Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 216 of 320
Found at i:72266056 original size:88 final size:86
Alignment explanation
Indices: 72265964--72266236 Score: 225
Period size: 88 Copynumber: 3.1 Consensus size: 86
72265954 TACCTCAGGA
*
72265964 AGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAAAGATAAGGCTTGAAGGCTTAAA
1 AGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTT-AAGGCTTAAA
72266029 TCTGCTCCATTGTCGATACATGG
65 TCTGCTCCATTG-CGATACATGG
* ** * * * * * * * * *
72266052 AGATAAGATTCGCCTCTTCCGATCTGCTCCACTAG-T-GCTTAGGGAGATAAGATCTTCAA-TCT
1 AGATAAGACTC-AATCTT-CAACCTGCT-CTCTTGCTACCTCAGAGAGATAAG-GCTT-AAGGCT
* * *
72266114 TCAGTCTGCTTCC-TTGC--TACCTCAGG
61 TAAATCTGC-TCCATTGCGATACAT--GG
* *
72266140 AAGATAAGACTCAATCTTCAACCTGCTCTCTTACTACCTCAGAGAGATAAGGCTTAGGGACTTAA
1 -AGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAAGG-CTTAA
72266205 ATCTGCTCCATTGCTGATACATGG
64 ATCTGCTCCATTGC-GATACATGG
72266229 AGATAAGA
1 AGATAAGA
72266237 TTCGCCATCT
Statistics
Matches: 135, Mismatches: 34, Indels: 32
0.67 0.17 0.16
Matches are distributed among these distances:
86 8 0.06
87 14 0.10
88 50 0.37
89 39 0.29
90 16 0.12
91 8 0.06
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (86 bp):
AGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAAGGCTTAAAT
CTGCTCCATTGCGATACATGG
Found at i:72266214 original size:177 final size:177
Alignment explanation
Indices: 72265889--72266309 Score: 643
Period size: 177 Copynumber: 2.4 Consensus size: 177
72265879 GAATTCATCG
* * * * * *
72265889 TCTTTGATCTGCTCCACT-GCTACCTTAGAGAGATAAGATCTACAATCATCAATCTGCTTCCTTG
1 TCTTCGATCTGCTCCACTAG-T-GCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTG
*
72265953 CTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAAAGATAAGGCTT
64 CTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTACTACCTCAGAAAGATAAGGCTT
72266018 GAAGGCTTAAATCTGCTCCATTG-TCGATACATGGAGATAAGATTCGCC-
129 GAAGGCTTAAATCTGCTCCATTGCT-GATACATGGAGATAAGATTCGCCA
72266066 TCTTCCGATCTGCTCCACTAGTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGC
1 TCTT-CGATCTGCTCCACTAGTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGC
*
72266131 TACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTACTACCTCAGAGAGATAAGGCTT-
65 TACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTACTACCTCAGAAAGATAAGGCTTG
*
72266195 AGGGACTTAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCGCCA
130 AAGG-CTTAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCGCCA
* * * * *
72266244 TCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTTTGTTTCCTTGCT
1 TCTTCGATCTGCTCCACTAGTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCT
72266309 A
66 A
72266310 TCGCCAACCT
Statistics
Matches: 225, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
176 3 0.01
177 202 0.90
178 19 0.08
179 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (177 bp):
TCTTCGATCTGCTCCACTAGTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCT
ACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTACTACCTCAGAAAGATAAGGCTTGA
AGGCTTAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCGCCA
Found at i:72297823 original size:40 final size:39
Alignment explanation
Indices: 72297773--72297918 Score: 195
Period size: 40 Copynumber: 3.7 Consensus size: 39
72297763 TAAGTGACAT
* *
72297773 ATCCGGACTAAGATCCGAAGGCATTTGTGAGAGATACTAA
1 ATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
72297813 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
**
72297853 ATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTA-A
* *
72297893 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGACTAAGT-CCGAAGGCATTTG
72297919 AACGAGGAGC
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
39 35 0.36
40 63 0.64
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:72297936 original size:79 final size:79
Alignment explanation
Indices: 72297765--72297951 Score: 195
Period size: 79 Copynumber: 2.4 Consensus size: 79
72297755 CTTTGGGCTA
**
72297765 AGTGAC-ATATCCGGACTAAGATCCGAAGGCATTTGTGAGAGATACTAAATCCGGACTAAGATCC
1 AGTGACTATATCCGGGTTAAG-TCCGAAGGCATTTGTGAGAGATACTAAATCCGGACTAAGATCC
**
72297829 GAAGGCATTTGTGCG
65 GAAGGCATTTGAACG
* * * * * *
72297844 AGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCC
1 AGTGACTATATCCGGGTTAAGTCCGAAGGCATTTGTGAGAGATACTA-AATCCGGACTAAGAT-C
72297907 CGAAGGCATTTGAACG
64 CGAAGGCATTTGAACG
*
72297923 AG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 AGTGA-CTATATCCGGGTT-AAGTCCGAAGG
72297952 TACGTGATTT
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
78 6 0.07
79 71 0.79
80 13 0.14
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (79 bp):
AGTGACTATATCCGGGTTAAGTCCGAAGGCATTTGTGAGAGATACTAAATCCGGACTAAGATCCG
AAGGCATTTGAACG
Found at i:72305519 original size:40 final size:39
Alignment explanation
Indices: 72305439--72305618 Score: 195
Period size: 40 Copynumber: 4.5 Consensus size: 39
72305429 ACGATGTCCA
* * *
72305439 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TCATATCCG
1 GGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT-TCCG
* *
72305479 GACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATTCCG
* *
72305519 GGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCCG
* *
72305558 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCG
1 GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-TCCG
*
72305598 GGCTATGTCCGAAGGCATTTG
1 GGCTAAGTCCGAAGGCATTTG
72305619 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
39 49 0.41
40 60 0.50
41 11 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCCG
Found at i:72305636 original size:79 final size:78
Alignment explanation
Indices: 72305488--72305651 Score: 197
Period size: 79 Copynumber: 2.1 Consensus size: 78
72305478 GGACTAAGAT
* ** *
72305488 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
72305553 ATCCGGGTTAAGTC
66 ATCC-GGTTAAATC
* * *
72305567 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATTTGAACGAG-GAGCT
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGA-CT
* *
72305630 ATATCCGGTTAAATT
64 AAATCCGGTTAAATC
72305645 CCGAAGG
1 CCGAAGG
72305652 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
78 17 0.23
79 56 0.77
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGTTAAATC
Found at i:72313454 original size:79 final size:81
Alignment explanation
Indices: 72313318--72313502 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
72313308 TTGAACGATG
*
72313318 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGATCAAATCCGGACTAAGATCCGAAGGCATT
72313382 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * **
72313397 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGATC-AAATCCGGACTAAGAT-CCGAAGGC
*
72313458 ATTTGTGCGAGTTACTATA
63 ATTTGTGCGAGATACTATA
* *
72313477 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
72313503 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGATCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:72313516 original size:40 final size:40
Alignment explanation
Indices: 72313319--72313502 Score: 209
Period size: 40 Copynumber: 4.6 Consensus size: 40
72313309 TGAACGATGT
* * *
72313319 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT-ATAA
* * *
72313359 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
72313399 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
72313437 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
72313478 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
72313503 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 16
0.83 0.07 0.11
Matches are distributed among these distances:
39 35 0.28
40 80 0.63
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:72313524 original size:79 final size:79
Alignment explanation
Indices: 72313371--72313535 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
72313361 GGACTAAGAT
* ** *
72313371 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
72313436 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
72313450 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-C
* *
72313513 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
72313529 CCGAAGG
1 CCGAAGG
72313536 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:72322614 original size:24 final size:25
Alignment explanation
Indices: 72322575--72322632 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 25
72322565 AACTCCTTCT
72322575 GAGCTGATAAACAGTAAGCTCTGAC
1 GAGCTGATAAACAGTAAGCTCTGAC
* * *
72322600 GAGCTGA-GAACAGTAAGCTCTTAT
1 GAGCTGATAAACAGTAAGCTCTGAC
72322624 GAGCTGATA
1 GAGCTGATA
72322633 TATCGGTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (25 bp):
GAGCTGATAAACAGTAAGCTCTGAC
Found at i:72322653 original size:26 final size:23
Alignment explanation
Indices: 72322575--72322653 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 23
72322565 AACTCCTTCT
72322575 GAGCTGATAAACAGTAAGCTCTGAC
1 GAGCTGAT-AACAGTAAGCTCT-AC
* *
72322600 GAGCTGAGAACAGTAAGCTCTTAT
1 GAGCTGATAACAGTAAGCTC-TAC
*
72322624 GAGCTGATATATCGGTAAGCTCATAC
1 GAGCTGATA-A-CAGTAAGCTC-TAC
72322650 GAGC
1 GAGC
72322654 CGCGGTGAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 21 0.47
25 9 0.20
26 15 0.33
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (23 bp):
GAGCTGATAACAGTAAGCTCTAC
Found at i:72330215 original size:48 final size:48
Alignment explanation
Indices: 72330139--72330284 Score: 211
Period size: 48 Copynumber: 3.0 Consensus size: 48
72330129 TTTGGCTATC
* * **
72330139 GGCACCGATATGCGATCCCATGTAAGACCACGTCTGGGACATGGCATT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATT
* **
72330187 GGCATCGATATGTGATCCCATGTAAGACCATATCTAGGACATGATATT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATT
* *
72330235 GGCATCGATATGTGATCCCATGTAAGACCATATCCGGGATATGGCATT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATT
72330283 GG
1 GG
72330285 TATTCTACCA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (48 bp):
GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATT
Found at i:72340544 original size:13 final size:13
Alignment explanation
Indices: 72340505--72340535 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
72340495 TCTATTTTCA
72340505 CACGGCCGTATCG
1 CACGGCCGTATCG
*
72340518 CACGACCGTATCG
1 CACGGCCGTATCG
72340531 CACGG
1 CACGG
72340536 TCGTGTCGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.19, C:0.39, G:0.29, T:0.13
Consensus pattern (13 bp):
CACGGCCGTATCG
Found at i:72347792 original size:39 final size:40
Alignment explanation
Indices: 72347697--72347926 Score: 272
Period size: 40 Copynumber: 5.8 Consensus size: 40
72347687 TTGAATGATG
* * * * *
72347697 TCCGGGCTAAGTCCCGAAGGC-TTT-TTCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
72347736 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
72347776 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
72347815 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
72347855 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
72347896 -CCGGGCTATGTCCCGAAGGCATTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
72347927 GAGCTATATC
Statistics
Matches: 168, Mismatches: 17, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
39 52 0.31
40 112 0.67
41 4 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:72355793 original size:40 final size:40
Alignment explanation
Indices: 72355646--72355869 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
72355636 TTGAATGATG
* * * *
72355646 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * * *
72355685 TCTGGACTAAGAT-CCAAAGACATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
72355725 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
72355764 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
72355804 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
72355845 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
72355870 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 41 0.26
40 109 0.69
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:72355887 original size:80 final size:80
Alignment explanation
Indices: 72355719--72355902 Score: 223
Period size: 80 Copynumber: 2.3 Consensus size: 80
72355709 TGTGCGAGAT
* * *
72355719 ACTAATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAG
** *
72355783 GCATTTGTGCGAGTT
66 GCATTTGAACGAGTG
* *
72355798 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAA
72355862 GGCATTTGAACGAG-G
65 GGCATTTGAACGAGTG
* * *
72355877 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
72355903 TACGTGATTT
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 30 0.33
80 59 0.65
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAG
GCATTTGAACGAGTG
Found at i:72358928 original size:16 final size:16
Alignment explanation
Indices: 72358909--72358940 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
72358899 AATTGTTTTA
72358909 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
72358925 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
72358941 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:72359212 original size:47 final size:46
Alignment explanation
Indices: 72359153--72359340 Score: 151
Period size: 47 Copynumber: 3.9 Consensus size: 46
72359143 AGTACACATA
72359153 GTAGCCTACACTTAGTACTACACATGTGACCTATCAATCTAGTACAC
1 GTAGCCTACACTTAGTACTACACATGTGACCTATCAATCT-GTACAC
* * * *
72359200 GTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACAC
1 GTAGCCTACACTTAGTACTACACATGTGACCTATCAATCTG-TACAC
* * * ** * ** *
72359247 GTAGTAGCCTGCAGTTACTACTACACATGTGATCGAAGTTAATGGGTACGCATA
1 ---GTAGCCTACACTTAGTACTACACATGTGA-CCTA-TCAATCTGTA--CA-C
* *
72359301 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCT
1 GTAGCCTACACTTAGTACTACACATGTGACCTATCAATCT
72359341 TGTGACAGCC
Statistics
Matches: 108, Mismatches: 24, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
46 1 0.01
47 41 0.38
49 4 0.04
50 27 0.25
51 30 0.28
52 3 0.03
53 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (46 bp):
GTAGCCTACACTTAGTACTACACATGTGACCTATCAATCTGTACAC
Found at i:72366260 original size:39 final size:40
Alignment explanation
Indices: 72366152--72366382 Score: 263
Period size: 40 Copynumber: 5.8 Consensus size: 40
72366142 TTGAATGATG
* * * * *
72366152 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCCAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGT-ACGAGTTACTAAA
* * * * *
72366192 TCCGGACTAAGAT-CCGAAGACATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
* *
72366232 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
*
72366271 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
*
72366311 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-AA
* *
72366352 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAG
72366383 GAGCTATATC
Statistics
Matches: 166, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.20
40 125 0.75
41 8 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:72366394 original size:80 final size:80
Alignment explanation
Indices: 72366191--72366409 Score: 225
Period size: 80 Copynumber: 2.8 Consensus size: 80
72366181 AAGTGACCAT
* * ** * *
72366191 ATCCGGACTAAGAT-CCGAAGACATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCA
*
72366253 TTGGTGCGAGTTACTAA
64 TTGGTACGAGTTACTAA
* * *
72366270 ATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
*
72366335 TGTACGAGTTACTATA
66 GGTACGAGTTACTA-A
* * * *
72366351 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
72366410 TACGTGATTT
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 57 0.47
80 59 0.49
81 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
GGTACGAGTTACTAA
Found at i:72369442 original size:16 final size:16
Alignment explanation
Indices: 72369423--72369454 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
72369413 AATTGTTTTA
72369423 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
72369439 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
72369455 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:72369726 original size:47 final size:46
Alignment explanation
Indices: 72369667--72369854 Score: 151
Period size: 47 Copynumber: 3.9 Consensus size: 46
72369657 AGTACACATA
72369667 GTAGCCTACACTTAGTACTACACATGTGACCTATCAATCTAGTACAC
1 GTAGCCTACACTTAGTACTACACATGTGACCTATCAATCT-GTACAC
* * * *
72369714 GTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACAC
1 GTAGCCTACACTTAGTACTACACATGTGACCTATCAATCTG-TACAC
* * * ** * ** *
72369761 GTAGTAGCCTGCAGTTACTACTACACATGTGATCGAAGTTAATGGGTACGCATA
1 ---GTAGCCTACACTTAGTACTACACATGTGA-CCTA-TCAATCTGTA--CA-C
* *
72369815 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCT
1 GTAGCCTACACTTAGTACTACACATGTGACCTATCAATCT
72369855 TGTGACAGCC
Statistics
Matches: 108, Mismatches: 24, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
46 1 0.01
47 41 0.38
49 4 0.04
50 27 0.25
51 30 0.28
52 3 0.03
53 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (46 bp):
GTAGCCTACACTTAGTACTACACATGTGACCTATCAATCTGTACAC
Found at i:72372242 original size:48 final size:48
Alignment explanation
Indices: 72372178--72372428 Score: 421
Period size: 48 Copynumber: 5.1 Consensus size: 48
72372168 AATATATATG
*
72372178 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
72372226 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
* *
72372274 TATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATAAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
72372322 TATGTGGTAAAGCCAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
1 TATGTGGT------AAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
72372376 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
72372424 TATGT
1 TATGT
72372429 ATGAGATATG
Statistics
Matches: 192, Mismatches: 5, Indels: 12
0.92 0.02 0.06
Matches are distributed among these distances:
48 146 0.76
54 46 0.24
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
Found at i:72372428 original size:17 final size:17
Alignment explanation
Indices: 72372406--72372445 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
72372396 CTAGTGTGAA
72372406 ATATGTATGAGATATGT
1 ATATGTATGAGATATGT
72372423 ATATGTATGAGATATGT
1 ATATGTATGAGATATGT
72372440 ATATGT
1 ATATGT
72372446 GGTAAAGCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (17 bp):
ATATGTATGAGATATGT
Found at i:72372429 original size:65 final size:65
Alignment explanation
Indices: 72372358--72372493 Score: 272
Period size: 65 Copynumber: 2.1 Consensus size: 65
72372348 CTAGTGTGAA
72372358 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
72372423 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
72372488 ATATGT
1 ATATGT
72372494 GGTAAAGTCG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 71 1.00
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (65 bp):
ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
Found at i:72372438 original size:113 final size:112
Alignment explanation
Indices: 72372304--72372541 Score: 361
Period size: 113 Copynumber: 2.1 Consensus size: 112
72372294 CTAGTGTGAA
* * *
72372304 ATATGTATAAGATATGTATATGTGGTA-AAGCCAAAGCCGAATGGCTAGTGTGAAATATGTATGA
1 ATATGTATATG-TATGGATATGT-ATATAAGCCAAAGCCGAATGGCTAGTGTGAAATATGTATGA
*
72372368 GATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
64 GATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
** **
72372417 ATATGTATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTATG-GATATGTATATAAGCCAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
72372482 ATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATATATGAG
65 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
72372530 ATATGTATATGT
1 ATATGTATATGT
72372542 GGTAAAGCTG
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
112 6 0.05
113 108 0.95
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (112 bp):
ATATGTATATGTATGGATATGTATATAAGCCAAAGCCGAATGGCTAGTGTGAAATATGTATGAGA
TATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
Found at i:72372475 original size:48 final size:48
Alignment explanation
Indices: 72372423--72372579 Score: 278
Period size: 48 Copynumber: 3.3 Consensus size: 48
72372413 TGAGATATGT
72372423 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
*
72372471 ATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
* *
72372519 ATATATATGAGATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
*
72372567 ATATGTAGGAGAT
1 ATATGTATGAGAT
72372580 GTGTGTATAT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 103 1.00
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.32
Consensus pattern (48 bp):
ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
Found at i:72372530 original size:161 final size:162
Alignment explanation
Indices: 72372256--72372579 Score: 542
Period size: 161 Copynumber: 2.0 Consensus size: 162
72372246 CTAGTGTGAA
*
72372256 ATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATAAGATATGT
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATAAGATATGT
*
72372321 ATATGTGGTAAAGCCAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
66 ATATGTGGT--A---AAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAA
*
72372386 AGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
126 AGCCGAATGGCTAGTGTGAAATATGTAGGAGATATGT
*
72372423 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATAAGATATGT
* *
72372488 ATATGTGGT-AAAGTCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCTG
66 ATATGTGGTAAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
72372552 AATGGCTAGTGTGAAATATGTAGGAGAT
131 AATGGCTAGTGTGAAATATGTAGGAGAT
72372580 GTGTGTATAT
Statistics
Matches: 151, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
161 79 0.52
167 72 0.48
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (162 bp):
ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATAAGATATGT
ATATGTGGTAAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
AATGGCTAGTGTGAAATATGTAGGAGATATGT
Found at i:72372775 original size:37 final size:37
Alignment explanation
Indices: 72372720--72372822 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
72372710 GGAAATATAT
72372720 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
72372757 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
72372794 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
72372823 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:72378849 original size:26 final size:26
Alignment explanation
Indices: 72378813--72378865 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
72378803 CAAAGTTTTA
72378813 ACTTAATTTCATCAAAACCTTGTTCC
1 ACTTAATTTCATCAAAACCTTGTTCC
72378839 ACTTAATTTCATCAAAACCTTGTTCC
1 ACTTAATTTCATCAAAACCTTGTTCC
72378865 A
1 A
72378866 AGGCTTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (26 bp):
ACTTAATTTCATCAAAACCTTGTTCC
Found at i:72382797 original size:210 final size:210
Alignment explanation
Indices: 72382332--72383329 Score: 1205
Period size: 210 Copynumber: 4.7 Consensus size: 210
72382322 AAATCTGCTT
* ** *
72382332 CTTCGATTTGTTTTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGGCGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * * * *
72382397 GTGAAAGCTAAATCAGCTATGTCTTTGATTTGCTCCTTG--TAATGACA-AG-GATGCCAA-ATC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAAT-ACAGAGAGAT---AAGATC
* * * * * *
72382457 ---C-TCTTGGATCTTGTTTCAGTC-TAATCGTCTGAAGGTCAGATCTACTATGTATCTGCAC-T
127 TGTCATCTTGGATC-TGCTTCAG-CGTAAACATCTGAAAGTGAGATCTACTATGTGTCTGC-CTT
* ** *
72382516 CTATTGAAGTAGAGATGCCAGA
189 CCATCAAAGTAGAAATGCCAGA
* * * * *
72382538 ATTTGATTTGTTCTCTGACAATGCAGAGACGAAAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGGCGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
72382603 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
* * * *
72382668 ATCTTGGATCTACTTCAACATAAACATCTGAAAGTGAGATCTGCTATGTGTCTGCCTTCCATCAA
131 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAAGTGAGATCTACTATGTGTCTGCCTTCCATCAA
72382733 AGTAGAAATGCCAGA
196 AGTAGAAATGCCAGA
* *
72382748 CTTCGATTTGTTCTCTGACAATAAAGAGGCGACAAATCATCTTAGATTTGCTTCACCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGGCGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
72382813 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCTGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
72382878 ATCTTGGATCTGCTTCAGCGTAAACATCT-AAAGGTGAGATCTACTATGTGTCTGCCTTCCATCA
131 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAA-GTGAGATCTACTATGTGTCTGCCTTCCATCA
*
72382942 AAGTGGAAATGCCAGA
195 AAGTAGAAATGCCAGA
* *
72382958 CTTTGATTTGTTCTCTGACAATACAGAGGCGACAAATCATCTTAGATTTGCTTCATCATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGGCGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
72383023 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
* * * * *
72383088 ATCTTGGATCTGCTTCAGCGTAAACACCTGAAGGTGAGATCTGCTATGTGTCTACCTTCCATTAA
131 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAAGTGAGATCTACTATGTGTCTGCCTTCCATCAA
*
72383153 AGTGGAAATGCTAAACTTCGATTGGAAATGCTAAA
196 AGTAGAAATG-----C--C--------A-G----A
* * *
72383188 CTTCGATTTGTTCTCTGACAATAAAGAGGCAACAAATCATCTTAGATTTGCTTCATCATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGGCGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
72383253 GTGAAAGCCAAATCA-CTATATC-TCTGATCTGCTCCCTGTCGAATTCAGAGAGATAAGATCTGT
66 GTGAAAGCCAAATCAGCTATATCTTC-GATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGT
*
72383316 CATCTTAGATCTGC
130 CATCTTGGATCTGC
72383330 CCCGATGAAG
Statistics
Matches: 701, Mismatches: 57, Indels: 45
0.87 0.07 0.06
Matches are distributed among these distances:
206 93 0.13
207 6 0.01
208 5 0.01
209 8 0.01
210 438 0.62
211 11 0.02
215 1 0.00
217 1 0.00
225 1 0.00
226 1 0.00
228 2 0.00
229 56 0.08
230 78 0.11
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (210 bp):
CTTCGATTTGTTCTCTGACAATACAGAGGCGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
ATCTTGGATCTGCTTCAGCGTAAACATCTGAAAGTGAGATCTACTATGTGTCTGCCTTCCATCAA
AGTAGAAATGCCAGA
Found at i:72383180 original size:20 final size:20
Alignment explanation
Indices: 72383155--72383195 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
72383145 TCCATTAAAG
72383155 TGGAAATGCTAAACTTCGAT
1 TGGAAATGCTAAACTTCGAT
72383175 TGGAAATGCTAAACTTCGAT
1 TGGAAATGCTAAACTTCGAT
72383195 T
1 T
72383196 TGTTCTCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (20 bp):
TGGAAATGCTAAACTTCGAT
Found at i:72386286 original size:17 final size:17
Alignment explanation
Indices: 72386264--72386307 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
72386254 TAGCATGTAC
72386264 TGTCTTAATCTTCGAGT
1 TGTCTTAATCTTCGAGT
72386281 TGTCTTAATCTTCGAGT
1 TGTCTTAATCTTCGAGT
*
72386298 TGTCTAAATC
1 TGTCTTAATC
72386308 AGCGCACAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (17 bp):
TGTCTTAATCTTCGAGT
Found at i:72391402 original size:14 final size:15
Alignment explanation
Indices: 72391355--72391404 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
72391345 ATAACTTTGA
*
72391355 ATGCAAATG-ATGTG
1 ATGCAAATGCATGAG
72391369 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
72391384 ATGCAAATGCATG-G
1 ATGCAAATGCATGAG
72391398 ATGCAAA
1 ATGCAAA
72391405 AAAGAATATC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 11 0.34
15 10 0.31
16 6 0.19
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:72394114 original size:64 final size:64
Alignment explanation
Indices: 72394034--72394217 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
72394024 AGACATTATG
* *
72394034 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
72394098 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
72394163 AA
63 AA
* * * *
72394165 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
72394218 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:72398837 original size:7 final size:7
Alignment explanation
Indices: 72398827--72398851 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
72398817 AAATATAAAA
72398827 AATTAAT
1 AATTAAT
72398834 AATTAAT
1 AATTAAT
72398841 AATTAAT
1 AATTAAT
72398848 AATT
1 AATT
72398852 TAAAATGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTAAT
Found at i:72401180 original size:3 final size:3
Alignment explanation
Indices: 72401156--72401203 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
72401146 TTATTATGAC
*
72401156 ATT A-T ATT A-T ATT AAT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
72401201 ATT
1 ATT
72401204 TTAAGTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 5 0.12
3 35 0.88
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:72417529 original size:55 final size:54
Alignment explanation
Indices: 72417429--72417675 Score: 240
Period size: 55 Copynumber: 4.6 Consensus size: 54
72417419 TTAATGGTAC
* * *
72417429 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTT-TCTAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGGCAAGGATAT
* * *
72417484 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGG-TCT
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGC-AAGGATAT
* * * *
72417539 CATGTAAGACCGTGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGGATAT
* * * *
72417592 CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-T-CAA---AAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGGATAT
* * * *
72417641 CACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAG
72417676 GTACCCGCAT
Statistics
Matches: 165, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 40 0.24
52 6 0.04
53 43 0.26
54 8 0.05
55 64 0.39
56 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGGATAT
Found at i:72417627 original size:108 final size:110
Alignment explanation
Indices: 72417429--72417628 Score: 316
Period size: 108 Copynumber: 1.8 Consensus size: 110
72417419 TTAATGGTAC
*
72417429 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
*
72417494 CATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCT
66 CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCT
* * *
72417539 CATGTAAGACCGTGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGA
*
72417601 CCATGTCAAGACATGGCAATGGTAAGTT
65 CCATGTCAAGACATGGCAATGATAAGTT
72417629 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.58
109 7 0.08
110 25 0.30
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCT
Found at i:72419358 original size:3 final size:3
Alignment explanation
Indices: 72419350--72419393 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
72419340 AGAGGTCATA
72419350 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
72419394 CGTAAGAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:72422745 original size:16 final size:16
Alignment explanation
Indices: 72422724--72422756 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
72422714 GCAAAGCTAG
*
72422724 TGAGGCATACATTTGA
1 TGAGGCATACACTTGA
72422740 TGAGGCATACACTTGA
1 TGAGGCATACACTTGA
72422756 T
1 T
72422757 ATAAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (16 bp):
TGAGGCATACACTTGA
Found at i:72424138 original size:12 final size:12
Alignment explanation
Indices: 72424123--72424149 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
72424113 ATTCATATAA
72424123 TAATAATTTTAT
1 TAATAATTTTAT
72424135 TAATAATTTTAT
1 TAATAATTTTAT
72424147 TAA
1 TAA
72424150 ATTATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TAATAATTTTAT
Found at i:72424182 original size:58 final size:59
Alignment explanation
Indices: 72424092--72424258 Score: 188
Period size: 58 Copynumber: 2.9 Consensus size: 59
72424082 TTTTTATAGT
72424092 ATTATATATTATGATTTT-TT-AATTCATA--TAATAATAATTTTATTAATAATTTTA-TTAA
1 ATTATATATTAT--TTTTATTAAATT-ATATTTAATAATAATTTTATTAA-AATTTTAGTTAA
* *
72424150 ATTATATATTA-TTTTATTAAATTATATTTAATAATAATTATGA-TAAAA-TATAGTTAA
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAATT-TTATTAAAATTTTAGTTAA
* * *
72424207 ATTATTTATTATTTTTATTAAATTATTTTTAATAATAATCTTATTAAAATTT
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAATTTTATTAAAATTT
72424259 AATAACAATA
Statistics
Matches: 93, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
55 4 0.04
56 8 0.09
57 22 0.24
58 56 0.60
59 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (59 bp):
ATTATATATTATTTTTATTAAATTATATTTAATAATAATTTTATTAAAATTTTAGTTAA
Found at i:72424398 original size:44 final size:46
Alignment explanation
Indices: 72424344--72424437 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 46
72424334 TTTACAACAT
* *
72424344 CATTCTATTCAACCAAACACA-AGAA-TACT-ATTACAGTTCTATTC
1 CATTCCATTCAACCAAACA-ATAGAATTACTGATTACAGTTCTATTA
* *
72424388 CATTCCATTCAATCAAACAATTGAATTACTGATTACAGTTCTATTA
1 CATTCCATTCAACCAAACAATAGAATTACTGATTACAGTTCTATTA
72424434 CATT
1 CATT
72424438 ACAACTCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 20 0.47
45 4 0.09
46 18 0.42
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.35
Consensus pattern (46 bp):
CATTCCATTCAACCAAACAATAGAATTACTGATTACAGTTCTATTA
Found at i:72424479 original size:16 final size:16
Alignment explanation
Indices: 72424445--72424490 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
72424435 ATTACAACTC
* * *
72424445 TATTCAATTATAATTT
1 TATTCAATTACAGTCT
72424461 TATTCAATTACAGTCT
1 TATTCAATTACAGTCT
*
72424477 TATTCTATTACAGT
1 TATTCAATTACAGT
72424491 GATCCAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.50
Consensus pattern (16 bp):
TATTCAATTACAGTCT
Found at i:72424674 original size:22 final size:23
Alignment explanation
Indices: 72424633--72424675 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
72424623 CCATGCAGAG
72424633 ACCACCCCACCCACCCCCAAACC
1 ACCACCCCACCCACCCCCAAACC
*
72424656 ACCACCCC-CCCCCCCCCAAA
1 ACCACCCCACCCACCCCCAAA
72424676 AAAAAATAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.28, C:0.72, G:0.00, T:0.00
Consensus pattern (23 bp):
ACCACCCCACCCACCCCCAAACC
Found at i:72426362 original size:41 final size:40
Alignment explanation
Indices: 72426305--72426388 Score: 150
Period size: 41 Copynumber: 2.1 Consensus size: 40
72426295 GGACAGCATA
*
72426305 AACTATTTAGTCAAGCATGAAGCAGATATATAAATGTAAAG
1 AACTATTTAGTCAAGCATGAAGCAGATA-ATAAATGCAAAG
72426346 AACTATTTAGTCAAGCATGAAGCAGATAATAAATGCAAAG
1 AACTATTTAGTCAAGCATGAAGCAGATAATAAATGCAAAG
72426386 AAC
1 AAC
72426389 ATCATGCACA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 14 0.33
41 28 0.67
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.24
Consensus pattern (40 bp):
AACTATTTAGTCAAGCATGAAGCAGATAATAAATGCAAAG
Found at i:72428311 original size:22 final size:22
Alignment explanation
Indices: 72428286--72428328 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
72428276 TAATAAAAAG
72428286 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
72428308 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
72428329 CACTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:72432044 original size:22 final size:22
Alignment explanation
Indices: 72432019--72432061 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
72432009 TAATAAAAAG
72432019 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
72432041 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
72432062 CAGGTCTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:72438007 original size:23 final size:23
Alignment explanation
Indices: 72437981--72438052 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 23
72437971 TATAAAATAA
72437981 TAAATATGAATTTAAATAATATT
1 TAAATATGAATTTAAATAATATT
72438004 TAAAT-T-AA-TTAAATTATGATATT
1 TAAATATGAATTTAAA-TA--ATATT
* * *
72438027 TGAATATGAATATAAAAAATAATT
1 TAAATATGAATTTAAATAAT-ATT
72438051 TA
1 TA
72438053 TTATTACTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
20 5 0.13
21 4 0.11
22 1 0.03
23 16 0.42
24 5 0.13
25 3 0.08
26 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (23 bp):
TAAATATGAATTTAAATAATATT
Found at i:72438623 original size:20 final size:21
Alignment explanation
Indices: 72438576--72438623 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
72438566 GGTTAAACAT
72438576 TTCAAA-ATTATCAAATAATG
1 TTCAAATATTATCAAATAATG
* * *
72438596 TCCAAATATTTTCAAA-AGTG
1 TTCAAATATTATCAAATAATG
72438616 TTCAAATA
1 TTCAAATA
72438624 AAAGTTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.35
Consensus pattern (21 bp):
TTCAAATATTATCAAATAATG
Found at i:72443766 original size:12 final size:13
Alignment explanation
Indices: 72443749--72443777 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
72443739 GATGGACAAA
72443749 AATT-GGCTTTTT
1 AATTGGGCTTTTT
72443761 AATTGGGCTTTTT
1 AATTGGGCTTTTT
72443774 AATT
1 AATT
72443778 CATTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (13 bp):
AATTGGGCTTTTT
Found at i:72446030 original size:27 final size:27
Alignment explanation
Indices: 72445934--72446051 Score: 98
Period size: 27 Copynumber: 4.3 Consensus size: 27
72445924 ATAGAGGCTG
*
72445934 TTCA-TTCATAATCCGCCACAAAGGGTAT
1 TTCATTTCATAATTCGCCACAAA-GGT-T
* * * * *
72445962 TTCCTTTCATAATTCACCACGCAAGCTA
1 TTCATTTCATAATTCGCCAC-AAAGGTT
*
72445990 TTCTTTTCA-AGATTCGCCACAAAGGTT
1 TTCATTTCATA-ATTCGCCACAAAGGTT
*
72446017 TTCATTTCATGATTCGCCACAAAGGCTT
1 TTCATTTCATAATTCGCCACAAAGG-TT
72446045 TTC-TTTC
1 TTCATTTC
72446052 TTGACATGTT
Statistics
Matches: 72, Mismatches: 13, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
27 31 0.43
28 24 0.33
29 15 0.21
30 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (27 bp):
TTCATTTCATAATTCGCCACAAAGGTT
Found at i:72448023 original size:27 final size:27
Alignment explanation
Indices: 72447967--72448067 Score: 150
Period size: 27 Copynumber: 3.8 Consensus size: 27
72447957 TCTCACCCCT
* * *
72447967 ATTTTACTCCCAGTAAAA-TTTTGACA
1 ATTTTACCCCCGGTAAAATTTTTAACA
72447993 ATTTTACCCCCGGTAAAATTTTTAACA
1 ATTTTACCCCCGGTAAAATTTTTAACA
72448020 ATTTTACCCCCGGTAAAATTTTTAACA
1 ATTTTACCCCCGGTAAAATTTTTAACA
**
72448047 ATTTTACCCTAGGTAAAATTT
1 ATTTTACCCCCGGTAAAATTT
72448068 CAAAAAAATA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
26 16 0.23
27 53 0.77
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.39
Consensus pattern (27 bp):
ATTTTACCCCCGGTAAAATTTTTAACA
Found at i:72453446 original size:22 final size:22
Alignment explanation
Indices: 72453421--72453480 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
72453411 TTAAAATTTT
72453421 TAAAAAATAATATTAAAAGAAA
1 TAAAAAATAATATTAAAAGAAA
*
72453443 TAAAATAA-AATA-T-AAAGAAT
1 TAAAA-AATAATATTAAAAGAAA
*
72453463 TAAAAAAATTATATTAAA
1 T-AAAAAATAATATTAAA
72453481 TAAAACACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
20 9 0.29
21 8 0.26
22 10 0.32
23 4 0.13
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (22 bp):
TAAAAAATAATATTAAAAGAAA
Found at i:72455590 original size:6 final size:6
Alignment explanation
Indices: 72455579--72455604 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
72455569 TTATCAAAAT
72455579 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
72455605 GGAGAGGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:72460093 original size:13 final size:13
Alignment explanation
Indices: 72460075--72460099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72460065 ATATGCTTTA
72460075 CTTTTTTTTTTTT
1 CTTTTTTTTTTTT
72460088 CTTTTTTTTTTT
1 CTTTTTTTTTTT
72460100 GGGGCGTAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
CTTTTTTTTTTTT
Found at i:72472142 original size:24 final size:24
Alignment explanation
Indices: 72472091--72472147 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
72472081 TTTTTTTTAT
* * *
72472091 TAAATAAA-AAATTTTAAATATAA
1 TAAATAAATACATTTAAAACATAA
72472114 TAAATCAAATACATTTAAAACATAA
1 TAAAT-AAATACATTTAAAACATAA
72472139 -AAATAAATA
1 TAAATAAATA
72472148 TTAAAACAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 10 0.34
24 7 0.24
25 12 0.41
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (24 bp):
TAAATAAATACATTTAAAACATAA
Found at i:72472904 original size:53 final size:53
Alignment explanation
Indices: 72472842--72472950 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
72472832 AAAACAATGA
* *
72472842 CTAAATAATAATTAGTGCACCACCGACATCATCTTCTTATTGGTGTCTTTTGT
1 CTAAATAATAATTAATGCACCACCGACATCATCTCCTTATTGGTGTCTTTTGT
*
72472895 CTAAATAATAATTAATGGACCACCGACATCATCTCCTTATTGGTGTCTTTTGT
1 CTAAATAATAATTAATGCACCACCGACATCATCTCCTTATTGGTGTCTTTTGT
72472948 CTA
1 CTA
72472951 TGATATTATG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.39
Consensus pattern (53 bp):
CTAAATAATAATTAATGCACCACCGACATCATCTCCTTATTGGTGTCTTTTGT
Found at i:72477230 original size:22 final size:21
Alignment explanation
Indices: 72477183--72477253 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 21
72477173 TCTTTATTTG
*
72477183 TTTATTATTATTTTTTAA-ATT
1 TTTATTATTATTTTATAATA-T
72477204 GTTTATTATTTATTTTATAATAT
1 -TTTATTA-TTATTTTATAATAT
* *
72477227 TTTA--AATGTTTTATAATAT
1 TTTATTATTATTTTATAATAT
72477246 TTT-TTATT
1 TTTATTATT
72477254 CAAACTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 15 0.37
20 3 0.07
22 11 0.27
23 11 0.27
24 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTATTATTATTTTATAATAT
Found at i:72477233 original size:31 final size:29
Alignment explanation
Indices: 72477183--72477338 Score: 78
Period size: 31 Copynumber: 5.2 Consensus size: 29
72477173 TCTTTATTTG
* *
72477183 TTTATTATTATTTTTTAAATTGTTTATTA
1 TTTATTTTTATATTTTAAATTGTTTATTA
72477212 TTTATTTTATAATATTTTAAA-TG-TT-TTA
1 TTTATTTT-T-ATATTTTAAATTGTTTATTA
* *
72477240 TAATATTTTT-TA-TTCAAACTT-TTT-TT-
1 T-TTATTTTTATATTTTAAA-TTGTTTATTA
*
72477266 TTTGAAATTTTTATTTTTTAAAATTGTTTATTA
1 TTT---ATTTTTATATTTT-AAATTGTTTATTA
*
72477299 TTTGTTTTATAATATTTTAAA-TGTTTTATAATA
1 TTTATTTT-T-ATATTTTAAATTG-TTTAT--TA
72477332 TTTATTT
1 TTTATTT
72477339 ATTCAAACAT
Statistics
Matches: 97, Mismatches: 10, Indels: 36
0.68 0.07 0.25
Matches are distributed among these distances:
25 6 0.06
26 3 0.03
27 5 0.05
28 11 0.11
29 16 0.16
30 13 0.13
31 24 0.25
32 8 0.08
33 11 0.11
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (29 bp):
TTTATTTTTATATTTTAAATTGTTTATTA
Found at i:72477238 original size:9 final size:10
Alignment explanation
Indices: 72477214--72477248 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
72477204 GTTTATTATT
72477214 TATTTTATAA
1 TATTTTATAA
72477224 TATTTTA-AA
1 TATTTTATAA
*
72477233 TGTTTTATAA
1 TATTTTATAA
72477243 TATTTT
1 TATTTT
72477249 TTATTCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (10 bp):
TATTTTATAA
Found at i:72477282 original size:16 final size:16
Alignment explanation
Indices: 72477259--72477302 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
72477249 TTATTCAAAC
72477259 TTTT-TTTTTTGAAAT
1 TTTTATTTTTTGAAAT
*
72477274 TTTTATTTTTTAAAAT
1 TTTTATTTTTTGAAAT
*
72477290 TGTTTATTATTTG
1 T-TTTATTTTTTG
72477303 TTTTATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 4 0.17
16 11 0.46
17 9 0.38
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (16 bp):
TTTTATTTTTTGAAAT
Found at i:72477293 original size:87 final size:85
Alignment explanation
Indices: 72477190--72477435 Score: 333
Period size: 81 Copynumber: 2.9 Consensus size: 85
72477180 TTGTTTATTA
*
72477190 TTATTTTTT-AAATTGTTTATTATTTATTTTATAATATTTTAAATGTTTTATAATATTT-TTTAT
1 TTATTTTTTAAAATTGTTTATTATTTGTTTTATAATATTTTAAATGTTTTATAATATTTATTTAT
*
72477253 TCAAACTTTTTTTTTTGAAATTT
66 TCAAAC-TTTTTTTTT-AAA-AT
72477276 TTATTTTTTAAAATTGTTTATTATTTGTTTTATAATATTTTAAATGTTTTATAATATTTATTTAT
1 TTATTTTTTAAAATTGTTTATTATTTGTTTTATAATATTTTAAATGTTTTATAATATTTATTTAT
*
72477341 TCAAAC---ATTTTTAAAAT
66 TCAAACTTTTTTTTTAAAAT
* * * * *
72477358 TTA-TTTATAAAATTGTTTATTATTTGCTTTATAATATTTTAAATGTTTTGTAATATTTGTCTAT
1 TTATTTTTTAAAATTGTTTATTATTTGTTTTATAATATTTTAAATGTTTTATAATATTTATTTAT
* *
72477422 TAAAACGTTTTTTT
66 TCAAACTTTTTTTT
72477436 AATTTATTTA
Statistics
Matches: 145, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
81 61 0.42
82 4 0.03
83 3 0.02
84 9 0.06
86 9 0.06
87 48 0.33
88 11 0.08
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (85 bp):
TTATTTTTTAAAATTGTTTATTATTTGTTTTATAATATTTTAAATGTTTTATAATATTTATTTAT
TCAAACTTTTTTTTTAAAAT
Found at i:72477458 original size:69 final size:66
Alignment explanation
Indices: 72477385--72477586 Score: 275
Period size: 65 Copynumber: 3.0 Consensus size: 66
72477375 TATTATTTGC
* *
72477385 TTTATAATATTTTAAATGTTTTGTAATATTTGTCTATTAAAACGTTTTTTTAATTTATTTATAAT
1 TTTATAATATTTTAAATGTTTT-TAATATTTGTTTATTCAAACG-TTTTTTAATTTATTTATAAT
72477450 TTAT
64 TT-T
* *
72477454 TTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAACGTTTTTTAATTTGTTTATTA-T
1 TTTATAATATTTTAAATGTTTT-TAATATTTGTTTATTCAAACGTTTTTTAATTTATTTATAATT
72477518 TT
65 TT
* *
72477520 TTTATAAT-TTTTAAATATTTTTAAATATTTGTTTATTCAAACATTTTTTAATTATATTTA-AAT
1 TTTATAATATTTTAAATGTTTTT-AATATTTGTTTATTCAAACGTTTTTTAATT-TATTTATAAT
72477583 TTT
64 TTT
72477586 T
1 T
72477587 AAAAAATAAC
Statistics
Matches: 121, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
64 1 0.01
65 42 0.35
66 18 0.15
67 2 0.02
68 17 0.14
69 41 0.34
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (66 bp):
TTTATAATATTTTAAATGTTTTTAATATTTGTTTATTCAAACGTTTTTTAATTTATTTATAATTT
T
Found at i:72477466 original size:10 final size:10
Alignment explanation
Indices: 72477451--72477484 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
72477441 ATTTATAATT
72477451 TATTTTATAA
1 TATTTTATAA
72477461 TATTTTA-AA
1 TATTTTATAA
*
72477470 TGTTTTATAA
1 TATTTTATAA
72477480 TATTT
1 TATTT
72477485 GTTTATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TATTTTATAA
Found at i:72477529 original size:10 final size:10
Alignment explanation
Indices: 72477429--72477531 Score: 50
Period size: 10 Copynumber: 9.5 Consensus size: 10
72477419 TATTAAAACG
72477429 TTTTTT-TAA
1 TTTTTTATAA
72477438 TTTATTTATAA
1 TTT-TTTATAA
72477449 TTTATTTTATAA
1 -TT-TTTTATAA
*
72477461 TATTTTA-AA
1 TTTTTTATAA
*
72477470 TGTTTTATAATA
1 TTTTTTAT-A-A
72477482 TTTGTTTATTCAAA
1 TTT-TTTA-T--AA
*
72477496 CGTTTTT-TAA
1 -TTTTTTATAA
*
72477506 TTTGTTTATTA
1 TTT-TTTATAA
72477517 TTTTTTATAA
1 TTTTTTATAA
72477527 TTTTT
1 TTTTT
72477532 AAATATTTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 25
0.70 0.07 0.24
Matches are distributed among these distances:
9 13 0.18
10 24 0.32
11 10 0.14
12 13 0.18
13 5 0.07
14 5 0.07
15 4 0.05
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:72477555 original size:65 final size:65
Alignment explanation
Indices: 72477370--72477572 Score: 257
Period size: 69 Copynumber: 3.0 Consensus size: 65
72477360 ATTTATAAAA
* *
72477370 TTGTTTATTATTTGCTTTATAATATTTTAAATGTTTTGT-AATATTTGTCTATTAAAACGTTTTT
1 TTGTTTATTATTT--TTTATAATATTTTAAAT-TTTT-TAAATATTTGTTTATTCAAACG-TTTT
72477434 TTAAT
61 TTAAT
* * *
72477439 TTATTTATAATTTATTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAACGTTTTTT
1 TTGTTTATTA-TT-TTTTATAATATTTTAAATTTTTTA-AATATTTGTTTATTCAAACGTTTTTT
72477504 AAT
63 AAT
*
72477507 TTGTTTATTATTTTTTATAAT-TTTTAAATATTTTTAAATATTTGTTTATTCAAACATTTTTTAA
1 TTGTTTATTATTTTTTATAATATTTTAAAT-TTTTTAAATATTTGTTTATTCAAACGTTTTTTAA
72477571 T
65 T
72477572 T
1 T
72477573 ATATTTAAAT
Statistics
Matches: 120, Mismatches: 9, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
65 37 0.31
66 14 0.12
67 3 0.03
68 20 0.17
69 43 0.36
70 2 0.02
71 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.61
Consensus pattern (65 bp):
TTGTTTATTATTTTTTATAATATTTTAAATTTTTTAAATATTTGTTTATTCAAACGTTTTTTAAT
Found at i:72481567 original size:20 final size:20
Alignment explanation
Indices: 72481542--72481632 Score: 77
Period size: 20 Copynumber: 4.8 Consensus size: 20
72481532 ACAATTGTTT
72481542 TTAATTTTATTTTATAGTTA
1 TTAATTTTATTTTATAGTTA
* *
72481562 TTAATTTTGTTTT-TA-TTG
1 TTAATTTTATTTTATAGTTA
* *
72481580 TGT--TTTAAAGTTTATAG-T-
1 T-TAATTT-TATTTTATAGTTA
72481598 TTAATTTTATTTTATAGTTA
1 TTAATTTTATTTTATAGTTA
*
72481618 TTTATTTTATTTTAT
1 TTAATTTTATTTTAT
72481633 CTTTTAAGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
17 4 0.07
18 15 0.27
19 10 0.18
20 26 0.47
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
TTAATTTTATTTTATAGTTA
Found at i:72482731 original size:15 final size:15
Alignment explanation
Indices: 72482711--72482741 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
72482701 CTTTGAAGAA
72482711 TGTGATTTTTAATGT
1 TGTGATTTTTAATGT
72482726 TGTGATTTTTAATGT
1 TGTGATTTTTAATGT
72482741 T
1 T
72482742 CTCTTGCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (15 bp):
TGTGATTTTTAATGT
Found at i:72486652 original size:25 final size:25
Alignment explanation
Indices: 72486624--72486698 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
72486614 AAAATATTAT
72486624 AAAACAAATAATAAAGAAATAAAGA
1 AAAACAAATAATAAAGAAATAAAGA
* *
72486649 AAAATAAATAATAAACAAATAAAGA
1 AAAACAAATAATAAAGAAATAAAGA
* * *
72486674 AAAGCAAATAAAAAAGCAAAAAAAG
1 AAAACAAATAATAAAG-AAATAAAG
72486699 GACAAAAGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 35 0.83
26 7 0.17
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (25 bp):
AAAACAAATAATAAAGAAATAAAGA
Found at i:72489442 original size:42 final size:42
Alignment explanation
Indices: 72489391--72489489 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 42
72489381 ACACGGCCAG
* * * *
72489391 GACATATGCTCGTGTTCTAGGTCGTGTGACACACACAGCTGA
1 GACACATGCTCGTGTTCTAGGCCGTGTGACACACACAACTAA
72489433 GACACATGCTCGTGTTCTAGGCCGTGTGACACACACAACTAA
1 GACACATGCTCGTGTTCTAGGCCGTGTGACACACACAACTAA
* *
72489475 GACACACGCCCGTGT
1 GACACATGCTCGTGT
72489490 CTCTGCCCGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (42 bp):
GACACATGCTCGTGTTCTAGGCCGTGTGACACACACAACTAA
Found at i:72500941 original size:25 final size:24
Alignment explanation
Indices: 72500903--72500954 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
72500893 GCTATTAATA
*
72500903 GGAAGCTCGCAAGAACTATAAAACG
1 GGAAGCTCACAAGAACTA-AAAACG
* * *
72500928 GGAAGCTCATAAGAGCTAATAACG
1 GGAAGCTCACAAGAACTAAAAACG
72500952 GGA
1 GGA
72500955 CACTCTTTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.42, C:0.17, G:0.27, T:0.13
Consensus pattern (24 bp):
GGAAGCTCACAAGAACTAAAAACG
Found at i:72502774 original size:25 final size:25
Alignment explanation
Indices: 72502746--72502796 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
72502736 TTTAAATGTC
72502746 CAATTCTAATTATACGAACTTACCT
1 CAATTCTAATTATACGAACTTACCT
72502771 CAATTCTAATTATACGAACTTACCT
1 CAATTCTAATTATACGAACTTACCT
72502796 C
1 C
72502797 GTATCGCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.35
Consensus pattern (25 bp):
CAATTCTAATTATACGAACTTACCT
Found at i:72503745 original size:8 final size:8
Alignment explanation
Indices: 72503732--72503758 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
72503722 GCTTAAACTT
72503732 TAATAAAA
1 TAATAAAA
72503740 TAATAAAA
1 TAATAAAA
72503748 TAATAAAA
1 TAATAAAA
72503756 TAA
1 TAA
72503759 ATATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
TAATAAAA
Found at i:72514526 original size:6 final size:6
Alignment explanation
Indices: 72514515--72514571 Score: 114
Period size: 6 Copynumber: 9.5 Consensus size: 6
72514505 TTCTCACGAC
72514515 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
72514563 ATGAAG ATG
1 ATGAAG ATG
72514572 GAGAGAAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.33, T:0.18
Consensus pattern (6 bp):
ATGAAG
Found at i:72516257 original size:24 final size:24
Alignment explanation
Indices: 72516230--72516287 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
72516220 TATTTGGAGG
*
72516230 TTCCCGA-TATGGTTCTTTATGAAC
1 TTCCCGATTATGGCTC-TTATGAAC
** *
72516254 TTCCATATTATGGCTCTTATGAGC
1 TTCCCGATTATGGCTCTTATGAAC
72516278 TTCCCG-TTAT
1 TTCCCGATTAT
72516288 ATAGCCCGGA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
23 4 0.15
24 16 0.59
25 7 0.26
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (24 bp):
TTCCCGATTATGGCTCTTATGAAC
Found at i:72519174 original size:40 final size:39
Alignment explanation
Indices: 72519099--72519194 Score: 95
Period size: 40 Copynumber: 2.4 Consensus size: 39
72519089 CTATCTAAGT
* * * *
72519099 ATCGCACACTTAGTGCCTCATATAGCCGAAGCTATTCCAT
1 ATCGCACACTTAGTG-CTCATATAACCAAAACTATTCCAA
* *
72519139 TTCGCACACTTAGTGCT-ATTTATAACCAAAACTATTTCAA
1 ATCGCACACTTAGTGCTCA--TATAACCAAAACTATTCCAA
*
72519179 ATCACACACTTAGTGC
1 ATCGCACACTTAGTGC
72519195 CGAACATTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 43 0.93
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.30
Consensus pattern (39 bp):
ATCGCACACTTAGTGCTCATATAACCAAAACTATTCCAA
Found at i:72523127 original size:29 final size:29
Alignment explanation
Indices: 72523064--72523131 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
72523054 TAATCAACCA
72523064 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
72523093 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
72523122 CGCACACTTA
1 CGCACACTTA
72523132 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:72523273 original size:29 final size:30
Alignment explanation
Indices: 72523239--72523311 Score: 107
Period size: 29 Copynumber: 2.5 Consensus size: 30
72523229 AATCAACCGT
*
72523239 GCACACTTAGTGCCATGTAC-TTTAAACTC
1 GCACACTTAGTGCCATGTACATTTAAACCC
72523268 GCACACTTAGTG-C-TGTACAATTTAAACCC
1 GCACACTTAGTGCCATGTAC-ATTTAAACCC
72523297 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
72523312 ATCTCATGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 5 0.13
28 1 0.03
29 32 0.82
30 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (30 bp):
GCACACTTAGTGCCATGTACATTTAAACCC
Found at i:72525854 original size:32 final size:33
Alignment explanation
Indices: 72525816--72525895 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 33
72525806 ATTACATCTT
* *
72525816 TTAAATAAACATAATTA-TTCAACTAATATATC
1 TTAAATAAACATAATTATTTAAACTAAAATATC
* * * * *
72525848 TTAAATAAATATAACTATTTAAAGTAAAATCTT
1 TTAAATAAACATAATTATTTAAACTAAAATATC
72525881 TTAAATAAACATAAT
1 TTAAATAAACATAAT
72525896 ATTACTTGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
32 15 0.39
33 23 0.61
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.38
Consensus pattern (33 bp):
TTAAATAAACATAATTATTTAAACTAAAATATC
Found at i:72527194 original size:42 final size:42
Alignment explanation
Indices: 72527136--72527226 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
72527126 GGTGCATAGG
72527136 ACACACGGCCAAAACACATGCCCATAAGCCAGGCCGTGTGTC
1 ACACACGGCCAAAACACATGCCCATAAGCCAGGCCGTGTGTC
* *
72527178 ACACACGGCCAAAACACATGCCCATATGCTAGGCCGTGTGTC
1 ACACACGGCCAAAACACATGCCCATAAGCCAGGCCGTGTGTC
72527220 ACACACG
1 ACACACG
72527227 ATCAAGACAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.31, C:0.35, G:0.21, T:0.13
Consensus pattern (42 bp):
ACACACGGCCAAAACACATGCCCATAAGCCAGGCCGTGTGTC
Found at i:72527237 original size:42 final size:42
Alignment explanation
Indices: 72527136--72527242 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 42
72527126 GGTGCATAGG
*
72527136 ACACACGGCCAAAACACATGCCCATAAGCCAGGCCGTGTGTC
1 ACACACGACCAAAACACATGCCCATAAGCCAGGCCGTGTGTC
* * *
72527178 ACACACGGCCAAAACACATGCCCATATGCTAGGCCGTGTGTC
1 ACACACGACCAAAACACATGCCCATAAGCCAGGCCGTGTGTC
* * *
72527220 ACACACGATCAAGACACACGCCC
1 ACACACGACCAAAACACATGCCC
72527243 GTGTGTCTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.32, C:0.36, G:0.20, T:0.12
Consensus pattern (42 bp):
ACACACGACCAAAACACATGCCCATAAGCCAGGCCGTGTGTC
Found at i:72529173 original size:24 final size:23
Alignment explanation
Indices: 72529146--72529194 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
72529136 TTTTGGAGAA
72529146 TTTTTATGTTTATGTTTTGAGGGT
1 TTTTTATGTTTATGTTTT-AGGGT
* *
72529170 TTTTTATTTTTGTGTTTTAGGGT
1 TTTTTATGTTTATGTTTTAGGGT
72529193 TT
1 TT
72529195 AGTTTTTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.10, C:0.00, G:0.22, T:0.67
Consensus pattern (23 bp):
TTTTTATGTTTATGTTTTAGGGT
Found at i:72530908 original size:16 final size:16
Alignment explanation
Indices: 72530887--72530917 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
72530877 TTGTTGAGTG
72530887 TGACTCATATTTCAGA
1 TGACTCATATTTCAGA
72530903 TGACTCATATTTCAG
1 TGACTCATATTTCAG
72530918 TTAAATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (16 bp):
TGACTCATATTTCAGA
Found at i:72534413 original size:27 final size:27
Alignment explanation
Indices: 72534379--72534431 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
72534369 CTAAATCCGA
72534379 TAAAAACCTTAG-GATTTCATTAAAATT
1 TAAAAACCTTAGAG-TTTCATTAAAATT
*
72534406 TAAAAACCTTATAGTTTCATTAAAAT
1 TAAAAACCTTAGAGTTTCATTAAAAT
72534432 GTAACACCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (27 bp):
TAAAAACCTTAGAGTTTCATTAAAATT
Found at i:72535573 original size:152 final size:153
Alignment explanation
Indices: 72535334--72535631 Score: 365
Period size: 152 Copynumber: 2.0 Consensus size: 153
72535324 TTTAAAAAAT
*
72535334 CACTATTTTTTTTAAAAAATCAGAACTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTTACTT
1 CACTATTTTTTTTAAAAAATCAGAACTTTATTTCGAAATAGTTGAAAAAAATCAAAACTTTACTT
* *
72535399 TAAAAAATCTAACTTTTCCTTTAAAATGACT-AAAAATCA-AATTTTTATTTTAAAAATCTAAAC
66 TAAAAAATCTAAATTTTCCTTTAAAATGACTAAAAAAACAGAATTTTTATTTTAAAAATCTAAAC
*
72535462 TCTCTTTTTTTTAAAAAAAAACA
131 TCTCTTTTTTCTAAAAAAAAACA
* * *
72535485 CACTATTTTTTCTT-AAAGATCA-AAGCTTTTATTTTGAAATAGTTGAAAAAAAATCAAACCTTT
1 CACTATTTTTT-TTAAAAAATCAGAA-C-TTTATTTCGAAATAGTTG-AAAAAAATCAAAACTTT
* * * * ** * *
72535548 -GTTTTAAAATTTTAAAATTTT-CTTTAAAATGACTAAAAAAACAGTTTTTTTGTTTTTAAAATC
62 ACTTTAAAAAATCT-AAATTTTCCTTTAAAATGACTAAAAAAACAGAATTTTTATTTTAAAAATC
*
72535611 TAAACTTTCTTTTTTCTAAAA
126 TAAACTCTCTTTTTTCTAAAA
72535632 GAAATTAAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
150 2 0.02
151 19 0.15
152 41 0.33
153 28 0.23
154 34 0.27
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (153 bp):
CACTATTTTTTTTAAAAAATCAGAACTTTATTTCGAAATAGTTGAAAAAAATCAAAACTTTACTT
TAAAAAATCTAAATTTTCCTTTAAAATGACTAAAAAAACAGAATTTTTATTTTAAAAATCTAAAC
TCTCTTTTTTCTAAAAAAAAACA
Found at i:72540217 original size:34 final size:34
Alignment explanation
Indices: 72540174--72540242 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
72540164 CTAATTTGCC
72540174 AATTTTTTAAGCAAATGGGGTAAAATGCAATCTG
1 AATTTTTTAAGCAAATGGGGTAAAATGCAATCTG
72540208 AATTTTTTAAGCAAATGGGGTAAAATGCAATCTG
1 AATTTTTTAAGCAAATGGGGTAAAATGCAATCTG
72540242 A
1 A
72540243 CTCTTAATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (34 bp):
AATTTTTTAAGCAAATGGGGTAAAATGCAATCTG
Found at i:72543857 original size:30 final size:31
Alignment explanation
Indices: 72543817--72543879 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
72543807 ACACCTCTAC
* *
72543817 CAGTGCCTTAAAT-AAAATTTTTAAATAGTT
1 CAGTGACTTAAATGAAAATTTTTAAATAATT
72543847 CAGTGACTTAAATGAAAATTTTTAAATAATT
1 CAGTGACTTAAATGAAAATTTTTAAATAATT
72543878 CA
1 CA
72543880 ATGATCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (31 bp):
CAGTGACTTAAATGAAAATTTTTAAATAATT
Found at i:72548566 original size:26 final size:26
Alignment explanation
Indices: 72548537--72548590 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
72548527 CATCTTCTTT
72548537 CTCTCTTTCTCAGGCAAATCTCATTC
1 CTCTCTTTCTCAGGCAAATCTCATTC
72548563 CTCTCTTTCTCAGGCAAATCTCATTC
1 CTCTCTTTCTCAGGCAAATCTCATTC
72548589 CT
1 CT
72548591 TTTCGCAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.35, G:0.07, T:0.39
Consensus pattern (26 bp):
CTCTCTTTCTCAGGCAAATCTCATTC
Found at i:72562640 original size:51 final size:51
Alignment explanation
Indices: 72562554--72562671 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
72562544 TGAGTACTTC
* *
72562554 TGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
* *
72562605 TGATAAGTGACAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
* *
72562656 TGACAAGTGATAAATG
1 TGATAAGTGACAAATG
72562672 TGATCAGTGT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
TGATAAGTGACAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
Found at i:72564171 original size:24 final size:25
Alignment explanation
Indices: 72564126--72564172 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
72564116 ATTTATATGA
*
72564126 TAAATAAATTAGTACAAATGTATAG
1 TAAATAAAATAGTACAAATGTATAG
*
72564151 TAAATAAAATA-TACAAGTGTAT
1 TAAATAAAATAGTACAAATGTAT
72564173 GGATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.32
Consensus pattern (25 bp):
TAAATAAAATAGTACAAATGTATAG
Found at i:72564179 original size:25 final size:26
Alignment explanation
Indices: 72564119--72564179 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
72564109 ATAAGATATT
*
72564119 TATATGATAAATAAATTAGTACAAATG
1 TATA-GATAAATAAAATAGTACAAATG
*
72564146 TATAG-TAAATAAAATA-TACAAGTG
1 TATAGATAAATAAAATAGTACAAATG
*
72564170 TATGGATAAA
1 TATAGATAAA
72564180 AATACATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 11 0.37
25 14 0.47
26 1 0.03
27 4 0.13
ACGTcount: A:0.52, C:0.03, G:0.13, T:0.31
Consensus pattern (26 bp):
TATAGATAAATAAAATAGTACAAATG
Found at i:72564259 original size:22 final size:22
Alignment explanation
Indices: 72564213--72564259 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
72564203 TATTAGATAT
**
72564213 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
72564235 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
72564257 TAA
1 TAA
72564260 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:72566450 original size:23 final size:23
Alignment explanation
Indices: 72566337--72566451 Score: 90
Period size: 23 Copynumber: 4.9 Consensus size: 23
72566327 CGAAATACAA
*
72566337 CTCTTCGTGAGCTTCCCAATAGG
1 CTCTTCGTGAGCTTCCCGATAGG
* *
72566360 CTCTTTGTGAGCCTCCCGATAGTG
1 CTCTTCGTGAGCTTCCCGATAG-G
* * *
72566384 CTC-GCTTGAACTTCCCGTTATATGG
1 CTCTTCGTGAGCTTCCCG--ATA-GG
* * *
72566409 CTATCCG-AAGCTTCCCGATAGG
1 CTCTTCGTGAGCTTCCCGATAGG
*
72566431 CTCTTCGTGAGCTTCACGATA
1 CTCTTCGTGAGCTTCCCGATA
72566452 TGGATCTTTG
Statistics
Matches: 69, Mismatches: 17, Indels: 12
0.70 0.17 0.12
Matches are distributed among these distances:
22 7 0.10
23 42 0.61
24 4 0.06
25 14 0.20
26 2 0.03
ACGTcount: A:0.17, C:0.30, G:0.22, T:0.31
Consensus pattern (23 bp):
CTCTTCGTGAGCTTCCCGATAGG
Found at i:72566464 original size:24 final size:23
Alignment explanation
Indices: 72566417--72566464 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
72566407 GGCTATCCGA
* *
72566417 AGCTTCCCGATAGGCTCTTCGTG
1 AGCTTCACGATAGGATCTTCGTG
*
72566440 AGCTTCACGATATGGATCTTTGTG
1 AGCTTCACGATA-GGATCTTCGTG
72566464 A
1 A
72566465 ACTACCTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (23 bp):
AGCTTCACGATAGGATCTTCGTG
Found at i:72566894 original size:46 final size:46
Alignment explanation
Indices: 72566837--72567018 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
72566827 AGTGTGCTCT
* * *
72566837 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
72566883 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
72566929 GTGACATGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
72566975 ATGACA-GAAAACGAGTAAGACCATAGTTGAAAGATACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
72567019 TCATGTCGAA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 121 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:72571294 original size:21 final size:21
Alignment explanation
Indices: 72571269--72571317 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
72571259 TATATACTCG
*
72571269 TAATATATAAAAACATATATA
1 TAATATATAAAAACATATACA
*
72571290 TAATAT-T-AAAACATTTACA
1 TAATATATAAAAACATATACA
72571309 TAATATATA
1 TAATATATA
72571318 TACATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 16 0.67
20 2 0.08
21 6 0.25
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATATATAAAAACATATACA
Found at i:72571415 original size:23 final size:22
Alignment explanation
Indices: 72571368--72571418 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
72571358 AACAATACTA
*
72571368 ATAT-TACATAAAGATATACCT
1 ATATATACATAAAGATATAACT
72571389 ATATATACATTAAAGATATATAC-
1 ATATATACA-TAAAGATATA-ACT
72571412 ATATATA
1 ATATATA
72571419 AAAAACATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 4 0.15
22 4 0.15
23 17 0.65
24 1 0.04
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATATACATAAAGATATAACT
Found at i:72572158 original size:14 final size:14
Alignment explanation
Indices: 72572139--72572167 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
72572129 TGAGTCGGCA
72572139 GAAGGCAAGTGGGG
1 GAAGGCAAGTGGGG
72572153 GAAGGCAAGTGGGG
1 GAAGGCAAGTGGGG
72572167 G
1 G
72572168 CTGATTGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.59, T:0.07
Consensus pattern (14 bp):
GAAGGCAAGTGGGG
Found at i:72573044 original size:160 final size:161
Alignment explanation
Indices: 72572824--72573509 Score: 728
Period size: 160 Copynumber: 4.2 Consensus size: 161
72572814 TGATCTTGAG
* * * ***
72572824 CTCA-CTCTCGCAATATGAGTTGGTCTTTTGGAAACTTAATTTGAAAAGTAGCTTTTGAAAATAC
1 CTCACCTCTCGCAATATGAGTTGAT-TTTT-GAAACATAATTTGAAAAATAGAAATTGAAAATAC
* * **
72572888 CTCGATATATGACCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA
64 CTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA
* * *
72572953 TTGAAAATACATCAGC-GTGTCCTGAGGCTAAA
129 TTGAAAATACCTCAGCAGTGGCCTGAGGCTCAA
* * **
72572985 CTCACTTCTCGCAATATGAGTTGATTTTTGAAACAGAATTTGAAAAATAGATTTTGAAAATACCT
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAATTTGAAAAATAGAAATTGAAAATACCT
* *
72573050 CGACATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG--AAACATAAATT
66 CGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATT
* * *
72573113 GAAAATACCTCAACA-TGTCTTGAGGCTCAA
131 GAAAATACCTCAGCAGTGGCCTGAGGCTCAA
* * * *
72573143 CTCACCTCTCTCAATATGAGTTGATTTTTGACAAACGAAAATTTGAGAAAACAGAAACTGAAAAT
1 CTCACCTCTCGCAATATGAGTTGATTTTTG--AAAC-ATAATTTGA-AAAATAGAAATTGAAAAT
* * *
72573208 ACCTCGACATGTGAGCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAACAGAAT
62 ACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AC-----
* *
72573273 TTGAAAAACAGAATTTGAAAATACCTC-GACATGTGGCCCGAGGCTCAA
120 -----AAACAGAAATTGAAAATACCTCAG-CA-GTGGCCTGAGGCTCAA
* *
72573321 CTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATT-AAAATATAAAAATTGAAAATACC
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAATTTGAAAA-ATAGAAATTGAAAATACC
* *
72573385 TC-AGA-GTG-CCTCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA
65 TCGACATGTGACC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA
* *
72573447 CTGAAAATACCTCGGCATGTGAGCC-GAGGCTCAA
129 TTGAAAATACCTCAGCA-GTG-GCCTGAGGCTCAA
* *
72573481 CTCACCTCTTGCAGTATGAGTTGATTTTT
1 CTCACCTCTCGCAATATGAGTTGATTTTT
72573510 TTGAAAGACA
Statistics
Matches: 452, Mismatches: 46, Indels: 55
0.82 0.08 0.10
Matches are distributed among these distances:
158 63 0.14
160 147 0.33
161 20 0.04
162 84 0.19
170 2 0.00
171 1 0.00
172 40 0.09
173 5 0.01
174 18 0.04
175 5 0.01
176 26 0.06
178 41 0.09
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (161 bp):
CTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAATTTGAAAAATAGAAATTGAAAATACCT
CGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATT
GAAAATACCTCAGCAGTGGCCTGAGGCTCAA
Found at i:72573158 original size:71 final size:72
Alignment explanation
Indices: 72573038--72573173 Score: 211
Period size: 71 Copynumber: 1.9 Consensus size: 72
72573028 AAAATAGATT
* *
72573038 TTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 TTGAAAATACCTCAACATGT-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
72573103 AACATAAA
65 AACATAAA
** *
72573111 TTGAAAATACCTCAACATGT-CTTGAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTGA
1 TTGAAAATACCTCAACATGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
72573174 CAAACGAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 39 0.67
73 19 0.33
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (72 bp):
TTGAAAATACCTCAACATGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
ACATAAA
Found at i:72573281 original size:14 final size:14
Alignment explanation
Indices: 72573264--72573293 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
72573254 TTGATTTTTG
72573264 AAACAGAATTTGAA
1 AAACAGAATTTGAA
72573278 AAACAGAATTTGAA
1 AAACAGAATTTGAA
72573292 AA
1 AA
72573294 TACCTCGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (14 bp):
AAACAGAATTTGAA
Found at i:72573321 original size:87 final size:87
Alignment explanation
Indices: 72573102--72573445 Score: 421
Period size: 87 Copynumber: 3.9 Consensus size: 87
72573092 TTGATTTTTG
* * ** *
72573102 AAACATAAATTGAAAATACCTCAACATGT-CTTGAGGCTCAACTCACCTCTCTCAATATGAGTTG
1 AAACAGAAATTGAAAATACCTCGACATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
72573166 ATTTTTGACAAACGAAAATTTGAGA
66 ATTTTTGA-AAAC-AGAATTTGA-A
* * * *
72573191 AAACAGAAACTGAAAATACCTCGACATGTGAGCCAAGGCTCAACTCACCTCTCACAATATGAGTT
1 AAACAGAAATTGAAAATACCTCGACATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
72573256 GATTTTTG-AAACAGAATTTGAA
65 GATTTTTGAAAACAGAATTTGAA
*
72573278 AAACAGAATTTGAAAATACCTCGACATGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCGACATGT-GCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
72573343 GATTTTTG-AAACATAAATT-AA
65 GATTTTTGAAAACAGAATTTGAA
* * * *
72573364 AATATAAAAATTGAAAATACCTC-AGA-GTGCCTCGAGACTCAACTCACCTCTCGCAATATGAGT
1 AA-ACAGAAATTGAAAATACCTCGACATGTGCC-CGAGGCTCAACTCACCTCTCGCAATATGAGT
72573427 TGATTTTTGACAAACAGAA
64 TGATTTTTGA-AAACAGAA
72573446 ACTGAAAATA
Statistics
Matches: 226, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
84 3 0.01
85 41 0.18
86 6 0.03
87 100 0.44
88 9 0.04
89 30 0.13
91 37 0.16
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.26
Consensus pattern (87 bp):
AAACAGAAATTGAAAATACCTCGACATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGAAAACAGAATTTGAA
Found at i:72585967 original size:21 final size:21
Alignment explanation
Indices: 72585943--72585991 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
72585933 TATATACTCG
* *
72585943 TAATATATAAAAACGTATATA
1 TAATATATAAAAACATATACA
*
72585964 TAATAT-T-AAAACATTTACA
1 TAATATATAAAAACATATACA
72585983 TAATATATA
1 TAATATATA
72585992 TACATAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 15 0.65
20 2 0.09
21 6 0.26
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATATATAAAAACATATACA
Found at i:72586083 original size:15 final size:16
Alignment explanation
Indices: 72586063--72586092 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
72586053 AGATATACCT
72586063 ATATATACAT-TAAAG
1 ATATATACATATAAAG
72586078 ATATATACATATAAA
1 ATATATACATATAAA
72586093 AAAACATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (16 bp):
ATATATACATATAAAG
Found at i:72586089 original size:23 final size:22
Alignment explanation
Indices: 72586042--72586090 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
72586032 AACAATACTA
*
72586042 ATAT-TACATAAAGATATACCT
1 ATATATACATAAAGATATAACT
72586063 ATATATACATTAAAGATATATAC-
1 ATATATACA-TAAAGATATA-ACT
72586086 ATATA
1 ATATA
72586091 AAAAAACATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 4 0.17
22 4 0.17
23 15 0.62
24 1 0.04
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATATACATAAAGATATAACT
Found at i:72586257 original size:28 final size:28
Alignment explanation
Indices: 72586217--72586278 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
72586207 ATGAGTAAAA
*
72586217 ATAATATACATAATAATAAGAAAATATT
1 ATAATATACATAATAAGAAGAAAATATT
72586245 ATAATATACATAATAAGAAGAAAATATT
1 ATAATATACATAATAAGAAGAAAATATT
72586273 ATAATA
1 ATAATA
72586279 AGTACTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (28 bp):
ATAATATACATAATAAGAAGAAAATATT
Found at i:72587220 original size:34 final size:34
Alignment explanation
Indices: 72587158--72587226 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 34
72587148 AAAAATTTGT
*
72587158 TTGTTTTTTTATTATTTTTTACGTTTTATA-ATA
1 TTGTTTTTTTATTATTATTTACGTTTTATAGATA
*
72587191 TTGTTTTTTTACTTA-TATTTATGTGTTTATAGATA
1 TTGTTTTTTTA-TTATTATTTACGT-TTTATAGATA
72587226 T
1 T
72587227 AGAAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 18 0.58
34 9 0.29
35 4 0.13
ACGTcount: A:0.22, C:0.03, G:0.09, T:0.67
Consensus pattern (34 bp):
TTGTTTTTTTATTATTATTTACGTTTTATAGATA
Found at i:72587580 original size:15 final size:15
Alignment explanation
Indices: 72587562--72587591 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
72587552 TGAGTCGGCA
72587562 GAAGGCAAGTGGGGG
1 GAAGGCAAGTGGGGG
72587577 GAAGGCAAGTGGGGG
1 GAAGGCAAGTGGGGG
72587592 CTGATTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.60, T:0.07
Consensus pattern (15 bp):
GAAGGCAAGTGGGGG
Found at i:72588609 original size:41 final size:38
Alignment explanation
Indices: 72588506--72588613 Score: 114
Period size: 37 Copynumber: 2.8 Consensus size: 38
72588496 AATTTAAAAT
*
72588506 AATAAATTGACACCAAGTGTCTCAT-TGACTAAACCGA
1 AATAAATTGACACCCAGTGTCTCATCTGACTAAACCGA
* * *
72588543 AATAAATTGGCACCCAGTG-CGTCATCTGATTAATCCGA
1 AATAAATTGACACCCAGTGTC-TCATCTGACTAAACCGA
*
72588581 AGTAGTAAATTAACACCCAGTGTCTCATC-GACT
1 A--A-TAAATTGACACCCAGTGTCTCATCTGACT
72588614 TGAAGTCGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
36 1 0.02
37 21 0.36
38 11 0.19
40 4 0.07
41 20 0.34
42 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (38 bp):
AATAAATTGACACCCAGTGTCTCATCTGACTAAACCGA
Found at i:72591339 original size:30 final size:30
Alignment explanation
Indices: 72591305--72591368 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
72591295 CCTTAACTCT
*
72591305 AACTTTAGAAAAATTACAATTTTGCCCCTA
1 AACTTTAGAAAAATTACAATTTTGCCCCAA
* * * * *
72591335 AACTTTTGCATATTTACACTTTTGCCCCAA
1 AACTTTAGAAAAATTACAATTTTGCCCCAA
72591365 AACT
1 AACT
72591369 CAAAAATTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.36
Consensus pattern (30 bp):
AACTTTAGAAAAATTACAATTTTGCCCCAA
Found at i:72592237 original size:178 final size:179
Alignment explanation
Indices: 72592004--72592357 Score: 638
Period size: 178 Copynumber: 2.0 Consensus size: 179
72591994 CAACTTTTGC
** *
72592004 AATTAAGTCCTCGTAGGAAAATTATACATGCAATTCATGAAATTTTCTATCGATATTCTAACACA
1 AATTAAGTCCTAATAGGAAAATTAGACATGCAATTCATGAAATTTTCTATCGATATTCTAACACA
* *
72592069 TGCATCTAATCACTCAATAAATTAT-AAAATTAATCGGAATAAATTTTTCTACTTCAGAATTGTG
66 TGCATCTAATCACTCAATAAATTATAAAAATTAATCGGAATAAATTTTCCTACTTCAGAATAGTG
72592133 GTTTCAAAACCACTATTCCGTTTAGGCCCTAATTCGGGATATCACAACT
131 GTTTCAAAACCACTATTCCGTTTAGGCCCTAATTCGGGATATCACAACT
72592182 AATTAAGTCCTAATAGGAAAATTAGACATGCAATTCATGAAATTTTCTATCGATATTCTAACACA
1 AATTAAGTCCTAATAGGAAAATTAGACATGCAATTCATGAAATTTTCTATCGATATTCTAACACA
*
72592247 TGCATCTAATCACTCAATAAATTATAAAAATTAATCGGAATAAATTTTCCTACTTCAGAGTAGTG
66 TGCATCTAATCACTCAATAAATTATAAAAATTAATCGGAATAAATTTTCCTACTTCAGAATAGTG
*
72592312 GTTTCGAAACCACTATTCCGTTTAGGCCCTAATTCGGGATATCACA
131 GTTTCAAAACCACTATTCCGTTTAGGCCCTAATTCGGGATATCACA
72592358 GATTTGGCTC
Statistics
Matches: 168, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
178 87 0.52
179 81 0.48
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (179 bp):
AATTAAGTCCTAATAGGAAAATTAGACATGCAATTCATGAAATTTTCTATCGATATTCTAACACA
TGCATCTAATCACTCAATAAATTATAAAAATTAATCGGAATAAATTTTCCTACTTCAGAATAGTG
GTTTCAAAACCACTATTCCGTTTAGGCCCTAATTCGGGATATCACAACT
Found at i:72601301 original size:10 final size:11
Alignment explanation
Indices: 72601270--72601302 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
72601260 ATCAAAAGGG
72601270 TAAAAATATCA
1 TAAAAATATCA
72601281 T-AAAATATCA
1 TAAAAATATCA
72601291 TAAAAAT-TCA
1 TAAAAATATCA
72601301 TA
1 TA
72601303 TATTTTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (11 bp):
TAAAAATATCA
Found at i:72606802 original size:7 final size:7
Alignment explanation
Indices: 72606786--72606827 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
72606776 ATCAATTTCA
*
72606786 TTTCATT
1 TTTCACT
72606793 TTTCACT
1 TTTCACT
72606800 TTTCACT
1 TTTCACT
72606807 TTTCACT
1 TTTCACT
72606814 TTTCACT
1 TTTCACT
72606821 TTTCACT
1 TTTCACT
72606828 ATTATATCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTCACT
Found at i:72607453 original size:220 final size:220
Alignment explanation
Indices: 72607071--72607510 Score: 871
Period size: 220 Copynumber: 2.0 Consensus size: 220
72607061 TCAAAATTTC
72607071 CTCAATTGGTATCGATACCCCTTGAAGGTACTGATACCAAATTTAACTTCAATGTTTCATAAAAT
1 CTCAATTGGTATCGATACCCCTTGAAGGTACTGATACCAAATTTAACTTCAATGTTTCATAAAAT
72607136 TAAATTAAATCAAGAGCTATCAATACTAAACTTTAAGTACTAATACTTTCCTTTAGGTATAGATA
66 TAAATTAAATCAAGAGCTATCAATACTAAACTTTAAGTACTAATACTTTCCTTTAGGTATAGATA
*
72607201 GTGTTATTTGGTAATGTTACCATTTTAACATTCTGTTTTGTAACAATTTAAAGCCAAAGTTTAAT
131 GTGTTATTTGGTAATGATACCATTTTAACATTCTGTTTTGTAACAATTTAAAGCCAAAGTTTAAT
72607266 AGTATCGATACACATGTAATGTATT
196 AGTATCGATACACATGTAATGTATT
72607291 CTCAATTGGTATCGATACCCCTTGAAGGTACTGATACCAAATTTAACTTCAATGTTTCATAAAAT
1 CTCAATTGGTATCGATACCCCTTGAAGGTACTGATACCAAATTTAACTTCAATGTTTCATAAAAT
72607356 TAAATTAAATCAAGAGCTATCAATACTAAACTTTAAGTACTAATACTTTCCTTTAGGTATAGATA
66 TAAATTAAATCAAGAGCTATCAATACTAAACTTTAAGTACTAATACTTTCCTTTAGGTATAGATA
72607421 GTGTTATTTGGTAATGATACCATTTTAACATTCTGTTTTGTAACAATTTAAAGCCAAAGTTTAAT
131 GTGTTATTTGGTAATGATACCATTTTAACATTCTGTTTTGTAACAATTTAAAGCCAAAGTTTAAT
72607486 AGTATCGATACACATGTAATGTATT
196 AGTATCGATACACATGTAATGTATT
72607511 GATACCCTGA
Statistics
Matches: 219, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 219 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (220 bp):
CTCAATTGGTATCGATACCCCTTGAAGGTACTGATACCAAATTTAACTTCAATGTTTCATAAAAT
TAAATTAAATCAAGAGCTATCAATACTAAACTTTAAGTACTAATACTTTCCTTTAGGTATAGATA
GTGTTATTTGGTAATGATACCATTTTAACATTCTGTTTTGTAACAATTTAAAGCCAAAGTTTAAT
AGTATCGATACACATGTAATGTATT
Found at i:72608637 original size:29 final size:29
Alignment explanation
Indices: 72608595--72608655 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
72608585 ATTTTTCAGA
72608595 AAACTTAGCGCGGTTTCCTTAGGTTTATT
1 AAACTTAGCGCGGTTTCCTTAGGTTTATT
72608624 AAACTTAGCGCGGTTTCCTTAGGTTTATT
1 AAACTTAGCGCGGTTTCCTTAGGTTTATT
72608653 AAA
1 AAA
72608656 TACATCCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (29 bp):
AAACTTAGCGCGGTTTCCTTAGGTTTATT
Found at i:72622197 original size:38 final size:39
Alignment explanation
Indices: 72622146--72622222 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
72622136 TTCAAAAATT
*
72622146 TTAAATTGTTTAT-AT-AAACTTTAAAAATATAAAAAAAAA
1 TTAAATTGATTATAATAAAAC-TTAAAAAT-TAAAAAAAAA
*
72622185 TTAAATT-ATTATAATAAAACTTAAAACTTAAAAAAAAA
1 TTAAATTGATTATAATAAAACTTAAAAATTAAAAAAAAA
72622223 ATTTGACGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
38 14 0.41
39 16 0.47
40 4 0.12
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (39 bp):
TTAAATTGATTATAATAAAACTTAAAAATTAAAAAAAAA
Found at i:72622818 original size:13 final size:13
Alignment explanation
Indices: 72622802--72622846 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
72622792 ATCTAATATT
72622802 TATTAAAAATAAA
1 TATTAAAAATAAA
* *
72622815 TATTATTAAATTAA
1 TATTA-AAAATAAA
72622829 TATTAAAAATAAA
1 TATTAAAAATAAA
72622842 TATTA
1 TATTA
72622847 TATTAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATTAAAAATAAA
Found at i:72622822 original size:16 final size:16
Alignment explanation
Indices: 72622796--72622847 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
72622786 AATTTAATCT
72622796 AATATTTATTAAAAATA
1 AATA-TTATTAAAAATA
72622813 AATATTATT--AAAT-
1 AATATTATTAAAAATA
*
72622826 --TAATATTAAAAATA
1 AATATTATTAAAAATA
72622840 AATATTAT
1 AATATTAT
72622848 ATTAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 11
0.68 0.05 0.27
Matches are distributed among these distances:
11 6 0.21
13 4 0.14
14 4 0.14
16 10 0.36
17 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATTATTAAAAATA
Done.