Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 292 of 325
Found at i:93243841 original size:54 final size:54
Alignment explanation
Indices: 93243741--93243846 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
93243731 GAGCTGAGGC
*
93243741 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
93243795 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
93243847 CAAAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:93243981 original size:54 final size:54
Alignment explanation
Indices: 93243881--93243986 Score: 128
Period size: 54 Copynumber: 1.9 Consensus size: 54
93243871 GACCTGAGGC
*
93243881 TCAACTCACCTCTCGAAATATGAGCTTATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGAAATATGAGCTTATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
93243935 TCAACCCACCTCTCGCAATATGAG-TTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGAAATATGAGCTT-ATT-TTGAA-AAAGTAAAATTGAAAA
93243987 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
53 2 0.04
54 30 0.67
55 9 0.20
56 4 0.09
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGAAATATGAGCTTATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:93244068 original size:492 final size:491
Alignment explanation
Indices: 93243557--93246028 Score: 2376
Period size: 492 Copynumber: 5.0 Consensus size: 491
93243547 TGAACAACGT
* * * *
93243557 AAATTGAAAACAGAAATTGAGAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAC
1 AAATTAAAAACAAAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
*
93243622 GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTCATTCT
66 GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCT
* *
93243687 TGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTTAGCGTGAGCTGAGGCTCAACTCACCT
131 TGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCT
93243752 CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATG
196 CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATG
*
93243817 AGTTGATTCTTGAACAACGTAAATTGAAAACAAAAATTGAAAATACCTCAGCGTGACCTGAGGCT
261 AGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCT
* *
93243882 CAACTCACCTCTCGAAATATGAGCTTATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTC
326 CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTC
* *
93243947 TCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAATATACCTCAGCGTT
391 TCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTG
*
93244012 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
456 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
* * * * *
93244048 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCTATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATA
* *
93244113 TGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCTATATGAGTTGATTC
65 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
*
93244178 TTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
130 TTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
*
93244243 TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATAT
195 TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATAT
*
93244308 GAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGC
260 GAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGC
* *
93244373 TCACCTCACCTCTCGCAATATGAGCTGATTTTTAAAAAGTAGAAATTAAAAGGTTCAACCCACCT
325 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCT
* * * *
93244438 CTCGCATTATGAGTTCATTCTTGAACAACGTAAATTGAAAAAAAAAATTGAAAATACCTCAGCGT
390 CTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGT
93244503 GACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
455 GACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
*** * * * * *
93244540 --ATT---TTGAAAAAGT-AGAA-A--TTA-----A---AAGGTTCAACCCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * * * *** * ** **
93244588 GAGTTGATTCTTGAACAACGT--AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAG
66 GAGCTGATT-TTGAA-AAAGTAGAAATT--AAA-AG--GTTCAACCCACCTC-TCGCAATATGA-
* * * * * *
93244651 GCTCAACTCACCTCTCGCAATATGA-GTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGT
122 G-T----TGA-TTCTTG-AACA--ACG-T-AAATTGAAA-ACAGAAATTGAAAATACCTCAGCGT
* * * *
93244715 GCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTT
175 GACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTT
* *
93244780 CAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACATAAATTGAAAATAGAAATTGAAAAT
240 CAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAAT
93244845 ACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAA
305 ACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAA
* * *
93244910 TTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTCGAACAGCGTAAATTGAAAACAGA
370 TTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGA
* *
93244975 TATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
435 AATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
** * * *** * ** *** * * * * *
93245032 ATTTTGAAAAAGTAGAAATT-AAAA-GGTTTAAC-CCACCTCTCGCAATATAAGTTGA-TTCTTG
1 AAATT-AAAAA-CAAAAATTGAAAATACCTTAGCGTGACCTGAGGC--T-CAA-CTCACCTCTCG
* ** ** * ** * ** * *
93245093 AACAACGTAAATTGAAAACAAAAATTGAAAATACCTCAG-CGTGACCTGAGGCTCAACTCACCTC
60 --CAA--T--A-TG--AGCTGATTTTGAAAA-A-GT-AGAAATTA--AAAGGTTCAACCCACCTC
93245157 TCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTG
111 TCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTG
* ** * *
93245222 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAACA-CAAAAATTGAAAATAC
176 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAA-AGTAGAAATT---AA-A-
* * *
93245285 CTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATT-TTGAA-AAAGTAGAAA
235 ---AG-GT----------TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT--AAA
* * *** * ** ** * * * *
93245348 TT--AAA-AG--GTTCAACCCAGCTCTC-GCAATATGAGTTGATTCTTGAA--CAAC-AT--AAA
284 TTGAAAACAGAAATTGAAAATA-C-CTCAGC---GTGACCTGAGGC-TCAACTCACCTCTCGCAA
* * ** * ** * ** * *
93245402 T-TGAAAACAGAAATTGAAAATACCTTAG-CGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
343 TATG--AGCTGATTTTGAAAA-A--GTAGAAATTA--AAAGGTTCAACCCACCTCTCGCAATATG
* * * * * *** * * *
93245465 AGCTGATT-TTTAA-AAAGTAGAAATT--AAA-AG--GTTCAACCCACCTC-TCG-CACTATGA-
401 AGTTGATTCTTGAACAACGT--AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGAC-CTGAG
* * *
93245520 G-T----TCA-TTCTTG-AACA--A-C-G
463 GCTCAACTCACCTCTCGCAATATGAGCTG
*
93245538 TAAATTGAAAAA-AAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAAT
1 -AAATT-AAAAACAAAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAAT
93245602 ATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATT
64 ATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATT
*
93245667 CTTGAACAACATAAATTG-AAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCAC
129 CTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCAC
* *
93245731 CTCTCGCAATATGAGCTGATTTTAAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATA
194 CTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATA
* *
93245796 TGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATAGCTTAGCGTGACCTGAGG
259 TGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGG
*
93245861 CTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACTCACC
324 CTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACC
93245926 TCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCG
389 TCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCG
93245991 TGACCTGAGGCTCAACTCACCTCTCGC-ATATGAGCTG
454 TGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
93246028 A
1 A
93246029 TTTTGAAAAA
Statistics
Matches: 1577, Mismatches: 263, Indels: 284
0.74 0.12 0.13
Matches are distributed among these distances:
473 72 0.05
474 54 0.03
475 24 0.02
476 15 0.01
477 15 0.01
478 17 0.01
479 16 0.01
480 9 0.01
481 2 0.00
482 3 0.00
483 2 0.00
484 3 0.00
485 6 0.00
486 14 0.01
487 4 0.00
488 5 0.00
489 4 0.00
490 6 0.00
491 83 0.05
492 835 0.53
493 2 0.00
494 5 0.00
495 1 0.00
496 10 0.01
498 2 0.00
499 9 0.01
501 4 0.00
503 3 0.00
504 2 0.00
505 23 0.01
506 68 0.04
507 21 0.01
508 12 0.01
509 2 0.00
510 7 0.00
511 14 0.01
512 6 0.00
513 5 0.00
514 2 0.00
515 1 0.00
516 2 0.00
517 5 0.00
518 17 0.01
519 29 0.02
520 18 0.01
521 11 0.01
522 18 0.01
523 18 0.01
524 71 0.05
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (491 bp):
AAATTAAAAACAAAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCT
TGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCT
CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATG
AGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCT
CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTC
TCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTG
ACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
Found at i:93244114 original size:72 final size:71
Alignment explanation
Indices: 93243977--93244120 Score: 207
Period size: 72 Copynumber: 2.0 Consensus size: 71
93243967 TGAACAACGT
* * * * * *
93243977 AAATTGAAAACAGAAATTGAATATACCTCAGCGTTACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
93244042 GAGTTG
66 GAGTTG
* *
93244048 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCTATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
93244113 TGAGTTG
65 TGAGTTG
93244120 A
1 A
93244121 TTTTGAAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
71 8 0.12
72 56 0.88
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:93244193 original size:54 final size:55
Alignment explanation
Indices: 93244093--93244198 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
93244083 GCCCCGAGGC
* *
93244093 TCAACTCACCTCTAGCTATATGAGTTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTAGCTATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
93244147 TCAACCCACCTCTCGCTATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTAGCTATATGAGTTGATT-TTGAAAAAGCAGAAATTGAAAA
93244199 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 34 0.76
55 11 0.24
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (55 bp):
TCAACCCACCTCTAGCTATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:93244205 original size:13 final size:13
Alignment explanation
Indices: 93244178--93244211 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
93244168 GAGTTGATTC
*
93244178 TTGAACAACATAAA
1 TTGAA-AACAGAAA
93244192 TTGAAAACAGAAA
1 TTGAAAACAGAAA
93244205 TTGAAAA
1 TTGAAAA
93244212 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:93244333 original size:54 final size:54
Alignment explanation
Indices: 93244233--93244338 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
93244223 GACCTGAGGC
*
93244233 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
93244287 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
93244339 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:93244613 original size:54 final size:54
Alignment explanation
Indices: 93244513--93244618 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
93244503 GACCTGAGGC
*
93244513 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
93244567 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
93244619 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:93244743 original size:72 final size:71
Alignment explanation
Indices: 93244609--93244752 Score: 234
Period size: 72 Copynumber: 2.0 Consensus size: 71
93244599 TGAACAACGT
* * * *
93244609 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
93244674 GAGTTG
66 GAGTTG
*
93244680 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
93244745 TGAGTTG
65 TGAGTTG
93244752 A
1 A
93244753 TTTTGAAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 8 0.12
72 59 0.88
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:93244825 original size:54 final size:55
Alignment explanation
Indices: 93244725--93244830 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
93244715 GCCCCGAGGC
* *
93244725 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
93244779 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTAGCAATATGAGTTGATT-TTGAAAAAGCAGAAATTGAAAA
93244831 TAGAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 34 0.76
55 11 0.24
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (55 bp):
TCAACCCACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:93244839 original size:13 final size:13
Alignment explanation
Indices: 93244821--93244845 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93244811 TGAACAACAT
93244821 AAATTGAAAATAG
1 AAATTGAAAATAG
93244834 AAATTGAAAATA
1 AAATTGAAAATA
93244846 CCTCAGCGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
AAATTGAAAATAG
Found at i:93245210 original size:86 final size:86
Alignment explanation
Indices: 93245065--93245258 Score: 370
Period size: 86 Copynumber: 2.3 Consensus size: 86
93245055 AGGTTTAACC
*
93245065 CACCTCTCGCAATATAAGTTGATTCTTGAACAACGTAAATTGAAAACAAAAATTGAAAATACCTC
1 CACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAAAAATTGAAAATACCTC
93245130 AGCGTGACCTGAGGCTCAACT
66 AGCGTGACCTGAGGCTCAACT
*
93245151 CACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTC
1 CACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAAAAATTGAAAATACCTC
93245216 AGCGTGACCTGAGGCTCAACT
66 AGCGTGACCTGAGGCTCAACT
93245237 CACCTCTCGCAATATGAGTTGA
1 CACCTCTCGCAATATGAGTTGA
93245259 AATTAAAACA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 106 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (86 bp):
CACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAAAAATTGAAAATACCTC
AGCGTGACCTGAGGCTCAACT
Found at i:93245321 original size:72 final size:71
Alignment explanation
Indices: 93245187--93245330 Score: 234
Period size: 72 Copynumber: 2.0 Consensus size: 71
93245177 TGAACAACGT
* * * *
93245187 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
93245252 GAGTTG
66 GAGTTG
*
93245258 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
93245323 TGAGTTG
65 TGAGTTG
93245330 A
1 A
93245331 TTTTGAAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 8 0.12
72 59 0.88
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:93245403 original size:54 final size:55
Alignment explanation
Indices: 93245303--93245408 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
93245293 GCCCCGAGGC
* *
93245303 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * * *
93245357 TCAACCCAGCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTAGCAATATGAGTTGATT-TTGAAAAAGCAGAAATTGAAAA
93245409 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (55 bp):
TCAACCCACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:93245415 original size:13 final size:13
Alignment explanation
Indices: 93245388--93245421 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
93245378 GAGTTGATTC
*
93245388 TTGAACAACATAAA
1 TTGAA-AACAGAAA
93245402 TTGAAAACAGAAA
1 TTGAAAACAGAAA
93245415 TTGAAAA
1 TTGAAAA
93245422 TACCTTAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:93245822 original size:54 final size:54
Alignment explanation
Indices: 93245722--93245827 Score: 126
Period size: 54 Copynumber: 1.9 Consensus size: 54
93245712 GACCTGAGGC
*
93245722 TCAACTCACCTCTCGCAATATGAGCTGATTTTAAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTAAAAAAGTA-AAATTGAAAAGGT
* * * *
93245776 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TT-AAAAAAGTAAAATTGAAAA
93245828 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
54 32 0.73
55 6 0.14
56 6 0.14
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTAAAAAAGTAAAATTGAAAAGGT
Found at i:93245962 original size:54 final size:54
Alignment explanation
Indices: 93245862--93245967 Score: 153
Period size: 54 Copynumber: 1.9 Consensus size: 54
93245852 GACCTGAGGC
93245862 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
93245916 TCAACTCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
93245968 CAGAAATTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
54 34 0.72
55 9 0.19
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:93246101 original size:54 final size:53
Alignment explanation
Indices: 93246002--93246106 Score: 133
Period size: 54 Copynumber: 1.9 Consensus size: 53
93245992 GACCTGAGGC
*
93246002 TCAACTCACCTCTCGCATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
93246055 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGC-ATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
93246107 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
53 15 0.33
54 17 0.38
55 9 0.20
56 4 0.09
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (53 bp):
TCAACCCACCTCTCGCATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:93246241 original size:54 final size:55
Alignment explanation
Indices: 93246141--93246246 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
93246131 GACCTGAGGC
* * *
93246141 TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACATCTCGCAATATGAGTTGATATTGAAAAAGCAGAAATTGAAAAGGT
* * *
93246195 TCAACCCACATCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACATCTCGCAATATGAGTTGA-TATTGAAAAAGCAGAAATTGAAAA
93246247 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 32 0.73
55 12 0.27
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (55 bp):
TCAACCCACATCTCGCAATATGAGTTGATATTGAAAAAGCAGAAATTGAAAAGGT
Found at i:93246253 original size:13 final size:13
Alignment explanation
Indices: 93246226--93246259 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
93246216 GAGTTGATTC
*
93246226 TTGAACAACATAAA
1 TTGAA-AACAGAAA
93246240 TTGAAAACAGAAA
1 TTGAAAACAGAAA
93246253 TTGAAAA
1 TTGAAAA
93246260 TACCTCCGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:93246521 original size:54 final size:54
Alignment explanation
Indices: 93246421--93246526 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
93246411 GACCTGAGGC
*
93246421 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
93246475 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
93246527 CAAAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:93246661 original size:54 final size:54
Alignment explanation
Indices: 93246561--93246666 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
93246551 GACCTGAGGC
*
93246561 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
93246615 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
93246667 CAGAAATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:93246801 original size:54 final size:54
Alignment explanation
Indices: 93246701--93246806 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
93246691 GACCTGAGGC
*
93246701 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
93246755 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
93246807 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:93258081 original size:21 final size:21
Alignment explanation
Indices: 93258055--93258095 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
93258045 TTACATGAAC
*
93258055 TAATTTTAAAT-TATTTGGTAG
1 TAATTTAAAATCTA-TTGGTAG
93258076 TAATTTAAAATCTATTGGTA
1 TAATTTAAAATCTATTGGTA
93258096 CATATGGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (21 bp):
TAATTTAAAATCTATTGGTAG
Found at i:93259921 original size:13 final size:13
Alignment explanation
Indices: 93259903--93259928 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93259893 ATTATTTCTT
93259903 ATTTTACATTAAA
1 ATTTTACATTAAA
93259916 ATTTTACATTAAA
1 ATTTTACATTAAA
93259929 TAATATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTTACATTAAA
Found at i:93268434 original size:18 final size:18
Alignment explanation
Indices: 93268407--93268441 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93268397 CAAAATTGAA
* *
93268407 TCAAATTAATTATTTAAG
1 TCAAAATAATTAATTAAG
93268425 TCAAAATAATTAATTAA
1 TCAAAATAATTAATTAA
93268442 ATTAATTGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (18 bp):
TCAAAATAATTAATTAAG
Found at i:93269923 original size:16 final size:16
Alignment explanation
Indices: 93269902--93269932 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
93269892 CATGCGATAA
93269902 TTATATTTAAAATTTC
1 TTATATTTAAAATTTC
93269918 TTATATTTAAAATTT
1 TTATATTTAAAATTT
93269933 TAATACATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATATTTAAAATTTC
Found at i:93270450 original size:26 final size:26
Alignment explanation
Indices: 93270410--93270460 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
93270400 CATCTGACGG
* *
93270410 TTAACTTTAATAGTTGACCATTAAAC
1 TTAACTTTAACAGTTGACAATTAAAC
93270436 TTAACTTTAACAGTTGACAATTAAA
1 TTAACTTTAACAGTTGACAATTAAA
93270461 GCAGTTGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (26 bp):
TTAACTTTAACAGTTGACAATTAAAC
Found at i:93270467 original size:16 final size:16
Alignment explanation
Indices: 93270446--93270477 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93270436 TTAACTTTAA
93270446 CAGTTGACAATTAAAG
1 CAGTTGACAATTAAAG
93270462 CAGTTGACAATTAAAG
1 CAGTTGACAATTAAAG
93270478 TTAATTGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (16 bp):
CAGTTGACAATTAAAG
Found at i:93270617 original size:20 final size:20
Alignment explanation
Indices: 93270569--93270617 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
93270559 TAAAAATCAA
* *
93270569 TAAAAATT-ATAAAGATTAT
1 TAAAAATTAATAAAAAATAT
**
93270588 TAAATTTTAATAAAAAATAT
1 TAAAAATTAATAAAAAATAT
93270608 TAAAAATTAA
1 TAAAAATTAA
93270618 AAATATATAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAAATTAATAAAAAATAT
Found at i:93270935 original size:20 final size:21
Alignment explanation
Indices: 93270881--93270935 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
93270871 TGGTACGATA
*
93270881 ATTTTTATAATTTT-TTTATG
1 ATTTTTATAATTTTCTTTATC
*
93270901 AATTTTAT-A-TTTCTTTA-C
1 ATTTTTATAATTTTCTTTATC
93270919 ATTTTTATAATTTTCTT
1 ATTTTTATAATTTTCTT
93270936 ACGACTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 10 0.34
19 6 0.21
20 13 0.45
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTTTTATAATTTTCTTTATC
Found at i:93270961 original size:38 final size:37
Alignment explanation
Indices: 93270878--93270962 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 37
93270868 TTTTGGTACG
* * *
93270878 ATAATTTTTATAATTTTTTTATGAATTTTATATTTCT
1 ATAATTTTTATAATTTTCTTACGAATTTTAAATTTCT
* *
93270915 TTACATTTTTATAATTTTCTTACGACTTTATAAAATTT-T
1 ATA-ATTTTTATAATTTTCTTACGAATTT-T-AAATTTCT
93270954 ATAATTTTT
1 ATAATTTTT
93270963 TCTATATTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.05
38 28 0.72
39 4 0.10
40 5 0.13
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (37 bp):
ATAATTTTTATAATTTTCTTACGAATTTTAAATTTCT
Found at i:93270981 original size:29 final size:27
Alignment explanation
Indices: 93270952--93271024 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 27
93270942 TTATAAAATT
*
93270952 TTATAATTTTTTCTATATTTCCATATATT
1 TTATAATTTTTTCTATATTTAC-TA-ATT
93270981 TTATAATTTTTTCTATATTTACTAATT
1 TTATAATTTTTTCTATATTTACTAATT
*
93271008 TTA-AATATTTT-TATATT
1 TTATAATTTTTTCTATATT
93271025 GTTTTATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.14
26 7 0.17
27 6 0.14
28 2 0.05
29 21 0.50
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (27 bp):
TTATAATTTTTTCTATATTTACTAATT
Found at i:93271390 original size:16 final size:16
Alignment explanation
Indices: 93271339--93271390 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
93271329 ATTCAAAAAG
93271339 AATAATTT-AAAATTA
1 AATAATTTCAAAATTA
* *
93271354 TAAAAATACTCAAATATTA
1 -AATAAT-TTCAAA-ATTA
93271373 AATAATTTCAAAATTA
1 AATAATTTCAAAATTA
93271389 AA
1 AA
93271391 AAAAGTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
16 11 0.38
17 6 0.21
18 8 0.28
19 4 0.14
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAATTTCAAAATTA
Found at i:93271585 original size:25 final size:24
Alignment explanation
Indices: 93271549--93271607 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
93271539 ACATTTTTTA
93271549 AAAAAT-TGAAAG-CCAAATTTAACTT
1 AAAAATAT-AAAGACCAAA-TTAA-TT
*
93271574 AAAAATATAAAGATCAAATTAATT
1 AAAAATATAAAGACCAAATTAATT
93271598 AAAATATATA
1 AAAA-ATATA
93271608 TAAAAATTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 6 0.20
25 19 0.63
26 5 0.17
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (24 bp):
AAAAATATAAAGACCAAATTAATT
Found at i:93276752 original size:30 final size:29
Alignment explanation
Indices: 93276716--93276780 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
93276706 GGATAGATTG
* * * *
93276716 AAAGATTGAAGATTTGAAGCTTGGTTGGAT
1 AAAGATTAAAGATTTGAA-ATTAGCTGGAT
93276746 AAAGATTAAAGATTTGAAATTAGCTGGAT
1 AAAGATTAAAGATTTGAAATTAGCTGGAT
93276775 AAAGAT
1 AAAGAT
93276781 CTAATTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 14 0.45
30 17 0.55
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.31
Consensus pattern (29 bp):
AAAGATTAAAGATTTGAAATTAGCTGGAT
Found at i:93280466 original size:26 final size:25
Alignment explanation
Indices: 93280437--93280485 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
93280427 AAATAATTTA
*
93280437 ATAAATAAAAATAAAATTCTAAAACT
1 ATAAATAAAAAT-AAAGTCTAAAACT
* *
93280463 ATAACTAAAACTAAAGTCTAAAA
1 ATAAATAAAAATAAAGTCTAAAA
93280486 GTCTAAACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.24
Consensus pattern (25 bp):
ATAAATAAAAATAAAGTCTAAAACT
Found at i:93281327 original size:57 final size:58
Alignment explanation
Indices: 93281171--93281327 Score: 192
Period size: 58 Copynumber: 2.7 Consensus size: 58
93281161 TGCATGTTGT
* * *
93281171 TATAAATTGAATTAAAGTTGTTGTTTGAGTGTTTCAAATTGGGCATTTTCATACTGTC
1 TATAAATTGAATTAAAGTTGCTGTTTTAGTGTTTCAAATTGAGCATTTTCATACTGTC
* * * * *
93281229 TTAAAAATTGAA-TCAAGCTGCTATTTTAGTGTTTCAAATTGAGCATTTTCATCCTGTC
1 -TATAAATTGAATTAAAGTTGCTGTTTTAGTGTTTCAAATTGAGCATTTTCATACTGTC
* * *
93281287 -ATAAACTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGA
1 TATAAATTGAATTAAAGTTGCTGTTTTAGTGTTTCAAATTGA
93281328 TCATGCTGCC
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
56 8 0.10
57 25 0.30
58 39 0.48
59 10 0.12
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (58 bp):
TATAAATTGAATTAAAGTTGCTGTTTTAGTGTTTCAAATTGAGCATTTTCATACTGTC
Found at i:93284017 original size:149 final size:149
Alignment explanation
Indices: 93283746--93284044 Score: 535
Period size: 149 Copynumber: 2.0 Consensus size: 149
93283736 TCATCATAAG
* **
93283746 AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTGACAAGATTGAAAATGGTATATTTATT
1 AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTCACAAGATTGAAAATGACATATTTATT
* *
93283811 GTTTTATTTTAATAGTTTCAATTTTTTTACCGTATCACTCCTACTTATTTAATTGATTCAATGTT
66 GTTTTATTTTAATAGTTTCAATTTTTTTACCATATCACTCCTACTTATTTAACTGATTCAATGTT
93283876 TAGACTTTTCTTGGAATGC
131 TAGACTTTTCTTGGAATGC
*
93283895 AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTCACTAGATTGAAAATGACATATTTATT
1 AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTCACAAGATTGAAAATGACATATTTATT
*
93283960 GTTTTATTTTATTAGTTTCAATTTTTTTACCATATCACTCCTACTTATTTAACTGATTCAATGTT
66 GTTTTATTTTAATAGTTTCAATTTTTTTACCATATCACTCCTACTTATTTAACTGATTCAATGTT
93284025 TAGACTTTTCTTGGAATGC
131 TAGACTTTTCTTGGAATGC
93284044 A
1 A
93284045 TCAGAGCCTA
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 143 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (149 bp):
AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTCACAAGATTGAAAATGACATATTTATT
GTTTTATTTTAATAGTTTCAATTTTTTTACCATATCACTCCTACTTATTTAACTGATTCAATGTT
TAGACTTTTCTTGGAATGC
Found at i:93284325 original size:17 final size:17
Alignment explanation
Indices: 93284305--93284365 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
93284295 ATTTCAAGAC
93284305 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
93284322 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
93284341 CTTATATAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
93284359 TTATGTA
1 TTATGTA
93284366 GTGATTCAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 4 0.13
20 8 0.26
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:93284341 original size:37 final size:37
Alignment explanation
Indices: 93284300--93284374 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
93284290 TGTTAATTTC
*
93284300 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATATAATGTTTTTAATTATGTAGTGATTCA
93284337 AAGACTTATATAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATATAATGTTTTTAATTATGTAGTGATTCA
93284374 A
1 A
93284375 TTTGGTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGACTTATATAATGTTTTTAATTATGTAGTGATTCA
Found at i:93284734 original size:20 final size:20
Alignment explanation
Indices: 93284711--93284753 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
93284701 CTTTATACTG
93284711 TTTATTTATTTA-TTCATTTT
1 TTTATTTA-TTACTTCATTTT
*
93284731 TTTATTTATTACTTCCTTTT
1 TTTATTTATTACTTCATTTT
93284751 TTT
1 TTT
93284754 TACACTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTATTTATTACTTCATTTT
Found at i:93291654 original size:51 final size:51
Alignment explanation
Indices: 93291562--93291660 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
93291552 ATCTACCATA
* * * *
93291562 ACAAGTCTTATCTCCCTGAAGTTGCAATGGAATAGGCTAAAGCTACAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAATGGAACAGACTAAAGCCACAAGCT
* * *
93291613 ACAAATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTAAAGCCACAA
1 ACAAATCTTATCTCCCTGAAGTTGCAATGGAACAGACTAAAGCCACAA
93291661 ACCTTATCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (51 bp):
ACAAATCTTATCTCCCTGAAGTTGCAATGGAACAGACTAAAGCCACAAGCT
Found at i:93291688 original size:44 final size:44
Alignment explanation
Indices: 93291608--93291697 Score: 99
Period size: 44 Copynumber: 2.0 Consensus size: 44
93291598 CTAAAGCTAC
* * * * * *
93291608 AAGCTACAAATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTA
1 AAGCCACAAACCTTATCCCCCTAAAATTGCAATGGAGCAGATTA
* * *
93291652 AAGCCACAAACCTTATCCCCCTAAAATTGCAGTGGAGTAGGTTA
1 AAGCCACAAACCTTATCCCCCTAAAATTGCAATGGAGCAGATTA
93291696 AA
1 AA
93291698 AAAATAACAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (44 bp):
AAGCCACAAACCTTATCCCCCTAAAATTGCAATGGAGCAGATTA
Found at i:93291880 original size:94 final size:90
Alignment explanation
Indices: 93291613--93291883 Score: 233
Period size: 94 Copynumber: 2.9 Consensus size: 90
93291603 GCTACAAGCT
* * * * *
93291613 ACAAATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTAAAGCCACAAACCTTATCCCCCTAAAA
1 ACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCCACTAATCTTAT-CCCCTGAAA
*
93291678 TTGCAGTGGAGTAGGTT-AAAAAAATA
65 TTGCAGTGGAG-AGATTGAAAAAAATA
* * * *** **
93291704 ACAAATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAATTA-TAAATCCCATACCCCTGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCCACT-AATCTTAT-CCCCTGAA
* * * *
93291768 GTTGCAGTGG-GATGGATTGAAGTTATAATG
64 ATTGCAGTGGAGA--GATTGAA--AAAAATA
* * * *
93291798 GCGAATCTTATCTCCCTAAAGTTGCAATAGAGCAGATTGAAGCCACTAATCTTATCTCCCTGAAA
1 ACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCCACTAATCTTATC-CCCTGAAA
93291863 TTGCAGTGGAGCAGATTGAAA
65 TTGCAGTGGAG-AGATTGAAA
93291884 TGATAAGTCC
Statistics
Matches: 137, Mismatches: 33, Indels: 19
0.72 0.17 0.10
Matches are distributed among these distances:
89 1 0.01
90 1 0.01
91 61 0.45
92 2 0.01
93 1 0.01
94 68 0.50
95 2 0.01
96 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (90 bp):
ACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCCACTAATCTTATCCCCTGAAAT
TGCAGTGGAGAGATTGAAAAAAATA
Found at i:93291958 original size:138 final size:138
Alignment explanation
Indices: 93291707--93291961 Score: 309
Period size: 138 Copynumber: 1.8 Consensus size: 138
93291697 AAAAATAACA
* * * *
93291707 AATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAATTATAAATCCCATACCCCTGAAGTTG
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAATGATAAATCCCATACCCCTGAAGTTG
* * * * * * *
93291772 CAGTGGGATGGATTGAAGTTATAATGGCGAATCTTATCTCCCTAAAGTTGCAATAGAGCAGATTG
66 CAGTAGGATGGATTCAAATTACAATAGCGAACCTTATATCCCTAAAGTTGCAATAGAGCAGATTG
93291837 AAGCCACT
131 AAGCCACT
* * *
93291845 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAATGATAAGTCCTATACCTCTGAAGTTG
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAATGATAAATCCCATACCCCTGAAGTTG
* * *
93291910 CAGTAGG-TCGGA-TCAAATCTACCATAGC-AAGCCTTATATCCTTGAAGTTGCA
66 CAGTAGGAT-GGATTCAAAT-TACAATAGCGAA-CCTTATATCCCTAAAGTTGCA
93291962 GTGGAATAGA
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
137 7 0.07
138 90 0.93
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (138 bp):
AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAATGATAAATCCCATACCCCTGAAGTTG
CAGTAGGATGGATTCAAATTACAATAGCGAACCTTATATCCCTAAAGTTGCAATAGAGCAGATTG
AAGCCACT
Found at i:93292094 original size:45 final size:44
Alignment explanation
Indices: 93291987--93292096 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
93291977 GCTACAAGCT
* * * *
93291987 ACAAATCTTATCTCCCTAAAGTTGTAGTGGGGCGGGTTAAAGTC
1 ACAAATCTTATCTCCCTAAAGTTGTAGTGGGGAGGATAAAAATC
* * * *
93292031 ACAAACCTTATCTACCTAAATTTGTAGTGGAGTAGGATAAAAATC
1 ACAAATCTTATCTCCCTAAAGTTGTAGTGG-GGAGGATAAAAATC
*
93292076 ACAAATCTCATCTCCCTAAAG
1 ACAAATCTTATCTCCCTAAAG
93292097 CTGCAGGGGA
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
44 27 0.51
45 26 0.49
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTAAAGTTGTAGTGGGGAGGATAAAAATC
Found at i:93293640 original size:20 final size:19
Alignment explanation
Indices: 93293617--93293659 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
93293607 CTTTATACTG
93293617 TTTATTTATT-CATTCATTT
1 TTTATTTATTAC-TTCATTT
93293636 ATTTATTTATTACTTCATTT
1 -TTTATTTATTACTTCATTT
93293656 TTTA
1 TTTA
93293660 CACTTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.18
20 17 0.77
21 1 0.05
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATTTATTACTTCATTT
Found at i:93293853 original size:3 final size:3
Alignment explanation
Indices: 93293840--93293888 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
93293830 TTTACCTTAT
* *
93293840 TTA TT- TTA TTA TTA TAA TCA -TA TTA -TA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
93293885 TTA T
1 TTA T
93293889 CATAGTATTC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
2 5 0.12
3 35 0.88
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:93297193 original size:91 final size:91
Alignment explanation
Indices: 93297020--93297185 Score: 199
Period size: 91 Copynumber: 1.8 Consensus size: 91
93297010 ACATGCCAAA
* * * ** *
93297020 TTGAGTAACCGAGATGAGGTGCTTAGGTTGTCGTCTCATTTCGTATCAAATTATTTGGCTATGTC
1 TTGAGTAACCAAGATGAGGTGCTTAGGTTGTCATCTCATTTCGCATCAAAAGACTTGGCTATGTC
* **
93297085 TCGAATTCGTAAAAAAAAATGTCAAG
66 ACGAATAAGTAAAAAAAAATGTCAAG
* * * *
93297111 TTGAGTAATCAAGGTGAGGTGCTTGGGTTGTCATCTCATTTCGCATCAAAAGACTT-GATCATGT
1 TTGAGTAACCAAGATGAGGTGCTTAGGTTGTCATCTCATTTCGCATCAAAAGACTTGGCT-ATGT
93297175 CACGAATAAGT
65 CACGAATAAGT
93297186 TTAAAAAATA
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
90 2 0.03
91 59 0.97
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (91 bp):
TTGAGTAACCAAGATGAGGTGCTTAGGTTGTCATCTCATTTCGCATCAAAAGACTTGGCTATGTC
ACGAATAAGTAAAAAAAAATGTCAAG
Found at i:93297659 original size:29 final size:29
Alignment explanation
Indices: 93297626--93297689 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
93297616 GGGTAGATTG
* * *
93297626 AAAGATTGAAGATTT-AAAGTTGGCTTGAT
1 AAAGATTAAAGATTTGAAA-TTGACTGGAT
93297655 AAAGATTAAAGATTTGAAATTGACTGGAT
1 AAAGATTAAAGATTTGAAATTGACTGGAT
93297684 AAAGAT
1 AAAGAT
93297690 CAAATTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 28 0.90
30 3 0.10
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (29 bp):
AAAGATTAAAGATTTGAAATTGACTGGAT
Found at i:93299565 original size:6 final size:6
Alignment explanation
Indices: 93299535--93299665 Score: 90
Period size: 6 Copynumber: 21.3 Consensus size: 6
93299525 AAGAAACATT
* *
93299535 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
93299582 GTGACAGA ATCAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAAA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
93299633 ACCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
93299666 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
5 5 0.05
6 79 0.82
7 9 0.09
8 3 0.03
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:93299591 original size:19 final size:19
Alignment explanation
Indices: 93299567--93299630 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
93299557 GAATCAGAAT
93299567 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTGA
*
93299586 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTGA
* *
93299603 TTAGAATCAGAATTAGGTGA
1 -CAGAATCAGAATCAGGTGA
93299623 CAGAATCA
1 CAGAATCA
93299631 AAACCAGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 1 0.03
18 13 0.35
19 22 0.59
20 1 0.03
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTGA
Found at i:93299594 original size:31 final size:31
Alignment explanation
Indices: 93299556--93299665 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 31
93299546 AATCAAAATG
*
93299556 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
93299587 AGAATCAGAATCAGAATTAGAATCA-G-AATT
1 AGAATCAGAATCAGAATCAGAATCAGGTAA-C
* * * *
93299617 AG-GTGACAGAATCAAAACCAGTATCAGGTAAC
1 AGAAT--CAGAATCAGAATCAGAATCAGGTAAC
93299649 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
93299666 GTGAATGCAA
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
29 2 0.03
30 3 0.05
31 50 0.82
32 3 0.05
33 3 0.05
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:93299599 original size:37 final size:37
Alignment explanation
Indices: 93299556--93299656 Score: 132
Period size: 37 Copynumber: 2.7 Consensus size: 37
93299546 AATCAAAATG
93299556 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
* *
93299593 AGAATCAGAATTAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
* * *
93299630 AAAACCAGTATCAGGTAA-CAGAATCAG
1 AGAATCAGAATCA-G-AATCAGAATCAG
93299657 AATCAGAATG
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
37 44 0.80
38 9 0.16
39 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:93299952 original size:22 final size:22
Alignment explanation
Indices: 93299921--93299982 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
93299911 CATAATAACA
*
93299921 GCACACAGCCATAATCAGGTTG
1 GCACAAAGCCATAATCAGGTTG
*
93299943 GCACAAAGCCAT-ATGTAGGTTG
1 GCACAAAGCCATAAT-CAGGTTG
**
93299965 GTGCAAAGCCATAATCAG
1 GCACAAAGCCATAATCAG
93299983 AATAATTGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (22 bp):
GCACAAAGCCATAATCAGGTTG
Found at i:93300584 original size:26 final size:27
Alignment explanation
Indices: 93300498--93300609 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 27
93300488 GGCAAAATGA
* * *
93300498 TAATTTTACCCCACAAGGGTATCTCAG
1 TAATTCTACCCTACAAGGGTATTTCAG
* *
93300525 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCAG
* *
93300552 TATTTCTACCC-ACAAGGGTATTTTAG
1 TAATTCTACCCTACAAGGGTATTTCAG
* *
93300578 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCAG
93300605 TAATT
1 TAATT
93300610 TTGTAAATCG
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
26 22 0.31
27 49 0.69
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCAG
Found at i:93302666 original size:6 final size:6
Alignment explanation
Indices: 93302636--93302748 Score: 63
Period size: 6 Copynumber: 18.3 Consensus size: 6
93302626 AAGAAATATT
* * *
93302636 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
93302685 ATCAAA ATCAGA ATTAAGCG A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATCAGA A-TCAG-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
93302735 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
93302749 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
5 5 0.06
6 62 0.77
7 10 0.12
8 3 0.04
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:93302693 original size:25 final size:25
Alignment explanation
Indices: 93302657--93302748 Score: 121
Period size: 25 Copynumber: 3.7 Consensus size: 25
93302647 AATCAAAATG
*
93302657 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGGTGAC
* * *
93302682 AGAATCAAAATCAGAATTAAGCGAC
1 AGAATCAAAATCAGAATCAGGTGAC
* * *
93302707 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGGTGAC
93302732 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
93302749 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.17
Consensus pattern (25 bp):
AGAATCAAAATCAGAATCAGGTGAC
Found at i:93303038 original size:22 final size:22
Alignment explanation
Indices: 93303004--93303065 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
93302994 CACAATAACG
*
93303004 GCACACAGCCATAATCAGGTTA
1 GCACAAAGCCATAATCAGGTTA
* * *
93303026 GCAGAAAGCCAT-ATGTAGGTTG
1 GCACAAAGCCATAAT-CAGGTTA
93303048 GCACAAAGCCATAATCAG
1 GCACAAAGCCATAATCAG
93303066 AATAATTGGC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 2 0.06
22 28 0.88
23 2 0.06
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (22 bp):
GCACAAAGCCATAATCAGGTTA
Found at i:93303609 original size:27 final size:27
Alignment explanation
Indices: 93303579--93303685 Score: 115
Period size: 27 Copynumber: 4.0 Consensus size: 27
93303569 GGGGCAAAAT
* * *
93303579 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
93303606 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
93303633 GGTATTTATACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
93303660 AATAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
93303686 TAATAATTTT
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:93308338 original size:16 final size:16
Alignment explanation
Indices: 93308317--93308348 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93308307 AAGGTACATC
93308317 TGAGATTACTTTGTTA
1 TGAGATTACTTTGTTA
*
93308333 TGAGATTATTTTGTTA
1 TGAGATTACTTTGTTA
93308349 CCTGAGTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (16 bp):
TGAGATTACTTTGTTA
Found at i:93314380 original size:21 final size:21
Alignment explanation
Indices: 93314349--93314409 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
93314339 TTTTAAAATA
93314349 TATAAA-A-TTTGATTTTTTT
1 TATAAATATTTTGATTTTTTT
93314368 TATAAATATTTTGA-TTTTTT
1 TATAAATATTTTGATTTTTTT
* * *
93314388 GAAAAATATTTTTTATTTTTTT
1 TATAAATA-TTTTGATTTTTTT
93314410 AAAATTTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 6 0.17
20 13 0.37
21 10 0.29
22 6 0.17
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
TATAAATATTTTGATTTTTTT
Found at i:93314413 original size:21 final size:20
Alignment explanation
Indices: 93314356--93314413 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
93314346 ATATATAAAA
*
93314356 TTTGATTTTTTTTATAAATAT
1 TTTGA-TTTTTTTAAAAATAT
*
93314377 TTTGATTTTTTGAAAAATATT
1 TTTGATTTTTTTAAAAATA-T
*
93314398 TTTTATTTTTTTAAAA
1 TTTGATTTTTTTAAAA
93314414 TTTTTGTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.38
21 20 0.62
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTGATTTTTTTAAAAATAT
Found at i:93329272 original size:24 final size:23
Alignment explanation
Indices: 93329243--93329287 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
93329233 TAAAATAGTA
93329243 AAAATTAAAAAATATATATTTTAG
1 AAAATTAAAAAATATA-ATTTTAG
**
93329267 AAAATTTTAAAATATAATTTT
1 AAAATTAAAAAATATAATTTT
93329288 TTAAGTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAATTAAAAAATATAATTTTAG
Found at i:93357425 original size:16 final size:17
Alignment explanation
Indices: 93357404--93357445 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
93357394 GGTTCATTGG
93357404 AATGGAATAAGAT-TAT
1 AATGGAATAAGATCTAT
*
93357420 AATGGAAT-AGATCTGT
1 AATGGAATAAGATCTAT
93357436 AATGGAATAA
1 AATGGAATAA
93357446 AGCTGTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 18 0.78
17 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (17 bp):
AATGGAATAAGATCTAT
Found at i:93357451 original size:16 final size:16
Alignment explanation
Indices: 93357419--93357454 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
93357409 AATAAGATTA
* *
93357419 TAATGGAATAGATCTG
1 TAATGGAATAAAGCTG
93357435 TAATGGAATAAAGCTG
1 TAATGGAATAAAGCTG
93357451 TAAT
1 TAAT
93357455 CAATCATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (16 bp):
TAATGGAATAAAGCTG
Found at i:93358474 original size:9 final size:10
Alignment explanation
Indices: 93358433--93358474 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
93358423 TTATACATAT
93358433 ATATTTATAA
1 ATATTTATAA
93358443 ATATTTATAA
1 ATATTTATAA
93358453 ATA-TTA-AA
1 ATATTTATAA
93358461 TATATTT-TAA
1 -ATATTTATAA
93358471 ATAT
1 ATAT
93358475 AAATTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 2 0.07
9 10 0.34
10 17 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATTTATAA
Found at i:93358493 original size:18 final size:17
Alignment explanation
Indices: 93358438--93358485 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
93358428 CATATATATT
93358438 TATAAA-TATTTATAAA
1 TATAAATTATTTATAAA
93358454 TATTAAATATATTT-TAAA
1 TA-TAAAT-TATTTATAAA
93358472 TATAAATTATTTAT
1 TATAAATTATTTAT
93358486 CAATTATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.25
17 10 0.36
18 6 0.21
19 5 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATAAATTATTTATAAA
Found at i:93365105 original size:27 final size:26
Alignment explanation
Indices: 93365060--93365119 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
93365050 CCAATTTATC
93365060 TAAAAATAAATTTTATTAT-TGAAAAA
1 TAAAAATAAATTTTATTATAT-AAAAA
*
93365086 TTAAAAATAACGTTTT-TTATATAAAAA
1 -TAAAAATAA-ATTTTATTATATAAAAA
93365113 TAAAAAT
1 TAAAAAT
93365120 TTATTTATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 7 0.23
27 18 0.60
28 5 0.17
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (26 bp):
TAAAAATAAATTTTATTATATAAAAA
Found at i:93365553 original size:10 final size:9
Alignment explanation
Indices: 93365514--93365619 Score: 56
Period size: 10 Copynumber: 11.4 Consensus size: 9
93365504 TATGTGGCCA
93365514 AAAAATTAT
1 AAAAATTAT
93365523 AAAAA--AT
1 AAAAATTAT
*
93365530 AAAAATCAAT
1 AAAAAT-TAT
*
93365540 AAAAGTTAT
1 AAAAATTAT
93365549 AAAAATTATT
1 AAAAATTA-T
**
93365559 AAATTTTAAT
1 AAAAATT-AT
93365569 AAAAA-TAT
1 AAAAATTAT
*
93365577 AAAAAGTATT
1 AAAAATTA-T
* * *
93365587 TATATTTATT
1 AAAAATTA-T
*
93365597 AAAAATAAAT
1 AAAAAT-TAT
93365607 AAAAATTAT
1 AAAAATTAT
93365616 AAAA
1 AAAA
93365620 TGCATCAAAA
Statistics
Matches: 73, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
7 7 0.10
8 7 0.10
9 23 0.32
10 34 0.47
11 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:93365561 original size:19 final size:20
Alignment explanation
Indices: 93365527--93365619 Score: 59
Period size: 19 Copynumber: 4.8 Consensus size: 20
93365517 AATTATAAAA
* *
93365527 AATAAAAATCAATAAAAGTT
1 AATAAAAATTATTAAAAGTT
**
93365547 -ATAAAAATTATTAAATTTT
1 AATAAAAATTATTAAAAGTT
*
93365566 AATAAAAA-TATAAAAAG-T
1 AATAAAAATTATTAAAAGTT
* * * * * *
93365584 ATTTATATTTATTAAAAATA
1 AATAAAAATTATTAAAAGTT
93365604 AATAAAAATTA-TAAAA
1 AATAAAAATTATTAAAA
93365620 TGCATCAAAA
Statistics
Matches: 52, Mismatches: 18, Indels: 7
0.68 0.23 0.09
Matches are distributed among these distances:
18 5 0.10
19 33 0.63
20 14 0.27
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (20 bp):
AATAAAAATTATTAAAAGTT
Found at i:93365586 original size:28 final size:28
Alignment explanation
Indices: 93365537--93365603 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
93365527 AATAAAAATC
* *
93365537 AATAAAAGTTATAAAAATTATTAA-ATTTT
1 AATAAAA-ATATAAAAAGTATTAATA-TTT
*
93365566 AATAAAAATATAAAAAGTATTTATATTT
1 AATAAAAATATAAAAAGTATTAATATTT
*
93365594 ATTAAAAATA
1 AATAAAAATA
93365604 AATAAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 25 0.76
29 8 0.24
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (28 bp):
AATAAAAATATAAAAAGTATTAATATTT
Found at i:93365824 original size:10 final size:10
Alignment explanation
Indices: 93365805--93365991 Score: 67
Period size: 10 Copynumber: 19.2 Consensus size: 10
93365795 TTTTAGTATG
93365805 ATAA-TTTTT
1 ATAATTTTTT
93365814 ATAATTTTTT
1 ATAATTTTTT
*
93365824 ACGAA--TTTT
1 A-TAATTTTTT
93365833 AT-ATTTCTTT
1 ATAATTT-TTT
93365843 AT-ATTTTTT
1 ATAATTTTTT
*
93365852 ATAATTTGTT
1 ATAATTTTTT
** *
93365862 ACGA--CTTT
1 ATAATTTTTT
**
93365870 ATAAAATTTT
1 ATAATTTTTT
93365880 ATAATTTTTT
1 ATAATTTTTT
* *
93365890 -TCTATATTTCT
1 AT-AAT-TTTTT
*
93365901 AT-ATATTTT
1 ATAATTTTTT
93365910 ATAATTTTTT
1 ATAATTTTTT
**
93365920 ACGA--TTTT
1 ATAATTTTTT
**
93365928 ATAAAATTTT
1 ATAATTTTTT
93365938 ATAATTTTTT
1 ATAATTTTTT
93365948 -TGCAATTTTTT
1 AT--AATTTTTT
*
93365959 ATAATTTTTA
1 ATAATTTTTT
*
93365969 ATAAAATTTTT
1 AT-AATTTTTT
93365980 A-ATATTTTTT
1 ATA-ATTTTTT
93365990 AT
1 AT
93365992 TTTTATATAA
Statistics
Matches: 131, Mismatches: 27, Indels: 38
0.67 0.14 0.19
Matches are distributed among these distances:
7 1 0.01
8 10 0.08
9 23 0.18
10 74 0.56
11 21 0.16
12 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:93365834 original size:19 final size:19
Alignment explanation
Indices: 93365810--93365879 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
93365800 GTATGATAAT
93365810 TTTTATAATTTTTTACGAA
1 TTTTATAATTTTTTACGAA
* *
93365829 TTTTAT-ATTTCTTTA-TATT
1 TTTTATAATTT-TTTACGA-A
* *
93365848 TTTTATAATTTGTTACGAC
1 TTTTATAATTTTTTACGAA
*
93365867 TTTATAAAATTTT
1 TTT-TATAATTTT
93365880 ATAATTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
18 5 0.13
19 22 0.56
20 12 0.31
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAA
Found at i:93365879 original size:28 final size:28
Alignment explanation
Indices: 93365848--93365947 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
93365838 TCTTTATATT
* *
93365848 TTTTATAATTTGTTACGACTTTATAAAA
1 TTTTATAATTTTTTACGAATTTATAAAA
* * * *
93365876 TTTTATAATTTTTTTCTATATTTCTATATA
1 TTTTATAATTTTTTACGA-ATTTATA-AAA
*
93365906 TTTTATAATTTTTTACGATTTTATAAAA
1 TTTTATAATTTTTTACGAATTTATAAAA
93365934 TTTTATAATTTTTT
1 TTTTATAATTTTTT
93365948 TGCAATTTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
28 31 0.53
29 10 0.17
30 18 0.31
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTTATAATTTTTTACGAATTTATAAAA
Found at i:93365887 original size:38 final size:37
Alignment explanation
Indices: 93365805--93365889 Score: 93
Period size: 38 Copynumber: 2.3 Consensus size: 37
93365795 TTTTAGTATG
* *
93365805 ATAA-TTTTTATAATTTTTTACGAATTTTATATTTCT
1 ATAATTTTTTATAATTTGTTACGAATTTTAAATTTCT
* *
93365841 TTATATTTTTTATAATTTGTTACGACTTTATAAAATTT-T
1 ATA-ATTTTTTATAATTTGTTACGAATTT-T-AAATTTCT
93365880 ATAATTTTTT
1 ATAATTTTTT
93365890 TCTATATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
36 2 0.05
37 1 0.03
38 28 0.70
39 4 0.10
40 5 0.12
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.61
Consensus pattern (37 bp):
ATAATTTTTTATAATTTGTTACGAATTTTAAATTTCT
Found at i:93365911 original size:58 final size:59
Alignment explanation
Indices: 93365832--93365948 Score: 191
Period size: 58 Copynumber: 2.0 Consensus size: 59
93365822 TTACGAATTT
*
93365832 TATATTTCTTTATATTTTTTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTTC
1 TATATTTC-TTATATATTTTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTTC
* *
93365892 TATATTTC-TATATATTTTATAATTTTTTACGATTTTATAAAATTTTATAATTTTTTT
1 TATATTTCTTATATATTTTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTT
93365949 GCAATTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
58 46 0.85
60 8 0.15
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (59 bp):
TATATTTCTTATATATTTTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTTC
Found at i:93365968 original size:30 final size:29
Alignment explanation
Indices: 93365867--93365991 Score: 108
Period size: 30 Copynumber: 4.2 Consensus size: 29
93365857 TTGTTACGAC
*
93365867 TTTATAAAATTTTATAATTTTTTTCTATATT
1 TTTAT-AAATTTTATAATTTTTTTCAAT-TT
* * * *
93365898 TCTATATATTTTATAATTTTTTACGATTT
1 TTTATAAATTTTATAATTTTTTTCAATTT
*
93365927 TATA-AAATTTTATAATTTTTTTGCAATTT
1 TTTATAAATTTTATAATTTTTTT-CAATTT
* ** *
93365956 TTTATAATTTTTAATAAAATTTTTAATATTT
1 TTTATAAATTTT-ATAATTTTTTTCA-ATTT
93365987 TTTAT
1 TTTAT
93365992 TTTTATATAA
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
28 16 0.21
29 13 0.17
30 26 0.34
31 22 0.29
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTATAAATTTTATAATTTTTTTCAATTT
Found at i:93365968 original size:58 final size:57
Alignment explanation
Indices: 93365835--93365968 Score: 180
Period size: 58 Copynumber: 2.3 Consensus size: 57
93365825 CGAATTTTAT
* *
93365835 ATTTCTTTATATTTTTTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTTCT
1 ATTT-TTTATAATTTTTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTTCA
* * *
93365893 ATATTTCTAT-ATATTTTATAATTTTTTACGATTTTATAAAATTTTATAATTTTTTTGCA
1 AT-TTTTTATAAT-TTTTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTT-CA
93365952 ATTTTTTATAATTTTTA
1 ATTTTTTATAATTTTTA
93365969 ATAAAATTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
57 1 0.02
58 58 0.88
59 7 0.11
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (57 bp):
ATTTTTTATAATTTTTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTTCA
Found at i:93365978 original size:21 final size:20
Alignment explanation
Indices: 93365867--93365991 Score: 71
Period size: 21 Copynumber: 6.2 Consensus size: 20
93365857 TTGTTACGAC
93365867 TTTATAAAA-TTTTATAATT
1 TTTATAAAATTTTTATAATT
* * * *
93365886 TTTTTCTATATTTCTAT-ATAT
1 TTTAT-AAAATTTTTATAAT-T
* **
93365907 TTTAT-AATTTTTTACGA-T
1 TTTATAAAATTTTTATAATT
93365925 TTTATAAAA-TTTTATAATT
1 TTTATAAAATTTTTATAATT
* * *
93365944 TTTTTGCAATTTTTTATAATT
1 TTTAT-AAAATTTTTATAATT
*
93365965 TTTAATAAAATTTTTAATATTT
1 TTT-ATAAAATTTTT-ATAATT
93365987 TTTAT
1 TTTAT
93365992 TTTTATATAA
Statistics
Matches: 77, Mismatches: 19, Indels: 18
0.68 0.17 0.16
Matches are distributed among these distances:
18 12 0.16
19 17 0.22
20 7 0.09
21 32 0.42
22 9 0.12
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTATAAAATTTTTATAATT
Found at i:93366026 original size:15 final size:16
Alignment explanation
Indices: 93365986--93366036 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
93365976 TTTTAATATT
93365986 TTTTATTTTTATATAA
1 TTTTATTTTTATATAA
* *
93366002 ATATATTTTT-TATAAA
1 TTTTATTTTTATAT-AA
*
93366018 TTTTATTTTT-TATCA
1 TTTTATTTTTATATAA
93366033 TTTT
1 TTTT
93366037 TGTCACATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATTTTTATATAA
Found at i:93366037 original size:16 final size:16
Alignment explanation
Indices: 93365986--93366030 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
93365976 TTTTAATATT
93365986 TTTTATTTTTATATAAA
1 TTTTATTTTT-TATAAA
*
93366003 -TATATTTTTTATAAA
1 TTTTATTTTTTATAAA
93366018 TTTTATTTTTTAT
1 TTTTATTTTTTAT
93366031 CATTTTTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATTTTTTATAAA
Found at i:93373410 original size:18 final size:20
Alignment explanation
Indices: 93373374--93373411 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
93373364 TCAAGTCCGT
*
93373374 CTAACATAGAGGAGTCCTTG
1 CTAACATAGAGGAGACCTTG
93373394 CTAACA-AG-GGAGACCTTG
1 CTAACATAGAGGAGACCTTG
93373412 ATAAGATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (20 bp):
CTAACATAGAGGAGACCTTG
Found at i:93378345 original size:29 final size:29
Alignment explanation
Indices: 93378312--93378370 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
93378302 TAAGCATGTC
93378312 TTAGTTATGATTAACTTCTTTTATAGATG
1 TTAGTTATGATTAACTTCTTTTATAGATG
93378341 TTAGTTATGATTAACTTCTTTTATAGATG
1 TTAGTTATGATTAACTTCTTTTATAGATG
93378370 T
1 T
93378371 CTTGCATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.53
Consensus pattern (29 bp):
TTAGTTATGATTAACTTCTTTTATAGATG
Found at i:93385533 original size:28 final size:28
Alignment explanation
Indices: 93385500--93385579 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 28
93385490 GTACTTTTAT
93385500 AAAATGTTTAATGTGGTACCCTACTTTG
1 AAAATGTTTAATGTGGTACCCTACTTTG
** ** *
93385528 AAAATGTCCAATGTGGTACTTATATTTTG
1 AAAATGTTTAATGTGGTAC-CCTACTTTG
93385557 AAAATGTTTAATGTGGTACCCTA
1 AAAATGTTTAATGTGGTACCCTA
93385580 ACTATCAATC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 19 0.45
29 23 0.55
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (28 bp):
AAAATGTTTAATGTGGTACCCTACTTTG
Found at i:93386235 original size:62 final size:62
Alignment explanation
Indices: 93386133--93386287 Score: 181
Period size: 62 Copynumber: 2.5 Consensus size: 62
93386123 CAAAGTATAA
* * * *
93386133 GTACCACATTAGACAATTTATGAAAGTACAAGGACTAAATAATACACAAATTGA-TAGTTCAG
1 GTACCACATTGGACATTTTATGAAAATACAAAGACTAAATAATACACAAATT-ACTAGTTCAG
* *
93386195 GTACCACATTGGACATTTTATGAAAATACAAATAGC-AAATAATATACAAATTACTAGTTCAG
1 GTACCACATTGGACATTTTATGAAAATACAAAGA-CTAAATAATACACAAATTACTAGTTCAG
* * *
93386257 GTATCAAATTGAACATTTTAT-AAAAGTACAA
1 GTACCACATTGGACATTTTATGAAAA-TACAA
93386288 GTAACAAAAG
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
61 5 0.06
62 75 0.93
63 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (62 bp):
GTACCACATTGGACATTTTATGAAAATACAAAGACTAAATAATACACAAATTACTAGTTCAG
Found at i:93386357 original size:27 final size:27
Alignment explanation
Indices: 93386304--93386362 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
93386294 AAAGTGACAT
* **
93386304 TACCCCTTTTAAAAACAAAAACCATCC
1 TACCCATTTTAAAAACAAAAAAAATCC
93386331 TACCCATTTTCAAAAA-AAAAAAAATCC
1 TACCCATTTT-AAAAACAAAAAAAATCC
*
93386358 AACCC
1 TACCC
93386363 TATAAATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (27 bp):
TACCCATTTTAAAAACAAAAAAAATCC
Found at i:93391865 original size:20 final size:17
Alignment explanation
Indices: 93391810--93391869 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 17
93391800 ATCCAAGTCA
* *
93391810 AATAAAAAAATTAAAAT
1 AATAAATAAATAAAAAT
93391827 AAATAAATAAATAAAAAT
1 -AATAAATAAATAAAAAT
93391845 AATAAATCAAATATAAGAAT
1 AATAAAT-AAATA-AA-AAT
93391865 AATAA
1 AATAA
93391870 GGAAGCGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.19
18 20 0.54
19 2 0.05
20 8 0.22
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (17 bp):
AATAAATAAATAAAAAT
Found at i:93394755 original size:25 final size:24
Alignment explanation
Indices: 93394721--93394783 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
93394711 GGTTATGCGA
93394721 CACTATGTGTGC-A-AAAACTACATGG
1 CACTATGTGTGCGAGAAAAC-AC--GG
*
93394746 CACTATGTGTGCGAGGAAACACGG
1 CACTATGTGTGCGAGAAAACACGG
93394770 CACTATGTGTGCGA
1 CACTATGTGTGCGA
93394784 ATGAGTAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
24 16 0.46
25 12 0.34
26 3 0.09
27 4 0.11
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (24 bp):
CACTATGTGTGCGAGAAAACACGG
Found at i:93397032 original size:46 final size:45
Alignment explanation
Indices: 93396979--93397154 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
93396969 TATTTGGGCA
* *
93396979 TCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGGATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-GAAG
*** * *
93397025 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
93397072 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
93397118 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93397155 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 32 0.30
48 2 0.02
49 1 0.01
50 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:93397134 original size:93 final size:93
Alignment explanation
Indices: 93396975--93397147 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
93396965 GGGATATTTG
* * *
93396975 GGCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGGATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
93397040 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
93397068 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
93397133 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
93397148 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:93401968 original size:51 final size:51
Alignment explanation
Indices: 93401905--93402024 Score: 168
Period size: 51 Copynumber: 2.4 Consensus size: 51
93401895 AACTATGTTA
* *
93401905 TCCGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAGTAATTAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAGTAATAAT
* * * * *
93401956 TCCGGATGAAATATGATGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAGTAATAAT
*
93402007 TCCGGATGAAGTATGAAG
1 TCCGGATGAAATATGAAG
93402025 TAAGTTTGAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAGTAATAAT
Found at i:93407973 original size:45 final size:45
Alignment explanation
Indices: 93407924--93408012 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
93407914 AGATGAAACT
*
93407924 TGCCACT-GAGCTGTGGGTGCA-ATGCAAAATATCACAAATAAAATC
1 TGCCACTAG-GCTATGGGTGCACA-GCAAAATATCACAAATAAAATC
* *
93407969 TGCCACTAGGCTATGGGTGCACAGCAAAATATCATAGATAAAAT
1 TGCCACTAGGCTATGGGTGCACAGCAAAATATCACAAATAAAAT
93408013 ATATCACTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
45 37 0.95
46 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (45 bp):
TGCCACTAGGCTATGGGTGCACAGCAAAATATCACAAATAAAATC
Found at i:93408027 original size:45 final size:45
Alignment explanation
Indices: 93407926--93408036 Score: 109
Period size: 45 Copynumber: 2.4 Consensus size: 45
93407916 ATGAAACTTG
* * *
93407926 CCACTGAGCTGTGGGTGCA-ATGCAAAATATCACAAATAAAATCTG
1 CCACTG-GCTATGGGTGCACATGCAAAATATCACAAATAAAATATA
* *
93407971 CCACTAGGCTATGGGTGCACA-GCAAAATATCATAGATAAAATATA
1 CCACT-GGCTATGGGTGCACATGCAAAATATCACAAATAAAATATA
* * *
93408016 TCACTGTGCTATAGATGCACA
1 CCACTG-GCTATGGGTGCACA
93408037 ATATATTTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
44 1 0.02
45 52 0.95
46 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (45 bp):
CCACTGGCTATGGGTGCACATGCAAAATATCACAAATAAAATATA
Found at i:93408272 original size:34 final size:34
Alignment explanation
Indices: 93408223--93408308 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
93408213 TTAATATGAT
* * *
93408223 ACAATTTAATTATGCTTTTAACAGGACAATACGGTA
1 ACAA-TTAA-TATGCTTATAACAAGACAATACAGTA
**
93408259 ACAATTAATATGCTTATAACAATTCAATACAGTA
1 ACAATTAATATGCTTATAACAAGACAATACAGTA
* *
93408293 GCAAATAATATGCTTA
1 ACAATTAATATGCTTA
93408309 AAATAGATCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 35 0.81
35 4 0.09
36 4 0.09
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (34 bp):
ACAATTAATATGCTTATAACAAGACAATACAGTA
Found at i:93409301 original size:15 final size:16
Alignment explanation
Indices: 93409269--93409303 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
93409259 TGGTGTAAAG
93409269 AAAAGAGAATGAAAATA
1 AAAAGAGAAT-AAAATA
93409286 AAAAGAGAAT-AAATA
1 AAAAGAGAATAAAATA
93409301 AAA
1 AAA
93409304 GGATGAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
17 10 0.56
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (16 bp):
AAAAGAGAATAAAATA
Found at i:93415518 original size:14 final size:14
Alignment explanation
Indices: 93415499--93415525 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93415489 AATCACCCCA
93415499 ATTTTATTTTACTT
1 ATTTTATTTTACTT
93415513 ATTTTATTTTACT
1 ATTTTATTTTACT
93415526 AATTAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTATTTTACTT
Found at i:93415580 original size:8 final size:8
Alignment explanation
Indices: 93415555--93415607 Score: 65
Period size: 8 Copynumber: 6.8 Consensus size: 8
93415545 TATCTAATAC
93415555 TTATACTTT
1 TTATA-TTT
* *
93415564 TAATTTTT
1 TTATATTT
93415572 TTATATTT
1 TTATATTT
93415580 TTATATTT
1 TTATATTT
93415588 TTATA-TT
1 TTATATTT
93415595 TTAT-TTT
1 TTATATTT
93415602 TTATAT
1 TTATAT
93415608 ACATTTATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
7 12 0.32
8 23 0.61
9 3 0.08
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATATTT
Found at i:93415588 original size:16 final size:15
Alignment explanation
Indices: 93415568--93415632 Score: 71
Period size: 15 Copynumber: 4.2 Consensus size: 15
93415558 TACTTTTAAT
93415568 TTTTTTATATTTTTA
1 TTTTTTATATTTTTA
93415583 TATTTTTATA-TTTTA
1 T-TTTTTATATTTTTA
*
93415598 TTTTTTATATACATTTA
1 TTTTTTATAT--TTTTA
93415615 TTATTTT-TATTTTTA
1 TT-TTTTATATTTTTA
93415630 TTT
1 TTT
93415633 AGCTATTTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
14 9 0.21
15 13 0.30
16 8 0.19
17 9 0.21
18 4 0.09
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTTATATTTTTA
Found at i:93415603 original size:32 final size:33
Alignment explanation
Indices: 93415555--93415632 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 33
93415545 TATCTAATAC
**
93415555 TTATACTTTTAATTTTTT-TATATTTTTA-TATTT
1 TTATA-TTTT-ATTTTTTATATACATTTATTATTT
93415588 TTATATTTTATTTTTTATATACATTTATTATTT
1 TTATATTTTATTTTTTATATACATTTATTATTT
93415621 TTAT-TTTTATTT
1 TTATATTTTATTT
93415633 AGCTATTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
31 7 0.17
32 20 0.49
33 14 0.34
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (33 bp):
TTATATTTTATTTTTTATATACATTTATTATTT
Found at i:93415653 original size:8 final size:8
Alignment explanation
Indices: 93415561--93415657 Score: 52
Period size: 8 Copynumber: 11.5 Consensus size: 8
93415551 ATACTTATAC
*
93415561 TTTTAATT
1 TTTTTATT
*
93415569 TTTTTATA
1 TTTTTATT
*
93415577 TTTTTATA
1 TTTTTATT
93415585 TTTTTA-T
1 TTTTTATT
*
93415592 ATTTTATT
1 TTTTTATT
*
93415600 TTTTATATA
1 TTTT-TATT
**
93415609 CATTTATT
1 TTTTTATT
93415617 ATTTTTATTT
1 -TTTTTA-TT
*
93415627 TTATTTAGCTA
1 TT-TTTA--TT
*
93415638 TTTCTATT
1 TTTTTATT
93415646 TTTTTATT
1 TTTTTATT
93415654 TTTT
1 TTTT
93415658 CTTTCGTATT
Statistics
Matches: 67, Mismatches: 16, Indels: 12
0.71 0.17 0.13
Matches are distributed among these distances:
7 5 0.07
8 39 0.58
9 11 0.16
10 9 0.13
11 3 0.04
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (8 bp):
TTTTTATT
Found at i:93416651 original size:22 final size:22
Alignment explanation
Indices: 93416605--93416651 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
93416595 TATTAGATAT
**
93416605 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
93416627 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
93416649 TAA
1 TAA
93416652 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:93416920 original size:21 final size:21
Alignment explanation
Indices: 93416874--93416913 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
93416864 GCAGGGGAAG
93416874 GAAAGAAAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
93416895 GAAAG-AAGAAAAAG-GAAAA
1 GAAAGAAAGAAAAAGAGAAAA
93416914 ATTAAAGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAAAAGAGAAAA
Found at i:93418664 original size:23 final size:23
Alignment explanation
Indices: 93418632--93418676 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
93418622 CGAAATACAG
*
93418632 CTCTTCGTGAGCTTCCCGATAGA
1 CTCTTCGTGAGCCTCCCGATAGA
*
93418655 CTCTTTGTGAGCCTCCCGATAG
1 CTCTTCGTGAGCCTCCCGATAG
93418677 TGCTCGCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.31, G:0.22, T:0.31
Consensus pattern (23 bp):
CTCTTCGTGAGCCTCCCGATAGA
Found at i:93421510 original size:30 final size:30
Alignment explanation
Indices: 93421474--93421531 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
93421464 CCTGAGCATT
*
93421474 TCCACACGGGCTGGCCACACGCCCATGTGA
1 TCCACACGGGCTAGCCACACGCCCATGTGA
*
93421504 TCCACACGGGCTAGCCACACGCCTATGT
1 TCCACACGGGCTAGCCACACGCCCATGT
93421532 ACCCGTTCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.40, G:0.24, T:0.16
Consensus pattern (30 bp):
TCCACACGGGCTAGCCACACGCCCATGTGA
Found at i:93424151 original size:20 final size:21
Alignment explanation
Indices: 93424116--93424154 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
93424106 ATGGTATATA
93424116 TAATTAACTAGTTAATCAACT
1 TAATTAACTAGTTAATCAACT
*
93424137 TAATTAA-TTGTTAATCAA
1 TAATTAACTAGTTAATCAA
93424155 ATGGATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (21 bp):
TAATTAACTAGTTAATCAACT
Found at i:93436009 original size:45 final size:46
Alignment explanation
Indices: 93435941--93436031 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
93435931 GAATTTAGAG
* *
93435941 AACTAAGTTGGGTATCACTACCATGAATTCGTCAACCATTGGGCTT
1 AACTAAGTTGGGTATCACCACCATGAATTCCTCAACCATTGGGCTT
*
93435987 AACTACGTT-GGTATCACCACCATGAATTCCTCAACCATTGGGCTT
1 AACTAAGTTGGGTATCACCACCATGAATTCCTCAACCATTGGGCTT
93436032 TAAGACTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 34 0.81
46 8 0.19
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (46 bp):
AACTAAGTTGGGTATCACCACCATGAATTCCTCAACCATTGGGCTT
Found at i:93436932 original size:46 final size:46
Alignment explanation
Indices: 93436862--93437266 Score: 564
Period size: 46 Copynumber: 8.8 Consensus size: 46
93436852 TTTGAGATGA
* * * * ** *
93436862 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
* * * *
93436908 TTCCATGGTATCTTTCAGCCATGGTCTTGTTCATTTCATGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
*
93436954 TGCCATGGTATCTTTCAACCACGGTCTTATTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
*
93437000 TGCCATGGTATCTTTCAACCGTGGTCTTATTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
* * *
93437046 TGCCATGGTATCTTTCAACCGTGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
*
93437092 TGCCATGGTATCTTTCAACCATGGTTTTATTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCATGT
** **
93437138 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATAA
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
*
93437184 TGCCATGGTATCTTTCAACCATGGTCTCA--CATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
**
93437228 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
93437267 TTTAGAAAGC
Statistics
Matches: 324, Mismatches: 31, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
44 41 0.13
45 4 0.01
46 275 0.85
47 4 0.01
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
Found at i:93440973 original size:26 final size:26
Alignment explanation
Indices: 93440939--93441024 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 26
93440929 ATCCACTCAT
93440939 GGTCCTCTG-CCTAACTCAAACTCAAA
1 GGTCCTCTGACC-AACTCAAACTCAAA
* *
93440965 GGTCTTCTGACCAACTCAAGCTC-AA
1 GGTCCTCTGACCAACTCAAACTCAAA
* * * *
93440990 TGACCTTCGGACCCACTCAAACTCAAA
1 GGTCC-TCTGACCAACTCAAACTCAAA
*
93441017 GGACCTCT
1 GGTCCTCT
93441025 AACCCATCTC
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
25 4 0.09
26 35 0.74
27 8 0.17
ACGTcount: A:0.29, C:0.35, G:0.14, T:0.22
Consensus pattern (26 bp):
GGTCCTCTGACCAACTCAAACTCAAA
Found at i:93441029 original size:26 final size:26
Alignment explanation
Indices: 93440952--93441030 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
93440942 CCTCTGCCTA
* * *
93440952 ACTCAAACTCAAAGGTCTTCTGACCA
1 ACTCAAACTCAAAGGACCTCTGACCC
* * *
93440978 ACTCAAGCTC-AATGACCTTCGGACCC
1 ACTCAAACTCAAAGGACC-TCTGACCC
*
93441004 ACTCAAACTCAAAGGACCTCTAACCC
1 ACTCAAACTCAAAGGACCTCTGACCC
93441030 A
1 A
93441031 TCTCGACTCA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
25 4 0.10
26 31 0.76
27 6 0.15
ACGTcount: A:0.34, C:0.35, G:0.11, T:0.19
Consensus pattern (26 bp):
ACTCAAACTCAAAGGACCTCTGACCC
Found at i:93442074 original size:19 final size:19
Alignment explanation
Indices: 93442052--93442089 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
93442042 AAGCTAATAA
93442052 AAATCTAGTTAAAT-AATTG
1 AAAT-TAGTTAAATGAATTG
*
93442071 AAATTTGTTAAATGAATTG
1 AAATTAGTTAAATGAATTG
93442090 TACAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (19 bp):
AAATTAGTTAAATGAATTG
Found at i:93444035 original size:28 final size:29
Alignment explanation
Indices: 93444003--93444058 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
93443993 TTACCTAAAT
93444003 AATAT-AAAAA-ATAATTAATTACGAAAAA
1 AATATAAAAAACATAA-TAATTACGAAAAA
93444031 AATATAAAAAACATAATAATTACGAAAA
1 AATATAAAAAACATAATAATTACGAAAA
93444059 TAAGTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 5 0.19
29 17 0.65
30 4 0.15
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.23
Consensus pattern (29 bp):
AATATAAAAAACATAATAATTACGAAAAA
Found at i:93444968 original size:27 final size:28
Alignment explanation
Indices: 93444916--93444968 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
93444906 CAAATGACTA
*
93444916 TTTTTGTAATTATTCTATTTTCTATACC
1 TTTTTGTAATTAATCTATTTTCTATACC
93444944 TTTTTCGTAATTAAT-TATTTT-TATA
1 TTTTT-GTAATTAATCTATTTTCTATA
93444969 TTATTTGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 11 0.48
29 8 0.35
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (28 bp):
TTTTTGTAATTAATCTATTTTCTATACC
Found at i:93446493 original size:42 final size:42
Alignment explanation
Indices: 93446417--93446517 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
93446407 CTCGATTTGA
*** *
93446417 GATTTACGTGTAAGACTATGTCTGGGACATAGGCATC-ATATCT
1 GATTT-CGTGTAAGACTATGTCTAAAACAGAGGCATCGATA-CT
*
93446460 GATTTCGTGTAAGACTTTGTCTAAAACAGAGGCATCGATACT
1 GATTTCGTGTAAGACTATGTCTAAAACAGAGGCATCGATACT
* *
93446502 GAATTACATGTAAGAC
1 G-ATTTCGTGTAAGAC
93446518 CACGTCCGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
42 29 0.59
43 20 0.41
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (42 bp):
GATTTCGTGTAAGACTATGTCTAAAACAGAGGCATCGATACT
Found at i:93454018 original size:42 final size:43
Alignment explanation
Indices: 93453971--93454084 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
93453961 TGAGATTTAT
* *
93453971 GTGTAAGACCATGTCTGGGACATAGGCATCG-TATCT-GATTTC
1 GTGTAAGACCATGTCTGGGACATAGGCATCGATA-CTAAATTAC
* * *
93454013 GTGTAAGACCCTATCTGGGACAGAGGCATCGATACTAAATTAC
1 GTGTAAGACCATGTCTGGGACATAGGCATCGATACTAAATTAC
* * * *
93454056 ATGTAAGACCACGTCCGGGACATCGGCAT
1 GTGTAAGACCATGTCTGGGACATAGGCAT
93454085 TGTGCCCGTT
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 30 0.52
43 28 0.48
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATAGGCATCGATACTAAATTAC
Found at i:93459196 original size:3 final size:3
Alignment explanation
Indices: 93459183--93459286 Score: 72
Period size: 3 Copynumber: 34.0 Consensus size: 3
93459173 ATTCTGTTTT
* * *
93459183 TTA TTA TTTA TTA TTA TTA -TG TTA TTTA TTG TTA TTA TTA -TA TTT
1 TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* *
93459228 TTGCA -TA TATA ATA TT- TATA TTA TTA CTA TTA TTA TTA TTA TTA TTA
1 TT--A TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
93459275 TTA TCA TTA TTA
1 TTA TTA TTA TTA
93459287 GTATATTTCT
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
2 5 0.06
3 64 0.81
4 10 0.13
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:93459564 original size:19 final size:19
Alignment explanation
Indices: 93459540--93459577 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
93459530 TACTATTTTA
*
93459540 TGTATATTTCTAATATCAT
1 TGTATATTTCTAACATCAT
93459559 TGTATATTTCTAACATCAT
1 TGTATATTTCTAACATCAT
93459578 CATTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (19 bp):
TGTATATTTCTAACATCAT
Found at i:93459998 original size:26 final size:28
Alignment explanation
Indices: 93459950--93460005 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
93459940 ATTATACCTA
*
93459950 TTATTTTCACTATTATCACGTAT-TATT
1 TTATTTTCAATATTATCACGTATATATT
* *
93459977 TTATTTT-AATATTATTATGTATATATT
1 TTATTTTCAATATTATCACGTATATATT
93460004 TT
1 TT
93460006 TCATATATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.61
Consensus pattern (28 bp):
TTATTTTCAATATTATCACGTATATATT
Found at i:93466246 original size:27 final size:27
Alignment explanation
Indices: 93466198--93466356 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
93466188 GCTAGGCTGC
* *
93466198 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
93466225 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
93466251 CAGATATATGTGACAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
93466278 CAAATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
93466305 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
93466332 CAGATAATTGTGGTATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
93466357 GACGCTTCCT
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
26 10 0.09
27 95 0.86
28 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Done.