Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold382
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: 2572505
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 4 of 16
Found at i:492646 original size:18 final size:18
Alignment explanation
Indices: 492619--492653 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
492609 CTGTAAAGTG
492619 GACAACAAATGACTTTCC
1 GACAACAAATGACTTTCC
*
492637 GACAATAAATGACTTTC
1 GACAACAAATGACTTTC
492654 GATAAAAATT
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:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (18 bp):
GACAACAAATGACTTTCC
Found at i:496944 original size:885 final size:885
Alignment explanation
Indices: 491197--498802 Score: 12242
Period size: 884 Copynumber: 8.7 Consensus size: 885
491187 TCTTTTCATT
491197 AATCCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
1 AATCCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
* *
491262 CATCTTATTGATAGCTT-CTCCGTTAACTTCTTAATTTAAATCGCTGAGTTTGTTTTGATAGCCA
66 CATCTTATTGATAGCTTGC-CCGTTAACTTCTTAATTTAAATCCCTCAGTTTGTTTTGATAGCCA
* * * * * *
491326 GCCGAAAATAGCCTTTGCCATTATATGGTATGATGACGATAGTATTAAAGATGGAAAGTATAGGC
130 GCCGAAAATAGCTTTTGCCATGATATGGCATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGC
* *
491391 ATCCAGTTGATTTCCTTGCTTGGAAATCTTTTGATTTATAGTATCTTAATTTTGTTTTAGATCCT
195 ATCCAGTTGATTCCCTTGCTTGGAAATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCT
* *
491456 TATAATGTTAGGCTAGGCTTGGC--C-----CATTT-A---A----GATAATGAATAATAAGTAT
260 TATAATGTTAGGCTAGGCTTGGCTACTGATAGATTTAATCCATTTCAATAATGAATAATAAGTAT
* * *
491506 AGTGTTTGGCCTGCTATATTGATACCATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAG
325 AGTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAG
* * *
491571 TTTTATTCTTTCCTTAAGGA-TTCTGAGTAAGAACAGACCTAGAAATAATATTGATGTTTACTTA
390 TTTTATTCTTTCCTTAATGATTTC-GTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTA
* *
491635 CAACCTTTGATACAAAAATTAAAAGAAATACA--AGAAATCGGTGTAAACATTTTTGATGGTTTT
454 CAACCTTTGATACAAGAATTAAAAG-AATA-ATGAGAAATTGGTGTAAACATTTTTGATGGTTTT
*
491698 GCTGGAGAGAATTTTCAATTACGTATCGCTGTAAAGTGGACAACAAACGACTTTCCGACAATAAA
517 GCTGGAGAGAATTTTCAATTACGTATCGCTGTAAAGTGGACAACAAATGACTTTCCGACAATAAA
* *
491763 TGACTTTCGATAAAAATTTATATTCAAGTTTGATTTCACGTCGATAAGGTTAAGCTTATAATTTT
582 TGACTTTCGATAAAAATTTATATTCAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTT
* *
491828 GAATGTTTAAAAATTTATGTTAATAAATGAAATCATATTTTTTTATTAAAAATTATTAAAAATAA
647 GAATATTTAAAAATTTATGTTAATAAATGAAATCATATTATTTTATTAAAAATTATTAAAAATAA
*
491893 GTATAGATACTTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACA-TT
712 GTATAGATAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTT
491957 TTTTTTCT-GGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAA
777 TTTTTTCTGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAA
*
492021 TAAAGTGCCCTTGATAAGGACACATTAAGCCCATATTAAAAAAA
842 TAAAGTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAA
492065 AATCCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
1 AATCCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
*
492130 CATCTTATTGATAGCTTGCCCGTTAACTTCTCAATTTAAATCCCTCAGTTTGTTTTGATAGCCAG
66 CATCTTATTGATAGCTTGCCCGTTAACTTCTTAATTTAAATCCCTCAGTTTGTTTTGATAGCCAG
* *
492195 CCGAAAATAGCTTTTGCCACGATATGGCATGATGAGGGTCATATTAAAGATGGAAAGTATAGGCA
131 CCGAAAATAGCTTTTGCCATGATATGGCATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGCA
492260 TCCAGTTGATTCCCTTGCTTGGAAATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTT
196 TCCAGTTGATTCCCTTGCTTGGAAATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTT
* *
492325 ATAATGTTAGGCTAGGCTTGGCTACTGATAGATTTAATCCATTTCAATAATCAATAATAAGTAAA
261 ATAATGTTAGGCTAGGCTTGGCTACTGATAGATTTAATCCATTTCAATAATGAATAATAAGTATA
*
492390 GTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTGCTTAGTTGTCTGTGAAAGAGTCAAGT
326 GTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGT
492455 TTTATTCTTTCCTTAATGATTTCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACA
391 TTTATTCTTTCCTTAATGATTTCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACA
* *
492520 ACCTTTGATACAAAAATTAAAAGAA-ATACGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCT
456 ACCTTTGATACAAGAATTAAAAGAATA-ATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCT
492584 GGAGAGAATTTTCAATTACGTATCGCTGTAAAGTGGACAACAAATGACTTTCCGACAATAAATGA
520 GGAGAGAATTTTCAATTACGTATCGCTGTAAAGTGGACAACAAATGACTTTCCGACAATAAATGA
* *
492649 CTTTCGATAAAAATTTATATTCAAGTTTGATTTCACGTCGATAAGGTTAAGCTTATAATTTTGAA
585 CTTTCGATAAAAATTTATATTCAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAA
* *
492714 TGTTTAAAAATTTATGTTAATAAATGAAATCATATTTTTTTATTAAAAATTATTAAAAATAAGTA
650 TATTTAAAAATTTATGTTAATAAATGAAATCATATTATTTTATTAAAAATTATTAAAAATAAGTA
* * *
492779 CAGATAATTTTTATTTTAATAAGGCAACACTACATTAAAAAAATTATTATTCACTAACA-TTTTT
715 TAGATAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTT
492843 TTTCT-GGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAATAA
780 TTTCTGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAATAA
492907 A--------G-T---G-C-C-TTAAGCCTATATTAAAAAAA
845 AGTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAA
492933 AATCCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
1 AATCCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAA-TTTTT
492998 TCATCTTATTGATAGCTTGCCCGTTAACTTCTTAATTTAAATCCCTCAGTTTGTTTTGATAGCCA
65 TCATCTTATTGATAGCTTGCCCGTTAACTTCTTAATTTAAATCCCTCAGTTTGTTTTGATAGCCA
* * *
493063 GCCGAAAATAGCTTTTGCCACGATATGGCATGATGTGGGTCATATTAAAGATGGAAAGTATAGGC
130 GCCGAAAATAGCTTTTGCCATGATATGGCATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGC
* ** *
493128 ATCTAGTTGATTCCCTTGCTCAGAAATCTTTTGATTTATAATATCTTAATTTTGCTTTAGATCCT
195 ATCCAGTTGATTCCCTTGCTTGGAAATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCT
493193 TATAATGTTAGGCTAGGCTTGGCTACTGATAGATTTAATCCATTTCAATAATGAATAATAAGTAT
260 TATAATGTTAGGCTAGGCTTGGCTACTGATAGATTTAATCCATTTCAATAATGAATAATAAGTAT
*
493258 AGTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCGTAGTTGTCTGTGAAAGAGTCAAG
325 AGTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAG
* *
493323 TTTTATTCTTTCCTTAATGATTTCGTGTAAGAATAGACCTAGATACAATATTGATGTTTACTTAC
390 TTTTATTCTTTCCTTAATGATTTCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTAC
*
493388 AACCTTTGATACAAGAATTAAAAGAATAATGAGAAATTGGTGTAAATATTTTTGATGGTTTTGCT
455 AACCTTTGATACAAGAATTAAAAGAATAATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCT
* * * * *
493453 AGAGAGAATTTTCAATTATGTATCGCTGTAAAATGGACAACAAATGACTTTTCGACAACAAATGA
520 GGAGAGAATTTTCAATTACGTATCGCTGTAAAGTGGACAACAAATGACTTTCCGACAATAAATGA
*
493518 CTTTCGATAAAAATTTATATTCAAGTCTGATTTCATGTCGATAAGGTTAAGCTCATAATTTTGAA
585 CTTTCGATAAAAATTTATATTCAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAA
* * * *
493583 TA-TTGAAAATTTATGTTAGTAAATGAAATCATATTATTTTTTTAAAAATTGTTAAAAATAAGTA
650 TATTTAAAAATTTATGTTAATAAATGAAATCATATTATTTTATTAAAAATTATTAAAAATAAGTA
*
493647 TAGATAATTTTTATTTTAATAAGGCAACACTACACAAAAAAAATTATTATTCACCAACAC-TTTT
715 TAGATAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTT
*
493711 TTT-TGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAA-TTTTTATTTTTCTTGGTATAAATAA
780 TTTCTGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAATAA
*
493774 AGTGCCCTTGATAAGGATACATTAAGCCTATATTAAAAAAA
845 AGTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAA
* *
493815 AATCCTTTCATTTTCTCAAAACACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
1 AATCCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
* * * * *
493880 CATCTTATTGATAGCTTGCCCGTTAACTTCTTGATCTAATTCTCTAAGTTTGTTTTGATAGCCAG
66 CATCTTATTGATAGCTTGCCCGTTAACTTCTTAATTTAAATCCCTCAGTTTGTTTTGATAGCCAG
* * **
493945 TCAAAAATAGCTTTTATCATGATATGGCATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGCA
131 CCGAAAATAGCTTTTGCCATGATATGGCATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGCA
* * *
494010 GCCAGTTGATTCCCTTGCTCGGAAATCTTTTGATTTATAGCATCTTAATTTTGCTTTAGATCCTT
196 TCCAGTTGATTCCCTTGCTTGGAAATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTT
*
494075 ATAATGTTAGGCTAGGCTTGGCTACTGATAGATTTAATCCATTTCAATAATGAATAATAAGTGTA
261 ATAATGTTAGGCTAGGCTTGGCTACTGATAGATTTAATCCATTTCAATAATGAATAATAAGTATA
*
494140 GTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCTTAGTTATCTGTGAAAGAGTCAAGT
326 GTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGT
494205 TTTATTCTTTCCTTAATGATTTCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACA
391 TTTATTCTTTCCTTAATGATTTCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACA
* * *
494270 ACCTTTGATTCAAAAATTAAAAGAA-ATACGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCT
456 ACCTTTGATACAAGAATTAAAAGAATA-ATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCT
* *
494334 GGAGAGAATTTTCAATTACGTATCGCTGTAAAGTGGACGACAAATGACTTTCCGACATTAAATGA
520 GGAGAGAATTTTCAATTACGTATCGCTGTAAAGTGGACAACAAATGACTTTCCGACAATAAATGA
* * *
494399 CTTTCGATAAAAATTTATATTCAAATTTGATTTCACGTCGATAAGGTTAAGCTTATAATTTTGAA
585 CTTTCGATAAAAATTTATATTCAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAA
* *
494464 TGTTTAAAAATTTATGTTAATAAATGAAATCATATTTTTTTATTAAAAATTATTAAAAATAAGTA
650 TATTTAAAAATTTATGTTAATAAATGAAATCATATTATTTTATTAAAAATTATTAAAAATAAGTA
* * * * *
494529 CAAATAATTTTTATTTTAATAGGGCAACACTACACTAAAACAATTATTATTCACCAACATTTTTT
715 TAGATAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTT
* * *
494594 TTTCT-GGGTTTATAAAAGTGTTGGGTTTTCTCATTTAAATTTTTAATTTTCTTGGCATAAATAG
780 TTTCTGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAATAA
494658 AGTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAA
845 AGTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAA
494699 AATCCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
1 AATCCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
494764 CATCTTATTGATAGCTTGCCCGTTAACTTCTTAATTTAAATCCCTCAGTTTGTTTTGATAGCCAG
66 CATCTTATTGATAGCTTGCCCGTTAACTTCTTAATTTAAATCCCTCAGTTTGTTTTGATAGCCAG
* * *
494829 CCGAAAATAGCTTTTGCCACGATATGGCATGATGAGGGTCATATTAAAAATGGAAAGTATAGGCA
131 CCGAAAATAGCTTTTGCCATGATATGGCATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGCA
**
494894 TCCAGTTGATTCCCTTGCTCAGAAATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTT
196 TCCAGTTGATTCCCTTGCTTGGAAATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTT
* * *
494959 ATAATGTTAGGCTAGGCTTGGCTAATGATAGATTTAATCCACTTCAATAATCAATAATAAGTATA
261 ATAATGTTAGGCTAGGCTTGGCTACTGATAGATTTAATCCATTTCAATAATGAATAATAAGTATA
495024 GTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGT
326 GTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGT
495089 TTTATTCTTTCCTTAATGATTTCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACA
391 TTTATTCTTTCCTTAATGATTTCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACA
*
495154 ACCTTTGATACACA-AATTAAAAGAA-ATACGAGAAATTGGTGTAAACATTTTTGATGGTTTTGC
456 ACCTTTGATACA-AGAATTAAAAGAATA-ATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGC
*
495217 TGGAGAGAATTTTCAATTACGTATCGCTGTAAAGTGGACAACAAATGACTTTTCGACAATAAATG
519 TGGAGAGAATTTTCAATTACGTATCGCTGTAAAGTGGACAACAAATGACTTTCCGACAATAAATG
* *
495282 ACTTTCGATAAAAATTTATATTCAAGTTTGATTTCACGTCGATAAGGTTAAGCTTATAATTTTGA
584 ACTTTCGATAAAAATTTATATTCAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGA
* * *
495347 ATGTTTAAAAATTTATGTTAATAAATGAAATCATATTTTTTTATTAAAAATTATAAAAAATAAGT
649 ATATTTAAAAATTTATGTTAATAAATGAAATCATATTATTTTATTAAAAATTATTAAAAATAAGT
* *
495412 ACAGATAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACATTTTT
714 ATAGATAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTT
* *
495477 TTTTTTTGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAATA
779 TTTTCTGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAATA
495542 AAGTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAAA
844 AAGTGCCCTTGATAAGGACACATTAAGCCTATATT-AAAAAAA
*
495585 AAACCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
1 AATCCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
*
495650 CATCTTATTGATAGCTTGCTCGTTAACTTCTTAATTTAAATCCCTCAGTTTGTTTTGATAGCCAG
66 CATCTTATTGATAGCTTGCCCGTTAACTTCTTAATTTAAATCCCTCAGTTTGTTTTGATAGCCAG
* * *
495715 CCGAAAATAGCTTTTTCCACGATATGGCATGATGAGGGTCATATTAAAGATGGAAAGTATAGGCA
131 CCGAAAATAGCTTTTGCCATGATATGGCATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGCA
* ** *
495780 TCTAGTTGATTCCCTTGCTCAGAAATCTTTTGATTTATATTATCTTAATTTTGCTTTAGATCCTT
196 TCCAGTTGATTCCCTTGCTTGGAAATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTT
*
495845 ATAATGTTAGGCTAGGCTTGGCTACTGATAGATTTAATTCATTTCAATAATGAATAATAAGTATA
261 ATAATGTTAGGCTAGGCTTGGCTACTGATAGATTTAATCCATTTCAATAATGAATAATAAGTATA
495910 GTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGT
326 GTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGT
495975 TTTATTCTTTCCTTAATGATTTCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACA
391 TTTATTCTTTCCTTAATGATTTCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACA
*
496040 ACCTTTGATACAAGAATTAAAAGAATAATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTA
456 ACCTTTGATACAAGAATTAAAAGAATAATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTG
* * * *
496105 GAGAGAATTTTCAATTATGTATCGCTGTAAAATGGACAACAAATGACTTTTCGACAACAAATGAC
521 GAGAGAATTTTCAATTACGTATCGCTGTAAAGTGGACAACAAATGACTTTCCGACAATAAATGAC
496170 TTTCGATAAAAATTTATATTCAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAAT
586 TTTCGATAAAAATTTATATTCAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAAT
* *
496235 ATTT-AAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTAT
651 ATTTAAAAATTTATGTTAATAAATGAAATCATATTATTTTATTAAAAATTATTAAAAATAAGTAT
* *
496299 AGATAATTTTTATTTTAATAAGGCAACACTATACTAAAAAAATTGTTATTCACCAACACTTTTTT
716 AGATAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTT
* *
496364 TTCTGGGAGTTTATAAAAGTTTTGGGTTTTCTCATTTAA-TTTTTATTTTTCTTGGCATATATAA
781 TTCTGGG-GTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAATAA
496428 AGTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAA
845 AGTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAA
* *
496469 AATCCTTTCATTTTCTCAAAACACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
1 AATCCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
* * * * * *
496534 CATCTTATTGATAGCTTGCCCATTAACTTCTTGATCTAATTCTCTAAGTTTGTTTTGATAGCCAG
66 CATCTTATTGATAGCTTGCCCGTTAACTTCTTAATTTAAATCCCTCAGTTTGTTTTGATAGCCAG
* * ** *
496599 TCAAAAATAGCTTTTATCATGATATGGCATGATGAGGGTCGTATTAAAGATGGAAAGTGTAGGCA
131 CCGAAAATAGCTTTTGCCATGATATGGCATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGCA
* * *
496664 TCCAGTTGATTCCCTTGCTTGGAAATCTTTTGATTCATAGTATCTTAATTTTACTTTAGATCCTC
196 TCCAGTTGATTCCCTTGCTTGGAAATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTT
* * * *
496729 ATAATGTTAGGCTAGGCTTGGCTACTGATGGATTTAATCAATTTAAGACAATGAATAATAAGTAT
261 ATAATGTTAGGCTAGGCTTGGCTACTGATAGATTTAATCCATTTCA-ATAATGAATAATAAGTAT
*
496794 AGTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCTTAGTTGTCTGTCAAAGAGTCAAG
325 AGTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAG
* *
496859 TTTTATTCTTTCCTGAATGATTCCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTAC
390 TTTTATTCTTTCCTTAATGATTTCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTAC
*
496924 AACCTTTGATACATGAATTAAAAGAATAATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCT
455 AACCTTTGATACAAGAATTAAAAGAATAATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCT
* * * *
496989 AGAGAGAATTTTCAATTATGTATCGCTGTAAAATGGACAACAAATGACTTTCCGACAACAAATGA
520 GGAGAGAATTTTCAATTACGTATCGCTGTAAAGTGGACAACAAATGACTTTCCGACAATAAATGA
*
497054 CTTTCGATAAAAATTTATATATCAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTCA
585 CTTTCGATAAAAATTTATAT-TCAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGA
* * *
497119 ACATTTAAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGT
649 ATATTTAAAAATTTATGTTAATAAATGAAATCATATTATTTTATTAAAAATTATTAAAAATAAGT
* *
497184 ATAGATAGTTTTTATTTTAATAAGGCAACACTACACTAAAAAAAATATTATTCACCAACACTTTT
714 ATAGATAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACAC-TTT
*
497249 TTTTTCTGGGGTTTATAAAAGTGTTGGGTTTTGTCATTTAA-TTTTTATTTTTCTTGGCATAAAT
778 TTTTTCTGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAAT
497313 AAAGTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAA
843 AAAGTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAA
*
497356 AA--CTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTATTAAGCCCAAAACAATTTTTT
1 AATCCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
* * * * * ** *
497419 CATCTTATTGAAAGCTTGCCCATTAACTTCTTGATCTATATCTTTGAGTTTGTTTTGATAGCCAG
66 CATCTTATTGATAGCTTGCCCGTTAACTTCTTAATTTAAATCCCTCAGTTTGTTTTGATAGCCAG
497484 CCGAAAATAGCTTTTGCC------T-G-AT-A--AGGGTCGTATTAAAGATGGAAAGTATAGGCA
131 CCGAAAATAGCTTTTGCCATGATATGGCATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGCA
*
497538 TCCAGTTGATTCCCTTGCTTGGAAATCTTTTGATTTATAGTATCTTAATTTTTCTTTAGAT-CTT
196 TCCAGTTGATTCCCTTGCTTGGAAATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTT
* * * * *
497602 CATAATGTTAGGTTAAGCTTGGCTACTAATGGATTTAATCCA-TT-GATAATGAATAATAAGTAT
261 -ATAATGTTAGGCTAGGCTTGGCTACTGATAGATTTAATCCATTTCAATAATGAATAATAAGTAT
* *
497665 AGTGTTTGGCCTGTTATATTGATGCCATACAATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAG
325 AGTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAG
**
497730 TTTTATTCTTTCCTTAATGATTTCAAGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTAC
390 TTTTATTCTTTCCTTAATGATTTCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTAC
* * *
497795 AACCTTTAATACAAGAATTAAAAGAATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTCCT
455 AACCTTTGATACAAGAATTAAAAGAATAATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCT
* *
497860 GGAGAGAATTTTCAATTACGTATCGCTATAAAGTGGATAACAAATGACTTTCCGACAATAAATGA
520 GGAGAGAATTTTCAATTACGTATCGCTGTAAAGTGGACAACAAATGACTTTCCGACAATAAATGA
* *
497925 CTTTTGATAAAAATTTATATTCAAGTCTGATTTCACGTCGATATGGTTAAGCTCATAATTTTGAA
585 CTTTCGATAAAAATTTATATTCAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAA
* * *
497990 TATTTAAAAATTTATGTTAGTAAATGAAATCATAGTATTTTATTAAAAATTGTTAAAAATAAGT-
650 TATTTAAAAATTTATGTTAATAAATGAAATCATATTATTTTATTAAAAATTATTAAAAATAAGTA
* *
498054 TGAAATAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACTAACACTTTT
715 T-AGATAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTT
* * *
498119 TTTT-GGGGGTTTACAAAAGTGTTGGG-TTT-TCATTTAATTTTTTTGTTTTTCTTGGCATAAAT
779 TTTTCTGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAA-TTTTTTATTTTTCTTGGCATAAAT
* *
498181 AAAGTG-CCTTGATAAGGACATATTAAGCCAATATTAAAAAAAA
843 AAAGTGCCCTTGATAAGGACACATTAAGCCTATATT-AAAAAAA
** * *
498224 AATCCTTTCATTTACTCAAAATACATTTTAAATGCATTAAATTCTTAGGCCCAAAATAATTTTTT
1 AATCCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
* * * * * * *
498289 CACCTTATTGATAGCTTGCCCATTTACTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAG
66 CATCTTATTGATAGCTTGCCCGTTAACTTCTTAATTTAAATCCCTCAGTTTGTTTTGATAGCCAG
* *
498354 CCGAAAATAGCTTTTGCCATGATATAGCACGATGAGGGTCGTATTAAAGATTGGAAAGTATAGGC
131 CCGAAAATAGCTTTTGCCATGATATGGCATGATGAGGGTCGTATTAAAGA-TGGAAAGTATAGGC
* *
498419 ATCTAGTTGATTCCCTTGCTTGGAAATCTTTTGATTTAGAGTATCTTAATTTTGCTTTAGATCCT
195 ATCCAGTTGATTCCCTTGCTTGGAAATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCT
* * * ** * * * * *
498484 CATAATGTTACGCTAGGCTTGGCTACTAAGGGATTTAATCTATTTAAGACAATAAATAATAAATA
260 TATAATGTTAGGCTAGGCTTGGCTACTGATAGATTTAATCCATTTCA-ATAATGAATAATAAGTA
* * * * * *
498549 TAGTGTTTGGCCTGTTTTATTGATACCATACAATTTGTCTCCTTAGTTGTATGTGAGAGAGTCAA
324 TAGTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAA
* * *
498614 GTTTTATTCTTTCCTTAATGATTCCGAGTAAGAATAGGCCTAGAAATAATATTGATGTTTACTTA
389 GTTTTATTCTTTCCTTAATGATTTCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTA
* * * *
498679 CAACCTTTGATGCAAGAATTAAAAGAATTATGACAAATTGGTGTAAAAAGTTTTT-ATGGTTTTG
454 CAACCTTTGATACAAGAATTAAAAGAATAATGAGAAATTGGTGTAAACA-TTTTTGATGGTTTTG
* * * *
498743 CTGGAGAGAATTTTCAATTACGTATCACTATAAAGTGGGCAACAAATGACTTACCGACAA
518 CTGGAGAGAATTTTCAATTACGTATCGCTGTAAAGTGGACAACAAATGACTTTCCGACAA
498803 GTAGAGATTT
Statistics
Matches: 6338, Mismatches: 323, Indels: 137
0.93 0.05 0.02
Matches are distributed among these distances:
866 8 0.00
867 56 0.01
868 554 0.09
869 577 0.09
870 297 0.05
871 280 0.04
873 4 0.00
874 127 0.02
875 6 0.00
876 4 0.00
877 3 0.00
878 2 0.00
879 4 0.00
880 1 0.00
881 571 0.09
882 299 0.05
883 555 0.09
884 1101 0.17
885 942 0.15
886 722 0.11
887 212 0.03
888 13 0.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.38
Consensus pattern (885 bp):
AATCCTTTCATTTACTCAAAATACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTT
CATCTTATTGATAGCTTGCCCGTTAACTTCTTAATTTAAATCCCTCAGTTTGTTTTGATAGCCAG
CCGAAAATAGCTTTTGCCATGATATGGCATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGCA
TCCAGTTGATTCCCTTGCTTGGAAATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTT
ATAATGTTAGGCTAGGCTTGGCTACTGATAGATTTAATCCATTTCAATAATGAATAATAAGTATA
GTGTTTGGCATGTTATATTGATGCCATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGT
TTTATTCTTTCCTTAATGATTTCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACA
ACCTTTGATACAAGAATTAAAAGAATAATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTG
GAGAGAATTTTCAATTACGTATCGCTGTAAAGTGGACAACAAATGACTTTCCGACAATAAATGAC
TTTCGATAAAAATTTATATTCAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAAT
ATTTAAAAATTTATGTTAATAAATGAAATCATATTATTTTATTAAAAATTATTAAAAATAAGTAT
AGATAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTT
TTCTGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAATAAA
GTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAA
Found at i:497047 original size:18 final size:18
Alignment explanation
Indices: 497024--497058 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
497014 CTGTAAAATG
497024 GACAACAAATGACTTTCC
1 GACAACAAATGACTTTCC
497042 GACAACAAATGACTTTC
1 GACAACAAATGACTTTC
497059 GATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (18 bp):
GACAACAAATGACTTTCC
Found at i:503967 original size:32 final size:33
Alignment explanation
Indices: 503925--504000 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
503915 TCCAAAGCTG
503925 TTAACTTTGATTATAGAT-TTATACACTTTTGA
1 TTAACTTTGATTATAGATATTATACACTTTTGA
* *
503957 TTAACCTTGATTATAGATATTATACACTTTTGG
1 TTAACTTTGATTATAGATATTATACACTTTTGA
503990 TTAACTTTGAT
1 TTAACTTTGAT
504001 CAAATTTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 17 0.43
33 23 0.57
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (33 bp):
TTAACTTTGATTATAGATATTATACACTTTTGA
Found at i:504151 original size:108 final size:108
Alignment explanation
Indices: 503962--504181 Score: 280
Period size: 108 Copynumber: 2.0 Consensus size: 108
503952 TTTGATTAAC
* * *
503962 CTTGATTATAGATATTATACACTTTTGGTTAACTTTGATCAAATTTCTTAAAGTGGTTTGACATG
1 CTTGATCATAGATATTATACACTTTTGGTTAACTTTAATCAAATTTCTCAAAGTGGTTTGACATG
* * * * * *
504027 GTAGTTCGCTTTTTTCTTAAAAAAGAAAGTTCTTGTGTTATAA
66 ATAGTTCGCGTTTTTCTCAAAAAAGAAAGCTCTTATGTTACAA
* * * * *
504070 CTTGATCATAGATGTTATACACTTTTGGTTAATTTTAATTAAATTT-TCCAAGGTTGTTTGACAT
1 CTTGATCATAGATATTATACACTTTTGGTTAACTTTAATCAAATTTCT-CAAAGTGGTTTGACAT
* *
504134 GATAGTTTGCGTTTTTCTCAAAAAAGAGAGCTCTTATGTTACAA
65 GATAGTTCGCGTTTTTCTCAAAAAAGAAAGCTCTTATGTTACAA
504178 CTTG
1 CTTG
504182 GTTTATTTAT
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
107 1 0.01
108 94 0.99
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (108 bp):
CTTGATCATAGATATTATACACTTTTGGTTAACTTTAATCAAATTTCTCAAAGTGGTTTGACATG
ATAGTTCGCGTTTTTCTCAAAAAAGAAAGCTCTTATGTTACAA
Found at i:509986 original size:5 final size:6
Alignment explanation
Indices: 509971--510008 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
509961 ATATATAATG
509971 TGTATT TGTA-T TGTATT TGTATT TGTACTT T-TATT TGT
1 TGTATT TGTATT TGTATT TGTATT TGTA-TT TGTATT TGT
510009 GTATTGGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 8 0.28
6 18 0.62
7 3 0.10
ACGTcount: A:0.16, C:0.03, G:0.16, T:0.66
Consensus pattern (6 bp):
TGTATT
Found at i:510166 original size:75 final size:76
Alignment explanation
Indices: 510087--510244 Score: 232
Period size: 76 Copynumber: 2.1 Consensus size: 76
510077 TATTGAAATA
*
510087 AATTTTAGATTTTTAATAATG-AA-ACATTTATC-GCATAAAAATACAAAAAATTAAAATTTTAA
1 AATTTTAAATTTTTAATAATGAAATACATTTATCAG-ATAAAAATA-AAAAAATTAAAATTTTAA
510149 ATATTTATAGACT
64 ATATTTATAGACT
* **
510162 AATTTTAAATTTTTAATAATGAAATACATTTATCAGATAAAAATATAAAAATTAAAATTTTTTAT
1 AATTTTAAATTTTTAATAATGAAATACATTTATCAGATAAAAATAAAAAAATTAAAATTTTAAAT
510227 ATTTATAGACT
66 ATTTATAGACT
*
510238 ACTTTTA
1 AATTTTA
510245 TTGGATAAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
75 20 0.27
76 36 0.48
77 18 0.24
78 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (76 bp):
AATTTTAAATTTTTAATAATGAAATACATTTATCAGATAAAAATAAAAAAATTAAAATTTTAAAT
ATTTATAGACT
Found at i:511360 original size:156 final size:157
Alignment explanation
Indices: 511070--511379 Score: 466
Period size: 157 Copynumber: 2.0 Consensus size: 157
511060 CTTTTAGATC
**
511070 AAATTTTAGGTTTAATTGTTAACCTTTCACCCTTTGGAAAGACTAGTATTGAAGCAATCCAAAAA
1 AAATTTTACATTTAATTGTTAACCTTTCACCCTTTGGAAAGACTAGTATTGAAGCAATCCAAAAA
* ** * *
511135 AGCAAAATTTTACTCATATTGCAAGTAGTTTTTTTTCTTATGAGATGACTCATAAATTTTCTTTT
66 AGCAAAATTTTACCCATATTGCAAACAGTTTTTTTTCTTATGAGATAACTCATAAATTTTCTTTA
511200 AAAAA-ATCTAAAATATTAGATTTAAG
131 AAAAATATCTAAAATATTAGATTTAAG
*
511226 AAATTTTACATTTAATTGTTAACCTTTCACCCTTTGGAAAAGAGTAGTATTGAAGCAATCCAAAA
1 AAATTTTACATTTAATTGTTAACCTTTCACCCTTTGG-AAAGACTAGTATTGAAGCAATCCAAAA
* * *
511291 GAGCCAAATTTTGCCCATATTGCAAACAG-TTTTTTTCTTATGAGATAACTCAT-AATTGTT-TT
65 AAGCAAAATTTTACCCATATTGCAAACAGTTTTTTTTCTTATGAGATAACTCATAAATT-TTCTT
511353 TAAAAAAATATCTAAAATATTAGATTT
129 T-AAAAAATATCTAAAATATTAGATTT
511380 GAGGTTTTGT
Statistics
Matches: 139, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
155 7 0.05
156 65 0.47
157 67 0.48
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.38
Consensus pattern (157 bp):
AAATTTTACATTTAATTGTTAACCTTTCACCCTTTGGAAAGACTAGTATTGAAGCAATCCAAAAA
AGCAAAATTTTACCCATATTGCAAACAGTTTTTTTTCTTATGAGATAACTCATAAATTTTCTTTA
AAAAATATCTAAAATATTAGATTTAAG
Found at i:511528 original size:30 final size:30
Alignment explanation
Indices: 511494--511555 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
511484 TATAAATGTG
*
511494 AACAATGAATAACATGATTGTTGTAATCAA
1 AACAATGAATAACATGATTGTTGTAAGCAA
511524 AACAATGAATAACATGATTGTTGTAAGCAA
1 AACAATGAATAACATGATTGTTGTAAGCAA
511554 AA
1 AA
511556 GTAGAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (30 bp):
AACAATGAATAACATGATTGTTGTAAGCAA
Found at i:512075 original size:2 final size:2
Alignment explanation
Indices: 512041--512094 Score: 65
Period size: 2 Copynumber: 27.5 Consensus size: 2
512031 AAAGTTGAAA
* * * *
512041 AT AT AT AC AT AA AT AG AT AT A- AT AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
512082 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
512095 AAGCACATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (2 bp):
AT
Found at i:516577 original size:17 final size:17
Alignment explanation
Indices: 516535--516577 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
516525 TGAGATTGAA
*
516535 TGTATGCAAGAGGAGTTT
1 TGTA-GCAAGAGGAGTTG
516553 TGCT-GCAAGAGGAGTTG
1 TG-TAGCAAGAGGAGTTG
516570 TGTAGCAA
1 TGTAGCAA
516578 TTCCTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 1 0.05
17 18 0.82
18 2 0.09
19 1 0.05
ACGTcount: A:0.28, C:0.09, G:0.35, T:0.28
Consensus pattern (17 bp):
TGTAGCAAGAGGAGTTG
Found at i:517077 original size:46 final size:44
Alignment explanation
Indices: 517005--517133 Score: 116
Period size: 45 Copynumber: 2.8 Consensus size: 44
516995 TGGGTGGATA
* * * *
517005 ATTTGTAGCTTTCT-TCATGCACAAGCTATGAGTAGTTTCCTAAAAG
1 ATTTATAGCTTTCTCT-GTGCAAAAGCTATCA-TAGTTT-CTAAAAG
* * **
517051 ATTTATAGCTTTCTCTGTGCAAAAGCTACTCATTGTTTGTTGAAG
1 ATTTATAGCTTTCTCTGTGCAAAAGCTA-TCATAGTTTCTAAAAG
* *
517096 ATTTATAGCTTTCTCTGTGCAAAAACTATTCATTGTTT
1 ATTTATAGCTTTCTCTGTGCAAAAGCTA-TCATAGTTT
517134 GTTGGAGGTT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
45 40 0.56
46 28 0.39
47 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (44 bp):
ATTTATAGCTTTCTCTGTGCAAAAGCTATCATAGTTTCTAAAAG
Found at i:517107 original size:45 final size:46
Alignment explanation
Indices: 517048--517171 Score: 178
Period size: 45 Copynumber: 2.7 Consensus size: 46
517038 AGTTTCCTAA
517048 AAGATTTATAGCTTTCTCTGTGCAAAAGCTACTCATTGTTTGTT-G
1 AAGATTTATAGCTTTCTCTGTGCAAAAGCTACTCATTGTTTGTTGG
* *
517093 AAGATTTATAGCTTTCTCTGTGCAAAAACTATTCATTGTTTGTTGG
1 AAGATTTATAGCTTTCTCTGTGCAAAAGCTACTCATTGTTTGTTGG
* * * **
517139 AGGTTTTATAGCTTTCTCTATATAAAAGCTACT
1 AAGATTTATAGCTTTCTCTGTGCAAAAGCTACT
517172 AGATGTGTGT
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
45 42 0.61
46 27 0.39
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.43
Consensus pattern (46 bp):
AAGATTTATAGCTTTCTCTGTGCAAAAGCTACTCATTGTTTGTTGG
Found at i:518775 original size:15 final size:15
Alignment explanation
Indices: 518752--518782 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
518742 CATAATATGA
*
518752 TTTTTCTTTTAAATG
1 TTTTCCTTTTAAATG
518767 TTTTCCTTTTAAATG
1 TTTTCCTTTTAAATG
518782 T
1 T
518783 GATTATGATC
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:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTCCTTTTAAATG
Found at i:519412 original size:15 final size:15
Alignment explanation
Indices: 519392--519422 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
519382 CTGAAGTATA
519392 ATTTAAGTAATTCTT
1 ATTTAAGTAATTCTT
519407 ATTTAAGTAATTCTT
1 ATTTAAGTAATTCTT
519422 A
1 A
519423 CTTATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (15 bp):
ATTTAAGTAATTCTT
Found at i:524403 original size:2 final size:2
Alignment explanation
Indices: 524398--524427 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
524388 TTTTCTGCAC
524398 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
524428 ATGTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:528454 original size:87 final size:87
Alignment explanation
Indices: 528308--528474 Score: 318
Period size: 87 Copynumber: 1.9 Consensus size: 87
528298 TTGTGTCTCA
528308 AGTCTTTTACGTGAGCACTGCCCCTGCCTGAACCACCAATTGCTATTTGTAATTACAAACTTGTC
1 AGTCTTTTACGTGAGCACTGCCCCTGCCTGAACCACCAATTGCTATTTGTAATTACAAACTTGTC
528373 TCTTTTCATTAATTGACGACAG
66 TCTTTTCATTAATTGACGACAG
528395 AGTCTTTTACGTGAGCACTAG-CCCTGCCTGAACCACCAATTGCTATTTGTAATTACAAACTTGT
1 AGTCTTTTACGTGAGCACT-GCCCCTGCCTGAACCACCAATTGCTATTTGTAATTACAAACTTGT
528459 CTCTTTTCATTAATTG
65 CTCTTTTCATTAATTG
528475 CGAGGGGCCT
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
87 78 0.99
88 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (87 bp):
AGTCTTTTACGTGAGCACTGCCCCTGCCTGAACCACCAATTGCTATTTGTAATTACAAACTTGTC
TCTTTTCATTAATTGACGACAG
Found at i:531175 original size:18 final size:18
Alignment explanation
Indices: 531152--531186 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
531142 CTGTAAAGTG
531152 GACAACAAATGACTTTCC
1 GACAACAAATGACTTTCC
531170 GACAACAAATGACTTTC
1 GACAACAAATGACTTTC
531187 GATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (18 bp):
GACAACAAATGACTTTCC
Found at i:531843 original size:890 final size:888
Alignment explanation
Indices: 528553--534722 Score: 9914
Period size: 888 Copynumber: 7.0 Consensus size: 888
528543 TGATTGATTT
* *
528553 GATAAAAATTTATACTCAAGTCTGATTTCACGTC------GTTAAGCTCATAATTTTGAATATTT
1 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
*
528612 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAGAT
66 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
* * *
528677 AATTTTTATTTTAATAAGACAACACTACACTAAAAAAAATATTATTCACCAACACTTTTTTTTTT
131 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTCT
*
528742 GGGGTTTAGTTTATAAAAGTGTTGGGTTTTCTCATTT-AATTTTTTATTTTTCTT-GCATAAATA
196 -GGG----GTTTATAAAAGTGTTGGGTTTTCTCATTTAAATTTTTTGTTTTTCTTGGCATAAATA
* *
528805 AAGTGCCCTTGATAAGGACACATTAAGCCTGTATT-AAAAAAAATCCTTTCATTTACTCAAAACA
256 AAGTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATA
* *
528869 CATTTTAAACCCATTAAATTCTTAAGCCTAAAACAATTTTTTCATCTTATTGATAGCTTGCCAAT
321 CATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCAT
* **
528934 TAACTTCTTGATCTAAATCTCTAAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTATCATGAT
386 TAACTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGAT
* * * * *
528999 ATGGCATGATAAAGATCTTATTAAAGA-TGGAAAGTATAGGCATCCAGTTGATTCTCTTGCTTGG
451 ATGGCATGATGAGGGTCGTATTAAAGATTGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGG
*
529063 AAATCTTTTGATTTATAGTATCTTAATTTTACTTTAGATCCTCATAATGTTAGGCTAGGCTTGGC
516 AAATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGC
*
529128 TACTAATGGATTTAATCCATTTAAGACAATAAATAATAAGTATAGTGTTTGGCCTGTTATATTGA
581 TACTAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGA
*
529193 TACCATACAATTTGCCTCCTTAGTTGTTTGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATT
646 TACCATACAATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATT
* * *
529258 TCGTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAACTAAA
711 CCGAGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAA
* * *
529323 AGAAATATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTAGAGAAAATTTTCAATTACGTA
776 AGAATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTA
529388 TCGC--T---GT-----A-AAATG-------GACAACAAATGACTTTC
841 TCGCTGTAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
* * * *
529418 GATAAAACTTTATATTCAAGTCTAATTTCACGTCGATAAGGTTAAGCTCATAAATTTGAATATTT
1 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
*
529483 AAAAATTTATGTTAGCAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
66 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
*
529548 AATTTTTATTTTAATAAGGCAACACCACACTAAAAAAATTATTATTCACCAACAC-TTTTTTTCT
131 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTCT
* * * *
529612 AGGGTTTATAAAAGTATTGGGTTTTCTCATTT-AA-TTTTTATTTTTCTTAGCATAAATAAAGTG
196 GGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAAATTTTTTGTTTTTCTTGGCATAAATAAAGTG
** *
529675 CCCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAAAGCTTTTATTTACTCAAAATACATTT
261 CCCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATACATTT
* * * *
529740 TTAACCCATTAAATTCTCAAGCCCAAAACAAATTTTTTTATCTTATTGACAGCTTGCCCATTAAC
326 TAAACCCATTAAATTCTTAAGCCCAAAAC-AATTTTTTCATCTTATTGATAGCTTGCCCATTAAC
* * * *
529805 TTCTTGATCTATATCTTTGAGTTTATTTTGATAGCCAGTCGAAAATAGCTTTTGCCATGATATGG
390 TTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATGG
* *
529870 CATGATAAGGGTCGTATTAAAGA-TGGAAAATATAAGG-ATCCAGTTGATTCCCTTGCTTGGAAA
455 CATGATGAGGGTCGTATTAAAGATTGGAAAGTAT-AGGCATCCAGTTGATTCCCTTGCTTGGAAA
*
529933 TCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTTATAATGTTAGGCTAGGCTTGGCTAC
519 TCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTAC
* *
529998 TAATGGATTTAATCCATTTAAGACCATAAATAATAAGTATAGTGTTTGGCCTGTTATATTGATAC
584 TAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATAC
* * *
530063 GATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTTCG
649 CATACAATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTCCG
* * * *
530128 TGTAAGAATAGACCTCGAAATAATATTGATGTTTAGTTACAACCTTTGATACAAGAATTAGAAGA
714 AGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGA
* * * * *
530193 AATATGAGAAATTGGTGTAAACATTTTTGATGGTTTTCCTAGAGAAAATTTTCAATTACGTATCA
779 ATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATCG
* * * *
530258 CTATAAAATGGATAACAAATGACTTTCCGACAACAAATGACTTTT
844 CTGTAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
* * *
530303 GATAAAAATTTATATTCAAGTCTAATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATACTT
1 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
*
530368 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAGAT
66 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
* *
530433 AA--TTT-TTTTAAGAAGGCAACACTACACTAAAAAAATTGTTATTCACCAACAC-TTTTTTT-T
131 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTCT
*
530493 GGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTTGTTTTTCTTGGCATAAATAAAGTG
196 GGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAAATTTTTTGTTTTTCTTGGCATAAATAAAGTG
* *
530558 CCCCTGATAAGGACGCATTAAGCCTATATTTAAAAAAAAAATCCTTTCATTTACTCAAAATACAT
261 CCCTTGATAAGGACACATTAAGCCTATA-TT-AAAAAAAAATCCTTTCATTTACTCAAAATACAT
* * *
530623 TTTAAACCCATTAAATTCTTTAGCCTAAAACAATTTTTTCCTCTTATTGATAGCTTGCCCATTAA
324 TTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAA
* * * * * *
530688 CTCCTTGATCTATATCTTTGAGTATGCTTTGATAGCCAGGCGAAAATAGCTTTTGCCATGATATG
389 CTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATG
*
530753 GCATGATGAGGGTTGTATTAAAGA-TGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAA
454 GCATGATGAGGGTCGTATTAAAGATTGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAA
* * *
530817 TCTTTTGATTTATAGTATCTTAATTTTGCTCTAGATCCTCATAATGTTCGGTTAGGCTTGGCTAC
519 TCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTAC
* *
530882 TGATGGATTTAATCTATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATAC
584 TAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATAC
* * * * *
530947 CATACAATTTGCCTCCTTAGTTGTCTATGAAAGAGTCAAGTTTTATTCTTTCTTTAAGGATTTCG
649 CATACAATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTCCG
531012 AGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGA
714 AGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGA
* *
531077 ATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGTGAATTTTCAATTACGTATGG
779 ATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATCG
531142 CTGTAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
844 CTGTAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
* *
531187 GATAAAAATTGATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTAAATATTT
1 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
531252 AAAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGA
66 -AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGA
531317 TAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTC
130 TAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTC
531382 TGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAAATTTTTTGTTTTTCTTGGCATAAATAAAGT
195 TGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAAATTTTTTGTTTTTCTTGGCATAAATAAAGT
*
531447 GCCCTTGATAAGGACACTTTAAGCCTATATTTAAAAAAAAATCCTTTCATTTACTCAAAATACAT
260 GCCCTTGATAAGGACACATTAAGCCTATA-TTAAAAAAAAATCCTTTCATTTACTCAAAATACAT
* * * *
531512 TTTAAACCCATTAAATTCTTAAGCCCAAAATAATTATTTCATCTTATTGGTAACTTGCCCATTAA
324 TTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAA
* *
531577 CTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCTAGTCGAAAATAGCTTTTGCCATGATATG
389 CTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATG
* ** * * *
531642 GCATGATGAGGGTCATATTAAAGATTACAAAGCATAGGTATCCAGTTGATTCCCTTGCTAGGAAA
454 GCATGATGAGGGTCGTATTAAAGATTGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAA
* * *
531707 TCTTCTGATTTATAGCATCTTAATTTTGCTTTGGATCCTCATAATGTTAGGCTAGGCTTGGCTAC
519 TCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTAC
** * *
531772 TAACAGATTTAATCCATTTAAGAGAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATTC
584 TAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATAC
* *
531837 CATACAATTTGCCTCTTTAGTTGTATGTGAGAGAGTCAAGTTTTATTCTTTCCTTAATGATTCCG
649 CATACAATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTCCG
* *
531902 AGTAAGAATAGACCTAGAAATAATATTGATGTTTTCTTACTACCTTTGATACAAGAATTAAAAGA
714 AGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGA
* *
531967 ATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTACTGGAAAGAATTTTCAATTACGTATCG
779 ATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATCG
**
532032 CTGTAAAACGGACAACAAATGACTTTCCGACAACAAATGACTTTC
844 CTGTAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
*
532077 GATAAAAATTTATACTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
1 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
* * *
532142 AAACATTTATGTTAGTAAATGAAATCATATTATTTTATTGATAATTGTTAAAAATAAGTATAGAT
66 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
532207 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTTC
131 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACAC-TTTTTTTTC
*
532272 TGGGGTTTAGTTTATAAAAGTGTTGGGTTTTCTCATTT-AATTTTTTATTTTTCTTGGCATAAAT
195 T-GGG----GTTTATAAAAGTGTTGGGTTTTCTCATTTAAATTTTTTGTTTTTCTTGGCATAAAT
*
532336 AAAATGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAAT
255 AAAGTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAAT
532401 ACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCA
320 ACATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCA
* * * * *
532466 TTAACTTCTTAATTTAAATCGCTAAGTTTGTTTTGATAGCCAGCCGGAAATAGCTTTTGCCATGA
385 TTAACTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGA
* *
532531 TATGGCATGATGAGGGTCGTATTAAAGA-TGGAAAGTATAGGTATCCAGTTGATTCCCTTGCTTA
450 TATGGCATGATGAGGGTCGTATTAAAGATTGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTG
* *
532595 GAAATCTTTTGATTTATAGCATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGTTAGGCTTGG
515 GAAATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGG
* * * *
532660 CTACTGATGGATTCAATCCATTTAAGATAATGAATAATAAGTATAGTGTTTGGCCTGTTATATGG
580 CTACTAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTG
* * *
532725 ATACCATACAATTTGCCTCCTTAGTTGTCTGTGAAATAGTCAAGTTTTATTCTTTCCTTAAGGAT
645 ATACCATACAATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGAT
*
532790 TCCGAGTAAGAATAGACCTAGAAATAATATTGATATTTACTTACAACCTTTGATACAAGAATTAA
710 TCCGAGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAA
* *
532855 AAGAATTATGAGGAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCATTTACGT
775 AAGAATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGT
* * *
532920 ATGGCTGTGAAGTGGACAACAAATGACTTTCCAACAACAAATGACTTTC
840 ATCGCTGTAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
**
532969 GATTCAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
1 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
*
533034 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAGAT
66 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
* *
533099 AA-TTTT-TTTTAAGAAGGCATCACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTT-T
131 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTCT
*
533161 GGGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTTGTTTTTCTTGGCATAAATAAAG
196 --GGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAAATTTTTTGTTTTTCTTGGCATAAATAAAG
* * *
533226 TGCCCCTGATAAGGACGCATTAAGCCTATATTTAAAAAAAAATCCTTTCATTTACTGAAAATACA
259 TGCCCTTGATAAGGACACATTAAGCCTATA-TTAAAAAAAAATCCTTTCATTTACTCAAAATACA
*
533291 TTTTAAACCCATTAAATTCTTAAGCCCAAAATAATTTTTTCATCTTATTGATAGCTTGCCCATTA
323 TTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTA
* * *
533356 ACTTCGTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCAAAAATAGCTTTCGCCATGATAT
388 ACTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATAT
* * * *
533421 GGCATGATGAGGGTCATATTAAAGATTAGAAAGTTTAGGTATCCAGTTGATTCCCTTGCTTGGAA
453 GGCATGATGAGGGTCGTATTAAAGATTGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAA
* * *
533486 ATCTTTTGATTTATAGTATCTTAATTTTACTTTAGATCCTCATAATGTTTGGCTAGGCTTGGCAA
518 ATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTA
*
533551 CTAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTATTATATTGATA
583 CTAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATA
* *
533616 CCATACAATTTGCCTCTTTAGTTGTATGTGAGAGAGTCAAGTTTTATTCTTTCCTTAATGATTCC
648 CCATACAATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTCC
* *
533681 GAGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACGAGAATTAAAAA
713 GAGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAG
*
533746 AATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGGGAATTTTCAATTACGTATC
778 AATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATC
*** * *
533811 GCTGTAAAACAGACAACAAATGACTTTTCGACAACAAATGACTTTT
843 GCTGTAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
* * *
533857 GATAGAAATTTATGTTGAAGTCTGATTTCACGTCGATATGGTTAAGCTCATAATTTTGAATATTT
1 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
* * * * *
533922 AAACATTTTTGTTAGTAAATGAAATCATATTATTTTATTGATAATTGTTAAAAATAATTATAGAT
66 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
533987 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACAC-TTTTTTTCT
131 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTCT
*
534051 GGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTTGTTTTTCTTGGCATAAATAAAGTG
196 GGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAAATTTTTTGTTTTTCTTGGCATAAATAAAGTG
*
534116 CCCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATGCATTT
261 CCCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATACATTT
*
534181 TAAACCCATTAAATTCTTAAGCCCAAAATAATTTTTTCATCTTATTGATAGCTTGCCCATTAACT
326 TAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAACT
*
534246 TCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCTAGCCGAAAATAGCTTTTGCCATGATATGGC
391 TCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATGGC
* *
534311 ATGATGAGGGTC-TATTAAAAATTGGAAAGTATAGGCATCCAATTGATTCCCTTGCTTGGAAATC
456 ATGATGAGGGTCGTATTAAAGATTGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAATC
* *
534375 TTTTGATTTAAAGTATCTTAATTTTGCCTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTACTA
521 TTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTACTA
*
534440 AGGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATACCA
586 ATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATACCA
534505 TACAATTTGCCTCCTTAGTTGTATGTGAGAA-AGTCAAGTTTTATTCTTTCCTTAATGATTCCGA
651 TACAATTTGCCTCCTTAGTTGTATGTGA-AAGAGTCAAGTTTTATTCTTTCCTTAATGATTCCGA
* *
534569 GTAAGAATAGACCTAGAAATATTATTGATGTTTACTTACATCCTTTGATACAAGAATTAAAAGAA
715 GTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGAA
* * *
534634 TTATGAGAAATTGGTGTAAACATTTTTAATGGTTTTGCTGGAGAGAATTTTCAATTATGTATCAC
780 TTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATCGC
534699 TGTAAAGTGGACAACAAATGACTT
845 TGTAAAGTGGACAACAAATGACTT
534723 ATTGACATAT
Statistics
Matches: 4928, Mismatches: 323, Indels: 87
0.92 0.06 0.02
Matches are distributed among these distances:
864 14 0.00
865 104 0.02
866 56 0.01
867 459 0.09
868 3 0.00
869 3 0.00
870 8 0.00
871 139 0.03
872 1 0.00
877 1 0.00
878 5 0.00
881 31 0.01
882 52 0.01
883 59 0.01
884 553 0.11
885 295 0.06
886 428 0.09
887 355 0.07
888 637 0.13
889 318 0.06
890 634 0.13
891 7 0.00
892 503 0.10
893 177 0.04
894 57 0.01
895 29 0.01
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (888 bp):
GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTCT
GGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAAATTTTTTGTTTTTCTTGGCATAAATAAAGTG
CCCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATACATTT
TAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAACT
TCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATGGC
ATGATGAGGGTCGTATTAAAGATTGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAATC
TTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTACTA
ATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATACCA
TACAATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTCCGAG
TAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGAAT
TATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATCGCT
GTAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
Found at i:532065 original size:18 final size:18
Alignment explanation
Indices: 532042--532076 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
532032 CTGTAAAACG
532042 GACAACAAATGACTTTCC
1 GACAACAAATGACTTTCC
532060 GACAACAAATGACTTTC
1 GACAACAAATGACTTTC
532077 GATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (18 bp):
GACAACAAATGACTTTCC
Found at i:533723 original size:888 final size:885
Alignment explanation
Indices: 528553--534722 Score: 9919
Period size: 890 Copynumber: 7.0 Consensus size: 885
528543 TGATTGATTT
* *
528553 GATAAAAATTTATACTCAAGTCTGATTTCACGTC------GTTAAGCTCATAATTTTGAATATTT
1 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
*
528612 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAGAT
66 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
* *
528677 AATTTTTATTTTAATAAGACAACACTACACTAAAAAAAATATTATTCACCAACACTTTTTTTTTT
131 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACAC-TTTTTTTTT
*
528742 GGGGTTTAGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTT-GCATAAATAA
195 -GGG----GTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTGTTTTTCTTGGCATAAATAA
* *
528806 AGTGCCCTTGATAAGGACACATTAAGCCTGTATT-AAAAAAAATCCTTTCATTTACTCAAAACAC
255 AGTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATAC
* *
528870 ATTTTAAACCCATTAAATTCTTAAGCCTAAAACAATTTTTTCATCTTATTGATAGCTTGCCAATT
320 ATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATT
* **
528935 AACTTCTTGATCTAAATCTCTAAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTATCATGATA
385 AACTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATA
* * * * *
529000 TGGCATGATAAAGATCTTATTAAAGATGGAAAGTATAGGCATCCAGTTGATTCTCTTGCTTGGAA
450 TGGCATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAA
*
529065 ATCTTTTGATTTATAGTATCTTAATTTTACTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTA
515 ATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTA
*
529130 CTAATGGATTTAATCCATTTAAGACAATAAATAATAAGTATAGTGTTTGGCCTGTTATATTGATA
580 CTAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATA
* *
529195 CCATACAATTTGCCTCCTTAGTTGTTTGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTTC
645 CCATACAATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTCC
* *
529260 GTGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAACTAAAAG
710 GAGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAG
* * *
529325 AAATATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTAGAGAAAATTTTCAATTACGTATC
775 AATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATC
529390 GC--T---GT-----A-AAATG-------GACAACAAATGACTTTC
840 GCTGTAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
* * * *
529418 GATAAAACTTTATATTCAAGTCTAATTTCACGTCGATAAGGTTAAGCTCATAAATTTGAATATTT
1 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
*
529483 AAAAATTTATGTTAGCAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
66 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
* * *
529548 AATTTTTATTTTAATAAGGCAACACCACACTAAAAAAATTATTATTCACCAACACTTTTTTTCTA
131 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTTG
* * *
529613 GGGTTTATAAAAGTATTGGGTTTTCTCATTTAA-TTTTTATTTTTCTTAGCATAAATAAAGTGCC
196 GGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTGTTTTTCTTGGCATAAATAAAGTGCC
** * *
529677 CTTGATAAGGACACATTAAGCCTATATTAAAAAAAAAAGCTTTTATTTACTCAAAATACATTTTT
261 CTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATACATTTTA
* * *
529742 AACCCATTAAATTCTCAAGCCCAAAACAAATTTTTTTATCTTATTGACAGCTTGCCCATTAACTT
326 AACCCATTAAATTCTTAAGCCCAAAAC-AATTTTTTCATCTTATTGATAGCTTGCCCATTAACTT
* * * *
529807 CTTGATCTATATCTTTGAGTTTATTTTGATAGCCAGTCGAAAATAGCTTTTGCCATGATATGGCA
390 CTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATGGCA
* *
529872 TGATAAGGGTCGTATTAAAGATGGAAAATATAAGG-ATCCAGTTGATTCCCTTGCTTGGAAATCT
455 TGATGAGGGTCGTATTAAAGATGGAAAGTAT-AGGCATCCAGTTGATTCCCTTGCTTGGAAATCT
*
529936 TTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTTATAATGTTAGGCTAGGCTTGGCTACTAA
519 TTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTACTAA
* * *
530001 TGGATTTAATCCATTTAAGACCATAAATAATAAGTATAGTGTTTGGCCTGTTATATTGATACGAT
584 TGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATACCAT
* * *
530066 ACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTTCGTGT
649 ACAATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTCCGAGT
* * * *
530131 AAGAATAGACCTCGAAATAATATTGATGTTTAGTTACAACCTTTGATACAAGAATTAGAAGAAAT
714 AAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGAATT
* * * * *
530196 ATGAGAAATTGGTGTAAACATTTTTGATGGTTTTCCTAGAGAAAATTTTCAATTACGTATCACTA
779 ATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATCGCTG
* * *
530261 TAAAATGGATAACAAATGACTTTCCGACAACAAATGACTTTT
844 TAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
* * *
530303 GATAAAAATTTATATTCAAGTCTAATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATACTT
1 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
*
530368 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAGAT
66 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
* *
530433 AA--TTT-TTTTAAGAAGGCAACACTACACTAAAAAAATTGTTATTCACCAACAC-TTTTTTTTG
131 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTTG
530494 GGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTTGTTTTTCTTGGCATAAATAAAGTGC
196 GGGTTTATAAAAGTGTTGGGTTTTCTCATTTAA-TTTTTTGTTTTTCTTGGCATAAATAAAGTGC
* *
530559 CCCTGATAAGGACGCATTAAGCCTATATTTAAAAAAAAAATCCTTTCATTTACTCAAAATACATT
260 CCTTGATAAGGACACATTAAGCCTATA-TT-AAAAAAAAATCCTTTCATTTACTCAAAATACATT
* * *
530624 TTAAACCCATTAAATTCTTTAGCCTAAAACAATTTTTTCCTCTTATTGATAGCTTGCCCATTAAC
323 TTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAAC
* * * * * *
530689 TCCTTGATCTATATCTTTGAGTATGCTTTGATAGCCAGGCGAAAATAGCTTTTGCCATGATATGG
388 TTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATGG
*
530754 CATGATGAGGGTTGTATTAAAGATGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAATC
453 CATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAATC
* * * *
530819 TTTTGATTTATAGTATCTTAATTTTGCTCTAGATCCTCATAATGTTCGGTTAGGCTTGGCTACTG
518 TTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTACTA
*
530884 ATGGATTTAATCTATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATACCA
583 ATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATACCA
* * * * *
530949 TACAATTTGCCTCCTTAGTTGTCTATGAAAGAGTCAAGTTTTATTCTTTCTTTAAGGATTTCGAG
648 TACAATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTCCGAG
531014 TAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGAAT
713 TAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGAAT
* *
531079 TATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGTGAATTTTCAATTACGTATGGCT
778 TATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATCGCT
531144 GTAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
843 GTAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
* *
531187 GATAAAAATTGATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTAAATATTT
1 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
531252 AAAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGA
66 -AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGA
531317 TAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTC
130 TAATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTT-
531382 TGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAAATTTTTTGTTTTTCTTGGCATAAATAAAGT
194 TGGGGTTTATAAAAGTGTTGGGTTTTCTCATTT-AATTTTTTGTTTTTCTTGGCATAAATAAAGT
*
531447 GCCCTTGATAAGGACACTTTAAGCCTATATTTAAAAAAAAATCCTTTCATTTACTCAAAATACAT
258 GCCCTTGATAAGGACACATTAAGCCTATA-TTAAAAAAAAATCCTTTCATTTACTCAAAATACAT
* * * *
531512 TTTAAACCCATTAAATTCTTAAGCCCAAAATAATTATTTCATCTTATTGGTAACTTGCCCATTAA
322 TTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAA
* *
531577 CTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCTAGTCGAAAATAGCTTTTGCCATGATATG
387 CTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATG
* ** * * *
531642 GCATGATGAGGGTCATATTAAAGATTACAAAGCATAGGTATCCAGTTGATTCCCTTGCTAGGAAA
452 GCATGATGAGGGTCGTATTAAAGA-TGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAA
* * *
531707 TCTTCTGATTTATAGCATCTTAATTTTGCTTTGGATCCTCATAATGTTAGGCTAGGCTTGGCTAC
516 TCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTAC
** * *
531772 TAACAGATTTAATCCATTTAAGAGAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATTC
581 TAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATAC
* *
531837 CATACAATTTGCCTCTTTAGTTGTATGTGAGAGAGTCAAGTTTTATTCTTTCCTTAATGATTCCG
646 CATACAATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTCCG
* *
531902 AGTAAGAATAGACCTAGAAATAATATTGATGTTTTCTTACTACCTTTGATACAAGAATTAAAAGA
711 AGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGA
* *
531967 ATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTACTGGAAAGAATTTTCAATTACGTATCG
776 ATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATCG
**
532032 CTGTAAAACGGACAACAAATGACTTTCCGACAACAAATGACTTTC
841 CTGTAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
*
532077 GATAAAAATTTATACTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
1 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
* * *
532142 AAACATTTATGTTAGTAAATGAAATCATATTATTTTATTGATAATTGTTAAAAATAAGTATAGAT
66 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
532207 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTTC
131 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACAC-TTTTTTTT-
*
532272 TGGGGTTTAGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAATA
194 T-GGG----GTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTGTTTTTCTTGGCATAAATA
*
532337 AAATGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATA
254 AAGTGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATA
532402 CATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCAT
319 CATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCAT
* * * * *
532467 TAACTTCTTAATTTAAATCGCTAAGTTTGTTTTGATAGCCAGCCGGAAATAGCTTTTGCCATGAT
384 TAACTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGAT
* *
532532 ATGGCATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGTATCCAGTTGATTCCCTTGCTTAGA
449 ATGGCATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGA
* *
532597 AATCTTTTGATTTATAGCATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGTTAGGCTTGGCT
514 AATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCT
* * * *
532662 ACTGATGGATTCAATCCATTTAAGATAATGAATAATAAGTATAGTGTTTGGCCTGTTATATGGAT
579 ACTAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGAT
* * *
532727 ACCATACAATTTGCCTCCTTAGTTGTCTGTGAAATAGTCAAGTTTTATTCTTTCCTTAAGGATTC
644 ACCATACAATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTC
*
532792 CGAGTAAGAATAGACCTAGAAATAATATTGATATTTACTTACAACCTTTGATACAAGAATTAAAA
709 CGAGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAA
* *
532857 GAATTATGAGGAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCATTTACGTAT
774 GAATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTAT
* * *
532922 GGCTGTGAAGTGGACAACAAATGACTTTCCAACAACAAATGACTTTC
839 CGCTGTAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
**
532969 GATTCAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
1 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
*
533034 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAGAT
66 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
* *
533099 AA-TTTT-TTTTAAGAAGGCATCACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTTG
131 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTT-
533162 GGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTTGTTTTTCTTGGCATAAATAAAGT
195 -GGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAA-TTTTTTGTTTTTCTTGGCATAAATAAAGT
* * *
533227 GCCCCTGATAAGGACGCATTAAGCCTATATTTAAAAAAAAATCCTTTCATTTACTGAAAATACAT
258 GCCCTTGATAAGGACACATTAAGCCTATA-TTAAAAAAAAATCCTTTCATTTACTCAAAATACAT
*
533292 TTTAAACCCATTAAATTCTTAAGCCCAAAATAATTTTTTCATCTTATTGATAGCTTGCCCATTAA
322 TTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAA
* * *
533357 CTTCGTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCAAAAATAGCTTTCGCCATGATATG
387 CTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATG
* * * *
533422 GCATGATGAGGGTCATATTAAAGATTAGAAAGTTTAGGTATCCAGTTGATTCCCTTGCTTGGAAA
452 GCATGATGAGGGTCGTATTAAAGA-TGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAA
* * *
533487 TCTTTTGATTTATAGTATCTTAATTTTACTTTAGATCCTCATAATGTTTGGCTAGGCTTGGCAAC
516 TCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTAC
*
533552 TAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTATTATATTGATAC
581 TAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATAC
* *
533617 CATACAATTTGCCTCTTTAGTTGTATGTGAGAGAGTCAAGTTTTATTCTTTCCTTAATGATTCCG
646 CATACAATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTCCG
* *
533682 AGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACGAGAATTAAAAAA
711 AGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGA
*
533747 ATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGGGAATTTTCAATTACGTATCG
776 ATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATCG
*** * *
533812 CTGTAAAACAGACAACAAATGACTTTTCGACAACAAATGACTTTT
841 CTGTAAAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
* * *
533857 GATAGAAATTTATGTTGAAGTCTGATTTCACGTCGATATGGTTAAGCTCATAATTTTGAATATTT
1 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
* * * * *
533922 AAACATTTTTGTTAGTAAATGAAATCATATTATTTTATTGATAATTGTTAAAAATAATTATAGAT
66 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
*
533987 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTCTG
131 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTTG
534052 GGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTTGTTTTTCTTGGCATAAATAAAGTGC
196 GGGTTTATAAAAGTGTTGGGTTTTCTCATTTAA-TTTTTTGTTTTTCTTGGCATAAATAAAGTGC
*
534117 CCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATGCATTTT
260 CCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATACATTTT
*
534182 AAACCCATTAAATTCTTAAGCCCAAAATAATTTTTTCATCTTATTGATAGCTTGCCCATTAACTT
325 AAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAACTT
*
534247 CTTGATCTAAATCTCTGAGTTTGTTTTGATAGCTAGCCGAAAATAGCTTTTGCCATGATATGGCA
390 CTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATGGCA
* *
534312 TGATGAGGGTC-TATTAAAAATTGGAAAGTATAGGCATCCAATTGATTCCCTTGCTTGGAAATCT
455 TGATGAGGGTCGTATTAAAGA-TGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAATCT
* *
534376 TTTGATTTAAAGTATCTTAATTTTGCCTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTACTAA
519 TTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTACTAA
*
534441 GGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATACCAT
584 TGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATACCAT
534506 ACAATTTGCCTCCTTAGTTGTATGTGAGAA-AGTCAAGTTTTATTCTTTCCTTAATGATTCCGAG
649 ACAATTTGCCTCCTTAGTTGTATGTGA-AAGAGTCAAGTTTTATTCTTTCCTTAATGATTCCGAG
* *
534570 TAAGAATAGACCTAGAAATATTATTGATGTTTACTTACATCCTTTGATACAAGAATTAAAAGAAT
713 TAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGAAT
* * *
534635 TATGAGAAATTGGTGTAAACATTTTTAATGGTTTTGCTGGAGAGAATTTTCAATTATGTATCACT
778 TATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATCGCT
534700 GTAAAGTGGACAACAAATGACTT
843 GTAAAGTGGACAACAAATGACTT
534723 ATTGACATAT
Statistics
Matches: 4929, Mismatches: 322, Indels: 87
0.92 0.06 0.02
Matches are distributed among these distances:
864 14 0.00
865 104 0.02
866 56 0.01
867 459 0.09
868 3 0.00
869 3 0.00
870 8 0.00
871 139 0.03
872 1 0.00
877 1 0.00
878 5 0.00
881 39 0.01
882 44 0.01
883 59 0.01
884 553 0.11
885 297 0.06
886 427 0.09
887 355 0.07
888 637 0.13
889 311 0.06
890 639 0.13
891 9 0.00
892 503 0.10
893 177 0.04
894 57 0.01
895 29 0.01
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (885 bp):
GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTATAGAT
AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTTG
GGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTGTTTTTCTTGGCATAAATAAAGTGCC
CTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATACATTTTA
AACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAACTTC
TTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATGGCAT
GATGAGGGTCGTATTAAAGATGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAATCTTT
TGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTACTAATG
GATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATACCATAC
AATTTGCCTCCTTAGTTGTATGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTCCGAGTAA
GAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGAATTAT
GAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATCGCTGTA
AAGTGGACAACAAATGACTTTCCGACAACAAATGACTTTC
Found at i:533845 original size:18 final size:18
Alignment explanation
Indices: 533822--533856 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
533812 CTGTAAAACA
533822 GACAACAAATGACTTTTC
1 GACAACAAATGACTTTTC
533840 GACAACAAATGACTTTT
1 GACAACAAATGACTTTT
533857 GATAGAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (18 bp):
GACAACAAATGACTTTTC
Found at i:539865 original size:32 final size:33
Alignment explanation
Indices: 539823--539898 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
539813 TCCAAAGCTG
539823 TTAACTTTGATTATAGAT-TTATACACTTTTGA
1 TTAACTTTGATTATAGATATTATACACTTTTGA
* *
539855 TTAACCTTGATTATAGATATTATACACTTTTGG
1 TTAACTTTGATTATAGATATTATACACTTTTGA
539888 TTAACTTTGAT
1 TTAACTTTGAT
539899 CAAATTTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 17 0.43
33 23 0.57
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (33 bp):
TTAACTTTGATTATAGATATTATACACTTTTGA
Found at i:539992 original size:108 final size:108
Alignment explanation
Indices: 539860--540081 Score: 279
Period size: 108 Copynumber: 2.1 Consensus size: 108
539850 TTTGATTAAC
* *
539860 CTTGATTATAGATATTATACACTTTTGGTTAACTTTGATCAAA-TTTCTTAAAG-TGATTTGACA
1 CTTGATCATAGATATTATACACTTTTGGTTAACTTTAATCAAATTTTC-TAAAGTTG-TTTGACA
* * * * *
539923 TGGTAGTTTGCT-TTTTTCTTAAAAAAGAAAGTTCTTGTGTTACAA
64 TGATAGTTTG-TGTCTTTCTCAAAAAAGAAAGCTCTTATGTTACAA
* * * *
539968 CTTGATCATAGATGTTATACACTTTTGGTTAATTTTAATTAAATTTTCTAAGGTTGTTTGACATG
1 CTTGATCATAGATATTATACACTTTTGGTTAACTTTAATCAAATTTTCTAAAGTTGTTTGACATG
* *
540033 ATAGTTTGTGTCTTTCTCAAATAAGAGAGCTCTTATGTTACAA
66 ATAGTTTGTGTCTTTCTCAAAAAAGAAAGCTCTTATGTTACAA
540076 CTTGAT
1 CTTGAT
540082 TTATTTATTT
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
107 1 0.01
108 91 0.93
109 6 0.06
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (108 bp):
CTTGATCATAGATATTATACACTTTTGGTTAACTTTAATCAAATTTTCTAAAGTTGTTTGACATG
ATAGTTTGTGTCTTTCTCAAAAAAGAAAGCTCTTATGTTACAA
Found at i:541819 original size:13 final size:13
Alignment explanation
Indices: 541801--541827 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
541791 ACATTATGCT
541801 TTGTATCGATACA
1 TTGTATCGATACA
541814 TTGTATCGATACA
1 TTGTATCGATACA
541827 T
1 T
541828 GATGATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:541825 original size:33 final size:32
Alignment explanation
Indices: 541782--541846 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
541772 CACACCCAGA
* * *
541782 TGTATTGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGATG-ATTGTATCGATACAT
541815 TGTATCGATACATGATGATTGTATCGATACAT
1 TGTATCGATACATGATGATTGTATCGATACAT
541847 GGACAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATGATGATTGTATCGATACAT
Found at i:541837 original size:19 final size:19
Alignment explanation
Indices: 541813--541873 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
541803 GTATCGATAC
**
541813 ATTGTATCGATACATGATG
1 ATTGTATCGATACATGACA
541832 ATTGTATCGATACATGGACA
1 ATTGTATCGATACAT-GACA
541852 ATTGTATCGATACATGA-A
1 ATTGTATCGATACATGACA
541870 ATTG
1 ATTG
541874 GCAATAGCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
18 5 0.13
19 17 0.44
20 17 0.44
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:541857 original size:20 final size:20
Alignment explanation
Indices: 541813--541867 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
541803 GTATCGATAC
**
541813 ATTGTATCGATACAT-GATG
1 ATTGTATCGATACATGGACA
541832 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
541852 ATTGTATCGATACATG
1 ATTGTATCGATACATG
541868 AAATTGGCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:541931 original size:13 final size:13
Alignment explanation
Indices: 541913--541942 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
541903 GATACATAGG
541913 ACATTGTATCGAT
1 ACATTGTATCGAT
541926 ACATTGTATCGAT
1 ACATTGTATCGAT
541939 ACAT
1 ACAT
541943 GATGGATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:541936 original size:33 final size:33
Alignment explanation
Indices: 541896--541964 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
541886 CTACCATTGT
541896 TTGTATCGATACAT-A-GGACATTGTATCGATACA
1 TTGTATCGATACATGATGG--ATTGTATCGATACA
541929 TTGTATCGATACATGATGGATTGTATCGATACA
1 TTGTATCGATACATGATGGATTGTATCGATACA
541962 TTG
1 TTG
541965 CTTGTAACGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 31 0.91
34 1 0.03
35 2 0.06
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGGATTGTATCGATACA
Found at i:547980 original size:13 final size:13
Alignment explanation
Indices: 547962--547988 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
547952 ACAACATTCC
547962 TTGTATCGATACA
1 TTGTATCGATACA
547975 TTGTATCGATACA
1 TTGTATCGATACA
547988 T
1 T
547989 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:549509 original size:33 final size:33
Alignment explanation
Indices: 549467--549530 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
549457 CGAGAGTTGA
*
549467 TCACCTCACTTTCACGACATAT-GAGTGAGCAAT
1 TCACCTCACTCTCACGACATATGGA-TGAGCAAT
* *
549500 TCACTTCACTCTCACTACATATGGATGAGCA
1 TCACCTCACTCTCACGACATATGGATGAGCA
549531 CTTTGGTGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (33 bp):
TCACCTCACTCTCACGACATATGGATGAGCAAT
Found at i:550519 original size:19 final size:19
Alignment explanation
Indices: 550511--550565 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 19
550501 TAATTATGCT
550511 TTGTATCGATACATGATCA
1 TTGTATCGATACATGATCA
550530 TTGTATCGATACATGGA-CAA
1 TTGTATCGATACAT-GATC-A
550550 TTGTATCGATACATGA
1 TTGTATCGATACATGA
550566 AACTGGCAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGATCA
Found at i:550554 original size:20 final size:20
Alignment explanation
Indices: 550511--550564 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
550501 TAATTATGCT
550511 TTGTATCGATACAT-GATCA
1 TTGTATCGATACATGGATCA
550530 TTGTATCGATACATGGA-CAA
1 TTGTATCGATACATGGATC-A
550550 TTGTATCGATACATG
1 TTGTATCGATACATG
550565 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGGATCA
Found at i:550618 original size:20 final size:20
Alignment explanation
Indices: 550593--550646 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
550583 CTACCATTGT
*
550593 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
550613 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
*
550633 TTATATCGATACAT
1 TTGTATCGATACAT
550647 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:552738 original size:31 final size:31
Alignment explanation
Indices: 552700--552758 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
552690 AACGTAAGCA
552700 AAGTACCTTGATTCTAAAACCAAAATGCCCG
1 AAGTACCTTGATTCTAAAACCAAAATGCCCG
*
552731 AAGTACCTTGCTTCTAAAACCAAAATGC
1 AAGTACCTTGATTCTAAAACCAAAATGC
552759 ATATTAGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (31 bp):
AAGTACCTTGATTCTAAAACCAAAATGCCCG
Found at i:557385 original size:13 final size:13
Alignment explanation
Indices: 557367--557392 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
557357 ACACCAAAGT
557367 ATGTATCGATACA
1 ATGTATCGATACA
557380 ATGTATCGATACA
1 ATGTATCGATACA
557393 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:557390 original size:33 final size:33
Alignment explanation
Indices: 557348--557412 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
557338 TAGCCAAACT
* *
557348 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
557381 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
557413 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:561479 original size:15 final size:15
Alignment explanation
Indices: 561459--561489 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
561449 TAAAAATGTC
*
561459 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
561474 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
561489 C
1 C
561490 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:562979 original size:15 final size:15
Alignment explanation
Indices: 562959--562989 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
562949 TAAAAATGTC
*
562959 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
562974 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
562989 C
1 C
562990 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:564479 original size:15 final size:15
Alignment explanation
Indices: 564459--564489 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
564449 TAAAAATGTC
*
564459 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
564474 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
564489 C
1 C
564490 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:569170 original size:13 final size:13
Alignment explanation
Indices: 569152--569177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
569142 ACACCAAAGT
569152 ATGTATCGATACA
1 ATGTATCGATACA
569165 ATGTATCGATACA
1 ATGTATCGATACA
569178 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:569175 original size:33 final size:33
Alignment explanation
Indices: 569133--569197 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
569123 TAGCCAAACT
* *
569133 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
569166 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
569198 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:574726 original size:87 final size:87
Alignment explanation
Indices: 574580--574745 Score: 307
Period size: 87 Copynumber: 1.9 Consensus size: 87
574570 TTGTGTCTCA
574580 AGTCTTTTACGTGAGCACTGCCCCTGCCTGAACCACCAATTGCTATTTGTAATTACAAACTTGTC
1 AGTCTTTTACGTGAGCACTGCCCCTGCCTGAACCACCAATTGCTATTTGTAATTACAAACTTGTC
574645 TCTTTTCATTAATTAACGACAG
66 TCTTTTCATTAATTAACGACAG
*
574667 AGTCTTTTACGTGAGCACTAG-CCCTGCCTGAATCACCAATTGCTATTTGTAATTACAAACTTGT
1 AGTCTTTTACGTGAGCACT-GCCCCTGCCTGAACCACCAATTGCTATTTGTAATTACAAACTTGT
574731 CTCTTTTCATTAATT
65 CTCTTTTCATTAATT
574746 GCGAGGGGCC
Statistics
Matches: 77, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
87 76 0.99
88 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (87 bp):
AGTCTTTTACGTGAGCACTGCCCCTGCCTGAACCACCAATTGCTATTTGTAATTACAAACTTGTC
TCTTTTCATTAATTAACGACAG
Found at i:576571 original size:884 final size:884
Alignment explanation
Indices: 574824--579197 Score: 7005
Period size: 884 Copynumber: 5.0 Consensus size: 884
574814 TTGATTATTT
*
574824 GATAAAAATTTATACTCAAGTCTGATTTCACGTC-----GTTAAGCTCATAATTTTGAATATTTA
1 GATAAAAATTTATATTCAAGTCTGATTTCACGTCGATAAGTTAAGCTCATAATTTTGAATATTTA
574884 AAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAGATA
66 AAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAGATA
* *
574949 ATTTTTATTTTAATAAGACAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTTTGG
131 ATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTCTGG
575014 GGTTTAATTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAATAAAG
196 GG-----TTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAATAAAG
* *
575079 TGCCCTTGATAAGGACACATTAAGCCTATAAT-AAAAAAAATCCTTTCATTTACTCAAAACACAT
256 TGCCCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATACAT
*
575143 TTGAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAA
321 TTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAA
* * **
575208 CTTCTTGATCTAAATCTCTAAGTTTGTTTTGATAGCCAGCCAAAAATAGCTTTTATCATGATATG
386 CTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATG
* * * *
575273 GCATGATAAGGATCGTATTAAAGATGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTAGAAAA
451 GCATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAAT
* *
575338 CTTTTGATTTATAGTATCTTAGTTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCTACT
516 CTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGTTAGGCTTGGCTACT
**
575403 AATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCCGTTATATTGATACC
581 AATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTATTATATTGATACC
*
575468 ATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTTCGT
646 ATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTTCGA
*
575533 GTAAGAATAGACCTAGAAACAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGAA
711 GTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGAA
* ** * **
575598 ATATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTAAAAAGAATTTTCAATTACGTATCAC
776 TTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATGGC
* *
575663 TCTAAAATGGATAACAAATGACTTTCCGACAACAAATGACTTTC
841 TGTAAAATGGACAACAAATGACTTTCCGACAACAAATGACTTTC
* *
575707 GATAAAAATTTATATTCAAGTCTAATTTCACGTCGATAAGGTTAAGCTCATAATTTTGAATACTT
1 GATAAAAATTTATATTCAAGTCTGATTTCACGTCGATAA-GTTAAGCTCATAATTTTGAATATTT
* *
575772 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAAATGTTAAAAATAAGTATAGAT
65 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAGAT
575837 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTCTG
130 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTCTG
575902 GGGTTTATAAAAGTGTTGGG-TTTCAT-ATTTAA-TTTTTATTTTTCTTGGCATAAATAAAGTGC
195 GGGTTTATAAAAGTGTTGGGTTTTC-TCATTTAATTTTTTATTTTTCTTGGCATAAATAAAGTGC
575964 CCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATTCCTTTCATTTACTCAAAATACATTT
259 CCTTGATAAGGACACATTAAGCCTATATTAAAAAAAAA-TCCTTTCATTTACTCAAAATACATTT
* * *
576029 TAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCAGCTTATTAATAGCTTGCCCGTTAACT
323 TAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAACT
* * * **
576094 TCTTGATCTATATCTTTGAGTATGTTTTGATAGCCAATCGAAAATAGCTTTTGCCATGATATGGC
388 TCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATGGC
*
576159 ATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGCATCTAGTTGATTCCCTTGCTTGGAAATCT
453 ATGATGAGGGTCGTATTAAAGATGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAATCT
* *
576224 TTTGATTTATAGTATCTTAATTTTGCTCTAGATCCTCATAATGTTAGGTTAGGCTTGGCTACTGA
518 TTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGTTAGGCTTGGCTACTAA
*
576289 TGGATTTAATCTATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTATTATATTGATACCAT
583 TGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTATTATATTGATACCAT
* * *
576354 ACAATTTGCCTCCTTAGTTGTCTATGAAAGAGTCAAGTTTTATTCTTTCTTTAATGATTTTGAGT
648 ACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTTCGAGT
576419 AAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGAATT
713 AAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGAATT
576484 ATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATGGCTG
778 ATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATGGCTG
576549 TAAAATGGACAACAAATGACTTTCCGACAACAAATGACTTTC
843 TAAAATGGACAACAAATGACTTTCCGACAACAAATGACTTTC
** *
576591 GATTCAAATTTATATTCAAGTCTGATTTCATGTCGATAAGGTTAAGCTCATAATTTTGAATATTT
1 GATAAAAATTTATATTCAAGTCTGATTTCACGTCGATAA-GTTAAGCTCATAATTTTGAATATTT
*
576656 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAAAT
65 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAGAT
*
576721 AATTTTTATTTTAATATGGCAACACTACACTAAAAAAAATTATTATTCACCAACACTTTTTTTTT
130 AATTTTTATTTTAATAAGGCAACACTACACT-AAAAAAATTATTATTCACCAACAC--TTTTTTT
* *
576786 TTGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTTGTTTTTCTTGGCATAAATAAAG
192 CTGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAA-TTTTTTATTTTTCTTGGCATAAATAAAG
* *
576851 TGCCCTTAATAAGGACACTTTAAGCCTATATTTAAAAAAAAAATCCTTTCATTTACTCAAAATAC
256 TGCCCTTGATAAGGACACATTAAGCCTATA-TT-AAAAAAAAATCCTTTCATTTACTCAAAATAC
*
576916 ATTTTAAACCCATTAAATTCTTAAGCCCAAAATAATTTTTTCATCTTATTGATAGCTTGCCCATT
319 ATTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATT
*
576981 AACTTCGTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCC-----A
384 AACTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATA
* * *
577041 T-G-AT-A--AGGGTCATATTAAAGATTAGAAAGTATAGGTATCCAGTTGATTCCCTTGCTTGGA
449 TGGCATGATGAGGGTCGTATTAAAGA-TGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGA
* *
577101 AATTTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGCTAGGCTTGGCT
513 AATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGTTAGGCTTGGCT
577166 ACTAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTATTATATTGAT
578 ACTAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTATTATATTGAT
* * * *
577231 ACCATACAATTTGCCTCTTTAGTTGTTTGTGAGAGAGTCAAGTTTTATTCTTTCCTTAATGATTC
643 ACCATACAATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTT
*
577296 CGAGTAAGAATAGACCTAGAAATAATATTGATGTTTGCTTACAACCTTTGATACAAGAATTAAAA
708 CGAGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAA
* *
577361 AAATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAAAGAATTTTCAATTACGTAT
773 GAATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTAT
* * * * *
577426 CGTTGTAAAACGGACAACAAATGACTTTTCGACAACAAATGATTTTC
838 GGCTGTAAAATGGACAACAAATGACTTTCCGACAACAAATGACTTTC
*
577473 GATAAAAATTTATATTGAAGTCTGATTTCACGTCGATATAGTTAAGCTCATAATTTTGAATATTT
1 GATAAAAATTTATATTCAAGTCTGATTTCACGTCGATA-AGTTAAGCTCATAATTTTGAATATTT
* * *
577538 AAACATTTATGTTAGTAAATGAAATCATATTATTTTATTGAAAATTGTTAAAAATAAGTATAGAT
65 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAGAT
* *
577603 AATTTTTATTTTTATAAGGCAACACTACACTAAAAAAATTATTATACACCAACACTTTTTTTCTG
130 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTCTG
577668 GGGTTTATAAAAGTGTTGGGTTTTCTCATTTAA-TTTTTATTTTTCTTGGCATAAATAAAGTGCC
195 GGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAATAAAGTGCC
577732 CTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATACATTTTA
260 CTTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATACATTTTA
577797 AACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAACTTC
325 AACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAACTTC
* * * *
577862 TTGATCTATATCTTTGAGTTTGTTTTGACAGCCAGCTGAAAATAGCTTTTGCCATGATATGGCAT
390 TTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATGGCAT
* *
577927 GATGAGGGTTGTATTAAAGATGGAAAGTATAGGCATCCAGTTGATTCCCTTGATTGGAAATCTTT
455 GATGAGGGTCGTATTAAAGATGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAATCTTT
*
577992 TGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGTTAGGCTTGGCTACTGATG
520 TGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGTTAGGCTTGGCTACTAATG
** *
578057 GATTTAATCTGTTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTGTTATATTGATACCATAC
585 GATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTATTATATTGATACCATAC
*
578122 AATTTGCCTCCTTAGTTGTCTGTGAAAAAGTCAAGTTTTATTCTTTCCTTAATGATTTCGAGTAA
650 AATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTTCGAGTAA
* * *
578187 GAATAGACCTAGAAATAGTATTGATGTTTATTTACAACCTTTGACACAAGAATTAAAAGAATTAT
715 GAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGAATTAT
* *
578252 GAGAAATTGGTGTAAACATTTTTGATGGTTTTACTTGAGAGAATTTTCAATTACGTATGGCTG--
780 GAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATGGCTGTA
578315 ---T---------A--ACTTT-------C-----A-----
845 AAATGGACAACAAATGACTTTCCGACAACAAATGACTTTC
* * *
578324 -ATAAAAATTTATATTCAAGTTTGATTTCACGTCGATAATGTTAAGTTCATAATTTTGAATTTTT
1 GATAAAAATTTATATTCAAGTCTGATTTCACGTCGATAA-GTTAAGCTCATAATTTTGAATATTT
*
578388 AAAAATTTATG--AGTAAATAAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAGAT
65 AAAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAGAT
* * *
578451 AATATTT-TTTTATTAAGGCAACACTAGACTAAAAAAATTATTATTCACCAACACTTTTTTTTTC
130 AATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACAC--TTTTTTTC
* * *
578515 TGGGGTTTATATAAGTGTTGGGTTTTATCATTTAATTTTTTCGTTTTTCTTGGCATAAATAAAGT
193 TGGGGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTT-ATTTTTCTTGGCATAAATAAAGT
* *
578580 GCCTTTGATAAGGACACATTAAGCCTATATTAAAAAAAAAAATCCTTTTATTTACTCAAAATACA
257 GCCCTTGATAAGGACACATTAAGCCTATATT--AAAAAAAAATCCTTTCATTTACTCAAAATACA
*
578645 TTTTAAACCCATTAAATTCTTAAGCCCAAAATAATTTTTTCATCTTATTGATAGCTTGCCCATTA
320 TTTTAAACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTA
*
578710 ACTGCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATAT
385 ACTTCTTGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATAT
578775 GGCATGATGAGGGTCGTATTAAAGATTGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAA
450 GGCATGATGAGGGTCGTATTAAAGA-TGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAA
* *
578840 ATCTTTTGATTTATAGTATCTAAATTTTGCTTTAGATCCTCATAATGTTAGGTTAGACTTGGCTA
514 ATCTTTTGATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGTTAGGCTTGGCTA
*
578905 CTAATGGATTTAATCCATTTAAGAGAATGAATAATAAGTATAGTGTTTGGCCTATTATATTGATA
579 CTAATGGATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTATTATATTGATA
*
578970 CCATACAATTTGCCTCCTTAGTTGTAC-GTGAGAA-AGTCAAGTTTTATTCTTTTCTTAATGATT
644 CCATACAATTTGCCTCCTTAGTTGT-CTGTGA-AAGAGTCAAGTTTTATTCTTTCCTTAATGATT
* *
579033 CCGAGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAA-CTTGTGATACAAGAATGAA
707 TCGAGTAAGAATAGACCTAGAAATAATATTGATGTTTACTTACAACCTT-TGATACAAGAATTAA
* *
579097 AAGAATTATGAGAAATTGGTGTAAACATTTTTGATGGTGTTGCTGGAGAGAATTTTCAGTTACGT
771 AAGAATTATGAGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGT
*
579162 ATGGCTGTAAAGTGGACAACAAATGACTTTCCGACA
836 ATGGCTGTAAAATGGACAACAAATGACTTTCCGACA
579198 TATAGAGATT
Statistics
Matches: 3243, Mismatches: 185, Indels: 133
0.91 0.05 0.04
Matches are distributed among these distances:
847 43 0.01
848 55 0.02
849 42 0.01
850 73 0.02
851 52 0.02
853 182 0.06
854 341 0.11
855 3 0.00
856 1 0.00
859 1 0.00
861 1 0.00
868 6 0.00
870 6 0.00
875 149 0.05
876 2 0.00
877 54 0.02
879 42 0.01
880 2 0.00
881 39 0.01
882 596 0.18
883 53 0.02
884 1065 0.33
885 39 0.01
886 2 0.00
887 30 0.01
888 10 0.00
889 153 0.05
890 54 0.02
891 138 0.04
892 9 0.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (884 bp):
GATAAAAATTTATATTCAAGTCTGATTTCACGTCGATAAGTTAAGCTCATAATTTTGAATATTTA
AAAATTTATGTTAGTAAATGAAATCATATTATTTTATTAAAAATTGTTAAAAATAAGTACAGATA
ATTTTTATTTTAATAAGGCAACACTACACTAAAAAAATTATTATTCACCAACACTTTTTTTCTGG
GGTTTATAAAAGTGTTGGGTTTTCTCATTTAATTTTTTATTTTTCTTGGCATAAATAAAGTGCCC
TTGATAAGGACACATTAAGCCTATATTAAAAAAAAATCCTTTCATTTACTCAAAATACATTTTAA
ACCCATTAAATTCTTAAGCCCAAAACAATTTTTTCATCTTATTGATAGCTTGCCCATTAACTTCT
TGATCTAAATCTCTGAGTTTGTTTTGATAGCCAGCCGAAAATAGCTTTTGCCATGATATGGCATG
ATGAGGGTCGTATTAAAGATGGAAAGTATAGGCATCCAGTTGATTCCCTTGCTTGGAAATCTTTT
GATTTATAGTATCTTAATTTTGCTTTAGATCCTCATAATGTTAGGTTAGGCTTGGCTACTAATGG
ATTTAATCCATTTAAGACAATGAATAATAAGTATAGTGTTTGGCCTATTATATTGATACCATACA
ATTTGCCTCCTTAGTTGTCTGTGAAAGAGTCAAGTTTTATTCTTTCCTTAATGATTTCGAGTAAG
AATAGACCTAGAAATAATATTGATGTTTACTTACAACCTTTGATACAAGAATTAAAAGAATTATG
AGAAATTGGTGTAAACATTTTTGATGGTTTTGCTGGAGAGAATTTTCAATTACGTATGGCTGTAA
AATGGACAACAAATGACTTTCCGACAACAAATGACTTTC
Found at i:576579 original size:18 final size:18
Alignment explanation
Indices: 576556--576590 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
576546 CTGTAAAATG
576556 GACAACAAATGACTTTCC
1 GACAACAAATGACTTTCC
576574 GACAACAAATGACTTTC
1 GACAACAAATGACTTTC
576591 GATTCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (18 bp):
GACAACAAATGACTTTCC
Found at i:577473 original size:17 final size:18
Alignment explanation
Indices: 577438--577474 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
577428 TTGTAAAACG
577438 GACAACAAATGACTTTTC
1 GACAACAAATGACTTTTC
577456 GACAACAAATGA-TTTTC
1 GACAACAAATGACTTTTC
577473 GA
1 GA
577475 TAAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (18 bp):
GACAACAAATGACTTTTC
Found at i:584371 original size:32 final size:33
Alignment explanation
Indices: 584329--584404 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
584319 TCCAAAGCTG
584329 TTAACTTTGATTATAGAT-TTATACACTTTTGA
1 TTAACTTTGATTATAGATATTATACACTTTTGA
* *
584361 TTAACCTTGATTATAGATATTATACACTTTTGG
1 TTAACTTTGATTATAGATATTATACACTTTTGA
584394 TTAACTTTGAT
1 TTAACTTTGAT
584405 CAAATTTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 17 0.43
33 23 0.57
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (33 bp):
TTAACTTTGATTATAGATATTATACACTTTTGA
Found at i:584555 original size:108 final size:108
Alignment explanation
Indices: 584366--584587 Score: 268
Period size: 108 Copynumber: 2.1 Consensus size: 108
584356 TTTGATTAAC
* * *
584366 CTTGATTATAGATATTATACACTTTTGGTTAACTTTGATCAAATTTCTTAAAGTGGTTTGACATG
1 CTTGATCATAGATATTATACAATTTTGGTTAACTTTAATCAAATTTCTTAAAGTGGTTTGACATG
* ** * * * *
584431 GTAGTTTGTTTTTTTCTTAAAAAAGA-ACGTTCTTGTGTTACAA
66 ATAGTTTGCGTCTTTCTCAAAAAAGAGA-GCTCTTATGTTACAA
* * * * *
584474 CTTGATCATAGATGTTATACAATTTTGGTTAATTTTAATTAAAGTTTC-TAAGGTTGTTTGACAT
1 CTTGATCATAGATATTATACAATTTTGGTTAACTTTAATCAAA-TTTCTTAAAGTGGTTTGACAT
*
584538 GATAGTTTGCGTCTTTCTCAAAAAAGAGAGCTCTTATGTTGCAA
65 GATAGTTTGCGTCTTTCTCAAAAAAGAGAGCTCTTATGTTACAA
584582 CTTGAT
1 CTTGAT
584588 TTATTTATTT
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
108 91 0.95
109 5 0.05
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.44
Consensus pattern (108 bp):
CTTGATCATAGATATTATACAATTTTGGTTAACTTTAATCAAATTTCTTAAAGTGGTTTGACATG
ATAGTTTGCGTCTTTCTCAAAAAAGAGAGCTCTTATGTTACAA
Found at i:588298 original size:20 final size:20
Alignment explanation
Indices: 588268--588338 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
588258 AAAACCCATA
*
588268 ATGTATCGATATAATTTCTT
1 ATGTATTGATATAATTTCTT
*
588288 ACGTATTGATATAATTTCTT
1 ATGTATTGATATAATTTCTT
588308 ATGTATTGATATAATTTCTT
1 ATGTATTGATATAATTTCTT
*
588328 ATGTATAGATA
1 ATGTATTGATA
588339 CATTTAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.49
Consensus pattern (20 bp):
ATGTATTGATATAATTTCTT
Found at i:590514 original size:5 final size:6
Alignment explanation
Indices: 590499--590536 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
590489 ATATATAATG
* *
590499 TGTATT TGTA-T TGTATT TGTATT TGTACT TCTATT TGT
1 TGTATT TGTATT TGTATT TGTATT TGTATT TGTATT TGT
590537 GTATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.16, C:0.05, G:0.16, T:0.63
Consensus pattern (6 bp):
TGTATT
Found at i:591869 original size:156 final size:157
Alignment explanation
Indices: 591585--591898 Score: 551
Period size: 156 Copynumber: 2.0 Consensus size: 157
591575 CCTTTAAATT
591585 AAATTTTAGGTTTAATTGTTGACCTTTCACCCTTTGGAAAGACTAGTATTGAAGCAATCCAAAAG
1 AAATTTTAGGTTTAATTGTTGACCTTTCACCCTTTGGAAAGACTAGTATTGAAGCAATCCAAAAG
* * *
591650 AGCAAAATTTTACTCATATTGCAAGTAGTTTTTTTTTTTATGAGCTGACTCATAAATTTTTTTT-
66 AGCAAAATTTTACTCATATTGCAAGTAGTTTTGTTTCTTATGAGATGACTCATAAATTTTTTTTA
*
591714 AAAAAAATCTAAAATATTAGATTTAAG
131 AAAAAAATATAAAATATTAGATTTAAG
*
591741 AAATTTTAGGTTTAATTGTTGACCTTTCACTCTTTGGAAAGACTAGTATTGAAGCAATCCAAAAG
1 AAATTTTAGGTTTAATTGTTGACCTTTCACCCTTTGGAAAGACTAGTATTGAAGCAATCCAAAAG
*
591806 AG-AAAATTTTAGTCATATTGCAAGTAGTTTTGTTTCTTATGAGATGACTCATAAATTTTTTTTT
66 AGCAAAATTTTACTCATATTGCAAGTAGTTTTGTTTCTTATGAGATGACTCATAAA-TTTTTTTT
591870 AAAAAAAATATAAAATATTAGATTTAAG
130 AAAAAAAATATAAAATATTAGATTTAAG
591898 A
1 A
591899 TTTCGTTTAA
Statistics
Matches: 150, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
155 49 0.33
156 74 0.49
157 27 0.18
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.39
Consensus pattern (157 bp):
AAATTTTAGGTTTAATTGTTGACCTTTCACCCTTTGGAAAGACTAGTATTGAAGCAATCCAAAAG
AGCAAAATTTTACTCATATTGCAAGTAGTTTTGTTTCTTATGAGATGACTCATAAATTTTTTTTA
AAAAAAATATAAAATATTAGATTTAAG
Found at i:592805 original size:20 final size:20
Alignment explanation
Indices: 592760--592811 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
592750 GTAGCCAAAC
**
592760 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
592780 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
592799 TTGTATCGATACA
1 TTGTATCGATACA
592812 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:593968 original size:46 final size:47
Alignment explanation
Indices: 593848--593970 Score: 126
Period size: 47 Copynumber: 2.6 Consensus size: 47
593838 ATTGTGTGTT
*** * * *
593848 AGATGGTTTGTAACTTTATCCATACAAAAGTTACAAGTTGATTGTGA
1 AGATGGTTTGTAACTTTATATGTGCAAAAGTTACAAGCTGATTGTAA
*
593895 AGATGGTTTGTAACTTTATCTGTGCAAAAGTTACAAGCT-ATTTGTAA
1 AGATGGTTTGTAACTTTATATGTGCAAAAGTTACAAGCTGA-TTGTAA
* *
593942 AGA-GAG-TTGTACCTTTGTATGTGCAAAAG
1 AGATG-GTTTGTAACTTTATATGTGCAAAAG
593971 CTATTATTGT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 22 0.33
47 44 0.67
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.36
Consensus pattern (47 bp):
AGATGGTTTGTAACTTTATATGTGCAAAAGTTACAAGCTGATTGTAA
Found at i:594783 original size:46 final size:46
Alignment explanation
Indices: 594724--594877 Score: 143
Period size: 46 Copynumber: 3.3 Consensus size: 46
594714 GCTATGAGTA
* * *
594724 GTTTGATT-GAGGATTTGTAGCTTTCAT-CGTGCAAAAACTACTCGTT
1 GTTTG-TTGGAGGATTTATAGCTTTC-TCCATGCAAAAACTACTCATT
*
594770 GTTTGTTGGAGGATTTATAGCTTTCTCCATGCAAAAACTATTCATT
1 GTTTGTTGGAGGATTTATAGCTTTCTCCATGCAAAAACTACTCATT
* * * * * * *
594816 GTTTATTGGAGGTTTTATAACTTTCTCTATACAAGAGCTACT-AGTT
1 GTTTGTTGGAGGATTTATAGCTTTCTCCATGCAAAAACTACTCA-TT
* *
594862 GTATGTTGGAAGATTT
1 GTTTGTTGGAGGATTT
594878 TTAACTTTAT
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
45 4 0.04
46 85 0.96
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (46 bp):
GTTTGTTGGAGGATTTATAGCTTTCTCCATGCAAAAACTACTCATT
Found at i:597195 original size:33 final size:32
Alignment explanation
Indices: 597133--597196 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
597123 CTTTTCAAGG
597133 TGTATCGATACAATGAATATGTATAGATACAA
1 TGTATCGATACAATGAATATGTATAGATACAA
*
597165 TGTATCGATACTAA-GCAATATGTATCGATACA
1 TGTATCGATAC-AATG-AATATGTATAGATACA
597197 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAATGAATATGTATAGATACAA
Found at i:597305 original size:22 final size:22
Alignment explanation
Indices: 597275--597317 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
597265 ACTTCGGATT
597275 ATTTTTACTTG-AAAACATTTG
1 ATTTTTACTTGAAAAACATTTG
597296 ATTTATTACTTGAAAAACATTT
1 ATTT-TTACTTGAAAAACATTT
597318 ATACTTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 9 0.45
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (22 bp):
ATTTTTACTTGAAAAACATTTG
Found at i:597528 original size:20 final size:20
Alignment explanation
Indices: 597500--597547 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
597490 AGGCTCAATA
* * *
597500 TATCAATACATTTTACCATG
1 TATCGATACAATTCACCATG
*
597520 TATCGATACAATTCATCATG
1 TATCGATACAATTCACCATG
597540 TATCGATA
1 TATCGATA
597548 TAATGTATCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (20 bp):
TATCGATACAATTCACCATG
Found at i:597555 original size:13 final size:13
Alignment explanation
Indices: 597537--597561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
597527 ACAATTCATC
597537 ATGTATCGATATA
1 ATGTATCGATATA
597550 ATGTATCGATAT
1 ATGTATCGATAT
597562 TGAGTGTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
ATGTATCGATATA
Found at i:597647 original size:13 final size:13
Alignment explanation
Indices: 597629--597653 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
597619 TACAATGAAC
597629 ATGTATCGATACA
1 ATGTATCGATACA
597642 ATGTATCGATAC
1 ATGTATCGATAC
597654 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:597671 original size:33 final size:32
Alignment explanation
Indices: 597611--597674 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
597601 CTTTTCAAGG
597611 TGTATCGATACAATGAACATGTATCGATACAA
1 TGTATCGATACAATGAACATGTATCGATACAA
*
597643 TGTATCGATACTAA-GCAATATGTATCGATACA
1 TGTATCGATAC-AATG-AACATGTATCGATACA
597675 TCTAGGTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACAATGAACATGTATCGATACAA
Found at i:603962 original size:13 final size:13
Alignment explanation
Indices: 603944--603981 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
603934 AATAGTGCCC
603944 ATGTATCGATACA
1 ATGTATCGATACA
603957 ATGTATCGATACA
1 ATGTATCGATACA
**
603970 ACATATCGATAC
1 ATGTATCGATAC
603982 TATGAACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:609256 original size:32 final size:32
Alignment explanation
Indices: 609215--609420 Score: 412
Period size: 32 Copynumber: 6.4 Consensus size: 32
609205 ACATGCTGCT
609215 TTGTATCGATACATTGTATCGATACATATTCA
1 TTGTATCGATACATTGTATCGATACATATTCA
609247 TTGTATCGATACATTGTATCGATACATATTCA
1 TTGTATCGATACATTGTATCGATACATATTCA
609279 TTGTATCGATACATTGTATCGATACATATTCA
1 TTGTATCGATACATTGTATCGATACATATTCA
609311 TTGTATCGATACATTGTATCGATACATATTCA
1 TTGTATCGATACATTGTATCGATACATATTCA
609343 TTGTATCGATACATTGTATCGATACATATTCA
1 TTGTATCGATACATTGTATCGATACATATTCA
609375 TTGTATCGATACATTGTATCGATACATATTCA
1 TTGTATCGATACATTGTATCGATACATATTCA
609407 TTGTATCGATACAT
1 TTGTATCGATACAT
609421 GAAACTGGCA
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 174 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.41
Consensus pattern (32 bp):
TTGTATCGATACATTGTATCGATACATATTCA
Found at i:613080 original size:20 final size:21
Alignment explanation
Indices: 613035--613091 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
613025 CATAAGTAAA
*
613035 TGTATCGATACATTTACTATT
1 TGTATCGATACATTTACCATT
613056 TGTATCGATACA-TTATCCA-T
1 TGTATCGATACATTTA-CCATT
613076 TGTATCGATACATTTA
1 TGTATCGATACATTTA
613092 GGTCGAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.44
Consensus pattern (21 bp):
TGTATCGATACATTTACCATT
Found at i:615034 original size:20 final size:20
Alignment explanation
Indices: 615009--615053 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
614999 AATCCGAATG
615009 AGTCTGGAATGATTTTGCCA
1 AGTCTGGAATGATTTTGCCA
*
615029 AGTCTGGAATGATTTTTCCA
1 AGTCTGGAATGATTTTGCCA
615049 AGTCT
1 AGTCT
615054 ATAGAACCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (20 bp):
AGTCTGGAATGATTTTGCCA
Found at i:621295 original size:2 final size:2
Alignment explanation
Indices: 621288--621317 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
621278 CTTTCAGCAC
621288 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
621318 ATGTTAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:622895 original size:65 final size:65
Alignment explanation
Indices: 622818--622944 Score: 150
Period size: 65 Copynumber: 2.0 Consensus size: 65
622808 ATTTGTTCGT
* *
622818 CATATAGCAAGCAAATTTG-T-TTAATAAATATGATTGATGCAATGAAAAGGATTAAAATTCTAC
1 CATATAGCAAGCAAA-TTGATCTCAA-AAATATGATTGATGCAATGAAAAGGAGTAAAATTCTAC
622881 AC
64 AC
* * * ** *
622883 CATATTGCAAGCAGATTGATCTCAAAATTATGATTGATGTGATGGAAAGGAGTAAAATTCTA
1 CATATAGCAAGCAAATTGATCTCAAAAATATGATTGATGCAATGAAAAGGAGTAAAATTCTA
622945 TCCTATTGCA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
64 3 0.06
65 46 0.88
66 3 0.06
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (65 bp):
CATATAGCAAGCAAATTGATCTCAAAAATATGATTGATGCAATGAAAAGGAGTAAAATTCTACAC
Found at i:624232 original size:2 final size:2
Alignment explanation
Indices: 624225--624266 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
624215 CTTTTTGCCC
624225 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
624267 GTTTTAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:626194 original size:85 final size:86
Alignment explanation
Indices: 626050--626214 Score: 296
Period size: 85 Copynumber: 1.9 Consensus size: 86
626040 CTGTGTCTCA
*
626050 AGTCTTTTACGTGAGCACTGCCCCTGCCTGAACCACCAATTGCTATTTGTAATTACAAACTTGTC
1 AGTCTTTTACGTGAGCACCGCCCCTGCCTGAACCACCAATTGCTATTTGTAATTACAAACTTGTC
*
626115 TCTTTTCATTAATTGACGAGG
66 TCCTTTCATTAATTGACGAGG
*
626136 AGTCTTTTACGTGAGCACCG-CCCTGCCTGAACCACCAATTGTTATTTGTAATTACAAACTTGTC
1 AGTCTTTTACGTGAGCACCGCCCCTGCCTGAACCACCAATTGCTATTTGTAATTACAAACTTGTC
626200 TCCTTTCATTAATTG
66 TCCTTTCATTAATTG
626215 CGATGGGCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
85 57 0.75
86 19 0.25
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (86 bp):
AGTCTTTTACGTGAGCACCGCCCCTGCCTGAACCACCAATTGCTATTTGTAATTACAAACTTGTC
TCCTTTCATTAATTGACGAGG
Found at i:627363 original size:74 final size:74
Alignment explanation
Indices: 627205--627356 Score: 184
Period size: 74 Copynumber: 2.1 Consensus size: 74
627195 TTTTTGATAC
* * * **
627205 TATTACTTTTGCTTTGATTTTTTTATTTCTTGTTTAGTTTTATAAATTTAGTTTGATTTTTTTAT
1 TATTACTTTTGCTTTGATTTTTTGATTTCTTGTTAACTTTTATAAATTTAGTTTGATTTAATTAT
*
627270 TTTTTATTT
66 TATTTATTT
*
627279 TATTACTTTTGCTTTGTATTTTTTGATTT-TT-TTAATCTTTTATAAATTTAGTTTTATTTGAAT
1 TATTACTTTTGCTTTG-ATTTTTTGATTTCTTGTTAA-CTTTTATAAATTTAGTTTGATTT-AAT
*
627342 TCTTATTT-TTT
63 TATTATTTATTT
627353 TATT
1 TATT
627357 TTTTTTGAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
73 3 0.04
74 46 0.69
75 18 0.27
ACGTcount: A:0.19, C:0.05, G:0.07, T:0.69
Consensus pattern (74 bp):
TATTACTTTTGCTTTGATTTTTTGATTTCTTGTTAACTTTTATAAATTTAGTTTGATTTAATTAT
TATTTATTT
Found at i:628459 original size:24 final size:23
Alignment explanation
Indices: 628412--628459 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
628402 CTTTGAATAA
*
628412 TTTTACTTGAAAAACATTCAACT
1 TTTTACTTGAAAAACATTAAACT
*
628435 TTTTGCTTGAAAAACATTAATACT
1 TTTTACTTGAAAAACATTAA-ACT
628459 T
1 T
628460 ATCTCTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.42
Consensus pattern (23 bp):
TTTTACTTGAAAAACATTAAACT
Found at i:628955 original size:28 final size:28
Alignment explanation
Indices: 628923--629014 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
628913 CATTTATTAA
628923 CAACTTCTCCCCCTTAATCTATTCTTCC
1 CAACTTCTCCCCCTTAATCTATTCTTCC
**
628951 CAACTTCTCCCCCTTAAT-TA---TTAA
1 CAACTTCTCCCCCTTAATCTATTCTTCC
*
628975 CAACTTCTCCCCCGTAATCTATTCTTCC
1 CAACTTCTCCCCCTTAATCTATTCTTCC
629003 CAACTTCTCCCC
1 CAACTTCTCCCC
629015 TTTTCTAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
24 19 0.35
25 2 0.04
27 2 0.04
28 32 0.58
ACGTcount: A:0.21, C:0.42, G:0.01, T:0.36
Consensus pattern (28 bp):
CAACTTCTCCCCCTTAATCTATTCTTCC
Found at i:628994 original size:52 final size:52
Alignment explanation
Indices: 628916--629014 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
628906 AATAAAACAT
*
628916 TTATTAACAACTTCTCCCCCTTAATCTATTCTTCCCAACTTCTCCCCCTTAA
1 TTATTAACAACTTCTCCCCCGTAATCTATTCTTCCCAACTTCTCCCCCTTAA
628968 TTATTAACAACTTCTCCCCCGTAATCTATTCTTCCCAACTTCTCCCC
1 TTATTAACAACTTCTCCCCCGTAATCTATTCTTCCCAACTTCTCCCC
629015 TTTTCTAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.22, C:0.39, G:0.01, T:0.37
Consensus pattern (52 bp):
TTATTAACAACTTCTCCCCCGTAATCTATTCTTCCCAACTTCTCCCCCTTAA
Found at i:634303 original size:20 final size:20
Alignment explanation
Indices: 634278--634434 Score: 112
Period size: 20 Copynumber: 7.8 Consensus size: 20
634268 TTTTCACAAT
634278 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
634298 TTGTATCGATACATTGGTCA
1 TTGTATCGATACATTGTTCA
634318 TTGTATCGATACATTG-T-A
1 TTGTATCGATACATTGTTCA
* * *
634336 TCG-ATAC-ATTC-TGGGTTTACCCA
1 TTGTAT-CGATACAT-TG-TT---CA
* *
634359 GATGTATTGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
*
634380 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
634400 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
634420 ATGTATCGATACATT
1 TTGTATCGATACATT
634435 AAGGCATTTT
Statistics
Matches: 108, Mismatches: 15, Indels: 28
0.72 0.10 0.19
Matches are distributed among these distances:
16 1 0.01
17 6 0.06
18 4 0.04
19 3 0.03
20 81 0.75
21 3 0.03
23 3 0.03
24 1 0.01
25 5 0.05
26 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:634332 original size:13 final size:13
Alignment explanation
Indices: 634316--634345 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
634306 ATACATTGGT
634316 CATTGTATCGATA
1 CATTGTATCGATA
634329 CATTGTATCGATA
1 CATTGTATCGATA
634342 CATT
1 CATT
634346 CTGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:635559 original size:28 final size:29
Alignment explanation
Indices: 635514--635568 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
635504 CGATGATTAG
635514 AAAAAAAATCGGGATTGGAGTACCCCCTC
1 AAAAAAAATCGGGATTGGAGTACCCCCTC
* * *
635543 AAAAATAA-CGGGGTTGGAGTATCCCC
1 AAAAAAAATCGGGATTGGAGTACCCCC
635569 AATTATGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (29 bp):
AAAAAAAATCGGGATTGGAGTACCCCCTC
Found at i:635561 original size:78 final size:78
Alignment explanation
Indices: 635466--635650 Score: 210
Period size: 79 Copynumber: 2.4 Consensus size: 78
635456 TGTTCCCTTG
* * * * *
635466 AAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAATCGGGATT
1 AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAGAAAAAAAACCGGGATT
635530 GGAGTACCCCCTCA
65 GGAGTACCCCCTCA
* * * * * *
635544 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTT
1 AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-TTTAGAAAAAAAACCGGGATT
* *
635609 GGAGTATCCCCTCG
65 GGAGTACCCCCTCA
* *
635623 GAAGTAACGGGGTTGGAGTATCCCCGAT
1 AAAATAACGGGGTTGGAGTATCCCCGAT
635651 GAAATAACGA
Statistics
Matches: 89, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
77 1 0.01
78 37 0.42
79 51 0.57
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (78 bp):
AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAACCGGGATTG
GAGTACCCCCTCA
Found at i:635642 original size:28 final size:28
Alignment explanation
Indices: 635602--635673 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
635592 GGAATAAAGC
** *
635602 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
635630 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
635658 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
635674 TCGACTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:635813 original size:105 final size:103
Alignment explanation
Indices: 635661--635883 Score: 259
Period size: 105 Copynumber: 2.1 Consensus size: 103
635651 GAAATAACGA
* * * * *
635661 GGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCAGAGTTGGAGTATCC
1 GGTTGGAGTATCCCCGACTGTGAAAAATTAGTAGTTTTAGAAATAAAACCAGAGTTGGAGTATCC
* ** *
635726 CCGATTAAAGGGAAAATTGGTGTTTTGAAAATAAAACCGG
66 CCGATT--AGGAAAAATTAATATTTTGAAAATAAAACCGG
* * * *
635766 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGT-GTTTTAGCAATAAAACCGGGGTTGGAGTATC
1 GGTTGGAGTATCCCCGACTGT-GAAAAATTAGTAGTTTTAGAAATAAAACCAGAGTTGGAGTATC
* * **
635830 CCCGATTATGAAAAATTAATATTTTGGAAATAAAGTCGG
65 CCCGATTAGGAAAAATTAATATTTTGAAAATAAAACCGG
635869 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
635884 TCGGAAATAA
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
103 39 0.39
105 51 0.51
106 10 0.10
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (103 bp):
GGTTGGAGTATCCCCGACTGTGAAAAATTAGTAGTTTTAGAAATAAAACCAGAGTTGGAGTATCC
CCGATTAGGAAAAATTAATATTTTGAAAATAAAACCGG
Found at i:635814 original size:52 final size:51
Alignment explanation
Indices: 635661--636047 Score: 246
Period size: 51 Copynumber: 7.4 Consensus size: 51
635651 GAAATAACGA
* * * * * * *
635661 GGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGT-GTTTTGGAAATAAAACCGG
* * * * *
635713 AGTTGGAGTATCCCCGATTAAAGGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTAGTGTTTTGGAAATAAAACCGG
* * *
635766 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGGAAATAAAACCGG
* * **
635818 GGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
** * **** * *
635869 GGTTGGAGTATCCCC---TCGGAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTATGAAA-AA-----TT--AGTGTTTTGGA-AATAAAACCGG
* * *
635924 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATTAGTG--TTTTGGAAATAAAACCGG
* * * *
635978 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTCTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGGAAATAAAACCGG
* *
636029 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
636048 GTGGAGAATT
Statistics
Matches: 263, Mismatches: 51, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
48 5 0.02
49 2 0.01
51 75 0.29
52 63 0.24
53 49 0.19
54 35 0.13
55 18 0.07
56 7 0.03
57 2 0.01
58 6 0.02
59 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
Found at i:635870 original size:51 final size:51
Alignment explanation
Indices: 635661--635883 Score: 239
Period size: 52 Copynumber: 4.3 Consensus size: 51
635651 GAAATAACGA
* * * * * *
635661 GGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTA-TTTTGGAAATAAAACCGG
* * * * * *
635713 AGTTGGAGTATCCCCGATTAAAGGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTAGTATTTTGGAAATAAAACCGG
* * * *
635766 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTATTTTGGAAATAAAACCGG
* **
635818 GGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAACCGG
635869 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
635884 TCGGAAATAA
Statistics
Matches: 143, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
51 39 0.27
52 61 0.43
53 33 0.23
54 10 0.07
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAACCGG
Found at i:635883 original size:264 final size:263
Alignment explanation
Indices: 635551--636052 Score: 801
Period size: 264 Copynumber: 1.9 Consensus size: 263
635541 TCAAAAATAA
* *
635551 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* *
635616 CCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGACTG
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGACTG
635681 TGAA-AAATTGGT-ATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGGAAAATT
130 TGAAGAAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAA--GAAAATT
* * * *
635744 GGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAA
193 AGTGTCTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAA
635809 TAAAAC
258 TAAAAC
* * *
635815 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* * *
635880 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGT
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGACTGT
* * *
635945 GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGT
131 GAAGAAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
*
636010 GTCTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
196 GTCTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGA
636053 GAATTGAGAA
Statistics
Matches: 218, Mismatches: 18, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
263 76 0.35
264 103 0.47
265 39 0.18
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (263 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGACTGT
GAAGAAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
GTCTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAA
AAC
Found at i:635929 original size:27 final size:28
Alignment explanation
Indices: 635866--635941 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
635856 GAAATAAAGT
***
635866 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
635894 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
635921 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
635942 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:638441 original size:20 final size:20
Alignment explanation
Indices: 638395--638447 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
638385 AATTTTCAAG
***
638395 ATGTATCGATACAAAGATCC
1 ATGTATCGATACAAAGAAAA
* *
638415 ATATATCGATACACAGAAAA
1 ATGTATCGATACAAAGAAAA
638435 ATGTATCGATACA
1 ATGTATCGATACA
638448 TTCCCTTGAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (20 bp):
ATGTATCGATACAAAGAAAA
Found at i:641138 original size:52 final size:51
Alignment explanation
Indices: 641016--641182 Score: 237
Period size: 51 Copynumber: 3.3 Consensus size: 51
641006 TCTCATCTCG
* * *
641016 GGGATACTCCAA-TCCCGATTTCATTTCCAAAACATCAATTTTTCTTAGTCA
1 GGGATACTCCAACT-CCGATTTTATTTCCAAAACATCAATTTTTCATAATCA
* * * * *
641067 GAGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTTCCATAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTT-CATAATCA
641119 GGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCATAATCA
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCATAATCA
641170 GGGATACTCCAAC
1 GGGATACTCCAAC
641183 CCCGTTATTT
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
51 56 0.55
52 45 0.45
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.34
Consensus pattern (51 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCATAATCA
Found at i:641260 original size:51 final size:52
Alignment explanation
Indices: 641197--641313 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 52
641187 TTATTTTTGA
*
641197 GGGGATACTCCAACCTCC-ATTTTATTTCTAAAACACCAATTTTCCACAATC
1 GGGGATACTCCAACCTCCAATTTTATTTCCAAAACACCAATTTTCCACAATC
* * * * *
641248 GTGGATATTCCAA-CTCCAATTTTATTTCCAAAACACTAATTTTTCATAATC
1 GGGGATACTCCAACCTCCAATTTTATTTCCAAAACACCAATTTTCCACAATC
641299 GGGGATACTCCAACC
1 GGGGATACTCCAACC
641314 CCGTTATTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 4 0.07
51 51 0.91
52 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCTCCAATTTTATTTCCAAAACACCAATTTTCCACAATC
Found at i:641280 original size:130 final size:131
Alignment explanation
Indices: 641069--641322 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 131
641059 CTTAGTCAGA
* *
641069 GATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTTCCATAATCGGGGATACTCCAACTC
1 GATACTCCAACTCCGATTTTATTTCTAAAACACCCAATTTTCCACAATCGGGGATACTCCAACTC
*
641134 CGATTTTATTTCCAAAACA-TCAATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTTTGAG
66 CAATTTTATTTCCAAAACACT-AATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTTTGAG
641198 GG
130 GG
* *
641200 GATACTCCAACCTCC-ATTTTATTTCTAAAACA-CCAATTTTCCACAATCGTGGATATTCCAACT
1 GATACTCCAA-CTCCGATTTTATTTCTAAAACACCCAATTTTCCACAATCGGGGATACTCCAACT
*
641263 CCAATTTTATTTCCAAAACACTAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT
65 CCAATTTTATTTCCAAAACACTAATTTTTCATAATCAGGGATACTCCAACCCCGTTATTT
641323 CATCGGGGGT
Statistics
Matches: 115, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
130 83 0.72
131 28 0.24
132 4 0.03
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (131 bp):
GATACTCCAACTCCGATTTTATTTCTAAAACACCCAATTTTCCACAATCGGGGATACTCCAACTC
CAATTTTATTTCCAAAACACTAATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTTTGAGG
G
Found at i:641335 original size:28 final size:29
Alignment explanation
Indices: 641296--641372 Score: 113
Period size: 28 Copynumber: 2.7 Consensus size: 29
641286 ATTTTTCATA
641296 ATCGGGGATACTCCAACCCCGTTATTT-C
1 ATCGGGGATACTCCAACCCCGTTATTTCC
* *
641324 ATCGGGGGTACTCCAACCCAGTTATTTCC
1 ATCGGGGATACTCCAACCCCGTTATTTCC
*
641353 A-AGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
641373 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 41 0.95
29 2 0.05
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCGTTATTTCC
Found at i:641431 original size:51 final size:51
Alignment explanation
Indices: 641356--641473 Score: 173
Period size: 51 Copynumber: 2.3 Consensus size: 51
641346 TATTTCCAAG
*
641356 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATCA
1 GGGATACTCCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
** * * **
641407 GGGATACTTTAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATTG
1 GGGATACTCCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
641458 GGGATACTCCAACCCC
1 GGGATACTCCAACCCC
641474 ATTATTTTCA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
Found at i:641649 original size:130 final size:129
Alignment explanation
Indices: 641324--641661 Score: 306
Period size: 130 Copynumber: 2.6 Consensus size: 129
641314 CCGTTATTTC
* * ** * *
641324 ATCGGGGGTACTCCAACCCAGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTTAAGGGGATACTCCAA-CCCAGTTTTATTTCCAAAAT
* * * ** *
641389 ATTGATTTCTCACAATCAGGGATACTTTAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATA
65 ATTGATTTCTCACAATCAGGGACACTTCAACCCCGACCTTATTTCTAAAATATCAATTTCTCACA
* * * * * * ***
641454 ATTGGGGATACTCCAACCCCATTATTTTCACGGGGATATTCCAATCCCAATTTTATTTTTGAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTTAAGGGGATACTCCAA-CCCAGTTTTATTTCCAAAAT
* * ** * *
641519 ATCT-ATTT-TCTATAATCGGGGACACTTCAACCCTTACCTTATTT-TCAAATCATCAATTTTTC
65 AT-TGATTTCTC-ACAATCAGGGACACTTCAACCCCGACCTTATTTCTAAAAT-ATCAATTTCTC
641581 ACA
127 ACA
* *
641584 ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACACC-GTTATTATCTCCAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTTAAGGGGATACTCCAAC-CCAGTT-TTATTTCCAAAA
*
641648 TATTAAATTTCTCA
64 TATT-GATTTCTCA
641662 TAGGGAGATG
Statistics
Matches: 163, Mismatches: 37, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
129 11 0.07
130 144 0.88
131 6 0.04
132 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (129 bp):
ATCGGGGATACTCCAACCCCGTTATTTTTAAGGGGATACTCCAACCCAGTTTTATTTCCAAAATA
TTGATTTCTCACAATCAGGGACACTTCAACCCCGACCTTATTTCTAAAATATCAATTTCTCACA
Found at i:653959 original size:1 final size:1
Alignment explanation
Indices: 653945--654002 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
653935 ATTCCTTTTG
* * * * * * *
653945 AAAAAGAAACAAAAAAAAACAAAAAAAAACAAAAAAAACAAAGAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
654003 GAAGAACCTA
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:653964 original size:10 final size:10
Alignment explanation
Indices: 653945--654002 Score: 82
Period size: 10 Copynumber: 5.8 Consensus size: 10
653935 ATTCCTTTTG
*
653945 AAAAAGAAAC
1 AAAAAAAAAC
653955 AAAAAAAAAC
1 AAAAAAAAAC
653965 AAAAAAAAAC
1 AAAAAAAAAC
653975 -AAAAAAAAC
1 AAAAAAAAAC
*
653984 AAAGAAAAAAG
1 AAA-AAAAAAC
653995 AAAAAAAA
1 AAAAAAAA
654003 GAAGAACCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.20
10 26 0.59
11 9 0.20
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:654007 original size:12 final size:11
Alignment explanation
Indices: 653945--654008 Score: 60
Period size: 11 Copynumber: 5.7 Consensus size: 11
653935 ATTCCTTTTG
653945 AAAAAGAAACAA
1 AAAAAGAAA-AA
653957 AAAAA-AACAAA
1 AAAAAGAA-AAA
*
653968 AAAAA-ACAAA
1 AAAAAGAAAAA
* *
653978 AAAAACAAAGA
1 AAAAAGAAAAA
653989 AAAAAGAAAAA
1 AAAAAGAAAAA
654000 AAAGAAGAA
1 AAA-AAGAA
654009 CCTACTTAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
10 8 0.18
11 25 0.57
12 11 0.25
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:654007 original size:19 final size:19
Alignment explanation
Indices: 653951--654008 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
653941 TTTGAAAAAG
*
653951 AAACAAAAAAAAACAAAAAA
1 AAACAAAAAAAAA-AAGAAA
653971 AAACAAAAAAAACAAAGAAA
1 AAACAAAAAAAA-AAAGAAA
* *
653991 AAAGAAAAAAAAGAAGAA
1 AAACAAAAAAAAAAAGAA
654009 CCTACTTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.15
20 28 0.82
21 1 0.03
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (19 bp):
AAACAAAAAAAAAAAGAAA
Found at i:655089 original size:55 final size:54
Alignment explanation
Indices: 655005--655337 Score: 452
Period size: 55 Copynumber: 6.0 Consensus size: 54
654995 GATGCCTTTT
* * * *
655005 CCTTTTAAAGCCCACATAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGACG
655060 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACG
655115 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACG
* ** *
655170 CCTTTCAAAGCCCACACAAGTCGGTGGCATTTTTTAGTCCTCGAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGGACG
** *
655225 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTTTAGTCCTCAAAGAGCAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA---CCTTTAGTCCTCAAAGAGCAGGACG
* * *
655282 CCTTTCGAAGCCCACACAAGTTGGTGGCA-CTTCCCAATCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTT--TAGTCCTCAAAGAGCAGGACG
655337 C
1 C
655338 TCTCTTCTTT
Statistics
Matches: 256, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
53 2 0.01
54 1 0.00
55 198 0.77
56 3 0.01
57 52 0.20
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (54 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACG
Found at i:655121 original size:26 final size:26
Alignment explanation
Indices: 655089--655176 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
655079 GTTGGTGGCA
655089 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * ** *
655115 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
1 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
655144 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
655170 CCTTTCA
1 CCTTTCA
655177 AAGCCCACAC
Statistics
Matches: 45, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.38
27 6 0.13
28 6 0.13
29 10 0.22
30 3 0.07
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:655391 original size:93 final size:91
Alignment explanation
Indices: 655259--655437 Score: 234
Period size: 93 Copynumber: 1.9 Consensus size: 91
655249 TGGCATTTTT
** *
655259 TTTAGTCCTCAAAGAGCAGGATGCCTTTCGAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTC
1 TTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTT-CCAATCCTC
*
655324 AAAGAGCAGGACGCTCTCTTCTTTCGCCC
65 -AAGAGCAAGACGC-CTCTTCTTTCGCCC
* * * **
655353 TTTAGTCCTCAAAGA-CAGGACACCTTTTAAAGCTCACACCAGTTGGTGGCACTTCCTGTCCTCA
1 TTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCAATCCTCA
*
655417 AGAGCAAGACGCCTTTTCTTT
66 AGAGCAAGACGCCTCTTCTTT
655438 TCAAAGCCCA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
90 8 0.11
91 12 0.16
92 7 0.09
93 33 0.44
94 15 0.20
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (91 bp):
TTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCAATCCTCA
AGAGCAAGACGCCTCTTCTTTCGCCC
Found at i:655521 original size:45 final size:45
Alignment explanation
Indices: 655463--655599 Score: 158
Period size: 42 Copynumber: 3.1 Consensus size: 45
655453 GTTGGTGGCA
*
655463 CTTTTTAGTCCTCAAAGAGCAGGACACACTTCATTCCCTTCTTTTC
1 CTTTTT-GTCCTCAAAGAGCAGGACACACTTCATTTCCTTCTTTTC
* **
655509 CTTTTTGTCCTCAAAGAGTAGGACACACTTTGTTTTCC-TC-TTT-
1 CTTTTTGTCCTCAAAGAGCAGGACACAC-TTCATTTCCTTCTTTTC
* *
655552 C-TTTTGTCCTCAAAGAGCAGGACGCATTTCATTTTCCTT-TTTTC
1 CTTTTTGTCCTCAAAGAGCAGGACACACTTCA-TTTCCTTCTTTTC
655596 CTTT
1 CTTT
655600 GTCCTTGAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
41 2 0.03
42 28 0.37
43 5 0.07
44 4 0.05
45 25 0.33
46 12 0.16
ACGTcount: A:0.19, C:0.26, G:0.12, T:0.42
Consensus pattern (45 bp):
CTTTTTGTCCTCAAAGAGCAGGACACACTTCATTTCCTTCTTTTC
Found at i:655667 original size:41 final size:39
Alignment explanation
Indices: 655622--655725 Score: 104
Period size: 41 Copynumber: 2.6 Consensus size: 39
655612 TAGGACGTAC
* *
655622 TCTTTTTCACTTTGTCTTCAAAAAGCAAGACACT-TTCCTTT
1 TCTTTTTC-CTTTGTCCTCAAAAAGCAAGAC-CTATTCC-AT
* ** *
655663 TCTTTCTTCTTTTGTCCTCAAGGAGCAAGACCTATTTCAT
1 TCTTT-TTCCTTTGTCCTCAAAAAGCAAGACCTATTCCAT
655703 T-TTTTTCCTTTGTCCTCAAAAAG
1 TCTTTTTCCTTTGTCCTCAAAAAG
655726 TGGGACACCA
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
38 16 0.31
39 3 0.06
40 4 0.08
41 26 0.50
42 3 0.06
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (39 bp):
TCTTTTTCCTTTGTCCTCAAAAAGCAAGACCTATTCCAT
Found at i:656355 original size:20 final size:20
Alignment explanation
Indices: 656302--656389 Score: 91
Period size: 20 Copynumber: 4.8 Consensus size: 20
656292 TTTTCACAAT
* * *
656302 TTGTATTGATACAGTGTTCA
1 TTGTATCGATACATTGCTCA
656322 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGCTCA
656342 TTGTATCGAT--A-----CA
1 TTGTATCGATACATTGCTCA
*
656355 TTGTATCGATACATTACTCA
1 TTGTATCGATACATTGCTCA
656375 TTGTATCGATACATT
1 TTGTATCGATACATT
656390 TTACAATGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
13 12 0.21
15 1 0.02
18 1 0.02
20 44 0.76
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATTGCTCA
Found at i:656356 original size:13 final size:13
Alignment explanation
Indices: 656340--656369 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
656330 ATACATTGCT
656340 CATTGTATCGATA
1 CATTGTATCGATA
656353 CATTGTATCGATA
1 CATTGTATCGATA
656366 CATT
1 CATT
656370 ACTCATTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:656362 original size:33 final size:33
Alignment explanation
Indices: 656320--656389 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
656310 ATACAGTGTT
*
656320 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTACTCATTGTATCGATA
656353 CATTGTATCGATACATTACTCATTGTATCGATA
1 CATTGTATCGATACATTACTCATTGTATCGATA
656386 CATT
1 CATT
656390 TTACAATGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (33 bp):
CATTGTATCGATACATTACTCATTGTATCGATA
Found at i:656399 original size:20 final size:21
Alignment explanation
Indices: 656351--656409 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
656341 ATTGTATCGA
656351 TACATTGTATCGATACATTAC
1 TACATTGTATCGATACATTAC
*
656372 T-CATTGTATCGATACATT-T
1 TACATTGTATCGATACATTAC
* *
656391 TACAATGTATTGATACATT
1 TACATTGTATCGATACATT
656410 CAGGCATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 32 0.94
21 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.42
Consensus pattern (21 bp):
TACATTGTATCGATACATTAC
Found at i:664333 original size:32 final size:32
Alignment explanation
Indices: 664290--664360 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
664280 CCAGTGTATG
* *
664290 CGCAACTTATAGCCCATCTTTTGCTATCCCGC
1 CGCAACCTATAGCCCATCTTTTGCTATCCCAC
664322 CGCAACCTATAGCCCATCTTTTGCTATCCCAC
1 CGCAACCTATAGCCCATCTTTTGCTATCCCAC
*
664354 TGCAACC
1 CGCAACC
664361 AACAGGAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.21, C:0.39, G:0.11, T:0.28
Consensus pattern (32 bp):
CGCAACCTATAGCCCATCTTTTGCTATCCCAC
Found at i:665531 original size:14 final size:16
Alignment explanation
Indices: 665500--665546 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
665490 AAAAAAAGTC
665500 AAAA-GCAAAAGCACAA
1 AAAATGCAAAAGCA-AA
665516 AAAATG-AAAAG-AAA
1 AAAATGCAAAAGCAAA
*
665530 AAAGTGCAAAAGCAAA
1 AAAATGCAAAAGCAAA
665546 A
1 A
665547 TAAAAAAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
16 13 0.48
17 1 0.04
ACGTcount: A:0.70, C:0.11, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAATGCAAAAGCAAA
Found at i:667032 original size:28 final size:27
Alignment explanation
Indices: 666880--667687 Score: 623
Period size: 28 Copynumber: 28.0 Consensus size: 27
666870 ATTTCTTTTT
* * *
666880 AAAGTCCACAACTCAGTGGCACCCTTT-
1 AAAGCCCACAAGTCAGTGGCA-TCTTTC
* * * * *
666907 TAAGTCCACAACTCAGTGGCACCCTTTT
1 AAAGCCCACAAGTCAGTGGCA-TCTTTC
* *
666935 AAAGCCCATAAGTTAGTGGCACTCCTTTC
1 AAAGCCCACAAGTCAGTGGCA-T-CTTTC
*
666964 AAAGCCCACAAGTTAGTGGCACTTCTTTC
1 AAAGCCCACAAGTCAGTGGCA--TCTTTC
666993 AAAGCCCACAAGTCAGTGGCATCTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTT-C
* *
667021 AAAG-CTAGCAAGTTAGTGGCATCATTTC
1 AAAGCCCA-CAAGTCAGTGGCATC-TTTC
* * * *
667049 AAAGCACACAAGTTAGTGGAATCATTTT
1 AAAGCCCACAAGTCAGTGGCATC-TTTC
667077 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTC
* *
667105 AAAGCCCATAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTC
667133 AAAGCCCACAAGTCAGTGGCATCATTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTC
*
667161 AAAGCCCACAATTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTC
* *
667189 AAAGCCCGCAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTC
* *
667217 AAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-TC-TTTC
* *
667249 AAAGCCCACAAGTTAGTGGCATCCTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTC
* *
667276 TAAAGCCCATAAAAGTCAGTGGCAACTCATTTG
1 -AAAGCCC--ACAAGTCAGTGGC-A-TC-TTTC
* *
667309 AAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-TC-TTTC
** *
667341 AAAGCCCACACAAGTTGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-TC-TTTC
* * *
667373 AAAGCCCACACAAGTCGGTGTCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-TC-TTTC
* *
667405 AAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-TC-TTTC
*
667437 AAAGCCCACAAGTCGGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTC
* *
667465 AAAGTCCACAAGTCGGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTC
* *
667493 AAAGCCCACAAGTCGGTGGCATTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTC
*
667521 AAAGCCCACAAGTCAATGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTC
* * *
667549 CAAGCCCACGAGTCAGTGGCACCTTTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTC
* *
667577 AAAGCCCACGAGTCAGTGGCATCCTTCC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTC
*
667605 AAAGCCCACAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTC
*
667633 AAAGCCCACAAGTCAGTGGTATCTCTTC
1 AAAGCCCACAAGTCAGTGGCATCT-TTC
*
667661 AAAGCCCACACAAGTTAGTGGCA-CTTT
1 AAAG-CC-CACAAGTCAGTGGCATCTTT
667688 TTTTTTAAAA
Statistics
Matches: 678, Mismatches: 72, Indels: 61
0.84 0.09 0.08
Matches are distributed among these distances:
27 41 0.06
28 368 0.54
29 66 0.10
30 62 0.09
31 7 0.01
32 129 0.19
33 4 0.01
34 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (27 bp):
AAAGCCCACAAGTCAGTGGCATCTTTC
Found at i:667859 original size:48 final size:48
Alignment explanation
Indices: 667799--668026 Score: 393
Period size: 48 Copynumber: 4.8 Consensus size: 48
667789 GGAACCTTTA
667799 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
667847 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
*
667895 TTAGCTCAATGTCGCTGGCCTTGAATCAACACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* *
667943 TTAGCTCAATGTCACTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * **
667991 TTAGCTCAATGTTGTTGGCCTTGAATTGGCACATTG
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTG
668027 GCACTCTTCT
Statistics
Matches: 170, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 170 1.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (48 bp):
TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:670494 original size:4 final size:4
Alignment explanation
Indices: 670485--670512 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
670475 TGTTGCCAAA
670485 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
670513 CCTGGATTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:673026 original size:33 final size:33
Alignment explanation
Indices: 672978--673055 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
672968 CAAAAACTGC
*
672978 TAACTTTGATTATAGAT-TTATACACTTTTGGGT
1 TAACTTTGATCATAGATATTATACACTTTT-GGT
* *
673011 TAACCTTGATCATAGATATTATATACTTTTGGT
1 TAACTTTGATCATAGATATTATACACTTTTGGT
673044 TAACTTTGATCA
1 TAACTTTGATCA
673056 AATTTCTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 29 0.73
34 11 0.28
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (33 bp):
TAACTTTGATCATAGATATTATACACTTTTGGT
Found at i:680503 original size:28 final size:28
Alignment explanation
Indices: 680442--680523 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
680432 TTTTGGAGAT
*
680442 AATAACGGGGTTGGAGTGTTCCCTCG--GA
1 AATAACGGGGTTGGAGT-ATCCC-CGATGA
*
680470 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* *
680498 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
680524 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 4 0.09
28 41 0.87
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:680665 original size:51 final size:51
Alignment explanation
Indices: 680503--680674 Score: 202
Period size: 52 Copynumber: 3.3 Consensus size: 51
680493 GATGAAATAA
* *
680503 CGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAAT
* * * *
680555 CG-GTGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAT
1 CGAG-GTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAAT
* * *** *
680607 CGGGGTTGGAGTATCCCCGACTATGAAAAATCAATATTTTGGAAATAAAGT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
680658 CGAGGTTGGAGTATCCC
1 CGAGGTTGGAGTATCCC
680675 TTCGGAAATA
Statistics
Matches: 101, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
51 38 0.38
52 52 0.51
53 11 0.11
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
Found at i:680798 original size:211 final size:211
Alignment explanation
Indices: 680450--680833 Score: 596
Period size: 211 Copynumber: 1.8 Consensus size: 211
680440 ATAATAACGG
* *
680450 GGTTGGAGTGTTCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGT
1 GGTTGGAGTGATCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGT
* *
680515 ATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGTGTTGGAGTATCCCCGATTAAA
66 ATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA
** * *
680580 GGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGACTATGAAAAATCAATATT
131 GGAAAATTAATGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGACTATGAAAAATCAATATT
680645 TTGGAAATAAAGTCGA
196 TTGGAAATAAAGTCGA
* *
680661 GGTTGGAGT-ATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAG
1 GGTTGGAGTGATCCC-TCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAG
*
680724 TGTCCCCGATTGTGAAGAAATTTGTGT-TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGAT
65 TATCCCCGATTGTGAA-AAA-TTG-GTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGAT
*
680788 TATA-GAAAATTAATGTTTTGAAAATAAAATCGGAGTTGGAATATCC
127 TAAAGGAAAATTAATGTTTTGAAAATAAAATCGGAGTTGGAATATCC
680834 TCGATTGTGG
Statistics
Matches: 157, Mismatches: 12, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
210 32 0.20
211 81 0.52
212 42 0.27
213 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (211 bp):
GGTTGGAGTGATCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGT
ATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA
GGAAAATTAATGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGACTATGAAAAATCAATATT
TTGGAAATAAAGTCGA
Found at i:683221 original size:33 final size:33
Alignment explanation
Indices: 683183--683249 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
683173 AAAATTTCCA
***
683183 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
683216 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
683249 A
1 A
683250 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:683222 original size:13 final size:13
Alignment explanation
Indices: 683204--683229 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
683194 ACAAAGATCC
683204 ATGTATCGATACA
1 ATGTATCGATACA
683217 ATGTATCGATACA
1 ATGTATCGATACA
683230 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:683293 original size:19 final size:18
Alignment explanation
Indices: 683269--683336 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
683259 CAGTAGCTAA
683269 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
683288 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
683303 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
683320 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
683337 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:683309 original size:13 final size:13
Alignment explanation
Indices: 683291--683315 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
683281 ACAATACTTA
683291 TGTATCGATACAT
1 TGTATCGATACAT
683304 TGTATCGATACA
1 TGTATCGATACA
683316 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:683313 original size:32 final size:32
Alignment explanation
Indices: 683272--683334 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
683262 TAGCTAATTA
*
683272 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
683304 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
683335 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:683398 original size:21 final size:21
Alignment explanation
Indices: 683372--683448 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
683362 GTTGGGACCC
* *
683372 TGTATCGATACATTTGTA-GGA
1 TGTATCGATACA-TTCTACAGA
* *
683393 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAGA
683414 TGTATCGATACATTCTACAGA
1 TGTATCGATACATTCTACAGA
683435 TGTATCGATACATT
1 TGTATCGATACATT
683449 TGGATAAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAGA
Found at i:684482 original size:20 final size:20
Alignment explanation
Indices: 684415--684489 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
684405 AAAAAGACAG
*
684415 AATGTATCGATAC-TGTGAAG
1 AATGTATCGATACAT-TGAAA
* *
684435 AATGTATCGATACATTTATA
1 AATGTATCGATACATTGAAA
*
684455 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
* *
684475 AATATATCCATACAT
1 AATGTATCGATACAT
684490 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 44 0.98
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:685952 original size:21 final size:24
Alignment explanation
Indices: 685910--685953 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
685900 ATTATTATTT
*
685910 TTTAATAAAAAATGTTTAATTAAC
1 TTTAATAAAAAATGTATAATTAAC
685934 TTTAA-AAAAAAT-TAT-ATTAA
1 TTTAATAAAAAATGTATAATTAA
685954 TAAATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 2 0.11
23 7 0.37
24 5 0.26
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
TTTAATAAAAAATGTATAATTAAC
Done.