Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 3 of 163
Found at i:941689 original size:443 final size:442
Alignment explanation
Indices: 940865--941766 Score: 1226
Period size: 443 Copynumber: 2.0 Consensus size: 442
940855 TGAGGCAAGG
* * * * * *
940865 AAGTTCAACCAAACTTTTACAGTCAGAGCAATCAAGCCGTTCAAGCTTAATGGCTCTTGAGAGAT
1 AAGTTCAACCAAACTTGTACAGCCACAGCAATAAAGCCGTTCAAGCTTAATGGCCCTTGAAAGAT
* ** *
940930 TAGGTATCTTCCTCAAATTGCTACAATTTGAAACGTTAATTACTCTTAAATTAAAAAGGTCCTGT
66 TAGGTATCTTCCTCAAATTACTACAATTTGAAACGCAAATTACTCTTAAATTAAAAAGATCCTGT
* * *
940995 ACAAAAAAATAATTGTATTACTTTTAAGCATCAACTACTTGCCTCAGGTAATAAAAATAAAGAGG
131 ACAAAAAAATAATTGTATTACTTTTAAGCATCAACCACTTGCCTCAGGTAATAAAAATAAAAAGC
* * *
941060 AAATAAATAATTATAATATTAAGAAACATAAAAATTTATGTGTGATTTGTTGGGTGTGAAAATTC
196 AAATAAATAATTATAATATTAAGAAAAATAAAAATTTATATGTGATTTATTGGGTGTGAAAATTC
* * * *
941125 ACTCACAATTAACCTATCAAATGATGCCACTAATTTAAATAAAATAAAATAAAATATTTTATATT
261 ACCCACAATTAAACTATCAAATGATGCCACTAATTTAAATAAAATAAAATAAAATATTTCATATA
* *
941190 TATTTTTTAAAAACTTTAAATAAGATATCATCATATGAATATTTGATACATCAAATTATAA-ATC
326 TATATTCTAAAAACTTTAAATAAGATATCATCATATGAATATTTGATACATCAAATTATAATATC
* * * *
941254 TTTTTTTCAAAGAAAGTACGAAAACACATACCCCATGATCATCTTCATTCCA
391 TTTTTTTAAAACAAAGTACAAAAACACATACCCCATGATCAACTTCATTCCA
* * * *
941306 AAGTTCAACCAAACTTGTACAGCCACTGCAATAAAG-GGTTTCAAGGTTGATGGCCCTTGAAAGA
1 AAGTTCAACCAAACTTGTACAGCCACAGCAATAAAGCCG-TTCAAGCTTAATGGCCCTTGAAAGA
* * * * *
941370 TTATGTATTTTCCTTAAATTAC-AGCAATTTGAAACGCAAATTTC-CGTTAAATTAATAAGATCC
65 TTAGGTATCTTCCTCAAATTACTA-CAATTTGAAACGCAAATTACTC-TTAAATTAAAAAGATCC
* * * * *
941433 TGTACAAAAAATAATACTTGTGTTACTTTTAAGCATTAACCACTTGCTTTAGGCAGTAA-AAAAA
128 TGTAC-AAAAA-AATAATTGTATTACTTTTAAGCATCAACCACTTGCCTCA-G--GTAATAAAAA
*
941497 TAAAAAGCAAATAAATAATTATAATATTAA-AAAAAT-AAAATTTATATTTGATTTATTGGGTGT
188 TAAAAAGCAAATAAATAATTATAATATTAAGAAAAATAAAAATTTATATGTGATTTATTGGGTGT
*
941560 GAAAATTCACCCACAATTAAGAC-ATCAAATGATTCCACTAATTTAAATAAAATAAAATAAAATA
253 GAAAATTCACCCACAATTAA-ACTATCAAATGATGCCACTAATTTAAATAAAATAAAATAAAATA
* * * *
941624 TTTCATATATATATTCTATAAACTTTAAATAAGATGTCATGATATGAATATTTGATGCATCAAAT
317 TTTCATATATATATTCTAAAAACTTTAAATAAGATATCATCATATGAATATTTGATACATCAAAT
* *
941689 TATAATTTTTTTTTTTAAAACAAAGTACAAAAACACATACCCCATGATCAACTTCATTCCA
382 TATAATATCTTTTTTTAAAACAAAGTACAAAAACACATACCCCATGATCAACTTCATTCCA
*
941750 AAGTTCAACTAAACTTG
1 AAGTTCAACCAAACTTG
941767 AACAATTAGA
Statistics
Matches: 402, Mismatches: 49, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
440 3 0.01
441 107 0.27
442 5 0.01
443 178 0.44
444 72 0.18
445 33 0.08
446 4 0.01
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.33
Consensus pattern (442 bp):
AAGTTCAACCAAACTTGTACAGCCACAGCAATAAAGCCGTTCAAGCTTAATGGCCCTTGAAAGAT
TAGGTATCTTCCTCAAATTACTACAATTTGAAACGCAAATTACTCTTAAATTAAAAAGATCCTGT
ACAAAAAAATAATTGTATTACTTTTAAGCATCAACCACTTGCCTCAGGTAATAAAAATAAAAAGC
AAATAAATAATTATAATATTAAGAAAAATAAAAATTTATATGTGATTTATTGGGTGTGAAAATTC
ACCCACAATTAAACTATCAAATGATGCCACTAATTTAAATAAAATAAAATAAAATATTTCATATA
TATATTCTAAAAACTTTAAATAAGATATCATCATATGAATATTTGATACATCAAATTATAATATC
TTTTTTTAAAACAAAGTACAAAAACACATACCCCATGATCAACTTCATTCCA
Found at i:942749 original size:437 final size:432
Alignment explanation
Indices: 941799--944911 Score: 3447
Period size: 437 Copynumber: 7.2 Consensus size: 432
941789 TTCAAGAAAC
* * * *
941799 ATAAAAATTTATGTTTGATTTGTTGGGTGTGAAAATTCACCCACAATTAAC-CTATCAAATGATA
1 ATAAAAATTTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACACTATCAAATGATG
* * * * *
941863 CTACTAATTTAAATAAAATAAAATATTTT-ATATTTATTTTTTAAAAACTTTAAATAAGATAT-A
66 CCACTAATTTAAATAAAATAAACT-TTTTCATTTTTACTTTTTAAAAACTTTAAATAAGATGTCA
* *
941926 TCATATG-ATATTTGATACATCAAATTATAAATCTTTTTTTCAAAGGAAGTACGAAAACACATAC
130 TCATATGAATATTTGATACATCAAATTATAAA--TTTTTTTCAAAGAAAGTACGAAAGCACATAC
* * * *
941990 CCCATAATCATCTTCATTCCAAAGTTCAACCAAACTTGTACAGTCATAGCAATCAAGGATTTCAA
193 CCTATGATCATCTTCATTCCAAAGTTCAACCAAACTTGTACAGTCAGAGCAATCAAGGAATTCAA
* *
942055 GGTTGATGGCCCTTGAAAGATTATGTATCTTCCTTAAATTACTGC-ATTGTGAAACGTTAATTAT
258 GGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTACTGCAATT-TGAAACGTTAATTTT
* * * *
942119 CCTTAAATTAACAAGGTCCTGTAC--AAAAAAATAACTGCATTACTTTTAAGCATCAATTACTTT
322 CCTTAAATTAACAAGGTCCTGTACAAAAAAAAATAATTGTATTACTTTTAAGCATCAACTACTTG
942182 CTTTAGGCAGTAAAAAA-ATAAAAAGGAAATAAATAATTATAATATT-AAAAA
387 C--T----AGTAAAAAATA-AAAAAGGAAATAAATAATTATAATATTAAAAAA
*
942233 ATAAAAATTTATATTTGATGTATTGGATGTGAAAATTCACCCACAATT---A--A-C-AATGATG
1 ATAAAAATTTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACACTATCAAATGATG
*
942291 CCACTAATTTAAATAAAATAAAATAAACTTTTTCATGTTTAGTACTTTTTAAAAATTTTAAATAA
66 CCACTAA-TT---T-AAATAAAATAAACTTTTTCAT-TTT--TACTTTTTAAAAACTTTAAATAA
*
942356 GATGTCATCATATGAATATTTGATACATCAAATTATAAATTATTTTTCAAAGAAAGTACGAAAAC
123 GATGTCATCATATGAATATTTGATACATCAAATTATAAATT-TTTTTCAAAGAAAGTACGAAAGC
* *
942421 ACATACCCTATGATCATCTTCATTCCAAAGTTCAACCAAACTTGTACAGTCATTA-CAATAAAGG
187 ACATACCCTATGATCATCTTCATTCCAAAGTTCAACCAAACTTGTACAGTCA-GAGCAATCAAGG
** * * * * * *
942485 TTTTCAAAGTTGATCGCCCTTGAAAGATTAGGTATCTTCCTTAAATTACTACAATTTGAAACGTG
251 AATTCAAGGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTACTGCAATTTGAAACGTT
** * *
942550 AATTGCCCTTAAATTAATAAGGTTCTGTACAAAAAAAAATAATTGTATTACTTTTAAGCATCAAC
316 AATTTTCCTTAAATTAACAAGGTCCTGTACAAAAAAAAATAATTGTATTACTTTTAAGCATCAAC
*
942615 TACTTGCTAGTAAAAAAT-AAAAAGCAAATAAATAATTATAATATTAAAAAA
381 TACTTGCTAGTAAAAAATAAAAAAGGAAATAAATAATTATAATATTAAAAAA
*
942666 ATAAAAACTTT-TATTTGATTTATTGGGTGTGAAAATTCACCCACAATTAACACTAGATCAAATG
1 ATAAAAA-TTTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACACT--ATCAAATG
*
942730 ATGCCACTAATTTAAATAAAAT--A---TTTCATATATATA-TTTTCTAAAAACTTTAAATAAGA
63 ATGCCACTAATTTAAATAAAATAAACTTTTTCAT-T-TTTACTTTT-TAAAAACTTTAAATAAGA
* * * * * *
942789 TGTTATGATATGAATATTTGATAAATCAAATAATAAATCTTTTTTTTTTCAAATAAAGTACAAAA
125 TGTCATCATATGAATATTTGATACATCAAATTATAAA-----TTTTTTTCAAAGAAAGTACGAAA
* * * * *
942854 ACACATACCC-ATGATCATTTTTATTCCAAAGTTCAATCAAACTTGTACAGTTC-GAGCAATTAA
185 GCACATACCCTATGATCATCTTCATTCCAAAGTTCAACCAAACTTGTACAG-TCAGAGCAATCAA
* * * * * * * * **
942917 GTAATTCAAGGTTGATGGCTCTTCAAAGATTAGGTATATTCCTTAAATTATTACAATGTGGAATA
249 GGAATTCAAGGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTACTGCAATTTGAAACG
* * * ** *
942982 TAAATTTTCCTTAAATTATCAAAGTCCCATACAAAAAAAAAATAATTATATTA-TATTTAAGCAT
314 TTAATTTTCCTTAAATTAACAAGGTCCTGTAC-AAAAAAAAATAATTGTATTACT-TTTAAGCAT
* *
943046 CAACTACTTGTTTTAGACAGTAAAAATAAAAAAGGAAATAAATAATTATAATATTAATAAAA
377 CAACTACTTG--CTAG-TA--AAAAATAAAAAAGGAAATAAATAATTATAATATTAA-AAAA
* * * *
943108 ATAAAAATTTACATTTGATGTATTGGATGTAAAAATTCACCCACAATTAACAC-ATCAAATGATA
1 ATAAAAATTTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACACTATCAAATGATG
* *
943172 CCACTAATTTAAATAAAATAAAATAAACTTTTTCATTTTTGCTTTTTAAAAACTTTAAATAAAAT
66 CCACTAA-TT---T-AAATAAAATAAACTTTTTCATTTTTACTTTTTAAAAACTTTAAATAAGAT
* * *
943237 GTCATTATATGATTATTTGATACATCAAATTAT-AATTTTTTTCAAAGAAATTACGAAAGCACAT
126 GTCATCATATGAATATTTGATACATCAAATTATAAATTTTTTTCAAAGAAAGTACGAAAGCACAT
* * * * *
943301 ACCTTATGATCATCTTCATTCCAGAGTTTAACCAAACTTTTACAGTAAGAGCAATCAAGGAATTC
191 ACCCTATGATCATCTTCATTCCAAAGTTCAACCAAACTTGTACAGTCAGAGCAATCAAGGAATTC
* * * * * * * *
943366 AATGCTGATGGCTCTTGAAAGATTATGTATATTTCTTAAATTACTGCAATGTGGAACATAAATTT
256 AAGGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTACTGCAATTTGAAACGTTAATTT
* * * *
943431 TCCTTAAATTAACAAGATCCTGTACAAAAAAAAATAATTATATTACATTTAAGCATCAATTACTT
321 TCCTTAAATTAACAAGGTCCTGTACAAAAAAAAATAATTGTATTACTTTTAAGCATCAACTACTT
* * *
943496 G-T--T------TTAGACA-G---T--A-AA--A-AATA--AAAAAA
386 GCTAGTAAAAAATAAAAAAGGAAATAAATAATTATAATATTAAAAAA
*
943522 ATAAAAATTTATATTTGATGTATTGGGTGTG-------ACCCACAATTAACAC-ATCAAATGATA
1 ATAAAAATTTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACACTATCAAATGATG
*
943579 CCACTAATTTAAATAAAATAAAATAAATTTTTTCATTTTTACTTTTTAAAAACTTTAAATAAGAT
66 CCACTAA-TT---T-AAATAAAATAAACTTTTTCATTTTTACTTTTTAAAAACTTTAAATAAGAT
* *
943644 GTCATCATATGATTATTTGATACATCAAATTAT-AATTTTATTTCAAAGAAATTACGAAAGCACA
126 GTCATCATATGAATATTTGATACATCAAATTATAAATTTT-TTTCAAAGAAAGTACGAAAGCACA
* *
943708 TACCCTATGATCATCTTCATTCCAAAGTTCAACCAAACTT-TCACAATTAGAGCAATCAAGGAAT
190 TACCCTATGATCATCTTCATTCCAAAGTTCAACCAAACTTGT-ACAGTCAGAGCAATCAAGGAAT
* * *
943772 TCAAGGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTATTACAATTTGAAATGTTAAT
254 TCAAGGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTACTGCAATTTGAAACGTTAAT
* * * *
943837 TTTCTTTAAATTAACAAGGTCCTGTACAAAAAAAAAATAACTATATTACTTTTAAACATCAACTA
319 TTTCCTTAAATTAACAAGGTCCTGTAC-AAAAAAAAATAATTGTATTACTTTTAAGCATCAACTA
* * * * * * *
943902 CTTTCT-TTAGACAGTAAAAAAGAGAAATAAATAATTATAACAGTAAGAAAA
383 CTTGCTAGTAAAAAATAAAAAAG-GAAATAAATAATTATAATATTAA-AAAA
*
943953 ATAAAAATTTATATTTGATGTTTTGGGTGTGAAAATTCACCCACAATTAACAC-ATCAAATGATG
1 ATAAAAATTTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACACTATCAAATGATG
* *
944017 CCACTAATTTAAATAAAACAAAATAAACTTTTTCATTTTCACTTTTTAAAAACTTTAAATAAAAT
66 CCACTAATTTAAAT-----AAAATAAACTTTTTCATTTTTACTTTTTAAAAACTTTAAATAAGAT
944082 GTCATCATATG-ATAATTTGATACATCAAATTATAAATCTTTTTTCAAAGAAAGTACGAAAGCAC
126 GTCATCATATGAAT-ATTTGATACATCAAATTATAAAT-TTTTTTCAAAGAAAGTACGAAAGCAC
* * * *
944146 ATACCCTATGATCATCTTCATTCCAAAGTTCAACCAAACTTTTACAATTAGAGCAATCTAGGAAT
189 ATACCCTATGATCATCTTCATTCCAAAGTTCAACCAAACTTGTACAGTCAGAGCAATCAAGGAAT
** * * *
944211 TCAAGGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTTTTGCAATATGGAACATTAAT
254 TCAAGGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTACTGCAATTTGAAACGTTAAT
* * *
944276 TTTCCTTAAATTAACAAGGTCCTGTAC---GAAAAA-AA-TGTATTACTTTTAAGCATCAACAAT
319 TTTCCTTAAATTAACAAGGTCCTGTACAAAAAAAAATAATTGTATTACTTTTAAGCATCAACTAC
944336 TTGCTTTAGACAATAAAAAATAAAAAA-GAAATAAATAATTATAATATTAAATAAA
384 TTGC--TAG----TAAAAAATAAAAAAGGAAATAAATAATTATAATATTAAA-AAA
* *
944391 ATAAAAAATTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACTC-ATCAAATGATG
1 ATAAAAATTTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACACTATCAAATGATG
* * * * *
944455 CCACTAATTAAATAAAATAAAATAAATTTTTTCATATTTACTTTTTAAAAGCTTTAAATAAAATA
66 CCACTAATT---T-AAATAAAATAAACTTTTTCATTTTTACTTTTTAAAAACTTTAAATAAGATG
* * * * *
944520 TCATCATATAAATACTTGATACATCAAATTATAAATCTTTTCTGAAAGAAAGTAGGAAAGCACAT
127 TCATCATATGAATATTTGATACATCAAATTATAAAT-TTTTTTCAAAGAAAGTACGAAAGCACAT
* * * * *
944585 ATCCTATGATCATCTTCATTCCAAAGTTCAACCAAACTT-TCACATTTATAACAATCAAGGAATT
191 ACCCTATGATCATCTTCATTCCAAAGTTCAACCAAACTTGT-ACAGTCAGAGCAATCAAGGAATT
* *
944649 CAAGGTTGATGGCTCTTGAAAGATTATGTATCTTCTTTAAATTA-TCGCAATTTGAAAAGTTAAT
255 CAAGGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTACT-GCAATTTGAAACGTTAAT
944713 TTTCCTTAAATTAACAAGGTCCTGT-----AAAAAA-AATTGTATTACTTTTAAGCATCAATTGC
319 TTTCCTTAAATTAACAAGGTCCTGTACAAAAAAAAATAATTGTATTACTTTTAAGCATCAA---C
*
944772 TTACTTTAGGC-AGTAAAAAATAAAAAA-GAAATAAATAATTATAATACTAAAAAA
381 -TAC-TT--GCTAGTAAAAAATAAAAAAGGAAATAAATAATTATAATATTAAAAAA
* * * * * * *
944826 ATTAAAATTTATATTTAATGTATTGGGTGTGAAAATTCACCCGCAATTTATA-GATCAAATCATG
1 ATAAAAATTTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACACTATCAAATGATG
944890 CCACTAATTTAAATAAAATAAA
66 CCACTAATTTAAATAAAATAAA
944912 ATAAAATATT
Statistics
Matches: 2337, Mismatches: 215, Indels: 257
0.83 0.08 0.09
Matches are distributed among these distances:
407 127 0.05
408 160 0.07
409 36 0.02
410 1 0.00
411 1 0.00
414 32 0.01
415 2 0.00
417 8 0.00
418 1 0.00
419 1 0.00
420 2 0.00
421 1 0.00
422 1 0.00
423 1 0.00
424 1 0.00
425 2 0.00
426 1 0.00
427 5 0.00
428 15 0.01
429 3 0.00
430 7 0.00
431 98 0.04
432 39 0.02
433 101 0.04
434 171 0.07
435 150 0.06
436 90 0.04
437 423 0.18
438 233 0.10
439 226 0.10
440 27 0.01
441 104 0.04
442 193 0.08
443 3 0.00
444 9 0.00
446 3 0.00
447 48 0.02
448 5 0.00
449 6 0.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.35
Consensus pattern (432 bp):
ATAAAAATTTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACACTATCAAATGATG
CCACTAATTTAAATAAAATAAACTTTTTCATTTTTACTTTTTAAAAACTTTAAATAAGATGTCAT
CATATGAATATTTGATACATCAAATTATAAATTTTTTTCAAAGAAAGTACGAAAGCACATACCCT
ATGATCATCTTCATTCCAAAGTTCAACCAAACTTGTACAGTCAGAGCAATCAAGGAATTCAAGGT
TGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTACTGCAATTTGAAACGTTAATTTTCCTT
AAATTAACAAGGTCCTGTACAAAAAAAAATAATTGTATTACTTTTAAGCATCAACTACTTGCTAG
TAAAAAATAAAAAAGGAAATAAATAATTATAATATTAAAAAA
Found at i:943462 original size:876 final size:873
Alignment explanation
Indices: 941799--944936 Score: 3870
Period size: 876 Copynumber: 3.6 Consensus size: 873
941789 TTCAAGAAAC
* * *
941799 ATAAAAATTTATGTTTGATTTGTTGGGTGTGAAAATTCACCCACAATTAAC-CTATCAAATGATA
1 ATAAAAATTTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACACTATCAAATGATA
* * * *
941863 CTACTAATT-T-AAATAAAATAAAATATTTT-ATATTTATTTTTTAAAAACTTTAAATAAGATAT
66 CCACTAATTATAAAATAAAAT--AATTTTTTCATATTTACTTTTTAAAAACTTTAAATAAGATGT
*
941925 -ATCATATG-ATATTTGATACATCAAATTATAAATCTTTTTTTCAAAGGAAGTACGAAAACACAT
129 CATCATATGAATATTTGATACATCAAATTATAAATCTTTTTTTCAAAGAAAGTACGAAAACACAT
* * * *
941988 ACCCCATAATCATCTTCATTCCAAAGTTCAACCAAACTTGT-ACAGTCATAGCAATCAAGGATTT
194 ACCCCATGATCATCTTCATTCCAAAGTTCAACCAAACTT-TCACAGTTAGAGCAATCAAGGAATT
* * * * **
942052 CAAGGTTGATGGCCCTTGAAAGATTATGTATCTTCCTTAAATTACTGCATTGTGAAACGTTAATT
258 CAAGGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTATTACAATGTGAAATATTAATT
* * ** *
942117 ATCCTTAAATTAACAAGGTCCTGTAC-AAAAAAATAACTGCATTACTTTTAAGCATCAATTACTT
323 TTCCTTAAATTAACAAGGTCCCGTACAAAAAAAATAACTATATTACTTTTAAGCATCAACTACTT
* *
942181 TCTTTAGGCAGTAAAAAAATAAAAAGGAAATAAATAATTATAATATT-AAAAAATAAAAATTTAT
388 TCTTTAGACAGT--AAAAATAAAAAAGAAATAAATAATTATAATATTAAAAAAATAAAAATTTAT
942245 ATTTGATGTATTGGATGTGAAAATTCACCCACAATT---A-A-C-AATGATGCCACTAATTTAAA
451 ATTTGATGTATTGGATGTGAAAATTCACCCACAATTAACACATCAAATGATGCCACTAATTTAAA
* *
942304 TAAAATAAAATAAACTTTTTCATGTTTAGTACTTTTTAAAAATTTTAAATAAGATGTCATCATAT
516 TAAAATAAAATAAACTTTTTCAT-TTT--TACTTTTTAAAAACTTTAAATAAAATGTCATCATAT
* *
942369 GAATATTTGATACATCAAATTATAAATTATTTTTCAAAGAAAGTACGAAAACACATACCCTATGA
578 GATTATTTGATACATCAAATTATAAATT-TTTTTCAAAGAAAGTACGAAAGCACATACCCTATGA
* ** * **
942434 TCATCTTCATTCCAAAGTTCAACCAAACTTGTACAGTCATTA-CAATAAAGGTTTTCAAAGTTGA
642 TCATCTTCATTCCAAAGTTCAACCAAACTTTTACAGT-AAGAGCAATCAAGGAATTCAAAGTTGA
* * * * * * * * **
942498 TCGCCCTTGAAAGATTAGGTATCTTCCTTAAATTACTACAATTTGAAACGTGAATTGCCCTTAAA
706 TGGCTCTTGAAAGATTATGTATCTTCCTTAAATTACTGCAATATGGAACATAAATTTTCCTTAAA
* *
942563 TTAATAAGGTTCTGTACAAAAAAAAATAATTGTATTACTTTTAAGCATCAACTACTTGCTAGTAA
771 TTAACAAGGTCCTGTACAAAAAAAAATAATTGTATTACTTTTAAGCATCAACTACTTGCTAGTAA
942628 AAAATAAAAAGCAAATAAATAATTATAATATTAAAAAA
836 AAAATAAAAAGCAAATAAATAATTATAATATTAAAAAA
*
942666 ATAAAAACTTT-TATTTGATTTATTGGGTGTGAAAATTCACCCACAATTAACACTAGATCAAATG
1 ATAAAAA-TTTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACACT--ATCAAATG
* ** *
942730 ATGCCACTAATT-T-AAATAAAAT-ATTTCAT-ATATATA-TTTTCTAAAAACTTTAAATAAGAT
63 ATACCACTAATTATAAAATAAAATAATTTTTTCATATTTACTTTT-TAAAAACTTTAAATAAGAT
* * * * * *
942790 GTTATGATATGAATATTTGATAAATCAAATAATAAATCTTTTTTTTTTCAAATAAAGTACAAAAA
127 GTCATCATATGAATATTTGATACATCAAATTATAAATC---TTTTTTTCAAAGAAAGTACGAAAA
* * * * *
942855 CACATA-CCCATGATCATTTTTATTCCAAAGTTCAATCAAACTTGT-ACAGTTCGAGCAATTAAG
189 CACATACCCCATGATCATCTTCATTCCAAAGTTCAACCAAACTT-TCACAGTTAGAGCAATCAAG
* * * * *
942918 TAATTCAAGGTTGATGGCTCTTCAAAGATTAGGTATATTCCTTAAATTATTACAATGTGGAATAT
253 GAATTCAAGGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTATTACAATGTGAAATAT
* * * * *
942983 AAATTTTCCTTAAATTATCAAAGTCCCATACAAAAAAAAAATAATTATATTA-TATTTAAGCATC
318 TAATTTTCCTTAAATTAACAAGGTCCCGTAC--AAAAAAAATAACTATATTACT-TTTAAGCATC
943047 AACTACTTGT-TTTAGACAGTAAAAATAAAAAAGGAAATAAATAATTATAATATTAATAAAAATA
380 AACTACTT-TCTTTAGACAGTAAAAATAAAAAA-GAAATAAATAATTATAATATTAA-AAAAATA
* * *
943111 AAAATTTACATTTGATGTATTGGATGTAAAAATTCACCCACAATTAACACATCAAATGATACCAC
442 AAAATTTATATTTGATGTATTGGATGTGAAAATTCACCCACAATTAACACATCAAATGATGCCAC
*
943176 TAATTTAAATAAAATAAAATAAACTTTTTCATTTTTGCTTTTTAAAAACTTTAAATAAAATGTCA
507 TAATTTAAATAAAATAAAATAAACTTTTTCATTTTTACTTTTTAAAAACTTTAAATAAAATGTCA
* * *
943241 TTATATGATTATTTGATACATCAAATTAT-AATTTTTTTCAAAGAAATTACGAAAGCACATACCT
572 TCATATGATTATTTGATACATCAAATTATAAATTTTTTTCAAAGAAAGTACGAAAGCACATACCC
* * *
943305 TATGATCATCTTCATTCCAGAGTTTAACCAAACTTTTACAGTAAGAGCAATCAAGGAATTCAATG
637 TATGATCATCTTCATTCCAAAGTTCAACCAAACTTTTACAGTAAGAGCAATCAAGGAATTCAAAG
* * * *
943370 CTGATGGCTCTTGAAAGATTATGTATATTTCTTAAATTACTGCAATGTGGAACATAAATTTTCCT
702 TTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTACTGCAATATGGAACATAAATTTTCCT
* * * *
943435 TAAATTAACAAGATCCTGTACAAAAAAAAATAATTATATTACATTTAAGCATCAATTACTTG-T-
767 TAAATTAACAAGGTCCTGTACAAAAAAAAATAATTGTATTACTTTTAAGCATCAACTACTTGCTA
* * *
943498 -T------T-TAGA-C-AGT--A-AA--A-AATA--AAAAAA
832 GTAAAAAATAAAAAGCAAATAAATAATTATAATATTAAAAAA
943522 ATAAAAATTTATATTTGATGTATTGGGTGTG-------ACCCACAATTAACAC-ATCAAATGATA
1 ATAAAAATTTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACACTATCAAATGATA
*
943579 CCACTAATTTAAATAAAATAAAATAAATTTTTTCATTTTTACTTTTTAAAAACTTTAAATAAGAT
66 CCACTAA-TT--ATAAAATAAAAT-AATTTTTTCATATTTACTTTTTAAAAACTTTAAATAAGAT
* * * *
943644 GTCATCATATGATTATTTGATACATCAAATTAT-AAT-TTTATTTCAAAGAAATTACGAAAGCAC
127 GTCATCATATGAATATTTGATACATCAAATTATAAATCTTTTTTTCAAAGAAAGTACGAAAACAC
* *
943707 ATACCCTATGATCATCTTCATTCCAAAGTTCAACCAAACTTTCACAATTAGAGCAATCAAGGAAT
192 ATACCCCATGATCATCTTCATTCCAAAGTTCAACCAAACTTTCACAGTTAGAGCAATCAAGGAAT
* *
943772 TCAAGGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTATTACAATTTGAAATGTTAAT
257 TCAAGGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTATTACAATGTGAAATATTAAT
* * *
943837 TTTCTTTAAATTAACAAGGTCCTGTACAAAAAAAAAATAACTATATTACTTTTAAACATCAACTA
322 TTTCCTTAAATTAACAAGGTCCCGTAC--AAAAAAAATAACTATATTACTTTTAAGCATCAACTA
* * *
943902 CTTTCTTTAGACAGT---AA-AAAAGAGAAATAAATAATTATAACAGTAAGAAAAATAAAAATTT
385 CTTTCTTTAGACAGTAAAAATAAAAAAGAAATAAATAATTATAATATTAA-AAAAATAAAAATTT
* *
943963 ATATTTGATGTTTTGGGTGTGAAAATTCACCCACAATTAACACATCAAATGATGCCACTAATTTA
449 ATATTTGATGTATTGGATGTGAAAATTCACCCACAATTAACACATCAAATGATGCCACTAATTTA
* *
944028 AATAAAACAAAATAAACTTTTTCATTTTCACTTTTTAAAAACTTTAAATAAAATGTCATCATATG
514 AATAAAATAAAATAAACTTTTTCATTTTTACTTTTTAAAAACTTTAAATAAAATGTCATCATATG
*
944093 ATAATTTGATACATCAAATTATAAATCTTTTTTCAAAGAAAGTACGAAAGCACATACCCTATGAT
579 ATTATTTGATACATCAAATTATAAAT-TTTTTTCAAAGAAAGTACGAAAGCACATACCCTATGAT
* * * *
944158 CATCTTCATTCCAAAGTTCAACCAAACTTTTACAATTAGAGCAATCTAGGAATTCAAGGTTGATG
643 CATCTTCATTCCAAAGTTCAACCAAACTTTTACAGTAAGAGCAATCAAGGAATTCAAAGTTGATG
** *
944223 GCTCTTGAAAGATTATGTATCTTCCTTAAATTTTTGCAATATGGAACATTAATTTTCCTTAAATT
708 GCTCTTGAAAGATTATGTATCTTCCTTAAATTACTGCAATATGGAACATAAATTTTCCTTAAATT
* * *
944288 AACAAGGTCCTGTAC---GAAAAA-AA-TGTATTACTTTTAAGCATCAACAATTTGCTTTAGACA
773 AACAAGGTCCTGTACAAAAAAAAATAATTGTATTACTTTTAAGCATCAACTACTTGC--TAG---
944348 ATAAAAAATAAAAAAG-AAATAAATAATTATAATATTAAATAAA
833 -TAAAAAAT-AAAAAGCAAATAAATAATTATAATATTAAA-AAA
* * *
944391 ATAAAAAATTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACTC-ATCAAATGATG
1 ATAAAAATTTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACACTATCAAATGATA
* * *
944455 CCACTAATTAAATAAAATAAAATAAATTTTTTCATATTTACTTTTTAAAAGCTTTAAATAAAATA
66 CCACTAATT--ATAAAATAAAAT-AATTTTTTCATATTTACTTTTTAAAAACTTTAAATAAGATG
* * * * * *
944520 TCATCATATAAATACTTGATACATCAAATTATAAATC-TTTTCTGAAAGAAAGTAGGAAAGCACA
128 TCATCATATGAATATTTGATACATCAAATTATAAATCTTTTTTTCAAAGAAAGTACGAAAACACA
* * * * *
944584 TATCCTATGATCATCTTCATTCCAAAGTTCAACCAAACTTTCACATTTATAACAATCAAGGAATT
193 TACCCCATGATCATCTTCATTCCAAAGTTCAACCAAACTTTCACAGTTAGAGCAATCAAGGAATT
* ** *
944649 CAAGGTTGATGGCTCTTGAAAGATTATGTATCTTCTTTAAATTATCGCAATTTGAAA-AGTTAAT
258 CAAGGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTATTACAATGTGAAATA-TTAAT
* * * *
944713 TTTCCTTAAATTAACAAGGTCCTGT--AAAAAAAAT---TGTATTACTTTTAAGCATCAATTGCT
322 TTTCCTTAAATTAACAAGGTCCCGTACAAAAAAAATAACTATATTACTTTTAAGCATCAACTACT
* * * *
944773 TACTTTAGGCAGTAAAAAATAAAAAAGAAATAAATAATTATAATACTAAAAAAATTAAAATTTAT
387 TTCTTTAGACAGT-AAAAATAAAAAAGAAATAAATAATTATAATATTAAAAAAATAAAAATTTAT
* * * * * * *
944838 ATTTAATGTATTGGGTGTGAAAATTCACCCGCAATTTATAGATCAAATCATGCCACTAATTTAAA
451 ATTTGATGTATTGGATGTGAAAATTCACCCACAATTAACACATCAAATGATGCCACTAATTTAAA
* * * *
944903 TAAAATAAAATAAAATATTTCATATTTATTTTTT
516 TAAAATAAAATAAACTTTTTCATTTTTACTTTTT
944937 CTTTTAAAAA
Statistics
Matches: 1974, Mismatches: 213, Indels: 162
0.84 0.09 0.07
Matches are distributed among these distances:
842 23 0.01
843 2 0.00
844 5 0.00
845 178 0.09
846 25 0.01
847 171 0.09
849 42 0.02
850 179 0.09
851 11 0.01
853 8 0.00
854 52 0.03
855 7 0.00
856 32 0.02
857 1 0.00
858 4 0.00
859 3 0.00
860 2 0.00
861 2 0.00
862 2 0.00
863 2 0.00
864 2 0.00
865 2 0.00
866 10 0.01
867 76 0.04
868 15 0.01
869 90 0.05
870 28 0.01
871 127 0.06
872 47 0.02
873 126 0.06
874 68 0.03
875 137 0.07
876 389 0.20
877 4 0.00
878 55 0.03
879 1 0.00
880 4 0.00
881 42 0.02
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (873 bp):
ATAAAAATTTATATTTGATGTATTGGGTGTGAAAATTCACCCACAATTAACACTATCAAATGATA
CCACTAATTATAAAATAAAATAATTTTTTCATATTTACTTTTTAAAAACTTTAAATAAGATGTCA
TCATATGAATATTTGATACATCAAATTATAAATCTTTTTTTCAAAGAAAGTACGAAAACACATAC
CCCATGATCATCTTCATTCCAAAGTTCAACCAAACTTTCACAGTTAGAGCAATCAAGGAATTCAA
GGTTGATGGCTCTTGAAAGATTATGTATCTTCCTTAAATTATTACAATGTGAAATATTAATTTTC
CTTAAATTAACAAGGTCCCGTACAAAAAAAATAACTATATTACTTTTAAGCATCAACTACTTTCT
TTAGACAGTAAAAATAAAAAAGAAATAAATAATTATAATATTAAAAAAATAAAAATTTATATTTG
ATGTATTGGATGTGAAAATTCACCCACAATTAACACATCAAATGATGCCACTAATTTAAATAAAA
TAAAATAAACTTTTTCATTTTTACTTTTTAAAAACTTTAAATAAAATGTCATCATATGATTATTT
GATACATCAAATTATAAATTTTTTTCAAAGAAAGTACGAAAGCACATACCCTATGATCATCTTCA
TTCCAAAGTTCAACCAAACTTTTACAGTAAGAGCAATCAAGGAATTCAAAGTTGATGGCTCTTGA
AAGATTATGTATCTTCCTTAAATTACTGCAATATGGAACATAAATTTTCCTTAAATTAACAAGGT
CCTGTACAAAAAAAAATAATTGTATTACTTTTAAGCATCAACTACTTGCTAGTAAAAAATAAAAA
GCAAATAAATAATTATAATATTAAAAAA
Found at i:945205 original size:18 final size:19
Alignment explanation
Indices: 945182--945217 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
945172 TACTTTTGAC
945182 AATAAAAAATTAA-AAGAA
1 AATAAAAAATTAACAAGAA
945200 AATAAAAAATTAACAAGA
1 AATAAAAAATTAACAAGA
945218 TCCTGTACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (19 bp):
AATAAAAAATTAACAAGAA
Found at i:949744 original size:35 final size:34
Alignment explanation
Indices: 949643--949744 Score: 141
Period size: 34 Copynumber: 3.0 Consensus size: 34
949633 ACTGCATTGC
** *
949643 TGCATCATATGAATGGATGATTGTACAGTCGGTG
1 TGCATCATATGAATGGATGATTGTAGGGTCAGTG
*
949677 TGCATCATGTGAATGGATGATTGTAGGGTCAGTG
1 TGCATCATATGAATGGATGATTGTAGGGTCAGTG
* *
949711 TGCATCATATGAATGGAATAAGTGTAGGGTCAGT
1 TGCATCATATGAATGG-ATGATTGTAGGGTCAGT
949745 TTTATTTAGT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
34 45 0.75
35 15 0.25
ACGTcount: A:0.27, C:0.10, G:0.31, T:0.31
Consensus pattern (34 bp):
TGCATCATATGAATGGATGATTGTAGGGTCAGTG
Found at i:954526 original size:17 final size:17
Alignment explanation
Indices: 954504--954539 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
954494 TATTTTTATT
*
954504 GGCTGAGGATAAGAAAA
1 GGCTGAGGAAAAGAAAA
954521 GGCTGAGGAAAAGAAAA
1 GGCTGAGGAAAAGAAAA
954538 GG
1 GG
954540 TAGCTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.39, T:0.08
Consensus pattern (17 bp):
GGCTGAGGAAAAGAAAA
Found at i:961027 original size:21 final size:19
Alignment explanation
Indices: 960968--961035 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 19
960958 ACAGTATGGC
960968 AATATGAAAAATGAAATGAA
1 AATATGAAAAATGAAATG-A
* *
960988 AAAACTGAAAAATG-TATGA
1 AATA-TGAAAAATGAAATGA
*
961007 TAATATGAAAAAATGAGATGA
1 -AATATG-AAAAATGAAATGA
961028 AA-ATGAAA
1 AATATGAAA
961036 CCCCTACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 3 0.08
19 6 0.15
20 18 0.45
21 13 0.32
ACGTcount: A:0.62, C:0.01, G:0.16, T:0.21
Consensus pattern (19 bp):
AATATGAAAAATGAAATGA
Found at i:961217 original size:9 final size:9
Alignment explanation
Indices: 961203--961285 Score: 71
Period size: 9 Copynumber: 9.2 Consensus size: 9
961193 TTTTAAGTAG
961203 CATCTGTAT
1 CATCTGTAT
*
961212 CATCTGCAT
1 CATCTGTAT
* *
961221 CATTTTTAT
1 CATCTGTAT
*
961230 CATATGTAT
1 CATCTGTAT
*
961239 CATCTGCAT
1 CATCTGTAT
961248 CATTCT-TAT
1 CA-TCTGTAT
961257 CA-CATGTAT
1 CATC-TGTAT
**
961266 CATCTGCGT
1 CATCTGTAT
961275 CATCTGTAT
1 CATCTGTAT
961284 CA
1 CA
961286 CTCTCTGCAT
Statistics
Matches: 57, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 51 0.89
10 4 0.07
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (9 bp):
CATCTGTAT
Found at i:961245 original size:27 final size:27
Alignment explanation
Indices: 961207--961286 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
961197 AAGTAGCATC
* *
961207 TGTATCATCTGCATCATTTTTATCATA
1 TGTATCATCTGCATCATTCTTATCACA
961234 TGTATCATCTGCATCATTCTTATCACA
1 TGTATCATCTGCATCATTCTTATCACA
*
961261 TGTATCATCTGCGTCA-TCTGTATCAC
1 TGTATCATCTGCATCATTCT-TATCAC
961287 TCTCTGCATC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
26 3 0.06
27 46 0.94
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (27 bp):
TGTATCATCTGCATCATTCTTATCACA
Found at i:965855 original size:3 final size:3
Alignment explanation
Indices: 965847--965875 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
965837 TCATTAGAGT
965847 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
965876 CCATGAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:969942 original size:13 final size:13
Alignment explanation
Indices: 969924--969948 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
969914 GGTTATTTTT
969924 AATATTGATAAAC
1 AATATTGATAAAC
969937 AATATTGATAAA
1 AATATTGATAAA
969949 GAAAGCACAG
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:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (13 bp):
AATATTGATAAAC
Found at i:974749 original size:60 final size:60
Alignment explanation
Indices: 974676--974791 Score: 214
Period size: 60 Copynumber: 1.9 Consensus size: 60
974666 AAAACTGTCG
*
974676 TCGGATTCATCATTGCTCATCTCATTCAAGTTGGAGTTTTCACTGGATTCAACATTGCTT
1 TCGGATTCATCATTGCTCATCTCATTCAAGTTGAAGTTTTCACTGGATTCAACATTGCTT
*
974736 TCGGATTCATCATTGCTCATCTCGTTCAAGTTGAAGTTTTCACTGGATTCAACATT
1 TCGGATTCATCATTGCTCATCTCATTCAAGTTGAAGTTTTCACTGGATTCAACATT
974792 TCCATCGGCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (60 bp):
TCGGATTCATCATTGCTCATCTCATTCAAGTTGAAGTTTTCACTGGATTCAACATTGCTT
Found at i:985603 original size:21 final size:21
Alignment explanation
Indices: 985577--985637 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
985567 AGAGTCTATG
* *
985577 TCACTCTCTGCATCCTCTGTT
1 TCACTCTCTGCATCATCTGTA
*
985598 TCACTCTCTGCATCATCTATA
1 TCACTCTCTGCATCATCTGTA
985619 TCACTCTCTGCATCATCTG
1 TCACTCTCTGCATCATCTG
985638 CGTCATCTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.16, C:0.36, G:0.08, T:0.39
Consensus pattern (21 bp):
TCACTCTCTGCATCATCTGTA
Found at i:985638 original size:30 final size:30
Alignment explanation
Indices: 985604--985662 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
985594 TGTTTCACTC
985604 TCTGCATCATCTATATCACTCTCTGCATCA
1 TCTGCATCATCTATATCACTCTCTGCATCA
* * *
985634 TCTGCGTCATCTGTTTCACTCTCTGCATC
1 TCTGCATCATCTATATCACTCTCTGCATC
985663 GACGTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.17, C:0.34, G:0.10, T:0.39
Consensus pattern (30 bp):
TCTGCATCATCTATATCACTCTCTGCATCA
Found at i:992648 original size:3 final size:3
Alignment explanation
Indices: 992640--992666 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
992630 TTAGGAAGAG
992640 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
992667 GCAAAGGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:995873 original size:21 final size:19
Alignment explanation
Indices: 995822--995892 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 19
995812 AAACTACGTT
*
995822 AAAAAAGATTGAAAAAAAAA
1 AAAAAAAATT-AAAAAAAAA
995842 AAAAAAAA--AAAGAAAAAA
1 AAAAAAAATTAAA-AAAAAA
* *
995860 GAAAAAAATTAAAACAACATA
1 AAAAAAAATTAAAA-AA-AAA
995881 AAAAAAAATTAA
1 AAAAAAAATTAA
995893 TTACCATATG
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
17 3 0.07
18 13 0.31
19 1 0.02
20 12 0.29
21 13 0.31
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.10
Consensus pattern (19 bp):
AAAAAAAATTAAAAAAAAA
Found at i:995887 original size:1 final size:1
Alignment explanation
Indices: 995833--995867 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
995823 AAAAAGATTG
* *
995833 AAAAAAAAAAAAAAAAAAAAGAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
995868 TTAAAACAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:998872 original size:439 final size:438
Alignment explanation
Indices: 997786--999505 Score: 3143
Period size: 438 Copynumber: 3.9 Consensus size: 438
997776 TTGATCAATG
* * * * * *
997786 TACTTTTTAGCATCAACTACTTGCTTTAAGCAGTAAAAAATAAAAAGGAAATAAATAATAATAAT
1 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
** *
997851 ATTAAGAAGAATAAAAATTTATATTTGATGTATTGATTGTGAAAATTCACTAACAATTAACACAT
66 ATTAAGAAGAATAAAAATTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
997916 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
131 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
* *
997981 AGATGTCACCATATGAGTATTTTATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAA
196 AGATGTCACCATATGAATATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAA
*
998046 ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAGAGCAATCAAG
261 ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAAAGCAATCAAG
* *
998111 TGATTGAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTTCTTAAATTCTTGCAATTTGAAACGT
326 TGATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGT
*
998176 TAATTCTCCTTAAATTAACAAGATCATGTACAAAAAAAATAATCGCAT
391 TAATTCTCCTTAAATTAACAAGATCCTGTACAAAAAAAATAATCGCAT
998224 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
1 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
* *
998289 ATTAAGAAGAATAAAAGTTTATATTTGATGTTTTGGCTGTGAAAATTCACCAACAATTAACACAT
66 ATTAAGAAGAATAAAAATTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
998354 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
131 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
*
998419 AGATGTCACCATATGAATATTTGATACTTAAAATTATGAATCTTTTTTCCAAAGAAAATAAGAAA
196 AGATGTCACCATATGAATATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAA
*
998484 ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAAAGCAACCAAG
261 ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAAAGCAATCAAG
* *
998549 TGATTCAAGGTTGAAGGCTCTTGAAAGATTAGGTATCTTTCTTAAATTCTTGCAATTTGAAACGT
326 TGATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGT
998614 TAATTCTCCTTAAATTAACAAGATCCTGTACAAAAAAAAATAATCGCAT
391 TAATTCTCCTTAAATTAACAAGATCCTGTAC-AAAAAAAATAATCGCAT
998663 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
1 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
*
998728 ATTAAGAAGAATAAAAGTTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
66 ATTAAGAAGAATAAAAATTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
998793 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
131 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
998858 AGATGTCACCATATGAATATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAA
196 AGATGTCACCATATGAATATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAA
* *
998923 ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAGAGAAATCAAG
261 ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAAAGCAATCAAG
998988 TGATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGT
326 TGATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGT
999053 TAATTCTCCTTAAATTAACAAGATCCTGTACAAAAAAAATAATCGCAT
391 TAATTCTCCTTAAATTAACAAGATCCTGTACAAAAAAAATAATCGCAT
* *
999101 TACTTTTAAGCATCAACTACTTACTTTAGGTAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
1 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
*
999166 ATTAAGAAGAATAAAAATTTATATTTGATGTATTGGATGTGAAAATTCACCAACAATTAACACAT
66 ATTAAGAAGAATAAAAATTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
999231 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
131 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
*
999296 AGATGTCACCATATGAATATTTTATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAA
196 AGATGTCACCATATGAATATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAA
* * * *
999361 ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTTATAGTTAAAGCAATAAAA
261 ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAAAGCAATCAAG
999426 TGATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGT
326 TGATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGT
999491 TAATTCTCCTTAAAT
391 TAATTCTCCTTAAAT
999506 AAAATAAAAT
Statistics
Matches: 1244, Mismatches: 37, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
438 813 0.65
439 431 0.35
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.34
Consensus pattern (438 bp):
TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
ATTAAGAAGAATAAAAATTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
AGATGTCACCATATGAATATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAA
ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAAAGCAATCAAG
TGATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGT
TAATTCTCCTTAAATTAACAAGATCCTGTACAAAAAAAATAATCGCAT
Found at i:999479 original size:877 final size:877
Alignment explanation
Indices: 997786--999505 Score: 3170
Period size: 877 Copynumber: 2.0 Consensus size: 877
997776 TTGATCAATG
*
997786 TACTTTTTAGCATCAACTACTTGCTTTAAGCAGTAAAAAATAAAAAGGAAATAAATAATAATAAT
1 TACTTTTAAGCATCAACTACTTGCTTTAAGCAGTAAAAAATAAAAAGGAAATAAATAATAATAAT
* *
997851 ATTAAGAAGAATAAAAATTTATATTTGATGTATTGATTGTGAAAATTCACTAACAATTAACACAT
66 ATTAAGAAGAATAAAAATTTATATTTGATGTATTGACTGTGAAAATTCACCAACAATTAACACAT
997916 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
131 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
* *
997981 AGATGTCACCATATGAGTATTTTATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAA
196 AGATGTCACCATATGAATATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAA
*
998046 ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAGAGCAATCAAG
261 ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAGAGAAATCAAG
* *
998111 TGATTGAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTTCTTAAATTCTTGCAATTTGAAACGT
326 TGATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGT
998176 TAATTCTCCTTAAATTAACAAGATCATGTACAAAAAAAATAATCGCATTACTTTTAAGCATCAAC
391 TAATTCTCCTTAAATTAACAAGATCATGTACAAAAAAAATAATCGCATTACTTTTAAGCATCAAC
* *
998241 TACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAATATTAAGAAGAATAAAAG
456 TACTTACTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAATATTAAGAAGAATAAAAA
* *
998306 TTTATATTTGATGTTTTGGCTGTGAAAATTCACCAACAATTAACACATCAAATGATGCCACTAAT
521 TTTATATTTGATGTATTGGATGTGAAAATTCACCAACAATTAACACATCAAATGATGCCACTAAT
998371 TTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATAAGATGTCACCATATGAA
586 TTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATAAGATGTCACCATATGAA
*
998436 TATTTGATACTTAAAATTATGAATCTTTTTTCCAAAGAAAATAAGAAAACACATACCCTATGATC
651 TATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAAACACATACCCTATGATC
* *
998501 ATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAAAGCAACCAAGTGATTCAAGGTTGAAGG
716 ATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAAAGCAACAAAATGATTCAAGGTTGAAGG
*
998566 CTCTTGAAAGATTAGGTATCTTTCTTAAATTCTTGCAATTTGAAACGTTAATTCTCCTTAAATTA
781 CTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTCTCCTTAAATTA
998631 ACAAGATCCTGTACAAAAAAAAATAATCGCAT
846 ACAAGATCCTGTACAAAAAAAAATAATCGCAT
* * * * *
998663 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
1 TACTTTTAAGCATCAACTACTTGCTTTAAGCAGTAAAAAATAAAAAGGAAATAAATAATAATAAT
* *
998728 ATTAAGAAGAATAAAAGTTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
66 ATTAAGAAGAATAAAAATTTATATTTGATGTATTGACTGTGAAAATTCACCAACAATTAACACAT
998793 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
131 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
998858 AGATGTCACCATATGAATATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAA
196 AGATGTCACCATATGAATATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAA
998923 ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAGAGAAATCAAG
261 ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAGAGAAATCAAG
998988 TGATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGT
326 TGATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGT
*
999053 TAATTCTCCTTAAATTAACAAGATCCTGTACAAAAAAAATAATCGCATTACTTTTAAGCATCAAC
391 TAATTCTCCTTAAATTAACAAGATCATGTACAAAAAAAATAATCGCATTACTTTTAAGCATCAAC
*
999118 TACTTACTTTAGGTAGTGAAAAATAAAAAGGAAATAAGTTATTATAATATTAAGAAGAATAAAAA
456 TACTTACTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAATATTAAGAAGAATAAAAA
999183 TTTATATTTGATGTATTGGATGTGAAAATTCACCAACAATTAACACATCAAATGATGCCACTAAT
521 TTTATATTTGATGTATTGGATGTGAAAATTCACCAACAATTAACACATCAAATGATGCCACTAAT
999248 TTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATAAGATGTCACCATATGAA
586 TTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATAAGATGTCACCATATGAA
*
999313 TATTTTATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAAACACATACCCTATGATC
651 TATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAAACACATACCCTATGATC
* * * *
999378 ATCTTCATTCCAAAGTTCAATCAAACTTTTATAGTTAAAGCAATAAAATGATTCAAGGTTGATGG
716 ATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAAAGCAACAAAATGATTCAAGGTTGAAGG
999443 CTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTCTCCTTAAAT
781 CTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTCTCCTTAAAT
999506 AAAATAAAAT
Statistics
Matches: 813, Mismatches: 30, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
877 813 1.00
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.34
Consensus pattern (877 bp):
TACTTTTAAGCATCAACTACTTGCTTTAAGCAGTAAAAAATAAAAAGGAAATAAATAATAATAAT
ATTAAGAAGAATAAAAATTTATATTTGATGTATTGACTGTGAAAATTCACCAACAATTAACACAT
CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
AGATGTCACCATATGAATATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAA
ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAGAGAAATCAAG
TGATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGT
TAATTCTCCTTAAATTAACAAGATCATGTACAAAAAAAATAATCGCATTACTTTTAAGCATCAAC
TACTTACTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAATATTAAGAAGAATAAAAA
TTTATATTTGATGTATTGGATGTGAAAATTCACCAACAATTAACACATCAAATGATGCCACTAAT
TTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATAAGATGTCACCATATGAA
TATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAATAAGAAAACACATACCCTATGATC
ATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAAAGCAACAAAATGATTCAAGGTTGAAGG
CTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTCTCCTTAAATTA
ACAAGATCCTGTACAAAAAAAAATAATCGCAT
Found at i:999760 original size:257 final size:258
Alignment explanation
Indices: 999276--999762 Score: 631
Period size: 257 Copynumber: 1.9 Consensus size: 258
999266 TTCATATATA
* * * *
999276 TTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTTATACTTAAAATTATAAATCTTT
1 TTTTCTAAAAACTTTAAATAAAATGTCACCATATGAATATTTGAAACATAAAATTATAAATCTTT
* * *
999341 TTTCCAAAGAAAATAAGAAAACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTT
66 TTTCCAAAGAAAATAAGAAAACACATACCATATGATCATCTTCATTCCAAAGTTCAACCAAAATT
* * *
999406 TTATAGTTAAAGCAATAAAATGATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAA
131 TTACAGTTAAAACAATAAAATAATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAA
* ** **
999471 ATTCTTGCAATTTGAAACGTTAATTCTCCTTAAATAAAATAAAATAAACCTTTTGATATTGAC
196 ATTCTTACAACGTGAAACGCAAATTCTCCTTAAATAAAATAAAATAAACCTTTTGATATTGAC
* * * * *
999534 TTTT-TAAAAATTTTAAATAAAATGTCATCATGTGATTATTTGAAACATCAAATTATAAATCTGT
1 TTTTCTAAAAACTTTAAATAAAATGTCACCATATGAATATTTGAAACATAAAATTATAAATCT-T
* * * *
999598 TTTT-CAAAGAAAGTACA-AAAGCACATACCATATGATTATCTTCATTCGAAAGTTCAACCAAAA
65 TTTTCCAAAGAAAATA-AGAAAACACATACCATATGATCATCTTCATTCCAAAGTTCAACCAAAA
* * * * *
999661 TTTTACAGTTAAAACAATCAAGTAATTTAAGGTTGATGGCTCTTGAAAGATTAGGTATGTTCTTT
129 TTTTACAGTTAAAACAATAAAATAATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTT
* * *
999726 AAATT-TCTACAACGTGGATCGCAAATTTTCCTTAAAT
194 AAATTCT-TACAACGTGAAACGCAAATTCTCCTTAAAT
999763 TAACAAAGTC
Statistics
Matches: 194, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
256 1 0.01
257 183 0.94
258 10 0.05
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.36
Consensus pattern (258 bp):
TTTTCTAAAAACTTTAAATAAAATGTCACCATATGAATATTTGAAACATAAAATTATAAATCTTT
TTTCCAAAGAAAATAAGAAAACACATACCATATGATCATCTTCATTCCAAAGTTCAACCAAAATT
TTACAGTTAAAACAATAAAATAATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAA
ATTCTTACAACGTGAAACGCAAATTCTCCTTAAATAAAATAAAATAAACCTTTTGATATTGAC
Found at i:1000396 original size:5 final size:5
Alignment explanation
Indices: 1000386--1000410 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1000376 CCACTAATTT
1000386 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
1000411 TTTCATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:1000437 original size:445 final size:443
Alignment explanation
Indices: 999578--1000405 Score: 1176
Period size: 445 Copynumber: 1.9 Consensus size: 443
999568 ATTATTTGAA
*
999578 ACATCAAATTATAAATCTGTTTTTCAAAGAAAGTACAAAAGCACATACCATATGATTATCTTCAT
1 ACATCAAATTATAAATCTGTTTTTCAAAGAAAGTACAAAAGCACATACCATATGATCATCTTCAT
* * *
999643 TCGAAAGTTCAACCAAAATTTTACAGTTAAAACAATCAAGTAATTTAAGGTTGATGGCTCTTGAA
66 TCCAAAATTCAACCAAAATTTTACAGTTAAAACAATCAAGTAATTCAAGGTTGATGGCTCTTGAA
*
999708 AGATTAGGTATGTTCTTTAAATTTCTACAACGTGGATCGCAAATTTTCCTTAAATTAACAAAGTC
131 AGATTAGGTATCTTCTTTAAATTTCTACAACGTGGATCGCAAATTTTCCTTAAATTAACAAAGTC
* *
999773 TTGTGCAAAAATAATAATTGTATTACTTTTAAGCATCAACTACTTGCTTTAGGCCATAAAAAATA
196 TTGTGCAAAAATAATAATCGTATTACTTTTAAGCATCAACTACTTGCTTTAGGACATAAAAAATA
* *
999838 AAAAGGAAATAAATAATTAAAATATGAGGAAAAATAAAGTAAAAATTTATATTTAGATGTATTGG
261 AAAAGAAAATAAATAAGTAAAATAT---GAAAAATAAAGTAAAAATTTATATTTAGATGTATTGG
* *
999903 GTGTGGAAATTCACCCACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATTAAATAAT
323 ATGTGGAAATTCACCCACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATTAAATAAA
* *
999968 TTTTTTCATATTTACTTTTTAAAAACTTTAAATATGATATAATATAAATATTTGTT
388 ATATTTCATATTTACTTTTTAAAAACTTTAAATATGATATAATATAAATATTTGTT
* * ** *
1000024 ACATTAAATTATAAATCT-TTTTTCAAATAAAGTATGGAAA-CACATACCCTATGATCATCTTCA
1 ACATCAAATTATAAATCTGTTTTTCAAAGAAAGTA-CAAAAGCACATACCATATGATCATCTTCA
* * * * *
1000087 TTCCAAAATTCAATCAAACTTTTATAGTTAGAGCAATCAAGTAATTCAAGGTTGATGGCTCTTGA
65 TTCCAAAATTCAACCAAAATTTTACAGTTAAAACAATCAAGTAATTCAAGGTTGATGGCTCTTGA
* * *
1000152 AAGATTATGTATCTTCTTTAAATTTCTACAACGTGGATCGTAAATTTTCCTTAAATTAACAAGGT
130 AAGATTAGGTATCTTCTTTAAATTTCTACAACGTGGATCGCAAATTTTCCTTAAATTAACAAAGT
* ** *
1000217 CTTGTGCAAAAA-AAGTAATCGTATTATTTTTAAGTGTCAATTACTTGCTTTA-GACAGT-AAAA
195 CTTGTGCAAAAATAA-TAATCGTATTACTTTTAAGCATCAACTACTTGCTTTAGGACA-TAAAAA
* *
1000279 A-AAAAAGAAAATAAATAAGTATAATACT-AAGAA-AAA-T-AAAATTTATATTT-GATGTATTG
258 ATAAAAAGAAAATAAATAAGTAAAATA-TGAAAAATAAAGTAAAAATTTATATTTAGATGTATTG
* *** *
1000338 GATGT-GAAATTCTCCCACAATTAAGGGATCAAATGATGCCACTAATTTAAATAAAATAAAATAA
322 GATGTGGAAATTCACCCACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATTAAATAA
1000402 AATA
387 AATA
1000406 AAATATTTCA
Statistics
Matches: 341, Mismatches: 37, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
435 55 0.16
436 13 0.04
437 13 0.04
438 1 0.00
439 3 0.01
440 4 0.01
443 22 0.06
444 11 0.03
445 199 0.58
446 20 0.06
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (443 bp):
ACATCAAATTATAAATCTGTTTTTCAAAGAAAGTACAAAAGCACATACCATATGATCATCTTCAT
TCCAAAATTCAACCAAAATTTTACAGTTAAAACAATCAAGTAATTCAAGGTTGATGGCTCTTGAA
AGATTAGGTATCTTCTTTAAATTTCTACAACGTGGATCGCAAATTTTCCTTAAATTAACAAAGTC
TTGTGCAAAAATAATAATCGTATTACTTTTAAGCATCAACTACTTGCTTTAGGACATAAAAAATA
AAAAGAAAATAAATAAGTAAAATATGAAAAATAAAGTAAAAATTTATATTTAGATGTATTGGATG
TGGAAATTCACCCACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATTAAATAAAATA
TTTCATATTTACTTTTTAAAAACTTTAAATATGATATAATATAAATATTTGTT
Found at i:1006332 original size:21 final size:21
Alignment explanation
Indices: 1006293--1006332 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1006283 AAACATCAAC
*
1006293 AACTAAATTCATTTTCAACCA
1 AACTAAATTCATTTGCAACCA
1006314 AACTAAATTACA-TTGCAAC
1 AACTAAATT-CATTTGCAAC
1006333 TAAAACAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.30
Consensus pattern (21 bp):
AACTAAATTCATTTGCAACCA
Found at i:1006992 original size:9 final size:9
Alignment explanation
Indices: 1006978--1007159 Score: 247
Period size: 9 Copynumber: 20.2 Consensus size: 9
1006968 TCAGTAGCAG
1006978 CATCTGTAT
1 CATCTGTAT
*
1006987 CATCTGCAT
1 CATCTGTAT
1006996 CATCTGTAT
1 CATCTGTAT
*
1007005 CATCTGTAG
1 CATCTGTAT
1007014 CATCTGTAT
1 CATCTGTAT
*
1007023 CATCTGCAT
1 CATCTGTAT
* *
1007032 CATTTGCAT
1 CATCTGTAT
*
1007041 CATCTGCAT
1 CATCTGTAT
1007050 CATCTGTAT
1 CATCTGTAT
* *
1007059 CATCTGCAG
1 CATCTGTAT
1007068 CATCTGTAT
1 CATCTGTAT
1007077 CATCTGTAT
1 CATCTGTAT
*
1007086 CATCTGCAT
1 CATCTGTAT
1007095 CATCTGTAT
1 CATCTGTAT
* *
1007104 CATCTGCAG
1 CATCTGTAT
1007113 CATCTGTAT
1 CATCTGTAT
*
1007122 CATCCGTAT
1 CATCTGTAT
*
1007131 CATCTGCAT
1 CATCTGTAT
1007140 CATCTGTAT
1 CATCTGTAT
1007149 CATCTGTAT
1 CATCTGTAT
1007158 CA
1 CA
1007160 CTCTCTGCAT
Statistics
Matches: 151, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 151 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.38
Consensus pattern (9 bp):
CATCTGTAT
Found at i:1014219 original size:31 final size:31
Alignment explanation
Indices: 1014175--1014234 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
1014165 AAGATAAAAT
*
1014175 ATTTCAATCTGATTTTATTCAAATCAAATTG
1 ATTTCAATCTGATTTGATTCAAATCAAATTG
*
1014206 ATTTCGAAT-TGATTTGATTCTAATCAAAT
1 ATTTC-AATCTGATTTGATTCAAATCAAAT
1014235 AAATTTAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (31 bp):
ATTTCAATCTGATTTGATTCAAATCAAATTG
Found at i:1015094 original size:36 final size:39
Alignment explanation
Indices: 1015023--1015097 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
1015013 GGTTACGTAG
1015023 TGGGATGGGGTCGGGAATATCTTCTTCCACATAACATAC
1 TGGGATGGGGTCGGGAATATCTTCTTCCACATAACATAC
1015062 TGGGATGGGGTCGGGAAT-T-TT-TTCCACATAACATAC
1 TGGGATGGGGTCGGGAATATCTTCTTCCACATAACATAC
1015098 ATACTTTACC
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
36 15 0.42
37 2 0.06
38 1 0.03
39 18 0.50
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (39 bp):
TGGGATGGGGTCGGGAATATCTTCTTCCACATAACATAC
Found at i:1015160 original size:39 final size:39
Alignment explanation
Indices: 1015106--1015220 Score: 167
Period size: 39 Copynumber: 2.9 Consensus size: 39
1015096 ACATACTTTA
*
1015106 CCGATGCATCACTGCTCATCTCATCAAATTGATCTTCAT
1 CCGATGCATCACTGCTCGTCTCATCAAATTGATCTTCAT
* *
1015145 CCGATGCATCACTGCTCGTCTCGTCAAATTGATTTTCAT
1 CCGATGCATCACTGCTCGTCTCATCAAATTGATCTTCAT
* * **
1015184 CCGATACATCATTGCTCGTCTCATCAAACCGATCTTC
1 CCGATGCATCACTGCTCGTCTCATCAAATTGATCTTC
1015221 TTCCACATAA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.33
Consensus pattern (39 bp):
CCGATGCATCACTGCTCGTCTCATCAAATTGATCTTCAT
Found at i:1015260 original size:99 final size:99
Alignment explanation
Indices: 1015145--1015336 Score: 332
Period size: 99 Copynumber: 1.9 Consensus size: 99
1015135 TGATCTTCAT
*
1015145 CCGATGCATCACTGCTCGTCTCGTCAAATTGATTTTCATCCGATACATCATTGCTCGTCTCATCA
1 CCGATGCATCACTGCTCGTCTCATCAAATTGATTTTCATCCGATACATCATTGCTCGTCTCATCA
*
1015210 AACCGATCTTCT-TCCACATAACATACATACTTTA
66 AACCGATCTT-TATCCACATAAAATACATACTTTA
*
1015244 CCGATGCATCACTGCTCGTCTCATCAAATTGATTTTCATCCGATACATCATTGCTCGTCTCATCG
1 CCGATGCATCACTGCTCGTCTCATCAAATTGATTTTCATCCGATACATCATTGCTCGTCTCATCA
*
1015309 AACTGATCTTTATCCACATAAAATACAT
66 AACCGATCTTTATCCACATAAAATACAT
1015337 GAATACCGCA
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 1 0.01
99 87 0.99
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (99 bp):
CCGATGCATCACTGCTCGTCTCATCAAATTGATTTTCATCCGATACATCATTGCTCGTCTCATCA
AACCGATCTTTATCCACATAAAATACATACTTTA
Found at i:1015367 original size:99 final size:98
Alignment explanation
Indices: 1015145--1015367 Score: 263
Period size: 99 Copynumber: 2.3 Consensus size: 98
1015135 TGATCTTCAT
* * * *
1015145 CCGATGCATCACTGCTCGTCTCGTCAAATTGATTTTCATCCGATACATCATTGCTCGTCTCATCA
1 CCGATGCATCACTCCTCATATCATCAAATTGATTTTCATCCGATACATCATTGCTCGTCTCATCA
* *
1015210 AACCGATCTTCTTCCACATAACATACATACTTTA
66 AACCGATCTTCTTCCACATAAAATACATAC-ATA
* * * *
1015244 CCGATGCATCACTGCTCGTCTCATCAAATTGATTTTCATCCGATACATCATTGCTCGTCTCATCG
1 CCGATGCATCACTCCTCATATCATCAAATTGATTTTCATCCGATACATCATTGCTCGTCTCATCA
*
1015309 AACTGATCTT-TATCCACATAAAATACATGA-ATA
66 AACCGATCTTCT-TCCACATAAAATACAT-ACATA
* *
1015342 CCGCATTTCTTCACTCCT-ATATCATC
1 CCG-A-TGCATCACTCCTCATATCATC
1015368 GATTTTATCT
Statistics
Matches: 110, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
98 6 0.05
99 94 0.85
100 10 0.09
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.34
Consensus pattern (98 bp):
CCGATGCATCACTCCTCATATCATCAAATTGATTTTCATCCGATACATCATTGCTCGTCTCATCA
AACCGATCTTCTTCCACATAAAATACATACATA
Found at i:1017717 original size:2 final size:2
Alignment explanation
Indices: 1017710--1017735 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1017700 GATATAAAAC
1017710 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1017736 TTTAAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1027327 original size:21 final size:21
Alignment explanation
Indices: 1027288--1027327 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1027278 AAACATCAAC
*
1027288 AACTAAATTCATTTTCAACCA
1 AACTAAATTCATTTGCAACCA
1027309 AACTAAATTACA-TTGCAAC
1 AACTAAATT-CATTTGCAAC
1027328 TAAAACAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.30
Consensus pattern (21 bp):
AACTAAATTCATTTGCAACCA
Found at i:1027967 original size:9 final size:9
Alignment explanation
Indices: 1027955--1028118 Score: 220
Period size: 9 Copynumber: 18.2 Consensus size: 9
1027945 TTTTCAGTAG
1027955 CATCTGTAT
1 CATCTGTAT
*
1027964 CATCTGTAG
1 CATCTGTAT
1027973 CATCTGTAT
1 CATCTGTAT
*
1027982 CATCTGCAT
1 CATCTGTAT
* *
1027991 CATTTGCAT
1 CATCTGTAT
*
1028000 CATCTGCAT
1 CATCTGTAT
1028009 CATCTGTAT
1 CATCTGTAT
* *
1028018 CATCTGCAG
1 CATCTGTAT
1028027 CATCTGTAT
1 CATCTGTAT
1028036 CATCTGTAT
1 CATCTGTAT
*
1028045 CATCTGCAT
1 CATCTGTAT
1028054 CATCTGTAT
1 CATCTGTAT
* *
1028063 CATCTGCAG
1 CATCTGTAT
1028072 CATCTGTAT
1 CATCTGTAT
*
1028081 CATCCGTAT
1 CATCTGTAT
*
1028090 CATCTGCAT
1 CATCTGTAT
1028099 CATCTGTAT
1 CATCTGTAT
1028108 CATCTGTAT
1 CATCTGTAT
1028117 CA
1 CA
1028119 CTCTCTGCAT
Statistics
Matches: 135, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 135 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.38
Consensus pattern (9 bp):
CATCTGTAT
Found at i:1029369 original size:189 final size:188
Alignment explanation
Indices: 1029036--1029505 Score: 454
Period size: 189 Copynumber: 2.5 Consensus size: 188
1029026 AAGACAAGAC
* ** ** * * *
1029036 CACTTCTTCGATTTGACTTTCAGATAAGACTAATGTTGTTAAGTTTGTTGGGATTTCTGGGAATT
1 CACTTCTTCGATTTGAGTACCAGATAAGTTTAATTTTGTTAAGTTTCTTGGGATTTCT-GGAAAT
* *
1029101 TCATGATTGGGCAA-CGACTAAGA-CTTAGATGACGAAGGGATTCCAACTTCACCGATACACAGT
65 TCATCATTGGGCAATC-ACTAAGATC-TAGATGAAGAAGGGATTCCAACTTCACCGATACACAGT
* * *
1029164 CTAACCTTGTGCCACTCA-AACAAATGTCCTT-AAGATAACCCCA-AG-GTTCAAAAGAAG-AGG
128 CTAACCTTGAGCCACTCATAACAAAGGT--TTGAAGATAA-CACAGAGAG-TCAAAAG--GCAGG
1029224 G-
187 GA
* * *
1029225 TACTTCTTTGATTTGAGTACCAGATAAGTTTAATTTTGTTAAGTTTCTTGGGATGTCTGGAAATT
1 CACTTCTTCGATTTGAGTACCAGATAAGTTTAATTTTGTTAAGTTTCTTGGGATTTCTGGAAATT
* * * *** *
1029290 CAATCATTGGGCAATCACTAAGATCTAGTTGAAGAAGGGATTCCAACTTGATCGATACATTTTTT
66 C-ATCATTGGGCAATCACTAAGATCTAGATGAAGAAGGGATTCCAACTTCACCGATACACAGTCT
* **** * *
1029355 ACCCTTGAGCCACTCATTTTTAAGGTTTGAAGATTACATAGAGAGTCAAAAGGCAGGGA
130 AACCTTGAGCCACTCATAACAAAGGTTTGAAGATAACACAGAGAGTCAAAAGGCAGGGA
* * * *
1029414 CACTTCTTCAATTTGAGTGCCAGATAAGTTTAATTCTAG-TAAGCTTCTTGGGATTTCTGGAAAT
1 CACTTCTTCGATTTGAGTACCAGATAAGTTTAATT-TTGTTAAGTTTCTTGGGATTTCTGGAAA-
*
1029478 TTGATCATTGGGCAATCACTAAGATCTA
64 TTCATCATTGGGCAATCACTAAGATCTA
1029506 ATTCACGAAG
Statistics
Matches: 232, Mismatches: 38, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
187 1 0.00
188 15 0.06
189 205 0.88
190 11 0.05
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (188 bp):
CACTTCTTCGATTTGAGTACCAGATAAGTTTAATTTTGTTAAGTTTCTTGGGATTTCTGGAAATT
CATCATTGGGCAATCACTAAGATCTAGATGAAGAAGGGATTCCAACTTCACCGATACACAGTCTA
ACCTTGAGCCACTCATAACAAAGGTTTGAAGATAACACAGAGAGTCAAAAGGCAGGGA
Found at i:1040609 original size:28 final size:27
Alignment explanation
Indices: 1040577--1040630 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
1040567 GACACAAACT
1040577 CAATTTTTCATTAATTTAGTAATTTAAA
1 CAATTTTTCATTAATTTA-TAATTTAAA
* *
1040605 CAATTTTTTATTAATTTATGATTTAA
1 CAATTTTTCATTAATTTATAATTTAA
1040631 GTATATCAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (27 bp):
CAATTTTTCATTAATTTATAATTTAAA
Found at i:1044433 original size:19 final size:20
Alignment explanation
Indices: 1044383--1044433 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
1044373 AAAAGATTGG
1044383 CAATATGAAAAATGAAATGA
1 CAATATGAAAAATGAAATGA
* * *
1044403 AAAAATTG-AAAATG-TATGA
1 CAATA-TGAAAAATGAAATGA
1044422 CAATATGAAAAA
1 CAATATGAAAAA
1044434 AATGAGATGA
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
18 2 0.08
19 11 0.46
20 9 0.38
21 2 0.08
ACGTcount: A:0.61, C:0.04, G:0.14, T:0.22
Consensus pattern (20 bp):
CAATATGAAAAATGAAATGA
Found at i:1044632 original size:9 final size:9
Alignment explanation
Indices: 1044618--1044691 Score: 85
Period size: 9 Copynumber: 8.2 Consensus size: 9
1044608 TTTTCAGTAG
1044618 CATCTGTAT
1 CATCTGTAT
*
1044627 CATCTGCAT
1 CATCTGTAT
* *
1044636 CGTCTGCAT
1 CATCTGTAT
1044645 CATCTGTAT
1 CATCTGTAT
* *
1044654 CATATGAAT
1 CATCTGTAT
*
1044663 CATCTGCAT
1 CATCTGTAT
*
1044672 CATCCGTAT
1 CATCTGTAT
1044681 CATCTGTAT
1 CATCTGTAT
1044690 CA
1 CA
1044692 CTCTCTGCAT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.36
Consensus pattern (9 bp):
CATCTGTAT
Found at i:1044652 original size:27 final size:27
Alignment explanation
Indices: 1044618--1044691 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
1044608 TTTTCAGTAG
* *
1044618 CATCTGTATCATCTGCATCGTCTGCAT
1 CATCTGTATCATCTGAATCATCTGCAT
*
1044645 CATCTGTATCATATGAATCATCTGCAT
1 CATCTGTATCATCTGAATCATCTGCAT
* *
1044672 CATCCGTATCATCTGTATCA
1 CATCTGTATCATCTGAATCA
1044692 CTCTCTGCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.36
Consensus pattern (27 bp):
CATCTGTATCATCTGAATCATCTGCAT
Found at i:1044802 original size:30 final size:32
Alignment explanation
Indices: 1044763--1044841 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 32
1044753 TGAGAAAGAA
*
1044763 TTCTTCGTCATCAACT-C-CATATTGTAAGTC
1 TTCTGCGTCATCAACTCCTCATATTGTAAGTC
* * *
1044793 TTTTGCGTCATCATCTCCTTCATATTGTAAGTG
1 TTCTGCGTCATCAACTCC-TCATATTGTAAGTC
1044826 TTCTGCGTCATCAACT
1 TTCTGCGTCATCAACT
1044842 TCTTCTTCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 13 0.32
31 1 0.03
33 26 0.65
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.42
Consensus pattern (32 bp):
TTCTGCGTCATCAACTCCTCATATTGTAAGTC
Found at i:1050576 original size:9 final size:9
Alignment explanation
Indices: 1050550--1050590 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
1050540 TTATATTATG
1050550 TTTTAAACTA
1 TTTTAAA-TA
1050560 TTTATAAATA
1 TTT-TAAATA
1050570 TTTTAAATA
1 TTTTAAATA
*
1050579 TTTTAAAAA
1 TTTTAAATA
1050588 TTT
1 TTT
1050591 ATGTGATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 17 0.59
10 8 0.28
11 4 0.14
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (9 bp):
TTTTAAATA
Found at i:1054373 original size:34 final size:34
Alignment explanation
Indices: 1054330--1054422 Score: 123
Period size: 34 Copynumber: 2.7 Consensus size: 34
1054320 CCTTTCATCT
** *
1054330 TTTAACCTTCCATCTTCCTTAACTTCTTTTGGCC
1 TTTAACCTTCCATCTTCCTTAACTTCCCTTGACC
* * *
1054364 TTTAACCTTCCATCTTCCTTGACCTCCCTTGATC
1 TTTAACCTTCCATCTTCCTTAACTTCCCTTGACC
*
1054398 TTTAACCTTTCATCTTCCTTAACTT
1 TTTAACCTTCCATCTTCCTTAACTT
1054423 TTCATATTCT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.16, C:0.33, G:0.04, T:0.46
Consensus pattern (34 bp):
TTTAACCTTCCATCTTCCTTAACTTCCCTTGACC
Found at i:1054419 original size:17 final size:17
Alignment explanation
Indices: 1054318--1054427 Score: 59
Period size: 17 Copynumber: 6.6 Consensus size: 17
1054308 ATGGATGTTC
1054318 AACCTTTCATCTT--TT
1 AACCTTTCATCTTCCTT
*
1054333 AACCTTCCATCTTCCTT
1 AACCTTTCATCTTCCTT
*
1054350 AA-C-TTC-TTTTGGCCTTT
1 AACCTTTCATCTT--CC-TT
*
1054367 AACCTTCCATCTTCCTT
1 AACCTTTCATCTTCCTT
* ** * ** *
1054384 GACCTCCCTTGATCTTT
1 AACCTTTCATCTTCCTT
1054401 AACCTTTCATCTTCCTT
1 AACCTTTCATCTTCCTT
*
1054418 AACTTTTCAT
1 AACCTTTCAT
1054428 ATTCTTGTAA
Statistics
Matches: 68, Mismatches: 19, Indels: 14
0.67 0.19 0.14
Matches are distributed among these distances:
14 3 0.04
15 14 0.21
16 3 0.04
17 40 0.59
18 3 0.04
19 2 0.03
20 3 0.04
ACGTcount: A:0.17, C:0.33, G:0.04, T:0.46
Consensus pattern (17 bp):
AACCTTTCATCTTCCTT
Found at i:1062206 original size:18 final size:18
Alignment explanation
Indices: 1062166--1062210 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
1062156 TTTCATATTT
1062166 TTAAAAAAATTGAAAAAA
1 TTAAAAAAATTGAAAAAA
* *
1062184 ATAAAAAAATTTG-AAAAG
1 TTAAAAAAA-TTGAAAAAA
1062202 TTAAAAAAA
1 TTAAAAAAA
1062211 AATTAGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (18 bp):
TTAAAAAAATTGAAAAAA
Found at i:1062250 original size:28 final size:26
Alignment explanation
Indices: 1062219--1062280 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 26
1062209 AAAATTAGTA
1062219 TATTTATTTTCATTTTCATTTTTAGTTT
1 TATTTATTTT-ATTTTCATTTTTA-TTT
*
1062247 TATTTTATTTTATTTTTATTTTTATTT
1 TA-TTTATTTTATTTTCATTTTTATTT
*
1062274 TAATTAT
1 TATTTAT
1062281 GCACTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 4 0.13
27 5 0.16
28 14 0.45
29 8 0.26
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (26 bp):
TATTTATTTTATTTTCATTTTTATTT
Found at i:1062293 original size:5 final size:5
Alignment explanation
Indices: 1062221--1062275 Score: 56
Period size: 6 Copynumber: 9.8 Consensus size: 5
1062211 AATTAGTATA
1062221 TTTAT TTTCAT TTTCATT TTTAGT TTTAT TTTAT TTTATT TTTATT TTTAT
1 TTTAT TTT-AT TTT-A-T TTTA-T TTTAT TTTAT TTTA-T TTTA-T TTTAT
1062272 TTTA
1 TTTA
1062276 ATTATGCACT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
5 18 0.39
6 24 0.52
7 4 0.09
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:1063209 original size:12 final size:12
Alignment explanation
Indices: 1063178--1063219 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
1063168 AGTCGAAAAG
1063178 AAAAAAATTG-A
1 AAAAAAATTGAA
*
1063189 AAAACAATTGAA
1 AAAAAAATTGAA
1063201 AAAAAAATTGAGA
1 AAAAAAATTGA-A
1063214 AAAAAA
1 AAAAAA
1063220 GAAGAAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 9 0.33
12 11 0.41
13 7 0.26
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.14
Consensus pattern (12 bp):
AAAAAAATTGAA
Found at i:1074386 original size:16 final size:16
Alignment explanation
Indices: 1074367--1074417 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
1074357 AATTTTACGA
1074367 TTATTAAATTAAAATT
1 TTATTAAATTAAAATT
**
1074383 TTA-TAAATTATAAAGG
1 TTATTAAATTA-AAATT
*
1074399 AT-TTAAATTAAAATT
1 TTATTAAATTAAAATT
1074414 TTAT
1 TTAT
1074418 CATTTTAGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
TTATTAAATTAAAATT
Found at i:1092634 original size:23 final size:25
Alignment explanation
Indices: 1092608--1092653 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1092598 CCAATTAAGG
1092608 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
1092631 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
1092654 TGGATCCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:1102906 original size:25 final size:24
Alignment explanation
Indices: 1102886--1102931 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
1102876 CCAATTAGGG
1102886 AATTAT-TATTTAGATTTAATTGA
1 AATTATCTATTTAGATTTAATTGA
*
1102909 AATTATCTTTTTAGAATTTAATT
1 AATTATCTATTTAG-ATTTAATT
1102932 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (24 bp):
AATTATCTATTTAGATTTAATTGA
Found at i:1119136 original size:28 final size:27
Alignment explanation
Indices: 1119104--1119157 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
1119094 GACACTAACT
1119104 CAATTTTTCATTAATTTAGTAATTTAAA
1 CAATTTTTCATTAATTTA-TAATTTAAA
* *
1119132 CAATTTTTTATTAATTTATGATTTAA
1 CAATTTTTCATTAATTTATAATTTAA
1119158 GTATATCAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (27 bp):
CAATTTTTCATTAATTTATAATTTAAA
Found at i:1131459 original size:438 final size:431
Alignment explanation
Indices: 1130530--1131695 Score: 1430
Period size: 434 Copynumber: 2.7 Consensus size: 431
1130520 GTAATTCAAT
* ** * *
1130530 CAAACTTTCAC-AGTAAGAGCAATCGAGTAATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATT
1 CAAACTTTCACAATTAA-AGCAATAAAGCAATTCAAGGTTGATGGCTCTTGAAAGATTAGGTA-A
* * * *
1130594 TTCCTTAAATTTCTACAATTTGAAAC-TTTAATTTTTCTTAAATTAATAAGGTCCTGTACAAAAA
64 TTCCTTAAATTACTGCAATTTGAAACATTT-ATTTTCCTTAAATTAACAAGGTCCTGTACAAAAA
* * *
1130658 AAAATATTTGTATTACTTTTAAGCATCAATTACTTGCTTTAAACAGTAAAAAAAAAATAATAATA
128 AAAA-AATTGTATTACTTTTAAGCATCAATTACTTGCTTTAATC-GTAAAAAAAAAA-AAAAATA
* * * * * *
1130723 ATTGTAATATTAAGAAAAATAAAAATTTACATTTTATGTATTGTGTGTGAAAATTTACCCACAAT
190 ATTATAATATTTAGAAAAATAAAAATTTATATTTAATGTATTGGGTGTGAAAATTCACCCACAAT
* *
1130788 TAATACATAAAATGATGTCACTAA-TTAAATAAAATAAAATAAATATTTTAATATTTACTTTTTA
255 TAATACATCAAATGATGCCACTAATTTAAATAAAATAAAATAAATATTTTAATATTTACTTTTTA
* *
1130852 AAAACTTTAAATAAAATTATCATATGATTATTTGATACATTAAATTATAAATTTTTTTCAAAGAA
320 AAAACTTTAAATAAAATTATCATATGAATATTTGATACATCAAATTATAAATTTTTTTCAAAGAA
1130917 AGTACGAAAGCACATACCATATGATCATCTTCATTCCAAAGTTCATC
385 AGTACGAAAGCACATACCATATGATCATCTTCATTCCAAAGTTCATC
* *** *
1130964 CAAACTTTCACAATTAAAGCAATTAAGGTGTTCAAGCTTGATGGCTCTTGAAAGATTAGGTAACT
1 CAAACTTTCACAATTAAAGCAATAAAGCAATTCAAGGTTGATGGCTCTTGAAAGATTAGGTAA-T
*
1131029 TGCTTAAATTACTGCAATTTGAAACATTTATTTTCCTTAAATTAACAAGGTCCTGTACAAAAAAA
65 TCCTTAAATTACTGCAATTTGAAACATTTATTTTCCTTAAATTAACAAGGTCCTGTACAAAAAAA
*
1131094 AAAATTGTATTACTTTTAAGCATCAATTATTTGCTTTAGATCGTAAAAAATAAAAAAAAATAATT
130 AAAATTGTATTACTTTTAAGCATCAATTACTTGCTTTA-ATCGTAAAAAA-AAAAAAAAATAATT
* * * *
1131159 ATAATATTTAGAAATATAAAAATTTATATTTGATGTATTGGGTGTGAAAAACTCACTCACAATTA
193 ATAATATTTAGAAAAATAAAAATTTATATTTAATGTATTGGGTGTG-AAAATTCACCCACAATTA
* *
1131224 ATATATCAAATGATGCCACTAATTTAAATAAAATAAAATAAACT-TTTTCATATTTACTTTTTAA
257 ATACATCAAATGATGCCACTAATTTAAATAAAATAAAATAAA-TATTTTAATATTTACTTTTTAA
* *
1131288 AAATTTTAAATAAAATGTTATCGTATGAATATTTGATACATCAAATTATAAATCTTTTTTCAAAG
321 AAACTTTAAATAAAA--TTATCATATGAATATTTGATACATCAAATTATAAAT-TTTTTTCAAAG
* *
1131353 AAAGTACGAAAGCACATACCGTATGATCATTTTCATTCCAAAGTTCATC
383 AAAGTACGAAAGCACATACCATATGATCATCTTCATTCCAAAGTTCATC
*
1131402 CAAACTTGT-AC-ATT-CAGTACAATAAAGCAATTCAAGGTTGATGGCTCTTGAAAGATTAGGTA
1 CAAACTT-TCACAATTAAAG--CAATAAAGCAATTCAAGGTTGATGGCTCTTGAAAGATTAGGTA
* ** * **
1131464 TATTCCTTAAATTTA-TGCAACTT-ACAACATAAATTTCCCTTAAATTAGGAAGGTCCTGT----
63 -ATTCCTTAAA-TTACTGCAATTTGA-AACATTTATTTTCCTTAAATTAACAAGGTCCTGTACAA
* * *
1131523 AAAAAAAAA-TGCATTACTTTTAAGCATCAATCT-CTTACTTTAAATAGTAAAAAAAAGAAAGAA
125 AAAAAAAAATTGTATTACTTTTAAGCATCAAT-TACTTGCTTT-AATCGT-----AAA-AAA-AA
* * * *
1131586 AGGAAATAAATAATTATAATA-CTAAAAAAATAAAAATTTATATTTAATATTTTGGGTGTGAAAA
181 A--AAA-AAATAATTATAATATTTAGAAAAATAAAAATTTATATTTAATGTATTGGGTGTGAAAA
*
1131650 TTCACCCACAATTAA-CCGATCAAATGATGCCACTAATTTAAATAAA
243 TTCACCCACAATTAATAC-ATCAAATGATGCCACTAATTTAAATAAA
1131696 GGATAAATGT
Statistics
Matches: 639, Mismatches: 64, Indels: 52
0.85 0.08 0.07
Matches are distributed among these distances:
433 122 0.19
434 160 0.25
435 59 0.09
436 3 0.00
437 37 0.06
438 152 0.24
439 11 0.02
440 45 0.07
441 36 0.06
442 14 0.02
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (431 bp):
CAAACTTTCACAATTAAAGCAATAAAGCAATTCAAGGTTGATGGCTCTTGAAAGATTAGGTAATT
CCTTAAATTACTGCAATTTGAAACATTTATTTTCCTTAAATTAACAAGGTCCTGTACAAAAAAAA
AAATTGTATTACTTTTAAGCATCAATTACTTGCTTTAATCGTAAAAAAAAAAAAAAATAATTATA
ATATTTAGAAAAATAAAAATTTATATTTAATGTATTGGGTGTGAAAATTCACCCACAATTAATAC
ATCAAATGATGCCACTAATTTAAATAAAATAAAATAAATATTTTAATATTTACTTTTTAAAAACT
TTAAATAAAATTATCATATGAATATTTGATACATCAAATTATAAATTTTTTTCAAAGAAAGTACG
AAAGCACATACCATATGATCATCTTCATTCCAAAGTTCATC
Found at i:1131766 original size:29 final size:30
Alignment explanation
Indices: 1131733--1131791 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
1131723 TATGGTTTAA
*
1131733 TGTGCAATTATATGCATG-AACTTTGATTT
1 TGTGCAATTATATACATGAAACTTTGATTT
* *
1131762 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTATATACATGAAACTTTGATTT
1131792 GGTCCAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.47
Consensus pattern (30 bp):
TGTGCAATTATATACATGAAACTTTGATTT
Found at i:1132015 original size:29 final size:30
Alignment explanation
Indices: 1131983--1132041 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
1131973 TCACGTGTAT
1131983 AATTAC-ACCAAATTAAAATTCATGTATAC
1 AATTACAACCAAATTAAAATTCATGTATAC
** *
1132012 AATTACATATTAAATTAAAGTTCATGTATA
1 AATTACA-ACCAAATTAAAATTCATGTATA
1132042 ATTTTGAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.24
31 19 0.76
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (30 bp):
AATTACAACCAAATTAAAATTCATGTATAC
Found at i:1139457 original size:504 final size:506
Alignment explanation
Indices: 1138464--1139457 Score: 1690
Period size: 513 Copynumber: 2.0 Consensus size: 506
1138454 ACTGCCAATA
*
1138464 ATAAAATATAATAAAACAATACCCGAATCCTTATTAAAAAAATAAAATACAGTGATAAAATTAGG
1 ATAAAATATAATAAAACAATACCCGAATCATTATTAAAAAAATAAAATACAGTGATAAAATTAGG
* * * *
1138529 AGATTTGTATAGAGCTTAAAATCGAGGGCCGAACAAATAAAATTCATATAGAATTACATTTCCTT
66 AGATCTGTATAGAGCTTAAAACCGAGGGCCGAACAAATAAAATCCATATAGAATTACACTTCCTT
* * *
1138594 TATTTGATATTGATTAAAATAATGTTTTTCAGCATTTAAATAGATGTAGTCGAAAATTTTCTTGT
131 TATTTGATATTAATTAAAATAATGTTTTTCAGCATTTAAATAGATGTAGCCGAAAATCTTCTTGT
* *
1138659 ATCATTTGAATTCAACATTAGTGAATTTTTTTATCCTCTGCTCATGATTTTTTCCGATACCGATA
196 ATAATTTGAATTCAACATTAGTGAATTTTCTTATCCTCTGCTCATGATTTTTTCCGAT--CGATA
1138724 GGATTTTTCACATAAAATTTATAAAGGAAAAAGTTAAGAAGAGAATAACAAAACAAAATAAAATA
259 -GATTTTT---AT-AAATTTATAAAGGAAAAAGTTAAGAAGAGAATAACAAAACAAAATAAAATA
1138789 AACGAAAGGTTAGGTACAGAATTCTTAATTATCCGAATTCAAAAGAAGAAAAGTGGGTGATTAAT
319 AACGAAAGGTTAGGTACAGAATTCTTAATTATCCGAATTCAAAAGAAGAAAAGTGGGTGATTAAT
*
1138854 GTGAATGGAATGAGTGTAGGGTCAGTTTTATTTAGTGTTGTTTTTATGGGTTGAAGCTTTTGGGG
384 GTGAATGGAATGAGTGTAGGGTCAGTTTTATTTAGTGTTGTTTTCATGGGTTGAAGCTTTTGGGG
1138919 TATGTAATGGACATCAATATTTGGGTTATTTTACAAAAAAAGGTATAGCCTATGGAGC
449 TATGTAATGGACATCAATATTTGGGTTATTTTACAAAAAAAGGTATAGCCTATGGAGC
1138977 ATAAAATATAATAAAACAATACCCGAATCATTATTAAAAAAATAAAATACAGTGATAAAATTAGG
1 ATAAAATATAATAAAACAATACCCGAATCATTATTAAAAAAATAAAATACAGTGATAAAATTAGG
* *
1139042 AGATCTGTATAGAGCTTAAAACCGAGGGTCGAACAAGTAAAATCCATATAGAATTACACTTCCTT
66 AGATCTGTATAGAGCTTAAAACCGAGGGCCGAACAAATAAAATCCATATAGAATTACACTTCCTT
*
1139107 TATTTGATATTAATTAAAATAATGTTTTTCAGCATTTAAATAGATGTAGCCGAAAATCTTCTTTT
131 TATTTGATATTAATTAAAATAATGTTTTTCAGCATTTAAATAGATGTAGCCGAAAATCTTCTTGT
* ** *
1139172 ATAATTTGAATTCAACATTAGTGAATTTTCTTATTCTCTGCTCATGATTTCTTTTTTGGT-GATA
196 ATAATTTGAATTCAACATTAGTGAATTTTCTTATCCTCTGCTCATGA-TT-TTTTCCGATCGATA
**
1139236 -ATTTTT-T-TTTTTATAAAGGAAAAAGTTAAGAAGAGAATAACAAAACAAAATAAAATAAACGA
259 GATTTTTATAAATTTATAAAGGAAAAAGTTAAGAAGAGAATAACAAAACAAAATAAAATAAACGA
1139298 AAGGTTAGGTACAGAATTCTTAATTATCCGAATTCAAAAGAAGAAAAGTGGGTGATTAATGTGAA
324 AAGGTTAGGTACAGAATTCTTAATTATCCGAATTCAAAAGAAGAAAAGTGGGTGATTAATGTGAA
1139363 TGGAATGAGTGTAGGGTCAGTTTTATTTAGTGTTGTTTTCATGGGTTGAAGCTTTTGGGGTATGT
389 TGGAATGAGTGTAGGGTCAGTTTTATTTAGTGTTGTTTTCATGGGTTGAAGCTTTTGGGGTATGT
*
1139428 AATGGACATCAATATTTGGGTTCTTTTACA
454 AATGGACATCAATATTTGGGTTATTTTACA
1139458 TAAGCCTGAC
Statistics
Matches: 458, Mismatches: 21, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
504 211 0.46
506 1 0.00
510 6 0.01
512 4 0.01
513 228 0.50
514 2 0.00
515 6 0.01
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.35
Consensus pattern (506 bp):
ATAAAATATAATAAAACAATACCCGAATCATTATTAAAAAAATAAAATACAGTGATAAAATTAGG
AGATCTGTATAGAGCTTAAAACCGAGGGCCGAACAAATAAAATCCATATAGAATTACACTTCCTT
TATTTGATATTAATTAAAATAATGTTTTTCAGCATTTAAATAGATGTAGCCGAAAATCTTCTTGT
ATAATTTGAATTCAACATTAGTGAATTTTCTTATCCTCTGCTCATGATTTTTTCCGATCGATAGA
TTTTTATAAATTTATAAAGGAAAAAGTTAAGAAGAGAATAACAAAACAAAATAAAATAAACGAAA
GGTTAGGTACAGAATTCTTAATTATCCGAATTCAAAAGAAGAAAAGTGGGTGATTAATGTGAATG
GAATGAGTGTAGGGTCAGTTTTATTTAGTGTTGTTTTCATGGGTTGAAGCTTTTGGGGTATGTAA
TGGACATCAATATTTGGGTTATTTTACAAAAAAAGGTATAGCCTATGGAGC
Found at i:1139717 original size:13 final size:14
Alignment explanation
Indices: 1139690--1139718 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1139680 ATTGATTAAA
1139690 AATTAAATATAACT
1 AATTAAATATAACT
1139704 AATTAAAT-TAACT
1 AATTAAATATAACT
1139717 AA
1 AA
1139719 AAAATACGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAATATAACT
Found at i:1144831 original size:21 final size:21
Alignment explanation
Indices: 1144807--1144847 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1144797 TTCTGTAGAG
1144807 TCTGTGTCACTCTCTGCATCC
1 TCTGTGTCACTCTCTGCATCC
*
1144828 TCTGTTTCACTCTCTGCATC
1 TCTGTGTCACTCTCTGCATC
1144848 ATCTATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.37, G:0.12, T:0.41
Consensus pattern (21 bp):
TCTGTGTCACTCTCTGCATCC
Found at i:1144870 original size:30 final size:30
Alignment explanation
Indices: 1144834--1144907 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
1144824 ATCCTCTGTT
*
1144834 TCACTCTCTGCATCATCTATATCATCTATA
1 TCACTCTCTGCATCATCTACATCATCTATA
* * * *
1144864 TCACTCTCTGCATCATCTGCGTCATCTGTT
1 TCACTCTCTGCATCATCTACATCATCTATA
1144894 TCACTCTCTGCATC
1 TCACTCTCTGCATC
1144908 CACGTAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.19, C:0.34, G:0.08, T:0.39
Consensus pattern (30 bp):
TCACTCTCTGCATCATCTACATCATCTATA
Found at i:1148964 original size:301 final size:301
Alignment explanation
Indices: 1148422--1149008 Score: 892
Period size: 301 Copynumber: 2.0 Consensus size: 301
1148412 TCATTCCCCC
1148422 GTTTTTTTATTTTCTCACTAACATTCTGAAGAAAAAAACGACATTCAAACCTTGGAGAGACTTCC
1 GTTTTTTTATTTTCTCACTAACATTCTGAAGAAAAAAACGACATTCAAACCTTGGAGAGACTTCC
* * * * *
1148487 TTATATAGAGCATCAGCAAGGGTGGTTTTTCCAATACCACCCATTCCCCAAAGTCCTATTACACG
66 TTATATACAACATCAGCAAGGCTAGTTTTGCCAATACCACCCATTCCCCAAAGTCCTATTACACG
* * * *
1148552 GATGTCCGCTTGCTCAATCAACCCCAAAAGCATCTTTTTTTGATCATCTATGCCGATGAATTCTT
131 AATGTCCGCTTGCTCAATCAACCACAAAAGCATCCTTTTTTGATCATCTATGCCGACGAATTCTT
* * *
1148617 CAGAAACACTTGTACAGTTGCTATTCAATTTTTTTAAAACATATTCAACCACATCTTTAATGTAC
196 CAGAAACACTTCTACACTTGCTATTCAACTTTTTTAAAACATATTCAACCACATCTTTAATGTAC
1148682 TCAGTTTCAGATCTAGAAAATAATTACAAAAATATTCCCTT
261 TCAGTTTCAGATCTAGAAAATAATTACAAAAATATTCCCTT
* * ** * * *
1148723 GTTTTTTTATTTTCTCGCTAACATTTTGAAGAAAGTAATGATC-TTCAAACTTTGGAGAGGCTTC
1 GTTTTTTTATTTTCTCACTAACATTCTGAAGAAAAAAACGA-CATTCAAACCTTGGAGAGACTTC
* * *
1148787 CTTGTATACAACATCAGCAAGGCTAGTTTTGCCTATACCACCCATTCCCCAAAGTCCTATTATAC
65 CTTATATACAACATCAGCAAGGCTAGTTTTGCCAATACCACCCATTCCCCAAAGTCCTATTACAC
*
1148852 GAACT-TCCGCTTGCTCAATCAACCACAAAAGCATCCTTTTTTGATCATCTATTCCGACGAATTC
130 GAA-TGTCCGCTTGCTCAATCAACCACAAAAGCATCCTTTTTTGATCATCTATGCCGACGAATTC
* *
1148916 TTCTA-AATCACTTCTACACTTTCTATTCAACTTTTTTAAAACATATTCAACCACATCTTTAATG
194 TTC-AGAAACACTTCTACACTTGCTATTCAACTTTTTTAAAACATATTCAACCACATCTTTAATG
*
1148980 TACTCGGTTTCAGATCTAGAAAATAATTA
258 TACTCAGTTTCAGATCTAGAAAATAATTA
1149009 ATAGATCAAC
Statistics
Matches: 257, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
301 254 0.99
302 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (301 bp):
GTTTTTTTATTTTCTCACTAACATTCTGAAGAAAAAAACGACATTCAAACCTTGGAGAGACTTCC
TTATATACAACATCAGCAAGGCTAGTTTTGCCAATACCACCCATTCCCCAAAGTCCTATTACACG
AATGTCCGCTTGCTCAATCAACCACAAAAGCATCCTTTTTTGATCATCTATGCCGACGAATTCTT
CAGAAACACTTCTACACTTGCTATTCAACTTTTTTAAAACATATTCAACCACATCTTTAATGTAC
TCAGTTTCAGATCTAGAAAATAATTACAAAAATATTCCCTT
Found at i:1152282 original size:48 final size:48
Alignment explanation
Indices: 1152208--1152304 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
1152198 TCGAATTTGT
1152208 CTTAAAGAAACTGTGAAAACAAGCCTCAATATCTAGTTCATTATACTA
1 CTTAAAGAAACTGTGAAAACAAGCCTCAATATCTAGTTCATTATACTA
*
1152256 CTTAAAGAAACTGTGAAAACAGGCCTCAATATCTAGTTCATTATACTA
1 CTTAAAGAAACTGTGAAAACAAGCCTCAATATCTAGTTCATTATACTA
1152304 C
1 C
1152305 AATTTGTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (48 bp):
CTTAAAGAAACTGTGAAAACAAGCCTCAATATCTAGTTCATTATACTA
Found at i:1152366 original size:3 final size:3
Alignment explanation
Indices: 1152358--1152393 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1152348 TTAGGAACTG
1152358 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1152394 GCAAAGGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1155594 original size:11 final size:11
Alignment explanation
Indices: 1155580--1155613 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
1155570 AAAAAAGATT
1155580 GAAAAAAAAAA
1 GAAAAAAAAAA
1155591 GAAAAAAAAAA
1 GAAAAAAAAAA
1155602 GAAAAAAGAAAA
1 GAAAAAA-AAAA
1155614 AAATTAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:1155608 original size:18 final size:17
Alignment explanation
Indices: 1155581--1155616 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
1155571 AAAAAGATTG
1155581 AAAAAAAAAAGAAAAAA
1 AAAAAAAAAAGAAAAAA
1155598 AAAAGAAAAAAGAAAAAA
1 AAAA-AAAAAAGAAAAAA
1155616 A
1 A
1155617 TTAAAACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAA
Found at i:1158618 original size:439 final size:438
Alignment explanation
Indices: 1157536--1159471 Score: 2732
Period size: 439 Copynumber: 4.4 Consensus size: 438
1157526 TTGATCAATG
* * * * *
1157536 TACTTTTTAGCATCAACTACTTGCTTTAAGCAGT-AAAAATAAAAAGGAAATAAATAATAATAAT
1 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
* * *
1157600 ATTAAGAAGAATAAAAATTTATATTTGATGTATTGACTGTGAAAATTCATCAACAATTAACACAT
66 ATTAAGAAGAATAAAAGTTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
1157665 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
131 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
* *
1157730 AGATGTCACCATATGAATATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAAA-AAGAA
196 AGATGTCACCATATAAATATTTAATACTTAAAATTATAAATCTTTTTTCCAAA-AAAAATAAGAA
1157794 AACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAGAGCAATCAA
260 AACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAGAGCAATCAA
* * * * *
1157859 GTGATTCAAAGTGGATGGCTCCTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAAT-TTAAAAC
325 GTAATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATCTGAAAA-
*
1157923 GTTAATTCTCTTTAAATTAACAAGATCCTGTAC-AAAAAAA-AATCGCAT
389 GTTAATTCTCCTTAAATTAACAAGATCCTGTACAAAAAAAATAATCGCAT
* *
1157971 TACTTTTAAGCATCAATTACTTGCTTTAGGCAGTGAAAAATAAAATGGAAATAAGTTATTATAAT
1 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
1158036 ATTAAGAAGAATAAAAGTTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
66 ATTAAGAAGAATAAAAGTTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
*
1158101 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAAAA
131 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
1158166 AGATGTCACCATATAAATATTTAATACTTAAAATTATAAATCTTTTTTCCAAAAAAAATAAGAAA
196 AGATGTCACCATATAAATATTTAATACTTAAAATTATAAATCTTTTTTCCAAAAAAAATAAGAAA
1158231 ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAGAGCAATCAAG
261 ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAGAGCAATCAAG
* *
1158296 TGATTGAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATCTGAAAAGT
326 TAATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATCTGAAAAGT
1158361 TAATTCTCCTTAAATTAACAAGATCCTGTACAAAAAAAAATAATCGCAT
391 TAATTCTCCTTAAATTAACAAGATCCTGTAC-AAAAAAAATAATCGCAT
1158410 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
1 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
1158475 ATTAAGAAGAATAAAAGTTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
66 ATTAAGAAGAATAAAAGTTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
* * *
1158540 CAAATGATGCCACTAATTTAAATAAATTAAAGTATTTCATATATATTTTGTAAAAACTATAAATA
131 CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
* * * * * *
1158605 AGATGTAACCATATGAATA-TTAGTGACATAAAATTATAAATATTTTTTCCAAAGAAAATAAGAA
196 AGATGTCACCATATAAATATTTAAT-ACTTAAAATTATAAATCTTTTTTCCAAAAAAAATAAGAA
1158669 AACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAGAGCAATCAA
260 AACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAGAGCAATCAA
*
1158734 GTAATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATCTGAAACG
325 GTAATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATCTGAAAAG
* *
1158799 TCAATTATCCTTAAATTAACAAGATCCTGTACAAAAAAAATAATCGCAT
390 TTAATTCTCCTTAAATTAACAAGATCCTGTACAAAAAAAATAATCGCAT
*
1158848 TACTTTTAAGCATCAACTTCTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
1 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
1158913 ATTAAGAAGAATAAAAGTTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
66 ATTAAGAAGAATAAAAGTTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
*
1158978 CAAATGATGCCACTAATTTAAATAAAATTAAA-TAATTTTTTTCATATTTACTTTT-TAAAAACT
131 CAAATGATGCCACTAATTTAAATAAAA-TAAAGT-A----TTTCATATATA-TTTTCTAAAAACT
* * ** *
1159041 TTAAATATGATAT-A--ATATAAATATTTGTTACATT-AAATTATAAATCTTTTTTCAAAGAAAG
189 TTAAATAAGATGTCACCATATAAATATTTAATAC-TTAAAATTATAAATCTTTTTTCCAA-AAA-
*
1159102 TATGGTAATCTTTTTTCAAAGAAAGTATGGAAACACATACCCTATGATCATCTTCATTCCAAAAT
251 -A----AA-------T------AAG-A---AAACACATACCCTATGATCATCTTCATTCCAAAGT
* * * *
1159167 TCAATCAAACTTTCATAGTTAAATCAATCAAGTAATTCAAGGTTGATGGCTCTTGAAAGATTATG
294 TCAATCAAACTTTCACAGTTAGAGCAATCAAGTAATTCAAGGTTGATGGCTCTTGAAAGATTAGG
* * * ** * * * * *
1159232 TATCTTCTTTAAATT-TCTACAA-CGTGGATCGTAAATTTTCCTTAAATTAACAAGGTCTTGTGC
359 TATCTTCCTTAAATTCT-TGCAATC-TGAAAAGTTAATTCTCCTTAAATTAACAAGATCCTGTAC
*
1159295 AAAAAAAATAATCGTAT
422 AAAAAAAATAATCGCAT
* *** * * * * * * *
1159312 TATTTTTAAGTGGCAACTACTTGCTTTAGACAGTAAAAAATAAATAGAAAATAAATAAGTATAAT
1 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
* * * * * * * ***
1159377 ACTAAGAAAAATAAAAATTTATATTTGATGTATTAGATGTG-AAATTCTCCCACAATTAAGGGAT
66 ATTAAGAAGAATAAAAGTTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
1159441 CAAATGATGCCACTAATTTAAATAAAATAAA
131 CAAATGATGCCACTAATTTAAATAAAATAAA
1159472 ATAAAATCTT
Statistics
Matches: 1373, Mismatches: 86, Indels: 57
0.91 0.06 0.04
Matches are distributed among these distances:
435 36 0.03
436 358 0.26
437 5 0.00
438 184 0.13
439 412 0.30
440 30 0.02
441 6 0.00
442 1 0.00
443 29 0.02
444 4 0.00
447 2 0.00
454 1 0.00
460 3 0.00
461 1 0.00
462 4 0.00
463 47 0.03
464 250 0.18
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (438 bp):
TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTGAAAAATAAAAAGGAAATAAGTTATTATAAT
ATTAAGAAGAATAAAAGTTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
CAAATGATGCCACTAATTTAAATAAAATAAAGTATTTCATATATATTTTCTAAAAACTTTAAATA
AGATGTCACCATATAAATATTTAATACTTAAAATTATAAATCTTTTTTCCAAAAAAAATAAGAAA
ACACATACCCTATGATCATCTTCATTCCAAAGTTCAATCAAACTTTCACAGTTAGAGCAATCAAG
TAATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCTTGCAATCTGAAAAGT
TAATTCTCCTTAAATTAACAAGATCCTGTACAAAAAAAATAATCGCAT
Found at i:1159117 original size:25 final size:25
Alignment explanation
Indices: 1159083--1159131 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
1159073 TTAAATTATA
1159083 AATCTTTTTTCAAAGAAAGTATGGT
1 AATCTTTTTTCAAAGAAAGTATGGT
1159108 AATCTTTTTTCAAAGAAAGTATGG
1 AATCTTTTTTCAAAGAAAGTATGG
1159132 AAACACATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (25 bp):
AATCTTTTTTCAAAGAAAGTATGGT
Found at i:1163176 original size:445 final size:438
Alignment explanation
Indices: 1162593--1163434 Score: 1156
Period size: 445 Copynumber: 1.9 Consensus size: 438
1162583 ATTTGAAATG
*
1162593 AAATTATTAATCTTTTTTTCAAAGAAAGGACAAAAGCACATACCATATAGTAATCTTCATTCCAA
1 AAATTATAAATCTTTTTTTCAAAGAAAGGACAAAAGCACATACCATATAGTAATCTTCATTCCAA
* * *
1162658 AGTTCAACCAAAATTTTACAGTTAAAACAATCAAGTAATTTAAGATTGATGGCTCTTGAAAGATT
66 AATTCAACCAAAATTTCACAGTTAAAACAATCAAGTAATTCAAGATTGATGGCTCTTGAAAGATT
1162723 AGGTATCTTCTTTAAATTTCTACAACGTGGATCGCAAATTTTCCTTAAATTAACAAGGTCTTGTG
131 AGGTATCTTCTTTAAATTTCTACAACGTGGATCGCAAATTTTCCTTAAATTAACAAGGTCTTGTG
* * *
1162788 C-AAAATAATAATTGTATTACTTTTAAGCATCAACGACTTGCTTTAGGCCA-TAAAAAATAAAAA
196 CAAAAAAAATAATCGTATTACTTTTAAGCATCAACGACTTGCTTTA-GACAGTAAAAAATAAAAA
* * **
1162851 GGAAATAAATAATTAAAATA-TGAAGAAAAATAAAGTAAAAAACTTATATTTAGATGTATTGGGT
260 GAAAATAAATAAGTAAAATACT-AAG---AA-AAA-T-AAAAACTTATATTT-GATGTATTGAAT
* * **
1162915 GTGGAAATTCACCCACAATTAACACATTAAATGATCCCACTAATTTAAATAAAATTAAATAATTT
317 GT-GAAATTCACCCACAATTAACACATCAAATGATCCCACTAATTTAAATAAAATAAAATAAAAT
*
1162980 TTTTCATATTTACTTTTTAAAAACTTTAAATATGATATAATATAAATATTTGTTACATT
381 CTTTCATATTTA-TTTTTAAAAACTTTAAATATGATATAATATAAATATTTGTTACATT
* ** * *
1163039 AAATTATAAATC-TTTTTTCAAAGAAAGTATGGAAA-CACATACCCTAT-GATCATCTTCATTCC
1 AAATTATAAATCTTTTTTTCAAAGAAAGGA-CAAAAGCACATACCATATAG-TAATCTTCATTCC
* * * * * *
1163101 AAAATTCAATCAAACTTTCATAGTTAGATCAATCAAGTAATTCAAGGTTGATGGCTCTTGAAAGA
64 AAAATTCAACCAAAATTTCACAGTTAAAACAATCAAGTAATTCAAGATTGATGGCTCTTGAAAGA
* *
1163166 TTATGTATCTTCTTTAAATTTCTACAACGTGGATCGTAAATTTTCCTTAAATTAACAAGGTCTTG
129 TTAGGTATCTTCTTTAAATTTCTACAACGTGGATCGCAAATTTTCCTTAAATTAACAAGGTCTTG
* ** * *
1163231 TGCAAAAAAAATAATCGTATTATTTTTAAGTGTCAACTACTTGCTTTAGACAGTAAAAAATAAAT
194 TGCAAAAAAAATAATCGTATTACTTTTAAGCATCAACGACTTGCTTTAGACAGTAAAAAATAAAA
* *
1163296 AGAAAATAAATAAGTATAATACTAAGAAAAATAAAAATTTATATTTGATGTATTGAATGTGAAAT
259 AGAAAATAAATAAGTAAAATACTAAGAAAAATAAAAACTTATATTTGATGTATTGAATGTGAAAT
* *** *
1163361 TCTCCCACAATTAAGGGATCAAATGATGCCACTAATTTAAATAAAATAAAATAAAATCTTTCATA
324 TCACCCACAATTAACACATCAAATGATCCCACTAATTTAAATAAAATAAAATAAAATCTTTCATA
1163426 TTTATTTTT
389 TTTATTTTT
1163435 CACCTTAAAA
Statistics
Matches: 350, Mismatches: 41, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
437 5 0.01
438 64 0.18
439 12 0.03
440 13 0.04
441 1 0.00
442 3 0.01
443 2 0.01
444 1 0.00
445 164 0.47
446 84 0.24
447 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (438 bp):
AAATTATAAATCTTTTTTTCAAAGAAAGGACAAAAGCACATACCATATAGTAATCTTCATTCCAA
AATTCAACCAAAATTTCACAGTTAAAACAATCAAGTAATTCAAGATTGATGGCTCTTGAAAGATT
AGGTATCTTCTTTAAATTTCTACAACGTGGATCGCAAATTTTCCTTAAATTAACAAGGTCTTGTG
CAAAAAAAATAATCGTATTACTTTTAAGCATCAACGACTTGCTTTAGACAGTAAAAAATAAAAAG
AAAATAAATAAGTAAAATACTAAGAAAAATAAAAACTTATATTTGATGTATTGAATGTGAAATTC
ACCCACAATTAACACATCAAATGATCCCACTAATTTAAATAAAATAAAATAAAATCTTTCATATT
TATTTTTAAAAACTTTAAATATGATATAATATAAATATTTGTTACATT
Found at i:1172735 original size:16 final size:16
Alignment explanation
Indices: 1172705--1172734 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1172695 GCTGCAATTT
1172705 TTCTTTTTCTTTTTTC
1 TTCTTTTTCTTTTTTC
1172721 TTCTTTTT-TTTTTT
1 TTCTTTTTCTTTTTT
1172735 TGATAGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (16 bp):
TTCTTTTTCTTTTTTC
Found at i:1176815 original size:438 final size:437
Alignment explanation
Indices: 1175949--1177006 Score: 1386
Period size: 438 Copynumber: 2.4 Consensus size: 437
1175939 TTGATCAATG
* * *
1175949 TACTTTTTAGAATCAACTACTTGCTTTAAGCAGTAAAAAATAAAAAGAAAATAAATAATTATAAT
1 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTAAAAAATAAAAAGAAAATAAATAATTATAAT
*
1176014 ATTAAGAAGAATAAAAGTTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
66 ATTAAGAAGAATAAAAATTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
* *
1176079 CAAATGATGCCACTAATTTAAATAAAATAAAGT---A-TTTCATATATATTTTCTAAAAACTTTA
131 CAAATGATGCCACTAATTTAAATAAAATAAAATAAAATTTTCATATTTATTTT-TAAAAACTTTA
*
1176140 AATAAGATGTCACCATATGAATATTTGATACTTAAAATTATAAATCTTTTTTCCAAAGAAAAAAA
195 AATAAAATGTCACCATATGAATATTTGATACTT-AAATTATAAATCTTTTTTCCAAAGAAAAAAA
* * * * *
1176205 GAAAACACATACCCTATGATCATCTGCATTCCAAAGTTCAATCAAACTTTCACTGTCAAGGGAAT
259 GAAAACACATACCATATAATCATCTGCATTCCAAAATTCAATCAAACTTTCACAGTCAAGGCAAT
* * * * *
1176270 CAATTGATTCAAGGTTGATGACTCTTGAAAGATTAGGTATCTTCCTTAAATTTTTGCAATATGAA
324 CAAGTAATTCAAGGTTGATGACTCTTGAAAGATTAGGTATCTTCATTAAATTATAGCAATATGAA
1176335 ACGTCAATTATCCTTAAATTAACAAGATCCTATATAAAAAAAATAATTACAT
389 ACGTCAATTATCCTTAAATTAACAAGATCC-ATAT-AAAAAAA-AATTACAT
* *
1176387 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTAAAAAATAAAAAGGAAATAAGTAATTATAAT
1 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTAAAAAATAAAAAGAAAATAAATAATTATAAT
* *
1176452 ATTAAGAAGAATAAAAATTTATATTTGATATATTGGCTGTAAAAATTCACCAACAATTAACACAT
66 ATTAAGAAGAATAAAAATTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
*
1176517 CAAATGATGCCACTAATTTAAATAAAATAAAAATAAACATTTTCATATTTACTTTTTAAAAATTT
131 CAAATGATGCCACTAATTTAAATAAAAT-AAAATAAA-ATTTTCATATTTA-TTTTTAAAAACTT
* ** * *
1176582 TAAATAAAATTTCATTATATGATTATTTGATACAATT-AATTAT-AAT-TTTTTT-CAAAGAAAG
193 TAAATAAAATGTCACCATATGAATATTTGATAC--TTAAATTATAAATCTTTTTTCCAAAGAAAA
* * * * ** *
1176643 TACGAAAGCACATACCATATAATCATCTTCATTCCAAAATTCCTTCAAACTTTCACAGT-TAGAG
256 AAAGAAAACACATACCATATAATCATCTGCATTCCAAAATTCAATCAAACTTTCACAGTCAAG-G
* * * *
1176707 CAATCAAGTAATTCAAGGTTGATGGCTCTTGAAAGATTATGTATCTTTATTAAATTATAGCAATT
320 CAATCAAGTAATTCAAGGTTGATGACTCTTGAAAGATTAGGTATCTTCATTAAATTATAGCAATA
* * * * **
1176772 TGAAACGTTAATTTTCCTTAAATTAACAAGGTCC-TGT-AAAAAAAATTGTAT
385 TGAAACGTCAATTATCCTTAAATTAACAAGATCCATATAAAAAAAAATTACAT
* * *
1176823 TACTTTTAAGCATTAATTACTTACTTTAGGCAGTAAAAAATAAAAAGAAAATAAATAATTATAAT
1 TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTAAAAAATAAAAAGAAAATAAATAATTATAAT
* * * * * * * * *
1176888 ACTAAAAAAAAT-AAAATTTATATTTAATGTATTGGGTGTGAAAATTCACCCACAATTTATAGAT
66 ATTAAGAAGAATAAAAATTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
* *
1176952 CAAATCATGCCAC-AAGTTTAAATGAAATAAAATAAAATATTTCATATTTATTTTT
131 CAAATGATGCCACTAA-TTTAAATAAAATAAAATAAAAT-TTTCATATTTATTTTT
1177007 TCCCTTAAAA
Statistics
Matches: 546, Mismatches: 62, Indels: 29
0.86 0.10 0.05
Matches are distributed among these distances:
433 7 0.01
434 21 0.04
435 67 0.12
436 75 0.14
437 6 0.01
438 150 0.27
439 6 0.01
440 2 0.00
441 144 0.26
442 6 0.01
443 4 0.01
444 52 0.10
445 4 0.01
446 2 0.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (437 bp):
TACTTTTAAGCATCAACTACTTGCTTTAGGCAGTAAAAAATAAAAAGAAAATAAATAATTATAAT
ATTAAGAAGAATAAAAATTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAACACAT
CAAATGATGCCACTAATTTAAATAAAATAAAATAAAATTTTCATATTTATTTTTAAAAACTTTAA
ATAAAATGTCACCATATGAATATTTGATACTTAAATTATAAATCTTTTTTCCAAAGAAAAAAAGA
AAACACATACCATATAATCATCTGCATTCCAAAATTCAATCAAACTTTCACAGTCAAGGCAATCA
AGTAATTCAAGGTTGATGACTCTTGAAAGATTAGGTATCTTCATTAAATTATAGCAATATGAAAC
GTCAATTATCCTTAAATTAACAAGATCCATATAAAAAAAAATTACAT
Found at i:1177387 original size:5 final size:5
Alignment explanation
Indices: 1177373--1177401 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
1177363 ATACTAATTT
1177373 AAAT- AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA
1177402 TTTCATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:1178619 original size:14 final size:13
Alignment explanation
Indices: 1178597--1178630 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1178587 CAGTTCCCTG
*
1178597 ATAACAAATAACAA
1 ATAAAAAATAA-AA
1178611 ATAAAAAATAAAA
1 ATAAAAAATAAAA
1178624 ATAAAAA
1 ATAAAAA
1178631 CAATTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:1181429 original size:18 final size:16
Alignment explanation
Indices: 1181408--1181443 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
1181398 ATTGTAAAAT
1181408 TTTAATTAATTAAATTTA
1 TTTAATTAA--AAATTTA
1181426 TTTAATTAAAAATTTA
1 TTTAATTAAAAATTTA
1181442 TT
1 TT
1181444 CTCATCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAATTAAAAATTTA
Found at i:1183458 original size:11 final size:11
Alignment explanation
Indices: 1183442--1183479 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
1183432 TTCCTTCGCT
1183442 TGCCTCGCTGC
1 TGCCTCGCTGC
1183453 TGCCTC-C-GC
1 TGCCTCGCTGC
1183462 TTGCCTCGCTGC
1 -TGCCTCGCTGC
1183474 TGCCTC
1 TGCCTC
1183480 CACTTTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.08
10 7 0.29
11 13 0.54
12 2 0.08
ACGTcount: A:0.00, C:0.47, G:0.24, T:0.29
Consensus pattern (11 bp):
TGCCTCGCTGC
Found at i:1183475 original size:24 final size:21
Alignment explanation
Indices: 1183428--1183480 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
1183418 CTTGTAGCCT
* *
1183428 CTGCTTCCTTCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
1183449 CTGCTGCCTCCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
1183470 CTGCTGCCTCC
1 CTGCTGCCTCC
1183481 ACTTTAAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.21, T:0.32
Consensus pattern (21 bp):
CTGCTGCCTCCGCTTGCCTCG
Found at i:1183582 original size:66 final size:66
Alignment explanation
Indices: 1183476--1183623 Score: 208
Period size: 66 Copynumber: 2.2 Consensus size: 66
1183466 CTCGCTGCTG
* *
1183476 CCTCCACTTTAAGTTGTATGTGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCCCTCACTGCA
1 CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCCCTCACTGCA
1183541 A
66 A
* * * **
1183542 CCTCCTCTTTAAGTTTTA-GTTGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGTTGC
1 CCTCCTCTTTAAGTTGTATG-TGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCCCTCACTGC
*
1183606 AG
65 AA
1183608 CCTCCTCTTTAAGTTG
1 CCTCCTCTTTAAGTTG
1183624 AGCAATTTGC
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
65 1 0.01
66 71 0.99
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.45
Consensus pattern (66 bp):
CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCCCTCACTGCA
A
Found at i:1189055 original size:26 final size:26
Alignment explanation
Indices: 1189025--1189128 Score: 90
Period size: 26 Copynumber: 4.0 Consensus size: 26
1189015 ATAAATTATG
1189025 GTTACTTTAATATAATTAAATAATTA
1 GTTACTTTAATATAATTAAATAATTA
* * *
1189051 GTTACTTTAATATAAATAAATTATGA
1 GTTACTTTAATATAATTAAATAATTA
* *
1189077 -TTAAATCTTT--TA-ACTTAATATAATCA
1 GTT--A-CTTTAATATAATTAA-ATAATTA
*
1189103 TTTACTTTAATATAATTAAATAATTA
1 GTTACTTTAATATAATTAAATAATTA
1189129 AATATTTTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
24 4 0.07
25 7 0.11
26 38 0.62
27 8 0.13
28 4 0.07
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (26 bp):
GTTACTTTAATATAATTAAATAATTA
Found at i:1189239 original size:8 final size:9
Alignment explanation
Indices: 1189221--1189316 Score: 55
Period size: 8 Copynumber: 11.3 Consensus size: 9
1189211 ATCATTTAGT
1189221 TTAATATAA
1 TTAATATAA
1189230 TTAA-ATAA
1 TTAATATAA
*
1189238 TT-ATAT-C
1 TTAATATAA
*
1189245 TT-TTA-AA
1 TTAATATAA
*
1189252 TTAATATAC
1 TTAATATAA
* *
1189261 TT-ATTTACT
1 TTAATATA-A
1189270 TTAATATAA
1 TTAATATAA
1189279 TTAA-ATAA
1 TTAATATAA
*
1189287 TTAA-ATAT
1 TTAATATAA
*
1189295 TTAATTTAA
1 TTAATATAA
1189304 TTTAATATAA
1 -TTAATATAA
1189314 TTA
1 TTA
1189317 TTTACTTTAG
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
7 7 0.11
8 29 0.44
9 18 0.27
10 12 0.18
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (9 bp):
TTAATATAA
Found at i:1189256 original size:49 final size:49
Alignment explanation
Indices: 1189203--1190169 Score: 578
Period size: 49 Copynumber: 19.1 Consensus size: 49
1189193 ATTAAATAAT
* *
1189203 TTAATATAATCATTTAGTTTAATATAATTAAATAATTATATCTTTTAAA
1 TTAATATAATCATTTACTTTAATATAATTAAATAATTATATCTTTTAAC
* * * *
1189252 TTAATATACTTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAAT
1 TTAATATAATCATTTACTTTAATATAATTAAATAATT--ATATCT--TTTAAC
* * * *
1189305 TTAATATAATTATTTACTTTAGTATAATTAAATGATTAAATCTTTTAAC
1 TTAATATAATCATTTACTTTAATATAATTAAATAATTATATCTTTTAAC
*
1189354 TTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATCATTTACTTTAATATAATTAAATAATTATATCTTTTAAC
* * * * * *
1189403 TTAAATATTTAACTAATCGATAGTGTT--TATAATTAAATACATAATTAAACATGATTAAATAAT
1 TT-AATA--TAA-TCAT--TTACT-TTAATATAATTAAATA-ATTA-T-ATC-T--TT---TAAC
* *
1189466 TTAATATAATCATTTAGTTTAATATAATTAAATAATTATATCTTTTAAA
1 TTAATATAATCATTTACTTTAATATAATTAAATAATTATATCTTTTAAC
* * ** * ** *
1189515 TTAATATAATTATTTAATTTAATATAATTATTTACTTTAGTAT-AATTAAA
1 TTAATATAATCATTTACTTTAATATAATTAAATA-ATTA-TATCTTTTAAC
* * * * ** * **
1189565 TGATTA-AATCTTTTAAC-TTAATATAATCATTTACTTTAATAT-AATTAA-
1 TTAATATAATCATTT-ACTTTAATATAATTAAATA-ATT-ATATCTTTTAAC
* * * * * *
1189613 ATAAT-TAAATCTTTTAAC-TTAA-ATATTTAACTAATCGATAGTGTTTATAA-
1 TTAATAT-AATCATTT-ACTTTAATATAATTAAATAAT-TATA-TCTTT-TAAC
* * * * **
1189663 TTAA-ATACATAATTAAACATGATTAA-ATAATTTAAT-A-TA-ATCATTTAGT
1 TTAATATA-ATCATT-TAC-T--TTAATATAATTAAATAATTATATCTTTTAAC
* ** * ** *
1189712 TTAATATAATTAAATA-ATT-ATATCTTTTAAATTAA-TATAAT-TATTTAAT
1 TTAATATAATCATTTACTTTAATAT-AATTAAA-TAATTAT-ATCT-TTTAAC
* *
1189761 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATCATTTACTTTAATATAATTAAATAATTATATCTTTTAAC
*
1189810 TTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATCATTTACTTTAATATAATTAAATAATTATATCTTTTAAC
*
1189859 TTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATCATTTACTTTAATATAATTAAATAATTATATCTTTTAAC
* *
1189908 TTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCATTTAAC
1 TTAATATAATCATTTACTTTAATATAATTAAATAATTATATCTTTTAAC
* ** * * * * *
1189957 TTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTAC-TTTAA-
1 TTAATATAATCATTTACTTTAA---TATAA-TTAA-ATAATTATAT-CTTTTAAC
* * *
1190010 TATAAT-TAAATAATTAAATCTTTTAACT-TAATATAATTAAATAATTAAATCTTTTAAC
1 T-TAATAT-AATCATT-TA-C-TTTAA-TATAAT-T-A--A-ATAATTATATCTTTTAAC
*
1190068 TTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATCATTTACTTTAATATAATTAAATAATTATATCTTTTAAC
* * *
1190117 TTAATATAATCATTTACTTTAATATAATTAGATAATTAAATCTTTTACC
1 TTAATATAATCATTTACTTTAATATAATTAAATAATTATATCTTTTAAC
1190166 TTAA
1 TTAA
1190170 ATATTTAATT
Statistics
Matches: 743, Mismatches: 104, Indels: 142
0.75 0.11 0.14
Matches are distributed among these distances:
43 1 0.00
44 4 0.01
45 4 0.01
46 1 0.00
47 7 0.01
48 13 0.02
49 443 0.60
50 46 0.06
51 17 0.02
52 10 0.01
53 52 0.07
54 57 0.08
55 13 0.02
56 7 0.01
57 36 0.05
58 15 0.02
59 3 0.00
60 5 0.01
62 4 0.01
63 5 0.01
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (49 bp):
TTAATATAATCATTTACTTTAATATAATTAAATAATTATATCTTTTAAC
Found at i:1189267 original size:18 final size:18
Alignment explanation
Indices: 1189246--1189334 Score: 65
Period size: 18 Copynumber: 5.0 Consensus size: 18
1189236 AATTATATCT
*
1189246 TTTAAATTAATATACTTA
1 TTTAAATTAATATAATTA
**
1189264 TTTACTTTAATATAATTA
1 TTTAAATTAATATAATTA
** *
1189282 AAT-AATTAA-ATATTTAA
1 TTTAAATTAATATAATT-A
*
1189299 TTTAATTTAATATAATTA
1 TTTAAATTAATATAATTA
** *
1189317 TTTACTTTAGTATAATTA
1 TTTAAATTAATATAATTA
1189335 AATGATTAAA
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
16 5 0.09
17 6 0.11
18 38 0.70
19 5 0.09
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (18 bp):
TTTAAATTAATATAATTA
Found at i:1189530 original size:18 final size:18
Alignment explanation
Indices: 1189509--1189611 Score: 83
Period size: 18 Copynumber: 6.0 Consensus size: 18
1189499 AATTATATCT
*
1189509 TTTAAATTAATATAATTA
1 TTTAATTTAATATAATTA
1189527 TTTAATTTAATATAATTA
1 TTTAATTTAATATAATTA
* *
1189545 TTTACTTTAGTATAATTA
1 TTTAATTTAATATAATTA
* *
1189563 ---AA-TGATTA-AATCT-
1 TTTAATTTAATATAAT-TA
* *
1189576 TTTAACTTAATATAATCA
1 TTTAATTTAATATAATTA
*
1189594 TTTACTTTAATATAATTA
1 TTTAATTTAATATAATTA
1189612 AATAATTAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
13 3 0.05
14 5 0.08
15 1 0.02
16 2 0.03
17 4 0.06
18 51 0.77
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (18 bp):
TTTAATTTAATATAATTA
Found at i:1189546 original size:228 final size:229
Alignment explanation
Indices: 1189285--1190046 Score: 1128
Period size: 228 Copynumber: 3.3 Consensus size: 229
1189275 ATAATTAAAT
* * *
1189285 AATTAA-ATATTTAATTTAATTTAATATAATTATTTACTTTAGTATAATTAAATGATTAAATCTT
1 AATTAATATAATTAATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTT
1189349 TTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTA
66 TTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTA
1189414 ACTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATCAT
131 ACTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATCAT
1189479 TTAGTTTAATATAATTAAATAATTATATCTTTTA
196 TTAGTTTAATATAATTAAATAATTATATCTTTTA
* *
1189513 AATTAATATAATT-ATTTAATTTAATATAATTATTTACTTTAGTATAATTAAATGATTAAATCTT
1 AATTAATATAATTAATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTT
1189577 TTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTA
66 TTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTA
1189642 ACTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATCAT
131 ACTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATCAT
1189707 TTAGTTTAATATAATTAAATAATTATATCTTTTA
196 TTAGTTTAATATAATTAAATAATTATATCTTTTA
1189741 AATTAATATAATT-ATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTT
1 AATTAATATAATTAATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTT
1189805 TTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTT-AATA--TA
66 TTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTA
* * * * * * *
1189867 A-TCAT--TTACT-TTAAT-A-TAATTAAATAATTAAATC-T--TT---TAACTTAATATAATCA
131 ACTAATCGATAGTGTTTATAATTAAATACATAATTAAA-CATGATTAAATAATTTAATATAATCA
* * *
1189920 TTTACTTTAATATAATTAAATAATTAAATCATTTAACTT
195 TTTAGTTTAATATAATTAAATAATTATATC-TTT---TA
* *
1189959 AATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAAT
1 AAT-TAA-T--ATAATT-AA---TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAAT
1190024 TAAATCTTTTAACTTAATATAAT
58 TAAATCTTTTAACTTAATATAAT
1190047 TAAATAATTA
Statistics
Matches: 504, Mismatches: 15, Indels: 31
0.92 0.03 0.06
Matches are distributed among these distances:
214 43 0.09
215 3 0.01
217 2 0.00
218 4 0.01
219 18 0.04
220 3 0.01
221 4 0.01
222 9 0.02
224 4 0.01
225 3 0.01
227 67 0.13
228 339 0.67
229 5 0.01
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (229 bp):
AATTAATATAATTAATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTT
TTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTA
ACTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATCAT
TTAGTTTAATATAATTAAATAATTATATCTTTTA
Found at i:1189610 original size:67 final size:67
Alignment explanation
Indices: 1189462--1189611 Score: 228
Period size: 67 Copynumber: 2.2 Consensus size: 67
1189452 CATGATTAAA
* * * *
1189462 TAATTTAATATAATCATTTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATATAATTA
1 TAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCA
1189527 TT
66 TT
* * *
1189529 TAATTTAATATAATTATTTACTTTAGTATAATTAAATGATTAAATCTTTTAACTTAATATAATCA
1 TAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCA
1189594 TT
66 TT
*
1189596 TACTTTAATATAATTA
1 TAATTTAATATAATTA
1189612 AATAATTAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 75 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (67 bp):
TAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCA
TT
Found at i:1189716 original size:18 final size:18
Alignment explanation
Indices: 1189690--1190144 Score: 127
Period size: 18 Copynumber: 27.8 Consensus size: 18
1189680 CATGATTAAA
1189690 TAATTTAATATAATCATT
1 TAATTTAATATAATCATT
*
1189708 TAGTTTAATAT-A--A-T
1 TAATTTAATATAATCATT
* *
1189722 TAA-ATAAT-TATATCTTT
1 TAATTTAATATA-ATCATT
* *
1189739 TAAATTAATATAATTATT
1 TAATTTAATATAATCATT
*
1189757 TAATTTAATATAATTATT
1 TAATTTAATATAATCATT
*
1189775 TACTTTAATAT-A--A-T
1 TAATTTAATATAATCATT
* *
1189789 TAA-ATAAT-TAAATCTTT
1 TAATTTAATAT-AATCATT
*
1189806 TAACTTAATATAATCATT
1 TAATTTAATATAATCATT
*
1189824 TACTTTAATAT-A--A-T
1 TAATTTAATATAATCATT
* *
1189838 TAA-ATAAT-TAAATCTTT
1 TAATTTAATAT-AATCATT
*
1189855 TAACTTAATATAATCATT
1 TAATTTAATATAATCATT
*
1189873 TACTTTAATAT-A--A-T
1 TAATTTAATATAATCATT
* *
1189887 TAA-ATAAT-TAAATCTTT
1 TAATTTAATAT-AATCATT
*
1189904 TAACTTAATATAATCATT
1 TAATTTAATATAATCATT
*
1189922 TACTTTAATAT-A--A-T
1 TAATTTAATATAATCATT
*
1189936 TAA-ATAAT-TAAATCATT
1 TAATTTAATAT-AATCATT
*
1189953 TAACTTAATAT-A--A-T
1 TAATTTAATATAATCATT
* *
1189967 TAA-ATAAT-TAAATCTTT
1 TAATTTAATAT-AATCATT
*
1189984 TAACTTAATATAATCATT
1 TAATTTAATATAATCATT
*
1190002 TACTTTAATAT-A--A-T
1 TAATTTAATATAATCATT
* *
1190016 TAA-ATAAT-TAAATCTTT
1 TAATTTAATAT-AATCATT
*
1190033 TAACTTAATAT-A--A-T
1 TAATTTAATATAATCATT
* *
1190047 TAA-ATAAT-TAAATCTTT
1 TAATTTAATAT-AATCATT
*
1190064 TAACTTAATATAATCATT
1 TAATTTAATATAATCATT
*
1190082 TACTTTAATAT-A--A-T
1 TAATTTAATATAATCATT
* *
1190096 TAA-ATAAT-TAAATCTTT
1 TAATTTAATAT-AATCATT
*
1190113 TAACTTAATATAATCATT
1 TAATTTAATATAATCATT
*
1190131 TACTTTAATATAAT
1 TAATTTAATATAAT
1190145 TAGATAATTA
Statistics
Matches: 317, Mismatches: 57, Indels: 126
0.63 0.11 0.25
Matches are distributed among these distances:
12 9 0.03
13 36 0.11
14 38 0.12
15 8 0.03
16 1 0.00
17 45 0.14
18 170 0.54
19 10 0.03
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATTTAATATAATCATT
Found at i:1189725 original size:36 final size:36
Alignment explanation
Indices: 1189684--1189895 Score: 139
Period size: 31 Copynumber: 6.3 Consensus size: 36
1189674 ATTAAACATG
*
1189684 ATTAAATAATTTAATATAATCATTTAGTTTAATATA
1 ATTAAATAATTTAATATAATCATTTAATTTAATATA
* *
1189720 ATTAAATAA--T--TAT-ATCTTTTAAATTAATATA
1 ATTAAATAATTTAATATAATCATTTAATTTAATATA
** * *
1189751 ATTATTTAATTTAATATAATTATTTACTTTAATATA
1 ATTAAATAATTTAATATAATCATTTAATTTAATATA
* *
1189787 ATTAAATAA--T--TA-AATCTTTTAACTTAATATA
1 ATTAAATAATTTAATATAATCATTTAATTTAATATA
* ** * * **
1189818 ATCATTTACTTTAATATAATTAAATAA-TTAA-AT-
1 ATTAAATAATTTAATATAATCATTTAATTTAATATA
* * * *
1189851 CTT--TTAACTTAATATAATCATTTACTTTAATATA
1 ATTAAATAATTTAATATAATCATTTAATTTAATATA
1189885 ATTAAATAATT
1 ATTAAATAATT
1189896 AAATCTTTTA
Statistics
Matches: 127, Mismatches: 34, Indels: 30
0.66 0.18 0.16
Matches are distributed among these distances:
31 58 0.46
32 9 0.07
33 5 0.04
34 6 0.05
35 9 0.07
36 40 0.31
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (36 bp):
ATTAAATAATTTAATATAATCATTTAATTTAATATA
Found at i:1189730 original size:8 final size:9
Alignment explanation
Indices: 1189712--1189799 Score: 57
Period size: 8 Copynumber: 10.4 Consensus size: 9
1189702 ATCATTTAGT
1189712 TTAATATAA
1 TTAATATAA
1189721 TTAA-ATAA
1 TTAATATAA
*
1189729 TT-ATAT-C
1 TTAATATAA
*
1189736 TT-TTA-AA
1 TTAATATAA
1189743 TTAATATAA
1 TTAATATAA
*
1189752 TT-ATTTAA
1 TTAATATAA
1189760 TTTAATATAA
1 -TTAATATAA
* *
1189770 TT-ATTTACT
1 TTAATATA-A
1189779 TTAATATAA
1 TTAATATAA
1189788 TTAA-ATAA
1 TTAATATAA
1189796 TTAA
1 TTAA
1189800 ATCTTTTAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 17
0.69 0.11 0.19
Matches are distributed among these distances:
7 7 0.11
8 27 0.44
9 18 0.30
10 9 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (9 bp):
TTAATATAA
Found at i:1189838 original size:67 final size:67
Alignment explanation
Indices: 1189690--1189839 Score: 246
Period size: 67 Copynumber: 2.2 Consensus size: 67
1189680 CATGATTAAA
* * * *
1189690 TAATTTAATATAATCATTTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATATAATTA
1 TAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCA
1189755 TT
66 TT
*
1189757 TAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCA
1 TAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCA
1189822 TT
66 TT
*
1189824 TACTTTAATATAATTA
1 TAATTTAATATAATTA
1189840 AATAATTAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 77 1.00
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.50
Consensus pattern (67 bp):
TAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCA
TT
Found at i:1189912 original size:31 final size:28
Alignment explanation
Indices: 1189877--1190077 Score: 110
Period size: 31 Copynumber: 7.4 Consensus size: 28
1189867 ATCATTTACT
1189877 TTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTAAATAATT--A-CTTTTAAC
*
1189908 TTAATATAA-T-CAT--TTAC-TTTAA-
1 TTAATATAATTAAATAATTACTTTTAAC
* * * *
1189930 TATAAT-TAAATAATTAAAT-CATTTAAC
1 T-TAATATAATTAAATAATTACTTTTAAC
1189957 TTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTAAATAATT--A-CTTTTAAC
*
1189988 TTAATATAA-T-CAT--TTAC-TTTAA-
1 TTAATATAATTAAATAATTACTTTTAAC
* * *
1190010 TATAAT-TAAATAATTAAAT-CTTTTAAC
1 T-TAATATAATTAAATAATTACTTTTAAC
1190037 TTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTAAATAATT--A-CTTTTAAC
1190068 TTAATATAAT
1 TTAATATAAT
1190078 CATTTACTTT
Statistics
Matches: 131, Mismatches: 15, Indels: 48
0.68 0.08 0.25
Matches are distributed among these distances:
22 8 0.06
23 20 0.15
24 4 0.03
25 4 0.03
26 20 0.15
27 26 0.20
29 4 0.03
30 2 0.02
31 43 0.33
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (28 bp):
TTAATATAATTAAATAATTACTTTTAAC
Found at i:1189944 original size:8 final size:8
Alignment explanation
Indices: 1189926--1189979 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
1189916 ATCATTTACT
1189926 TTAATATAA
1 TTAA-ATAA
1189935 TTAAATAA
1 TTAAATAA
*
1189943 TTAAATCA
1 TTAAATAA
1189951 TT---TAA
1 TTAAATAA
1189956 CTTAATATAA
1 -TTAA-ATAA
1189966 TTAAATAA
1 TTAAATAA
1189974 TTAAAT
1 TTAAAT
1189980 CTTTTAACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
5 2 0.05
6 2 0.05
8 23 0.61
9 8 0.21
10 3 0.08
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (8 bp):
TTAAATAA
Found at i:1189950 original size:80 final size:80
Alignment explanation
Indices: 1189544--1190182 Score: 220
Period size: 80 Copynumber: 8.3 Consensus size: 80
1189534 TAATATAATT
* *
1189544 ATTTACTTTAGTATAATTAAATGATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAA
1 ATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAA
1189609 TTAAATAATTAAATC
66 TTAAATAATTAAATC
* * * * * * * *
1189624 TTTTAAC-TTAA-ATATTTAACTAATCGATAGTGTTTATAA-TTAA-ATACATAATTAAACATGA
1 ATTT-ACTTTAATATAATTAAATAAT-TA-AATCTTT-TAACTTAATATA-ATCATT-TAC-T--
*
1189685 TTAA-ATAATTTAAT-A-T-AATC
57 TTAATATAATTAAATAATTAAATC
* * * * *
1189705 ATTTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATATAATTATTTAATTTAATATAA
1 ATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAA
1189770 TT--AT--TT--A-C
66 TTAAATAATTAAATC
* * * *
1189778 -TTTAATATAAT-TAAAT-AAT--TAA-ATCTTTTAACTTAATATAATCATTTACTTTAATATAA
1 ATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAA
1189837 TTAAATAATTAAATC
66 TTAAATAATTAAATC
* * ** * * * * * *
1189852 TTTTAAC-TTAATATAATCATTTACTTTAATATAATTAA-ATAAT-TAAATCTTTTAAC-TTAAT
1 ATTT-ACTTTAATATAATTAAATAATTAAATCT-TTTAACTTAATAT-AATCATTT-ACTTTAAT
* ** * *
1189913 ATAATCATTTACTTTAAT-
62 ATAATTAAATAATTAAATC
* * * * **
1189931 A--TA-ATTAA-ATAATTAAATCATTTAA-CTTAATATAA-TTAA-ATAATTAAAT-CTTTTAAC
1 ATTTACTTTAATATAATTAAATAATTAAATCTT--T-TAACTTAATATAATCATTTAC-TTTAA-
* *
1189988 T-TAA-TATAATCATT-TA-C
61 TATAATTA-AATAATTAAATC
* * * * * ** * * * *
1190005 -TTTAATATAAT-TAAAT-AAT--TAA-ATCTTTTAACTTAATATAATTAAATAATTAAATCT-T
1 ATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAA
*
1190063 TTAACTTAA-TATAATC
66 TTAA-ATAATTA-AATC
1190079 ATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAA
1 ATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAA
*
1190144 TTAGATAATTAAATC
66 TTAAATAATTAAATC
* * * *
1190159 TTTTACCTTAA-ATATTTAATTAAT
1 ATTTACTTTAATATAATTAAATAAT
1190183 CGATAGTGTT
Statistics
Matches: 402, Mismatches: 93, Indels: 129
0.64 0.15 0.21
Matches are distributed among these distances:
67 36 0.09
68 2 0.00
69 2 0.00
70 6 0.01
71 14 0.03
72 29 0.07
73 8 0.02
74 6 0.01
75 51 0.13
76 32 0.08
77 11 0.03
78 1 0.00
79 29 0.07
80 101 0.25
81 42 0.10
82 17 0.04
83 2 0.00
84 9 0.02
85 4 0.01
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (80 bp):
ATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAA
TTAAATAATTAAATC
Found at i:1189969 original size:129 final size:129
Alignment explanation
Indices: 1189779--1190169 Score: 608
Period size: 129 Copynumber: 3.0 Consensus size: 129
1189769 ATTATTTACT
* * * *
1189779 TTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATA
1 TTAATATAATCAAATAATTAAATATATTAACATAATATAATCATTTACTTTAATATAATTAAATA
1189844 ATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
66 ATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
** * *
1189908 TTAATATAATCATTTACTTTAATATAATTAA-ATAAT-TAAATCATTTAAC-TTAATATAATTAA
1 TTAATATAATCAAATAATTAAATAT-ATTAACATAATAT-AATCATTT-ACTTTAATATAATTAA
1189970 ATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTA
63 ATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTA
1190035 AC
128 AC
* * * *
1190037 TTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATA
1 TTAATATAATCAAATAATTAAATATATTAACATAATATAATCATTTACTTTAATATAATTAAATA
* *
1190102 ATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAGATAATTAAATCTTTTACC
66 ATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1190166 TTAA
1 TTAA
1190170 ATATTTAATT
Statistics
Matches: 238, Mismatches: 18, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
128 7 0.03
129 224 0.94
130 7 0.03
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (129 bp):
TTAATATAATCAAATAATTAAATATATTAACATAATATAATCATTTACTTTAATATAATTAAATA
ATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
Found at i:1190240 original size:18 final size:18
Alignment explanation
Indices: 1190219--1190270 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
1190209 ATTAAACATG
1190219 ATTAAATAATTTAATATA
1 ATTAAATAATTTAATATA
** *
1190237 ATTATTTAGTTTAATATA
1 ATTAAATAATTTAATATA
1190255 ATTAAATAATTATAAT
1 ATTAAATAATT-TAAT
1190271 CAAGCTGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATTAAATAATTTAATATA
Found at i:1194848 original size:42 final size:41
Alignment explanation
Indices: 1194769--1195282 Score: 335
Period size: 42 Copynumber: 12.4 Consensus size: 41
1194759 GCTAATTCAC
* **
1194769 ACCTTTAGCGACGCTTATTTATAAAAGCGCCGCTAATAACCTG
1 ACCTTTAGCGGCGCTT-TAGAT-AAAGCGCCGCTAATAACCTG
* *
1194812 ACCTTTAGCAGCGCTTTATATATAAGCGCCGCTAATAACCTG
1 ACCTTTAGCGGCGCTTTAGATA-AAGCGCCGCTAATAACCTG
* * * *
1194854 ACCTTTAGCAGCGCTTTATATATAAGCGCCGCTAATGACCCG
1 ACCTTTAGCGGCGCTTTAGATA-AAGCGCCGCTAATAACCTG
* * * * *
1194896 AACTTTAGCGGCACTTGAGGA-AAAGCGCCGCTAATGACCCG
1 ACCTTTAGCGGCGCTTTA-GATAAAGCGCCGCTAATAACCTG
* *
1194937 ACCTTTTAGCGGCGCTTGA-ATGAAAGCGCCGCTAAATGACCCT-
1 ACC-TTTAGCGGCGCTTTAGAT-AAAGCGCCGCT-AAT-AACCTG
* ** ** * *
1194980 ACCTTTAGCGGCGCTTGAGGGAAAGCGTTGCTAATGACCCG
1 ACCTTTAGCGGCGCTTTAGATAAAGCGCCGCTAATAACCTG
* * * ** * *
1195021 ACCCTTTCGTGGCGCTTCAGGGAAAGCGCCGCTAATGATCAT-
1 A-CCTTTAGCGGCGCTTTAGATAAAGCGCCGCTAAT-AACCTG
* * * *
1195063 ACCTTTAGCGGCGCTTGAGTTAAAGCGCCGCTAATTACTTG
1 ACCTTTAGCGGCGCTTTAGATAAAGCGCCGCTAATAACCTG
* * *** * *
1195104 GCCTTTAGCTGCGCTTTCCCTTAAGCGCCGCTAATTACCCT-
1 ACCTTTAGCGGCGCTTTAGATAAAGCGCCGCTAA-TAACCTG
** * *
1195145 ACCTTTAGCGGCG-TATTAGAGGAAGCGCCGCTAATGACTTG
1 ACCTTTAGCGGCGCT-TTAGATAAAGCGCCGCTAATAACCTG
* * **
1195186 AACTTTAGCGGCGCTTGT-GATAAAGCGCCGCTAATGACCCC
1 ACCTTTAGCGGCGCTT-TAGATAAAGCGCCGCTAATAACCTG
* * * * * *
1195227 ACCTTTAGCGGCGCTTTTG-TTAACCGCCGCTAAT-GCTTT
1 ACCTTTAGCGGCGCTTTAGATAAAGCGCCGCTAATAACCTG
*
1195266 ACCTTTTGCGGCGCTTT
1 ACCTTTAGCGGCGCTTT
1195283 GTTTCCAAAC
Statistics
Matches: 380, Mismatches: 73, Indels: 40
0.77 0.15 0.08
Matches are distributed among these distances:
39 17 0.04
40 23 0.06
41 154 0.41
42 162 0.43
43 22 0.06
44 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (41 bp):
ACCTTTAGCGGCGCTTTAGATAAAGCGCCGCTAATAACCTG
Found at i:1194902 original size:84 final size:82
Alignment explanation
Indices: 1194769--1195282 Score: 421
Period size: 84 Copynumber: 6.2 Consensus size: 82
1194759 GCTAATTCAC
* ** * * * *
1194769 ACCTTTAGCGACGCTTATTTATAAAAGCGCCGCTAAT-AACCTGACCTTTAGCAGCGCTTTATAT
1 ACCTTTAGCGGCGCTT-TAGAT-AAAGCGCCGCTAATGACCCT-ACCTTTAGCGGCGCTTGAGAT
*
1194833 ATAAGCGCCGCTAATAACCTG
63 A-AAGCGCCGCTAATGACCTG
* * * * *
1194854 ACCTTTAGCAGCGCTTTATATATAAGCGCCGCTAATGACCCGAACTTTAGCGGCACTTGAGGA-A
1 ACCTTTAGCGGCGCTTTAGATA-AAGCGCCGCTAATGACCCTACCTTTAGCGGCGCTTGA-GATA
*
1194918 AAGCGCCGCTAATGACCCG
64 AAGCGCCGCTAATGACCTG
* **
1194937 ACCTTTTAGCGGCGCTTGA-ATGAAAGCGCCGCTAAATGACCCTACCTTTAGCGGCGCTTGAGGG
1 ACC-TTTAGCGGCGCTTTAGAT-AAAGCGCCGCT-AATGACCCTACCTTTAGCGGCGCTTGAGAT
** *
1195001 AAAGCGTTGCTAATGACCCG
63 AAAGCGCCGCTAATGACCTG
* * * ** * * *
1195021 ACCCTTTCGTGGCGCTTCAGGGAAAGCGCCGCTAATGATCATACCTTTAGCGGCGCTTGAGTTAA
1 A-CCTTTAGCGGCGCTTTAGATAAAGCGCCGCTAATGACCCTACCTTTAGCGGCGCTTGAGATAA
* *
1195086 AGCGCCGCTAATTACTTG
65 AGCGCCGCTAATGACCTG
* * *** * * * **
1195104 GCCTTTAGCTGCGCTTTCCCTTAAGCGCCGCTAATTACCCTACCTTTAGCGGCG-TATTAGAGGA
1 ACCTTTAGCGGCGCTTTAGATAAAGCGCCGCTAATGACCCTACCTTTAGCGGCGCT-TGAGATAA
*
1195168 AGCGCCGCTAATGACTTG
65 AGCGCCGCTAATGACCTG
* * ** *
1195186 AACTTTAGCGGCGCTTGT-GATAAAGCGCCGCTAATGACCCCACCTTTAGCGGCGCTTTTG-TTA
1 ACCTTTAGCGGCGCTT-TAGATAAAGCGCCGCTAATGACCCTACCTTTAGCGGCGCTTGAGATAA
* * *
1195249 ACCGCCGCTAATG-CTTT
65 AGCGCCGCTAATGACCTG
*
1195266 ACCTTTTGCGGCGCTTT
1 ACCTTTAGCGGCGCTTT
1195283 GTTTCCAAAC
Statistics
Matches: 350, Mismatches: 67, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
79 1 0.00
80 17 0.05
81 14 0.04
82 109 0.31
83 77 0.22
84 112 0.32
85 20 0.06
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (82 bp):
ACCTTTAGCGGCGCTTTAGATAAAGCGCCGCTAATGACCCTACCTTTAGCGGCGCTTGAGATAAA
GCGCCGCTAATGACCTG
Found at i:1194931 original size:41 final size:40
Alignment explanation
Indices: 1194792--1195242 Score: 355
Period size: 41 Copynumber: 10.9 Consensus size: 40
1194782 CTTATTTATA
* * * * **
1194792 AAAGCGCCGCTAATAACCTGACCTTTAGCAGCGCTTTATAT
1 AAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGA-GG
* * * * **
1194833 ATAAGCGCCGCTAATAACCTGACCTTTAGCAGCGCTTTATAT
1 A-AAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGA-GG
* *
1194875 ATAAGCGCCGCTAATGACCCGAACTTTAGCGGCACTTGAGG
1 A-AAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGAGG
*
1194916 AAAAGCGCCGCTAATGACCCGACCTTTTAGCGGCGCTTGAATG
1 -AAAGCGCCGCTAATGACCCGACC-TTTAGCGGCGCTTG-AGG
*
1194959 AAAGCGCCGCTAAATGACCCTACCTTTAGCGGCGCTTGAGGG
1 AAAGCGCCGCT-AATGACCCGACCTTTAGCGGCGCTTGA-GG
** * * *
1195001 AAAGCGTTGCTAATGACCCGACCCTTTCGTGGCGCTTCAGGG
1 AAAGCGCCGCTAATGACCCGA-CCTTTAGCGGCGCTTGA-GG
* ** *
1195043 AAAGCGCCGCTAATGATCATACCTTTAGCGGCGCTTGAGTT
1 AAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGAG-G
* ** * * ****
1195084 AAAGCGCCGCTAATTACTTGGCCTTTAGCTGCGCTTTCCCT
1 AAAGCGCCGCTAATGACCCGACCTTTAGCGGCGC-TTGAGG
* * * *
1195125 TAAGCGCCGCTAATTACCCTACCTTTAGCGGCGTATTAGAGG
1 AAAGCGCCGCTAATGACCCGACCTTTAGCGGCG-CTT-GAGG
** * * *
1195167 -AAGCGCCGCTAATGACTTGAACTTTAGCGGCGCTTGTGAT
1 AAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGAG-G
*
1195207 AAAGCGCCGCTAATGACCCCACCTTTAGCGGCGCTT
1 AAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTT
1195243 TTGTTAACCG
Statistics
Matches: 336, Mismatches: 61, Indels: 26
0.79 0.14 0.06
Matches are distributed among these distances:
39 2 0.01
40 3 0.01
41 161 0.48
42 157 0.47
43 13 0.04
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
AAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGAGG
Found at i:1195551 original size:20 final size:19
Alignment explanation
Indices: 1195499--1195564 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
1195489 ATATATATAA
*
1195499 TTCTTTTAACTTTCT-TTGTT
1 TTCTTTT-ACTTT-TATTTTT
1195519 TTCTTTTACTTTTATTTTT
1 TTCTTTTACTTTTATTTTT
* *
1195538 TTCTCTTTATTTTTGTTTTT
1 TTCT-TTTACTTTTATTTTT
*
1195558 TTGTTTT
1 TTCTTTT
1195565 TGTATCCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
18 1 0.03
19 16 0.40
20 23 0.57
ACGTcount: A:0.08, C:0.11, G:0.05, T:0.77
Consensus pattern (19 bp):
TTCTTTTACTTTTATTTTT
Found at i:1196082 original size:6 final size:6
Alignment explanation
Indices: 1196071--1196138 Score: 54
Period size: 6 Copynumber: 12.0 Consensus size: 6
1196061 TGAGATTTAC
** * *
1196071 TTTAAA TTTAAA TTT-GT TTTAAG TTTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
1196117 -TT-AA CTTGAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
1196139 ATAAATAAGT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
4 2 0.04
5 11 0.22
6 36 0.73
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:1196091 original size:17 final size:17
Alignment explanation
Indices: 1196065--1196136 Score: 83
Period size: 17 Copynumber: 4.3 Consensus size: 17
1196055 CATTTTTGAG
*
1196065 ATTTACTTTAAATTTAA
1 ATTTATTTTAAATTTAA
* *
1196082 ATTTGTTTTAAGTTTAA
1 ATTTATTTTAAATTTAA
1196099 ATTTATTTTAAATTTAA
1 ATTTATTTTAAATTTAA
** *
1196116 A-TTAACTTGAATTTAA
1 ATTTATTTTAAATTTAA
1196132 ATTTA
1 ATTTA
1196137 AAATAAATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
16 13 0.28
17 33 0.72
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (17 bp):
ATTTATTTTAAATTTAA
Found at i:1200891 original size:35 final size:35
Alignment explanation
Indices: 1200841--1200939 Score: 146
Period size: 35 Copynumber: 2.8 Consensus size: 35
1200831 ATGGAAATTC
* *
1200841 CATATGAATGGAATGACTGTACA-GTCGGTGTGCAT
1 CATATGAATGGAATGATTGTA-AGGTCAGTGTGCAT
*
1200876 CATGTGAATGGAATGATTGTAAGGTCAGTGTGCAT
1 CATATGAATGGAATGATTGTAAGGTCAGTGTGCAT
*
1200911 CATATGAATGGAATGATTGTAGGGTCAGT
1 CATATGAATGGAATGATTGTAAGGTCAGT
1200940 TTTATTTAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
34 1 0.02
35 57 0.98
ACGTcount: A:0.29, C:0.10, G:0.30, T:0.30
Consensus pattern (35 bp):
CATATGAATGGAATGATTGTAAGGTCAGTGTGCAT
Found at i:1202430 original size:2 final size:2
Alignment explanation
Indices: 1202423--1202464 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1202413 AGAAACATAA
1202423 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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
1202465 TTACCAATTT
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):
AT
Found at i:1212366 original size:3 final size:3
Alignment explanation
Indices: 1212360--1212388 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1212350 GTTTATTTCT
1212360 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1212389 TTCGCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1214410 original size:17 final size:17
Alignment explanation
Indices: 1214354--1214413 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
1214344 AACTTTTAAT
* *
1214354 TTTTAAATTTGAATTTA
1 TTTTGAATTTAAATTTA
*
1214371 TTTT-AGATTTAAATTCA
1 TTTTGA-ATTTAAATTTA
*
1214388 TGTTGAATTTAAATTTA
1 TTTTGAATTTAAATTTA
1214405 TTTTGAATT
1 TTTTGAATT
1214414 AAAAAGTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 1 0.03
17 34 0.94
18 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (17 bp):
TTTTGAATTTAAATTTA
Found at i:1216015 original size:30 final size:29
Alignment explanation
Indices: 1215981--1216313 Score: 311
Period size: 30 Copynumber: 11.2 Consensus size: 29
1215971 AAACTATCTA
* *
1215981 AAAATCATATTTTGACCTCTAAACTTTTCC
1 AAAATTATATTTTAACC-CTAAACTTTTCC
* *
1216011 AAAATTATATTTCGACCCCTAAACTTTTCC
1 AAAATTATATTT-TAACCCTAAACTTTTCC
*
1216041 ATAATTATATTTTAACCCTAAAACTTTTCC
1 AAAATTATATTTTAACCCT-AAACTTTTCC
* *
1216071 AAAATTACATTTTAACCTTTAAACTTTTCC
1 AAAATTATATTTTAACC-CTAAACTTTTCC
1216101 AAAATTATATTTTAACCCCTAAACTTTTCC
1 AAAATTATATTTTAA-CCCTAAACTTTTCC
* *
1216131 AAAATTACATTTTAACCCTTAAACTTTTAC
1 AAAATTATATTTTAACCC-TAAACTTTTCC
*
1216161 AAAATTATATTTTAACCCCTAAACTTCTCC
1 AAAATTATATTTTAA-CCCTAAACTTTTCC
* * *
1216191 AGAATTATATTTTGACCCTTAAAC-TTTCT
1 AAAATTATATTTTAACCC-TAAACTTTTCC
* *
1216220 AAAATTTACATTTT-ACCC-ACGAA-GTTTCC
1 AAAA-TTATATTTTAACCCTA--AACTTTTCC
* *
1216249 TAAATTCCAT-TTTTAACCCT-AATTTTTCC
1 AAAATT--ATATTTTAACCCTAAACTTTTCC
* *
1216278 AAAAATTACATTTTAACCTCTAAAC-TTTCT
1 -AAAATTATATTTTAACC-CTAAACTTTTCC
1216308 AAAATT
1 AAAATT
1216314 CCATTTTTAA
Statistics
Matches: 252, Mismatches: 31, Indels: 41
0.78 0.10 0.13
Matches are distributed among these distances:
27 1 0.00
28 5 0.02
29 53 0.21
30 183 0.73
31 10 0.04
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.41
Consensus pattern (29 bp):
AAAATTATATTTTAACCCTAAACTTTTCC
Found at i:1216065 original size:60 final size:60
Alignment explanation
Indices: 1215981--1216325 Score: 355
Period size: 60 Copynumber: 5.8 Consensus size: 60
1215971 AAACTATCTA
* * * * ** *
1215981 AAAATCATATTTTGACCTCTAAACTTTTCCAAAATTATATTTCGACCCCTAAACTTTTCC
1 AAAATTATATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCC
* *
1216041 ATAATTATATTTTAA-CCCTAAAACTTTTCCAAAATTACATTTTAACCTTTAAACTTTTCC
1 AAAATTATATTTTAACCCCT-AAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCC
*
1216101 AAAATTATATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTAC
1 AAAATTATATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCC
* * * * *
1216161 AAAATTATATTTTAACCCCTAAACTTCTCCAGAATTATATTTTGACCCTTAAAC-TTTCT
1 AAAATTATATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCC
* * * * * *
1216220 AAAATTTACATTTT-ACCCAC-GAA-GTTTCCTAAATTCCATTTTTAACCC-T-AATTTTTCC
1 AAAA-TTATATTTTAACCC-CTAAACTTTTCCAAAATTACA-TTTTAACCCTTAAACTTTTCC
* * * *
1216278 AAAAATTACATTTTAACCTCTAAAC-TTTCTAAAATTCCATTTTTAACC
1 -AAAATTATATTTTAACCCCTAAACTTTTCCAAAATTACA-TTTTAACC
1216326 TCGATTTTTC
Statistics
Matches: 242, Mismatches: 33, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
57 2 0.01
58 24 0.10
59 54 0.22
60 158 0.65
61 4 0.02
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.41
Consensus pattern (60 bp):
AAAATTATATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCC
Found at i:1216124 original size:90 final size:90
Alignment explanation
Indices: 1215989--1216325 Score: 355
Period size: 90 Copynumber: 3.8 Consensus size: 90
1215979 TAAAAATCAT
* * * *
1215989 ATTTTGACCTCTAAACTTTTCCAAAATTATATTTCGACCCCTAAACTTTTCCATAATTATATTTT
1 ATTTTAACCTCTAAACTTTTCCAAAATTATATTTTGACCCCTAAACTTTTCCAAAATTACATTTT
*
1216054 AACCCTAAAACTTTTCCAAAATTAC
66 AACCCTAAAACTTTTACAAAATTAC
* *
1216079 ATTTTAACCTTTAAACTTTTCCAAAATTATATTTTAACCCCTAAACTTTTCCAAAATTACATTTT
1 ATTTTAACCTCTAAACTTTTCCAAAATTATATTTTGACCCCTAAACTTTTCCAAAATTACATTTT
* *
1216144 AACCCTTAAACTTTTACAAAATTAT
66 AACCCTAAAACTTTTACAAAATTAC
* * * * *
1216169 ATTTTAACCCCTAAACTTCTCCAGAATTATATTTTGACCCTTAAAC-TTTCTAAAATTTACATTT
1 ATTTTAACCTCTAAACTTTTCCAAAATTATATTTTGACCCCTAAACTTTTCCAAAA-TTACATTT
* * * * *
1216233 T-ACCC-ACGAA-GTTTCCTAAATTCC
65 TAACCCTA-AAACTTTTACAAAATTAC
* * * * * *
1216257 ATTTTTAACC-CT-AATTTTTCCAAAAATTACATTTTAACCTCTAAAC-TTTCTAAAATTCCATT
1 A-TTTTAACCTCTAAACTTTTCC-AAAATTATATTTTGACCCCTAAACTTTTCCAAAATTACA-T
1216319 TTTAACC
63 TTTAACC
1216326 TCGATTTTTC
Statistics
Matches: 210, Mismatches: 31, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
87 11 0.05
88 44 0.21
89 25 0.12
90 130 0.62
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.41
Consensus pattern (90 bp):
ATTTTAACCTCTAAACTTTTCCAAAATTATATTTTGACCCCTAAACTTTTCCAAAATTACATTTT
AACCCTAAAACTTTTACAAAATTAC
Found at i:1216237 original size:29 final size:29
Alignment explanation
Indices: 1216000--1216414 Score: 295
Period size: 30 Copynumber: 14.0 Consensus size: 29
1215990 TTTTGACCTC
* ** *
1216000 TAAACTTTTCCAAAATTATATTTCGACCCC
1 TAAAC-TTTCCAAAATTACATTTTAACCCT
* *
1216030 TAAACTTTTCCATAATTATATTTTAACCCT
1 TAAAC-TTTCCAAAATTACATTTTAACCCT
* *
1216060 AAAACTTTTCCAAAATTACATTTTAACCTT
1 TAAAC-TTTCCAAAATTACATTTTAACCCT
* *
1216090 TAAACTTTTCCAAAATTATATTTTAACCCC
1 TAAAC-TTTCCAAAATTACATTTTAACCCT
1216120 TAAACTTTTCCAAAATTACATTTTAACCCT
1 TAAAC-TTTCCAAAATTACATTTTAACCCT
* * *
1216150 TAAACTTTTACAAAATTATATTTTAACCCC
1 TAAAC-TTTCCAAAATTACATTTTAACCCT
* * *
1216180 TAAACTTCTCCAGAATTATATTTTGACCCT
1 TAAACTT-TCCAAAATTACATTTTAACCCT
* *
1216210 TAAACTTTCTAAAATTTACATTTT-ACCCA
1 TAAACTTTCCAAAA-TTACATTTTAACCCT
** * * *
1216239 CGAAGTTTCCTAAATTCCATTTTTAACCC-
1 TAAACTTTCCAAAATTACA-TTTTAACCCT
**
1216268 TAATTTTTCCAAAAATTACATTTTAA-CCT
1 TAAACTTTCC-AAAATTACATTTTAACCCT
* *
1216297 CTAAACTTTCTAAAATTCCATTTTTAA-CCT
1 -TAAACTTTCCAAAATTACA-TTTTAACCCT
** ** * *
1216327 CGATTTTTCTAAAAATTACATTTTTA-CCT
1 TAAACTTTC-CAAAATTACATTTTAACCCT
* * * *
1216356 TAAAATTTCTAAAATTTCATTTTTGACCCT
1 TAAACTTTCCAAAATTACA-TTTTAACCCT
*
1216386 AAAAC-TTCCAAAAGTTACCATTTT-ACCCT
1 TAAACTTTCCAAAA-TTA-CATTTTAACCCT
1216415 CGAATATCCA
Statistics
Matches: 313, Mismatches: 59, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
28 14 0.04
29 79 0.25
30 218 0.70
31 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.41
Consensus pattern (29 bp):
TAAACTTTCCAAAATTACATTTTAACCCT
Found at i:1216408 original size:59 final size:57
Alignment explanation
Indices: 1216250--1216409 Score: 158
Period size: 59 Copynumber: 2.7 Consensus size: 57
1216240 GAAGTTTCCT
*** * *
1216250 AAATTCCATTTTTAACCCTAATTTTTCCAAAAATTACATTTTAACCTCTAAACTTTCTA
1 AAATTCCATTTTT-ACCCTAAAACTTCCAAAAATTACATTTTTACCT-TAAAATTTCTA
* * *** *
1216309 AAATTCCATTTTTAACCTCGATTTTTCTAAAAATTACATTTTTACCTTAAAATTTCTA
1 AAATTCCATTTTTACCCT-AAAACTTCCAAAAATTACATTTTTACCTTAAAATTTCTA
* *
1216367 AAATTTCATTTTTGACCCTAAAACTTCCAAAAGTTACCATTTT
1 AAATTCCATTTTT-ACCCTAAAACTTCCAAAAATTA-CATTTT
1216410 ACCCTCGAAT
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
58 37 0.44
59 48 0.56
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (57 bp):
AAATTCCATTTTTACCCTAAAACTTCCAAAAATTACATTTTTACCTTAAAATTTCTA
Found at i:1216432 original size:59 final size:58
Alignment explanation
Indices: 1216366--1216502 Score: 175
Period size: 59 Copynumber: 2.3 Consensus size: 58
1216356 TAAAATTTCT
* * *
1216366 AAAATTTCATTTTTGACCCTAAAACTTCCAAAAGTTACCATTTTACCCTCGAATATCC
1 AAAATTTCATTTTTGACCCCAAAACTTCCAAAAATCACCATTTTACCCTCGAATATCC
* * * ** *
1216424 AAAAATTTCATTTTTCACCCCGAAACTTTCAAAAATCACCATTTTATTCTCGAATATGC
1 -AAAATTTCATTTTTGACCCCAAAACTTCCAAAAATCACCATTTTACCCTCGAATATCC
*
1216483 AAAATTCCATTTTTGACCCC
1 AAAATTTCATTTTTGACCCC
1216503 GACTTTCCCA
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
58 18 0.27
59 49 0.73
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (58 bp):
AAAATTTCATTTTTGACCCCAAAACTTCCAAAAATCACCATTTTACCCTCGAATATCC
Found at i:1216438 original size:29 final size:28
Alignment explanation
Indices: 1216308--1216501 Score: 81
Period size: 30 Copynumber: 6.6 Consensus size: 28
1216298 TAAACTTTCT
* * *
1216308 AAAATTCCATTTTTAACCTCGATTTTTCTA
1 AAAATTCCATTTTTACCCTCGA--ATTCCA
* * ** * *
1216338 AAAATTACATTTTTACCTTAAAATTTCT
1 AAAATTCCATTTTTACCCTCGAATTCCA
* **
1216366 AAAATTTCATTTTTGACCCTAAAACTTCCA
1 AAAATTCCATTTTT-ACCCTCGAA-TTCCA
*
1216396 AAAGTTACCA-TTTTACCCTCGAATATCCA
1 AAAATT-CCATTTTTACCCTCGAAT-TCCA
* *
1216425 AAAATTTCATTTTTCACCC-CGAAACTTTCA
1 AAAATTCCATTTTT-ACCCTCG-AA-TTCCA
* ** *
1216455 AAAATCACCA-TTTTATTCTCGAATATGC-
1 AAAAT-TCCATTTTTACCCTCGAAT-TCCA
1216483 AAAATTCCATTTTTGACCC
1 AAAATTCCATTTTT-ACCC
1216502 CGACTTTCCC
Statistics
Matches: 123, Mismatches: 28, Indels: 27
0.69 0.16 0.15
Matches are distributed among these distances:
27 3 0.02
28 28 0.23
29 38 0.31
30 49 0.40
31 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.39
Consensus pattern (28 bp):
AAAATTCCATTTTTACCCTCGAATTCCA
Found at i:1216459 original size:30 final size:29
Alignment explanation
Indices: 1216001--1216468 Score: 158
Period size: 30 Copynumber: 15.8 Consensus size: 29
1215991 TTTGACCTCT
* * ** *
1216001 AAACTTTTCCAAAATTATATTTCGACCCCT
1 AAAC-TTTCAAAAATTACATTTTTACCCCG
* * * * **
1216031 AAACTTTTCCATAATTATATTTTAACCCTA
1 AAAC-TTTCAAAAATTACATTTTTACCCCG
* * ***
1216061 AAACTTTTCCAAAATTACATTTTAACCTTT
1 AAAC-TTTCAAAAATTACATTTTTACCCCG
* * * *
1216091 AAACTTTTCCAAAATTATATTTTAACCCCT
1 AAAC-TTTCAAAAATTACATTTTTACCCCG
* * **
1216121 AAACTTTTCCAAAATTACATTTTAACCCTT
1 AAAC-TTTCAAAAATTACATTTTTACCCCG
* * * *
1216151 AAACTTTTACAAAATTATATTTTAACCCCT
1 AAACTTTCA-AAAATTACATTTTTACCCCG
* * * * **
1216181 AAACTTCTCCAGAATTATATTTTGACCCTT
1 AAACTT-TCAAAAATTACATTTTTACCCCG
*
1216211 AAACTTTCTAAAATTTACA-TTTTACCCACG
1 AAACTTTC-AAAAATTACATTTTTACCC-CG
* ** * * *
1216241 -AAGTTTCCTAAATTCCATTTTTAACCCT
1 AAACTTTCAAAAATTACATTTTTACCCCG
** * * *
1216269 AATTTTTCCAAAAATTACATTTTAACCTCT
1 AAACTTT-CAAAAATTACATTTTTACCCCG
* * *
1216299 AAACTTTCTAAAATTCCATTTTTAACCTCG
1 AAACTTTCAAAAATTACATTTTT-ACCCCG
** **
1216329 -ATTTTTCTAAAAATTACATTTTTA-CCTT
1 AAACTTTC-AAAAATTACATTTTTACCCCG
* * * **
1216357 AAAATTTCTAAAATTTCATTTTTGACCCTA
1 AAACTTTCAAAAATTACATTTTT-ACCCCG
* *
1216387 AAACTTCCAAAAGTTACCA-TTTTACCCTCG
1 AAACTTTCAAAAATTA-CATTTTTACCC-CG
* *
1216417 -AA-TATCCAAAAATTTCATTTTTCACCCCG
1 AAACT-TTCAAAAATTACATTTTT-ACCCCG
*
1216446 AAACTTTCAAAAATCACCATTTT
1 AAACTTTCAAAAATTA-CATTTT
1216469 ATTCTCGAAT
Statistics
Matches: 343, Mismatches: 75, Indels: 39
0.75 0.16 0.09
Matches are distributed among these distances:
28 24 0.07
29 75 0.22
30 234 0.68
31 10 0.03
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.40
Consensus pattern (29 bp):
AAACTTTCAAAAATTACATTTTTACCCCG
Found at i:1216568 original size:28 final size:27
Alignment explanation
Indices: 1216510--1216570 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
1216500 CCCGACTTTC
* **
1216510 CCAAAATTACTATTTTGCCCCGAGTGA
1 CCAAAATTACCATTTTGCCCCGAGCCA
*
1216537 CCAAAATTACCATTTTGCCCCCGAGCCT
1 CCAAAATTACCATTTTG-CCCCGAGCCA
1216565 CCAAAA
1 CCAAAA
1216571 ATCACATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.31, C:0.33, G:0.11, T:0.25
Consensus pattern (27 bp):
CCAAAATTACCATTTTGCCCCGAGCCA
Found at i:1221639 original size:43 final size:42
Alignment explanation
Indices: 1221561--1221831 Score: 278
Period size: 43 Copynumber: 6.4 Consensus size: 42
1221551 AATCCGCTAT
* *
1221561 TCTTTAGCGGCGTTTGTGGGTAAAGCACCGCTAAAG-CACATGG
1 TCTTTAGCGGCGTTTGTGGG-AAAACGCCGCTAAAGAC-CATGG
*
1221604 TCTTTAGCGGCGTTTGTGTGGAAAACGCCGTTAAAGACCAT-G
1 TCTTTAGCGGCGTTTGTG-GGAAAACGCCGCTAAAGACCATGG
* * * * * *
1221646 TGCTTTAGCGGCGCTAGTTGTAAAAGCGCAGCTAAAGACCATGT
1 T-CTTTAGCGGCGTTTGTGGGAAAA-CGCCGCTAAAGACCATGG
* * * *
1221690 TCTTTAACGGCGTTTGTTGTAAAAGCGCCGCTAAAGACCATGT
1 TCTTTAGCGGCGTTTGTGGGAAAA-CGCCGCTAAAGACCATGG
* * *
1221733 TCTTTAGCGGCGTTTGTAGGG-TAGCGCCGCTAAAGAACATGG
1 TCTTTAGCGGCGTTTGT-GGGAAAACGCCGCTAAAGACCATGG
* * * *
1221775 TCTTTAACGGCGTTTGTGGGGAAGCGCCGCTAAAGACCATGT
1 TCTTTAGCGGCGTTTGTGGGAAAACGCCGCTAAAGACCATGG
1221817 TCTTTAGCGGCGTTT
1 TCTTTAGCGGCGTTT
1221832 TTCCTCATAA
Statistics
Matches: 195, Mismatches: 26, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
41 3 0.02
42 71 0.36
43 116 0.59
44 5 0.03
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (42 bp):
TCTTTAGCGGCGTTTGTGGGAAAACGCCGCTAAAGACCATGG
Found at i:1221719 original size:86 final size:84
Alignment explanation
Indices: 1221560--1221831 Score: 318
Period size: 86 Copynumber: 3.2 Consensus size: 84
1221550 GAATCCGCTA
* * * *
1221560 TTCTTTAGCGGCGTTTGTGGGTAAAGCACCGCTAAAG-CACATGGTCTTTAGCGGCGTTTGTGTG
1 TTCTTTAGCGGCGTTTGT-AG-AAAGCGCAGCTAAAGAC-CATGGTCTTTAACGGCGTTTGT-TG
*
1221624 GAAAA-CGCCGTTAAAGACCATG
62 GAAAAGCGCCGCTAAAGACCATG
* * *
1221646 TGCTTTAGCGGCGCTAGTTGTA-AAAGCGCAGCTAAAGACCATGTTCTTTAACGGCGTTTGTTGT
1 TTCTTTAGCGGCG-T--TTGTAGAAAGCGCAGCTAAAGACCATGGTCTTTAACGGCGTTTGTTGG
1221710 AAAAGCGCCGCTAAAGACCATG
63 AAAAGCGCCGCTAAAGACCATG
** * * **
1221732 TTCTTTAGCGGCGTTTGTAGGGTAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTG-TGGGG
1 TTCTTTAGCGGCGTTTGTA-GAAAGCGCAGCTAAAGACCATGGTCTTTAACGGCGTTTGTTGGAA
1221796 AAGCGCCGCTAAAGACCATG
65 AAGCGCCGCTAAAGACCATG
1221816 TTCTTTAGCGGCGTTT
1 TTCTTTAGCGGCGTTT
1221832 TTCCTCATAA
Statistics
Matches: 162, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
83 5 0.03
84 38 0.23
85 40 0.25
86 73 0.45
87 2 0.01
89 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (84 bp):
TTCTTTAGCGGCGTTTGTAGAAAGCGCAGCTAAAGACCATGGTCTTTAACGGCGTTTGTTGGAAA
AGCGCCGCTAAAGACCATG
Found at i:1222416 original size:27 final size:25
Alignment explanation
Indices: 1222385--1222448 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
1222375 AAATATAACT
*
1222385 AAAAAATTATTATATATTAATATTA
1 AAAAAAATATTATATATTAATATTA
* *
1222410 AATAAAAGTAAT-TATATTAATATTA
1 AA-AAAAATATTATATATTAATATTA
1222435 AAAATAAATATTAT
1 AAAA-AAATATTAT
1222449 TTTGTGTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
24 2 0.06
25 22 0.69
26 8 0.25
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
AAAAAAATATTATATATTAATATTA
Found at i:1224395 original size:20 final size:21
Alignment explanation
Indices: 1224372--1224412 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1224362 TTATTTTTAC
*
1224372 TATTTTGAAT-ATAAATTATT
1 TATTTTGAATCATAAAATATT
*
1224392 TATTTTTAATCATAAAATATT
1 TATTTTGAATCATAAAATATT
1224413 AAAGCGTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTTTGAATCATAAAATATT
Found at i:1229794 original size:19 final size:18
Alignment explanation
Indices: 1229752--1229795 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
1229742 TGATAAAGGA
1229752 TAATTAATAAACAAAGCT
1 TAATTAATAAACAAAGCT
1229770 TGAATTAATAAGACATAA-CT
1 T-AATTAATAA-ACA-AAGCT
1229790 TAATTA
1 TAATTA
1229796 GAATTTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 14 0.61
20 6 0.26
21 2 0.09
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (18 bp):
TAATTAATAAACAAAGCT
Found at i:1236375 original size:92 final size:93
Alignment explanation
Indices: 1236140--1236400 Score: 261
Period size: 91 Copynumber: 2.8 Consensus size: 93
1236130 TTAGTGGTGT
* * * *
1236140 AAAAAGT-TCTCAAATTTTTTTAAAAAAAAGTAATTAAG-TCCTTGTTTTTTTTTTTTTTTGTAC
1 AAAAAGTCTCTCAAACTTTTTTAAAAAAAAGCAATTAAGCTCCTTG----CTTTTTTTTTTGCAC
* * * *
1236203 TCACTTGGATACTTGAATTTTCACAATTCATC
62 TCAATTGGATACTTGAATTTTCAAAATGCATA
* * * *
1236235 AAAAAGGC-CTTC-AAGTTTTTTTAAAAAAAGCAATTAAGC-CCTTACTTTTTTTTTTGCACTCA
1 AAAAAGTCTC-TCAAACTTTTTTAAAAAAAAGCAATTAAGCTCCTTGCTTTTTTTTTTGCACTCA
* *
1236297 ATTGGATATTTGACCTTTT-AAAATGCATA
65 ATTGGATACTTGA-ATTTTCAAAATGCATA
* *
1236326 AAAAAGTCTCTCAAACTTTTTTCAAAAAAAGCAATTAAGCTCC-TGC--TTTTTTTTGCACTTAA
1 AAAAAGTCTCTCAAACTTTTTTAAAAAAAAGCAATTAAGCTCCTTGCTTTTTTTTTTGCACTCAA
1236388 TTGGATACTTGAA
66 TTGGATACTTGAA
1236401 CCACCTTTAA
Statistics
Matches: 139, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
90 26 0.19
91 43 0.31
92 32 0.23
93 2 0.01
95 34 0.24
96 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (93 bp):
AAAAAGTCTCTCAAACTTTTTTAAAAAAAAGCAATTAAGCTCCTTGCTTTTTTTTTTGCACTCAA
TTGGATACTTGAATTTTCAAAATGCATA
Found at i:1236485 original size:19 final size:19
Alignment explanation
Indices: 1236463--1236503 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1236453 CATATGGCAA
1236463 AAAAATAATAAAAATCAAT
1 AAAAATAATAAAAATCAAT
* * *
1236482 AAAAGTTATAAAAATCATT
1 AAAAATAATAAAAATCAAT
1236501 AAA
1 AAA
1236504 TTTTAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAATAATAAAAATCAAT
Found at i:1236518 original size:27 final size:28
Alignment explanation
Indices: 1236479--1236552 Score: 96
Period size: 27 Copynumber: 2.6 Consensus size: 28
1236469 AATAAAAATC
**
1236479 AATAAAAGTTATAAAAATCATTAAATTTT
1 AATAAAA-TTATAAAAAAAATTAAATTTT
1236508 AATAAAA-TATAAAAAAAATTAAATTTT
1 AATAAAATTATAAAAAAAATTAAATTTT
*
1236535 ATTAAAAATTATAAAAAA
1 AAT-AAAATTATAAAAAA
1236553 TGTAAAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
27 20 0.50
28 4 0.10
29 16 0.40
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (28 bp):
AATAAAATTATAAAAAAAATTAAATTTT
Found at i:1236560 original size:19 final size:19
Alignment explanation
Indices: 1236538--1236598 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
1236528 AAATTTTATT
1236538 AAAAATTATAAAAAATGTA
1 AAAAATTATAAAAAATGTA
1236557 AAAAATTATAAAAAAAT-TA
1 AAAAATTAT-AAAAAATGTA
**
1236576 AAATTTTAT-AAAAATAGTA
1 AAAAATTATAAAAAAT-GTA
1236595 AAAA
1 AAAA
1236599 CTATAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.17
19 23 0.64
20 7 0.19
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAAATTATAAAAAATGTA
Found at i:1236570 original size:11 final size:10
Alignment explanation
Indices: 1236533--1236589 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 10
1236523 AAATTAAATT
*
1236533 TTATTAAAAA
1 TTATAAAAAA
1236543 TTATAAAAAA
1 TTATAAAAAA
*
1236553 -TGTAAAAAA
1 TTATAAAAAA
1236562 TTATAAAAAA
1 TTATAAAAAA
* **
1236572 AT-TAAAATT
1 TTATAAAAAA
1236581 TTATAAAAA
1 TTATAAAAA
1236590 TAGTAAAAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 14 0.38
10 23 0.62
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:1236606 original size:47 final size:47
Alignment explanation
Indices: 1236511--1236612 Score: 129
Period size: 47 Copynumber: 2.2 Consensus size: 47
1236501 AAATTTTAAT
*
1236511 AAAATATAAAAAAAATTAAATTTTATTAAAAATTATAAAAAATGTAA
1 AAAATATAAAAAAAATTAAATTTTATTAAAAATTATAAAAAATATAA
*
1236558 AAAAT-TATAAAAAAATTAAAATTTTA-TAAAAA-TAGTAAAAACTATAA
1 AAAATATA-AAAAAAATT-AAATTTTATTAAAAATTA-TAAAAAATATAA
*
1236605 AATATATA
1 AAAATATA
1236613 GAAATATATA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
46 4 0.08
47 34 0.71
48 10 0.21
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (47 bp):
AAAATATAAAAAAAATTAAATTTTATTAAAAATTATAAAAAATATAA
Found at i:1236674 original size:19 final size:19
Alignment explanation
Indices: 1236652--1236697 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
1236642 TATAAATTCA
1236652 TAAAAAAATATAAAAATTG
1 TAAAAAAATATAAAAATTG
* * *
1236671 TAAAGAAATGTAAAATTTG
1 TAAAAAAATATAAAAATTG
1236690 TAAAAAAA
1 TAAAAAAA
1236698 AAAAATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (19 bp):
TAAAAAAATATAAAAATTG
Found at i:1237344 original size:84 final size:84
Alignment explanation
Indices: 1237189--1237376 Score: 204
Period size: 84 Copynumber: 2.2 Consensus size: 84
1237179 TTTTTATAAC
* * * **
1237189 TTTTTGATGCA-TTTGATAGTTTAAGTAACTAATTGAGTGAAAAAAATTTGGAGTTTAATTGTTT
1 TTTTTGATGCATTTTGAAAGGTCAAGTAACTAATTGAGTGAAAAAAA-TAAGAGTTTAATTGTTT
* * *
1237253 TTTAAAAATATTTG-AGAGCT
65 TTAAAAAAAAATTGAAGA-CT
*
1237273 TTTTTGATGCATTTTGAAAGGTCAAGTAATTAATTGAGTGCAAAAAAA-AAG-GTTTAATTGCTT
1 TTTTTGATGCATTTTGAAAGGTCAAGTAACTAATTGAGTG-AAAAAAATAAGAGTTTAATTG-TT
1237336 TTTAAAAAAAAATTGAAGACT
64 TTTAAAAAAAAATTGAAGACT
* * *
1237357 TTTTTAATACATTTTAAAAG
1 TTTTTGATGCATTTTGAAAG
1237377 TATAAGTATA
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
83 9 0.10
84 45 0.51
85 27 0.31
86 7 0.08
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (84 bp):
TTTTTGATGCATTTTGAAAGGTCAAGTAACTAATTGAGTGAAAAAAATAAGAGTTTAATTGTTTT
TAAAAAAAAATTGAAGACT
Done.