Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 78 of 135
Found at i:30739507 original size:113 final size:112
Alignment explanation
Indices: 30739317--30739855 Score: 394
Period size: 113 Copynumber: 4.8 Consensus size: 112
30739307 TACCACAATA
* * * * * *
30739317 CGCCGCTAAATCTCTTAACCAAAACGCTGTGTTTTCGTCTTGATGTATCTTAAAAGTAGTGGCGT
1 CGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCTTGATGTATCTTAAAATTAGTGGCGT
* *
30739382 T-TACGCGAAACGCCGTTAAAGGACAGTAATAGCGGCGCTTTTTG-GAAA
65 TATA-G-GAAACGCCGTTAAAGGACAGTAATAGCGGCGCTTTGTGAGAAG
* * *
30739430 CGCCGCAAAATAGCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATCTTAGAATTAGTGGCGTT
1 CGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGATGTATCTTAAAATTAGTGGCG-T
* * ***
30739495 TATAGGAAAACGCCGTTAAAGTACAGTAATAGCGGTGCTTCACG-GAAG
65 TATAGG-AAACGCCGTTAAAGGACAGTAATAGCGGCGCTTTGTGAGAAG
* * * * ** * * *
30739543 CGCCGCAAACTATCTGAACCGAAACACATCGTTTTGGTCTTGATTTATAC-TACAACTAGTGGCG
1 CGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCTTGATGTAT-CTTAAAATTAGTGGCG
* * * * * * ***
30739607 -CATACGGTCAAACGCCGGTAAAGAATAGTATTAGCGGCGATTTGTGTCTAG
64 TTATA-GG--AAACGCCGTTAAAGGACAGTAATAGCGGCGCTTTGTGAGAAG
* * * * *
30739658 CGCCGCAAAATATCTTAACAAAAACGCAGCGTTGTGATCTTAATGTAT-ATAAAATTAGTGGCGC
1 CGCCGCAAAATATCTTAACCAAAACGCAGAGTT-TGGTCTTGATGTATCTTAAAATTAGTGGCG-
** * * *
30739722 TTAT-GGTAAACCGCCG-CGAACGATATTAATAGCGGCGCTTTGTGAGAAG
64 TTATAGG-AAA-CGCCGTTAAAGGACAGTAATAGCGGCGCTTTGTGAGAAG
* * * * * ** * *
30739771 CGCCGCAAAATATATTAACCAAAACGCATAATTTCGGCCTCGATGTATAGTAGAATTAGTGGCGC
1 CGCCGCAAAATATCTTAACCAAAACGCAGAGTTT-GGTCTTGATGTATCTTAAAATTAGTGGCGT
30739836 T-TAGTGAAACGCCGTTAAAG
65 TATAG-GAAACGCCGTTAAAG
30739856 CATAGTATTG
Statistics
Matches: 331, Mismatches: 77, Indels: 36
0.75 0.17 0.08
Matches are distributed among these distances:
112 39 0.12
113 160 0.48
114 91 0.27
115 39 0.12
116 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (112 bp):
CGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGATGTATCTTAAAATTAGTGGCGTT
ATAGGAAACGCCGTTAAAGGACAGTAATAGCGGCGCTTTGTGAGAAG
Found at i:30739899 original size:340 final size:340
Alignment explanation
Indices: 30739408--30740064 Score: 799
Period size: 340 Copynumber: 1.9 Consensus size: 340
30739398 TAAAGGACAG
* * * * *
30739408 TAATAGCGGCGCTTTTTGGAAACGCCGCAAAATAGCTTAACCAAAACGCAGAGTTTGGTCTTGAG
1 TAATAGCGGCGCTTTGTGGAAACGCCGCAAAATAGATTAACCAAAACGCAGAATTTGGCCTCGAG
** * *
30739473 GTATCTTAGAATTAGTGGCGTTTATAGGAAAACGCCGTTAAAGTACAGTAATAGCGGTGCTTCAC
66 GTATAGTAGAATTAGTGGCGCTTATA-GAAAACGCCGTTAAAGCACAGTAATAGCGGTGCTTCAC
** * * * * *
30739538 GGAAGCGCCGCAAACTATCTGAACCGAAACACATCGTTTTGGTCTTGATTTATACTACAACTAGT
130 AAAAGCGCCCCAAACTATCTGAACCAAAACACATCCTTTTGGTATTGATGTATACTACAACTAGT
* *
30739603 GGCGCA-TACGGTCAAACGCCGGTAAAGAATAGTATTAGCGGCGATTTG-TGTCTAGCGCCGCAA
195 GGCG-ATTACGGTAAAACGCCGCTAAAGAATAGTATTAGCGGCGATTTGTTG-CTAGCGCCGCAA
* * *
30739666 AATATC-TTAACAAAAACGCAGCGTTGTGATCTTAATGTATA-TAAAATTAGTGGCGCTTATGGT
258 AATACCATAAAC-AAAACGCAACGTTGTGATCTTAATGTATACTAAAATTAGTGGCGCTTATGGT
30739729 AAACCGCCGCGAACGATAT
322 AAACCGCCGCGAACGATAT
* * *
30739748 TAATAGCGGCGCTTTGTGAGAAGCGCCGCAAAATATATTAACCAAAACGCATAATTTCGGCCTCG
1 TAATAGCGGCGCTTTGTG-GAAACGCCGCAAAATAGATTAACCAAAACGCAGAATTT-GGCCTCG
* * *
30739813 ATGTATAGTAGAATTAGTGGCGCTTAGT-G-AAACGCCGTTAAAGCATAGT-ATTGCGGTGCTTG
64 AGGTATAGTAGAATTAGTGGCGCTTA-TAGAAAACGCCGTTAAAGCACAGTAATAGCGGTGCTT-
* * ** ** **
30739875 GATAAAAGCGCCACCAAA-TATCTGAACCAAAATGCATCCTTTTGGTATTGATGTATACTTGATT
127 CACAAAAGCGCC-CCAAACTATCTGAACCAAAACACATCCTTTTGGTATTGATGTATACTACAAC
* *
30739939 TAGTGGCGATTTCGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTTGTTGCTAGCGCCGC
191 TAGTGGCGATTACGGTAAAACGCCGCTAAAGAATAGTATTAGCGGCGATTTGTTGCTAGCGCCGC
* * * * *
30740004 GACATACCATAAACAAAACGCAACGTTTTGGTCTTAATTTATACTAAAATTAGTGGCGCTT
256 AAAATACCATAAACAAAACGCAACGTTGTGATCTTAATGTATACTAAAATTAGTGGCGCTT
30740065 TGTTGAAAGC
Statistics
Matches: 266, Mismatches: 42, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
339 12 0.05
340 165 0.62
341 61 0.23
342 27 0.10
343 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (340 bp):
TAATAGCGGCGCTTTGTGGAAACGCCGCAAAATAGATTAACCAAAACGCAGAATTTGGCCTCGAG
GTATAGTAGAATTAGTGGCGCTTATAGAAAACGCCGTTAAAGCACAGTAATAGCGGTGCTTCACA
AAAGCGCCCCAAACTATCTGAACCAAAACACATCCTTTTGGTATTGATGTATACTACAACTAGTG
GCGATTACGGTAAAACGCCGCTAAAGAATAGTATTAGCGGCGATTTGTTGCTAGCGCCGCAAAAT
ACCATAAACAAAACGCAACGTTGTGATCTTAATGTATACTAAAATTAGTGGCGCTTATGGTAAAC
CGCCGCGAACGATAT
Found at i:30739905 original size:112 final size:115
Alignment explanation
Indices: 30739768--30739983 Score: 249
Period size: 112 Copynumber: 1.9 Consensus size: 115
30739758 GCTTTGTGAG
* * * *
30739768 AAGCGCCGCAAAATATATTAACCAAAACGCATAATTTCGGCCTCGATGTATAGTAGAATTAGTGG
1 AAGCGCCACAAAATATATGAACCAAAACGCATAATTTCGGCATCGATGTATACTAGAATTAGTGG
* *
30739833 CG-CTT-AGTGAAACGCCGTTAAAGCATAGTATT-GCGGTGCTTGGATAA
66 CGACTTCAGTAAAACGCCGCTAAAGCATAGTATTAGCGGTGCTTGGATAA
* * * ** * * * * *
30739880 AAGCGCCACCAAATATCTGAACCAAAATGCATCCTTTTGGTATTGATGTATACTTGATTTAGTGG
1 AAGCGCCACAAAATATATGAACCAAAACGCATAATTTCGGCATCGATGTATACTAGAATTAGTGG
* *
30739945 CGATTTCGGTAAAACGCCGCTAAAGCATAGTATTAGCGG
66 CGACTTCAGTAAAACGCCGCTAAAGCATAGTATTAGCGG
30739984 CGATTTGTTG
Statistics
Matches: 83, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
112 53 0.64
113 2 0.02
114 24 0.29
115 4 0.05
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (115 bp):
AAGCGCCACAAAATATATGAACCAAAACGCATAATTTCGGCATCGATGTATACTAGAATTAGTGG
CGACTTCAGTAAAACGCCGCTAAAGCATAGTATTAGCGGTGCTTGGATAA
Found at i:30740309 original size:90 final size:90
Alignment explanation
Indices: 30740158--30746089 Score: 11839
Period size: 90 Copynumber: 65.9 Consensus size: 90
30740148 AATCATATTT
*
30740158 GGTTTA-GGTATAGGGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAA
1 GGTTTAGGGT-TAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAA
30740222 GTTTAAAGTTTAGGGTTTACGATGTA
65 GTTTAAAGTTTAGGGTTTACGATGTA
30740248 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30740313 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30740338 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30740403 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30740428 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30740493 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30740518 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30740583 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30740608 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30740673 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30740698 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30740763 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30740788 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30740853 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30740878 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30740943 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30740968 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30741033 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30741058 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30741123 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30741148 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30741213 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30741238 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30741303 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30741328 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30741393 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30741418 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30741483 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30741508 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30741573 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30741598 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30741663 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30741688 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30741753 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30741778 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30741843 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30741868 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30741933 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30741958 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30742023 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30742048 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30742113 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30742138 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30742203 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30742228 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30742293 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30742318 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30742383 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30742408 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30742473 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30742498 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30742563 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30742588 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30742653 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30742678 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30742743 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30742768 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30742833 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30742858 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30742923 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30742948 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30743013 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30743038 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30743103 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30743128 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30743193 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30743218 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30743283 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30743308 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30743373 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30743398 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30743463 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30743488 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30743553 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30743578 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30743643 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30743668 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30743733 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30743758 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30743823 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30743848 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30743913 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30743938 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30744003 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30744028 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30744093 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30744118 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30744183 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30744208 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30744273 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30744298 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30744363 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30744388 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30744453 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30744478 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30744543 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30744568 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30744633 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30744658 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30744723 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30744748 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30744813 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30744838 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30744903 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30744928 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30744993 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30745018 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30745083 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30745108 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30745173 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30745198 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30745263 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30745288 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30745353 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30745378 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30745443 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30745468 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30745533 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30745558 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30745623 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30745648 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30745713 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30745738 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30745803 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30745828 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30745893 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30745918 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30745983 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
30746008 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
30746073 TTTAAAGTTTAGGGTTT
66 TTTAAAGTTTAGGGTTT
30746090 GCACAGTCGA
Statistics
Matches: 5840, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
90 5837 1.00
91 3 0.00
ACGTcount: A:0.28, C:0.03, G:0.26, T:0.43
Consensus pattern (90 bp):
GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
TTTAAAGTTTAGGGTTTACGATGTA
Found at i:30747241 original size:42 final size:42
Alignment explanation
Indices: 30747032--30747259 Score: 269
Period size: 42 Copynumber: 5.4 Consensus size: 42
30747022 TTACTTTTAA
* * * * *
30747032 TAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGCTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCG-TTTTTTTC
* * *
30747075 AAAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* * *
30747117 AAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTCTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
30747159 TAAGTGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
30747201 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTATG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGC-GTTTTTT-TC
*
30747245 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
30747260 TTAGTGACGT
Statistics
Matches: 162, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
42 113 0.70
43 33 0.20
44 16 0.10
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:30750313 original size:24 final size:24
Alignment explanation
Indices: 30750281--30750408 Score: 238
Period size: 24 Copynumber: 5.3 Consensus size: 24
30750271 CAGAGAACAG
30750281 GAAGGTGGCAAGAGTACGACACAA
1 GAAGGTGGCAAGAGTACGACACAA
30750305 GAAGGTGGCAAGAGTACGACACAA
1 GAAGGTGGCAAGAGTACGACACAA
30750329 GAAGGTGGCAAGAGTACGACACAA
1 GAAGGTGGCAAGAGTACGACACAA
*
30750353 GAAGGTGGCAAGAGTAAGACACAA
1 GAAGGTGGCAAGAGTACGACACAA
*
30750377 GAAGGTGGCAAGAGTAGGACACAA
1 GAAGGTGGCAAGAGTACGACACAA
30750401 GAAGGTGG
1 GAAGGTGG
30750409 AAACAAGACT
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 102 1.00
ACGTcount: A:0.41, C:0.14, G:0.36, T:0.09
Consensus pattern (24 bp):
GAAGGTGGCAAGAGTACGACACAA
Found at i:30758725 original size:102 final size:101
Alignment explanation
Indices: 30758599--30758783 Score: 255
Period size: 101 Copynumber: 1.8 Consensus size: 101
30758589 ACCCGGTTCA
* * *
30758599 CATAGTAGACTGCACATAGTACTACAGATGTGACCATTTTCA-TCCAACACACGTAGTAGCCCGC
1 CATAGTAGACTGCACATAGTACTACACATGTGACC--TATCATTCCAACACACGTAGTAACCCGC
*
30758663 ACATATTACTACACACGTGATCGAAGCTATCTGGTACG
64 ACATAGTACTACACACGTGATCGAAGCTATCTGGTACG
* * *** *
30758701 CATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTTCGGTACACGTAGTAACCTGCAC
1 CATAGTAGACTGCACATAGTACTACACATGTGACCTATCATTCCAACACACGTAGTAACCCGCAC
30758766 ATAGTACTACACACGTGA
66 ATAGTACTACACACGTGA
30758784 CCTAGCAACT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
100 4 0.06
101 35 0.49
102 33 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGACTGCACATAGTACTACACATGTGACCTATCATTCCAACACACGTAGTAACCCGCAC
ATAGTACTACACACGTGATCGAAGCTATCTGGTACG
Found at i:30777430 original size:16 final size:17
Alignment explanation
Indices: 30777390--30777424 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
30777380 CAAAATCAAA
*
30777390 TTAAAATTTATTTTTAT
1 TTAATATTTATTTTTAT
30777407 TTAATATTT-TTTTTAT
1 TTAATATTTATTTTTAT
30777423 TT
1 TT
30777425 TTTATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTAATATTTATTTTTAT
Found at i:30778106 original size:20 final size:20
Alignment explanation
Indices: 30778066--30778105 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
30778056 TTATGTATTA
30778066 TGTTCTTTTGAAATTCATTT
1 TGTTCTTTTGAAATTCATTT
30778086 TGTTACTTTT-AAATTC-TTT
1 TGTT-CTTTTGAAATTCATTT
30778105 T
1 T
30778106 TCAATGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 10 0.53
21 5 0.26
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.62
Consensus pattern (20 bp):
TGTTCTTTTGAAATTCATTT
Found at i:30778683 original size:30 final size:31
Alignment explanation
Indices: 30778638--30778699 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
30778628 TCAAATTTAT
*
30778638 GAATAGTCCCAGTACTTCACT-CAAGTTGTG
1 GAATAATCCCAGTACTTCACTCCAAGTTGTG
* **
30778668 GAATAATCCCTGTACTTTGCTCCAAGTTGTG
1 GAATAATCCCAGTACTTCACTCCAAGTTGTG
30778699 G
1 G
30778700 CACTACCCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (31 bp):
GAATAATCCCAGTACTTCACTCCAAGTTGTG
Found at i:30784701 original size:18 final size:19
Alignment explanation
Indices: 30784678--30784721 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
30784668 GTAGTAGTAA
30784678 TAATAATAA-TAATAAAAG
1 TAATAATAAGTAATAAAAG
30784696 TAATAA-AAGTAATAAAAG
1 TAATAATAAGTAATAAAAG
30784714 TAATAATA
1 TAATAATA
30784722 CTATAGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.08
18 21 0.88
19 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (19 bp):
TAATAATAAGTAATAAAAG
Found at i:30790088 original size:22 final size:22
Alignment explanation
Indices: 30790060--30790130 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
30790050 TAATTTCTCC
*
30790060 TTTCTTTCTTTCTCTTTTTCTT
1 TTTCTTTCTTTCTCTCTTTCTT
30790082 TTTCTTTCTTTC-C-CTTTCTGT
1 TTTCTTTCTTTCTCTCTTTCT-T
* * *
30790103 TTTCGTTTCTATCTCTGTTTATT
1 TTTC-TTTCTTTCTCTCTTTCTT
30790126 TTTCT
1 TTTCT
30790131 ATTTCTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 5 0.12
21 6 0.15
22 20 0.49
23 6 0.15
24 4 0.10
ACGTcount: A:0.03, C:0.23, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTCTTTCTTTCTCTCTTTCTT
Found at i:30790129 original size:18 final size:17
Alignment explanation
Indices: 30790108--30790141 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30790098 TCTGTTTTCG
30790108 TTTCTATCTCTGTTTATT
1 TTTCTATCTCT-TTTATT
*
30790126 TTTCTATTTCTTTTAT
1 TTTCTATCTCTTTTAT
30790142 CTATTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.12, C:0.15, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTCTATCTCTTTTATT
Found at i:30792565 original size:25 final size:25
Alignment explanation
Indices: 30792537--30792599 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
30792527 GAATTGGTAT
*
30792537 GCTCTCACGAGCTGTGAATCAATAA
1 GCTCTCACGAGCTGAGAATCAATAA
*
30792562 GCTCAT-ACGAGCTGAGAATCAGTAA
1 GCTC-TCACGAGCTGAGAATCAATAA
* *
30792587 GTTATCACGAGCT
1 GCTCTCACGAGCT
30792600 ACAAATTGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (25 bp):
GCTCTCACGAGCTGAGAATCAATAA
Found at i:30792816 original size:22 final size:23
Alignment explanation
Indices: 30792774--30792817 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
30792764 TATACAAAAC
* *
30792774 ACATATATATAATTCAATTTAAA
1 ACATATAAATAATACAATTTAAA
30792797 ACATATAAAT-ATACAATTTAA
1 ACATATAAATAATACAATTTAA
30792818 TTACACGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (23 bp):
ACATATAAATAATACAATTTAAA
Found at i:30805891 original size:139 final size:139
Alignment explanation
Indices: 30805720--30806014 Score: 549
Period size: 139 Copynumber: 2.1 Consensus size: 139
30805710 TCATTTATTG
30805720 TTCTATTAGTATATATTAATAAAATTATCTTGGTTTGTATTTTTTTCATTTATAATATGATTATT
1 TTCTATTAGT-TATATTAATAAAATTATCTTGGTTTGTATTTTTTTCATTTATAATATGATTATT
30805785 AATATTTATATTTGACTATTTTATATTTAAACAATATATGTATGTGTATGTATGTATTTATTGCT
65 AATATTTATATTTGACTATTTTATATTTAAACAATATATGTATGTGTATGTATGTATTTATTGCT
30805850 TGTTTGTTTA
130 TGTTTGTTTA
30805860 TTCTATTAGTTATATTAATAAAATTATCTTGGTTTGTATTTTTTTCATTTATAATATGATTATTA
1 TTCTATTAGTTATATTAATAAAATTATCTTGGTTTGTATTTTTTTCATTTATAATATGATTATTA
30805925 ATATTTATATTTGACTATTTTATATTTAAACAATATATGTATGTGTATGTATGTATTTATTGCTT
66 ATATTTATATTTGACTATTTTATATTTAAACAATATATGTATGTGTATGTATGTATTTATTGCTT
30805990 GTTTGTTTA
131 GTTTGTTTA
*
30805999 --CTATTTATTTATATTA
1 TTCTA-TTAGTTATATTA
30806015 TTCGTGAACA
Statistics
Matches: 153, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
137 3 0.02
138 11 0.07
139 129 0.84
140 10 0.07
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.56
Consensus pattern (139 bp):
TTCTATTAGTTATATTAATAAAATTATCTTGGTTTGTATTTTTTTCATTTATAATATGATTATTA
ATATTTATATTTGACTATTTTATATTTAAACAATATATGTATGTGTATGTATGTATTTATTGCTT
GTTTGTTTA
Found at i:30823737 original size:26 final size:27
Alignment explanation
Indices: 30823686--30823739 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
30823676 ACAGAATAGC
* *
30823686 AAAACGAAAACAGGGGAGAAAGGAAAG
1 AAAAAGAAAACAGGGAAGAAAGGAAAG
30823713 AAAAAGAAAA-AGGGAAGGAAA-GAAAG
1 AAAAAGAAAACAGGGAA-GAAAGGAAAG
30823739 A
1 A
30823740 GAATTTGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.65, C:0.04, G:0.31, T:0.00
Consensus pattern (27 bp):
AAAAAGAAAACAGGGAAGAAAGGAAAG
Found at i:30824522 original size:17 final size:17
Alignment explanation
Indices: 30824487--30824538 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
30824477 TGTGTGTGTG
*
30824487 TGTGTAAATGTGA-AAT
1 TGTGTAAATATGATAAT
*
30824503 TGTGCAAATATGATAAT
1 TGTGTAAATATGATAAT
30824520 TGTGTAAATATGATAAT
1 TGTGTAAATATGATAAT
30824537 TG
1 TG
30824539 GATTATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 11 0.34
17 21 0.66
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (17 bp):
TGTGTAAATATGATAAT
Found at i:30835279 original size:33 final size:32
Alignment explanation
Indices: 30835234--30835394 Score: 117
Period size: 33 Copynumber: 4.8 Consensus size: 32
30835224 ACATTCAAGG
* *
30835234 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAGAA
* *
30835267 TGCCATAGCCCAGCTATGGTCTTACATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTACAT-CAGA-A
* * * * * * * *
30835301 CTGTCATGGTCCAACCATGGTCTTACGCTCATAG
1 -TGCCATAGCCCAGCTATGGTCTTAC-ATCAGAA
* *
30835335 TGCCATAACCCAGTTAAT-GTCTTATCATCAGAA
1 TGCCATAGCCCAGCT-ATGGTCTTA-CATCAGAA
*
30835368 TGCCATAGCCCAACTATGGTCTTACAT
1 TGCCATAGCCCAGCTATGGTCTTACAT
30835395 ATATATACTG
Statistics
Matches: 95, Mismatches: 26, Indels: 15
0.70 0.19 0.11
Matches are distributed among these distances:
32 8 0.08
33 60 0.63
34 4 0.04
35 22 0.23
36 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (32 bp):
TGCCATAGCCCAGCTATGGTCTTACATCAGAA
Found at i:30835366 original size:101 final size:101
Alignment explanation
Indices: 30835029--30835628 Score: 756
Period size: 101 Copynumber: 5.9 Consensus size: 101
30835019 TACATTCGTA
** * * * *
30835029 GTGCCATAAATCAGTTATGGTCTTATCATCAGAATGTCATAGCCTAGCTATGGTTTTACATATAA
1 GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAA
*
30835094 ACACTGCCATGGTCCAAACATGGTCTTACGTTCATA-
66 ACACTGCCATGGTCCAACCATGGTCTTACGTTCA-AG
* *
30835130 GTGTCATAACCCAGTTATGGTCTTATCATCAGAATGTCATAGCCCAACTATGGTCTTACATATAT
1 GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATA-
* * * * ** *
30835195 ATATACTGCCACGATCTAACCATGACCTTACATTCAAG
65 A-ACACTGCCATGGTCCAACCATGGTCTTACGTTCAAG
*
30835233 GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAA
1 GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAA
* *
30835298 ACACTGTCATGGTCCAACCATGGTCTTACGCTCATA-
66 ACACTGCCATGGTCCAACCATGGTCTTACGTTCA-AG
30835334 GTGCCATAACCCAGTTAAT-GTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATA
1 GTGCCATAACCCAGTT-ATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATA
* * * * * ** *
30835398 TATACTGCCACGATCTAACCATGACCTTACATTCAAG
65 AACACTGCCATGGTCCAACCATGGTCTTACGTTCAAG
* ** *
30835435 GTGCCATAACCCAGTTATGGTCTTATCATTAGAATGCCATAGCCCAGGTATGGTCTTACATATAT
1 GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAA
* * **
30835500 ATATTGTTATGGTCCAACCATGGTCTTACGTTCAAG
66 ACACTGCCATGGTCCAACCATGGTCTTACGTTCAAG
* * * * * *
30835536 GTGCCATAATCCAGTTATGATCTTTTCATTAAAATGCCATAGCCCAACTATGGTCTTACATTTAA
1 GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAA
*
30835601 ACATTGCCATGGTCCAACCATGGTCTTA
66 ACACTGCCATGGTCCAACCATGGTCTTA
30835629 TCCATCAAAT
Statistics
Matches: 432, Mismatches: 60, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
100 3 0.01
101 336 0.78
102 6 0.01
103 87 0.20
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (101 bp):
GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAA
ACACTGCCATGGTCCAACCATGGTCTTACGTTCAAG
Found at i:30835368 original size:204 final size:203
Alignment explanation
Indices: 30835029--30835596 Score: 899
Period size: 202 Copynumber: 2.8 Consensus size: 203
30835019 TACATTCGTA
** * * *
30835029 GTGCCATAAATCAGTTATGGTCTTATCATCAGAATGTCATAGCCTAGCTATGGTTTTACATATAA
1 GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAA
* * *
30835094 ACACTGCCATGGTCCAAACATGGTCTTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATCAT
66 ACACTGTCATGGTCCAACCATGGTCTTACGTTCATAGTGCCATAACCCAGTTAT-GTCTTATCAT
*
30835159 CAGAATGTCATAGCCCAACTATGGTCTTACATATATATATACTGCCACGATCTAACCATGACCTT
130 CAGAATGCCATAGCCCAACTATGGTCTTACATATATATATACTGCCACGATCTAACCATGACCTT
30835224 ACATTCAAG
195 ACATTCAAG
30835233 GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAA
1 GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAA
*
30835298 ACACTGTCATGGTCCAACCATGGTCTTACGCTCATAGTGCCATAACCCAGTTAATGTCTTATCAT
66 ACACTGTCATGGTCCAACCATGGTCTTACGTTCATAGTGCCATAACCCAGTT-ATGTCTTATCAT
30835363 CAGAATGCCATAGCCCAACTATGGTCTTAC--ATATATATACTGCCACGATCTAACCATGACCTT
130 CAGAATGCCATAGCCCAACTATGGTCTTACATATATATATACTGCCACGATCTAACCATGACCTT
30835426 ACATTCAAG
195 ACATTCAAG
* * *
30835435 GTGCCATAACCCAGTTATGGTCTTATCATTAGAATGCCATAGCCCAGGTATGGTCTTACATATAT
1 GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAA
* * * * *
30835500 ATATTGTTATGGTCCAACCATGGTCTTACGTTCA-AGGTGCCATAATCCAGTTATGATCTTTTCA
66 ACACTGTCATGGTCCAACCATGGTCTTACGTTCATA-GTGCCATAACCCAGTTATG-TCTTATCA
* *
30835564 TTAAAATGCCATAGCCCAACTATGGTCTTACAT
129 TCAGAATGCCATAGCCCAACTATGGTCTTACAT
30835597 TTAAACATTG
Statistics
Matches: 338, Mismatches: 21, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
201 4 0.01
202 185 0.55
204 147 0.43
205 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (203 bp):
GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAA
ACACTGTCATGGTCCAACCATGGTCTTACGTTCATAGTGCCATAACCCAGTTATGTCTTATCATC
AGAATGCCATAGCCCAACTATGGTCTTACATATATATATACTGCCACGATCTAACCATGACCTTA
CATTCAAG
Found at i:30836583 original size:16 final size:17
Alignment explanation
Indices: 30836559--30836591 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
30836549 TATGCGGCCT
*
30836559 CATATTTTC-ATTTAGG
1 CATAATTTCTATTTAGG
30836575 CATAATTTCTATTTAGG
1 CATAATTTCTATTTAGG
30836592 TCCTTCTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (17 bp):
CATAATTTCTATTTAGG
Found at i:30837060 original size:21 final size:21
Alignment explanation
Indices: 30837019--30837060 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
30837009 TAGTATGAAT
**
30837019 AATAAAATAAGACAATTAATA
1 AATAAAATAAGACAAAAAATA
30837040 AATAAAATAAAGA-AAAAAATA
1 AATAAAAT-AAGACAAAAAATA
30837061 TGAGAAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (21 bp):
AATAAAATAAGACAAAAAATA
Found at i:30840191 original size:42 final size:42
Alignment explanation
Indices: 30840145--30840229 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
30840135 GCACAATTAT
* * * *
30840145 TTAAGCTTGCATGTGGAGCTTTACTGATACACAACTTGTCAC
1 TTAAGCTCGCATGGGGAGCTTCACTGATACACAACTTGCCAC
** * *
30840187 TTAAGCTCGTGTGGGGAGCTTCGCTGATACACAGCTTGCCAC
1 TTAAGCTCGCATGGGGAGCTTCACTGATACACAACTTGCCAC
30840229 T
1 T
30840230 GAAAATAGAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (42 bp):
TTAAGCTCGCATGGGGAGCTTCACTGATACACAACTTGCCAC
Found at i:30853313 original size:18 final size:17
Alignment explanation
Indices: 30853273--30853313 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
30853263 AAATGTCTTC
30853273 CCAACACGGTTCATTCT
1 CCAACACGGTTCATTCT
**
30853290 TAAACACGGTTCCATTCT
1 CCAACACGGTT-CATTCT
30853308 CCAACA
1 CCAACA
30853314 TAATTGGTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.29, C:0.34, G:0.10, T:0.27
Consensus pattern (17 bp):
CCAACACGGTTCATTCT
Found at i:30857501 original size:19 final size:19
Alignment explanation
Indices: 30857479--30857515 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
30857469 ATTAAAGTTA
30857479 TTAATTATA-ATTAATTAAG
1 TTAATTA-AGATTAATTAAG
30857498 TTAATTAAGATTAATTAA
1 TTAATTAAGATTAATTAA
30857516 TTATTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
TTAATTAAGATTAATTAAG
Found at i:30857504 original size:23 final size:22
Alignment explanation
Indices: 30857473--30857518 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
30857463 ATTATGATTA
*
30857473 AAGTTATTAA-TTATAATTAATT
1 AAGTTATTAAGAT-TAATTAATT
30857495 AAGTTAATTAAGATTAATTAATT
1 AAGTT-ATTAAGATTAATTAATT
30857518 A
1 A
30857519 TTAATATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 15 0.71
24 1 0.05
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (22 bp):
AAGTTATTAAGATTAATTAATT
Found at i:30861838 original size:24 final size:24
Alignment explanation
Indices: 30861811--30861861 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
30861801 TACTTGGGTA
*
30861811 ATTTGCCGTCAATTTATCATTTAC
1 ATTTGCCGTCAATTAATCATTTAC
** *
30861835 ATTTTTCGTCAATTAATCCTTTAC
1 ATTTGCCGTCAATTAATCATTTAC
30861859 ATT
1 ATT
30861862 AGTAGTGCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.20, G:0.06, T:0.49
Consensus pattern (24 bp):
ATTTGCCGTCAATTAATCATTTAC
Found at i:30861923 original size:33 final size:33
Alignment explanation
Indices: 30861881--30862024 Score: 105
Period size: 33 Copynumber: 4.3 Consensus size: 33
30861871 ATAACCCAGT
*
30861881 TATGGTCTTATCATCAGAATGTCATAGCCCAAC
1 TATGGTCTTATCATCAAAATGTCATAGCCCAAC
* * *
30861914 TATGGTCTTAT-ATATAAACACTGTCATGGTCCAA-
1 TATGGTCTTATCAT-CAAA-A-TGTCATAGCCCAAC
* * * * * **
30861948 TCATGGTCTTA-CGTTCATAGTGCCATAACCCAGT
1 T-ATGGTCTTATC-ATCAAAATGTCATAGCCCAAC
* *
30861982 TATGGTCTTATCATCAAAATGTCATAGCCTAGC
1 TATGGTCTTATCATCAAAATGTCATAGCCCAAC
30862015 TATGGTCTTA
1 TATGGTCTTA
30862025 CATATAAACA
Statistics
Matches: 83, Mismatches: 20, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
32 2 0.02
33 54 0.65
34 4 0.05
35 22 0.27
36 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (33 bp):
TATGGTCTTATCATCAAAATGTCATAGCCCAAC
Found at i:30862042 original size:101 final size:101
Alignment explanation
Indices: 30861864--30862093 Score: 397
Period size: 101 Copynumber: 2.3 Consensus size: 101
30861854 TTTACATTAG
* *
30861864 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGTCATAGCCCAACTATGGTCTTATATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAACTATGGTCTTACATAT
* *
30861929 AAACACTGTCATGGTCCAATCATGGTCTTACGTTCA
66 AAACACTATCATGGTCCAACCATGGTCTTACGTTCA
* *
30861965 TAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCTAGCTATGGTCTTACATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAACTATGGTCTTACATAT
30862030 AAACACTATCATGGTCCAACCATGGTCTTACGTTCA
66 AAACACTATCATGGTCCAACCATGGTCTTACGTTCA
*
30862066 TAGTGCCATAACCCAGTTATGGTATTAT
1 TAGTGCCATAACCCAGTTATGGTCTTAT
30862094 TCGCCAATTC
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 122 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (101 bp):
TAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAACTATGGTCTTACATAT
AAACACTATCATGGTCCAACCATGGTCTTACGTTCA
Found at i:30864130 original size:42 final size:42
Alignment explanation
Indices: 30864071--30864356 Score: 346
Period size: 42 Copynumber: 6.8 Consensus size: 42
30864061 CACTTACAAA
* *
30864071 AAAAAACGCCGCTAAAGATCATGTTCTTTAACTGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
30864113 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * * *
30864155 AAAAAACGCAGCAAAAGATCATGTTCTTTAGCGGCGTTTAGA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* *
30864197 AAAAAATGCCGCAAAAGATCATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * * *
30864239 AAAAAACGTCGCTAAAGATCATGTTCTTTAGCGACGTTTTGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * * *
30864281 AAGAAAACGCCTCTAAA-AGTAATGTTCTATAGCGGCGCTT-GTT
1 AA-AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAG-G
*
30864324 CAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCG
1 AAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCG
30864357 TTAGCAGCGC
Statistics
Matches: 214, Mismatches: 26, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
41 1 0.00
42 183 0.86
43 30 0.14
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
Found at i:30864829 original size:21 final size:21
Alignment explanation
Indices: 30864785--30864829 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
30864775 GCTTCTATCG
* * *
30864785 CTGCTTCTCTTACTGCGGCAT
1 CTGCTTCCCTCACTGCCGCAT
*
30864806 CTGCTTCCCTCACTGCCGCCT
1 CTGCTTCCCTCACTGCCGCAT
30864827 CTG
1 CTG
30864830 ATTTAAGTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.42, G:0.18, T:0.33
Consensus pattern (21 bp):
CTGCTTCCCTCACTGCCGCAT
Found at i:30865767 original size:20 final size:19
Alignment explanation
Indices: 30865725--30865767 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
30865715 AGTTATATAC
*
30865725 TTTAAAAATTGTTATGTAA
1 TTTAAAAATTGTTATGCAA
30865744 TTTAAAAATTGTTATGCAA
1 TTTAAAAATTGTTATGCAA
30865763 GTTTA
1 -TTTA
30865768 TATGTAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (19 bp):
TTTAAAAATTGTTATGCAA
Found at i:30865856 original size:25 final size:25
Alignment explanation
Indices: 30865828--30865878 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
30865818 AGTTTATATA
30865828 TAAGTTATGATATGATTGATAAATT
1 TAAGTTATGATATGATTGATAAATT
*
30865853 TAAGTTATGCTATGATTGATAAATT
1 TAAGTTATGATATGATTGATAAATT
30865878 T
1 T
30865879 TGAAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (25 bp):
TAAGTTATGATATGATTGATAAATT
Found at i:30865903 original size:17 final size:18
Alignment explanation
Indices: 30865875--30865908 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
30865865 TGATTGATAA
30865875 ATTTTGAAAAATATATAG
1 ATTTTGAAAAATATATAG
30865893 ATTTT-AAAAATATATA
1 ATTTTGAAAAATATATA
30865909 TTAAAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (18 bp):
ATTTTGAAAAATATATAG
Found at i:30865972 original size:19 final size:19
Alignment explanation
Indices: 30865944--30865987 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
30865934 AGTTATGTAA
*
30865944 GTTATATAATTTAAAAATT
1 GTTATGTAATTTAAAAATT
30865963 GTTATGTAATTTAAAAATT
1 GTTATGTAATTTAAAAATT
30865982 GTTATG
1 GTTATG
30865988 CAAGTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (19 bp):
GTTATGTAATTTAAAAATT
Found at i:30865995 original size:20 final size:19
Alignment explanation
Indices: 30865951--30865995 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
30865941 TAAGTTATAT
*
30865951 AATTTAAAAATTGTTATGT
1 AATTTAAAAATTGTTATGC
30865970 AATTTAAAAATTGTTATGC
1 AATTTAAAAATTGTTATGC
30865989 AAGTTTA
1 AA-TTTA
30865996 TATGTAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.44
Consensus pattern (19 bp):
AATTTAAAAATTGTTATGC
Found at i:30866084 original size:25 final size:25
Alignment explanation
Indices: 30866056--30866106 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
30866046 AGTTTATATA
30866056 TAAGTTATGATATGATTGATAAATT
1 TAAGTTATGATATGATTGATAAATT
*
30866081 TAAGTTATGCTATGATTGATAAATT
1 TAAGTTATGATATGATTGATAAATT
30866106 T
1 T
30866107 TGAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (25 bp):
TAAGTTATGATATGATTGATAAATT
Found at i:30866103 original size:228 final size:228
Alignment explanation
Indices: 30865706--30866246 Score: 1046
Period size: 228 Copynumber: 2.4 Consensus size: 228
30865696 AAGGTATGTC
*
30865706 AGTTATGTAAGTTATATACTTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
1 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
30865771 GTAAGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTATGTAAGTTTATATATAAGTTAT
66 GTAAGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTATGTAAGTTTATATATAAGTTAT
*
30865836 GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAATATATAGATTTTAAA
131 GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAAAATATAGATTTTAAA
*
30865901 AATATATATTAAAAATGTATATAAATATTTATA
196 AATATATATTAAAAATGTATAAAAATATTTATA
30865934 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
1 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
30865999 GTAAGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTATGTAAGTTTATATATAAGTTAT
66 GTAAGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTATGTAAGTTTATATATAAGTTAT
30866064 GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAAAATATAGATTTTAAA
131 GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAAAATATAGATTTTAAA
*
30866129 AATTTATATTAAAAATGTATAAAAATATTTATA
196 AATATATATTAAAAATGTATAAAAATATTTATA
30866162 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
1 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
30866227 GTAAGTTTATGTATTGTATG
66 GTAAGTTTATGTATTGTATG
30866247 NNNNNNNNNN
Statistics
Matches: 309, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
228 309 1.00
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.45
Consensus pattern (228 bp):
AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
GTAAGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTATGTAAGTTTATATATAAGTTAT
GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAAAATATAGATTTTAAA
AATATATATTAAAAATGTATAAAAATATTTATA
Found at i:30866200 original size:19 final size:19
Alignment explanation
Indices: 30866172--30866215 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
30866162 AGTTATGTAA
*
30866172 GTTATATAATTTAAAAATT
1 GTTATGTAATTTAAAAATT
30866191 GTTATGTAATTTAAAAATT
1 GTTATGTAATTTAAAAATT
30866210 GTTATG
1 GTTATG
30866216 CAAGTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (19 bp):
GTTATGTAATTTAAAAATT
Found at i:30866223 original size:20 final size:19
Alignment explanation
Indices: 30866179--30866223 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
30866169 TAAGTTATAT
*
30866179 AATTTAAAAATTGTTATGT
1 AATTTAAAAATTGTTATGC
30866198 AATTTAAAAATTGTTATGC
1 AATTTAAAAATTGTTATGC
30866217 AAGTTTA
1 AA-TTTA
30866224 TATGTAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.44
Consensus pattern (19 bp):
AATTTAAAAATTGTTATGC
Found at i:30867366 original size:22 final size:22
Alignment explanation
Indices: 30867341--30867386 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
30867331 AAAATTTTCT
30867341 TAAATTTAATACTGATTAAACC
1 TAAATTTAATACTGATTAAACC
*
30867363 TAAATTTTATACTGATTAAACC
1 TAAATTTAATACTGATTAAACC
30867385 TA
1 TA
30867387 CGTAGAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (22 bp):
TAAATTTAATACTGATTAAACC
Found at i:30869227 original size:21 final size:21
Alignment explanation
Indices: 30869200--30869250 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
30869190 TTAACCTAGA
30869200 CCCTAAACCACAACCCTTATC
1 CCCTAAACCACAACCCTTATC
* * *
30869221 CCTTAAACCATAACCTTTATC
1 CCCTAAACCACAACCCTTATC
30869242 CCCTAAACC
1 CCCTAAACC
30869251 CTAAACCCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.24
Consensus pattern (21 bp):
CCCTAAACCACAACCCTTATC
Found at i:30869254 original size:7 final size:7
Alignment explanation
Indices: 30869242--30869303 Score: 61
Period size: 7 Copynumber: 8.9 Consensus size: 7
30869232 AACCTTTATC
30869242 CCCTAAA
1 CCCTAAA
30869249 CCCTAAA
1 CCCTAAA
30869256 CCCTAAA
1 CCCTAAA
30869263 CCCTAAA
1 CCCTAAA
** **
30869270 CTATATT
1 CCCTAAA
* *
30869277 CCTTAGA
1 CCCTAAA
*
30869284 CCTTAAA
1 CCCTAAA
30869291 CCCTAAA
1 CCCTAAA
30869298 CCCTAA
1 CCCTAA
30869304 TCCAGTTTAG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.39, C:0.37, G:0.02, T:0.23
Consensus pattern (7 bp):
CCCTAAA
Found at i:30869264 original size:35 final size:35
Alignment explanation
Indices: 30869224--30869299 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
30869214 CCTTATCCCT
* *
30869224 TAAACCATAACCTTTATCCCCTAAACCCTAAACCC
1 TAAACCATAAACTATATCCCCTAAACCCTAAACCC
* * * * *
30869259 TAAACCCTAAACTATATTCCTTAGACCTTAAACCC
1 TAAACCATAAACTATATCCCCTAAACCCTAAACCC
30869294 TAAACC
1 TAAACC
30869300 CTAATCCAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (35 bp):
TAAACCATAAACTATATCCCCTAAACCCTAAACCC
Found at i:30872921 original size:70 final size:70
Alignment explanation
Indices: 30872750--30872903 Score: 254
Period size: 70 Copynumber: 2.2 Consensus size: 70
30872740 GTTATATGGC
* * * * *
30872750 ATGTATAGACTAGTGCCAATCGGATACATTTTGGGATATGAAATTAGCCATGTGAGTTGACTTGT
1 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGACTTGT
30872815 AAATG
66 AAATG
*
30872820 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGGCTTGT
1 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGACTTGT
30872885 AAATG
66 AAATG
30872890 ATGTATAGGCTAGT
1 ATGTATAGGCTAGT
30872904 TTTATTATGG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 78 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.34
Consensus pattern (70 bp):
ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGACTTGT
AAATG
Found at i:30874991 original size:14 final size:15
Alignment explanation
Indices: 30874972--30875009 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
30874962 TCATAATGAC
*
30874972 TAATTAGTTTAATT-
1 TAATTAATTTAATTA
30874986 TAATTAATTTAATTA
1 TAATTAATTTAATTA
30875001 TAATTAATT
1 TAATTAATT
30875010 AAATAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TAATTAATTTAATTA
Found at i:30888639 original size:23 final size:23
Alignment explanation
Indices: 30888613--30888657 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30888603 ACTCTTGTAT
*
30888613 TTTTATAAT-TTTGTTCACGTTCC
1 TTTTA-AATATTTATTCACGTTCC
*
30888636 TTTTAATTATTTATTCACGTTC
1 TTTTAAATATTTATTCACGTTC
30888658 TCATCATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.20, C:0.16, G:0.07, T:0.58
Consensus pattern (23 bp):
TTTTAAATATTTATTCACGTTCC
Found at i:30891733 original size:21 final size:21
Alignment explanation
Indices: 30891707--30891762 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
30891697 AAAGTTTTGT
30891707 TGTTTGAATTGATTGTCTTTC
1 TGTTTGAATTGATTGTCTTTC
*
30891728 TGTTTGAATTGATTGTTTTTC
1 TGTTTGAATTGATTGTCTTTC
*
30891749 TGTTCGAATTGATT
1 TGTTTGAATTGATT
30891763 CATTTTTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.07, G:0.20, T:0.57
Consensus pattern (21 bp):
TGTTTGAATTGATTGTCTTTC
Found at i:30891768 original size:21 final size:20
Alignment explanation
Indices: 30891707--30891773 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
30891697 AAAGTTTTGT
*
30891707 TGTTTGAATTGATTGTCTTTC
1 TGTTTGAATTGATTAT-TTTC
*
30891728 TGTTTGAATTGATTGTTTTTC
1 TGTTTGAATTGATT-ATTTTC
*
30891749 TGTTCGAATTGATTCATTTT-
1 TGTTTGAATTGATT-ATTTTC
30891769 TGTTT
1 TGTTT
30891774 AAATCAACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
20 4 0.10
21 35 0.88
22 1 0.03
ACGTcount: A:0.15, C:0.07, G:0.18, T:0.60
Consensus pattern (20 bp):
TGTTTGAATTGATTATTTTC
Found at i:30893226 original size:24 final size:24
Alignment explanation
Indices: 30893199--30893254 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
30893189 TTAAAATTAT
*
30893199 TAAAATTAATTTTTTTTATTCTTA
1 TAAAATTAATTTTTTTAATTCTTA
*
30893223 TAAAATTAATTTTTTTAATTTTTA
1 TAAAATTAATTTTTTTAATTCTTA
30893247 TAAAATTA
1 TAAAATTA
30893255 TCATCATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TAAAATTAATTTTTTTAATTCTTA
Found at i:30893859 original size:3 final size:3
Alignment explanation
Indices: 30893851--30893876 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30893841 CTAATTGGCT
30893851 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
30893877 TAAATTTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:30895873 original size:5 final size:5
Alignment explanation
Indices: 30895863--30895912 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
30895853 AATATATAAC
*
30895863 AATAT AATAT AACAT AAT-T AATAT AATAT ATTATAT AATA- AA-AT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT A--ATAT AATAT AATAT AATAT
30895912 A
1 A
30895913 CTAATATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
3 1 0.03
4 8 0.21
5 24 0.63
7 5 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:30899198 original size:9 final size:9
Alignment explanation
Indices: 30899184--30899214 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30899174 GTTAAACGAA
30899184 TCGAGTTAT
1 TCGAGTTAT
*
30899193 TCGAGTTAA
1 TCGAGTTAT
30899202 TCGAGTTAT
1 TCGAGTTAT
30899211 TCGA
1 TCGA
30899215 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:30899286 original size:9 final size:9
Alignment explanation
Indices: 30899269--30899305 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
30899259 TGAGTTTTCG
30899269 AATTCGAAT
1 AATTCGAAT
*
30899278 AACTCGAAT
1 AATTCGAAT
30899287 AATTCGAAT
1 AATTCGAAT
30899296 AATTCGAAT
1 AATTCGAAT
30899305 A
1 A
30899306 TCCAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30900368 original size:5 final size:5
Alignment explanation
Indices: 30900358--30900383 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30900348 TTCGAAAATT
30900358 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
30900384 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:30927930 original size:23 final size:23
Alignment explanation
Indices: 30927900--30927944 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
30927890 NNNNNNNNNT
30927900 ATGTAGCCGAAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
30927923 ATGTAGCCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
30927945 TCAATAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:30928045 original size:8 final size:8
Alignment explanation
Indices: 30928032--30928060 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
30928022 ACCCGGGACT
30928032 CACTGTAA
1 CACTGTAA
30928040 CACTGTAA
1 CACTGTAA
30928048 CACTGTAA
1 CACTGTAA
30928056 CACTG
1 CACTG
30928061 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:30930075 original size:21 final size:22
Alignment explanation
Indices: 30930037--30930078 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
30930027 AGTTTTCGTA
30930037 TTTTTATTTTTAGGAATTTAATT
1 TTTTTATTTTTA-GAATTTAATT
*
30930060 TTTTTATTTTT-TAATTTAA
1 TTTTTATTTTTAGAATTTAA
30930079 AAATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
23 11 0.61
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
TTTTTATTTTTAGAATTTAATT
Found at i:30939436 original size:18 final size:18
Alignment explanation
Indices: 30939413--30939450 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
30939403 GATAATGAAG
30939413 AATGTAGAATAAA-ATTAA
1 AATGTAGAA-AAATATTAA
*
30939431 AATGTATAAAAATATTAA
1 AATGTAGAAAAATATTAA
30939449 AA
1 AA
30939451 CAAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (18 bp):
AATGTAGAAAAATATTAA
Found at i:30940089 original size:31 final size:30
Alignment explanation
Indices: 30940054--30940139 Score: 82
Period size: 31 Copynumber: 2.8 Consensus size: 30
30940044 ATTAAAAGTG
*
30940054 TATAATTGAATCAAAATTAAAGTTTCATATA
1 TATAATTGAA-CAAAATTAAAGTTTCACATA
* ** * *
30940085 TATAATTGAACCACAACCAAATTTTCACATG
1 TATAATTGAA-CAAAATTAAAGTTTCACATA
* *
30940116 TATAATTGTACCAAATTAAAGTTT
1 TATAATTGAACAAAATTAAAGTTT
30940140 AGGTATCAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
30 9 0.21
31 33 0.79
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (30 bp):
TATAATTGAACAAAATTAAAGTTTCACATA
Found at i:30942105 original size:8 final size:8
Alignment explanation
Indices: 30942092--30942125 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
30942082 TAATTAATTT
30942092 TTTTAAAA
1 TTTTAAAA
30942100 TTTTAAAA
1 TTTTAAAA
30942108 TTTTAAAA
1 TTTTAAAA
30942116 TATTTAAAA
1 T-TTTAAAA
30942125 T
1 T
30942126 ATATTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TTTTAAAA
Found at i:30942166 original size:10 final size:9
Alignment explanation
Indices: 30942091--30942166 Score: 56
Period size: 9 Copynumber: 8.8 Consensus size: 9
30942081 TTAATTAATT
30942091 TTTTTAAAA
1 TTTTTAAAA
30942100 -TTTTAAAA
1 TTTTTAAAA
30942108 -TTTTAAAA
1 TTTTTAAAA
*
30942116 TATTTAAAA
1 TTTTTAAAA
*
30942125 TATATT----
1 T-TTTTAAAA
*
30942131 TTTTTATATA
1 TTTTTA-AAA
30942141 TTTTTAAAA
1 TTTTTAAAA
30942150 TTTTTAAAGA
1 TTTTTAAA-A
30942160 TTTTTAA
1 TTTTTAA
30942167 TTTTTTTCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
8 16 0.30
9 18 0.33
10 16 0.30
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:30952151 original size:101 final size:101
Alignment explanation
Indices: 30951976--30952307 Score: 585
Period size: 101 Copynumber: 3.3 Consensus size: 101
30951966 TTTACATTTG
* * ** *
30951976 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCAT-AGCCTAGCTATGGTCTTACATA
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCTATAATCC-AGCTATGACCTTACGTA
30952040 TAAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
65 TAAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
*
30952077 TAGTGCCATATCCCAGTTATGGTCTTATCATCAGAATGCTATAATCCAGCTATGACCTTACGTAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCTATAATCCAGCTATGACCTTACGTAT
30952142 AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
66 AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
*
30952178 TAGTGCCATATCCCAGTTATGGTCTTATCATCAGAATGCTATAATCCAGCTATGACCTTACGTAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCTATAATCCAGCTATGACCTTACGTAT
30952243 AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
66 AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
30952279 TAGTGCCATAACCCAGTTATGGTCTTATC
1 TAGTGCCATAACCCAGTTATGGTCTTATC
30952308 CATTCATCAT
Statistics
Matches: 223, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
101 220 0.99
102 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (101 bp):
TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCTATAATCCAGCTATGACCTTACGTAT
AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
Found at i:30954693 original size:43 final size:44
Alignment explanation
Indices: 30954645--30954729 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 44
30954635 CTTATGTCAA
*
30954645 TTGTTAGAGTA-TATTATACTTATATCT-CAAAGGTATTATTTTC
1 TTGTTAGAATATTATTATACTTATAT-TACAAAGGTATTATTTTC
* *
30954688 TTGTTAGAATATTTATTGTACTTATATTATAAAGGTATTATT
1 TTGTTAGAATA-TTATTATACTTATATTACAAAGGTATTATT
30954730 GTCATCTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 10 0.28
44 1 0.03
45 25 0.69
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.51
Consensus pattern (44 bp):
TTGTTAGAATATTATTATACTTATATTACAAAGGTATTATTTTC
Found at i:30955160 original size:11 final size:11
Alignment explanation
Indices: 30955144--30955172 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
30955134 AATTCAAGTT
30955144 TCGAGTTCTAG
1 TCGAGTTCTAG
30955155 TCGAGTTCTAG
1 TCGAGTTCTAG
30955166 TCGAGTT
1 TCGAGTT
30955173 GAATTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (11 bp):
TCGAGTTCTAG
Found at i:30955306 original size:19 final size:20
Alignment explanation
Indices: 30955269--30955322 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
30955259 ACAAAAACTA
*
30955269 TAAAAATTTAAAATAATTT-
1 TAAAAATTCAAAATAATTTG
30955288 TCAAAAATTCAAAAT-ATTTG
1 T-AAAAATTCAAAATAATTTG
30955308 TAAAAATTCTAAAAT
1 TAAAAATTC-AAAAT
30955323 TGATATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAAATTCAAAATAATTTG
Found at i:30958613 original size:18 final size:18
Alignment explanation
Indices: 30958583--30958617 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
30958573 TGAATAAAAT
30958583 AATAATAATTTTTTTTTG
1 AATAATAATTTTTTTTTG
30958601 AATAA-AATATTTTTTTT
1 AATAATAAT-TTTTTTTT
30958618 ATATTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
AATAATAATTTTTTTTTG
Found at i:30958731 original size:27 final size:27
Alignment explanation
Indices: 30958701--30958762 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
30958691 CCTATCAGGT
30958701 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
*
30958728 AGGCGCCAATGAAGGTGCCTTATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
30958755 AGGCGCCA
1 AGGCGCCA
30958763 TTACTAGACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.34, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:30958949 original size:21 final size:21
Alignment explanation
Indices: 30958925--30958968 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
30958915 AATAAACACC
30958925 AAAAAAT-TTTTAAAAATAAA
1 AAAAAATATTTTAAAAATAAA
*
30958945 AAAAAGTATTTTAAAAATAAA
1 AAAAAATATTTTAAAAATAAA
30958966 AAA
1 AAA
30958969 TAAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAAATATTTTAAAAATAAA
Found at i:30959606 original size:27 final size:28
Alignment explanation
Indices: 30959568--30959644 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 28
30959558 CCGGCCCGGC
*
30959568 CCATTGGCGCCTCTCAGAAT-GGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
*
30959595 CCATTGGCGCCTCCCAG-GTAGGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
30959622 CCATTGGCGCCTCCCAG-ATAGGC
1 CCATTGGCGCCTCCCAGAATAGGC
30959645 GCCAATACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.19, C:0.39, G:0.25, T:0.17
Consensus pattern (28 bp):
CCATTGGCGCCTCCCAGAATAGGCACCA
Found at i:30966732 original size:16 final size:16
Alignment explanation
Indices: 30966711--30966742 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30966701 TTTTGTTCAA
30966711 TTTTATATATAAATTT
1 TTTTATATATAAATTT
*
30966727 TTTTATTTATAAATTT
1 TTTTATATATAAATTT
30966743 AATTGTAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTATATATAAATTT
Found at i:30969915 original size:24 final size:24
Alignment explanation
Indices: 30969850--30969915 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
30969840 TTATATAGTA
*
30969850 TATTTAAA-TTTA-ATT-TGAATC
1 TATTTAAAGTTTATATTATCAATC
*
30969871 AATTTAAAGTTT-T-TTGAATCAATC
1 TATTTAAAGTTTATATT--ATCAATC
30969895 TATTTAAAGTTTATATTATCA
1 TATTTAAAGTTTATATTATCA
30969916 TTTAAAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
21 9 0.26
22 3 0.09
24 20 0.57
25 1 0.03
26 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (24 bp):
TATTTAAAGTTTATATTATCAATC
Found at i:30969993 original size:101 final size:102
Alignment explanation
Indices: 30969854--30970064 Score: 354
Period size: 101 Copynumber: 2.1 Consensus size: 102
30969844 ATAGTATATT
30969854 TAAATTTAATTTGAATCAATTTAAAGTTTTTTGAATCAATCTATTTAAAGTTTATATTATCATTT
1 TAAATTTAA-TTGAATCAATTTAAAGTTTTTTGAATCAATCTATTTAAAGTTTATATTATCATTT
** *
30969919 AAAAGTATTTTTACACTAA-AATTTTATATATTTTATAA
65 AAAAGTATTTTTACACTAAGAATGGTAT-GATTTTATAA
30969957 TAAATTTAA-TGAATCAATTTAAAGTTTTTTGAATCAATCTATTTAAAGTTTATATTATCATTTA
1 TAAATTTAATTGAATCAATTTAAAGTTTTTTGAATCAATCTATTTAAAGTTTATATTATCATTTA
*
30970021 AAAGTATTTTTACACTAAGAATGGTGTGATTTTATAA
66 AAAGTATTTTTACACTAAGAATGGTATGATTTTATAA
30970058 TAAATTT
1 TAAATTT
30970065 TAAATAAAAA
Statistics
Matches: 103, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
101 89 0.86
102 5 0.05
103 9 0.09
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (102 bp):
TAAATTTAATTGAATCAATTTAAAGTTTTTTGAATCAATCTATTTAAAGTTTATATTATCATTTA
AAAGTATTTTTACACTAAGAATGGTATGATTTTATAA
Found at i:30970016 original size:24 final size:23
Alignment explanation
Indices: 30969961--30970007 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
30969951 TTATAATAAA
*
30969961 TTTAATGAATCAATTTAAAGTTT
1 TTTAATCAATCAATTTAAAGTTT
*
30969984 TTTGAATCAATCTATTTAAAGTTT
1 TTT-AATCAATCAATTTAAAGTTT
30970008 ATATTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (23 bp):
TTTAATCAATCAATTTAAAGTTT
Found at i:30974324 original size:14 final size:15
Alignment explanation
Indices: 30974299--30974328 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
30974289 AGTGCTGCTG
30974299 ATAAAGGGAAAAAAA
1 ATAAAGGGAAAAAAA
30974314 ATAAA-GGAAAAAAA
1 ATAAAGGGAAAAAAA
30974328 A
1 A
30974329 ACAGAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (15 bp):
ATAAAGGGAAAAAAA
Found at i:30974329 original size:15 final size:15
Alignment explanation
Indices: 30974299--30974329 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30974289 AGTGCTGCTG
*
30974299 ATAAAGGGAAAAAAA
1 ATAAAGGAAAAAAAA
30974314 ATAAAGGAAAAAAAA
1 ATAAAGGAAAAAAAA
30974329 A
1 A
30974330 CAGAAAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (15 bp):
ATAAAGGAAAAAAAA
Found at i:30977229 original size:27 final size:27
Alignment explanation
Indices: 30977199--30977286 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
30977189 TTTTTACATA
* *
30977199 ATATATTTATATATGCATTTTTTTTAT
1 ATATATATATATACGCATTTTTTTTAT
* * *
30977226 ATATATAGCACATACGCA-TATTTTTAT
1 ATATATA-TATATACGCATTTTTTTTAT
* *
30977253 ATATAATATATATAGGCATTTTTTTAAT
1 ATAT-ATATATATACGCATTTTTTTTAT
30977281 ATATAT
1 ATATAT
30977287 GTTTTTAAGC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
27 27 0.56
28 21 0.44
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (27 bp):
ATATATATATATACGCATTTTTTTTAT
Found at i:30977347 original size:10 final size:10
Alignment explanation
Indices: 30977332--30977357 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
30977322 ATTCATACGA
30977332 TTTTTATATT
1 TTTTTATATT
30977342 TTTTTATATT
1 TTTTTATATT
30977352 TTTTTA
1 TTTTTA
30977358 AAACCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTATATT
Found at i:30978639 original size:82 final size:82
Alignment explanation
Indices: 30978502--30983247 Score: 9483
Period size: 82 Copynumber: 57.9 Consensus size: 82
30978492 TTCATCTCCG
30978502 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30978567 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30978584 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30978649 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30978666 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30978731 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30978748 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30978813 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30978830 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30978895 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30978912 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30978977 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30978994 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30979059 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30979076 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30979141 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30979158 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30979223 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30979240 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30979305 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30979322 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30979387 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30979404 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30979469 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30979486 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30979551 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30979568 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30979633 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30979650 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30979715 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30979732 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30979797 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30979814 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30979879 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30979896 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30979961 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30979978 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30980043 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30980060 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30980125 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30980142 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30980207 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30980224 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30980289 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30980306 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30980371 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30980388 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30980453 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30980470 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30980535 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30980552 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30980617 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30980634 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30980699 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30980716 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30980781 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30980798 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30980863 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30980880 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30980945 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30980962 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30981027 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30981044 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30981109 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30981126 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30981191 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30981208 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30981273 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30981290 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30981355 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30981372 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30981437 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30981454 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30981519 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30981536 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30981601 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30981618 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30981683 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30981700 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30981765 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30981782 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30981847 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30981864 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30981929 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30981946 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30982011 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30982028 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30982093 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30982110 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30982175 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30982192 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30982257 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30982274 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30982339 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30982356 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30982421 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30982438 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30982503 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30982520 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30982585 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30982602 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30982667 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30982684 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30982749 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30982766 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30982831 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30982848 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30982913 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30982930 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30982995 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30983012 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30983077 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
30983094 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30983159 TTGGGTTTCCCGTTAGA
66 TTGGGTTTCCCGTTAGA
*
30983176 GTTTCACGTTCTGTATCCTTGAATTATGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
1 GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
30983241 TTGGGTT
66 TTGGGTT
30983248 ACAACGGGAA
Statistics
Matches: 4663, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 4663 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (82 bp):
GTTTCACGTTCTGTATCCTTGAATTGTGATAGCAGAGGATTGAGAAAAGGACAAATCTTTTACTC
TTGGGTTTCCCGTTAGA
Found at i:30983916 original size:50 final size:50
Alignment explanation
Indices: 30983862--30984036 Score: 174
Period size: 50 Copynumber: 3.5 Consensus size: 50
30983852 ACAATTAAAG
**
30983862 AGATTGAAGCCACAACGGTAGATCTTACTTCCTTAGCAGTGCAGTAGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTAGAAC
* * *** * * * * *
30983912 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCT-GATATTGCAATTA-AAG
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CAGTGC-AGTAGAAC
* *
30983962 AGATTGAAGCCACAATGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTAGAAC
* *
30984012 AGATTGAAGCTACGACGGCGGATCT
1 AGATTGAAGCCACAACGGCGGATCT
30984037 GGTTTCCCTG
Statistics
Matches: 94, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
49 3 0.03
50 87 0.93
51 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTAGAAC
Found at i:30983986 original size:100 final size:100
Alignment explanation
Indices: 30983808--30984055 Score: 433
Period size: 100 Copynumber: 2.5 Consensus size: 100
30983798 TTAAAGCTTG
* * *
30983808 GAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTAATATTACAATTAAAGAGATTGAAGCC
1 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAGAGATTGAAGCC
*
30983873 ACAACGGTAGATCTTACTTCCTTAGCAGTGCAGTA
66 ACAACGGCAGATCTTACTTCCTTAGCAGTGCAGTA
30983908 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAGAGATTGAAGCC
1 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAGAGATTGAAGCC
* * *
30983973 ACAATGGCGGATCTTACTTCCTTAGCAGTGCAGTG
66 ACAACGGCAGATCTTACTTCCTTAGCAGTGCAGTA
30984008 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAA
1 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAA
30984056 NNNNNNNNNN
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 141 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (100 bp):
GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAGAGATTGAAGCC
ACAACGGCAGATCTTACTTCCTTAGCAGTGCAGTA
Found at i:30986468 original size:27 final size:26
Alignment explanation
Indices: 30986438--30986510 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
30986428 ATTTATATAT
30986438 GCATTTTTTTATATATATAGCACATAC
1 GCATTTTTTTATATATATA-CACATAC
* * * *
30986465 GCATATTTTTATATATAATATATATAG
1 GCATTTTTTTATATAT-ATACACATAC
30986492 GCATTTTTTTAATATATAT
1 GCATTTTTTT-ATATATAT
30986511 GTTTTTAAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
27 30 0.77
28 9 0.23
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (26 bp):
GCATTTTTTTATATATATACACATAC
Found at i:30986763 original size:106 final size:107
Alignment explanation
Indices: 30986653--30986865 Score: 419
Period size: 106 Copynumber: 2.0 Consensus size: 107
30986643 GCACATATAT
30986653 GTTTCTTTATCTTTATTTTATTTTTATGATTTTCACATACATATATACATGCATTATTATTAG-T
1 GTTTCTTTATCTTTATTTTATTTTTATGATTTTCACATACATATATACATGCATTATTATTAGTT
30986717 TTTTTTTTGGTTTGATGTATTTCGTTCCTTCTTTTTGTTTGC
66 TTTTTTTTGGTTTGATGTATTTCGTTCCTTCTTTTTGTTTGC
30986759 GTTTCTTTATCTTTATTTTATTTTTATGATTTTCACATACATATATACATGCATTATTATTAGTT
1 GTTTCTTTATCTTTATTTTATTTTTATGATTTTCACATACATATATACATGCATTATTATTAGTT
30986824 TTTTTTTTGGTTTGATGTATTTCGTTCCTTCTTTTTGTTTGC
66 TTTTTTTTGGTTTGATGTATTTCGTTCCTTCTTTTTGTTTGC
30986866 AAATTTACTT
Statistics
Matches: 106, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
106 63 0.59
107 43 0.41
ACGTcount: A:0.18, C:0.11, G:0.10, T:0.61
Consensus pattern (107 bp):
GTTTCTTTATCTTTATTTTATTTTTATGATTTTCACATACATATATACATGCATTATTATTAGTT
TTTTTTTTGGTTTGATGTATTTCGTTCCTTCTTTTTGTTTGC
Found at i:31001112 original size:14 final size:13
Alignment explanation
Indices: 31001074--31001114 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
31001064 TTTTATAAAC
31001074 ATTTTAATTATTT
1 ATTTTAATTATTT
*
31001087 GTTTT-A-TATTT
1 ATTTTAATTATTT
31001098 ATTTTAAATTATTT
1 ATTTT-AATTATTT
31001112 ATT
1 ATT
31001115 ATATTAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 9 0.39
12 1 0.04
13 5 0.22
14 8 0.35
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (13 bp):
ATTTTAATTATTT
Found at i:31003362 original size:23 final size:23
Alignment explanation
Indices: 31003327--31003383 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
31003317 TATTTGGTTT
*
31003327 ATTTGAATTATTTAAGTT-ATTTTA
1 ATTTGAA-AATTTAAGTTGA-TTTA
*
31003351 ATTTGAAAATTTAATTTGATTTA
1 ATTTGAAAATTTAAGTTGATTTA
31003374 ATTT-AAAATT
1 ATTTGAAAATT
31003384 CGAAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 6 0.20
23 16 0.53
24 8 0.27
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (23 bp):
ATTTGAAAATTTAAGTTGATTTA
Found at i:31004314 original size:17 final size:17
Alignment explanation
Indices: 31004292--31004324 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31004282 GGTGAGGTTC
31004292 CCGAGAGTTTGGGTAAA
1 CCGAGAGTTTGGGTAAA
31004309 CCGAGAGTTTGGGTAA
1 CCGAGAGTTTGGGTAA
31004325 TTTGAAACGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.36, T:0.24
Consensus pattern (17 bp):
CCGAGAGTTTGGGTAAA
Found at i:31006535 original size:34 final size:34
Alignment explanation
Indices: 31006447--31006564 Score: 152
Period size: 34 Copynumber: 3.5 Consensus size: 34
31006437 TAAAAACTAC
*
31006447 TACTTTTATAAATTTTCATGATAAACAATCAGAG
1 TACTTTTATAAATTTTCATGATAAACAATTAGAG
* * *
31006481 TAC-ATT-T-AATATTCATGATAAACAATTAGAA
1 TACTTTTATAAATTTTCATGATAAACAATTAGAG
31006512 TACTTTTATAAATTTTCATGATAAACAATTAGAG
1 TACTTTTATAAATTTTCATGATAAACAATTAGAG
* *
31006546 TACATGTAATAAATTTTCA
1 TAC-TTTTATAAATTTTCA
31006565 ACCAAACGAC
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
31 24 0.34
32 3 0.04
33 3 0.04
34 28 0.39
35 13 0.18
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (34 bp):
TACTTTTATAAATTTTCATGATAAACAATTAGAG
Found at i:31007115 original size:17 final size:17
Alignment explanation
Indices: 31007095--31007127 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31007085 TTTAAATAAA
31007095 TAAATAATTTTCTCAAT
1 TAAATAATTTTCTCAAT
31007112 TAAATAATTTTCTCAA
1 TAAATAATTTTCTCAA
31007128 CCTGATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATAATTTTCTCAAT
Found at i:31009797 original size:4 final size:4
Alignment explanation
Indices: 31009782--31009836 Score: 92
Period size: 4 Copynumber: 13.8 Consensus size: 4
31009772 TTGCAAGGTA
* *
31009782 ATAC AAAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
31009830 ATAC ATA
1 ATAC ATA
31009837 TATATATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:31009841 original size:2 final size:2
Alignment explanation
Indices: 31009834--31009893 Score: 68
Period size: 2 Copynumber: 30.0 Consensus size: 2
31009824 ACATAAATAC
* * * *
31009834 AT AT AT AT AT AT AT AT AT AT AT AT TT GT CAT AA AT AC AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
31009876 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
31009894 TTGTCTTAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
1 1 0.02
2 47 0.96
3 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31019598 original size:36 final size:35
Alignment explanation
Indices: 31019533--31019601 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
31019523 AAAATAGTAA
*
31019533 TAAAAATAATAATAAAACAACAGTTATATAATATC
1 TAAAAATAATAATAAAACAACAGTAATATAATATC
* **
31019568 TAAATAATAATAATAAAATAGTAGTAATATAATA
1 TAAA-AATAATAATAAAACAACAGTAATATAATA
31019602 GTAAAATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 4 0.14
36 25 0.86
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.30
Consensus pattern (35 bp):
TAAAAATAATAATAAAACAACAGTAATATAATATC
Found at i:31019609 original size:36 final size:36
Alignment explanation
Indices: 31019525--31019609 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 36
31019515 ATGTCTCTAA
* *
31019525 AATAGTAATAAAAATAATAATAAAACAACAGTTATAT
1 AATAGTAA-AATAATAATAATAAAACAACAGTAATAT
* * **
31019562 AATA-TCTAAATAATAATAATAAAATAGTAGTAATAT
1 AATAGT-AAAATAATAATAATAAAACAACAGTAATAT
31019598 AATAGTAAAATA
1 AATAGTAAAATA
31019610 GTAACAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
36 33 0.85
37 6 0.15
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (36 bp):
AATAGTAAAATAATAATAATAAAACAACAGTAATAT
Found at i:31019621 original size:22 final size:22
Alignment explanation
Indices: 31019573--31019621 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
31019563 ATATCTAAAT
**
31019573 AATAATAATAAAATAGTAGTAA
1 AATAATAATAAAATAGTAACAA
* *
31019595 TATAATAGTAAAATAGTAACAA
1 AATAATAATAAAATAGTAACAA
31019617 AATAA
1 AATAA
31019622 CATCAGCAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (22 bp):
AATAATAATAAAATAGTAACAA
Found at i:31019846 original size:3 final size:3
Alignment explanation
Indices: 31019838--31019877 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
31019828 AGTTATACTT
31019838 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
31019878 GTAGTAAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:31020575 original size:27 final size:29
Alignment explanation
Indices: 31020545--31020599 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
31020535 ACCCACCACT
31020545 TATAAAAGG-A-AAACATATCCAGATTGA
1 TATAAAAGGAACAAACATATCCAGATTGA
*
31020572 TATAAGAGGATACAAACATATCCAGATT
1 TATAAAAGGA-ACAAACATATCCAGATT
31020600 CATTAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
29 1 0.04
30 15 0.62
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.24
Consensus pattern (29 bp):
TATAAAAGGAACAAACATATCCAGATTGA
Found at i:31022890 original size:2 final size:2
Alignment explanation
Indices: 31022885--31022909 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31022875 ATAAAAAAGA
31022885 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
31022910 AAAGAGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31030608 original size:61 final size:61
Alignment explanation
Indices: 31030543--31030664 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
31030533 CCACAACCTC
31030543 CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
1 CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
31030604 CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
1 CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
31030665 ACACCTTCAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.54, C:0.21, G:0.13, T:0.11
Consensus pattern (61 bp):
CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
Found at i:31035570 original size:126 final size:125
Alignment explanation
Indices: 31035387--31035642 Score: 345
Period size: 126 Copynumber: 2.0 Consensus size: 125
31035377 GTTTCTAATA
* * * *
31035387 AAATAGTATAAAATCGCTTCTAGCAGAATGCTATTTGAGAATAATTTGTGAAATCGCGCCCTCGT
1 AAATAGTATAAAATAGCTTCTAGCAGAATCCTATTTGAGAAGAATTTGTGAAATCGCGACCTCGT
*
31035452 -GGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTTTGACATTTCTG-AG
66 CAG-CGCGCTTTTGCTACAGTAGGTCACGGAAGAAAT-ATTATTTTTTTGACATTTCTGTAG
* * *
31035512 CAAATAGTATAAAATAGCTTCTAGGAGGATCCTATTTGAGAAGAATTTGTGCAATCGCGACCTCG
1 -AAATAGTATAAAATAGCTTCTAGCAGAATCCTATTTGAGAAGAATTTGTGAAATCGCGACCTCG
* * * * * *
31035577 TCAGCGTGCTTTTGCTATAGTAGGTCATGTAAGAAATATTTTTTTTTTGACGTTTCTGTAG
65 TCAGCGCGCTTTTGCTACAGTAGGTCACGGAAGAAATATTATTTTTTTGACATTTCTGTAG
31035638 AAATA
1 AAATA
31035643 TTTTTTTTTG
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
125 24 0.21
126 89 0.78
127 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (125 bp):
AAATAGTATAAAATAGCTTCTAGCAGAATCCTATTTGAGAAGAATTTGTGAAATCGCGACCTCGT
CAGCGCGCTTTTGCTACAGTAGGTCACGGAAGAAATATTATTTTTTTGACATTTCTGTAG
Found at i:31035654 original size:27 final size:27
Alignment explanation
Indices: 31035608--31035669 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
31035598 AGGTCATGTA
31035608 AGAAATATTTTTTTTTTGACGTTTCTG
1 AGAAATATTTTTTTTTTGACGTTTCTG
31035635 TAGAAATA-TTTTTTTTTGACGTTTCTG
1 -AGAAATATTTTTTTTTTGACGTTTCTG
31035662 AGCAAATA
1 AG-AAATA
31035670 ATATAAAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 2 0.06
27 24 0.73
28 7 0.21
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (27 bp):
AGAAATATTTTTTTTTTGACGTTTCTG
Found at i:31038672 original size:23 final size:23
Alignment explanation
Indices: 31038642--31038736 Score: 165
Period size: 23 Copynumber: 4.1 Consensus size: 23
31038632 NNNNNNNNGG
31038642 GTTTTTAATTAAATTAGGTTAGA
1 GTTTTTAATTAAATTAGGTTAGA
31038665 GTTTTTAATTAAATTAGGTTAG-
1 GTTTTTAATTAAATTAGGTTAGA
*
31038687 GTTTTTAATTAAATTAGGTTAGGG
1 GTTTTTAATTAAATTAGGTTA-GA
31038711 GTTTTTAATTAAATTAGGTTAGA
1 GTTTTTAATTAAATTAGGTTAGA
31038734 GTT
1 GTT
31038737 AGGGTTTTTA
Statistics
Matches: 69, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
22 21 0.30
23 27 0.39
24 21 0.30
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (23 bp):
GTTTTTAATTAAATTAGGTTAGA
Found at i:31038718 original size:24 final size:24
Alignment explanation
Indices: 31038640--31038766 Score: 170
Period size: 24 Copynumber: 5.2 Consensus size: 24
31038630 NNNNNNNNNN
31038640 GGGTTTTTAATTAAATTAGGTTA-
1 GGGTTTTTAATTAAATTAGGTTAG
*
31038663 GAGTTTTTAATTAAATTAGGTTA-
1 GGGTTTTTAATTAAATTAGGTTAG
31038686 -GGTTTTTAATTAAATTAGGTTAG
1 GGGTTTTTAATTAAATTAGGTTAG
31038709 GGGTTTTTAATTAAATTAGGTTAGAG
1 GGGTTTTTAATTAAATTAGGTT--AG
*
31038735 TTAGGGTTTTTAATTAATTTAGGTTAG
1 ---GGGTTTTTAATTAAATTAGGTTAG
31038762 GGGTT
1 GGGTT
31038767 AGGGGTTAGG
Statistics
Matches: 94, Mismatches: 3, Indels: 13
0.85 0.03 0.12
Matches are distributed among these distances:
22 21 0.22
23 22 0.23
24 26 0.28
26 2 0.02
27 2 0.02
29 21 0.22
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (24 bp):
GGGTTTTTAATTAAATTAGGTTAG
Found at i:31038726 original size:29 final size:29
Alignment explanation
Indices: 31038681--31039058 Score: 300
Period size: 29 Copynumber: 12.1 Consensus size: 29
31038671 AATTAAATTA
31038681 GGTTA-GGTTTTTAATTAAATTAGGTTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
31038708 -G---GGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
31038733 AGTTAGGGTTTTTAATTAATTTAGGTTAGGGGTTAGG
1 GGTTAGGGTTTTTAATTAA---A--TTA--GGTTA-G
*
31038770 GGTTAGGGATTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
31038799 GGTTAGGGTTTTAAATTAATTTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
31038828 GGTTAGGGTTTTTAATTAATTTAGGTTAGGGGTTAGG
1 GGTTAGGGTTTTTAATTAA---A--TTA--GGTTA-G
* * *
31038865 GGTTAGGGATTTTAATTACATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
31038894 GGTTAGGGTTTTAAATTAATTTAGGTTAGGGGTTAGG
1 GGTTAGGGTTTTTAATTAA---A--TTA--GGTTA-G
* * *
31038931 GGTTAGGGATTTTAATTACATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
31038960 GGTTAGGGTTTTAAATTAATTTAGGTTAGGGGTTAGG
1 GGTTAGGGTTTTTAATTAA---A--TTA--GGTTA-G
*
31038997 GGTTAGGGATTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
31039026 AGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
31039055 GGTT
1 GGTT
31039059 TTTATTACAT
Statistics
Matches: 286, Mismatches: 27, Indels: 74
0.74 0.07 0.19
Matches are distributed among these distances:
24 22 0.08
26 2 0.01
29 124 0.43
30 18 0.06
32 15 0.05
34 16 0.06
36 18 0.06
37 71 0.25
ACGTcount: A:0.27, C:0.01, G:0.30, T:0.42
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:31038805 original size:66 final size:66
Alignment explanation
Indices: 31038703--31038835 Score: 223
Period size: 66 Copynumber: 2.0 Consensus size: 66
31038693 AATTAAATTA
* *
31038703 GGTTAGGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAATTTAGGTTAGGGGTTA
1 GGTTAGGGGATTTTAATTAAATTAGGTTAGAGTTAGGGTTTTAAATTAATTTAGGTTA-GGGTTA
31038768 GG
65 GG
*
31038770 GGTTA-GGGATTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAATTTAGGTTAGGGTTAG
1 GGTTAGGGGATTTTAATTAAATTAGGTTAGAGTTAGGGTTTTAAATTAATTTAGGTTAGGGTTAG
31038834 G
66 G
31038835 G
1 G
31038836 TTTTTAATTA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
65 9 0.14
66 49 0.78
67 5 0.08
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (66 bp):
GGTTAGGGGATTTTAATTAAATTAGGTTAGAGTTAGGGTTTTAAATTAATTTAGGTTAGGGTTAG
G
Found at i:31038825 original size:95 final size:95
Alignment explanation
Indices: 31038681--31039056 Score: 407
Period size: 95 Copynumber: 3.9 Consensus size: 95
31038671 AATTAAATTA
* *
31038681 GGTTA-GGTTTTTAATTAAATTAGGTTA--G---GGGTTTTTAATTAAATTAGGTTAGAGTTAGG
1 GGTTAGGGATTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAAATTAGGTTAGAGTTAGG
31038740 GTTTTTAATTAATTTAGGTTAGGGGTTAGG
66 GTTTTTAATTAATTTAGGTTAGGGGTTAGG
* *
31038770 GGTTAGGGATTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAATTTAGGTTAGGGTTAGG
1 GGTTAGGGATTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAAATTAGGTTAGAGTTAGG
31038835 GTTTTTAATTAATTTAGGTTAGGGGTTAGG
66 GTTTTTAATTAATTTAGGTTAGGGGTTAGG
* * * *
31038865 GGTTAGGGATTTTAATTACATTAGGGTAGGGTTAGGGTTTTAAATTAATTTAGGTTAGGGGTTAG
1 GGTTAGGGATTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAAATTAGGTTA-GAGTTA-
*** * **
31038930 GGGTTAGGGATTTTAA-TTACATTA-GGG-TA-G
64 GGGTT-TTTA-ATTAATTTAGGTTAGGGGTTAGG
31038960 GGTTAGGG-TTTTAAATTAATTTAGGTTAGGGGTTAGGGGTTAGGGATTTT-AATTAAATTAGGT
1 GGTTAGGGATTTT-AATTAA---A--TTA--GGTTA-GGGTTAGGG-TTTTAAATTAAATTAGGT
*
31039023 TAGAGTTAGGGTTTTTAATTAAATTAGGTTAGGG
56 TAGAGTTAGGGTTTTTAATTAATTTAGGTTAGGG
31039057 TTTTTATTAC
Statistics
Matches: 243, Mismatches: 22, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
89 5 0.02
90 21 0.09
92 1 0.00
94 4 0.02
95 127 0.52
96 8 0.03
97 8 0.03
98 8 0.03
99 8 0.03
100 10 0.04
101 7 0.03
102 9 0.04
103 23 0.09
104 4 0.02
ACGTcount: A:0.27, C:0.01, G:0.31, T:0.42
Consensus pattern (95 bp):
GGTTAGGGATTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAAATTAGGTTAGAGTTAGG
GTTTTTAATTAATTTAGGTTAGGGGTTAGG
Found at i:31038868 original size:66 final size:66
Alignment explanation
Indices: 31038793--31039056 Score: 426
Period size: 66 Copynumber: 4.0 Consensus size: 66
31038783 AATTAAATTA
* *
31038793 GGTTA-GGGTTAGGG-TTTTAAATTA-ATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTT
1 GGTTAGGGGTTAGGGATTTT-AATTACA-TTAGGGTAGGGTTAGGGTTTTAAATTAATTTAGGTT
31038855 AGG
64 AGG
31038858 GGTTAGGGGTTAGGGATTTTAATTACATTAGGGTAGGGTTAGGGTTTTAAATTAATTTAGGTTAG
1 GGTTAGGGGTTAGGGATTTTAATTACATTAGGGTAGGGTTAGGGTTTTAAATTAATTTAGGTTAG
31038923 G
66 G
31038924 GGTTAGGGGTTAGGGATTTTAATTACATTAGGGTAGGGTTAGGGTTTTAAATTAATTTAGGTTAG
1 GGTTAGGGGTTAGGGATTTTAATTACATTAGGGTAGGGTTAGGGTTTTAAATTAATTTAGGTTAG
31038989 G
66 G
* * * * *
31038990 GGTTAGGGGTTAGGGATTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGGTTAGGGATTTTAATTACATTAGGGTAGGGTTAGGGTTTTAAATTAATTTAGGTTAG
31039055 G
66 G
31039056 G
1 G
31039057 TTTTTATTAC
Statistics
Matches: 189, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
65 5 0.03
66 179 0.95
67 5 0.03
ACGTcount: A:0.26, C:0.01, G:0.32, T:0.41
Consensus pattern (66 bp):
GGTTAGGGGTTAGGGATTTTAATTACATTAGGGTAGGGTTAGGGTTTTAAATTAATTTAGGTTAG
G
Found at i:31038913 original size:161 final size:163
Alignment explanation
Indices: 31038703--31038997 Score: 513
Period size: 161 Copynumber: 1.8 Consensus size: 163
31038693 AATTAAATTA
* * *
31038703 GGTTAGGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAATTTAGGTTAGGGGTTA
1 GGTTAGGGGATTTTAATTAAATTAGGGTAGAGTTAGGGTTTTAAATTAATTTAGGTTAGGGGTTA
*
31038768 GGGGTTAGGGATTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAATTTAGGTTA-GGGTT
66 GGGGTTAGGGATTTTAATTAAATTAGGGTAGGGTTAGGGTTTTAAATTAATTTAGGTTAGGGGTT
31038832 AGGGTTTTTAATTAATTTAGGTTAGGGGTTAGG
131 AGGGTTTTTAATTAATTTAGGTTAGGGGTTAGG
* *
31038865 GGTTA-GGGATTTTAATTACATTAGGGTAGGGTTAGGGTTTTAAATTAATTTAGGTTAGGGGTTA
1 GGTTAGGGGATTTTAATTAAATTAGGGTAGAGTTAGGGTTTTAAATTAATTTAGGTTAGGGGTTA
*
31038929 GGGGTTAGGGATTTTAATTACATTAGGGTAGGGTTAGGGTTTTAAATTAATTTAGGTTAGGGGTT
66 GGGGTTAGGGATTTTAATTAAATTAGGGTAGGGTTAGGGTTTTAAATTAATTTAGGTTAGGGGTT
31038994 AGGG
131 AGGG
31038998 GTTAGGGATT
Statistics
Matches: 125, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
161 111 0.89
162 14 0.11
ACGTcount: A:0.26, C:0.01, G:0.32, T:0.41
Consensus pattern (163 bp):
GGTTAGGGGATTTTAATTAAATTAGGGTAGAGTTAGGGTTTTAAATTAATTTAGGTTAGGGGTTA
GGGGTTAGGGATTTTAATTAAATTAGGGTAGGGTTAGGGTTTTAAATTAATTTAGGTTAGGGGTT
AGGGTTTTTAATTAATTTAGGTTAGGGGTTAGG
Found at i:31039155 original size:25 final size:25
Alignment explanation
Indices: 31039125--31039294 Score: 340
Period size: 25 Copynumber: 6.8 Consensus size: 25
31039115 GAAATTTTTT
31039125 TATTTTATTACATCAAATAAATTTC
1 TATTTTATTACATCAAATAAATTTC
31039150 TATTTTATTACATCAAATAAATTTC
1 TATTTTATTACATCAAATAAATTTC
31039175 TATTTTATTACATCAAATAAATTTC
1 TATTTTATTACATCAAATAAATTTC
31039200 TATTTTATTACATCAAATAAATTTC
1 TATTTTATTACATCAAATAAATTTC
31039225 TATTTTATTACATCAAATAAATTTC
1 TATTTTATTACATCAAATAAATTTC
31039250 TATTTTATTACATCAAATAAATTTC
1 TATTTTATTACATCAAATAAATTTC
31039275 TATTTTATTACATCAAATAA
1 TATTTTATTACATCAAATAA
31039295 TATCAAAATA
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 145 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.48
Consensus pattern (25 bp):
TATTTTATTACATCAAATAAATTTC
Found at i:31040030 original size:365 final size:364
Alignment explanation
Indices: 31039361--31040071 Score: 1109
Period size: 365 Copynumber: 2.0 Consensus size: 364
31039351 ATGCCCGGGG
* *
31039361 GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGTGCTGGATTCCTGCTTCTCTAACTTTCGGC
1 GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTGCTTCTCTAACTTCCGGC
* * *
31039426 GGCAGTTGTTGTTCCTCCGGTGGGGATTCTGGGTCTTCCGGTTCGGCATCTAGTTATCGGACTTG
66 GGCAGTTGTTGTTCCTCCGGTGGAGATTCTGGGTCTTCCAGTTCGGCATCTAGTTATCAGACTTG
* *
31039491 GGACGATGATCCACCTTCAAAGAATAGTGTATATGGAGTTGTTTGCATCAGGAACGGCGACGGTG
131 GAACGATGATCCACCTTCAAAGAATAGTGTATATGGAGTTGTTTGCATCAGGAACGGCAACGGTG
* * *
31039556 TTTGAAACCCATACGTTGGTGGGGATTGGTAAAAATGAGAGCTCCCCAACGGCCCCCCTTGCGAT
196 GTTGAAACCCATACGTTGGTGGGGATTGGTAAAAAGGAGAGCTCCCCAACGGCCCCCCTTGAGAT
* * * * *
31039621 CCCTCGTGCGCCGTTGGCCTACACATCGGTGGTCTGCTCGGCATAACAGGAAATGGAGCTAAACC
261 CCCTCGTACGCCATTGGCATACACATCGGCGGTCCGCTCGGCATAACAGGAAATGGAGCTAAACC
*
31039686 GGGCATTTGGCTCCAACCTGCTTTCTCTAGCTTTCTCTA
326 GGACATTTGGCTCCAACCTGCTTTCTCTAGCTTTCTCTA
*
31039725 GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTGCTTTCTCTAGCTTCCGG
1 GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTGC-TTCTCTAACTTCCGG
* * * * *
31039790 CGGCGGTTGTTGTTCCTCCGGTGGAGATTCTGGTTCTTCCAGTTCGGCATTTGGTTGTCAGACTT
65 CGGCAGTTGTTGTTCCTCCGGTGGAGATTCTGGGTCTTCCAGTTCGGCATCTAGTTATCAGACTT
* *
31039855 GGAACGATGATCCATCTTCAAAGAATAGTGTATGTGGAGTTGTTTGCATCAGGAACGGCAACGGT
130 GGAACGATGATCCACCTTCAAAGAATAGTGTATATGGAGTTGTTTGCATCAGGAACGGCAACGGT
* *
31039920 GGTTGAAACCCATACGTTTGGTGGGGATTGGTAAAAAGGAGAGCTCTCCGACGG-CCCCCTTGAG
195 GGTTGAAACCCATACG-TTGGTGGGGATTGGTAAAAAGGAGAGCTCCCCAACGGCCCCCCTTGAG
* * * *
31039984 ATCCCTCGTATGCCATTGGTATATACATCGGCGGTCCGCTCGGCATAACAGGAAATGGAGCTGAA
259 ATCCCTCGTACGCCATTGGCATACACATCGGCGGTCCGCTCGGCATAACAGGAAATGGAGCTAAA
* *
31040049 TCGGACATTTGGCTCTAACCTGC
324 CCGGACATTTGGCTCCAACCTGC
31040072 CATAGGACTT
Statistics
Matches: 313, Mismatches: 32, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
364 48 0.15
365 231 0.74
366 34 0.11
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (364 bp):
GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTGCTTCTCTAACTTCCGGC
GGCAGTTGTTGTTCCTCCGGTGGAGATTCTGGGTCTTCCAGTTCGGCATCTAGTTATCAGACTTG
GAACGATGATCCACCTTCAAAGAATAGTGTATATGGAGTTGTTTGCATCAGGAACGGCAACGGTG
GTTGAAACCCATACGTTGGTGGGGATTGGTAAAAAGGAGAGCTCCCCAACGGCCCCCCTTGAGAT
CCCTCGTACGCCATTGGCATACACATCGGCGGTCCGCTCGGCATAACAGGAAATGGAGCTAAACC
GGACATTTGGCTCCAACCTGCTTTCTCTAGCTTTCTCTA
Found at i:31040114 original size:18 final size:18
Alignment explanation
Indices: 31040091--31040125 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31040081 TGGAAAAGGA
*
31040091 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
31040109 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
31040126 AAATGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:31040772 original size:7 final size:7
Alignment explanation
Indices: 31040762--31040786 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31040752 TTATATACAT
31040762 AATACTA
1 AATACTA
31040769 AATACTA
1 AATACTA
31040776 AATACTA
1 AATACTA
31040783 AATA
1 AATA
31040787 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:31041548 original size:11 final size:11
Alignment explanation
Indices: 31041532--31041558 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
31041522 TATAAAAATA
31041532 TAAAATTATTT
1 TAAAATTATTT
31041543 TAAAATTATTT
1 TAAAATTATTT
31041554 TAAAA
1 TAAAA
31041559 AAGGAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:31041620 original size:22 final size:22
Alignment explanation
Indices: 31041595--31041645 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
31041585 AAATATGGAT
*
31041595 TTGAGATAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
31041617 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
31041639 TTGAGAG
1 TTGAGAG
31041646 GAAATATGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:31052072 original size:21 final size:24
Alignment explanation
Indices: 31052043--31052092 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
31052033 CCTTTTCAAC
31052043 TAATAA-TTTTAAA-TTAAATT-A
1 TAATAATTTTTAAAGTTAAATTGA
* *
31052064 TAATTATTTTTAAAGTTAATTTGA
1 TAATAATTTTTAAAGTTAAATTGA
31052088 TAATA
1 TAATA
31052093 TGATGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 5 0.22
22 7 0.30
23 6 0.26
24 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
TAATAATTTTTAAAGTTAAATTGA
Found at i:31059450 original size:17 final size:18
Alignment explanation
Indices: 31059424--31059469 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
31059414 AAATTTTAAA
31059424 TATT-ATTTAATAATTTT
1 TATTAATTTAATAATTTT
*
31059441 T-TTAATTTAAAAATTTT
1 TATTAATTTAATAATTTT
*
31059458 TATTAATCTAAT
1 TATTAATTTAAT
31059470 TGATGTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.08
17 14 0.58
18 8 0.33
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTAATTTAATAATTTT
Found at i:31063911 original size:16 final size:16
Alignment explanation
Indices: 31063890--31063923 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
31063880 TACACAAACA
31063890 CAGTTTACCTATTCGC
1 CAGTTTACCTATTCGC
31063906 CAGTTTACCTATTCGC
1 CAGTTTACCTATTCGC
31063922 CA
1 CA
31063924 ATACAATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (16 bp):
CAGTTTACCTATTCGC
Found at i:31067226 original size:22 final size:22
Alignment explanation
Indices: 31067198--31067241 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
31067188 AACCACGAAT
31067198 TTTAGTATTTGGTCTCTTTAAG
1 TTTAGTATTTGGTCTCTTTAAG
31067220 TTTAGTATTTGGTCTCTTTAAG
1 TTTAGTATTTGGTCTCTTTAAG
31067242 AAGTTATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (22 bp):
TTTAGTATTTGGTCTCTTTAAG
Found at i:31076229 original size:17 final size:17
Alignment explanation
Indices: 31076209--31076241 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31076199 GTTTATGAAA
*
31076209 AAATAAAATACGAAAAG
1 AAATAAAAAACGAAAAG
31076226 AAATAAAAAACGAAAA
1 AAATAAAAAACGAAAA
31076242 TAGTATATTT
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:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (17 bp):
AAATAAAAAACGAAAAG
Found at i:31076509 original size:158 final size:159
Alignment explanation
Indices: 31076227--31076561 Score: 507
Period size: 159 Copynumber: 2.1 Consensus size: 159
31076217 TACGAAAAGA
* * *
31076227 AATAAAAAACGAAAATAGTATATTTACTGAAATTAATAAAATCCCAAAAAAAAAGAAAAATAACA
1 AATAAAATACGAAAATAGTATATTTACTGAAAATAATAAAATCCCAAAAAAAAAGAAAAAGAACA
*
31076292 AATGGCTAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAAACACACTAAAATAATACATTTC
66 AATGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAAACACACTAAAATAATACATTTC
*
31076357 AAACATTATGTACT-AAATAATATAAAAT
131 AAACATTATGTAATAAAATAATATAAAAT
* * *
31076385 AATAAAATACGAAAATAGTATAATTT-TTTAAAATAATAAAATCCGAAAATAAAAA-AAATAAGA
1 AATAAAATACGAAAATAGTAT-ATTTACTGAAAATAATAAAATCCCAAAA-AAAAAGAAA-AAGA
* * *
31076448 ACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAAA-ATACTAAATTAATACAT
63 ACAAATGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAAACACACTAAAATAATACAT
*
31076512 TTCAAACTTTATGTAATAAAATAATATAAAAT
128 TTCAAACATTATGTAATAAAATAATATAAAAT
31076544 AATAAAATACGAAAATAG
1 AATAAAATACGAAAATAG
31076562 GGATTTTTTT
Statistics
Matches: 161, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
158 72 0.45
159 89 0.55
ACGTcount: A:0.57, C:0.08, G:0.07, T:0.28
Consensus pattern (159 bp):
AATAAAATACGAAAATAGTATATTTACTGAAAATAATAAAATCCCAAAAAAAAAGAAAAAGAACA
AATGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAAACACACTAAAATAATACATTTC
AAACATTATGTAATAAAATAATATAAAAT
Found at i:31076818 original size:16 final size:16
Alignment explanation
Indices: 31076763--31076821 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
31076753 TTTTTGTTTT
31076763 TTTTATTTCGTTTC-GTA
1 TTTTATTT--TTTCAGTA
31076780 TTTTATTTTTTCA-TAA
1 TTTTATTTTTTCAGT-A
***
31076796 ACATATTTTTTCAGTA
1 TTTTATTTTTTCAGTA
31076812 TTTTATTTTT
1 TTTTATTTTT
31076822 AATACTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 5 0.15
16 19 0.58
17 9 0.27
ACGTcount: A:0.20, C:0.08, G:0.05, T:0.66
Consensus pattern (16 bp):
TTTTATTTTTTCAGTA
Done.