Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008099.1 Hibiscus syriacus cultivar Beakdansim tig00110627_pilon, whole genome shotgun sequence
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: 767286
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 4 of 5
Found at i:604887 original size:40 final size:40
Alignment explanation
Indices: 604806--604908 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 40
604796 ACATGAAAAT
* * *
604806 AAATAATAAT-AATAATAATAAAATAATAAATTAAAGGAAA
1 AAATAAAAATAAATAAAAAT-AAATAATAAATTAAAAGAAA
*
604846 AAATAAAAATAAATAAAAATAAATAATAAA-TAATAATAAA
1 AAATAAAAATAAATAAAAATAAATAATAAATTAA-AAGAAA
604886 AAA-ATAAAA-AAATAACAAATAAA
1 AAATA-AAAATAAATAA-AAATAAA
604909 AAAATACTGA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 10 0.18
40 37 0.67
41 8 0.15
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (40 bp):
AAATAAAAATAAATAAAAATAAATAATAAATTAAAAGAAA
Found at i:604913 original size:23 final size:22
Alignment explanation
Indices: 604801--604914 Score: 81
Period size: 21 Copynumber: 4.9 Consensus size: 22
604791 AATAAACATG
* *
604801 AAAATAAATAATAATAATAATAAT
1 AAAATAAA-AATAA-AAAAATAAA
604825 AAAATAATAAATTAAAGGAAAA-AATA
1 AAAATAA-AAA-TAAA--AAAATAA-A
*
604851 AAAATAAATAA-AAATAAAT-AA
1 AAAATAAA-AATAAAAAAATAAA
* *
604872 TAAATAATAATAAAAAAATAAA
1 AAAATAAAAATAAAAAAATAAA
604894 AAAATAACAAATAAAAAAATA
1 AAAATAA-AAATAAAAAAATA
604915 CTGAAACTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
20 2 0.03
21 14 0.19
22 12 0.17
23 12 0.17
24 13 0.18
25 7 0.10
26 12 0.17
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATAAAAATAAAAAAATAAA
Found at i:606940 original size:84 final size:83
Alignment explanation
Indices: 606769--607928 Score: 1016
Period size: 84 Copynumber: 14.1 Consensus size: 83
606759 GCTATGTTGT
* * * * * *
606769 AAATGATGGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTC--T-TTGACAGATAGCCCTTC
1 AAATGAT-GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
*
606831 TCGACTTAAGCTATGCTGC
65 TCGACTTAAGTTATGCTGC
*
606850 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGACAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTC
* * *
606915 TAGACTTAAGTTGTACTGC
65 TCGACTTAAGTTATGCTGC
* * * * * *
606934 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTGGTGACAAATAACCCTTAT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* * * * *
606999 AGCCTTGAGTTATGTTGT
66 CGACTTAAGTTATGCTGC
* * * * * * ** *
607017 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTC--T-TTGGCAGATAGCCCTTC
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
*
607079 TCGACTTAAGCTATGCTGC
65 TCGACTTAAGTTATGCTGC
* * * *
607098 AAATGATGTACCATGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTC
* * * *
607163 TAGCCTTGAGTTATGCTGT
65 TCGACTTAAGTTATGCTGC
* * * * * *
607182 AAATGATGTGCCCTTGAAACTGAGTGTAATCGAACTTG-AGGATC--T-TTGGCAGATAGCCCTT
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGG-TCTTTGTTGGCAGATAACCCTT
*
607243 CTCGACTTAAGTTATGCTGT
64 CTCGACTTAAGTTATGCTGC
* *
607263 GAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTC
* *
607328 TCGACTTAAGTTTTGCCGC
65 TCGACTTAAGTTATGCTGC
* * * * **
607347 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGATAACCCTTC
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
*
607409 TCGACTTAAGCTATGCTGC
65 TCGACTTAAGTTATGCTGC
* * * *
607428 AAATGATGTGCCGTT-GAGTTGAGCGTAGTCGAACTCAAAGGTCTTCTGGTGACAGATAACCCTT
1 AAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-TGTTGGCAGATAACCCTT
* * * * * *
607492 ATAGCCTTGAGTTATACTGT
64 CTCGACTTAAGTTATGCTGC
* * * * * *
607512 AAATGATGTGCCCTCGAAGCTGAGCATAGTCAAACTCGAGGGTC--T-TTGGCAGATAGCCCTTC
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
* *
607574 TCGACTTAAGCTATACTGC
65 TCGACTTAAGTTATGCTGC
*
607593 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTT-ACAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTC
* * * * **
607657 TAGCCTTGAGTTATGTTAT
65 TCGACTTAAGTTATGCTGC
* * * * * ** *
607676 AAATGATGTGCCCTCGAAGCTG-GTTGTAATCTAACTCGGGGGTC--T-TTGGCAGATAGCCCTT
1 AAATGATGTG-CCTTGGAGCTGAG-CGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTT
* *
607737 CTCGACTTAAGCTATGCTAC
64 CTCGACTTAAGTTATGCTGC
* * * * * *
607757 AAATGATGTGTCGTT-GAGTTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGAAAATAGCCCTT
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTT
* * * * **
607821 CTTGCCTTGAGCTATATTGC
64 CTCGACTTAAGTTATGCTGC
* * *
607841 AAATGATGTGCCTTGGAGCTGAGCGTGGTCGAACTCGAAGGTCTTTGCTGGCAGATAACCCTTAT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* * *
607906 AGCCTTGAGTTATGCTGC
66 CGACTTAAGTTATGCTGC
607924 AAATG
1 AAATG
607929 CTATCTTTTA
Statistics
Matches: 851, Mismatches: 191, Indels: 72
0.76 0.17 0.06
Matches are distributed among these distances:
80 151 0.18
81 201 0.24
82 7 0.01
83 113 0.13
84 306 0.36
85 73 0.09
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (83 bp):
AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
CGACTTAAGTTATGCTGC
Found at i:607016 original size:248 final size:247
Alignment explanation
Indices: 606734--607928 Score: 1225
Period size: 248 Copynumber: 4.8 Consensus size: 247
606724 ACAATTTTAT
* * * * * * * * *
606734 TGACAAATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATGATGGTGCCTTTGAGTTGAGTGTAAT
1 TGACAGATAGCCCTTCTAGCCTTGAGTTATGCTGTAAATGAT-GTGCCCTCGAGCTGAGCGTAGT
*
606799 CGAACTCGAAGGTCTTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
65 CGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
* * * *
606864 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAGTTGT
130 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTAT
* * * *
606929 ACTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTGG
195 GCTGCAAATGATGTGCCCTTGAAGCTGAGCGTAATCGAACTCGAAAGTCTTT-G
* * * * * * *
606982 TGACAAATAACCCTTATAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAGCCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCG-AGCTGAGCGTAGT
* ** * *
607047 CGAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTACCAT
65 CGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
*
607112 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTA
130 GGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTA
* * * * *
607176 TGCTGTAAATGATGTGCCCTTGAAACTGAGTGTAATCGAACTTG-AGGATCTTTG
194 TGCTGCAAATGATGTGCCCTTGAAGCTGAGCGTAATCGAACTCGAAAG-TCTTTG
* * * * * *
607230 -G-CAGATAGCCCTTCTCGACTTAAGTTATGCTGTGAATGATGTGCCTTGGAGCTGAGCGTAGTC
1 TGACAGATAGCCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAGCTGAGCGTAGTC
* * * * *
607293 GAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTTTGCCGCAAATGATGTGC
66 GAACTCGAAGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-
* * * * ** * * *
607358 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAG
126 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAG
* * * *
607419 CTATGCTGCAAATGATGTGCCGTTG-AGTTGAGCGTAGTCGAACTC-AAAGGTCTTCTGG
191 TTATGCTGCAAATGATGTGCCCTTGAAGCTGAGCGTAATCGAACTCGAAA-GTCTT-T-G
* * * *
607477 TGACAGATAACCCTTATAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGCATAGT
1 TGACAGATAGCCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCG-AGCTGAGCGTAGT
* * *
607542 CAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTT
65 CGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
*
607607 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTT-ACAGATAACCCTTCTAGCCTTGAGTTAT
130 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTAT
* ** * * * ***
607671 GTTATAAATGATGTGCCCTCGAAGCTG-GTTGTAATCTAACTCGGGGGTCTTTG
195 GCTGCAAATGATGTGCCCTTGAAGCTGAG-CGTAATCGAACTCGAAAGTCTTTG
* * * * ** * * * *
607724 -G-CAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGTCGTTGAGTTGAGCGTAGTC
1 TGACAGATAGCCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAGCTGAGCGTAGTC
* * * * * * **
607787 GAACTCAAAGGTCTTTTGTTGGAAAATAGCCCTTCTTGCCTTGAGCTATATTGCAAATGATGTGC
66 GAACTCGAAGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
* * *
607852 CTTGGAGCTGAGCGTGGTCGAACTCGAAGGTCTTT-GCTGGCAGATAACCCTTATAGCCTTGAGT
127 CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGT
607916 TATGCTGCAAATG
192 TATGCTGCAAATG
607929 CTATCTTTTA
Statistics
Matches: 777, Mismatches: 141, Indels: 58
0.80 0.14 0.06
Matches are distributed among these distances:
244 22 0.03
245 104 0.13
246 125 0.16
247 15 0.02
248 329 0.42
249 133 0.17
250 49 0.06
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (247 bp):
TGACAGATAGCCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTG
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
CTGCAAATGATGTGCCCTTGAAGCTGAGCGTAATCGAACTCGAAAGTCTTTG
Found at i:607216 original size:165 final size:164
Alignment explanation
Indices: 606740--607928 Score: 1352
Period size: 165 Copynumber: 7.2 Consensus size: 164
606730 TTATTGACAA
* * * * * * * * *
606740 ATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATGATGGTGCCTTTGAGTTGAGTGTAATCGAACT
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT-GTGCCTTGGAGCTGAGCGTAGTCGAACT
* * * * * * * *
606805 CGAAGGTC-TT--TGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGG
65 CGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGA
* * *
606866 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
130 AGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAG
* * * * * * *
606905 ACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * * * *
606970 GAAAGTCTTTGGTGACAAATAACCCTTATAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAA
66 GAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAA
* *
607035 GCTGAGTGTAATCGAACTTGGGGGTCTTTGGCAG
131 GCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAG
* *
607069 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTACCATGGAGCTGAGCGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
*
607134 GAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTTGA
66 GAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGA
* * *
607199 AACTGAGTGTAATCGAACTTGAGGATCTTTGGCAG
130 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAG
* **
607234 ATAGCCCTTCTCGACTTAAGTTATGCTGTGAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * * * * * * *
607299 AAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTTTGCCGCAAATGATGTGCCCTCGA
66 GAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGA
*
607364 AGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAG
130 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAG
* *
607399 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGTTGAGCGTAGTCGAACT
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACT
* * *
607463 CAAAGGTCTTCTGGTGACAGATAACCCTTATAGCCTTGAGTTATACTGTAAATGATGTGCCCTCG
65 CGAAGGTCTT-TGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCG
** * *
607528 AAGCTGAGCATAGTCAAACTCGAGGGTCTTTGGCAG
129 AAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAG
*
607564 ATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * *
607629 GAAGGTCTTTGGTTACAGATAACCCTTCTAGCCTTGAGTTATGTTATAAATGATGTGCCCTCGAA
66 GAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAA
* *
607694 GCTG-GTTGTAATCTAACTCGGGGGTCTTTGGCAG
131 GCTGAG-TGTAATCGAACTCGAGGGTCTTTGGCAG
* * *
607728 ATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGTCGTT-GAGTTGAGCGTAGTCGAACT
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACT
* * * * * * ** * *
607792 CAAAGGTCTTTTGTTGGA-AAATAGCCCTTCTTGCCTTGAGCTATATTGCAAATGATGTG-CCTT
65 CGAAGGTC-TTTGGT-GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC
* * ** *
607855 GGAGCTGAGCGTGGTCGAACTCGAAGGTCTTTGCTGGCAG
128 GAAGCTGAGTGTAATCGAACTCGAGGGTC-TT--TGGCAG
* * * * * *
607895 ATAACCCTTATAGCCTTGAGTTATGCTGCAAATG
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG
607929 CTATCTTTTA
Statistics
Matches: 876, Mismatches: 131, Indels: 32
0.84 0.13 0.03
Matches are distributed among these distances:
163 1 0.00
164 270 0.31
165 504 0.58
166 7 0.01
167 68 0.08
168 26 0.03
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (164 bp):
ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAA
GCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAG
Found at i:607417 original size:330 final size:329
Alignment explanation
Indices: 606740--607928 Score: 1500
Period size: 330 Copynumber: 3.6 Consensus size: 329
606730 TTATTGACAA
* * * * * * * *
606740 ATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATGATGGTGCCTTTGAGTTGAGTGTAATCGAACT
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT-GTGCCGTTGAGTTGAGCGTAGTCGAACT
* * * * * *
606805 CGAAGGTC--TT--TGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTG
65 CAAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGCTATACTGCAAATGATGTGCCCTTG
* * * * *
606865 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAGTTGTA
130 AAGCTGAGCGTAGTCGAACTCG-AGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGTTATA
* *
606930 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAA-GTCTTTGG-TGACAAATAAC
190 CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC-AAAGGTCTTTGGTTGACAGATAAC
* * *
606993 CCTTATAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGGG
254 CCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGG
607058 GTCTTTGGCAG
319 GTCTTTGGCAG
* * * *
607069 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTACCATGGAGCTGAGCGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGTTGAGCGTAGTCGAACTC
* * * *
607134 GAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTTGA
66 AAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGCTATACTGCAAATGATGTGCCCTTGA
* * * * * **
607199 AACTGAGTGTAATCGAACTTGAGGATCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGTG
131 AGCTGAGCGTAGTCGAACTCGAGG-TCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATACTGCA
*
607264 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCT
195 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCT
* * * * ** *
607329 CGACTTAAGTTTTGCCGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
260 AGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
607394 GGCAG
325 GGCAG
*
607399 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGTTGAGCGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGTTGAGCGTAGTCGAACTC
* * * * *
607464 AAAGGTCTTCTGGTGACAGATAACCCTTATAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGA
66 AAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGCTATACTGCAAATGATGTGCCCTTGA
* * *
607529 AGCTGAGCATAGTCAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCA
131 AGCTGAGCGTAGTCGAACTCGA-GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATACTGCA
*
607594 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTT-ACAGATAACCCTTCT
195 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCT
* *
607658 AGCCTTGAGTTATGTTATAAATGATGTGCCCTCGAAGCTG-GTTGTAATCTAACTCGGGGGTCTT
260 AGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAG-TGTAATCGAACTCGGGGGTCTT
607722 TGGCAG
324 TGGCAG
* *
607728 ATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGTCGTTGAGTTGAGCGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGTTGAGCGTAGTCGAACTC
* * * * *
607793 AAAGGTCTTTTGTTGGA-AAATAGCCCTTCTTGCCTTGAGCTATATTGCAAATGATGTG-CCTTG
66 AAAGGTCTTTTGGT-GACAGATAACCCTTCTAGCCTTGAGCTATACTGCAAATGATGTGCCCTTG
* * * * * * * *
607856 GAGCTGAGCGTGGTCGAACTCGAAGGTCTTTGCTGGCAGATAACCCTTATAGCCTTGAGTTATGC
130 AAGCTGAGCGTAGTCGAACTCG-AGGTC-TT--TGGCAGATAGCCCTTCTCGACTTAAGTTATAC
607921 TGCAAATG
191 TGCAAATG
607929 CTATCTTTTA
Statistics
Matches: 748, Mismatches: 97, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
328 60 0.08
329 287 0.38
330 299 0.40
331 36 0.05
332 42 0.06
333 24 0.03
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (329 bp):
ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGTTGAGCGTAGTCGAACTC
AAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGCTATACTGCAAATGATGTGCCCTTGA
AGCTGAGCGTAGTCGAACTCGAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATACTGCAA
ATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTA
GCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTG
GCAG
Found at i:611941 original size:17 final size:17
Alignment explanation
Indices: 611915--611947 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
611905 TGCAAACGAT
*
611915 GAACACAAAATAAAAGA
1 GAACAAAAAATAAAAGA
611932 GAACAAAAAATAAAAG
1 GAACAAAAAATAAAAG
611948 GGTTAGTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.09, G:0.12, T:0.06
Consensus pattern (17 bp):
GAACAAAAAATAAAAGA
Found at i:612573 original size:6 final size:6
Alignment explanation
Indices: 612562--612587 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
612552 ATCGAATAAA
612562 TAAATT TAAATT TAAATT TAAATT TA
1 TAAATT TAAATT TAAATT TAAATT TA
612588 CCATTTTCGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAAATT
Found at i:613062 original size:45 final size:44
Alignment explanation
Indices: 613002--613103 Score: 113
Period size: 45 Copynumber: 2.4 Consensus size: 44
612992 TTAGATAAAA
* * * *
613002 AATATTAAATAAATAAATCACA-GAATAAACATGAAAATAAATAAT
1 AATAATAAATTAATAAATCAAAGGAA-AAA-ATAAAAATAAATAAT
*
613047 AATAATAAATTAATAAATTAAAGGAAAAAATAAAAATAAATAAT
1 AATAATAAATTAATAAATCAAAGGAAAAAATAAAAATAAATAAT
613091 -A-AATAAA-TAATAA
1 AATAATAAATTAATAA
613104 CATATAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
41 6 0.12
42 6 0.12
43 1 0.02
44 14 0.27
45 21 0.41
46 3 0.06
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.25
Consensus pattern (44 bp):
AATAATAAATTAATAAATCAAAGGAAAAAATAAAAATAAATAAT
Found at i:613091 original size:7 final size:7
Alignment explanation
Indices: 613037--613118 Score: 53
Period size: 7 Copynumber: 11.4 Consensus size: 7
613027 TAAACATGAA
613037 AATAAAT
1 AATAAAT
613044 AAT-AAT
1 AATAAAT
613050 AATAAATT
1 AATAAA-T
613058 AATAAATT
1 AATAAA-T
* *
613066 AAAGGAAAA
1 -AA-TAAAT
613075 AATAAA-
1 AATAAAT
613081 AATAAAT
1 AATAAAT
613088 AATAAAT
1 AATAAAT
613095 AA-ATAAT
1 AATA-AAT
* *
613102 AACATAT
1 AATAAAT
*
613109 AAAAAAT
1 AATAAAT
613116 AAT
1 AAT
613119 GAAACTTAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
6 13 0.21
7 31 0.51
8 12 0.20
9 2 0.03
10 3 0.05
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (7 bp):
AATAAAT
Found at i:615251 original size:248 final size:247
Alignment explanation
Indices: 614934--616128 Score: 1159
Period size: 248 Copynumber: 4.8 Consensus size: 247
614924 ACAATTTTAT
* * * * * * * *
614934 TGACAAATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATGATGGTGCCTTTGAGTTGAGTGTAAT
1 TGACAGATAGCCCTTATAGCCTTGAGCTATGATGTAAATGAT-GTGCCCTTGAGCTGAGCGTAGT
* * *
614999 CGAACTCGAAGGTCTTTGACAGATAGCCCTTTTCGACTTAAGTTATGCTGCAAATGATGTGCCTT
65 CGAACTCGAAGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGCTATACTGCAAATGATGTGCCTT
* * * *
615064 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAGGTGT
130 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTGAGTTAT
* *
615129 GCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
195 GCTGCAAATGATATGCCCTTGAAGCTGAGCGTAATCGAACTCGAAGGTCTTT-G
* * * * * *
615182 TGACAGATAACCCTTATAGCCTTGAGTTATGATGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAGCCCTTATAGCCTTGAGCTATGATGTAAATGATGTGCCCTTG-AGCTGAGCGTAGT
** * *
615247 CGAACTCGGGGGTCTTTGGCAGATAG-CCTTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCT
65 CGAACTCGAAGGTCTTTGGCAGATAGCCCTTT-TCGACTTAAGCTATACTGCAAATGATGTGCCT
* *
615311 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTT
129 TGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTAGACTTGAGTT
* * * * *
615375 ATGCTGTAAATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTTGAGGGTCTTTG
193 ATGCTGCAAATGATATGCCCTTGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTG
* ** * * ** * * *
615430 -G-CAGATAGCCCTTATCGATTTAAGCTATGCTGCGAAGGATATG-CCTTGGAGCTAAGCGTAGT
1 TGACAGATAGCCCTTATAGCCTTGAGCTATGATGTAAATGATGTGCCCTT-GAGCTGAGCGTAGT
* * * * *
615492 CGAACTCAAAGGTCTTTGGTTGGCAGATA-ACCTTTCTCGACTTAAGTTTTACCGCAAATGATGT
65 CGAACTCGAAGGTC--T--TTGGCAGATAGCCCTTT-TCGACTTAAGCTATACTGCAAATGATGT
* * * * ** * *
615556 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTG
125 G-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTG
* * * *
615617 AGCTATGCTGCAAATGATATGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTCTGG
189 AGTTATGCTGCAAATGATATGCCCTTGAAGCTGAGCGTAATCGAACTCGAAGGTCTT-T-G
* * * *
615677 TGACAGATAACCCTTATAGCCTTGAGTTAT-ACTGTAAATGATGTGCCCTCGAAGCTGAGCATAG
1 TGACAGATAGCCCTTATAGCCTTGAGCTATGA-TGTAAATGATGTGCCCTTG-AGCTGAGCGTAG
* * *
615741 TCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGTCT
64 TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGCTATACTGCAAATGATGTGCCT
* * *
615806 TGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTT-ACAGATAACCCTTCTAGCCTTGAGTTA
129 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTGAGTTA
* * * * * **
615870 TGCTGTAAATGATGTGCCCTCGAAGATGAGTGTAATCGAACTCGGGGGTCTTTG
194 TGCTGCAAATGATATGCCCTTGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTG
* * * * ** * * *
615924 -G-CAGATAGCCCTTCTCA-TCTTAAGCTATGCTACAAATGATGTGTCGTTGAGTTGAGCGTAGT
1 TGACAGATAGCCCTTAT-AGCCTTGAGCTATGATGTAAATGATGTGCCCTTGAGCTGAGCGTAGT
* * * * * *
615986 CGAACTCAAAGGTCTTTTGTTGGCAAATAACCCTTCTT-GCCTTGAGCTATATTGCAAATGATGT
65 CGAACTCGAAGGTC---T-TTGGCAGATAGCCCTT-TTCGACTTAAGCTATACTGCAAATGATGT
* * * * *
616050 GCCTTGGAGCTGAGTGTGGTCGAACTCGAAGGTCTTT-GCTGGCAGATAACCCTTATAGCCTTGA
125 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTGA
* *
616114 GTTATGTTGTAAATG
190 GTTATGCTGCAAATG
616129 CTATCTTTTA
Statistics
Matches: 772, Mismatches: 142, Indels: 66
0.79 0.14 0.07
Matches are distributed among these distances:
244 23 0.03
245 107 0.14
246 115 0.15
247 24 0.03
248 317 0.41
249 134 0.17
250 52 0.07
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (247 bp):
TGACAGATAGCCCTTATAGCCTTGAGCTATGATGTAAATGATGTGCCCTTGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGCTATACTGCAAATGATGTGCCTTG
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTGAGTTATG
CTGCAAATGATATGCCCTTGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTG
Found at i:615415 original size:165 final size:164
Alignment explanation
Indices: 614940--616087 Score: 1394
Period size: 165 Copynumber: 7.0 Consensus size: 164
614930 TTATTGACAA
* * * * * * * * *
614940 ATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATGATGGTGCCTTTGAGTTGAGTGTAATCGAACT
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT-GTGCCTTGGAGCTGAGCGTAGTCGAACT
* * * * * * * *
615005 CGAAGGTC-TT--TGACAGATAGCCCTTTTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGG
65 CGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGA
* * *
615066 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
130 AGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAG
* * * * * *
615105 ACAACCCTTCTAGACTTAAGGTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * *
615170 GAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGAGTTATGATGTAAATGATATGCCCTCGAA
66 GAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAA
*
615235 GCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAG
131 GCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAG
* *
615269 ATAGCCTTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
*
615334 GAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTTGA
66 GAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGA
*
615399 AGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAG
130 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAG
* * * * * *
615434 ATAGCCCTTATCGATTTAAGCTATGCTGCGAAGGATATGCCTTGGAGCTAAGCGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * * * * * * * * *
615499 AAAGGTCTTTGGTTGGCAGATAACCTTTCTCGACTTAAGTTTTACCGCAAATGATGTGCCCTCGA
66 GAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGA
*
615564 AGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAG
130 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAG
* *
615599 ATAGCCCTTCTCGACTTGAGCTATGCTGCAAATGATATGCCGTT-GAGCTGAGCGTAGTCGAACT
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACT
* * *
615663 CAAAGGTCTTCTGGTGACAGATAACCCTTATAGCCTTGAGTTATACTGTAAATGATGTGCCCTCG
65 CGAAGGTCTT-TGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCG
** *
615728 AAGCTGAGCATAGTCGAACTCGAGGGTCTTTGGCAG
129 AAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAG
* *
615764 ATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* *
615829 GAAGGTATTTGGTTACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAA
66 GAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAA
* *
615894 GATGAGTGTAATCGAACTCGGGGGTCTTTGGCAG
131 GCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAG
* * *
615928 ATAGCCCTTCTC-ATCTTAAGCTATGCTACAAATGATGTGTCGTT-GAGTTGAGCGTAGTCGAAC
1 ATAGCCCTTCTCGA-CTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAAC
* * * * * * ** * *
615991 TCAAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATATTGCAAATGATGTG-CCTT
64 TCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC
* ** *
616055 GGAGCTGAGTGTGGTCGAACTCGAAGGTCTTTG
128 GAAGCTGAGTGTAATCGAACTCGAGGGTCTTTG
616088 CTGGCAGATA
Statistics
Matches: 852, Mismatches: 119, Indels: 25
0.86 0.12 0.03
Matches are distributed among these distances:
163 1 0.00
164 281 0.33
165 500 0.59
166 6 0.01
167 37 0.04
168 27 0.03
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (164 bp):
ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAA
GCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAG
Found at i:620272 original size:37 final size:37
Alignment explanation
Indices: 620197--620272 Score: 100
Period size: 38 Copynumber: 2.1 Consensus size: 37
620187 AAATGAAAAA
*
620197 TCCTACCCCACATGATATCTACCCCGCATGCTTTATT
1 TCCTACCCCACATGATATCTACCCCGCATGCTTAATT
* * *
620234 TCCTACCCGGACATGATCTCTATCCCGCATGC-TAATT
1 TCCTACCC-CACATGATATCTACCCCGCATGCTTAATT
620271 TC
1 TC
620273 AAACAAATCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.41
38 20 0.59
ACGTcount: A:0.21, C:0.37, G:0.11, T:0.32
Consensus pattern (37 bp):
TCCTACCCCACATGATATCTACCCCGCATGCTTAATT
Found at i:621252 original size:41 final size:38
Alignment explanation
Indices: 621207--621295 Score: 90
Period size: 38 Copynumber: 2.3 Consensus size: 38
621197 AAATATATTA
* *
621207 AATAAATAAATCACAGAATAAACATGAAAATAAATAATAAT
1 AATAAATAAATAACA-AATAAA-AGGAAAA-AAATAATAAT
* * *
621248 AAT-AATAAAATAATAAATTAAAGGAAAAAATTAATAAT
1 AATAAAT-AAATAACAAATAAAAGGAAAAAAATAATAAT
621286 AATAAATAAA
1 AATAAATAAA
621296 AAAATACTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
38 15 0.37
39 9 0.22
40 8 0.20
41 9 0.22
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (38 bp):
AATAAATAAATAACAAATAAAAGGAAAAAAATAATAAT
Found at i:621259 original size:21 final size:20
Alignment explanation
Indices: 621233--621301 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 20
621223 AATAAACATG
621233 AAAATAAATAATAATAATAAT
1 AAAA-AAATAATAATAATAAT
* * **
621254 AAAATAATAA-ATTAA-AGG
1 AAAAAAATAATAATAATAAT
*
621272 AAAAAATTAATAATAATAAAT
1 AAAAAAATAATAATAAT-AAT
621293 AAAAAAATA
1 AAAAAAATA
621302 CTGAAACTTA
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
18 9 0.26
19 8 0.23
20 5 0.14
21 13 0.37
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAAAAATAATAATAATAAT
Found at i:622998 original size:20 final size:20
Alignment explanation
Indices: 622952--622998 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
622942 TAAATACTCG
*
622952 TAATTATATTACATAAATCA
1 TAATTATATTACATAAAACA
* *
622972 TATTTATATTATGATAAAAC-
1 TAATTATATTA-CATAAAACA
622992 TAATTAT
1 TAATTAT
622999 CATAATTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (20 bp):
TAATTATATTACATAAAACA
Found at i:628325 original size:125 final size:125
Alignment explanation
Indices: 628122--629021 Score: 1055
Period size: 125 Copynumber: 7.1 Consensus size: 125
628112 ATTTACACCA
* * * * * * *
628122 GTTTTATTATTGTTGTGCATAACAAAATCTGTAAAAATTATCTAAAACATCATTATTTCTATCGG
1 GTTTTGTTATTGTTGTGCATAACAAAACCGGTAAAAATTACCGAAAACATCATTATTTCTACCGA
* * ** * *
628187 TTTTGTTATTATTTTGGTATTTTACCGAATTTTTTAACAAAATCGGTAAAAACGCTACCG
66 TTTTGTTATTATTTTGGCATTTTATCGGGTTTCTTAACAAAACCGGTAAAAACGCTACCG
* * * *
628247 GTTTTGTTATTGTTGTGCATAATAAAAACGGTAAAAATTACCGAAAACATTATTATTTCTATCGA
1 GTTTTGTTATTGTTGTGCATAACAAAACCGGTAAAAATTACCGAAAACATCATTATTTCTACCGA
* * * ***
628312 TTTTGTTATTATTTTGGCATTTTATCAGGTTTCTTAACAAAACCGATAAAAGCGCTATTA
66 TTTTGTTATTATTTTGGCATTTTATCGGGTTTCTTAACAAAACCGGTAAAAACGCTACCG
* * *
628372 GTTTTGTTATTGTTGTGCATAACAAAACCGATAAAAATTACCTAAAACATCATTATTTCTATC-A
1 GTTTTGTTATTGTTGTGCATAACAAAACCGGTAAAAATTACCGAAAACATCATTATTTCTACCGA
* * * * *
628436 GTTTTATTATTATTTTGACATTTTACCAGGTTTTTTTAACAAAACCGGTAAAAGCGCTATCAGTT
66 -TTTTGTTATTATTTTGGCATTTTATC-GGGTTTCTTAACAAAACCGGTAAAA-----A-C-G--
*
628501 TTTACCG
120 -CTACCG
* * * *
628508 GTTTTGTTATTGTTGTGCATAACAAAACTGGTAAAAATTATCGAAATCATCATTATTTTTACCGA
1 GTTTTGTTATTGTTGTGCATAACAAAACCGGTAAAAATTACCGAAAACATCATTATTTCTACCGA
* * **
628573 TTTTGTTATTATTTTGGCATTTTATCGGGTTTCTTAACAAAACCGATAAAAGCGCTATTG
66 TTTTGTTATTATTTTGGCATTTTATCGGGTTTCTTAACAAAACCGGTAAAAACGCTACCG
* * * *
628633 GTTTTGTTATTGTTATGCATAACAAAACCGGTAAAAATTATCTAAAACATTATTATTTCTACCGA
1 GTTTTGTTATTGTTGTGCATAACAAAACCGGTAAAAATTACCGAAAACATCATTATTTCTACCGA
* * *
628698 TTTTGTTATTATTTTGGCATTTTATCGGGTTTTTTTAACAAAATCGATAAAAAACGCTACCG
66 TTTTGTTATTATTTTGGCATTTTATCGGG-TTTCTTAACAAAACCGGT-AAAAACGCTACCG
* * * *
628760 ATTTTGTTATTGTTGTGCATAACAAAATCGGTAAAAATTACCGAAAACATCATTATTTTTACCGG
1 GTTTTGTTATTGTTGTGCATAACAAAACCGGTAAAAATTACCGAAAACATCATTATTTCTACCGA
* *** **
628825 TTTTGTTATTATTTTGGCATTCTATCGGGTTTCTTAACAAAACCGGTAAAAATATTATTG
66 TTTTGTTATTATTTTGGCATTTTATCGGGTTTCTTAACAAAACCGGTAAAAACGCTACCG
* *
628885 GCTTTGTTATTGTTGTGCATAACAAAACCGGTAAAAAAATACCGAAAACATCATTATTTCTACCG
1 GTTTTGTTATTGTTGTGCATAACAAAACCGGT-AAAAATTACCGAAAACATCATTATTTCTACCG
* * * * ** *
628950 GTTTTATTATTATTTTGACATTTTATCGGGTTTCTTAACAAAACTGGTAAAAGTGTTACCG
65 ATTTTGTTATTATTTTGGCATTTTATCGGGTTTCTTAACAAAACCGGTAAAAACGCTACCG
*
629011 ATTTTGTTATT
1 GTTTTGTTATT
629022 TTTTTTATCG
Statistics
Matches: 662, Mismatches: 97, Indels: 31
0.84 0.12 0.04
Matches are distributed among these distances:
124 1 0.00
125 314 0.47
126 144 0.22
127 95 0.14
128 1 0.00
129 1 0.00
132 1 0.00
133 1 0.00
135 22 0.03
136 81 0.12
137 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (125 bp):
GTTTTGTTATTGTTGTGCATAACAAAACCGGTAAAAATTACCGAAAACATCATTATTTCTACCGA
TTTTGTTATTATTTTGGCATTTTATCGGGTTTCTTAACAAAACCGGTAAAAACGCTACCG
Found at i:628893 original size:252 final size:251
Alignment explanation
Indices: 628122--629001 Score: 1176
Period size: 261 Copynumber: 3.5 Consensus size: 251
628112 ATTTACACCA
* * * * * *
628122 GTTTTATTATTGTTGTGCATAACAAAATCTGTAAAAATTATCTAAAACATCATTATTTCTATCGG
1 GTTTTGTTATTGTTGTGCATAACAAAACCGGTAAAAATTACCTAAAACATCATTATTTCTACCGA
* ** * **
628187 TTTTGTTATTATTTTGGTATTTTA-CCGAATTTTTTAACAAAATCGGT-AAAAACGCTACCGGTT
66 TTTTATTATTATTTTGACATTTTATCGGGTTTTTTTAACAAAATCGGTAAAAAACGCTACCGGTT
* * * *
628250 TTGTTATTGTTGTGCATAATAAAAACGGTAAAAATTACCGAAAACATTATTATTTCTATCGATTT
131 TTGTTATTGTTGTGCATAA-CAAAACGGTAAAAATTACCGAAAACATCATTATTTTTACCGATTT
* *
628315 TGTTATTATTTTGGCATTTTATCAGGTTTCTTAACAAAACCGATAAAAGCGCTATTA
195 TGTTATTATTTTGGCATTTTATCGGGTTTCTTAACAAAACCGATAAAAGCGCTATTG
* *
628372 GTTTTGTTATTGTTGTGCATAACAAAACCGATAAAAATTACCTAAAACATCATTATTTCTATC-A
1 GTTTTGTTATTGTTGTGCATAACAAAACCGGTAAAAATTACCTAAAACATCATTATTTCTACCGA
* * * *
628436 GTTTTATTATTATTTTGACATTTTACCAGGTTTTTTTAACAAAACCGGTAAAAGCGCTATCAGTT
66 -TTTTATTATTATTTTGACATTTTATCGGGTTTTTTTAACAAAATCGGTAAAA-----AAC-G--
* * *
628501 TTTACCGGTTTTGTTATTGTTGTGCATAACAAAACTGGTAAAAATTATCGAAATCATCATTATTT
122 -CTACCGGTTTTGTTATTGTTGTGCATAACAAAAC-GGTAAAAATTACCGAAAACATCATTATTT
628566 TTACCGATTTTGTTATTATTTTGGCATTTTATCGGGTTTCTTAACAAAACCGATAAAAGCGCTAT
185 TTACCGATTTTGTTATTATTTTGGCATTTTATCGGGTTTCTTAACAAAACCGATAAAAGCGCTAT
628631 TG
250 TG
* * *
628633 GTTTTGTTATTGTTATGCATAACAAAACCGGTAAAAATTATCTAAAACATTATTATTTCTACCGA
1 GTTTTGTTATTGTTGTGCATAACAAAACCGGTAAAAATTACCTAAAACATCATTATTTCTACCGA
* * * *
628698 TTTTGTTATTATTTTGGCATTTTATCGGGTTTTTTTAACAAAATCGATAAAAAACGCTACCGATT
66 TTTTATTATTATTTTGACATTTTATCGGGTTTTTTTAACAAAATCGGTAAAAAACGCTACCGGTT
*
628763 TTGTTATTGTTGTGCATAACAAAATCGGTAAAAATTACCGAAAACATCATTATTTTTACCGGTTT
131 TTGTTATTGTTGTGCATAACAAAA-CGGTAAAAATTACCGAAAACATCATTATTTTTACCGATTT
* * ****
628828 TGTTATTATTTTGGCATTCTATCGGGTTTCTTAACAAAACCGGTAAAAATATTATTG
195 TGTTATTATTTTGGCATTTTATCGGGTTTCTTAACAAAACCGATAAAAGCGCTATTG
* * *
628885 GCTTTGTTATTGTTGTGCATAACAAAACCGGTAAAAAAATACCGAAAACATCATTATTTCTACCG
1 GTTTTGTTATTGTTGTGCATAACAAAACCGGT-AAAAATTACCTAAAACATCATTATTTCTACCG
* *
628950 GTTTTATTATTATTTTGACATTTTATCGGG-TTTCTTAACAAAA-CTGGTAAAA
65 ATTTTATTATTATTTTGACATTTTATCGGGTTTTTTTAACAAAATC-GGTAAAA
629002 GTGTTACCGA
Statistics
Matches: 556, Mismatches: 57, Indels: 32
0.86 0.09 0.05
Matches are distributed among these distances:
250 79 0.14
251 20 0.04
252 169 0.30
253 56 0.10
255 1 0.00
256 2 0.00
257 2 0.00
258 1 0.00
260 5 0.01
261 220 0.40
262 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (251 bp):
GTTTTGTTATTGTTGTGCATAACAAAACCGGTAAAAATTACCTAAAACATCATTATTTCTACCGA
TTTTATTATTATTTTGACATTTTATCGGGTTTTTTTAACAAAATCGGTAAAAAACGCTACCGGTT
TTGTTATTGTTGTGCATAACAAAACGGTAAAAATTACCGAAAACATCATTATTTTTACCGATTTT
GTTATTATTTTGGCATTTTATCGGGTTTCTTAACAAAACCGATAAAAGCGCTATTG
Found at i:629683 original size:200 final size:198
Alignment explanation
Indices: 629203--629700 Score: 554
Period size: 200 Copynumber: 2.5 Consensus size: 198
629193 AGATTTATAT
* *
629203 CGATATATTTATACTGGTAACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
1 CGATATATTTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* * *
629268 TTTGGGATTGATACAATTT-TAAATGTATCGACACTTTATGCGTGCACCTCCTTGGATATTCATT
66 TTTGGGATTGATAC-TTTTATAAATGAATCGACACTTTATGCGTGCACCTCCTTGGACATTCATT
* * * * * *
629332 TTGAAAAAAAGTGTCGACACAAACTTAAAACGTGTCGATACATTATGTAAACCTATTTTCTCATA
130 TGGAAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAAACATATTCTATCAAA
629397 AAAC
195 AAAC
** * *
629401 CGATATATTTATACCAAG-TACATTGTAAATTTACCTATTGCATTGTAATTATCGGTTTCGATGT
1 CGATATATTTATA-CTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
* * *
629465 TTTTGGGATCGATACTTTTAATAAATGAATTGACACTTTATGCGTGCACCTCGTTTGG-CATTCA
65 TTTTGGGATTGATACTTTT-ATAAATGAATCGACACTTTATGCGTGCACCTC-CTTGGACATTCA
* * * *** ** * * **
629529 TTCTGGACAAAATGTATTGACAC-TTTTTAAATTTGTTTCGATATATTATGTTGACATATTCTAT
128 TT-TGGAAAAAAAGTATCGACACAAACTTAAA-ACGTGTCGATACATTATGTAAACATATTCTAT
629593 CAAAAAAC
191 CAAAAAAC
* * * * *
629601 TGGTATATTTATATTGGTTACATTGTAAAATTACCTATTACATTATAATTATCGGTTTCGATATT
1 CGATATATTTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* * * *
629666 TTTGGGGTTGGTACTTTTAGAAAATGTATCGACAC
66 TTTGGGATTGATACTTTTA-TAAATGAATCGACAC
629701 ATATGTTTAC
Statistics
Matches: 247, Mismatches: 45, Indels: 14
0.81 0.15 0.05
Matches are distributed among these distances:
197 3 0.01
198 69 0.28
199 45 0.18
200 130 0.53
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (198 bp):
CGATATATTTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
TTTGGGATTGATACTTTTATAAATGAATCGACACTTTATGCGTGCACCTCCTTGGACATTCATTT
GGAAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAAACATATTCTATCAAAA
AAC
Found at i:630256 original size:124 final size:125
Alignment explanation
Indices: 630033--630291 Score: 360
Period size: 124 Copynumber: 2.1 Consensus size: 125
630023 CCGGTAAAAA
* *
630033 AATAACAAAATCGATAGTGTTGTTACCGGTTTTGTTAAGAAACCCGATAAAATGCCAAAATAATA
1 AATAACAAAATCGATAGCGTTGTTACCGATTTTGTTAAGAAACCCGATAAAATGCCAAAATAATA
* * * * ** * *
630098 ACAAAACCGATATAAATAATTATGTTTTCAGTAATTTTT-TTGGTTTTATTATGCACAAC
66 ACAAAAACGATAGAAATAATAATATTTTCAGTAATTTTTACCGATTTTATTATACACAAC
* * *
630157 AATAACAAAATCGATAGCGTTTTTACCTATTTTGTTAAGAAACCC-AGTAAAATGTCAAAATAAT
1 AATAACAAAATCGATAGCGTTGTTACCGATTTTGTTAAGAAACCCGA-TAAAATGCCAAAATAAT
* *
630221 AACAAAAACGATAGAAATAATAATATTTTCGGTAATTTTTACCGATTTTATTATACGCAAC
65 AACAAAAACGATAGAAATAATAATATTTTCAGTAATTTTTACCGATTTTATTATACACAAC
630282 AATAACAAAA
1 AATAACAAAA
630292 CCGGTACTAT
Statistics
Matches: 118, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
123 1 0.01
124 92 0.78
125 25 0.21
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (125 bp):
AATAACAAAATCGATAGCGTTGTTACCGATTTTGTTAAGAAACCCGATAAAATGCCAAAATAATA
ACAAAAACGATAGAAATAATAATATTTTCAGTAATTTTTACCGATTTTATTATACACAAC
Found at i:635222 original size:39 final size:39
Alignment explanation
Indices: 635168--635278 Score: 204
Period size: 39 Copynumber: 2.8 Consensus size: 39
635158 AGGACCCCTT
*
635168 TTTATCATCTCTAACAATGACCAATGGTACCTTTTTTGA
1 TTTATCATCTCTAACAATGATCAATGGTACCTTTTTTGA
635207 TTTATCATCTCTAACAATGATCAATGGTACCTTTTTTGA
1 TTTATCATCTCTAACAATGATCAATGGTACCTTTTTTGA
*
635246 TTTATCATCTCTAGCAATGATCAATGGTACCTT
1 TTTATCATCTCTAACAATGATCAATGGTACCTT
635279 AATGGCTGGC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (39 bp):
TTTATCATCTCTAACAATGATCAATGGTACCTTTTTTGA
Found at i:637571 original size:23 final size:23
Alignment explanation
Indices: 637540--637586 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
637530 GGGTTCTACC
637540 GGTCATTCGGGACAATACTATGT
1 GGTCATTCGGGACAATACTATGT
* * *
637563 GGTCCTTCGGGACATTTCTATGT
1 GGTCATTCGGGACAATACTATGT
637586 G
1 G
637587 ACACTTTGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (23 bp):
GGTCATTCGGGACAATACTATGT
Found at i:638334 original size:21 final size:21
Alignment explanation
Indices: 638308--638352 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
638298 GATTTCTGGG
* *
638308 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
638329 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
638350 CAA
1 CAA
638353 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:639310 original size:31 final size:31
Alignment explanation
Indices: 639272--639426 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
639262 AGGGTCGAGG
639272 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
639303 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
639334 G-TTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
639364 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
639395 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
639426 G
1 G
639427 GTCCTTCGGG
Statistics
Matches: 117, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
30 30 0.26
31 86 0.74
32 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:639349 original size:61 final size:62
Alignment explanation
Indices: 639274--639426 Score: 256
Period size: 61 Copynumber: 2.5 Consensus size: 62
639264 GGTCGAGGGT
*
639274 TTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTG-
1 TTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
639335 TTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
* *
639397 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
639427 GTCCTTCGGG
Statistics
Matches: 87, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
61 60 0.69
62 26 0.30
63 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (62 bp):
TTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
Found at i:642587 original size:21 final size:21
Alignment explanation
Indices: 642561--642605 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
642551 GATTTCTGGG
* *
642561 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
642582 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
642603 CAA
1 CAA
642606 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:643568 original size:31 final size:31
Alignment explanation
Indices: 643530--643647 Score: 184
Period size: 31 Copynumber: 3.8 Consensus size: 31
643520 TTTACCTATG
643530 TATGTTCTTCGGGACATATGGACTGTTTACC
1 TATGTTCTTCGGGACATATGGACTGTTTACC
643561 TATGTTCTTCGGGACATATGGACTGTTTACC
1 TATGTTCTTCGGGACATATGGACTGTTTACC
* *
643592 TATGTCCTTCGGGACATATGGACTGATTACC
1 TATGTTCTTCGGGACATATGGACTGTTTACC
* *
643623 TAGGTTCTTCGGAATC-TATGGACTG
1 TATGTTCTTCGGGA-CATATGGACTG
643648 GTCCTTCGGG
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 80 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (31 bp):
TATGTTCTTCGGGACATATGGACTGTTTACC
Found at i:644544 original size:31 final size:31
Alignment explanation
Indices: 644506--644570 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
644496 ATGAATGAAC
* *
644506 AATGCATAATGTTATATGTTCTTGTTGGTTA
1 AATGCATAATGTTATATATTCTTGTTGATTA
644537 AATGCATAATGTTATATATTCTTGTTGATTA
1 AATGCATAATGTTATATATTCTTGTTGATTA
644568 AAT
1 AAT
644571 ATATGATGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (31 bp):
AATGCATAATGTTATATATTCTTGTTGATTA
Found at i:644580 original size:31 final size:31
Alignment explanation
Indices: 644510--644580 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
644500 ATGAACAATG
* * *
644510 CATAATGTTATATGTTCTTGTTGGTTAAATG
1 CATAATGTTATATATTCTTGTTGATTAAATA
644541 CATAATGTTATATATTCTTGTTGATTAAATA
1 CATAATGTTATATATTCTTGTTGATTAAATA
* *
644572 TATGATGTT
1 CATAATGTT
644581 TTATGTACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (31 bp):
CATAATGTTATATATTCTTGTTGATTAAATA
Found at i:645000 original size:16 final size:16
Alignment explanation
Indices: 644979--645009 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
644969 TTATTGACTA
644979 GTTTTTAAAAGTCAAT
1 GTTTTTAAAAGTCAAT
644995 GTTTTTAAAAGTCAA
1 GTTTTTAAAAGTCAA
645010 AGTGACACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (16 bp):
GTTTTTAAAAGTCAAT
Found at i:656043 original size:139 final size:139
Alignment explanation
Indices: 655793--656073 Score: 562
Period size: 139 Copynumber: 2.0 Consensus size: 139
655783 GAAAAATGTG
655793 CATAATACACATCAAACCAAAAGGAAGAGTAGTTCATGAACAGAATCATGCAAATATTTAGATGA
1 CATAATACACATCAAACCAAAAGGAAGAGTAGTTCATGAACAGAATCATGCAAATATTTAGATGA
655858 TCTACACATTCCTAAAACAAGCCACTTCATTTCAGCAATGAATTCCGAATCATGGAAAGCATTAT
66 TCTACACATTCCTAAAACAAGCCACTTCATTTCAGCAATGAATTCCGAATCATGGAAAGCATTAT
655923 TTTTAGGTT
131 TTTTAGGTT
655932 CATAATACACATCAAACCAAAAGGAAGAGTAGTTCATGAACAGAATCATGCAAATATTTAGATGA
1 CATAATACACATCAAACCAAAAGGAAGAGTAGTTCATGAACAGAATCATGCAAATATTTAGATGA
655997 TCTACACATTCCTAAAACAAGCCACTTCATTTCAGCAATGAATTCCGAATCATGGAAAGCATTAT
66 TCTACACATTCCTAAAACAAGCCACTTCATTTCAGCAATGAATTCCGAATCATGGAAAGCATTAT
656062 TTTTAGGTT
131 TTTTAGGTT
656071 CAT
1 CAT
656074 GTGACAAATC
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 142 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (139 bp):
CATAATACACATCAAACCAAAAGGAAGAGTAGTTCATGAACAGAATCATGCAAATATTTAGATGA
TCTACACATTCCTAAAACAAGCCACTTCATTTCAGCAATGAATTCCGAATCATGGAAAGCATTAT
TTTTAGGTT
Found at i:656050 original size:69 final size:69
Alignment explanation
Indices: 655835--656050 Score: 166
Period size: 69 Copynumber: 3.1 Consensus size: 69
655825 TTCATGAACA
655835 GAATCATGCAAATATTTAGATGATCTACACATTCCTAAAACAAGCCACTTCATTTCAGCAATGAA
1 GAATCATGCAAATATTTAGATGATCTACACATTCCTAAAACAAGCCACTTCATTTCAGCAATGAA
655900 TTCC
66 TTCC
* * * * * * * *
655904 GAATCATGGAAAGCATTATTTTTAGGTTCATAATACACA-TCAAACCAAAAGGAAG--A-GT-AG
1 GAATCAT-GCAA--A-TA--TTTA-GATGAT-CTACACATTC---CTAAAA-CAAGCCACTTCAT
*
655964 TT---C-ATGAA--CA
54 TTCAGCAATGAATTCC
655974 GAATCATGCAAATATTTAGATGATCTACACATTCCTAAAACAAGCCACTTCATTTCAGCAATGAA
1 GAATCATGCAAATATTTAGATGATCTACACATTCCTAAAACAAGCCACTTCATTTCAGCAATGAA
656039 TTCC
66 TTCC
656043 GAATCATG
1 GAATCATG
656051 GAAAGCATTA
Statistics
Matches: 106, Mismatches: 18, Indels: 46
0.62 0.11 0.27
Matches are distributed among these distances:
59 3 0.03
60 5 0.05
61 1 0.01
62 7 0.07
63 9 0.08
64 4 0.04
66 3 0.03
67 6 0.06
69 19 0.18
70 11 0.10
72 6 0.06
73 3 0.03
75 4 0.04
76 9 0.08
77 7 0.07
78 1 0.01
79 5 0.05
80 3 0.03
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (69 bp):
GAATCATGCAAATATTTAGATGATCTACACATTCCTAAAACAAGCCACTTCATTTCAGCAATGAA
TTCC
Found at i:660543 original size:53 final size:53
Alignment explanation
Indices: 660480--660586 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
660470 ATAAAAAAAA
660480 TATAGGGACCATCAGTAAATTTTACCCTTTTATTAATGTATTAATTTATTTTT
1 TATAGGGACCATCAGTAAATTTTACCCTTTTATTAATGTATTAATTTATTTTT
660533 TATAGGGACCATCAGTAAATTTTACCCTTTTATTAATGTATTAATTTATTTTT
1 TATAGGGACCATCAGTAAATTTTACCCTTTTATTAATGTATTAATTTATTTTT
660586 T
1 T
660587 TATTACTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (53 bp):
TATAGGGACCATCAGTAAATTTTACCCTTTTATTAATGTATTAATTTATTTTT
Found at i:660776 original size:31 final size:31
Alignment explanation
Indices: 660738--660797 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
660728 GTTACATCGA
660738 GGACCATATT-ACAAACGAACTAAATGTTGAG
1 GGACCATATTGA-AAACGAACTAAATGTTGAG
*
660769 GGACCATATTGAAAACGGACTAAATGTTG
1 GGACCATATTGAAAACGAACTAAATGTTG
660798 GGGGGATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (31 bp):
GGACCATATTGAAAACGAACTAAATGTTGAG
Found at i:663973 original size:12 final size:12
Alignment explanation
Indices: 663956--663987 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
663946 GATTAACATT
663956 TTTGCATCTGTA
1 TTTGCATCTGTA
*
663968 TTTGCATTTGTA
1 TTTGCATCTGTA
663980 TTTGCATC
1 TTTGCATC
663988 ATTGCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (12 bp):
TTTGCATCTGTA
Found at i:667631 original size:14 final size:14
Alignment explanation
Indices: 667612--667648 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
667602 GGTAAGAGAA
667612 GCTAAATTTTTAGG
1 GCTAAATTTTTAGG
667626 GCTAAATTTTTAGG
1 GCTAAATTTTTAGG
*
667640 GCAAAATTT
1 GCTAAATTT
667649 GATGGAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (14 bp):
GCTAAATTTTTAGG
Found at i:669371 original size:40 final size:40
Alignment explanation
Indices: 669316--669508 Score: 163
Period size: 40 Copynumber: 4.6 Consensus size: 40
669306 TGGATTGTCG
* *
669316 TCCTCATCGCGTAGGAACCATGTCATCACCCGACCTGATC
1 TCCTCATCACGTAGGAACCGTGTCATCACCCGACCTGATC
* * **** * *
669356 TCCTCATCACGTAGGAGCTGTGTCACCTCATATAACCAGATG
1 TCCTCATCACGTAGGAACCGTGTCA--TCACCCGACCTGATC
*
669398 TCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTG-TC
1 TCCTCATCACGTAGGAACCGTGTCATCACCC---GA---CCTGATC
* *
669443 GTCCTCATCGCGTAGGAACCGTGTCATCACCTGACCTGATC
1 -TCCTCATCACGTAGGAACCGTGTCATCACCCGACCTGATC
* *
669484 TCCTCATCACGTAGGAGCTGTGTCA
1 TCCTCATCACGTAGGAACCGTGTCA
669509 ACCCAGATAA
Statistics
Matches: 118, Mismatches: 25, Indels: 20
0.72 0.15 0.12
Matches are distributed among these distances:
40 50 0.42
41 2 0.02
42 31 0.26
43 3 0.03
45 1 0.01
46 31 0.26
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (40 bp):
TCCTCATCACGTAGGAACCGTGTCATCACCCGACCTGATC
Found at i:669409 original size:42 final size:42
Alignment explanation
Indices: 669356--669590 Score: 183
Period size: 42 Copynumber: 5.5 Consensus size: 42
669346 CGACCTGATC
*
669356 TCCTCATCACGTAGGAGCTGTGTCACCTCATATAACCAGATG
1 TCCTCATCACGTAGGAGCTGTGTCACCTCAGATAACCAGATG
* * * ** *
669398 TCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTG-TCG
1 TCCTCATCACGTAGG-AGC-TG-TGTCA-CCTCAGATAACCAGAT-G
* * * ** * * *
669444 TCCTCATCGCGTAGGAACCGTGTCA--TCACCTGACCTGATC
1 TCCTCATCACGTAGGAGCTGTGTCACCTCAGATAACCAGATG
**
669484 TCCTCATCACGTAGGAGCTGTGTCAACC-CAGATAACCAGCCG
1 TCCTCATCACGTAGGAGCTGTGTC-ACCTCAGATAACCAGATG
**
669526 TCCTCATCACGTAGGAGCTGTGTCAACC-CAGATAACCAGCCG
1 TCCTCATCACGTAGGAGCTGTGTC-ACCTCAGATAACCAGATG
* *
669568 TCCTCATCACGTAAGAACTGTGT
1 TCCTCATCACGTAGGAGCTGTGT
669591 TATCACCTAT
Statistics
Matches: 156, Mismatches: 28, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
40 29 0.19
41 2 0.01
42 85 0.54
43 6 0.04
44 3 0.02
45 7 0.04
46 24 0.15
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (42 bp):
TCCTCATCACGTAGGAGCTGTGTCACCTCAGATAACCAGATG
Found at i:669436 original size:128 final size:127
Alignment explanation
Indices: 669228--669541 Score: 461
Period size: 128 Copynumber: 2.4 Consensus size: 127
669218 CGACCAGCCG
* * * * *
669228 TCCTGATCGCGTAGGAG-TCGTGTCACCTCAGATAACCAGTCGTCCCCATCACGTAGGAACTGTT
1 TCCTCATCACGTAGGAGCT-GTGTCACCTCAGATAACCAGT-GTCCTCATCACGTAGGAACCGTG
* *
669292 TTATTACCCTTAGATGGATTGTCGTCCTCATCGCGTAGGAACCATGTCATCACCCGACCTGATC
64 TTATCACCCTTAGATGGACTGTCGTCCTCATCGCGTAGGAACCATGTCATCACCCGACCTGATC
*
669356 TCCTCATCACGTAGGAGCTGTGTCACCTCATATAACCAGATGTCCTCATCACGTAGGAACCGTGT
1 TCCTCATCACGTAGGAGCTGTGTCACCTCAGATAACCAG-TGTCCTCATCACGTAGGAACCGTGT
* * *
669421 TATCACCCTTAGATGGCCTGTCGTCCTCATCGCGTAGGAACCGTGTCATCACCTGACCTGATC
65 TATCACCCTTAGATGGACTGTCGTCCTCATCGCGTAGGAACCATGTCATCACCCGACCTGATC
*
669484 TCCTCATCACGTAGGAGCTGTGTCAACC-CAGATAACCAGCCGTCCTCATCACGTAGGA
1 TCCTCATCACGTAGGAGCTGTGTC-ACCTCAGATAACCAG-TGTCCTCATCACGTAGGA
669542 GCTGTGTCAA
Statistics
Matches: 169, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
128 164 0.97
129 5 0.03
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (127 bp):
TCCTCATCACGTAGGAGCTGTGTCACCTCAGATAACCAGTGTCCTCATCACGTAGGAACCGTGTT
ATCACCCTTAGATGGACTGTCGTCCTCATCGCGTAGGAACCATGTCATCACCCGACCTGATC
Found at i:669534 original size:170 final size:171
Alignment explanation
Indices: 669356--669713 Score: 483
Period size: 170 Copynumber: 2.1 Consensus size: 171
669346 CGACCTGATC
* * *
669356 TCCTCATCACGTAGGAGCTGTGTC-ACCTCATATAACCAGATGTCCTCATCACGTAGGAACCGTG
1 TCCTCATCACGTAGGAGCTGTGTCAACC-CAGATAACCAGACGTCCTCATCACGTAAGAACCGTG
* * *
669420 TTATCACCCT-TAGATGGCCTGTCGTCCTCATCGCGTAGGAACCGTGTCATCACCTGACCT-GAT
65 TTATCA-CCTATAGATGGCATGTCGTCCTCATCGCGTAGGAACCGTGTCATCACC-CAACTAGAT
*
669483 CTCCTCATCACGTAGGAG-CTGTGTCAACCC-AGATAACCAGCCG
128 ATCCTCATCACGTAGGAGTC-GTGTCAACCCTAGATAACCAGCCG
* *
669526 TCCTCATCACGTAGGAGCTGTGTCAACCCAGATAACCAGCCGTCCTCATCACGTAAGAACTGTGT
1 TCCTCATCACGTAGGAGCTGTGTCAACCCAGATAACCAGACGTCCTCATCACGTAAGAACCGTGT
* *
669591 TATCACCTATAGATGGCATGTCGTCCTTATTGCGTAGGAACCGTGTCATCACCCAACTAGATATC
66 TATCACCTATAGATGGCATGTCGTCCTCATCGCGTAGGAACCGTGTCATCACCCAACTAGATATC
* * * * *
669656 CTCATCGCGTAGGAGTCGTGTCACCCCTTTGATAGCCAGTCG
131 CTCATCACGTAGGAGTCGTGTCAACCC-TAGATAACCAGCCG
*
669698 TCCTCATCGCGTAGGA
1 TCCTCATCACGTAGGA
669714 ACCGAGTTAT
Statistics
Matches: 165, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
169 6 0.04
170 130 0.79
171 4 0.02
172 25 0.15
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (171 bp):
TCCTCATCACGTAGGAGCTGTGTCAACCCAGATAACCAGACGTCCTCATCACGTAAGAACCGTGT
TATCACCTATAGATGGCATGTCGTCCTCATCGCGTAGGAACCGTGTCATCACCCAACTAGATATC
CTCATCACGTAGGAGTCGTGTCAACCCTAGATAACCAGCCG
Found at i:669710 original size:84 final size:85
Alignment explanation
Indices: 669393--669726 Score: 263
Period size: 84 Copynumber: 3.9 Consensus size: 85
669383 TCATATAACC
* * * * *
669393 AGATGTCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGTCGTCCTCATCGCGTAG
1 AGATGTCCTCATCACGTAGGAGCTGTGTCATC-CCCTTAGATAGCCAGTCGTCCTCATCGCGTAG
* *
669458 GAACCGTGTCATCACCTGACCT
65 GAACCGTGTCATCACC-CAACT
* * * * *
669480 -GATCTCCTCATCACGTAGGAGCTGTGTCA-ACCC--AGATAACCAGCCGTCCTCATCACGTAGG
1 AGATGTCCTCATCACGTAGGAGCTGTGTCATCCCCTTAGATAGCCAGTCGTCCTCATCGCGTAGG
* * *
669541 AGCTGTGTCA--ACCCAGATAACC
66 AACCGTGTCATCACCC----AACT
** * * * * * * *
669563 AGCCGTCCTCATCACGTAAGAACTGTGTTATCACCTATAGAT-GGCATGTCGTCCTTATTGCGTA
1 AGATGTCCTCATCACGTAGGAGCTGTGTCATCCCCT-TAGATAGCCA-GTCGTCCTCATCGCGTA
669627 GGAACCGTGTCATCACCCAACT
64 GGAACCGTGTCATCACCCAACT
* * *
669649 AGATATCCTCATCGCGTAGGAG-TCGTGTCA-CCCCTTTGATAGCCAGTCGTCCTCATCGCGTAG
1 AGATGTCCTCATCACGTAGGAGCT-GTGTCATCCCCTTAGATAGCCAGTCGTCCTCATCGCGTAG
* *
669712 GAACCGAGTTATCAC
65 GAACCGTGTCATCAC
669727 ACTTCCTAAA
Statistics
Matches: 187, Mismatches: 46, Indels: 31
0.71 0.17 0.12
Matches are distributed among these distances:
80 3 0.02
82 31 0.17
83 2 0.01
84 59 0.32
85 10 0.05
86 49 0.26
87 2 0.01
88 27 0.14
90 4 0.02
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (85 bp):
AGATGTCCTCATCACGTAGGAGCTGTGTCATCCCCTTAGATAGCCAGTCGTCCTCATCGCGTAGG
AACCGTGTCATCACCCAACT
Found at i:680792 original size:21 final size:21
Alignment explanation
Indices: 680766--680817 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
680756 AGTAGTGAAA
680766 TGGGTAGTCCACGTGGGAGTG
1 TGGGTAGTCCACGTGGGAGTG
680787 TGGGTAGTCCACGTGGGAGTG
1 TGGGTAGTCCACGTGGGAGTG
680808 TGGGTAGTCC
1 TGGGTAGTCC
680818 CCGGCCCCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.13, C:0.15, G:0.46, T:0.25
Consensus pattern (21 bp):
TGGGTAGTCCACGTGGGAGTG
Found at i:682416 original size:10 final size:10
Alignment explanation
Indices: 682403--682477 Score: 62
Period size: 10 Copynumber: 6.7 Consensus size: 10
682393 ACACGCTGGG
682403 CATCCGAGGC
1 CATCCGAGGC
682413 CATCTGACCGAGGC
1 CATC---C-GAGGC
682427 CATCCGAGGC
1 CATCCGAGGC
682437 CATCTGACCGAGGC
1 CA--T--CCGAGGC
682451 CATCCGAGAG-
1 CATCCGAG-GC
682461 CATCCGAGGC
1 CATCCGAGGC
682471 CATCCGA
1 CATCCGA
682478 ACGAGCTATG
Statistics
Matches: 55, Mismatches: 0, Indels: 20
0.73 0.00 0.27
Matches are distributed among these distances:
9 1 0.02
10 31 0.56
11 2 0.04
12 2 0.04
13 1 0.02
14 18 0.33
ACGTcount: A:0.23, C:0.37, G:0.28, T:0.12
Consensus pattern (10 bp):
CATCCGAGGC
Found at i:682425 original size:14 final size:14
Alignment explanation
Indices: 682406--682454 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
682396 CGCTGGGCAT
682406 CCGAGGCCATCTGA
1 CCGAGGCCATCTGA
682420 CCGAGGCCA--T--
1 CCGAGGCCATCTGA
682430 CCGAGGCCATCTGA
1 CCGAGGCCATCTGA
682444 CCGAGGCCATC
1 CCGAGGCCATC
682455 CGAGAGCATC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 9 0.29
12 2 0.06
14 20 0.65
ACGTcount: A:0.20, C:0.39, G:0.29, T:0.12
Consensus pattern (14 bp):
CCGAGGCCATCTGA
Found at i:682464 original size:24 final size:24
Alignment explanation
Indices: 682403--682458 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
682393 ACACGCTGGG
682403 CATCCGAGGCCATCTGACCGAGGC
1 CATCCGAGGCCATCTGACCGAGGC
682427 CATCCGAGGCCATCTGACCGAGGC
1 CATCCGAGGCCATCTGACCGAGGC
682451 CATCCGAG
1 CATCCGAG
682459 AGCATCCGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.21, C:0.38, G:0.29, T:0.12
Consensus pattern (24 bp):
CATCCGAGGCCATCTGACCGAGGC
Found at i:682465 original size:34 final size:33
Alignment explanation
Indices: 682427--682502 Score: 98
Period size: 34 Copynumber: 2.3 Consensus size: 33
682417 TGACCGAGGC
* *
682427 CATCCGAGGCCATCTGACCGAGGCCATCCGAGAG
1 CATCCGAGGCCATCCGAACGA-GCCATCCGAGAG
* * *
682461 CATCCGAGGCCATCCGAACGAGCTATGCGAGGG
1 CATCCGAGGCCATCCGAACGAGCCATCCGAGAG
682494 CATCCGAGG
1 CATCCGAGG
682503 GAAACCGAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 18 0.49
34 19 0.51
ACGTcount: A:0.24, C:0.33, G:0.32, T:0.12
Consensus pattern (33 bp):
CATCCGAGGCCATCCGAACGAGCCATCCGAGAG
Found at i:682469 original size:20 final size:21
Alignment explanation
Indices: 682444--682501 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
682434 GGCCATCTGA
682444 CCGAGGCCATCCGAGAGC-AT
1 CCGAGGCCATCCGAGAGCTAT
682464 CCGAGGCCATCCGAACGAGCTAT
1 CCGAGGCCATCCG-A-GAGCTAT
* *
682487 GCGAGGGCATCCGAG
1 CCGAGGCCATCCGAG
682502 GGAAACCGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 13 0.39
21 2 0.06
22 5 0.15
23 13 0.39
ACGTcount: A:0.24, C:0.33, G:0.33, T:0.10
Consensus pattern (21 bp):
CCGAGGCCATCCGAGAGCTAT
Found at i:682502 original size:33 final size:33
Alignment explanation
Indices: 682421--682535 Score: 122
Period size: 33 Copynumber: 3.5 Consensus size: 33
682411 GCCATCTGAC
* * * * *
682421 CGAGGCCATCCGAGGCCATCTGACCGAGGCCATC
1 CGAGGGCATCCGAGGCCATCCGAACGA-GCTATG
*
682455 CGAGAGCATCCGAGGCCATCCGAACGAGCTATG
1 CGAGGGCATCCGAGGCCATCCGAACGAGCTATG
** * *
682488 CGAGGGCATCCGAGGGAAACCGAGCGAGCTATG
1 CGAGGGCATCCGAGGCCATCCGAACGAGCTATG
*
682521 CGAGGGAATCCGAGG
1 CGAGGGCATCCGAGG
682536 GAAGCCGAGC
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
33 46 0.67
34 23 0.33
ACGTcount: A:0.25, C:0.30, G:0.35, T:0.10
Consensus pattern (33 bp):
CGAGGGCATCCGAGGCCATCCGAACGAGCTATG
Found at i:682503 original size:10 final size:10
Alignment explanation
Indices: 682444--682536 Score: 51
Period size: 10 Copynumber: 8.7 Consensus size: 10
682434 GGCCATCTGA
*
682444 CCGAGGCCAT
1 CCGAGGGCAT
*
682454 CCGAGAGCAT
1 CCGAGGGCAT
*
682464 CCGAGGCCAT
1 CCGAGGGCAT
*
682474 CCGAACGAGCTAT
1 CCG-A-GGGC-AT
*
682487 GCGAGGGCAT
1 CCGAGGGCAT
* *
682497 CCGAGGGAAA
1 CCGAGGGCAT
682507 CCGAGCGAGCTAT
1 CCGAG-G-GC-AT
* *
682520 GCGAGGGAAT
1 CCGAGGGCAT
682530 CCGAGGG
1 CCGAGGG
682537 AAGCCGAGCG
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
10 41 0.67
11 6 0.10
12 5 0.08
13 9 0.15
ACGTcount: A:0.26, C:0.28, G:0.37, T:0.10
Consensus pattern (10 bp):
CCGAGGGCAT
Found at i:682536 original size:33 final size:33
Alignment explanation
Indices: 682474--682548 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
682464 CCGAGGCCAT
* *
682474 CCGAACGAGCTATGCGAGGGCATCCGAGGGAAA
1 CCGAGCGAGCTATGCGAGGGAATCCGAGGGAAA
*
682507 CCGAGCGAGCTATGCGAGGGAATCCGAGGGAAG
1 CCGAGCGAGCTATGCGAGGGAATCCGAGGGAAA
682540 CCGAGCGAG
1 CCGAGCGAG
682549 GGTAGGTCGC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.28, C:0.24, G:0.40, T:0.08
Consensus pattern (33 bp):
CCGAGCGAGCTATGCGAGGGAATCCGAGGGAAA
Found at i:682585 original size:29 final size:29
Alignment explanation
Indices: 682552--682607 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
682542 GAGCGAGGGT
*
682552 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
*
682581 AGGTCGGCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
682608 TGTGTTGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.20, C:0.29, G:0.39, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:682653 original size:12 final size:12
Alignment explanation
Indices: 682636--682660 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
682626 TGCCATGCAA
682636 CACGTTCATTCT
1 CACGTTCATTCT
682648 CACGTTCATTCT
1 CACGTTCATTCT
682660 C
1 C
682661 TCTGTTTGAG
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:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (12 bp):
CACGTTCATTCT
Found at i:682720 original size:29 final size:29
Alignment explanation
Indices: 682678--682733 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
682668 GAGCAAGGAT
682678 AGGTCGCCCGGAGTGCATGGCGACCTATA
1 AGGTCGCCCGGAGTGCATGGCGACCTATA
682707 AGGTCGCCCGGAGTGCATGGCGACCTA
1 AGGTCGCCCGGAGTGCATGGCGACCTA
682734 CGGCCAACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.20, C:0.29, G:0.36, T:0.16
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTATA
Found at i:689875 original size:21 final size:23
Alignment explanation
Indices: 689836--689888 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
689826 ACCCAATTTA
689836 TTATTTTAGAATATATTTT-TATC
1 TTATTTTAGAATATATTTTCT-TC
*
689859 TTATTTTAGTA-AT-TTTTCTTC
1 TTATTTTAGAATATATTTTCTTC
*
689880 TTCTTTTAG
1 TTATTTTAG
689889 GGCTGGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 14 0.52
22 3 0.11
23 10 0.37
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.64
Consensus pattern (23 bp):
TTATTTTAGAATATATTTTCTTC
Found at i:702004 original size:34 final size:36
Alignment explanation
Indices: 701954--702051 Score: 137
Period size: 37 Copynumber: 2.8 Consensus size: 36
701944 GTCATACTAA
* * *
701954 GATTTAAACTCTTAAAAATATGATAGAA-TTT-TAG
1 GATTCAAACTCCTAAAAATAGGATAGAATTTTCTAG
*
701988 GATTCAAACTCCTAAAAATAGGATAAAATTTTGCTAG
1 GATTCAAACTCCTAAAAATAGGATAGAATTTT-CTAG
702025 GATTCAAACTCCTAAAAATAGGATAGA
1 GATTCAAACTCCTAAAAATAGGATAGA
702052 GTTCTACTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
34 24 0.43
35 3 0.05
37 29 0.52
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (36 bp):
GATTCAAACTCCTAAAAATAGGATAGAATTTTCTAG
Found at i:702075 original size:37 final size:37
Alignment explanation
Indices: 701948--702085 Score: 129
Period size: 37 Copynumber: 3.8 Consensus size: 37
701938 TTTTTCGTCA
* * * * *
701948 TACTAAGATTTAAACTCTTAAAAATATGATAGAATT-
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
*
701984 T--TAGGATTCAAACTCCTAAAAATAGGATAAAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
* * *
702019 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTC
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
** * * *
702056 TACTATTATTTAAATTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
702086 CCACAAGCAC
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
34 28 0.33
35 1 0.01
36 1 0.01
37 55 0.65
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
Found at i:702460 original size:14 final size:14
Alignment explanation
Indices: 702443--702477 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
702433 ATTATATGGA
*
702443 TATTATTCATTTAT
1 TATTATTCATGTAT
702457 TATTATTCATGTAT
1 TATTATTCATGTAT
702471 TATTATT
1 TATTATT
702478 ATATGTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (14 bp):
TATTATTCATGTAT
Found at i:705398 original size:8 final size:8
Alignment explanation
Indices: 705385--705423 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
705375 GAACATTTCA
*
705385 TGCATTCT
1 TGCATTTT
705393 TGCA-TTT
1 TGCATTTT
705400 TGCATTTT
1 TGCATTTT
*
705408 TGCCTTTT
1 TGCATTTT
705416 TGCATTTT
1 TGCATTTT
705424 CATCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:706569 original size:7 final size:7
Alignment explanation
Indices: 706557--706616 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
706547 TAAAAAGGGC
706557 AAAAAGA
1 AAAAAGA
706564 AAAAAGA
1 AAAAAGA
*
706571 AACAAAAA
1 AA-AAAGA
*
706579 ACAAAAGG
1 A-AAAAGA
706587 AAAAA-A
1 AAAAAGA
* *
706593 AAGAA-C
1 AAAAAGA
706599 AAAAAGA
1 AAAAAGA
706606 AAAAAGA
1 AAAAAGA
706613 AAAA
1 AAAA
706617 GGGACAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
6 8 0.19
7 24 0.57
8 9 0.21
9 1 0.02
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:706577 original size:25 final size:25
Alignment explanation
Indices: 706555--706616 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
706545 AATAAAAAGG
*
706555 GCAAAAAGAAAAAAGA-AACAAAAA
1 GCAAAAAGAAAAAAAAGAACAAAAA
* *
706579 ACAAAAGGAAAAAAAAGAACAAAAA
1 GCAAAAAGAAAAAAAAGAACAAAAA
*
706604 GAAAAAAGAAAAA
1 GCAAAAAGAAAAA
706617 GGGACAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 13 0.42
25 18 0.58
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (25 bp):
GCAAAAAGAAAAAAAAGAACAAAAA
Found at i:707243 original size:22 final size:22
Alignment explanation
Indices: 707215--707258 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
707205 AGCTACCCCA
707215 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
707237 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
707259 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:708252 original size:36 final size:36
Alignment explanation
Indices: 708209--708490 Score: 303
Period size: 36 Copynumber: 8.0 Consensus size: 36
708199 ACTAGAAGAG
708209 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
708245 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
708281 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
708317 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * * *
708353 ------ATAT-TTGA-ATATGTTTTCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAA
*** * ** * *
708382 TTCCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
*
708419 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
708454 TTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
708491 ACCTTTGAAT
Statistics
Matches: 204, Mismatches: 30, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.09
30 2 0.01
35 6 0.03
36 142 0.70
37 33 0.16
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:708252 original size:71 final size:73
Alignment explanation
Indices: 708167--708490 Score: 223
Period size: 72 Copynumber: 4.6 Consensus size: 73
708157 GTTTTTCTTA
* * * * *
708167 AAACAAGA-TTTGTCTCGT-TTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACA
1 AAACAA-ATTTTGTCTC-TCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACA
708228 GTTTCCCTTG
64 GTTTCCCTTG
* *
708238 AAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
708302 TTCCCTTG
66 TTCCCTTG
* * * * *
708310 AAATAAATTTTGTCTCTCTTGAGACAG-TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACA-G
* *
708366 TTTTCTTTG
65 TTTCCCTTG
*** * ** * * * * *
708375 AAACAAATTCCATCTCCCTTGAGACAG-TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAAC-AAATTTCGTCTATCTTGAGACAG
*
708439 TTTCTCTTG
65 TTTCCCTTG
* * *
708448 AAAC-AATTTTCGTCTATCTTGAGACAG-TTTCCCTTGAAACAAA
1 AAACAAATTTT-GTCTCTCTTGAGACAGTTTTCACTAGAAACAAA
708491 ACCTTTGAAT
Statistics
Matches: 201, Mismatches: 37, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
64 2 0.01
65 44 0.22
66 5 0.02
70 9 0.04
71 24 0.12
72 77 0.38
73 38 0.19
74 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (73 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
TTCCCTTG
Found at i:708450 original size:102 final size:102
Alignment explanation
Indices: 708265--708453 Score: 281
Period size: 102 Copynumber: 1.9 Consensus size: 102
708255 CTTGAGACAG
* * *
708265 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
1 TTTCTCTTGAAACAAATTCCATCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
708330 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
66 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
* ** * *
708367 TTTCT-TTGAAACAAATTCCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTCCATCTACCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCT
*
708431 TGAGACAGTTTCTCTTGAAACAA
65 TGAGACAGTTTCCCTTGAAACAA
708454 TTTTCGTCTA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 32 0.42
102 45 0.58
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (102 bp):
TTTCTCTTGAAACAAATTCCATCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
Found at i:708482 original size:138 final size:137
Alignment explanation
Indices: 708229--708553 Score: 436
Period size: 138 Copynumber: 2.4 Consensus size: 137
708219 CTTGAGACAG
* *
708229 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
1 TTTCCCTTGAAACAAATTTTATCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
* *
708294 GAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTT
66 GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTT
*
708359 GAATATG
131 GAATATA
* * ** * * * * *
708366 TTTTCTTTGAAACAAATTCCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTATCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCT
* * *
708431 TGAGACAGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACCT
65 TGAGACAGTTTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAAACAT
*
708495 TTGAATTTA
129 TTGAATATA
* * *
708504 TTTCCCCTAAAACAAATTTTATCTCCCTTGAGACAGTTACTCTTGAAACA
1 TTTCCCTTGAAACAAATTTTATCTCCCTTGAGACAGTTTCTCTTGAAACA
708554 CAAAATCTTC
Statistics
Matches: 159, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
137 48 0.30
138 111 0.70
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (137 bp):
TTTCCCTTGAAACAAATTTTATCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTT
GAATATA
Found at i:708552 original size:65 final size:68
Alignment explanation
Indices: 708465--708602 Score: 183
Period size: 67 Copynumber: 2.1 Consensus size: 68
708455 TTTCGTCTAT
* **
708465 CTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAATTTATTTCCCCTAAAACA-AATTTTATC
1 CTTGAGACAGTTACCCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTATC
708527 TCC
66 TCC
* * * * *
708530 CTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTT
1 CTTGAGACAGTTACCCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTATC
708595 TCC
66 TCC
708598 CTTGA
1 CTTGA
708603 AACAACAGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
65 17 0.27
66 2 0.03
67 28 0.45
68 15 0.24
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (68 bp):
CTTGAGACAGTTACCCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTATC
TCC
Found at i:709373 original size:105 final size:105
Alignment explanation
Indices: 709211--709870 Score: 979
Period size: 105 Copynumber: 6.3 Consensus size: 105
709201 GCCATCCGCG
* * * * * *
709211 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
709276 GGGACGGCTGGTTGTCAACAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
709319 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
709384 ACCGTTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
*
709424 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
709489 ACCGCTGCTTGTCAACAACAACTTCTCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
709529 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGAAAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
709594 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
709634 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
709699 ACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * *
709734 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * * ** * *
709799 ACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAACCA
66 ACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* *
709840 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
709871 TGGAACAATG
Statistics
Matches: 512, Mismatches: 34, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
100 83 0.16
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 355 0.69
106 39 0.08
108 22 0.04
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
Found at i:710461 original size:34 final size:36
Alignment explanation
Indices: 710417--710518 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 36
710407 TTTCGTCCTA
710417 CTAGGATTCAAACTCCTAAAAATATGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATATGATAGAATTTT
* *
710452 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATATGATAGAATTTT
710487 GCTAGGATTCAAACTCCTAAAAATATGATAGA
1 -CTAGGATTCAAACTCCTAAAAATATGATAGA
710519 GTTCTACTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
34 29 0.48
35 3 0.05
37 28 0.47
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATATGATAGAATTTT
Found at i:710936 original size:17 final size:18
Alignment explanation
Indices: 710910--710949 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
710900 ATTATATGGA
710910 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
710926 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
710944 TATTAT
1 TATTAT
710950 ATGTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:715899 original size:20 final size:20
Alignment explanation
Indices: 715783--715900 Score: 148
Period size: 20 Copynumber: 5.9 Consensus size: 20
715773 GCGGTTTTCC
* *
715783 GACTATCGCAATGCGAATAT
1 GACTATCGCAATGCGATTCT
* *
715803 GTA-AATCGCAATGCGATTAT
1 G-ACTATCGCAATGCGATTCT
715823 GACTATCGCAATGCGATTCT
1 GACTATCGCAATGCGATTCT
* *
715843 GACTATCGCAACGAGATTCT
1 GACTATCGCAATGCGATTCT
* *
715863 GACTATCGCAACGCGATGCT
1 GACTATCGCAATGCGATTCT
715883 GACTATCGCAATGCGATT
1 GACTATCGCAATGCGATT
715901 TTCAAAGCGC
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
19 1 0.01
20 84 0.98
21 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (20 bp):
GACTATCGCAATGCGATTCT
Found at i:716100 original size:22 final size:22
Alignment explanation
Indices: 716075--716117 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
716065 GGTGACATCC
716075 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
716097 GTCCCCATCTCCGGCGAAATC
1 GTCCCCATCTCCGACGAAATC
716118 CATCTATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:716540 original size:20 final size:20
Alignment explanation
Indices: 716515--716567 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
716505 CGATTTTCAT
716515 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
**
716535 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCAAA
*
716555 TTCGTGTTGCGAT
1 TTCGCGTTGCGAT
716568 TTTTATTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:716575 original size:20 final size:20
Alignment explanation
Indices: 716552--716590 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
716542 TGCGATAGTC
716552 ATTTTCGTGTTGCGATTTTT
1 ATTTTCGTGTTGCGATTTTT
716572 ATTTTCGTGTTGCGATTTT
1 ATTTTCGTGTTGCGATTTT
716591 AAGTTTCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.10, G:0.21, T:0.59
Consensus pattern (20 bp):
ATTTTCGTGTTGCGATTTTT
Found at i:716597 original size:20 final size:20
Alignment explanation
Indices: 716554--716597 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
716544 CGATAGTCAT
* *
716554 TTTCGTGTTGCGATTTTTAT
1 TTTCGTGTTGCGATTTTAAG
716574 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
716594 TTTC
1 TTTC
716598 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.11, G:0.20, T:0.57
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:718343 original size:18 final size:18
Alignment explanation
Indices: 718315--718364 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
718305 TTTACTCGTA
*
718315 ATTTTACTTAGATTAACC
1 ATTTCACTTAGATTAACC
*
718333 GTTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
718351 ATTTCACTTAGATT
1 ATTTCACTTAGATT
718365 GCTTAGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:718624 original size:20 final size:20
Alignment explanation
Indices: 718582--718629 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
718572 GCGATTCTCT
718582 CGTTGCGATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTTG
* *
718602 CGTTGTGATAGTC-ATTTTCG
1 CGTTGCGATAGTCAAATTT-G
718622 CGTTGCGA
1 CGTTGCGA
718630 AAGTAAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTTG
Found at i:718859 original size:20 final size:21
Alignment explanation
Indices: 718813--718860 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
718803 AGAAGAATAG
718813 TTTACT-TTCGCAACGCAAAA
1 TTTACTATTCGCAACGCAAAA
* * *
718833 ATGACTATT-GCAACGCAAAT
1 TTTACTATTCGCAACGCAAAA
718853 TTTACTAT
1 TTTACTAT
718861 CACAATGAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.33
Consensus pattern (21 bp):
TTTACTATTCGCAACGCAAAA
Found at i:718922 original size:308 final size:305
Alignment explanation
Indices: 718361--718934 Score: 800
Period size: 308 Copynumber: 1.9 Consensus size: 305
718351 ATTTCACTTA
*
718361 GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAATTGTTTATTCTTTAACCCTGTG
1 GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
718426 AAGTTAGTATTTGTTTTTGGTTGTCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTG
66 AAGTTAGTATTTGTTTTTGGTTGTCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTG
* ** * *
718491 CAGAAGAAGAATAGTTTACTTTCGCAACGCGAATTTTACTATCGTAACGAAAGAATCACAATGCG
131 CAGAAGAAGAATAGTTTACTTTCGCAACGCAAAAATGACTATCGCAACGAAAGAATCACAATGCG
* ** * * * * **
718556 AAATAAAAATCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTTGCGTTGTGATAGTCATTTTC
196 AAATAAAAATCGCAATGCGATAATCACATTGCGATA-TC--ATCTGCGTTGCGATAGTCAAATTC
718621 GCGTTGCGAAAGTAAACTATTCTTCTTCTGCAAATTGAAACTTGAATG
258 GCGTTGCGAAAGTAAACTATTCTTCTTCTGCAAATTGAAACTTGAATG
718669 GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
1 GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
* *
718734 AAGTTAGTATTTGTTTTTTGTTGTCTTTTGGTTGAAGTAATGCAATCTATTCAAGTTTCAATTTG
66 AAGTTAGTATTTGTTTTTGGTTGTCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTG
* ** * *
718799 CAGAAGAAGAATAGTTTACTTTCGCAACGCAAAAATGACTATTGCAACGCAAA-TTTTACTAT-C
131 CAGAAGAAGAATAGTTTACTTTCGCAACGCAAAAATGACTATCGCAACG-AAAGAATCACAATGC
718862 -ACAATGAAAGAATCGCAATGCGAAATGAAAATCACATTGCGAT-TC-TCT-CGTTGCGATAGTC
195 GA-AAT-AAA-AATCGCAATGCG--AT---AATCACATTGCGATATCATCTGCGTTGCGATAGTC
718923 AAATTCGCGTTG
252 AAATTCGCGTTG
718935 TGATAGTCAT
Statistics
Matches: 235, Mismatches: 22, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
306 1 0.00
307 4 0.02
308 200 0.85
309 16 0.07
311 2 0.01
312 2 0.01
314 10 0.04
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (305 bp):
GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
AAGTTAGTATTTGTTTTTGGTTGTCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTG
CAGAAGAAGAATAGTTTACTTTCGCAACGCAAAAATGACTATCGCAACGAAAGAATCACAATGCG
AAATAAAAATCGCAATGCGATAATCACATTGCGATATCATCTGCGTTGCGATAGTCAAATTCGCG
TTGCGAAAGTAAACTATTCTTCTTCTGCAAATTGAAACTTGAATG
Found at i:718952 original size:18 final size:19
Alignment explanation
Indices: 718910--718956 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
718900 GCGATTCTCT
718910 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTC-AATTCG
*
718930 CGTTGTGATAGTC-ATTCG
1 CGTTGCGATAGTCAATTCG
*
718948 TGTTGCGAT
1 CGTTGCGAT
718957 TTTAAGTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.50
20 12 0.50
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (19 bp):
CGTTGCGATAGTCAATTCG
Found at i:720980 original size:14 final size:14
Alignment explanation
Indices: 720943--721004 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
720933 TTGCTTGTTT
*
720943 AATTGATTTATAAA
1 AATTGATTTGTAAA
720957 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
720971 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
720986 TATTGATATGTAAA
1 AATTGATTTGTAAA
721000 TAATT
1 -AATT
721005 CTTATTTGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:721154 original size:20 final size:20
Alignment explanation
Indices: 721118--721156 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
721108 ACGTTAAACT
**
721118 CAAAATCGCAATTCGAAAGA
1 CAAAATCGCAACGCGAAAGA
721138 CAAAATCGCAACGCGAAAG
1 CAAAATCGCAACGCGAAAG
721157 TCAATTCGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.23, G:0.18, T:0.10
Consensus pattern (20 bp):
CAAAATCGCAACGCGAAAGA
Found at i:721191 original size:20 final size:20
Alignment explanation
Indices: 721166--721295 Score: 119
Period size: 20 Copynumber: 6.8 Consensus size: 20
721156 GTCAATTCGT
* *
721166 GTTGCGATAGTCAAATACCC
1 GTTGCGATAGTCAAATTCAC
*
721186 GTTGCGATAATCAAATTCAC
1 GTTGCGATAGTCAAATTCAC
*
721206 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCAAATTCAC
* **
721226 GTTGCGATAGACAAATTTGC
1 GTTGCGATAGTCAAATTCAC
**
721246 GTTGCGAT--T----TTTGC
1 GTTGCGATAGTCAAATTCAC
*
721260 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCAAATTCAC
*
721280 GTTGCGATATTCAAAT
1 GTTGCGATAGTCAAAT
721296 GAATGAGCAA
Statistics
Matches: 94, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
14 13 0.14
16 1 0.01
20 80 0.85
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGTCAAATTCAC
Found at i:721260 original size:14 final size:14
Alignment explanation
Indices: 721241--721267 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
721231 GATAGACAAA
721241 TTTGCGTTGCGATT
1 TTTGCGTTGCGATT
721255 TTTGCGTTGCGAT
1 TTTGCGTTGCGAT
721268 AGTCAAATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (14 bp):
TTTGCGTTGCGATT
Found at i:721518 original size:140 final size:140
Alignment explanation
Indices: 721266--721535 Score: 513
Period size: 140 Copynumber: 1.9 Consensus size: 140
721256 TTGCGTTGCG
*
721266 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGAGCAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGAGCAATAAGTGATAACAACTGAACAGATCA
721331 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
721396 AATACACATA
131 AATACACATA
* *
721406 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGAGCAATAAGTGATAACAACTGAACAGATCA
721471 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
721536 TACAACGTTT
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 127 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGAGCAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:724811 original size:21 final size:21
Alignment explanation
Indices: 724765--724861 Score: 56
Period size: 21 Copynumber: 4.7 Consensus size: 21
724755 TGATAGTCAG
* * *
724765 AATCGCATTGC-AATTTACAT
1 AATCGCATTGCGAATTCAGAA
*
724785 ATTCGCATTGCGAATTCAGAA
1 AATCGCATTGCGAATTCAGAA
** * **
724806 AATCGCAACGTGAATTTGGAA
1 AATCGCATTGCGAATTCAGAA
* *
724827 AATCGCAATGCGATAGTCAG--
1 AATCGCATTGCGA-ATTCAGAA
*
724847 AATCGCGTTGCGAAT
1 AATCGCATTGCGAAT
724862 CTGGAAACTG
Statistics
Matches: 57, Mismatches: 18, Indels: 5
0.71 0.22 0.06
Matches are distributed among these distances:
19 1 0.02
20 21 0.37
21 32 0.56
22 3 0.05
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (21 bp):
AATCGCATTGCGAATTCAGAA
Found at i:730508 original size:40 final size:40
Alignment explanation
Indices: 730453--730573 Score: 242
Period size: 40 Copynumber: 3.0 Consensus size: 40
730443 GCATTAGGTA
730453 TATATACCTAAGGCCAAGAAACTAGAAAGAGATAATATGT
1 TATATACCTAAGGCCAAGAAACTAGAAAGAGATAATATGT
730493 TATATACCTAAGGCCAAGAAACTAGAAAGAGATAATATGT
1 TATATACCTAAGGCCAAGAAACTAGAAAGAGATAATATGT
730533 TATATACCTAAGGCCAAGAAACTAGAAAGAGATAATATGT
1 TATATACCTAAGGCCAAGAAACTAGAAAGAGATAATATGT
730573 T
1 T
730574 TTACAATGTA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.23
Consensus pattern (40 bp):
TATATACCTAAGGCCAAGAAACTAGAAAGAGATAATATGT
Found at i:736778 original size:13 final size:13
Alignment explanation
Indices: 736760--736792 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
736750 CATTCTTTGC
736760 TATAACATGCTAG
1 TATAACATGCTAG
736773 TATAACATGCTAG
1 TATAACATGCTAG
736786 TATAACA
1 TATAACA
736793 ATGGCAGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (13 bp):
TATAACATGCTAG
Found at i:739314 original size:20 final size:20
Alignment explanation
Indices: 739253--739621 Score: 433
Period size: 20 Copynumber: 18.4 Consensus size: 20
739243 GATTTTCCAT
* ** *
739253 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
739273 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
*
739293 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
739313 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
739333 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
739353 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
739373 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
739393 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
739413 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
739433 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
739453 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
739473 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
739493 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
739513 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
739533 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
739553 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
* *
739573 AATCGCAACG-ATAATCCATA
1 AATCGCAACGCGT-ATCCGTA
* * *
739593 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
739613 AATCACAAC
1 AATCGCAAC
739622 ACTTAAATTT
Statistics
Matches: 303, Mismatches: 36, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
19 4 0.01
20 295 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:740342 original size:24 final size:24
Alignment explanation
Indices: 740303--740349 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
740293 AAATTTGGTC
740303 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
740327 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
740350 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:740541 original size:12 final size:12
Alignment explanation
Indices: 740524--740548 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
740514 ATATAATCCT
740524 GAAGAAGAAAAA
1 GAAGAAGAAAAA
740536 GAAGAAGAAAAA
1 GAAGAAGAAAAA
740548 G
1 G
740549 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:742852 original size:19 final size:19
Alignment explanation
Indices: 742830--743084 Score: 316
Period size: 19 Copynumber: 14.4 Consensus size: 19
742820 CGGAAAATAC
*
742830 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
742849 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
742863 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
742883 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
742897 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
742916 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
742935 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
742949 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
742968 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
742987 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
743006 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
743025 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
743039 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
743058 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
743077 AATCGCAA
1 AATCGCAA
743085 CGAGATAATC
Statistics
Matches: 207, Mismatches: 8, Indels: 42
0.81 0.03 0.16
Matches are distributed among these distances:
14 38 0.18
15 1 0.00
16 14 0.07
17 12 0.06
18 2 0.01
19 127 0.61
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:742917 original size:33 final size:34
Alignment explanation
Indices: 742830--743084 Score: 240
Period size: 33 Copynumber: 7.2 Consensus size: 34
742820 CGGAAAATAC
* *
742830 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
742863 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
742897 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
* *
742935 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
742968 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
743006 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
743038 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
743077 AATCGCAA
1 AATCGCAA
743085 CGAGATAATC
Statistics
Matches: 195, Mismatches: 8, Indels: 33
0.83 0.03 0.14
Matches are distributed among these distances:
32 2 0.01
33 79 0.41
34 30 0.15
35 10 0.05
36 7 0.04
37 2 0.01
38 63 0.32
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:742945 original size:52 final size:55
Alignment explanation
Indices: 742858--743084 Score: 298
Period size: 52 Copynumber: 4.2 Consensus size: 55
742848 AAATCCCAAC
*
742858 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
742911 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGACA-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGA-ATGAAAATCGCAATGCGAA
*
742963 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
743020 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
743072 ATGAAAATCGCAA
1 ATGAAAATCGCAA
743085 CGAGATAATC
Statistics
Matches: 164, Mismatches: 2, Indels: 17
0.90 0.01 0.09
Matches are distributed among these distances:
52 109 0.66
53 16 0.10
54 6 0.04
55 7 0.04
57 26 0.16
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (55 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:742981 original size:71 final size:71
Alignment explanation
Indices: 742897--743122 Score: 311
Period size: 71 Copynumber: 3.2 Consensus size: 71
742887 GCAACGAGAG
*
742897 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
742962 AATTAA
66 AATTAA
742968 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAA
*
743033 --CG-AA--AG
61 TGCGAAATTAA
* *
743039 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
743104 AATTATA
66 AATTA-A
*
743111 AA-CGCATTGCGA
1 AATCGCAATGCGA
743123 TTTTCATTTC
Statistics
Matches: 138, Mismatches: 6, Indels: 22
0.83 0.04 0.13
Matches are distributed among these distances:
66 8 0.06
68 2 0.01
69 6 0.04
71 103 0.75
72 2 0.01
73 6 0.04
74 3 0.02
76 8 0.06
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATTAA
Found at i:743012 original size:90 final size:89
Alignment explanation
Indices: 742830--743106 Score: 387
Period size: 90 Copynumber: 3.2 Consensus size: 89
742820 CGGAAAATAC
* *
742830 AATCGCAACGCGAAATGAAAATCCCAACATGAA-AATCGCAATGCGGAAATGAAAATCGCAA--C
1 AATCGCAATGCGAAATGAAAATCGCAAC--GAAGAATCGCAATGC-GAAATGAAAATCGCAATGC
*
742892 G--A-GAGAATCGCAATGCGAAATGAA
63 GAAATGAAAATCGCAATGCGAAATGAA
*
742916 AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-AGAATCGCAATGCGAAATGAAAATCGCAATGCGA
742981 AATGAAAATCGCAATGCGAAATGAA
65 AATGAAAATCGCAATGCGAAATGAA
743006 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACG-AAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
*
743071 AATGAAAATCGCAA--CG--A-GAT
65 AATGAAAATCGCAATGCGAAATGAA
743091 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
743107 TATAAACGCA
Statistics
Matches: 177, Mismatches: 6, Indels: 17
0.88 0.03 0.09
Matches are distributed among these distances:
84 2 0.01
85 34 0.19
86 38 0.21
87 2 0.01
88 2 0.01
89 1 0.01
90 97 0.55
91 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (89 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAA
ATGAAAATCGCAATGCGAAATGAA
Found at i:743080 original size:142 final size:139
Alignment explanation
Indices: 742830--743122 Score: 466
Period size: 142 Copynumber: 2.1 Consensus size: 139
742820 CGGAAAATAC
* *
742830 AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAG
1 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAA
742895 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGC
66 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGC
742960 GAAATTA-A
131 GAAATTATA
*
742968 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
* *
743032 ACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGC
61 ACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGC
743097 AATGCGAAATTATA
126 AATGCGAAATTATA
*
743111 AA-CGCATTGCGA
1 AATCGCAATGCGA
743123 TTTTCATTTC
Statistics
Matches: 143, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
138 25 0.17
140 1 0.01
142 98 0.69
143 19 0.13
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.15
Consensus pattern (139 bp):
AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAA
AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGC
GAAATTATA
Found at i:743085 original size:52 final size:55
Alignment explanation
Indices: 742830--743106 Score: 290
Period size: 52 Copynumber: 5.3 Consensus size: 55
742820 CGGAAAATAC
* *
742830 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GC-GAAATG-A
*
742883 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
* *
742935 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
742987 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAAA-G-
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
*
743039 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAT--
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
743091 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
743107 TATAAACGCA
Statistics
Matches: 205, Mismatches: 6, Indels: 27
0.86 0.03 0.11
Matches are distributed among these distances:
48 9 0.04
49 1 0.00
50 1 0.00
51 2 0.01
52 129 0.63
53 24 0.12
54 7 0.03
55 6 0.03
57 26 0.13
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (55 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
Found at i:743222 original size:19 final size:19
Alignment explanation
Indices: 743113--743214 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
743103 AAATTATAAA
743113 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
743132 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
743152 CGCATTGCGA--TTC---T
1 CGCATTGCGATTTTCATTT
* *
743166 CTCTTTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
743185 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
743204 CGCATTGCGAT
1 CGCATTGCGAT
743215 AGTCATTTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
14 9 0.12
16 3 0.04
17 3 0.04
19 39 0.53
20 19 0.26
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.45
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:743340 original size:14 final size:14
Alignment explanation
Indices: 743321--743357 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
743311 CATCAATTAC
743321 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
743335 ACAAATCATCTTTT
1 ACAAATCAACTTTT
743349 ACAAATCAA
1 ACAAATCAA
743358 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:745283 original size:20 final size:19
Alignment explanation
Indices: 745258--745322 Score: 80
Period size: 18 Copynumber: 3.4 Consensus size: 19
745248 TAGTTTACTT
*
745258 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-TAAAA
*
745278 TCGCAACGCGAAAC-CAAA
1 TCGCAACGCGAAACTAAAA
745296 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACT-AAAA
745315 TCGCAACG
1 TCGCAACG
745323 ACAGAATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 16 0.40
19 11 0.28
20 13 0.32
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:745317 original size:19 final size:19
Alignment explanation
Indices: 745258--745391 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
745248 TAGTTTACTT
* *
745258 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
745278 TCGCAACGCGAAA-CCAAA
1 TCGCAACGCGAAATGAAAA
745296 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
745315 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
745329 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
745348 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
745362 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
745381 TCGCAATGCGA
1 TCGCAACGCGA
745392 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
18 16 0.17
19 29 0.31
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:745332 original size:14 final size:14
Alignment explanation
Indices: 745313--745369 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
745303 GCGAAATGAA
*
745313 AATCGCAACGACAG
1 AATCGCAACGAAAG
745327 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
745344 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
745360 AATCGCAACG
1 AATCGCAACG
745370 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:745340 original size:33 final size:33
Alignment explanation
Indices: 745258--745386 Score: 168
Period size: 33 Copynumber: 3.8 Consensus size: 33
745248 TAGTTTACTT
* * *
745258 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAA
1 TCGCAACGCGAAA-TGAAAATCGCAA--CGAAA--GAA
*
745296 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
*
745329 TCGCAATGCGAAATGAAAATCGCAACGAAAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
745362 TCGCAACGCGAAATGAAAATCGCAA
1 TCGCAACGCGAAATGAAAATCGCAA
745387 TGCGATTTTG
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
33 57 0.68
35 4 0.05
37 11 0.13
38 12 0.14
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (33 bp):
TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
Found at i:745409 original size:19 final size:19
Alignment explanation
Indices: 745387--745514 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
745377 AAAATCGCAA
745387 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
745406 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
745420 TGCGA-TTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
745438 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
745452 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
745471 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
745490 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
745510 TGCGA
1 TGCGA
745515 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.02
14 20 0.23
16 3 0.03
17 1 0.01
18 10 0.11
19 39 0.44
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:745472 original size:33 final size:34
Alignment explanation
Indices: 745387--745477 Score: 143
Period size: 32 Copynumber: 2.8 Consensus size: 34
745377 AAAATCGCAA
745387 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
745420 TGCGA-TTTGGTTTCGCGTTGCGATTC-TGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
**
745452 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
745478 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
32 29 0.54
33 25 0.46
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (34 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
Found at i:745849 original size:93 final size:93
Alignment explanation
Indices: 745558--746028 Score: 903
Period size: 93 Copynumber: 5.1 Consensus size: 93
745548 TTGAATGGAT
745558 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
745623 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
745651 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
745715 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
745743 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
745808 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
745836 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
745899 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
745927 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
745992 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
746020 AAATTTACT
1 AAATTTACT
746029 AAGCAATCTA
Statistics
Matches: 372, Mismatches: 3, Indels: 6
0.98 0.01 0.02
Matches are distributed among these distances:
91 75 0.20
92 122 0.33
93 175 0.47
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:745978 original size:184 final size:185
Alignment explanation
Indices: 745558--746028 Score: 917
Period size: 184 Copynumber: 2.6 Consensus size: 185
745548 TTGAATGGAT
745558 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
745623 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
745688 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
745743 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
745808 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
745872 TATATTTCACAGTGTTAAAGAATATACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
745927 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
745992 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
746029 AAGCAATCTA
Statistics
Matches: 284, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
184 168 0.59
185 116 0.41
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:747751 original size:14 final size:14
Alignment explanation
Indices: 747732--747821 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
747722 TTGAAATGAA
747732 AATCGCAACGAGAG
1 AATCGCAACGAGAG
747746 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
747763 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
747779 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
747798 AATCGCAACGAGAG
1 AATCGCAACGAGAG
747812 AATCGCAACG
1 AATCGCAACG
747822 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:747769 original size:33 final size:33
Alignment explanation
Indices: 747724--747838 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
747714 TCTTTTGGTT
747724 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
747757 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
747790 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
747823 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
747839 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:747770 original size:19 final size:18
Alignment explanation
Indices: 747731--747843 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
747721 GTTGAAATGA
747731 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
747746 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
747763 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
747779 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
747796 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
747812 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
747829 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
747844 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:747874 original size:14 final size:14
Alignment explanation
Indices: 747855--747909 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
747845 TTTGGTTTCG
747855 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
747869 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
747888 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
747902 CGTTGCGA
1 CGTTGCGA
747910 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:747887 original size:33 final size:33
Alignment explanation
Indices: 747839--747909 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
747829 AAAATCGCAA
**
747839 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
747872 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
747905 TGCGA
1 TGCGA
747910 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:747917 original size:33 final size:33
Alignment explanation
Indices: 747850--747931 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
747840 GCGATTTTGG
***
747850 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
747883 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
747916 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
747932 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:747936 original size:20 final size:20
Alignment explanation
Indices: 747862--747950 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
747852 TCGCGTTGCG
747862 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
747882 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
747895 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
747915 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
747935 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
747951 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:748072 original size:33 final size:33
Alignment explanation
Indices: 748030--748100 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
748020 AATACTAACT
*
748030 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
748063 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
748096 TGAAA
1 TGAAA
748101 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:748334 original size:22 final size:22
Alignment explanation
Indices: 748282--748336 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
748272 TGGTTGTGAG
**
748282 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
748304 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
748326 GGATTTCTTCG
1 GGATTTCTTCG
748337 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:748507 original size:20 final size:20
Alignment explanation
Indices: 748482--748674 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
748472 CTTTAAATAT
748482 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
748502 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
748524 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
748543 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
748563 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
748583 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
748603 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
748623 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
748643 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
748663 CGCGTTGCGATT
1 CGCGTTGCGATT
748675 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:748669 original size:60 final size:60
Alignment explanation
Indices: 748482--748674 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
748472 CTTTAAATAT
**
748482 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
748543 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
748603 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
748663 CGCGTTGCGATT
1 CGCGTTGCGATT
748675 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:748755 original size:20 final size:20
Alignment explanation
Indices: 748730--748781 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
748720 AAGAATCGCG
*
748730 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
748750 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
748770 TTGCGATTCTGG
1 TTGCGATTCTGG
748782 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:755569 original size:16 final size:16
Alignment explanation
Indices: 755545--755578 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
755535 TATCGCCGAT
*
755545 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
755561 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
755577 CG
1 CG
755579 TTAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Done.