus size: 57
13050488 TTAAATAAAA
*
13050498 GCAAAAAAAAGCAAAAAAAGCAA-AAAAAGCAAAAAAGCGCAAAAAGAGAGAGTAAAAAGC
1 GCAAAAAAAAGCAAAAAAA--AAGCAAAA--AAAAAAGCGCAAAAAGAGAGAGTAAAAAGC
*
13050558 GCAAAAAAAA-AACAAAAAAAAGCAAAAAAAAAAGCGCAAAAAAGAGAGAGTAAAAAGC
1 GCAAAAAAAAGCA-AAAAAAAAGCAAAAAAAAAAGCGC-AAAAAGAGAGAGTAAAAAGC
*
13050616 GCAAAAAAAAGCAAAAAAAAAAGCGCAAAAAAAAAG
1 GCAAAAAAAAGC-AAAAAAAAAGC-AAAAAAAAAAG
13050652 TTGCCTACCT
Statistics
Matches: 84, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
57 10 0.12
58 32 0.38
59 15 0.18
60 27 0.32
ACGTcount: A:0.71, C:0.11, G:0.16, T:0.01
Consensus pattern (57 bp):
GCAAAAAAAAGCAAAAAAAAAGCAAAAAAAAAAGCGCAAAAAGAGAGAGTAAAAAGC
Found at i:13055216 original size:31 final size:32
Alignment explanation
Indices: 13055180--13055244 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
13055170 CTTAGATAAT
13055180 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
13055211 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
13055243 TT
1 TT
13055245 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:13057456 original size:21 final size:21
Alignment explanation
Indices: 13057432--13057482 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
13057422 TCATCTTCAG
* * *
13057432 CAACTTCTTTTTCTTCAGCAA
1 CAACTTCCTCTTCTGCAGCAA
*
13057453 CAACTTCCTCTTCTGCAGCAG
1 CAACTTCCTCTTCTGCAGCAA
13057474 CAACTTCCT
1 CAACTTCCT
13057483 TCTTAACAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (21 bp):
CAACTTCCTCTTCTGCAGCAA
Found at i:13067837 original size:14 final size:14
Alignment explanation
Indices: 13067813--13067845 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13067803 GCAAGTAAAA
13067813 AAAAAAGCTATTTT
1 AAAAAAGCTATTTT
13067827 AGAAAAA-CTATTTT
1 A-AAAAAGCTATTTT
13067841 AAAAA
1 AAAAA
13067846 GCAGTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 9 0.50
15 5 0.28
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (14 bp):
AAAAAAGCTATTTT
Found at i:13071785 original size:30 final size:31
Alignment explanation
Indices: 13071749--13071808 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
13071739 AAACCTTTTA
*
13071749 TTTTCCCCCAAAATTTTTATTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTATTCCCTTCCCAC
*
13071779 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTATTCCCTTCCCA
13071809 TCTCACCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTATTCCCTTCCCAC
Found at i:13072565 original size:5 final size:5
Alignment explanation
Indices: 13072555--13072582 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13072545 GAAAATTTTT
13072555 GATTC GATTC GATTC GATTC GATTC GAT
1 GATTC GATTC GATTC GATTC GATTC GAT
13072583 CGAATACTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (5 bp):
GATTC
Found at i:13087795 original size:25 final size:25
Alignment explanation
Indices: 13087767--13087836 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
13087757 GAGTTTAGCG
13087767 TGCTCTCTGATTATTAGCACATCAA
1 TGCTCTCTGATTATTAGCACATCAA
* *
13087792 TGCTCTCTGATTATTAGCACGTCAG
1 TGCTCTCTGATTATTAGCACATCAA
* *
13087817 TACTCTCTGATTAATAGCAC
1 TGCTCTCTGATTATTAGCAC
13087837 GCTCTTTGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (25 bp):
TGCTCTCTGATTATTAGCACATCAA
Found at i:13087846 original size:19 final size:19
Alignment explanation
Indices: 13087819--13087856 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13087809 CACGTCAGTA
13087819 CTCTCTGATTAATAGCACG
1 CTCTCTGATTAATAGCACG
* *
13087838 CTCTTTGATTACTAGCACG
1 CTCTCTGATTAATAGCACG
13087857 TTAGTGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (19 bp):
CTCTCTGATTAATAGCACG
Found at i:13087901 original size:22 final size:22
Alignment explanation
Indices: 13087850--13087936 Score: 84
Period size: 22 Copynumber: 3.8 Consensus size: 22
13087840 CTTTGATTAC
* *
13087850 TAGCACGTTAGTGCTCTCCAATTTT
1 TAGCACATTAGTGCTCTCC---GTT
*
13087875 TAGCACATTGGTGCTCTCCGTT
1 TAGCACATTAGTGCTCTCCGTT
* * *
13087897 TAGCACATTTGTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCCGTT
*
13087919 TAGCACTTTAGTGCTCTC
1 TAGCACATTAGTGCTCTC
13087937 TATTTAATAG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 37 0.69
25 17 0.31
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCCGTT
Found at i:13101745 original size:30 final size:30
Alignment explanation
Indices: 13101709--13101769 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
13101699 AACAAGGGCA
13101709 AACTTCCTAATTCTTAAACCAAAAAACTCT
1 AACTTCCTAATTCTTAAACCAAAAAACTCT
*
13101739 AACTTCCTAATTCTTAAACCAACAAACTCT
1 AACTTCCTAATTCTTAAACCAAAAAACTCT
13101769 A
1 A
13101770 TCATAGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.30
Consensus pattern (30 bp):
AACTTCCTAATTCTTAAACCAAAAAACTCT
Found at i:13115464 original size:24 final size:25
Alignment explanation
Indices: 13115437--13115492 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
13115427 GGTTTAGAAG
13115437 CAGGAGCAGAGG-GAGGTCGTGGAA
1 CAGGAGCAGAGGAGAGGTCGTGGAA
* *
13115461 CAGGAG-TGGGGAGAGGTCGTGGAA
1 CAGGAGCAGAGGAGAGGTCGTGGAA
13115485 CAGGAGCA
1 CAGGAGCA
13115493 TCCCTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.29, C:0.12, G:0.50, T:0.09
Consensus pattern (25 bp):
CAGGAGCAGAGGAGAGGTCGTGGAA
Found at i:13119198 original size:7 final size:7
Alignment explanation
Indices: 13119183--13119225 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
13119173 GAAACAAAAC
*
13119183 GAGATAA
1 GAGAGAA
13119190 GAGAGAA
1 GAGAGAA
13119197 GAGAGAA
1 GAGAGAA
13119204 GAGAGAA
1 GAGAGAA
*
13119211 GAAAGAA
1 GAGAGAA
13119218 GAGA-AA
1 GAGAGAA
13119224 GA
1 GA
13119226 AAAAAGTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
6 4 0.12
7 29 0.88
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.02
Consensus pattern (7 bp):
GAGAGAA
Found at i:13125864 original size:15 final size:17
Alignment explanation
Indices: 13125829--13125867 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
13125819 ATAGCTTATT
13125829 AAAAAATGTAAAATGAA
1 AAAAAATGTAAAATGAA
*
13125846 AAAAAATG-AAAA-GAC
1 AAAAAATGTAAAATGAA
13125861 AAAAAAT
1 AAAAAAT
13125868 CATAACTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 4 0.19
17 8 0.38
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (17 bp):
AAAAAATGTAAAATGAA
Found at i:13128174 original size:25 final size:26
Alignment explanation
Indices: 13128145--13128215 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
13128135 TTTCTCACAC
*
13128145 CAATTTTATCTC-AATAAAAATTTGA
1 CAATTTTACCTCTAATAAAAATTTGA
* *
13128170 CAATTTTACCTCTAGTAAAATTTTGA
1 CAATTTTACCTCTAATAAAAATTTGA
* * *
13128196 CGATTTTACCCCTGATAAAA
1 CAATTTTACCTCTAATAAAA
13128216 TTTCAAGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 11 0.29
26 27 0.71
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (26 bp):
CAATTTTACCTCTAATAAAAATTTGA
Done.