Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 154 of 345
Found at i:52279973 original size:14 final size:15
Alignment explanation
Indices: 52279954--52279991 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
52279944 TCTTAGATGT
52279954 GATATGA-AATCTTA
1 GATATGACAATCTTA
52279968 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
52279985 GATATGA
1 GATATGA
52279992 TATGATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
16 1 0.05
17 13 0.62
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:52279981 original size:36 final size:37
Alignment explanation
Indices: 52279917--52280033 Score: 119
Period size: 36 Copynumber: 3.1 Consensus size: 37
52279907 ATCTTTAAGA
* * *
52279917 ATATGCAATCTTAGATATGACATGCAATCTTAGATGTG
1 ATATGAAATCTTAGATATGA-ATACAATCTTAGATATG
52279955 ATATGAAATCTTAGATATG-ATACAATCTTAGATATG
1 ATATGAAATCTTAGATATGAATACAATCTTAGATATG
* ** *
52279991 ATATGATATGATATGATATGATATGCAATCTTGAAGATATG
1 ATATGAAATCTTA-GATATGA-ATACAATCTT--AGATATG
52280032 AT
1 AT
52280034 TTTGTAATCT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
36 25 0.37
37 6 0.09
38 18 0.27
39 9 0.13
41 9 0.13
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (37 bp):
ATATGAAATCTTAGATATGAATACAATCTTAGATATG
Found at i:52279993 original size:5 final size:5
Alignment explanation
Indices: 52279985--52280015 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
52279975 TACAATCTTA
52279985 GATAT GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT GATAT G
52280016 CAATCTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (5 bp):
GATAT
Found at i:52285237 original size:23 final size:23
Alignment explanation
Indices: 52285191--52285256 Score: 109
Period size: 23 Copynumber: 3.0 Consensus size: 23
52285181 CTATTTCAAT
*
52285191 AAAAAG-GAAAAAAAGTAAAA-A
1 AAAAAGAGAAAAAAAGAAAAATA
52285212 AAAAAGAGAAAAAAAGAAAAATA
1 AAAAAGAGAAAAAAAGAAAAATA
52285235 AAAAAGAGAAAAAAAGAAAAAT
1 AAAAAGAGAAAAAAAGAAAAAT
52285257 GGAGAGGCCA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
21 6 0.14
22 13 0.31
23 23 0.55
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.05
Consensus pattern (23 bp):
AAAAAGAGAAAAAAAGAAAAATA
Found at i:52285246 original size:8 final size:8
Alignment explanation
Indices: 52285191--52285255 Score: 64
Period size: 8 Copynumber: 8.5 Consensus size: 8
52285181 CTATTTCAAT
*
52285191 AAAAAGGA
1 AAAAAAGA
52285199 AAAAAAG-
1 AAAAAAGA
*
52285206 TAAAAA-A
1 AAAAAAGA
*
52285213 AAAAGAGA
1 AAAAAAGA
52285221 AAAAAAGA
1 AAAAAAGA
*
52285229 AAAATA-A
1 AAAAAAGA
*
52285236 AAAAGAGA
1 AAAAAAGA
52285244 AAAAAAGA
1 AAAAAAGA
52285252 AAAA
1 AAAA
52285256 TGGAGAGGCC
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
7 15 0.33
8 31 0.67
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (8 bp):
AAAAAAGA
Found at i:52286301 original size:41 final size:41
Alignment explanation
Indices: 52286254--52286891 Score: 208
Period size: 41 Copynumber: 15.3 Consensus size: 41
52286244 GATCTTATCT
* *
52286254 CCCTAAGTAGTAGTGGAGCAGATTGAAGAATCGCCTTAATC
1 CCCTAAGCAGTAGTGGAGCAGATTGAAGACTCGCCTTAATC
* * * *
52286295 CCCTAAGCAGTAG-GGTAACAGGTT-AA-ATTTGCAAATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATTGAAGACTCGC----CTTAATC
*
52286337 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATTGAAGACTCGCCTTAATC
* * * *
52286379 CCCTAAGCAGTAG-GGTAACAGGTT-AA-ATTTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATTGAAGA-CT-C-G-CCTTAATC
* *
52286421 TCCCTAAGCAGCAGTGGAGCAGATCGAAGACTCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATTGAAGACTCGCCTTAATC
** * *
52286463 CCCTAAATAGTAG-GGTAAG-AGGTTCGCAGA-T---CTT-ATC
1 CCCTAAGCAGTAGTGG--AGCAGATT-GAAGACTCGCCTTAATC
* *
52286500 TCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATTGA--A-GACTCGCCTTAATC
* * * *
52286545 CCCTAAGCAGTAG-GGTAACAGGTT-AA-ATTTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATTGAAGA-CT-C-G-CCTTAATC
* *
52286587 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATTGAAGACTCGCCTTAATC
* * * * * *
52286629 CCTTAAGCGGTAG-GGTAACAGGTT-AA-ATTTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATTGAAGA-CT-C-G-CCTTAATC
* *
52286671 TACCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATTGAAGACTCGCCTTAATC
* * * * *
52286713 CTCTAAGCAGTAAG-GTAACAGGTTCGCAGA-T---CTT-ATC
1 CCCTAAGCAGT-AGTGGAGCAGATT-GAAGACTCGCCTTAATC
** *
52286750 TCCCTAAGCAGTAGCAGAGCAGATCGACGACGACTCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATTGA--A-GACTCGCCTTAATC
* * * * **
52286795 CCCTAAGCAGTAG-GGTAACAGGTT-AA-ATTTGAAGATCTAATC
1 CCCTAAGCAGTAGTGG-AGCAGATTGAAGACTCG--CCT-TAATC
* * *
52286837 TCCCTAAGCAGTAGTGGAGCAAATCGAAGA-TGCGCCTTAACC
1 -CCCTAAGCAGTAGTGGAGCAGATTGAAGACT-CGCCTTAATC
52286879 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
52286892 GGTAAAAGGT
Statistics
Matches: 433, Mismatches: 89, Indels: 150
0.64 0.13 0.22
Matches are distributed among these distances:
37 12 0.03
38 35 0.08
39 14 0.03
40 20 0.05
41 115 0.27
42 51 0.12
43 106 0.24
44 65 0.15
45 15 0.03
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (41 bp):
CCCTAAGCAGTAGTGGAGCAGATTGAAGACTCGCCTTAATC
Found at i:52286342 original size:43 final size:42
Alignment explanation
Indices: 52286211--52286431 Score: 156
Period size: 43 Copynumber: 5.2 Consensus size: 42
52286201 CGCCTTAATC
* * *
52286211 CCCTAAGCAGTAAGGTAATAGGTTAAATTTGTAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCA-ATCTTATCT
* * * * *
52286254 CCCTAAGTAGTAGTGG-AGCAGATTGAAGAATCGC---CTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTT-AA-ATTTGCAATCTT-ATCT
52286295 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGC-AATCTTATCT
* * * * *
52286338 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACTCGC---CTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAATCTT-ATCT
52286379 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCA-ATCTTATCT
52286422 CCCTAAGCAG
1 CCCTAAGCAG
52286432 CAGTGGAGCA
Statistics
Matches: 135, Mismatches: 23, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
39 8 0.06
40 8 0.06
41 42 0.31
42 12 0.09
43 50 0.37
44 8 0.06
45 7 0.05
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAATCTTATCT
Found at i:52286342 original size:84 final size:84
Alignment explanation
Indices: 52286201--52286905 Score: 1027
Period size: 84 Copynumber: 8.4 Consensus size: 84
52286191 CAAAATTCAG
* * * *
52286201 CGCCTTAATCCCCTAAGCAGTAAGGTAATAGGTTAAATTTGTAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
52286266 GTGGAGCAGATTGAAGAAT
66 GTGGAGCAGATCGAAGACT
*
52286285 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
52286350 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
*
52286369 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
52286434 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
** * *
52286453 CGCCTTAATCCCCTAAATAGTAGGGTAAGAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
52286513 GCGGAGCAGATCGACGACGACT
66 GTGGAGCAGATCGA--A-GACT
52286535 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
52286600 GTGGAGCAGATCGAAGACC
66 GTGGAGCAGATCGAAGACT
* * *
52286619 CGCCTTAATCCCTTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTACCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
52286684 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * *
52286703 CGCCTTAATCCTCTAAGCAGTAAGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
**
52286763 GCAGAGCAGATCGACGACGACT
66 GTGGAGCAGATCGA--A-GACT
* *
52286785 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGAAGATCTAATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
52286850 GTGGAGCAAATCGAAGA-T
66 GTGGAGCAGATCGAAGACT
* *
52286868 GCGCCTTAACCCCCTAAGCAGTAGGGTAAAAGGTTAAA
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
52286906 GTATAGCAGA
Statistics
Matches: 561, Mismatches: 43, Indels: 34
0.88 0.07 0.05
Matches are distributed among these distances:
79 77 0.14
81 2 0.00
82 67 0.12
83 1 0.00
84 336 0.60
85 2 0.00
87 76 0.14
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACT
Found at i:52286600 original size:43 final size:43
Alignment explanation
Indices: 52286545--52286684 Score: 126
Period size: 43 Copynumber: 3.3 Consensus size: 43
52286535 CGCCTTAATC
52286545 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* * ** *** * *
52286588 CCCTAAGCAGTAGTGG-AGCAGATCGAA-GACCCG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTTGCAGATCTT-ATCT
* *
52286629 CCTTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
*
52286672 ACCTAAGCAGTAG
1 CCCTAAGCAGTAG
52286685 TGGAGCAGAT
Statistics
Matches: 68, Mismatches: 23, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
40 2 0.03
41 21 0.31
42 10 0.15
43 33 0.49
44 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
Found at i:52286681 original size:250 final size:250
Alignment explanation
Indices: 52286201--52286905 Score: 1101
Period size: 250 Copynumber: 2.8 Consensus size: 250
52286191 CAAAATTCAG
* * * * *
52286201 CGCCTTAATCCCCTAAGCAGTAAGGTAATAGGTTAAATTTGTAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAACAGTAAGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
* * *
52286266 GTGGAGCAGATTGA--A-GAATCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCA
61 GCGGAGCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCA
* *
52286328 AATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGG
126 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGG
*
52286393 GTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACT
191 GTAACAGGTTAAATTTGCAGATCTTATCTACCTAAGCAGCAGTGGAGCAGATCGAAGACT
* * *
52286453 CGCCTTAATCCCCTAAATAGTAGGGTAAGAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAACAGTAAGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
52286518 GCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
66 GCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
* *
52286583 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCTTAAGCGGTAGGGTAAC
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAAC
*
52286648 AGGTTAAATTTGCAGATCTTATCTACCTAAGCAGTAGTGGAGCAGATCGAAGACT
196 AGGTTAAATTTGCAGATCTTATCTACCTAAGCAGCAGTGGAGCAGATCGAAGACT
* * *
52286703 CGCCTTAATCCTCTAAGCAGTAAGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCAGA
1 CGCCTTAATCCCCTAAACAGTAAGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
*
52286768 GCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGAAGATCT
66 GCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
* * ** * *
52286833 AATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGCGCCTTAACCCCCTAAGCAGTAGGGTAAA
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAAC
52286898 AGGTTAAA
196 AGGTTAAA
52286906 GTATAGCAGA
Statistics
Matches: 419, Mismatches: 31, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
247 37 0.09
249 1 0.00
250 353 0.84
252 28 0.07
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (250 bp):
CGCCTTAATCCCCTAAACAGTAAGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
GCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAAC
AGGTTAAATTTGCAGATCTTATCTACCTAAGCAGCAGTGGAGCAGATCGAAGACT
Found at i:52286875 original size:334 final size:330
Alignment explanation
Indices: 52286200--52286905 Score: 1017
Period size: 334 Copynumber: 2.1 Consensus size: 330
52286190 ACAAAATTCA
* * * *
52286200 GCGCCTTAATCCCCTAAGCAGTAAGGTAATAGGTTAAATTTGTAGATCTTATCTCCCTAAGTAGT
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAAAAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
* *
52286265 AGTGGAGCAGATTGAAGAATCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAA
66 AGTGGAGCAGATCGAAGAACCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAA
* *
52286330 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGT
131 TCTTATCTACCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAAGGT
* **
52286395 AACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACTCGCCTTA
196 AACAGG----ATTCGCAGATCTTATCTCCCTAAGCAGCAGCAGAGCAGATCGAAGACTCGCCTTA
* * * * *
52286460 ATCCCCTAAATAGTAGGGTAAGAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATC
257 ATCCCCTAAACAGTAGGGTAACAGGTTCGAAGATCTAATCTCCCTAAGCAGTAGCGGAGCAAATC
52286525 GACGACGACT
322 GAC-ACGACT
*
52286535 -CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAAAAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
* * * *
52286599 AGTGGAGCAGATCGAAGACCCGCCTTAATCCCTTAAGCGGTAGGGTAACAGGTTAAATTTGCAGA
66 AGTGGAGCAGATCGAAGAACCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAA
*
52286664 TCTTATCTACCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCTCTAAGCAGTAAGGT
131 TCTTATCTACCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAAGGT
*
52286729 AACAGG-TTCGCAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGACGACGACTCGCCTTAA
196 AACAGGATTCGCAGATCTTATCTCCCTAAGCAGCAGCAGAGCAGATCGA--A-GACTCGCCTTAA
* * *
52286793 TCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGAAGATCTAATCTCCCTAAGCAGTAGTGGAGCA
258 TCCCCTAAACAGTAGGGTAACAGG-----TTCGAAGATCTAATCTCCCTAAGCAGTAGCGGAGCA
52286858 AATCGA-A-GA-T
318 AATCGACACGACT
*
52286868 GCGCCTTAACCCCCTAAGCAGTAGGGTAAAAGGTTAAA
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAAAAGGTTAAA
52286906 GTATAGCAGA
Statistics
Matches: 335, Mismatches: 27, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
329 38 0.11
331 1 0.00
332 33 0.10
333 1 0.00
334 224 0.67
335 1 0.00
337 37 0.11
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (330 bp):
GCGCCTTAATCCCCTAAGCAGTAGGGTAAAAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGAACCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAA
TCTTATCTACCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAAGGT
AACAGGATTCGCAGATCTTATCTCCCTAAGCAGCAGCAGAGCAGATCGAAGACTCGCCTTAATCC
CCTAAACAGTAGGGTAACAGGTTCGAAGATCTAATCTCCCTAAGCAGTAGCGGAGCAAATCGACA
CGACT
Found at i:52287825 original size:19 final size:19
Alignment explanation
Indices: 52287801--52287880 Score: 137
Period size: 19 Copynumber: 4.3 Consensus size: 19
52287791 AATCTTTAAG
52287801 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
52287820 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
52287839 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
52287858 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
52287875 GATATG
1 GATATG
52287881 ATATGATATG
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
17 17 0.30
19 40 0.70
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:52287858 original size:14 final size:15
Alignment explanation
Indices: 52287839--52287876 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
52287829 TCTTAGATGT
52287839 GATATG-CAATCTTA
1 GATATGACAATCTTA
52287853 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
52287870 GATATGA
1 GATATGA
52287877 TATGATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:52287906 original size:21 final size:22
Alignment explanation
Indices: 52287880--52287925 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
52287870 GATATGATAT
52287880 GATATGA-TATGTAATCTTGAA
1 GATATGATTATGTAATCTTGAA
* *
52287901 GATATGATTTTGTAATCTTGGA
1 GATATGATTATGTAATCTTGAA
52287923 GAT
1 GAT
52287926 TTAATTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (22 bp):
GATATGATTATGTAATCTTGAA
Found at i:52287932 original size:22 final size:22
Alignment explanation
Indices: 52287889--52287932 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
52287879 TGATATGATA
*
52287889 TGTAATCTTGAAGATATGATTT
1 TGTAATCTTGAAGATATAATTT
* *
52287911 TGTAATCTTGGAGATTTAATTT
1 TGTAATCTTGAAGATATAATTT
52287933 GTAGATATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.48
Consensus pattern (22 bp):
TGTAATCTTGAAGATATAATTT
Found at i:52292200 original size:22 final size:22
Alignment explanation
Indices: 52292166--52292209 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
52292156 CAAATTTGTG
* *
52292166 AAAATTTATTATAAAAATAATT
1 AAAATTAAATATAAAAATAATT
**
52292188 AAAATTAAATATATTAATAATT
1 AAAATTAAATATAAAAATAATT
52292210 TAAGTGCAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAAATATAAAAATAATT
Found at i:52294708 original size:43 final size:41
Alignment explanation
Indices: 52294640--52294736 Score: 104
Period size: 43 Copynumber: 2.3 Consensus size: 41
52294630 ATGAGTTTAC
* * * * *
52294640 GTGTAAGACCATATCCAGTATATGGCATCGTTATGAAAATTTT
1 GTGTAAGACCATATCCAGGACATGGCACCGATATGAAAA--TA
* * *
52294683 GTGTAAGACCATGTCTAGGACATGGCACCGATATGAGAATA
1 GTGTAAGACCATATCCAGGACATGGCACCGATATGAAAATA
52294724 GTGTAAGACCATA
1 GTGTAAGACCATA
52294737 GTGAGCTATT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 13 0.29
43 32 0.71
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (41 bp):
GTGTAAGACCATATCCAGGACATGGCACCGATATGAAAATA
Found at i:52295886 original size:13 final size:13
Alignment explanation
Indices: 52295868--52295901 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
52295858 ATAGAGAGTT
52295868 ACACGGGCTGAGA
1 ACACGGGCTGAGA
52295881 ACACGGGCTGAGA
1 ACACGGGCTGAGA
52295894 ACACGGGC
1 ACACGGGC
52295902 GTGTCCCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.26, G:0.38, T:0.06
Consensus pattern (13 bp):
ACACGGGCTGAGA
Found at i:52304528 original size:70 final size:70
Alignment explanation
Indices: 52304415--52304564 Score: 282
Period size: 70 Copynumber: 2.1 Consensus size: 70
52304405 CATGATTTTC
*
52304415 TTTCTTCAGATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAAATTTCTTCCTCCTTC
1 TTTCTTCAAATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAAATTTCTTCCTCCTTC
52304480 AGTTA
66 AGTTA
*
52304485 TTTCTTCAAATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAATTTTCTTCCTCCTTC
1 TTTCTTCAAATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAAATTTCTTCCTCCTTC
52304550 AGTTA
66 AGTTA
52304555 TTTCTTCAAA
1 TTTCTTCAAA
52304565 CCATTATTAT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
70 78 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (70 bp):
TTTCTTCAAATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAAATTTCTTCCTCCTTC
AGTTA
Found at i:52306442 original size:12 final size:12
Alignment explanation
Indices: 52306425--52306453 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
52306415 GGGTGCCTGA
52306425 AAAGGTACTTGT
1 AAAGGTACTTGT
52306437 AAAGGTACTTGT
1 AAAGGTACTTGT
52306449 AAAGG
1 AAAGG
52306454 GAAACTAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (12 bp):
AAAGGTACTTGT
Found at i:52307692 original size:21 final size:21
Alignment explanation
Indices: 52307666--52307705 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
52307656 CTACTAGAAA
52307666 ACAATT-TTTTGCTTGATTTCC
1 ACAATTGTTTT-CTTGATTTCC
*
52307687 ACAATTGTTTTCTTTATTT
1 ACAATTGTTTTCTTGATTT
52307706 GAGGCTAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (21 bp):
ACAATTGTTTTCTTGATTTCC
Found at i:52309776 original size:336 final size:337
Alignment explanation
Indices: 52309163--52309837 Score: 1102
Period size: 336 Copynumber: 2.0 Consensus size: 337
52309153 TGGTACTAGA
* *
52309163 TAAGAGTTCAACCTATGTATATACCAAACCTATAGGAGACAACACTTAAAGAATTTGTACTTACT
1 TAAGAGTTCAACCTATGTATATACCAAACCTATAGGAGACAACACTTAAAGAATTTATACCTACT
*
52309228 CTTCAAGCTTTGATAAGGTGATGAAATCTCCTGAAGTGGGCATGGGTTCTATTGGAACATCGATA
66 CTTCAAGCTTTGATAAGGTGATAAAATCTCCTGAAGTGGGCATGGGTTCTATTGGAACATCGATA
*
52309293 TGCCTCCTGGCACAGCGAAAAAATAATTTCGGTGATCACAACCCATGGTATAAGCAAGTGACATA
131 TGCCTCCTGGCACAACGAAAAAATAATTTCGGTGATCACAACCCATGGTATAAGCAAGTGACATA
* * *
52309358 TTAAGAATATGAGCACCACCATAATGTAATACTAAACCCGCAATCAAGCCTTCATCCCAACAAGA
196 TTAAGAATACGAGCACCACCATAAGGTAATACTAAACCCACAATCAAGCCTTCATCCCAACAAGA
* **
52309423 ACCATCAACACTCAATAGCTCACTGAACTCCATATCTTTCAGCCCATCCAATGGAACCAAGTCAA
261 ACCATCAACACTCAATAGCTCACTGAACTCCATATCTTCCAGCCCATCCAACAGAACCAAGTCAA
52309488 CC-AAAAATTGT
326 CCAAAAAATTGT
*
52309499 TAAGAGTTCAACCTATGTATATACCAAACCTATAGGAGACAACACTTAAAGAATTTATACCTATT
1 TAAGAGTTCAACCTATGTATATACCAAACCTATAGGAGACAACACTTAAAGAATTTATACCTACT
* * * * * * *
52309564 CTTCAAGCTTTGCTGAGGTGATAAAATGTCTTGCAGTGGGCATGGGTTCTATTGGAATATCGGTA
66 CTTCAAGCTTTGATAAGGTGATAAAATCTCCTGAAGTGGGCATGGGTTCTATTGGAACATCGATA
* * *
52309629 TGCCTCGTGGCACAACGATAAAATAA-TTCTGGTGATCATAACCCATGGTATAAGCAAGTGACAT
131 TGCCTCCTGGCACAACGAAAAAATAATTTC-GGTGATCACAACCCATGGTATAAGCAAGTGACAT
* *
52309693 ATTAAGAATACGAGCACCACCATAAGGTAATAGTAAACCCACAATCAAGCCTTCATCCTAACAAG
195 ATTAAGAATACGAGCACCACCATAAGGTAATACTAAACCCACAATCAAGCCTTCATCCCAACAAG
* *
52309758 AACCATCAACACTCAATAGCTCATTGAACTCCATATCTTCCAGCCTATCCAACAGAACCAAGTCA
260 AACCATCAACACTCAATAGCTCACTGAACTCCATATCTTCCAGCCCATCCAACAGAACCAAGTCA
52309823 ACCAAAAAATTGT
325 ACCAAAAAATTGT
52309836 TA
1 TA
52309838 TCACAAAAAA
Statistics
Matches: 312, Mismatches: 25, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
335 3 0.01
336 298 0.96
337 11 0.04
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (337 bp):
TAAGAGTTCAACCTATGTATATACCAAACCTATAGGAGACAACACTTAAAGAATTTATACCTACT
CTTCAAGCTTTGATAAGGTGATAAAATCTCCTGAAGTGGGCATGGGTTCTATTGGAACATCGATA
TGCCTCCTGGCACAACGAAAAAATAATTTCGGTGATCACAACCCATGGTATAAGCAAGTGACATA
TTAAGAATACGAGCACCACCATAAGGTAATACTAAACCCACAATCAAGCCTTCATCCCAACAAGA
ACCATCAACACTCAATAGCTCACTGAACTCCATATCTTCCAGCCCATCCAACAGAACCAAGTCAA
CCAAAAAATTGT
Found at i:52310972 original size:20 final size:20
Alignment explanation
Indices: 52310947--52310985 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52310937 CTCAATTTAG
**
52310947 GATAATTAATTATTTAATTA
1 GATAATTAAAGATTTAATTA
52310967 GATAATTAAAGATTTAATT
1 GATAATTAAAGATTTAATT
52310986 GATCATAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
GATAATTAAAGATTTAATTA
Found at i:52311445 original size:17 final size:17
Alignment explanation
Indices: 52311423--52311456 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
52311413 TCTACCTTTA
52311423 TCTACTTTAAGAAAAAC
1 TCTACTTTAAGAAAAAC
52311440 TCTACTTTAAGAAAAAC
1 TCTACTTTAAGAAAAAC
52311457 ACACTTAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (17 bp):
TCTACTTTAAGAAAAAC
Found at i:52311462 original size:16 final size:17
Alignment explanation
Indices: 52311424--52311462 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
52311414 CTACCTTTAT
*
52311424 CTACTTTAAGAAAAACT
1 CTACTTTAAGAAAAACA
52311441 CTACTTTAAGAAAAACA
1 CTACTTTAAGAAAAACA
52311458 C-ACTT
1 CTACTT
52311463 AGGGAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (17 bp):
CTACTTTAAGAAAAACA
Found at i:52316395 original size:11 final size:11
Alignment explanation
Indices: 52316379--52316408 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
52316369 AAATGAGCCT
*
52316379 TTTACCACAAG
1 TTTACCAAAAG
52316390 TTTACCAAAAG
1 TTTACCAAAAG
52316401 TTTACCAA
1 TTTACCAA
52316409 CCCTGCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (11 bp):
TTTACCAAAAG
Found at i:52318221 original size:8 final size:8
Alignment explanation
Indices: 52318210--52318256 Score: 76
Period size: 8 Copynumber: 5.9 Consensus size: 8
52318200 TGTTTTATTA
52318210 TATTATAT
1 TATTATAT
52318218 TATTATAT
1 TATTATAT
52318226 TATTATAT
1 TATTATAT
*
52318234 TAATATAT
1 TATTATAT
*
52318242 TAATATAT
1 TATTATAT
52318250 TATTATA
1 TATTATA
52318257 ATGTATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATTATAT
Found at i:52318222 original size:13 final size:13
Alignment explanation
Indices: 52318204--52318252 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
52318194 ACTTTATGTT
52318204 TTATTATATTATA
1 TTATTATATTATA
52318217 TTATTATATTAT-
1 TTATTATATTATA
52318229 TATATTA-A-TATA
1 T-TATTATATTATA
*
52318241 TTAATATATTAT
1 TTATTATATTAT
52318253 TATAATGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
11 7 0.23
12 4 0.13
13 20 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:52319034 original size:41 final size:41
Alignment explanation
Indices: 52318977--52319057 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
52318967 CTAATTATGG
* *
52318977 GCACTTAGTGTGCGAGATTGAGATAGCTTTGGTTATATATT
1 GCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATATT
52319018 GCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATAT
1 GCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATAT
52319058 ATACATTGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (41 bp):
GCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATATT
Found at i:52321600 original size:43 final size:43
Alignment explanation
Indices: 52321553--52321657 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 43
52321543 TAGCCTAGCT
*
52321553 ATGGTCTTTCACAAAATCAAATAATGATGCCAATGTCCCAAAC
1 ATGGTCTTACACAAAATCAAATAATGATGCCAATGTCCCAAAC
** * *
52321596 ATGGTCTTACACGTAATTACATAATGATGCCAATGTCCCAAAC
1 ATGGTCTTACACAAAATCAAATAATGATGCCAATGTCCCAAAC
* * *
52321639 GTGGTCTTATACATAATCA
1 ATGGTCTTACACAAAATCA
52321658 CAACTCATCA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACAAAATCAAATAATGATGCCAATGTCCCAAAC
Found at i:52323911 original size:58 final size:57
Alignment explanation
Indices: 52323773--52323911 Score: 138
Period size: 57 Copynumber: 2.4 Consensus size: 57
52323763 ATGTATACAA
** ** * *
52323773 CAGGATTA-CCAGTCCAGGCTAAATCCTTTTTATGACATATGCTCTAAAGAGATTTAT
1 CAGGATTACCCA-TCCAGGCTAAATCCAATCCATAACATATGCTCGAAAGAGATTTAT
* * * * *
52323830 CTGGATTACTCGTCCAGGATAAATCCAATCCATAACATATGCTCGAGAG-GACTTATAT
1 CAGGATTACCCATCCAGGCTAAATCCAATCCATAACATATGCTCGAAAGAGA-TT-TAT
52323888 CAGGATTACCCATCCAGGCTAAAT
1 CAGGATTACCCATCCAGGCTAAAT
52323912 ATTTCTATAA
Statistics
Matches: 64, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
56 2 0.03
57 38 0.59
58 24 0.38
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (57 bp):
CAGGATTACCCATCCAGGCTAAATCCAATCCATAACATATGCTCGAAAGAGATTTAT
Found at i:52327171 original size:15 final size:17
Alignment explanation
Indices: 52327138--52327171 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
52327128 TTATTTAAGT
*
52327138 TATATATAAGTATTATA
1 TATATATAAATATTATA
52327155 TATATATAAATATTATA
1 TATATATAAATATTATA
52327172 ATTATTAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TATATATAAATATTATA
Found at i:52328666 original size:23 final size:23
Alignment explanation
Indices: 52328639--52328720 Score: 107
Period size: 23 Copynumber: 3.7 Consensus size: 23
52328629 GGCTTTGCCG
52328639 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
52328662 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * * *
52328685 TTCAGGCACTTCATGCGTGGT-T
1 ATCAGGCACTTTATGTGTCGTAT
52328707 -TCAGGCAC-TTATGT
1 ATCAGGCACTTTATGT
52328721 AACACCCCGA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.08
21 8 0.15
22 1 0.02
23 40 0.75
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:52330303 original size:28 final size:28
Alignment explanation
Indices: 52330263--52330332 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
52330253 ATAGTAAGTC
*
52330263 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
52330291 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
52330319 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52330333 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:52346470 original size:7 final size:7
Alignment explanation
Indices: 52346455--52346499 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
52346445 TCAAATATAC
52346455 ATTATAAA
1 ATTA-AAA
52346463 ATTAAAA
1 ATTAAAA
52346470 ATTAAAA
1 ATTAAAA
*
52346477 ATAAAAA
1 ATTAAAA
*
52346484 ATTTAAA
1 ATTAAAA
*
52346491 ATTTAAA
1 ATTAAAA
52346498 AT
1 AT
52346500 AGAAATCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
7 30 0.88
8 4 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (7 bp):
ATTAAAA
Found at i:52346484 original size:21 final size:21
Alignment explanation
Indices: 52346460--52346500 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
52346450 TATACATTAT
52346460 AAAATTAAAAATTAAAAATAA
1 AAAATTAAAAATTAAAAATAA
* *
52346481 AAAATTTAAAATTTAAAATA
1 AAAATTAAAAATTAAAAATA
52346501 GAAATCTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATTAAAAATTAAAAATAA
Found at i:52354673 original size:37 final size:37
Alignment explanation
Indices: 52354614--52354722 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
52354604 AGCTCAGACG
* * * *
52354614 AAATCTCCACACGAAGTTATCGGGACTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
52354651 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
52354688 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
52354723 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:52354923 original size:48 final size:48
Alignment explanation
Indices: 52354869--52355247 Score: 584
Period size: 48 Copynumber: 7.8 Consensus size: 48
52354859 GCACATCGCC
52354869 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
52354917 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
52354965 TATATATTTTTCACA-TTGACCATTCGGCTTTACCACATATACATATCTCA
1 TACATA--TTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
52355015 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
52355063 TATATATTTGACA-TTGACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
52355111 TACATATTTCACACTAGCCATTCGCCTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
52355161 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
52355209 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
52355248 TGCATGTTCA
Statistics
Matches: 303, Mismatches: 18, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
47 2 0.01
48 207 0.68
49 10 0.03
50 84 0.28
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:52354988 original size:98 final size:97
Alignment explanation
Indices: 52354886--52355247 Score: 663
Period size: 98 Copynumber: 3.7 Consensus size: 97
52354876 TTCACACTAG
52354886 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
52354951 ATATACATATCTCATATATATTTTTCACATTGA
66 ATATACATATCTCATATATA-TTTTCACATTGA
52354984 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
*
52355049 ATATACATATCTCATATATA-TTTGACATTGA
66 ATATACATATCTCATATATATTTTCACATTGA
*
52355080 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCAC
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
52355145 ATATACATATCTCATATATATATTTCACATTGA
66 ATATACATATCTCATATATAT-TTTCACATTGA
* *
52355178 CCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
52355243 ATATA
66 ATATA
52355248 TGCATGTTCA
Statistics
Matches: 256, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
96 94 0.37
98 162 0.63
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (97 bp):
CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
ATATACATATCTCATATATATTTTCACATTGA
Found at i:52355215 original size:194 final size:194
Alignment explanation
Indices: 52354886--52355247 Score: 688
Period size: 194 Copynumber: 1.9 Consensus size: 194
52354876 TTCACACTAG
*
52354886 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCAC
*
52354951 ATATACATATCTCATATATATTTTTCACATTGACCATTCGGCTTTACCACATATACATATCTCAT
66 ATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCAT
52355016 ACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTGACATTGA
131 ACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTGACATTGA
52355080 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCAC
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCAC
*
52355145 ATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCAT
66 ATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCAT
*
52355210 ACATATTTCACATTAGCCATTCGGCTTTACCACATATA
131 ACATATTTCACACTAGCCATTCGGCTTTACCACATATA
52355248 TGCATGTTCA
Statistics
Matches: 164, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
194 164 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (194 bp):
CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCAC
ATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCAT
ACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTGACATTGA
Found at i:52355296 original size:47 final size:47
Alignment explanation
Indices: 52355217--52355410 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
52355207 CATACATATT
* * * *
52355217 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
52355264 TCACATTGGCCATTCGGCCTTATCACACATATGCTTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
52355311 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
52355358 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
52355405 TCACAT
1 TCACAT
52355411 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:52355337 original size:22 final size:22
Alignment explanation
Indices: 52355310--52355381 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
52355300 GCTCACATTC
52355310 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
52355332 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
52355356 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
52355379 ATC
1 ATC
52355382 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:52358038 original size:40 final size:40
Alignment explanation
Indices: 52358008--52358237 Score: 343
Period size: 40 Copynumber: 5.8 Consensus size: 40
52357998 AGCATGATTA
* * * * *
52358008 CTCTACGGGACCTAGCCCGGATATAACACCAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
52358048 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
52358088 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
*
52358128 CTCTTCGGGAATTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
52358168 CTCTTCGGGACTTAGCCTGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
52358208 TTCTTCGGGATTTAGCCCGGATACATCACT
1 CTCTTCGGGACTTAGCCCGGATATATCACT
52358238 CTCAATTCTC
Statistics
Matches: 174, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 174 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:52359567 original size:37 final size:37
Alignment explanation
Indices: 52359508--52359616 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
52359498 AGCTCAGACG
* * *
52359508 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
52359545 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
52359582 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
52359617 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:52359817 original size:48 final size:48
Alignment explanation
Indices: 52359763--52360141 Score: 575
Period size: 48 Copynumber: 7.8 Consensus size: 48
52359753 GCACATCGCC
52359763 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
52359811 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
52359859 TATATATTTTTCACA-TTGACCATTCGGCTTTACCACATATACATATCTCA
1 TACATA--TTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
52359909 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACGTATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
52359959 TATATATTTGACA-TTGACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
52360007 TACATATTTCACACTAGCCATTCGCCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
52360055 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
52360103 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
52360142 TGCATGTTCA
Statistics
Matches: 301, Mismatches: 20, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
47 2 0.01
48 205 0.68
49 10 0.03
50 84 0.28
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:52359882 original size:98 final size:97
Alignment explanation
Indices: 52359780--52360141 Score: 654
Period size: 98 Copynumber: 3.7 Consensus size: 97
52359770 TTCACACTAG
52359780 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
52359845 ATATACATATCTCATATATATTTTTCACATTGA
66 ATATACATATCTCATATATA-TTTTCACATTGA
52359878 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
52359943 ATATACGTATCTCATATATATATTTGACATTGA
66 ATATACATATCTCATATATAT-TTTCACATTGA
*
52359976 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCAC
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
52360041 ATATACATATCTCATATATA-TTTCACATTGA
66 ATATACATATCTCATATATATTTTCACATTGA
* *
52360072 CCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
52360137 ATATA
66 ATATA
52360142 TGCATGTTCA
Statistics
Matches: 255, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
96 77 0.30
97 1 0.00
98 177 0.69
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (97 bp):
CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
ATATACATATCTCATATATATTTTCACATTGA
Found at i:52359943 original size:146 final size:143
Alignment explanation
Indices: 52359763--52360141 Score: 573
Period size: 146 Copynumber: 2.6 Consensus size: 143
52359753 GCACATCGCC
52359763 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA-TAG
* * *
52359828 CCATTCGGCTTTACCACATATACATATCTCATATATATTTTTCACA-TTGACCATTCGGCTTTAC
65 CCATTCGGCTTTACCACATATACATATCTCATACATA--TTTCACACTAG-CCATTCGCCTTTAC
52359892 CACATATACATATCTCA
127 CACATATACATATCTCA
* * * *
52359909 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACGTATCTCATATATATATTTGACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATA
52359974 GACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACC
64 G-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACC
52360039 ACATATACATATCTCA
128 ACATATACATATCTCA
* * *
52360055 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA-TA
52360119 GCCATTCGGCTTTACCACATATA
64 GCCATTCGGCTTTACCACATATA
52360142 TGCATGTTCA
Statistics
Matches: 213, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
144 34 0.16
145 4 0.02
146 123 0.58
147 4 0.02
148 48 0.23
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (143 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATAGC
CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCACA
TATACATATCTCA
Found at i:52360190 original size:47 final size:47
Alignment explanation
Indices: 52360111--52360304 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
52360101 CATACATATT
* * * *
52360111 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
52360158 TCACATTGGCCATTCGGCCTTATCACACATATGCTTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
52360205 TCACATTGGCCATTCGGCCTTATCACATATATGTATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
52360252 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
52360299 TCACAT
1 TCACAT
52360305 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:52360222 original size:94 final size:95
Alignment explanation
Indices: 52359779--52360275 Score: 430
Period size: 98 Copynumber: 5.2 Consensus size: 95
52359769 TTTCACACTA
* * * *
52359779 GCCATTCGGCTTTA-CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACC
1 GCCATTCGGCCTTATCCACATATGCATATCTCA-ACATATATCACATTAGCCATTCGGCTTTACC
*
52359843 ACATATA--CATATCTCATATAT-ATTTTTCACATTG
65 ACATATATGCATGT-TCATAT-TCA----TCACATTG
* * * * *
52359877 ACCATTCGGCTTTA-CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACC
1 GCCATTCGGCCTTATCCACATATGCATATCTCA-ACATATATCACATTAGCCATTCGGCTTTACC
* * * * *
52359941 ACATATACGTAT-CTCATATATATATTTGACATTG
65 ACATATATGCATGTTCATAT-T-CA--TCACATTG
* * * * * *
52359975 ACCATTCGGCTTTA-CCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACC
1 GCCATTCGGCCTTATCCACATATGCATATCTCA-ACATATATCACATTAGCCATTCGGCTTTACC
*
52360039 ACATATA--CATATCTCATATAT-ATTTCACATTG
65 ACATATATGCATGT-TCATAT-TCA--TCACATTG
* * *
52360071 ACCATTCGGCTTTA-CCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
1 GCCATTCGGCCTTATCCACATATGCATATCTCA-ACATATATCACATTAGCCATTCGGCTTTACC
52360135 ACATATATGCATGTTCATATTCATCACATTG
65 ACATATATGCATGTTCATATTCATCACATTG
* *
52360166 GCCATTCGGCCTTATCACACATATGC-T-TGCTC-ACAT-TCATCACATTGGCCATTCGGCCTTA
1 GCCATTCGGCCTTATC-CACATATGCATAT-CTCAACATAT-ATCACATTAGCCATTCGGCTTTA
* * *
52360227 TCACATATATGTATGTTCACATTCATCACATTG
63 CCACATATATGCATGTTCATATTCATCACATTG
52360260 GCCATTCGGCCTTATC
1 GCCATTCGGCCTTATC
52360276 TCATATATAC
Statistics
Matches: 366, Mismatches: 20, Indels: 30
0.88 0.05 0.07
Matches are distributed among these distances:
93 1 0.00
94 70 0.19
95 21 0.06
96 86 0.23
97 16 0.04
98 169 0.46
100 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.35
Consensus pattern (95 bp):
GCCATTCGGCCTTATCCACATATGCATATCTCAACATATATCACATTAGCCATTCGGCTTTACCA
CATATATGCATGTTCATATTCATCACATTG
Found at i:52364959 original size:37 final size:36
Alignment explanation
Indices: 52364889--52364960 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 36
52364879 AAAAATGTTG
* * *
52364889 TCCAACCGAAACATGGCAAACGTTCATAAGAGCTAA
1 TCCAACCGAAACACGCCAAACGCTCATAAGAGCTAA
* *
52364925 TCCAACCGATAACACGCCAAATGCTCATATGAGCTA
1 TCCAACCGA-AACACGCCAAACGCTCATAAGAGCTA
52364961 TATATCCGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 9 0.30
37 21 0.70
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (36 bp):
TCCAACCGAAACACGCCAAACGCTCATAAGAGCTAA
Found at i:52366395 original size:15 final size:15
Alignment explanation
Indices: 52366375--52366414 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
52366365 TAATTTCATG
*
52366375 AAATTTACTTGTTTA
1 AAATTTAATTGTTTA
52366390 AAATTTAATTGTTTA
1 AAATTTAATTGTTTA
52366405 AAATTTAATT
1 AAATTTAATT
52366415 TGTCTCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (15 bp):
AAATTTAATTGTTTA
Found at i:52374898 original size:21 final size:21
Alignment explanation
Indices: 52374874--52374933 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
52374864 GGATCACATG
52374874 CCCGTGTGGCCATGGGACGCA
1 CCCGTGTGGCCATGGGACGCA
*
52374895 CCCGTGTGGCCATGAGACGCA
1 CCCGTGTGGCCATGGGACGCA
52374916 CCCGTGTGGCCATGGGAC
1 CCCGTGTGGCCATGGGAC
52374934 ACGCCCTCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (21 bp):
CCCGTGTGGCCATGGGACGCA
Found at i:52376216 original size:33 final size:32
Alignment explanation
Indices: 52376179--52376255 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
52376169 TGGCCTTGCC
* *
52376179 ATGGTCTTACACTCGTAGTGCCATAACCCAATT
1 ATGGTCTTACACTCG-AATGCCATAACCCAACT
* * * *
52376212 ATGGTCTTATCATTTGAATGCCATATCCCAGCT
1 ATGGTCTTA-CACTCGAATGCCATAACCCAACT
52376245 ATGGTCTTACA
1 ATGGTCTTACA
52376256 TACAAATACT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 31 0.84
34 4 0.11
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (32 bp):
ATGGTCTTACACTCGAATGCCATAACCCAACT
Found at i:52376249 original size:66 final size:66
Alignment explanation
Indices: 52376130--52376255 Score: 155
Period size: 66 Copynumber: 1.9 Consensus size: 66
52376120 TCATTTTTTT
** * **
52376130 GTGCCATAGTCCAACTATGGTCTTACATGTGAATTGCCATGGCCTTGCCATGGTCTTACACTCGT
1 GTGCCATAACCCAACTATGGTCTTACATGTGAATTGCCATAGCCCAGCCATGGTCTTACACTCGT
52376195 A
66 A
* * * *
52376196 GTGCCATAACCCAATTATGGTCTTATCATTTGAA-TGCCATATCCCAGCTATGGTCTTACA
1 GTGCCATAACCCAACTATGGTCTTA-CATGTGAATTGCCATAGCCCAGCCATGGTCTTACA
52376256 TACAAATACT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 43 0.86
67 7 0.14
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (66 bp):
GTGCCATAACCCAACTATGGTCTTACATGTGAATTGCCATAGCCCAGCCATGGTCTTACACTCGT
A
Found at i:52381232 original size:59 final size:62
Alignment explanation
Indices: 52381120--52381234 Score: 175
Period size: 59 Copynumber: 1.9 Consensus size: 62
52381110 AATGATTATC
**
52381120 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTATATTAATTTAAAAAGAT
1 TTAATATTAAATTTAATTTAATAATTATCTTGTAGATAAATATTATATTAATTTAAAAAGAT
52381182 TTAATATTAAA-TTAATTTTAATAATTAT-TT-TA-ATAAATATTATATTAATTTAA
1 TTAATATTAAATTTAA-TTTAATAATTATCTTGTAGATAAATATTATATTAATTTAA
52381235 TATTAAAGTG
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
59 21 0.42
60 2 0.04
61 6 0.12
62 21 0.42
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (62 bp):
TTAATATTAAATTTAATTTAATAATTATCTTGTAGATAAATATTATATTAATTTAAAAAGAT
Found at i:52383182 original size:21 final size:21
Alignment explanation
Indices: 52383158--52383210 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
52383148 GTTCGGATTA
*
52383158 TATCGGTAGAACCAAAAGTTG
1 TATCGGTAGAACCAAAAGTTC
* * ***
52383179 TATCTGTATAACTTCAAGTTC
1 TATCGGTAGAACCAAAAGTTC
52383200 TATCGGTAGAA
1 TATCGGTAGAA
52383211 TTCTGTAGCC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (21 bp):
TATCGGTAGAACCAAAAGTTC
Found at i:52383633 original size:17 final size:16
Alignment explanation
Indices: 52383608--52383647 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
52383598 TAGAATTTAG
*
52383608 TTGAGAAAATTATTTAA
1 TTGA-AAAATTAATTAA
52383625 TTAGAAAAATTAATTAA
1 TT-GAAAAATTAATTAA
52383642 TTGAAA
1 TTGAAA
52383648 TTAATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 15 0.71
18 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (16 bp):
TTGAAAAATTAATTAA
Found at i:52386516 original size:20 final size:23
Alignment explanation
Indices: 52386491--52386531 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
52386481 GAAATTCTCT
52386491 AAGGC-ACT-AAAAAT-AAAGCG
1 AAGGCAACTCAAAAATGAAAGCG
52386511 AAGGCAACTCAAAAATGAAAG
1 AAGGCAACTCAAAAATGAAAG
52386532 GAACTTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 6 0.33
23 4 0.22
ACGTcount: A:0.56, C:0.15, G:0.20, T:0.10
Consensus pattern (23 bp):
AAGGCAACTCAAAAATGAAAGCG
Found at i:52390003 original size:19 final size:19
Alignment explanation
Indices: 52389981--52390034 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
52389971 TTTTTAATAA
52389981 ATTTTTTATATATTTTTGT
1 ATTTTTTATATATTTTTGT
*
52390000 ATTTTTTGTAT-TTTTT-T
1 ATTTTTTATATATTTTTGT
*
52390017 ATAATTTTATA-ATTTTTG
1 AT-TTTTTATATATTTTTG
52390035 CAAGTATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 3 0.10
18 16 0.55
19 10 0.34
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTTTTATATATTTTTGT
Found at i:52390005 original size:9 final size:9
Alignment explanation
Indices: 52389981--52390015 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
52389971 TTTTTAATAA
*
52389981 ATTTTTTAT
1 ATTTTTTGT
52389990 ATATTTTTGT
1 AT-TTTTTGT
52390000 ATTTTTTGT
1 ATTTTTTGT
52390009 ATTTTTT
1 ATTTTTT
52390016 TATAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (9 bp):
ATTTTTTGT
Found at i:52399499 original size:31 final size:31
Alignment explanation
Indices: 52399447--52399521 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
52399437 TAAAAACTTA
* * * *
52399447 AATATAATAAATAAATTATATTTATATTATTT
1 AATATAAT-GATAAATGATATTTAAATAATTT
52399479 AATATAATGATAAATGATATTTAAATAATTT
1 AATATAATGATAAATGATATTTAAATAATTT
*
52399510 GATATAATGATA
1 AATATAATGATA
52399522 CATAAATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
31 30 0.79
32 8 0.21
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (31 bp):
AATATAATGATAAATGATATTTAAATAATTT
Found at i:52399512 original size:23 final size:23
Alignment explanation
Indices: 52399474--52399521 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
52399464 ATATTTATAT
52399474 TATTTAATATAATGATA-AATGA
1 TATTTAATATAATGATATAATGA
52399496 TATTTAA-ATAATTTGATATAATGA
1 TATTTAATATAA--TGATATAATGA
52399520 TA
1 TA
52399522 CATAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 7 0.30
23 5 0.22
24 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (23 bp):
TATTTAATATAATGATATAATGA
Found at i:52399535 original size:31 final size:31
Alignment explanation
Indices: 52399447--52399546 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
52399437 TAAAAACTTA
* * * * *
52399447 AATATAATAAATAAATTATATTTATATTATTT
1 AATATAAT-GATAAATGAAATTTAAATAATTT
*
52399479 AATATAATGATAAATGATATTTAAATAATTT
1 AATATAATGATAAATGAAATTTAAATAATTT
* * *
52399510 GATATAATGATACAT-AAATTATAAATTAATCT
1 AATATAATGATAAATGAAATT-TAAA-TAATTT
52399542 AATAT
1 AATAT
52399547 TTTTTTAGAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
30 4 0.07
31 36 0.63
32 17 0.30
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (31 bp):
AATATAATGATAAATGAAATTTAAATAATTT
Found at i:52399860 original size:118 final size:118
Alignment explanation
Indices: 52399652--52399889 Score: 359
Period size: 118 Copynumber: 2.0 Consensus size: 118
52399642 ACACTTGAAT
* * *
52399652 GAAAAAAAAACTTTTTCATCACAATTTTGACCCCAAAAGCCAGATGTCCTTCATTGCTCTTGCAG
1 GAAAAAAAAACTTTTTCACCACAATTTTGACCCCAAAAACCAGATGTCCTTCATTGCTCATGCAG
52399717 TGAAAATCCACTTTTGGCTTCTCAAATGCAATGAAGAATGAGACTTTAATAAA
66 TGAAAATCCACTTTTGGCTTCTCAAATGCAATGAAGAATGAGACTTTAATAAA
* * * * * **
52399770 GAAAAAGACACTTTTTCACCCCAATTTTGACCCCAAAAACTAGATGTCTTTCATTGCTCATGTGG
1 GAAAAAAAAACTTTTTCACCACAATTTTGACCCCAAAAACCAGATGTCCTTCATTGCTCATGCAG
* * *
52399835 TGAAAATCTACTTTTGGCTTCTCAAATGCAATGAAGAATGTGACTTTAGTAAA
66 TGAAAATCCACTTTTGGCTTCTCAAATGCAATGAAGAATGAGACTTTAATAAA
52399888 GA
1 GA
52399890 CAACGACGAC
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
118 107 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (118 bp):
GAAAAAAAAACTTTTTCACCACAATTTTGACCCCAAAAACCAGATGTCCTTCATTGCTCATGCAG
TGAAAATCCACTTTTGGCTTCTCAAATGCAATGAAGAATGAGACTTTAATAAA
Found at i:52409557 original size:14 final size:15
Alignment explanation
Indices: 52409538--52409568 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
52409528 TTGGAATCAC
52409538 CTTCTGAAAA-ATTT
1 CTTCTGAAAACATTT
52409552 CTTCTGAAAACATTT
1 CTTCTGAAAACATTT
52409567 CT
1 CT
52409569 CCTACAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (15 bp):
CTTCTGAAAACATTT
Found at i:52411102 original size:24 final size:24
Alignment explanation
Indices: 52411045--52411117 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 24
52411035 TCTCGATTAC
52411045 GGCTCT-TCGTGAGCTTCCT-ATTAATT
1 GGCTCTAT-GTGAGCTTCCTGA-T-A-T
52411071 GGCTCTATGTGAGCTTCCTGATAT
1 GGCTCTATGTGAGCTTCCTGATAT
* *
52411095 GGCTCTAT-TGAACTTTCTGATAT
1 GGCTCTATGTGAGCTTCCTGATAT
52411118 ATGGATATCC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
23 13 0.30
24 9 0.21
25 1 0.02
26 18 0.42
27 2 0.05
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (24 bp):
GGCTCTATGTGAGCTTCCTGATAT
Found at i:52413502 original size:48 final size:48
Alignment explanation
Indices: 52413425--52413802 Score: 316
Period size: 48 Copynumber: 7.9 Consensus size: 48
52413415 GGGTAAATTA
* *
52413425 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACAT-GTCGAGA
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAAT-GAGG
* * * * *
52413473 CCGATGCCATGTCCCAGACGTAGTTTTACACTGACTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAATGAGG
* * *
52413521 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-GTCGAGG
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAAT-GAGG
* * * *
52413569 CCGATGCCATGTCCCAGACATTGTCTTACATTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAATGAGG
* * ** * * *
52413617 CCGATGCCATGTCCCAAACATGGTCTTACACTAACACACAT-ATCAATG
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAAT-GAGG
* * * * * * * **
52413665 TCGACGCCATGTCCCAAATATGGTCTTACACTAG-TACACAT-ATCAACA
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCT-CACATAAT-GAGG
* * * ** *
52413713 CCGATGCCATGTCCCAAACATGGTCTTACACTGCCTCTTATAATGTGG
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAATGAGG
* * * *
52413761 CCGATTCCATGTCCCAGACATGGTCTTACACTAGCACACATA
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATA
52413803 TCACCCAATT
Statistics
Matches: 267, Mismatches: 56, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
47 3 0.01
48 259 0.97
49 5 0.02
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAATGAGG
Found at i:52413598 original size:96 final size:96
Alignment explanation
Indices: 52413425--52413792 Score: 393
Period size: 96 Copynumber: 3.8 Consensus size: 96
52413415 GGGTAAATTA
* * * * *
52413425 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATGTCGAGACCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAG
* * *
52413490 ACGTAGTTTTACACTGACTCTCATAATGTGG
66 ACATGGTCTTACACTGACTCTCATAATGTGG
* *
52413521 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAG
* * *
52413586 ACATTGTCTTACATTGGCTCTCATAATGTGG
66 ACATGGTCTTACACTGACTCTCATAATGTGG
* * * * * * *
52413617 CCGATGCCATGTCCCAAACATGGTCTTACACTAACACACATATCAATGTCGACGCCATGTCCCAA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAG
* * * ****
52413682 ATATGGTCTTACACT-AGTACACAT-ATCAACA
66 ACATGGTCTTACACTGACT-CTCATAAT-GTGG
** * *
52413713 CCGATGCCATGTCCCAAACATGGTCTTACACT-GCCTCTTATAAT-GTGGCCGATTCCATGTCCC
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAG-CTCACAT-ATCGAGGCCGATGCCATGTCCC
52413776 AGACATGGTCTTACACT
64 AGACATGGTCTTACACT
52413793 AGCACACATA
Statistics
Matches: 229, Mismatches: 39, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
95 3 0.01
96 224 0.98
97 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (96 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGACTCTCATAATGTGG
Found at i:52413688 original size:144 final size:145
Alignment explanation
Indices: 52413424--52413805 Score: 452
Period size: 144 Copynumber: 2.6 Consensus size: 145
52413414 AGGGTAAATT
* * * *
52413424 ACCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACAT-GTCGAGACCGATGCCATGTCCC
1 ACCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCCATGTCCC
* * * * * * * *
52413488 AGACGTAGTTTTACACTGACTCTC--AT-AATGTGGCCGATGCCATGTCCCAGACATGGTCTTAC
65 AGACATGGTCTTACACTAACACACATATCAATGT-G-CGACGCCATGTCCCAAACATGGTCTTAC
* * *
52413550 ACTAGCT-CACATGTCGAG
128 ACTAG-TACACATATCAAC
* * *
52413568 GCCGATGCCATGTCCCAGACATTGTCTTACATTGGCTCTCATAATGTGGCCGATGCCATGTCCCA
1 ACCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCA
* *
52413633 AACATGGTCTTACACTAACACACATATCAATGT-CGACGCCATGTCCCAAATATGGTCTTACACT
66 GACATGGTCTTACACTAACACACATATCAATGTGCGACGCCATGTCCCAAACATGGTCTTACACT
52413697 AGTACACATATCAAC
131 AGTACACATATCAAC
* * * * *
52413712 ACCGATGCCATGTCCCAAACATGGTCTTACACTGCCTCTTATAATGTGGCCGATTCCATGTCCCA
1 ACCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCA
*
52413777 GACATGGTCTTACACTAGCACACATATCA
66 GACATGGTCTTACACTAACACACATATCA
52413806 CCCAATTGTC
Statistics
Matches: 204, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
143 1 0.00
144 195 0.96
145 1 0.00
146 2 0.01
147 5 0.02
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (145 bp):
ACCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCA
GACATGGTCTTACACTAACACACATATCAATGTGCGACGCCATGTCCCAAACATGGTCTTACACT
AGTACACATATCAAC
Found at i:52416036 original size:47 final size:47
Alignment explanation
Indices: 52415984--52416173 Score: 163
Period size: 47 Copynumber: 4.1 Consensus size: 47
52415974 TGGTTGGACG
* * * * *
52415984 ATGGCAAC-ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCT
1 ATGGCATCGATGTGATATGTG-CTTCCATATAAGACCATAGCTGAGAT
* * * *
52416031 ATGGCATCGGTGTGATATGAGCTTCCGTATAAGACCATATCTGAGAT
1 ATGGCATCGATGTGATATGTGCTTCCATATAAGACCATAGCTGAGAT
* * * * *
52416078 ATGGCATCGGTATGATATGTGCTTCTATGTAAGACCATATCT-AGGAT
1 ATGGCATCGATGTGATATGTGCTTCCATATAAGACCATAGCTGA-GAT
* * * *
52416125 ATGGCATC-AGTGTGATATGTG-ATCCATGTAAGACCATGGCTGAGCT
1 ATGGCATCGA-TGTGATATGTGCTTCCATATAAGACCATAGCTGAGAT
52416171 ATG
1 ATG
52416174 ACTTCAGTGT
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
46 22 0.18
47 88 0.73
48 10 0.08
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (47 bp):
ATGGCATCGATGTGATATGTGCTTCCATATAAGACCATAGCTGAGAT
Found at i:52422695 original size:49 final size:49
Alignment explanation
Indices: 52422639--52422734 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
52422629 TATTCATGAG
52422639 CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGTAC
1 CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGTAC
52422688 CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGT
1 CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGT
52422735 CACATAATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (49 bp):
CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGTAC
Found at i:52422975 original size:47 final size:49
Alignment explanation
Indices: 52422906--52423168 Score: 252
Period size: 47 Copynumber: 5.6 Consensus size: 49
52422896 GTAAGGTTCT
52422906 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGTC
* * * *
52422953 GATGCCATGTACTAGACATGGTCTTACACTGACT-ATCATCTCGTAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGTC
* * *
52423001 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGTC
* * *
52423047 GATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTC--AGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGT--C
* * * *
52423093 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTCCATAATGT-G--GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCATCTCGAAGTC
52423141 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
52423169 AGCACACACA
Statistics
Matches: 183, Mismatches: 21, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
44 1 0.01
46 74 0.40
47 77 0.42
48 26 0.14
50 2 0.01
51 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGTC
Found at i:52423148 original size:94 final size:93
Alignment explanation
Indices: 52422906--52423174 Score: 309
Period size: 94 Copynumber: 2.9 Consensus size: 93
52422896 GTAAGGTTCT
* * * * *
52422906 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TCATATCTCAAGTCGATGCCATGTACTAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATATGT--GGCCGATG-CATGTCCCAGAC
*
52422970 ATGGTCTTACACT-G-ACTATCATCTCGTAGTC
63 AT-GTCTTACACTAGCAC-ATCATCTCGTAGCC
* *
52423001 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CATAT-GTGGCCGATGCATGTCCCAGACA
*
52423064 TGTCTTACACTAGCAC-TCGTCTCAGT-GCC
64 TGTCTTACACTAGCACATCATCTC-GTAGCC
*
52423093 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTCCATAATGTGGCCGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CAT-ATGTGGCCGATGCATGTCCCAGACA
52423158 TGTCTTACACTAGCACA
64 TGTCTTACACTAGCACA
52423175 CACAAGTGAC
Statistics
Matches: 151, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
92 22 0.15
93 42 0.28
94 78 0.52
95 9 0.06
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATATGTGGCCGATGCATGTCCCAGACATG
TCTTACACTAGCACATCATCTCGTAGCC
Found at i:52423163 original size:140 final size:141
Alignment explanation
Indices: 52422906--52423168 Score: 351
Period size: 140 Copynumber: 1.9 Consensus size: 141
52422896 GTAAGGTTCT
* * *
52422906 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTACTAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGTCGATGCCATGTACCAGACA
* *
52422971 TGGTCTTACACTGACTATCATCTCGTAGTCGATGCATGTCCCAGACATGTCTTACACTGGCTTAC
66 TGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAC
52423036 ATCTCGAGGCC
131 ATCTCGAGGCC
* *
52423047 GATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTC-AGTGCCGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACAT-ATCTCAAGT--CGATGCCATGTACCAG
*
52423108 ACATGGTCTTACACT-AGCT-TCCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACT
63 ACATGGTCTTACACTGA-CTAT-CAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
52423169 AGCACACACA
Statistics
Matches: 108, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
138 4 0.04
139 19 0.18
140 80 0.74
141 5 0.05
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (141 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGTCGATGCCATGTACCAGACA
TGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAC
ATCTCGAGGCC
Found at i:52423882 original size:12 final size:12
Alignment explanation
Indices: 52423865--52423889 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52423855 CAAAAATGTA
52423865 AAAATCATCAAG
1 AAAATCATCAAG
52423877 AAAATCATCAAG
1 AAAATCATCAAG
52423889 A
1 A
52423890 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:52426023 original size:28 final size:29
Alignment explanation
Indices: 52425973--52426027 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
52425963 CTAAGGTACA
*
52425973 GGGGACACACGGCCAGACAACATGCCCAT
1 GGGGACACACAGCCAGACAACATGCCCAT
52426002 GGGG-CACACAGCCTAGAC-ACATGCCC
1 GGGGACACACAGCC-AGACAACATGCCC
52426028 GTGTGTCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.29, C:0.36, G:0.27, T:0.07
Consensus pattern (29 bp):
GGGGACACACAGCCAGACAACATGCCCAT
Found at i:52430290 original size:30 final size:30
Alignment explanation
Indices: 52430256--52430313 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
52430246 TAGGCACTTC
*
52430256 CACACAGGT-GATCCACACGTCCGGGTGTGA
1 CACACAGGTAGA-CCACACGCCCGGGTGTGA
* *
52430286 CACACGGGTAGACCACACGCCCGTGTGT
1 CACACAGGTAGACCACACGCCCGGGTGT
52430314 CATGGTCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.22, C:0.33, G:0.29, T:0.16
Consensus pattern (30 bp):
CACACAGGTAGACCACACGCCCGGGTGTGA
Found at i:52434927 original size:4 final size:4
Alignment explanation
Indices: 52434918--52434965 Score: 55
Period size: 4 Copynumber: 12.5 Consensus size: 4
52434908 CGTTCCCTTC
* * *
52434918 TCTT TCTT TCCT TCTC T-TT TCTT TCTT TCTT TCTT TC-C TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT
52434964 TC
1 TC
52434966 ACTTTCTCCC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
3 4 0.11
4 32 0.89
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TCTT
Found at i:52434942 original size:19 final size:19
Alignment explanation
Indices: 52434886--52434965 Score: 67
Period size: 19 Copynumber: 4.1 Consensus size: 19
52434876 CTAGCCTCTC
52434886 TCCTTGCTCTCTTTCTCTTC-T
1 TCCTT-CTCT-TTTCT-TTCTT
* * *
52434907 TCGTTCCCTTCTCTTTCTT
1 TCCTTCTCTTTTCTTTCTT
52434926 TCCTTCTCTTTTCTTTCTT
1 TCCTTCTCTTTTCTTTCTT
52434945 T-CTT-TCTTTCCTCTTTCTT
1 TCCTTCTCTTT--TCTTTCTT
52434964 TC
1 TC
52434966 ACTTTCTCCC
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
17 5 0.10
18 6 0.12
19 31 0.63
20 3 0.06
21 4 0.08
ACGTcount: A:0.00, C:0.35, G:0.03, T:0.62
Consensus pattern (19 bp):
TCCTTCTCTTTTCTTTCTT
Found at i:52434944 original size:23 final size:23
Alignment explanation
Indices: 52434918--52434989 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
52434908 CGTTCCCTTC
52434918 TCTTTCTTTCCTT-CTCTTTTCTT
1 TCTTTCTTTCCTTCCTC-TTTCTT
*
52434941 TCTTTCTTTCTTTCCTCTTTCTT
1 TCTTTCTTTCCTTCCTCTTTCTT
**
52434964 TCACTTTCTCCCCTCTCCTCTTTCTT
1 T--CTTTCTTTCCT-TCCTCTTTCTT
52434990 CCCCATTTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 19 0.46
24 3 0.07
25 8 0.20
26 11 0.27
ACGTcount: A:0.01, C:0.36, G:0.00, T:0.62
Consensus pattern (23 bp):
TCTTTCTTTCCTTCCTCTTTCTT
Found at i:52436321 original size:3 final size:3
Alignment explanation
Indices: 52436308--52436336 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
52436298 TTGAGTCCAT
52436308 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
52436337 ATTTTCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:52437589 original size:30 final size:30
Alignment explanation
Indices: 52437554--52437611 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
52437544 TAGGCACTTC
52437554 CACACGGGT-GATCCACATGCCCGTGTGTGA
1 CACACGGGTAGA-CCACATGCCCGTGTGTGA
* *
52437584 CACACGGGTAGACCACATGTCGGTGTGT
1 CACACGGGTAGACCACATGCCCGTGTGT
52437612 CATAGCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (30 bp):
CACACGGGTAGACCACATGCCCGTGTGTGA
Found at i:52444010 original size:49 final size:49
Alignment explanation
Indices: 52443949--52444173 Score: 270
Period size: 49 Copynumber: 4.5 Consensus size: 49
52443939 GAGGTCACTG
* * *
52443949 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACA
* * * * *
52443998 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA--TTGGTCACA
* * * * ** *
52444049 TGTGTAGTACTAAGTGCAGGCTACGACATGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACA
*
52444099 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACA
*
52444148 TGTGTAGTACTAAGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
52444174 TGCGTACCAG
Statistics
Matches: 147, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 67 0.46
50 42 0.29
51 38 0.26
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACA
Found at i:52444122 original size:101 final size:98
Alignment explanation
Indices: 52443943--52444171 Score: 278
Period size: 101 Copynumber: 2.3 Consensus size: 98
52443933 TATTGTGAGG
* * * * * *
52443943 TCACTGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTAC
1 TCAC-GTGTGTAGTACTAAGTGCAGGCTACGACATGTACCAGATGATTGGTCACATGTGTAGTAC
* *
52444008 TAAGTGCAGGCTACTATGCGTACCTGATAACTTTGA
65 TAAGTGCAGGCTACTACGCGTACCGGATAA--TTGA
* * *
52444044 TCACGTGTGTAGTACTAAGTGCAGGCTACGACATGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACGACATGTACCAGATGATT-GGTCACATGTGTAGTAC
* *
52444109 TAAGTGCAGGCTACTACGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCGGATAATTGA
* * *
52444143 TCGCATGTGTAGTACTAAGTGAAGGCTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTAC
52444172 TATGCGTACC
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 29 0.26
100 36 0.32
101 46 0.41
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACGACATGTACCAGATGATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCGGATAATTGA
Found at i:52446836 original size:2 final size:2
Alignment explanation
Indices: 52446829--52446859 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
52446819 AACTGATTAT
52446829 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
52446860 TATATGAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:52449660 original size:100 final size:100
Alignment explanation
Indices: 52449477--52449669 Score: 298
Period size: 100 Copynumber: 1.9 Consensus size: 100
52449467 TATTGTGAGG
* *
52449477 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGATTATTGGTTGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGATAATTGGTCGCATGTGTAGTACT
* *
52449542 AAGTGCAGTCTACCATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACCATGCGTACCAGATAACTTCGA
* * *
52449577 TCACGTGTGTAGTACTAAGTGCAGGCTACTGCGTGTAC-CGAATAATTGGTCGTATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAG-ATAATTGGTCGCATGTGTAGTAC
*
52449641 TAAGTGCAGGCTACTATGCGTACCAGATA
65 TAAGTGCAGGCTACCATGCGTACCAGATA
52449670 GCTTTGGCTG
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
99 1 0.01
100 83 0.99
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACCATGCGTACCAGATAACTTCGA
Found at i:52449664 original size:49 final size:49
Alignment explanation
Indices: 52449482--52449664 Score: 190
Period size: 49 Copynumber: 3.7 Consensus size: 49
52449472 TGAGGTCACG
* * * *
52449482 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAAGATTATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGA-ATAATTGGTCGCA
* * * * * *
52449531 TGTGTAGTACTAAGTGCAGTCTACCATGCGTACCCG-ATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCGAATAA-TT-GGTCGCA
* * *
52449582 TGTGTAGTACTAAGTGCAGGCTACTGCGTGTACCGAATAATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGAATAATTGGTCGCA
*
52449631 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
52449665 AGATAGCTTT
Statistics
Matches: 107, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 65 0.61
50 7 0.07
51 35 0.33
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGAATAATTGGTCGCA
Found at i:52451175 original size:48 final size:48
Alignment explanation
Indices: 52451104--52451292 Score: 270
Period size: 48 Copynumber: 3.9 Consensus size: 48
52451094 GGGTAAATTA
* * * * *
52451104 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATG
* * *
52451152 CCGATGCCATGTCCTAGACATGGTATTACACTAGCATACATATCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATG
* * * *
52451200 CCAATTCCATGTCTCAGACATGGTTTTACACTAGCACACATATCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATG
52451248 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
52451293 CCCAATTGTC
Statistics
Matches: 123, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 123 1.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATG
Found at i:52452592 original size:29 final size:27
Alignment explanation
Indices: 52452498--52452592 Score: 64
Period size: 29 Copynumber: 3.2 Consensus size: 27
52452488 TAACACAGTG
* *
52452498 TCAGTACAATCTGGGCCAAAGCCCTAT
1 TCAGTACAATATGGGCCTAAGCCCTAT
* *
52452525 TCAGTAACAATACAGTCTGGGCCTTAGCCCTTAA
1 TCAGT-ACAAT--A---TGGGCCTAAGCCC-TAT
*
52452559 ACAGTAGCAATATGGGCCTAAGCCCTCAT
1 TCAGTA-CAATATGGGCCTAAGCCCT-AT
52452588 TCAGT
1 TCAGT
52452593 CTCGACATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
27 5 0.10
28 6 0.12
29 17 0.33
32 1 0.02
33 12 0.24
34 10 0.20
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (27 bp):
TCAGTACAATATGGGCCTAAGCCCTAT
Found at i:52452889 original size:24 final size:25
Alignment explanation
Indices: 52452862--52452913 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
52452852 GCCTAGCCTC
52452862 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
52452886 TTTTAATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
52452911 TTT
1 TTT
52452914 CGGTAAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:52452920 original size:25 final size:25
Alignment explanation
Indices: 52452856--52452938 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
52452846 CTGGAGGCCT
52452856 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
*
52452880 AGCCCTTTTTAATAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
** *
52452905 AGCCCTTTTCGGTAAACTAGGGG-AT
1 AGCCCTTTTCAATAAACT-GGGGCAA
52452930 AGCCCTTTT
1 AGCCCTTTT
52452939 AGCACTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 5 0.10
24 7 0.13
25 36 0.69
26 4 0.08
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:52453809 original size:27 final size:27
Alignment explanation
Indices: 52453747--52453824 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
52453737 GGGCATATTC
* *
52453747 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
*
52453774 GTCACTTTACCCTATAGGGGCT-TTACG
1 GTCATTTTACCCTATAGGGG-TATTACG
*
52453801 GTCTTTTTA-CCTATTAGGGGTATT
1 GTCATTTTACCCTA-TAGGGGTATT
52453825 TTAGTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 5 0.12
27 37 0.86
28 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTACG
Found at i:52453895 original size:27 final size:27
Alignment explanation
Indices: 52453865--52453950 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
52453855 GTAAATCTAC
52453865 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAAGGTATTTCAGTAATTTTGT
*
52453892 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAAGGTATTTC-AGTAATTTTGT
* * *
52453918 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAAGGTATTTCAGTAATTTTGT
52453948 AAA
1 AAA
52453951 TCAGGGGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
26 1 0.02
27 22 0.45
28 7 0.14
29 18 0.37
30 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCAGTAATTTTGT
Found at i:52453968 original size:27 final size:27
Alignment explanation
Indices: 52453914--52454051 Score: 129
Period size: 27 Copynumber: 5.1 Consensus size: 27
52453904 TTTCTATAAT
* *
52453914 TTTTAGAAAGTCAAGGGTATTTCT-GTAA
1 TTTTACAAA-TCAGGGGTATTT-TGGTAA
**
52453942 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
52453969 TTTTAAAAAT-TGAGGGTATTTTGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * * *
52453996 TTTCACAAACCAGTGGTATTTCGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
52454023 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
52454050 TT
1 TT
52454052 CTACCCTATA
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.03
27 80 0.88
28 8 0.09
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:52454067 original size:81 final size:81
Alignment explanation
Indices: 52453929--52454084 Score: 181
Period size: 81 Copynumber: 1.9 Consensus size: 81
52453919 GAAAGTCAAG
* ** * * ***
52453929 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTTGGT
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTAAAAATAGAGGGTATTTCAAT
52453994 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
***
52454010 GGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTCTACCCTATAG-GGGTATTTCA
1 GGTATTTCGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTCTA-AAAATAGAGGGTATTTCA
52454073 ATAATTTCACAA
64 ATAATTTCACAA
52454085 TCGAGGGTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 1 0.02
81 58 0.94
82 3 0.05
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTAAAAATAGAGGGTATTTCAAT
AATTTCACAAACCAGT
Found at i:52454103 original size:26 final size:26
Alignment explanation
Indices: 52454074--52454158 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
52454064 GGTATTTCAA
* *
52454074 TAATTT-CACAATCGAGGGTAAAACGG
1 TAATTTGCA-AATCAAGGGTAAAACAG
*
52454100 TAATTTTGTAAATCAAGGGTAAAACAG
1 TAA-TTTGCAAATCAAGGGTAAAACAG
* *
52454127 TAATTTTGTAAATCAAGGGTAAAACAA
1 TAA-TTTGCAAATCAAGGGTAAAACAG
52454154 TAATT
1 TAATT
52454159 CTATAAATCG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 5 0.09
27 47 0.89
28 1 0.02
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (26 bp):
TAATTTGCAAATCAAGGGTAAAACAG
Found at i:52454113 original size:27 final size:27
Alignment explanation
Indices: 52454083--52454174 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
52454073 ATAATTTCAC
* *
52454083 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCAAGGGTAAAACAGTAATTTTGTA
52454110 AATCAAGGGTAAAACAGTAATTTTGTA
1 AATCAAGGGTAAAACAGTAATTTTGTA
* * *
52454137 AATCAAGGGTAAAACAATAATTCTATA
1 AATCAAGGGTAAAACAGTAATTTTGTA
*
52454164 AATCGAGGGTA
1 AATCAAGGGTA
52454175 CTTTGGTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCAAGGGTAAAACAGTAATTTTGTA
Found at i:52456788 original size:19 final size:19
Alignment explanation
Indices: 52456764--52456804 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
52456754 AACCTTGTTT
52456764 CGGTGACAGATACGGATTA
1 CGGTGACAGATACGGATTA
* *
52456783 CGGTGACAGATATGGGTTA
1 CGGTGACAGATACGGATTA
52456802 CGG
1 CGG
52456805 ATGTTACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.37, T:0.22
Consensus pattern (19 bp):
CGGTGACAGATACGGATTA
Found at i:52462038 original size:13 final size:13
Alignment explanation
Indices: 52462020--52462046 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52462010 GAAGAAATTG
52462020 CACACGGGCGTGT
1 CACACGGGCGTGT
52462033 CACACGGGCGTGT
1 CACACGGGCGTGT
52462046 C
1 C
52462047 CCTGTTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:52467041 original size:56 final size:56
Alignment explanation
Indices: 52466981--52467116 Score: 247
Period size: 56 Copynumber: 2.4 Consensus size: 56
52466971 TCCCAGACAG
*
52466981 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
52467037 GGTCTTACTCGCACACATATA-CTGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATC-GGAATCACATATCGATGCCAACGTATTAAACGT
52467093 GGTCTTACTCGCACACATATATCG
1 GGTCTTACTCGCACACATATATCG
52467117 ATGCCATGGT
Statistics
Matches: 77, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
55 1 0.01
56 75 0.97
57 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:52473291 original size:55 final size:53
Alignment explanation
Indices: 52473136--52473338 Score: 172
Period size: 53 Copynumber: 3.8 Consensus size: 53
52473126 TTCCTTTTTA
* * ** *
52473136 AACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATC
* * * * * *
52473189 AACTCACCATTGCTATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATC
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATC
* * * * * * *
52473242 ATAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 A-A-CTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-C
* * ** *
52473298 AACTTACCAATGCCATGCCTTGGTATGGTCTTACTTGGTAT
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTAT
52473339 TCTTAAAATA
Statistics
Matches: 117, Mismatches: 30, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 45 0.38
54 32 0.27
55 39 0.33
56 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATC
Found at i:52476818 original size:44 final size:44
Alignment explanation
Indices: 52476768--52476851 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
52476758 TCCCAGACAG
52476768 GGTCTTACTCACACACATATATCAGAAACACATATCGATGTCAA
1 GGTCTTACTCACACACATATATCAGAAACACATATCGATGTCAA
* ** * *
52476812 GGTCTTACTCGCACACATATATTGGAATCATATATCGATG
1 GGTCTTACTCACACACATATATCAGAAACACATATCGATG
52476852 CCAACATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (44 bp):
GGTCTTACTCACACACATATATCAGAAACACATATCGATGTCAA
Found at i:52485860 original size:49 final size:48
Alignment explanation
Indices: 52485706--52486028 Score: 212
Period size: 49 Copynumber: 6.7 Consensus size: 48
52485696 CATAGGGACA
* * * *
52485706 ATGCCGACGCCATGTTCCAAACATGGTCTTACACCGGCTCTCAC-ATCT
1 ATGCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCACTATCT
* * * * * * * * * *
52485754 AAGTCGACGCCATGTCCTAGACATGCCTTACACTGACTTATGTA-TATCG
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGC-TCT-CACTATCT
* *
52485803 AGGCCGATGCCATGTCCCAGACAAGTCTTACACTGGCTCTCACTTATCT
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCAC-TATCT
* * * * ** * *
52485852 GTGTCGATGCCATGTCCCAGATAGGTATTACACT--AACACAC-CTC-
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTATCT
* * * *
52485896 AAGCCGATGCCATGTCCCAAACAGGTCTTACGCTAGCT-TGCA-TATCTT
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCT-CACTATC-T
* * *
52485944 GAGGCCGGTGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATTT
1 -ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCAC-TATCT
** *
52485994 ATGTTGATGCCATGTCCTAGACAGGTCTTACACTG
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTG
52486029 ACACACACAT
Statistics
Matches: 206, Mismatches: 54, Indels: 29
0.71 0.19 0.10
Matches are distributed among these distances:
44 27 0.13
45 2 0.01
46 4 0.02
47 15 0.07
48 22 0.11
49 131 0.64
50 2 0.01
51 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTATCT
Found at i:52493275 original size:39 final size:40
Alignment explanation
Indices: 52493198--52493344 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
52493188 TAGCTCCTCG
* * *
52493198 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
52493238 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
52493277 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
52493317 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
52493345 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:52493293 original size:40 final size:39
Alignment explanation
Indices: 52493241--52493371 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
52493231 TAACTCATTC
* *
52493241 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
52493281 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
* *
52493321 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTAGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
*
52493361 AATACCTTCGG
1 AATGCCTTCGG
52493372 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 76 0.96
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:52493369 original size:80 final size:80
Alignment explanation
Indices: 52493244--52493424 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 80
52493234 CTCATTCAAT
* * * *
52493244 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTAGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
52493307 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
52493323 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTAGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTAGCACAAATACCTTCGGATCTTAACCCGGATA
52493387 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
52493404 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
52493425 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
79 7 0.08
80 70 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTAGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:52493384 original size:40 final size:40
Alignment explanation
Indices: 52493245--52493424 Score: 163
Period size: 40 Copynumber: 4.5 Consensus size: 40
52493235 TCATTCAATG
* * *
52493245 CCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATG-
1 CCTTCGGGACTTAACCCGGA-ATTAATAACTAGCAC-AAAGA
* * * *
52493285 CCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGAATTAATAACTAGCACAAAGA
*
52493325 CCTTCGGGACTTAACCCGGAATTAATAACTAGCACAAATA
1 CCTTCGGGACTTAACCCGGAATTAATAACTAGCACAAAGA
** * *
52493365 CCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAAG-
1 CCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TAGCACAAAGA
*
52493405 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
52493425 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
39 11 0.09
40 95 0.81
41 12 0.10
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGAATTAATAACTAGCACAAAGA
Found at i:52495555 original size:10 final size:12
Alignment explanation
Indices: 52495529--52495559 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
52495519 CAGTATGCTC
52495529 CACACGGCCCAA
1 CACACGGCCCAA
52495541 CACACGGCCCAA
1 CACACGGCCCAA
52495553 CACACGG
1 CACACGG
52495560 ACATGTGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.48, G:0.19, T:0.00
Consensus pattern (12 bp):
CACACGGCCCAA
Found at i:52495781 original size:18 final size:21
Alignment explanation
Indices: 52495745--52495783 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 21
52495735 ATTGATTAAA
52495745 AAATAGAAAACAAAGTAAAAT
1 AAATAGAAAACAAAGTAAAAT
52495766 AAATA-AAAA-AAA-TAAAAT
1 AAATAGAAAACAAAGTAAAAT
52495784 TATAATGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 3 0.17
20 4 0.22
21 5 0.28
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (21 bp):
AAATAGAAAACAAAGTAAAAT
Found at i:52497273 original size:22 final size:22
Alignment explanation
Indices: 52497246--52497289 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
52497236 GAAAATGATA
*
52497246 AAAATTAATAAAAATTTATTAT
1 AAAATTAATAAAAATTCATTAT
* *
52497268 AAAATTATTTAAAATTCATTAT
1 AAAATTAATAAAAATTCATTAT
52497290 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTAATAAAAATTCATTAT
Found at i:52497837 original size:56 final size:56
Alignment explanation
Indices: 52497775--52497889 Score: 203
Period size: 56 Copynumber: 2.1 Consensus size: 56
52497765 GTTGGTAACA
* *
52497775 TAGAAACTTGAATCAATAGGTCTTTTAAATAGGTTGTCACGTGGCTAGGCTAGTGG
1 TAGAAACTTGAATCAATAGGTCTTTTAAATAGGTTGTAACGTGGCTAGGCTAGGGG
*
52497831 TAGAAACTTGAATCAATAGGTCTTTTAAATAGGTTTTAACGTGGCTAGGCTAGGGG
1 TAGAAACTTGAATCAATAGGTCTTTTAAATAGGTTGTAACGTGGCTAGGCTAGGGG
52497887 TAG
1 TAG
52497890 GTAAAAGATA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (56 bp):
TAGAAACTTGAATCAATAGGTCTTTTAAATAGGTTGTAACGTGGCTAGGCTAGGGG
Found at i:52505029 original size:52 final size:50
Alignment explanation
Indices: 52504897--52505081 Score: 158
Period size: 50 Copynumber: 3.7 Consensus size: 50
52504887 TGGTAGTACG
* * * *
52504897 TGTGATCCTATGTAAGACTATATCTGGGATATGGCATTGGCATCAACATG
1 TGTGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCAACATA
* * * * * * **
52504947 TGTGGTCCCATGTAAGACGATGTTTAGGACATGGCATTGGCACTGATATTTA
1 TGTGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCA-TCA-ACATA
* * *
52504999 TGTGATCCTATGTAAGACCATGTCTGGGACATGGAATTGGCATCGATATA
1 TGTGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCAACATA
* * * * *
52505049 TCTTAT-C-ATGTAAGACCATATCTGAGATATGGC
1 TGTGATCCTATGTAAGACCATGTCTGGGACATGGC
52505082 GTTGATATGA
Statistics
Matches: 107, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
48 22 0.21
49 1 0.01
50 43 0.40
51 3 0.03
52 38 0.36
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (50 bp):
TGTGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCAACATA
Found at i:52505284 original size:48 final size:48
Alignment explanation
Indices: 52504900--52505284 Score: 164
Period size: 48 Copynumber: 8.0 Consensus size: 48
52504890 TAGTACGTGT
* * * * * * *
52504900 GATCCTATGTAAGACTATATCTGGGATATGGCATTGGCATCAACATGTGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC--GATATGA
* * * * *
52504950 GGTCCCATGTAAGACGATGTTTAGGACATGGCATTGGCA-CTGATATTTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC-G--A--TATGA
* *
52505002 GATCCTATGTAAGACCATGTCTGGGACATGGAATTGGCATCGATAT-A
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
** ** * * * *
52505049 TCTTATCATGTAAGACCATATCT--GAGAT---A-TGGCGTTGATATGA
1 -GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * * ** * *
52505092 GATCCTATATAAGACCATGTCTAGGACATGGCATCAGTAT-AATTATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA-TATGA
* * * * * * ** *
52505140 GACCCCGTATAAGACCACGTCTAGGACCTGGCACCGGCGTCG-TATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * * * * * * *
52505187 GGTCCCGTATAAGACCATATATGGGATATGGCATCGACA-CTGAGT-TGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC-GA-TATGA
*
52505235 GATCCCATGTAAGACAATGTCTGGGACATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
52505283 GA
1 GA
52505285 CATCATTTAA
Statistics
Matches: 246, Mismatches: 69, Indels: 42
0.69 0.19 0.12
Matches are distributed among these distances:
42 25 0.10
43 2 0.01
44 4 0.02
46 5 0.02
47 37 0.15
48 97 0.39
49 3 0.01
50 34 0.14
52 38 0.15
53 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
Found at i:52508303 original size:40 final size:40
Alignment explanation
Indices: 52508266--52508490 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
52508256 GCTACTCGTT
* *
52508266 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
52508306 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
52508346 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
52508386 CAAATGCCTTCGAG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
52508425 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
52508466 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
52508491 CATCATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.20
40 113 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:52508474 original size:119 final size:120
Alignment explanation
Indices: 52508266--52508490 Score: 278
Period size: 119 Copynumber: 1.9 Consensus size: 120
52508256 GCTACTCGTT
* * *
52508266 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGAGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
52508331 ATTTAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCACA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
* * **
52508386 CAAATGCCTTCGAG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGAGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
52508448 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
52508491 CATCATTCAA
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
118 4 0.04
119 64 0.72
120 21 0.24
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGAGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
Found at i:52513286 original size:98 final size:95
Alignment explanation
Indices: 52513119--52513337 Score: 246
Period size: 98 Copynumber: 2.3 Consensus size: 95
52513109 AGGCTAACGC
* *
52513119 CATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATGTCCTAAACATA
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGCATATCCATGCCGACGCCATGTCCTAAACATA
52513184 GTCTTACACTGACACATC-T-CGTAGCCAATG
65 GTCTTACACTGACAC-TCATACGTAGCCAATG
*
52513214 CATGTCCCAGACATGTCTTACACTAGCTCTCGTC-TCAATGCCAATGCCGACGCCATGTCCTAGA
1 CATGTCCCAGACATGTCTTACACTAGCTCTCG-CAT--AT-CC-ATGCCGACGCCATGTCCTAAA
* * * * ** * *
52513278 CCTGGTCTTACACTGGCTCTCATAATTTGGCCGATG
61 CATAGTCTTACACTGACACTCAT-ACGTAGCCAATG
52513314 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
52513338 GGCACACAAA
Statistics
Matches: 105, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
94 19 0.18
95 15 0.14
96 2 0.02
97 4 0.04
98 34 0.32
100 31 0.30
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.27
Consensus pattern (95 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGCATATCCATGCCGACGCCATGTCCTAAACATAG
TCTTACACTGACACTCATACGTAGCCAATG
Found at i:52513475 original size:29 final size:29
Alignment explanation
Indices: 52513433--52513492 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
52513423 ATCATACATA
*
52513433 ATCATTTCCACAAACAAGCAATTTATGCT
1 ATCATTTCCACAAACAAGAAATTTATGCT
*
52513462 ATCATTTTCACAAACAAGAAATTTATGCT
1 ATCATTTCCACAAACAAGAAATTTATGCT
52513491 AT
1 AT
52513493 ATCAATTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (29 bp):
ATCATTTCCACAAACAAGAAATTTATGCT
Found at i:52518515 original size:93 final size:93
Alignment explanation
Indices: 52518356--52518526 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
52518346 GGATGGTTGA
* * * **
52518356 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATACGAATGTCCCAACTCATTGAGT
52518421 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
52518449 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAAT-TCCCAAGCTCATTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATACGAATGTCCCAA-CTCATTGAG
52518513 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
52518527 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 5 0.07
93 66 0.93
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATACGAATGTCCCAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52518529 original size:46 final size:45
Alignment explanation
Indices: 52518359--52518531 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 45
52518349 TGGTTGAGCA
* * *
52518359 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAAT
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAAT
** * * * * *
52518404 GTCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAGGCA-
1 -TCCGAACTCATTGAGTTGAGTCCGAGTTCACT--TATG-GA-TACGAAT
52518452 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAAT
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAAT
*
52518497 TCCCAAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCATTGAGTTGAGTCCGAGTTCACTTA
52518532 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
44 4 0.04
45 6 0.06
46 59 0.57
47 30 0.29
48 2 0.02
49 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (45 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAAT
Found at i:52519500 original size:40 final size:40
Alignment explanation
Indices: 52519445--52519524 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
52519435 GTTGTTATTT
52519445 ATATTTTCAGGTTCTTTATTGATTCTAGTTTTAATAGAAA
1 ATATTTTCAGGTTCTTTATTGATTCTAGTTTTAATAGAAA
52519485 ATATTTTCAGGTTCTTTATTGATTCTAGTTTTAATAGAAA
1 ATATTTTCAGGTTCTTTATTGATTCTAGTTTTAATAGAAA
52519525 CAAACCTCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.50
Consensus pattern (40 bp):
ATATTTTCAGGTTCTTTATTGATTCTAGTTTTAATAGAAA
Done.