Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 64 of 216
Found at i:19222577 original size:43 final size:43
Alignment explanation
Indices: 19222441--19222839 Score: 135
Period size: 44 Copynumber: 9.1 Consensus size: 43
19222431 CACCGACAGT
*
19222441 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGC
1 GAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGC
* * ** * * * * ****
19222484 GGAGCAGGTTAAAAATAGTAGATCTTGCCT-CCTGTACCGACAGC
1 GAAGCAGATCGAAGACACTAG-CCTTGCCTCCCTGGGTTG-CAGC
*
19222528 GAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGT
1 GAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGC
* * ** * * * * ****
19222571 GGAGCAGGTTAAAAATAGC-AGATCTTGCCTTCCTGCACCGACAGC
1 GAAGCAGATCGAAGACA-CTAG-CCTTGCCTCCCTGGGTTG-CAGC
* * * *
19222616 GAAGCAGATCGAAGACACCAACCTTGCCTACCTGGGTTGTAGC
1 GAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGC
* * ** * * * * *****
19222659 GGAGCAGGTTAAAAATAGC-AGATCTTGCCTTCCTACACCGACAGC
1 GAAGCAGATCGAAGACA-CTAG-CCTTGCCTCCCTGGGTTG-CAGC
* *
19222704 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGC
1 GAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGC
* * * * * * ****
19222747 GGAGCAGGT-TAA-AAATTGCAGATCTTGCCT-CCTGTACCGACAGC
1 GAAGCAGATCGAAGACACT--AG-CCTTGCCTCCCTGGGTTG-CAGC
* *
19222791 GAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGTAGC
1 GAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGC
19222834 GAAGCA
1 GAAGCA
19222840 AGTTAAAAAT
Statistics
Matches: 232, Mismatches: 106, Indels: 36
0.62 0.28 0.10
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 89 0.38
44 103 0.44
45 33 0.14
46 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.20
Consensus pattern (43 bp):
GAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGC
Found at i:19222635 original size:175 final size:176
Alignment explanation
Indices: 19222326--19222901 Score: 940
Period size: 175 Copynumber: 3.3 Consensus size: 176
19222316 GTGAAGATAA
* *
19222326 CAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
19222391 GTAACGGAACAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGA
66 GTAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGA
*
19222456 CACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAG
131 CACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAG
* * *
19222502 TAGATCTTGCC-TCCTGTACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
19222566 GCAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGA
66 GTAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGA
* *
19222631 CACCAACCTTGCCTACCTGGGTTGTAGCGGAGCAGGTTAAAAATAG
131 CACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAG
*
19222677 CAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
19222742 GTAGCGGAGCAGGTTAAAAATTGCAGATCTTGCC-TCCTGTACCGACAGCGAAGCAGATCGAAGA
66 GTAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGA
* * * *
19222806 CACTAGCCTTGCCTCCCTAGGTTGTAGCGAAGCAAGTTAAAAATAG
131 CACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAG
* *
19222852 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGATGACCCCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
19222902 CTATCTCCCT
Statistics
Matches: 369, Mismatches: 30, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
175 278 0.75
176 91 0.25
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.20
Consensus pattern (176 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GTAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGA
CACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAG
Found at i:19222686 original size:44 final size:44
Alignment explanation
Indices: 19222375--19222778 Score: 172
Period size: 44 Copynumber: 9.2 Consensus size: 44
19222365 AGACACCAAC
* * *
19222375 CTTGCCTCCCTGGGTTGTAACGGAACAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* **** * * * ** * * * *
19222419 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
*
19222463 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGTAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
**** * * ** * * *
19222507 CTTGCCT-CCTGTACCGACAGCGAAGCAGATCGAAGACA-CTAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGC-AGAT
*
19222550 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* **** * * ** * * * *
19222594 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCA-AC
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
* *
19222638 CTTGCCTACCTGGGTTGTAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* ***** * * ** * * * *
19222682 CTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
* *
19222726 CTTGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATTGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
19222770 CTTGCCTCC
1 CTTGCCTCC
19222779 TGTACCGACA
Statistics
Matches: 234, Mismatches: 115, Indels: 22
0.63 0.31 0.06
Matches are distributed among these distances:
43 76 0.32
44 111 0.47
45 47 0.20
ACGTcount: A:0.26, C:0.27, G:0.25, T:0.21
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
Found at i:19222793 original size:263 final size:263
Alignment explanation
Indices: 19222326--19222890 Score: 1004
Period size: 263 Copynumber: 2.1 Consensus size: 263
19222316 GTGAAGATAA
* *
19222326 CAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTACCTGGGTT
* *
19222391 GTAACGGAACAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGA
66 GTAACGGAACAGGTTAAAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGA
*
19222456 CACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGTAGATCTTGCCTCCTGTAC
131 CACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTCCTGTAC
* * * *
19222521 CGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTAAAAA
196 CGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGCGAAGCAAGTTAAAAA
19222586 TAG
261 TAG
19222589 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTACCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTACCTGGGTT
* *
19222654 GTAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGA
66 GTAACGGAACAGGTTAAAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGA
* *
19222719 CACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATTGCAGATCTTGCCTCCTGTAC
131 CACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTCCTGTAC
*
19222784 CGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGTAGCGAAGCAAGTTAAAAA
196 CGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGCGAAGCAAGTTAAAAA
19222849 TAG
261 TAG
19222852 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
19222891 TGACCCCAGC
Statistics
Matches: 288, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
263 288 1.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.20
Consensus pattern (263 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTACCTGGGTT
GTAACGGAACAGGTTAAAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGA
CACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTCCTGTAC
CGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGCGAAGCAAGTTAAAAA
TAG
Found at i:19222913 original size:88 final size:88
Alignment explanation
Indices: 19222326--19222901 Score: 940
Period size: 88 Copynumber: 6.6 Consensus size: 88
19222316 GTGAAGATAA
* *
19222326 CAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
19222391 GTAACGGAACAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
*
19222414 CAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
19222479 GCAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* * *
19222502 TAGATCTTGCC-TCCTGTACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
19222566 GCAGTGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* *
19222589 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTACCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
19222654 GTAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
*
19222677 CAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
19222742 GTAGCGGAGCAGGTTAAAAATTG
66 GTAGCGGAGCAGGTTAAAAATAG
* * *
19222765 CAGATCTTGCC-TCCTGTACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
19222829 GTAGCGAAGCAAGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* *
19222852 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGATGACCCCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
19222902 CTATCTCCCT
Statistics
Matches: 455, Mismatches: 31, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
87 162 0.36
88 293 0.64
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GTAGCGGAGCAGGTTAAAAATAG
Found at i:19223083 original size:44 final size:44
Alignment explanation
Indices: 19222989--19223666 Score: 251
Period size: 44 Copynumber: 15.6 Consensus size: 44
19222979 GATGGCGAAC
* * * * * * *
19222989 CTTATCTCCCTGAAGTTACAATGGAACAGATTGAAGTTA-ATAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACA-GAT
* * **
19223033 CCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAATCACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGAT
* * *** * *
19223077 CTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCAT--CGGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGAT
* * ** *
19223117 TTTATCTCCCTGAAGTTGTAGTGGAGCAGACCCAAGAAAGCA-AG-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA--TTA-AAATCACAGAT
* * ** *
19223162 CTTATCTCCCTAAAGATGCAGTGGAGCAGATTAAAGCCA-ATAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACA-GAT
* * *
19223206 CTTATCTCCCTGAAGTCGCAGTAGAGCGGATTAAAATCACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGAT
** * ** *** *
19223250 CTTATCTCTTTGAAGTTGCAG-AGAATAGA-TCGCATC-TAG-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGAT
* * * *
19223290 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCA-AG-C
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCACAGAT
* * * **
19223334 CTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGC-GAAT
1 CTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCACAG-AT
* * ** *
19223379 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATGAAAGCCA-ATAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACA-GAT
* * **
19223423 CCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGAT
** * * * * * *
19223467 CTTATCTCTTTGAAGTTGCAG-AGAGTAGA-TCACAT--CGGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGAT
**
19223507 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAA--AGC-GAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATCA-CAGA-T
* *
19223552 CTTATCTCCCTGAAGGTGCAGTGGAGCAGACTCAAGAAATCA-AG-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-TA-AAATCACAGAT
* * * * * * *
19223597 CTTATCCCCCTAAAATTGCAGTGGGGCAGACT-AAATAAACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAT-CACAGAT
** * *
19223641 CCCATCTCCCTAAAGTTGTAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
19223667 TGGATTAGAA
Statistics
Matches: 460, Mismatches: 132, Indels: 84
0.68 0.20 0.12
Matches are distributed among these distances:
40 63 0.14
41 23 0.05
42 18 0.04
43 24 0.05
44 208 0.45
45 114 0.25
46 7 0.02
47 2 0.00
48 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGAT
Found at i:19223140 original size:84 final size:84
Alignment explanation
Indices: 19223035--19223316 Score: 262
Period size: 84 Copynumber: 3.3 Consensus size: 84
19223025 TTAATAATCC
* *
19223035 TATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAG
**
19223100 AGCAGATCGCATCGGGTTT
66 AGCAGATCGCATCCAGTTT
* * ** * * * *
19223119 TATCTCCCTGAAGTTGTAGTGGAGCAGACCCAAGAAAGCA-AG-TCTTATCTCCCTAAAGATGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGA--TTA-AAATCACAGATCTTATCTCTCTGAAGTTGCA
* *** * *
19223182 GTGGAGCAGATTAAAGCCAATAATCT
63 G-AGAGCAGATCGCATCCAGT--T-T
* * *
19223208 TATCTCCCTGAAGTCGCAGTAGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAG
** * *
19223273 AATAGATCGCATCTAGTCT
66 AGCAGATCGCATCCAGTTT
19223292 TATCTCCCTGAAGTTGCAGTGGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
19223317 AAACTAAGTA
Statistics
Matches: 148, Mismatches: 41, Indels: 18
0.71 0.20 0.09
Matches are distributed among these distances:
84 48 0.32
85 19 0.13
86 19 0.13
87 18 0.12
88 19 0.13
89 25 0.17
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAG
AGCAGATCGCATCCAGTTT
Found at i:19223282 original size:173 final size:172
Alignment explanation
Indices: 19222988--19223339 Score: 479
Period size: 173 Copynumber: 2.0 Consensus size: 172
19222978 AGATGGCGAA
* * * ** *
19222988 CCTTATCTCCCTGAAGTTACAATGGAACAGATTGAAGTTAATAATCCTATCTCCCTAAAGTTGCA
1 CCTTATCTCCCTAAAGATACAATGGAACAGATTAAAGCCAATAATCCTATCTCCCTAAAGTCGCA
* * * * *
19223053 GTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCGGGTT
66 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAACAGATCGCATCGAGTC
* *
19223118 TTATCTCCCTGAAGTTGTAGTGGAGCAGACCCAAGAAAGCAAG
131 TTATCTCCCTGAAGTTGCAGTGGAGCA-AACCAAGAAAGCAAG
* * * * * *
19223161 TCTTATCTCCCTAAAGATGCAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTGAAGTCGCA
1 CCTTATCTCCCTAAAGATACAATGGAACAGATTAAAGCCAATAATCCTATCTCCCTAAAGTCGCA
* * *
19223226 GTAGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCAGAGAATAGATCGCATCTAGTC
66 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAACAGATCGCATCGAGTC
* *
19223291 TTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAG
131 TTATCTCCCTGAAGTTGCAGTGGAGCAAACCAAGAAAGCAAG
19223333 CCTTATC
1 CCTTATC
19223340 CTCCTGAAGT
Statistics
Matches: 154, Mismatches: 25, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
172 18 0.12
173 136 0.88
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (172 bp):
CCTTATCTCCCTAAAGATACAATGGAACAGATTAAAGCCAATAATCCTATCTCCCTAAAGTCGCA
GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAACAGATCGCATCGAGTC
TTATCTCCCTGAAGTTGCAGTGGAGCAAACCAAGAAAGCAAG
Found at i:19223350 original size:217 final size:218
Alignment explanation
Indices: 19223118--19223631 Score: 723
Period size: 217 Copynumber: 2.4 Consensus size: 218
19223108 GCATCGGGTT
*
19223118 TTATCTCCCTGAAGTTGTAGTGGAGCAGACCCAAGAAAGCAAGTCTTATCTCCCTAAAGATGCAG
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTAAAGATGCAG
*
19223183 TGGAGCAGATTAAAGCCAATAATCTTATCTCCCTGAAGTCGCAGTAGAGCGGATTAAAATCACAG
66 TGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTCGCAGTAGAGCGGATTAAAATCACAG
* *
19223248 ATCTTATCTCTTTGAAGTTGCAGAGAATAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTG
131 ATCTTATCTCTTTGAAGTTGCAGAGAATAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTG
* *
19223313 GAGCA-AACTAAGTAAGCAAGCC
196 GAGCAGAACCAAGAAAGCAAGCC
* ** *
19223335 TTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCGAA-TCTTATCTCCCTAAAGTTG
1 TTATCTC-CCTGAAGTTGTAGTGGA-GCAGACTCAAGAAAGC-AAGTCTTATCTCCCTAAAGATG
* * * * *
19223397 CAGTGGAGCAGATGAAAGCCAATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAATCA
63 CAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTCGCAGTAGAGCGGATTAAAATCA
* *
19223462 CAGATCTTATCTCTTTGAAGTTGCAGAGAGTAGATCACATCGGGTCTTATCTCCCTGAAGTTGCA
128 CAGATCTTATCTCTTTGAAGTTGCAGAGAATAGATCACATCGAGTCTTATCTCCCTGAAGTTGCA
* * *
19223527 GTGGAGCAGACCCAAGAAAGCGAGTC
193 GTGGAGCAGAACCAAGAAAGCAAGCC
* * * *
19223553 TTATCTCCCTGAAGGTGCAGTGGAGCAGACTCAAGAAATCAAGTCTTATCCCCCTAAA-ATTGCA
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTAAAGA-TGCA
* *
19223617 GTGGGGCAGACTAAA
65 GTGGAGCAGATTAAA
19223632 TAAACAAATC
Statistics
Matches: 258, Mismatches: 31, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
216 3 0.01
217 179 0.69
218 73 0.28
219 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (218 bp):
TTATCTCCCTGAAGTTGTAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTAAAGATGCAG
TGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTCGCAGTAGAGCGGATTAAAATCACAG
ATCTTATCTCTTTGAAGTTGCAGAGAATAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTG
GAGCAGAACCAAGAAAGCAAGCC
Found at i:19223443 original size:173 final size:172
Alignment explanation
Indices: 19223030--19223405 Score: 472
Period size: 173 Copynumber: 2.2 Consensus size: 172
19223020 TGAAGTTAAT
* *
19223030 AATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
* * * * *
19223095 CAGAGAGCAGATCGCATCGGGTTTTATCTCCCTGAAGTTGTAGTGGAGCAGACCCAAGAAAGCAA
66 CAGAGAACAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAACCAAGAAAGCAA
* * *
19223160 GTCTTATCTCCCTAAAGATGCAGTGGAGCAGATTAAAGCCAAT
131 GCCTTATCTCCCTAAAGATGCAGTGGAGCAGATGAAAGCC-AG
* * * *
19223203 AATCTTATCTCCCTGAAGTCGCAGTAGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
* * * *
19223268 CAGAGAATAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA-AACTAAGTAAGCAA
66 CAGAGAACAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAACCAAGAAAGCAA
* * * *
19223332 GCCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGC-G
131 GCCTTATCTC-CCTAAAGATGCAGTGGA-GCAGA-TGAA-A-GCCAG
19223376 AATCTTATCTCCCTAAAGTTGCAGTGGAGC
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGC
19223406 AGATGAAAGC
Statistics
Matches: 173, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
171 3 0.02
172 34 0.20
173 133 0.77
174 1 0.01
175 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (172 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
CAGAGAACAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAACCAAGAAAGCAA
GCCTTATCTCCCTAAAGATGCAGTGGAGCAGATGAAAGCCAG
Found at i:19224202 original size:19 final size:19
Alignment explanation
Indices: 19224178--19224231 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
19224168 AATTTTCAAG
19224178 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
19224197 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19224216 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
19224232 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19224220 original size:38 final size:40
Alignment explanation
Indices: 19224178--19224254 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
19224168 AATTTTCAAG
19224178 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
19224216 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
19224255 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:19224483 original size:23 final size:23
Alignment explanation
Indices: 19224439--19224483 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
19224429 TCTTATTTTG
* *
19224439 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
19224462 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
19224484 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:19224724 original size:13 final size:13
Alignment explanation
Indices: 19224706--19224735 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19224696 ATCTTGTATC
19224706 ATTATTATTATTT
1 ATTATTATTATTT
19224719 ATTATTATTATTT
1 ATTATTATTATTT
19224732 -TTAT
1 ATTAT
19224736 ATTCATGCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTATTATTATTT
Found at i:19225221 original size:24 final size:22
Alignment explanation
Indices: 19225174--19225239 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 22
19225164 CTCTCTTTAT
19225174 ATTTTTTTTTGTTTATTTCCTTC
1 ATTTTTTTTTGTTTATTT-CTTC
19225197 ATTTTTTTATTGATTTATGTT-TTC
1 ATTTTTTT-TTG-TTTAT-TTCTTC
* *
19225221 ATTTATATTTTGTTCATTT
1 ATTT-TTTTTTGTTTATTT
19225240 GATACTTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
22 2 0.05
23 12 0.32
24 13 0.35
25 8 0.22
26 2 0.05
ACGTcount: A:0.15, C:0.08, G:0.06, T:0.71
Consensus pattern (22 bp):
ATTTTTTTTTGTTTATTTCTTC
Found at i:19226084 original size:27 final size:27
Alignment explanation
Indices: 19226054--19226209 Score: 226
Period size: 27 Copynumber: 5.8 Consensus size: 27
19226044 TTTGACAGAT
19226054 GGTATTTCGGTCATTTTACCCATCGAG
1 GGTATTTCGGTCATTTTACCCATCGAG
*
19226081 GGTATTTCGGTTATTTTACCCA-CTGAG
1 GGTATTTCGGTCATTTTACCCATC-GAG
* *
19226108 GGTATTTCAGTCATTTTACCCATCAAG
1 GGTATTTCGGTCATTTTACCCATCGAG
*
19226135 GGTATTTCGATCATTTTACCCATCGAG
1 GGTATTTCGGTCATTTTACCCATCGAG
* *
19226162 GGTATTTTGGTCATTTTACCCTTCGAG
1 GGTATTTCGGTCATTTTACCCATCGAG
*
19226189 GGTATTTCGATCA-TTTACCCA
1 GGTATTTCGGTCATTTTACCCA
19226210 CGAATCGTAA
Statistics
Matches: 114, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
26 8 0.07
27 105 0.92
28 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTCATTTTACCCATCGAG
Found at i:19228911 original size:42 final size:42
Alignment explanation
Indices: 19228815--19228927 Score: 104
Period size: 42 Copynumber: 2.6 Consensus size: 42
19228805 AAGTGTGTAT
** *
19228815 AATTCAAAAATAAGGTTACACGATCATGTCACCAGACCGTGCGC
1 AATTC-AAAATAAGG-TACACGGCCGTGTCACCAGACCGTGCGC
* * *
19228859 AATTCAAAAT-AGGTTCACACGGCTGTGTCA-CAGACCGTGTGT
1 AATTCAAAATAAGG-T-ACACGGCCGTGTCACCAGACCGTGCGC
* *
19228901 GATTCGAAATAAGGTACACGGCCGTGT
1 AATTCAAAATAAGGTACACGGCCGTGT
19228928 TGTCAGGCTG
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
41 11 0.19
42 24 0.41
43 18 0.31
44 5 0.09
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (42 bp):
AATTCAAAATAAGGTACACGGCCGTGTCACCAGACCGTGCGC
Found at i:19230126 original size:24 final size:24
Alignment explanation
Indices: 19230089--19230151 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
19230079 GTACATAGTA
19230089 CCTGCTAAATACACCAGCACAAAG
1 CCTGCTAAATACACCAGCACAAAG
* * * *
19230113 CTTGCTAAAAACACCTGCTCAAAG
1 CCTGCTAAATACACCAGCACAAAG
19230137 CCTGCTAAATACACC
1 CCTGCTAAATACACC
19230152 GACACGTAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.38, C:0.33, G:0.11, T:0.17
Consensus pattern (24 bp):
CCTGCTAAATACACCAGCACAAAG
Found at i:19236648 original size:19 final size:19
Alignment explanation
Indices: 19236624--19236715 Score: 166
Period size: 19 Copynumber: 4.8 Consensus size: 19
19236614 AATTTTTGAA
19236624 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19236643 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19236662 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
19236681 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19236700 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
19236716 ATATATGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19237502 original size:25 final size:24
Alignment explanation
Indices: 19237473--19237528 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
19237463 ACATGTATAT
19237473 ATATTTTTTTAAAACGAATATTTTC
1 ATATTTTTTT-AAACGAATATTTTC
* * *
19237498 CTATTATTTTTTAATGAATATTTTC
1 ATATT-TTTTTAAACGAATATTTTC
19237523 ATATTT
1 ATATTT
19237529 ATATGTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 20 0.77
26 5 0.19
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (24 bp):
ATATTTTTTTAAACGAATATTTTC
Found at i:19238321 original size:98 final size:98
Alignment explanation
Indices: 19238198--19238392 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
19238188 AAAAATCATG
*
19238198 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
19238263 AAATCTTGGATAAGTGGATATTCTTTTGAAGTA
66 AAATCTTGGATAAGTGGATATTCTTTTAAAGTA
* *
19238296 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
* *
19238361 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATATTCTTTTAAAGT
19238393 TTTATTGTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATATTCTTTTAAAGTA
Found at i:19243989 original size:8 final size:8
Alignment explanation
Indices: 19243976--19244013 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
19243966 GTTCAGATTA
19243976 AAAAAAAC
1 AAAAAAAC
19243984 AAAAAAA-
1 AAAAAAAC
19243991 AACAAAAAC
1 AA-AAAAAC
19244000 AAAAAAAC
1 AAAAAAAC
19244008 AAAAAA
1 AAAAAA
19244014 GAAAAGTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 2 0.07
8 24 0.86
9 2 0.07
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:19244018 original size:14 final size:13
Alignment explanation
Indices: 19243975--19244018 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
19243965 AGTTCAGATT
*
19243975 AAAAAA-AACAAA
1 AAAAAACAAAAAA
19243987 AAAAAACAAAAACA
1 AAAAAACAAAAA-A
19244001 AAAAAACAAAAAA
1 AAAAAACAAAAAA
*
19244014 GAAAA
1 AAAAA
19244019 GTGAAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 6 0.21
13 9 0.32
14 13 0.46
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAA
Found at i:19245434 original size:44 final size:44
Alignment explanation
Indices: 19245383--19245958 Score: 192
Period size: 44 Copynumber: 13.2 Consensus size: 44
19245373 GCGTAGAAGG
19245383 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * ** *
19245427 TTAAAGATGGCGGATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGA
1 TTGAAGATTGTAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA
* *** * * ** * * * *
19245471 TTTAAGCCA-CCAAG-CCTTGTCTCCCTCCGCAGCAGCGGAGAAGG
1 TTGAAG--ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
19245515 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
** *
19245559 TTGAAGACGGT-GAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGA
1 TTGAAGATTGTAG-ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA
* *** * * * * * * *
19245603 TTTAAGCCA-CCAAG-CCTTGTCTCCCTGAGCAGCAGCGGAGAAGG
1 TTGAAG--ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
*
19245647 TTGAAGATTGTAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGA
1 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * ** * *
19245691 TCGAAGA-CGGCGAATCTTATCTTTCC-AAG-A-TAGTGGGAAGTAGA
1 TTGAAGATTGTAG-ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA
* *** * * * * * ** * *
19245735 TTTAAGCCA-CCAAG-CCTTGTCTCCCTGAGTAGCAACGGAGAAGG
1 TTGAAG--ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
19245779 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * * *
19245823 TCGAAGA-CGTGGAT-TTATCTTCC-AAG-A-TAGTGGGAAGCAGA
1 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGA
* *** * * * * * * *
19245864 TTTAAGCCA-CCAAG-CCTTGTCTCCCTCAGCAGCAGCGGAGAAGG
1 TTGAAG--ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
19245908 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
*
19245952 TCGAAGA
1 TTGAAGA
19245959 CGGCGGATCT
Statistics
Matches: 368, Mismatches: 121, Indels: 86
0.64 0.21 0.15
Matches are distributed among these distances:
39 4 0.01
40 3 0.01
41 13 0.04
42 24 0.07
43 44 0.12
44 246 0.67
45 21 0.06
46 13 0.04
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (44 bp):
TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
Found at i:19245521 original size:132 final size:132
Alignment explanation
Indices: 19245284--19246065 Score: 1309
Period size: 132 Copynumber: 5.9 Consensus size: 132
19245274 CTGCATTGAC
* * *
19245284 AGTGGAGTAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
19245349 CAAGCCTTGTCTCCCTGAGCAGCAGCGTAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
19245414 GT
131 GT
** *
19245416 AGTGGAGCAGATTAAAGATGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
19245481 CAAGCCTTGTCTCCCTCCGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
19245546 GT
131 GT
* * *
19245548 AGTGGAGCAGATTGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
19245613 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCTCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
19245678 GT
131 GT
* *
19245680 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
19245745 CAAGCCTTGTCTCCCTGAGTAGCAACGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
19245810 GT
131 GT
*
19245812 AGTGGAGCAGATCGAAGAC-GTGGAT-TTATC-TTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
19245874 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
19245939 GT
131 GT
* * *
19245941 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGAGAAGTAGATTTAAGCCAA
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
19246006 CTAGCCTTGTCTCCCTCAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCCTATCTCCCT
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
19246066 GAAGTTGCAG
Statistics
Matches: 612, Mismatches: 35, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
129 114 0.19
130 10 0.02
131 9 0.01
132 479 0.78
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:19246206 original size:393 final size:393
Alignment explanation
Indices: 19245283--19246080 Score: 1116
Period size: 393 Copynumber: 2.0 Consensus size: 393
19245273 ACTGCATTGA
* * * *
19245283 CAGTGGAGTAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
1 CAGTGGAGCAGATCGAAAACG-CGAATCTTATCTCTCCAAGATA-TGAGAAGCAGA-TTAAGCCA
* * * * ** ****
19245348 CCAAGCCTTGTCTCCCTGAGCAGCAGCGTAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
63 CCAAGCCTTATCTCCCTGAGTAGCAACGGAGAAGACTGAAGAAACAAGATCTTATCTCCCTAAGC
* *
19245413 AGTAGTGGAGCAGATTAAAGATGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
128 AGTAGTGGAGCAGATCAAAGATCGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
*
19245478 CACCAAGCCTTGTCTCCCTCCGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
193 CACCAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
19245543 GCAGTAGTGGAGCAGATTGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
258 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGAGAAGCAGATTTAA
* * * *
19245608 GCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCTCT
323 GCCAACAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCCTATCTCCCT
19245673 AAGCAG
388 AAGCAG
* * * * *
19245679 TAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCCA
1 CAGTGGAGCAGATCGAAAAC-GCGAATCTTATCTCTCCAAGATA-TGAGAAGCAGA-TTAAGCCA
* ** ****
19245744 CCAAGCCTTGTCTCCCTGAGTAGCAACGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
63 CCAAGCCTTATCTCCCTGAGTAGCAACGGAGAAGACTGAAGAAACAAGATCTTATCTCCCTAAGC
* *
19245809 AGTAGTGGAGCAGATCGAAGA-CGTGGAT-TTATC-TTCCAAGATAGTGGGAAGCAGATTTAAGC
128 AGTAGTGGAGCAGATCAAAGATCGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
19245871 CACCAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
193 CACCAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
19245936 GCAGTAGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGAGAAGTAGATTTAA
258 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGAGAAGCAGATTTAA
* *
19246001 GCCAACTAGCCTTGTCTCCCTCAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCCTATCTCCCT
323 GCCAACAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCCTATCTCCCT
**
19246066 GAAGTTG
388 -AAGCAG
19246073 CAGTGGAG
1 CAGTGGAG
19246081 TGGATTAAAA
Statistics
Matches: 375, Mismatches: 25, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
393 212 0.57
394 16 0.04
395 5 0.01
396 141 0.38
397 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (393 bp):
CAGTGGAGCAGATCGAAAACGCGAATCTTATCTCTCCAAGATATGAGAAGCAGATTAAGCCACCA
AGCCTTATCTCCCTGAGTAGCAACGGAGAAGACTGAAGAAACAAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCAAAGATCGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGAGAAGCAGATTTAAGCC
AACAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCCTATCTCCCTAAG
CAG
Found at i:19246305 original size:217 final size:216
Alignment explanation
Indices: 19246053--19246658 Score: 960
Period size: 217 Copynumber: 2.8 Consensus size: 216
19246043 AAGATTGTAG
* *
19246053 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCCGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
*
19246118 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
* *
19246183 CTTATCCTTCTCAAGTTGCAGTAGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCA
131 CTTATCCTCCTGAAGTTGCAGT-GGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCA
* *
19246248 GTGGAGCAGATTAAAGCCGATA
195 ATGGAGCAAATTAAAGCCGATA
* * *
19246270 GTCCTATCTCCCTGAAGTTGCAGTAGAGGGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
* *
19246335 AGAGAGCAGATCGCATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
* * *
19246400 CTTATCCTCCTGAAGTTACAGTGGGGCAGACTGAAGATGGCAAGTTTTATCTCCCTGAAGTTGTA
131 CTTATCCTCCTGAAGTTGCAGT-GGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCA
* *
19246465 ATGGAGTAAATTAAAGTCGATA
195 ATGGAGCAAATTAAAGCCGATA
*
19246487 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACATTAGATCTTATCTCTCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
* * * * * *
19246552 AGAGAGCAGATCGCATCTAGTATTATCTCTCTGAAGTTGTAGTGAAGCAGATTAAATAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
*
19246617 CTTATCGTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCA
131 CTTATCCTCCTGAAGTTGCAGTG-GGCAGACTGAAGATGGCA
19246659 CTAATTCCTA
Statistics
Matches: 357, Mismatches: 31, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
216 1 0.00
217 356 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (216 bp):
ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
CTTATCCTCCTGAAGTTGCAGTGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAA
TGGAGCAAATTAAAGCCGATA
Found at i:19246522 original size:44 final size:44
Alignment explanation
Indices: 19246057--19246562 Score: 246
Period size: 44 Copynumber: 11.7 Consensus size: 44
19246047 TTGTAGATCC
** * **
19246057 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAA-ACCTTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATA-ATCT
* *** *
19246101 TATCTCTCC-GAAGTTGCAG-AGAGCAGATCGCA-TC--TAGTCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCT
* ** *
19246141 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAA-TCT
* * * * * *
19246185 TATC-CTTCTCAAGTTGCAGTAGG-GCAGACTGAAGATGGCA-AGTCT
1 TATCTC-CCTGAAGTTGCAGT-GGAGCAGATTAAAG-TCG-ATAATCT
* * *
19246230 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAGTCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCT
* ** * **
19246274 TATCTCCCTGAAGTTGCAGTAGAGGGGATTAAA-ACCTTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATA-ATCT
* * ***
19246318 TATCTCTCTGAAGTTGCAG-AGAGCAGATCGCA-TC-A-AATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCT
* * *
19246358 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCA-AGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-CG-ATAATCT
* * * * * * *
19246402 TATC-CTCCTGAAGTTACAGTGGGGCAGACTGAAGATGGCA-AGTTT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAG-TCG-ATAATCT
* * * * *
19246447 TATCTCCCTGAAGTTGTAATGGAGTAAATTAAAGTCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCT
* *
19246491 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA-AC-ATTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGA-TA-ATCT
* *
19246535 TATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT
19246563 CGCATCTAGT
Statistics
Matches: 358, Mismatches: 76, Indels: 57
0.73 0.15 0.12
Matches are distributed among these distances:
39 2 0.01
40 43 0.12
41 19 0.05
42 1 0.00
43 35 0.10
44 183 0.51
45 69 0.19
46 5 0.01
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCT
Found at i:19246847 original size:19 final size:19
Alignment explanation
Indices: 19246823--19246954 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
19246813 AATTTTTGAG
19246823 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
19246842 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
19246861 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19246880 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
19246901 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
19246920 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
19246939 GATATGCAATATTAGA
1 GATATGCAATCTTAGA
19246955 ATATATGATT
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
19 85 0.82
21 19 0.18
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19246890 original size:59 final size:59
Alignment explanation
Indices: 19246824--19246943 Score: 213
Period size: 59 Copynumber: 2.0 Consensus size: 59
19246814 ATTTTTGAGG
*
19246824 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATATGAT
* *
19246883 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATATAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATATGAT
19246942 AT
1 AT
19246944 GCAATATTAG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (59 bp):
ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATATGAT
Found at i:19247729 original size:25 final size:24
Alignment explanation
Indices: 19247700--19247755 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
19247690 ACATGTATAT
19247700 ATATTTTTTTAAAACGAATATTTTC
1 ATATTTTTTT-AAACGAATATTTTC
* * *
19247725 CTATTATTTTTTAATGAATATTTTC
1 ATATT-TTTTTAAACGAATATTTTC
19247750 ATATTT
1 ATATTT
19247756 ATATGTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 20 0.77
26 5 0.19
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (24 bp):
ATATTTTTTTAAACGAATATTTTC
Found at i:19248548 original size:98 final size:98
Alignment explanation
Indices: 19248427--19248617 Score: 328
Period size: 98 Copynumber: 1.9 Consensus size: 98
19248417 ATCATGAAGA
*
19248427 AAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAAT
1 AAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAAT
*
19248492 CTTGGATAAGTGGATATTCTTTTGAAGTAAAGG
66 CTTGGATAAGTGGATATTCTTTTAAAGTAAAGG
* *
19248525 AAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAAT
1 AAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAAT
* *
19248590 CTTGGATGAGTGGATGTTCTTTTAAAGT
66 CTTGGATAAGTGGATATTCTTTTAAAGT
19248618 TTTATTGTAT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 87 1.00
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (98 bp):
AAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAAT
CTTGGATAAGTGGATATTCTTTTAAAGTAAAGG
Found at i:19252539 original size:22 final size:22
Alignment explanation
Indices: 19252509--19252551 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19252499 TCAGCAGAAC
* *
19252509 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
19252531 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
19252552 AACGCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.14, G:0.28, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:19252739 original size:83 final size:84
Alignment explanation
Indices: 19252642--19252933 Score: 403
Period size: 83 Copynumber: 3.5 Consensus size: 84
19252632 CGCTTACATA
* * *
19252642 AAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTAGAAAAAAACGCCCCCAAAGATCATG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCCCTAAAGATAATG
19252707 TTCTTTAGCGGCGCTTA-G
66 TTCTTTAGCGGCGCTTAGG
* * *
19252725 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATGATG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCCCTAAAGATAATG
19252790 TTCTTTAGCGGCGCTTAGG
66 TTCTTTAGCGGCGCTTAGG
* * *
19252809 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGGAAGAAAACGCCTCTAAA-AGTAA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTAGAAAAAAACGCCCCTAAAGA-TAA
* **
19252873 TGTTCTATAGCGGCGCTTATT
64 TGTTCTTTAGCGGCGCTTAGG
*
19252894 CAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTTA
1 AAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTTA
19252934 TTTCACAAAC
Statistics
Matches: 189, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
83 77 0.41
84 43 0.23
85 69 0.37
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (84 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCCCTAAAGATAATG
TTCTTTAGCGGCGCTTAGG
Found at i:19252800 original size:125 final size:127
Alignment explanation
Indices: 19252642--19252933 Score: 414
Period size: 125 Copynumber: 2.3 Consensus size: 127
19252632 CGCTTACATA
* *
19252642 AAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTAGAAAAAAACGCCCCCAAAGATCATG
1 AAAAAACGCCGCTAAAGATGATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCCCCAAAGATCATG
* *
19252707 TTCTTTAGCGGCGC-TTAGAA-AAAACGCCGCT-AAAGATCATGTTCTTTAGCGGCGCTTAGG
66 TTCTTTAGCGGCGCTTTAGAAGAAAACGCCGCTAAAAG-TAATGTTCTATAGCGGCGCTTAGG
* * *
19252767 AAAAAACGCCGCTAAAGATGATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATG
1 AAAAAACGCCGCTAAAGATGATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCCCCAAAGATCATG
* * **
19252832 TTCTTTAGCGGCGCTTTGGAAGAAAACGCCTCTAAAAGTAATGTTCTATAGCGGCGCTTATT
66 TTCTTTAGCGGCGCTTTAGAAGAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAGG
*
19252894 CAAAAACGCCGCTAAA-A-GTAGTGTTCTTTAGCGGCGCTTA
1 AAAAAACGCCGCTAAAGATG-A-TGTTCTTTAGCGGCGCTTA
19252934 TTTCACAAAC
Statistics
Matches: 150, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
125 75 0.50
126 7 0.05
127 64 0.43
128 4 0.03
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (127 bp):
AAAAAACGCCGCTAAAGATGATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCCCCAAAGATCATG
TTCTTTAGCGGCGCTTTAGAAGAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAGG
Found at i:19252935 original size:42 final size:42
Alignment explanation
Indices: 19252642--19252933 Score: 412
Period size: 42 Copynumber: 7.0 Consensus size: 42
19252632 CGCTTACATA
* *
19252642 AAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTAGA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* *
19252684 AAAAAACGCCCCCAAAGATCATGTTCTTTAGCGGCGCTTA-G
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
19252725 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
*
19252767 AAAAAACGCCGCTAAAGATGATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
*
19252809 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * * **
19252851 AAGAAAACGCCTCTAAA-AGTAATGTTCTATAGCGGCGCTTATT
1 AA-AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAGG
*
19252894 CAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTTA
1 AAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTTA
19252934 TTTCACAAAC
Statistics
Matches: 228, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
41 39 0.17
42 156 0.68
43 33 0.14
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
Found at i:19253378 original size:12 final size:12
Alignment explanation
Indices: 19253346--19253417 Score: 69
Period size: 12 Copynumber: 6.2 Consensus size: 12
19253336 TTTTGAACCT
* *
19253346 CTGCTTCTATTG
1 CTGCTTCTCTCG
*
19253358 CTGCTTCTCTTG
1 CTGCTTCTCTCG
*
19253370 CTGCTTCTCTCA
1 CTGCTTCTCTCG
**
19253382 CTGCGGC-CT--
1 CTGCTTCTCTCG
19253391 CTGCTTCTCTCG
1 CTGCTTCTCTCG
19253403 CTGCTTCTCTCG
1 CTGCTTCTCTCG
19253415 CTG
1 CTG
19253418 TAGCCGTTGC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
9 5 0.10
10 2 0.04
11 2 0.04
12 41 0.82
ACGTcount: A:0.03, C:0.38, G:0.18, T:0.42
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:19253429 original size:33 final size:33
Alignment explanation
Indices: 19253358--19253440 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
19253348 GCTTCTATTG
* *
19253358 CTGCTTCTCTTGCTGCTTCTCTCACTGCGGCCT
1 CTGCTTCTCTCGCTGCTTCTCTCACTGCAGCCT
* *
19253391 CTGCTTCTCTCGCTGCTTCTCTCGCTGTAGCCGT
1 CTGCTTCTCTCGCTGCTTCTCTCACTGCAGCC-T
*
19253425 -TGCTTCCCTCGCTGCT
1 CTGCTTCTCTCGCTGCT
19253441 GCCTCTGCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 43 0.98
34 1 0.02
ACGTcount: A:0.02, C:0.40, G:0.19, T:0.39
Consensus pattern (33 bp):
CTGCTTCTCTCGCTGCTTCTCTCACTGCAGCCT
Found at i:19253449 original size:21 final size:22
Alignment explanation
Indices: 19253403--19253450 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
19253393 GCTTCTCTCG
*
19253403 CTGCTTCTCTCGCTGTAGCCGT
1 CTGCTTCCCTCGCTGTAGCCGT
19253425 -TGCTTCCCTCGCTGCT-GCC-T
1 CTGCTTCCCTCGCTG-TAGCCGT
19253445 CTGCTT
1 CTGCTT
19253451 TAAGTTGCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.02, C:0.40, G:0.21, T:0.38
Consensus pattern (22 bp):
CTGCTTCCCTCGCTGTAGCCGT
Found at i:19258976 original size:9 final size:9
Alignment explanation
Indices: 19258962--19259250 Score: 170
Period size: 9 Copynumber: 32.9 Consensus size: 9
19258952 TTTTTATGTA
19258962 TTATGTAAG
1 TTATGTAAG
19258971 TTATGTAAG
1 TTATGTAAG
*
19258980 TTCTGT-A-
1 TTATGTAAG
19258987 TTATGT-A-
1 TTATGTAAG
*
19258994 TTATGTATG
1 TTATGTAAG
**
19259003 CCCCATGTAAG
1 --TTATGTAAG
*
19259014 TAATGTAAG
1 TTATGTAAG
*
19259023 CTATGTAAG
1 TTATGTAAG
*
19259032 TAATGT-A-
1 TTATGTAAG
*
19259039 TTATATAAG
1 TTATGTAAG
*
19259048 TTGTGT-A-
1 TTATGTAAG
* ** *
19259055 CTACATCA-
1 TTATGTAAG
*
19259063 TTATGTGAG
1 TTATGTAAG
19259072 TTATGTAAG
1 TTATGTAAG
* *
19259081 TTATTTAAT
1 TTATGTAAG
*
19259090 TTACT-TAAT
1 TTA-TGTAAG
19259099 TTATGTAAG
1 TTATGTAAG
19259108 TTATGTAAG
1 TTATGTAAG
* * *
19259117 ATATTTAAT
1 TTATGTAAG
19259126 TTATGTAAG
1 TTATGTAAG
* *
19259135 TTATTTAAT
1 TTATGTAAG
*
19259144 TTACT-TAAT
1 TTA-TGTAAG
19259153 TTATGTAAG
1 TTATGTAAG
*
19259162 TTATGCAAG
1 TTATGTAAG
* * *
19259171 ATATTTAAT
1 TTATGTAAG
19259180 TTATGTAAG
1 TTATGTAAG
19259189 TTATGTAAG
1 TTATGTAAG
*
19259198 TTACT-TAAT
1 TTA-TGTAAG
19259207 TTATGTAAG
1 TTATGTAAG
19259216 TTATGTAAG
1 TTATGTAAG
* *
19259225 TTATTTAAT
1 TTATGTAAG
*
19259234 TTTTGTAAG
1 TTATGTAAG
19259243 TTATGTAA
1 TTATGTAA
19259251 TTAACCAAAT
Statistics
Matches: 213, Mismatches: 53, Indels: 28
0.72 0.18 0.10
Matches are distributed among these distances:
7 18 0.08
8 12 0.06
9 174 0.82
10 3 0.01
11 6 0.03
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:19259110 original size:27 final size:27
Alignment explanation
Indices: 19259072--19259250 Score: 259
Period size: 27 Copynumber: 6.6 Consensus size: 27
19259062 ATTATGTGAG
* *
19259072 TTATGTAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAAT
* *
19259099 TTATGTAAGTTATGTAAGATATTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAAT
* *
19259126 TTATGTAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAAT
* * *
19259153 TTATGTAAGTTATGCAAGATATTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAAT
19259180 TTATGTAAGTTATGTAAGTTACTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAAT
*
19259207 TTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAAT
*
19259234 TTTTGTAAGTTATGTAA
1 TTATGTAAGTTATGTAA
19259251 TTAACCAAAT
Statistics
Matches: 134, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 134 1.00
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (27 bp):
TTATGTAAGTTATGTAAGTTACTTAAT
Found at i:19259134 original size:54 final size:54
Alignment explanation
Indices: 19259072--19259252 Score: 308
Period size: 54 Copynumber: 3.4 Consensus size: 54
19259062 ATTATGTGAG
*
19259072 TTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
1 TTATGTAAGTTATGTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
* *
19259126 TTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGCAAGATATTTAAT
1 TTATGTAAGTTATGTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
* *
19259180 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
*
19259234 TTTTGTAAGTTATGTAATT
1 TTATGTAAGTTATGTAATT
19259253 AACCAAATGT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 120 1.00
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (54 bp):
TTATGTAAGTTATGTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
Found at i:19260682 original size:21 final size:22
Alignment explanation
Indices: 19260664--19260711 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
19260654 TGTAAATTTT
19260664 ATAAGCACCAACTGGAATTTGTAA
1 ATAAG-ACCAACTGGAATTTGT-A
*
19260688 ATTAGACCAACTGGAATTTGTA
1 ATAAGACCAACTGGAATTTGTA
19260710 AT
1 AT
19260712 TTCTAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.13
23 16 0.70
24 4 0.17
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (22 bp):
ATAAGACCAACTGGAATTTGTA
Found at i:19265762 original size:45 final size:45
Alignment explanation
Indices: 19265693--19265892 Score: 179
Period size: 45 Copynumber: 4.5 Consensus size: 45
19265683 TACACGGTTG
* * * *
19265693 ATCAGCACACAAC-ACCACCCTTATAGTCAATAGTACTC-GGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTA-TCGGGTGAA
* * *
19265737 ATCAGCACATAGCAACCACCTTTATACTCAATGGTACCGGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTATCGGGTGAA
* * * * * * *
19265782 ATCAGCACATAGTAACCACCTATGTAACCATTGGTATCGAGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTATCGGGTGAA
** ** * * *
19265827 ATCAGCACATAGCAACCAATTTTATTTTCATTAATATCGGGTGGA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTATCGGGTGAA
*
19265872 ATCAGCACATAGCATCCACCT
1 ATCAGCACATAGCAACCACCT
19265893 ATATTTCCAA
Statistics
Matches: 125, Mismatches: 29, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
44 12 0.10
45 113 0.90
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.24
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCTTTATAATCAATAGTATCGGGTGAA
Found at i:19266856 original size:59 final size:60
Alignment explanation
Indices: 19266749--19266870 Score: 210
Period size: 59 Copynumber: 2.0 Consensus size: 60
19266739 AATTCATTTT
** *
19266749 CATAACTAAATGACCAAAATGCCCATAATGAAACACTTTGGCAACATGCCTAACCATGTC
1 CATAACTAAATGACCAAAATGCCCATAATGAAACACTTCAGAAACATGCCTAACCATGTC
19266809 CATAACTAAATGACCAAAATG-CCATAATGAAACACTTCAGAAACATGCCTAACCATGTC
1 CATAACTAAATGACCAAAATGCCCATAATGAAACACTTCAGAAACATGCCTAACCATGTC
19266868 CAT
1 CAT
19266871 TTTTGTCCAC
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
59 38 0.64
60 21 0.36
ACGTcount: A:0.42, C:0.26, G:0.11, T:0.21
Consensus pattern (60 bp):
CATAACTAAATGACCAAAATGCCCATAATGAAACACTTCAGAAACATGCCTAACCATGTC
Found at i:19271481 original size:45 final size:45
Alignment explanation
Indices: 19271412--19271609 Score: 168
Period size: 45 Copynumber: 4.4 Consensus size: 45
19271402 TACACGGTTG
* * * *
19271412 ATCAGCACACATC-ACCACCCTTATAGTCAATAGTACTC-GGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTA-TCGGGTGAA
* * *
19271456 ATCAGCACATAGCAACCACCTTTATACA-CAATGGTACCCGGTGAA
1 ATCAGCACATAGCAACCACCTTTATA-ATCAATAGTATCGGGTGAA
* * * * * *
19271501 ATCAGCACATAGTAACCACCTATGTAACCATTGGTATCGGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTATCGGGTGAA
* * ** * * *
19271546 ATCAACACATAGCAACCACTTTTATTTTCATTAATATCGGGTGGA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTATCGGGTGAA
*
19271591 ATCAGCACATAGCATCCAC
1 ATCAGCACATAGCAACCAC
19271610 TTATATTTCC
Statistics
Matches: 125, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
44 13 0.10
45 112 0.90
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.24
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCTTTATAATCAATAGTATCGGGTGAA
Found at i:19271628 original size:45 final size:45
Alignment explanation
Indices: 19271535--19271628 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
19271525 TAACCATTGG
* * **
19271535 TATCGGGTGAAATCAACACATAGCAACCACTTTTATTTTCATTAA
1 TATCGGGTGAAATCAACACATAGCAACCACTTATATTTCCAACAA
* * * *
19271580 TATCGGGTGGAATCAGCACATAGCATCCACTTATATTTCCAACGA
1 TATCGGGTGAAATCAACACATAGCAACCACTTATATTTCCAACAA
19271625 TATC
1 TATC
19271629 CGGCCCATTC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (45 bp):
TATCGGGTGAAATCAACACATAGCAACCACTTATATTTCCAACAA
Found at i:19273541 original size:25 final size:25
Alignment explanation
Indices: 19273513--19273574 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
19273503 ACGAGTTGTA
*
19273513 AACGATAAGCTCCTCTGAGCTGAAT
1 AACGGTAAGCTCCTCTGAGCTGAAT
*
19273538 AACGGTAAGCTCCTCTGAGTTGAAT
1 AACGGTAAGCTCCTCTGAGCTGAAT
19273563 AACGGTAAGCTC
1 AACGGTAAGCTC
19273575 ATACGCAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (25 bp):
AACGGTAAGCTCCTCTGAGCTGAAT
Found at i:19274744 original size:23 final size:23
Alignment explanation
Indices: 19274713--19274760 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
19274703 AACAAAATTT
19274713 TATACGGTATTTCTATCATTCTG
1 TATACGGTATTTCTATCATTCTG
*
19274736 TATATGGTATTTCTATCATTCTG
1 TATACGGTATTTCTATCATTCTG
19274759 TA
1 TA
19274761 GGAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (23 bp):
TATACGGTATTTCTATCATTCTG
Found at i:19277236 original size:12 final size:12
Alignment explanation
Indices: 19277205--19277265 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
19277195 CATTGTAATA
19277205 AAAATGAAAAAG
1 AAAATGAAAAAG
19277217 --AA-GAAAAAG
1 AAAATGAAAAAG
*
19277226 AAAGTGAAAAAG
1 AAAATGAAAAAG
*
19277238 AAAAAGAAAAAG
1 AAAATGAAAAAG
* *
19277250 AAATTGCAAAAG
1 AAAATGAAAAAG
19277262 AAAA
1 AAAA
19277266 AAAAATCGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 7 0.18
10 2 0.05
11 1 0.03
12 29 0.74
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.07
Consensus pattern (12 bp):
AAAATGAAAAAG
Found at i:19277247 original size:5 final size:6
Alignment explanation
Indices: 19277217--19277321 Score: 68
Period size: 6 Copynumber: 17.0 Consensus size: 6
19277207 AATGAAAAAG
** ** *
19277217 AAGAAA AAGAAA GTGAAA AAGAAA AAGAAA AAGAAA TTGCAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* ** * * *
19277265 AA-AAA ATCGAAA AAGTGA GAGAAA AAGAAA ACGAAGAA AAGAAA ATTGAAA
1 AAGAAA A-AGAAA AAGAAA AAGAAA AAGAAA AAG-A-AA AAGAAA A-AGAAA
19277316 AAGAAA
1 AAGAAA
19277322 TTGAGATTGA
Statistics
Matches: 72, Mismatches: 22, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
5 4 0.06
6 53 0.74
7 11 0.15
8 4 0.06
ACGTcount: A:0.71, C:0.03, G:0.19, T:0.07
Consensus pattern (6 bp):
AAGAAA
Found at i:19277249 original size:24 final size:24
Alignment explanation
Indices: 19277217--19277270 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
19277207 AATGAAAAAG
19277217 AAGAAAAAGAAAGTGAAAAAGAAA
1 AAGAAAAAGAAAGTGAAAAAGAAA
* *
19277241 AAGAAAAAGAAATTGCAAAAGAAA
1 AAGAAAAAGAAAGTGAAAAAGAAA
19277265 AA-AAAA
1 AAGAAAA
19277271 TCGAAAAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
AAGAAAAAGAAAGTGAAAAAGAAA
Found at i:19282567 original size:16 final size:16
Alignment explanation
Indices: 19282548--19282579 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19282538 TATAAAGAGC
*
19282548 TTTTTTTATAAGACTT
1 TTTTTTTATAAAACTT
19282564 TTTTTTTATAAAACTT
1 TTTTTTTATAAAACTT
19282580 CTATTAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTTTTATAAAACTT
Found at i:19288913 original size:25 final size:25
Alignment explanation
Indices: 19288879--19288951 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 25
19288869 TAGACCACAA
19288879 ACAAGATTAGCCACAAAGGCTTTTC
1 ACAAGATTAGCCACAAAGGCTTTTC
*
19288904 ACAAGGTTAGCCACAAAGGC-TTTC
1 ACAAGATTAGCCACAAAGGCTTTTC
19288928 -C-AGATAATATGCCACAAAGGCTTT
1 ACAAGAT--TA-GCCACAAAGGCTTT
19288952 CTGAGTAACC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.07
23 1 0.02
24 6 0.14
25 30 0.71
26 2 0.05
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (25 bp):
ACAAGATTAGCCACAAAGGCTTTTC
Found at i:19288931 original size:66 final size:66
Alignment explanation
Indices: 19288822--19288945 Score: 178
Period size: 66 Copynumber: 1.9 Consensus size: 66
19288812 CTGGTACTTC
19288822 GCCACAAAGGCCTTTCACAACATTAACCAAAAAGGCTTCCCAGATAATA-GACCACAAACAAGAT
1 GCCACAAAGGCCTTTCACAACATTAACCAAAAAGGCTTCCCAGATAATATG-CCACAAACAAGAT
19288886 TA
65 TA
* ** * * *
19288888 GCCACAAAGGCTTTTCACAAGGTTAGCCACAAAGGCTTTCCAGATAATATGCCACAAA
1 GCCACAAAGGCCTTTCACAACATTAACCAAAAAGGCTTCCCAGATAATATGCCACAAA
19288946 GGCTTTCTGA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
66 50 0.98
67 1 0.02
ACGTcount: A:0.40, C:0.27, G:0.15, T:0.19
Consensus pattern (66 bp):
GCCACAAAGGCCTTTCACAACATTAACCAAAAAGGCTTCCCAGATAATATGCCACAAACAAGATT
A
Found at i:19296533 original size:35 final size:35
Alignment explanation
Indices: 19296494--19296564 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
19296484 GATTTATAGG
* * *
19296494 TATTCTGATTATGACTCCCATGTTAAGCATGTCAT
1 TATTCTAATTATGACTCACATGTTAAGCATGCCAT
* *
19296529 TATTCTAATTCTGATTCACATGTTAAGCATGCCAT
1 TATTCTAATTATGACTCACATGTTAAGCATGCCAT
19296564 T
1 T
19296565 GTGTTAAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.41
Consensus pattern (35 bp):
TATTCTAATTATGACTCACATGTTAAGCATGCCAT
Found at i:19301616 original size:50 final size:50
Alignment explanation
Indices: 19301557--19301675 Score: 168
Period size: 50 Copynumber: 2.4 Consensus size: 50
19301547 TATTACTTCA
* * *
19301557 CCATAAAGGCCTTTCACAACATTAGCCACAATGG-TTTCCCATATAATACG
1 CCATAAAGGCTTTTCACAACATTAGCCACAAAGGCTTT-CCAGATAATACG
* *
19301607 CCATAAAGGCTTTTCACAAGATTAGCCACAAAGGCTTTCTAGATAATACG
1 CCATAAAGGCTTTTCACAACATTAGCCACAAAGGCTTTCCAGATAATACG
*
19301657 CTATAAAGGCTTTTCACAA
1 CCATAAAGGCTTTTCACAA
19301676 TGTTAGTTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 59 0.95
51 3 0.05
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.27
Consensus pattern (50 bp):
CCATAAAGGCTTTTCACAACATTAGCCACAAAGGCTTTCCAGATAATACG
Found at i:19301634 original size:25 final size:25
Alignment explanation
Indices: 19301561--19301644 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 25
19301551 ACTTCACCAT
*
19301561 AAAGGCCTTTCACAACATTAGCCAC
1 AAAGGCTTTTCACAACATTAGCCAC
* * * * *
19301586 AATGG--TTTCCCATATAATACGCCAT
1 AAAGGCTTTTCACA-ACATTA-GCCAC
*
19301611 AAAGGCTTTTCACAAGATTAGCCAC
1 AAAGGCTTTTCACAACATTAGCCAC
19301636 AAAGGCTTT
1 AAAGGCTTT
19301645 CTAGATAATA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
23 6 0.13
24 4 0.09
25 25 0.56
26 4 0.09
27 6 0.13
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (25 bp):
AAAGGCTTTTCACAACATTAGCCAC
Found at i:19303548 original size:25 final size:24
Alignment explanation
Indices: 19303512--19303575 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
19303502 TACATTAGCT
* *
19303512 ACAAAGGCTTTCTAGATAATATGCC
1 ACAAAGG-TTTCCAGATAATACGCC
19303537 ACAGAAGGTTTCCAGATAATACGCC
1 ACA-AAGGTTTCCAGATAATACGCC
*
19303562 ACAAAGCTTTCCAG
1 ACAAAGGTTTCCAG
19303576 GTAACCTATC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 10 0.29
25 21 0.60
26 4 0.11
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (24 bp):
ACAAAGGTTTCCAGATAATACGCC
Found at i:19305864 original size:21 final size:20
Alignment explanation
Indices: 19305821--19305863 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
19305811 CGGAAAATTA
19305821 TTTCTGGAAATTGATTTACT
1 TTTCTGGAAATTGATTTACT
19305841 TTTCTGGAAAATT-ATTTACT
1 TTTCTGG-AAATTGATTTACT
19305861 TTT
1 TTT
19305864 TTGGTGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (20 bp):
TTTCTGGAAATTGATTTACT
Found at i:19308831 original size:50 final size:50
Alignment explanation
Indices: 19308771--19308869 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
19308761 TTTGGTGTCA
*
19308771 CCCTGCTTTATCCAACTTCCAATGGACTCGGCTGGCCTTTTGATCTTTCG
1 CCCTGCTTTATCCAACTTCCAATGGACTCAGCTGGCCTTTTGATCTTTCG
* *
19308821 CCCTGCTTTATCCAACTTCTAATGGACTCAGTTGGCCTTTTGATCTTTC
1 CCCTGCTTTATCCAACTTCCAATGGACTCAGCTGGCCTTTTGATCTTTC
19308870 TATTATTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.15, C:0.30, G:0.16, T:0.38
Consensus pattern (50 bp):
CCCTGCTTTATCCAACTTCCAATGGACTCAGCTGGCCTTTTGATCTTTCG
Found at i:19311808 original size:43 final size:43
Alignment explanation
Indices: 19311710--19311862 Score: 125
Period size: 43 Copynumber: 3.6 Consensus size: 43
19311700 AATGTCATAT
* * *
19311710 CCCAGATATGGTCTTACATGTAATCTCATATCGATGCCAATAA
1 CCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATAA
* * * **
19311753 CCCAGCCGTGGTCTTACACG-ATATCACATATCGATGCTAATGT
1 CCCAGACATGGTCTTACACGTA-ATCACATATCGATGCCAATAA
* * *
19311796 CCTAGACATGGTCTTACAC-AAAGTCTA-ATATCGATGCC-ATAT
1 CCCAGACATGGTCTTACACGTAA-TC-ACATATCGATGCCAATAA
* * *
19311838 CCCAAATATGGTCTTACATGTAATC
1 CCCAGACATGGTCTTACACGTAATC
19311863 TCGGTAACTT
Statistics
Matches: 87, Mismatches: 18, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 22 0.25
43 64 0.74
44 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
CCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATAA
Found at i:19313964 original size:21 final size:21
Alignment explanation
Indices: 19313938--19314004 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
19313928 GGAGCATAAA
*
19313938 CAGGGGCACGTATGTACAATT
1 CAGGGGCACATATGTACAATT
* * *
19313959 CAGGGGTACCA-AAGTACAAAT
1 CAGGGGCA-CATATGTACAATT
*
19313980 -AGGGGCACATATGTGCAATT
1 CAGGGGCACATATGTACAATT
*
19314000 TAGGG
1 CAGGG
19314005 CTATCGAAGT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 2 0.06
20 13 0.37
21 19 0.54
22 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (21 bp):
CAGGGGCACATATGTACAATT
Found at i:19313999 original size:41 final size:41
Alignment explanation
Indices: 19313939--19314122 Score: 242
Period size: 41 Copynumber: 4.5 Consensus size: 41
19313929 GAGCATAAAC
* *
19313939 AGGGGCACGTATGTACAATTCAGGGGTACCAAAGTACAAAT
1 AGGGGCACATATGTGCAATTCAGGGGTACCAAAGTACAAAT
* * * *
19313980 AGGGGCACATATGTGCAATTTAGGGCTATCGAAGTACAAAT
1 AGGGGCACATATGTGCAATTCAGGGGTACCAAAGTACAAAT
* * *
19314021 AGGGGCACATATTTGTAATTCAGGGGTATCAAAGTACAAAT
1 AGGGGCACATATGTGCAATTCAGGGGTACCAAAGTACAAAT
* * * *
19314062 AAGGGCACGTATGTGCAATTCAGGAGTACCAAAGTACAAAC
1 AGGGGCACATATGTGCAATTCAGGGGTACCAAAGTACAAAT
*
19314103 AGGGGCACATATGTGTAATT
1 AGGGGCACATATGTGCAATT
19314123 TAGGTAATAA
Statistics
Matches: 122, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 122 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (41 bp):
AGGGGCACATATGTGCAATTCAGGGGTACCAAAGTACAAAT
Found at i:19316996 original size:28 final size:28
Alignment explanation
Indices: 19316954--19317024 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
19316944 GCTAATAAAC
19316954 AGAGTGAAAGGAGAACGACTGTTGTGATG
1 AGAGTG-AAGGAGAACGACTGTTGTGATG
*
19316983 AGAGTGAAGGAGAACGATTGTTGTGATG
1 AGAGTGAAGGAGAACGACTGTTGTGATG
*
19317011 AGATTGAAGGAGAA
1 AGAGTGAAGGAGAA
19317025 TGGAAAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 34 0.85
29 6 0.15
ACGTcount: A:0.37, C:0.04, G:0.38, T:0.21
Consensus pattern (28 bp):
AGAGTGAAGGAGAACGACTGTTGTGATG
Found at i:19318017 original size:28 final size:28
Alignment explanation
Indices: 19317984--19318046 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
19317974 GACAGAGAGA
* * *
19317984 AAGGAGAATGATTGTTGTGATGAGAATG
1 AAGGAGAACGACTGTTGTGATAAGAATG
* *
19318012 AAGGAGGACGACTGTTGTGATAAGAGTG
1 AAGGAGAACGACTGTTGTGATAAGAATG
19318040 AAGGAGA
1 AAGGAGA
19318047 GTGGAAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.03, G:0.38, T:0.22
Consensus pattern (28 bp):
AAGGAGAACGACTGTTGTGATAAGAATG
Found at i:19319583 original size:26 final size:26
Alignment explanation
Indices: 19319547--19319619 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
19319537 ACGAACTTTC
19319547 TCAAAATTTTACCGAGGGTTAAA-TCG
1 TCAAAATTTTACCGAGGG-TAAATTCG
* *
19319573 TCAAAATTTTATCGAGGGTAAATTTG
1 TCAAAATTTTACCGAGGGTAAATTCG
*
19319599 TCAAAATTTTACC-ATGGTAAA
1 TCAAAATTTTACCGAGGGTAAA
19319620 ATTGGGGTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 11 0.26
26 31 0.74
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCGAGGGTAAATTCG
Found at i:19323110 original size:12 final size:12
Alignment explanation
Indices: 19323093--19323117 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19323083 ATCACAATAC
19323093 TCTCCCAATAAT
1 TCTCCCAATAAT
19323105 TCTCCCAATAAT
1 TCTCCCAATAAT
19323117 T
1 T
19323118 GTCTCCGTAA
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:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (12 bp):
TCTCCCAATAAT
Found at i:19327748 original size:21 final size:18
Alignment explanation
Indices: 19327713--19327761 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 18
19327703 TACAGAAGCA
* *
19327713 GAAGTTGTTGTAGAAGAT
1 GAAGTTGTTGTAGAAAAG
19327731 GAAGTTGTTGCTGAAGAAAAG
1 GAAGTTGTTG-T--AGAAAAG
19327752 GAAGTTGTTG
1 GAAGTTGTTG
19327762 AAAATGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 10 0.38
19 1 0.04
21 15 0.58
ACGTcount: A:0.33, C:0.02, G:0.35, T:0.31
Consensus pattern (18 bp):
GAAGTTGTTGTAGAAAAG
Found at i:19337990 original size:9 final size:9
Alignment explanation
Indices: 19337976--19338093 Score: 61
Period size: 9 Copynumber: 13.6 Consensus size: 9
19337966 TGAGATATAT
19337976 TTATGTAAG
1 TTATGTAAG
*
19337985 TTATGTAAC
1 TTATGTAAG
*
19337994 TTATGATATG
1 TTATG-TAAG
* * *
19338004 ATATAT-AT
1 TTATGTAAG
19338012 TTATGT-AG
1 TTATGTAAG
19338020 -TATGTAAG
1 TTATGTAAG
19338028 TTATGTAAG
1 TTATGTAAG
*
19338037 TTATG-ACAT
1 TTATGTA-AG
*
19338046 TTATGATATG
1 TTATG-TAAG
* * *
19338056 ATATAT-AT
1 TTATGTAAG
19338064 TTATGT-A-
1 TTATGTAAG
19338071 TTATGTAAG
1 TTATGTAAG
*
19338080 TTATGTAAA
1 TTATGTAAG
19338089 TTATG
1 TTATG
19338094 AAATTTGAAC
Statistics
Matches: 81, Mismatches: 20, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
7 11 0.14
8 14 0.17
9 47 0.58
10 8 0.10
11 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:19338011 original size:36 final size:34
Alignment explanation
Indices: 19337964--19338032 Score: 102
Period size: 36 Copynumber: 2.0 Consensus size: 34
19337954 TAAGTATAAT
19337964 TATGAGATATATTTATGTAAGTTATGTAACTTATGA
1 TATGAGATATATTTATGT-AG-TATGTAACTTATGA
* *
19338000 TATGATATATATTTATGTAGTATGTAAGTTATG
1 TATGAGATATATTTATGTAGTATGTAACTTATG
19338033 TAAGTTATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 12 0.39
35 2 0.06
36 17 0.55
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.46
Consensus pattern (34 bp):
TATGAGATATATTTATGTAGTATGTAACTTATGA
Found at i:19338015 original size:18 final size:17
Alignment explanation
Indices: 19337964--19338071 Score: 67
Period size: 18 Copynumber: 6.2 Consensus size: 17
19337954 TAAGTATAAT
*
19337964 TATGAGATATATTTATG
1 TATGATATATATTTATG
* * * *
19337981 TAAGTTATGTAACTTATG
1 TATGATATAT-ATTTATG
19337999 ATATGATATATATTTATG
1 -TATGATATATATTTATG
* *
19338017 TA-G-TATGTAAGTTATG
1 TATGATATAT-ATTTATG
* * *
19338033 TAAGTTATGACATTTATG
1 TATGATAT-ATATTTATG
19338051 ATATGATATATATTTATG
1 -TATGATATATATTTATG
19338069 TAT
1 TAT
19338072 TATGTAAGTT
Statistics
Matches: 67, Mismatches: 17, Indels: 14
0.68 0.17 0.14
Matches are distributed among these distances:
15 4 0.06
16 9 0.13
17 12 0.18
18 29 0.43
19 13 0.19
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (17 bp):
TATGATATATATTTATG
Found at i:19338038 original size:52 final size:52
Alignment explanation
Indices: 19337976--19338094 Score: 195
Period size: 52 Copynumber: 2.3 Consensus size: 52
19337966 TGAGATATAT
19337976 TTATGTAAGTTATGTA-ACTTATGATATGATATATATTTATGTAGTATGTAAG
1 TTATGTAAGTTATG-ACACTTATGATATGATATATATTTATGTAGTATGTAAG
* *
19338028 TTATGTAAGTTATGACATTTATGATATGATATATATTTATGTATTATGTAAG
1 TTATGTAAGTTATGACACTTATGATATGATATATATTTATGTAGTATGTAAG
*
19338080 TTATGTAAATTATGA
1 TTATGTAAGTTATGA
19338095 AATTTGAACT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
51 1 0.02
52 62 0.98
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (52 bp):
TTATGTAAGTTATGACACTTATGATATGATATATATTTATGTAGTATGTAAG
Found at i:19340432 original size:24 final size:25
Alignment explanation
Indices: 19340399--19340451 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
19340389 AAAAACTTAC
* *
19340399 ACGGCGATGCAGCAAAGGAGTGT-G
1 ACGGCAATGCAGCAAAGGAGGGTCG
* *
19340423 ACGGCAATGCGGCAGAGGAGGGTCG
1 ACGGCAATGCAGCAAAGGAGGGTCG
19340448 ACGG
1 ACGG
19340452 TGAAAATCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.26, C:0.19, G:0.45, T:0.09
Consensus pattern (25 bp):
ACGGCAATGCAGCAAAGGAGGGTCG
Found at i:19349083 original size:15 final size:15
Alignment explanation
Indices: 19349029--19349097 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
19349019 CATTTTATCA
* *
19349029 AAACCCTTAAACCCT
1 AAACCCTAAAACCAT
*
19349044 AAAACACT-AAACCAT
1 -AAACCCTAAAACCAT
* *
19349059 AAGCCTTAAAACCAT
1 AAACCCTAAAACCAT
19349074 AAACCCTAAATA-C-T
1 AAACCCTAAA-ACCAT
19349088 AAACCCTAAA
1 AAACCCTAAA
19349098 GAATAAGCCC
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
14 15 0.34
15 22 0.50
16 7 0.16
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.17
Consensus pattern (15 bp):
AAACCCTAAAACCAT
Found at i:19349092 original size:14 final size:14
Alignment explanation
Indices: 19349072--19349111 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
19349062 CCTTAAAACC
*
19349072 ATAAACCCTAAATA
1 ATAAACCCTAAAGA
*
19349086 CTAAACCCTAAAGA
1 ATAAACCCTAAAGA
*
19349100 ATAAGCCCTAAA
1 ATAAACCCTAAA
19349112 CCTTAAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.53, C:0.25, G:0.05, T:0.17
Consensus pattern (14 bp):
ATAAACCCTAAAGA
Found at i:19349124 original size:21 final size:21
Alignment explanation
Indices: 19349086--19349139 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
19349076 ACCCTAAATA
* *
19349086 CTAAACCCTAAAGAATAAGCC
1 CTAAACCTTAAAGAATAAACC
**
19349107 CTAAACCTTAAATTATAAACC
1 CTAAACCTTAAAGAATAAACC
*
19349128 TTAAACCTTAAA
1 CTAAACCTTAAA
19349140 ATAAAATGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (21 bp):
CTAAACCTTAAAGAATAAACC
Found at i:19349519 original size:124 final size:124
Alignment explanation
Indices: 19349299--19349582 Score: 415
Period size: 124 Copynumber: 2.3 Consensus size: 124
19349289 AACAATGCTA
* * * * *
19349299 TTTAAGTCAAATAGGTATTGTAATTTTGCGGCGTTTATGAAAAACGCCGCTAATGTATAACCTTT
1 TTTAAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACGCCACTAATATATAACCTTT
* * * **
19349364 GTGGCATTTCCAGTCAAAACACCAATAAAAACTTAATTCCCTATAGTGAAACGACGTTG
66 GCGGCATTTCCAGTCAAAACACCAACAAAAACTTAAATCCCTATAGTGAAACGACGCCG
19349423 TTTAAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACGCCACTAATATATAACCTTT
1 TTTAAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACGCCACTAATATATAACCTTT
* * * * * *
19349488 GCGGCATTTTCTGTCGAAACACCACCAAAAACTTAAATCCTTGTAGTGAAACGACGCCG
66 GCGGCATTTCCAGTCAAAACACCAACAAAAACTTAAATCCCTATAGTGAAACGACGCCG
*
19349547 TTTAAGTCAAATTGGTATTGCATTTTTGCGGCATTT
1 TTTAAGTCAAATTGGTATTGCAATTTTGCGGCATTT
19349583 TCGGTCAAAA
Statistics
Matches: 143, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
124 143 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (124 bp):
TTTAAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACGCCACTAATATATAACCTTT
GCGGCATTTCCAGTCAAAACACCAACAAAAACTTAAATCCCTATAGTGAAACGACGCCG
Found at i:19349635 original size:86 final size:86
Alignment explanation
Indices: 19349485--19349663 Score: 243
Period size: 86 Copynumber: 2.1 Consensus size: 86
19349475 ATATATAACC
* * * * *
19349485 TTTGCGGCATTTTCTGTCGAAACACCACCAAAAACTTAAATCCTTGTAGTGAAACGACGCCGTTT
1 TTTGCGGCATTTTCGGTCAAAACACCACCAAAAACTTAAATCCCTATAGCGAAACGACGCCGTTT
*
19349550 AAGTCAAATTGGTATTGCATT
66 AAGTCAAATTGGTATTGCAAT
** * * *
19349571 TTTGCGGCATTTTCGGTCAAAATGCCACTAAAAATTTAATTCCCTATAGCGAAACGACAG-CGTT
1 TTTGCGGCATTTTCGGTCAAAACACCACCAAAAACTTAAATCCCTATAGCGAAACGAC-GCCGTT
19349635 TAAGTCAAATTGGTATTGCAAT
65 TAAGTCAAATTGGTATTGCAAT
19349657 TTTGCGG
1 TTTGCGG
19349664 TGTTTATGAA
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 80 0.99
87 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (86 bp):
TTTGCGGCATTTTCGGTCAAAACACCACCAAAAACTTAAATCCCTATAGCGAAACGACGCCGTTT
AAGTCAAATTGGTATTGCAAT
Found at i:19349747 original size:210 final size:210
Alignment explanation
Indices: 19349361--19349784 Score: 577
Period size: 210 Copynumber: 2.0 Consensus size: 210
19349351 ATGTATAACC
* * *
19349361 TTTGTGGCATTTCCAGTCAAAACACCAATAAAAACTTAATTCCCTATAGTGAAACGACGTTGTTT
1 TTTGCGGCATTTCCAGTCAAAACACCAATAAAAACTTAATTCCCTATAGCGAAACGACGTCGTTT
*
19349426 AAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACGCCACTAATATATAACCTTTGCG
66 AAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACACCACTAATATATAACCTTTGCG
* * *
19349491 GCATTTTCTGTCGAAACACCACCAAAAACTTAAATCCTTGTAGTGAAACGACGCCGTTTAAGTCA
131 GCATTTTCTGTCAAAACACCACCAAAAACTTAAATCCTTATAGTGAAACGACACCGTTTAAGTCA
*
19349556 AATTGGTATTGCATT
196 AATTGGTATTGCAAT
* * ** * *
19349571 TTTGCGGCATTTTCGGTCAAAATGCCACTAAAAATTTAATTCCCTATAGCGAAACGACAG-CGTT
1 TTTGCGGCATTTCCAGTCAAAACACCAATAAAAACTTAATTCCCTATAGCGAAACGAC-GTCGTT
** * *
19349635 TAAGTCAAATTGGTATTGCAATTTTGCGGTGTTTATGAAAAACACCACTAATGTATGACCTTTGC
65 TAAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACACCACTAATATATAACCTTTGC
* * *
19349700 GGCGTTTT-TAGTCAAAACACCACTAAAAATTTAATGAT-C-TATAGTGAAACGACACCGTTTAA
130 GGCATTTTCT-GTCAAAACACCACCAAAAACTTAA--ATCCTTATAGTGAAACGACACCGTTTAA
**
19349762 GTTGAATTGGTATTGCAAT
192 GTCAAATTGGTATTGCAAT
19349781 TTTG
1 TTTG
19349785 TTGCGTTTAT
Statistics
Matches: 187, Mismatches: 23, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
209 1 0.01
210 182 0.97
211 2 0.01
212 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (210 bp):
TTTGCGGCATTTCCAGTCAAAACACCAATAAAAACTTAATTCCCTATAGCGAAACGACGTCGTTT
AAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACACCACTAATATATAACCTTTGCG
GCATTTTCTGTCAAAACACCACCAAAAACTTAAATCCTTATAGTGAAACGACACCGTTTAAGTCA
AATTGGTATTGCAAT
Found at i:19349793 original size:124 final size:124
Alignment explanation
Indices: 19349571--19349851 Score: 384
Period size: 124 Copynumber: 2.3 Consensus size: 124
19349561 GTATTGCATT
* * ** *
19349571 TTTGCGGCATTTTCGGTCAAAATGCCACTAAAAATTTAATTCCCTATAGCGAAACGACAGCGTTT
1 TTTGCGGCATTTTCAGTCAAAACGCCACTAAAAATTTAATGACCTATAGCGAAACGACACCGTTT
* *
19349636 AAGTCAAATTGGTATTGCAATTTTGCGGTGTTTATGAAAAACACCACTAATGTATGACC
66 AAGTCAAATTGGTATTGCAATTTTGCGGCGTTTATGAAAAACACCACTAATGTATCACC
* * * * *
19349695 TTTGCGGCGTTTTTAGTCAAAACACCACTAAAAATTTAATGATCTATAGTGAAACGACACCGTTT
1 TTTGCGGCATTTTCAGTCAAAACGCCACTAAAAATTTAATGACCTATAGCGAAACGACACCGTTT
** ** **
19349760 AAGTTGAATTGGTATTGCAATTTTGTTGCGTTTATGAAAAATGCCACTAATGTATCACC
66 AAGTCAAATTGGTATTGCAATTTTGCGGCGTTTATGAAAAACACCACTAATGTATCACC
*
19349819 TTTGTGGCATTTTCAGTCAAAACGCCA-TAAAAA
1 TTTGCGGCATTTTCAGTCAAAACGCCACTAAAAA
19349852 AATTTATTTC
Statistics
Matches: 135, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
123 6 0.04
124 129 0.96
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (124 bp):
TTTGCGGCATTTTCAGTCAAAACGCCACTAAAAATTTAATGACCTATAGCGAAACGACACCGTTT
AAGTCAAATTGGTATTGCAATTTTGCGGCGTTTATGAAAAACACCACTAATGTATCACC
Found at i:19349852 original size:124 final size:123
Alignment explanation
Indices: 19349571--19349883 Score: 380
Period size: 124 Copynumber: 2.5 Consensus size: 123
19349561 GTATTGCATT
* * * *
19349571 TTTGCGGCATTTTCGGTCAAAATGCCACTAAAAATTTAAT-TCCCTATAGCGAAACGACAGCGTT
1 TTTGCGGCATTTTCAGTCAAAACGCCACTAAAAATTTAATAT--CTATAGTGAAACGACACCGTT
* *
19349635 TAAGTCAAATTGGTATTGCAATTTTGCGGTGTTTATGAAAAACACCACTAATGTATGACC
64 TAAGTCAAATTGGTATTGCAATTTTGCGGCGTTTATGAAAAACACCACTAATGTATCACC
* * *
19349695 TTTGCGGCGTTTTTAGTCAAAACACCACTAAAAATTTAATGATCTATAGTGAAACGACACCGTTT
1 TTTGCGGCATTTTCAGTCAAAACGCCACTAAAAATTTAAT-ATCTATAGTGAAACGACACCGTTT
** ** **
19349760 AAGTTGAATTGGTATTGCAATTTTGTTGCGTTTATGAAAAATGCCACTAATGTATCACC
65 AAGTCAAATTGGTATTGCAATTTTGCGGCGTTTATGAAAAACACCACTAATGTATCACC
* * * *
19349819 TTTGTGGCATTTTCAGTCAAAACGCCA-TAAAAAAATTT-ATTTCCTGTAGTGAAACGGCACCGT
1 TTTGCGGCATTTTCAGTCAAAACGCCACT--AAAAATTTAATAT-CTATAGTGAAACGACACCGT
19349882 TT
63 TT
19349884 TGCAAAATTT
Statistics
Matches: 162, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
123 2 0.01
124 151 0.93
125 8 0.05
126 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (123 bp):
TTTGCGGCATTTTCAGTCAAAACGCCACTAAAAATTTAATATCTATAGTGAAACGACACCGTTTA
AGTCAAATTGGTATTGCAATTTTGCGGCGTTTATGAAAAACACCACTAATGTATCACC
Found at i:19353296 original size:21 final size:21
Alignment explanation
Indices: 19353264--19353304 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
19353254 AAGCTCGAGG
19353264 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
19353285 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
19353305 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:19358043 original size:15 final size:15
Alignment explanation
Indices: 19358006--19358049 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19357996 ACCAAAATTT
*
19358006 TATTTTAAAAATAAA
1 TATTTTAAAAATATA
* **
19358021 AAAATTAAAAATATA
1 TATTTTAAAAATATA
19358036 TATTTTAAAAATAT
1 TATTTTAAAAATAT
19358050 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATTTTAAAAATATA
Found at i:19359019 original size:22 final size:22
Alignment explanation
Indices: 19358991--19359041 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
19358981 AAGAAACTAA
19358991 TGTTTTCTTGTTGTCTTT-TCAT
1 TGTTTTCTTGTTG-CTTTCTCAT
19359013 TGTTTTCTTGTTGCTTTCTCAT
1 TGTTTTCTTGTTGCTTTCTCAT
19359035 TGTTTTC
1 TGTTTTC
19359042 CTGCAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.04, C:0.16, G:0.14, T:0.67
Consensus pattern (22 bp):
TGTTTTCTTGTTGCTTTCTCAT
Found at i:19359571 original size:18 final size:20
Alignment explanation
Indices: 19359540--19359576 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
19359530 GTAACTTACT
*
19359540 ATTTTTTTATGATT-TTTTA
1 ATTTTTTGATGATTGTTTTA
19359559 ATTTTTTGA-GATTGTTTT
1 ATTTTTTGATGATTGTTTT
19359577 TTGAATTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (20 bp):
ATTTTTTGATGATTGTTTTA
Found at i:19359598 original size:22 final size:21
Alignment explanation
Indices: 19359552--19359599 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
19359542 TTTTTTATGA
* *
19359552 TTTTTTAATTTTTTGAGATTG
1 TTTTTTAATTTTTTGACAATG
19359573 TTTTTTGAATTTGTTTGACAAT-
1 TTTTTT-AATTT-TTTGACAATG
19359595 TTTTT
1 TTTTT
19359600 ATATTTTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.26
22 10 0.43
23 7 0.30
ACGTcount: A:0.19, C:0.02, G:0.12, T:0.67
Consensus pattern (21 bp):
TTTTTTAATTTTTTGACAATG
Found at i:19359906 original size:27 final size:27
Alignment explanation
Indices: 19359855--19359906 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
19359845 TAACATATTG
* *
19359855 AAAATTTTAAGTACCAAATTGATAAAA
1 AAAATTTTAAGTACCAAAATAATAAAA
19359882 AAAATTTTAAGTACCAAAATAATAA
1 AAAATTTTAAGTACCAAAATAATAA
19359907 TTTGGTGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.29
Consensus pattern (27 bp):
AAAATTTTAAGTACCAAAATAATAAAA
Found at i:19368155 original size:47 final size:47
Alignment explanation
Indices: 19368104--19368469 Score: 599
Period size: 47 Copynumber: 7.7 Consensus size: 47
19368094 TTAGGATTCT
* * *
19368104 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
19368151 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
19368198 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
19368245 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
19368294 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
19368341 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
19368388 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
19368435 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
19368470 TCCCGAAGGG
Statistics
Matches: 303, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 255 0.84
49 47 0.16
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:19368179 original size:25 final size:25
Alignment explanation
Indices: 19368151--19368229 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
19368141 CTAATGGCCG
19368151 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
19368176 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
19368198 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
19368223 ATGTGAT
1 ATGTGAT
19368230 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:19368284 original size:143 final size:141
Alignment explanation
Indices: 19368104--19368469 Score: 599
Period size: 143 Copynumber: 2.6 Consensus size: 141
19368094 TTAGGATTCT
* * *
19368104 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
19368168 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
65 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
19368233 GCCTAATGGCCG
130 GCCTAATGGCCG
19368245 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
19368310 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
64 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
19368375 GGCCTAATGGCCG
129 GGCCTAATGGCCG
* * * * * * *
19368388 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
19368453 TGTATAAATGTGATAAG
66 TGTATATATGTGATAAG
19368470 TCCCGAAGGG
Statistics
Matches: 211, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
140 1 0.00
141 71 0.34
143 139 0.66
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCG
Found at i:19368644 original size:37 final size:37
Alignment explanation
Indices: 19368588--19368666 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
19368578 CCGAGCTCTA
* * *
19368588 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
19368625 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
19368662 AAGAC
1 AAGAC
19368667 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:19370339 original size:5 final size:5
Alignment explanation
Indices: 19370329--19370354 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
19370319 GAAGAGAGAA
19370329 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
19370355 GGATTTAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:19371482 original size:85 final size:85
Alignment explanation
Indices: 19371306--19371482 Score: 189
Period size: 85 Copynumber: 2.1 Consensus size: 85
19371296 TTAGGTTTTC
* * * * *
19371306 TTTTAATTTAAAAAAAATGTTATTCTATTTGGTCGAGTCATTCTAAATGGCGCCACCACTTTATG
1 TTTTAAATTAAAAAAAATATTATTCTATTTGGTCGAGCCATTCTAAATGGCGCCACCACTTAATC
* * * *
19371371 TTAGTTTTTTTTTTTTGTTT
66 TTACTATTTTTCTTTTGCTT
* * *
19371391 TCTTTAAATT-AAAAAAATATTATTTTATTTGGTGGAGCCATTCTAAATGGCG-CACCAGTGTAA
1 T-TTTAAATTAAAAAAAATATTATTCTATTTGGTCGAGCCATTCTAAATGGCGCCACCACT-TAA
19371454 TCTATCACTATTTTTCTTTT-CTT
64 TCT-T-ACTATTTTTCTTTTGCTT
19371477 TTTTAA
1 TTTTAA
19371483 TACATTTTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
84 6 0.08
85 48 0.63
86 11 0.14
87 11 0.14
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (85 bp):
TTTTAAATTAAAAAAAATATTATTCTATTTGGTCGAGCCATTCTAAATGGCGCCACCACTTAATC
TTACTATTTTTCTTTTGCTT
Found at i:19372457 original size:19 final size:19
Alignment explanation
Indices: 19372421--19372456 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
19372411 AATAATTTTT
19372421 AAATTAAAAAAACTAAAAG
1 AAATTAAAAAAACTAAAAG
19372440 AAATT-AAAAAACTAAAA
1 AAATTAAAAAAACTAAAA
19372457 AATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.17
Consensus pattern (19 bp):
AAATTAAAAAAACTAAAAG
Found at i:19374849 original size:13 final size:13
Alignment explanation
Indices: 19374833--19374859 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19374823 AACTAAGATA
19374833 AATAAAATCAAAT
1 AATAAAATCAAAT
19374846 AATAAAATCAAAT
1 AATAAAATCAAAT
19374859 A
1 A
19374860 TTGGACAATA
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:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
AATAAAATCAAAT
Found at i:19376681 original size:33 final size:33
Alignment explanation
Indices: 19376644--19376716 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
19376634 ACTTTCTGTT
*
19376644 TGGTGTGTTGGTTGGACTAGCTCTTATGAACAC
1 TGGTGTGATGGTTGGACTAGCTCTTATGAACAC
* * * * *
19376677 TGGTGTGATGGTTGGATTAGTTCTTCTGAGCAT
1 TGGTGTGATGGTTGGACTAGCTCTTATGAACAC
19376710 TGGTGTG
1 TGGTGTG
19376717 GATGAGGGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.15, C:0.11, G:0.34, T:0.40
Consensus pattern (33 bp):
TGGTGTGATGGTTGGACTAGCTCTTATGAACAC
Found at i:19385729 original size:50 final size:50
Alignment explanation
Indices: 19385627--19385865 Score: 223
Period size: 50 Copynumber: 4.7 Consensus size: 50
19385617 AATGAGATCT
**
19385627 CATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGATTACGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGAGA-T--GAGAGGTCC
*
19385683 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * **
19385733 TCA-GTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAACTCC
1 -CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * * * * **
19385783 CATGGAAGACCATATCTGGGATATGGCATTGGCA--GTACAGGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCC
* *
19385832 CATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
19385866 TGTTATTATC
Statistics
Matches: 156, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.01
49 39 0.25
50 76 0.49
51 2 0.01
52 1 0.01
53 5 0.03
56 32 0.21
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:19386084 original size:12 final size:12
Alignment explanation
Indices: 19386067--19386094 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19386057 ATGAGTTATT
19386067 TAAGTAAACAAG
1 TAAGTAAACAAG
19386079 TAAGTAAACAAG
1 TAAGTAAACAAG
19386091 TAAG
1 TAAG
19386095 AGAGTAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.18, T:0.18
Consensus pattern (12 bp):
TAAGTAAACAAG
Found at i:19387617 original size:11 final size:10
Alignment explanation
Indices: 19387557--19387621 Score: 54
Period size: 10 Copynumber: 7.1 Consensus size: 10
19387547 AAAACATAAT
19387557 TATTAAATTA
1 TATTAAATTA
*
19387567 TA-T--ATTT
1 TATTAAATTA
19387574 TATTAAATTA
1 TATTAAATTA
*
19387584 TATTTAA-TA
1 TATTAAATTA
19387593 -A-T-AATTA
1 TATTAAATTA
19387600 TATTAAATTA
1 TATTAAATTA
19387610 TGATTAAATTA
1 T-ATTAAATTA
19387621 T
1 T
19387622 TTATTTTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
6 2 0.05
7 8 0.18
8 3 0.07
9 4 0.09
10 17 0.39
11 10 0.23
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (10 bp):
TATTAAATTA
Found at i:19401694 original size:55 final size:55
Alignment explanation
Indices: 19401543--19401701 Score: 189
Period size: 55 Copynumber: 2.9 Consensus size: 55
19401533 TTTATTTTAT
* * * * *
19401543 TTCCCCACATGACGCCATAGTCCCAAACTAGTTCTTACACTATGTGGTTCTCTTA
1 TTCCCCATATGATGCCATAGTCCCAGACTAGGTCTTACACTATATGGTTCTCTTA
* *
19401598 -TCCCCATATGATGCCACAGCCACCATGACTAGGTCTTACACTATATGGTT-T-TTCA
1 TTCCCCATATGATGCCATAGTC-CCA-GACTAGGTCTTACACTATATGGTTCTCTT-A
*
19401653 CTTCCCCATATGATGCCATAGTCTCAGACTAGGTCTTACACTATATGGT
1 -TTCCCCATATGATGCCATAGTCCCAGACTAGGTCTTACACTATATGGT
19401702 CTTCTTGCCA
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
54 19 0.21
55 28 0.31
56 23 0.26
57 19 0.21
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (55 bp):
TTCCCCATATGATGCCATAGTCCCAGACTAGGTCTTACACTATATGGTTCTCTTA
Found at i:19417377 original size:19 final size:19
Alignment explanation
Indices: 19417353--19417416 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
19417343 AAAATTATAA
19417353 AAAAAACTATAAAAATCAT
1 AAAAAACTATAAAAATCAT
**
19417372 AAAAAACTATAAAAAGTTGT
1 AAAAAACTATAAAAA-TCAT
***
19417392 AAAATTTTATAAAAATCAT
1 AAAAAACTATAAAAATCAT
19417411 AAAAAA
1 AAAAAA
19417417 TCATAAAATG
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 21 0.60
20 14 0.40
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (19 bp):
AAAAAACTATAAAAATCAT
Found at i:19417632 original size:20 final size:19
Alignment explanation
Indices: 19417607--19417674 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
19417597 TTAGTATGAT
*
19417607 AATTTTATAATTTTTTTATG
1 AATTTTATAATTTTTTTA-C
*
19417627 AATTTTAT-ATTTCTTTAC
1 AATTTTATAATTTTTTTAC
*
19417645 AATTTTTATAATTTTCTTAC
1 AA-TTTTATAATTTTTTTAC
* *
19417665 GACTTTATAA
1 AATTTTATAA
19417675 AATTTTATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 2 0.05
19 21 0.52
20 17 0.43
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (19 bp):
AATTTTATAATTTTTTTAC
Found at i:19417726 original size:10 final size:10
Alignment explanation
Indices: 19417711--19417813 Score: 104
Period size: 10 Copynumber: 10.5 Consensus size: 10
19417701 ATTTTCAACG
19417711 ATTTTTATAA
1 ATTTTTATAA
* *
19417721 AATTTTA-CA
1 ATTTTTATAA
19417730 ATTTTTATAA
1 ATTTTTATAA
19417740 ATTTTTATAA
1 ATTTTTATAA
19417750 ATTTTTATAA
1 ATTTTTATAA
19417760 ATTTTTAT-A
1 ATTTTTATAA
*
19417769 TTTTTTAT-A
1 ATTTTTATAA
*
19417778 GTTTTTATTAA
1 ATTTTTA-TAA
* *
19417789 AATTTAATAA
1 ATTTTTATAA
*
19417799 TTTTTTATAA
1 ATTTTTATAA
*
19417809 CTTTT
1 ATTTT
19417814 ATTGATTTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
9 22 0.29
10 50 0.65
11 5 0.06
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:19417732 original size:29 final size:29
Alignment explanation
Indices: 19417693--19417756 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
19417683 ATTTCTATAT
* *
19417693 ATTTTATAATTTTCA-ACGATTTTTATAAA
1 ATTTTACAATTTTCATA-AATTTTTATAAA
*
19417722 ATTTTACAATTTTTATAAATTTTTATAAA
1 ATTTTACAATTTTCATAAATTTTTATAAA
*
19417751 TTTTTA
1 ATTTTA
19417757 TAAATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (29 bp):
ATTTTACAATTTTCATAAATTTTTATAAA
Found at i:19417733 original size:19 final size:19
Alignment explanation
Indices: 19417711--19417777 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
19417701 ATTTTCAACG
* *
19417711 ATTTTTATAAAATTTTACA
1 ATTTTTATAAATTTTTAAA
19417730 ATTTTTATAAATTTTTATAA
1 ATTTTTATAAATTTTTA-AA
*
19417750 ATTTTTATAAATTTTTATA
1 ATTTTTATAAATTTTTAAA
*
19417769 TTTTTTATA
1 ATTTTTATA
19417778 GTTTTTATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 25 0.58
20 18 0.42
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTTATAAATTTTTAAA
Found at i:19417764 original size:29 final size:29
Alignment explanation
Indices: 19417711--19417813 Score: 93
Period size: 29 Copynumber: 3.5 Consensus size: 29
19417701 ATTTTCAACG
* * *
19417711 ATTTTTATAAAATTTTACAATTTTTATAA
1 ATTTTTATAAATTTTTATAAATTTTATAA
*
19417740 ATTTTTATAAATTTTTATAAATTTT-TAT
1 ATTTTTATAAATTTTTATAAATTTTATAA
* *
19417768 ATTTTT-TATAGTTTTTATTAAAATTTAATAA
1 ATTTTTATA-AATTTTTA-T-AAATTTTATAA
* *
19417799 TTTTTTATAACTTTT
1 ATTTTTATAAATTTT
19417814 ATTGATTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.03
28 15 0.25
29 23 0.38
30 6 0.10
31 12 0.20
32 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (29 bp):
ATTTTTATAAATTTTTATAAATTTTATAA
Found at i:19417804 original size:39 final size:39
Alignment explanation
Indices: 19417717--19417807 Score: 103
Period size: 39 Copynumber: 2.3 Consensus size: 39
19417707 AACGATTTTT
* * * * *
19417717 ATAAAATTTTACAATTTTTATAAATTTTTATAAATTTTT
1 ATAAATTTTTATATTTTTTATAAATTTTTATAAAATTTA
*
19417756 ATAAATTTTTATATTTTTTAT-AGTTTTTATTAAAATTTA
1 ATAAATTTTTATATTTTTTATAAATTTTTA-TAAAATTTA
*
19417795 ATAATTTTTTATA
1 ATAAATTTTTATA
19417808 ACTTTTATTG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 7 0.16
39 37 0.84
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (39 bp):
ATAAATTTTTATATTTTTTATAAATTTTTATAAAATTTA
Found at i:19418269 original size:32 final size:31
Alignment explanation
Indices: 19418223--19418319 Score: 176
Period size: 31 Copynumber: 3.1 Consensus size: 31
19418213 TCTTAGATAA
19418223 CTTTAAAGAGTTTTATTAGGATTCAATTACT
1 CTTTAAAGAGTTTTATTAGGATTCAATTACT
19418254 CTTTAAAGAGTTTTTATTAGGATTCAATTACT
1 CTTTAAAGAG-TTTTATTAGGATTCAATTACT
*
19418286 CTTGAAAGAGTTTTATTAGGATTCAATTACT
1 CTTTAAAGAGTTTTATTAGGATTCAATTACT
19418317 CTT
1 CTT
19418320 GTAATTTGCC
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
31 34 0.53
32 30 0.47
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (31 bp):
CTTTAAAGAGTTTTATTAGGATTCAATTACT
Found at i:19418631 original size:4 final size:4
Alignment explanation
Indices: 19418622--19418652 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
19418612 ATCTATCCTT
19418622 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
19418653 ACTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:19420301 original size:20 final size:20
Alignment explanation
Indices: 19420279--19420316 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19420269 CCAAATCCTT
*
19420279 TTTTGTTCA-TTTTTATTTA
1 TTTTATTCATTTTTTATTTA
19420298 TTTTATTCATTTTTTATTT
1 TTTTATTCATTTTTTATTT
19420317 TGTTTTGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTATTCATTTTTTATTTA
Found at i:19421134 original size:67 final size:66
Alignment explanation
Indices: 19421078--19421207 Score: 158
Period size: 67 Copynumber: 2.0 Consensus size: 66
19421068 TTATATATTA
* ** * * *
19421078 TATATATACATACTTATATATATGTTTTATATTTTATAATTTTTATATACATTTTATATACATAT
1 TATATATACATACTTACATA-AACTTTTATATTTAATAATTTTGAAATACATTTTATATACATAT
19421143 AC
65 AC
*
19421145 GTGTATATACATACTTACATAAACTTTTATATTTAATAATTTTGAAATACA---TATATACATAT
1 -TATATATACATACTTACATAAACTTTTATATTTAATAATTTTGAAATACATTTTATATACATAT
19421207 A
65 A
19421208 TTTTTCATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
64 12 0.22
67 25 0.45
68 18 0.33
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.48
Consensus pattern (66 bp):
TATATATACATACTTACATAAACTTTTATATTTAATAATTTTGAAATACATTTTATATACATATA
C
Found at i:19423905 original size:14 final size:14
Alignment explanation
Indices: 19423883--19423924 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
19423873 TTTAGGCATA
*
19423883 CATTTCATGCATTG
1 CATTACATGCATTG
19423897 CATTACATGCATTTG
1 CATTACATGCA-TTG
*
19423912 CACTACATGCATT
1 CATTACATGCATT
19423925 AAAGTCCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (14 bp):
CATTACATGCATTG
Found at i:19423918 original size:15 final size:15
Alignment explanation
Indices: 19423888--19423924 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
19423878 GCATACATTT
*
19423888 CATGCA-TTGCATTA
1 CATGCATTTGCACTA
19423902 CATGCATTTGCACTA
1 CATGCATTTGCACTA
19423917 CATGCATT
1 CATGCATT
19423925 AAAGTCCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (15 bp):
CATGCATTTGCACTA
Found at i:19424326 original size:484 final size:485
Alignment explanation
Indices: 19423412--19424344 Score: 1618
Period size: 484 Copynumber: 1.9 Consensus size: 485
19423402 TTTAGGCATA
* *
19423412 CATTTCATGCATTTGCATTACATGCATTAAAGTCCATTGAAAGGGTCTAATTGAGTAAATTTATT
1 CATTACATGCATTTGCACTACATGCATTAAAGTCCATTGAAAGGGTCTAATTGAGTAAATTTATT
* * **
19423477 TCAGTTAATCTGGAAACCGACAAAAGCTCACCCATTAAGTATCAATACGGTACTCGTTTCAAAAC
66 TCAGCTAATCTGGAAACCGACAAAAGCTCACCCATTAAGCATCAATACGGTACTCGTCGCAAAAC
* *
19423542 TAAGGAAATGGACCAAAGATTATAGAAACTGGAGCAAATTCAAAAGGATATGCAAGAAAGGTTAC
131 TAAGGAAATGGACCAAAGATTAGAGAAACTGGAGCAAATGCAAAAGGATATGCAAGAAAGGTTAC
*
19423607 AAGTACAAATGTAAGAGCGACTAGATAAAATTCAAGAAGACATGACAGAAAAATTGATCAAGGCT
196 AAGTACAAATGCAAGAGCGACTAGATAAAATTCAAGAAGACATGACAGAAAAATTGATCAAGGCT
*
19423672 CAAAAAGATGCGATGGCTGAATTGACCTACCTACTAACTAAAGGTGTAAATAAAGAGAAGGGTCC
261 AAAAAAGATGCGATGGCTGAATTGACCTACCTACTAACTAAAGGTGTAAATAAAGAGAAGGGTCC
*
19423737 TATGGTTAAAGATGGAGGAGAAAACAAGGACAGACCTATCTATCCTCTAGACTTTACGCCTCTGC
326 TATGGTTAAAGATGAAGGAGAAAACAAGGACAGACCTATCTATCCTCTAGACTTTACGCCTCTGC
* * *
19423802 ATGCGCAAATTCAGATCGAGGTTGGATCAGGTTCTAATTCTAGAGATAACCTAGTGAATAATCAA
391 ATGCGCAAATTCAAACCGAGGTTAGATCAGGTTCTAATTCTAGAGATAACCTAGTGAATAATCAA
19423867 TGTCTATTTAGGCATACATTTCATGCATTG
456 TGTCTATTTAGGCATACATTTCATGCATTG
*
19423897 CATTACATGCATTTGCACTACATGCATTAAAGTCCATTGAAAGGGTCTGATTGAGTAAATTTATT
1 CATTACATGCATTTGCACTACATGCATTAAAGTCCATTGAAAGGGTCTAATTGAGTAAATTTATT
*
19423962 TCAGCTAGTCTGGAAACCGACAAAAGCTCACCCATTAAGCATCAATA-GGTACTCGTCGCAAAAC
66 TCAGCTAATCTGGAAACCGACAAAAGCTCACCCATTAAGCATCAATACGGTACTCGTCGCAAAAC
*
19424026 TAAGGAAATGGACCAAAGATTAGAGAAACTGGAGCAAATGCAAAAGGATATGCAAGAACGGTTAC
131 TAAGGAAATGGACCAAAGATTAGAGAAACTGGAGCAAATGCAAAAGGATATGCAAGAAAGGTTAC
19424091 AAGTACAAATGCAAGAGC-AGCTAGATAAAATTCAAGAAGACATGACAGAAAAATTGATCAAGGC
196 AAGTACAAATGCAAGAGCGA-CTAGATAAAATTCAAGAAGACATGACAGAAAAATTGATCAAGGC
* * *
19424155 TAAAAAAGATGCGATGGCTGAATTGACCTACCTACTGATTAAAGGTGTAAATAAAGGGAAGGGTC
260 TAAAAAAGATGCGATGGCTGAATTGACCTACCTACTAACTAAAGGTGTAAATAAAGAGAAGGGTC
* *
19424220 CTATGGTTAAAGATGAAGGAGAAAACAAGGATAGACCTATTTATCCTCTAGACTTTACGCCTCTG
325 CTATGGTTAAAGATGAAGGAGAAAACAAGGACAGACCTATCTATCCTCTAGACTTTACGCCTCTG
***
19424285 CATGCGTGGATTCAAACCGAGGTTAGATCAGGTTCTAATTCTAGAGATAACCTAGTGAAT
390 CATGCGCAAATTCAAACCGAGGTTAGATCAGGTTCTAATTCTAGAGATAACCTAGTGAAT
19424345 CTTGTTATTC
Statistics
Matches: 422, Mismatches: 25, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
483 1 0.00
484 315 0.75
485 106 0.25
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (485 bp):
CATTACATGCATTTGCACTACATGCATTAAAGTCCATTGAAAGGGTCTAATTGAGTAAATTTATT
TCAGCTAATCTGGAAACCGACAAAAGCTCACCCATTAAGCATCAATACGGTACTCGTCGCAAAAC
TAAGGAAATGGACCAAAGATTAGAGAAACTGGAGCAAATGCAAAAGGATATGCAAGAAAGGTTAC
AAGTACAAATGCAAGAGCGACTAGATAAAATTCAAGAAGACATGACAGAAAAATTGATCAAGGCT
AAAAAAGATGCGATGGCTGAATTGACCTACCTACTAACTAAAGGTGTAAATAAAGAGAAGGGTCC
TATGGTTAAAGATGAAGGAGAAAACAAGGACAGACCTATCTATCCTCTAGACTTTACGCCTCTGC
ATGCGCAAATTCAAACCGAGGTTAGATCAGGTTCTAATTCTAGAGATAACCTAGTGAATAATCAA
TGTCTATTTAGGCATACATTTCATGCATTG
Found at i:19427025 original size:13 final size:13
Alignment explanation
Indices: 19426992--19427017 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19426982 AAAAGAGAAG
19426992 ATGAAAAATGAAA
1 ATGAAAAATGAAA
19427005 ATGAAAAATGAAA
1 ATGAAAAATGAAA
19427018 GAGTAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:19428402 original size:87 final size:87
Alignment explanation
Indices: 19428237--19428507 Score: 409
Period size: 87 Copynumber: 3.1 Consensus size: 87
19428227 AGATTGGTGA
* * * * * * *
19428237 AGATTGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGTTGGTGAAAGATAACAGATCTTGT
1 AGATCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
19428302 CTTCATGCGTTAACAACGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
*
19428324 AGATCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATTTTGC
1 AGATCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
19428389 CTTCCTGCATTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* *
19428411 AGATCGAAAATGAAGCCTTGCCTCCATTGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
19428476 CTT-CTGCGTTAACAGTGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
19428497 AGATCGAAAAT
1 AGATCGAAAAT
19428508 TACAAGTCCT
Statistics
Matches: 168, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
86 27 0.16
87 141 0.84
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (87 bp):
AGATCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCGTTAACAGCGAAGC
Found at i:19428492 original size:44 final size:44
Alignment explanation
Indices: 19428357--19428492 Score: 102
Period size: 44 Copynumber: 3.1 Consensus size: 44
19428347 CCATCGGTTG
* *
19428357 CAGTGGAGCTGGTTAAAGATAGCAGATTTTGCCTTCCTGCATTAA
1 CAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTT-CTGCGTTAA
* * * * * * * * *
19428402 CAGCGAAGCAGATCGAAA-AT-GAAG-CCTTGCCTCCATTG-GTT-G
1 CAGTGGAGCTGGT-TAAAGATAGCAGATCTTGCCTTC--TGCGTTAA
19428444 CAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCTGCGTTAA
1 CAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCTGCGTTAA
19428488 CAGTG
1 CAGTG
19428493 AAGCAGATCG
Statistics
Matches: 63, Mismatches: 20, Indels: 17
0.63 0.20 0.17
Matches are distributed among these distances:
41 3 0.05
42 14 0.22
43 14 0.22
44 18 0.29
45 11 0.17
46 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (44 bp):
CAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCTGCGTTAA
Found at i:19428625 original size:44 final size:44
Alignment explanation
Indices: 19428556--19428882 Score: 173
Period size: 44 Copynumber: 7.6 Consensus size: 44
19428546 GGAAATTACA
** * *
19428556 AATCTTATCTCCCT-AAGCAGTAGTGGAGCAGACAAAAGAAATC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGACATC
* * * *
19428599 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-TCAT-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAGACATC
* *
19428642 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC-----ACATC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAGACATC
* ** * * *
19428683 GAGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGACAGAAGAAATC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGACATC
* * * * *
19428727 AATCCTATCTCCCTGAACTTGCAGTGGAGCGGATTAAAA-CCA-C
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAGACATC
* * **
19428770 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG---ATTG-CATC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGACATC
** * * * * *
19428811 AAGTCTTATCTCCCT-AAGCAGTAGTGGATCAGACGAAAGAAATA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGACATC
* *
19428855 AATCCTATCTCCCCGAAGTTGCAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
19428883 ATGGATAAAA
Statistics
Matches: 209, Mismatches: 54, Indels: 41
0.69 0.18 0.13
Matches are distributed among these distances:
39 1 0.00
40 33 0.16
41 24 0.11
42 1 0.00
43 40 0.19
44 103 0.49
45 7 0.03
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGACATC
Found at i:19428715 original size:128 final size:128
Alignment explanation
Indices: 19428558--19428896 Score: 552
Period size: 128 Copynumber: 2.6 Consensus size: 128
19428548 AAATTACAAA
19428558 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAG
* *
19428623 TGGAGCGGATTAAAATCATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCGAG
66 TGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAG
* *
19428686 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAACTTGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAG
* **
19428751 TGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGCATCAAG
66 TGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAG
* * * *
19428814 TCTTATCTCCCTAAGCAGTAGTGGATCAGACGAAAGAAATAAATCCTATCTCCCCGAAGTTGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAG
** *
19428879 TGGAATGGATAAAAATCA
66 TGGAGCGGATTAAAATCA
19428897 ATCCTATACC
Statistics
Matches: 194, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
128 194 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (128 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAG
TGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAG
Done.