Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 94 of 311
Found at i:31179424 original size:44 final size:43
Alignment explanation
Indices: 31179350--31179511 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 43
31179340 CAATATGTGT
* * *
31179350 TTTCGTGTAAGACCACGTCTAGGACGTTGGCATCAAC-TTATAA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATCAACATT-TAA
* * *
31179393 TTTACGTGTAAGACCATGTATGGGACATTGGCATC-GCATTTGA
1 TTT-CGTGTAAGACCATGTCTGGGACATTGGCATCAACATTTAA
* * * * *
31179436 TTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCAATATTTGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATCAACATTTAA
* * * * *
31179479 TTACATGCAAGACTATGTCTGGGACGTTGGCAT
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCAT
31179512 TGTACAAGCT
Statistics
Matches: 96, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.28
43 40 0.42
44 29 0.30
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TTTCGTGTAAGACCATGTCTGGGACATTGGCATCAACATTTAA
Found at i:31183666 original size:18 final size:18
Alignment explanation
Indices: 31183643--31183677 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31183633 TTTTCAGAAT
31183643 ACCCTAAACCCTAAAAAA
1 ACCCTAAACCCTAAAAAA
*
31183661 ACCCTAAGCCCTAAAAA
1 ACCCTAAACCCTAAAAA
31183678 CCTTAACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.34, G:0.03, T:0.11
Consensus pattern (18 bp):
ACCCTAAACCCTAAAAAA
Found at i:31190842 original size:43 final size:43
Alignment explanation
Indices: 31190794--31190950 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
31190784 TGCTCGTACA
* *
31190794 ATGCCAATGTCCTAGACGTGGTCTTACATGTATTCAAATATCG
1 ATGCCAATGTCCTAGACGTGGTCTTACACGTAATCAAATATCG
* * * *
31190837 ATGCCATTGTCCCAGACAG-GGTCTTACACGAAATCAAATA-CA
1 ATGCCAATGTCCTAGAC-GTGGTCTTACACGTAATCAAATATCG
** *
31190879 ATGCTGATGTCCTAGACATGGTCTTACACGTAAATCTAAA-ATCG
1 ATGCCAATGTCCTAGACGTGGTCTTACACGT-AATC-AAATATCG
* *
31190923 ATGCTAACGTCCTAGACGTGGTCTTACA
1 ATGCCAATGTCCTAGACGTGGTCTTACA
31190951 TGAAATCACA
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
42 25 0.27
43 38 0.41
44 30 0.32
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:31193779 original size:27 final size:27
Alignment explanation
Indices: 31193749--31193838 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
31193739 CAACCAATGG
31193749 AGTCTGTCGAGACACTAAACATGGGGT
1 AGTCTGTCGAGACACTAAACATGGGGT
** * *
31193776 AGTCCATCGGGACACTAAACATAGGGT
1 AGTCTGTCGAGACACTAAACATGGGGT
* * *
31193803 AGTCTG-CCAGGACACTAAACATGAGAT
1 AGTCTGTCGA-GACACTAAACATGGGGT
31193830 AGTCTGTCG
1 AGTCTGTCG
31193839 TAATAGTAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
26 1 0.02
27 47 0.96
28 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (27 bp):
AGTCTGTCGAGACACTAAACATGGGGT
Found at i:31193945 original size:69 final size:69
Alignment explanation
Indices: 31193843--31193998 Score: 181
Period size: 69 Copynumber: 2.3 Consensus size: 69
31193833 CTGTCGTAAT
* * *
31193843 AGTAAACACGAGGATTACGAGGTGAAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTATTA
1 AGTAAACACGAGGATTACGAGGTGAAAGACCATAGCTCAACAATAGCAACCAATAGAGTCTATTA
31193908 GGACA
66 GGA-A
* ** * * * * *
31193913 A-TAAACATGAGGATTGTGAGGTGTAAGTCCATAGCTCAACAATAGCAACCAATGGAGTTTGTTA
1 AGTAAACACGAGGATTACGAGGTGAAAGACCATAGCTCAACAATAGCAACCAATAGAGTCTATTA
31193977 GGAA
66 GGAA
31193981 AGTAAACAC-AGGGATTAC
1 AGTAAACACGA-GGATTAC
31193999 TATATAGCCC
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
68 3 0.04
69 66 0.94
70 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (69 bp):
AGTAAACACGAGGATTACGAGGTGAAAGACCATAGCTCAACAATAGCAACCAATAGAGTCTATTA
GGAA
Found at i:31197661 original size:201 final size:201
Alignment explanation
Indices: 31197316--31197717 Score: 689
Period size: 201 Copynumber: 2.0 Consensus size: 201
31197306 CTGCTAGGGG
*
31197316 TATAATAGTAATTCGAATAGGCTTGGGTTGTGATGAAACTGAATGAATTTTATTTTACGAGCCTA
1 TATAATAGGAATTCGAATAGGCTTGGGTTGTGATGAAACTGAATGAATTTTATTTTACGAGCCTA
*
31197381 GGGACTAAATTATAAAAGTGGTGAAACATTAGGGGCAAATGTGTAAAAAAGCTTAAAAGTGTGTT
66 GGGACTAAATTATAAAAGTGGTGAAACATTAGGGGCAAATCTGTAAAAAAGCTTAAAAGTGTGTT
*
31197446 TTGGACTAAATTGAATAGAGAGATAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAAA
131 TTGGACTAAATTGAATAGAGAGACAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAAA
*
31197511 GTGAAA
196 GCGAAA
** * *
31197517 TATAATAGGAATTCGGCTAGGTTTGGGTTGTGATGAAATTGAATGAATTTTATTTTACGAGCCTA
1 TATAATAGGAATTCGAATAGGCTTGGGTTGTGATGAAACTGAATGAATTTTATTTTACGAGCCTA
** *
31197582 GGGACTAAATTGA-AAAAGTGGTGAAATGTTAGGGGCAAATCTGTAAAAGAGCTTAAAAGTGTGT
66 GGGACTAAATT-ATAAAAGTGGTGAAACATTAGGGGCAAATCTGTAAAAAAGCTTAAAAGTGTGT
31197646 TTTGGACTAAATTGAATAGAGAGACAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAA
130 TTTGGACTAAATTGAATAGAGAGACAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAA
31197711 AGCGAAA
195 AGCGAAA
31197718 CCCAGACTTA
Statistics
Matches: 189, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
201 188 0.99
202 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (201 bp):
TATAATAGGAATTCGAATAGGCTTGGGTTGTGATGAAACTGAATGAATTTTATTTTACGAGCCTA
GGGACTAAATTATAAAAGTGGTGAAACATTAGGGGCAAATCTGTAAAAAAGCTTAAAAGTGTGTT
TTGGACTAAATTGAATAGAGAGACAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAAA
GCGAAA
Found at i:31197978 original size:41 final size:41
Alignment explanation
Indices: 31197902--31197981 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
31197892 AATTATGGGC
*
31197902 ACTTAGTGTGCAAAATTGAGATAGCTTCGATTATATATTGG
1 ACTTAGTGTGCAAAATTGAGATAGCTTCGACTATATATTGG
* * * *
31197943 ACTTAGTGTGCGAGATTGAGATAGCTTTGGCTATATATT
1 ACTTAGTGTGCAAAATTGAGATAGCTTCGACTATATATT
31197982 CACATTAGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (41 bp):
ACTTAGTGTGCAAAATTGAGATAGCTTCGACTATATATTGG
Found at i:31201480 original size:10 final size:10
Alignment explanation
Indices: 31201465--31201491 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
31201455 ACACACAAAG
31201465 TAAGCTTTCA
1 TAAGCTTTCA
31201475 TAAGCTTTCA
1 TAAGCTTTCA
31201485 TAAGCTT
1 TAAGCTT
31201492 AGTAAGCTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (10 bp):
TAAGCTTTCA
Found at i:31203708 original size:39 final size:40
Alignment explanation
Indices: 31203607--31203863 Score: 303
Period size: 40 Copynumber: 6.5 Consensus size: 40
31203597 TTGAGTGATG
* * *
31203607 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
* *
31203647 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
*
31203686 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
31203726 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
31203765 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
31203805 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
* *
31203845 TCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
31203864 TACGTGATTT
Statistics
Matches: 191, Mismatches: 18, Indels: 17
0.85 0.08 0.08
Matches are distributed among these distances:
38 8 0.04
39 68 0.36
40 107 0.56
41 8 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:31203859 original size:79 final size:79
Alignment explanation
Indices: 31203608--31203863 Score: 245
Period size: 79 Copynumber: 3.2 Consensus size: 79
31203598 TGAGTGATGT
* * * * * *
31203608 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAATCCCGAAGGCATTTGTGC-GAGTTACTA-AACCGGGCTAAG-TCCCGAAGGCATT
** * *
31203671 TGTGCGAGATACTA-ATT
63 TGAACGAGTTACTATA-A
* * * *
31203688 CCGGGCT-AAGCCCGAAGGCATTTGTGCGAGTTACTAAATCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTAAACCGGGCTAAGTCCCGAAGGCATTTGA
*
31203752 GCGAGTTACTATAA
66 ACGAGTTACTATAA
* *
31203766 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTA-AACCGGGCTAAGTCCCGAAGGCATTTG
*
31203831 AACGAG-TAGCTATAT
65 AACGAGTTA-CTATAA
*
31203846 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAATCCCGAAGG
31203864 TACGTGATTT
Statistics
Matches: 149, Mismatches: 21, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 39 0.26
79 60 0.40
80 49 0.33
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTAAACCGGGCTAAGTCCCGAAGGCATTTGA
ACGAGTTACTATAA
Found at i:31211984 original size:40 final size:40
Alignment explanation
Indices: 31211747--31211970 Score: 305
Period size: 40 Copynumber: 5.6 Consensus size: 40
31211737 TGAATGATGT
* * * *
31211747 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
31211787 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
31211827 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31211865 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
31211906 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31211946 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
31211971 AACGAGTAGC
Statistics
Matches: 168, Mismatches: 9, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
39 36 0.21
40 122 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:31211992 original size:119 final size:119
Alignment explanation
Indices: 31211746--31212003 Score: 319
Period size: 119 Copynumber: 2.2 Consensus size: 119
31211736 TTGAATGATG
* *
31211746 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* **
31211811 GTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
* * * *
31211865 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* *
31211928 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAA
* *
31211985 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
31212004 TACGTGATTT
Statistics
Matches: 121, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
118 3 0.02
119 86 0.71
120 32 0.26
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:31222924 original size:43 final size:42
Alignment explanation
Indices: 31222866--31223014 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 42
31222856 CAATGCCAAC
*
31222866 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCATT
1 GTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCA-T
* * *
31222909 GTCCCAGACAG-GGTCTTACACGAAATCAAATA-CAATACCGAT
1 GTCCCAGAC-GTGGTCTTACACGTAATCAAATATCGATGCC-AT
* * *
31222951 GTCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGT-AATCA-AATATCGATGCC-AT
31222995 GTCCCAGACGTGGTCTTACA
1 GTCCCAGACGTGGTCTTACA
31223015 TGAAAACACA
Statistics
Matches: 88, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
42 26 0.30
43 34 0.39
44 28 0.32
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
GTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCAT
Found at i:31235603 original size:6 final size:6
Alignment explanation
Indices: 31235558--31235629 Score: 58
Period size: 6 Copynumber: 11.7 Consensus size: 6
31235548 ACAATTTGTT
* * * *
31235558 GAAAAA GCAAAA GAATAA GAATAA GAAAAA -AAGAAT GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAA-AAA GAAAAA GAAAAA
31235606 G-AAAA GAAAATCAA GAAAAA GAAA
1 GAAAAA G-AAA--AA GAAAAA GAAA
31235630 GAAAAAAGTG
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
5 7 0.13
6 37 0.69
7 4 0.07
8 3 0.06
9 3 0.06
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.06
Consensus pattern (6 bp):
GAAAAA
Found at i:31235606 original size:36 final size:36
Alignment explanation
Indices: 31235557--31235635 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
31235547 AACAATTTGT
* *
31235557 TGAAAAAGCAAAAGAATAAGAATAA-GAA-AAAAAGAA
1 TGAAAAAGAAAAAGAA-AAGAA-AATCAAGAAAAAGAA
31235593 TGAAAAAGAAAAAGAAAAGAAAATCAAGAAAAAGAA
1 TGAAAAAGAAAAAGAAAAGAAAATCAAGAAAAAGAA
*
31235629 AGAAAAA
1 TGAAAAA
31235636 AGTGAGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 2 0.05
35 7 0.18
36 29 0.76
ACGTcount: A:0.75, C:0.03, G:0.16, T:0.06
Consensus pattern (36 bp):
TGAAAAAGAAAAAGAAAAGAAAATCAAGAAAAAGAA
Found at i:31235622 original size:30 final size:29
Alignment explanation
Indices: 31235566--31235635 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
31235556 TTGAAAAAGC
* *
31235566 AAAAGAATAAGAATAAGAAAAAAAGAATGA
1 AAAAGAAAAAGAATAAGAAAAAAAGAA-AA
*
31235596 AAAAGAAAAAGAA-AAGAAAATCAAGAAAA
1 AAAAGAAAAAGAATAAGAAAA-AAAGAAAA
31235625 AGAAAGAAAAA
1 A-AAAGAAAAA
31235636 AGTGAGAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.06
Consensus pattern (29 bp):
AAAAGAAAAAGAATAAGAAAAAAAGAAAA
Found at i:31238739 original size:19 final size:19
Alignment explanation
Indices: 31238700--31238736 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
31238690 TAGTACAACC
31238700 ATTTAATTTGTCTTGAGTT
1 ATTTAATTTGTCTTGAGTT
31238719 ATTTAATTTGTCTT-AGTT
1 ATTTAATTTGTCTTGAGTT
31238737 TATACAGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (19 bp):
ATTTAATTTGTCTTGAGTT
Found at i:31253414 original size:22 final size:22
Alignment explanation
Indices: 31253389--31253432 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
31253379 AGTTCAGGAG
31253389 ATCAAGTTATAACCATTTTAGT
1 ATCAAGTTATAACCATTTTAGT
31253411 ATCAAGTTATAACCATTTTAGT
1 ATCAAGTTATAACCATTTTAGT
31253433 TAAGAATGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (22 bp):
ATCAAGTTATAACCATTTTAGT
Found at i:31256377 original size:52 final size:53
Alignment explanation
Indices: 31256321--31256435 Score: 171
Period size: 52 Copynumber: 2.2 Consensus size: 53
31256311 GGGAAATTTC
* *
31256321 TCACTTAGCACCA-TGCCATGGACTTATTTCACTTAAATGCCGTAGTCTTATT
1 TCACTTAGCACCATTGCCATGGACTTATTTCACTTAAATGCCATAGTATTATT
* *
31256373 TCACTTAGCA-CATTGCCATGGACTTATTTCACTTAGATGCCATGGTATTATT
1 TCACTTAGCACCATTGCCATGGACTTATTTCACTTAAATGCCATAGTATTATT
*
31256425 TCCCTTAGCAC
1 TCACTTAGCAC
31256436 AATGTCATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
51 2 0.04
52 54 0.96
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (53 bp):
TCACTTAGCACCATTGCCATGGACTTATTTCACTTAAATGCCATAGTATTATT
Found at i:31256399 original size:28 final size:27
Alignment explanation
Indices: 31256321--31256436 Score: 120
Period size: 24 Copynumber: 4.4 Consensus size: 27
31256311 GGGAAATTTC
31256321 TCACTTAGCACCATGCCATGGACTTATT
1 TCACTTAGCA-CATGCCATGGACTTATT
* * *
31256349 TCACTTA--A-ATGCCGTAGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
31256373 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
31256401 TCACTTAG---ATGCCATGGTA-TTATT
1 TCACTTAGCACATGCCATGG-ACTTATT
*
31256425 TCCCTTAGCACA
1 TCACTTAGCACA
31256437 ATGTCATATC
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
24 40 0.55
25 2 0.03
26 2 0.03
27 2 0.03
28 27 0.37
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:31262153 original size:18 final size:19
Alignment explanation
Indices: 31262121--31262166 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
31262111 TGGCTCATCT
31262121 TCTTT-TCTTTCTTCAATC
1 TCTTTCTCTTTCTTCAATC
31262139 TCTTTCTCTTT-TTCAATC
1 TCTTTCTCTTTCTTCAATC
31262157 T-TCTTCTCTT
1 TCT-TTCTCTT
31262167 GATCAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.04
18 20 0.77
19 5 0.19
ACGTcount: A:0.09, C:0.28, G:0.00, T:0.63
Consensus pattern (19 bp):
TCTTTCTCTTTCTTCAATC
Found at i:31262215 original size:20 final size:21
Alignment explanation
Indices: 31262177--31262226 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
31262167 GATCAATTTA
*
31262177 TTTTTCTTTTTCGATTTCT-T
1 TTTTTCTTTTTCCATTTCTCT
31262197 TTTTTCTTTTTCTCA-TTCTCT
1 TTTTTCTTTTTC-CATTTCTCT
*
31262218 TTTTGCTTT
1 TTTTTCTTT
31262227 CTTTCACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTTTCTTTTTCCATTTCTCT
Found at i:31262264 original size:21 final size:20
Alignment explanation
Indices: 31262192--31262264 Score: 55
Period size: 21 Copynumber: 3.8 Consensus size: 20
31262182 CTTTTTCGAT
31262192 TTCTTTTTTTCTTT-TTCTCA
1 TTCTTTTTTTCTTTCTT-TCA
*
31262212 TTCTCTTTTTGCTTTCTTTCA
1 TTCT-TTTTTTCTTTCTTTCA
** * *
31262233 CACTCTTTTTCTTTC-AT--
1 TTCTTTTTTTCTTTCTTTCA
31262250 TTCTTTTTTTCTTTC
1 TTCTTTTTTTCTTTC
31262265 AAATTTTTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
17 12 0.29
19 1 0.02
20 13 0.31
21 14 0.33
22 2 0.05
ACGTcount: A:0.05, C:0.23, G:0.01, T:0.70
Consensus pattern (20 bp):
TTCTTTTTTTCTTTCTTTCA
Found at i:31263399 original size:12 final size:11
Alignment explanation
Indices: 31263378--31263409 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
31263368 TTTCTTTTCA
31263378 CAAATTTTTTT
1 CAAATTTTTTT
31263389 CAAATTTTTTT
1 CAAATTTTTTT
*
31263400 CGAATTTTTT
1 CAAATTTTTT
31263410 GCTAAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.09, G:0.03, T:0.62
Consensus pattern (11 bp):
CAAATTTTTTT
Found at i:31269223 original size:48 final size:47
Alignment explanation
Indices: 31269164--31269271 Score: 121
Period size: 47 Copynumber: 2.3 Consensus size: 47
31269154 ATTAAGGACT
* *
31269164 CCATGTAAGACCACATTAAG-ATATGGCA-TTGGCACTAAGACAAGGATA
1 CCATGTAAGACCACATTAAGAACATGGCATTTGG---TAAAACAAGGATA
** **
31269212 CCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAAACAAGGATA
1 CCATGTAAGACCACATTAAGAACATGGCATTTGGTAAAACAAGGATA
31269259 CCATGTAAGACCA
1 CCATGTAAGACCA
31269272 TGCCAAGGCA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
47 25 0.48
48 16 0.31
49 7 0.13
50 4 0.08
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (47 bp):
CCATGTAAGACCACATTAAGAACATGGCATTTGGTAAAACAAGGATA
Found at i:31269381 original size:55 final size:54
Alignment explanation
Indices: 31269251--31269448 Score: 256
Period size: 54 Copynumber: 3.7 Consensus size: 54
31269241 TTTGGTAAAA
* *
31269251 CAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGG
* * *
31269305 CAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG
* * * *
31269360 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-ATAAGG
1 C-AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGG
* **
31269413 CAAGGATACCACGTAAGACCATGTTAAGACATGGCA
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCA
31269449 ATGGTAAGTT
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 4 0.03
53 31 0.25
54 42 0.34
55 42 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGG
Found at i:31293045 original size:14 final size:14
Alignment explanation
Indices: 31293026--31293056 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
31293016 GAATTACATG
31293026 TTAGAATAGTATCA
1 TTAGAATAGTATCA
31293040 TTAGAATAGTATCA
1 TTAGAATAGTATCA
31293054 TTA
1 TTA
31293057 AAAAAATGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (14 bp):
TTAGAATAGTATCA
Found at i:31299027 original size:14 final size:15
Alignment explanation
Indices: 31299008--31299041 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
31298998 AAATCTAATT
31299008 TTTTTATAAT-TTTA
1 TTTTTATAATATTTA
31299022 TTTTTATAATATTTA
1 TTTTTATAATATTTA
31299037 TTTTT
1 TTTTT
31299042 TATTCTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTATAATATTTA
Found at i:31299043 original size:16 final size:15
Alignment explanation
Indices: 31299007--31299044 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
31298997 AAAATCTAAT
31299007 TTTTTTATAATTTTA
1 TTTTTTATAATTTTA
31299022 -TTTTTATAATATTTA
1 TTTTTTATAAT-TTTA
31299037 TTTTTTAT
1 TTTTTTAT
31299045 TCTTCATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
15 4 0.19
16 7 0.33
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTATAATTTTA
Found at i:31299432 original size:9 final size:9
Alignment explanation
Indices: 31299418--31299449 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
31299408 AACTTGGTGC
31299418 ATTTTGTTT
1 ATTTTGTTT
31299427 ATTTTGTTT
1 ATTTTGTTT
31299436 ATTTTGTTT
1 ATTTTGTTT
31299445 ATTTT
1 ATTTT
31299450 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:31299530 original size:23 final size:23
Alignment explanation
Indices: 31299500--31299551 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
31299490 TGCAACTTGG
31299500 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
31299523 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
31299546 TTTCAT
1 TTTCAT
31299552 CTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:31303983 original size:23 final size:23
Alignment explanation
Indices: 31303953--31304004 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
31303943 TGCAACTTGG
31303953 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
31303976 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
31303999 TTTCAT
1 TTTCAT
31304005 CTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:31308704 original size:18 final size:18
Alignment explanation
Indices: 31308682--31308727 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
31308672 AGGTGCAGAT
31308682 AAGGAAGAAGATACGATC
1 AAGGAAGAAGATACGATC
* * *
31308700 GAGGAAAAAGATGCGATC
1 AAGGAAGAAGATACGATC
*
31308718 AATGAAGAAG
1 AAGGAAGAAG
31308728 GGTGGCTGTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.30, T:0.11
Consensus pattern (18 bp):
AAGGAAGAAGATACGATC
Found at i:31311490 original size:16 final size:16
Alignment explanation
Indices: 31311469--31311499 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31311459 GATATTTGAA
31311469 TATATTATATTAATAT
1 TATATTATATTAATAT
*
31311485 TATATTATGTTAATA
1 TATATTATATTAATA
31311500 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:31311596 original size:12 final size:12
Alignment explanation
Indices: 31311579--31311609 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
31311569 GAAGCAGGGG
31311579 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
31311591 AGAAAAAGGGAA
1 AGAAAAAGAGAA
31311603 AGAAAAA
1 AGAAAAA
31311610 TAAAAGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:31326285 original size:73 final size:73
Alignment explanation
Indices: 31326166--31326317 Score: 286
Period size: 73 Copynumber: 2.1 Consensus size: 73
31326156 TTTTAGGGCA
31326166 TTGAGTAAGATTAAATTTGTCTCCTTTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
1 TTGAGTAAGATTAAATTTGTCTCCTTTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
31326231 CAAGCCTT
66 CAAGCCTT
*
31326239 TTGAGTAAGATTAAATTTGTCTCCTTTAGCAACAGGGGTGTTACTTGGTCTACAACTTAGCATGC
1 TTGAGTAAGATTAAATTTGTCTCCTTTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
*
31326304 CAAGCGTT
66 CAAGCCTT
31326312 TTGAGT
1 TTGAGT
31326318 GTTTTATTCA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (73 bp):
TTGAGTAAGATTAAATTTGTCTCCTTTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
CAAGCCTT
Found at i:31327441 original size:24 final size:24
Alignment explanation
Indices: 31327414--31327559 Score: 213
Period size: 24 Copynumber: 6.0 Consensus size: 24
31327404 AAGGCTGTCA
31327414 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
31327438 GGAGAGGATTTAGAAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
31327462 GGAGAGGATTTAGAAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
31327486 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
31327510 GGAGAAGATTTAGGAGCTGATCAA-
1 GGAGAAGATTTAGGAGCTGAT-AAG
31327534 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
31327559 G
1 G
31327560 AGCAGGAGTT
Statistics
Matches: 115, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
24 112 0.97
25 3 0.03
ACGTcount: A:0.37, C:0.05, G:0.37, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:31327512 original size:12 final size:12
Alignment explanation
Indices: 31327497--31327562 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 12
31327487 GAGAGGATTT
*
31327497 AGGAGCTGATAA
1 AGGAGCTGATCA
** **
31327509 AGGAGAAGATTT
1 AGGAGCTGATCA
31327521 AGGAGCTGATCA
1 AGGAGCTGATCA
** **
31327533 AGGAGAAGATTT
1 AGGAGCTGATCA
31327545 AGGAGCTGATCA
1 AGGAGCTGATCA
31327557 AGGAGC
1 AGGAGC
31327563 AGGAGTTGGC
Statistics
Matches: 38, Mismatches: 16, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.38, C:0.09, G:0.35, T:0.18
Consensus pattern (12 bp):
AGGAGCTGATCA
Found at i:31328424 original size:16 final size:18
Alignment explanation
Indices: 31328395--31328434 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
31328385 AGTTCGTTTC
31328395 GGTAGTAGATTAA-TGT-
1 GGTAGTAGATTAATTGTA
31328411 GGTAGTA-ATATAATTGTA
1 GGTAGTAGAT-TAATTGTA
31328429 GGTAGT
1 GGTAGT
31328435 TCATGTGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.10
16 10 0.48
17 3 0.14
18 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.38
Consensus pattern (18 bp):
GGTAGTAGATTAATTGTA
Found at i:31329208 original size:33 final size:34
Alignment explanation
Indices: 31329131--31329211 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
31329121 TATGGGTCGT
*
31329131 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
31329165 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
31329198 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
31329212 GGGCTTAGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:31329216 original size:32 final size:31
Alignment explanation
Indices: 31329131--31329223 Score: 78
Period size: 32 Copynumber: 2.8 Consensus size: 31
31329121 TATGGGTCGT
*
31329131 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAT---GGGCTAAGGCCCAGTTC
* * * **
31329165 AATGTAATCTGAAAAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTG-AATGGGCTAAGGCCCAGT-TC
*
31329198 ACTGTTATCTGAATGGGCTTAGGCCC
1 ACTGTTATCTGAATGGGCTAAGGCCC
31329224 GATGGGCTTG
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
32 25 0.54
33 10 0.22
34 9 0.20
35 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
ACTGTTATCTGAATGGGCTAAGGCCCAGTTC
Found at i:31335360 original size:24 final size:24
Alignment explanation
Indices: 31335333--31335454 Score: 192
Period size: 24 Copynumber: 5.0 Consensus size: 24
31335323 AAGGCTGTCA
31335333 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
31335357 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
31335381 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
31335405 GGA-AAGGATTTAGGAGCTGATAAA
1 GGAGAA-GATTTAGGAGCTGATAAG
31335429 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
31335454 G
1 G
31335455 AGCAGGAGTT
Statistics
Matches: 91, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
23 1 0.01
24 85 0.93
25 5 0.05
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:31337149 original size:33 final size:34
Alignment explanation
Indices: 31337072--31337152 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
31337062 TATGGGCCGT
*
31337072 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
31337106 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
31337139 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
31337153 GGGCTTAGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:31337157 original size:32 final size:31
Alignment explanation
Indices: 31337072--31337164 Score: 78
Period size: 32 Copynumber: 2.8 Consensus size: 31
31337062 TATGGGCCGT
*
31337072 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAT---GGGCTAAGGCCCAGTTC
* * * **
31337106 AATGTAATCTGAAAAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTG-AATGGGCTAAGGCCCAGT-TC
*
31337139 ACTGTTATCTGAATGGGCTTAGGCCC
1 ACTGTTATCTGAATGGGCTAAGGCCC
31337165 GATGGGCTTG
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
32 25 0.54
33 10 0.22
34 9 0.20
35 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
ACTGTTATCTGAATGGGCTAAGGCCCAGTTC
Found at i:31343602 original size:26 final size:26
Alignment explanation
Indices: 31343573--31343628 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
31343563 AATTCAAATC
31343573 TTTTTGCGTCATTAAATATTTCAGAA
1 TTTTTGCGTCATTAAATATTTCAGAA
31343599 TTTTTGCGTCATTAAATATTTCAGAA
1 TTTTTGCGTCATTAAATATTTCAGAA
31343625 TTTT
1 TTTT
31343629 ATGATCAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (26 bp):
TTTTTGCGTCATTAAATATTTCAGAA
Found at i:31343603 original size:27 final size:27
Alignment explanation
Indices: 31343565--31343628 Score: 105
Period size: 26 Copynumber: 2.4 Consensus size: 27
31343555 CTGTCACAAA
31343565 TTCA-AATCTTTTTGCGTCATTAAATAT
1 TTCAGAAT-TTTTTGCGTCATTAAATAT
31343592 TTCAGAA-TTTTTGCGTCATTAAATAT
1 TTCAGAATTTTTTGCGTCATTAAATAT
31343618 TTCAGAATTTT
1 TTCAGAATTTT
31343629 ATGATCAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 26 0.74
27 7 0.20
28 2 0.06
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (27 bp):
TTCAGAATTTTTTGCGTCATTAAATAT
Found at i:31347924 original size:43 final size:43
Alignment explanation
Indices: 31347870--31348014 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
31347860 CCGACATCCT
* * *
31347870 AGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCC
1 AGACATGGTCTTACACGTAATTCAATATCGATGCCTATGTCCC
* * * *
31347913 AGACAGGGTCTTACACG-AAATCAGATA-CGATGTCGATGTCCC
1 AGACATGGTCTTACACGTAATTCA-ATATCGATGCCTATGTCCC
* * *
31347955 AGACATGGTCTTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCC
1 AGACATGGTCTTACACGT-AAT-TCAATATCGATGCCTATGTCCC
*
31347998 AGACATGGTCTCACACG
1 AGACATGGTCTTACACG
31348015 ATGTCTCAGA
Statistics
Matches: 81, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
42 33 0.41
43 44 0.54
44 2 0.02
45 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (43 bp):
AGACATGGTCTTACACGTAATTCAATATCGATGCCTATGTCCC
Found at i:31350537 original size:79 final size:77
Alignment explanation
Indices: 31350435--31350658 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 77
31350425 GCTACTCGTT
* * *
31350435 CAAACGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAA-TGCCTTCGGGACTTAGCCCGG
*
31350500 ATTTAGTAACTCGCA
63 AATTAGTAACTCGCA
* *
31350515 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCCGGA
*
31350579 ATTAGTATCTCGCA
64 ATTAGTAACTCGCA
* * * * * *
31350593 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCGG
31350658 A
63 A
31350659 CATCATTCAA
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 36 0.29
79 55 0.45
80 32 0.26
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGAAT
TAGTAACTCGCA
Found at i:31350552 original size:39 final size:40
Alignment explanation
Indices: 31350435--31350658 Score: 262
Period size: 39 Copynumber: 5.7 Consensus size: 40
31350425 GCTACTCGTT
* * *
31350435 CAAACGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
31350475 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
31350515 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
31350554 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
31350593 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
31350634 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31350659 CATCATTCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 74 0.45
40 74 0.45
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:31350658 original size:40 final size:40
Alignment explanation
Indices: 31350416--31350658 Score: 229
Period size: 40 Copynumber: 6.1 Consensus size: 40
31350406 CGGAATTTAA
** * *
31350416 CCGGATATAGCTAC-TCGTTCAAACGCCTTCGGGACATAGC
1 CCGGATATAG-TACTTCGCACAAATGCCTTCGGGACTTAGC
* * *
31350456 CCGGTTATAGTAAC-TCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
*
31350496 CCGGATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
31350535 CCGGA-ATTAGTA-TCTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATA-TAGTACT-TCGCACAAATGCCTTCGGGACTTAGC
*
31350574 CCGGA-ATTAGTA-TCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTACT-TCGCACAAATGCCTTCGGGA-CTTAGC
* *
31350614 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
31350654 CCGGA
1 CCGGA
31350659 CATCATTCAA
Statistics
Matches: 177, Mismatches: 16, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
38 3 0.02
39 70 0.40
40 90 0.51
41 13 0.07
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTACTTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31358724 original size:39 final size:40
Alignment explanation
Indices: 31358660--31358900 Score: 273
Period size: 39 Copynumber: 6.1 Consensus size: 40
31358650 CGGAATTTAA
** *
31358660 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31358700 CCGGTTATAGTAACTCGCAC-AATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31358739 CCGGATTTAGAAACTCGCACAAATGCCTTCGGGACTTA-C
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
31358778 CCGGAT-TAGTATCTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31358816 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
31358856 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
31358896 CCGGA
1 CCGGA
31358901 CATCATTCAA
Statistics
Matches: 175, Mismatches: 16, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
37 4 0.02
38 32 0.18
39 65 0.37
40 62 0.35
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31358833 original size:77 final size:79
Alignment explanation
Indices: 31358679--31358900 Score: 276
Period size: 77 Copynumber: 2.8 Consensus size: 79
31358669 GCTACTCGTT
* * *
31358679 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
31358743 ATTTAGAAACTCGCA
65 AATTAGAAACTCGCA
31358758 CAAATGCCTTCGGGACTTA-CCCGGAT-TAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
31358820 AATTAGTATCTCGCA
65 AATTAGAAACTCGCA
* * *
31358835 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCC
31358898 GGA
63 GGA
31358901 CATCATTCAA
Statistics
Matches: 126, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
76 4 0.03
77 47 0.37
78 24 0.19
79 31 0.25
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGAAACTCGCA
Found at i:31360770 original size:40 final size:38
Alignment explanation
Indices: 31360720--31360904 Score: 158
Period size: 40 Copynumber: 4.7 Consensus size: 38
31360710 TTGAATGCTG
* *
31360720 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGC-GAGT-AATAAA
* *
31360760 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGG-CTTTGTGCGAG-TAATAAA
* * *
31360800 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGT-AATAAA
* * * *
31360840 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAA
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAG-TAAT-AAA
*
31360880 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
31360905 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 18
0.79 0.10 0.12
Matches are distributed among these distances:
39 29 0.24
40 82 0.68
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTAATAAA
Found at i:31360857 original size:80 final size:81
Alignment explanation
Indices: 31360720--31360902 Score: 205
Period size: 80 Copynumber: 2.3 Consensus size: 81
31360710 TTGAATGCTG
* * * *
31360720 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTCAATAAATCCGGACTAAGATCCGAAGG-CAT
31360784 TGTGCGAGATACT-AAA
65 TGTGCGAGATACTAAAA
* * * **
31360800 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTCATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTCAATAAATCCGGACTAAGAT-CCGAAGGCAT
* *
31360863 TGTGTGAGTTACTAAAA
65 TGTGCGAGATACTAAAA
*
31360880 T-CGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
31360903 TGAACGAGGA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
79 34 0.39
80 47 0.54
81 6 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTCAATAAATCCGGACTAAGATCCGAAGGCATT
GTGCGAGATACTAAAA
Found at i:31377354 original size:40 final size:40
Alignment explanation
Indices: 31377299--31377476 Score: 263
Period size: 40 Copynumber: 4.5 Consensus size: 40
31377289 CGGATGATAA
* *
31377299 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
31377339 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
31377379 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
31377419 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
31377459 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
31377477 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 17 0.13
40 110 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:31379510 original size:43 final size:43
Alignment explanation
Indices: 31379460--31379743 Score: 442
Period size: 43 Copynumber: 6.6 Consensus size: 43
31379450 CCGGCATTAC
*
31379460 GCCTGCTAGGCACGAAGGCCCGAATACACATTACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
31379503 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * *
31379546 GCCTGCTAAGCACGAAGGCCCAAATACACATCACTGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
31379589 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
31379632 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * *
31379675 GCCTGCTAGGCATGAAGGCCCGAGTACACATCATCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
31379718 GCCTGCTAGGCACGAAGGCCCAAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
31379744 TAATACCAGC
Statistics
Matches: 223, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 223 1.00
ACGTcount: A:0.31, C:0.31, G:0.25, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:31379784 original size:38 final size:38
Alignment explanation
Indices: 31379741--31379859 Score: 148
Period size: 38 Copynumber: 3.1 Consensus size: 38
31379731 GAAGGCCCAA
* * *
31379741 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
31379779 ATATAATTCCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
** * *
31379817 ATATTTTGCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
31379857 ATA
1 ATA
31379860 CACATCAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 58 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:31381836 original size:42 final size:41
Alignment explanation
Indices: 31381749--31381897 Score: 135
Period size: 41 Copynumber: 3.6 Consensus size: 41
31381739 AGCTTGGTCT
* *
31381749 CGAAGGGCTTTTGAGCCAGTGCTAATAATCGAACTTAGTTT
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTC
* *
31381790 CGAAGGGCTTTTAAGAGCCAGTG-TCATAACCGGACTTAGTTC
1 CGAAGGGCTTTT--GAGCCAGTGCTAATAACCGAACTTAGTTC
* * * *
31381832 CGAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTT-GGTC
1 CGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTTC
**
31381872 TCGAAGGGCTTTTGAGCTGGTGCTAA
1 -CGAAGGGCTTTTGAGCCAGTGCTAA
31381898 GAGTCGGACT
Statistics
Matches: 88, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
39 4 0.05
40 12 0.14
41 35 0.40
42 25 0.28
43 12 0.14
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (41 bp):
CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTC
Found at i:31381880 original size:41 final size:40
Alignment explanation
Indices: 31381728--31381888 Score: 132
Period size: 41 Copynumber: 3.9 Consensus size: 40
31381718 GCTAATCGGG
* *
31381728 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTAGAGCCAGT
* * *
31381769 G-CTAATAATCGAACTTAGTTTCGAAGGGCTTTTAAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTT-AGAGCCAGT
* *
31381812 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTAGAGCCAGT
* *
31381852 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGC
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTAGAGC
31381889 TGGTGCTAAG
Statistics
Matches: 96, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
39 3 0.03
40 13 0.14
41 46 0.48
42 21 0.22
43 9 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTAGAGCCAGT
Found at i:31388761 original size:43 final size:43
Alignment explanation
Indices: 31388714--31388824 Score: 111
Period size: 41 Copynumber: 2.6 Consensus size: 43
31388704 TCCCTGACGT
31388714 GGTCTTACATGTAATCACATATCGATGCC-ACTGTCCCAAACAA
1 GGTCTTACATGTAATCACATATCGATGCCGA-TGTCCCAAACAA
* * * * *
31388757 GGTCTTACGTG-AATCAAATA-CGATGCCGATGTTCCAGACAT
1 GGTCTTACATGTAATCACATATCGATGCCGATGTCCCAAACAA
* * *
31388798 GGTTTTACACGTAAATCACAAATCGAT
1 GGTCTTACATGT-AATCACATATCGAT
31388825 ACCAACGTTG
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
41 24 0.44
42 9 0.17
43 17 0.31
44 4 0.07
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCGATGTCCCAAACAA
Found at i:31392654 original size:93 final size:93
Alignment explanation
Indices: 31392540--31392710 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
31392530 GCCCATAAGT
* *
31392540 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
31392605 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
31392633 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
31392698 CGAGTTCGGATGC
66 CGAGTTCGGATGC
31392711 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31392707 original size:46 final size:46
Alignment explanation
Indices: 31392532--31392707 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
31392522 TGTAACCCGC
* * *
31392532 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
31392578 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
31392628 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
31392671 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31392708 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31400209 original size:93 final size:93
Alignment explanation
Indices: 31400096--31400267 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
31400086 CGCCCATAAG
* *
31400096 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31400161 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
31400189 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31400254 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
31400268 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:31400264 original size:46 final size:46
Alignment explanation
Indices: 31400089--31400264 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
31400079 TGTAACCCGC
* * *
31400089 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
31400135 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
31400185 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
31400228 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
31400265 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31402008 original size:27 final size:27
Alignment explanation
Indices: 31401978--31402041 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
31401968 ATGTTTTATT
*
31401978 TTAATGCAT-GCATTTAATATGTCTTAG
1 TTAATACATAGCA-TTAATATGTCTTAG
* *
31402005 TTAATACATATCATTAATTTGTCTTAG
1 TTAATACATAGCATTAATATGTCTTAG
*
31402032 CTTATTACAT
1 -TTAATACAT
31402042 GATTTTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.47
Consensus pattern (27 bp):
TTAATACATAGCATTAATATGTCTTAG
Found at i:31402049 original size:28 final size:27
Alignment explanation
Indices: 31401990--31402049 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
31401980 AATGCATGCA
31401990 TTTAATATGTCTTAGTTAATACATATC
1 TTTAATATGTCTTAGTTAATACATATC
* * *
31402017 ATTAATTTGTCTTAGCTTATTACATGAT-
1 TTTAATATGTCTTAG-TTAATACAT-ATC
31402045 TTTAA
1 TTTAA
31402050 CGTGTTTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 13 0.48
28 12 0.44
29 2 0.07
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (27 bp):
TTTAATATGTCTTAGTTAATACATATC
Found at i:31407036 original size:28 final size:28
Alignment explanation
Indices: 31406976--31407048 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
31406966 TAATGCATGC
31406976 ATTTAATATGTCTTAG-TTAATACATAT
1 ATTTAATATGTCTTAGCTTAATACATAT
* * *
31407003 AATTAATTTGTCTTAGCTTATTACATA-
1 ATTTAATATGTCTTAGCTTAATACATAT
* *
31407030 ATTTTAATGTGTTTTAGCT
1 A-TTTAATATGTCTTAGCT
31407049 CCAACCGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 15 0.39
28 23 0.61
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.51
Consensus pattern (28 bp):
ATTTAATATGTCTTAGCTTAATACATAT
Found at i:31416671 original size:27 final size:26
Alignment explanation
Indices: 31416615--31416671 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
31416605 CAACCTTAAC
* *
31416615 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTGCA
* *
31416641 CCTAGGGGTAAATCTGTAAATTTTTCA
1 CCTAGGGGTAAATCAGT-AATTTTGCA
31416668 CCTA
1 CCTA
31416672 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTGCA
Found at i:31417930 original size:15 final size:16
Alignment explanation
Indices: 31417889--31417937 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
31417879 GGCTATGGGG
31417889 GAAAAGAAGAAGAGAAA
1 GAAAAGAAGAAGA-AAA
* *
31417906 GTAGATGAAG-AGAAAA
1 G-AAAAGAAGAAGAAAA
31417922 GAAAAGAAGAAGAAAA
1 GAAAAGAAGAAGAAAA
31417938 AACTGAATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 6 0.23
16 10 0.38
17 4 0.15
18 6 0.23
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (16 bp):
GAAAAGAAGAAGAAAA
Found at i:31418918 original size:25 final size:24
Alignment explanation
Indices: 31418859--31418924 Score: 62
Period size: 27 Copynumber: 2.6 Consensus size: 24
31418849 ATTATTTTCC
*
31418859 TATCTAATAATAATAATTTTATAAATA
1 TATCTAATAATAA-AA--ATATAAATA
*
31418886 TATCTAATCATAAAAATATAAA-A
1 TATCTAATAATAAAAATATAAATA
31418909 TATCCGTAATAATAAA
1 TAT-C-TAATAATAAA
31418925 TACAGTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 4 0.12
24 7 0.21
25 9 0.26
26 2 0.06
27 12 0.35
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (24 bp):
TATCTAATAATAAAAATATAAATA
Found at i:31421322 original size:26 final size:27
Alignment explanation
Indices: 31421293--31421349 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
31421283 CAACCTTAAC
* * *
31421293 CCTAGGGGTATATCAGT-AATTTTCCT
1 CCTAGAGGTAAATCAGTAAATTTTCCA
*
31421319 CCTAGAGGTAAATCTGTAAATTTTCCA
1 CCTAGAGGTAAATCAGTAAATTTTCCA
31421346 CCTA
1 CCTA
31421350 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (27 bp):
CCTAGAGGTAAATCAGTAAATTTTCCA
Found at i:31422438 original size:25 final size:25
Alignment explanation
Indices: 31422404--31422455 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
31422394 ATATAGCATT
31422404 CTTGTAAGTACGATTTCACAATTTA
1 CTTGTAAGTACGATTTCACAATTTA
31422429 CTTGTAAGTACGATTTCACAATTTA
1 CTTGTAAGTACGATTTCACAATTTA
31422454 CT
1 CT
31422456 AATAAATGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (25 bp):
CTTGTAAGTACGATTTCACAATTTA
Found at i:31426121 original size:12 final size:13
Alignment explanation
Indices: 31426100--31426134 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
31426090 GAAAGTAGAT
*
31426100 GAAGAGAAAAGAA
1 GAAGAAAAAAGAA
31426113 -AAGAAAAAAGAA
1 GAAGAAAAAAGAA
31426125 GAAGAAAAAA
1 GAAGAAAAAA
31426135 CTGAATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
GAAGAAAAAAGAA
Found at i:31427110 original size:25 final size:26
Alignment explanation
Indices: 31427055--31427116 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
31427045 TCCTATCTAA
31427055 TAATAATAATAAATTTATAAATATATC
1 TAATAATAA-AAATTTATAAATATATC
* * *
31427082 TAATCATAAAAATTTA-AAATATCTG
1 TAATAATAAAAATTTATAAATATATC
31427107 TAATAATAAA
1 TAATAATAAA
31427117 TACAGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 16 0.52
26 7 0.23
27 8 0.26
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (26 bp):
TAATAATAAAAATTTATAAATATATC
Found at i:31430574 original size:12 final size:12
Alignment explanation
Indices: 31430557--31430581 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31430547 CACACTCACA
31430557 TATATATATATG
1 TATATATATATG
31430569 TATATATATATG
1 TATATATATATG
31430581 T
1 T
31430582 TCCATTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:31430841 original size:40 final size:40
Alignment explanation
Indices: 31430789--31430955 Score: 246
Period size: 40 Copynumber: 4.2 Consensus size: 40
31430779 CCCGGATGTC
*
31430789 ATTCCAGCACGAAGCCTACGGGTCTTTAAGCCAGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCAGGATACA
*
31430829 ATTCCAGTACGAAGCCTGCGGGTCTTTAAGCCCA-GATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAG-CCAGGATACA
* * **
31430869 ATTTCCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATATG
1 A-TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCAGGATACA
*
31430910 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCAGGATACA
31430950 ATTCCA
1 ATTCCA
31430956 CATCAAATAA
Statistics
Matches: 114, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
40 79 0.69
41 35 0.31
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCAGGATACA
Found at i:31430882 original size:81 final size:81
Alignment explanation
Indices: 31430790--31430952 Score: 263
Period size: 81 Copynumber: 2.0 Consensus size: 81
31430780 CCGGATGTCA
*
31430790 TTCCAGCACGAAGCCTACGGGTCTTTAAGCCAGGATACAATTCCAGTACGAAGCCTGCGGGTCTT
1 TTCCAGCACGAAGCCTACGGGTCTTTAAGCCAGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
31430855 TAAGCCCAGATACAAT
66 TAAGCCCAGATACAAT
** * **
31430871 TTCCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATATGATTCCAGCACGAAGCCTGCGGGTCTT
1 TTCCAGCACGAAGCCTACGGGTCTTTAAGCCAGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
*
31430936 TAAGCCCGGATACAAT
66 TAAGCCCAGATACAAT
31430952 T
1 T
31430953 CCACATCAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (81 bp):
TTCCAGCACGAAGCCTACGGGTCTTTAAGCCAGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
TAAGCCCAGATACAAT
Found at i:31441487 original size:40 final size:40
Alignment explanation
Indices: 31441451--31441680 Score: 345
Period size: 40 Copynumber: 5.8 Consensus size: 40
31441441 GGATATAGCT
*
31441451 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
** *
31441491 GTTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
31441531 ACTCGCACAAATGCCTTTGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
31441571 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
31441611 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * **
31441651 ACTAGCACAGATGCCTTCGATACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
31441681 CGTTATCATC
Statistics
Matches: 173, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 171 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:31445299 original size:54 final size:54
Alignment explanation
Indices: 31445195--31445315 Score: 161
Period size: 54 Copynumber: 2.2 Consensus size: 54
31445185 TTTACCCTCA
* * * * ***
31445195 ATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
31445249 ATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
1 ATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
* *
31445303 GTTTACAAAATTA
1 ATTTACAGAATTA
31445316 TCAAAATACC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (54 bp):
ATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
Found at i:31445300 original size:27 final size:27
Alignment explanation
Indices: 31445160--31445291 Score: 167
Period size: 27 Copynumber: 4.9 Consensus size: 27
31445150 ATTACCAAAG
* * *
31445160 TACCCCCGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-ATTT
* *
31445187 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
31445214 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
31445241 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
31445268 TACCCTCAATTTACAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
31445292 AAATACCCTT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 92 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:31445307 original size:27 final size:27
Alignment explanation
Indices: 31445277--31445599 Score: 217
Period size: 27 Copynumber: 12.0 Consensus size: 27
31445267 TTACCCTCAA
*
31445277 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
*
31445304 TTTACAAAATTATCAAAATACCCTT-G
1 TTTACAAAATTACCAAAATACCCTTGG
* * *
31445330 ATTAGTAAAATTACCAAAATATCC-TGG
1 TTTA-CAAAATTACCAAAATACCCTTGG
* ** * *
31445357 TCTGTAAAATTGCCAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCTTGG
** * *
31445384 TTTGTAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCTTGG
** *
31445411 TTTGTAAAATTACCAATATACCAC-TGG
1 TTTACAAAATTACCAAAATACC-CTTGG
** * **
31445438 TTTGTAAAATTACCGAAATACCCTTAA
1 TTTACAAAATTACCAAAATACCCTTGG
** * *
31445465 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACCAAAATACCCTTGG
*
31445492 TTTACAAAATTA-CAGAAATACCCTTGAC
1 TTTACAAAATTACCA-AAATACCCTTG-G
** *
31445520 TTT-CTAAAAATTATAAAAATACCATTGG
1 TTTAC--AAAATTACCAAAATACCCTTGG
**
31445548 TTTACAAAATTA-CTGAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
** * * *
31445574 TTTGTAGATTTACCAAAACACCCTTG
1 TTTACAAAATTACCAAAATACCCTTG
31445600 TAGGGTGAAT
Statistics
Matches: 243, Mismatches: 41, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
26 43 0.18
27 174 0.72
28 7 0.03
29 18 0.07
30 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGG
Found at i:31445315 original size:81 final size:81
Alignment explanation
Indices: 31445167--31445315 Score: 183
Period size: 81 Copynumber: 1.8 Consensus size: 81
31445157 AAGTACCCCC
* * * **** * *
31445167 GATTTACATAATTATCGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTATAGAA
1 GATTTACAGAATTATCATTTTACCCTCAATTTACAAAATTACTAAAATACCCTCGATTTACAAAA
31445232 TTACTATTTTACCCTT
66 TTACTATTTTACCCTT
* *
31445248 GATTTACAGAATTA-CTATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTGGTTTACAAA
1 GATTTACAGAATTATC-ATTTTACCCTCAATTTACAAAATTACTAAAATACCCTCGATTTACAAA
31445312 ATTA
65 ATTA
31445316 TCAAAATACC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 1 0.02
81 55 0.98
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.41
Consensus pattern (81 bp):
GATTTACAGAATTATCATTTTACCCTCAATTTACAAAATTACTAAAATACCCTCGATTTACAAAA
TTACTATTTTACCCTT
Found at i:31445326 original size:54 final size:54
Alignment explanation
Indices: 31445268--31445597 Score: 242
Period size: 54 Copynumber: 6.1 Consensus size: 54
31445258 ATTACTATTT
* * ** *
31445268 TACCCTCAATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTATCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * * *
31445322 TACCCTTGA-TTAGTAAAATTACCAAAATATCC-TGGTCTGTAAAATTGCCAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* ** * * *
31445375 TACCC-CTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAATA
1 TACCCTC-GATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* ** * **
31445429 TACCACT-GGTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAA
1 TACC-CTCGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * **
31445483 TACCC-CTGATTTACAAAATTA-CAGAAATACCCTTGACTTTCTAAAAATTATAAAAA
1 TACCCTC-GATTTACAAAATTACCA-AAATACCCTTG-GTTTGT-AAAATTACCAAAA
* * * ** * *
31445539 TACCATTGGTTTACAAAATTA-CTGAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
*
31445592 CACCCT
1 TACCCT
31445598 TGTAGGGTGA
Statistics
Matches: 220, Mismatches: 44, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
53 58 0.26
54 118 0.54
55 15 0.07
56 29 0.13
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:31445472 original size:81 final size:81
Alignment explanation
Indices: 31445282--31445515 Score: 271
Period size: 81 Copynumber: 2.9 Consensus size: 81
31445272 CTCAATTTAC
* ** * *
31445282 AAAATTACTAAAATACCCTTGGTTTACAAAATTATCAAAATA-CCCTTGATTAGTAAAATTACCA
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGATTAGTAAAATTACCA
*
31445346 AAATATCCTGGTCTGT
66 AAATACCCTGGTCTGT
* * *
31445362 AAAATTGCCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCA
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGATTAGTAAAATTACCA
* *
31445426 ATATACCACTGGTTTGT
66 AAATACC-CTGGTCTGT
* ** *
31445443 AAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCT-GATTTA-CAAAATTA-C
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGA-TTAGTAAAATTACC
31445505 AGAAATACCCT
65 A-AAATACCCT
31445516 TGACTTTCTA
Statistics
Matches: 130, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
80 60 0.46
81 68 0.52
82 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGATTAGTAAAATTACCA
AAATACCCTGGTCTGT
Found at i:31445693 original size:27 final size:27
Alignment explanation
Indices: 31445616--31445693 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
31445606 GAATGACTAA
* *
31445616 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
31445643 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
31445670 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
31445694 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:31446632 original size:24 final size:25
Alignment explanation
Indices: 31446500--31446619 Score: 188
Period size: 25 Copynumber: 4.8 Consensus size: 25
31446490 AGGAAGTGCT
* * *
31446500 AAAAGGACTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
31446525 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
31446550 AAAAGGGCTTTGCCCCAGTTTA-CTA
1 AAAAGGGCTTTGCCCCAGTTTATC-G
31446575 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
31446600 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
31446620 ATTAAAAGAG
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
24 1 0.01
25 86 0.98
26 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCG
Found at i:31446873 original size:31 final size:31
Alignment explanation
Indices: 31446838--31447011 Score: 242
Period size: 31 Copynumber: 5.6 Consensus size: 31
31446828 CGTTTACAAT
31446838 AAAGGCTTCGGCCCAGTAATATGATTTATGA
1 AAAGGCTTCGGCCCAGTAATATGATTTATGA
*
31446869 AAAGGCTTCGGCCTAG-AGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTA-ATATGATTTATGA
* * *
31446900 TAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTAATATGATTTATGA
* * *
31446931 TAAGGCTTCGTCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTAATATGATTTATGA
* * *
31446962 TAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTAATATGATTTATGA
31446993 AAAGGCTTCGGCCCAGTAA
1 AAAGGCTTCGGCCCAGTAA
31447012 CCGTTAAACG
Statistics
Matches: 129, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 1 0.01
31 128 0.99
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGATTTATGA
Found at i:31446958 original size:93 final size:93
Alignment explanation
Indices: 31446839--31447009 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
31446829 GTTTACAATA
* *
31446839 AAGGCTTCGGCCCAGTAATATGATTTATGAAAAGGCTTCGGCCTAGAGATATGATTTATGATAAG
1 AAGGCTTCGGCCCAGTAATATGATTTATGAAAAGGCTTCGGCCCAGAGATATGATTTATGAAAAG
*
31446904 GCTTTGGCCCAGTGATATGATTTATGAT
66 GCTTCGGCCCAGTGATATGATTTATGAT
* * * * *
31446932 AAGGCTTCGTCCCAGTGATATGATTTATGATAAGGCTTTGGCCCAGTGATATGATTTATGAAAAG
1 AAGGCTTCGGCCCAGTAATATGATTTATGAAAAGGCTTCGGCCCAGAGATATGATTTATGAAAAG
31446997 GCTTCGGCCCAGT
66 GCTTCGGCCCAGT
31447010 AACCGTTAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (93 bp):
AAGGCTTCGGCCCAGTAATATGATTTATGAAAAGGCTTCGGCCCAGAGATATGATTTATGAAAAG
GCTTCGGCCCAGTGATATGATTTATGAT
Found at i:31447009 original size:62 final size:62
Alignment explanation
Indices: 31446839--31447009 Score: 288
Period size: 62 Copynumber: 2.8 Consensus size: 62
31446829 GTTTACAATA
* * * *
31446839 AAGGCTTCGGCCCAGTAATATGATTTATGAAAAGGCTTCGGCCTAGAGATATGATTTATGAT
1 AAGGCTTTGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAT
* *
31446901 AAGGCTTTGGCCCAGTGATATGATTTATGATAAGGCTTCGTCCCAGTGATATGATTTATGAT
1 AAGGCTTTGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAT
31446963 AAGGCTTTGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGT
1 AAGGCTTTGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGT
31447010 AACCGTTAAA
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 101 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (62 bp):
AAGGCTTTGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAT
Found at i:31452438 original size:30 final size:30
Alignment explanation
Indices: 31452404--31452568 Score: 129
Period size: 30 Copynumber: 5.5 Consensus size: 30
31452394 ATGGTCGTCA
*
31452404 CCATCCTTTTTCATAATTTGATAGCCAAAG
1 CCATCCTTTTTCATAATTTGATAGCCGAAG
* **
31452434 CCATCCTTTTTCATAGA-TAGATATTCGAAG
1 CCATCCTTTTTCATA-ATTTGATAGCCGAAG
* *
31452464 CCATCCCTTTTCATAATTTGATGGCCGAAG
1 CCATCCTTTTTCATAATTTGATAGCCGAAG
* * * * * * *
31452494 CCATCCCTTTCCA-ATTTTCAATGGTCGTCAG
1 CCATCCTTTTTCATAATTT-GATAGCCG-AAG
* * *
31452525 -CATCCCTTTCCATAATTTGATAACCGAAG
1 CCATCCTTTTTCATAATTTGATAGCCGAAG
*
31452554 CCATCCCTTTTCATA
1 CCATCCTTTTTCATA
31452569 GATCGATGAT
Statistics
Matches: 108, Mismatches: 21, Indels: 12
0.77 0.15 0.09
Matches are distributed among these distances:
29 7 0.06
30 94 0.87
31 7 0.06
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (30 bp):
CCATCCTTTTTCATAATTTGATAGCCGAAG
Found at i:31452439 original size:60 final size:60
Alignment explanation
Indices: 31452375--31452565 Score: 206
Period size: 60 Copynumber: 3.2 Consensus size: 60
31452365 TGGTCGTCAT
* *
31452375 CATCCTTTTCCATTTTTCAATGGTCGTCACCATCCTTTTTCATAATTTGATAGCCAAAGC
1 CATCCTTTTCCATTTTTCAATGGTCGTCACCATCCCTTTTCATAATTTGATAGCCGAAGC
* *** ** * *
31452435 CATCCTTTTTCATAGAT-AGATATTCG-AAGCCATCCCTTTTCATAATTTGATGGCCGAAGC
1 CATCCTTTTCCATTTTTCA-ATGGTCGTCA-CCATCCCTTTTCATAATTTGATAGCCGAAGC
* * * * *
31452495 CATCCCTTTCCAATTTTCAATGGTCGTCAGCATCCCTTTCCATAATTTGATAACCGAAGC
1 CATCCTTTTCCATTTTTCAATGGTCGTCACCATCCCTTTTCATAATTTGATAGCCGAAGC
31452555 CATCCCTTTTC
1 CAT-CCTTTTC
31452566 ATAGATCGAT
Statistics
Matches: 102, Mismatches: 24, Indels: 9
0.76 0.18 0.07
Matches are distributed among these distances:
59 2 0.02
60 92 0.90
61 8 0.08
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.37
Consensus pattern (60 bp):
CATCCTTTTCCATTTTTCAATGGTCGTCACCATCCCTTTTCATAATTTGATAGCCGAAGC
Found at i:31464904 original size:20 final size:21
Alignment explanation
Indices: 31464881--31464919 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
31464871 ATTAATTTAA
31464881 TAAACCTTAATT-AATTAACT
1 TAAACCTTAATTAAATTAACT
*
31464901 TAAACTTTAATTAAATTAA
1 TAAACCTTAATTAAATTAA
31464920 TTTTAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAACCTTAATTAAATTAACT
Found at i:31472605 original size:50 final size:48
Alignment explanation
Indices: 31472506--31472682 Score: 175
Period size: 50 Copynumber: 3.7 Consensus size: 48
31472496 TTTGTGTGCA
*
31472506 AGTGTAAG--CATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCC
* *
31472551 AGTGTAAGACCATATCTGGGACATGGCATCGG-CACAAATATGCGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-AATAT--GAGAGCC
* *** * * **
31472601 AGTGTAAGACCATGTCTGGGACATGG-AGTCAGCCTTGATTTCGATAATC
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCGGCCACAATAT-GAGAGCC
31472650 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
31472683 ATTCTACCCC
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
45 8 0.07
47 16 0.15
48 11 0.10
49 35 0.32
50 38 0.35
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCC
Found at i:31476996 original size:22 final size:22
Alignment explanation
Indices: 31476971--31477012 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
31476961 GGGTGGACGG
31476971 TTTTGG-GAAGAAGATTAAGGGA
1 TTTTGGTGAAGAA-ATTAAGGGA
*
31476993 TTTTGGTGAGGAAATTAAGG
1 TTTTGGTGAAGAAATTAAGG
31477013 AGGGAGGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (22 bp):
TTTTGGTGAAGAAATTAAGGGA
Found at i:31479561 original size:62 final size:62
Alignment explanation
Indices: 31479464--31479587 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
31479454 CTAAGTGTGT
31479464 GAGATTGTTACGGATTCGGCAATTCACTGATCACTAAGTGTGCGAATTCTTAAAGCATGGAA
1 GAGATTGTTACGGATTCGGCAATTCACTGATCACTAAGTGTGCGAATTCTTAAAGCATGGAA
31479526 GAGATTGTTACGGATTCGGCAATTCACTGATCACTAAGTGTGCGAATTCTTAAAGCATGGAA
1 GAGATTGTTACGGATTCGGCAATTCACTGATCACTAAGTGTGCGAATTCTTAAAGCATGGAA
31479588 AGACTCCCAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (62 bp):
GAGATTGTTACGGATTCGGCAATTCACTGATCACTAAGTGTGCGAATTCTTAAAGCATGGAA
Found at i:31480807 original size:43 final size:42
Alignment explanation
Indices: 31480712--31480791 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 42
31480702 AAGCCGTGTT
* *
31480712 AGGCACACGGCCTTGATATATTGGCGTGCCTGGTGGCCATGTA
1 AGGCACACAGCCTTGATATATGGGCGTG-CTGGTGGCCATGTA
31480755 AGGCACACAGCCTTGATATATGGGCGTG-T-GTGGCCAT
1 AGGCACACAGCCTTGATATATGGGCGTGCTGGTGGCCAT
31480792 TTCGAAGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
40 8 0.23
41 1 0.03
43 26 0.74
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.25
Consensus pattern (42 bp):
AGGCACACAGCCTTGATATATGGGCGTGCTGGTGGCCATGTA
Found at i:31484735 original size:25 final size:25
Alignment explanation
Indices: 31484707--31484758 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
31484697 TTCAGAGTTG
*
31484707 ATTCAGATGATTTTAAATGAAACTC
1 ATTCAGATAATTTTAAATGAAACTC
* *
31484732 ATTCATATAATTTTCAATGAAACTC
1 ATTCAGATAATTTTAAATGAAACTC
31484757 AT
1 AT
31484759 AGCAGTCAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (25 bp):
ATTCAGATAATTTTAAATGAAACTC
Found at i:31486973 original size:40 final size:40
Alignment explanation
Indices: 31486908--31487002 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
31486898 GACTATGTTC
*
31486908 GGCACTAAGTGTGCGGTTTGAAATAGCTTTGGCTACA-AA
1 GGCACTAAGTGTGCGGTTTGAAATAGCTTCGGCTACATAA
* * *
31486947 TGGCACTAAGTGTGC-GTGTTGGAATAGCTTCGGCTATATGA
1 -GGCACTAAGTGTGCGGT-TTGAAATAGCTTCGGCTACATAA
31486988 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
31487003 ATACCAAGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 2 0.04
40 45 0.94
41 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCGGTTTGAAATAGCTTCGGCTACATAA
Found at i:31491253 original size:20 final size:20
Alignment explanation
Indices: 31491228--31491377 Score: 228
Period size: 20 Copynumber: 7.5 Consensus size: 20
31491218 TGATATTTAA
*
31491228 GGCTTTGTGCCGCTATCGAT
1 GGCTTTGTGCCGCTATTGAT
*
31491248 GGCTTTGTGCCACTATTGAT
1 GGCTTTGTGCCGCTATTGAT
*
31491268 GGCTTTGTGCCACTATTGAT
1 GGCTTTGTGCCGCTATTGAT
*
31491288 GGCTTTGTGCCGCTACTGAT
1 GGCTTTGTGCCGCTATTGAT
31491308 GGCTTTGTGCCGCTATTGAT
1 GGCTTTGTGCCGCTATTGAT
* *
31491328 GGCTTTTTGCCACTATTGAT
1 GGCTTTGTGCCGCTATTGAT
*
31491348 GGCTTTGTACCGCTATTGAT
1 GGCTTTGTGCCGCTATTGAT
*
31491368 GGCTTCGTGC
1 GGCTTTGTGC
31491378 TGCCACTCAT
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 118 1.00
ACGTcount: A:0.12, C:0.22, G:0.27, T:0.39
Consensus pattern (20 bp):
GGCTTTGTGCCGCTATTGAT
Found at i:31491390 original size:40 final size:40
Alignment explanation
Indices: 31491228--31491395 Score: 228
Period size: 40 Copynumber: 4.2 Consensus size: 40
31491218 TGATATTTAA
* *
31491228 GGCTTTGTGCCGCTATCGATGGCTTTGTGCCACTATTGAT
1 GGCTTTGTGCCGCTATTGATGGCTTTGTGCCACTACTGAT
* *
31491268 GGCTTTGTGCCACTATTGATGGCTTTGTGCCGCTACTGAT
1 GGCTTTGTGCCGCTATTGATGGCTTTGTGCCACTACTGAT
* *
31491308 GGCTTTGTGCCGCTATTGATGGCTTTTTGCCACTATTGAT
1 GGCTTTGTGCCGCTATTGATGGCTTTGTGCCACTACTGAT
* * ** * *
31491348 GGCTTTGTACCGCTATTGATGGCTTCGTGCTGCCACTCAT
1 GGCTTTGTGCCGCTATTGATGGCTTTGTGCCACTACTGAT
31491388 GGCTTTGT
1 GGCTTTGT
31491396 CCCATATACT
Statistics
Matches: 112, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.12, C:0.23, G:0.27, T:0.39
Consensus pattern (40 bp):
GGCTTTGTGCCGCTATTGATGGCTTTGTGCCACTACTGAT
Found at i:31491390 original size:60 final size:60
Alignment explanation
Indices: 31491228--31491395 Score: 246
Period size: 60 Copynumber: 2.8 Consensus size: 60
31491218 TGATATTTAA
* *
31491228 GGCTTTGTGCCGCTATCGATGGCTTTGTGCCACTATTGATGGCTTTGTGCCACTATTGAT
1 GGCTTTGTGCCGCTATTGATGGCTTTGTGCCGCTATTGATGGCTTTGTGCCACTATTGAT
* *
31491288 GGCTTTGTGCCGCTACTGATGGCTTTGTGCCGCTATTGATGGCTTTTTGCCACTATTGAT
1 GGCTTTGTGCCGCTATTGATGGCTTTGTGCCGCTATTGATGGCTTTGTGCCACTATTGAT
* * * * * *
31491348 GGCTTTGTACCGCTATTGATGGCTTCGTGCTGCCACTCATGGCTTTGT
1 GGCTTTGTGCCGCTATTGATGGCTTTGTGCCGCTATTGATGGCTTTGT
31491396 CCCATATACT
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 96 1.00
ACGTcount: A:0.12, C:0.23, G:0.27, T:0.39
Consensus pattern (60 bp):
GGCTTTGTGCCGCTATTGATGGCTTTGTGCCGCTATTGATGGCTTTGTGCCACTATTGAT
Found at i:31494933 original size:19 final size:19
Alignment explanation
Indices: 31494889--31494933 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
31494879 TAAATTAAAG
*
31494889 AAGATGACTCTCTTTTCTA
1 AAGATGGCTCTCTTTTCTA
31494908 AAGATGGCTCTCTTTTCTA
1 AAGATGGCTCTCTTTTCTA
31494927 AAGATGG
1 AAGATGG
31494934 AATGTTAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (19 bp):
AAGATGGCTCTCTTTTCTA
Found at i:31496459 original size:12 final size:12
Alignment explanation
Indices: 31496442--31496466 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31496432 GAGAGAGAAT
31496442 AATGAATGAGAG
1 AATGAATGAGAG
31496454 AATGAATGAGAG
1 AATGAATGAGAG
31496466 A
1 A
31496467 TAAGTGTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (12 bp):
AATGAATGAGAG
Found at i:31498277 original size:20 final size:20
Alignment explanation
Indices: 31498227--31498269 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
31498217 ATCTATTTGC
**
31498227 AAACAATAGCTCATCCATAT
1 AAACAATATTTCATCCATAT
*
31498247 AAACAATATTTCATCTATAT
1 AAACAATATTTCATCCATAT
31498267 AAA
1 AAA
31498270 TAGTATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (20 bp):
AAACAATATTTCATCCATAT
Found at i:31500840 original size:30 final size:30
Alignment explanation
Indices: 31500806--31500862 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
31500796 GAGTGTTTCT
*
31500806 TGGCCGTGTGAGTCACATAGCCTAGCCACA
1 TGGCCGTGTGAGTCACACAGCCTAGCCACA
*
31500836 TGGCCGTGTGAGTCACACAGCTTAGCC
1 TGGCCGTGTGAGTCACACAGCCTAGCC
31500863 CCACAGCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.30, G:0.28, T:0.21
Consensus pattern (30 bp):
TGGCCGTGTGAGTCACACAGCCTAGCCACA
Found at i:31510896 original size:27 final size:27
Alignment explanation
Indices: 31510848--31510927 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
31510838 GCGAAGCTGG
* * *
31510848 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCGAGGCCACCAGATA
*
31510875 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAGGCCACCAGATA
31510901 CAGATATATGTGGCGAGGCCACCAGAT
1 CAGATAT-TGTGGCGAGGCCACCAGAT
31510928 TGCAGCGAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.17
27 38 0.83
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCGAGGCCACCAGATA
Found at i:31516582 original size:22 final size:21
Alignment explanation
Indices: 31516532--31516585 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
31516522 CGACCTATAG
*
31516532 CACGGGCGTGTACCTGGGTCA
1 CACGGGCGTGTACCTGGATCA
* *
31516553 CACAGGCGTGTCCCTTGGATCA
1 CACGGGCGTGTACC-TGGATCA
*
31516575 CATGGGCGTGT
1 CACGGGCGTGT
31516586 GAGCCCTGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.15, C:0.28, G:0.35, T:0.22
Consensus pattern (21 bp):
CACGGGCGTGTACCTGGATCA
Found at i:31519012 original size:42 final size:42
Alignment explanation
Indices: 31518915--31519023 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
31518905 CGTACAATGC
* * *
31518915 CAACGTCCCCGACATGGTCTTACATGTAATCAAATATCGATG
1 CAACATCCCAGACATGGTCTTACATGAAATCAAATATCGATG
* * * *
31518957 CCACTATCCCAGACAAGGTCTTACATGAAATCAAGT-TTGATG
1 CAAC-ATCCCAGACATGGTCTTACATGAAATCAAATATCGATG
*
31518999 CTAACATCCCAGACGTGGTCTTACA
1 C-AACATCCCAGACATGGTCTTACA
31519024 CGATAACACA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 27 0.49
43 28 0.51
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (42 bp):
CAACATCCCAGACATGGTCTTACATGAAATCAAATATCGATG
Found at i:31526546 original size:43 final size:43
Alignment explanation
Indices: 31526498--31526658 Score: 166
Period size: 43 Copynumber: 3.7 Consensus size: 43
31526488 AAAGCTCGTA
* *
31526498 CAATGCCAATGTCCCTGATGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATAT
* * *
31526541 CAATGCCACTGTCCCAGACAG-GGTCTTACATGAAATCAAGTA-
1 CAATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATAT
* * * *
31526583 CGATGCCAATGTCCCAGACGCGGTGTTACATGTAAATCATAA-GT
1 CAATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCA-AATAT
* * *
31526627 CGATCCCAATGTCCCAGACATGGTCTTACATG
1 CAATGCCAATGTCCCAGACGTGGTCTTACATG
31526659 ATAACACATG
Statistics
Matches: 98, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 40 0.41
44 30 0.31
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATAT
Found at i:31526643 original size:44 final size:42
Alignment explanation
Indices: 31526519--31526659 Score: 151
Period size: 44 Copynumber: 3.3 Consensus size: 42
31526509 TCCCTGATGT
* * * * *
31526519 GGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAG
1 GGTCTTACATGAAATCAAGTA-CGATCCCAATGTCCCAGACAG
*
31526562 GGTCTTACATGAAATCAAGTACGATGCCAATGTCCCAGAC-G
1 GGTCTTACATGAAATCAAGTACGATCCCAATGTCCCAGACAG
* *
31526603 CGGTGTTACATGTAAATCATAAGT-CGATCCCAATGTCCCAGACAT
1 -GGTCTTACATG-AAATC--AAGTACGATCCCAATGTCCCAGACAG
31526648 GGTCTTACATGA
1 GGTCTTACATGA
31526660 TAACACATGT
Statistics
Matches: 85, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 27 0.32
43 25 0.29
44 28 0.33
45 4 0.05
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGAAATCAAGTACGATCCCAATGTCCCAGACAG
Found at i:31526654 original size:86 final size:85
Alignment explanation
Indices: 31526495--31526659 Score: 215
Period size: 86 Copynumber: 1.9 Consensus size: 85
31526485 CAGAAAGCTC
* * * * *
31526495 GTACAATGCCAATGTCCCTGATGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGAC
1 GTACAATGCCAATGTCCCAGACGCGGTCTTACATGTAATCAAATATCAATCCCAATGTCCCAGAC
31526560 AGGGTCTTACATGAAATCAA
66 AGGGTCTTACATGAAATCAA
* * * *
31526580 GTACGATGCCAATGTCCCAGACGCGGTGTTACATGTAAATCATAA-GTCGATCCCAATGTCCCAG
1 GTACAATGCCAATGTCCCAGACGCGGTCTTACATGT-AATCA-AATATCAATCCCAATGTCCCAG
*
31526644 ACATGGTCTTACATGA
64 ACAGGGTCTTACATGA
31526660 TAACACATGT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 31 0.46
86 35 0.51
87 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (85 bp):
GTACAATGCCAATGTCCCAGACGCGGTCTTACATGTAATCAAATATCAATCCCAATGTCCCAGAC
AGGGTCTTACATGAAATCAA
Found at i:31526676 original size:44 final size:43
Alignment explanation
Indices: 31526519--31526676 Score: 121
Period size: 44 Copynumber: 3.7 Consensus size: 43
31526509 TCCCTGATGT
* * * * * *
31526519 GGTCTTACATG-TAATCAAATATCAATGCCACTGTCCCAGACAG
1 GGTCTTACATGATAA-CACATGTCGATCCCAATGTCCCAGACAC
* *
31526562 GGTCTTACATGA-AATCA-A-GTACGATGCCAATGTCCCAGACGC
1 GGTCTTACATGATAA-CACATGT-CGATCCCAATGTCCCAGACAC
* *
31526604 GGTGTTACATG-TAA-ATCATAAGTCGATCCCAATGTCCCAGACAT
1 GGTCTTACATGATAACA-CAT--GTCGATCCCAATGTCCCAGACAC
31526648 GGTCTTACATGATAACACATGTCGGATCC
1 GGTCTTACATGATAACACATGTC-GATCC
31526677 TATGTCATGA
Statistics
Matches: 94, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 31 0.33
43 19 0.20
44 33 0.35
45 8 0.09
46 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGATAACACATGTCGATCCCAATGTCCCAGACAC
Found at i:31527708 original size:20 final size:20
Alignment explanation
Indices: 31527683--31527722 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
31527673 AGACATAACA
31527683 AAAAGGCCACTTTAACAATT
1 AAAAGGCCACTTTAACAATT
* *
31527703 AAAAGGTCACTTTTACAATT
1 AAAAGGCCACTTTAACAATT
31527723 TATGTGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (20 bp):
AAAAGGCCACTTTAACAATT
Found at i:31531822 original size:38 final size:38
Alignment explanation
Indices: 31531768--31531845 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
31531758 GAACAATAAT
*
31531768 TTATTTAAGCATACTTAAGTAAAAATATTGAAACATAC
1 TTATTTAAGCACACTTAAGTAAAAATATTGAAACATAC
* *
31531806 TTATTTAAGCACACTTAAGTAAAATTATTGAAATATAC
1 TTATTTAAGCACACTTAAGTAAAAATATTGAAACATAC
31531844 TT
1 TT
31531846 TAAAATTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (38 bp):
TTATTTAAGCACACTTAAGTAAAAATATTGAAACATAC
Found at i:31534334 original size:49 final size:49
Alignment explanation
Indices: 31534263--31534500 Score: 244
Period size: 49 Copynumber: 4.8 Consensus size: 49
31534253 TAGACAAGGC
** *
31534263 TATCTGGTACGTATAGTAGCCTGTACTTAGTACTACACATGCAACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* * * * ** *
31534312 TATCCGTTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACC-AAT
* * * * *
31534362 CATCTGATACACATAGTAGTCTGCACTTAGTACTACACACGTG-ATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-T
* * * *
31534413 TATCAGGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* *
31534462 TATCTGGTACACGTAGTAGCCTACACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
31534501 CGTGACCTCA
Statistics
Matches: 150, Mismatches: 34, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
49 74 0.49
50 41 0.27
51 34 0.23
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
Found at i:31534774 original size:27 final size:27
Alignment explanation
Indices: 31534734--31534787 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
31534724 AGGTACAACC
* *
31534734 CATGTAATAGTAATTTAG-CATTCAATT
1 CATGTAAAAATAATTT-GCCATTCAATT
31534761 CATGTAAAAATAATTTGCCATTCAATT
1 CATGTAAAAATAATTTGCCATTCAATT
31534788 TCACATGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (27 bp):
CATGTAAAAATAATTTGCCATTCAATT
Found at i:31536110 original size:13 final size:13
Alignment explanation
Indices: 31536092--31536117 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31536082 GTAAGCACTT
31536092 CTAGTCTTCTTTC
1 CTAGTCTTCTTTC
31536105 CTAGTCTTCTTTC
1 CTAGTCTTCTTTC
31536118 TAGCACAATA
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:0.08, C:0.31, G:0.08, T:0.54
Consensus pattern (13 bp):
CTAGTCTTCTTTC
Found at i:31543169 original size:29 final size:29
Alignment explanation
Indices: 31543127--31543251 Score: 198
Period size: 29 Copynumber: 4.3 Consensus size: 29
31543117 GAAAGCATGT
31543127 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
31543156 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
**
31543185 ATGCGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
31543214 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
31543242 ATATGCATGT
1 ATATGAATGT
31543252 ATGTAGACTT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 23 0.26
29 65 0.74
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:31546705 original size:38 final size:38
Alignment explanation
Indices: 31546618--31546812 Score: 230
Period size: 38 Copynumber: 5.0 Consensus size: 38
31546608 AAACCTAAAC
* * ** *
31546618 ATAACACCAGCACGAAGCCTACGGGACTTTAAAATCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* *
31546658 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
31546696 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
31546734 ACATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * *
31546772 ATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGAT
31546812 A
1 A
31546813 CACATCAAAT
Statistics
Matches: 136, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
37 1 0.01
38 97 0.71
39 8 0.06
40 30 0.22
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:31548517 original size:45 final size:46
Alignment explanation
Indices: 31548349--31548568 Score: 279
Period size: 46 Copynumber: 4.8 Consensus size: 46
31548339 GGTTGAGCAT
* *
31548349 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
31548395 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
31548440 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
31548488 CCGAGC-CGTTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
31548533 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31548569 GCGGGTTACA
Statistics
Matches: 152, Mismatches: 12, Indels: 20
0.83 0.07 0.11
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
45 47 0.31
46 60 0.39
47 28 0.18
48 4 0.03
50 4 0.03
51 3 0.02
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Done.