Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 44 of 230
Found at i:11852250 original size:68 final size:71
Alignment explanation
Indices: 11852163--11852344 Score: 190
Period size: 72 Copynumber: 2.6 Consensus size: 71
11852153 AAAAATTAAA
* ** * * **
11852163 AGGCTTAACTCACCTCTCGCAATATGAGT-CA-TTT-AAAACATAAACTAAAAATACATCGGCGT
1 AGGCTCAACTCATTTCTCGCAATATGAGTGAATTTTGAAAACAGAAACTAAAAATACATCAACGT
11852225 GCCCCG
66 GCCCCG
* * * *
11852231 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAG-TGAATTTTGAAAACAGAAACTAAAAATACATCAACG
* **
11852296 TGTCTTG
65 TGCCCCG
*
11852303 AGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAA
1 AGGCTCAACTCATTTCTCGCAATATGAG-TGAATTTTGAAAA
11852345 ACAAAAATTA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
68 25 0.26
69 1 0.01
70 1 0.01
71 3 0.03
72 65 0.68
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (71 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTGAATTTTGAAAACAGAAACTAAAAATACATCAACGT
GCCCCG
Found at i:11852507 original size:73 final size:71
Alignment explanation
Indices: 11852357--11852553 Score: 211
Period size: 73 Copynumber: 2.8 Consensus size: 71
11852347 AAAAATTAAA
* * * * * * **
11852357 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAATCATAAACTAAAAATACCTCGGCG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAAATTAAAATACCTCAACG
11852419 TGCCCCG
65 TGCCCCG
*
11852426 AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAGAAGCAAAAATTGAAAATACCTCAAC
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGA-AAACAAAAATT-AAAATACCTCAAC
* **
11852491 GTGTCTTG
64 GTGCCCCG
* *
11852499 AGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAAA
11852554 GGCTTAACTC
Statistics
Matches: 108, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
69 26 0.24
70 3 0.03
71 3 0.03
72 9 0.08
73 66 0.61
74 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (71 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAAATACCTCAACGT
GCCCCG
Found at i:11852649 original size:123 final size:126
Alignment explanation
Indices: 11852426--11852671 Score: 329
Period size: 123 Copynumber: 2.0 Consensus size: 126
11852416 GCGTGCCCCG
* * * *
11852426 AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAGAAGCAAAAATTGAAAATACCTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAGAAGCAAAAACTAAAAATACCTCAAC
* ** *
11852491 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAA
66 GTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * * **
11852553 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-A-AATCATAAACTAAAAATACCTCGGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAGAAGCAAAAACTAAAAATACCTCAAC
*
11852614 GTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 GTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT
11852672 GAAATTACCT
Statistics
Matches: 105, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
122 11 0.10
123 61 0.58
124 1 0.01
125 3 0.03
126 3 0.03
127 26 0.25
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (126 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAGAAGCAAAAACTAAAAATACCTCAAC
GTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:11852755 original size:391 final size:391
Alignment explanation
Indices: 11851581--11853053 Score: 2137
Period size: 391 Copynumber: 3.7 Consensus size: 391
11851571 GCAGAAATTG
**
11851581 AAAATACCTCAGCGTGCCTTGAGGCTCAACTCA-TCTCTCGCAATATGAGTT-AAGTTTTGAAAA
1 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACT-TCTCGCAATATGAGTTGAA-TTTTGAAAA
*
11851644 GCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
64 GCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
* * *
11851709 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
129 TTTGAAAA-A-CAA---AAATTA----AAAG-G-CTT-A-ACTC-AC-C---TCTCGCAATATGA
* * * * * ** * **
11851774 GTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
176 G-TCAA-TTT-A-AATCATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCG
11851839 CAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
237 CAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
* * * *
11851904 TTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
302 TTTCTCGCAATATGAGTTGAGTTTTGAAAA-A-CAA---AAATTA----AAAG-G-CTT-A-ACT
* * * *
11851969 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTG
354 C-AC-C---TCTCGCAATATGAG-TCAA-TTT-AAATCATAA-ACTA
* * * ** *
11852015 AAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGC
1 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAAGC
11852080 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
66 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
*
11852145 TGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTC-ATTTAAAACATAAACT
131 TGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACT
*
11852209 AAAAATACATCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
196 AAAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
11852274 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTT
261 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTT
11852339 TGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACT
326 TGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACT
11852404 A
391 A
* *
11852405 AAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAGAAGC
1 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAAGC
* *
11852470 AAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTT
66 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
11852535 TGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACT
131 TGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACT
11852600 AAAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
196 AAAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
11852665 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTT
261 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTT
11852730 TGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACT
326 TGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACT
11852795 A
391 A
* *
11852796 AAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAGAAGC
1 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAAGC
*
11852861 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTT
66 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
11852926 TGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACT
131 TGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACT
*
11852991 AAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG-ATTTTGAAAA
196 AAAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
11853054 AGTAGAAATT
Statistics
Matches: 995, Mismatches: 40, Indels: 52
0.92 0.04 0.05
Matches are distributed among these distances:
390 185 0.19
391 461 0.46
392 3 0.00
393 14 0.01
396 1 0.00
397 2 0.00
398 3 0.00
399 1 0.00
400 3 0.00
401 1 0.00
402 3 0.00
406 6 0.01
409 2 0.00
410 1 0.00
411 136 0.14
412 1 0.00
413 3 0.00
414 1 0.00
415 1 0.00
416 14 0.01
419 1 0.00
420 2 0.00
421 3 0.00
422 1 0.00
423 3 0.00
424 1 0.00
425 3 0.00
429 6 0.01
432 2 0.00
433 1 0.00
434 127 0.13
435 3 0.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (391 bp):
AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAAGC
AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
TGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACT
AAAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTT
TGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACT
A
Found at i:11852898 original size:73 final size:72
Alignment explanation
Indices: 11852748--11852930 Score: 210
Period size: 73 Copynumber: 2.6 Consensus size: 72
11852738 AAAAATTAAA
* * * * * **
11852748 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAATCATAAACTAAAAATACCTCGGCG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAGCAGAAACTAAAAATACCTCAACG
11852810 TGCCCCG
66 TGCCCCG
* *
11852817 AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGA-AAGCAGAAACTAAAAATACCTCAAC
* **
11852882 GTGTCTTG
65 GTGCCCCG
* *
11852890 AGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAA
11852931 AACAAAAATT
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
69 26 0.27
70 3 0.03
71 3 0.03
72 3 0.03
73 61 0.64
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (72 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAGCAGAAACTAAAAATACCTCAACG
TGCCCCG
Found at i:11853040 original size:123 final size:126
Alignment explanation
Indices: 11852817--11853095 Score: 352
Period size: 123 Copynumber: 2.2 Consensus size: 126
11852807 GCGTGCCCCG
* * * * *
11852817 AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTTGAGAAGCAGAAACTAAAAATACCTCAAC
* ** *
11852882 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAA-CAAAAATTAAA
65 GTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTGAAAAAGCAAAAATTAAA
* * **
11852944 AGGCTTAACTCACCTCTCGCAATATGAGTCAA-TTT-A-AATCATAAACTAAAAATACCTCGGCG
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTGAGAAGCAGAAACTAAAAATACCTCAACG
* *
11853006 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAA
66 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAGCAAAAATTAAA
*
11853067 AGG-TTCAACCCACCTCTCGCAATATGAGT
1 AGGCTT-AACTCACCTCTCGCAATATGAGT
11853096 TGATTTTTGA
Statistics
Matches: 134, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
122 12 0.09
123 89 0.66
124 1 0.01
125 3 0.02
126 3 0.02
127 26 0.19
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (126 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTGAGAAGCAGAAACTAAAAATACCTCAACG
TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAGCAAAAATTAAA
Found at i:11853063 original size:196 final size:196
Alignment explanation
Indices: 11852035--11853067 Score: 1914
Period size: 196 Copynumber: 5.3 Consensus size: 196
11852025 AACGTGTCTT
*
11852035 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAA
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAA
*
11852100 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAAG
66 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAAAG
* *
11852165 GCTTAACTCACCTCTCGCAATATGAGTC-ATTTAAAACATAAACTAAAAATACATCGGCGTGCCC
131 GCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACTAAAAATACCTCGGCGTGCCC
11852229 C
196 C
* *
11852230 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAA
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAA
11852294 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAAAG
66 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAAAG
11852359 GCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACTAAAAATACCTCGGCGTGCCC
131 GCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACTAAAAATACCTCGGCGTGCCC
11852424 C
196 C
* *
11852425 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAGAAGCAAAAATTGAAAATACCTCAA
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAA
11852490 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAAAG
66 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAAAG
11852555 GCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACTAAAAATACCTCGGCGTGCCC
131 GCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACTAAAAATACCTCGGCGTGCCC
11852620 C
196 C
* *
11852621 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAA
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAA
11852685 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAAAG
66 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAAAG
11852750 GCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACTAAAAATACCTCGGCGTGCCC
131 GCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACTAAAAATACCTCGGCGTGCCC
11852815 C
196 C
*
11852816 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAA
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAA
11852881 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAAAG
66 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAAAG
11852946 GCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACTAAAAATACCTCGGCGTGCCC
131 GCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACTAAAAATACCTCGGCGTGCCC
11853011 C
196 C
*
11853012 GAGGCTCAACTCACTTCTCGCAATATGAGTTG-ATTTTGAAAAAGTAGAAATT-AAAA
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTG-AAAAGCAGAAATTGAAAA
11853068 GGTTCAACCC
Statistics
Matches: 817, Mismatches: 17, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
194 112 0.14
195 320 0.39
196 385 0.47
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (196 bp):
GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAA
CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAAAG
GCTTAACTCACCTCTCGCAATATGAGTCAATTTAAATCATAAACTAAAAATACCTCGGCGTGCCC
C
Found at i:11853372 original size:122 final size:125
Alignment explanation
Indices: 11853151--11853381 Score: 310
Period size: 122 Copynumber: 1.9 Consensus size: 125
11853141 ACGTGTCTTG
* * * * * *
11853151 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAATAGAAATTAAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCA-TATCTTAAAACAGAAACTAAAAATACCTCAGC
11853216 GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGAAAAACAAATATTAAA
65 GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGAAAAACAAATATTAAA
* *
11853277 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-AT-TTAAAACATAAACTAAAAATACCTC-GAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCATATCTTAAAACAGAAACTAAAAATACCTCAG-C
* *
11853338 GTG-CCTCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
65 GTGTCC-CGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTT
11853382 TTTTTTAAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
121 3 0.03
122 60 0.65
123 1 0.01
125 2 0.02
126 27 0.29
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (125 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCATATCTTAAAACAGAAACTAAAAATACCTCAGCG
TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGAAAAACAAATATTAAA
Found at i:11853424 original size:70 final size:70
Alignment explanation
Indices: 11853323--11853453 Score: 199
Period size: 70 Copynumber: 1.9 Consensus size: 70
11853313 AAACATAAAC
* * * *
11853323 TAAAAATACCTCGACGTGCCTCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTT
1 TAAAAATACCTCAACATGCCTCGAGGCTCAACTCACTTCTCGCAATATGAATTGAATTTTTTTTT
11853388 AAATT
66 AAATT
* * *
11853393 TAAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTT
1 TAAAAATACCTCAACATGCCTCGAGGCTCAACTCACTTCTCGCAATATGAATTGAATTTTT
11853454 GAAACAGAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 54 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (70 bp):
TAAAAATACCTCAACATGCCTCGAGGCTCAACTCACTTCTCGCAATATGAATTGAATTTTTTTTT
AAATT
Found at i:11859354 original size:21 final size:21
Alignment explanation
Indices: 11859328--11859372 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
11859318 TCGACTTCGA
11859328 CTTCGTGCATCACTGTTTTCC
1 CTTCGTGCATCACTGTTTTCC
11859349 CTTCGTGCATCACTGTTTTCC
1 CTTCGTGCATCACTGTTTTCC
11859370 CTT
1 CTT
11859373 TTTACTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.09, C:0.33, G:0.13, T:0.44
Consensus pattern (21 bp):
CTTCGTGCATCACTGTTTTCC
Found at i:11875127 original size:17 final size:18
Alignment explanation
Indices: 11875093--11875128 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11875083 AACACGAAAA
11875093 TTTTGAAACACGAGATTT
1 TTTTGAAACACGAGATTT
11875111 TTTTGAAACACGA-ATTT
1 TTTTGAAACACGAGATTT
11875128 T
1 T
11875129 CTTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (18 bp):
TTTTGAAACACGAGATTT
Found at i:11875128 original size:16 final size:16
Alignment explanation
Indices: 11875082--11875128 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
11875072 TTTTAAAAAA
**
11875082 AAACACGAAAATTTTG
1 AAACACGAATTTTTTG
11875098 AAACACGAGATTTTTTTG
1 AAACACGA-A-TTTTTTG
11875116 AAACACGAATTTT
1 AAACACGAATTTT
11875129 CTTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.44
17 2 0.07
18 13 0.48
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (16 bp):
AAACACGAATTTTTTG
Found at i:11875152 original size:16 final size:16
Alignment explanation
Indices: 11875130--11875165 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
11875120 ACGAATTTTC
*
11875130 TTTTTTAAACACGAAAA
1 TTTTTAAAACAC-AAAA
11875147 TTTTTAAAACACAAAA
1 TTTTTAAAACACAAAA
11875163 TTT
1 TTT
11875166 GTTTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (16 bp):
TTTTTAAAACACAAAA
Found at i:11875178 original size:38 final size:37
Alignment explanation
Indices: 11875093--11875175 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
11875083 AACACGAAAA
** * * *
11875093 TTTTGAAACACGAGATTTTTTTGAAACACGAATTTTCT
1 TTTTGAAACACGA-AAATTTTTAAAACACAAAATTTCT
* *
11875131 TTTTTAAACACGAAAATTTTTAAAACACAAAATTTGT
1 TTTTGAAACACGAAAATTTTTAAAACACAAAATTTCT
11875168 TTTTGAAA
1 TTTTGAAA
11875176 ACATAAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
37 25 0.68
38 12 0.32
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.41
Consensus pattern (37 bp):
TTTTGAAACACGAAAATTTTTAAAACACAAAATTTCT
Found at i:11875187 original size:22 final size:20
Alignment explanation
Indices: 11875147--11875187 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
11875137 AACACGAAAA
*
11875147 TTTTTAAAACACAAAATTTG
1 TTTTTAAAACAAAAAATTTG
11875167 TTTTTGAAAACATAAAAATTT
1 TTTTT-AAAACA-AAAAATTT
11875188 TGATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTTTAAAACAAAAAATTTG
Found at i:11875232 original size:20 final size:20
Alignment explanation
Indices: 11875199--11875330 Score: 55
Period size: 21 Copynumber: 6.8 Consensus size: 20
11875189 GATAAAAATG
**
11875199 AAACACGAGGATTTTTTTTA
1 AAACACGAAAATTTTTTTTA
*
11875219 AAACACGAAAA---TTTAT-
1 AAACACGAAAATTTTTTTTA
* ** *
11875235 GAACACGGTCAATTTTTTTGA
1 AAACAC-GAAAATTTTTTTTA
* *
11875256 AAACATGAAAA---TTTTTG
1 AAACACGAAAATTTTTTTTA
* *
11875273 AAAGACGAGAATTTTTTTTGTA
1 AAACACGA-AAATTTTTTT-TA
11875295 AAACAC-AGAAATTTTTTTTGA
1 AAACACGA-AAATTTTTTTT-A
*
11875316 AAACAAGAAAATTTT
1 AAACACGAAAATTTT
11875331 CAAAATACGG
Statistics
Matches: 79, Mismatches: 21, Indels: 23
0.64 0.17 0.19
Matches are distributed among these distances:
16 5 0.06
17 17 0.22
18 2 0.03
20 16 0.20
21 32 0.41
22 7 0.09
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (20 bp):
AAACACGAAAATTTTTTTTA
Found at i:11875252 original size:38 final size:37
Alignment explanation
Indices: 11875196--11875305 Score: 116
Period size: 37 Copynumber: 2.9 Consensus size: 37
11875186 TTTGATAAAA
*
11875196 ATGAAACACGAGGATTTTTTTTAAAACACGAAAATTT
1 ATGAAACACGAGAATTTTTTTTAAAACACGAAAATTT
* *
11875233 ATG-AACACG-GTCAATTTTTTTGAAAACATGAAAATTT
1 ATGAAACACGAG--AATTTTTTTTAAAACACGAAAATTT
* *
11875270 TTGAAAGACGAGAATTTTTTTTGTAAAACACAGAAA
1 ATGAAACACGAGAA-TTTTTTT-TAAAACAC-GAAA
11875306 TTTTTTTTGA
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
35 1 0.02
36 6 0.10
37 29 0.49
38 12 0.20
39 7 0.12
40 4 0.07
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.33
Consensus pattern (37 bp):
ATGAAACACGAGAATTTTTTTTAAAACACGAAAATTT
Found at i:11875310 original size:22 final size:20
Alignment explanation
Indices: 11875247--11875330 Score: 84
Period size: 21 Copynumber: 4.2 Consensus size: 20
11875237 ACACGGTCAA
*
11875247 TTTTTTTGAAAACATGAAA-
1 TTTTTTTGAAAACAAGAAAT
* *
11875266 -ATTTTTGAAAGACGAG-AAT
1 TTTTTTTGAAA-ACAAGAAAT
11875285 TTTTTTTGTAAAACACAGAAAT
1 TTTTTTTG-AAAACA-AGAAAT
11875307 TTTTTTTGAAAACAAGAAAAT
1 TTTTTTTGAAAACAAG-AAAT
11875328 TTT
1 TTT
11875331 CAAAATACGG
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
18 11 0.21
19 3 0.06
20 10 0.19
21 18 0.34
22 11 0.21
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (20 bp):
TTTTTTTGAAAACAAGAAAT
Found at i:11875362 original size:50 final size:50
Alignment explanation
Indices: 11875306--11875405 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
11875296 AACACAGAAA
* *
11875306 TTTTTTTTGAAAACAAGAAAATTTTCAAAATACGGGAATTTTGAAAACAC
1 TTTTTTTTAAAAACAAGAAAATTTTCAAAACACGGGAATTTTGAAAACAC
* ** *
11875356 TTTTTTTTAAAAACATGAAAATTTTTGAAACACTGGAATTTTGAAAACAC
1 TTTTTTTTAAAAACAAGAAAATTTTCAAAACACGGGAATTTTGAAAACAC
11875406 GAAGATTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (50 bp):
TTTTTTTTAAAAACAAGAAAATTTTCAAAACACGGGAATTTTGAAAACAC
Found at i:11875386 original size:17 final size:18
Alignment explanation
Indices: 11875359--11875454 Score: 76
Period size: 17 Copynumber: 5.6 Consensus size: 18
11875349 AAAACACTTT
*
11875359 TTTTTAAAAACATGAAAA
1 TTTTTGAAAACATGAAAA
*
11875377 TTTTTG-AAACACTG-GAA
1 TTTTTGAAAACA-TGAAAA
* *
11875394 -TTTTGAAAACACGAAGA
1 TTTTTGAAAACATGAAAA
* *
11875411 TTTTTG-AAACGTGAGAA
1 TTTTTGAAAACATGAAAA
*
11875428 TTTTTGAAAACACG-AAA
1 TTTTTGAAAACATGAAAA
*
11875445 TTTTTTAAAA
1 TTTTTGAAAA
11875455 AAAACACGGA
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
16 6 0.10
17 37 0.62
18 17 0.28
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACATGAAAA
Found at i:11875403 original size:34 final size:35
Alignment explanation
Indices: 11875359--11875450 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 35
11875349 AAAACACTTT
* *
11875359 TTTTTAAAAACATGAAAATTTTTGAAACACTG-GAA
1 TTTTTGAAAACACGAAAATTTTTGAAAC-CTGAGAA
* *
11875394 -TTTTGAAAACACGAAGATTTTTGAAACGTGAGAA
1 TTTTTGAAAACACGAAAATTTTTGAAACCTGAGAA
*
11875428 TTTTTGAAAACACGAAATTTTTT
1 TTTTTGAAAACACGAAAATTTTT
11875451 AAAAAAAACA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
33 2 0.04
34 27 0.55
35 20 0.41
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACCTGAGAA
Found at i:11875477 original size:16 final size:17
Alignment explanation
Indices: 11875456--11875487 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11875446 TTTTTAAAAA
11875456 AAACACG-GAAATTTTG
1 AAACACGAGAAATTTTG
11875472 AAACACGAGAAATTTT
1 AAACACGAGAAATTTT
11875488 TTTAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (17 bp):
AAACACGAGAAATTTTG
Found at i:11875484 original size:39 final size:40
Alignment explanation
Indices: 11875426--11875518 Score: 122
Period size: 39 Copynumber: 2.4 Consensus size: 40
11875416 GAAACGTGAG
*
11875426 AATTTTTGAAA-AC-ACGAAATTTTTTAAAAAAAACACGGA
1 AATTTTTGAAACACGACGAAATTTTTT-AAAAAAACACGAA
* *
11875465 AA-TTTTGAAACACGA-GAAATTTTTTTAAAAAACCCGAA
1 AATTTTTGAAACACGACGAAATTTTTTAAAAAAACACGAA
11875503 AATTTTTGAAACACGA
1 AATTTTTGAAACACGA
11875519 TTTTTTTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
38 20 0.42
39 27 0.56
40 1 0.02
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (40 bp):
AATTTTTGAAACACGACGAAATTTTTTAAAAAAACACGAA
Found at i:11875488 original size:38 final size:38
Alignment explanation
Indices: 11875426--11875518 Score: 116
Period size: 38 Copynumber: 2.4 Consensus size: 38
11875416 GAAACGTGAG
* *
11875426 AATTTTTGAAAACACGAAATTTTTTAAAAAAAACACGGA
1 AATTTTTG-AAACACGAAAATTTTTAAAAAAAACACGAA
** *
11875465 AA-TTTTGAAACACGAGAAATTTTTTTAAAAAACCCGAA
1 AATTTTTGAAACACGA-AAATTTTTAAAAAAAACACGAA
11875503 AATTTTTGAAACACGA
1 AATTTTTGAAACACGA
11875519 TTTTTTTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
37 8 0.17
38 24 0.51
39 15 0.32
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (38 bp):
AATTTTTGAAACACGAAAATTTTTAAAAAAAACACGAA
Found at i:11875958 original size:21 final size:21
Alignment explanation
Indices: 11875932--11875971 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11875922 AAAAAGCTCA
11875932 AAAATACGAGATTGACCGATC
1 AAAATACGAGATTGACCGATC
*
11875953 AAAATACGAGCTTGACCGA
1 AAAATACGAGATTGACCGA
11875972 GAGGGTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (21 bp):
AAAATACGAGATTGACCGATC
Found at i:11876027 original size:9 final size:8
Alignment explanation
Indices: 11875993--11876096 Score: 50
Period size: 7 Copynumber: 13.9 Consensus size: 8
11875983 GACTCGAGCC
11875993 TTCCTTTT
1 TTCCTTTT
11876001 TT-CTTTT
1 TTCCTTTT
11876008 TT-C--TT
1 TTCCTTTT
11876013 TTCCTTTT
1 TTCCTTTT
11876021 TTCCCTTTTT
1 TT-CC-TTTT
* *
11876031 TTTCTCTT
1 TTCCTTTT
11876039 TT-CTTTT
1 TTCCTTTT
11876046 TT-CTTTT
1 TTCCTTTT
*
11876053 TT-CTGTT
1 TTCCTTTT
*
11876060 TT-CTGTT
1 TTCCTTTT
*
11876067 TT-CTGTT
1 TTCCTTTT
11876074 TT-C-TTT
1 TTCCTTTT
11876080 TTCCTTCTTT
1 TTCC-T-TTT
11876090 TTCCTTT
1 TTCCTTT
11876097 GGCCTGCTTC
Statistics
Matches: 82, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
5 4 0.05
6 5 0.06
7 43 0.52
8 13 0.16
9 4 0.05
10 13 0.16
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (8 bp):
TTCCTTTT
Found at i:11876054 original size:21 final size:20
Alignment explanation
Indices: 11875996--11876082 Score: 93
Period size: 21 Copynumber: 4.0 Consensus size: 20
11875986 TCGAGCCTTC
*
11875996 CTTTTTTCTTTTTTCTTTTC
1 CTTTTTTCTTTTTTCTTTTT
11876016 CTTTTTTCCCTTTTTTTTCTCTTTT
1 CTTTTTT--C--TTTTTTCT-TTTT
11876041 CTTTTTTCTTTTTTCTGTTTT
1 CTTTTTTCTTTTTTCT-TTTT
* *
11876062 CTGTTTTCTGTTTTCTTTTT
1 CTTTTTTCTTTTTTCTTTTT
11876082 C
1 C
11876083 CTTCTTTTTC
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
20 12 0.21
21 26 0.45
22 1 0.02
23 1 0.02
24 8 0.14
25 10 0.17
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (20 bp):
CTTTTTTCTTTTTTCTTTTT
Found at i:11876096 original size:7 final size:7
Alignment explanation
Indices: 11875996--11876081 Score: 84
Period size: 7 Copynumber: 11.9 Consensus size: 7
11875986 TCGAGCCTTC
11875996 CTTTTTT
1 CTTTTTT
11876003 CTTTTTT
1 CTTTTTT
*
11876010 C-TTTTC
1 CTTTTTT
11876016 CTTTTTT
1 CTTTTTT
11876023 CCCTTTTTTTT
1 --C--TTTTTT
*
11876034 CTCTTTT
1 CTTTTTT
11876041 CTTTTTT
1 CTTTTTT
11876048 CTTTTTT
1 CTTTTTT
*
11876055 CTGTTTT
1 CTTTTTT
*
11876062 CTGTTTT
1 CTTTTTT
*
11876069 CTGTTTT
1 CTTTTTT
11876076 CTTTTT
1 CTTTTT
11876082 CCTTCTTTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
6 5 0.07
7 55 0.81
9 2 0.03
11 6 0.09
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (7 bp):
CTTTTTT
Found at i:11876379 original size:18 final size:18
Alignment explanation
Indices: 11876358--11876401 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
11876348 GTTTGGGTTG
11876358 CGGGTCGGGTCACCGGAT
1 CGGGTCGGGTCACCGGAT
* *
11876376 CGGGTCGTGTCGCCGGAT
1 CGGGTCGGGTCACCGGAT
11876394 CGGGTCGG
1 CGGGTCGG
11876402 TTTGACCCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.07, C:0.27, G:0.48, T:0.18
Consensus pattern (18 bp):
CGGGTCGGGTCACCGGAT
Found at i:11876454 original size:6 final size:6
Alignment explanation
Indices: 11876444--11876516 Score: 60
Period size: 6 Copynumber: 12.3 Consensus size: 6
11876434 TATTTTTATT
* **
11876444 TTTTTCC TTTTTC -TTTTC TTTTTC TTTTT- TTTTTC TTCTTC TCCTTC
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* * * *
11876491 TTCTTC TTCTTC TTCTTC TTCTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TT
11876517 CACGAGCCCT
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
5 10 0.16
6 46 0.75
7 5 0.08
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTTC
Found at i:11876465 original size:17 final size:17
Alignment explanation
Indices: 11876445--11876480 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11876435 ATTTTTATTT
11876445 TTTTCCTTTTTCTTTTC
1 TTTTCCTTTTTCTTTTC
* *
11876462 TTTTTCTTTTTTTTTTC
1 TTTTCCTTTTTCTTTTC
11876479 TT
1 TT
11876481 CTTCTCCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTCCTTTTTCTTTTC
Found at i:11876482 original size:3 final size:3
Alignment explanation
Indices: 11876454--11876517 Score: 78
Period size: 3 Copynumber: 22.0 Consensus size: 3
11876444 TTTTTCCTTT
* * * *
11876454 TTC TT- TTC TTT TTC TT- TTT TTT TTC TTC TTC TCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
11876500 TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC
11876518 ACGAGCCCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
2 4 0.07
3 50 0.93
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:11876574 original size:18 final size:18
Alignment explanation
Indices: 11876534--11876577 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
11876524 CCTAGCCGCC
11876534 GCGCCG-CGCCGTCGCTT
1 GCGCCGTCGCCGTCGCTT
*
11876551 GTGCCGTCGCCGTCGTCTT
1 GCGCCGTCGCCGTCG-CTT
11876570 -CGCCGTCG
1 GCGCCGTCG
11876578 AGCCGCTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.22
18 15 0.65
19 3 0.13
ACGTcount: A:0.00, C:0.43, G:0.34, T:0.23
Consensus pattern (18 bp):
GCGCCGTCGCCGTCGCTT
Found at i:11876653 original size:20 final size:20
Alignment explanation
Indices: 11876596--11876653 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
11876586 TCGGAGGCTC
*
11876596 TCCTCTTC-TTCTC-CTTTC
1 TCCTCTTCTTTCTCTCTTTT
*
11876614 TCCTC-TCTTTCTCTCCTTT
1 TCCTCTTCTTTCTCTCTTTT
*
11876633 TCCTCTTCTTTTTCTCTTTT
1 TCCTCTTCTTTCTCTCTTTT
11876653 T
1 T
11876654 TGCAAGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 10 0.30
19 8 0.24
20 13 0.39
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (20 bp):
TCCTCTTCTTTCTCTCTTTT
Found at i:11876911 original size:29 final size:29
Alignment explanation
Indices: 11876878--11876994 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
11876868 TGTAATTTTT
*
11876878 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
11876907 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
11876937 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
11876966 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
11876995 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:11876933 original size:30 final size:30
Alignment explanation
Indices: 11876893--11876994 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
11876883 ATTTAGGATT
*
11876893 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
11876923 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
11876953 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
11876983 AAAATGCAATTT
1 AAAATGAAATTT
11876995 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:11877011 original size:16 final size:17
Alignment explanation
Indices: 11876990--11877028 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
11876980 GTCAAAATGC
11876990 AATTTTTATTTTTTT-A
1 AATTTTTATTTTTTTGA
*
11877006 AATTTTTTTTTTTTTGA
1 AATTTTTATTTTTTTGA
11877023 AATTTT
1 AATTTT
11877029 GAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
AATTTTTATTTTTTTGA
Found at i:11877018 original size:17 final size:17
Alignment explanation
Indices: 11876992--11877028 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11876982 CAAAATGCAA
*
11876992 TTTTTATTTTTTTAAAT
1 TTTTTATTTTTTGAAAT
*
11877009 TTTTTTTTTTTTGAAAT
1 TTTTTATTTTTTGAAAT
11877026 TTT
1 TTT
11877029 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTTGAAAT
Found at i:11877191 original size:30 final size:30
Alignment explanation
Indices: 11877157--11877219 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
11877147 ACATAACAAG
11877157 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
11877187 CAAATGCCTTTAAAATAATAACAAGATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
11877217 CAA
1 CAA
11877220 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:11879965 original size:16 final size:15
Alignment explanation
Indices: 11879934--11879963 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11879924 ACTATTAATA
11879934 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
*
11879949 ATTTTTTTAATATTT
1 ATTTTTTAAATATTT
11879964 TACTATACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:11891434 original size:9 final size:9
Alignment explanation
Indices: 11891420--11891472 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
11891410 TTCACATCCT
11891420 TCTCTCAAC
1 TCTCTCAAC
*
11891429 TCTCTCAAT
1 TCTCTCAAC
*
11891438 TCTCTCAAAT
1 TCTCTC-AAC
11891448 TCTCTCAAAC
1 TCTCTC-AAC
* *
11891458 CCTCCCAAC
1 TCTCTCAAC
11891467 TCTCTC
1 TCTCTC
11891473 GTTTTTAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
9 21 0.57
10 16 0.43
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.34
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:11892104 original size:26 final size:27
Alignment explanation
Indices: 11892056--11892110 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
11892046 CTTAATATTT
* *
11892056 AAGTAAATATATATAATATAATAA-TA
1 AAGTAAATATATATAAAAAAATAAGTA
11892082 AAGTAAATATA-ATAAAACAAATAAGTA
1 AAGTAAATATATATAAAA-AAATAAGTA
11892109 AA
1 AA
11892111 TGAAATAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 16 0.64
27 4 0.16
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (27 bp):
AAGTAAATATATATAAAAAAATAAGTA
Found at i:11892107 original size:22 final size:23
Alignment explanation
Indices: 11892055--11892119 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 23
11892045 ACTTAATATT
11892055 TAAGTAAATATATATAATATAATAA
1 TAAGTAAATATA-ATAA-ATAATAA
11892080 TAAAGTAAATATAATAAA-ACA-AA
1 T-AAGTAAATATAATAAATA-ATAA
11892103 TAAGTAAATGA-AATAAA
1 TAAGTAAAT-ATAATAAA
11892120 GAAAGATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
22 14 0.38
23 5 0.14
24 2 0.05
25 5 0.14
26 11 0.30
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.28
Consensus pattern (23 bp):
TAAGTAAATATAATAAATAATAA
Found at i:11899959 original size:30 final size:30
Alignment explanation
Indices: 11899923--11899979 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
11899913 ACTGTTGGTG
*
11899923 AAATGTTTTTTTGATCTTGACATGTACTTA
1 AAATGTTCTTTTGATCTTGACATGTACTTA
11899953 AAATGTTCTTTTGATCTTGACATGTAC
1 AAATGTTCTTTTGATCTTGACATGTAC
11899980 CTATGATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.47
Consensus pattern (30 bp):
AAATGTTCTTTTGATCTTGACATGTACTTA
Found at i:11904305 original size:44 final size:44
Alignment explanation
Indices: 11904196--11904419 Score: 225
Period size: 44 Copynumber: 5.1 Consensus size: 44
11904186 ATGGAGTAGA
* *
11904196 TACAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAG-
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* ** * * *
11904239 AATTAATTTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * *
11904283 CACAAATCTAATCTCTCTGAAGTTGCAGCGGAGCAGATTGAAGT
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * *
11904327 TACGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAAATAAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * * * *
11904371 TACAAATCTCATTTCCTTGAAGTTGTAGTAGAACAGATTGAAGT
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
11904415 TACAA
1 TACAA
11904420 GTTACAAATC
Statistics
Matches: 144, Mismatches: 36, Indels: 1
0.80 0.20 0.01
Matches are distributed among these distances:
43 35 0.24
44 109 0.76
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (44 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
Found at i:11906018 original size:57 final size:60
Alignment explanation
Indices: 11905955--11906082 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 60
11905945 GATTAATTTC
*
11905955 ATTATTTATATATT-AATT-T-CA-TTATTATTCTTCACTTTTTAAATCCCTAAAGTTAAT
1 ATTATTTATAT-TTGAATTATACATTTATTATTCTTCACTTTTTAAATACCTAAAGTTAAT
** * * * *
11906012 ATTATTTATATTTGTTTTATATATTTATTATTCTTTATTTTTTAAATACCTAAATTTAAT
1 ATTATTTATATTTGAATTATACATTTATTATTCTTCACTTTTTAAATACCTAAAGTTAAT
*
11906072 ATTATTCATAT
1 ATTATTTATAT
11906083 CTATTATATT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
56 2 0.03
57 13 0.22
58 1 0.02
59 1 0.02
60 42 0.71
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.57
Consensus pattern (60 bp):
ATTATTTATATTTGAATTATACATTTATTATTCTTCACTTTTTAAATACCTAAAGTTAAT
Found at i:11906046 original size:60 final size:60
Alignment explanation
Indices: 11905976--11906100 Score: 169
Period size: 60 Copynumber: 2.1 Consensus size: 60
11905966 ATTAATTTCA
* * * * *
11905976 TTATTATTCTTCACTTTTTAAATCCCTAAAGTTAATATTATTTATATTTGTTTTATATAT
1 TTATTATTCTTCACTTTTTAAATACCTAAAGTTAATATTATTCATATCTATTATATATAT
* * * *
11906036 TTATTATTCTTTATTTTTTAAATACCTAAATTTAATATTATTCATATCTATTATATTTAT
1 TTATTATTCTTCACTTTTTAAATACCTAAAGTTAATATTATTCATATCTATTATATATAT
11906096 TTATT
1 TTATT
11906101 TGTTCATTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (60 bp):
TTATTATTCTTCACTTTTTAAATACCTAAAGTTAATATTATTCATATCTATTATATATAT
Found at i:11906126 original size:69 final size:68
Alignment explanation
Indices: 11906027--11906425 Score: 331
Period size: 69 Copynumber: 5.8 Consensus size: 68
11906017 TTATATTTGT
* * * *
11906027 TTTATATATTTATTATTC-TTTATTTTTTAAATACCTAAATTTAATATTATTCATATCTATTATA
1 TTTATTTATTTATTATTCTTTTA-CTTTTAAATACTTAAATTTAATATTATTTATATCTATTATA
*
11906091 TTTA
65 TCTA
* * * * * *
11906095 TTTATTTGTTCATTATTCTTTTATCTTTTAAATATTTAAATGTAATATTATTTATATTTTTTATC
1 TTTATTTATTTATTATTCTTTTA-CTTTTAAATACTTAAATTTAATATTATTTATATCTATTAT-
*
11906160 AATTTA
64 -ATCTA
* * * * * *
11906166 TTTATTTATTTATCATTATTTTACTTTTAAAATATTTAAATTTAATATTATGTGTA-CTTATTTT
1 TTTATTTATTTATTATTCTTTTACTTTT-AAATACTTAAATTTAATATTATTTATATC-TATTAT
11906230 ATCTA
64 ATCTA
* * * * *
11906235 TTTACTTATTTATTATTCTTTTACTTTTTAAATGCTTAAATTTAATATTATTTATATTTGTTTTA
1 TTTATTTATTTATTATTCTTTTAC-TTTTAAATACTTAAATTTAATATTATTTATATCTATTATA
11906300 TCTA
65 TCTA
* * * * * * * * *
11906304 TTTATTCACTTATTTATTCTTTTACTTTTAAA-GCATTTAATTTCGATATTATTCATATTTGTTT
1 TTTATTTATTTA-TTATTCTTTTACTTTTAAATAC-TTAAATTT-AATATTATTTATATCTATTA
*
11906368 TATCAA
63 TATCTA
* * *
11906374 TTTATTTATTTATTATT-TTACTT-TTTTTAAATACTTCAATTTAATGTTATTT
1 TTTATTTATTTATTATTCTT--TTACTTTTAAATACTTAAATTTAATATTATTT
11906426 GTTTTATCTA
Statistics
Matches: 273, Mismatches: 45, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
68 26 0.10
69 138 0.51
70 57 0.21
71 52 0.19
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (68 bp):
TTTATTTATTTATTATTCTTTTACTTTTAAATACTTAAATTTAATATTATTTATATCTATTATAT
CTA
Found at i:11906148 original size:79 final size:71
Alignment explanation
Indices: 11906090--11906387 Score: 223
Period size: 70 Copynumber: 4.2 Consensus size: 71
11906080 TATCTATTAT
* * * *
11906090 ATTTATTTATTTGTTCATTATTCTTTTATCTTTT-AAATATTTAAATGTAATATTATTTATATTT
1 ATTTATTTATTTATTTATCATTATTTTA-CTTTTAAAATATTTAAATGTAATATTATTTATATTT
*
11906154 TTTATCA
65 TATATCA
* * * *
11906161 ATTTATTTATTTATTTATCATTATTTTACTTTTAAAATATTTAAATTTAATATTATGTGTA-CTT
1 ATTTATTTATTTATTTATCATTATTTTACTTTTAAAATATTTAAATGTAATATTATTTATATTTT
**
11906225 AT-TTT
66 ATATCA
* * * * * ** *
11906230 ATCTATTTACTTATTTATTATTCTTTTACTTTTTAAATGCTTAAATTTAATATTATTTATATTTG
1 ATTTATTTATTTATTTATCATTATTTTACTTTTAAAATATTTAAATGTAATATTATTTATA-TT-
* *
11906295 TTTTATCT
64 TTATATCA
* * * ** * * *
11906303 ATTTATTCACTTA-TT-T-ATTCTTTTACTTTTAAAGCATTT-AATTTCGATATTATTCATATTT
1 ATTTATTTATTTATTTATCATTATTTTACTTTTAAAATATTTAAATGT-AATATTATTTATA-TT
*
11906364 GTTTTATCA
64 -TTATATCA
11906373 ATTTATTTATTTATT
1 ATTTATTTATTTATT
11906388 ATTTTACTTT
Statistics
Matches: 185, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
69 58 0.31
70 59 0.32
71 50 0.27
72 5 0.03
73 13 0.07
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (71 bp):
ATTTATTTATTTATTTATCATTATTTTACTTTTAAAATATTTAAATGTAATATTATTTATATTTT
ATATCA
Found at i:11906168 original size:21 final size:20
Alignment explanation
Indices: 11906142--11906180 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11906132 AAATGTAATA
*
11906142 TTATTTATATTTTTTATCAAT
1 TTATTTAT-TTATTTATCAAT
11906163 TTATTTATTTATTTATCA
1 TTATTTATTTATTTATCA
11906181 TTATTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTATTTATTTATCAAT
Found at i:11906215 original size:140 final size:141
Alignment explanation
Indices: 11906027--11906449 Score: 375
Period size: 140 Copynumber: 3.0 Consensus size: 141
11906017 TTATATTTGT
* * * * **
11906027 TTTATATATTTATTATTCTTTATTTTTTAAATACCTAAATTTAATATTATTCATATC-TATTATA
1 TTTATTTATTTA-TATTTTTTACTTTTAAAATATTTAAATTTAATATTATTCATATCTTATTATA
* * * *
11906091 TTTATTTATTTGTTCATTATTCTTTTA-TCTTTTAAATATTTAAATGTAATATTATTTATA-TT-
65 TCTATTTACTTATTCATTATTCTTTTACT-TTTTAAATACTTAAATGTAATATTATTTATATTTG
11906153 TTTTATCAATTTA
129 TTTTATCAATTTA
* *
11906166 TTTATTTATTTATCATTATTTTACTTTTAAAATATTTAAATTTAATATTATGT-GTA-CTTATTT
1 TTTATTTATTTAT-ATT-TTTTACTTTTAAAATATTTAAATTTAATATTAT-TCATATCTTATTA
* * *
11906229 TATCTATTTACTTATTTATTATTCTTTTACTTTTTAAATGCTTAAATTTAATATTATTTATATTT
63 TATCTATTTACTTATTCATTATTCTTTTACTTTTTAAATACTTAAATGTAATATTATTTATATTT
*
11906294 GTTTTATCTATTTA
128 GTTTTATCAATTTA
* * * ** * * *
11906308 TTCACTTATTTAT-TCTTTTACTTTTAAAGCATTT-AATTTCGATATTATTCATAT-TTGTTTTA
1 TTTATTTATTTATATTTTTTACTTTTAAAATATTTAAATTT-AATATTATTCATATCTTATTATA
* * * * * * * *
11906370 TCAATTTATTTA-T--TTATTATTTTACTTTTTTTAAATACTTCAATTTAATGTTATTTGTTTTA
65 TCTATTTACTTATTCATTATTCTTTTAC--TTTTTAAATACTTAAATGTAATATTATTTATATT-
*
11906432 TCTATTTATCAATTTA
127 TGT-TTTATCAATTTA
11906448 TT
1 TT
11906450 ATTCTTTTTT
Statistics
Matches: 236, Mismatches: 34, Indels: 27
0.79 0.11 0.09
Matches are distributed among these distances:
136 11 0.05
138 37 0.16
139 60 0.25
140 101 0.43
141 4 0.02
142 23 0.10
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (141 bp):
TTTATTTATTTATATTTTTTACTTTTAAAATATTTAAATTTAATATTATTCATATCTTATTATAT
CTATTTACTTATTCATTATTCTTTTACTTTTTAAATACTTAAATGTAATATTATTTATATTTGTT
TTATCAATTTA
Found at i:11909888 original size:14 final size:14
Alignment explanation
Indices: 11909869--11909896 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11909859 ACTTTTATTT
11909869 TATGATGAATTTTG
1 TATGATGAATTTTG
11909883 TATGATGAATTTTG
1 TATGATGAATTTTG
11909897 CAGAAGTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (14 bp):
TATGATGAATTTTG
Found at i:11916207 original size:41 final size:41
Alignment explanation
Indices: 11916151--11916290 Score: 131
Period size: 41 Copynumber: 3.4 Consensus size: 41
11916141 TATGGCCTGA
* *
11916151 CACACGTCCTGACACATGTTCGTGTGACTCACATGGTTTGG
1 CACACGGCCTAACACATGTTCGTGTGACTCACATGGTTTGG
* * **
11916192 CACATGGCCTAACACATGATCGTGTGAGC-CACACAGTTTGG
1 CACACGGCCTAACACATGTTCGTGTGA-CTCACATGGTTTGG
* * * * * *
11916233 GACACGATCGTGACACACGGTT-GTATGACTCACATGGTTTGG
1 CACACG-GCCTAACACA-TGTTCGTGTGACTCACATGGTTTGG
11916275 CACACGGCCTAACACA
1 CACACGGCCTAACACA
11916291 CAGCTCTATG
Statistics
Matches: 75, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
41 45 0.60
42 28 0.37
43 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (41 bp):
CACACGGCCTAACACATGTTCGTGTGACTCACATGGTTTGG
Found at i:11916267 original size:83 final size:83
Alignment explanation
Indices: 11916175--11916327 Score: 227
Period size: 83 Copynumber: 1.8 Consensus size: 83
11916165 CATGTTCGTG
* * *
11916175 TGACTCACATGGTTTGGCACATGGCCTAACACA-TGATCGTGTGAGCCACACAGTTTGGGACACG
1 TGACTCACATGGTTTGGCACACGGCCTAACACACAGATC-TATGAGCCACACAGTTTGGGACACG
11916239 ATCGTGACACACGGTTGTA
65 ATCGTGACACACGGTTGTA
* ** *
11916258 TGACTCACATGGTTTGGCACACGGCCTAACACACAGCTCTATGAGCTGCACGGTTTGGGACACGA
1 TGACTCACATGGTTTGGCACACGGCCTAACACACAGATCTATGAGCCACACAGTTTGGGACACGA
11916323 TCGTG
66 TCGTG
11916328 TGGTGTTGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
83 59 0.95
84 3 0.05
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (83 bp):
TGACTCACATGGTTTGGCACACGGCCTAACACACAGATCTATGAGCCACACAGTTTGGGACACGA
TCGTGACACACGGTTGTA
Found at i:11917058 original size:5 final size:5
Alignment explanation
Indices: 11917048--11917078 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
11917038 ATTTTAATTA
11917048 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
11917079 TCCTAACCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:11925550 original size:336 final size:336
Alignment explanation
Indices: 11924931--11925944 Score: 1733
Period size: 336 Copynumber: 3.0 Consensus size: 336
11924921 AATTCCATTT
*
11924931 TAAATCATGCATGTATTCCTGGTTTGGTTGATTATAAATTGAGCAGCATGGTTCGTGATAATAAC
1 TAAATCATGCATGTATTCCTGGTTCGGTTGATTATAAATTGAGCAGCATGGTTCGTGATAATAAC
* * * *
11924996 GTATTAATAGTTGCTGATTTAATTGATAATGCTAATAGAGAAT-GAAGGCCAGATATTATTACCG
66 ATATTAATAGTTGCTGGTTTAATTGATAATGCTAATAGAGAATGGAA-GCGAGAGATTATTACCG
* * * *
11925060 ATACTTTCTCTGATGCTGACGCGGCCAGGATTTTTCGAATCCCATTGGTAAAAGAACCACACGAG
130 ATACTTTCTTTGATGCTGACGTGGCCAGGATATTTCGAATCCCATTGGCAAAAGAACCACACGAG
11925125 GATGTGATGGTGTGGAGATGCGAACCCTCAGGAGAGTTCTTTGTTCGGAGTGCCTACAAACTATT
195 GATGTGATGGTGTGGAGATGCGAACCCTCAGGAGAGTTCTTTGTTCGGAGTGCCTACAAACTATT
*
11925190 ACAATCTGGTATTCCTAGTCCTACTTTCAATGAATTACAAGCCACATCTAAAGGATTCTACAGGA
260 ACAATCTGGTATTCCTAGTCCTACTTTCAATGAATTACAAGCCACATCTAAAGGATTCTATAGGA
11925255 AGTTATGGAGCC
325 AGTTATGGAGCC
11925267 TAAATCATGCATGTATTCCTGGTTCGGTTGATTATAAATTGAGCAGCATGGTTCGTGATAATAAC
1 TAAATCATGCATGTATTCCTGGTTCGGTTGATTATAAATTGAGCAGCATGGTTCGTGATAATAAC
*
11925332 ATATTAATAGTTGCTGGTTTAATTGATAATGCTAATAGAGAATGGAAGCGAGAGATTATTACTGA
66 ATATTAATAGTTGCTGGTTTAATTGATAATGCTAATAGAGAATGGAAGCGAGAGATTATTACCGA
* *
11925397 TAATTTCTTTGATGCTGACGTGGCCAGGATATTTCGAATCCCATTGGCAAAAGAACTACACGAGG
131 TACTTTCTTTGATGCTGACGTGGCCAGGATATTTCGAATCCCATTGGCAAAAGAACCACACGAGG
*
11925462 ATGTGATGGTGTGGAGATGTGAACCCTCAGGAGAGTTCTTTGTTCGGAGTGCCTACAAACTATTA
196 ATGTGATGGTGTGGAGATGCGAACCCTCAGGAGAGTTCTTTGTTCGGAGTGCCTACAAACTATTA
* * *
11925527 CGATCTGGTATTCCTATTCCTACTTTCAATGAATTACAAGCCACATCTAGAGGATTCTATAGGAA
261 CAATCTGGTATTCCTAGTCCTACTTTCAATGAATTACAAGCCACATCTAAAGGATTCTATAGGAA
11925592 GTTATGGAGCC
326 GTTATGGAGCC
*
11925603 TAAATCATGCATGTATTCCTGGTTCGGTTGATTATAAATTGAGCAACATGGTTCGTGATAATAAC
1 TAAATCATGCATGTATTCCTGGTTCGGTTGATTATAAATTGAGCAGCATGGTTCGTGATAATAAC
* * *
11925668 ATATTAATAGTTGTTGGTTTAATTGATAATGCTAATAGAGAATGGAGGTGAGAGATTATTACCGA
66 ATATTAATAGTTGCTGGTTTAATTGATAATGCTAATAGAGAATGGAAGCGAGAGATTATTACCGA
* * *
11925733 TACTTTCTTTGATGCTGACGTGGCCAGGATATTTTGAATCCCATTGGCAAAAAAACCACATGAGG
131 TACTTTCTTTGATGCTGACGTGGCCAGGATATTTCGAATCCCATTGGCAAAAGAACCACACGAGG
*
11925798 ATGTGATGGTGTGGAGATGCGAACTCTCAGGAGAGTTCTTTGTTCGGAGTGCCTACAAACTATTA
196 ATGTGATGGTGTGGAGATGCGAACCCTCAGGAGAGTTCTTTGTTCGGAGTGCCTACAAACTATTA
* * * *
11925863 CAATTTGGTCTTCCTAGTCCTACTTTTAATGAATTACAAGCCACATCTAAAGGATTCTATAAGAA
261 CAATCTGGTATTCCTAGTCCTACTTTCAATGAATTACAAGCCACATCTAAAGGATTCTATAGGAA
**
11925928 ACTATGGAGCC
326 GTTATGGAGCC
11925939 TAAATC
1 TAAATC
11925945 TTCCTTCTAA
Statistics
Matches: 639, Mismatches: 38, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
336 636 1.00
337 3 0.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (336 bp):
TAAATCATGCATGTATTCCTGGTTCGGTTGATTATAAATTGAGCAGCATGGTTCGTGATAATAAC
ATATTAATAGTTGCTGGTTTAATTGATAATGCTAATAGAGAATGGAAGCGAGAGATTATTACCGA
TACTTTCTTTGATGCTGACGTGGCCAGGATATTTCGAATCCCATTGGCAAAAGAACCACACGAGG
ATGTGATGGTGTGGAGATGCGAACCCTCAGGAGAGTTCTTTGTTCGGAGTGCCTACAAACTATTA
CAATCTGGTATTCCTAGTCCTACTTTCAATGAATTACAAGCCACATCTAAAGGATTCTATAGGAA
GTTATGGAGCC
Found at i:11930571 original size:40 final size:40
Alignment explanation
Indices: 11930527--11930697 Score: 243
Period size: 40 Copynumber: 4.3 Consensus size: 40
11930517 TACACCAGCT
* *
11930527 GAAGCCTGCTAGGCACTAACCCCGATAAGTACATCGACAC
1 GAAGCCTGCTAGGCACTAAGCCCGATAAGTACACCGACAC
* * * * *
11930567 GAAGCCTGCTAAGCACTAATCCCAATAAGTATACCAACAC
1 GAAGCCTGCTAGGCACTAAGCCCGATAAGTACACCGACAC
*
11930607 GAAGCATGCTAGGCACTAAGCCCGATAAGTACACCGACAC
1 GAAGCCTGCTAGGCACTAAGCCCGATAAGTACACCGACAC
* * *
11930647 GAAGCCTGCTAGGAACTAAGCCCGATAAGTACACTGACAT
1 GAAGCCTGCTAGGCACTAAGCCCGATAAGTACACCGACAC
11930687 GAAGCCTGCTA
1 GAAGCCTGCTA
11930698 AGCAACAAGG
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (40 bp):
GAAGCCTGCTAGGCACTAAGCCCGATAAGTACACCGACAC
Found at i:11931803 original size:21 final size:20
Alignment explanation
Indices: 11931781--11931820 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11931771 TTTTACTTAA
11931781 TTAACTAACTAAATGTTAAAAT
1 TTAA-TAACTAAAT-TTAAAAT
*
11931803 TTTATAACTAAATTTAAA
1 TTAATAACTAAATTTAAA
11931821 TAAAAAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 9 0.53
22 3 0.18
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (20 bp):
TTAATAACTAAATTTAAAAT
Found at i:11936127 original size:32 final size:32
Alignment explanation
Indices: 11936086--11936147 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
11936076 TTCTTAGTTT
11936086 ATTTCACAACTCCAATTTACCTATTTACCATC
1 ATTTCACAACTCCAATTTACCTATTTACCATC
*
11936118 ATTTCACAACTCCTATTTACCTATTTACCA
1 ATTTCACAACTCCAATTTACCTATTTACCA
11936148 AACATGCAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.39
Consensus pattern (32 bp):
ATTTCACAACTCCAATTTACCTATTTACCATC
Found at i:11937337 original size:29 final size:29
Alignment explanation
Indices: 11937305--11937363 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
11937295 ATAAAATATT
*
11937305 AATTATGTATTGTTTACTGAAATTATTAA
1 AATTATGTATTGTTTACTAAAATTATTAA
11937334 AATTATGTATTGTTTACTAAAATTATTAA
1 AATTATGTATTGTTTACTAAAATTATTAA
11937363 A
1 A
11937364 TAAAGTGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (29 bp):
AATTATGTATTGTTTACTAAAATTATTAA
Found at i:11949259 original size:3 final size:3
Alignment explanation
Indices: 11949251--11949302 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
11949241 TGTTTGATCC
*
11949251 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATA ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11949299 ATT A
1 ATT A
11949303 AAGAAAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:11949522 original size:19 final size:19
Alignment explanation
Indices: 11949498--11949535 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11949488 TTGGAAATTC
11949498 TTCAAAATTCTAACTTCAA
1 TTCAAAATTCTAACTTCAA
11949517 TTCAAAATTCTAACTTCAA
1 TTCAAAATTCTAACTTCAA
11949536 AGTAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (19 bp):
TTCAAAATTCTAACTTCAA
Found at i:11954023 original size:21 final size:21
Alignment explanation
Indices: 11953999--11954046 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
11953989 ATTTTTATAC
11953999 TTTTTATTATATAT-TTTCTGA
1 TTTTTATTATATATATTTCT-A
*
11954020 TTTTTA-TATATTTATTTCTA
1 TTTTTATTATATATATTTCTA
11954040 TTTTTAT
1 TTTTTAT
11954047 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTTATTATATATATTTCTA
Found at i:11954029 original size:20 final size:20
Alignment explanation
Indices: 11953999--11954047 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
11953989 ATTTTTATAC
11953999 TTTTTAT-TATATATTTTCTGA
1 TTTTTATATATATA-TTTCT-A
*
11954020 TTTTTATATATTTATTTCTA
1 TTTTTATATATATATTTCTA
11954040 TTTTTATA
1 TTTTTATA
11954048 AATTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.35
21 12 0.46
22 5 0.19
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTATATATATATTTCTA
Found at i:11954054 original size:21 final size:21
Alignment explanation
Indices: 11954013--11954052 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11954003 TATTATATAT
*
11954013 TTTCTGATTTTTATATATTTA
1 TTTCTGATTTTTATAAATTTA
11954034 TTTCT-ATTTTTATAAATTT
1 TTTCTGATTTTTATAAATTT
11954053 TAAAATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTCTGATTTTTATAAATTTA
Found at i:11954920 original size:24 final size:24
Alignment explanation
Indices: 11954892--11954937 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
11954882 TTTCTAGAAG
* *
11954892 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11954916 ATTTAGCATTTATTAGCATAAT
1 ATTTAGCATTTATTAGCATAAT
11954938 TTGTTTGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:11961536 original size:29 final size:29
Alignment explanation
Indices: 11961477--11961546 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
11961467 GTTTGTTACC
*
11961477 ATCCCTTTTCATAATCGACAGCTGAAACT
1 ATCCCTTTTCATAATCGACAGCTCAAACT
* * *
11961506 ATCCCTTTTCATATTCGATATC-CAAAGCT
1 ATCCCTTTTCATAATCGACAGCTCAAA-CT
*
11961535 ATCCATTTTCAT
1 ATCCCTTTTCAT
11961547 TATTTGAGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGACAGCTCAAACT
Found at i:11966836 original size:48 final size:48
Alignment explanation
Indices: 11966754--11966847 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
11966744 TTTCTTGGCT
* *
11966754 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
11966802 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
11966848 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:11969349 original size:48 final size:48
Alignment explanation
Indices: 11969267--11969360 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
11969257 TTTCTTGGCT
* *
11969267 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
11969315 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
11969361 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:11978003 original size:37 final size:40
Alignment explanation
Indices: 11977907--11978046 Score: 128
Period size: 40 Copynumber: 3.5 Consensus size: 40
11977897 AACACACGAG
* *
11977907 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGGCACCCAGTGCCTCATCGGAAAACTCGAAGTAATAA
* *
11977947 TTTGACACCCAGTGTCTCATCGGCAAAACT-GAAGT-A-AA
1 TTTGGCACCCAGTGCCTCATCGG-AAAACTCGAAGTAATAA
* *
11977985 -TTGGCACCCAGTGCCTCATC-GAAATAATCTGAAGTAGTAA
1 TTTGGCACCCAGTGCCTCATCGGAAA-ACTC-GAAGTAATAA
* * * *
11978025 ATTGACACCTAGTGTCTCATCG
1 TTTGGCACCCAGTGCCTCATCG
11978047 ACTTGAAGTC
Statistics
Matches: 81, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
35 3 0.04
36 3 0.04
37 18 0.22
38 7 0.09
39 1 0.01
40 28 0.35
41 21 0.26
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (40 bp):
TTTGGCACCCAGTGCCTCATCGGAAAACTCGAAGTAATAA
Found at i:11978044 original size:41 final size:41
Alignment explanation
Indices: 11977912--11978047 Score: 133
Period size: 41 Copynumber: 3.4 Consensus size: 41
11977902 ACGAGTTTGG
* * *
11977912 CACCCAGTGCCTCATCG-GATAAT-TCGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAAATAATCT-GAAGTAGTAAATTGA
* * *
11977952 CACCCAGTGTCTCATCGGCAA-AA-CTG-A--AGTAAATTGG
1 CACCCAGTGCCTCATC-GAAATAATCTGAAGTAGTAAATTGA
11977989 CACCCAGTGCCTCATCGAAATAATCTGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAAATAATCTGAAGTAGTAAATTGA
* *
11978030 CACCTAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
11978048 CTTGAAGTCA
Statistics
Matches: 78, Mismatches: 10, Indels: 15
0.76 0.10 0.15
Matches are distributed among these distances:
36 3 0.04
37 24 0.31
38 3 0.04
39 2 0.03
40 16 0.21
41 29 0.37
42 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (41 bp):
CACCCAGTGCCTCATCGAAATAATCTGAAGTAGTAAATTGA
Found at i:11979837 original size:15 final size:16
Alignment explanation
Indices: 11979819--11979861 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
11979809 TTTGTTGTCG
11979819 TTGTTATTATTGTTA-
1 TTGTTATTATTGTTAC
11979834 TTGTTA-TATTGTTAC
1 TTGTTATTATTGTTAC
11979849 TTGCATTATTATT
1 TTG--TTATTATT
11979862 ATTTATGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.33
15 9 0.38
17 3 0.12
18 4 0.17
ACGTcount: A:0.21, C:0.05, G:0.12, T:0.63
Consensus pattern (16 bp):
TTGTTATTATTGTTAC
Found at i:11984775 original size:24 final size:22
Alignment explanation
Indices: 11984731--11984787 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
11984721 AAAATATTTC
* *
11984731 AAAAAAATG-AAAATGATGAAA
1 AAAAAAAAGAAAAATGAAGAAA
11984752 AAAAGAAAAGAAAAAGTGAAGAAA
1 AAAA-AAAAGAAAAA-TGAAGAAA
*
11984776 AAAAAAAGGAAA
1 AAAAAAAAGAAA
11984788 GGCCAAGGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.13
22 4 0.13
23 11 0.37
24 11 0.37
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (22 bp):
AAAAAAAAGAAAAATGAAGAAA
Found at i:11984930 original size:42 final size:42
Alignment explanation
Indices: 11984859--11985021 Score: 245
Period size: 42 Copynumber: 3.9 Consensus size: 42
11984849 AAAAAGAGTG
* * * *
11984859 GCTCAAATTTTGGATCAAAATGGGGCATGAGGTGATCAGAGTA
1 GCTCAAATTTT-GATCAGATTAGGGCATGAGGTGATCAGAGCA
*
11984902 GCTCAAATTTTGATCAGATTAAGGCATGAGGTGATCAGAGCA
1 GCTCAAATTTTGATCAGATTAGGGCATGAGGTGATCAGAGCA
11984944 GCTCAAATTTTGATCAGATTAGGGCATGAGGTGATCAGAGCA
1 GCTCAAATTTTGATCAGATTAGGGCATGAGGTGATCAGAGCA
* * *
11984986 GCTCAAATTTTGTTCAGATTGGGGCATGTGGTGATC
1 GCTCAAATTTTGATCAGATTAGGGCATGAGGTGATC
11985022 TTTTTATACC
Statistics
Matches: 111, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 100 0.90
43 11 0.10
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.28
Consensus pattern (42 bp):
GCTCAAATTTTGATCAGATTAGGGCATGAGGTGATCAGAGCA
Found at i:11987598 original size:21 final size:21
Alignment explanation
Indices: 11987572--11987615 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11987562 TTGGCGTTGT
11987572 AGTGGAATAGATTAAAGCTGA
1 AGTGGAATAGATTAAAGCTGA
* * *
11987593 AGTGGAGTGGATTAAAGTTGA
1 AGTGGAATAGATTAAAGCTGA
11987614 AG
1 AG
11987616 GCAATAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.34, T:0.25
Consensus pattern (21 bp):
AGTGGAATAGATTAAAGCTGA
Found at i:11987677 original size:51 final size:51
Alignment explanation
Indices: 11987602--11987737 Score: 155
Period size: 51 Copynumber: 2.7 Consensus size: 51
11987592 AAGTGGAGTG
* * ** * *
11987602 GATTAAAGTTGAAGGCAATAAATCTTATCTCCTTGGCATTACAGTGGAACA
1 GATTAAAGCTAAAGGCAGCAAATCTTATCTCCCTGGCATTACAGCGGAACA
* * * * * *
11987653 GATTAAAGTTAAAGGTAGCGAATCTTGTTTCCCTGGCATTACAGCGGAGCA
1 GATTAAAGCTAAAGGCAGCAAATCTTATCTCCCTGGCATTACAGCGGAACA
*
11987704 GATTAAAGCTGAAGGCAGCAAATCTTATCTCCCT
1 GATTAAAGCTAAAGGCAGCAAATCTTATCTCCCT
11987738 AGCGTTAAGA
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (51 bp):
GATTAAAGCTAAAGGCAGCAAATCTTATCTCCCTGGCATTACAGCGGAACA
Found at i:11988008 original size:45 final size:44
Alignment explanation
Indices: 11987906--11988201 Score: 255
Period size: 44 Copynumber: 6.6 Consensus size: 44
11987896 CATCATGGCG
* * * * * * *
11987906 AATCTTATCCCCCTGAAGTTGCAGCGGGGCATATTTAATAT-AC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAAC
* * *
11987949 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAAC
* * * *
11987994 GAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAATTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT--A--AC
* * *
11988045 ATATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCG--TATCAA-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGAT-AAC
*
11988088 AAT-TTATCTCCCTGAAGTTGCAGTGGAGCA-AGTTGAAGATAAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGATAAC
11988131 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAAC
*
11988175 TAATCCTATCTCCCTGAAGTTGCAGTG
1 -AATCTTATCTCCCTGAAGTTGCAGTG
11988202 AAGTGGATTA
Statistics
Matches: 206, Mismatches: 28, Indels: 36
0.76 0.10 0.13
Matches are distributed among these distances:
40 1 0.00
41 26 0.13
42 5 0.02
43 8 0.04
44 69 0.33
45 58 0.28
46 3 0.01
47 4 0.02
49 1 0.00
50 2 0.01
51 29 0.14
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAAC
Found at i:11997777 original size:51 final size:51
Alignment explanation
Indices: 11997716--11997818 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
11997706 AAATTAAAAG
11997716 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
11997767 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
11997818 A
1 A
11997819 GTAATTTTAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (51 bp):
ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:11997827 original size:33 final size:34
Alignment explanation
Indices: 11997769--11997874 Score: 105
Period size: 33 Copynumber: 3.2 Consensus size: 34
11997759 AACCAACAAT
* *
11997769 TATACATACACCAACAATGT-TTTTTAGGGT-AAA
1 TATACATAAACCAACAA-GTAATTTTAGGGTCAAA
*
11997802 TA-ACATTAAACCAACAAGTAATTTTA-GGTCAAT
1 TATACA-TAAACCAACAAGTAATTTTAGGGTCAAA
* * *
11997835 TATACATACACCAACAATTAATTTTA-GGTCAAT
1 TATACATAAACCAACAAGTAATTTTAGGGTCAAA
11997868 TATACAT
1 TATACAT
11997875 GCTTTATAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
32 8 0.12
33 53 0.83
34 3 0.05
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.33
Consensus pattern (34 bp):
TATACATAAACCAACAAGTAATTTTAGGGTCAAA
Found at i:12000970 original size:26 final size:27
Alignment explanation
Indices: 12000930--12001011 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
12000920 TAAGAACATT
*
12000930 TTATGAAATTATATTTAATAATAATTA
1 TTATTAAATTATATTTAATAATAATTA
* *
12000957 TT-TTAAATTGTATTTAATCATATATT-
1 TTATTAAATTATATTTAATAATA-ATTA
* *
12000983 TTAATTAAAATATATTTAATATTAATTA
1 TT-ATTAAATTATATTTAATAATAATTA
12001011 T
1 T
12001012 AGTATCATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 19 0.43
27 8 0.18
28 17 0.39
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
TTATTAAATTATATTTAATAATAATTA
Found at i:12001093 original size:18 final size:17
Alignment explanation
Indices: 12001065--12001119 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
12001055 ATTATTAAGA
*
12001065 ATTTCATTAAATTATAT
1 ATTTAATTAAATTATAT
12001082 ATTTTAATTAAA--ATAT
1 A-TTTAATTAAATTATAT
* *
12001098 ATTTAATAAAAAT-TAT
1 ATTTAATTAAATTATAT
12001114 ATTTAA
1 ATTTAA
12001120 ATATGATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
15 9 0.27
16 14 0.42
17 1 0.03
18 9 0.27
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTAATTAAATTATAT
Found at i:12001099 original size:16 final size:16
Alignment explanation
Indices: 12001078--12001122 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
12001068 TCATTAAATT
*
12001078 ATATATTTTAATTAAA
1 ATATATTTTAATAAAA
12001094 ATATA-TTTAATAAAA
1 ATATATTTTAATAAAA
*
12001109 ATTATATTTAAATA
1 A-TATATTTTAATA
12001123 TGATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 10 0.40
16 9 0.36
17 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATATTTTAATAAAA
Found at i:12001104 original size:15 final size:15
Alignment explanation
Indices: 12001078--12001119 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
12001068 TCATTAAATT
*
12001078 ATATATTTTAATTAAA
1 ATATA-TTTAATAAAA
12001094 ATATATTTAATAAAA
1 ATATATTTAATAAAA
12001109 ATTATATTTAA
1 A-TATATTTAA
12001120 ATATGATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATTTAATAAAA
Found at i:12001220 original size:156 final size:157
Alignment explanation
Indices: 12001054--12001368 Score: 560
Period size: 156 Copynumber: 2.0 Consensus size: 157
12001044 TAAGAATATG
12001054 AATTATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATATTTA
1 AATTATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATATTTA
*
12001119 AATATGATTAAATTATTTATTACTGACAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
66 AATATGATTAAAATATTTATTACTGACAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
12001184 AATCATTTACAAAAACAAATTTATGCT
131 AATCATTTACAAAAACAAATTTATGCT
* * *
12001211 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATATTTA
*
12001275 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
66 AATATGATTAAAATATTTATTACTGACAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
* *
12001340 AATCATTTACCAAAACAATTTTATGCT
131 AATCATTTACAAAAACAAATTTATGCT
12001367 AA
1 AA
12001369 GGGTATTCTA
Statistics
Matches: 151, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
156 146 0.97
157 5 0.03
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (157 bp):
AATTATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATATTTA
AATATGATTAAAATATTTATTACTGACAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
AATCATTTACAAAAACAAATTTATGCT
Found at i:12001249 original size:18 final size:17
Alignment explanation
Indices: 12001221--12001255 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12001211 AATTATAAGA
*
12001221 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12001238 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12001256 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:12003390 original size:14 final size:14
Alignment explanation
Indices: 12003371--12003412 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
12003361 AATCAGGTTC
12003371 CAACGGCCATATTG
1 CAACGGCCATATTG
* *
12003385 CAACGGTCATATTC
1 CAACGGCCATATTG
*
12003399 CAATGGCCATATTG
1 CAACGGCCATATTG
12003413 TAACAGTAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (14 bp):
CAACGGCCATATTG
Found at i:12003430 original size:28 final size:28
Alignment explanation
Indices: 12003368--12003436 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 28
12003358 AACAATCAGG
* * * *
12003368 TTCCAACGGCCATATTGCAACGGTCATA
1 TTCCAATGGCCATATTGCAACAGTAAGA
*
12003396 TTCCAATGGCCATATTGTAACAGTAAGA
1 TTCCAATGGCCATATTGCAACAGTAAGA
* *
12003424 TTTCAATGACCAT
1 TTCCAATGGCCAT
12003437 GTTTTTGCAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (28 bp):
TTCCAATGGCCATATTGCAACAGTAAGA
Found at i:12022521 original size:396 final size:396
Alignment explanation
Indices: 12021790--12024563 Score: 5154
Period size: 396 Copynumber: 7.0 Consensus size: 396
12021780 AAATATGTTA
** *
12021790 TTCAAATGGTTCATTGGATGTTTGCACTCTGCATTCTAGGATTCTGGTGTTTCTAAGATCTGTTA
1 TTCAAATGGTTCATTGGATGTTTGCACTCTAAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
* * ** *
12021855 CCTGGT-ATATCTTCAAAATCTTATTTACCACAACTCTTTCTCCAAGAAAACATGGAAACCAGTT
66 CCCGGTAATATCTTCACAATCTTATTTACTTCAACTCTTTCTCCGAGAAAACATGGAAACCAGTT
12021919 TTTAATGATCTGCACGAGTTTCAAATAATGAAGTGACAAAAAAAGGGCAATTACATGAAATTTTT
131 TTTAATGATCTGCACGAGTTTCAAATAATGAAGTGACAAAAAAAGGGCAATTACATGAAATTTTT
12021984 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGCTTCATATTTAC
196 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGCTTCATATTTAC
12022049 TAATATAGTAGTTTTATGTTGATTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTA
261 TAATATAGTAGTTTTATGTTGATTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTA
12022114 CAATTGTGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATGGTGTCATAGCTTAGTTTAA
326 CAATTGTGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATGGTGTCATAGCTTAGTTTAA
12022179 TTTATT
391 TTTATT
12022185 TTCAAATGGTTCATTGGATGTTTGCACTCTAAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
1 TTCAAATGGTTCATTGGATGTTTGCACTCTAAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
*
12022250 CCCGGTAATATCTTCACAATCTTATTTACTTCAAATCTTTCTCCGAGAAAACATGGAAACCAGTT
66 CCCGGTAATATCTTCACAATCTTATTTACTTCAACTCTTTCTCCGAGAAAACATGGAAACCAGTT
12022315 TTTAATGATCTGCACGAGTTTCAAATAATGAAGTGACAAAAAAAGGGCAATTACATGAAATTTTT
131 TTTAATGATCTGCACGAGTTTCAAATAATGAAGTGACAAAAAAAGGGCAATTACATGAAATTTTT
12022380 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGCTTCATATTTAC
196 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGCTTCATATTTAC
12022445 TAATATAGTAGTTTTATGTTGATTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTA
261 TAATATAGTAGTTTTATGTTGATTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTA
12022510 CAATTGTGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATGGTGTCATAGCTTAGTTTAA
326 CAATTGTGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATGGTGTCATAGCTTAGTTTAA
12022575 TTTATT
391 TTTATT
12022581 TTCAAATGGTTCATTGGATGTTTGCACTCTAAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
1 TTCAAATGGTTCATTGGATGTTTGCACTCTAAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
12022646 CCCGGTAATATCTTCACAATCTTATTTACTTCAACTCTTTCTCCGAGAAAACATGGAAACCAGTT
66 CCCGGTAATATCTTCACAATCTTATTTACTTCAACTCTTTCTCCGAGAAAACATGGAAACCAGTT
* * *
12022711 TTTAATGATCTGCATGAGTTTCAAATACTGAAGTGACGAAAAAAGGGCAATTACATGAAATTTTT
131 TTTAATGATCTGCACGAGTTTCAAATAATGAAGTGACAAAAAAAGGGCAATTACATGAAATTTTT
12022776 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGCTTCATATTTAC
196 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGCTTCATATTTAC
* *
12022841 TAATATAGTAGTTTTATGTTGACTGTTGTCTTTAAGCTGTCCTTCATTGTTGCTGCACTTGTTTA
261 TAATATAGTAGTTTTATGTTGATTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTA
* *
12022906 CAATTGCGCTATTTACGAGGATACTGCAATTAGTTTCACCATTATGGTGTCATAGCTTAGTTTAA
326 CAATTGTGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATGGTGTCATAGCTTAGTTTAA
12022971 TTTATT
391 TTTATT
*
12022977 TTCAAATGGTTCATTGGATGTTTGCACTCTGAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
1 TTCAAATGGTTCATTGGATGTTTGCACTCTAAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
* ** *
12023042 CCTGGTAATATCTTCACAATCTTATTTACCACAACTCTTTCTCTGAGAAAACATGGAAACCAGTT
66 CCCGGTAATATCTTCACAATCTTATTTACTTCAACTCTTTCTCCGAGAAAACATGGAAACCAGTT
12023107 TTTAATGATCTGCACGAGTTTCAAATAATGAAGTGACAAAAAAAGGGCAATTACATGAAATTTTT
131 TTTAATGATCTGCACGAGTTTCAAATAATGAAGTGACAAAAAAAGGGCAATTACATGAAATTTTT
12023172 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGCTTCATATTTAC
196 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGCTTCATATTTAC
12023237 TAATATAGTAGTTTTATGTTGATTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTA
261 TAATATAGTAGTTTTATGTTGATTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTA
12023302 CAATTGTGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATGGTGTCATAGCTTAGTTTAA
326 CAATTGTGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATGGTGTCATAGCTTAGTTTAA
12023367 TTTATT
391 TTTATT
*
12023373 TTCAAATGGTTCATTGGATGTTTGCACGCTAAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
1 TTCAAATGGTTCATTGGATGTTTGCACTCTAAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
*
12023438 CCCGGTAATATCTTCACAATCTTATTTACTTCAAATCTTTCTCCGAGAAAACATGGAAACCAGTT
66 CCCGGTAATATCTTCACAATCTTATTTACTTCAACTCTTTCTCCGAGAAAACATGGAAACCAGTT
* * *
12023503 TTTAATGATCTGCATGAGTTTCAAATACTGAAGTGACGAAAAAAGGGCAATTACATGAAATTTTT
131 TTTAATGATCTGCACGAGTTTCAAATAATGAAGTGACAAAAAAAGGGCAATTACATGAAATTTTT
12023568 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGCTTCATATTTAC
196 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGCTTCATATTTAC
* *
12023633 TAATATAGTAGTTTTATGTTGACTGTTGTCTTTAAGCTGTCCTTCATTGTTGCTGCACTTGTTTA
261 TAATATAGTAGTTTTATGTTGATTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTA
*
12023698 CAATTGCGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATGGTGTCATAGCTTAGTTTAA
326 CAATTGTGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATGGTGTCATAGCTTAGTTTAA
12023763 TTTATT
391 TTTATT
*
12023769 TTCAAATGGTTCATTGGATGTTTGCACTCTGAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
1 TTCAAATGGTTCATTGGATGTTTGCACTCTAAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
* ** *
12023834 CCTGGTAATATCTTCACAATCTTATTTACCACAACTCTTTCTCTGAGAAAACATGGAAACCAGTT
66 CCCGGTAATATCTTCACAATCTTATTTACTTCAACTCTTTCTCCGAGAAAACATGGAAACCAGTT
12023899 TTTAATGATCTGCACGAGTTTCAAATAATGAAGTGACAAAAAAAGGGCAATTACATGAAATTTTT
131 TTTAATGATCTGCACGAGTTTCAAATAATGAAGTGACAAAAAAAGGGCAATTACATGAAATTTTT
12023964 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGCTTCATATTTAC
196 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGCTTCATATTTAC
12024029 TAATATAGTAGTTTTATGTTGATTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTA
261 TAATATAGTAGTTTTATGTTGATTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTA
12024094 CAATTGTGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATGGTGTCATAGCTTAGTTTAA
326 CAATTGTGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATGGTGTCATAGCTTAGTTTAA
12024159 TTTATT
391 TTTATT
12024165 TTCAAATGGTTCATTGGATGTTTGCACTCTAAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
1 TTCAAATGGTTCATTGGATGTTTGCACTCTAAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
*
12024230 CCCGGTAATATCTTCACAATCTTATTTACTTCAAATCTTTCTCCGAGAAAACATGGAAACCAGTT
66 CCCGGTAATATCTTCACAATCTTATTTACTTCAACTCTTTCTCCGAGAAAACATGGAAACCAGTT
* * *
12024295 TTTAATGATCTGCATGAGTTTCAAATACTGAAGTGACGAAAAAAGGGCAATTACATGAAATTTTT
131 TTTAATGATCTGCACGAGTTTCAAATAATGAAGTGACAAAAAAAGGGCAATTACATGAAATTTTT
*
12024360 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCTGCTTCATATTTAC
196 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGCTTCATATTTAC
* *
12024425 TAATATAGTAGTTTTATGTTGATTGTTGTCTCTAAGCTATCATTCATTGTTGCTGCACTTGTTTA
261 TAATATAGTAGTTTTATGTTGATTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTA
* *
12024490 CAATTGCGCTATTTATGAGGATACTGCAATTAGTTCCACCATTATGGTGTCATAGCTTAGTTTAA
326 CAATTGTGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATGGTGTCATAGCTTAGTTTAA
12024555 TTTATT
391 TTTATT
12024561 TTC
1 TTC
12024564 CATTAATTTT
Statistics
Matches: 2309, Mismatches: 69, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
395 67 0.03
396 2242 0.97
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (396 bp):
TTCAAATGGTTCATTGGATGTTTGCACTCTAAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
CCCGGTAATATCTTCACAATCTTATTTACTTCAACTCTTTCTCCGAGAAAACATGGAAACCAGTT
TTTAATGATCTGCACGAGTTTCAAATAATGAAGTGACAAAAAAAGGGCAATTACATGAAATTTTT
AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGCTTCATATTTAC
TAATATAGTAGTTTTATGTTGATTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTA
CAATTGTGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATGGTGTCATAGCTTAGTTTAA
TTTATT
Found at i:12028430 original size:9 final size:9
Alignment explanation
Indices: 12028385--12028430 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
12028375 CCATCCTTTG
12028385 AAAATA-AA
1 AAAATATAA
*
12028393 AAAATATTA
1 AAAATATAA
12028402 AAAATATAA
1 AAAATATAA
*
12028411 AAATTATAA
1 AAAATATAA
12028420 AAAATA-AA
1 AAAATATAA
12028428 AAA
1 AAA
12028431 CTTTAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
8 11 0.33
9 22 0.67
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAATATAA
Found at i:12028437 original size:17 final size:16
Alignment explanation
Indices: 12028385--12028438 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 16
12028375 CCATCCTTTG
12028385 AAAATAAAAAAATATT-A
1 AAAAT-AAAAAAT-TTAA
12028402 AAAATATAAAAATTATAA
1 AAAATA-AAAAATT-TAA
12028420 AAAATAAAAAACTTTAA
1 AAAATAAAAAA-TTTAA
12028437 AA
1 AA
12028439 TATTATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.06
17 22 0.67
18 9 0.27
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATAAAAAATTTAA
Found at i:12028474 original size:6 final size:6
Alignment explanation
Indices: 12028460--12028489 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
12028450 ATCTAAATCT
12028460 AAATCTA AAATTA AAATTA AAATTA AAATT
1 AAAT-TA AAATTA AAATTA AAATTA AAATT
12028490 TTTATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATTA
Found at i:12031051 original size:15 final size:14
Alignment explanation
Indices: 12031024--12031074 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
12031014 CAAAAATACT
*
12031024 AGAATAAAA-AAAA
1 AGAAAAAAAGAAAA
12031037 AGAAAAAGAAG-AAA
1 AGAAAAA-AAGAAAA
*
12031051 AGAAGAAAAGAGAAA
1 AGAAAAAAAGA-AAA
12031066 AGAAAAAAA
1 AGAAAAAAA
12031075 AAACCTAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 9 0.29
14 11 0.35
15 11 0.35
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (14 bp):
AGAAAAAAAGAAAA
Found at i:12031073 original size:7 final size:7
Alignment explanation
Indices: 12031032--12031077 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 7
12031022 CTAGAATAAA
12031032 AAAAAAG
1 AAAAAAG
12031039 -AAAAAG
1 AAAAAAG
12031045 AAGAAAAG
1 AA-AAAAG
12031053 AAGAAAAG
1 AA-AAAAG
*
12031061 AGAAAAG
1 AAAAAAG
12031068 AAAAAA-
1 AAAAAAG
12031074 AAAA
1 AAAA
12031078 CCTAAACTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 10 0.29
7 11 0.31
8 14 0.40
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:12034458 original size:10 final size:10
Alignment explanation
Indices: 12034443--12034568 Score: 83
Period size: 9 Copynumber: 13.4 Consensus size: 10
12034433 AAATGTGGCA
12034443 AAAAAATTAT
1 AAAAAATTAT
12034453 AAAAAA--AT
1 AAAAAATTAT
12034461 -AAAAATTA-
1 AAAAAATTAT
*
12034469 ATAAAA-TAT
1 AAAAAATTAT
12034478 AAAAAATTAT
1 AAAAAATTAT
12034488 -AAAAATTAT
1 AAAAAATTAT
*
12034497 AAAAAA-TAA
1 AAAAAATTAT
**
12034506 AAAAAAACAT
1 AAAAAATTAT
12034516 AAAAACA-TA-
1 AAAAA-ATTAT
*
12034525 AAAAAATTGT
1 AAAAAATTAT
**
12034535 AAAATTTTAT
1 AAAAAATTAT
* *
12034545 -AAATATCAT
1 AAAAAATTAT
12034554 AAAAAAATTAT
1 -AAAAAATTAT
12034565 AAAA
1 AAAA
12034569 TGCATCAAAA
Statistics
Matches: 90, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
7 5 0.06
8 5 0.06
9 40 0.44
10 32 0.36
11 8 0.09
ACGTcount: A:0.71, C:0.02, G:0.01, T:0.25
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:12034472 original size:18 final size:17
Alignment explanation
Indices: 12034444--12034531 Score: 72
Period size: 17 Copynumber: 5.0 Consensus size: 17
12034434 AATGTGGCAA
12034444 AAAAATTATAAAAAAAT
1 AAAAATTATAAAAAAAT
*
12034461 AAAAATTA-ATAAAATAT
1 AAAAATTATA-AAAAAAT
*
12034478 AAAAAATTATAAAAATTAT
1 -AAAAATTATAAAAA-AAT
* *
12034497 AAAAAATAAAAAAAAACAT
1 -AAAAATTATAAAAAA-AT
*
12034516 AAAAA-CATAAAAAAAT
1 AAAAATTATAAAAAAAT
12034532 TGTAAAATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
16 3 0.05
17 21 0.35
18 17 0.28
19 19 0.32
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAATTATAAAAAAAT
Found at i:12034564 original size:20 final size:21
Alignment explanation
Indices: 12034541--12034580 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
12034531 TTGTAAAATT
12034541 TTATAAATAT-CAT-AAAAAAA
1 TTATAAA-ATGCATCAAAAAAA
12034561 TTATAAAATGCATCAAAAAA
1 TTATAAAATGCATCAAAAAA
12034581 GATATTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 10 0.56
21 6 0.33
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (21 bp):
TTATAAAATGCATCAAAAAAA
Found at i:12034887 original size:20 final size:22
Alignment explanation
Indices: 12034848--12034887 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
12034838 CTATATTTCT
*
12034848 ATATATTTTATAATACTTTACA
1 ATATATTTTACAATACTTTACA
12034870 ATAT-TTTTACAATA-TTTA
1 ATATATTTTACAATACTTTA
12034888 TATTTTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATATTTTACAATACTTTACA
Found at i:12034923 original size:20 final size:21
Alignment explanation
Indices: 12034891--12034945 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
12034881 ATATTTATAT
12034891 TTTTCTAAT-TTTTTAA-TAAA
1 TTTT-TAATATTTTTAATTAAA
12034911 TTTTTAATATTTTTAATTAAA
1 TTTTTAATATTTTTAATTAAA
* *
12034932 -ATTTAATAATTTTA
1 TTTTTAATATTTTTA
12034946 TAACTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.13
20 23 0.74
21 4 0.13
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTAATATTTTTAATTAAA
Found at i:12035246 original size:87 final size:87
Alignment explanation
Indices: 12035095--12035261 Score: 239
Period size: 87 Copynumber: 1.9 Consensus size: 87
12035085 AGCTTTTTTG
* * *
12035095 ATGCATTTTGGCAATTCAAATACCCAATTGAGTGAAAAAAAAAGTAGGAGCTTAATTGCTTTTTT
1 ATGCATTTTGGAAATTCAAATACCCAATTAAGTGAAAAAAAAAGCAGGAGCTTAATTGCTTTTTT
*
12035160 TGAAAAAGTTTGAGGATCTTTA
66 TAAAAAAGTTTGAGGATCTTTA
* * *
12035182 ATGCATTTT-GAAATTTCAAGTACCCAATTAAGTGCAAAAAAAAGGCAGGGGCTTAATTGC-TTT
1 ATGCATTTTGGAAA-TTCAAATACCCAATTAAGTG-AAAAAAAAAGCAGGAGCTTAATTGCTTTT
12035245 TTTAAAAAAGTTTGAGG
64 TTTAAAAAAGTTTGAGG
12035262 GCTTTTTACA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
86 3 0.04
87 46 0.65
88 22 0.31
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (87 bp):
ATGCATTTTGGAAATTCAAATACCCAATTAAGTGAAAAAAAAAGCAGGAGCTTAATTGCTTTTTT
TAAAAAAGTTTGAGGATCTTTA
Found at i:12044098 original size:3 final size:3
Alignment explanation
Indices: 12044090--12044120 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
12044080 AGAAAATATT
12044090 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA G
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA G
12044121 AGTTAGCTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GTA
Found at i:12054516 original size:215 final size:215
Alignment explanation
Indices: 12054145--12054579 Score: 807
Period size: 215 Copynumber: 2.0 Consensus size: 215
12054135 ATGTCTTAAT
12054145 ACCTTGTTTCTATAAACTGAACCCATACATATTTTATTAAATATTTACTGAGTGTTATGTGGATC
1 ACCTTGTTTCTATAAACTGAACCCATACATATTTTATTAAATATTTACTGAGTGTTATGTGGATC
*
12054210 ATATTAAAAATTTGGTTAAGAAATTTTAACGTTTAAATATTAATTAAATGAAAAGGACTAATTTG
66 ATATTAAAAATTTGGTTAAGAAATTTTAACGTTTAAATATTAATTAAATGAAAAGGACTAATTTA
* *
12054275 TAAAGGTCGTAAAAGTTAATTTTCATTTATTTAAGGTGTTAAATTAATAATATTATAGGATTGGG
131 CAAAAGTCGTAAAAGTTAATTTTCATTTATTTAAGGTGTTAAATTAATAATATTATAGGATTGGG
*
12054340 GGGGTTTATTAGAAAGATTG
196 GGGATTTATTAGAAAGATTG
* *
12054360 ACCTTGTTTCTATAATCTGAACTCATACATATTTTATTAAATATTTACTGAGTGTTATGTGGATC
1 ACCTTGTTTCTATAAACTGAACCCATACATATTTTATTAAATATTTACTGAGTGTTATGTGGATC
12054425 ATATTAAAAATTTGGTTAAGAAATTTTAACGTTTAAATATTAATTAAATGAAAAGGACTAATTTA
66 ATATTAAAAATTTGGTTAAGAAATTTTAACGTTTAAATATTAATTAAATGAAAAGGACTAATTTA
12054490 CAAAAGTCGTAAAAGTTAATTTTCATTTATTTAAGGTGTTAAATTAATAATATTATAGGATTGGG
131 CAAAAGTCGTAAAAGTTAATTTTCATTTATTTAAGGTGTTAAATTAATAATATTATAGGATTGGG
*
12054555 GGGATTTATTAGGAAGATTG
196 GGGATTTATTAGAAAGATTG
12054575 ACCTT
1 ACCTT
12054580 TGGTTGTTTA
Statistics
Matches: 213, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
215 213 1.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (215 bp):
ACCTTGTTTCTATAAACTGAACCCATACATATTTTATTAAATATTTACTGAGTGTTATGTGGATC
ATATTAAAAATTTGGTTAAGAAATTTTAACGTTTAAATATTAATTAAATGAAAAGGACTAATTTA
CAAAAGTCGTAAAAGTTAATTTTCATTTATTTAAGGTGTTAAATTAATAATATTATAGGATTGGG
GGGATTTATTAGAAAGATTG
Found at i:12055546 original size:45 final size:45
Alignment explanation
Indices: 12055497--12055659 Score: 193
Period size: 45 Copynumber: 3.6 Consensus size: 45
12055487 ACCAGAAACA
*
12055497 AGTAAGACCATAGCTGAAAGACATTATGACATCACGATTCTATCG
1 AGTAAGACCATAGCTGAAAGACATTATGACATCACGATTCTAACG
*
12055542 AGTAAGACCATAGCTGAAAGACGTTATGGA-ATCACGATTCTAACG
1 AGTAAGACCATAGCTGAAAGACATTAT-GACATCACGATTCTAACG
* * ** * * * *
12055587 AGTAAGAACATAGTTGAAAGACGCTATGACATCATGAATCAAAAG
1 AGTAAGACCATAGCTGAAAGACATTATGACATCACGATTCTAACG
* * *
12055632 AATAAGACCATAGTTAAAAGACATTATG
1 AGTAAGACCATAGCTGAAAGACATTATG
12055660 GCAACACAAC
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
44 2 0.02
45 98 0.96
46 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACATTATGACATCACGATTCTAACG
Found at i:12060208 original size:85 final size:85
Alignment explanation
Indices: 12060070--12060227 Score: 253
Period size: 85 Copynumber: 1.9 Consensus size: 85
12060060 ATCTGTGTCT
* *
12060070 TATTTTTCTTTCTTTTTCTTCACGATCTTTCTACATTTCCATTATCAATGTTTAGTTTTTAACAA
1 TATTTTTCTTTCTTTTTCTTCACGATCTTTCTACATTGCCATTATCAACGTTTAGTTTTTAACAA
12060135 ATTGGTATTAGAGTGTGTTC
66 ATTGGTATTAGAGTGTGTTC
*** * *
12060155 TATTTTTCTTTCTTTTTCTTTGTGTTCTTTCTACATTGCCATTATCGACGTTTAGTTTTTAACAA
1 TATTTTTCTTTCTTTTTCTTCACGATCTTTCTACATTGCCATTATCAACGTTTAGTTTTTAACAA
12060220 ATTGGTAT
66 ATTGGTAT
12060228 CAGATTTTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 66 1.00
ACGTcount: A:0.20, C:0.15, G:0.11, T:0.54
Consensus pattern (85 bp):
TATTTTTCTTTCTTTTTCTTCACGATCTTTCTACATTGCCATTATCAACGTTTAGTTTTTAACAA
ATTGGTATTAGAGTGTGTTC
Found at i:12062784 original size:23 final size:23
Alignment explanation
Indices: 12062752--12062806 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
12062742 TTTACCATAC
* *
12062752 AAGAAGAGATGGAATCGCTCCAT
1 AAGAACAGATGGAATCACTCCAT
12062775 AAGAACAGATGGAATCACTCCAT
1 AAGAACAGATGGAATCACTCCAT
12062798 AAGAACAGA
1 AAGAACAGA
12062807 ACATGAGATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (23 bp):
AAGAACAGATGGAATCACTCCAT
Found at i:12064396 original size:24 final size:24
Alignment explanation
Indices: 12064368--12064419 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
12064358 TTTCTAGAAG
*
12064368 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAGCATAATAT
12064392 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATTAGCATAATAT
12064416 ATTT
1 ATTT
12064420 GACATAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:12071632 original size:20 final size:20
Alignment explanation
Indices: 12071607--12071646 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12071597 CGTAAAATGA
*
12071607 TTTCTAGAAAATGTTTTACT
1 TTTCTAGAAAATGATTTACT
*
12071627 TTTCTATAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
12071647 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (20 bp):
TTTCTAGAAAATGATTTACT
Found at i:12072539 original size:12 final size:11
Alignment explanation
Indices: 12072524--12072566 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
12072514 AATATATAAT
*
12072524 TTAATAACATTC
1 TTAATAA-ATTA
12072536 TTAATATAATTA
1 TTAATA-AATTA
*
12072548 TTAATAAAATA
1 TTAATAAATTA
12072559 TTAATAAA
1 TTAATAAA
12072567 AATCATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 12 0.43
12 15 0.54
13 1 0.04
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAATAAATTA
Found at i:12072568 original size:12 final size:12
Alignment explanation
Indices: 12072536--12072594 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
12072526 AATAACATTC
* *
12072536 TTAATATAATTA
1 TTAATAAAAATA
12072548 TTAAT-AAAATA
1 TTAATAAAAATA
12072559 TTAATAAAAATCA
1 TTAATAAAAAT-A
*
12072572 -TAATATATAATA
1 TTAATA-AAAATA
12072584 TT-ATAAAAATA
1 TTAATAAAAATA
12072595 ATATATAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 14 0.36
12 19 0.49
13 6 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (12 bp):
TTAATAAAAATA
Found at i:12072575 original size:23 final size:23
Alignment explanation
Indices: 12072549--12072602 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
12072539 ATATAATTAT
*
12072549 TAATAA-AATATTAATAAAAATCA
1 TAATAATAATATT-ATAAAAATAA
12072572 TAATATATAATATTATAAAAATAA
1 TAATA-ATAATATTATAAAAATAA
12072596 TATATAA
1 TA-ATAA
12072603 CCTACTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 5 0.19
24 13 0.48
25 9 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAATAATAATATTATAAAAATAA
Found at i:12075227 original size:34 final size:34
Alignment explanation
Indices: 12075188--12075331 Score: 173
Period size: 34 Copynumber: 4.2 Consensus size: 34
12075178 ACGCTTGTCG
12075188 GATAAACCGAAAAATGTGTGCCCAGCACTAGTCA
1 GATAAACCGAAAAATGTGTGCCCAGCACTAGTCA
* * ** * * *
12075222 AATAAACTGATGGAA-GTTGCGCCCAGCGCTAGTCG
1 GATAAACCGA-AAAATG-TGTGCCCAGCACTAGTCA
*
12075257 GATAAACCGAAAAATGTGTGCCCGGCACTAGTCA
1 GATAAACCGAAAAATGTGTGCCCAGCACTAGTCA
* *
12075291 GATAAATCGACAAATGTGTGCCCAGCACTAGTCA
1 GATAAACCGAAAAATGTGTGCCCAGCACTAGTCA
12075325 GATAAAC
1 GATAAAC
12075332 TGACAGAAGT
Statistics
Matches: 88, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
34 62 0.70
35 26 0.30
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (34 bp):
GATAAACCGAAAAATGTGTGCCCAGCACTAGTCA
Found at i:12075247 original size:35 final size:34
Alignment explanation
Indices: 12075170--12075366 Score: 139
Period size: 34 Copynumber: 5.7 Consensus size: 34
12075160 CGGAAGAGTT
* * * * * *
12075170 TGCGCCCAACGCTTGTCGGATAAACCGAAAAATG
1 TGCGCCCAGCACTAGTCAGATAAACTGAGAAATG
* * *
12075204 TGTGCCCAGCACTAGTCAAATAAACTGATGGAA-G
1 TGCGCCCAGCACTAGTCAGATAAACTGA-GAAATG
* * * *
12075238 TTGCGCCCAGCGCTAGTCGGATAAACCGAAAAATG
1 -TGCGCCCAGCACTAGTCAGATAAACTGAGAAATG
* * *
12075273 TGTGCCCGGCACTAGTCAGATAAA-TCGACAAATG
1 TGCGCCCAGCACTAGTCAGATAAACT-GAGAAATG
* *
12075307 TGTGCCCAGCACTAGTCAGATAAACTGACAGAA-G
1 TGCGCCCAGCACTAGTCAGATAAACTGAGA-AATG
* **
12075341 TTGCGCCCAGCGCTAGTTGGATAAAC
1 -TGCGCCCAGCACTAGTCAGATAAAC
12075367 CGACGAATAA
Statistics
Matches: 129, Mismatches: 27, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
34 79 0.61
35 50 0.39
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (34 bp):
TGCGCCCAGCACTAGTCAGATAAACTGAGAAATG
Found at i:12075407 original size:103 final size:101
Alignment explanation
Indices: 12075199--12075396 Score: 261
Period size: 103 Copynumber: 1.9 Consensus size: 101
12075189 ATAAACCGAA
**
12075199 AAATGTGTGCCCAGCACTAGTCAAATAAACTGATGGAAGTTGCGCCCAGCGCTAGTCGGATAAAC
1 AAATGTGTGCCCAGCACTAGTCAAATAAACTGACAGAAGTTGCGCCCAGCGCTAGTCGGATAAAC
* **
12075264 CGAAAAATGTGTGCCCGGCACTAGTCAGATAAATCGAC
66 CGAAAAATGTGAGCCCAACACTAGTCAGA-AAATC-AC
* *
12075302 AAATGTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCGCTAGTTGGATAAAC
1 AAATGTGTGCCCAGCACTAGTCAAATAAACTGACAGAAGTTGCGCCCAGCGCTAGTCGGATAAA-
*
12075367 CGACGAATAAATAGTGAGCCCAACTCTAGT
65 C--CGAA-AAAT-GTGAGCCCAACACTAGT
12075397 TGACATACAA
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
103 60 0.73
104 1 0.01
106 4 0.05
107 4 0.05
108 13 0.16
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (101 bp):
AAATGTGTGCCCAGCACTAGTCAAATAAACTGACAGAAGTTGCGCCCAGCGCTAGTCGGATAAAC
CGAAAAATGTGAGCCCAACACTAGTCAGAAAATCAC
Found at i:12078117 original size:68 final size:68
Alignment explanation
Indices: 12078037--12078188 Score: 156
Period size: 62 Copynumber: 2.3 Consensus size: 68
12078027 CAGTTATAAT
* * * *
12078037 CTAAGTAGCATCACGCAATGAACCATTAATCACAAATCTTCAAAACTCAATTTAAATGCAGTAGC
1 CTAAGTACCATCACGCAATGAACCATTAATCACAAATCTTCAAAACTCAATTCAAATACAATAGC
12078102 ATC
66 ATC
* * * *
12078105 CTAAGTACCATCAC-C-----ACCATTAATCCCAAATCTTCATAATTCAGTTCAAATACAATAGC
1 CTAAGTACCATCACGCAATGAACCATTAATCACAAATCTTCAAAACTCAATTCAAATACAATAGC
12078164 ATC
66 ATC
* *
12078167 TTAA-AATCCATCACGCAATGAA
1 CTAAGTA-CCATCACGCAATGAA
12078189 TTATTTCCAC
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
61 1 0.01
62 50 0.75
63 1 0.01
67 1 0.01
68 14 0.21
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.26
Consensus pattern (68 bp):
CTAAGTACCATCACGCAATGAACCATTAATCACAAATCTTCAAAACTCAATTCAAATACAATAGC
ATC
Found at i:12080385 original size:18 final size:19
Alignment explanation
Indices: 12080340--12080385 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
12080330 TAGATTTAAT
*
12080340 TATAAATAAATATATAAAA
1 TATAAATAAATATAGAAAA
*
12080359 T-TAAAATAAA-ATAGAAGA
1 TAT-AAATAAATATAGAAAA
12080377 TATAAATAA
1 TATAAATAA
12080386 GAAATTAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (19 bp):
TATAAATAAATATAGAAAA
Found at i:12080906 original size:24 final size:25
Alignment explanation
Indices: 12080865--12080911 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
12080855 TATTTGTTTG
12080865 AAAAGAAATTAATAATAA-AATTGA
1 AAAAGAAATTAATAATAATAATTGA
*
12080889 AAAATAAATTAA-ATATAATAATT
1 AAAAGAAATTAATA-ATAATAATT
12080912 TCACATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 15 0.75
25 4 0.20
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (25 bp):
AAAAGAAATTAATAATAATAATTGA
Found at i:12092706 original size:88 final size:86
Alignment explanation
Indices: 12092525--12092709 Score: 205
Period size: 88 Copynumber: 2.1 Consensus size: 86
12092515 AGTAAAGATA
*
12092525 ACAGATCTTGCCTTCCAGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAAGT
1 ACAGATCTTGCCTTCCAGCACCGACAGCAAAGCAGATCGAAGACACCAGCCTT-CCTCCCTAAGT
* * *
12092590 TACAGTGGAGCAGGTTGAAAAT
65 CACAGTGGAACAAGTTGAAAAT
* *
12092612 AGCAGATCTTGCCTTCCTGCACCGACAGCAAAGCAGATCGACGAC-CCTAGTCCTAT-CTCCCT-
1 A-CAGATCTTGCCTTCCAGCACCGACAGCAAAGCAGATCGAAGACACC-AG-CCT-TCCTCCCTA
* * *
12092674 GGTCAGCAGTGGAATAAGTTGGAAATT
62 AGTCA-CAGTGGAACAAGTT-GAAAAT
12092701 ACAGATCTT
1 ACAGATCTT
12092710 ATCTCCCTAA
Statistics
Matches: 83, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
87 6 0.07
88 67 0.81
89 9 0.11
90 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (86 bp):
ACAGATCTTGCCTTCCAGCACCGACAGCAAAGCAGATCGAAGACACCAGCCTTCCTCCCTAAGTC
ACAGTGGAACAAGTTGAAAAT
Found at i:12092814 original size:131 final size:131
Alignment explanation
Indices: 12092660--12093517 Score: 1299
Period size: 131 Copynumber: 6.5 Consensus size: 131
12092650 CGACGACCCT
* *
12092660 AGTCCTATCTCCCTGGTCAGCAGTGGAATAAGTTGGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
12092725 AGTGGAGCAAATCGAAGACGGTGAATCTTATCTTCCCCAAGACTAGGGAATCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATTTAAGCCAC
12092790 A
131 A
* * *
12092791 AGTCCTATCTCCTTGGTCAGCAGTGGAATAGGTTAGAAATTATAGATCTTATCTCCCTAAGTAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* *
12092856 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTT-CCCTAGAAGTAGAGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAAG-AGTAGGGAAGCAGATTTAAGCCA
12092920 CA
130 CA
* *
12092922 ATTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCTCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
12092987 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCACAGGAGTAGGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATTTAAGCCAC
12093052 A
131 A
* *
12093053 AGTCCTATCTCCCTAGTCAGCAGTAGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* * * *
12093118 AATGGAGCAGATCAAAGACGGTGAATCTTATCTTCTCCAGGAGTAGGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATTTAAGCCAC
12093183 A
131 A
* * * *
12093184 AGTCCTATCTCCCTAGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGGAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
** *
12093249 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATTTAAGCCAC
12093314 A
131 A
12093315 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
12093380 AGTAGAACAGATCGAAGACGGGGAATCTTATCTTCCCC-AGAAGTAGGGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAAG-AGTAGGGAAGCAGATTTAAGCCA
*
12093444 CT
130 CA
* * * * ** * *
12093446 AGTCTTATCTCCCTGGACAGCAGGGGAATAGGTT-GAGGATTGTAGACCTTATCTCCCTGAGCAG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGA-AATTACAGATCTTATCTCCCTAAGCAG
*
12093510 CAGTGGAG
65 TAGTGGAG
12093518 TAGGTTAAAG
Statistics
Matches: 664, Mismatches: 59, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
130 8 0.01
131 653 0.98
132 3 0.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (131 bp):
AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATTTAAGCCAC
A
Found at i:12093410 original size:175 final size:173
Alignment explanation
Indices: 12093229--12093808 Score: 476
Period size: 175 Copynumber: 3.3 Consensus size: 173
12093219 GAAATTACAG
* *
12093229 ATCTTATCTCCCTAAGGAGTAGTGG-AGCAGATCGAAGACGACGAATCTTATCTTCCCCAGG-AG
1 ATCTTATCTCCC-AAGAAGTAG-GGAAGCAGATCGAAG-CCACGAATCTTATC-T-CCCAGGAAG
* * * *
12093292 TA-GGGAAGCAGATTTAAGCCACAAGTCC-TATCTCCCTG-GTCAGCAGTGGAATAGGTTAGAA-
61 CAGGGGAA-CAGATTGAAGACACAAGACCTTATCTCCCTGAG-CAGCAGTGGAATAGGTTA-AAG
*
12093353 ATTACAGATCTTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGGGA
123 ATTACAGATCTTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGCGA
* ** * * *
12093404 ATCTTATCTTCCCCAGAAGTAGGGAAGCAGATTTAAGCCACTAGTCTTATCTCCCTGGACAGCAG
1 ATCTTATC-TCCCAAGAAGTAGGGAAGCAGATCGAAGCCACGAATCTTATCTCCCAGGA-AGCAG
* * * **** * *
12093469 GGGAATAGGTTGAGGATTGTAGACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTTCA
64 GGGAACAGATTGAAGACACAAGACCTTATCTCCCTGAGCAGCAGTGGAATAGGTTAAAGATTACA
* *
12093534 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
129 GATCTTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGCGA
* * * * ** * *
12093579 ATCTTATCTTCTCTAGGAGTAAGGAAGCAGATTTAAGCCACTAGTCTTATCTCCCTA-GATAGCA
1 ATCTTATC-TCCCAAGAAGTAGGGAAGCAGATCGAAGCCACGAATCTTATCTCCC-AGGA-AGCA
* * **** * * *
12093643 GGGGAATAGGTTGAAGATTGTAGACCTTATCTCCCTAAGCAGCAATGGAGTAGGTTGAAA-ATTA
63 GGGGAACAGATTGAAGACACAAGACCTTATCTCCCTGAGCAGCAGTGGAATAGGTT-AAAGATTA
* * * * *
12093707 CAAATATTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
127 CAGATCTTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGCGA
** ** * * *
12093754 ATCTTATCTTCCCCCTG-AGTAGGGAAGCAGATTTAAGCCACAAACCCTATCTCCC
1 ATCTTATC-T-CCCAAGAAGTAGGGAAGCAGATCGAAGCCACGAATCTTATCTCCC
12093809 TGAGCAGCAG
Statistics
Matches: 349, Mismatches: 45, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
172 5 0.01
173 1 0.00
174 28 0.08
175 304 0.87
176 11 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (173 bp):
ATCTTATCTCCCAAGAAGTAGGGAAGCAGATCGAAGCCACGAATCTTATCTCCCAGGAAGCAGGG
GAACAGATTGAAGACACAAGACCTTATCTCCCTGAGCAGCAGTGGAATAGGTTAAAGATTACAGA
TCTTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGCGA
Found at i:12093583 original size:44 final size:44
Alignment explanation
Indices: 12092836--12093965 Score: 227
Period size: 44 Copynumber: 25.8 Consensus size: 44
12092826 GAAATTATAG
* * * **
12092836 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAA
* * * * ***
12092880 ATCTTATCTTCCCT-AGAAGTAGAGAAGCAGATTTAAG-CCACAA
1 ATCTTATC-TCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAA
* * * * ** * ** *
12092923 TTCCTATCTCCCT-GGTCAGCAGTGGAATAGGTTAGAA-ATTACAG
1 ATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATT-GAAGATGGCAA
* * * *
12092967 ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAA
* * * ***
12093011 ATCTTATCTTCC-ACAGGAGTAG-GGAAGCAGATTTAAG-CCACAA
1 ATCTTATCTCCCTA-AGCAGTAGTGG-AGCAGATTGAAGATGGCAA
* * * * ** * ** *
12093054 GTCCTATCTCCCT-AGTCAGCAGTAGAATAGGTTAGAA-ATTACAG
1 ATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATT-GAAGATGGCAA
* ** * **
12093098 ATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAGACGGTGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAA
* * ***
12093142 ATCTTATCTTCTCC--AGGAGTAG-GGAAGCAGATTTAAG-CCACAA
1 ATCTTATC-TC-CCTAAGCAGTAGTGG-AGCAGATTGAAGATGGCAA
* * ** * ** *
12093185 GTCCTATCTCCCT-AGTCAGTAGTGGAATAGGTTGGAA-ATTACAG
1 ATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATT-GAAGATGGCAA
* * * * *
12093229 ATCTTATCTCCCTAAGGAGTAGTGGAGCAGATCGAAGACGACGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAA
* * * ***
12093273 ATCTTATCTTCCC-CAGGAGTAG-GGAAGCAGATTTAAG-CCACAA
1 ATCTTATC-TCCCTAAGCAGTAGTGG-AGCAGATTGAAGATGGCAA
* * * * ** * ** *
12093316 GTCCTATCTCCCT-GGTCAGCAGTGGAATAGGTTAGAA-ATTACAG
1 ATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATT-GAAGATGGCAA
* * * * **
12093360 ATCTTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGGGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAA
* * * *** *
12093404 ATCTTATCTTCCC-CAGAAGTAG-GGAAGCAGATTTAAG-CCACTA
1 ATCTTATC-TCCCTAAGCAGTAGTGG-AGCAGATTGAAGATGGCAA
* * * * ** * * * * *
12093447 GTCTTATCTCCCT-GGACAGCAGGGGAATAGGTTGAGGATTGTAG
1 ATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATTGAAGATGGCAA
* * * * * * ** *
12093491 ACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTTCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAA
* * *
12093535 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAA
* * * * *** *
12093579 ATCTTATCTTCTCT-AGGAGTAAG-GAAGCAGATTTAAG-CCACTA
1 ATCTTATC-TCCCTAAGCAGT-AGTGGAGCAGATTGAAGATGGCAA
* * * * ** * * * *
12093622 GTCTTATCTCCCT-AGATAGCAGGGGAATAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATTGAAGATGGCAA
* * * * * * **
12093666 ACCTTATCTCCCTAAGCAGCAATGGAGTAGGTTGAAAATTACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAA
* ** * *
12093710 ATATTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAA
*** * ***
12093754 ATCTTATCTTCCCCCTG-AGTAG-GGAAGCAGATTTAAG-CCACAA
1 ATCTTATC-TCCCTAAGCAGTAGTGG-AGCAGATTGAAGATGGCAA
* * * * * * * **
12093797 ACCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAA
* * * * *
12093841 ATCTTATATCCTTAAGCAGTAGTGGAGTAGATCGAAGATGGCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAA
* * * * *
12093885 ATCTTATTTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAA
*
12093929 ATCTTATCTCCGTAA-CTAGTAGTGGAGCAGATTGAAG
1 ATCTTATCTCCCTAAGC-AGTAGTGGAGCAGATTGAAG
12093966 CCAGTAATCC
Statistics
Matches: 765, Mismatches: 268, Indels: 106
0.67 0.24 0.09
Matches are distributed among these distances:
41 2 0.00
42 35 0.05
43 160 0.21
44 531 0.69
45 35 0.05
46 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAA
Found at i:12093914 original size:131 final size:131
Alignment explanation
Indices: 12093670--12093916 Score: 338
Period size: 131 Copynumber: 1.9 Consensus size: 131
12093660 TTGTAGACCT
*
12093670 TATCTCCCTAAGCAGCAATGGAGTAGGTTGAAAATTACAAATATTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGCAATGGAGTAGGTTGAAAATTACAAATATTATATCCCTAAGCAGTAGTGG
** *
12093735 AGCAGATCAAAGACGGCGAATCTTATCTTCCCCCTGAGTAGGGAAGCAGATTTAAGCCACAAACC
66 AGCAGATCAAAGACGGCGAATCTTATCTTCCCCAAGAATAGGGAAGCAGATTTAAGCCACAAACC
12093800 C
131 C
* * * *
12093801 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATATCCTTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGCAATGGAGTAGGTTGAAAATTACAAATATTATATCCCTAAGCAGTAGTGG
* * * *
12093866 AGTAGATCGAAGATGGC-AGATCTTAT-TTCCCTAAGCAATAGTGG-AGCAGAT
66 AGCAGATCAAAGACGGCGA-ATCTTATCTTCCCCAAG-AATAG-GGAAGCAGAT
12093917 CGAAGATGGT
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
130 7 0.07
131 92 0.91
132 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (131 bp):
TATCTCCCTAAGCAGCAATGGAGTAGGTTGAAAATTACAAATATTATATCCCTAAGCAGTAGTGG
AGCAGATCAAAGACGGCGAATCTTATCTTCCCCAAGAATAGGGAAGCAGATTTAAGCCACAAACC
C
Done.