Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 38 of 182
Found at i:12184939 original size:27 final size:27
Alignment explanation
Indices: 12184900--12184952 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
12184890 AAAAAAATAA
**
12184900 AAAAAAAGGAAAAA-ATTAAAGAAAAAG
1 AAAAAAA-GAAAAAGAAAAAAGAAAAAG
12184927 AAAAAAAGAAAAAGAAAAAAGAAAAA
1 AAAAAAAGAAAAAGAAAAAAGAAAAA
12184953 AATGGAGAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (27 bp):
AAAAAAAGAAAAAGAAAAAAGAAAAAG
Found at i:12186043 original size:84 final size:84
Alignment explanation
Indices: 12185902--12186772 Score: 1334
Period size: 84 Copynumber: 10.4 Consensus size: 84
12185892 CAAAATTCAG
12185902 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
12185967 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * * *
12185986 CGCCTTAATCCTCTAAGCGGGAGGGTAACAGGTTAAATTTGCAAATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
12186051 GTGGAGCATATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * * *
12186070 CGCTTTAATTCCCTAAGCAGTAGGGTAACAGG-----TTCGTAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
12186130 GCGGAGCAGATCGACGATGACT
66 GTGGAGCAGATCGA--A-GACT
12186152 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
12186217 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
12186236 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
12186301 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
12186320 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
12186385 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
12186404 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
12186469 GTGGAGCAGATCGAAGACC
66 GTGGAGCAGATCGAAGACT
* * *
12186488 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGG-----TTCGCAAATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
12186548 GCGGAGCAGATCGACGACGACT
66 GTGGAGCAGATCGA--A-GACT
* * * *
12186570 TGCCTTAATCCCCTAAGCAATAGGGTAATAGGTTAAATTTGAAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
12186635 GTGGAGCAGATTGAAGACT
66 GTGGAGCAGATCGAAGACT
* * *
12186654 CGCATTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTA--TCCCTAAGCAATA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
12186717 GCGGAGCAGATCGAAGAAGAT
66 GTGGAGCAGATCGAAG-A-CT
* *
12186738 GCACCTTAACCCCCTAAGCAGTAGGGTAACAGGTT
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
12186773 GAAGACATAG
Statistics
Matches: 720, Mismatches: 48, Indels: 37
0.89 0.06 0.05
Matches are distributed among these distances:
79 76 0.11
81 2 0.00
82 91 0.13
83 1 0.00
84 441 0.61
85 33 0.05
87 76 0.11
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACT
Found at i:12186577 original size:334 final size:331
Alignment explanation
Indices: 12185902--12186772 Score: 1324
Period size: 334 Copynumber: 2.6 Consensus size: 331
12185892 CAAAATTCAG
12185902 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* * * *
12185967 GTGGAGCAGATCGAAGACTCGCCTTAATCCTCTAAGCGGGAGGGTAACAGGTTAAATTTGCAAAT
66 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
* * *
12186032 CTTATCTCCCTAAGCAGTAGTGGAGCATATCGAAGACTCGCTTTAATTCCCTAAGCAGTAGGGTA
131 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTA
* *
12186097 ACAGG--TTCGTAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACGATGACTCGCCTTAA
196 ACAGGTTTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAC-ATGACCCGCCTTAA
* * *
12186160 TCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
260 TCCCCTAAGCAGTAGGGTAACAGG----ATTCGCAAATCTTATCTCCCTAAGCAGTAGCGGAGCA
12186225 GATCGAAGACT
321 GATCGAAGACT
12186236 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
12186301 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
66 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
12186366 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTA
131 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTA
* *
12186431 ACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-A-GACCCGCCTT
196 ACAGGTT---TTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACATGACCCGCCTT
*
12186494 AATCCCCTAAGTAGTAGGGTAACAGG-TTCGCAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGA
258 AATCCCCTAAGCAGTAGGGTAACAGGATTCGCAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGA
12186558 TCGACGACGACT
323 TCGA--A-GACT
* * * *
12186570 TGCCTTAATCCCCTAAGCAATAGGGTAATAGGTTAAATTTGAAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* * *
12186635 GTGGAGCAGATTGAAGACTCGCATTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGAT
66 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
* * * * *
12186700 CTTA--TCCCTAAGCAATAGCGGAGCAGATCGAAGAAGATGCACCTTAACCCCCTAAGCAGTAGG
131 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-A-CT-CGCCTTAATCCCCTAAGCAGTAGG
12186763 GTAACAGGTT
193 GTAACAGGTT
12186773 GAAGACATAG
Statistics
Matches: 499, Mismatches: 27, Indels: 21
0.91 0.05 0.04
Matches are distributed among these distances:
331 39 0.08
332 27 0.05
333 2 0.00
334 325 0.65
335 32 0.06
336 34 0.07
337 1 0.00
339 39 0.08
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (331 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTA
ACAGGTTTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACATGACCCGCCTTAAT
CCCCTAAGCAGTAGGGTAACAGGATTCGCAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCG
AAGACT
Found at i:12186679 original size:418 final size:419
Alignment explanation
Indices: 12185901--12186772 Score: 1489
Period size: 418 Copynumber: 2.1 Consensus size: 419
12185891 ACAAAATTCA
12185901 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
* *
12185966 AGTGGAGCAGATCGAAGACTCGCCTTAATCCTCTAAGCGGGAGGGTAACAGGTTAAATTTGCAAA
66 AGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGGAGGGTAACAGGTTAAATTTGCAAA
* * * *
12186031 TCTTATCTCCCTAAGCAGTAGTGGAGCATATCGAAGACTCGCTTTAATTCCCTAAGCAGTAGGGT
131 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGT
* * *
12186096 AACAGGTTCGTAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACGATGACTCGCCTTAAT
196 AACAGGTTCGCAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCGCCTTAAT
* *
12186161 CCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
261 CCCCTAAGCAATAGGGTAACAGGTTAAATTTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
* *
12186226 ATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCC
326 ATCGAAGACTCGCATTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTA--TCC
* * *
12186291 CTAAGCAGTAGTGGAGCAGATCGAAG-A-CT
389 CTAAGCAATAGCGGAGCAGATCGAAGAAGAT
12186320 -CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
* *
12186384 AGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
66 AGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGGAGGGTAACAGGTTAAATTTGCAAA
*
12186449 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGTAGTAGGGT
131 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGT
*
12186514 AACAGGTTCGCAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTTGCCTTAAT
196 AACAGGTTCGCAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCGCCTTAAT
*
12186579 CCCCTAAGCAATAGGGTAATAGGTTAAATTTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
261 CCCCTAAGCAATAGGGTAACAGGTTAAATTTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
*
12186644 ATTGAAGACTCGCATTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTATCCCT
326 ATCGAAGACTCGCATTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTATCCCT
12186709 AAGCAATAGCGGAGCAGATCGAAGAAGAT
391 AAGCAATAGCGGAGCAGATCGAAGAAGAT
* *
12186738 GCACCTTAACCCCCTAAGCAGTAGGGTAACAGGTT
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
12186773 GAAGACATAG
Statistics
Matches: 426, Mismatches: 24, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
416 27 0.06
417 1 0.00
418 366 0.86
419 32 0.08
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (419 bp):
GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGGAGGGTAACAGGTTAAATTTGCAAA
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGT
AACAGGTTCGCAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCGCCTTAAT
CCCCTAAGCAATAGGGTAACAGGTTAAATTTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
ATCGAAGACTCGCATTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTATCCCT
AAGCAATAGCGGAGCAGATCGAAGAAGAT
Found at i:12186709 original size:41 final size:41
Alignment explanation
Indices: 12186580--12186713 Score: 107
Period size: 41 Copynumber: 3.2 Consensus size: 41
12186570 TGCCTTAATC
* * * *
12186580 CCCTAAGCAATAGGGTAATAGGTTAAATTTGAAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTA--T
* * *
12186623 CCCTAAGCAGTAGTGG-AGCAGATTGAAGA-CT-C-GCAT-TAAT
1 CCCTAAGCAGTAG-GGTAACAGGTT-AA-ATCTGCAG-ATCTTAT
12186663 CCCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTAT
1 -CCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTAT
12186705 CCCTAAGCA
1 CCCTAAGCA
12186714 ATAGCGGAGC
Statistics
Matches: 71, Mismatches: 10, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
39 1 0.01
40 7 0.10
41 31 0.44
42 7 0.10
43 19 0.27
44 5 0.07
45 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (41 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTAT
Found at i:12187458 original size:19 final size:19
Alignment explanation
Indices: 12187431--12187528 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
12187421 AATCTTTAAG
*
12187431 GATAAGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
12187450 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
12187469 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
12187486 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
12187505 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
12187526 GAT
1 GAT
12187529 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:12187461 original size:36 final size:36
Alignment explanation
Indices: 12187437--12187528 Score: 130
Period size: 36 Copynumber: 2.4 Consensus size: 36
12187427 TAAGGATAAG
*
12187437 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATAGGATA
*
12187473 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATAGGATA
12187509 TGCAATCTTGAAGATATGAT
1 --CAATCTT--AGATATGAT
12187529 CTTGTAATCT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
36 36 0.69
38 7 0.13
40 9 0.17
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATAGGATA
Found at i:12187467 original size:14 final size:15
Alignment explanation
Indices: 12187450--12187506 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
12187440 TCTTAGATAT
12187450 GATATG-CAATCTTA
1 GATATGACAATCTTA
12187464 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
12187481 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
12187500 GATATGA
1 GATATGA
12187507 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:12191120 original size:23 final size:23
Alignment explanation
Indices: 12191081--12191156 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
12191071 TTCTAATACC
12191081 ATTATTAT-TGTATTATTACTATT
1 ATTATTATCT-TATTATTACTATT
* *
12191104 ATTATTATCTTAGTATTA-AATT
1 ATTATTATCTTATTATTACTATT
* * *
12191126 AATTATTTTCATATTGTTACTATT
1 -ATTATTATCTTATTATTACTATT
12191150 A-TATTAT
1 ATTATTAT
12191157 ATATTTTCTT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
22 8 0.19
23 30 0.71
24 4 0.10
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (23 bp):
ATTATTATCTTATTATTACTATT
Found at i:12191321 original size:3 final size:3
Alignment explanation
Indices: 12191315--12191434 Score: 89
Period size: 3 Copynumber: 39.7 Consensus size: 3
12191305 TTGTTGTGTC
* * * *
12191315 ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT AGT ACT ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
12191363 ACT ATT ATT TTT ATT ATT ATT ACT ACT ACT ATC ACT ATAT AGTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T A-TT ATT
* * *
12191410 ATT ACT ATC A-T ATT ATC ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
12191435 ACTATTTTTA
Statistics
Matches: 91, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
2 1 0.01
3 85 0.93
4 4 0.04
5 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:12191419 original size:23 final size:22
Alignment explanation
Indices: 12191374--12191439 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
12191364 CTATTATTTT
* *
12191374 TATTATTATTACTACTACTATCA
1 TATTATCATTATTA-TACTATCA
12191397 CTA-TAT-AGTTATTATTACTATCA
1 -TATTATCA-TTATTA-TACTATCA
12191420 TATTATCATTATTATACTAT
1 TATTATCATTATTATACTAT
12191440 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 9 0.24
23 25 0.68
24 3 0.08
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.50
Consensus pattern (22 bp):
TATTATCATTATTATACTATCA
Found at i:12191567 original size:18 final size:18
Alignment explanation
Indices: 12191546--12191583 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12191536 TTATTACTTG
12191546 TATTATTACCATTAATAT
1 TATTATTACCATTAATAT
* *
12191564 TATTATTATCATTACTAT
1 TATTATTACCATTAATAT
12191582 TA
1 TA
12191584 CTATCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTATTACCATTAATAT
Found at i:12207033 original size:17 final size:18
Alignment explanation
Indices: 12206980--12207043 Score: 96
Period size: 17 Copynumber: 3.6 Consensus size: 18
12206970 AATCATATCT
12206980 TCTAAGATTGTATATCATA
1 TCTAAGATTG-ATATCATA
12206999 TCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATA
12207017 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
12207034 TCTAAGATTG
1 TCTAAGATTG
12207044 CAAATCATTG
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
17 16 0.37
18 16 0.37
19 11 0.26
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGATATCATA
Found at i:12207038 original size:35 final size:37
Alignment explanation
Indices: 12206980--12207051 Score: 121
Period size: 35 Copynumber: 2.0 Consensus size: 37
12206970 AATCATATCT
12206980 TCTAAGATTGTATATCATATCTAAGATTGC-AATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAAATCATA
12207017 TCTAAGATTG-TATCATATCTAAGATTGCAAATCAT
1 TCTAAGATTGATATCATATCTAAGATTGCAAATCAT
12207052 TGAAGATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 18 0.53
36 6 0.18
37 10 0.29
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCAAATCATA
Found at i:12208089 original size:208 final size:207
Alignment explanation
Indices: 12207453--12208122 Score: 1072
Period size: 207 Copynumber: 3.2 Consensus size: 207
12207443 ACTTCTTCAG
* * * * **
12207453 TTTGTTCCCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGCAAAA
1 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
* * * *
12207518 GCCAAATTAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCGAACCATCTTGGATC-
66 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
* * ** * *
12207582 TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTTGAATATGGAGAC
131 TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTTGAATATGGAGAC
12207647 GCCAAACTTTGA
196 GCCAAACTTTGA
*
12207659 TTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
1 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
*
12207724 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAACCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
*
12207789 TGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTTGAATATGGAGAC
131 TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTTGAATATGGAGAC
12207854 GCCAAACTTTGA
196 GCCAAACTTTGA
* * *
12207866 TTTGTTCTTTGACAATACAGAGATACCAAATCATCTTAGACTTGCTTCAATGTAAACACGTGAAA
1 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
12207931 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCCAAACCATCTTGGATC
66 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATG-CCAAACCATCTTGGATC
* * * * *
12207996 TTGCTTTAGTATAAACATCTAAAGGCCAAATCTGCTATGTGTCTGCCCTCCGTCGAATACGGAGA
130 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTTGAATATGGAGA
*
12208061 CGCCAAAATTTGA
195 CGCCAAACTTTGA
12208074 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCA
1 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCA
12208123 NNNNNNNNNN
Statistics
Matches: 429, Mismatches: 33, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
206 117 0.27
207 177 0.41
208 135 0.31
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (207 bp):
TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTTGAATATGGAGAC
GCCAAACTTTGA
Found at i:12209081 original size:17 final size:18
Alignment explanation
Indices: 12209040--12209153 Score: 169
Period size: 17 Copynumber: 6.3 Consensus size: 18
12209030 NNNNNNNNNN
12209040 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
*
12209058 AATCATATCTAAGATTG-
1 TATCATATCTAAGATTGC
12209075 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
*
12209093 AATCATATCTAAGATTG-
1 TATCATATCTAAGATTGC
12209110 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
*
12209128 ATATCACATCTAAGATTGC
1 -TATCATATCTAAGATTGC
12209147 ATATCAT
1 -TATCAT
12209154 TGAAGATTAT
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
17 32 0.37
18 32 0.37
19 23 0.26
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (18 bp):
TATCATATCTAAGATTGC
Found at i:12209086 original size:35 final size:35
Alignment explanation
Indices: 12209040--12209145 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
12209030 NNNNNNNNNN
12209040 TATCATATCTAAGATTGCAATCATATCTAAGATTG
1 TATCATATCTAAGATTGCAATCATATCTAAGATTG
12209075 TATCATATCTAAGATTGCAATCATATCTAAGATTG
1 TATCATATCTAAGATTGCAATCATATCTAAGATTG
*
12209110 TATCATATCTAAGATTGCATATCACATCTAAGATTG
1 TATCATATCTAAGATTGCA-ATCATATCTAAGATTG
12209146 CATATCATTG
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
35 54 0.78
36 15 0.22
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (35 bp):
TATCATATCTAAGATTGCAATCATATCTAAGATTG
Found at i:12210190 original size:208 final size:207
Alignment explanation
Indices: 12209554--12210262 Score: 1123
Period size: 207 Copynumber: 3.4 Consensus size: 207
12209544 ACTTCTTCAG
* * * * **
12209554 TTTGTTCCCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGCAAAA
1 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
* * * *
12209619 GCCAAATTAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCGAACCATCTTGGATC-
66 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
* * ** * *
12209683 TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTTGAATATGGAGAC
131 TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTTGAATATGGAGAC
12209748 GCCAAACTTTGA
196 GCCAAACTTTGA
*
12209760 TTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
1 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
*
12209825 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAACCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
*
12209890 TGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTTGAATATGGAGAC
131 TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTTGAATATGGAGAC
12209955 GCCAAACTTTGA
196 GCCAAACTTTGA
* * *
12209967 TTTGTTCTTTGACAATACAGAGATACCAAATCATCTTAGACTTGCTTCAATGTAAACACGTGAAA
1 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
12210032 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCCAAACCATCTTGGATC
66 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATG-CCAAACCATCTTGGATC
* * * * *
12210097 TTGCTTTAGTATAAACATCTAAAGGCCAAATCTGCTATGTGTCTGCCCTCCGTCGAATACGGAGA
130 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTTGAATATGGAGA
*
12210162 CGCCAAAATTTGA
195 CGCCAAACTTTGA
* * *
12210175 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCATCATAAGCACGTGAAA
1 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
12210240 GCCAAATCAGCTATGTCTTCGAT
66 GCCAAATCAGCTATGTCTTCGAT
12210263 CTACTCTCCG
Statistics
Matches: 464, Mismatches: 37, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
206 117 0.25
207 177 0.38
208 170 0.37
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (207 bp):
TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTTGAATATGGAGAC
GCCAAACTTTGA
Found at i:12210490 original size:43 final size:42
Alignment explanation
Indices: 12210435--12210668 Score: 110
Period size: 43 Copynumber: 5.5 Consensus size: 42
12210425 CATCTTCGAT
12210435 CTGTTCCACTACTGCTTAGGGAGATAAGATCTTCAATTTTGAC
1 CTGTTCC-CTACTGCTTAGGGAGATAAGATCTTCAATTTTGAC
* * *
12210478 CTGTTACCCTACTGCTTAGGG-GATTAAGGCGAGTCGTC---GTTGAT
1 CTGTT-CCCTACTGCTTAGGGAGA-TAA---GA-TCTTCAATTTTGAC
* *
12210522 TTGTTCTGCTACTGCTTAGGGAGATAAGATCTGT-AATTTT-AGC
1 CTGTTC-CCTACTGCTTAGGGAGATAAGATCT-TCAATTTTGA-C
* * * * * * * *
12210565 CTGTTAACCTACTGCTTAGGGGGTTAAG-GC--GAGTCTTCGAT
1 CTGTT-CCCTACTGCTTAGGGAGATAAGATCTTCAAT-TTTGAC
* * * *
12210606 CTGCTCCACTA-TGCTTAGGGAGATAAGATCTGCAAATTTAAC
1 CTGTTCC-CTACTGCTTAGGGAGATAAGATCTTCAATTTTGAC
*
12210648 CTGCTACCCTACTGCTTAGGG
1 CTG-TTCCCTACTGCTTAGGG
12210669 GATTAAGGCA
Statistics
Matches: 138, Mismatches: 30, Indels: 46
0.64 0.14 0.21
Matches are distributed among these distances:
40 19 0.14
41 13 0.09
42 14 0.10
43 58 0.42
44 26 0.19
45 2 0.01
46 2 0.01
47 4 0.03
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (42 bp):
CTGTTCCCTACTGCTTAGGGAGATAAGATCTTCAATTTTGAC
Found at i:12210541 original size:87 final size:83
Alignment explanation
Indices: 12210391--12210677 Score: 364
Period size: 87 Copynumber: 3.4 Consensus size: 83
12210381 CTATACTTTA
* *
12210391 ACCTGTTACCCTACTACTTAGGGGGGTTAAGGCGCA-TCTTCGATCTGTTCCACTACTGCTTAGG
1 ACCTGTTACCCTACTGCTTA-GGGGATTAAGGCG-AGTCTTCGATCTGTTCCACTACTGCTTAGG
12210455 GAGATAAGATCTTCAATTTT
64 GAGATAAGATCTTCAATTTT
* * **
12210475 GACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTTGATTTGTTCTGCTACTGCTTA
1 -ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGTTCCACTACTGCTTA
12210540 GGGAGATAAGATCTGT-AATTTT
62 GGGAGATAAGATCT-TCAATTTT
* * *
12210562 AGCCTGTTAACCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGATCTGCTCCACTA-TGCTTAGGG
1 A-CCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGTTCCACTACTGCTTAGGG
* *
12210626 AGATAAGATCTGCAAATTTA
65 AGATAAGATCTTC-AATTTT
*
12210646 ACCTGCTACCCTACTGCTTAGGGGATTAAGGC
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGC
12210678 ACTGAATTTT
Statistics
Matches: 176, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
83 49 0.28
84 31 0.18
85 20 0.11
86 2 0.01
87 73 0.41
88 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (83 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGTTCCACTACTGCTTAGGGA
GATAAGATCTTCAATTTT
Found at i:12211636 original size:8 final size:8
Alignment explanation
Indices: 12211623--12211665 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
12211613 GGCCTCTCTA
12211623 TTTTTCTT
1 TTTTTCTT
*
12211631 TTTTTCTC
1 TTTTTCTT
12211639 TTTTTC-T
1 TTTTTCTT
*
12211646 TTTCT-TT
1 TTTTTCTT
12211653 TTTTTCTT
1 TTTTTCTT
12211661 TTTTT
1 TTTTT
12211666 TTTGAAATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 9 0.31
8 20 0.69
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:12211648 original size:21 final size:20
Alignment explanation
Indices: 12211624--12211667 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
12211614 GCCTCTCTAT
12211624 TTTTCTTTTTTTCTCTTTTTC
1 TTTTCTTTTTTT-TCTTTTTC
12211645 TTTTCTTTTTTTTCTTTTT-
1 TTTTCTTTTTTTTCTTTTTC
12211664 TTTT
1 TTTT
12211668 TGAAATAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 4 0.17
20 7 0.30
21 12 0.52
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTTCTTTTTTTTCTTTTTC
Found at i:12217070 original size:29 final size:26
Alignment explanation
Indices: 12217026--12217089 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
12217016 AATATATTTT
*
12217026 TTAAAACAATGAATAATA-TAGAATTTAA
1 TTAAAA-AATGAATAATACTA-AAATT-A
12217054 TTAAAAAATTGATATAATACTAAAATTA
1 TTAAAAAA-TGA-ATAATACTAAAATTA
12217082 TTAAAAAA
1 TTAAAAAA
12217090 ATAAAATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 2 0.06
28 18 0.56
29 10 0.31
30 2 0.06
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (26 bp):
TTAAAAAATGAATAATACTAAAATTA
Found at i:12217432 original size:19 final size:19
Alignment explanation
Indices: 12217408--12217498 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
12217398 AATCATATCT
*
12217408 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
12217427 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
12217445 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
12217462 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
12217481 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
12217499 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12217466 original size:35 final size:37
Alignment explanation
Indices: 12217408--12217498 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
12217398 AATCATATCT
*
12217408 TCTAAGATTGTATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
12217445 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
12217481 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
12217499 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:12217477 original size:14 final size:15
Alignment explanation
Indices: 12217422--12217477 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
12217412 AGATTGTATA
12217422 TCATATCTAAGATTG
1 TCATATCTAAGATTG
12217437 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
12217455 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
12217472 -CATATC
1 TCATATC
12217478 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:12220088 original size:28 final size:27
Alignment explanation
Indices: 12220048--12220112 Score: 112
Period size: 28 Copynumber: 2.4 Consensus size: 27
12220038 TATAACTTTA
12220048 TTCCACACTTCTCTCTCATTTTCTCTC
1 TTCCACACTTCTCTCTCATTTTCTCTC
12220075 TTTCCACACTTCTCTCTCATTTTCTCTC
1 -TTCCACACTTCTCTCTCATTTTCTCTC
*
12220103 TTCCAAACTT
1 TTCCACACTT
12220113 GCCTTTTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 9 0.25
28 27 0.75
ACGTcount: A:0.14, C:0.38, G:0.00, T:0.48
Consensus pattern (27 bp):
TTCCACACTTCTCTCTCATTTTCTCTC
Found at i:12220309 original size:59 final size:59
Alignment explanation
Indices: 12220231--12220407 Score: 354
Period size: 59 Copynumber: 3.0 Consensus size: 59
12220221 GATTCAACAA
12220231 GAATGAGTGGGTAAAGATGAGCAAAGTAAGCTAGTCAGCCTTCGAAGAAACACTGGATT
1 GAATGAGTGGGTAAAGATGAGCAAAGTAAGCTAGTCAGCCTTCGAAGAAACACTGGATT
12220290 GAATGAGTGGGTAAAGATGAGCAAAGTAAGCTAGTCAGCCTTCGAAGAAACACTGGATT
1 GAATGAGTGGGTAAAGATGAGCAAAGTAAGCTAGTCAGCCTTCGAAGAAACACTGGATT
12220349 GAATGAGTGGGTAAAGATGAGCAAAGTAAGCTAGTCAGCCTTCGAAGAAACACTGGATT
1 GAATGAGTGGGTAAAGATGAGCAAAGTAAGCTAGTCAGCCTTCGAAGAAACACTGGATT
12220408 TGATTCTAGT
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 118 1.00
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (59 bp):
GAATGAGTGGGTAAAGATGAGCAAAGTAAGCTAGTCAGCCTTCGAAGAAACACTGGATT
Found at i:12222371 original size:20 final size:20
Alignment explanation
Indices: 12222346--12222525 Score: 181
Period size: 20 Copynumber: 9.2 Consensus size: 20
12222336 ATCAGTATAT
**
12222346 GGCACAAAGCCATGTGTAGC
1 GGCACAAAGCCATCAGTAGC
*
12222366 GGCACAAAGCCATCAATAGC
1 GGCACAAAGCCATCAGTAGC
*
12222386 GGTAC--A-CCATCAGTAGC
1 GGCACAAAGCCATCAGTAGC
*
12222403 GGCACAAAGCCATCAGTAGT
1 GGCACAAAGCCATCAGTAGC
* * *
12222423 GGCACAAAGCCTTCAATAGT
1 GGCACAAAGCCATCAGTAGC
* *
12222443 GGCACAAA-CCATCAATAGT
1 GGCACAAAGCCATCAGTAGC
* *
12222462 GGCACAAAGCCATCAATAGT
1 GGCACAAAGCCATCAGTAGC
* * *
12222482 AGCACAAA-CCATCAATAGT
1 GGCACAAAGCCATCAGTAGC
*
12222501 GGCACAAAGCCATCAATAGC
1 GGCACAAAGCCATCAGTAGC
12222521 GGCAC
1 GGCAC
12222526 TCAAACATAG
Statistics
Matches: 142, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
17 14 0.10
18 1 0.01
19 37 0.26
20 90 0.63
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.14
Consensus pattern (20 bp):
GGCACAAAGCCATCAGTAGC
Found at i:12222462 original size:39 final size:39
Alignment explanation
Indices: 12222345--12222525 Score: 215
Period size: 39 Copynumber: 4.7 Consensus size: 39
12222335 TATCAGTATA
*** *
12222345 TGGCACAAAGCCATGTGTAGCGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAGTGGCACAAA-CCATCAATAG
* * * * *
12222385 CGGTAC--A-CCATCAGTAGCGGCACAAAGCCATCAGTAG
1 TGGCACAAAGCCATCAATAGTGGCACAAA-CCATCAATAG
*
12222422 TGGCACAAAGCCTTCAATAGTGGCACAAACCATCAATAG
1 TGGCACAAAGCCATCAATAGTGGCACAAACCATCAATAG
*
12222461 TGGCACAAAGCCATCAATAGTAGCACAAACCATCAATAG
1 TGGCACAAAGCCATCAATAGTGGCACAAACCATCAATAG
*
12222500 TGGCACAAAGCCATCAATAGCGGCAC
1 TGGCACAAAGCCATCAATAGTGGCAC
12222526 TCAAACATAG
Statistics
Matches: 123, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
37 31 0.25
38 1 0.01
39 71 0.58
40 20 0.16
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.15
Consensus pattern (39 bp):
TGGCACAAAGCCATCAATAGTGGCACAAACCATCAATAG
Found at i:12222472 original size:59 final size:59
Alignment explanation
Indices: 12222346--12222525 Score: 240
Period size: 59 Copynumber: 3.1 Consensus size: 59
12222336 ATCAGTATAT
** * * * *
12222346 GGCACAAAGCCATGTGTAGCGGCACAAAGCCATCAATAGCGGTAC--ACCATCAGTAGC
1 GGCACAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGTGGCACAAACCATCAATAGC
* *
12222403 GGCACAAAGCCATCAGTAGTGGCACAAAGCCTTCAATAGTGGCACAAACCATCAATAGT
1 GGCACAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGTGGCACAAACCATCAATAGC
* *
12222462 GGCACAAAGCCATCAATAGTAGCACAAA-CCATCAATAGTGGCACAAAGCCATCAATAGC
1 GGCACAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGTGGCACAAA-CCATCAATAGC
12222521 GGCAC
1 GGCAC
12222526 TCAAACATAG
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
57 39 0.36
58 18 0.17
59 51 0.47
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.14
Consensus pattern (59 bp):
GGCACAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGTGGCACAAACCATCAATAGC
Found at i:12222831 original size:26 final size:28
Alignment explanation
Indices: 12222794--12222847 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
12222784 ATCATAGCAC
*
12222794 AAATCAGTCA-TTTACCCTCGAGGGGTA
1 AAATCAGTCATTTTACCCTAGAGGGGTA
*
12222821 AAAT-AGTCATTTTACCCTATAGGGGTA
1 AAATCAGTCATTTTACCCTAGAGGGGTA
12222848 TTTTGGTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (28 bp):
AAATCAGTCATTTTACCCTAGAGGGGTA
Found at i:12226417 original size:14 final size:14
Alignment explanation
Indices: 12226398--12226427 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12226388 TTATATCGAG
12226398 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
12226412 ACCAATCCAATTCA
1 ACCAATCCAAATCA
12226426 AC
1 AC
12226428 ATATTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:12226471 original size:23 final size:23
Alignment explanation
Indices: 12226427--12226471 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
12226417 TCCAATTCAA
* * *
12226427 CATATTTTTAATATAAATTCATG
1 CATATTTATAAAATAAAGTCATG
*
12226450 CATATTTATAAAATAACGTCAT
1 CATATTTATAAAATAAAGTCAT
12226472 CACATACCCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.42
Consensus pattern (23 bp):
CATATTTATAAAATAAAGTCATG
Found at i:12232331 original size:16 final size:15
Alignment explanation
Indices: 12232310--12232339 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
12232300 ATATAGATAA
12232310 TAATATTAATAAAATT
1 TAATATTAA-AAAATT
12232326 TAATATTAAAAAAT
1 TAATATTAAAAAAT
12232340 AAAACATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATATTAAAAAATT
Found at i:12232358 original size:22 final size:20
Alignment explanation
Indices: 12232317--12232366 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
12232307 TAATAATATT
*
12232317 AATAAAATTTAATATTAAAA
1 AATAAAAATTAATATTAAAA
12232337 AATAAAACATTAATAATTAAAA
1 AATAAAA-ATTAAT-ATTAAAA
12232359 AATTAAAA
1 AA-TAAAA
12232367 GTATATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.27
21 5 0.19
22 9 0.35
23 5 0.19
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AATAAAAATTAATATTAAAA
Found at i:12232593 original size:16 final size:17
Alignment explanation
Indices: 12232574--12232606 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12232564 AATTTTATAG
12232574 ATTTTA-ATAGTTATTA
1 ATTTTATATAGTTATTA
*
12232590 ATTTTATATATTTATTA
1 ATTTTATATAGTTATTA
12232607 TACATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTTTATATAGTTATTA
Found at i:12232606 original size:17 final size:17
Alignment explanation
Indices: 12232544--12232606 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 17
12232534 CCATTATATA
* * *
12232544 TTATATAATCATTAAAT
1 TTATATATTTATTAATT
*
12232561 TTAAAT-TTTA-TAGATT
1 TTATATATTTATTA-ATT
*
12232577 TTA-ATAGTTATTAATT
1 TTATATATTTATTAATT
12232593 TTATATATTTATTA
1 TTATATATTTATTA
12232607 TACATATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
15 4 0.11
16 16 0.44
17 16 0.44
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.56
Consensus pattern (17 bp):
TTATATATTTATTAATT
Found at i:12243085 original size:6 final size:6
Alignment explanation
Indices: 12243074--12243105 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
12243064 ATAAAATAAT
12243074 AACTTA AACTTA AACTTA AACTTA AACTTA AA
1 AACTTA AACTTA AACTTA AACTTA AACTTA AA
12243106 ACAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (6 bp):
AACTTA
Found at i:12244030 original size:43 final size:42
Alignment explanation
Indices: 12243910--12244033 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 42
12243900 AAACAAGCTG
*
12243910 CCACTAGGCTGTGGATGCGCAACAATTTCCCAGATAAAAACTA
1 CCACTAGGCTGTGGATGCGCAACAATTT-ACAGATAAAAACTA
* ** * * *
12243953 CCACTAGGCTATGGATGCATAGCGAATTCACAGATAAAAACTT
1 CCACTAGGCTGTGGATGCGCAAC-AATTTACAGATAAAAACTA
* * * *
12243996 CTAGTAGGCTGTAGATGCGCAACAAATTTGCAGATAAA
1 CCACTAGGCTGTGGATGCGCAAC-AATTTACAGATAAA
12244034 CTGCCACTGG
Statistics
Matches: 63, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
43 59 0.94
44 4 0.06
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (42 bp):
CCACTAGGCTGTGGATGCGCAACAATTTACAGATAAAAACTA
Found at i:12244178 original size:34 final size:34
Alignment explanation
Indices: 12244140--12244213 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 34
12244130 CTTATCATAG
**
12244140 ATCAATACAATAGCAATGGACATGATTATAACAA
1 ATCAATACAATAGCAATAAACATGATTATAACAA
** * **
12244174 ATCAATACGGTAGCAATAAATATTCTTATAACAA
1 ATCAATACAATAGCAATAAACATGATTATAACAA
12244208 ATCAAT
1 ATCAAT
12244214 GTTGTAGCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (34 bp):
ATCAATACAATAGCAATAAACATGATTATAACAA
Found at i:12244236 original size:34 final size:35
Alignment explanation
Indices: 12244160--12244236 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 35
12244150 TAGCAATGGA
*
12244160 CATGATTATAACAAATCAATACGGTAGCAATAAAT
1 CATGCTTATAACAAATCAATACGGTAGCAATAAAT
* *** *
12244195 -ATTCTTATAACAAATCAATGTTGTAGCAA-AAGT
1 CATGCTTATAACAAATCAATACGGTAGCAATAAAT
12244228 CATGCTTAT
1 CATGCTTAT
12244237 CATGAATTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
33 3 0.09
34 31 0.91
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (35 bp):
CATGCTTATAACAAATCAATACGGTAGCAATAAAT
Found at i:12249308 original size:16 final size:17
Alignment explanation
Indices: 12249269--12249310 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
12249259 TTTTCATATA
*
12249269 TAATTTTACAAATAAAT
1 TAATTTTATAAATAAAT
**
12249286 TGTTTTTATAAAT-AAT
1 TAATTTTATAAATAAAT
12249302 TAATTTTAT
1 TAATTTTAT
12249311 TTAAATTATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TAATTTTATAAATAAAT
Found at i:12250117 original size:18 final size:18
Alignment explanation
Indices: 12250094--12250129 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12250084 TTTTTTGTAA
12250094 TTTTAT-TTTTAAGAATTT
1 TTTTATATTTTAA-AATTT
12250112 TTTTATATTTTAAAATTT
1 TTTTATATTTTAAAATTT
12250130 AAATTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTATATTTTAAAATTT
Found at i:12256307 original size:34 final size:34
Alignment explanation
Indices: 12256256--12256329 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
12256246 TCCAAAGTTT
* * *
12256256 TAAACCCTAAACCTTGAATATTGACCTCAAATCC
1 TAAACCCCAAACCTTGAACATTGACCTCAAACCC
*
12256290 TAAACCCCAAACGTTGAACATTGACCTCAAACCC
1 TAAACCCCAAACCTTGAACATTGACCTCAAACCC
12256324 TAAACC
1 TAAACC
12256330 TTAAATATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.39, C:0.32, G:0.07, T:0.22
Consensus pattern (34 bp):
TAAACCCCAAACCTTGAACATTGACCTCAAACCC
Found at i:12257053 original size:15 final size:15
Alignment explanation
Indices: 12257017--12257059 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
12257007 CAAAGAAAAA
*
12257017 AAATAATGAGTAAACT
1 AAATTATGAGT-AACT
* *
12257033 ATATTATTAGTAACT
1 AAATTATGAGTAACT
12257048 AAATTATGAGTA
1 AAATTATGAGTA
12257060 GATTTTTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (15 bp):
AAATTATGAGTAACT
Found at i:12258155 original size:17 final size:17
Alignment explanation
Indices: 12258133--12258189 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
12258123 AGTCATAAAG
12258133 TTATTAAAAATAAAAAA
1 TTATTAAAAATAAAAAA
* * **
12258150 TTATTAAGATTGTAAAA
1 TTATTAAAAATAAAAAA
12258167 TTATTTAAAAATATAAATAA
1 TTA-TTAAAAATA-AAA-AA
12258187 TTA
1 TTA
12258190 AATAATTACT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
17 16 0.55
18 6 0.21
19 2 0.07
20 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (17 bp):
TTATTAAAAATAAAAAA
Found at i:12269096 original size:53 final size:53
Alignment explanation
Indices: 12269036--12269242 Score: 155
Period size: 53 Copynumber: 3.5 Consensus size: 53
12269026 TTTTAAATTG
12269036 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* * **
12269089 ACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAAGTATTTTCAATTTTTGTGTTTT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT----------TTTA--ATTTT-------TGT-TTTT
**
12269154 -AATTTCA
46 CAAAATCA
12269161 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* *
12269214 ACTCATATTGCTAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT
12269243 CGGGGCACGC
Statistics
Matches: 119, Mismatches: 14, Indels: 42
0.68 0.08 0.24
Matches are distributed among these distances:
52 4 0.03
53 62 0.52
60 5 0.04
62 2 0.02
63 2 0.02
65 5 0.04
72 35 0.29
73 4 0.03
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (53 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
Found at i:12269261 original size:125 final size:125
Alignment explanation
Indices: 12268949--12269314 Score: 581
Period size: 125 Copynumber: 3.0 Consensus size: 125
12268939 GTTGAGGTAT
* * * *
12268949 TTTTAATTGTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
* * *
12269013 GAGG-----T--ATTTTT-AGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTAAGCC
12269064 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
*
12269129 GAAGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTAAGCC
66 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTAAGCC
12269189 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
*
12269254 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTAAGCC
12269314 T
1 T
12269315 CAGGACACGC
Statistics
Matches: 231, Mismatches: 10, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
115 11 0.05
116 52 0.23
121 1 0.00
123 6 0.03
124 9 0.04
125 152 0.66
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (125 bp):
TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:12269310 original size:72 final size:72
Alignment explanation
Indices: 12269189--12269428 Score: 279
Period size: 72 Copynumber: 3.3 Consensus size: 72
12269179 GAGTTAAGCC
* *
12269189 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
12269253 TGAGGTA
66 TGAGGTA
** *
12269260 TTTTCAATTTTTGTGTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTTTGT-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
12269324 CTGAGGTA
65 CTGAGGTA
* * * * * * *
12269332 ATTTCAATTTCTG-TTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTTTGTTTTTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GA
*
12269396 CACGCCGAGGTA
61 CACGCTGAGGTA
*
12269408 TTTTCAATTTTCGTTTTTCAA
1 TTTTCAATTTTTGTTTTTCAA
12269429 TTTCCGCCTT
Statistics
Matches: 140, Mismatches: 20, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
70 3 0.02
71 4 0.03
72 68 0.49
73 4 0.03
74 34 0.24
75 1 0.01
76 22 0.16
77 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (72 bp):
TTTTCAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
TGAGGTA
Found at i:12269548 original size:74 final size:75
Alignment explanation
Indices: 12269442--12269834 Score: 284
Period size: 76 Copynumber: 5.0 Consensus size: 75
12269432 CCGCCTTTCA
* *
12269442 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
12269506 TTCTGTTGTC
66 TTCTGTTGTC
* * * *
12269516 AAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAA
* * *
12269581 TTTCCGTTTTTT
65 TTTCTG-TTGTC
***** *** * * * * * *
12269593 AATTTTTGCTTGTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACG
1 AA-----AAAAATCAACTCATATTG-C-GAGA--G-G-C----GAGTTGAGCCTCAG-GCACACG
* *
12269658 CCGAGGTATTTTCAATTTCTGTCTTTC
50 CCGAGGTAATTTCAATTTCTGT-TGTC
* * * *
12269685 AAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCA
1 -AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCA
12269750 ATTTCTGTTGTC
64 ATTTCTGTTGTC
* * * *
12269762 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAA
12269827 TTTCTGTT
65 TTTCTGTT
12269835 TTTCAATTTC
Statistics
Matches: 251, Mismatches: 46, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
74 39 0.16
76 92 0.37
77 8 0.03
78 41 0.16
82 8 0.03
83 2 0.01
84 2 0.01
86 3 0.01
87 2 0.01
88 8 0.03
91 1 0.00
92 43 0.17
93 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:12269557 original size:166 final size:166
Alignment explanation
Indices: 12269283--12269754 Score: 748
Period size: 166 Copynumber: 2.8 Consensus size: 166
12269273 TGTTTTAATT
12269283 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
*
12269348 TCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
66 TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
*
12269413 AATTTTCGTTTTTCAATTTCCGCCTT-TCAAAAAAAA
131 AATTTCCGTTTTTCAATTTCCG-CTTGTCAAAAAAAA
12269449 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
* *
12269514 TCAAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
66 TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
* **
12269579 AATTTCCGTTTTTTAATTTTTGCTTGTCAAAAAAAA
131 AATTTCCGTTTTTCAATTTCCGCTTGTCAAAAAAAA
* * * *
12269615 TCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTAATTTCAATTTCTGT
* ** * *
12269680 CTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCAAGGTAT
64 -TGTC-AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
12269745 TTTCAATTTC
127 TTTCAATTTC
12269755 TGTTGTCAAA
Statistics
Matches: 284, Mismatches: 17, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
165 3 0.01
166 190 0.67
168 25 0.09
169 3 0.01
170 63 0.22
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (166 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
AATTTCCGTTTTTCAATTTCCGCTTGTCAAAAAAAA
Found at i:12269673 original size:92 final size:90
Alignment explanation
Indices: 12269503--12269754 Score: 276
Period size: 78 Copynumber: 2.9 Consensus size: 90
12269493 AGGTAATTTC
* * * *
12269503 AATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCC
1 AATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCC
12269568 GAGGTATTTTCAATTTCCGTTTTTT
66 GAGGTATTTTCAATTTCCGTTTTTT
* * *
12269593 AATTTTTGCTTGTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACG
1 AATTTCTG-TTGTC-AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACG
12269658 CCGAGGTATTTTCAATTT-C-------
64 CCGAGGTATTTTCAATTTCCGTTTTTT
* ** * * *
12269677 --TGTCT-TT-CAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCC
1 AATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCC
*
12269738 AAGGTATTTTCAATTTC
66 GAGGTATTTTCAATTTC
12269755 TGTTGTCAAA
Statistics
Matches: 144, Mismatches: 15, Indels: 17
0.82 0.09 0.10
Matches are distributed among these distances:
78 64 0.44
80 2 0.01
82 3 0.02
90 7 0.05
91 6 0.04
92 62 0.43
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (90 bp):
AATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCC
GAGGTATTTTCAATTTCCGTTTTTT
Found at i:12269722 original size:78 final size:78
Alignment explanation
Indices: 12269588--12269840 Score: 377
Period size: 78 Copynumber: 3.3 Consensus size: 78
12269578 CAATTTCCGT
* * * *
12269588 TTTTTAATTTTTG-CTTGTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
1 TTTTCAATTTCTGTCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
*
12269652 CACACGCCGAGGTA
65 CACACGCCAAGGTA
*
12269666 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
12269731 ACACGCCAAGGTA
66 ACACGCCAAGGTA
* * * *
12269744 TTTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTC
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
12269807 ACACGCCAAGGTA
66 ACACGCCAAGGTA
*
12269820 TTTTCAATTTCTGTTTTTCAA
1 TTTTCAATTTCTGTCTTTCAA
12269841 TTTCTGCCTT
Statistics
Matches: 160, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
76 68 0.43
77 6 0.04
78 83 0.52
79 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (78 bp):
TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
ACACGCCAAGGTA
Found at i:12269804 original size:412 final size:405
Alignment explanation
Indices: 12269207--12269967 Score: 1141
Period size: 412 Copynumber: 1.9 Consensus size: 405
12269197 TTTGTTTTTC
* ** * *
12269207 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCCGAGGTATTTTCAATTTCT
* * ** **
12269272 GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
66 GTCTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCAAGGTAATTTC
*
12269337 AATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCC
131 AATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCC
*
12269402 GAGGTATTTTCAATTT-TCGTTTTTCAATTTCCGCCTTTCAAAAAAAATCAACTCATATTGCGAG
196 AAGGTATTTTCAATTTCT-GTTTTTCAATTTCCGCCTTTCAAAAAAAATCAACTCATATTGCGAG
* *
12269466 AGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAAAGTCAACT
260 AGGTGAGTTGAGCCT-AGGCACACGCTGAGCTAATTTCAATTTCTGTTTGTCAAAAAAATCAACT
* *
12269529 CGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTTA
324 CATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTTA
12269594 ATTTTTGCTTGTCAAAA
389 ATTTTTGCTTGTCAAAA
* *
12269611 AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GCACACGCCGAGGTATTTTCAATTT
*
12269676 CTGTCTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCAAG
64 CTGTCTTT----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCCAAG
* *
12269741 GTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGT
123 GTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGT
*
12269806 CACACGCCAAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATA
188 CACACGCCAAGGTATTTTCAATTTCTGTTTTTCAATTTCCGCCTTTCAAAAAAAATCAACTCATA
* * * *
12269871 TTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTTTTTCAAAAA
253 TTGCGAGAGGTGAGTTGAGCCTAGG--CACACGCTGAGCTAATTTCAATTTCTGTTTGTCAAAAA
*
12269936 AATCAACTCATATTGCGAGAGGTGAGTTGAGC
316 AATCAACTCATATTGCGAGAGGCGAGTTGAGC
12269968 TTTAGATCAC
Statistics
Matches: 316, Mismatches: 28, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
404 35 0.11
405 1 0.00
406 27 0.09
410 37 0.12
411 2 0.01
412 153 0.48
413 1 0.00
414 23 0.07
415 37 0.12
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (405 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCCGAGGTATTTTCAATTTCT
GTCTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCAAGGTAATTTC
AATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCC
AAGGTATTTTCAATTTCTGTTTTTCAATTTCCGCCTTTCAAAAAAAATCAACTCATATTGCGAGA
GGTGAGTTGAGCCTAGGCACACGCTGAGCTAATTTCAATTTCTGTTTGTCAAAAAAATCAACTCA
TATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTTAAT
TTTTGCTTGTCAAAA
Found at i:12269839 original size:14 final size:14
Alignment explanation
Indices: 12269820--12269846 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12269810 CGCCAAGGTA
12269820 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
12269834 TTTTCAATTTCTG
1 TTTTCAATTTCTG
12269847 CCTTTCAAAA
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:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:12269852 original size:14 final size:14
Alignment explanation
Indices: 12269821--12269854 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12269811 GCCAAGGTAT
**
12269821 TTTCAATTTCTGTT
1 TTTCAATTTCTGCC
12269835 TTTCAATTTCTGCC
1 TTTCAATTTCTGCC
12269849 TTTCAA
1 TTTCAA
12269855 AAAAAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCTGCC
Found at i:12269857 original size:246 final size:245
Alignment explanation
Indices: 12269422--12270215 Score: 1026
Period size: 246 Copynumber: 3.2 Consensus size: 245
12269412 CAATTTTCGT
* *
12269422 TTTTCAATTTCCGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
* * *
12269485 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTG
66 ACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTG
* * *
12269550 AGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTTAATTTTTGCTTGTCAAAAAAAA
131 AGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCTT-TCAAAAAAAA
* * * * * *
12269615 TCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTA
195 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTA
*
12269666 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
** *
12269731 ACACGCCAAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTG
66 ACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTG
*
12269796 AGCCTCAGGTCACACGCCAAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAAAAAAAA
131 AGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTG-CTTTCAAAAAAAA
*
12269861 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
195 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTA
* * * *
12269912 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATC
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
** * * * * *** * *
12269976 ACACATTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATTAACTTACATTGCGAGATGTGAG
66 ACACGCTGAGGTA--TTTTCAATTTCT-GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAG
* * * ** * *
12270041 TTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTATTTTTCAGA-TTCTGTTTTC---AA
128 TTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCA-ATTTCTGCTTTCAAAAA
* * *
12270102 AAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGTGCTGAGCTA
192 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTA
* * *
12270156 TTTTCAATTTCTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTC---TGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
12270216 TTTTTAATTT
Statistics
Matches: 486, Mismatches: 53, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
244 123 0.25
245 50 0.10
246 178 0.37
247 25 0.05
248 109 0.22
249 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (245 bp):
TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
ACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTG
AGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCTTTCAAAAAAAAT
CAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTA
Found at i:12269914 original size:92 final size:90
Alignment explanation
Indices: 12269744--12269932 Score: 256
Period size: 92 Copynumber: 2.1 Consensus size: 90
12269734 CGCCAAGGTA
* *
12269744 TTTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCAC
1 TTTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
*
12269809 ACGCCAAGGTATTTTCAATTTCTGT
66 ACGCCAAGCTATTTTCAATTTCTGT
* *
12269834 TTTTCAATTTCTGCCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGC
1 TTTTCAATTTCTG--TTGTC-AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-
* **
12269897 TCACGCGCTGAGCTATTTTCAATTTCTGT
62 TCACACGCCAAGCTATTTTCAATTTCTGT
12269926 TTTTCAA
1 TTTTCAA
12269933 AAAAATCAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
90 13 0.15
91 4 0.05
92 70 0.80
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (90 bp):
TTTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
ACGCCAAGCTATTTTCAATTTCTGT
Found at i:12269962 original size:77 final size:77
Alignment explanation
Indices: 12269834--12270464 Score: 357
Period size: 88 Copynumber: 7.8 Consensus size: 77
12269824 CAATTTCTGT
*** *
12269834 TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTTCTATTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTC
*
12269899 ACGCGCTGAGCTA
65 ACACGCTGAGCTA
* * *
12269912 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCA
1 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCA
** *
12269977 CACATTGAGGTA
66 CACGCTGAGCTA
* * * * * ** *
12269989 TTTTTTCAATTTATATTTTTCAAAAAAATTAACTTACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCT
* *
12270054 CACATG-TCGAGGTA
64 CACACGCT-GAGCTA
** * *
12270068 TTTTCAAAATCTATTTTTCAGATTCTGTTTTCAAAAATTAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCTATTTTTCA-A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
**
12270133 GCCTTAGCTCACGTGCTGAGCTA
55 GCCTTAGCTCACACGCTGAGCTA
* *
12270156 TTTTCAATTTCTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTT
1 TTTTCAATTTC---TATTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTT
* * * *
12270221 AATTTCTGCGAGA-GTTGAGTTGA
60 -A--GCT-C-ACACGCTGAGCT-A
* * *
12270244 GTCTTTTAATTTCTATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-
1 -T-TTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TAGC
** *
12270306 TCACA-TATCGAGGTA
63 TCACACGCT-GAGCTA
*
12270321 TTTTCAAAATCTACTTTTCAAGTTAAGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTC---A---A--TTTCTA-TT---TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * *
12270385 AGCCTCAG--GACACGCTGAGGTA
54 AGCCTTAGCTCACACGCTGAGCTA
* * * * *
12270407 TTTTTAAATTTATATTTTTC--AAAAATCAATTCATATTGCGATATGTGAGTTGAGCCTT
1 -TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
12270465 GGGTTCACAT
Statistics
Matches: 441, Mismatches: 66, Indels: 96
0.73 0.11 0.16
Matches are distributed among these distances:
74 34 0.08
75 7 0.02
76 1 0.00
77 72 0.16
78 27 0.06
79 68 0.15
80 5 0.01
81 30 0.07
82 2 0.00
83 7 0.02
84 33 0.07
85 5 0.01
86 11 0.02
87 26 0.06
88 93 0.21
89 2 0.00
90 10 0.02
91 8 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (77 bp):
TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCA
CACGCTGAGCTA
Found at i:12270118 original size:412 final size:408
Alignment explanation
Indices: 12269283--12270215 Score: 1100
Period size: 412 Copynumber: 2.3 Consensus size: 408
12269273 TGTTTTAATT
*
12269283 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAATTTCTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTCTGT
* *
12269346 TGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
66 TGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTT
12269411 TCAATTTTCGTTTTTCAATTTCCGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
131 TCAATTTTCGTTTTTCAATTTCCGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * * *
12269476 AGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGC
196 AGCCTCAGGACACGCTGAGCTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGA
* * ** *
12269541 GGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTTAATTTTTGCTTGT
261 GGCGAGTTGAGCCTCAGATCACACACCGAGGTATTTT--ATTTCCG-AATTTAATTATT-CTTGT
* *
12269606 CAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTC
322 CAAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTC
** *
12269671 AATTTCTGTCTTTCAAAAAAAA
387 AAAATCTATCTTTCAAAAAAAA
* **
12269693 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAATTTCTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTCTGT
*
12269758 TGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTT
66 TGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTT
*
12269823 TCAA-TTTCTGTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
131 TCAATTTTC-GTTTTTCAATTTCCGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * *
12269887 GAGCCT-TGGCTCACGCGCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTG
195 GAGCCTCAGG---ACACGCTGAGCTAATTTCAATTTCTG-TTGTCAAAAAAATCAACTCATATTG
* * * **
12269951 CGAGAGGTGAGTTGAGCTTTAGATCACACATTGAGGTA-TTT-TTT-C-AATTT-A-TATT-TT-
256 CGAGAGGCGAGTTGAGCCTCAGATCACACACCGAGGTATTTTATTTCCGAATTTAATTATTCTTG
* * * * * * *
12270008 TC-AAAAAAATTAACTTACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTT
321 TCAAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTT
* *
12270072 CAAAATCTATTTTTCAGATTCTGTTTTCAAAAA
386 CAAAATCTATCTTTCA-A---------AAAAAA
* * * * ** *
12270105 TTAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGTGCTGAGCTATTTTCAATTTCTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTC---
* * * *
12270170 TTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
63 -TGTTGTCAAAAAAA-TCAACTCGTATTGCGAGAGGCGAGTTGAGC
12270216 TTTTTAATTT
Statistics
Matches: 446, Mismatches: 55, Indels: 37
0.83 0.10 0.07
Matches are distributed among these distances:
402 65 0.15
403 3 0.01
404 2 0.00
406 3 0.01
407 1 0.00
408 3 0.01
410 36 0.08
411 9 0.02
412 207 0.46
414 26 0.06
415 52 0.12
416 12 0.03
417 27 0.06
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (408 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTCTGT
TGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTT
TCAATTTTCGTTTTTCAATTTCCGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCAGGACACGCTGAGCTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGA
GGCGAGTTGAGCCTCAGATCACACACCGAGGTATTTTATTTCCGAATTTAATTATTCTTGTCAAA
AAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAAAA
TCTATCTTTCAAAAAAAA
Found at i:12270192 original size:248 final size:244
Alignment explanation
Indices: 12269422--12270463 Score: 1004
Period size: 246 Copynumber: 4.2 Consensus size: 244
12269412 CAATTTTCGT
* **
12269422 TTTTCAATTTCCGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-
1 TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GAT
* * * * *
12269486 CACGC--TGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGCGGCGAGTT
65 CACACATTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTT
** ** * * *
12269549 GAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTTAATTTTTGCTTGTCAAAAAAA
130 GAGCCTCAGGTCACACGCCGAGGTATTTTCAAAATCTATTTTTCAATTTCTGCTTTTC--AAAAA
* * * * * *
12269614 ATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTA
193 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTA
* * *
12269666 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
1 TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
**** * *
12269731 ACACGCCAAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTG
66 ACACATTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTG
* ** * *
12269796 AGCCTCAGGTCACACGCCAAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAAAAAAAA
131 AGCCTCAGGTCACACGCCGAGGTATTTTCAAAATCTATTTTTCAATTTCTGCTTTTC--AAAAAA
*
12269861 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
194 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTA
* *
12269912 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATC
1 TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
* * * * * * * *
12269976 ACACATTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATTAACTTACATTGCGAGATGTGAG
66 ACACATTGAGGTA--TTTTCAATTTCT-GTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAG
* * *
12270041 TTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTATTTTTCAGA-TTCTG-TTTTC-AAA
128 TTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAAATCTATTTTTCA-ATTTCTGCTTTTCAAAA
* * *
12270103 AATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGTGCTGAGCTA
192 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTA
* * * *
12270156 TTTTCAATTTCTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTT
1 TTTTCAATTTC---TGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC--CTC
* * * * * *
12270221 A-ATTTCTGCGAGAGTTGAGTTGAGTCTTTTAATTTCTATTTTTC--AAAAATCAACTCATATTG
61 AGA--TC-AC-ACA-TTGAGGT-A-T-TTTCAATTTCT-GTTGTCAAAAAAATCAACTCATATTG
* * *** * * **
12270283 CGAGAGGTGAGTTGAACCTCCA-GTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAGTTAA
117 CGAGAGGCGAGTTGAGCCT-CAGGTCACACGCCGAGGTATTTTCAAAATCTATTTTTCAATTTCT
* * * *
12270347 G--TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTA
181 GCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTA
* * * * * *
12270407 TTTTTAAATTTATATTTTTC---AAAAATCAATTCATATTGCGATATGTGAGTTGAGCCT
1 -TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
12270464 TGGGTTCACA
Statistics
Matches: 686, Mismatches: 88, Indels: 48
0.83 0.11 0.06
Matches are distributed among these distances:
243 1 0.00
244 126 0.18
245 50 0.07
246 205 0.30
247 22 0.03
248 109 0.16
249 9 0.01
250 4 0.01
251 12 0.02
252 15 0.02
253 108 0.16
254 8 0.01
255 17 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (244 bp):
TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
ACACATTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTG
AGCCTCAGGTCACACGCCGAGGTATTTTCAAAATCTATTTTTCAATTTCTGCTTTTCAAAAAATC
AACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTA
Found at i:12270233 original size:30 final size:30
Alignment explanation
Indices: 12270197--12270257 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
12270187 CAACTCATAT
12270197 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
12270227 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
12270257 T
1 T
12270258 ATTTTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.43
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:12277113 original size:31 final size:31
Alignment explanation
Indices: 12277035--12277114 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 31
12277025 TATTGAGAAC
*
12277035 TTTAATAATTAAAATTAAAATTAAAATTTTGA
1 TTTAATAATT-AAATAAAAATTAAAATTTTGA
* *
12277067 -TAAATTCAAAT-AATAAAAATTAAAATATTT-A
1 TTTAA-T-AATTAAATAAAAATTAAAAT-TTTGA
12277098 TTTAATAATTAAATAAA
1 TTTAATAATTAAATAAA
12277115 CAATAAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
30 3 0.08
31 25 0.66
32 7 0.18
33 3 0.08
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (31 bp):
TTTAATAATTAAATAAAAATTAAAATTTTGA
Found at i:12278522 original size:3 final size:3
Alignment explanation
Indices: 12278511--12278590 Score: 65
Period size: 3 Copynumber: 26.3 Consensus size: 3
12278501 AATAATAGCT
* * * * *
12278511 ATA AAA ATA ATA ATA ATA ATA ATA ACA ATA ATG ACA ATAA AGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
*
12278557 ATA GA-A ATA ATA ATA ATA ATGA A-A ATA AGA ATA A
1 ATA -ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA A
12278591 CATTTGGAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
2 3 0.05
3 52 0.87
4 5 0.08
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.24
Consensus pattern (3 bp):
ATA
Found at i:12278916 original size:56 final size:56
Alignment explanation
Indices: 12278798--12278919 Score: 142
Period size: 56 Copynumber: 2.2 Consensus size: 56
12278788 ATATTAAGTT
* * * *
12278798 ACAATAGTAAAATAATAATAGTAATAATAATAGTGATAATAATAGTATATTAGATA
1 ACAATAATAAAATAATAATAGTAATAATAATAGAGATAATAATAGTATATAAAATA
*
12278854 ACAATAATAAAATAAT-A-AGTAATGATAATAGAGTATAAATAATAGT-TATGAAAATA
1 ACAATAATAAAATAATAATAGTAATAATAATAGAG-AT-AATAATAGTATAT-AAAATA
*
12278910 ATAATAATAA
1 ACAATAATAA
12278920 TAGTGACGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
54 14 0.25
55 6 0.11
56 37 0.65
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.30
Consensus pattern (56 bp):
ACAATAATAAAATAATAATAGTAATAATAATAGAGATAATAATAGTATATAAAATA
Found at i:12278941 original size:3 final size:3
Alignment explanation
Indices: 12278753--12278921 Score: 105
Period size: 3 Copynumber: 55.7 Consensus size: 3
12278743 TTAATTAGTT
* * * *
12278753 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA AAA TAT TAA GTTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * * * *
12278799 CAA TAG TAA -AA TAA TAA TAG TAA TAA TAA TAG TGA TAA TAA TAG T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
12278845 TAT TAGA TAA CAA TAA TAA -AA TAA TAA GTAA TGA TAA TAGA GT-A TAAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA-A -TAA T-AA
* *
12278893 TAA TAG TTA TGAA -AA TAA TAA TAA TAA TA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA
12278922 GTGACGATAG
Statistics
Matches: 125, Mismatches: 29, Indels: 24
0.70 0.16 0.13
Matches are distributed among these distances:
2 8 0.06
3 105 0.84
4 11 0.09
5 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:12279115 original size:23 final size:23
Alignment explanation
Indices: 12279065--12279109 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
12279055 TTAATAACAA
12279065 TAATAATAATATGTAAAAATAGG
1 TAATAATAATATGTAAAAATAGG
*
12279088 AAATAATAATATGGTAAAAATA
1 TAATAATAATAT-GTAAAAATA
12279110 TTAATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (23 bp):
TAATAATAATATGTAAAAATAGG
Found at i:12280845 original size:44 final size:44
Alignment explanation
Indices: 12280782--12281150 Score: 212
Period size: 43 Copynumber: 8.5 Consensus size: 44
12280772 AATTTCCAGC
* *
12280782 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCACCTTCGAT
* *
12280826 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTTGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCACCTTCGAT
* * ** * ** *
12280870 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTAT-AAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCACCTTCGA-T
* ***** ** *
12280913 CTGTTACCCTACTGCTTAGGGGGTTAAGATTTGT-AAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCACCTTCGA-T
* ** ** ** *
12280956 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCACCTTCGA-T
* * * *
12280999 CTGTTACCCTACTGCCTAGGGGTTTAAGGCCCACCACCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCACCTTCGAT
* * * ** ** * ** * *
12281043 CTGTTTCTCTACTGCTTAGGGTGATAAGATCTGTAAATTTAG-C
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCACCTTCGAT
* * * *
12281086 CTATTACCCTACTACTTAGGGGTTTAAGGCCCATCACCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCACCTTCGAT
*
12281130 CTGTTTCCCTACTACTTAGGG
1 CTGTTTCCCTACTGCTTAGGG
12281151 AATTAAGATC
Statistics
Matches: 257, Mismatches: 64, Indels: 8
0.78 0.19 0.02
Matches are distributed among these distances:
42 1 0.00
43 137 0.53
44 118 0.46
45 1 0.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (44 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCACCTTCGAT
Found at i:12280933 original size:87 final size:87
Alignment explanation
Indices: 12280826--12281203 Score: 510
Period size: 87 Copynumber: 4.4 Consensus size: 87
12280816 CGCCTTCGAT
* *
12280826 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTTGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGG
*
12280891 TGATAAGATCTATAAATTCAGC
66 TGATAAGATCTGTAAATTCAGC
* ***** ** * *
12280913 CTGTTACCCTACTGCTTAGGGGGTTAAGATTTGT-AAATTC-AGCCTGTTACCCTACTGCTTAGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGA-TCTGTTTCCCTACTGCTTAGG
* *
12280976 GGGTTAAGATCTGTAAATTCAGC
65 GTGATAAGATCTGTAAATTCAGC
* * *
12280999 CTGTTACCCTACTGCCTAGGGGTTTAAGGCCCACCACCTTCGATCTGTTTCTCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGG
*
12281064 TGATAAGATCTGTAAATTTAGC
66 TGATAAGATCTGTAAATTCAGC
* * *
12281086 CTATTACCCTACTACTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTACTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGG
*
12281151 -AATTAAGATCTGTAAATTCAGC
66 TGA-TAAGATCTGTAAATTCAGC
12281173 CTGTTACCCTACTGCTTAGGGGTTTAAGGCC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCC
12281204 TGTGGATTTA
Statistics
Matches: 246, Mismatches: 41, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
85 1 0.00
86 69 0.28
87 175 0.71
88 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (87 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGG
TGATAAGATCTGTAAATTCAGC
Found at i:12281200 original size:43 final size:43
Alignment explanation
Indices: 12280870--12281200 Score: 292
Period size: 43 Copynumber: 7.7 Consensus size: 43
12280860 CACCTTTGAT
* * *
12280870 CTGTTTCCCTACTGCTTA-GGGTGATAAGATCTATAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGT-TTAAGATCTGTAAATTCAGC
* *
12280913 CTGTTACCCTACTGCTTAGGGGGTTAAGATTTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTCAGC
*
12280956 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTCAGC
* ** *** ** *
12280999 CTGTTACCCTACTGCCTAGGGGTTTAAGGCCCACCACCTTC-GAT
1 CTGTTACCCTACTGCTTAGGGGTTTAA-GATCTGTAAATTCAG-C
* * * *
12281043 CTGTTTCTCTACTGCTTA-GGGTGATAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGGGT-TTAAGATCTGTAAATTCAGC
* * ** ** ** *
12281086 CTATTACCCTACTACTTAGGGGTTTAAGGCCCATCACCTTC-GAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGATCTGT-AAATTCAG-C
* * **
12281130 CTGTTTCCCTACTACTTAGGGAATTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTCAGC
12281173 CTGTTACCCTACTGCTTAGGGGTTTAAG
1 CTGTTACCCTACTGCTTAGGGGTTTAAG
12281201 GCCTGTGGAT
Statistics
Matches: 222, Mismatches: 57, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
43 160 0.72
44 62 0.28
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTCAGC
Found at i:12283168 original size:30 final size:30
Alignment explanation
Indices: 12283130--12283369 Score: 290
Period size: 30 Copynumber: 7.8 Consensus size: 30
12283120 ACTTTTCTCA
*
12283130 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
12283160 ATTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* * *
12283190 ACTAG-C-CA-C-TCTCCACAACTTAAACTTTTCTC
1 ACTAGCCACACCTTTTCCACCAC--CAAC---TC-C
*
12283222 AACTAGCCACTCCTTTTCCACCACCAACTCC
1 -ACTAGCCACACCTTTTCCACCACCAACTCC
12283253 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
12283283 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
12283313 ACTAGCCACACACCTTTTCCACCACCAACTCC
1 ACTAG-C-CACACCTTTTCCACCACCAACTCC
*
12283345 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
12283370 CTTGTACCTA
Statistics
Matches: 181, Mismatches: 16, Indels: 26
0.81 0.07 0.12
Matches are distributed among these distances:
26 8 0.04
27 1 0.01
28 5 0.03
29 1 0.01
30 112 0.62
31 5 0.03
32 30 0.17
33 5 0.03
34 1 0.01
35 4 0.02
36 1 0.01
37 8 0.04
ACGTcount: A:0.26, C:0.47, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:12283268 original size:93 final size:94
Alignment explanation
Indices: 12283109--12283369 Score: 376
Period size: 93 Copynumber: 2.8 Consensus size: 94
12283099 AAAACCTTGC
*
12283109 CCACAACTTAAACTTTTCTCAACTAGCCACTCCTTTTCCACCACCAACTCCATTAGCCACACCTT
1 CCACAACTTAAACTTTTCTCAACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTT
12283174 TTCCACCACCAACTCCACTAGCCACTC-T
66 TTCCACCACCAACTCCACTAGCCACTCTT
12283202 CCACAACTTAAACTTTTCTCAACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTT
1 CCACAACTTAAACTTTTCTCAACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTT
12283267 TTCCACCACCAACTCCACTAGCCACTCTTTTT
66 TTCCACCACCAACTCCACTAGCCACTC---TT
* * *
12283299 CCACCAC--CAAC---TC-C-ACTAGCCACACACCTTTTCCACCACCAACTCCACTAGCCACACC
1 CCACAACTTAAACTTTTCTCAACTAG-C-CACTCCTTTTCCACCACCAACTCCACTAGCCACACC
*
12283357 TTCTCCACCACCA
64 TTTTCCACCACCA
12283370 CTTGTACCTA
Statistics
Matches: 157, Mismatches: 5, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
90 5 0.03
91 2 0.01
92 49 0.31
93 91 0.58
95 3 0.02
97 7 0.04
ACGTcount: A:0.27, C:0.46, G:0.03, T:0.24
Consensus pattern (94 bp):
CCACAACTTAAACTTTTCTCAACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTT
TTCCACCACCAACTCCACTAGCCACTCTT
Found at i:12292813 original size:43 final size:44
Alignment explanation
Indices: 12292752--12292841 Score: 164
Period size: 43 Copynumber: 2.1 Consensus size: 44
12292742 TGATATCTGA
12292752 GAAACGTCGATTACTCGTAAAGCTCAAAGACAGGTATGAGG-CT
1 GAAACGTCGATTACTCGTAAAGCTCAAAGACAGGTATGAGGCCT
*
12292795 GAAACGTCGATTACTCGTAAAGCTCGAAGACAGGTATGAGGCCT
1 GAAACGTCGATTACTCGTAAAGCTCAAAGACAGGTATGAGGCCT
12292839 GAA
1 GAA
12292842 GAGAAGGTCG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 40 0.89
44 5 0.11
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (44 bp):
GAAACGTCGATTACTCGTAAAGCTCAAAGACAGGTATGAGGCCT
Found at i:12293293 original size:69 final size:71
Alignment explanation
Indices: 12293125--12293301 Score: 205
Period size: 72 Copynumber: 2.5 Consensus size: 71
12293115 CTTTCCAAGG
* ** * * *
12293125 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGGATTTTTAAGTTTA
*
12293190 TTTTTT
66 TGTTTT
* ** *
12293196 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGGATTTTT-AGTTT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGGATTTTTAAGTTT
12293260 ATGTTTT
65 ATGTTTT
** *
12293267 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
12293302 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
69 31 0.34
71 9 0.10
72 50 0.56
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGGATTTTTAAGTTTA
TGTTTT
Found at i:12293420 original size:71 final size:72
Alignment explanation
Indices: 12293305--12293508 Score: 218
Period size: 80 Copynumber: 2.8 Consensus size: 72
12293295 TAAGCCTTTT
*
12293305 AATTTTTGTTTTTC-AAAATCAACTCATATTGCT-AGAAGTGAGTTGAGCCTCAAG-AC-GCTGA
1 AATTTTTGTTTTTCAAAAATCAACTCATATTG-TGAGAGGTGAGTTGAGCCTC-AGTACAGCTGA
12293366 GGTAATTTC
64 GGTAATTTC
* *
12293375 AATTTTTGTTTGTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGTTCACATGCTG
1 AATTTTTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAG-T-ACA-GCTG
*
12293440 AGGTATTTTC
63 AGGTAATTTC
* * * *
12293450 AATTTCTGTTTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AATTTTTG-TTTTT----CAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAG
12293509 ATTACACACT
Statistics
Matches: 112, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
70 15 0.13
71 34 0.30
73 2 0.02
75 20 0.18
76 4 0.04
80 37 0.33
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (72 bp):
AATTTTTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGTACAGCTGAGG
TAATTTC
Found at i:12293743 original size:72 final size:73
Alignment explanation
Indices: 12293662--12293803 Score: 234
Period size: 72 Copynumber: 2.0 Consensus size: 73
12293652 TCAAAATCAG
*
12293662 CTCATATTGCAAGAGGTGAGTTGAGCCTCGAGG-CACGCTGAGGTATTTTCAATTTTTG-TGTTT
1 CTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTCAATTTTCGTTGTTT
12293725 TAATTTCAA
65 TAATTTCAA
* *
12293734 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTTTTTT
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTT
12293799 AATTT
66 AATTT
12293804 ATGTTTCAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
71 3 0.05
72 52 0.80
73 10 0.15
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (73 bp):
CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTT
AATTTCAA
Found at i:12293982 original size:73 final size:71
Alignment explanation
Indices: 12293795--12293994 Score: 247
Period size: 73 Copynumber: 2.8 Consensus size: 71
12293785 ATTTTCGTTT
** * * *
12293795 TTTTAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCT
1 TTTTAATTTATG-TTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACACT
12293860 GAGGTAA
65 GAGGTAA
* * **
12293867 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACAC
1 TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACAC
**
12293932 TGAGGTGG
64 TGAGGTAA
* * *
12293940 TTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT
1 TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
12293995 TGGCTCACAC
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
71 40 0.37
72 10 0.09
73 58 0.54
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (71 bp):
TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACACTG
AGGTAA
Found at i:12294004 original size:73 final size:73
Alignment explanation
Indices: 12293795--12294023 Score: 225
Period size: 73 Copynumber: 3.1 Consensus size: 73
12293785 ATTTTCGTTT
** * *
12293795 TTTTAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC-T--CAAGAC
1 TTTTAATTTATG-TTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-ACAC
*
12293857 GCTGAGGTAA
64 ACTGAGGTAA
* * ** *
12293867 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACA
1 TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCACACA
**
12293931 CTGAGGTGG
65 CTGAGGTAA
* * *
12293940 TTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACAC
1 TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG--CACAC
*
12294005 GCTGAGGT-A
64 ACTGAGGTAA
12294014 TTTTCAATTT
1 TTTT-AATTT
12294024 CTAGTTTTCA
Statistics
Matches: 127, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
71 37 0.29
72 12 0.09
73 58 0.46
74 4 0.03
75 16 0.13
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCACACAC
TGAGGTAA
Found at i:12294048 original size:14 final size:14
Alignment explanation
Indices: 12294014--12294044 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
12294004 CGCTGAGGTA
12294014 TTTTCAATTTCTAG
1 TTTTCAATTTCTAG
12294028 TTTTCAATTTCT-G
1 TTTTCAATTTCTAG
12294041 TTTT
1 TTTT
12294045 TCAAAAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (14 bp):
TTTTCAATTTCTAG
Found at i:12294083 original size:162 final size:161
Alignment explanation
Indices: 12293867--12294344 Score: 579
Period size: 162 Copynumber: 3.0 Consensus size: 161
12293857 GCTGAGGTAA
* * *
12293867 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACAC
1 TTTCAATTTCTGTTTATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
** * * * * *
12293932 TGAGGTGGTTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTG
66 TGAGGTAATTTCAATTTCTGTTTATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
12293997 GCTCACACGCTGAGGTATTTTCAATTTCTAGT
131 GCTCACACGCTGAGGTATTTTCAATTTCT-GT
* * *
12294029 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTCTGTTTATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
12294094 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG-CTTC
66 TGAGGTAATTTCAATTTCTGTTTATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTT-
* *
12294158 GGCTCACATGCTGAGGTCTTTTCAATTTCTG-
130 GGCTCACACGCTGAGGTATTTTCAATTTCTGT
* ** *
12294189 -------TTC-G-TAAAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
** *
12294245 TGAGGTAATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
66 TGAGGTAATTTCAATTTCTG-T-TTATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
12294310 CAGG---ACACGCTGAGGTATTTTTAAATTTCTGT
129 -TGGCTCACACGCTGAGGTA-TTTTCAATTTCTGT
12294342 TTT
1 TTT
12294345 TCAAAAATCA
Statistics
Matches: 276, Mismatches: 30, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
151 76 0.28
152 14 0.05
153 38 0.14
154 4 0.01
161 4 0.01
162 140 0.51
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (161 bp):
TTTCAATTTCTGTTTATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTCTGTTTATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
GCTCACACGCTGAGGTATTTTCAATTTCTGT
Found at i:12294133 original size:235 final size:225
Alignment explanation
Indices: 12293654--12294383 Score: 795
Period size: 235 Copynumber: 3.2 Consensus size: 225
12293644 CTACTTTTTC
* * * *
12293654 AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACACTGAGGTATTTTCAATTTAT
** * *
12293719 GTGT--TTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
65 GT-TCATAAAAATT-AACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
* *
12293782 TCAATTTTCGTTTTTTTAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
128 TCAA-TTTC--TGTTTTAATTT-TGTTT---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * *
12293847 GCCTC-AAGACGCTGAGGTAATTTCAATTTTTGTTTGTCA
186 GCCTCGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
*
12293886 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTGGTTTT-AATTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACTGAGGT-ATTTTCAATTTA
* *
12293950 TGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTA
64 TGTTCAT-AAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTA
* *
12294014 TTTTCAATTTCTAGTTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTG
125 TTTTCAATTTCT-GTTTT-AATTT-TG--TTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
12294079 AGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
185 AGCCTC-GGACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
* * *
12294121 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCTTC-GGCTCACATGCTGAGGTCTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--CACA--CTGAGGTATTTTCAATT
* * * *
12294185 TCTGTTCGTAAAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
62 TATGTTC----ATAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
12294250 TAATTTCAATTTCTGTTGTTAA--------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
123 TATTTTCAATTTCTGTT-TTAATTTTGTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * *
12294307 CCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCA
187 CCTC-GGACACGCTGAGGTA-ATTTCAATTTCTGTTTGTCA
*
12294348 AAAATCAACTCATATTGCGAGATGTGAGTTGAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
12294384 TGGGTTCACA
Statistics
Matches: 434, Mismatches: 39, Indels: 55
0.82 0.07 0.10
Matches are distributed among these distances:
226 52 0.12
227 50 0.12
231 4 0.01
232 56 0.13
233 73 0.17
234 17 0.04
235 90 0.21
236 7 0.02
237 22 0.05
238 26 0.06
240 34 0.08
241 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (225 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACTGAGGTATTTTCAATTTATG
TTCATAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
ATTTCTGTTTTAATTTTGTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACA
CGCTGAGGTAATTTCAATTTCTGTTTGTCA
Found at i:12294148 original size:73 final size:73
Alignment explanation
Indices: 12294029--12294383 Score: 462
Period size: 75 Copynumber: 4.8 Consensus size: 73
12294019 AATTTCTAGT
* * *
12294029 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
12294094 TGAGGTAA
66 TGAGGTAA
* *
12294102 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCTTC-GGCTCACA
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
* **
12294166 TGCTGAGGTCT
63 CGCTGAGGTAA
* * *
12294177 TTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGTTTGT---CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
12294242 CGCTGAGGTAA
63 CGCTGAGGTAA
*
12294253 TTTCAATTTCTG-TTGTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGTTTG-T--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
12294317 CGCTGAGGTATT
63 CGCTGAGGTA-A
* * *
12294329 TTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCT
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
12294384 TGGGTTCACA
Statistics
Matches: 250, Mismatches: 22, Indels: 19
0.86 0.08 0.07
Matches are distributed among these distances:
72 2 0.01
73 52 0.21
74 36 0.14
75 85 0.34
76 36 0.14
77 2 0.01
78 35 0.14
79 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (73 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAA
Found at i:12294322 original size:151 final size:147
Alignment explanation
Indices: 12294028--12294383 Score: 457
Period size: 151 Copynumber: 2.4 Consensus size: 147
12294018 CAATTTCTAG
* *** * *
12294028 TTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
1 TTTTAAATTTCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * *
12294093 CTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCTTC
66 CTGAGGTAATTTCAATTTCTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
12294158 GGCTCACATGCTGAGGT-C
131 GG--CACACGCTGAGGTAC
* *
12294176 TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTAAATTTCTGTT--T-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
12294241 ACGCTGAGGTAATTTCAATTTCTG-TTGTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
63 ACGCTGAGGTAATTTCAATTTCTGTTTG-T--AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
12294305 AGCCTCAGG-ACACGCTGAGGTAT
125 AGCCTC-GGCACACGCTGAGGTAC
*** *
12294328 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCT
1 TTTTAAATTTCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
12294384 TGGGTTCACA
Statistics
Matches: 183, Mismatches: 17, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
148 15 0.08
149 35 0.19
150 5 0.03
151 76 0.42
152 14 0.08
153 36 0.20
154 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (147 bp):
TTTTAAATTTCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTAATTTCAATTTCTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
GGCACACGCTGAGGTAC
Found at i:12295131 original size:30 final size:30
Alignment explanation
Indices: 12295095--12295232 Score: 240
Period size: 30 Copynumber: 4.6 Consensus size: 30
12295085 ACTTTTCTCA
12295095 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
* *
12295125 ACTAGCCACACCTTTTCCACCACCCACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
12295155 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
12295185 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
12295215 ACTAGCCACTCTTTTTCC
1 ACTAGCCACTCCTTTTCC
12295233 NNNNNNNNNN
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 101 1.00
ACGTcount: A:0.22, C:0.49, G:0.04, T:0.25
Consensus pattern (30 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCC
Found at i:12295553 original size:16 final size:15
Alignment explanation
Indices: 12295529--12295576 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
12295519 TAATTATTAT
*
12295529 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
12295545 TATTTTAATATTTTA
1 TATTTTAATATTTTA
12295560 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
12295576 T
1 T
12295577 TATTCCCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:12295564 original size:7 final size:8
Alignment explanation
Indices: 12295529--12295580 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
12295519 TAATTATTAT
*
12295529 TATTCTAA
1 TATTTTAA
*
12295537 TATTTTGA
1 TATTTTAA
12295545 TATTTTAA
1 TATTTTAA
12295553 TATTTT-A
1 TATTTTAA
12295560 TATTTTATA
1 TATTTTA-A
*
12295569 TATTTTAT
1 TATTTTAA
12295577 TATT
1 TATT
12295581 CCCATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:12296277 original size:195 final size:195
Alignment explanation
Indices: 12295945--12296334 Score: 744
Period size: 195 Copynumber: 2.0 Consensus size: 195
12295935 TAAATTTTCT
*
12295945 CTGGATTTTAACGTAGACCTAAACTCAGCCTTTTATTTGTTTTAATAAAAGATCTAATAGGTGTC
1 CTGGATTTTAACGTAGACCTAAACTCAACCTTTTATTTGTTTTAATAAAAGATCTAATAGGTGTC
*
12296010 CGATCACACCTAGGAAAAAGGATCGGTGGCGACTCCCTATTTATTTCAAAAATCAAACGTCAAAT
66 CGATCACACCTAGGAAAAAGGATCGGTGGCGACTCCATATTTATTTCAAAAATCAAACGTCAAAT
12296075 TTCAAAAAAAAATTCAATAAATCGCCACAATTAGCGACCAAGCTAAGCTAAAATTTTTACGTCGC
131 TTCAAAAAAAAATTCAATAAATCGCCACAATTAGCGACCAAGCTAAGCTAAAATTTTTACGTCGC
*
12296140 CTGGATTTTAACGTAGACCTAAACTCAACCTTTTATTTGTTTTAATAAGAGATCTAATAGGTGTC
1 CTGGATTTTAACGTAGACCTAAACTCAACCTTTTATTTGTTTTAATAAAAGATCTAATAGGTGTC
12296205 CGATCACACCTAGGAAAAAGGATCGGTGGCGACTCCATATTTATTTCAAAAATCAAACGTCAAAT
66 CGATCACACCTAGGAAAAAGGATCGGTGGCGACTCCATATTTATTTCAAAAATCAAACGTCAAAT
*
12296270 TTCAAAAAAAATTTCAATAAATCGCCACAATTAGCGACCAAGCTAAGCTAAAATTTTTACGTCGC
131 TTCAAAAAAAAATTCAATAAATCGCCACAATTAGCGACCAAGCTAAGCTAAAATTTTTACGTCGC
12296335 TACAGCTGGC
Statistics
Matches: 191, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
195 191 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (195 bp):
CTGGATTTTAACGTAGACCTAAACTCAACCTTTTATTTGTTTTAATAAAAGATCTAATAGGTGTC
CGATCACACCTAGGAAAAAGGATCGGTGGCGACTCCATATTTATTTCAAAAATCAAACGTCAAAT
TTCAAAAAAAAATTCAATAAATCGCCACAATTAGCGACCAAGCTAAGCTAAAATTTTTACGTCGC
Found at i:12305693 original size:3 final size:3
Alignment explanation
Indices: 12305678--12306111 Score: 160
Period size: 3 Copynumber: 143.7 Consensus size: 3
12305668 GACAATAAAG
* *
12305678 AAT AAT AGA- AAT AAT AAT AAT AAT AAT AAT GAA- AAA AAT ATT AAGT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA-T
* * * * * * *
12305724 TAC AAT AGT AA- AAT AAT AAT AGT AAT AAT AAT AGT GAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
12305771 -AT ATT AGAT AAC AAT AAT AA- AAT AAT AAGT AAT AAT AAT AGAGT -AT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT A-A-T AAT
* * *
12305817 AAAT AAT AGT TAT GAA- AAT AAT AAC AAGT AAT AAT AAT AAT AAT AAT
1 -AAT AAT AAT AAT -AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
* * * * * *
12305864 AAT AAT AAT AAT AAT AAT AAT AAT AGT GAC GAT AGT AGT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * ** * * * *
12305911 ATT GAT AAT ACAT AAT AGA- AGG AAT AAT AA- AAG GAT -AT AAG GAT
1 AAT AAT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
12305955 AAT AGT AAT AGT AAT AAC AAT AAT AAT AAAG AAT -AC AAT ACATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-A-T AAT
* * * ** * * *
12306002 GAT AAT GAT AAT GAT ATAT GTT AAT AAC AAT AAT AAT AAT ATGT AAA
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* ** * * * *
12306049 AAT AGAA AAT AAT AAT -AT GGT AAA AAT ATT AAT -AT ATT AAT AAG
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
12306093 AAT AAT AGT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AA
12306112 GATTATAACA
Statistics
Matches: 309, Mismatches: 89, Indels: 66
0.67 0.19 0.14
Matches are distributed among these distances:
2 24 0.08
3 252 0.82
4 30 0.10
5 3 0.01
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:12306082 original size:23 final size:23
Alignment explanation
Indices: 12306031--12306076 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
12306021 GTTAATAACA
12306031 ATAATAATAATATGTAAAAATAG
1 ATAATAATAATATGTAAAAATAG
*
12306054 AAAATAATAATATGGTAAAAATA
1 ATAATAATAATAT-GTAAAAATA
12306077 TTAATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (23 bp):
ATAATAATAATATGTAAAAATAG
Found at i:12306893 original size:5 final size:5
Alignment explanation
Indices: 12306883--12306924 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
12306873 AATAGGTTCT
* *
12306883 AAATA AAATA AAATA AAATA AAATA ACAAAA AAAGA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A-AATA AAATA AAATA A
12306925 TAAACCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (5 bp):
AAATA
Found at i:12306901 original size:15 final size:16
Alignment explanation
Indices: 12306883--12306924 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
12306873 AATAGGTTCT
*
12306883 AAATAAAATAA-AATA
1 AAATAAAATAACAAAA
12306898 AAATAAAATAACAAAA
1 AAATAAAATAACAAAA
*
12306914 AAAGAAAATAA
1 AAATAAAATAA
12306925 TAAACCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (16 bp):
AAATAAAATAACAAAA
Found at i:12308662 original size:23 final size:23
Alignment explanation
Indices: 12308636--12308679 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
12308626 AGCTTAGGGT
*
12308636 TTCGAAACCAATAAAATTGTGGC
1 TTCGAAACCAATAAAACTGTGGC
12308659 TTCGAAACCAATAAAACTGTG
1 TTCGAAACCAATAAAACTGTG
12308680 TTGAGTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (23 bp):
TTCGAAACCAATAAAACTGTGGC
Found at i:12311936 original size:31 final size:31
Alignment explanation
Indices: 12311899--12311964 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 31
12311889 AGTTAAAGAT
12311899 TTAAGATATAATATCATTAGCT-AGTTAAGTC
1 TTAAGATATAATATCATTAGCTGA-TTAAGTC
*
12311930 TTAAGATATAATATCATTAGCTGATTAAGTT
1 TTAAGATATAATATCATTAGCTGATTAAGTC
12311961 TTAA
1 TTAA
12311965 CTCAATTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (31 bp):
TTAAGATATAATATCATTAGCTGATTAAGTC
Found at i:12316599 original size:34 final size:34
Alignment explanation
Indices: 12316548--12316621 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
12316538 TCCAAAGTTT
* * *
12316548 TAAACCCTAAACCTTGAATATTGACCTCAAATCC
1 TAAACCCCAAACCTTGAACATTGACCTCAAACCC
*
12316582 TAAACCCCAAACGTTGAACATTGACCTCAAACCC
1 TAAACCCCAAACCTTGAACATTGACCTCAAACCC
12316616 TAAACC
1 TAAACC
12316622 TTAAATATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.39, C:0.32, G:0.07, T:0.22
Consensus pattern (34 bp):
TAAACCCCAAACCTTGAACATTGACCTCAAACCC
Found at i:12317345 original size:15 final size:15
Alignment explanation
Indices: 12317309--12317351 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
12317299 CAAAGAAAAA
*
12317309 AAATAATGAGTAAACT
1 AAATTATGAGT-AACT
* *
12317325 ATATTATTAGTAACT
1 AAATTATGAGTAACT
12317340 AAATTATGAGTA
1 AAATTATGAGTA
12317352 GATTTTTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (15 bp):
AAATTATGAGTAACT
Found at i:12318447 original size:17 final size:17
Alignment explanation
Indices: 12318425--12318481 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
12318415 AGTCATAAAG
12318425 TTATTAAAAATAAAAAA
1 TTATTAAAAATAAAAAA
* * **
12318442 TTATTAAGATTGTAAAA
1 TTATTAAAAATAAAAAA
12318459 TTATTTAAAAATATAAATAA
1 TTA-TTAAAAATA-AAA-AA
12318479 TTA
1 TTA
12318482 AATAATTACT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
17 16 0.55
18 6 0.21
19 2 0.07
20 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (17 bp):
TTATTAAAAATAAAAAA
Found at i:12328766 original size:15 final size:16
Alignment explanation
Indices: 12328746--12328783 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
12328736 CAATGATTCG
12328746 ATTTTAGTTTTAAT-T
1 ATTTTAGTTTTAATGT
*
12328761 ATTTTAATTTTTAATGT
1 ATTTT-AGTTTTAATGT
12328778 ATTTTA
1 ATTTTA
12328784 TATTAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 5 0.25
16 9 0.45
17 6 0.30
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (16 bp):
ATTTTAGTTTTAATGT
Found at i:12331287 original size:19 final size:18
Alignment explanation
Indices: 12331245--12331575 Score: 106
Period size: 19 Copynumber: 17.6 Consensus size: 18
12331235 ACAAAATAAT
12331245 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
*
12331263 GATTTTTG-AAACACGAA
1 AATTTTTGAAAACACGAA
12331280 AATTTTTTGAAAACACGAAAACACAA
1 AA-TTTTTGAAAACACG-------AA
* **
12331306 AATATTTT--TAACACGGG
1 AAT-TTTTGAAAACACGAA
12331323 AATTTTTGAAAACACGACA
1 AATTTTTGAAAACACGA-A
** **
12331342 GTTTTTCTTTAAACACGAA
1 AATTTT-TGAAAACACGAA
*
12331361 ATTTTTTTGAAAACACAGAA
1 A-ATTTTTGAAAACAC-GAA
* * *
12331381 ATTTTTTGAAAACAAGGA
1 AATTTTTGAAAACACGAA
* * * *
12331399 AATTTTAG-ATACATGAG
1 AATTTTTGAAAACACGAA
12331416 AATTCTTTG---ACACGAA
1 AATT-TTTGAAAACACGAA
* * *
12331432 AAATTTTGAAAACATGAG
1 AATTTTTGAAAACACGAA
** *
12331450 AA-TTCCGAAAACATG--
1 AATTTTTGAAAACACGAA
* *
12331465 AATTTTTTAAAACATGAA
1 AATTTTTGAAAACACGAA
* *
12331483 ATTTTTTAAAAAACACGAGA
1 AATTTTT-GAAAACACGA-A
*
12331503 ATTTTTTGAAAACACGAAA
1 AATTTTTGAAAACACG-AA
**
12331522 ACATGAAAATTTTGAAAACACAGGT
1 A-AT-----TTTTGAAAACAC-GAA
12331547 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
*
12331565 AATTTCTGAAA
1 AATTTTTGAAA
12331576 GACGGGAGTT
Statistics
Matches: 236, Mismatches: 44, Indels: 66
0.68 0.13 0.19
Matches are distributed among these distances:
15 6 0.03
16 22 0.09
17 33 0.14
18 54 0.23
19 62 0.26
20 28 0.12
24 8 0.03
25 14 0.06
26 9 0.04
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:12331523 original size:27 final size:25
Alignment explanation
Indices: 12331492--12331542 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
12331482 AATTTTTTAA
*
12331492 AAAACACGAGAATTTTTTGAAAACACG
1 AAAACACGA-AA-ATTTTGAAAACACG
*
12331519 AAAACATGAAAATTTTGAAAACAC
1 AAAACACGAAAATTTTGAAAACAC
12331543 AGGTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 2 0.09
27 8 0.36
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.22
Consensus pattern (25 bp):
AAAACACGAAAATTTTGAAAACACG
Found at i:12331553 original size:44 final size:46
Alignment explanation
Indices: 12331473--12331566 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
12331463 TGAATTTTTT
* *
12331473 AAAACATGAAATTTTTTAAAAAACACGAGAATTTTTTGAAAACACG
1 AAAACATGAAAATTTTGAAAAAACACGAGAATTTTTTGAAAACACG
*
12331519 AAAACATGAAAATTTTGAAAACACA-G-GTAA-TTTTTGAAAACACG
1 AAAACATGAAAATTTTGAAAAAACACGAG-AATTTTTTGAAAACACG
12331563 AAAA
1 AAAA
12331567 TTTCTGAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 19 0.43
45 3 0.07
46 22 0.50
ACGTcount: A:0.52, C:0.11, G:0.12, T:0.26
Consensus pattern (46 bp):
AAAACATGAAAATTTTGAAAAAACACGAGAATTTTTTGAAAACACG
Found at i:12331631 original size:23 final size:24
Alignment explanation
Indices: 12331601--12331661 Score: 99
Period size: 23 Copynumber: 2.6 Consensus size: 24
12331591 TTGTTTTTTG
12331601 TTTT-ATTTTAAAACACGAAAA-T
1 TTTTCATTTTAAAACACGAAAATT
*
12331623 TTTTCATTTGAAAACACGAAAATT
1 TTTTCATTTTAAAACACGAAAATT
12331647 TTTTCATTTTAAAAC
1 TTTTCATTTTAAAAC
12331662 GCGATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.11
23 16 0.46
24 15 0.43
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (24 bp):
TTTTCATTTTAAAACACGAAAATT
Found at i:12331671 original size:23 final size:23
Alignment explanation
Indices: 12331601--12331661 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 23
12331591 TTGTTTTTTG
*
12331601 TTTT-ATTTTAAAACACGAAAAT
1 TTTTCATTTTAAAACACGAAATT
*
12331623 TTTTCATTTGAAAACACGAAAATT
1 TTTTCATTTTAAAACACG-AAATT
12331647 TTTTCATTTTAAAAC
1 TTTTCATTTTAAAAC
12331662 GCGATTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 4 0.12
23 12 0.35
24 18 0.53
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (23 bp):
TTTTCATTTTAAAACACGAAATT
Found at i:12332332 original size:14 final size:14
Alignment explanation
Indices: 12332313--12332343 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12332303 GAGCTGCACG
12332313 GGTGGGCCACTGCT
1 GGTGGGCCACTGCT
*
12332327 GGTGGGCTACTGCT
1 GGTGGGCCACTGCT
12332341 GGT
1 GGT
12332344 CCACCAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.23, G:0.45, T:0.26
Consensus pattern (14 bp):
GGTGGGCCACTGCT
Found at i:12332403 original size:7 final size:7
Alignment explanation
Indices: 12332364--12332394 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
12332354 TAGCCTGCTG
12332364 TTTTTTA
1 TTTTTTA
12332371 TTTTTTA
1 TTTTTTA
12332378 TTTTTTA
1 TTTTTTA
12332385 TTTTTTA
1 TTTTTTA
12332392 TTT
1 TTT
12332395 CTTTTTTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:12332410 original size:21 final size:21
Alignment explanation
Indices: 12332386--12332430 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
12332376 TATTTTTTAT
12332386 TTTTTATT-TCTTTTTTCTCTC
1 TTTTTATTCTCTTTTTTCT-TC
*
12332407 TTTTTCTTCCTCTTTTTTCTTC
1 TTTTTATT-CTCTTTTTTCTTC
12332429 TT
1 TT
12332431 CTCTTCTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 4 0.19
23 10 0.48
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTATTCTCTTTTTTCTTC
Found at i:12332435 original size:21 final size:23
Alignment explanation
Indices: 12332394--12332441 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
12332384 ATTTTTTATT
*
12332394 TCTTTTTTCTCTCTTTTTCTTCC
1 TCTTTTTTCTCTCTTTCTCTTCC
*
12332417 TCTTTTTTCT-TC-TTCTCTTCT
1 TCTTTTTTCTCTCTTTCTCTTCC
12332438 TCTT
1 TCTT
12332442 GTCTCAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 2 0.09
23 10 0.43
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (23 bp):
TCTTTTTTCTCTCTTTCTCTTCC
Found at i:12333018 original size:30 final size:30
Alignment explanation
Indices: 12332978--12333079 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 30
12332968 ATTTAGGATT
* * *
12332978 AAAATGAAATTTAATGAAATTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
* *
12333008 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
* **
12333038 AAAATGAAATTT-AGGAAAAGTTTGGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAAGGGTC
*
12333068 AAAATGCAATTT
1 AAAATGAAATTT
12333080 TTATTTTTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 2 0.03
30 58 0.97
ACGTcount: A:0.43, C:0.04, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAAGGGTC
Found at i:12333533 original size:54 final size:55
Alignment explanation
Indices: 12333349--12333567 Score: 308
Period size: 54 Copynumber: 4.1 Consensus size: 55
12333339 CACGTGAGCC
* *
12333349 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AA
*
12333404 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAG--A---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAA
* * *
12333456 AAGGCTCAACTTACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
12333510 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
12333565 AAG
1 AAG
12333568 TAGAAATTGA
Statistics
Matches: 148, Mismatches: 8, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
50 14 0.09
52 34 0.23
54 51 0.34
55 37 0.25
57 6 0.04
58 6 0.04
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:12333545 original size:106 final size:104
Alignment explanation
Indices: 12333349--12333559 Score: 325
Period size: 107 Copynumber: 2.0 Consensus size: 104
12333339 CACGTGAGCC
* *
12333349 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT-CAAAAGGCTCAAC
*
12333414 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAA
65 TCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAA
* * *
12333456 AAGGCTCAACTTACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTCAAAAGGCTCAAC
12333520 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
65 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
12333560 TTGAAAAGTA
Statistics
Matches: 97, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
104 16 0.16
106 35 0.36
107 36 0.37
108 10 0.10
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (104 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTCAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
Found at i:12333565 original size:14 final size:14
Alignment explanation
Indices: 12333546--12333580 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
12333536 GAGTTGATTT
12333546 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
12333560 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
12333574 TTGAAAA
1 TTGAAAA
12333581 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:12333812 original size:85 final size:87
Alignment explanation
Indices: 12333668--12333915 Score: 297
Period size: 91 Copynumber: 2.8 Consensus size: 87
12333658 AACAGAAATT
* * *
12333668 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCC-TGAGACTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGT-GCCTTGAGGCTCAACTCACCTCTTGCAATATGA
*
12333732 GTTGATTTGAAAAG-TAGAATT-AG
64 GTTGATTTGAAAAGATAG-ATTGAA
* * * *
12333755 TAAAGCAGAAATTGAAAATACCTCAGC-GTGCCTTGAGGCTCAACTCACCTCTCGCAATATAAGT
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGCCTTGAGGCTCAACTCACCTCTTGCAATATGAGT
12333819 TGATTTTTGAAAAGCATAGATTGAA
66 TGA--TTTGAAAAG-ATAGATTGAA
* ** *
12333844 AAAAACATAAATTGAAAATACCTCAGCATGTGAGTCGAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGCCTTGAGGCTCAACTCACCTCTTGCAATATGAG
12333909 TTGATTT
65 TTGATTT
12333916 TTTTTAAAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 32 0.23
88 3 0.02
89 31 0.23
91 35 0.26
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGCCTTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTGAAAAGATAGATTGAA
Found at i:12333861 original size:15 final size:16
Alignment explanation
Indices: 12333828--12333861 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12333818 TTGATTTTTG
* *
12333828 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
12333844 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
12333860 AA
1 AA
12333862 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:12333976 original size:71 final size:71
Alignment explanation
Indices: 12333880--12334271 Score: 757
Period size: 71 Copynumber: 5.5 Consensus size: 71
12333870 CATGTGAGTC
** *
12333880 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
12333945 TGTCTT
66 TGTCTT
12333951 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
12334016 TGTCTT
66 TGTCTT
12334022 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
12334087 TGTCTT
66 TGTCTT
12334093 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
12334158 TGTCTT
66 TGTCTT
12334164 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
12334229 TGTCTT
66 TGTCTT
12334235 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
12334272 GAAAAACAAA
Statistics
Matches: 318, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 318 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (71 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
TGTCTT
Found at i:12334247 original size:213 final size:213
Alignment explanation
Indices: 12333880--12334465 Score: 802
Period size: 213 Copynumber: 2.8 Consensus size: 213
12333870 CATGTGAGTC
*
12333880 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
12333945 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACC
12334010 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAA
131 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAA
12334075 AATACCTCAACGTGTCTT
196 AATACCTCAACGTGTCTT
**
12334093 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
12334158 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACC
* *
12334223 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA----TTTTGAAAAA--CAAA
131 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAA
12334282 AAT---T-AA--------
196 AATACCTCAACGTGTCTT
* * * * ** * **
12334288 AAGGCTTAACTCACCTCTCGCAATATGAG-TCA--ATTTAGAACATAAA-CTAAAAATACCTCGG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAA-A-AAATTTAAAAATACCTCAA
* ** * * *
12334349 CGTGCCCCGAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAAAATTAAAAAT
64 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTTAAAAAATTTAAAAAT
*
12334414 ACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
128 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
12334466 CCTTGGAAAG
Statistics
Matches: 343, Mismatches: 23, Indels: 29
0.87 0.06 0.07
Matches are distributed among these distances:
192 5 0.01
193 49 0.14
194 74 0.22
195 25 0.07
203 2 0.01
204 1 0.00
207 6 0.02
209 9 0.03
213 172 0.50
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.35
Consensus pattern (213 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACC
TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAA
AATACCTCAACGTGTCTT
Found at i:12342296 original size:29 final size:29
Alignment explanation
Indices: 12342263--12342379 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
12342253 TGTAATTTTT
*
12342263 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
12342292 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
12342322 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
12342351 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
12342380 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:12342318 original size:30 final size:30
Alignment explanation
Indices: 12342278--12342379 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
12342268 ATTTAGGATT
*
12342278 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
12342308 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
12342338 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
12342368 AAAATGCAATTT
1 AAAATGAAATTT
12342380 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:12345408 original size:26 final size:26
Alignment explanation
Indices: 12345352--12345402 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
12345342 TTGGCATTTA
12345352 TTTTTGTCATTGATATTAGCTGCAGG
1 TTTTTGTCATTGATATTAGCTGCAGG
*
12345378 TTTTTGTCATTGGTATTAGCTGCAG
1 TTTTTGTCATTGATATTAGCTGCAG
12345403 TATTTTACGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (26 bp):
TTTTTGTCATTGATATTAGCTGCAGG
Found at i:12349910 original size:120 final size:120
Alignment explanation
Indices: 12349713--12350695 Score: 1912
Period size: 120 Copynumber: 8.2 Consensus size: 120
12349703 TTTTCAAGTT
12349713 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
12349778 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
12349833 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
12349898 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
12349953 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
12350018 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
12350073 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
12350138 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
12350193 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
12350258 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
12350313 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
12350378 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
12350433 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
12350498 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
*
12350553 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
12350618 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
12350673 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
12350696 TAAATATGAT
Statistics
Matches: 860, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 860 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
Found at i:12350552 original size:18 final size:17
Alignment explanation
Indices: 12350524--12350558 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12350514 ATTATTAAGA
*
12350524 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12350541 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12350559 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
Done.