Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 204 of 328
Found at i:61313014 original size:331 final size:328
Alignment explanation
Indices: 61312556--61313430 Score: 1018
Period size: 331 Copynumber: 2.8 Consensus size: 328
61312546 CAACTTATTT
*
61312556 CTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAA
1 CTCGCAATACGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAA
* * *
61312621 CTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTAAAGGCAGAAATTGAAAAATGGAAATTGAA
66 CTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAA
* ** ***
61312686 AATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTTTTGACA-
131 AATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA-AATTAAAACAT
* * * *
61312750 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
195 A-A-AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATAT-AGTTGATT
61312815 TTTTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAA
257 TTTTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAA
61312880 CTCGCCA
322 CTCGCCA
* * *
61312887 CTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACC-CAGCGTGTCCTGAGGCTC
1 CTCGCAATACGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTC
61312951 AACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTG
64 AACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTG
* *
61313015 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGAAATTAAAACA
129 AAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAAATTAAAACA
61313080 TAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATAGTTGATTTT
194 TAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATAGTTGATTTT
* * *
61313145 TTTG--A--C-----------AACAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACT
259 TTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACT
* *
61313193 CACCT
324 CGCCA
* * * ** *
61313198 CTCACAATATGAGTTG-ATTTTGAAAA-AG---TAGAAATTA--AAAG-GT-T--C-A-----AC
1 CTCGCAATACGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAA
* *
61313246 CT-ACCTCTCGCAATATGAGTTGA-----TTCTTGAACA-AC-GTAAATTG-AAAACAGAAATTG
66 CTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAA-AGACAG-AAATTGAAAAACGGAAATTG
* *
61313302 AAAATACCTC-A-GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACA
129 AAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAAATTAAAACA
*
61313365 CAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTT
194 TAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATAT-AGTTGATTT
61313430 T
258 T
61313431 GAAAAACAAA
Statistics
Matches: 498, Mismatches: 39, Indels: 59
0.84 0.07 0.10
Matches are distributed among these distances:
285 103 0.21
286 10 0.02
287 23 0.05
288 15 0.03
289 1 0.00
292 21 0.04
293 3 0.01
298 1 0.00
301 1 0.00
302 2 0.00
303 2 0.00
304 8 0.02
307 2 0.00
308 8 0.02
311 31 0.06
313 25 0.05
324 1 0.00
326 1 0.00
328 14 0.03
329 48 0.10
330 6 0.01
331 104 0.21
332 43 0.09
333 25 0.05
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (328 bp):
CTCGCAATACGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAA
CTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAA
AATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAAATTAAAACATA
AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATAGTTGATTTTTT
TGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCG
CCA
Found at i:61313188 original size:570 final size:557
Alignment explanation
Indices: 61312144--61313218 Score: 1267
Period size: 570 Copynumber: 1.9 Consensus size: 557
61312134 AAATTAAAAA
* * *
61312144 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAACAGAAATTGAAAATAGC
1 GCTCAACTCACCTCTCGCAATACGAGTTGAACTTTTTTG----AAAAACAGAAATTGAAAATACC
* * *
61312209 TCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTT
62 TCAG-ACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATT
* ** **
61312274 GAAAAATAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATGTGA
126 GAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGA
* * * *
61312339 GTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCAC
191 GTTGATTTTTTTGAAAAACAGAAATTG-AAAAATACCTCAGCGTGT-ACCTGAAGCTCAACTCAC
*
61312404 CTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGCTCAGCGCATGAGCCAA
254 CTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCGCATGAGCCAA
* * ** *
61312469 GGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTAAAAATACCTCAACG
319 GGCTCAACTCACCTCTCGCAATACAAGTTGA-TAATTGAAAACAAAAATTAAAAATACCTCAACG
* ** * ** *
61312534 TGTCTTGAGGCTCAACTTATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
383 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
*
61312599 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTAAAGGCAG
448 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTTTAAAGGCAG
61312664 AAATTGAAAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAG
513 AAATTGAAAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAG
* *
61312709 GCTCAACTCACCTCTCGCAATACGAGTTG-ACTTTTTTG-ACAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATACGAGTTGAACTTTTTTGAAAAACAGAAATTGAAAATACCTCAG
* * *
61312772 -CGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTG
66 ACGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAAAAATTG
* * * * * *
61312835 AAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCA-CTCGCAATACGA
127 AAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTC-ACATCTCGCAATACGA
* * *
61312899 GTTGATTTTTTTG-ACAACAGAAATTG-AAATTACC-CAGCGTGT-CCTGAGGCTCAACTCACCT
191 GTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTACCTGAAGCTCAACTCACCT
61312960 CTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTC
256 CTCGCAATATGAGTTGA--TTTTTTTG--A-A-AG--A-T-----A--GAAATTGAAAATACCTC
* ** * * *
61313025 GGCGTGTGA-CCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGA-AATT-AAAACATAAAAAT
305 AGCGCATGAGCC-AAGGCTCAACTCACCTCTCGCAATACAAGTTGATAATTGAAAAC--AAAAAT
* * * *
61313087 TGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATAT-AGTTGATTTTTTTGAC
367 TAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--ATTTTGAA
*
61313151 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGAT
430 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGAT
61313216 TTT
495 TTT
61313219 GAAAAAGTAG
Statistics
Matches: 430, Mismatches: 54, Indels: 47
0.81 0.10 0.09
Matches are distributed among these distances:
554 34 0.08
556 17 0.04
557 42 0.10
558 1 0.00
559 42 0.10
560 72 0.17
561 2 0.00
562 1 0.00
563 1 0.00
564 8 0.02
565 28 0.07
567 5 0.01
568 9 0.02
569 46 0.11
570 122 0.28
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (557 bp):
GCTCAACTCACCTCTCGCAATACGAGTTGAACTTTTTTGAAAAACAGAAATTGAAAATACCTCAG
ACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTGAAAA
ACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGAGTTGA
TTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTACCTGAAGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCGCATGAGCCAAGGCTCAA
CTCACCTCTCGCAATACAAGTTGATAATTGAAAACAAAAATTAAAAATACCTCAACGTGCCCCGA
GGCTCAACTCACCTCTAGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
GTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTTTAAAGGCAGAAATTGAA
AAATGGAAATTGAAAATACCTCGACGTGTGATCTGAG
Found at i:61313440 original size:72 final size:72
Alignment explanation
Indices: 61312994--61313448 Score: 319
Period size: 72 Copynumber: 6.3 Consensus size: 72
61312984 TTGAAAGACA
* * * * * *
61312994 GAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCA
1 GAAATTGAAAAACAGAAATTGAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTAGCA
*
61313059 ATACGAGTT
64 ATATGAGTT
* *
61313068 GAAATT-AAAACATAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
1 GAAATTGAAAA-ACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
61313132 TAT-AGTT
65 TATGAGTT
** * * * *
61313139 GATTTTTTTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCA-
1 GA---AATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCT-AG
61313202 CAATATGAGTT
62 CAATATGAGTT
** * *** * * * *** * ** * * *
61313213 GATTTTGAAAAAGTAGAAATT-AAAA-GGTTCAACCTACCTCTCGCAATATGAGTTGA-TTCTTG
1 GAAATTGAAAAA-CAGAAATTGAAAATACCTCAGCGTGCC-C-CG-AGGCTCAACTCACCTCTAG
*
61313275 -AACA--ACG-T
62 CAATATGA-GTT
* * *
61313283 -AAATTG-AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAAT
1 GAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
61313346 ATGAGTT
66 ATGAGTT
*
61313353 GAAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
1 GAAATTGAAAA-ACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
61313417 TATGAGTT
65 TATGAGTT
** *
61313425 GATTTTGAAAAACAAAAATT-AAAA
1 GAAATTGAAAAACAGAAATTGAAAA
61313449 GGCTTAACTC
Statistics
Matches: 291, Mismatches: 65, Indels: 53
0.71 0.16 0.13
Matches are distributed among these distances:
66 5 0.02
67 12 0.04
68 12 0.04
69 11 0.04
70 4 0.01
71 30 0.10
72 108 0.37
73 68 0.23
74 41 0.14
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (72 bp):
GAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTT
Found at i:61313593 original size:71 final size:71
Alignment explanation
Indices: 61313448--61313711 Score: 347
Period size: 70 Copynumber: 3.7 Consensus size: 71
61313438 AAAAATTAAA
* * * * * *
61313448 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACTTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
61313511 GCCCCG
66 GCCCCG
* *
61313517 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
61313582 GTCTTG
66 GCCCCG
* * *
61313588 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
61313651 TGCCCCG
65 TGCCCCG
*
61313658 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
61313712 GGCTTAATTC
Statistics
Matches: 166, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
69 31 0.19
70 61 0.37
71 57 0.34
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:61313669 original size:70 final size:69
Alignment explanation
Indices: 61313448--61313711 Score: 330
Period size: 71 Copynumber: 3.7 Consensus size: 69
61313438 AAAAATTAAA
* ** * * * *
61313448 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACTTCAGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
61313513 CCCG
66 CCCG
* * *
61313517 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTAAAAACAAAAATTAAAAATACCTCAGCGT
* **
61313582 GTCTTG
64 GCCCCG
* *
61313588 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAA-ACAAAAATTAAAAATACCTCAGCGTG
61313653 CCCCG
65 CCCCG
*
61313658 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-AAAAACAAAAATTAAAA
61313712 GGCTTAATTC
Statistics
Matches: 166, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
69 33 0.20
70 56 0.34
71 59 0.36
72 14 0.08
73 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (69 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
CCCG
Found at i:61313693 original size:263 final size:257
Alignment explanation
Indices: 61313286--61313878 Score: 1024
Period size: 257 Copynumber: 2.3 Consensus size: 257
61313276 ACAACGTAAA
* * * * * *
61313286 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
61313351 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
66 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
61313416 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
129 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
*
61313481 TTAAAACATAAACTAAAAATACTTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
194 TT-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
61313546 TGATT
253 TGATT
61313551 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
61313616 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
*
61313681 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAATTCACCTCTCGCAATATGAGTCAATTT
131 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
61313746 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
*
61313808 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
61313873 TTGATT
66 TTGATT
61313879 TTCCTTGAAA
Statistics
Matches: 318, Mismatches: 10, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
257 129 0.41
258 1 0.00
263 126 0.40
265 62 0.19
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (257 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:61318918 original size:12 final size:12
Alignment explanation
Indices: 61318898--61318933 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
61318888 TGGGATATGC
*
61318898 AATGTATGAATG
1 AATGCATGAATG
61318910 AATGCATGAATG
1 AATGCATGAATG
61318922 AATGCATGAATG
1 AATGCATGAATG
61318934 TCAAATGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:61320950 original size:35 final size:35
Alignment explanation
Indices: 61320886--61320953 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
61320876 ACACAATATG
* *
61320886 GTATTTAAAATATATATATATATGTATATATAATA
1 GTATTTAAAATATATACATATATGAATATATAATA
61320921 GTATTTAAGAATATATACATA-A-GAAATATATAA
1 GTATTTAA-AATATATACATATATG-AATATATAA
61320954 CTAATGGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 1 0.03
35 17 0.59
36 11 0.38
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (35 bp):
GTATTTAAAATATATACATATATGAATATATAATA
Found at i:61321546 original size:17 final size:17
Alignment explanation
Indices: 61321524--61321559 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
61321514 TTGGGGTAAG
61321524 TTTTTCTTT-TTCTTTTT
1 TTTTTCTTTGTT-TTTTT
61321541 TTTTTCTTTGTTTTTTT
1 TTTTTCTTTGTTTTTTT
61321558 TT
1 TT
61321560 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTTCTTTGTTTTTTT
Found at i:61321554 original size:12 final size:11
Alignment explanation
Indices: 61321524--61321557 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
61321514 TTGGGGTAAG
61321524 TTTTTCTTTTTC
1 TTTTT-TTTTTC
61321536 TTTTTTTTTTC
1 TTTTTTTTTTC
61321547 TTTGTTTTTTT
1 TTT-TTTTTTT
61321558 TTGGGTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:61330590 original size:12 final size:12
Alignment explanation
Indices: 61330554--61330591 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
61330544 TCTCGACCAT
61330554 ATGATATATATA
1 ATGATATATATA
*
61330566 ATGGT-TATAATA
1 ATGATATAT-ATA
61330578 ATGATATATATA
1 ATGATATATATA
61330590 AT
1 AT
61330592 TCATGATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.14
12 16 0.73
13 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (12 bp):
ATGATATATATA
Found at i:61332355 original size:19 final size:20
Alignment explanation
Indices: 61332331--61332368 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
61332321 GGTACCACCA
61332331 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
61332350 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
61332369 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:61336861 original size:29 final size:29
Alignment explanation
Indices: 61336829--61336931 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
61336819 GTGACGAGAT
* *
61336829 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
61336858 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
61336887 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
61336916 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61336932 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:61344831 original size:29 final size:29
Alignment explanation
Indices: 61344798--61344900 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
61344788 GTGACGAGAT
* *
61344798 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
61344827 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
61344856 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
61344885 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61344901 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:61351017 original size:19 final size:20
Alignment explanation
Indices: 61350993--61351030 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
61350983 GGTACCACCA
61350993 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
61351012 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
61351031 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:61351423 original size:93 final size:92
Alignment explanation
Indices: 61351260--61351430 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 92
61351250 GCCCCTCAGT
*
61351260 GAACCGGACTCAACTCAACGAGCTCGGGCATTCACATCCATAAATGAACTCGGACTCAACTCAAC
1 GAACCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAAC
61351325 GAGTTCGGATGCTTAGTTACATCTCAC
66 GAGTTCGGATGCTTAGTTACATCTCAC
* ** *
61351352 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAAC-CGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
61351417 CGAGTTCGGATGCT
65 CGAGTTCGGATGCT
61351431 CAACCATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (92 bp):
GAACCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCTTAGTTACATCTCAC
Found at i:61351426 original size:46 final size:46
Alignment explanation
Indices: 61351257--61351426 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
61351247 TCCGCCCCTC
* * *
61351257 AGTGAAC-CGGACTCAACTCAACGAGCTCGGGCATTCACATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCATA
* * *
61351302 AATGAACTCGGACTCAACTCAACGAGTTCGGATGCTTAGTTACAT-C-TC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGA--C--ATTTACATCCATA
* *
61351350 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCATA
61351395 AGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGA
61351427 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 9 0.08
46 51 0.48
47 29 0.27
48 3 0.03
49 1 0.01
50 6 0.06
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCATA
Found at i:61351883 original size:30 final size:30
Alignment explanation
Indices: 61351849--61351908 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
61351839 ATTTAATACG
61351849 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
61351879 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
61351909 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:61358151 original size:2 final size:2
Alignment explanation
Indices: 61358144--61358177 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
61358134 GCTCTTGTAC
61358144 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61358178 GTTTGCACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61358966 original size:40 final size:40
Alignment explanation
Indices: 61358911--61359113 Score: 241
Period size: 40 Copynumber: 5.1 Consensus size: 40
61358901 GAATGATACT
* * *
61358911 CGGGCTAAGTCCCGAAGGCAATTATGCTAG-TGATTATATC
1 CGGGCTAAGACCCGAAGGCAATTGTGCGAGTTG-TTATATC
61358951 CGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGTTATATC
* *
61358991 CGGGCTAAGACACGAAGGCATTTGTGCGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGTTATATC
* *
61359031 CGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGCTATACC
1 CGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGTTATATC
* * * ** *
61359071 CGAGTTAAGACCCGAAGGCAATGGTGCTTGTGGTTATATC
1 CGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGTTATATC
61359111 CGG
1 CGG
61359114 TTAAATTCCG
Statistics
Matches: 140, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
39 5 0.04
40 129 0.92
41 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGTTATATC
Found at i:61359044 original size:80 final size:80
Alignment explanation
Indices: 61358906--61359113 Score: 283
Period size: 80 Copynumber: 2.6 Consensus size: 80
61358896 CATTTGAATG
* * *
61358906 ATACTCGGGCTAAGTCCCGAAGGCAATTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
*
61358970 ATTCGTGCGAGTTGTT
65 ATTCGTGCGAGTTGCT
* * * *
61358986 ATATCCGGGCTAAGACACGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
61359051 TTCGTGCGAGTTGCT
66 TTCGTGCGAGTTGCT
* * * * *
61359066 ATACCCGAGTTAAGACCCGAAGGCAATGGTGCTTGTGGTTATATCCGG
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATATCCGG
61359114 TTAAATTCCG
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 108 0.98
81 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTTGCT
Found at i:61361036 original size:40 final size:40
Alignment explanation
Indices: 61360973--61361184 Score: 226
Period size: 40 Copynumber: 5.3 Consensus size: 40
61360963 TGAGCAATTG
* * * *
61360973 AATTATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGT
1 AATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT
* * *
61361013 AATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGT
1 AATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT
* * * *
61361053 GACTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT
1 AATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT
** * *
61361093 TGTTAAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGT
1 AATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT
** * * *
61361133 CGTTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGT
1 AATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT
**
61361173 GGTTATATCCGG
1 AATTATATCCGG
61361185 TTGTATTCTG
Statistics
Matches: 146, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (40 bp):
AATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT
Found at i:61368223 original size:40 final size:40
Alignment explanation
Indices: 61368164--61368371 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
61368154 CAATTGAATG
* * * *
61368164 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
61368204 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
61368244 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
61368284 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
61368324 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
61368364 ATATCCGG
1 ATATCCGG
61368372 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:61368302 original size:80 final size:80
Alignment explanation
Indices: 61368165--61368371 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
61368155 AATTGAATGA
* * ** * * *
61368165 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
61368230 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
61368243 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
61368308 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
61368325 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
61368372 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:61375553 original size:48 final size:47
Alignment explanation
Indices: 61375487--61375655 Score: 257
Period size: 48 Copynumber: 3.5 Consensus size: 47
61375477 TGATCCCGTA
*
61375487 TAAGACCATGTCTAGGACATGGCATCAGCATCGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATC-GCATCGTTATGTGAGCCAGTG
* * *
61375535 TAAGACCATATCCGGGACATGGCATTGGCATCGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCA-TCGCATCGTTATGTGAGCCAGTG
* *
61375583 TAAGACCATGTTTGGGACATGGCATCGACATGGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCG-CATCGTTATGTGAGCCAGTG
61375631 TAAGACCATGTCTGGGACATGGCAT
1 TAAGACCATGTCTGGGACATGGCAT
61375656 TAGCGAGAGG
Statistics
Matches: 109, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
47 2 0.02
48 106 0.97
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGCATCGTTATGTGAGCCAGTG
Found at i:61379599 original size:40 final size:39
Alignment explanation
Indices: 61379472--61379601 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
61379462 ATGCTGGAAA
* *
61379472 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
61379512 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
61379552 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
61379592 TTATATCCGG
1 TTATATCCGG
61379602 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:61381556 original size:29 final size:29
Alignment explanation
Indices: 61381514--61381617 Score: 129
Period size: 29 Copynumber: 3.6 Consensus size: 29
61381504 GTGACAAGAT
61381514 TGGCACTAAGTGTGCGAAATTAAATTATA
1 TGGCACTAAGTGTGCGAAATTAAATTATA
*
61381543 TGGCACTAAGTGTGC-AAACTTAAATTATC
1 TGGCACTAAGTGTGCGAAA-TTAAATTATA
* ** ***
61381572 TGGCACTATGTGTGCGAGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAAATTAAATTATA
61381601 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
61381618 GATCGTTTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
28 3 0.05
29 60 0.94
30 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAAATTAAATTATA
Found at i:61391773 original size:43 final size:42
Alignment explanation
Indices: 61391725--61391835 Score: 100
Period size: 45 Copynumber: 2.6 Consensus size: 42
61391715 CGTAGGATTT
* * **
61391725 TCGATATGTGTTCTCGTGTAAGACCACATTTGAGACATTGGCA
1 TCGATATGTGTT-TCGTGTAAGACCACATCTAAGACATCAGCA
*
61391768 TCGATATATGTGGTTAT-GTGTAAGACCATATCTAAGACATCAGCA
1 TCG--ATATGT-GTT-TCGTGTAAGACCACATCTAAGACATCAGCA
* *
61391813 TCG-TATTTGATTCGTGTAAGACC
1 TCGATATGTGTTTCGTGTAAGACC
61391836 CTGTCTAGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
40 1 0.02
41 12 0.21
42 4 0.07
43 3 0.05
45 32 0.57
46 4 0.07
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (42 bp):
TCGATATGTGTTTCGTGTAAGACCACATCTAAGACATCAGCA
Found at i:61396871 original size:2 final size:2
Alignment explanation
Indices: 61396859--61396899 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
61396849 ATTGTACATG
*
61396859 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61396900 TCGGCCATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:61397463 original size:27 final size:28
Alignment explanation
Indices: 61397405--61397474 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
61397395 AAATTTGTAC
***
61397405 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCAGATTATAT
61397433 AGCACTAAGTGTGCG-AGCAGATTATAT
1 AGCACTAAGTGTGCGAAGCAGATTATAT
61397460 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
61397475 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCAGATTATAT
Found at i:61400523 original size:40 final size:39
Alignment explanation
Indices: 61400478--61400607 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
61400468 CGGAATATAA
61400478 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
61400518 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
61400558 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
61400598 CCGGATATAA
1 CCGGATATAA
61400608 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:61400622 original size:40 final size:40
Alignment explanation
Indices: 61400494--61400644 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
61400484 ATAACCATGT
* * *
61400494 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
61400534 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
61400574 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
61400614 GCATAATTGTCTTCGGG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
61400645 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:61400628 original size:80 final size:79
Alignment explanation
Indices: 61400494--61400642 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
61400484 ATAACCATGT
* *
61400494 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
61400559 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
61400574 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
61400637 CCGGAT
64 CCGGAT
61400643 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:61411928 original size:40 final size:39
Alignment explanation
Indices: 61411783--61411932 Score: 158
Period size: 39 Copynumber: 3.8 Consensus size: 39
61411773 ATCACGATTT
* * * * *
61411783 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCACCA
*
61411822 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCACCA
* ***
61411861 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT-AGCACCA
* * *
61411901 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
61411933 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
38 2 0.02
39 59 0.63
40 33 0.35
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCACCA
Found at i:61419939 original size:39 final size:40
Alignment explanation
Indices: 61419767--61419943 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
61419757 ACCAAGGCCA
* * * * * *
61419767 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * *
61419806 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCAC-AATTGCCTT
*
61419846 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * * * *
61419886 CGGGTCTTAACCCGGATATAATTTC-AGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
*
61419925 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
61419944 CATTCAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 39 0.33
40 77 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
Found at i:61441692 original size:31 final size:31
Alignment explanation
Indices: 61441646--61441760 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
61441636 TTAGTCTTGA
*
61441646 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
61441676 TATATCACTGGACCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
61441707 CATATTACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
61441738 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
61441761 ACTGTAAATA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 4 0.05
31 73 0.95
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:61441831 original size:42 final size:42
Alignment explanation
Indices: 61441784--61441875 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
61441774 TGGTCTTTAG
* *
61441784 GCCCATTTCAATATCACATGTAATGTCCATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
61441826 GCCCATTTCAGTATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
61441868 GCCCATTT
1 GCCCATTT
61441876 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:61442051 original size:25 final size:25
Alignment explanation
Indices: 61442023--61442092 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
61442013 TTCTTTTAAT
*
61442023 AACTAGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
61442048 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
61442073 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
61442093 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:61442932 original size:27 final size:26
Alignment explanation
Indices: 61442902--61442968 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 26
61442892 GGGCATATTC
61442902 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACC-TACAAGGGCT-TTACG
* *
61442929 GTCACTTTAACCTACAGGGGCTTTACG
1 GTCA-TTTTACCTACAAGGGCTTTACG
* *
61442956 GTCTTTTTGCCTA
1 GTCATTTTACCTA
61442969 TTAGGGGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
26 7 0.21
27 19 0.58
28 7 0.21
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGCTTTACG
Found at i:61443090 original size:29 final size:28
Alignment explanation
Indices: 61443024--61443127 Score: 90
Period size: 27 Copynumber: 3.8 Consensus size: 28
61443014 ATCTACAAAC
*
61443024 CAAGGGTATTTC-AGTAATTTTGT--AAAC
1 CAAGGGTATTTCTA-TAATTTT-TAAAAAT
*
61443051 CAATGGTATTTCTATAATTTTTAAAAAGT
1 CAAGGGTATTTCTATAATTTTTAAAAA-T
* *
61443080 CAAGGGTATTTCTGTAA-TTTTATAAAT
1 CAAGGGTATTTCTATAATTTTTAAAAAT
* * *
61443107 TAGGGGTATTTCGATAATTTT
1 CAAGGGTATTTCTATAATTTT
61443128 ACAAACTAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 32 0.51
28 15 0.24
29 15 0.24
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (28 bp):
CAAGGGTATTTCTATAATTTTTAAAAAT
Found at i:61443128 original size:27 final size:27
Alignment explanation
Indices: 61443055--61443144 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
61443045 GTAAACCAAT
* * *
61443055 GGTATTTCTATAATTTTTAAAAAGTCAAG
1 GGTATTTCGATAA-TTTTAAAAA-TTAGG
*
61443084 GGTATTTCTG-TAATTTTATAAATTAGG
1 GGTATTTC-GATAATTTTAAAAATTAGG
* *
61443111 GGTATTTCGATAATTTTACAAACTAGG
1 GGTATTTCGATAATTTTAAAAATTAGG
61443138 GGTATTT
1 GGTATTT
61443145 TGGTAATTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 33 0.62
28 8 0.15
29 11 0.21
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
GGTATTTCGATAATTTTAAAAATTAGG
Found at i:61443151 original size:27 final size:27
Alignment explanation
Indices: 61443083--61443152 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
61443073 AAAAAGTCAA
* *
61443083 GGGTATTTCT-GTAATTTTATAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
* *
61443110 GGGTATTTCGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
61443137 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
61443153 CTATCCTACA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:61443300 original size:81 final size:81
Alignment explanation
Indices: 61443184--61443381 Score: 281
Period size: 81 Copynumber: 2.4 Consensus size: 81
61443174 GTAATTTCAC
* * *
61443184 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGATAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAATGATAATTTTGTAAATCGAGGGT
* *
61443248 AAAACGGTAATTTTGTA
65 AAAACGGTAATTCTATA
* * *
61443265 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGATAATTTTGTAAATCGAGGGTA
61443330 AAACGGTAATTCTATA
66 AAACGGTAATTCTATA
* * *
61443346 AATCTAGGGTAAAATGGTAGTTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
61443382 CATTTCAGTA
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 104 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGATAATTTTGTAAATCGAGGGTA
AAACGGTAATTCTATA
Found at i:61443370 original size:27 final size:27
Alignment explanation
Indices: 61443184--61443364 Score: 247
Period size: 27 Copynumber: 6.7 Consensus size: 27
61443174 GTAATTTCAC
*
61443184 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
61443211 AA-CTGAGGGTAAAATGATAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
*
61443238 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
61443265 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
61443292 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * * * *
61443319 AATTGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
61443346 AATCTAGGGTAAAATGGTA
1 AATCGAGGGTAAAATGGTA
61443365 GTTCTACAAA
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 132 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:61447202 original size:22 final size:23
Alignment explanation
Indices: 61447160--61447202 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
61447150 AAAATCCTAC
61447160 CCATCCAGCCTCTACACTCCACT
1 CCATCCAGCCTCTACACTCCACT
* *
61447183 CCATCTAGCCT-TACAGTCCA
1 CCATCCAGCCTCTACACTCCA
61447203 TGTGGGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (23 bp):
CCATCCAGCCTCTACACTCCACT
Found at i:61450706 original size:10 final size:10
Alignment explanation
Indices: 61450691--61450726 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
61450681 CCATTAACAT
61450691 GATAGTGGAG
1 GATAGTGGAG
61450701 GATAGTGGAG
1 GATAGTGGAG
*
61450711 GATAGTGGAT
1 GATAGTGGAG
61450721 GATAGT
1 GATAGT
61450727 CAATTTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.44, T:0.25
Consensus pattern (10 bp):
GATAGTGGAG
Found at i:61451628 original size:2 final size:2
Alignment explanation
Indices: 61451621--61451651 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
61451611 TCAAATATCA
61451621 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61451652 AACATCACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61455264 original size:60 final size:59
Alignment explanation
Indices: 61455187--61455323 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
61455177 AAATGTGTTA
* * * *
61455187 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCCATTGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGACATGGCCCAGATTAATACTG
* * *
61455247 ATATGGGCTAGGCCCAATATACTCTGATAATGTAAGGGGATATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGAT-ATGTAAAGGGACATGGCCCAGATTAATACTG
61455307 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
61455324 GTTAACACTG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 1 0.02
60 50 0.76
61 15 0.23
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGACATGGCCCAGATTAATACTG
Found at i:61459578 original size:22 final size:22
Alignment explanation
Indices: 61459553--61459607 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
61459543 TATCAAAGTA
61459553 GATCAACATAACTTATACATAT
1 GATCAACATAACTTATACATAT
*
61459575 GATCAGCATAACTTATACATAT
1 GATCAACATAACTTATACATAT
61459597 G-TCAAACATAA
1 GATC-AACATAA
61459608 AATTCATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.29
Consensus pattern (22 bp):
GATCAACATAACTTATACATAT
Found at i:61461364 original size:56 final size:57
Alignment explanation
Indices: 61461307--61461514 Score: 289
Period size: 56 Copynumber: 3.7 Consensus size: 57
61461297 CATACAAGGT
* *
61461307 CTTACTCGTACACATATAT-AGAAATCACATATCGATGCCAACGTATTAAACGTGGT
1 CTTACTCGCACACATATATCAGAAATCACATATCGATGCCAACGTATTAAACGTGGA
* * * *
61461363 CTTACTCGCACACATATATCAG-AGTCACATATCGATGCCTACGTATGAAACGTAGA
1 CTTACTCGCACACATATATCAGAAATCACATATCGATGCCAACGTATTAAACGTGGA
* * *
61461419 CTTACTCGCACACATATATC-GGAATCACATATCAATGCCAACGTATTAAATGTGGA
1 CTTACTCGCACACATATATCAGAAATCACATATCGATGCCAACGTATTAAACGTGGA
* *
61461475 CTTACTCGCACACTTATATCA-AAGTCACATATCGATGCCA
1 CTTACTCGCACACATATATCAGAAATCACATATCGATGCCA
61461515 CATATACTTC
Statistics
Matches: 133, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
55 1 0.01
56 130 0.98
57 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.27
Consensus pattern (57 bp):
CTTACTCGCACACATATATCAGAAATCACATATCGATGCCAACGTATTAAACGTGGA
Found at i:61461479 original size:112 final size:112
Alignment explanation
Indices: 61461307--61461513 Score: 342
Period size: 112 Copynumber: 1.8 Consensus size: 112
61461297 CATACAAGGT
* * *
61461307 CTTACTCGTACACATATATAGAAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGC
1 CTTACTCGCACACATATATAGAAATCACATATCAATGCCAACGTATTAAACGTGGACTTACTCGC
*
61461372 ACACATATATCAGAGTCACATATCGATGCCTACGTATGAAACGTAGA
66 ACACATATATCAAAGTCACATATCGATGCCTACGTATGAAACGTAGA
* * *
61461419 CTTACTCGCACACATATATCGGAATCACATATCAATGCCAACGTATTAAATGTGGACTTACTCGC
1 CTTACTCGCACACATATATAGAAATCACATATCAATGCCAACGTATTAAACGTGGACTTACTCGC
*
61461484 ACACTTATATCAAAGTCACATATCGATGCC
66 ACACATATATCAAAGTCACATATCGATGCC
61461514 ACATATACTT
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
112 87 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (112 bp):
CTTACTCGCACACATATATAGAAATCACATATCAATGCCAACGTATTAAACGTGGACTTACTCGC
ACACATATATCAAAGTCACATATCGATGCCTACGTATGAAACGTAGA
Found at i:61466063 original size:42 final size:42
Alignment explanation
Indices: 61466014--61466122 Score: 173
Period size: 42 Copynumber: 2.6 Consensus size: 42
61466004 AGTATTGGTC
61466014 TCGGCACTAAGTGTGCGGGTATAAATGGACACCGTGACAAGA
1 TCGGCACTAAGTGTGCGGGTATAAATGGACACCGTGACAAGA
* ** *
61466056 TTGGCACTAAGTGTGCGGGTATAAATGTTCACGGTGACAAGA
1 TCGGCACTAAGTGTGCGGGTATAAATGGACACCGTGACAAGA
*
61466098 TCGGCACTAAGTGTGCGGGTTTAAA
1 TCGGCACTAAGTGTGCGGGTATAAA
61466123 ATTTGTACAG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (42 bp):
TCGGCACTAAGTGTGCGGGTATAAATGGACACCGTGACAAGA
Found at i:61466188 original size:27 final size:28
Alignment explanation
Indices: 61466131--61466200 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
61466121 AAATTTGTAC
**
61466131 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
61466159 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
61466186 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
61466201 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:61474041 original size:41 final size:42
Alignment explanation
Indices: 61473994--61474101 Score: 191
Period size: 42 Copynumber: 2.6 Consensus size: 42
61473984 AGTATTGGTC
61473994 TCGGCACTAAGTGTGCGGGTATAAATGGACAC-GTGACAAGA
1 TCGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
*
61474035 TTGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
1 TCGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
*
61474077 TCGGCACTAAGTGTGCGGGTTTAAA
1 TCGGCACTAAGTGTGCGGGTATAAA
61474102 ATTTGTACAG
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
41 31 0.49
42 32 0.51
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (42 bp):
TCGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
Found at i:61474167 original size:27 final size:28
Alignment explanation
Indices: 61474110--61474179 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
61474100 AAATTTGTAC
**
61474110 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
61474138 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
61474165 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
61474180 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:61482598 original size:46 final size:46
Alignment explanation
Indices: 61482548--61482721 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
61482538 TGTTTGGGCA
*
61482548 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
61482594 TCCGAACTTGTTGAGTTGAGTCTGAG-T---TTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* * *
61482641 TCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
61482687 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
61482722 CGGCGGGTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 2 0.02
46 57 0.56
47 22 0.22
48 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:61482703 original size:93 final size:93
Alignment explanation
Indices: 61482544--61482714 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
61482534 AGGATGTTTG
* * * *
61482544 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTTGTTGAG
1 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
*
61482609 TTGAGTCTGAGTTTGTGAGATGTAACTA
66 TTGAGTCCGAGTTTGTGAGATGTAACTA
* *
61482637 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAG
1 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
61482702 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
61482715 CACTTATCGG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTTGTGAGATGTAACTA
Found at i:61484030 original size:45 final size:45
Alignment explanation
Indices: 61483964--61484086 Score: 122
Period size: 45 Copynumber: 2.7 Consensus size: 45
61483954 CGATGCCGAT
* * * * * *
61483964 GTCCCAAACATGGTTTTACACGTAACCATATATATCGATGT-CAAT
1 GTCCCAAACGTGGTCTTACACGAAAACACATATATC-ATGTCCAAC
* * *
61484009 GTTCCAGACGTGGTCTTACACGAAAACACATATATCATTTCCAAC
1 GTCCCAAACGTGGTCTTACACGAAAACACATATATCATGTCCAAC
* * *
61484054 GTCCCAAACGTGGTCTTACTCAAAAATACATAT
1 GTCCCAAACGTGGTCTTACACGAAAACACATAT
61484087 CAAAATCCTA
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
44 3 0.05
45 60 0.95
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.28
Consensus pattern (45 bp):
GTCCCAAACGTGGTCTTACACGAAAACACATATATCATGTCCAAC
Found at i:61487332 original size:27 final size:27
Alignment explanation
Indices: 61487295--61487624 Score: 365
Period size: 27 Copynumber: 12.3 Consensus size: 27
61487285 AAAATTAGTT
* **
61487295 AAATGATCGTAATGCCTTTATAGGGTA
1 AAATGACCGTAATGCCCCTATAGGGTA
* *
61487322 AAATGACCGTAATACCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTATAGGGTA
* * *
61487349 AAATGATCGTAAT-ACCCTATAGGATA
1 AAATGACCGTAATGCCCCTATAGGGTA
* * * *
61487375 AAATGATCGTAATGCTCTTGTAGGGTA
1 AAATGACCGTAATGCCCCTATAGGGTA
*
61487402 AAATGACCGTAATACCCCTATAGGGTA
1 AAATGACCGTAATGCCCCTATAGGGTA
61487429 AAATGACCGTAATGCCCCTATAGGGTA
1 AAATGACCGTAATGCCCCTATAGGGTA
* * * *
61487456 AAATGACTGTAATACCCCTGTAGGGAA
1 AAATGACCGTAATGCCCCTATAGGGTA
* *
61487483 AAATGATCGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTATAGGGTA
** * * *
61487510 AAAAAACCGTAATGGCCCTGTAAGGTA
1 AAATGACCGTAATGCCCCTATAGGGTA
* ** *
61487537 AAATGACTGTAATATCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTATAGGGTA
*
61487564 AAATGACCGTAATTCCCCTATAGGGTA
1 AAATGACCGTAATGCCCCTATAGGGTA
* * *
61487591 AAATGACCGTAATACCCCTGTATGGTA
1 AAATGACCGTAATGCCCCTATAGGGTA
61487618 AAATGAC
1 AAATGAC
61487625 AATTATGACA
Statistics
Matches: 256, Mismatches: 46, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 23 0.09
27 233 0.91
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATGACCGTAATGCCCCTATAGGGTA
Found at i:61487354 original size:54 final size:54
Alignment explanation
Indices: 61487295--61487624 Score: 410
Period size: 54 Copynumber: 6.1 Consensus size: 54
61487285 AAAATTAGTT
* * **
61487295 AAATGATCGTAATGCCTTTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTA
* * * * * *
61487349 AAATGATCGTAATA-CCCTATAGGATAAAATGATCGTAATGCTCTTGTAGGGTA
1 AAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTA
* *
61487402 AAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGGGTA
1 AAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTA
* * * * *
61487456 AAATGACTGTAATACCCCTGTAGGGAAAAATGATCGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTA
** ** * * * *
61487510 AAAAAACCGTAATGGCCCTGTAAGGTAAAATGACTGTAATATCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTA
* *
61487564 AAATGACCGTAATTCCCCTATAGGGTAAAATGACCGTAATACCCCTGTATGGTA
1 AAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTA
61487618 AAATGAC
1 AAATGAC
61487625 AATTATGACA
Statistics
Matches: 236, Mismatches: 39, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
53 45 0.19
54 191 0.81
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (54 bp):
AAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTA
Found at i:61487501 original size:81 final size:81
Alignment explanation
Indices: 61487315--61487624 Score: 408
Period size: 81 Copynumber: 3.8 Consensus size: 81
61487305 AATGCCTTTA
* * * *
61487315 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGATCGTAAT-ACCCTATAGGATAAAAT
1 TAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAAT
* * *
61487379 GA-TCGTAATGCTCTTG
66 GACT-GTAATACCCCTG
61487395 TAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAAT
1 TAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAAT
61487460 GACTGTAATACCCCTG
66 GACTGTAATACCCCTG
* * * * ** * * *
61487476 TAGGGAAAAATGATCGTAATGCCCCTGTAGGGTAAAAAAACCGTAATGGCCCTGTAAGGTAAAAT
1 TAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAAT
*
61487541 GACTGTAATATCCCTG
66 GACTGTAATACCCCTG
* * * *
61487557 TAGGGTAAAATGACCGTAATTCCCCTATAGGGTAAAATGACCGTAATACCCCTGTATGGTAAAAT
1 TAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAAT
61487622 GAC
66 GAC
61487625 AATTATGACA
Statistics
Matches: 202, Mismatches: 26, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
80 45 0.22
81 156 0.77
82 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (81 bp):
TAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAAT
GACTGTAATACCCCTG
Found at i:61488040 original size:33 final size:33
Alignment explanation
Indices: 61488003--61488066 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
61487993 TTAGGCCCAC
* *
61488003 ACTGTTACTGTATAGGGCTAAGGCCCAAACTGT
1 ACTGTTACTGAATAAGGCTAAGGCCCAAACTGT
* *
61488036 ACTGTTACTGAATAAGGCTCATGCCCAAACT
1 ACTGTTACTGAATAAGGCTAAGGCCCAAACT
61488067 ATTACTACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (33 bp):
ACTGTTACTGAATAAGGCTAAGGCCCAAACTGT
Found at i:61490126 original size:29 final size:29
Alignment explanation
Indices: 61490092--61490166 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
61490082 TACTCGATTT
*
61490092 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
61490121 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
61490150 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
61490167 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:61490183 original size:29 final size:29
Alignment explanation
Indices: 61490150--61490223 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
61490140 CCTTCGAGCT
61490150 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
61490179 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
61490208 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
61490224 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:61498036 original size:29 final size:28
Alignment explanation
Indices: 61497966--61498040 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
61497956 ATACTCGATT
* *
61497966 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
61497994 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
61498023 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
61498041 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:61498057 original size:29 final size:29
Alignment explanation
Indices: 61498024--61498097 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
61498014 CCTTCGAGCT
61498024 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
61498053 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
61498082 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
61498098 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:61502613 original size:29 final size:29
Alignment explanation
Indices: 61502558--61502616 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
61502548 TTCCCGAGCC
*
61502558 TAGGGGCAAAAGTGTAATTATGAAAAGTT
1 TAGGGGCAAAAGTGTAATTATCAAAAGTT
* * *
61502587 TAGGGGCAAAGGTGTAATTTTCCAAAGTT
1 TAGGGGCAAAAGTGTAATTATCAAAAGTT
61502616 T
1 T
61502617 GTATTAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAATTATCAAAAGTT
Found at i:61503094 original size:46 final size:46
Alignment explanation
Indices: 61503038--61503206 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
61503028 TGGTTGAGCA
*
61503038 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACG
* * * *
61503084 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ATGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAA--A--CG
* *
61503131 TCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACG
* *
61503177 -CCAGAGCTCGTTGAGTTGAGTTCGAGTTCA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCA
61503207 CTTAGGGGCG
Statistics
Matches: 101, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 6 0.06
46 53 0.52
47 27 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACG
Found at i:61503194 original size:93 final size:93
Alignment explanation
Indices: 61503035--61503206 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
61503025 GGATGGTTGA
* *
61503035 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAATGTCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACGTCCGAGCTCGTTGAGT
61503100 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
*
61503128 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG-CCAGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACGTCC-GAGCTCGTTGAG
*
61503192 TTGAGTTCGAGTTCA
65 TTGAGTCCGAGTTCA
61503207 CTTAGGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACGTCCGAGCTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:61510474 original size:71 final size:71
Alignment explanation
Indices: 61510390--61510553 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61510380 CGATTTGTCT
61510390 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
61510455 CTTTCA
66 CTTTCA
61510461 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
61510526 CTTTCA
66 CTTTCA
61510532 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
61510554 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:61510591 original size:71 final size:70
Alignment explanation
Indices: 61510390--61510587 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
61510380 CGATTTGTCT
* * * *
61510390 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
61510455 CTTTCA
65 CTTTCA
* * * *
61510461 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
61510526 CTTTCA
65 CTTTCA
* *
61510532 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
61510588 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:61520962 original size:46 final size:46
Alignment explanation
Indices: 61520912--61521077 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 46
61520902 AGCATCCAAA
* *
61520912 CTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCAAATGTCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCAAACGTCCGAG
* * * *
61520958 CTCGTTGAGTTGAGTCCGAATT--C--GTGAGATGTAACTAGGCATCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTGTG-GATGCAA--A--CGTCCGAG
* * * *
61521005 CTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCAAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCAAACGTCCGAG
*
61521051 CTCATTGAGTTGAGTCCGAGTTCACTT
1 CTCGTTGAGTTGAGTCCGAGTTCACTT
61521078 AGGGGCGGGT
Statistics
Matches: 94, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
45 1 0.01
46 50 0.53
47 24 0.26
48 1 0.01
50 6 0.06
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCAAACGTCCGAG
Found at i:61530997 original size:51 final size:51
Alignment explanation
Indices: 61530921--61531024 Score: 183
Period size: 51 Copynumber: 2.0 Consensus size: 51
61530911 TGTTGGAAGT
*
61530921 CGGCAAAAGCTGAAAAGCTAAAACCTCGGCATTC-GAGGCCTCACAAGCGTG
1 CGGCAAAAGCTGAAAAGCCAAAACCTCGGCATTCAG-GGCCTCACAAGCGTG
61530972 CGGCAAAAGCTGAAAAGCCAAAACCTCGGCATTCAGGGCCTCACAAGCGTG
1 CGGCAAAAGCTGAAAAGCCAAAACCTCGGCATTCAGGGCCTCACAAGCGTG
61531023 CG
1 CG
61531025 AACGCACGTA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.26, T:0.12
Consensus pattern (51 bp):
CGGCAAAAGCTGAAAAGCCAAAACCTCGGCATTCAGGGCCTCACAAGCGTG
Found at i:61531603 original size:27 final size:27
Alignment explanation
Indices: 61531519--61531610 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 27
61531509 CCCTAATATT
* * * *
61531519 GGTAAAATTATCGAAATACCCTTATAG
1 GGTAAAATGACCGTAATACCCCTATAG
** * *
61531546 TTTAAAATGACCGTAATGCCCTTATAG
1 GGTAAAATGACCGTAATACCCCTATAG
* *
61531573 GGTAAAATGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATACCCCTATAG
*
61531600 GGTAGAATGAC
1 GGTAAAATGAC
61531611 GATTATGCCC
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTATAG
Found at i:61539144 original size:42 final size:42
Alignment explanation
Indices: 61539097--61539182 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
61539087 TAATTTTTAA
61539097 TTATTACTATTTAGACTTGTTCTTTTAGAAGTAGATTTCTGG
1 TTATTACTATTTAGACTTGTTCTTTTAGAAGTAGATTTCTGG
61539139 TTATTACTATTTAGACTTGTTCTTTTAGAAGTAGATTTCTGG
1 TTATTACTATTTAGACTTGTTCTTTTAGAAGTAGATTTCTGG
61539181 TT
1 TT
61539183 TAATTCATTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.51
Consensus pattern (42 bp):
TTATTACTATTTAGACTTGTTCTTTTAGAAGTAGATTTCTGG
Found at i:61543230 original size:93 final size:93
Alignment explanation
Indices: 61543123--61543293 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
61543113 GCCCATAAGT
* *
61543123 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61543188 CGAGTTCGAATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
61543216 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
61543281 CGAGTTCGGATGC
66 CGAGTTCGAATGC
61543294 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:61543309 original size:46 final size:46
Alignment explanation
Indices: 61543115--61543295 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
61543105 TGTAACCCGC
* *
61543115 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
61543161 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
61543211 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
61543254 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
61543296 AACCATCCTA
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.63
47 31 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:61546106 original size:2 final size:2
Alignment explanation
Indices: 61546095--61546134 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
61546085 TGAAAGTCGA
61546095 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61546135 TTTGAAAGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:61547450 original size:43 final size:43
Alignment explanation
Indices: 61547397--61547595 Score: 326
Period size: 43 Copynumber: 4.6 Consensus size: 43
61547387 GCTGGTATTA
* *
61547397 TATTTGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
61547440 TATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCTGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
61547483 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
61547526 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
61547569 TATACGGGCCTTCGTGCCTAGCAGGCT
1 TATTCGGGCCTTCGTGCCTAGCAGGCT
61547596 ATAATGCTAG
Statistics
Matches: 146, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 146 1.00
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:61548720 original size:46 final size:46
Alignment explanation
Indices: 61548653--61548744 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
61548643 GATTACGGAC
*
61548653 ATCCAGAGGACTCTGTCATAACCCGAATGAACAAATTTGGCATGAT
1 ATCCAGAGGACTCTGTCATAACCCGAATGAACAAATATGGCATGAT
61548699 ATCCAGAGGACTCTGTCATAACCCGAATGAACAAATATGGCATGAT
1 ATCCAGAGGACTCTGTCATAACCCGAATGAACAAATATGGCATGAT
61548745 TTCAGGTTGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (46 bp):
ATCCAGAGGACTCTGTCATAACCCGAATGAACAAATATGGCATGAT
Found at i:61554641 original size:46 final size:45
Alignment explanation
Indices: 61554590--61554756 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 45
61554580 GACGAGGGCT
61554590 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGAGAGCC
* * *
61554636 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGAGAGCC
* * * * * *
61554682 AGTGTCAGACATGTCTGGGACATGCGTCGGCTAC-GA-GATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGA-GAGCC
* *
61554726 AGTGTAAGACATGTATGGGACATGCGTCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
61554757 ACGGTTACAT
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.02
44 32 0.30
46 70 0.66
47 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGAGAGCC
Found at i:61554686 original size:92 final size:90
Alignment explanation
Indices: 61554539--61554750 Score: 246
Period size: 92 Copynumber: 2.3 Consensus size: 90
61554529 AGATTTGTGT
* * * *
61554539 GCCAGTGTAAGACCATGTATGAGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTATGGGACAT-GCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGT
61554604 CTGGGACATGCATCAGCCAC-AGTATGAGA
64 CTGGGACATGCATCAGCCACGAG-AT--GA
* * * * *
61554633 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATAGCCAGTGTCAGACATGTCT
1 GCCAGTGTAAGACATGTATGGGACATGCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGTCT
* * * *
61554698 GGGACATGCGTCGGCTACGAGATGT
66 GGGACATGCATCAGCCACGAGATGA
*
61554723 GCTAGTGTAAGACATGTATGGGACATGC
1 GCCAGTGTAAGACATGTATGGGACATGC
61554751 GTCAGCACGG
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
90 27 0.26
92 49 0.48
93 14 0.14
94 12 0.12
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTATGGGACATGCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGTCT
GGGACATGCATCAGCCACGAGATGA
Found at i:61554791 original size:46 final size:43
Alignment explanation
Indices: 61554590--61554793 Score: 162
Period size: 46 Copynumber: 4.5 Consensus size: 43
61554580 GACGAGGGCT
* * * *
61554590 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGA-CAT--GTG-C
* * *
61554636 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCGTCAG-CTACGACATG-T-G-C
* * *
61554682 AGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGTGC
1 AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTGC
*
61554725 TAGTGTAAGACATGTATGGGACATGCGTCAGC-ACGGTTACATGTGTC
1 -AGTGTAAGACATGTCTGGGACATGCGTCAGCTAC-G--ACATGTG-C
*
61554772 AGTGTAAGACCTGTCTGGGACA
1 AGTGTAAGACATGTCTGGGACA
61554794 CGGCATCGAC
Statistics
Matches: 136, Mismatches: 12, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
43 3 0.02
44 31 0.23
45 3 0.02
46 96 0.71
47 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTGC
Found at i:61562973 original size:41 final size:41
Alignment explanation
Indices: 61562928--61563045 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
61562918 TGAAAGATAA
61562928 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
61562969 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61562999 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61563040 ATGTAG
1 ATGTAG
61563046 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:61562984 original size:71 final size:71
Alignment explanation
Indices: 61562896--61563059 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61562886 GAGATGTATC
61562896 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61562961 AGGACA
66 AGGACA
61562967 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61563032 AGGACA
66 AGGACA
61563038 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
61563060 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:61570555 original size:41 final size:41
Alignment explanation
Indices: 61570510--61570627 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
61570500 TGAAAGATAA
61570510 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
61570551 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61570581 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61570622 ATGTAG
1 ATGTAG
61570628 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:61570566 original size:71 final size:71
Alignment explanation
Indices: 61570478--61570641 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61570468 GAGATGTATC
61570478 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61570543 AGGACA
66 AGGACA
61570549 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61570614 AGGACA
66 AGGACA
61570620 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
61570642 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:61573274 original size:31 final size:31
Alignment explanation
Indices: 61573239--61573301 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
61573229 GCCAAAATTG
61573239 GACAAGACGAGCTACTTTCAAGATCTACACA
1 GACAAGACGAGCTACTTTCAAGATCTACACA
61573270 GACAAGACGAGCTACTTTCAAGATCTACACA
1 GACAAGACGAGCTACTTTCAAGATCTACACA
61573301 G
1 G
61573302 TCCACACGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (31 bp):
GACAAGACGAGCTACTTTCAAGATCTACACA
Found at i:61580563 original size:44 final size:44
Alignment explanation
Indices: 61580395--61580620 Score: 179
Period size: 46 Copynumber: 4.9 Consensus size: 44
61580385 CATTGTTGTT
* * * * *
61580395 ATGTGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACATTGAAAC
1 ATGT-AGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-TCG--AG
* * *
61580443 AAG-AGCTAGTGCAAGACATGTTTGGGACATGCATCGGCCTCGAG
1 ATGTAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAG
* * *
61580487 ATGTAAGCAACTGTAAGACATGTCTGGAACATGCATCGGCTACGAG
1 ATGT-AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAG
*
61580533 ATGT-GCTAGTGTAAGACATGTCTGGGACATGCATCGGCACG-G
1 ATGTAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAG
* *
61580575 ATAAGTGAGAGCTAGTGTAAGACCATATCTGGGATATGGCATCGGC
1 AT--GT---AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
61580621 ATCAATATGT
Statistics
Matches: 146, Mismatches: 20, Indels: 22
0.78 0.11 0.12
Matches are distributed among these distances:
42 3 0.02
43 2 0.01
44 36 0.25
45 2 0.01
46 68 0.47
47 1 0.01
48 14 0.10
49 12 0.08
50 8 0.05
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (44 bp):
ATGTAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAG
Found at i:61584915 original size:13 final size:12
Alignment explanation
Indices: 61584897--61584926 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
61584887 TCCATAATTC
61584897 AAAAAAAAGTGAA
1 AAAAAAAAGT-AA
61584910 AAAAAAAAGTAA
1 AAAAAAAAGTAA
61584922 AAAAA
1 AAAAA
61584927 TATATGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (12 bp):
AAAAAAAAGTAA
Found at i:61585807 original size:30 final size:30
Alignment explanation
Indices: 61585773--61585829 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
61585763 TGGCCATTCC
*
61585773 CACACGGGCTGAG-CACACGCCTGTGTGAGA
1 CACACGGGCTG-GCCACACGCCTATGTGAGA
61585803 CACACGGGCTGGCCACACGCCTATGTG
1 CACACGGGCTGGCCACACGCCTATGTG
61585830 CCAGTCCGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.21, C:0.33, G:0.32, T:0.14
Consensus pattern (30 bp):
CACACGGGCTGGCCACACGCCTATGTGAGA
Found at i:61589343 original size:15 final size:15
Alignment explanation
Indices: 61589323--61589354 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
61589313 ACATTTATCA
61589323 AATAAAGCTTAACTT
1 AATAAAGCTTAACTT
61589338 AATAAAGCTTAACTT
1 AATAAAGCTTAACTT
61589353 AA
1 AA
61589355 CATGAAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (15 bp):
AATAAAGCTTAACTT
Found at i:61589579 original size:44 final size:44
Alignment explanation
Indices: 61589516--61589605 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
61589506 AAACGAGCAC
*
61589516 AGTACGAATAGTGTTAAATAATCTTCTTATTCAATGGGTTTTGG
1 AGTACGAATAGTGTTAAATAATCTTCTTATTCAATAGGTTTTGG
61589560 AGTACGAATAGTGTTAAATAATCTTCTTATTCAATAGGTTTTGG
1 AGTACGAATAGTGTTAAATAATCTTCTTATTCAATAGGTTTTGG
61589604 AG
1 AG
61589606 GTATATTAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (44 bp):
AGTACGAATAGTGTTAAATAATCTTCTTATTCAATAGGTTTTGG
Found at i:61591227 original size:31 final size:31
Alignment explanation
Indices: 61591189--61591251 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
61591179 GGTTAAAGTG
*
61591189 TAAGAATAGTTACTCAATTGTTGAATTAATT
1 TAAGAATAGTTACTCAATTGTTCAATTAATT
61591220 TAAGAATAGTTACTCAATTGTTCAATTAATT
1 TAAGAATAGTTACTCAATTGTTCAATTAATT
61591251 T
1 T
61591252 TATTTTAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (31 bp):
TAAGAATAGTTACTCAATTGTTCAATTAATT
Found at i:61591486 original size:62 final size:62
Alignment explanation
Indices: 61591379--61591515 Score: 213
Period size: 61 Copynumber: 2.2 Consensus size: 62
61591369 GCCTAATAAT
* * *
61591379 AAATTTAGCCCTCGAATGTTTACACGTTCTCTCAATTTGATCCTAAGTCTAAAAAAATTAAAC
1 AAATTTAGCCCTCCAATGTTTACACATTCTCTCAATTTGATCCTAAAT-TAAAAAAATTAAAC
* *
61591442 AAATTTAGCCCTCCAATGTTT-CACATTCTCTCAATTTGATCCTAAATTTAAAAAATTCAAC
1 AAATTTAGCCCTCCAATGTTTACACATTCTCTCAATTTGATCCTAAATTAAAAAAATTAAAC
61591503 AAATTTAGCCCTC
1 AAATTTAGCCCTC
61591516 AACGTATACA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
61 25 0.36
62 24 0.35
63 20 0.29
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (62 bp):
AAATTTAGCCCTCCAATGTTTACACATTCTCTCAATTTGATCCTAAATTAAAAAAATTAAAC
Found at i:61591496 original size:63 final size:62
Alignment explanation
Indices: 61591379--61591515 Score: 213
Period size: 62 Copynumber: 2.2 Consensus size: 62
61591369 GCCTAATAAT
* * *
61591379 AAATTTAGCCCTCGAATGTTTACACGTTCTCTCAATTTGATCCTAAGTCTAAAAAAATTAAAC
1 AAATTTAGCCCTCCAATGTTTACACATTCTCTCAATTTGATCCTAAATCT-AAAAAATTAAAC
* *
61591442 AAATTTAGCCCTCCAATGTTT-CACATTCTCTCAATTTGATCCTAAATTTAAAAAATTCAAC
1 AAATTTAGCCCTCCAATGTTTACACATTCTCTCAATTTGATCCTAAATCTAAAAAATTAAAC
61591503 AAATTTAGCCCTC
1 AAATTTAGCCCTC
61591516 AACGTATACA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
61 24 0.35
62 25 0.36
63 20 0.29
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (62 bp):
AAATTTAGCCCTCCAATGTTTACACATTCTCTCAATTTGATCCTAAATCTAAAAAATTAAAC
Found at i:61597972 original size:13 final size:13
Alignment explanation
Indices: 61597942--61597966 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61597932 ATAAACGGTA
61597942 AATTTAATATTTC
1 AATTTAATATTTC
61597955 AATTTAATATTT
1 AATTTAATATTT
61597967 ATATTTTTTT
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:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTAATATTTC
Found at i:61598851 original size:21 final size:21
Alignment explanation
Indices: 61598805--61598854 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
61598795 GCACACGCCT
*
61598805 GTGTGGAAGGTTAACAGGCCC
1 GTGTGGAAGGTTAACAGACCC
* *
61598826 ATGTGGAAGAG-TAACATACCC
1 GTGTGGAAG-GTTAACAGACCC
61598847 GTGTGGAA
1 GTGTGGAA
61598855 TTAAATTCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.34, T:0.20
Consensus pattern (21 bp):
GTGTGGAAGGTTAACAGACCC
Found at i:61611249 original size:452 final size:451
Alignment explanation
Indices: 61610404--61611257 Score: 1349
Period size: 452 Copynumber: 1.9 Consensus size: 451
61610394 CACTAAATCG
61610404 AATAATTTGCAAAACTTACATTCTAGAAGTTTTTAGTATGAAATTGCTTTGGAATATTAATTAGG
1 AATAATTTGCAAAACTTACATTCTAGAAGTTTTTAGTATGAAATTGCTTTGGAATATTAATTAGG
*
61610469 AGGGTTTAAATAACAATTTGACCAATTTCTAAGTTCATGGACAAAATAGGACATGGATAGAATTT
66 AGGGTTTAAATAAAAATTTGACCAATTTCTAAGTTCATGGACAAAATAGGACATGGATAGAATTT
* *
61610534 TTAAAAGTTTAATAAGGAAGGGCATTTTGGCCATTTGGATATTAAATGAAATAAAAAGGGAAAAA
131 TTAAAAGTTTAATAAGGAAGGGCATTTTGGCCATTTAGATATTAAATGAAATAAAAA-GCAAAAA
* * * *
61610599 TAACACAAAATTCATCATCTTCTTCATTAGCACGAAATTTCAAGGGTTCTTCATAGCTAGGGTTT
195 TAAAACAAAATTCATCATCTTCTTCATTAGCACAAAATTTAAAGGGTTCTCCATAGCTAGGGTTT
* * *
61610664 GTTTCAAGCTTTCAAGCTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTT
260 GTTTCAAGCTTTCAAACTCCATAATAAGTGATTCCAAGCCCCGTTTTTAATGATCTTTACGTTTT
* * *
61610729 TGGAGTCCCGGTAGCTCGATAAAGCTTATGCTAGCAATAATTTAAGTTAGGGTTCATATTTGGAA
325 TGGAGTCCCGATAACTCGATAAAGCTTATGCTAGCAATAATTCAAGTTAGGGTTCATATTTGGAA
61610794 AAATACCCATAGGTGAAAAGTGTTTATTTTGATGTTTTATGATAACATCAAATTCACACTCT
390 AAATACCCATAGGTGAAAAGTGTTTATTTTGATGTTTTATGATAACATCAAATTCACACTCT
*
61610856 AATAATTTGCAAAACTTGCATTCTAGAAGTTTTTAGTAT-AAATTGCTTTGGAATATTAATTAGG
1 AATAATTTGCAAAACTTACATTCTAGAAGTTTTTAGTATGAAATTGCTTTGGAATATTAATTAGG
* *
61610920 AGGGTTTAAATAAAAATTTGACCAATTTCTTAGTTCATGGACAAAATAGGACATGGATGGAA-TT
66 AGGGTTTAAATAAAAATTTGACCAATTTCTAAGTTCATGGACAAAATAGGACATGGATAGAATTT
* * * * *
61610984 TTGAAAGTTTAATAAGGAAGGGCATTTTGGTCATTTAGTTATTAAAATGAATTAAAAA-CAAAAT
131 TTAAAAGTTTAATAAGGAAGGGCATTTTGGCCATTTAGATATT-AAATGAAATAAAAAGCAAAAA
** ** *
61611048 TAAAAGCTAATTTTTGTCCATCTTCTTCATTAGGACAAAATTTAAAGGGTTCTCCATAGCTAGGG
195 TAAAA-C-AAAATTCAT-CATCTTCTTCATTAGCACAAAATTTAAAGGGTTCTCCATAGCTAGGG
61611113 TTTGTTTCAAGCTTTCAAACTCCATAATAAGTGATTCCAAGCCCCGTTTTTAATGATCTTTACGT
257 TTTGTTTCAAGCTTTCAAACTCCATAATAAGTGATTCCAAGCCCCGTTTTTAATGATCTTTACGT
* * *
61611178 TTTTGGAGTCCCGATAACTTGATTAAGCTTATTCTAGCAATAATTCAACG-TAGGGTTCATATAT
322 TTTTGGAGTCCCGATAACTCGATAAAGCTTATGCTAGCAATAATTCAA-GTTAGGGTTCATAT-T
61611242 T-GAAAAATACCCATAG
385 TGGAAAAATACCCATAG
61611258 CAATAATTCA
Statistics
Matches: 367, Mismatches: 29, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
449 8 0.02
450 42 0.11
451 102 0.28
452 212 0.58
453 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (451 bp):
AATAATTTGCAAAACTTACATTCTAGAAGTTTTTAGTATGAAATTGCTTTGGAATATTAATTAGG
AGGGTTTAAATAAAAATTTGACCAATTTCTAAGTTCATGGACAAAATAGGACATGGATAGAATTT
TTAAAAGTTTAATAAGGAAGGGCATTTTGGCCATTTAGATATTAAATGAAATAAAAAGCAAAAAT
AAAACAAAATTCATCATCTTCTTCATTAGCACAAAATTTAAAGGGTTCTCCATAGCTAGGGTTTG
TTTCAAGCTTTCAAACTCCATAATAAGTGATTCCAAGCCCCGTTTTTAATGATCTTTACGTTTTT
GGAGTCCCGATAACTCGATAAAGCTTATGCTAGCAATAATTCAAGTTAGGGTTCATATTTGGAAA
AATACCCATAGGTGAAAAGTGTTTATTTTGATGTTTTATGATAACATCAAATTCACACTCT
Found at i:61618739 original size:54 final size:52
Alignment explanation
Indices: 61618610--61618862 Score: 243
Period size: 54 Copynumber: 4.8 Consensus size: 52
61618600 CATTAGGGTT
**
61618610 AAGGATACCATGTAAGACCATG-CTAAGGTATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGC-ATTGGTAA-G-TTCATAA-GC
* * *
61618665 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-ACTAAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCA-T-AA-GC
* * * *
61618719 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGC
*
61618771 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA--
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGC
* * *
61618820 AAGGATACCATGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
61618863 GTACCCGCGT
Statistics
Matches: 171, Mismatches: 19, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
49 41 0.24
50 1 0.01
51 6 0.04
52 39 0.23
53 4 0.02
54 46 0.27
55 33 0.19
56 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGC
Found at i:61618805 original size:106 final size:109
Alignment explanation
Indices: 61618617--61618864 Score: 309
Period size: 106 Copynumber: 2.4 Consensus size: 109
61618607 GTTAAGGATA
* * *
61618617 CCATGTAAGACCATGCTAAGGTATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
61618682 CCATGTCAAGACATGGCATTGATAAGTTACTAAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTAAAGGCAAAGGTC
* *
61618726 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAA-GCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* * * *
61618787 ACCATGTCAAGACATGGCAATGGTAAGTTTCAAAAGG---A--TA
65 ACCATGTCAAGACATGGCAATGATAAGTTACTAAAGGCAAAGGTC
* *
61618827 CCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGT
61618865 ACCCGCGTAT
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
101 31 0.25
102 2 0.02
103 1 0.01
106 52 0.43
107 4 0.03
108 7 0.06
109 25 0.20
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTAAAGGCAAAGGTC
Found at i:61618841 original size:49 final size:51
Alignment explanation
Indices: 61618610--61618862 Score: 246
Period size: 49 Copynumber: 4.8 Consensus size: 51
61618600 CATTAGGGTT
**
61618610 AAGGATACCATGTAAGACCATG-CTAAGGTATGGCAATTGGTAAGGTTTCTAAGG
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCAA-TGGTAA-GTTTCTAA-G
* * * * *
61618664 CAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTAAAGG
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTCT-AA-G
* * * * *
61618718 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAG
1 --AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-TAAG
61618770 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA-
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTCTAAG
* *
61618820 AAGGATACCATGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG
61618863 GTACCCGCGT
Statistics
Matches: 168, Mismatches: 24, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
49 41 0.24
51 6 0.04
52 34 0.20
53 12 0.07
54 41 0.24
55 33 0.20
56 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (51 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTCTAAG
Found at i:61619078 original size:16 final size:16
Alignment explanation
Indices: 61619057--61619087 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61619047 ATAAATTTGA
61619057 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
61619073 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
61619088 AGTGAAGAAG
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:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:61626296 original size:55 final size:53
Alignment explanation
Indices: 61626187--61626441 Score: 222
Period size: 55 Copynumber: 4.8 Consensus size: 53
61626177 CATTAGGGTT
* * ** *
61626187 CAAGGGTAGCATGTAAGACCATG-CTAAGGTATGGAAATTGGTAAGGTTTC-TAAGG
1 CAAGGATACCATGTAAGACCATGTC-AAGACATGG-CATTGGTAA-G-TTCATAAGG
* * *
61626242 CAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGG
* * * *
61626297 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAA-G
1 C-AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGG
*
61626349 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA--
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGG
* * * *
61626399 -AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
61626442 GTACCCGCGT
Statistics
Matches: 171, Mismatches: 22, Indels: 20
0.80 0.10 0.09
Matches are distributed among these distances:
49 40 0.23
50 1 0.01
51 6 0.04
52 39 0.23
53 6 0.04
54 8 0.05
55 66 0.39
56 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (53 bp):
CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGG
Found at i:61626393 original size:107 final size:110
Alignment explanation
Indices: 61626196--61626394 Score: 289
Period size: 107 Copynumber: 1.8 Consensus size: 110
61626186 TCAAGGGTAG
* * *
61626196 CATGTAAGACCATGCTAAGGTATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
*
61626261 CATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCC
66 CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCC
* * *
61626306 CATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAA-GCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGA
*
61626367 CCATGTCAAGACATGGCAATGGTAAGTT
65 CCATGTCAAGACATGGCAATGATAAGTT
61626395 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
107 46 0.57
108 4 0.05
109 7 0.09
110 23 0.29
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (110 bp):
CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCC
Found at i:61626431 original size:49 final size:50
Alignment explanation
Indices: 61626254--61626441 Score: 166
Period size: 49 Copynumber: 3.6 Consensus size: 50
61626244 AGGAAATCAT
* * * * *
61626254 GTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGG-TCCCAT
1 GTAAGACCATGACAAGACATGGCAATGGTAAGTT-C-A-AA--C-AAGGATACCAC
* * * * *
61626309 GTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGCAAGGATACCAT
1 GTAAGACCATGACAAGACATGGCAATGGTAAGTTCA-AA-CAAGGATACCAC
*
61626361 GTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA-AAGGATACCAC
1 GTAAGACCATGACAAGACATGGCAATGGTAAG-TTCAAACAAGGATACCAC
*
61626410 GTAAGACCATGACAAGTCATGGCAATGGTAAG
1 GTAAGACCATGACAAGACATGGCAATGGTAAG
61626442 GTACCCGCGT
Statistics
Matches: 119, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
49 40 0.34
51 6 0.05
52 35 0.29
53 7 0.06
54 1 0.01
55 30 0.25
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (50 bp):
GTAAGACCATGACAAGACATGGCAATGGTAAGTTCAAACAAGGATACCAC
Found at i:61626658 original size:16 final size:16
Alignment explanation
Indices: 61626637--61626667 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61626627 ATAAATTTGA
61626637 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
61626653 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
61626668 AGTGAAGAAG
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:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:61634438 original size:25 final size:24
Alignment explanation
Indices: 61634385--61634442 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
61634375 ATAGCTCAGA
*
61634385 CGAGCAATCCTGTTATAAATTCTCT
1 CGAGC-ATCCTGTTATAAATTCTCG
*
61634410 CGAGCATCCTGTTATATAGTTCAT-G
1 CGAGCATCCTGTTATA-AATTC-TCG
61634435 CGAGCATC
1 CGAGCATC
61634443 TTGATCGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 11 0.38
25 17 0.59
26 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (24 bp):
CGAGCATCCTGTTATAAATTCTCG
Found at i:61634984 original size:2 final size:2
Alignment explanation
Indices: 61634977--61635005 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
61634967 ATATGGAAAG
61634977 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61635006 GAAAATCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61637368 original size:40 final size:40
Alignment explanation
Indices: 61637176--61637361 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
61637166 TCGAATGATG
* * *
61637176 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
61637216 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61637256 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61637296 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
61637337 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61637362 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61637368 original size:80 final size:80
Alignment explanation
Indices: 61637176--61637384 Score: 241
Period size: 80 Copynumber: 2.6 Consensus size: 80
61637166 TCGAATGATG
* * **
61637176 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
61637240 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
61637256 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
*
61637319 TTGTGCGAGTTACTATAA
64 TCGTGCGAGTTACTA-AA
* **
61637337 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAA
61637385 ACTCTGAAGG
Statistics
Matches: 111, Mismatches: 12, Indels: 13
0.82 0.09 0.10
Matches are distributed among these distances:
79 10 0.09
80 91 0.82
81 10 0.09
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:61639253 original size:15 final size:17
Alignment explanation
Indices: 61639235--61639266 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
61639225 TAGCATAATT
61639235 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
61639250 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
61639267 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:61643695 original size:30 final size:29
Alignment explanation
Indices: 61643649--61643716 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 29
61643639 GCCTCAAATA
*
61643649 GCCAAAACTAGTTAAATCGCACACTTAGT
1 GCCAAAGCTAGTTAAATCGCACACTTAGT
* *
61643678 GCCCAAGCTAGTTTAAATCGTACACTTAGT
1 GCCAAAGCTAG-TTAAATCGCACACTTAGT
61643708 GCCAAAGCT
1 GCCAAAGCT
61643717 TCCGATTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (29 bp):
GCCAAAGCTAGTTAAATCGCACACTTAGT
Found at i:61652420 original size:40 final size:40
Alignment explanation
Indices: 61652374--61652598 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
61652364 CTTGCACAAG
* * *
61652374 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
61652414 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
61652454 GCCTTCGGGTTTTAGCCCGGGTATAATCACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
61652494 GCCTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
61652534 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
61652575 GCCTTCGGGACTTAGCCCAGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
61652599 CATTCGAATA
Statistics
Matches: 154, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 125 0.81
41 28 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:61652469 original size:80 final size:80
Alignment explanation
Indices: 61652338--61652598 Score: 294
Period size: 80 Copynumber: 3.3 Consensus size: 80
61652328 CTCAAGAAAT
* * * * * * * *
61652338 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCAGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
61652401 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * * * *
61652416 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGGTATAA
1 CTTCGGGACTTAGCCCAGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
61652480 TCACTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
61652496 CTTCGGGTCTTAGCCCAGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCAGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
61652561 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
61652577 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCAGATAT
61652599 CATTCGAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 94 0.61
81 33 0.21
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCAGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:61652559 original size:120 final size:120
Alignment explanation
Indices: 61652338--61652598 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 120
61652328 CTCAAGAAAT
* * * *
61652338 CTTCGGGATTTAG-CCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATGTGGTC
1 CTTCGGGATTTAGCCCGGATATAACTACTAGCACAAGGCCTTCGGGTCTTAGCCCAGATATAGTC
* * *
61652402 ACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGC
66 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCACAAAAGC
* * *
61652456 CTTCGGGTTTTAGCCCGGGTATAA-TCACTAGCACAAATGCCTTCGGGTCTTAGCCCAGATATAG
1 CTTCGGGATTTAGCCCGGATATAACT-ACTAGCAC-AAGGCCTTCGGGTCTTAGCCCAGATATAG
* * * *
61652520 -CAACTCGCACGAATGCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
64 TC-ACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTCACCTAGCACAAAAGC
* *
61652577 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGATTTAGCCCGGATAT
61652599 CATTCGAATA
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
118 13 0.11
119 20 0.17
120 56 0.47
121 30 0.25
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (120 bp):
CTTCGGGATTTAGCCCGGATATAACTACTAGCACAAGGCCTTCGGGTCTTAGCCCAGATATAGTC
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCACAAAAGC
Found at i:61656251 original size:28 final size:28
Alignment explanation
Indices: 61656190--61656282 Score: 118
Period size: 28 Copynumber: 3.3 Consensus size: 28
61656180 GATCCACACT
* * *
61656190 TATTCATTTGGCCCCTTTAGGCCCAATC-
1 TATTCATATGG-CCCATCAGGCCCAATCA
61656218 TCATTCATATGGCCCATC-GGTCCCAATCA
1 T-ATTCATATGGCCCATCAGG-CCCAATCA
61656247 TATTCATATGGCCCATCAGGCCCAATCA
1 TATTCATATGGCCCATCAGGCCCAATCA
61656275 TATTCATA
1 TATTCATA
61656283 GTCATGCAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
27 2 0.03
28 44 0.76
29 12 0.21
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (28 bp):
TATTCATATGGCCCATCAGGCCCAATCA
Found at i:61659925 original size:11 final size:11
Alignment explanation
Indices: 61659909--61659984 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
61659899 CTTAATCACT
61659909 TTAATATTAAA
1 TTAATATTAAA
61659920 TTAATA--AAA
1 TTAATATTAAA
*
61659929 -TACTATTAAA
1 TTAATATTAAA
*
61659939 ATAAGTATTAAA
1 TTAA-TATTAAA
61659951 TTTAAT-TTAATA
1 -TTAATATTAA-A
61659963 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
61659976 ATAATATTA
1 TTAATATTA
61659985 TTTTTGGAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 19 0.37
12 13 0.25
13 6 0.12
14 4 0.08
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:61659962 original size:37 final size:36
Alignment explanation
Indices: 61659915--61659984 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
61659905 CACTTTAATA
61659915 TTAAATTAATA-AAATACTATTAAAATAAGTATTAAAT
1 TTAAATTAATATAAA-ACTATTAAAATAA-TATTAAAT
* *
61659952 TTAATTTAATATTAAACTATTAAAATAATATTA
1 TTAAATTAATATAAAACTATTAAAATAATATTA
61659985 TTTTTGGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 5 0.17
37 23 0.77
38 2 0.07
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (36 bp):
TTAAATTAATATAAAACTATTAAAATAATATTAAAT
Found at i:61667746 original size:29 final size:29
Alignment explanation
Indices: 61667714--61667819 Score: 185
Period size: 29 Copynumber: 3.7 Consensus size: 29
61667704 GCTTGGAAGG
61667714 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
61667743 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* **
61667772 TATGGCACTATGTGTGCGAACTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
61667801 TATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
61667820 GATCGTTTAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Done.