Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 179 of 204
Found at i:53018611 original size:12 final size:12
Alignment explanation
Indices: 53018594--53018624 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
53018584 AATTGAAGCT
53018594 AAGAAAGAGAAG
1 AAGAAAGAGAAG
*
53018606 AAGAAAAAGAAG
1 AAGAAAGAGAAG
53018618 AAGAAAG
1 AAGAAAG
53018625 CTGACAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
AAGAAAGAGAAG
Found at i:53019631 original size:31 final size:31
Alignment explanation
Indices: 53019569--53019631 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
53019559 ATTTGTATAA
* * *
53019569 AAATTAATCTAAATCTAAAATAATTCGATCC
1 AAATTAATCTAAATATAAAATAACTCAATCC
53019600 AAATTAATC-AAATATAAAATCAACTCAATCC
1 AAATTAATCTAAATATAAAAT-AACTCAATCC
53019631 A
1 A
53019632 CTTAAATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (31 bp):
AAATTAATCTAAATATAAAATAACTCAATCC
Found at i:53029555 original size:22 final size:22
Alignment explanation
Indices: 53029530--53029576 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
53029520 GAGCCGTGGA
*
53029530 GGACCGGAGGTGGATCGGTTCC
1 GGACCGGAGGTGGATCGGTGCC
*
53029552 GGACCGGAGGTGGATTGGTGCC
1 GGACCGGAGGTGGATCGGTGCC
53029574 GGA
1 GGA
53029577 GGTGAAGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.19, G:0.49, T:0.17
Consensus pattern (22 bp):
GGACCGGAGGTGGATCGGTGCC
Found at i:53029801 original size:149 final size:145
Alignment explanation
Indices: 53029509--53029807 Score: 411
Period size: 149 Copynumber: 2.0 Consensus size: 145
53029499 CTCTAATTCT
* *
53029509 GGAAATGGGTGGAGCCGTGGAGGACCGGAGGTGGATCGGTTCCGGACCGGAGGTGGATTGGTGCC
1 GGAAATGGGTGGAGCCGTGGAGGACCGGAGGTGGATCGGTTCCGGACCAGAGGTGGATCGGTGCC
* * *
53029574 GGAGGTGAAGGTTGAGAAAAAAAGGAAGGAGGGCAGTCGGGCAAGGGATTAGGGATTTGTGGAAG
66 GGAGGTGAAGGTTGAGAAAAAAAGGAAGGAGGGCAGTCGGGC----GACTAGGAATTTCTGGAAG
53029639 AAGGGAAACGGGAAATGGG
127 AAGGGAAACGGGAAATGGG
* * *
53029658 GGAAATGGGTGGAGCCGTGGAGGACCGGAGGTTGATCGGTGGTGTCGGACTAGAGGTGGATCGGT
1 GGAAATGGGTGGAGCCGTGGAGGACCGGAGGTGGATCGGT--T-CCGGACCAGAGGTGGATCGGT
* *
53029723 GCCGGAGGTGAAGGTTGAGAAAAAAAATGAAGGAGGGTAGTCGGGC-ACTAGGAATTTCTGGAAG
63 GCCGGAGGTGAAGGTTGAG-AAAAAAAGGAAGGAGGGCAGTCGGGCGACTAGGAATTTCTGGAAG
*
53029787 AGGGGAAACGGGGAAATGGG
127 AAGGGAAAC-GGGAAATGGG
53029807 G
1 G
53029808 AAGAAATGTT
Statistics
Matches: 134, Mismatches: 11, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
148 23 0.17
149 50 0.37
151 1 0.01
152 36 0.27
153 24 0.18
ACGTcount: A:0.27, C:0.10, G:0.47, T:0.16
Consensus pattern (145 bp):
GGAAATGGGTGGAGCCGTGGAGGACCGGAGGTGGATCGGTTCCGGACCAGAGGTGGATCGGTGCC
GGAGGTGAAGGTTGAGAAAAAAAGGAAGGAGGGCAGTCGGGCGACTAGGAATTTCTGGAAGAAGG
GAAACGGGAAATGGG
Found at i:53030802 original size:19 final size:19
Alignment explanation
Indices: 53030774--53030837 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
53030764 AATTTTCGAG
*
53030774 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
53030793 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
53030812 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
53030833 GATAT
1 GATAT
53030838 ATACAATCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:53030856 original size:19 final size:21
Alignment explanation
Indices: 53030775--53030850 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
53030765 ATTTTCGAGG
53030775 ATATACAATCTTAGATATG--
1 ATATACAATCTTAGATATGAT
*
53030794 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
53030815 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
53030836 ATATACAATCTTAGA
1 ATATACAATCTTAGA
53030851 AGATATGATT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.34
21 35 0.66
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:53031859 original size:27 final size:24
Alignment explanation
Indices: 53031804--53031891 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 24
53031794 TAGAGTAATC
* *
53031804 ATTATTTTTTATGTATATATGT-A
1 ATTATTTTATATATATATATGTAA
53031827 ATTATTTTATATATATATATGTACA
1 ATTATTTTATATATATATATGTA-A
* *
53031852 GATTTATTATATATATGTATATGTAA
1 -A-TTATTTTATATATATATATGTAA
53031878 ATATATTGTTATAT
1 AT-TATT-TTATAT
53031892 TTTTTAAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
23 20 0.37
24 1 0.02
25 6 0.11
26 7 0.13
27 20 0.37
ACGTcount: A:0.36, C:0.01, G:0.08, T:0.55
Consensus pattern (24 bp):
ATTATTTTATATATATATATGTAA
Found at i:53034027 original size:24 final size:25
Alignment explanation
Indices: 53034000--53034046 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
53033990 ATTTAGCCTA
53034000 ATTTTCTT-AAATAT-TTTTTTATAT
1 ATTTTCTTGAAA-ATCTTTTTTATAT
53034024 ATTTTCTTGAAAATCTTTTTTAT
1 ATTTTCTTGAAAATCTTTTTTAT
53034047 TTTTGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (25 bp):
ATTTTCTTGAAAATCTTTTTTATAT
Found at i:53035344 original size:21 final size:21
Alignment explanation
Indices: 53035320--53035370 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
53035310 GTATGTGGAG
*
53035320 TAGCCACATAGGCGTATAGGA
1 TAGCCACACAGGCGTATAGGA
* * * *
53035341 TAGCCATACGGGCGTGTGGGA
1 TAGCCACACAGGCGTATAGGA
53035362 TAGCCACAC
1 TAGCCACAC
53035371 GACCATGTCT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.31, T:0.18
Consensus pattern (21 bp):
TAGCCACACAGGCGTATAGGA
Found at i:53048487 original size:23 final size:25
Alignment explanation
Indices: 53048441--53048487 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
53048431 TAAATTGAAC
**
53048441 TTTTAATAAATTTTATTTTTATAAT
1 TTTTAATAAATTTTATTTAAATAAT
53048466 TTTTAAT-AA-TTTATTTAAATAA
1 TTTTAATAAATTTTATTTAAATAA
53048488 ACTAATGATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 2 0.10
25 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTAATAAATTTTATTTAAATAAT
Found at i:53049163 original size:21 final size:20
Alignment explanation
Indices: 53049124--53049163 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
53049114 GCTCAAGAAA
* *
53049124 CTAAACTTAAAAGACTTATC
1 CTAAACTTAAAAAAATTATC
53049144 CTAAACATTAAAAAAATTAT
1 CTAAAC-TTAAAAAAATTAT
53049164 TATTTGTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.30
Consensus pattern (20 bp):
CTAAACTTAAAAAAATTATC
Found at i:53049615 original size:7 final size:7
Alignment explanation
Indices: 53049603--53049627 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
53049593 TATTGTTATG
53049603 TAATTAA
1 TAATTAA
53049610 TAATTAA
1 TAATTAA
53049617 TAATTAA
1 TAATTAA
53049624 TAAT
1 TAAT
53049628 CATAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TAATTAA
Found at i:53049786 original size:19 final size:18
Alignment explanation
Indices: 53049764--53049799 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
53049754 ATAATAATTT
*
53049764 ATATTATTATTAATATTAA
1 ATATTAATATTAA-ATTAA
53049783 ATATTAATATTAAATTA
1 ATATTAATATTAAATTA
53049800 TTTTTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATTAATATTAAATTAA
Found at i:53049789 original size:13 final size:13
Alignment explanation
Indices: 53049771--53049823 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
53049761 TTTATATTAT
53049771 TATTAATATTAAA
1 TATTAATATTAAA
53049784 TATTAATATTAAA
1 TATTAATATTAAA
* *
53049797 TTATT-TTTTTGAAA
1 -TATTAATATT-AAA
53049811 TA-TAATATTAAA
1 TATTAATATTAAA
53049823 T
1 T
53049824 TATTTTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
12 5 0.15
13 21 0.64
14 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
TATTAATATTAAA
Found at i:53049830 original size:27 final size:27
Alignment explanation
Indices: 53049781--53049832 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
53049771 TATTAATATT
53049781 AAATATTAATATTAAATTATTTTTTTG
1 AAATATTAATATTAAATTATTTTTTTG
53049808 AAATA-TAATATTAAATTATTTTTTT
1 AAATATTAATATTAAATTATTTTTTT
53049833 CATTTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
AAATATTAATATTAAATTATTTTTTTG
Found at i:53055258 original size:12 final size:12
Alignment explanation
Indices: 53055241--53055273 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
53055231 AGACTCGCCC
53055241 ATATTAATTTTT
1 ATATTAATTTTT
53055253 ATATT-ATTTTT
1 ATATTAATTTTT
53055264 ATA-TAATTTT
1 ATATTAATTTT
53055274 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:53055425 original size:30 final size:30
Alignment explanation
Indices: 53055389--53055452 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
53055379 TAAATGCAAC
*
53055389 TTAACAAACGTCTCTAAAATAGTAACAAAA
1 TTAACAAACGTCTCTAAAATAATAACAAAA
* * * *
53055419 TTAACAAATGTCTTTCAAATAATAACAAAT
1 TTAACAAACGTCTCTAAAATAATAACAAAA
53055449 TTAA
1 TTAA
53055453 TAATAAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.30
Consensus pattern (30 bp):
TTAACAAACGTCTCTAAAATAATAACAAAA
Found at i:53056328 original size:18 final size:19
Alignment explanation
Indices: 53056293--53056330 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
53056283 AAATATAAAC
*
53056293 ATATAATTATTATTTAATAT
1 ATATAATTACTA-TTAATAT
53056313 ATATAATTACTA-TAATAT
1 ATATAATTACTATTAATAT
53056331 TTTTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATAATTACTATTAATAT
Found at i:53058331 original size:14 final size:14
Alignment explanation
Indices: 53058308--53058341 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
53058298 TACAATATCT
53058308 AAATAATAACAATA
1 AAATAATAACAATA
*
53058322 AAATAGTAACAATA
1 AAATAATAACAATA
*
53058336 TAATAA
1 AAATAA
53058342 CAAAAAGTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:53058465 original size:13 final size:14
Alignment explanation
Indices: 53058447--53058477 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
53058437 TATTTTTTTA
53058447 TTTAAATTTAT-TT
1 TTTAAATTTATATT
53058460 TTTAAATTTATATT
1 TTTAAATTTATATT
53058474 TTTA
1 TTTA
53058478 CTCAAACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTAAATTTATATT
Found at i:53058468 original size:19 final size:18
Alignment explanation
Indices: 53058436--53058474 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
53058426 AAAATGAGTC
*
53058436 TTATTTTTTTATTTAAAT
1 TTATTTTTTAATTTAAAT
*
53058454 TTATTTTTTAAATTTATAT
1 TTATTTTTT-AATTTAAAT
53058473 TT
1 TT
53058475 TTACTCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATTTTTTAATTTAAAT
Found at i:53064623 original size:25 final size:25
Alignment explanation
Indices: 53064576--53064624 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
53064566 TTAAAATATT
*
53064576 TTTAAAATACTTTTTTATTTTTATG
1 TTTAAAATACTTTTTTATGTTTATG
*
53064601 TTTAAAATA-TTTTTTGGTGTTTAT
1 TTTAAAATACTTTTTT-ATGTTTAT
53064625 TAAAAAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (25 bp):
TTTAAAATACTTTTTTATGTTTATG
Found at i:53068806 original size:21 final size:21
Alignment explanation
Indices: 53068780--53068975 Score: 218
Period size: 21 Copynumber: 9.3 Consensus size: 21
53068770 TGAATATGTC
*
53068780 AACAGAAGCTCATAAGAGCTT
1 AACAGAAGCTCGTAAGAGCTT
*
53068801 AACAGAAAG-TCATAAGAG-TT
1 AACAG-AAGCTCGTAAGAGCTT
*
53068821 AAACAGAAGCTCGTAAGAGCTA
1 -AACAGAAGCTCGTAAGAGCTT
* *
53068843 AACAGAAACTCATAAGAG-TT
1 AACAGAAGCTCGTAAGAGCTT
*
53068863 GAACAGAAGCTCGTAAGAGCTG
1 -AACAGAAGCTCGTAAGAGCTT
* *
53068885 AACAAAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTT
*
53068906 AACAAAAGCTCGTAAGAGCTT
1 AACAGAAGCTCGTAAGAGCTT
*
53068927 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTT
* * * *
53068948 AACAGAAGCTTGAAAAAGCTA
1 AACAGAAGCTCGTAAGAGCTT
53068969 AACAGAA
1 AACAGAA
53068976 AGTAAAACAC
Statistics
Matches: 153, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
20 6 0.04
21 142 0.93
22 5 0.03
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTT
Found at i:53068839 original size:42 final size:42
Alignment explanation
Indices: 53068780--53068978 Score: 240
Period size: 42 Copynumber: 4.7 Consensus size: 42
53068770 TGAATATGTC
* * * *
53068780 AACAGAAGCTCATAAGAGCTTAACAGAAAGTCATAAGAGTTA
1 AACAGAAGCTCGTAAGAGCTAAACAGAAAGTCATAAGAGCTG
* *
53068822 AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTAAACAGAAAGTCATAAGAGCTG
* *
53068864 AACAGAAGCTCGTAAGAGCTGAACA-AAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTAAACAGAAAG-TCATAAGAGCTG
* * *
53068906 AACAAAAGCTCGTAAGAGCTTAACAG-AAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTAAACAGAAAG-TCATAAGAGCTG
* * *
53068948 AACAGAAGCTTGAAAAAGCTAAACAGAAAGT
1 AACAGAAGCTCGTAAGAGCTAAACAGAAAGT
53068979 AAAACACAAG
Statistics
Matches: 139, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
41 3 0.02
42 133 0.96
43 3 0.02
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTAAACAGAAAGTCATAAGAGCTG
Found at i:53068868 original size:63 final size:63
Alignment explanation
Indices: 53068780--53068976 Score: 256
Period size: 63 Copynumber: 3.1 Consensus size: 63
53068770 TGAATATGTC
* * * *
53068780 AACAGAAGCTCATAAGAGCTTAACAGAAAG-TCATAAGAGTTAAACAGAAGCTCGTAAGAGCTA
1 AACAGAAACTCATAAGAGCTTAACAG-AAGCTCGTAAGAGCTGAACAGAAGCTCGTAAGAGCTA
* *
53068843 AACAGAAACTCATAAGAG-TTGAACAGAAGCTCGTAAGAGCTGAACAAAAGCTCGTAAGAGCTG
1 AACAGAAACTCATAAGAGCTT-AACAGAAGCTCGTAAGAGCTGAACAGAAGCTCGTAAGAGCTA
* * * *
53068906 AACA-AAAGCTCGTAAGAGCTTAACAGAAGCTCGTAAGAGCTGAACAGAAGCTTGAAAAAGCTA
1 AACAGAAA-CTCATAAGAGCTTAACAGAAGCTCGTAAGAGCTGAACAGAAGCTCGTAAGAGCTA
53068969 AACAGAAA
1 AACAGAAA
53068977 GTAAAACACA
Statistics
Matches: 117, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
62 8 0.07
63 104 0.89
64 5 0.04
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.16
Consensus pattern (63 bp):
AACAGAAACTCATAAGAGCTTAACAGAAGCTCGTAAGAGCTGAACAGAAGCTCGTAAGAGCTA
Found at i:53069746 original size:42 final size:42
Alignment explanation
Indices: 53069680--53069802 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
53069670 TTTTGTTTAG
* * * *
53069680 CTCTTTTGAGCTTTAGTTTAGCTCTTACGAGCTTCTATTCAA
1 CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCTATTCAA
* *
53069722 CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCTGTTTAA
1 CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCTATTCAA
* * * * *
53069764 CTCTTGTAAGTTTCTGTTCAGCTCTTATGAACTTCTATT
1 CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCTATT
53069803 GGCATATTCA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (42 bp):
CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCTATTCAA
Found at i:53069799 original size:21 final size:21
Alignment explanation
Indices: 53069673--53069799 Score: 103
Period size: 21 Copynumber: 6.0 Consensus size: 21
53069663 TTTTACTTTT
* *
53069673 TGTTTAGCTCTTTTGAGCTT-
1 TGTTCAGCTCTTATGAGCTTC
* *
53069693 TAGTTTAGCTCTTACGAGCTTC
1 T-GTTCAGCTCTTATGAGCTTC
* * * *
53069715 TATTCAACTCTTATGAGTTTT
1 TGTTCAGCTCTTATGAGCTTC
*
53069736 TGTTCAGCTCTTACGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
* * * * *
53069757 TGTTTAACTCTTGTAAGTTTC
1 TGTTCAGCTCTTATGAGCTTC
*
53069778 TGTTCAGCTCTTATGAACTTC
1 TGTTCAGCTCTTATGAGCTTC
53069799 T
1 T
53069800 ATTGGCATAT
Statistics
Matches: 80, Mismatches: 25, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
20 1 0.01
21 78 0.98
22 1 0.01
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (21 bp):
TGTTCAGCTCTTATGAGCTTC
Found at i:53073511 original size:23 final size:25
Alignment explanation
Indices: 53073484--53073529 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53073474 GAAAAATATT
53073484 AAATAT-ATA-TATTTTTATTTTTA
1 AAATATAATAGTATTTTTATTTTTA
*
53073507 AAATATAATAGTTTTTTTATTTT
1 AAATATAATAGTATTTTTATTTT
53073530 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
AAATATAATAGTATTTTTATTTTTA
Found at i:53073659 original size:59 final size:59
Alignment explanation
Indices: 53073596--53073780 Score: 336
Period size: 59 Copynumber: 3.1 Consensus size: 59
53073586 TCAAGTTTGT
*
53073596 TTTACTAATCAAATGTTAGATTTTGTTA-ATACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACA-ACAATTAATACAATTAATAATTTGATAAA
53073655 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
53073714 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
53073773 TTTACTAA
1 TTTACTAA
53073781 CAATTAATTT
Statistics
Matches: 123, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
59 122 0.99
60 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:53076242 original size:21 final size:21
Alignment explanation
Indices: 53076216--53076256 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53076206 AAGTAATGCT
*
53076216 TAAAATGTTTAAA-ATAAAAAG
1 TAAAAT-TTAAAATATAAAAAG
53076237 TAAAATTTAAAATATAAAAA
1 TAAAATTTAAAATATAAAAA
53076257 AATTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
TAAAATTTAAAATATAAAAAG
Found at i:53076950 original size:19 final size:19
Alignment explanation
Indices: 53076928--53076977 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 19
53076918 AAAAATATTT
53076928 AAATTAGAAAAAATTATAA
1 AAATTAGAAAAAATTATAA
53076947 AAATT-GTAAAAAATTATAA
1 AAATTAG-AAAAAATTATAA
53076966 AATATATAGAAA
1 AA-AT-TAGAAA
53076978 TATAGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 19 0.70
20 2 0.07
21 4 0.15
22 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (19 bp):
AAATTAGAAAAAATTATAA
Found at i:53076967 original size:28 final size:28
Alignment explanation
Indices: 53076936--53077067 Score: 79
Period size: 30 Copynumber: 4.6 Consensus size: 28
53076926 TTAAATTAGA
53076936 AAAAATTATAAAAATTGTAAAAAATTAT
1 AAAAATTATAAAAATTGTAAAAAATTAT
* *
53076964 -AAAATATATAGAAATATAGAAAAAAATTAT
1 AAAAAT-TATA-AAA-ATTGTAAAAAATTAT
* * * *
53076994 -AAAATTTTATAAGTCGTAAAAAAATTAT
1 AAAAATTATAAAAATTGT-AAAAAATTAT
* * * * ** *
53077022 AAAAAATGTAAAGAAATATAAAATTTGTAA
1 AAAAATTATAAA-AATTGTAAAAAAT-TAT
53077052 AAAAATTATAAAAATT
1 AAAAATTATAAAAATT
53077068 ATCGTACTAA
Statistics
Matches: 77, Mismatches: 20, Indels: 13
0.70 0.18 0.12
Matches are distributed among these distances:
27 7 0.09
28 16 0.21
29 22 0.29
30 32 0.42
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (28 bp):
AAAAATTATAAAAATTGTAAAAAATTAT
Found at i:53076997 original size:10 final size:10
Alignment explanation
Indices: 53076928--53077069 Score: 59
Period size: 10 Copynumber: 14.7 Consensus size: 10
53076918 AAAAATATTT
*
53076928 AAATTAGAAA
1 AAATTATAAA
53076938 AAATTAT-AA
1 AAATTATAAA
*
53076947 AAATTGTAAA
1 AAATTATAAA
53076957 AAATTATAAA
1 AAATTATAAA
* *
53076967 ATA-TAT-AG
1 AAATTATAAA
*
53076975 AAATATAGAAAA
1 AAAT-TA-TAAA
53076987 AAATTATAAA
1 AAATTATAAA
**
53076997 ATTTTAT-AA
1 AAATTATAAA
****
53077006 GTCGTA-AAA
1 AAATTATAAA
53077015 AAATTATAAA
1 AAATTATAAA
*
53077025 AAATGTA-AAG
1 AAAT-TATAAA
53077035 AAA-TAT-AA
1 AAATTATAAA
* *
53077043 AATTTGTAAAA
1 AAATTAT-AAA
53077054 AAATTAT-AA
1 AAATTATAAA
53077063 AAATTAT
1 AAATTAT
53077070 CGTACTAAAA
Statistics
Matches: 96, Mismatches: 24, Indels: 25
0.66 0.17 0.17
Matches are distributed among these distances:
8 8 0.08
9 31 0.32
10 41 0.43
11 11 0.11
12 5 0.05
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (10 bp):
AAATTATAAA
Found at i:53077043 original size:19 final size:20
Alignment explanation
Indices: 53076935--53077065 Score: 85
Period size: 19 Copynumber: 6.8 Consensus size: 20
53076925 TTTAAATTAG
*
53076935 AAAAAATTATAAAAATTGT-
1 AAAAAATTATAAAAAATGTA
* *
53076954 AAAAAATTATAAAATATATA
1 AAAAAATTATAAAAAATGTA
* * *
53076974 GAAATA-TAGAAAAAAAT-T-
1 AAAAAATTA-TAAAAAATGTA
* * * *
53076992 ATAAAATT-TTATAAGTCGTA
1 AAAAAATTATAAAAAAT-GTA
53077012 AAAAAATTATAAAAAATGTA
1 AAAAAATTATAAAAAATGTA
* **
53077032 AAGAAA-TATAAAATTTGTA
1 AAAAAATTATAAAAAATGTA
53077051 AAAAAATTATAAAAA
1 AAAAAATTATAAAAA
53077066 TTATCGTACT
Statistics
Matches: 81, Mismatches: 23, Indels: 15
0.68 0.19 0.13
Matches are distributed among these distances:
17 4 0.05
18 3 0.04
19 37 0.46
20 32 0.40
21 5 0.06
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (20 bp):
AAAAAATTATAAAAAATGTA
Found at i:53077264 original size:10 final size:10
Alignment explanation
Indices: 53077249--53077333 Score: 70
Period size: 10 Copynumber: 8.6 Consensus size: 10
53077239 TTTCGGTGTA
53077249 TTTTATAATT
1 TTTTATAATT
*
53077259 TTTTATGA-T
1 TTTTATAATT
*
53077268 TTTTATAAAT
1 TTTTATAATT
*
53077278 TTTTACAATT
1 TTTTATAATT
*
53077288 TTTTATTAAAT
1 TTTTA-TAATT
*
53077299 TTTAATAA-T
1 TTTTATAATT
53077308 TTTTATAAATT
1 TTTTAT-AATT
53077319 TTATT-T-ATT
1 TT-TTATAATT
53077328 TTTTAT
1 TTTTAT
53077334 TTATTATATT
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
8 2 0.03
9 20 0.33
10 26 0.43
11 11 0.18
12 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:53077271 original size:19 final size:19
Alignment explanation
Indices: 53077249--53077320 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
53077239 TTTCGGTGTA
* *
53077249 TTTTATAATTTTTTATGAT
1 TTTTATAAATTTTTATAAT
*
53077268 TTTTATAAATTTTTACAATT
1 TTTTATAAATTTTTATAA-T
*
53077288 TTTTATTAAATTTTAATAAT
1 TTTTA-TAAATTTTTATAAT
53077308 TTTTATAAATTTT
1 TTTTATAAATTTT
53077321 ATTTATTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 23 0.50
20 12 0.26
21 11 0.24
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTATAAATTTTTATAAT
Found at i:53077280 original size:9 final size:9
Alignment explanation
Indices: 53077248--53077322 Score: 53
Period size: 9 Copynumber: 7.8 Consensus size: 9
53077238 TTTTCGGTGT
53077248 ATTTTATAA
1 ATTTTATAA
* *
53077257 TTTTTTATGA
1 -ATTTTATAA
*
53077267 TTTTTATAA
1 ATTTTATAA
53077276 ATTTT-TACA
1 ATTTTATA-A
53077285 ATTTTTTATTAA
1 A--TTTTA-TAA
53077297 ATTTTAATAA
1 ATTTT-ATAA
*
53077307 TTTTTATAA
1 ATTTTATAA
53077316 ATTTTAT
1 ATTTTAT
53077323 TTATTTTTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
8 2 0.04
9 24 0.45
10 18 0.34
11 5 0.09
12 2 0.04
13 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (9 bp):
ATTTTATAA
Found at i:53077328 original size:19 final size:18
Alignment explanation
Indices: 53077249--53077330 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 18
53077239 TTTCGGTGTA
53077249 TTTTAT-AATTTTTTATGAT
1 TTTTATAAATTTTTTA--AT
*
53077268 TTTTATAAATTTTTACAATT
1 TTTTATAAATTTTT-TAA-T
*
53077288 TTTTATTAAATTTTAATAAT
1 TTTTA-TAAATTTT-TTAAT
*
53077308 TTTTATAAATTTTATTTAT
1 TTTTATAAATTTT-TTAAT
53077327 TTTT
1 TTTT
53077331 TATTTATTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
19 23 0.43
20 19 0.36
21 11 0.21
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTTATAAATTTTTTAAT
Found at i:53077330 original size:20 final size:20
Alignment explanation
Indices: 53077249--53077333 Score: 79
Period size: 20 Copynumber: 4.3 Consensus size: 20
53077239 TTTCGGTGTA
*
53077249 TTTTAT-AATTTTTTATGA-T
1 TTTTATAAATTTTATAT-ATT
*
53077268 TTTTATAAATTTT-TACAATT
1 TTTTATAAATTTTATA-TATT
*
53077288 TTTTATTAAATTTTA-ATAAT
1 TTTTA-TAAATTTTATATATT
*
53077308 TTTTATAAATTTTATTTATT
1 TTTTATAAATTTTATATATT
53077328 TTTTAT
1 TTTTAT
53077334 TTATTATATT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
19 18 0.33
20 28 0.51
21 9 0.16
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (20 bp):
TTTTATAAATTTTATATATT
Found at i:53077336 original size:15 final size:16
Alignment explanation
Indices: 53077318--53077347 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53077308 TTTTATAAAT
53077318 TTTATT-TATTTTTTA
1 TTTATTATATTTTTTA
53077333 TTTATTATATTTTTT
1 TTTATTATATTTTTT
53077348 TTTGCCACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTATTATATTTTTTA
Found at i:53086069 original size:3 final size:3
Alignment explanation
Indices: 53086061--53086106 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
53086051 AAACTGGTGT
*
53086061 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
53086107 GAATTTCTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:53089019 original size:84 final size:84
Alignment explanation
Indices: 53088878--53089046 Score: 302
Period size: 84 Copynumber: 2.0 Consensus size: 84
53088868 AGTTTTAGTA
* * *
53088878 TTAGTAATTCAAAGCGCTTTTTCACTCGTTTGCACTCTCTCCCCATTCTTTACTTCCTAAGAAGC
1 TTAGTAATCCAAAGCGCTCTTTCACTCGTTTGCACTCGCTCCCCATTCTTTACTTCCTAAGAAGC
53088943 TCATTATTCAGTGTTGGCT
66 TCATTATTCAGTGTTGGCT
*
53088962 TTAGTAATCCAAAGCGCTCTTTCACTTGTTTGCACTCGCTCCCCATTCTTTACTTCCTAAGAAGC
1 TTAGTAATCCAAAGCGCTCTTTCACTCGTTTGCACTCGCTCCCCATTCTTTACTTCCTAAGAAGC
53089027 TCATTATTCAGTGTTGGCT
66 TCATTATTCAGTGTTGGCT
53089046 T
1 T
53089047 AAGCTAGATC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.40
Consensus pattern (84 bp):
TTAGTAATCCAAAGCGCTCTTTCACTCGTTTGCACTCGCTCCCCATTCTTTACTTCCTAAGAAGC
TCATTATTCAGTGTTGGCT
Found at i:53097817 original size:46 final size:46
Alignment explanation
Indices: 53097743--53098115 Score: 475
Period size: 46 Copynumber: 8.6 Consensus size: 46
53097733 TACGTATGAT
* * *
53097743 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAACTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
53097787 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
53097833 CACTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTAAGGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
53097879 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
53097925 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
53097961 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
53098007 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
53098043 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
53098089 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
53098116 AGTACTCAAA
Statistics
Matches: 293, Mismatches: 14, Indels: 42
0.84 0.04 0.12
Matches are distributed among these distances:
36 57 0.19
38 5 0.02
39 1 0.00
40 6 0.02
42 6 0.02
43 1 0.00
44 15 0.05
45 5 0.02
46 197 0.67
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:53097966 original size:36 final size:36
Alignment explanation
Indices: 53097925--53098079 Score: 175
Period size: 36 Copynumber: 4.0 Consensus size: 36
53097915 CTAAAGCTAA
53097925 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
53097961 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
53098003 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
53098043 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
53098079 C
1 C
53098080 TAAAGCTACC
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 64 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.27
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:53098016 original size:82 final size:82
Alignment explanation
Indices: 53097879--53098115 Score: 429
Period size: 82 Copynumber: 2.9 Consensus size: 82
53097869 CTAAGGCTAT
* * *
53097879 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
53097944 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
53097961 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
*
53098026 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
*
53098043 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
53098108 TGATCAGA
66 TGATCAGA
53098116 AGTACTCAAA
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 150 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTATAG
Found at i:53098093 original size:128 final size:133
Alignment explanation
Indices: 53097743--53098115 Score: 438
Period size: 128 Copynumber: 2.9 Consensus size: 133
53097733 TACGTATGAT
* *
53097743 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAACTAAGGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAG-GTAGCTAA-G--A-CACTTATCACTTTGTCACT
* **
53097806 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGCCACTTGATCAGATAAGTGTAGCT
61 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCT
* *
53097871 AAGGCTAT
126 AAAGCTAC
53097879 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAG-GTAGCT-AAG---ACACTTATCACTTTGTCACT
*
53097944 TGATCAGATAA--GTA--T--AG----CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT
61 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCT
53097999 AAAGCTAC
126 AAAGCTAC
* *
53098007 CACTTATCACTTTGTCTCTTGATCAGATAA-GT-G-T-AG-CACTTATCACTTTTTCACTTGATC
1 CACTTATCACTTTGTCACTTGATCAGATAAGGTAGCTAAGACACTTATCACTTTGTCACTTGATC
*
53098067 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTGATCAGA
66 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
53098116 AGTACTCAAA
Statistics
Matches: 210, Mismatches: 13, Indels: 36
0.81 0.05 0.14
Matches are distributed among these distances:
118 29 0.14
120 3 0.01
122 3 0.01
124 3 0.01
125 1 0.00
126 2 0.01
128 96 0.46
132 1 0.00
134 1 0.00
136 13 0.06
137 5 0.02
138 50 0.24
139 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (133 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGGTAGCTAAGACACTTATCACTTTGTCACTTGATC
AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGC
TAC
Found at i:53105026 original size:11 final size:11
Alignment explanation
Indices: 53105012--53105037 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
53105002 TACACTATCC
53105012 AGAAAAAAAAA
1 AGAAAAAAAAA
53105023 AGAAAAAAAAA
1 AGAAAAAAAAA
53105034 AGAA
1 AGAA
53105038 GAATTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:53110451 original size:21 final size:21
Alignment explanation
Indices: 53110393--53110456 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 21
53110383 GTAATTTTAA
*
53110393 ATAATATAATTTTAATTA-TT
1 ATAATATAATTTTAATAATTT
*
53110413 ATAAT-TAATTTTTA-AATTT
1 ATAATATAATTTTAATAATTT
* *
53110432 TTATTATAATTTTAATAA-TT
1 ATAATATAATTTTAATAATTT
53110452 ATAAT
1 ATAAT
53110457 TATTCTTAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 1 0.03
19 13 0.38
20 18 0.53
21 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATAATATAATTTTAATAATTT
Found at i:53110454 original size:15 final size:15
Alignment explanation
Indices: 53110384--53110457 Score: 63
Period size: 15 Copynumber: 5.3 Consensus size: 15
53110374 AATTTTAAAG
53110384 TAATTTTAAATAA-TA
1 TAATTTT-AATAATTA
*
53110399 TAATTTTAATTATTA
1 TAATTTTAATAATTA
**
53110414 TAA--TTAATTTTTA
1 TAATTTTAATAATTA
53110427 -AATTTT--T-ATTA
1 TAATTTTAATAATTA
53110438 TAATTTTAATAATTA
1 TAATTTTAATAATTA
53110453 TAATT
1 TAATT
53110458 ATTCTTAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
11 3 0.06
12 9 0.18
13 9 0.18
14 7 0.14
15 21 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATTTTAATAATTA
Found at i:53122473 original size:20 final size:20
Alignment explanation
Indices: 53122448--53122494 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
53122438 GCCTTTGACT
*
53122448 CTGAATAGATAGTGGTTTCC
1 CTGAATAGATAGTGGTTCCC
*
53122468 CTGAATAGATGGTGGTTCCC
1 CTGAATAGATAGTGGTTCCC
*
53122488 CTAAATA
1 CTGAATA
53122495 CGTGGGTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
CTGAATAGATAGTGGTTCCC
Found at i:53128698 original size:114 final size:114
Alignment explanation
Indices: 53128498--53128729 Score: 455
Period size: 114 Copynumber: 2.0 Consensus size: 114
53128488 CTCGAATCCA
53128498 TATCCTTTTACACTGACAACAATGTCAATGCCAAATGAACTAAGACTCAATCGACTTATATTATA
1 TATCCTTTTACACTGACAACAATGTCAATGCCAAATGAACTAAGACTCAATCGACTTATATTATA
53128563 CAATATATTTGTTTTTAATATAAAAAACCCAAATTTTAATACTTAATTT
66 CAATATATTTGTTTTTAATATAAAAAACCCAAATTTTAATACTTAATTT
*
53128612 TATCCTTTTACACTGACAACAATGTCAATGCCAAATGAACTAAGACTTAATCGACTTATATTATA
1 TATCCTTTTACACTGACAACAATGTCAATGCCAAATGAACTAAGACTCAATCGACTTATATTATA
53128677 CAATATATTTGTTTTTAATATAAAAAACCCAAATTTTAATACTTAATTT
66 CAATATATTTGTTTTTAATATAAAAAACCCAAATTTTAATACTTAATTT
53128726 TATC
1 TATC
53128730 ATTTGAACCA
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 117 1.00
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.38
Consensus pattern (114 bp):
TATCCTTTTACACTGACAACAATGTCAATGCCAAATGAACTAAGACTCAATCGACTTATATTATA
CAATATATTTGTTTTTAATATAAAAAACCCAAATTTTAATACTTAATTT
Found at i:53129112 original size:7 final size:7
Alignment explanation
Indices: 53129100--53129126 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
53129090 TGTTCTTTTT
53129100 AATTTAA
1 AATTTAA
53129107 AATTTAA
1 AATTTAA
53129114 AATTTAA
1 AATTTAA
53129121 AATTTA
1 AATTTA
53129127 TATAGATCTC
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:53137659 original size:14 final size:15
Alignment explanation
Indices: 53137640--53137668 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
53137630 AGATGTTTTA
53137640 ATTTTTTT-ACTTAT
1 ATTTTTTTAACTTAT
53137654 ATTTTTTTAACTTAT
1 ATTTTTTTAACTTAT
53137669 GGTAATAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTTAACTTAT
Found at i:53149690 original size:17 final size:17
Alignment explanation
Indices: 53149666--53149709 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
53149656 CCTTTTCTAC
53149666 TAAAAAAA-TATTAGTAAA
1 TAAAAAAATTA-TA-TAAA
53149684 TAAAAAAATTATATAAA
1 TAAAAAAATTATATAAA
53149701 TATAAAAAA
1 TA-AAAAAA
53149710 ATATTTTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.25
18 16 0.67
19 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
TAAAAAAATTATATAAA
Found at i:53149691 original size:19 final size:19
Alignment explanation
Indices: 53149666--53149741 Score: 68
Period size: 19 Copynumber: 4.1 Consensus size: 19
53149656 CCTTTTCTAC
53149666 TAAAAAAATATTAGTAAATA
1 TAAAAAAATATTA-TAAATA
*
53149686 -AAAAAATTA-TATAAATA
1 TAAAAAAATATTATAAATA
* ** *
53149703 TAAAAAAATATTTTAGTTT
1 TAAAAAAATATTATAAATA
53149722 TGAAAAAAATA-TATAAATA
1 T-AAAAAAATATTATAAATA
53149741 T
1 T
53149742 TTTAATTTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
17 6 0.14
18 10 0.23
19 18 0.42
20 9 0.21
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
TAAAAAAATATTATAAATA
Found at i:53150180 original size:11 final size:11
Alignment explanation
Indices: 53150158--53150215 Score: 80
Period size: 11 Copynumber: 5.2 Consensus size: 11
53150148 AACTAATCCT
53150158 CTCTCAAATTTC
1 CTCTC-AATTTC
53150170 CTCTCAATTTC
1 CTCTCAATTTC
*
53150181 CTCTAAATTTC
1 CTCTCAATTTC
*
53150192 CTCTCAATTTG
1 CTCTCAATTTC
*
53150203 CTCTCAAATTC
1 CTCTCAATTTC
53150214 CT
1 CT
53150216 TCCAAATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 36 0.88
12 5 0.12
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:53150191 original size:22 final size:23
Alignment explanation
Indices: 53150158--53150233 Score: 97
Period size: 22 Copynumber: 3.4 Consensus size: 23
53150148 AACTAATCCT
53150158 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
*
53150181 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
53150203 CTCTCAAA-TTCCT-TCCAAATTT-
1 CTCTCAAATTTCCTCT-C-AATTTC
53150225 CTCTCAAAT
1 CTCTCAAAT
53150234 CCATATTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
21 1 0.02
22 35 0.73
23 12 0.25
ACGTcount: A:0.25, C:0.32, G:0.01, T:0.42
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:53150207 original size:33 final size:33
Alignment explanation
Indices: 53150157--53150231 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
53150147 AAACTAATCC
* *
53150157 TCTCTCAAATTTCCTCTCAATTTCC-TCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCCAAATT
*
53150190 TCCTCTCAATTTGCTCTCAAATTCCTTCCAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCCAAATT
53150224 TCTCTCAA
1 TCTCTCAA
53150232 ATCCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.24, C:0.32, G:0.01, T:0.43
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCCAAATT
Found at i:53150232 original size:11 final size:11
Alignment explanation
Indices: 53150157--53150233 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
53150147 AAACTAATCC
53150157 TCTCTCAAATT
1 TCTCTCAAATT
53150168 TCCTCTC-AATT
1 T-CTCTCAAATT
53150179 TC-CTCTAAATT
1 TCTCTC-AAATT
53150190 TCCTCTC-AATT
1 T-CTCTCAAATT
53150201 TGCTCTCAAATT
1 T-CTCTCAAATT
*
53150213 CCT-TCCAAATT
1 TCTCT-CAAATT
53150224 TCTCTCAAAT
1 TCTCTCAAAT
53150234 CCATATTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
9 3 0.05
10 2 0.04
11 36 0.65
12 11 0.20
13 3 0.05
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:53150251 original size:51 final size:51
Alignment explanation
Indices: 53150193--53150292 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
53150183 CTAAATTTCC
53150193 TCTCAATTTGCTCTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * * *
53150244 TCTCAATTTGCTCTCAAGTTCCTCTTAAATTTCTTTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
53150293 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.45
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:53152738 original size:21 final size:21
Alignment explanation
Indices: 53152714--53152834 Score: 163
Period size: 21 Copynumber: 5.8 Consensus size: 21
53152704 AACCTAACTC
53152714 TAACCCTTAACTTAAAAACCG
1 TAACCCTTAACTTAAAAACCG
* *
53152735 TAACCCTTAAATTAAAAACCT
1 TAACCCTTAACTTAAAAACCG
*
53152756 TAACCCTTAACTTTAAAACCG
1 TAACCCTTAACTTAAAAACCG
* *
53152777 TAACCCTTAAATAAAAAACAC-
1 TAACCCTTAACTTAAAAAC-CG
* *
53152798 TAACACTTAACTTAAAAACCT
1 TAACCCTTAACTTAAAAACCG
53152819 TAACCCTTAACTTAAA
1 TAACCCTTAACTTAAA
53152835 TATAATTTGA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
20 1 0.01
21 84 0.98
22 1 0.01
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.26
Consensus pattern (21 bp):
TAACCCTTAACTTAAAAACCG
Found at i:53152749 original size:26 final size:25
Alignment explanation
Indices: 53152694--53152749 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
53152684 GCTTAAACCC
* *
53152694 TTAACTTAAAAACCTAACTCTAACCC
1 TTAACTTAAAAACCTAACCCTAA-CA
53152720 TTAACTTAAAAACCGTAACCCTTAA-A
1 TTAACTTAAAAACC-TAACCC-TAACA
53152746 TTAA
1 TTAA
53152750 AAACCTTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 18 0.69
27 5 0.19
28 3 0.12
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.29
Consensus pattern (25 bp):
TTAACTTAAAAACCTAACCCTAACA
Found at i:53156173 original size:124 final size:124
Alignment explanation
Indices: 53156006--53156395 Score: 622
Period size: 124 Copynumber: 3.1 Consensus size: 124
53155996 CCCAAACATG
* *
53156006 CTACTATAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTTTTCTCAAATAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
53156071 TAGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* *
53156130 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * **
53156195 TTGAAGCGTTTTTTTA-AATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAAAC
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* *
53156254 TTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTTATAA-AGCATCCTG
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
53156318 CTTGAAGCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
65 CTTGAAGCG--TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
*
53156380 CTACTGTAGCAAAAGC
1 CTACTATAGCAAAAGC
53156396 AGGTACACGT
Statistics
Matches: 242, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
123 32 0.13
124 148 0.61
125 2 0.01
126 28 0.12
127 32 0.13
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (124 bp):
CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:53156437 original size:126 final size:126
Alignment explanation
Indices: 53156006--53156446 Score: 594
Period size: 124 Copynumber: 3.5 Consensus size: 126
53155996 CCCAAACATG
* * ** *
53156006 CTACTATAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTTTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCAAGATTTCACAAATTCTTCTCATAA-AGCATCCTG
*
53156070 CTAGAAGCG--TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
65 CTTGAAGCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
*
53156130 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCA-ATTTCACAAATTCTTCTCA-AATAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGC-AAGATTTCACAAATTCTTCTCATAA-AGCATCCT
**
53156193 GCTTGAAGCGTTTTTTTA-A--ATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAAAC
64 GCTTGAAGCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* * ** *
53156254 TTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTTATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCAAGATTTCACAAATTCTTCTCATAAAGCATCCTGC
53156319 TTGAAGCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
66 TTGAAGCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * *
53156380 CTACTGTAGCAAAAGCAG-GTACACGTGGGCAAGACTTCATAAATCCTTCTGATAAAGCATCCTG
1 CTACTGTAGCAAAAGC-GCGTCCACGAGGGCAAGATTTCACAAATTCTTCTCATAAAGCATCCTG
53156444 CTT
65 CTT
53156447 TGATTTTATC
Statistics
Matches: 282, Mismatches: 25, Indels: 18
0.87 0.08 0.06
Matches are distributed among these distances:
123 32 0.11
124 145 0.51
125 4 0.01
126 68 0.24
127 33 0.12
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCAAGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:53156597 original size:16 final size:16
Alignment explanation
Indices: 53156576--53156634 Score: 70
Period size: 16 Copynumber: 3.9 Consensus size: 16
53156566 CCCTAAAAAT
53156576 TCTAAAAATCCTAAAC
1 TCTAAAAATCCTAAAC
53156592 TCTAAAAATCCTAAAC
1 TCTAAAAATCCTAAAC
* * *
53156608 CCT-AAACT-CTAAAA
1 TCTAAAAATCCTAAAC
53156622 TCTAAAAA-CCTAA
1 TCTAAAAATCCTAA
53156635 CATGGGAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 7 0.19
15 11 0.31
16 18 0.50
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (16 bp):
TCTAAAAATCCTAAAC
Found at i:53156630 original size:23 final size:24
Alignment explanation
Indices: 53156563--53156631 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 24
53156553 TTTTTCTCTA
* *
53156563 AAACCCTAAAAATTCTAAAAATCCT
1 AAACTCTAAAAA-TCTAAAAACCCT
53156588 AAACTCTAAAAATCCT--AAACCCT
1 AAACTCTAAAAAT-CTAAAAACCCT
53156611 AAACTCT-AAAATCTAAAAACC
1 AAACTCTAAAAATCTAAAAACC
53156632 TAACATGGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
21 2 0.05
22 5 0.13
23 18 0.46
24 1 0.03
25 13 0.33
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (24 bp):
AAACTCTAAAAATCTAAAAACCCT
Found at i:53158947 original size:31 final size:31
Alignment explanation
Indices: 53158901--53158962 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
53158891 AATAATTGGA
*
53158901 TTTAACTTAATTGAGAA-AAAGATAATAAATT
1 TTTAACTTAAATGAGAACAAA-ATAATAAATT
*
53158932 TTTATCTTAAATGAGAACAAAATAATAAATT
1 TTTAACTTAAATGAGAACAAAATAATAAATT
53158963 CTATCTGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (31 bp):
TTTAACTTAAATGAGAACAAAATAATAAATT
Found at i:53176198 original size:15 final size:15
Alignment explanation
Indices: 53176170--53176212 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
53176160 TGTTTGTTTG
53176170 CTAGTAAAAT-ATTTT
1 CTAG-AAAATGATTTT
53176185 CTAGAAAATGA-TTT
1 CTAGAAAATGATTTT
*
53176199 CTGGAAAATGATTT
1 CTAGAAAATGATTT
53176213 ACTTTTCTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.40
Consensus pattern (15 bp):
CTAGAAAATGATTTT
Found at i:53176228 original size:19 final size:20
Alignment explanation
Indices: 53176196--53176241 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
53176186 TAGAAAATGA
53176196 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
53176216 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
53176235 TTTCTGG
1 TTTCTGG
53176242 TGTTTAGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:53176343 original size:18 final size:19
Alignment explanation
Indices: 53176316--53176384 Score: 61
Period size: 20 Copynumber: 3.7 Consensus size: 19
53176306 AAAAAGTTAT
*
53176316 TTTTACATATATTAATAAA
1 TTTTATATATATTAATAAA
53176335 TTTATATATATATTAATAAA
1 TTT-TATATATATTAATAAA
* * **
53176355 -ATTATAT-TTTTAATAGT
1 TTTTATATATATTAATAAA
*
53176372 TTTTACATATATT
1 TTTTATATATATT
53176385 GCAATGATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
17 7 0.18
18 10 0.26
19 7 0.18
20 15 0.38
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (19 bp):
TTTTATATATATTAATAAA
Found at i:53176345 original size:20 final size:20
Alignment explanation
Indices: 53176322--53176361 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
53176312 TTATTTTTAC
*
53176322 ATATATTAATAAATTTATAT
1 ATATATTAATAAAATTATAT
53176342 ATATATTAATAAAATTATAT
1 ATATATTAATAAAATTATAT
53176362 TTTTAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATATTAATAAAATTATAT
Found at i:53179869 original size:12 final size:12
Alignment explanation
Indices: 53179848--53179877 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
53179838 AGATCATAAA
*
53179848 ATATAGATATGT
1 ATATATATATGT
53179860 ATATATATATGT
1 ATATATATATGT
53179872 ATATAT
1 ATATAT
53179878 TTTAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (12 bp):
ATATATATATGT
Found at i:53181681 original size:25 final size:25
Alignment explanation
Indices: 53181653--53181702 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
53181643 GGAAGAGAAG
*
53181653 ATGAAGAATGGAAGAAGGAAAAGGA
1 ATGAAGAAGGGAAGAAGGAAAAGGA
*
53181678 ATGAAGAAGGGAAGAAGGAGAAGGA
1 ATGAAGAAGGGAAGAAGGAAAAGGA
53181703 GCCTTACCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.40, T:0.06
Consensus pattern (25 bp):
ATGAAGAAGGGAAGAAGGAAAAGGA
Found at i:53182509 original size:42 final size:41
Alignment explanation
Indices: 53182462--53182545 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 41
53182452 TTCTGAGGTG
* * *
53182462 TGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGCATA
1 TGATTTCGTGTAAGACCATGTCTGAGACAGTGGCATCG-ATA
*
53182504 TGATTTCGTGTAAGACCCTGTCTGAGACAGTGGCATCGATA
1 TGATTTCGTGTAAGACCATGTCTGAGACAGTGGCATCGATA
53182545 T
1 T
53182546 ATTATAACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
41 4 0.11
42 34 0.89
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTGAGACAGTGGCATCGATA
Found at i:53182562 original size:43 final size:42
Alignment explanation
Indices: 53182462--53182573 Score: 111
Period size: 42 Copynumber: 2.6 Consensus size: 42
53182452 TTCTGAGGTG
* * * *
53182462 TGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGCATA
1 TGATTTCATGTAAGACCATGTCTGAGACAGTGGCATCGCATA
* *
53182504 TGATTTCGTGTAAGACCCTGTCTGAGACAGTGGCATCG-ATA
1 TGATTTCATGTAAGACCATGTCTGAGACAGTGGCATCGCATA
* *
53182545 T-ATTATAACATGTAAGACTATATCTGAGA
1 TGATT-T--CATGTAAGACCATGTCTGAGA
53182574 TATGACATTG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
40 3 0.05
41 5 0.08
42 34 0.58
43 17 0.29
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATGTCTGAGACAGTGGCATCGCATA
Found at i:53188000 original size:23 final size:23
Alignment explanation
Indices: 53187926--53188002 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
53187916 GATATGATGT
*
53187926 TGTCCAAATTGGTGCTTAATTGC
1 TGTCCAAATTGGTGCTTAAATGC
** * *
53187949 TGTCCATTTTTGAGT-ATATTAATGC
1 TGTCCA-AATTG-GTGCT-TAAATGC
*
53187974 TGTCCAAATTGGTGCTTAAATGT
1 TGTCCAAATTGGTGCTTAAATGC
53187997 TGTCCA
1 TGTCCA
53188003 TTTTTGTACA
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
23 19 0.47
24 8 0.20
25 13 0.32
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (23 bp):
TGTCCAAATTGGTGCTTAAATGC
Found at i:53188026 original size:48 final size:48
Alignment explanation
Indices: 53187922--53188026 Score: 140
Period size: 48 Copynumber: 2.2 Consensus size: 48
53187912 TGATGATATG
* * * *
53187922 ATGTTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTGAGTATATTA
1 ATGTTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGAGCAAATCA
* *
53187970 ATGCTGTCCAAATTGGTGCTTAAATGTTGTCCATTTTTGTA-CAAATCA
1 ATGTTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTG-AGCAAATCA
53188018 ATGTTGTCC
1 ATGTTGTCC
53188027 GAATATTGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
48 48 0.98
49 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (48 bp):
ATGTTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGAGCAAATCA
Found at i:53189245 original size:34 final size:34
Alignment explanation
Indices: 53189206--53189273 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
53189196 GTTGAAGAAA
53189206 GTTCACCTTGCGTCCTTTATTGAGCCAACTATGT
1 GTTCACCTTGCGTCCTTTATTGAGCCAACTATGT
53189240 GTTCACCTTGCGTCCTTTATTGAGCCAACTATGT
1 GTTCACCTTGCGTCCTTTATTGAGCCAACTATGT
53189274 ATAAAACCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (34 bp):
GTTCACCTTGCGTCCTTTATTGAGCCAACTATGT
Found at i:53201236 original size:43 final size:42
Alignment explanation
Indices: 53201175--53201365 Score: 265
Period size: 43 Copynumber: 4.5 Consensus size: 42
53201165 AAACGCTGCT
* **
53201175 TCTCTCACAAATGCCGCTAAAGAACATGTTCTTTAGCGGCGC
1 TCTCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
*
53201217 GTCTCTCACAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
1 -TCTCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
* *
53201260 ATATCTCAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
1 -TCTCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
* *
53201303 ACATCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCAC
1 TC-TCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
*
53201346 TTCCCTCACAAACGCCGCTA
1 -TCTCTCACAAACGCCGCTA
53201366 TTGTCTAATG
Statistics
Matches: 134, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
43 133 0.99
44 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (42 bp):
TCTCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
Found at i:53209405 original size:18 final size:17
Alignment explanation
Indices: 53209383--53209417 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53209373 TTATTATTAA
*
53209383 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
53209401 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
53209418 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:53209428 original size:54 final size:53
Alignment explanation
Indices: 53209369--53209537 Score: 175
Period size: 54 Copynumber: 3.1 Consensus size: 53
53209359 ATATTTAAAT
* *
53209369 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCT-TA
1 ATAATTAATATTAAATATATTTTAATTAAAATATAT-ATTTAATAAAATT-TGAA
** * * *
53209423 ATAATTAATATTCTTATATGAATTTACTCAAAATACTATA---AATGAAAATTTGAA
1 ATAATTAATATT-AAATAT-ATTTTAATTAAAATA-TATATTTAAT-AAAATTTGAA
*
53209477 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAA
1 ATAATTAATATTAAATATATTTTAATTAAAATATAT-ATTTAATAAAATTTGAA
53209531 ATAATTA
1 ATAATTA
53209538 TAACTAATAA
Statistics
Matches: 93, Mismatches: 13, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
51 3 0.03
52 13 0.14
53 8 0.09
54 46 0.49
55 7 0.08
56 13 0.14
57 3 0.03
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (53 bp):
ATAATTAATATTAAATATATTTTAATTAAAATATATATTTAATAAAATTTGAA
Found at i:53209613 original size:24 final size:25
Alignment explanation
Indices: 53209567--53209614 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
53209557 TATGAATTTG
53209567 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
53209593 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
53209615 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:53209739 original size:92 final size:92
Alignment explanation
Indices: 53209557--53209750 Score: 268
Period size: 92 Copynumber: 2.1 Consensus size: 92
53209547 AATTATATTT
* * * *
53209557 TATGAATTTGTATAATTTAAAATAATAATTATTACATATAATTTAATAATTAATATTAAATTTCA
1 TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTTAATAATGAATATTAAATTTCA
* *
53209622 TAAAATTCTTGATAATAAATTTTCTTA
66 TAAAATTCTTAATAATAAATGTTCTTA
*
53209649 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAGTG-ATA-TATAATTT
1 TATGAATTTATACAATTTAAAATAA-TAATTATTAAATATAATTTAATAATGAATATTA-AATTT
53209711 CATAAAATTCTTAATAATAAAATGTTCTTA
64 CATAAAATTCTTAATAAT-AAATGTTCTTA
*
53209741 TATCAATTTA
1 TATGAATTTA
53209751 GTAAAATCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
90 2 0.02
91 25 0.27
92 61 0.67
93 3 0.03
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTTAATAATGAATATTAAATTTCA
TAAAATTCTTAATAATAAATGTTCTTA
Found at i:53213112 original size:48 final size:48
Alignment explanation
Indices: 53213060--53213530 Score: 852
Period size: 48 Copynumber: 9.8 Consensus size: 48
53213050 ATTTATTGAT
**
53213060 TTTTAATAAAATATTAAAGTCCTTATTTTAAAGATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
53213108 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
* *
53213156 TTTTAATAAAACATTAAAGTCCTTACTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
*
53213204 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
53213252 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
*
53213300 TTTTAATAAAATATTAAAGTTCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
*
53213348 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
*
53213396 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
*
53213444 TTTTAATAAAATATTCAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
*
53213492 TTTTAATGAAATATTAAAGTCCTTATTTTAATTATTGAT
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGAT
53213531 GTAATTATTT
Statistics
Matches: 408, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 408 1.00
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (48 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
Found at i:53214564 original size:23 final size:23
Alignment explanation
Indices: 53214538--53214612 Score: 132
Period size: 23 Copynumber: 3.3 Consensus size: 23
53214528 TAAACAAATT
53214538 CAATTTCCAGCAGACAATCAAAA
1 CAATTTCCAGCAGACAATCAAAA
*
53214561 CAATTTCCAGCAGACAATCATAA
1 CAATTTCCAGCAGACAATCAAAA
*
53214584 CAATTTCCAGCAGATAATCAAAA
1 CAATTTCCAGCAGACAATCAAAA
53214607 CAATTT
1 CAATTT
53214613 TAGAACAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.23
Consensus pattern (23 bp):
CAATTTCCAGCAGACAATCAAAA
Found at i:53215575 original size:32 final size:34
Alignment explanation
Indices: 53215534--53215597 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
53215524 CTTTTCGATT
* *
53215534 TTCTTTTAA-GAGAATGGTTTTATAAT-GTGACA
1 TTCTTTTAAGGAAAATAGTTTTATAATAGTGACA
53215566 TTCTTTTAAGGAAAATAGTTTTATAATAGTGA
1 TTCTTTTAAGGAAAATAGTTTTATAATAGTGA
53215598 AATTATTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 9 0.32
33 15 0.54
34 4 0.14
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (34 bp):
TTCTTTTAAGGAAAATAGTTTTATAATAGTGACA
Found at i:53215945 original size:17 final size:17
Alignment explanation
Indices: 53215925--53215960 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
53215915 ACTCAAAGGG
53215925 AAATAAACAGCAAAAGA
1 AAATAAACAGCAAAAGA
*
53215942 AAATAAACAGCAATAGA
1 AAATAAACAGCAAAAGA
53215959 AA
1 AA
53215961 CATGCAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.69, C:0.11, G:0.11, T:0.08
Consensus pattern (17 bp):
AAATAAACAGCAAAAGA
Found at i:53228379 original size:3 final size:3
Alignment explanation
Indices: 53228371--53228408 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
53228361 TTAAGAGCTG
53228371 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
53228409 GGGAATTGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:53229204 original size:7 final size:7
Alignment explanation
Indices: 53229189--53229220 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
53229179 GGATTATAGA
53229189 TTTGAAGT
1 TTTG-AGT
53229197 TTTGAGT
1 TTTGAGT
53229204 TTTGAGT
1 TTTGAGT
53229211 TTTGAGT
1 TTTGAGT
53229218 TTT
1 TTT
53229221 TTATTTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.16, C:0.00, G:0.25, T:0.59
Consensus pattern (7 bp):
TTTGAGT
Found at i:53251450 original size:14 final size:14
Alignment explanation
Indices: 53251408--53251451 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
53251398 CAATTTATAG
* *
53251408 AAATTTTCTTTTAT
1 AAATTTTATATTAT
53251422 AAATTTTACATATTAT
1 AAATTTT--ATATTAT
53251438 AAATTTTATATTAT
1 AAATTTTATATTAT
53251452 TTTTGACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 14 0.54
16 12 0.46
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (14 bp):
AAATTTTATATTAT
Found at i:53251872 original size:24 final size:24
Alignment explanation
Indices: 53251845--53251893 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
53251835 AACTTCAATC
53251845 ATAAGTAGAATTGAGATAATCCAT
1 ATAAGTAGAATTGAGATAATCCAT
53251869 ATAAGTAGAATTGAGATAATCCAT
1 ATAAGTAGAATTGAGATAATCCAT
53251893 A
1 A
53251894 CTTCGAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (24 bp):
ATAAGTAGAATTGAGATAATCCAT
Found at i:53256135 original size:13 final size:13
Alignment explanation
Indices: 53256117--53256143 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53256107 AAAGGATCTA
53256117 ATTATGGAACTTC
1 ATTATGGAACTTC
53256130 ATTATGGAACTTC
1 ATTATGGAACTTC
53256143 A
1 A
53256144 AGCGTAACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTATGGAACTTC
Found at i:53281717 original size:42 final size:42
Alignment explanation
Indices: 53281618--53281720 Score: 156
Period size: 42 Copynumber: 2.5 Consensus size: 42
53281608 CGGCTATATG
* *
53281618 AACG-GCACTAAGTGTACAAAATTAAAATGATGATGTTGAAT
1 AACGAGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAAT
*
53281659 AA-TAGGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAAT
1 AACGA-GCACTAAGTGTGCGAAATTAAAATGATGATGTTGAAT
53281701 AACGAGCACTAAGTGTGCGA
1 AACGAGCACTAAGTGTGCGA
53281721 TACCGAGAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
41 2 0.04
42 52 0.95
43 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (42 bp):
AACGAGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAAT
Found at i:53284105 original size:40 final size:40
Alignment explanation
Indices: 53283959--53284092 Score: 178
Period size: 40 Copynumber: 3.4 Consensus size: 40
53283949 TTTTTTTGCA
* * *
53283959 GCGTTTTTCAAAAAGCGTCGCTAATGGTCGACCTATAGCG
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCG
* *
53283999 GCGTTTTCCAAAAAGCGCCGCTAATGCTCGATCTATAACG
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCG
* * * *
53284039 GCGTTTTTCAAAGAGCACCACTAATGCTTGATCTATAGCG
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCG
*
53284079 ACGTTTTTCAAAAA
1 GCGTTTTTCAAAAA
53284093 TCTTCGCTAA
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (40 bp):
GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCG
Found at i:53291673 original size:28 final size:31
Alignment explanation
Indices: 53291642--53291710 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 31
53291632 ATTTTTCAAG
*
53291642 TTTTTAAAATT-TTAATTAAA-T-TTATTAA
1 TTTTTAAAATTATAAATTAAATTATTATTAA
* * *
53291670 TTTTTTATATTATAAATTAAATTATTGTTAA
1 TTTTTAAAATTATAAATTAAATTATTATTAA
*
53291701 TTATTAAAAT
1 TTTTTAAAAT
53291711 AAAATATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 9 0.29
29 8 0.26
30 1 0.03
31 13 0.42
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (31 bp):
TTTTTAAAATTATAAATTAAATTATTATTAA
Found at i:53298147 original size:2 final size:2
Alignment explanation
Indices: 53298140--53298165 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
53298130 AATTCACCAT
53298140 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
53298166 GCATACATAC
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:53305954 original size:19 final size:20
Alignment explanation
Indices: 53305908--53305959 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
53305898 AAAGAAAAAA
* *
53305908 ATTTTAATTTTCCTATTATT
1 ATTTTATTTTTACTATTATT
53305928 ATTATTTATTTTTACTATT-TT
1 A-T-TTTATTTTTACTATTATT
53305949 ATTTTATTTTT
1 ATTTTATTTTT
53305960 GTAGGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 9 0.32
20 2 0.07
21 4 0.14
22 13 0.46
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTATTTTTACTATTATT
Found at i:53312605 original size:15 final size:15
Alignment explanation
Indices: 53312587--53312636 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
53312577 ACACATGTAT
53312587 TTTTGTAACATCCAA
1 TTTTGTAACATCCAA
* ** *
53312602 TTTTTTACACATGTAT
1 TTTTGTA-ACATCCAA
53312618 TTTTGTAACATCCAA
1 TTTTGTAACATCCAA
53312633 TTTT
1 TTTT
53312637 TTCTAGTACA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.28, C:0.16, G:0.06, T:0.50
Consensus pattern (15 bp):
TTTTGTAACATCCAA
Found at i:53312606 original size:16 final size:16
Alignment explanation
Indices: 53312585--53312637 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
53312575 ATACACATGT
53312585 ATTTTTGTAACATCCA
1 ATTTTTGTAACATCCA
**
53312601 ATTTTT-TACACAT-GT
1 ATTTTTGTA-ACATCCA
53312616 ATTTTTGTAACATCCA
1 ATTTTTGTAACATCCA
53312632 ATTTTT
1 ATTTTT
53312638 TCTAGTACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 12 0.40
16 18 0.60
ACGTcount: A:0.28, C:0.15, G:0.06, T:0.51
Consensus pattern (16 bp):
ATTTTTGTAACATCCA
Found at i:53312611 original size:31 final size:31
Alignment explanation
Indices: 53312576--53312638 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
53312566 TAACATGCAA
53312576 TACACATGTATTTTTGTAACATCCAATTTTT
1 TACACATGTATTTTTGTAACATCCAATTTTT
53312607 TACACATGTATTTTTGTAACATCCAATTTTT
1 TACACATGTATTTTTGTAACATCCAATTTTT
53312638 T
1 T
53312639 CTAGTACAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.49
Consensus pattern (31 bp):
TACACATGTATTTTTGTAACATCCAATTTTT
Found at i:53325820 original size:11 final size:11
Alignment explanation
Indices: 53325806--53325845 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
53325796 ATTTTTTTTA
53325806 TTTTAAAATAT
1 TTTTAAAATAT
53325817 TTTTAAAATACT
1 TTTTAAAATA-T
* *
53325829 TTTTTAAATTT
1 TTTTAAAATAT
53325840 TTTTAA
1 TTTTAA
53325846 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:53325821 original size:40 final size:40
Alignment explanation
Indices: 53325777--53325853 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
53325767 ATTTTTTTAA
** *
53325777 TTTTAAAATACTTTTTTTTATTTTTTTTATTTTAAAATAT
1 TTTTAAAATACTTTTTTAAATTTTTTTAATTTTAAAATAT
53325817 TTTTAAAATACTTTTTTAAATTTTTTTAATTTTAAAA
1 TTTTAAAATACTTTTTTAAATTTTTTTAATTTTAAAA
53325854 AAAAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTAAAATACTTTTTTAAATTTTTTTAATTTTAAAATAT
Found at i:53343579 original size:44 final size:46
Alignment explanation
Indices: 53343494--53343586 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
53343484 GGTTCGCTGT
* *
53343494 AATGAAATAGAGGCGTAATGGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGAAATAGAGGCGTAATGAGTAATTCTTGTGTTTGGTTGAATGG
*
53343540 AATGGAATAGAGGCGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGAAATAGAGGCGTAATGAGTAATTCTTGTGTTTGGTTGAATGG
53343584 AAT
1 AAT
53343587 AAAGGTGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 24 0.55
45 2 0.05
46 18 0.41
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.37
Consensus pattern (46 bp):
AATGAAATAGAGGCGTAATGAGTAATTCTTGTGTTTGGTTGAATGG
Found at i:53346059 original size:25 final size:24
Alignment explanation
Indices: 53346013--53346074 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
53346003 CAATTTACTA
53346013 GAATTGCAATCTAAAAAAACCTCTT
1 GAATTGCAA-CTAAAAAAACCTCTT
* *
53346038 GAATTGCAACTAAATGATACCTCTT
1 GAATTGCAACTAAA-AAAACCTCTT
*
53346063 CAATTGCAACTA
1 GAATTGCAACTA
53346075 GAGCTTCAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 5 0.15
25 28 0.85
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (24 bp):
GAATTGCAACTAAAAAAACCTCTT
Found at i:53358681 original size:21 final size:21
Alignment explanation
Indices: 53358656--53358699 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
53358646 ATCTTCGAGG
53358656 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
53358677 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
53358698 AT
1 AT
53358700 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:53358705 original size:19 final size:19
Alignment explanation
Indices: 53358655--53358710 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
53358645 AATCTTCGAG
53358655 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
53358674 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
53358695 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
53358711 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:53358717 original size:22 final size:23
Alignment explanation
Indices: 53358668--53358733 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
53358658 ATGCAATCTT
*
53358668 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
53358689 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
53358711 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
53358734 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:53358743 original size:22 final size:23
Alignment explanation
Indices: 53358699--53358743 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
53358689 AGATATGATA
*
53358699 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
53358722 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
53358744 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:53358930 original size:19 final size:21
Alignment explanation
Indices: 53358906--53358944 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
53358896 GGCTTACTGT
*
53358906 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
53358925 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
53358945 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:53359220 original size:12 final size:11
Alignment explanation
Indices: 53359151--53359222 Score: 56
Period size: 12 Copynumber: 6.3 Consensus size: 11
53359141 GCCTTTACTA
*
53359151 ATTAATTTATT
1 ATTATTTTATT
*
53359162 ATTATTAT-TT
1 ATTATTTTATT
**
53359172 ATTAATCCTATT
1 ATT-ATTTTATT
*
53359184 ATTATTTGTACT
1 ATTATTT-TATT
53359196 ATTATTGTTATT
1 ATTATT-TTATT
53359208 ATTATTTTCATT
1 ATTATTTT-ATT
53359220 ATT
1 ATT
53359223 TCTTCTTATC
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
10 5 0.10
11 13 0.27
12 29 0.60
13 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:53377208 original size:93 final size:92
Alignment explanation
Indices: 53377049--53377217 Score: 225
Period size: 93 Copynumber: 1.8 Consensus size: 92
53377039 AACTATTTTT
* * * * *
53377049 ATAAAATGTCTAATGTGGCATTTTTATTTTGAAAATGTTCAATGTGGTACTTGAATTATAAATAT
1 ATAAAATGTCCAATATGGCATATGTATTTTGAAAATGTCCAATGTGGTACTTGAATTATAAATAT
53377114 GTGTTTTTATTATGGTACCTATACTTTC
66 GTG-TTTTATTATGGTACCTATACTTTC
* * *
53377142 ATAAAATGTCCAATATGGTATATGTATTTT-ACAAATGTCCATTGTGGTACTTGAACTT-TCAAT
1 ATAAAATGTCCAATATGGCATATGTATTTTGA-AAATGTCCAATGTGGTACTTGAA-TTATAAAT
53377205 ATGTGTTTTATTA
64 ATGTGTTTTATTA
53377218 CGGCACATGG
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 9 0.14
93 55 0.83
94 2 0.03
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (92 bp):
ATAAAATGTCCAATATGGCATATGTATTTTGAAAATGTCCAATGTGGTACTTGAATTATAAATAT
GTGTTTTATTATGGTACCTATACTTTC
Found at i:53378874 original size:17 final size:18
Alignment explanation
Indices: 53378844--53378877 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
53378834 TTGATGAGAT
*
53378844 ATAACAAAATATTAAAAA
1 ATAACAAAAAATTAAAAA
53378862 ATAA-AAAAAATTAAAA
1 ATAACAAAAAATTAAAA
53378878 TCATATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (18 bp):
ATAACAAAAAATTAAAAA
Found at i:53380313 original size:19 final size:20
Alignment explanation
Indices: 53380285--53380323 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
53380275 TACTAGTGAT
*
53380285 TACATGTGTAAAT-TTAATA
1 TACATATGTAAATATTAATA
*
53380304 TACATATGTATATATTAATA
1 TACATATGTAAATATTAATA
53380324 AAATAGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (20 bp):
TACATATGTAAATATTAATA
Found at i:53382181 original size:15 final size:15
Alignment explanation
Indices: 53382169--53382197 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
53382159 CTAATATTAT
53382169 AAATATCATTATTTC
1 AAATATCATTATTTC
53382184 AAATATCATTATTT
1 AAATATCATTATTT
53382198 TTAGTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATATCATTATTTC
Found at i:53390398 original size:219 final size:219
Alignment explanation
Indices: 53390019--53390424 Score: 686
Period size: 219 Copynumber: 1.9 Consensus size: 219
53390009 ATCGTCTTCA
* * *
53390019 TCGCTGTTGTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCTCATTGTGGGCT
1 TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
* *
53390084 TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATATCGGCTGTGAGTTTGGACACTC
66 TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATATCCGCCGTGAGTTTGGACACTC
53390149 ATTGACACTGGGTTCCGCCTTTTCTCCATTTTCAGACCCCGTTGCAGCAGCAGCCATCGTCTTCA
131 ATTGACACTGGGTTCCGCCTTTTCTCCATTTTCAGACCCCGTTGCAGCAGCAGCCATCGTCTTCA
53390214 TCGACTTAAACGTTCGATGGCTGG
196 TCGACTTAAACGTTCGATGGCTGG
*
53390238 TCGCTGTTCTATATCGAAACCTAGTCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
1 TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
* * * * *
53390303 TTCCCTTTGTCCAGTTCCATGTCTATCCTTTTGCTTCTGTATGTCCGCCGTGAGTTTGGCCACTC
66 TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATATCCGCCGTGAGTTTGGACACTC
* * *
53390368 ATTGACTCTGGGTTTCGCCTTTTCTCCATTTTCAGACCCTGTTGCAGCAGCAGCCAT
131 ATTGACACTGGGTTCCGCCTTTTCTCCATTTTCAGACCCCGTTGCAGCAGCAGCCAT
53390425 TGGTTGAACC
Statistics
Matches: 173, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
219 173 1.00
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.35
Consensus pattern (219 bp):
TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATATCCGCCGTGAGTTTGGACACTC
ATTGACACTGGGTTCCGCCTTTTCTCCATTTTCAGACCCCGTTGCAGCAGCAGCCATCGTCTTCA
TCGACTTAAACGTTCGATGGCTGG
Found at i:53391159 original size:11 final size:12
Alignment explanation
Indices: 53391145--53391173 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
53391135 TTAAATAATA
53391145 ATTTAATA-TTT
1 ATTTAATATTTT
53391156 ATTTAATATTTT
1 ATTTAATATTTT
53391168 ATTTAA
1 ATTTAA
53391174 AATAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTTAATATTTT
Found at i:53391919 original size:55 final size:55
Alignment explanation
Indices: 53391746--53391975 Score: 221
Period size: 55 Copynumber: 4.2 Consensus size: 55
53391736 TTTGGATTGA
* * * * * * * * * *
53391746 ATCGATTATTATGTTGAAATATTACTTATTCTAAATTAATTATTTTTATGTTTAG
1 ATCGATTGTTATGGTGGAATACTGCTTATTTTGAATTGATTGTTTATATGTTTAG
* * *
53391801 ATCGATTGTTA-GGTCGGAATGCTGCTTATTTTG-ATAGATTGTTTATATGTTTAA
1 ATCGATTGTTATGGT-GGAATACTGCTTATTTTGAATTGATTGTTTATATGTTTAG
* *
53391855 ATCGATTGTTATGGTGGAATACTGCTTCTTTTGAATTGATTGTGTATATGTTTAG
1 ATCGATTGTTATGGTGGAATACTGCTTATTTTGAATTGATTGTTTATATGTTTAG
* ** * * ** *
53391910 ATGGATTGTTATATTGGAATACTGGTTGTTTTGAATTGATAATTTATATGTTTAA
1 ATCGATTGTTATGGTGGAATACTGCTTATTTTGAATTGATTGTTTATATGTTTAG
*
53391965 ATCCATTGTTA
1 ATCGATTGTTA
53391976 CGTAGCACGC
Statistics
Matches: 143, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
54 45 0.31
55 98 0.69
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.49
Consensus pattern (55 bp):
ATCGATTGTTATGGTGGAATACTGCTTATTTTGAATTGATTGTTTATATGTTTAG
Found at i:53393608 original size:9 final size:9
Alignment explanation
Indices: 53393596--53393647 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
53393586 TTTTGTTAAA
53393596 AATTAACCG
1 AATTAACCG
53393605 AATTAACCG
1 AATTAACCG
*
53393614 AATTACCCG
1 AATTAACCG
53393623 AATTAACCG
1 AATTAACCG
*
53393632 AATTACCCG
1 AATTAACCG
53393641 AATTAAC
1 AATTAAC
53393648 TAATTTGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:53393623 original size:18 final size:18
Alignment explanation
Indices: 53393596--53393647 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
53393586 TTTTGTTAAA
*
53393596 AATTAACCGAATTAACCG
1 AATTACCCGAATTAACCG
53393614 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
53393632 AATTACCCGAATTAAC
1 AATTACCCGAATTAAC
53393648 TAATTTGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:53395818 original size:18 final size:19
Alignment explanation
Indices: 53395785--53395821 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
53395775 AATAATTTTT
*
53395785 AAAATTTTAAATATTTATA
1 AAAATTCTAAATATTTATA
53395804 AAAATTCTAAA-ATTTATA
1 AAAATTCTAAATATTTATA
53395822 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATTCTAAATATTTATA
Done.