Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 9 of 345
Found at i:2944544 original size:16 final size:16
Alignment explanation
Indices: 2944499--2944549 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
2944489 TCCTAGATTA
* *
2944499 TTAT-TTTTATATATT
1 TTATATTTTATTTTTT
2944514 TTATATTTTATTTTTT
1 TTATATTTTATTTTTT
*
2944530 TTATAGTTTTATTTTAT
1 TTATA-TTTTATTTTTT
2944547 TTA
1 TTA
2944550 GTTATTTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 4 0.13
16 14 0.45
17 13 0.42
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (16 bp):
TTATATTTTATTTTTT
Found at i:2944690 original size:18 final size:18
Alignment explanation
Indices: 2944667--2944703 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2944657 GCCTTTATTG
*
2944667 TTATTAGTATTATTTTAT
1 TTATTAGTATTATTCTAT
*
2944685 TTATTATTATTATTCTAT
1 TTATTAGTATTATTCTAT
2944703 T
1 T
2944704 ATCATCAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
TTATTAGTATTATTCTAT
Found at i:2944807 original size:20 final size:20
Alignment explanation
Indices: 2944778--2944815 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2944768 ATTTTTATTT
*
2944778 TATTTATTTTGTTATTTTAC
1 TATTTATTTTATTATTTTAC
*
2944798 TATTTCTTTTATTATTTT
1 TATTTATTTTATTATTTT
2944816 TGGCCTTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TATTTATTTTATTATTTTAC
Found at i:2944809 original size:17 final size:17
Alignment explanation
Indices: 2944764--2944810 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
2944754 TTAGTGTCAT
*
2944764 TATTATTTTTATTTTATT
1 TATT-TTTTTATTTTATC
*
2944782 TATTTTGTTATTTTA-C
1 TATTTTTTTATTTTATC
2944798 TATTTCTTTTATT
1 TATTT-TTTTATT
2944811 ATTTTTGGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 5 0.20
17 16 0.64
18 4 0.16
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.74
Consensus pattern (17 bp):
TATTTTTTTATTTTATC
Found at i:2947780 original size:28 final size:29
Alignment explanation
Indices: 2947740--2947800 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 29
2947730 ATACGGACAT
2947740 TTTTTTTCTTTCTTACACAGCATTAACTA
1 TTTTTTTCTTTCTTACACAGCATTAACTA
* *
2947769 TTTTTTT-TTTCTTACATAGCTTTAACTA
1 TTTTTTTCTTTCTTACACAGCATTAACTA
2947797 TTTT
1 TTTT
2947801 CTTCCCCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 23 0.77
29 7 0.23
ACGTcount: A:0.21, C:0.16, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTTTTTCTTTCTTACACAGCATTAACTA
Found at i:2949877 original size:19 final size:19
Alignment explanation
Indices: 2949853--2949890 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2949843 GTAATGATTG
2949853 TTTGCACACAGATGAACAA
1 TTTGCACACAGATGAACAA
2949872 TTTGCACACAGATGAACAA
1 TTTGCACACAGATGAACAA
2949891 CCGATCAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (19 bp):
TTTGCACACAGATGAACAA
Found at i:2950326 original size:24 final size:25
Alignment explanation
Indices: 2950299--2950345 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
2950289 GTTCGGAACC
2950299 AATGGC-TTTGATAGATCCCAAGGT
1 AATGGCTTTTGATAGATCCCAAGGT
2950323 AATGGCTTTTGATAGATCCCAAG
1 AATGGCTTTTGATAGATCCCAAG
2950346 ATAGAGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (25 bp):
AATGGCTTTTGATAGATCCCAAGGT
Found at i:2954050 original size:25 final size:22
Alignment explanation
Indices: 2954022--2954072 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 22
2954012 AATCTTAAAA
2954022 CCCTAATTTTTCCTTTTCTTTCTTT
1 CCCT-ATTTTTCC--TTCTTTCTTT
2954047 CCCT-TTTTTCCTTCTTTCTTT
1 CCCTATTTTTCCTTCTTTCTTT
2954068 CCCTA
1 CCCTA
2954073 CTCATTCGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 14 0.56
23 7 0.28
25 4 0.16
ACGTcount: A:0.06, C:0.33, G:0.00, T:0.61
Consensus pattern (22 bp):
CCCTATTTTTCCTTCTTTCTTT
Found at i:2954153 original size:13 final size:14
Alignment explanation
Indices: 2954129--2954182 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 14
2954119 ATTCATTCTT
2954129 TATT-TAAGTAATA
1 TATTATAAGTAATA
2954142 TATTATAA-TAATAA
1 TATTATAAGTAAT-A
2954156 TATAATATAAGTAA-A
1 TAT--TATAAGTAATA
2954171 TATTATAAGTAA
1 TATTATAAGTAA
2954183 ATACTTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
13 17 0.47
14 7 0.19
15 4 0.11
16 5 0.14
17 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.41
Consensus pattern (14 bp):
TATTATAAGTAATA
Found at i:2956256 original size:905 final size:905
Alignment explanation
Indices: 2954671--2958019 Score: 3961
Period size: 905 Copynumber: 3.7 Consensus size: 905
2954661 TAGAATGTAC
* * *
2954671 AAGTTCTTAGTTAAGTTTGCCAATGATGATGACTTACTCAAGTGTCATCAAATCGTATGTCATGA
1 AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATTA
* * *
2954736 AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATGTAATAGAATTTTTTGAA-AAATAGAAG
66 AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATATAATAGAATTTTTT-AACAAACAGAAA
* * * * * *
2954800 AGTGATTGGGAATGTAGGCTTTCATAA-ATGAGTAGGGTTAGCTGGTTTAGTTATATTAGGA-GA
130 AGTGATTGAGAATGTAGGCATTCA-AAGAGGAGTAAGGCTAGCTAGTTTAGTTATATTAGGAGGA
* * *
2954863 GATTTTGTAGAGATTTTTTAAGATACTGCCCGTATTTGGGCTAGAAAAACG-GG-TAGAAGTAGC
194 -ATTTTGTAGAGATATTTCAAGATGCTGCCCGTATTTGGGCTA-AAAAA-GTGGATAGAAGTAGC
* * *
2954926 TGTCAAAGTAATTATACGAAAAATCTAATTAAATGTTTGTTTATTACGAGGAAGGGTTTCGAATG
256 TGTCAAAATATTTATACGAAAAATCTAATTAAATGTTTGTTTATTACGAGGAAAGGTTTCGAATG
* * *
2954991 TC-GAGTAAAAATTCTATCAAACTTAGACT-G---AAA-AGCAAGAAGAATGATGATATTGAAGA
321 TCAG-GTAAAAGTTTTACCAAACTTAGA-TGGATCAAAGAGCAAGAAGAATGATGATATTGAAGA
* * * *
2955050 GTTTAAAAAATTAATGGACGTCATCATAAGTTACCTGTTCGGATCAGATAAGCCAGATTATGATC
384 GTTTAAAAAATTGATGGACGTCATCATAAGTTACCCGTTTGGATCAGATAAGCTAGATTATGATC
*
2955115 GTTTCAAAGTTCTTAGTTAAGTATGACAATAATGATGACTTACTCAGGTGTCATCAAATCGTATG
449 GTTTCAAAGTTCTTAGTTAAGTATGCCAATAATGATGACTTACTCAGGTGTCATCAAATCGTATG
** * ** *
2955180 TCATGAAAAGAAATAACTACTTGCGTTTGAAGATTGCTTAAATGTAATATAATTTTTTTACAAAC
514 TCATGAAAAGAAATGGCTACTTGCGTTTGAAGATTGTTTAAATGTAATGGAATTTTTTGACAAAC
* * * *
2955245 AAAAGAGTGATTGGGAACGTAGACGTTCAAAAAGGAGTAGGGCTAGCTGGTTTAGTTATATTAGG
579 AAAAAAGTGATTGGGAATGTAGACATTCAAAGAGGAGTAGGGCTAGCTGGTTTAGTTATATTAGG
* * * *
2955310 AGGGACTTTGTAAAGATATTTTAAGGTGCTGCCCGTATTTGGGCTAGAAAAATGGGTAGAAGTAG
644 AGGGATTTTGTAAAGATATTTTAAGATGCTGCCCGTATTTGGGCTAGAAAAACGGATAGAAGTAG
* * * *
2955375 CTGTCAAAGCATTTATACGGAAAATTTAATTAAATGTTTGTTTATTACGGGGAAGGGTTCCGAAT
709 CTGTCAAAGCATTTATA-GGAAAATTAAATTAAATGTTTGTTTATTACGAGGAAAGGTTCTGAAT
* * * * * *
2955440 GTCGGGCAAAAGTTTTACCAAACGTAGATGGACCGAAGAGCAAAAAGAATGATGATATTGAAGAG
773 GTTGAGTAAAAGTTTTACCAAACTTAGATGGAACGAAGAGCAAAAAGAATGATAATATTGAAGAG
* * * *
2955505 CTTAAAGAGTTGACGGATGTTATCATAAATTACCCGTTCAAATCAAATAAGCCAGATTATAATCG
838 CTTAAA-AATTGA-GGATGTTATCATAAATTACCCGTTCGAATCAGATAAGTCAGATTATAATCG
2955570 TTTCA
901 TTTCA
* *
2955575 AAGTTCTTAGTTAAGTATGTCAATGATGATGACTTACTCAGGTGTTATCAAATCGTATGTCA-TA
1 AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATTA
* * * * *
2955639 AAAAAAATGGTTGTTTGCGTTTGAAGATTGTTTAAATGTAATGGAATTTTTTAACAAACAGAAAA
66 AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATATAATAGAATTTTTTAACAAACAGAAAA
* * * * *
2955704 GTGATTGGGAATGTAGTCATTCACAGAGGAGTAATGCTAGCTGGTTTAGTTATATTAGGAGGAAT
131 GTGATTGAGAATGTAGGCATTCAAAGAGGAGTAAGGCTAGCTAGTTTAGTTATATTAGGAGGAAT
* ** *
2955769 TTTGT-GATAATATTTCATTATGCTGCCCGTATTTGAGCTAAAAAAGTGGATAGAAGTAGCTGTC
196 TTTGTAGA-GATATTTCAAGATGCTGCCCGTATTTGGGCTAAAAAAGTGGATAGAAGTAGCTGTC
* * * * *
2955833 AAAACATTTATATG-AAACTC-AATTAAATGTTTATTTATTACGAGGAAAGGTTTCGAATATCAG
260 AAAATATTTATACGAAAAATCTAATTAAATGTTTGTTTATTACGAGGAAAGGTTTCGAATGTCAG
* * * * ** * *
2955896 GTAAAATTTTTACCAAACTTATATGGAGCAAAGGGCAAGATCAATAATGATATTGAAAAGTTTAA
325 GTAAAAGTTTTACCAAACTTAGATGGATCAAAGAGCAAGAAGAATGATGATATTGAAGAGTTTAA
* * *
2955961 AAAATTGATAGACGTCATCATAAGTTACCCGTTTAGATCAGATAAGCTAGATTATGATTGTTTCA
390 AAAATTGATGGACGTCATCATAAGTTACCCGTTTGGATCAGATAAGCTAGATTATGATCGTTTCA
*
2956026 AAGTTCTTAGTTAAGTATGCCAATAATGATGACTTATTCAGGTGTCATCAAATCGTATGTCATGA
455 AAGTTCTTAGTTAAGTATGCCAATAATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATGA
* * ** *
2956091 AAAGAAATGGCTATTTGCGTTTGAAGACTAATTAAATGTAATGGAATTTTTTGACAAATAAAAAA
520 AAAGAAATGGCTACTTGCGTTTGAAGATTGTTTAAATGTAATGGAATTTTTTGACAAACAAAAAA
* * * *
2956156 ATGATTGGGAATGTAGACATTCAAAGTGGAGTATGGCTAGTTGGTTTAGTTATATTAGGAGGGAT
585 GTGATTGGGAATGTAGACATTCAAAGAGGAGTAGGGCTAGCTGGTTTAGTTATATTAGGAGGGAT
* * * * *
2956221 TTTGTAAAGATATTTTAAAATGTTGCCCGTATTTGGGCTAGAAAAGCGAATAGAAGTAACTGTCA
650 TTTGTAAAGATATTTTAAGATGCTGCCCGTATTTGGGCTAGAAAAACGGATAGAAGTAGCTGTCA
* * *** * * * *
2956286 AAGCGA-ATATA-AAAAACCCAATTAAATGTTTGTTTATTACGAGGAACGATTCTAAATATTGAG
715 AAGC-ATTTATAGGAAAATTAAATTAAATGTTTGTTTATTACGAGGAAAGGTTCTGAATGTTGAG
** * *
2956349 TAAAAGTTTTACCAAACTTAGATGGATTGAAAAGTAAAAAGAATGATAATATTGAAGAGCTTAAA
779 TAAAAGTTTTACCAAACTTAGATGGAACGAAGAGCAAAAAGAATGATAATATTGAAGAGCTT-AA
** * * * *
2956414 AAATT-AGTGAACTTCATCATAAATTACCCGTTCGTATCAGATAAGTCAGATTATGATCATTTTA
843 AAATTGAG-GATGTT-ATCATAAATTACCCGTTCGAATCAGATAAGTCAGATTATAATCGTTTCA
* * * *
2956478 AAGTTTTTAGTTAAGTATGCCAATGATGATGACTCACTCAGGTGACATCAAATCATATGTCATTA
1 AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATTA
* * * * * *
2956543 AAAGAAATAGTTGTTTGCGTTTGAAGATTGTTTAAATATAGT-GAAATTTTTTGACAAACAGAAG
66 AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATATAATAG-AATTTTTTAACAAACAGAAA
* * * * * *
2956607 AGTAAATGAGAACGTAGGCATTTAAAGAGGAGT-AGAGCTAGCCAGTTTAGTTATATTAGGAGGG
130 AGTGATTGAGAATGTAGGCATTCAAAGAGGAGTAAG-GCTAGCTAGTTTAGTTATATTAGGAGGA
* * * * * * *
2956671 ACTTTGTAGAGATATTTTAAGATGCTGCCCGTATTTGGGTTAAAAAAGCGGGTAGAAGAAACTGT
194 ATTTTGTAGAGATATTTCAAGATGCTGCCCGTATTTGGGCTAAAAAAGTGGATAGAAGTAGCTGT
* * *
2956736 TAAAGTATTTATACGAAAAA-CTCAATTAAATGTTTGTTTATTACGA-GAAAGAGTTCCGAATGT
259 CAAAATATTTATACGAAAAATCT-AATTAAATGTTTGTTTATTACGAGGAAAG-GTTTCGAATGT
* * * *
2956799 CAGGTAAAAGTTTTACCAAACTTAGATGGATCGAAGAGAAAAAAGAATGATTATATTGAAGAGCT
322 CAGGTAAAAGTTTTACCAAACTTAGATGGATCAAAGAGCAAGAAGAATGATGATATTGAAGAG-T
* *
2956864 TT-AAAAATTGATGGACGTCATCATAAATTACCCGTTTGGATCACATAAG-TCAGATTATGATCG
386 TTAAAAAATTGATGGACGTCATCATAAGTTACCCGTTTGGATCAGATAAGCT-AGATTATGATCG
* ** * *
2956927 TTTCAAAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCATTTGTTATCAAATCGTATGC
450 TTTCAAAGTTCTTAGTTAAGTATGCCAATAATGATGACTTACTCAGGTGTCATCAAATCGTATGT
* * * *
2956992 CATGAAAAGAAATGGCTGCTTACGTATGAAGATTGTTTAAATGT-AT-GACATTTTTTTACAAAC
515 CATGAAAAGAAATGGCTACTTGCGTTTGAAGATTGTTTAAATGTAATGGA-ATTTTTTGACAAAC
* ** * * * * *
2957055 AGAAAAGTGATTCTGAACT-TAGGCTTTCACAGAGGAGTAGGGCTAGCTAGTTTAGTTATATTAT
579 AAAAAAGTGATTGGGAA-TGTAGACATTCAAAGAGGAGTAGGGCTAGCTGGTTTAGTTATATTAG
* * * * * * *
2957119 GAGAGATTTTGTAGAGATATTTCAAGATGCTGACTGTATTTGGGTTAGAAAAACGGATAGAAATA
643 GAGGGATTTTGTAAAGATATTTTAAGATGCTGCCCGTATTTGGGCTAGAAAAACGGATAGAAGTA
*
2957184 GCTGTCAAAGTATTTATATGGAAAACCCAATTAAATGTTTGTTTATTACATGTTTGTTTATTACG
708 GCTGTCAAAGCATTTATA-GG--AA---AATTAAA-------TTA--A-ATGTTTGTTTATTACG
* * * * * * *
2957249 AGAAAAGGTTTTGAATGTTGAGTAAAACTTTTACTAAACTTAGATGGAACGAAGGGCAAGATGAA
757 AGGAAAGGTTCTGAATGTTGAGTAAAAGTTTTACCAAACTTAGATGGAACGAAGAGCAAAAAGAA
* * * * * * *
2957314 TAATAATATTGAAGACCTTCAAAAATTGATGGATGTCATTATAAGTTACTCGTTCGGATCAGATA
822 TGATAATATTGAAGAGCTT-AAAAATTGA-GGATGTTATCATAAATTACCCGTTCGAATCAGATA
*
2957379 AGTTAGATTATAATCGTTTCA
885 AGTCAGATTATAATCGTTTCA
* * *
2957400 AAGTTCTTAGTTAAGTATGCCAATGATAATTACTTACTCAGGTATCATCAAATCGTATGTCATTA
1 AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATTA
* * * *
2957465 AAAGAAATGACTGCTTGCGTTTGAAGACTATTTAAATATAATAGAATTTTTTGACAAACAGAAAA
66 AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATATAATAGAATTTTTTAACAAACAGAAAA
* * * * **
2957530 GTGATTGAGAATGTAGGCGTTTAAAGAGGAGTAGGGTTAGCTAGTTTAGTTATATTAGGATAAAC
131 GTGATTGAGAATGTAGGCATTCAAAGAGGAGTAAGGCTAGCTAGTTTAGTTATATTAGGAGGAA-
* *
2957595 TTTT-TAGAGATATTTCAAGATGCTGCTCGTATTTTGGCTAATAAAA-TGGATAGAAGTAGCTGT
195 TTTTGTAGAGATATTTCAAGATGCTGCCCGTATTTGGGCTAA-AAAAGTGGATAGAAGTAGCTGT
*
2957658 TAAAAGTATTTATACTG-AAAATCTAATTAAATGTTTGTTTATTACG-GGAAAGGGTTTCGAATG
259 CAAAA-TATTTATAC-GAAAAATCTAATTAAATGTTTGTTTATTACGAGGAAA-GGTTTCGAATG
* * * * *
2957721 TCAAGTAAAAGTTTTACCAAACGTAGATGAATCGAAGAGCAAGAAGAATGATAATATTGAAGAGT
321 TCAGGTAAAAGTTTTACCAAACTTAGATGGATCAAAGAGCAAGAAGAATGATGATATTGAAGAGT
* * * * * * *
2957786 TTAAAAAATTGATGAACATCATCATAAGTTACCCGTTCGTATCAAATAAGCAAAATTATGATCGT
386 TTAAAAAATTGATGGACGTCATCATAAGTTACCCGTTTGGATCAGATAAGCTAGATTATGATCGT
* * *
2957851 TTCAAAGTTCTTAGTTAAGTATGCCAATGATGATAACTTACTGAGGTGTCATCAAATCGTATGTC
451 TTCAAAGTTCTTAGTTAAGTATGCCAATAATGATGACTTACTCAGGTGTCATCAAATCGTATGTC
* * * *
2957916 ATGAAAAGAAATGGTTACTTGTGTTTGAAGATTGTTTAAATGTAATGAAATTTTTTGACAAACAG
516 ATGAAAAGAAATGGCTACTTGCGTTTGAAGATTGTTTAAATGTAATGGAATTTTTTGACAAACAA
* * * * * * *
2957981 AAGAGTAATTGTGAATGTAGGCGTTAAAAGAAGAGTAGG
581 AAAAGTGATTGGGAATGTAGACATTCAAAGAGGAGTAGG
2958020 TAAAAGTAGC
Statistics
Matches: 2072, Mismatches: 311, Indels: 104
0.83 0.13 0.04
Matches are distributed among these distances:
900 1 0.00
901 60 0.03
902 23 0.01
903 362 0.17
904 241 0.12
905 466 0.22
906 234 0.11
907 3 0.00
909 2 0.00
912 4 0.00
919 3 0.00
921 1 0.00
922 349 0.17
923 270 0.13
924 52 0.03
925 1 0.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (905 bp):
AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATTA
AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATATAATAGAATTTTTTAACAAACAGAAAA
GTGATTGAGAATGTAGGCATTCAAAGAGGAGTAAGGCTAGCTAGTTTAGTTATATTAGGAGGAAT
TTTGTAGAGATATTTCAAGATGCTGCCCGTATTTGGGCTAAAAAAGTGGATAGAAGTAGCTGTCA
AAATATTTATACGAAAAATCTAATTAAATGTTTGTTTATTACGAGGAAAGGTTTCGAATGTCAGG
TAAAAGTTTTACCAAACTTAGATGGATCAAAGAGCAAGAAGAATGATGATATTGAAGAGTTTAAA
AAATTGATGGACGTCATCATAAGTTACCCGTTTGGATCAGATAAGCTAGATTATGATCGTTTCAA
AGTTCTTAGTTAAGTATGCCAATAATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATGAA
AAGAAATGGCTACTTGCGTTTGAAGATTGTTTAAATGTAATGGAATTTTTTGACAAACAAAAAAG
TGATTGGGAATGTAGACATTCAAAGAGGAGTAGGGCTAGCTGGTTTAGTTATATTAGGAGGGATT
TTGTAAAGATATTTTAAGATGCTGCCCGTATTTGGGCTAGAAAAACGGATAGAAGTAGCTGTCAA
AGCATTTATAGGAAAATTAAATTAAATGTTTGTTTATTACGAGGAAAGGTTCTGAATGTTGAGTA
AAAGTTTTACCAAACTTAGATGGAACGAAGAGCAAAAAGAATGATAATATTGAAGAGCTTAAAAA
TTGAGGATGTTATCATAAATTACCCGTTCGAATCAGATAAGTCAGATTATAATCGTTTCA
Found at i:2956953 original size:454 final size:453
Alignment explanation
Indices: 2954671--2958019 Score: 3730
Period size: 452 Copynumber: 7.4 Consensus size: 453
2954661 TAGAATGTAC
* *
2954671 AAGTTCTTAGTTAAGTTTGCCAATGATGATGACTTACTCAAGTGTCATCAAATCGTATGTCATGA
1 AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATGA
* * *
2954736 AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATGTAAT-AGAATTTTTTGAAAAATAGAAG
66 AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATGTAATGA-AATTTTTTGACAAACAGAAA
* * *
2954800 AGTGATTGGGAATGTAGGC-TTTCATAA-ATGAGTAGGGTTAGCTGGTTTAGTTATATTAGGAGA
130 AGTGATTGGGAATGTAGGCATTT-A-AAGAGGAGTAGGGCTAGCTGGTTTAGTTATATTAGGAGG
* * *
2954863 GATTTTGTAGAGATTTTTTAAGATACTGCCCGTATTTGGGCTAGAAAAACGGGTAGAAGTAGCTG
193 GATTTTGTAGAGATATTTTAAGATGCTGCCCGTATTTGGGCTA-AAAAACGGATAGAAGTAGCTG
* * *
2954928 TCAAAGTAATTATACGAAAAA-TCTAATTAAATGTTTGTTTATTACGAGGAAGGGTTTCGAATGT
257 TCAAAGTATTTATACGAAAAACTC-AATTAAATGTTTGTTTATTACGAGAAAGAGTTTCGAATGT
* * * *
2954992 C-GAGTAAAAATTCTATCAAACTTAGACT-GA---AA-AGCAAGAAGAATGATGATATTGAAGAG
321 CAG-GTAAAAGTTTTACCAAACTTAGA-TGGATCGAAGAGCAAGAAGAATGATAATATTGAAGAG
* * *
2955051 -TTTAAAAAATTAATGGACGTCATCATAAGTTACCTGTTCGGATCAGATAAGCCAGATTATGATC
384 CTTT-AAAAATTGATGGACGTCATCATAAGTTACCCGTTCGGATCAGATAAGTCAGATTATGATC
2955115 GTTTCA
448 GTTTCA
* *
2955121 AAGTTCTTAGTTAAGTATGACAATAATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATGA
1 AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATGA
** * * *
2955186 AAAGAAATAACTACTTGCGTTTGAAGATTGCTTAAATGTAAT-ATAATTTTTTTACAAACA-AAA
66 AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATGTAATGA-AATTTTTTGACAAACAGAAA
* * * * *
2955249 GAGTGATTGGGAACGTAGACGTTCAAAAAGGAGTAGGGCTAGCTGGTTTAGTTATATTAGGAGGG
130 -AGTGATTGGGAATGTAGGCATTTAAAGAGGAGTAGGGCTAGCTGGTTTAGTTATATTAGGAGGG
* * * * *
2955314 ACTTTGTAAAGATATTTTAAGGTGCTGCCCGTATTTGGGCTAGAAAAATGGGTAGAAGTAGCTGT
194 ATTTTGTAGAGATATTTTAAGATGCTGCCCGTATTTGGGCTA-AAAAACGGATAGAAGTAGCTGT
* * * * * * * * *
2955379 CAAAGCATTTATACGGAAAATTTAATTAAATGTTTGTTTATTACGGGGAAGGGTTCCGAATGTCG
258 CAAAGTATTTATACGAAAAACTCAATTAAATGTTTGTTTATTACGAGAAAGAGTTTCGAATGTCA
* * * * *
2955444 GGCAAAAGTTTTACCAAACGTAGATGGACCGAAGAGCAAAAAGAATGATGATATTGAAGAGC-TT
323 GGTAAAAGTTTTACCAAACTTAGATGGATCGAAGAGCAAGAAGAATGATAATATTGAAGAGCTTT
* * * * * ** * * *
2955508 AAAGAGTTGACGGATGTTATCATAAATTACCCGTTCAAATCAAATAAGCCAGATTATAATCGTTT
388 AAA-AATTGATGGACGTCATCATAAGTTACCCGTTCGGATCAGATAAGTCAGATTATGATCGTTT
2955573 CA
452 CA
* *
2955575 AAGTTCTTAGTTAAGTATGTCAATGATGATGACTTACTCAGGTGTTATCAAATCGTATGTCAT-A
1 AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATGA
* * * * *
2955639 AAAAAAATGGTTGTTTGCGTTTGAAGATTGTTTAAATGTAATGGAATTTTTTAACAAACAGAAAA
66 AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATGTAATGAAATTTTTTGACAAACAGAAAA
* * * ** *
2955704 GTGATTGGGAATGTAGTCATTCACAGAGGAGTAATGCTAGCTGGTTTAGTTATATTAGGAGGAAT
131 GTGATTGGGAATGTAGGCATTTAAAGAGGAGTAGGGCTAGCTGGTTTAGTTATATTAGGAGGGAT
* * ** * *
2955769 TTTGT-GATAATATTTCATTATGCTGCCCGTATTTGAGCTAAAAAAGTGGATAGAAGTAGCTGTC
196 TTTGTAGA-GATATTTTAAGATGCTGCCCGTATTTGGGCTAAAAAA-CGGATAGAAGTAGCTGTC
** * * *
2955833 AAAACATTTATATG--AAACTCAATTAAATGTTTATTTATTACGAGGAAAG-GTTTCGAATATCA
259 AAAGTATTTATACGAAAAACTCAATTAAATGTTTGTTTATTACGA-GAAAGAGTTTCGAATGTCA
* * * * * ** * * *
2955895 GGTAAAATTTTTACCAAACTTATATGGAGCAAAGGGCAAGATCAATAATGATATTGAAAAG-TTT
323 GGTAAAAGTTTTACCAAACTTAGATGGATCGAAGAGCAAGAAGAATGATAATATTGAAGAGCTTT
* ** *
2955959 AAAAAATTGATAGACGTCATCATAAGTTACCCGTTTAGATCAGATAAG-CTAGATTATGATTGTT
388 -AAAAATTGATGGACGTCATCATAAGTTACCCGTTCGGATCAGATAAGTC-AGATTATGATCGTT
2956023 TCA
451 TCA
* *
2956026 AAGTTCTTAGTTAAGTATGCCAATAATGATGACTTATTCAGGTGTCATCAAATCGTATGTCATGA
1 AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATGA
** * ** * * *
2956091 AAAGAAATGGCTATTTGCGTTTGAAGACTAATTAAATGTAATGGAATTTTTTGACAAATAAAAAA
66 AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATGTAATGAAATTTTTTGACAAACAGAAAA
* * * * * *
2956156 ATGATTGGGAATGTAGACATTCAAAGTGGAGTATGGCTAGTTGGTTTAGTTATATTAGGAGGGAT
131 GTGATTGGGAATGTAGGCATTTAAAGAGGAGTAGGGCTAGCTGGTTTAGTTATATTAGGAGGGAT
* * * * * *
2956221 TTTGTAAAGATATTTTAAAATGTTGCCCGTATTTGGGCTAGAAAAGCGAATAGAAGTAACTGTCA
196 TTTGTAGAGATATTTTAAGATGCTGCCCGTATTTGGGCTA-AAAAACGGATAGAAGTAGCTGTCA
* * * * * *
2956286 AAGCGA-ATATA--AAAAACCCAATTAAATGTTTGTTTATTACGAGGAACGA--TTCTAAATAT-
260 AAG-TATTTATACGAAAAACTCAATTAAATGTTTGTTTATTACGA-GAAAGAGTTTC-GAATGTC
* * * * *
2956345 TGAGTAAAAGTTTTACCAAACTTAGATGGATTGAAAAGTAAAAAGAATGATAATATTGAAGAGCT
322 AG-GTAAAAGTTTTACCAAACTTAGATGGATCGAAGAGCAAGAAGAATGATAATATTGAAGAGCT
* * * * * *
2956410 TAAAAAATT-AGTGAACTTCATCATAAATTACCCGTTCGTATCAGATAAGTCAGATTATGATCAT
386 TTAAAAATTGA-TGGACGTCATCATAAGTTACCCGTTCGGATCAGATAAGTCAGATTATGATCGT
*
2956474 TTTA
450 TTCA
* * * * *
2956478 AAGTTTTTAGTTAAGTATGCCAATGATGATGACTCACTCAGGTGACATCAAATCATATGTCATTA
1 AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATGA
* * * * * *
2956543 AAAGAAATAGTTGTTTGCGTTTGAAGATTGTTTAAATATAGTGAAATTTTTTGACAAACAGAAGA
66 AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATGTAATGAAATTTTTTGACAAACAGAAAA
* * * * * ** *
2956608 GTAAATGAGAACGTAGGCATTTAAAGAGGAGTAGAGCTAGCCAGTTTAGTTATATTAGGAGGGAC
131 GTGATTGGGAATGTAGGCATTTAAAGAGGAGTAGGGCTAGCTGGTTTAGTTATATTAGGAGGGAT
* * * * *
2956673 TTTGTAGAGATATTTTAAGATGCTGCCCGTATTTGGGTTAAAAAAGCGGGTAGAAGAAACTGTTA
196 TTTGTAGAGATATTTTAAGATGCTGCCCGTATTTGGGCTAAAAAA-CGGATAGAAGTAGCTGTCA
*
2956738 AAGTATTTATACGAAAAACTCAATTAAATGTTTGTTTATTACGAGAAAGAGTTCCGAATGTCAGG
260 AAGTATTTATACGAAAAACTCAATTAAATGTTTGTTTATTACGAGAAAGAGTTTCGAATGTCAGG
* * *
2956803 TAAAAGTTTTACCAAACTTAGATGGATCGAAGAGAAAAAAGAATGATTATATTGAAGAGCTTTAA
325 TAAAAGTTTTACCAAACTTAGATGGATCGAAGAGCAAGAAGAATGATAATATTGAAGAGCTTTAA
* * *
2956868 AAATTGATGGACGTCATCATAAATTACCCGTTTGGATCACATAAGTCAGATTATGATCGTTTCA
390 AAATTGATGGACGTCATCATAAGTTACCCGTTCGGATCAGATAAGTCAGATTATGATCGTTTCA
** * *
2956932 AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCATTTGTTATCAAATCGTATGCCATGA
1 AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATGA
* * * *
2956997 AAAGAAATGGCTGCTTACGTATGAAGATTGTTTAAATGT-ATGACATTTTTTTACAAACAGAAAA
66 AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATGTAATGAAATTTTTTGACAAACAGAAAA
** * * * *
2957061 GTGATTCTGAACT-TAGGC-TTTCACAGAGGAGTAGGGCTAGCTAGTTTAGTTATATTATGAGAG
131 GTGATTGGGAA-TGTAGGCATTT-AAAGAGGAGTAGGGCTAGCTGGTTTAGTTATATTAGGAGGG
* * * * *
2957124 ATTTTGTAGAGATATTTCAAGATGCTGACTGTATTTGGGTTAGAAAAACGGATAGAAATAGCTGT
194 ATTTTGTAGAGATATTTTAAGATGCTGCCCGTATTTGGGCTA-AAAAACGGATAGAAGTAGCTGT
* * * *
2957189 CAAAGTATTTATATGGAAAACCCAATTAAATGTTTGTTTATTACATGTTTGTTTATTACGAGAAA
258 CAAAGTATTTATACGAAAAACTCAATTAAATGTTTGTTTATTAC------G------A-GA-AAG
* * * * * * * *
2957254 AGGTTTTGAATGT-TGAGTAAAACTTTTACTAAACTTAGATGGAACGAAGGGCAAGATGAATAAT
309 A-GTTTCGAATGTCAG-GTAAAAGTTTTACCAAACTTAGATGGATCGAAGAGCAAGAAGAATGAT
* * * * * *
2957318 AATATTGAAGACCTTCAAAAATTGATGGATGTCATTATAAGTTACTCGTTCGGATCAGATAAGTT
372 AATATTGAAGAGCTTTAAAAATTGATGGACGTCATCATAAGTTACCCGTTCGGATCAGATAAGTC
*
2957383 AGATTATAATCGTTTCA
437 AGATTATGATCGTTTCA
* * * *
2957400 AAGTTCTTAGTTAAGTATGCCAATGATAATTACTTACTCAGGTATCATCAAATCGTATGTCATTA
1 AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATGA
* * * *
2957465 AAAGAAATGACTGCTTGCGTTTGAAGACTATTTAAATATAAT-AGAATTTTTTGACAAACAGAAA
66 AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATGTAATGA-AATTTTTTGACAAACAGAAA
* * * * ***
2957529 AGTGATTGAGAATGTAGGCGTTTAAAGAGGAGTAGGGTTAGCTAGTTTAGTTATATTAGGATAAA
130 AGTGATTGGGAATGTAGGCATTTAAAGAGGAGTAGGGCTAGCTGGTTTAGTTATATTAGGAGGGA
* * * *
2957594 CTTTT-TAGAGATATTTCAAGATGCTGCTCGTATTTTGGCTAATAAAATGGATAGAAGTAGCTGT
195 -TTTTGTAGAGATATTTTAAGATGCTGCCCGTATTTGGGCTAA-AAAACGGATAGAAGTAGCTG-
* * * *
2957658 TAAAAGTATTTATACTGAAAATCT-AATTAAATGTTTGTTTATTACGGGAAAGGGTTTCGAATGT
257 TCAAAGTATTTATAC-GAAAAACTCAATTAAATGTTTGTTTATTACGAGAAAGAGTTTCGAATGT
* * *
2957722 CAAGTAAAAGTTTTACCAAACGTAGATGAATCGAAGAGCAAGAAGAATGATAATATTGAAGAG-T
321 CAGGTAAAAGTTTTACCAAACTTAGATGGATCGAAGAGCAAGAAGAATGATAATATTGAAGAGCT
* * * * *
2957786 TTAAAAAATTGATGAACATCATCATAAGTTACCCGTTCGTATCAAATAAG-CAAAATTATGATCG
386 TT-AAAAATTGATGGACGTCATCATAAGTTACCCGTTCGGATCAGATAAGTC-AGATTATGATCG
2957850 TTTCA
449 TTTCA
* *
2957855 AAGTTCTTAGTTAAGTATGCCAATGATGATAACTTACTGAGGTGTCATCAAATCGTATGTCATGA
1 AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATGA
* * * *
2957920 AAAGAAATGGTTACTTGTGTTTGAAGATTGTTTAAATGTAATGAAATTTTTTGACAAACAGAAGA
66 AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATGTAATGAAATTTTTTGACAAACAGAAAA
* * * * *
2957985 GTAATTGTGAATGTAGGCGTTAAAAGAAGAGTAGG
131 GTGATTGGGAATGTAGGCATTTAAAGAGGAGTAGG
2958020 TAAAAGTAGC
Statistics
Matches: 2449, Mismatches: 379, Indels: 137
0.83 0.13 0.05
Matches are distributed among these distances:
449 5 0.00
450 301 0.12
451 209 0.09
452 538 0.22
453 347 0.14
454 389 0.16
455 266 0.11
456 3 0.00
457 2 0.00
459 1 0.00
464 1 0.00
465 1 0.00
466 2 0.00
467 4 0.00
468 213 0.09
469 121 0.05
470 41 0.02
471 5 0.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (453 bp):
AAGTTCTTAGTTAAGTATGCCAATGATGATGACTTACTCAGGTGTCATCAAATCGTATGTCATGA
AAAGAAATGGCTGCTTGCGTTTGAAGATTGTTTAAATGTAATGAAATTTTTTGACAAACAGAAAA
GTGATTGGGAATGTAGGCATTTAAAGAGGAGTAGGGCTAGCTGGTTTAGTTATATTAGGAGGGAT
TTTGTAGAGATATTTTAAGATGCTGCCCGTATTTGGGCTAAAAAACGGATAGAAGTAGCTGTCAA
AGTATTTATACGAAAAACTCAATTAAATGTTTGTTTATTACGAGAAAGAGTTTCGAATGTCAGGT
AAAAGTTTTACCAAACTTAGATGGATCGAAGAGCAAGAAGAATGATAATATTGAAGAGCTTTAAA
AATTGATGGACGTCATCATAAGTTACCCGTTCGGATCAGATAAGTCAGATTATGATCGTTTCA
Found at i:2957236 original size:15 final size:15
Alignment explanation
Indices: 2957213--2957247 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
2957203 GGAAAACCCA
*
2957213 ATTAAATGTTTGTTT
1 ATTACATGTTTGTTT
2957228 ATTACATGTTTGTTT
1 ATTACATGTTTGTTT
2957243 ATTAC
1 ATTAC
2957248 GAGAAAAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (15 bp):
ATTACATGTTTGTTT
Found at i:2958923 original size:449 final size:445
Alignment explanation
Indices: 2958026--2958943 Score: 1147
Period size: 449 Copynumber: 2.0 Consensus size: 445
2958016 TAGGTAAAAG
*
2958026 TAGCTGTCAAAGCATTTATACGGAAAACTCAATTAAATGTTTGTTTATTACGAGGAATGGTTTCG
1 TAGCTGTCAAAGCATTTATACGGAAAACTCAATTAAATGTTTGTTTATTACGAGGAAAGGTTTCG
* * *
2958091 AATGTTAGGTAAAAGTTTTACCAAACCTAGATGAACTGAAGAGAAAAATGAATGATGATATTGAA
66 AATGTCAGGTAAAACTTTTACCAAACCTAGATGAACTGAAGAGAAAAATAAATGATGATATTGAA
* * * *
2958156 AAGCTTTAAAAATTGGACGTTATCATAAATTACACGTTCGGATCAGAGAAGCCAGATTATGATCG
131 AAGCTTAAAAAATTGGACGTCATCATAAATTACACGTTCGGATCAGAGAAGACAGATTATAATCG
* *
2958221 TTTCAAAATTCTTAGTTAAGTATGCCAATGATGACTTACTGATGTGTTATCAAATCGTATGGCAT
196 TTTCAAAATTCTTAG---AGTATGCCAATGATGACTTACTCAGGTGTTATCAAATCGTATGGCAT
* * *
2958286 GAAAAGAAATAACTGCTTGCGTTTGAAAATTGTTTAAATGTAATGACATTTTTTGACAAACAAAA
258 GAAAAGAAATAACTGCTTGAGTTTGAAAATTGTTTAAATGTAATGAAATTTTTTAACAAACAAAA
* * *
2958351 ATGTGATTCGGAACTTAGGCGTTCATAGAGGAATAAGGCTAGCTGGTTTAGATATATTAGGAGAA
323 ATGTGATTCGGAACTTAGGCGTTCAAAGAGAAATAAGGCTAGCTAGTTTAGATATATTAGGAGAA
* *
2958416 ATTTTGTAGAGATATTTTAATATGCTGCCTGTATTTAGGTTAAAAAAGCGGATAGAAA
388 ATTTTGTAGAGATATTTTAAGATGCTGCCTGTATTTAGGATAAAAAAGCGGATAGAAA
* ** *
2958474 TAGTTGTCAAATTATTTATACGGAAAA-TCCAATTAAATGTTTGTTTATTACGAGGAAAGGTTTT
1 TAGCTGTCAAAGCATTTATACGGAAAACT-CAATTAAATGTTTGTTTATTACGAGGAAAGGTTTC
* * * * * *
2958538 GAATGTCGGGTAAAACTTTTACTAAACTTAGATGAAAC-GAAGGGCAAGATAAATGATGATATT-
65 GAATGTCAGGTAAAACTTTTACCAAACCTAGATG-AACTGAAGAGAAAAATAAATGATGATATTG
* * * * *
2958601 AAAGAGCTTAAAAAATTAATGGACGTCATCATAAGTTACTCGTTCGTATCAGATAAGACGGATTA
129 AAA-AGCTTAAAAAA-T--TGGACGTCATCATAAATTACACGTTCGGATCAGAGAAGACAGATTA
* *
2958666 TAATCGTTTCAAAGTTCTTAG-GTATGCCAATGATGATGACTTATTCAGGTGTCT-TCAAATCGT
190 TAATCGTTTCAAAATTCTTAGAGTATGCC-A--ATGATGACTTACTCAGGTGT-TATCAAATCGT
** ** * *
2958729 ATGTTATGAAAAGAAATGGCTGCTT-AGTTTGAACATTGTTTAAATGTAATTAAATTTTTTAACA
251 ATGGCATGAAAAGAAATAACTGCTTGAGTTTGAAAATTGTTTAAATGTAATGAAATTTTTTAACA
* * * * *
2958793 AACAGAAGA-GTGATTGGGAA-TGTAGGCGTTTAAAGA-AAAGTAGGGCTAGCTAGTTTAGTTAT
316 AACA-AAAATGTGATTCGGAACT-TAGGCGTTCAAAGAGAAA-TAAGGCTAGCTAGTTTAGATAT
* * * *
2958855 ATTCGGAGGAATTTTTTAGAGATATTTTAAGATGCTGCCTGTATTTGGGATAGAAAAA-CTGG-T
378 ATTAGGAGAAATTTTGTAGAGATATTTTAAGATGCTGCCTGTATTTAGGATA-AAAAAGC-GGAT
2958918 AGAAA
441 AGAAA
2958923 TAGCTGTCAAAGCATTTATAC
1 TAGCTGTCAAAGCATTTATAC
2958944 AAGCAGCTAT
Statistics
Matches: 402, Mismatches: 53, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
447 11 0.03
448 121 0.30
449 154 0.38
450 57 0.14
451 59 0.15
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (445 bp):
TAGCTGTCAAAGCATTTATACGGAAAACTCAATTAAATGTTTGTTTATTACGAGGAAAGGTTTCG
AATGTCAGGTAAAACTTTTACCAAACCTAGATGAACTGAAGAGAAAAATAAATGATGATATTGAA
AAGCTTAAAAAATTGGACGTCATCATAAATTACACGTTCGGATCAGAGAAGACAGATTATAATCG
TTTCAAAATTCTTAGAGTATGCCAATGATGACTTACTCAGGTGTTATCAAATCGTATGGCATGAA
AAGAAATAACTGCTTGAGTTTGAAAATTGTTTAAATGTAATGAAATTTTTTAACAAACAAAAATG
TGATTCGGAACTTAGGCGTTCAAAGAGAAATAAGGCTAGCTAGTTTAGATATATTAGGAGAAATT
TTGTAGAGATATTTTAAGATGCTGCCTGTATTTAGGATAAAAAAGCGGATAGAAA
Found at i:2959860 original size:454 final size:450
Alignment explanation
Indices: 2958947--2964177 Score: 6311
Period size: 454 Copynumber: 11.6 Consensus size: 450
2958937 TTTATACAAG
* * *
2958947 CAGCTATTTCTATCTGCTTTTCTAGCCCAAATACGAGCAGCATCTTGAAATATCTCTACAAAATC
1 CAGCTACTTCTA-CCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAAT-
* * * * * * *
2959012 CCTCCTAATATAACTAAACTAGCTAGCCCCTACTTCTCTTTGAACGCTTATGTTCCCATTCACTC
64 CCTTCTAATATAACTAAACCAGCTAG-CCCTACTCCTCTGTGAACGCCTACGTTCCCAATCACTC
* * * * *
2959077 TTCTGTTTGTCAAAAAAATTAATTACATTTAAACAATCTTCAAACGCAAGTAACAATTTCTTTTC
128 TTCTGTTTGTCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCTTTTC
* * *
2959142 ATGACCTACGATTTGAAGACACCTGAGTAAGTCATCATCATGGGCATACTTAACTAAGAACTTTG
193 ATGACATACGATTTGATGACA-CTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTG
* * *
2959207 AAACGATTATAATCTGGCTTATCTGATAC-GAACGGATAATTTATGATGACGTCCGTCAATTTTT
257 AAACGATCATAATTTGGCTTATCTGAT-CTGAACGG-TAATTTATGATGACGTCCATCAATTTTT
* * * * * *
2959271 AAAGCTCTTCAATATTATAATTT-TTTTTCTATTCGGTCCATCTAAGTTTGATAAAACTTTTACC
320 TAAGCTCTTCAATATCATCATTTCTTTTGCTCTTCGGTCCATCTAAGTTTGGTAAAACTTTTACC
* *
2959335 CGACATTCGAAACCCTTCCTCGTAATAAACAAACATTTAATTAGG-TTTTCTGTATAAATGCATT
385 CGACATTCGAAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTTC-GTATAAATGCTTT
*
2959399 AA
449 GA
* * * *
2959401 CAGCTACTTTTACCAGCTTTTTTAGCCCAAATATGGGCAGCATCTTGAAATATTTCTACAAAATC
1 CAGCTACTTCTACC-GCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATC
* * ** *
2959466 TCTTCTAATATAACTAAACCACCTAGCCCTACTCCTCTGTAAACGCCTGA-GTTCTAAATCACTT
65 -CTTCTAATATAACTAAACCAGCTAGCCCTACTCCTCTGTGAACGCCT-ACGTTCCCAATCACTC
* * * * *
2959530 TTCTATTTGTCAAAAAA-TTCTATTACATATAAATAATTTTCAAACGCAAGCAGCTATTTCTTTT
128 TTCTGTTTGTCAAAAAATTTC-ATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCTTTT
* * * *
2959594 CATGACATAC-AGTTTGATGACATCTAAGTAAATTATCATCATTGGCATACTTAATTAAGAACTT
192 CATGACATACGA-TTTGATGACA-CTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTT
* * * *
2959658 TGAAACGATCATAATTTGGCTTATCTGATCTGAACGGATAACTTATGATAACTTCTATCAATTTT
255 TGAAACGATCATAATTTGGCTTATCTGATCTGAACGG-TAATTTATGATGACGTCCATCAATTTT
2959723 TTAAGCTCTTCAATATCATCATTTCTTTTGCTCTTCGGTCCAT-TAAAGTTTGGTAAAACTTTTA
319 TTAAGCTCTTCAATATCATCATTTCTTTTGCTCTTCGGTCCATCT-AAGTTTGGTAAAACTTTTA
* * * * * *
2959787 CTCGAAATTCGAAACCCTTGCTCGTAATAAGCAAACATTTAATTGAGTTTTTCGTTTAAATGCTT
383 CCCGACATTCGAAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTTCGTATAAATGCTT
2959852 TGA
448 TGA
*
2959855 CAGCTACTTCTATCCGCTTTTCTAGCCCAAATACGGACAGCATCTTGAAATATCTCTACAAAATC
1 CAGCTACTTCTA-CCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATC
* * * * * *
2959920 CATCTTACTATAACAAAACCAGCTAGCCCTACTCCTCTGTGAATGCCTACGTTCCTAATTACTCT
65 CTTC-TAATATAACTAAACCAGCTAGCCCTACTCCTCTGTGAACGCCTACGTTCCCAATCACTCT
* * * * * * * *
2959985 TTTGTTTGTTAAAAAATTTCATTATATTTAAATAGTCTTCAAATGCAAACAACCATTT-TTTTAC
129 TCTGTTTGTCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCTTTT-C
*
2960049 ATGACATACGATTTGATGACAAATGAGTAAGTCATCATCATTGGCATACTTCAA-TAAGAACTTT
193 ATGACATACGATTTGATGAC-ACTGAGTAAGTCATCATCATTGGCATACTT-AACTAAGAACTTT
* * *
2960113 GAAACAATAATAATCTT-GCTTATCTGATCCGAACGGGTAATTTATGATGACGTCCATCAATTTT
256 GAAACGATCATAAT-TTGGCTTATCTGATCTGAAC-GGTAATTTATGATGACGTCCATCAATTTT
* * * * *
2960177 TTTAGCTCTTCAATATTATCA-TTCTTCTTGCTCTTCGGTCCATCTAAGTTAGATAAAATTTTTA
319 TTAAGCTCTTCAATATCATCATTTCTT-TTGCTCTTCGGTCCATCTAAGTTTGGTAAAACTTTTA
* * * **
2960241 CTCGACATTCAAAACCCTTTCTCGTAATAAACAAACATTTAATTGGG-TTTTCTGTATAAAAACT
383 CCCGACATTCGAAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTTC-GTATAAATGCT
2960305 TTGA
447 TTGA
* * * * * * *
2960309 TAGCTACTTTTATCCGCTTTCCTAGCCTAAATACGGCCAGCATTTTAAAATATCTCTACAAAATC
1 CAGCTACTTCTA-CCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATC
* * * * * * * * *
2960374 CATTTTACTATAACAAAACCAGCTAGGCTTACTCCTCTGTGAATGCTTACGTTCCCAATTACTTT
65 C-TTCTAATATAACTAAACCAGCTAGCCCTACTCCTCTGTGAACGCCTACGTTCCCAATCACTCT
* * ** *
2960439 TCTGTTTGTCAAAAAATTTCATTACATTTAAATAGTCTTCAAATACAAGCAGCCATTTCTTTACA
129 TCTGTTTGTCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCTTTTCA
* * *
2960504 TGAC--AC------AT---A---AGTAAGTTATCATCATTGGTATACTTAAGTAAGAACTTTGAA
194 TGACATACGATTTGATGACACTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGAA
* **
2960555 ACGATCATAATCTT-GCTTATCTGATCCGAACGGGTAATTTATGATGACGTTTATCAATTTTTTA
259 ACGATCATAAT-TTGGCTTATCTGATCTGAAC-GGTAATTTATGATGACGTCCATCAATTTTTTA
* * * *
2960619 AGCTCTTCAATATCATCA-TTCTTCTTGCTCTTTGGTACATCTAAGTTAGGTAAAACTTTTACTC
322 AGCTCTTCAATATCATCATTTCTT-TTGCTCTTCGGTCCATCTAAGTTTGGTAAAACTTTTACCC
* *
2960683 GACATTCGAAACCCTTCCTCGTAATAAATAAACATTTAATTGGGTTTTCCGTATAAATGCTTTGA
386 GACATTCGAAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTTCGTATAAATGCTTTGA
* * * *
2960748 CAGCTACTTCTATCCGCTTTTTTAGCCCAAATATGGGCAGCATTTTGAAATATCTCTATAAAATC
1 CAGCTACTTCTA-CCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATC
* * * * * * * *
2960813 CATCTTACTATAAC-AAAACAGCTAGCCTTATTCCTCTGTGAACGTCTACGTTCCTAATTACTCT
65 CTTC-TAATATAACTAAACCAGCTAGCCCTACTCCTCTGTGAACGCCTACGTTCCCAATCACTCT
* * * * *
2960877 TCTGTTTGTCAAAAAATTTCATTACATTTAAATAATCTTCAAATGTAAGCAACCATTTCTTTACA
129 TCTGTTTGTCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCTTTTCA
2960942 TGACATACGATTTGATGACACATGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGA
194 TGACATACGATTTGATGACAC-TGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGA
* *
2961007 AACGATCATAATCTT-GCTTATCTAATCTGAACGGGTAATTTATGATGACGTCAATCAATTTTTT
258 AACGATCATAAT-TTGGCTTATCTGATCTGAAC-GGTAATTTATGATGACGTCCATCAATTTTTT
* *** *
2961071 AAGCAT-TTCAATATTATCA-TTCTTCTTGCTCTTCGGTCCATCTAAGAGAGATAAAACTTTTAC
321 AAGC-TCTTCAATATCATCATTTCTT-TTGCTCTTCGGTCCATCTAAGTTTGGTAAAACTTTTAC
* * * *
2961134 CCGACATTCGAAACCTTTCCTCGTAATAAACAAACATTTAATTGGGTGTTCCATATAAATGCTTT
384 CCGACATTCGAAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTTCGTATAAATGCTTT
*
2961199 CA
449 GA
* * * *
2961201 CAGCTACTTCTACCTGTTTTTCTAGCCCAAATACGGGTAACATCTTGAAATATCACTACAAAATC
1 CAGCTACTTCTACC-GCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATC
* ** * * *
2961266 ACTCCTAATATAACTCTACCAGCTAGCCCTATTCGTCTGTGAACGCCTACGTTCCCACTCACTCT
65 -CTTCTAATATAACTAAACCAGCTAGCCCTACTCCTCTGTGAACGCCTACGTTCCCAATCACTCT
* * *
2961331 TCTGTTTGTCAAAAAATTTCATTACATTTAAACAATTTTCAAACGCAATCAGCTA-TTCTTTTTC
129 TCTGTTTGTCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTC-TTTTC
* ** *
2961395 ATGACATACGATTTAATGACACCTGAGTAAGTCATCATCATTGTTATACTTAACTAAGAACTTCG
193 ATGACATACGATTTGATGACA-CTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTG
* ** * *
2961460 AAACCATCATTCTTTGGCTTATCTGATCTAAACGTGTAATTTATGATGATC-TACATCAATTTTT
257 AAACGATCATAATTTGGCTTATCTGATCTGAACG-GTAATTTATGATGA-CGTCCATCAATTTTT
* * * *
2961524 TAAGCTCTTCAATATCATCATTTCTCTTGCTCTTTGGTCTATCTAAGTTTGGTAAAAATTTTACC
320 TAAGCTCTTCAATATCATCATTTCTTTTGCTCTTCGGTCCATCTAAGTTTGGTAAAACTTTTACC
* * * * * * * * *
2961589 CAACATTCGGAACCCTTCTTTGTAATAAACAAACATTTAATTAGGTTTTCCCTATAAATACTTTT
385 CGACATTCGAAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTTCGTATAAATGCTTTG
2961654 A
450 A
* * * * *
2961655 CAACTACTTCTACTCGCTTTTCTATCCCAAATACGGGCAGCACCTTAAAATATCTCTATAAAATC
1 CAGCTACTTCTAC-CGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATC
* * * * * * *
2961720 TCTCCTAATATAACTAAACCAGTTAGCCCTACTCCTTTATGAACACTTACGTTCCCAATTACTCT
65 -CTTCTAATATAACTAAACCAGCTAGCCCTACTCCTCTGTGAACGCCTACGTTCCCAATCACTCT
* * * * *
2961785 TCTCTTTGTCAAAAAATTCCATTACATTTAAACAATTTTCAAACGCAAGTAGCCATTTTTTTTCA
129 TCTGTTTGTCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCTTTTCA
* *
2961850 TGGCATACGATTTGATGACACTTGAGTAAGTCATCATTATTGGCATACTTAACTAAGAACTTTGA
194 TGACATACGATTTGATGACAC-TGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGA
* *
2961915 AACGATCAT-ATCTGGCTTATCTGAT-TCAAACGAGTAATTTATGATGACGTCCATCAATTTTTT
258 AACGATCATAATTTGGCTTATCTGATCT-GAACG-GTAATTTATGATGACGTCCATCAATTTTTT
* * * * * *
2961978 AAGCTCTTTAATATCATTATTT-TCTTGCTCTTCGGTCTATCTAAGTTAGGTAAACCTTTTTACC
321 AAGCTCTTCAATATCATCATTTCTTTTGCTCTTCGGTCCATCTAAGTTTGGTAAAAC-TTTTACC
* * * * *
2962042 CGATATTCGAAACCATTCCTTGTAATAAACAAACATTTAATTGGGTTTCT-ATATAAATGCTTTG
385 CGACATTCGAAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTTCGTATAAATGCTTTG
2962106 A
450 A
* * *
2962107 CAGCTACTTCTACCCGCTTTACTAGCCCAATTACGGGCAGCATATTGAAATAT-TACTACAAAAT
1 CAGCTACTTCTA-CCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCT-CTACAAAAT
* * * * * *
2962171 CCCTTCTAATATAACTAAACTAGCTAGCTCTATTCCTTTGTGAAAGCCTACGTTCCCAATCACTA
64 -CCTTCTAATATAACTAAACCAGCTAGCCCTACTCCTCTGTGAACGCCTACGTTCCCAATCACTC
* *
2962236 TTCTGTTTGTCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGTCATTTCGTTTC
128 TTCTGTTTGTCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCTTTTC
** * * * * *
2962301 ATGACATATAATTTGAAGACAAATGAGTAAGTCATCATCATTGGCATACTTAACCAAAAACTTTT
193 ATGACATACGATTTGATGAC-ACTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTG
* *
2962366 AAACGATCATAATTTGGCTTATCTGATCCGAACAGGTAATTTATGATGACGTCTATCAATTTTTT
257 AAACGATCATAATTTGGCTTATCTGATCTGAAC-GGTAATTTATGATGACGTCCATCAATTTTTT
* *
2962431 GAGCTCTTCAATATCATCA-TTCATCTTT-CTCTTCGGTCCATCTAAGTTTGGTAAAATTTTTAC
321 AAGCTCTTCAATATCATCATTTC-T-TTTGCTCTTCGGTCCATCTAAGTTTGGTAAAACTTTTAC
* *
2962494 CCGACATTCGGAACCCTTACTCGTAATAAACAAACATTTAATTGGGTTTTTCGTATAAATGCTTT
384 CCGACATTCGAAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTTCGTATAAATGCTTT
2962559 GA
449 GA
* * * *
2962561 CAGCTATTTCAACTCGCTTTTCTAGCCTAAATACGGACAGCATCTTGAAATATCTCTACAAAATC
1 CAGCTACTTCTAC-CGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATC
* * * * * * *
2962626 TTTTCCAATATAACTAAACCAACTAGCCCTACTCCTCTATGAACGCCTACATTCTCAATCACTTT
65 -CTTCTAATATAACTAAACCAGCTAGCCCTACTCCTCTGTGAACGCCTACGTTCCCAATCACTCT
* * * *
2962691 TTTGTTTGTCAAAAAATTTAATTACATTTAAATAATCTTCAAACGCAAGCAACCATTTCTTTTCA
129 TCTGTTTGTCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCTTTTCA
* * * *
2962756 TGACATACGATTTGAAGACTCCTGAGTAAGTCGTCATCATTGGCATGCTTAACTAAGAACTTTGA
194 TGACATACGATTTGATGAC-ACTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGA
* *
2962821 AACGATCATAATCTGGCTTATCTGATAC-GAACGGGTAATTTATGATGACGTCCATCAATTTTTA
258 AACGATCATAATTTGGCTTATCTGAT-CTGAAC-GGTAATTTATGATGACGTCCATCAATTTTTT
* *
2962885 AAGCTCTTCAATATCATCATTCTCTTTT-CTCTTCGGT-TATCTAAGTTTGGCAAAACTTTTACC
321 AAGCTCTTCAATATCATCATT-TCTTTTGCTCTTCGGTCCATCTAAGTTTGGTAAAACTTTTACC
* * * * *
2962948 CGGCATTCGGAACCCTTCCTCATAATAAACAAACATTTAATTGGATTTTCCGTATAAATGCTTTG
385 CGACATTCGAAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTTCGTATAAATGCTTTG
2963013 A
450 A
* * * * * *
2963014 CAGCTATTTCTACCCGCTTTTCTAGCCTAAATATGGGTAGTATCTTGAAATATCTCTACAAAATT
1 CAGCTACTTCTA-CCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATC
* * * * * * *
2963079 CTTCCTAATATAACTAAACTAGCTAACCTTATTCCTCTATGAACGCCTACATTCCTAATCACTCT
65 CTT-CTAATATAACTAAACCAGCTAGCCCTACTCCTCTGTGAACGCCTACGTTCCCAATCACTCT
* * * * *
2963144 TATGTTTGTCAAAAAATTCCATTACATTTAAAAAATCTTCAAACGTAAGCAGCCATTTCGTTTCA
129 TCTGTTTGTCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCTTTTCA
* *
2963209 TGACATACAATTTGAAT-ACACATGAGTAAGTCATCATCATTAGCATACTTAACTAAGAACTTTG
194 TGACATACGATTTG-ATGACAC-TGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTG
* * * * * *
2963273 AATCGATTATAATCTGACTTATCTGATCCGAACTGGTAATTTATGATG-CTGTTCATCAATTTTT
257 AAACGATCATAATTTGGCTTATCTGATCTGAAC-GGTAATTTATGATGAC-GTCCATCAATTTTT
* * *
2963337 TAAGCTCTTTAATATCATCATTTATCTTT-CTCTTCGGTCTATCTAAGTTTGGTAAAACTTTTAC
320 TAAGCTCTTCAATATCATCATTTCT-TTTGCTCTTCGGTCCATCTAAGTTTGGTAAAACTTTTAC
*
2963401 CCGACATTCGGAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTTCGTATAAATGCTTT
384 CCGACATTCGAAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTTCGTATAAATGCTTT
2963466 GA
449 GA
* * * *
2963468 CAACTACTTCTACCCGCTTTTCTAGCTCAAATACGGGCAGTATCTTGAATTATCTCTACAAAATC
1 CAGCTACTTCTA-CCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAAT-
* * * *
2963533 CCTCCTAATATAACTAAACCAGCTAGCCCTACTCCTCTGTGAATGCCTACATTCCCAATCACTAT
64 CCTTCTAATATAACTAAACCAGCTAGCCCTACTCCTCTGTGAACGCCTACGTTCCCAATCACTCT
* * * *
2963598 TCTGTTTATCAAAAAATTCCATTACATTTAAACAATCTCCTAATA-G-AAGCAACCATTTCTTTT
129 TCTGTTTGTCAAAAAATTTCATTACATTTAAACAATCTTC-AA-ACGCAAGCAGCCATTTCTTTT
* * * * *
2963661 CATGACATACGATTTGATTACACCTGAATAAGTCATCATCATTGTCACACTTAACTAAGAATTTT
192 CATGACATACGATTTGATGACA-CTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTT
* * * *
2963726 GAAACGATCATAATCTGACTTATTTGATCTGAACTGGTAATTTATGATGACGCCCATCAATTTTT
256 GAAACGATCATAATTTGGCTTATCTGATCTGAAC-GGTAATTTATGATGACGTCCATCAATTTTT
* *
2963791 TAGGCTCTTCAATATCATCATTCCTCTTT-CTCTTCGGTCCATCTAAGTTTGGTAAAACTTTTAC
320 TAAGCTCTTCAATATCATCATTTCT-TTTGCTCTTCGGTCCATCTAAGTTTGGTAAAACTTTTAC
* * * * * * *
2963855 TCGACATTTGGAA-CCTTTCTCGTAATAAACAAATATTTAATTAGGTGTTTT-GTATAAATGTTT
384 CCGACATTCGAAACCCTTCCTCGTAATAAACAAACATTTAATTGGGT-TTTTCGTATAAATGCTT
2963918 TGA
448 TGA
* * * * * *
2963921 CAGCTATTTTTACCCCTTTTTTTAGCCCAAATACAGGCAGTATCTTGAAATATCTCTACAAAATC
1 CAGCTACTTCTACCGC-TTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATC
* * * * *
2963986 CTTCCTAATATCACTAAACCAGCTAGCCCTATTCCTCTATGAACGGCTATGTTCCCAATCACTCT
65 CTT-CTAATATAACTAAACCAGCTAGCCCTACTCCTCTGTGAACGCCTACGTTCCCAATCACTCT
*
2964051 TCTGTTTGTCAAAAAA-TTCTAATACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCTTTTC
129 TCTGTTTGTCAAAAAATTTC-ATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCTTTTC
2964115 ATGACATACGATTTGATGACACCTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTT
193 ATGACATACGATTTGATGACA-CTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTT
2964178 GTACATTCTA
Statistics
Matches: 4164, Mismatches: 517, Indels: 193
0.85 0.11 0.04
Matches are distributed among these distances:
438 110 0.03
439 275 0.07
440 6 0.00
442 1 0.00
446 4 0.00
449 1 0.00
451 2 0.00
452 298 0.07
453 1402 0.34
454 2017 0.48
455 45 0.01
456 3 0.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (450 bp):
CAGCTACTTCTACCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATCC
TTCTAATATAACTAAACCAGCTAGCCCTACTCCTCTGTGAACGCCTACGTTCCCAATCACTCTTC
TGTTTGTCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCTTTTCATG
ACATACGATTTGATGACACTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGAAAC
GATCATAATTTGGCTTATCTGATCTGAACGGTAATTTATGATGACGTCCATCAATTTTTTAAGCT
CTTCAATATCATCATTTCTTTTGCTCTTCGGTCCATCTAAGTTTGGTAAAACTTTTACCCGACAT
TCGAAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTTCGTATAAATGCTTTGA
Found at i:2961935 original size:907 final size:907
Alignment explanation
Indices: 2960498--2964177 Score: 4887
Period size: 907 Copynumber: 4.1 Consensus size: 907
2960488 CAGCCATTTC
* * * *
2960498 TTTACATGACACATAAGTAAGTTATCATCATTGGTATACTTAAGTAAGAACTTTGAAACGATCAT
1 TTTA-ATGACACATGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGAAACGATCAT
* *
2960563 AATCTT-GCTTATCTGATCCGAACGGGTAATTTATGATGACGTTTATCAATTTTTTAAGCTCTTC
65 AAT-TTGGCTTATCTGATCCGAACGTGTAATTTATGATGACGTTCATCAATTTTTTAAGCTCTTC
* * * *
2960627 AATATCATCATTCTTCTTGCTCTTTGGTAC-ATCTAAGTTAGGTAAAACTTTTACTCGACATTCG
129 AATATCATCATTCATCTTGCTCTTCGGT-CTATCTAAGTTTGGTAAAACTTTTACCCGACATTCG
* * *
2960691 AAACCCTTCCTCGTAATAAATAAACATTTAATTGGGTTTTCCGTATAAATGCTTTGACAGCTACT
193 GAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTCCGTATAAATGCTTTGACAACTACT
* * * * *
2960756 TCTA-TCCGCTTTTTTAGCCCAAATATGGGCAGCATTTTGAAATATCTCTATAAAATC-CATCTT
258 TCTACT-CGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATCTC-TCCT
* * * * * * * * *
2960819 ACTATAAC-AAAACAGCTAGCCTTATTCCTCTGTGAACGTCTACGTTCCTAATTACTCTTCTGTT
321 AATATAACTAAACCAGCTAGCCCTACTCCTCTATGAACGCCTACATTCCCAATCACTCTTCTGTT
* * * * *
2960883 TGTCAAAAAATTTCATTACATTTAAATAATCTTCAAATGTAAGCAACCATTTCTTTACATGACAT
386 TGTCAAAAAATTCCATTACATTTAAACAATCTTCAAACGCAAGCAACCATTTCTTTTCATGACAT
*
2960948 ACGATTTGATGACACATGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGAAACGAT
451 ACGATTTGATGACACCTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGAAACGAT
* * *
2961013 CATAATCTTGCTTATCTAATCTGAACGGGTAATTTATGATGACGTCAATCAATTTTTTAAGCAT-
516 CATAATCTGGCTTATCTGATCTGAACGGGTAATTTATGATGACGTCCATCAATTTTTTAAGC-TC
* ** *
2961077 TTCAATATTATCATTCTTCTTGCTCTTCGGTCCATCTAAGAGAGATAAAACTTTTACCCGACATT
580 TTCAATATCATCATTCTTCTTGCTCTTCGGTCCATCTAAGTTAGGTAAAACTTTTACCCGACATT
*
2961142 CGAAACCTTTCCTCGTAATAAACAAACATTTAATTGGGTGTTCCATATAAATGCTTTCACAGCTA
645 CGAAACCTTTCCTCGTAATAAACAAACATTTAATTGGGTGTTCCATATAAATGCTTTGACAGCTA
* * * *
2961207 CTTCTACCTGTTTTTCTAGCCCAAATACGGGTAACATCTTGAAATATCACTACAAAATCACTCCT
710 CTTCTACCCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCACTACAAAATC-CTCCT
** * * *
2961272 AATATAACTCTACCAGCTAGCCCTATTCGTCTGTGAACGCCTACGTTCCCACTCACTCTTCTGTT
774 AATATAACTAAACCAGCTAGCCCTATTCCTCTATGAACGCCTACGTTCCCAATCACTCTTCTGTT
* * * *
2961337 TGTCAAAAAATTTCATTACATTTAAACAATTTTCAAACGCAATCAGCTA-TTCTTTTTCATGACA
839 TGTCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTC-GTTTCATGACA
*
2961401 TACGA
903 TACAA
* ** * * *
2961406 TTTAATGACACCTGAGTAAGTCATCATCATTGTTATACTTAACTAAGAACTTCGAAACCATCATT
1 TTTAATGACACATGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGAAACGATCATA
* ** *
2961471 CTTTGGCTTATCTGATCTAAACGTGTAATTTATGATGATC-TACATCAATTTTTTAAGCTCTTCA
66 ATTTGGCTTATCTGATCCGAACGTGTAATTTATGATGA-CGTTCATCAATTTTTTAAGCTCTTCA
* * *
2961535 ATATCATCATTTC-TCTTGCTCTTTGGTCTATCTAAGTTTGGTAAAAATTTTACCCAACATTCGG
130 ATATCATCA-TTCATCTTGCTCTTCGGTCTATCTAAGTTTGGTAAAACTTTTACCCGACATTCGG
* * * * * *
2961599 AACCCTTCTTTGTAATAAACAAACATTTAATTAGGTTTTCCCTATAAATACTTTTACAACTACTT
194 AACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTCCGTATAAATGCTTTGACAACTACTT
* * * *
2961664 CTACTCGCTTTTCTATCCCAAATACGGGCAGCACCTTAAAATATCTCTATAAAATCTCTCCTAAT
259 CTACTCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATCTCTCCTAAT
* * * * * * *
2961729 ATAACTAAACCAGTTAGCCCTACTCCTTTATGAACACTTACGTTCCCAATTACTCTTCTCTTTGT
324 ATAACTAAACCAGCTAGCCCTACTCCTCTATGAACGCCTACATTCCCAATCACTCTTCTGTTTGT
* * * * *
2961794 CAAAAAATTCCATTACATTTAAACAATTTTCAAACGCAAGTAGCCATTTTTTTTCATGGCATACG
389 CAAAAAATTCCATTACATTTAAACAATCTTCAAACGCAAGCAACCATTTCTTTTCATGACATACG
* *
2961859 ATTTGATGACACTTGAGTAAGTCATCATTATTGGCATACTTAACTAAGAACTTTGAAACGATCAT
454 ATTTGATGACACCTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGAAACGATCAT
* * *
2961924 -ATCTGGCTTATCTGAT-TCAAACGAGTAATTTATGATGACGTCCATCAATTTTTTAAGCTCTTT
519 AATCTGGCTTATCTGATCT-GAACGGGTAATTTATGATGACGTCCATCAATTTTTTAAGCTCTTC
* * * *
2961987 AATATCATTATT-TTCTTGCTCTTCGGTCTATCTAAGTTAGGTAAACCTTTTTACCCGATATTCG
583 AATATCATCATTCTTCTTGCTCTTCGGTCCATCTAAGTTAGGTAAAAC-TTTTACCCGACATTCG
* * *
2962051 AAACCATTCCTTGTAATAAACAAACATTTAATTGGGT-TTCTATATAAATGCTTTGACAGCTACT
647 AAACCTTTCCTCGTAATAAACAAACATTTAATTGGGTGTTCCATATAAATGCTTTGACAGCTACT
* * * * *
2962115 TCTACCCGCTTTACTAGCCCAATTACGGGCAGCATATTGAAATATTACTACAAAATCCCTTCTAA
712 TCTACCCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCACTACAAAAT-CCTCCTAA
* * * * * *
2962180 TATAACTAAACTAGCTAGCTCTATTCCTTTGTGAAAGCCTACGTTCCCAATCACTATTCTGTTTG
776 TATAACTAAACCAGCTAGCCCTATTCCTCTATGAACGCCTACGTTCCCAATCACTCTTCTGTTTG
* *
2962245 TCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGTCATTTCGTTTCATGACATAT
841 TCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCGTTTCATGACATAC
2962310 AA
906 AA
* * * *
2962312 TTTGAA-GACAAATGAGTAAGTCATCATCATTGGCATACTTAACCAAAAACTTTTAAACGATCAT
1 TTT-AATGACACATGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGAAACGATCAT
*
2962376 AATTTGGCTTATCTGATCCGAACAG-GTAATTTATGATGACG-TCTATCAATTTTTTGAGCTCTT
65 AATTTGGCTTATCTGATCCGAAC-GTGTAATTTATGATGACGTTC-ATCAATTTTTTAAGCTCTT
* * *
2962439 CAATATCATCATTCATCTTTCTCTTCGGTCCATCTAAGTTTGGTAAAATTTTTACCCGACATTCG
128 CAATATCATCATTCATCTTGCTCTTCGGTCTATCTAAGTTTGGTAAAACTTTTACCCGACATTCG
* * * *
2962504 GAACCCTTACTCGTAATAAACAAACATTTAATTGGGTTTTTCGTATAAATGCTTTGACAGCTATT
193 GAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTCCGTATAAATGCTTTGACAACTACT
* * * *
2962569 TCAACTCGCTTTTCTAGCCTAAATACGGACAGCATCTTGAAATATCTCTACAAAATCTTTTCC-A
258 TCTACTCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATC-TCTCCTA
* * * *
2962633 ATATAACTAAACCAACTAGCCCTACTCCTCTATGAACGCCTACATTCTCAATCACTTTTTTGTTT
322 ATATAACTAAACCAGCTAGCCCTACTCCTCTATGAACGCCTACATTCCCAATCACTCTTCTGTTT
** *
2962698 GTCAAAAAATTTAATTACATTTAAATAATCTTCAAACGCAAGCAACCATTTCTTTTCATGACATA
387 GTCAAAAAATTCCATTACATTTAAACAATCTTCAAACGCAAGCAACCATTTCTTTTCATGACATA
* * * *
2962763 CGATTTGAAGACTCCTGAGTAAGTCGTCATCATTGGCATGCTTAACTAAGAACTTTGAAACGATC
452 CGATTTGATGACACCTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGAAACGATC
*
2962828 ATAATCTGGCTTATCTGATAC-GAACGGGTAATTTATGATGACGTCCATCAATTTTTAAAGCTCT
517 ATAATCTGGCTTATCTGAT-CTGAACGGGTAATTTATGATGACGTCCATCAATTTTTTAAGCTCT
* * * * *
2962892 TCAATATCATCATTC-TCTTTTCTCTTCGGT-TATCTAAGTTTGGCAAAACTTTTACCCGGCATT
581 TCAATATCATCATTCTTC-TTGCTCTTCGGTCCATCTAAGTTAGGTAAAACTTTTACCCGACATT
* * * * * *
2962955 CGGAACCCTTCCTCATAATAAACAAACATTTAATTGGATTTTCCGTATAAATGCTTTGACAGCTA
645 CGAAACCTTTCCTCGTAATAAACAAACATTTAATTGGGTGTTCCATATAAATGCTTTGACAGCTA
* * * * * * *
2963020 TTTCTACCCGCTTTTCTAGCCTAAATATGGGTAGTATCTTGAAATATCTCTACAAAATTCTTCCT
710 CTTCTACCCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCACTACAAAA-TCCTCCT
* * * * * *
2963085 AATATAACTAAACTAGCTAACCTTATTCCTCTATGAACGCCTACATTCCTAATCACTCTTATGTT
774 AATATAACTAAACCAGCTAGCCCTATTCCTCTATGAACGCCTACGTTCCCAATCACTCTTCTGTT
* * *
2963150 TGTCAAAAAATTCCATTACATTTAAAAAATCTTCAAACGTAAGCAGCCATTTCGTTTCATGACAT
839 TGTCAAAAAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCGTTTCATGACAT
2963215 ACAA
904 ACAA
* * *
2963219 TTTGAAT-ACACATGAGTAAGTCATCATCATTAGCATACTTAACTAAGAACTTTGAATCGATTAT
1 TTT-AATGACACATGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGAAACGATCAT
* *
2963283 AATCTGACTTATCTGATCCGAAC-TGGTAATTTATGATG-CTGTTCATCAATTTTTTAAGCTCTT
65 AATTTGGCTTATCTGATCCGAACGT-GTAATTTATGATGAC-GTTCATCAATTTTTTAAGCTCTT
* * *
2963346 TAATATCATCATTTATCTTTCTCTTCGGTCTATCTAAGTTTGGTAAAACTTTTACCCGACATTCG
128 CAATATCATCATTCATCTTGCTCTTCGGTCTATCTAAGTTTGGTAAAACTTTTACCCGACATTCG
*
2963411 GAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTTCGTATAAATGCTTTGACAACTACT
193 GAACCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTCCGTATAAATGCTTTGACAACTACT
* * * * *
2963476 TCTACCCGCTTTTCTAGCTCAAATACGGGCAGTATCTTGAATTATCTCTACAAAATCCCTCCTAA
258 TCTACTCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATCTCTCCTAA
* * * *
2963541 TATAACTAAACCAGCTAGCCCTACTCCTCTGTGAATGCCTACATTCCCAATCACTATTCTGTTTA
323 TATAACTAAACCAGCTAGCCCTACTCCTCTATGAACGCCTACATTCCCAATCACTCTTCTGTTTG
*
2963606 TCAAAAAATTCCATTACATTTAAACAATCTCCTAATA-G-AAGCAACCATTTCTTTTCATGACAT
388 TCAAAAAATTCCATTACATTTAAACAATCTTC-AA-ACGCAAGCAACCATTTCTTTTCATGACAT
* * * * *
2963669 ACGATTTGATTACACCTGAATAAGTCATCATCATTGTCACACTTAACTAAGAATTTTGAAACGAT
451 ACGATTTGATGACACCTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGAAACGAT
* * * * *
2963734 CATAATCTGACTTATTTGATCTGAACTGGTAATTTATGATGACGCCCATCAATTTTTTAGGCTCT
516 CATAATCTGGCTTATCTGATCTGAACGGGTAATTTATGATGACGTCCATCAATTTTTTAAGCTCT
* * * * *
2963799 TCAATATCATCATTCCTCTTTCTCTTCGGTCCATCTAAGTTTGGTAAAACTTTTACTCGACATTT
581 TCAATATCATCATTCTTCTTGCTCTTCGGTCCATCTAAGTTAGGTAAAACTTTTACCCGACATTC
* * * *** * *
2963864 GGAACCTTT-CTCGTAATAAACAAATATTTAATTAGGTGTTTTGTATAAATGTTTTGACAGCTAT
646 GAAACCTTTCCTCGTAATAAACAAACATTTAATTGGGTGTTCCATATAAATGCTTTGACAGCTAC
* * * * *
2963928 TTTTACCC-CTTTTTTTAGCCCAAATACAGGCAGTATCTTGAAATATCTCTACAAAATCCTTCCT
711 TTCTACCCGC-TTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCACTACAAAATCC-TCCT
* * *
2963992 AATATCACTAAACCAGCTAGCCCTATTCCTCTATGAACGGCTATGTTCCCAATCACTCTTCTGTT
774 AATATAACTAAACCAGCTAGCCCTATTCCTCTATGAACGCCTACGTTCCCAATCACTCTTCTGTT
* *
2964057 TGTCAAAAAA-TTCTAATACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCTTTTCATGACA
839 TGTCAAAAAATTTC-ATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCGTTTCATGACA
*
2964121 TACGA
903 TACAA
* *
2964126 TTTGATGACACCTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTT
1 TTTAATGACACATGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTT
2964178 GTACATTCTA
Statistics
Matches: 2432, Mismatches: 300, Indels: 81
0.86 0.11 0.03
Matches are distributed among these distances:
905 5 0.00
906 721 0.30
907 1473 0.61
908 232 0.10
909 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (907 bp):
TTTAATGACACATGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGAAACGATCATA
ATTTGGCTTATCTGATCCGAACGTGTAATTTATGATGACGTTCATCAATTTTTTAAGCTCTTCAA
TATCATCATTCATCTTGCTCTTCGGTCTATCTAAGTTTGGTAAAACTTTTACCCGACATTCGGAA
CCCTTCCTCGTAATAAACAAACATTTAATTGGGTTTTCCGTATAAATGCTTTGACAACTACTTCT
ACTCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCTCTACAAAATCTCTCCTAATAT
AACTAAACCAGCTAGCCCTACTCCTCTATGAACGCCTACATTCCCAATCACTCTTCTGTTTGTCA
AAAAATTCCATTACATTTAAACAATCTTCAAACGCAAGCAACCATTTCTTTTCATGACATACGAT
TTGATGACACCTGAGTAAGTCATCATCATTGGCATACTTAACTAAGAACTTTGAAACGATCATAA
TCTGGCTTATCTGATCTGAACGGGTAATTTATGATGACGTCCATCAATTTTTTAAGCTCTTCAAT
ATCATCATTCTTCTTGCTCTTCGGTCCATCTAAGTTAGGTAAAACTTTTACCCGACATTCGAAAC
CTTTCCTCGTAATAAACAAACATTTAATTGGGTGTTCCATATAAATGCTTTGACAGCTACTTCTA
CCCGCTTTTCTAGCCCAAATACGGGCAGCATCTTGAAATATCACTACAAAATCCTCCTAATATAA
CTAAACCAGCTAGCCCTATTCCTCTATGAACGCCTACGTTCCCAATCACTCTTCTGTTTGTCAAA
AAATTTCATTACATTTAAACAATCTTCAAACGCAAGCAGCCATTTCGTTTCATGACATACAA
Found at i:2971428 original size:21 final size:21
Alignment explanation
Indices: 2971399--2971460 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
2971389 AAACTTAAAC
*
2971399 TTAATTTTATAATG-AAAATAT
1 TTAAATTTA-AATGTAAAATAT
*
2971420 TTAAATTTAACTGTAAAATAT
1 TTAAATTTAAATGTAAAATAT
* *
2971441 ATAAATATTAATATTTAAAA
1 TTAAAT-TTAA-ATGTAAAA
2971461 AATTATATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 3 0.09
21 20 0.61
22 4 0.12
23 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (21 bp):
TTAAATTTAAATGTAAAATAT
Found at i:2980782 original size:7 final size:7
Alignment explanation
Indices: 2980772--2980803 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
2980762 ATGAATGACC
2980772 ATGATTG
1 ATGATTG
2980779 ATGATTG
1 ATGATTG
2980786 ATGATTG
1 ATGATTG
2980793 ATGATTG
1 ATGATTG
2980800 ATGA
1 ATGA
2980804 ACCATATGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (7 bp):
ATGATTG
Found at i:2983798 original size:17 final size:18
Alignment explanation
Indices: 2983776--2983814 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
2983766 TAAATTTTAA
*
2983776 TTAAAA-TATTTTAAAAT
1 TTAAAATTAATTTAAAAT
2983793 TTAAAATTAATTTAAAAT
1 TTAAAATTAATTTAAAAT
2983811 TTAA
1 TTAA
2983815 TTTGAGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAAAATTAATTTAAAAT
Found at i:2985839 original size:23 final size:23
Alignment explanation
Indices: 2985804--2985851 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2985794 GTACTCAATG
* *
2985804 TAATTTATGTTGTTTGATAAAAT
1 TAATTAATCTTGTTTGATAAAAT
**
2985827 TAATTAATCTTGTTTTTTAAAAT
1 TAATTAATCTTGTTTGATAAAAT
2985850 TA
1 TA
2985852 TTTATTCCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.54
Consensus pattern (23 bp):
TAATTAATCTTGTTTGATAAAAT
Found at i:2987579 original size:130 final size:131
Alignment explanation
Indices: 2987432--2987702 Score: 411
Period size: 130 Copynumber: 2.1 Consensus size: 131
2987422 TCCATGAAAC
** * *
2987432 TAAAAAATAGATGTTGTAATGAACTTAAATTTAACAAATACTTGGATCTGAATTTTAAAATCTGA
1 TAAAAAATAGACATTGTAATGAACTTAAATTTAACAAATAATTAGATCTGAATTTTAAAATCTGA
* * * * **
2987497 AAAA-TAAAGGTATTAAATTTCAAATTTATGAAAAAAT-ACAAAAACTTATGGCATATCTTAATC
66 AAAACAAAAGG-ACTAAATTTCAAATTTATAAAAAAATAAAAAAAACTTATAACATATCTTAATC
2987560 AT
130 AT
*
2987562 TAAAAAATAGACATTGTAATGAACTTAAATTTAATAAATAATTAGATCTGAATTTTAAAATCTGA
1 TAAAAAATAGACATTGTAATGAACTTAAATTTAACAAATAATTAGATCTGAATTTTAAAATCTGA
2987627 AAAACAAAAGGACTAAATTTCAAATTTATAAAAAAATAAAAAAAACTTATAACATATCTTAATCA
66 AAAACAAAAGGACTAAATTTCAAATTTATAAAAAAATAAAAAAAACTTATAACATATCTTAATCA
2987692 T
131 T
2987693 TAAAGAAATA
1 TAAA-AAATA
2987703 ATTGAAATTA
Statistics
Matches: 127, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
130 88 0.69
131 34 0.27
132 5 0.04
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (131 bp):
TAAAAAATAGACATTGTAATGAACTTAAATTTAACAAATAATTAGATCTGAATTTTAAAATCTGA
AAAACAAAAGGACTAAATTTCAAATTTATAAAAAAATAAAAAAAACTTATAACATATCTTAATCA
T
Found at i:2988692 original size:4 final size:4
Alignment explanation
Indices: 2988683--2988711 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
2988673 ATGTTATGTA
2988683 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
2988712 GAGAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:3002228 original size:17 final size:17
Alignment explanation
Indices: 3002206--3002255 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
3002196 AATTTTAAAT
3002206 ATATATTTTATTATTTA
1 ATATATTTTATTATTTA
* *
3002223 ATATATGTTATT-TTAAA
1 ATATATTTTATTATT-TA
3002240 ATATATATTTA-TATTT
1 ATATAT-TTTATTATTT
3002256 TAAATTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
16 2 0.08
17 19 0.73
18 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
ATATATTTTATTATTTA
Found at i:3002260 original size:19 final size:19
Alignment explanation
Indices: 3002197--3002260 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
3002187 TAATTAATTA
3002197 ATTTTAAATATATATTT-T
1 ATTTTAAATATATATTTAT
* *
3002215 ATTATTTAATATAT-GTTAT
1 ATT-TTAAATATATATTTAT
*
3002234 -TTTAAAATATATATTTAT
1 ATTTTAAATATATATTTAT
3002252 ATTTTAAAT
1 ATTTTAAAT
3002261 TTAATATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
17 8 0.22
18 11 0.31
19 17 0.47
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTTAAATATATATTTAT
Found at i:3002269 original size:34 final size:35
Alignment explanation
Indices: 3002166--3002270 Score: 83
Period size: 34 Copynumber: 2.9 Consensus size: 35
3002156 TTTATTATCG
*
3002166 TATATATTTTA-TATGTTATTATAATTAATTAATTTTAAA
1 TATATATTTTATTAT-TTAATAT-A-TAA-T-ATTTTAAA
**
3002205 TATATATTTTATTATTTAATATATGTTATTTTAAA
1 TATATATTTTATTATTTAATATATAATATTTTAAA
*
3002240 -ATATATATTTA-TATTTTAA-ATTTAATATTTT
1 TATATAT-TTTATTA-TTTAATATATAATATTTT
3002271 TACATGCATA
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
34 17 0.30
35 17 0.30
36 1 0.02
37 1 0.02
38 1 0.02
39 17 0.30
40 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (35 bp):
TATATATTTTATTATTTAATATATAATATTTTAAA
Found at i:3004491 original size:8 final size:8
Alignment explanation
Indices: 3004423--3004501 Score: 53
Period size: 8 Copynumber: 10.1 Consensus size: 8
3004413 TATTTTTATA
*
3004423 TAATTTTT
1 TAATATTT
3004431 TAATAATTT
1 TAAT-ATTT
3004440 TAATAATTT
1 TAAT-ATTT
* *
3004449 TTATTTTT
1 TAATATTT
3004457 TGAAT-TTAT
1 T-AATATT-T
3004466 TAA-ATTT
1 TAATATTT
3004473 TAATA---
1 TAATATTT
3004478 TAATATTT
1 TAATATTT
3004486 TAATATTT
1 TAATATTT
3004494 T-ATATTT
1 TAATATTT
3004501 T
1 T
3004502 TTTAAGATGA
Statistics
Matches: 59, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
5 5 0.08
7 11 0.19
8 24 0.41
9 19 0.32
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (8 bp):
TAATATTT
Found at i:3004505 original size:31 final size:31
Alignment explanation
Indices: 3004470--3004542 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
3004460 ATTTATTAAA
*
3004470 TTTTAATATAATATTTTAATATT-TTATATTT
1 TTTTAAGATAATATTTTAAT-TTCTTATATTT
* *
3004501 TTTTAAGATGATTTTTTAATTTCTTATAATTAT
1 TTTTAAGATAATATTTTAATTTCTTAT-ATT-T
*
3004534 TGTTAAGAT
1 TTTTAAGAT
3004543 TTAAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 2 0.06
31 21 0.60
32 3 0.09
33 9 0.26
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.60
Consensus pattern (31 bp):
TTTTAAGATAATATTTTAATTTCTTATATTT
Found at i:3006595 original size:15 final size:16
Alignment explanation
Indices: 3006574--3006620 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 16
3006564 TATACTACAA
3006574 AATATTTATTATTAAT
1 AATATTTATTATTAAT
*
3006590 -ATATTTATAATTGTAAT
1 AATATTTATTA-T-TAAT
3006607 AAATATTTATTATT
1 -AATATTTATTATT
3006621 TGTAACACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 9 0.36
16 1 0.04
17 5 0.20
18 1 0.04
19 9 0.36
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
AATATTTATTATTAAT
Found at i:3008440 original size:29 final size:30
Alignment explanation
Indices: 3008381--3008438 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3008371 TCCGAGCCTT
*
3008381 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
3008411 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
3008439 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:3008668 original size:13 final size:13
Alignment explanation
Indices: 3008650--3008681 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3008640 TTTCCAGCAA
3008650 TTATGAATTTATT
1 TTATGAATTTATT
3008663 TTATGAATTTATT
1 TTATGAATTTATT
*
3008676 TGATGA
1 TTATGA
3008682 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:3008889 original size:50 final size:50
Alignment explanation
Indices: 3008776--3009017 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
3008766 ATTTGGGTAA
* * *
3008776 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
3008832 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3008882 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3008932 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
3008982 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
3009018 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:3008965 original size:100 final size:103
Alignment explanation
Indices: 3008776--3009025 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
3008766 ATTTGGGTAA
3008776 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
3008841 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
3008882 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
3008944 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
3008982 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
3009026 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:3018834 original size:29 final size:30
Alignment explanation
Indices: 3018775--3018832 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3018765 TCCGAGCCTT
*
3018775 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
3018805 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
3018833 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:3019062 original size:13 final size:13
Alignment explanation
Indices: 3019044--3019075 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3019034 TTTCCAGCAA
3019044 TTATGAATTTATT
1 TTATGAATTTATT
3019057 TTATGAATTTATT
1 TTATGAATTTATT
*
3019070 TGATGA
1 TTATGA
3019076 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:3019283 original size:50 final size:50
Alignment explanation
Indices: 3019170--3019411 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
3019160 ATTTGGGTAA
* * *
3019170 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
3019226 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3019276 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3019326 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
3019376 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
3019412 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:3019359 original size:100 final size:103
Alignment explanation
Indices: 3019170--3019419 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
3019160 ATTTGGGTAA
3019170 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
3019235 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
3019276 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
3019338 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
3019376 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
3019420 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:3020784 original size:7 final size:7
Alignment explanation
Indices: 3020774--3020810 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
3020764 CCACTTATCA
3020774 CTTGTCG
1 CTTGTCG
3020781 CTTGTCG
1 CTTGTCG
3020788 CTTGTCG
1 CTTGTCG
3020795 CTTGTCG
1 CTTGTCG
*
3020802 CTTATCG
1 CTTGTCG
3020809 CT
1 CT
3020811 GATCAGATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.03, C:0.30, G:0.24, T:0.43
Consensus pattern (7 bp):
CTTGTCG
Found at i:3031549 original size:51 final size:51
Alignment explanation
Indices: 3031475--3031588 Score: 174
Period size: 51 Copynumber: 2.2 Consensus size: 51
3031465 CTGATCACAT
* *
3031475 TTATCACTTGTCATTGATTAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
3031526 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
3031577 TTGTCGCTTGTC
1 TTATCACTTGTC
3031589 GCTTGTCGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:3031576 original size:7 final size:7
Alignment explanation
Indices: 3031566--3031619 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
3031556 GCTAAAGCTA
*
3031566 TCACTTA
1 TCACTTG
3031573 TCACTTG
1 TCACTTG
*
3031580 TCGCTTG
1 TCACTTG
*
3031587 TCGCTTG
1 TCACTTG
*
3031594 TCGCTTG
1 TCACTTG
3031601 TCACTTG
1 TCACTTG
*
3031608 TCACTTA
1 TCACTTG
3031615 TCACT
1 TCACT
3031620 GATCAGATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.13, C:0.30, G:0.15, T:0.43
Consensus pattern (7 bp):
TCACTTG
Found at i:3033651 original size:16 final size:16
Alignment explanation
Indices: 3033627--3033671 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
3033617 ATAATATGTG
*
3033627 AATAATATTATTTAAA
1 AATATTATTATTTAAA
3033643 AATATTATT-TTT-AA
1 AATATTATTATTTAAA
3033657 AAT-TTATTA-TTAAA
1 AATATTATTATTTAAA
3033671 A
1 A
3033672 TAAAATTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 7 0.27
14 8 0.31
15 3 0.12
16 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATATTATTATTTAAA
Found at i:3033663 original size:13 final size:14
Alignment explanation
Indices: 3033630--3033673 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
3033620 ATATGTGAAT
*
3033630 AATATTATT-TAAA
1 AATATTATTATTAA
*
3033643 AATATTATTTTTAA
1 AATATTATTATTAA
3033657 AAT-TTATTATTAA
1 AATATTATTATTAA
3033670 AATA
1 AATA
3033674 AAATTGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 21 0.78
14 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:3033726 original size:16 final size:17
Alignment explanation
Indices: 3033682--3033727 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
3033672 TAAAATTGAA
*
3033682 ATATTAAATTAT-TTATT
1 ATATT-AATTATATTAAT
*
3033699 ATATTAACTATATTAAT
1 ATATTAATTATATTAAT
3033716 A-ATTAATTATAT
1 ATATTAATTATAT
3033728 GACTAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATTAATTATATTAAT
Found at i:3036598 original size:17 final size:18
Alignment explanation
Indices: 3036576--3036609 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3036566 CATTTAGTGA
3036576 AAAAAT-ATTATAAAATT
1 AAAAATAATTATAAAATT
*
3036593 AAAAATAATTCTAAAAT
1 AAAAATAATTATAAAAT
3036610 GAATTGTGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATAATTATAAAATT
Found at i:3052479 original size:3 final size:3
Alignment explanation
Indices: 3052471--3052502 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3052461 TACTGGTTAG
3052471 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
3052503 TTCGATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:3067223 original size:18 final size:18
Alignment explanation
Indices: 3067197--3067231 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3067187 TGAAATATGT
3067197 ATAAACCCAAAACAAATC
1 ATAAACCCAAAACAAATC
*
3067215 ATAAGCCCAAAACAAAT
1 ATAAACCCAAAACAAAT
3067232 GACGAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.26, G:0.03, T:0.11
Consensus pattern (18 bp):
ATAAACCCAAAACAAATC
Found at i:3068408 original size:30 final size:32
Alignment explanation
Indices: 3068368--3068433 Score: 93
Period size: 30 Copynumber: 2.1 Consensus size: 32
3068358 TGTTAATAGT
*
3068368 TAGACCTAAATT-TTGAAATTTAAAA-AGTACA
1 TAGACCTAAATTCTT-AAATTAAAAAGAGTACA
3068399 TAGA-CTAAATTCTTAAATTAAAAAGAGTACA
1 TAGACCTAAATTCTTAAATTAAAAAGAGTACA
3068430 TAGA
1 TAGA
3068434 TTTATGATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (32 bp):
TAGACCTAAATTCTTAAATTAAAAAGAGTACA
Found at i:3071229 original size:22 final size:22
Alignment explanation
Indices: 3071203--3071277 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
3071193 TATAAAATAG
*
3071203 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
3071225 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
**
3071250 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
*
3071272 AGATAA
1 ATATAA
3071278 CATGTAGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 23 0.55
25 19 0.45
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:3071247 original size:25 final size:25
Alignment explanation
Indices: 3071209--3071330 Score: 74
Period size: 25 Copynumber: 4.9 Consensus size: 25
3071199 ATAGATATAA
**
3071209 AAAAAATATGTACATAATATAGTGT
1 AAAAAATACATACATAATATAGTGT
*
3071234 AAAAAATACATACATAATATAAT-T
1 AAAAAATACATACATAATATAGTGT
* *
3071258 AAAATATATACATAAGATAACAT-GTAG-
1 AAAA-A-ATACAT-ACATAATATAGT-GT
* *
3071285 AAAAAA-AAATA-ATAATATAGTAT
1 AAAAAATACATACATAATATAGTGT
* * * *
3071308 TAAAGATATATACATAAAATAGT
1 AAAAAATACATACATAATATAGT
3071331 ATAATATATA
Statistics
Matches: 75, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
22 6 0.08
23 7 0.09
24 12 0.16
25 31 0.41
26 8 0.11
27 11 0.15
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (25 bp):
AAAAAATACATACATAATATAGTGT
Found at i:3071734 original size:16 final size:16
Alignment explanation
Indices: 3071696--3071734 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3071686 ATCTCCAAAA
*
3071696 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
3071712 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
3071728 AATAACT
1 AAAAACT
3071735 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:3071929 original size:30 final size:30
Alignment explanation
Indices: 3071892--3071990 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
3071882 TAGGTACAAG
*
3071892 TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
3071922 AGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
3071952 TGGTGGTAGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
3071982 TGGTGGTGG
1 TGGTGGTGG
3071991 CAAATGCTAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.18, C:0.06, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:3072766 original size:14 final size:13
Alignment explanation
Indices: 3072747--3072788 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
3072737 TTGATTTTTT
3072747 TTAAAACACAGAAA
1 TTAAAA-ACAGAAA
3072761 TTAAAAAACAGAAA
1 TT-AAAAACAGAAA
*
3072775 CTAAAAACA-AAA
1 TTAAAAACAGAAA
3072787 TT
1 TT
3072789 TGAGAAGACC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 4 0.16
13 7 0.28
14 10 0.40
15 4 0.16
ACGTcount: A:0.67, C:0.12, G:0.05, T:0.17
Consensus pattern (13 bp):
TTAAAAACAGAAA
Found at i:3073210 original size:17 final size:17
Alignment explanation
Indices: 3073165--3073209 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
3073155 GAAAAATGAG
3073165 AATTTTGAAAACACGAA
1 AATTTTGAAAACACGAA
3073182 AATTTTGAAAACACGAA
1 AATTTTGAAAACACGAA
3073199 AATTTTTGAAA
1 AA-TTTTGAAA
3073210 CCTGAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (17 bp):
AATTTTGAAAACACGAA
Found at i:3073830 original size:15 final size:17
Alignment explanation
Indices: 3073810--3073841 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
3073800 TTAGGAAACG
3073810 TACATAA-A-AAATATA
1 TACATAATATAAATATA
3073825 TACATAATATAAATATA
1 TACATAATATAAATATA
3073842 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:3076067 original size:72 final size:72
Alignment explanation
Indices: 3075738--3076365 Score: 817
Period size: 72 Copynumber: 8.5 Consensus size: 72
3075728 GTGATCTGAA
*
3075738 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAATTACCTCAGC
**
3075803 ATGTGAACCGAG
63 --GTGTCCCGAG
* * * *
3075815 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAATTACCTCAGCG
**
3075880 TGTCTTGAG
64 TGTCCCGAG
** *
3075889 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
3075954 T-CCGAG
66 TCCCGAG
3075960 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
3076025 TCCCGAG
66 TCCCGAG
*
3076032 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
3076097 TCCCGAG
66 TCCCGAG
* * *
3076104 GCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAACAAAAATTGAAAGTACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTG-AAAACAGAAATTGAAATTACCTC
* **
3076169 AGCATGTCTTGAG
60 AGCGTGTCCCGAG
** *
3076182 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
3076247 TCCTGAG
66 TCCCGAG
* ** * *
3076254 GCTCAACTAATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAAATTACCTCAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA-AACAGAAATTG-AAATTACCTCAG
* *
3076319 TGTGTCCTGAG
62 CGTGTCCCGAG
3076330 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
3076366 TTGAAAAATA
Statistics
Matches: 496, Mismatches: 43, Indels: 26
0.88 0.08 0.05
Matches are distributed among these distances:
71 66 0.13
72 198 0.40
73 5 0.01
74 38 0.08
75 16 0.03
76 69 0.14
77 46 0.09
78 58 0.12
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
TCCCGAG
Found at i:3076475 original size:70 final size:71
Alignment explanation
Indices: 3076388--3076524 Score: 215
Period size: 70 Copynumber: 1.9 Consensus size: 71
3076378 AATTGAAAAG
3076388 CAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTC-CAATATGAGTTGATT
1 CAGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
3076451 TTTGACA
65 TTTGACA
* ** *
3076458 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
3076523 TT
66 TT
3076525 TGAAAAATAG
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
70 42 0.69
71 19 0.31
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (71 bp):
CAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTGACA
Found at i:3076600 original size:86 final size:85
Alignment explanation
Indices: 3076455--3076615 Score: 243
Period size: 86 Copynumber: 1.9 Consensus size: 85
3076445 TTGATTTTTG
* * * ** *
3076455 ACACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGA
1 ACACAAAAATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
3076520 TTTTTTGAAAAATAGATTGAA
66 -TTTTTGAAAAATAGATTGAA
3076541 ACACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 ACACAAAAATTGA-AATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
3076605 ATTTTTGAAAA
65 ATTTTTGAAAA
3076616 CAGAAATTGA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
85 10 0.15
86 56 0.82
87 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (85 bp):
ACACAAAAATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAAAAATAGATTGAA
Found at i:3076664 original size:72 final size:73
Alignment explanation
Indices: 3076536--3076898 Score: 480
Period size: 72 Copynumber: 4.9 Consensus size: 73
3076526 GAAAAATAGA
* * *
3076536 TTGAAACACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAA-ACAGAAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
3076600 AGTTGA-TTT
64 AGTTGATTTT
*
3076609 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
3076674 TTGATTTTTTT
66 TTGA---TTTT
* * * * **
3076685 TTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
3076750 GTTGA-ATT
65 GTTGATTTT
* **
3076758 TTGAAAACAGAAATTGAAATTACATCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
3076823 TTGATTTTT
66 TTGA-TTTT
* *
3076832 TTTAACAACAGAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATGTG
1 TTGAA-AACAGAAATTG-AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
3076897 AG
64 AG
3076899 CAGAAATTGA
Statistics
Matches: 259, Mismatches: 21, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
71 2 0.01
72 119 0.46
73 11 0.04
74 6 0.02
75 11 0.04
76 51 0.20
77 59 0.23
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:3076931 original size:58 final size:59
Alignment explanation
Indices: 3076840--3076956 Score: 182
Period size: 58 Copynumber: 2.0 Consensus size: 59
3076830 TTTTTAACAA
* *
3076840 CAGAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATGTGAG
1 CAGAAATTGAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
3076899 CAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGGAATATGAG
1 CAGAAATTGAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
3076957 TTGATTTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 40 0.75
59 13 0.25
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (59 bp):
CAGAAATTGAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
Found at i:3077018 original size:71 final size:72
Alignment explanation
Indices: 3076902--3077205 Score: 400
Period size: 71 Copynumber: 4.1 Consensus size: 72
3076892 ATGTGAGCAG
* * *
3076902 AAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGGAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
3076966 GAAAAAT
66 GAAAAAT
* *
3076973 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
3077037 GACAAACAT
66 GA-AAA-AT
* *
3077046 AAATTGAAATTACCTCAGCGTGTTACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTG-T-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---T
3077111 TTTTTGAAGGACAA-
61 TTTTTGAA--A-AAT
* *
3077125 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
3077190 GAAACAT
66 GAAAAAT
3077197 AAATT-AAAA
1 AAATTGAAAA
3077206 CACAAAAATT
Statistics
Matches: 209, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
71 66 0.32
72 9 0.04
73 23 0.11
74 9 0.04
75 36 0.17
77 34 0.16
78 2 0.01
79 27 0.13
80 2 0.01
81 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (72 bp):
AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAAAT
Found at i:3077170 original size:152 final size:143
Alignment explanation
Indices: 3076902--3077205 Score: 407
Period size: 152 Copynumber: 2.1 Consensus size: 143
3076892 ATGTGAGCAG
* * *
3076902 AAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGGAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
3076967 AAAAATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
66 AAAAATAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
3077032 -TTTTTGACAAACAT
131 TTTTTTG--AAACAT
* *
3077046 AAATTGAAATTACCTCAGCGTGTTACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTG-T-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----
* * *
3077111 TTTTTGAAGGACAA-AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGTAAT
60 TTTTTGAA--A-AATAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAAT
3077175 ATGAGTTGATTTTTTGAAACAT
122 ATGAGTTGATTTTTTGAAACAT
3077197 AAATT-AAAA
1 AAATTGAAAA
3077206 CACAAAAATT
Statistics
Matches: 140, Mismatches: 10, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
144 20 0.14
145 1 0.01
146 33 0.24
150 11 0.08
151 11 0.08
152 56 0.40
153 8 0.06
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (143 bp):
AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAATAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTGAAACAT
Found at i:3077270 original size:86 final size:86
Alignment explanation
Indices: 3077121--3077364 Score: 262
Period size: 86 Copynumber: 2.8 Consensus size: 86
3077111 TTTTTGAAGG
* ** * *
3077121 ACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATT
1 ACAAAAATTG-AAATACCTCAGCGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
3077186 TTTTG-AAACATAAATT-AAAA
65 TTTTGAAAACATAAATTGAAAA
* * *
3077206 CACAAAAATTGACAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGA-
1 -ACAAAAATTGA-AATACCTCAGCGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
3077270 TTTTTGAAAAACATAAATTGAAAA
64 TTTTTG-AAAACATAAATTGAAAA
*** * * *
3077294 ATGGAAATCGTAAATACCTC-GTCATGAGACCTGAGGTTCAACTCACCTCTCGCAATATGAGTTG
1 ACAAAAATTG-AAATACCTCAG-CGT-A-ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
3077358 ATTTTTT
62 ATTTTTT
3077365 TTGATGAACA
Statistics
Matches: 133, Mismatches: 16, Indels: 14
0.82 0.10 0.09
Matches are distributed among these distances:
85 7 0.05
86 55 0.41
87 27 0.20
88 6 0.05
89 33 0.25
90 5 0.04
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (86 bp):
ACAAAAATTGAAATACCTCAGCGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTGAAAACATAAATTGAAAA
Found at i:3085539 original size:12 final size:12
Alignment explanation
Indices: 3085517--3085552 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
3085507 ATGGGATATC
*
3085517 AATGAATGAATG
1 AATGCATGAATG
*
3085529 GATGCATGAATG
1 AATGCATGAATG
3085541 AATGCATGAATG
1 AATGCATGAATG
3085553 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:3114120 original size:19 final size:19
Alignment explanation
Indices: 3114098--3114141 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
3114088 AAACATTCAG
3114098 TTTCAAAAAATATTCGTGT
1 TTTCAAAAAATATTCGTGT
*
3114117 TTTC--AAAATTTTCGTGT
1 TTTCAAAAAATATTCGTGT
3114134 TTT-AAAAA
1 TTTCAAAAA
3114142 TTCTCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 15 0.68
18 3 0.14
19 4 0.18
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTCAAAAAATATTCGTGT
Found at i:3114143 original size:17 final size:17
Alignment explanation
Indices: 3114103--3114143 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
3114093 TTCAGTTTCA
*
3114103 AAAAATATTCGTGTTTT
1 AAAAATTTTCGTGTTTT
*
3114120 CAAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTT
3114137 AAAAATT
1 AAAAATT
3114144 CTCATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTT
Found at i:3115520 original size:18 final size:17
Alignment explanation
Indices: 3115487--3115525 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
3115477 TTGTATAAAT
3115487 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
3115505 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
3115522 TGTG
1 TGTG
3115526 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:3115778 original size:23 final size:23
Alignment explanation
Indices: 3115751--3115847 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
3115741 AGTGTTATTG
3115751 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
3115774 TTCAGTGGTAGCTTTGGCTAC--
1 ATCAGTGGTAGCTTCGGCTACAT
3115795 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
3115818 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
3115841 ATCAGTG
1 ATCAGTG
3115848 TGGCACTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
21 19 0.28
23 49 0.72
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:3115814 original size:44 final size:44
Alignment explanation
Indices: 3115751--3115840 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
3115741 AGTGTTATTG
* *
3115751 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTAC
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
3115795 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
3115839 AT
1 AT
3115841 ATCAGTGTGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (44 bp):
ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
Found at i:3122881 original size:18 final size:17
Alignment explanation
Indices: 3122848--3122886 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
3122838 TTGTATAAAT
3122848 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
3122866 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
3122883 TGTG
1 TGTG
3122887 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:3123139 original size:23 final size:23
Alignment explanation
Indices: 3123112--3123209 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
3123102 AGTGTTATTG
3123112 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
3123135 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
3123158 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
3123180 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
3123203 ATCAGTG
1 ATCAGTG
3123210 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:3123178 original size:45 final size:45
Alignment explanation
Indices: 3123114--3123202 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
3123104 TGTTATTGAT
* *
3123114 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
3123159 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
3123203 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:3125155 original size:23 final size:23
Alignment explanation
Indices: 3125129--3125179 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
3125119 GCAGTTCAAA
* *
3125129 GCAATGCACTCTAACACTTCGAT
1 GCAATGAACTCAAACACTTCGAT
* * *
3125152 GCAATTAATTCAAATACTTCGAT
1 GCAATGAACTCAAACACTTCGAT
3125175 GCAAT
1 GCAAT
3125180 TCATTCTGAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (23 bp):
GCAATGAACTCAAACACTTCGAT
Found at i:3135813 original size:32 final size:32
Alignment explanation
Indices: 3135777--3135837 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
3135767 AATGCACCGT
*
3135777 CAAATCAGGTACCTTAAAGATAGGTTGCCTTG
1 CAAATCAGGTACCCTAAAGATAGGTTGCCTTG
3135809 CAAATCAGGTACCCTAAAGATAGGTTGCC
1 CAAATCAGGTACCCTAAAGATAGGTTGCC
3135838 ATATTGTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (32 bp):
CAAATCAGGTACCCTAAAGATAGGTTGCCTTG
Found at i:3151818 original size:44 final size:44
Alignment explanation
Indices: 3151734--3151822 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
3151724 CTTTTCCAAT
** * *
3151734 CTTCAATCTTCAGTCTGCTTCCTTGCTGCCTCAGGAAGATAAGA
1 CTTCAATCTTCAACCTGCTTCCTTGCTACCTCAAGAAGATAAGA
*
3151778 CTTCAATCTTCAACCTGCTTTCTTGCTACCTCAA-AGAGATAAGA
1 CTTCAATCTTCAACCTGCTTCCTTGCTACCTCAAGA-AGATAAGA
3151822 C
1 C
3151823 CTTGAGTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.03
44 38 0.97
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (44 bp):
CTTCAATCTTCAACCTGCTTCCTTGCTACCTCAAGAAGATAAGA
Found at i:3151900 original size:147 final size:147
Alignment explanation
Indices: 3151633--3152018 Score: 526
Period size: 147 Copynumber: 2.6 Consensus size: 147
3151623 AAAATAAAAC
* * * *
3151633 TCAATCTTCAACCTACTCTCTTGCTACTTCAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCAT
1 TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGCCTTGGAGCTTAAATCTGCTCCAT
** * * * * *
3151698 TGCGGATACATGGAGATAAGATTTGCCTTTTCCAATCTTCAATCTTCAGTCTGCTTCCTTGCTGC
66 TGCGGATACATAAAGATAAGATTCGCCTCTTCCAACCTTCAATCTTCAATCTGCTTCCTTGCTAC
3151763 CTCAGGAAGATAAGACT
131 CTCAGGAAGATAAGACT
* * *
3151780 TCAATCTTCAACCTGCTTTCTTGCTACCTCAAAGAGATAAGACCTT-GAGTTTAAATCTGCTCCA
1 TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG-CCTTGGAGCTTAAATCTGCTCCA
*
3151844 TTGTCGG-TATATAAAGATAAGATTCGCCTCTTCCAACCTTCAATCTTCAATCTGCTTCCTTGCT
65 TTG-CGGATACATAAAGATAAGATTCGCCTCTTCCAACCTTCAATCTTCAATCTGCTTCCTTGCT
*
3151908 ACCTCAGGAAGTTAAGACT
129 ACCTCAGGAAGATAAGACT
* * *
3151927 TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGC-TGGTGGCTAAAATCTGCTCCA
1 TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGCCTTGG-AGCTTAAATCTGCTCCA
* **
3151991 TTGCCGATACATGGAGATAAGATTCGCC
65 TTGCGGATACATAAAGATAAGATTCGCC
3152019 ATCCTTGATA
Statistics
Matches: 208, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
145 1 0.00
146 4 0.02
147 197 0.95
148 6 0.03
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (147 bp):
TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGCCTTGGAGCTTAAATCTGCTCCAT
TGCGGATACATAAAGATAAGATTCGCCTCTTCCAACCTTCAATCTTCAATCTGCTTCCTTGCTAC
CTCAGGAAGATAAGACT
Found at i:3152322 original size:147 final size:146
Alignment explanation
Indices: 3152056--3152337 Score: 424
Period size: 147 Copynumber: 1.9 Consensus size: 146
3152046 AGGAGATAAG
* * * *
3152056 ATCTTCAATCCTTAGCCTGCTTTCTTGCTACCCCAGAAAGATAAGACTCATTCTTCAACCTGCTC
1 ATCTTCAATCCTTAGCCTGCTTCCTAGCTACCCCAGAAAGATAAGACTCAATCTTCAACCTACTC
* * *
3152121 TCTTGCTACCTTAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTACCGATACATGGAGATA
66 TCTTGCTACCTCAAAGAGATAAGGCTTGGGGCTAAAATCTGCTCCATTACCGATACATGGAGATA
3152186 AGATTTGCCTTTTCCA
131 AGATTTGCCTTTTCCA
* * *
3152202 ATCTTCAAT-CTTCAGTCTGCTTCCTAGCTACCTCAGGAAGATAAGACTTCAATCTTCAACCTAC
1 ATCTTCAATCCTT-AGCCTGCTTCCTAGCTACCCCAGAAAGATAAGAC-TCAATCTTCAACCTAC
*
3152266 TCTCTTGCTACCTCAAAGAGATAAGGC-TGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAG
64 TCTCTTGCTACCTCAAAGAGATAAGGCTTGG-GGCTAAAATCTGCTCCATTACCGATACATGGAG
3152330 ATAAGATT
128 ATAAGATT
3152338 CGCCATCCTC
Statistics
Matches: 122, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
145 3 0.02
146 41 0.34
147 78 0.64
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (146 bp):
ATCTTCAATCCTTAGCCTGCTTCCTAGCTACCCCAGAAAGATAAGACTCAATCTTCAACCTACTC
TCTTGCTACCTCAAAGAGATAAGGCTTGGGGCTAAAATCTGCTCCATTACCGATACATGGAGATA
AGATTTGCCTTTTCCA
Found at i:3152446 original size:323 final size:322
Alignment explanation
Indices: 3151732--3152522 Score: 1138
Period size: 323 Copynumber: 2.4 Consensus size: 322
3151722 GCCTTTTCCA
*
3151732 ATCTTCAATCTTCAGTCTGCTTCCTTGCTGCCTCAGGAAGATAAGACTTCAATCTTCAACCTGCT
1 ATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC-TCAATCTTCAACCTGCT
* * * * * * * * *
3151797 TTCTTGCTACCTCAAAGAGATAAGACCTTGAGTTTAAATCTGCTCCATTGTCGGTATATAAAGAT
65 CTCTTGCTACCTCAGAGAGATAAG-GCTTGGGGTTAAATCTGCTCCATTGCCGATACATAGAGAT
* *
3151862 AAGATTCGCCTCTTCCAACCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAGGAAGTTAAGACT
129 AAGATTCGCCTCTTCCAACCTTCAATCTTCAATCTGCTTCCTAGCTACCTCAGGAAGATAAGACT
* *
3151927 TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCAT
194 TCAATCTTCAACCTACTCTCTTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAATCTGCTCCAT
* * *
3151992 TGCCGATACATGGAGATAAGATTCGCCATCCTTGATATGTTCCACTACTGCTTAAGGAGATAAG
259 TGCCGATACATGGAGATAAGATTCGCCATCCTCGATATGCTCCACTACTGCTTAAGGAAATAAG
* * * * *
3152056 ATCTTCAATCCTT-AGCCTGCTTTCTTGCTACCCCAGAAAGATAAGACTCATTCTTCAACCTGCT
1 ATCTTCAAT-CTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCT
* * *
3152120 CTCTTGCTACCTTAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTACCGATACATGGAGAT
65 CTCTTGCTACCTCAGAGAGATAAGGCTTGGGG-TTAAATCTGCTCCATTGCCGATACATAGAGAT
* * * *
3152185 AAGATTTGCCTTTTCCAATCTTCAATCTTCAGTCTGCTTCCTAGCTACCTCAGGAAGATAAGACT
129 AAGATTCGCCTCTTCCAACCTTCAATCTTCAATCTGCTTCCTAGCTACCTCAGGAAGATAAGACT
3152250 TCAATCTTCAACCTACTCTCTTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAATCTGCTCCAT
194 TCAATCTTCAACCTACTCTCTTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAATCTGCTCCAT
*
3152315 TGCCGATACATGGAGATAAGATTCGCCATCCTCGATATGCTCCACTACTGCTTAGGGAAAT-AG
259 TGCCGATACATGGAGATAAGATTCGCCATCCTCGATATGCTCCACTACTGCTTAAGGAAATAAG
* * ** *
3152378 TTCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAATCGCCAACCAGCT
1 ATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CAATCTTCAACCTGCT
* * * *
3152443 CTCTTGCTACCACAGAGAGATAAGG-TCAGTGGTAAAATCTGCTCCATTGCCGATACATAGAGAT
65 CTCTTGCTACCTCAGAGAGATAAGGCT-TGGGGTTAAATCTGCTCCATTGCCGATACATAGAGAT
*
3152507 AAGATTCACCATCTTC
129 AAGATTCGCC-TCTTC
3152523 GATCTGCTCC
Statistics
Matches: 411, Mismatches: 50, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
321 3 0.01
322 83 0.20
323 284 0.69
324 38 0.09
325 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (322 bp):
ATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTC
TCTTGCTACCTCAGAGAGATAAGGCTTGGGGTTAAATCTGCTCCATTGCCGATACATAGAGATAA
GATTCGCCTCTTCCAACCTTCAATCTTCAATCTGCTTCCTAGCTACCTCAGGAAGATAAGACTTC
AATCTTCAACCTACTCTCTTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTG
CCGATACATGGAGATAAGATTCGCCATCCTCGATATGCTCCACTACTGCTTAAGGAAATAAG
Found at i:3152551 original size:45 final size:44
Alignment explanation
Indices: 3152502--3152598 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
3152492 CCGATACATA
** * *
3152502 GAGATAAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAGG
1 GAGATAAGACCCACCA-CTTCAACCTGCTCCACTGCAACTTCAGG
**
3152547 GAGATAAGACCCGTCACTTCAACCTGCTCCACTGCAACTTCAGG
1 GAGATAAGACCCACCACTTCAACCTGCTCCACTGCAACTTCAGG
*
3152591 GAAATAAG
1 GAGATAAG
3152599 GTTTGTAATC
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 33 0.73
45 12 0.27
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (44 bp):
GAGATAAGACCCACCACTTCAACCTGCTCCACTGCAACTTCAGG
Found at i:3152825 original size:64 final size:65
Alignment explanation
Indices: 3152711--3152902 Score: 264
Period size: 64 Copynumber: 3.0 Consensus size: 65
3152701 TTCATGTATC
* *
3152711 ATGC-TTATGCCAAATAATTAGAATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * * * *
3152775 ATG-TTTATGTCAAATAATTAGGATGCTATAATTAAAATGAACCAAGTGCTCCTAACTAGATGTA
1 ATGCTTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * * *
3152839 ATGCTGT-TGTCACATAATTAGGATGCTATGATCGAAATGAATCAAATGTTCCTAACTAGATGTG
1 ATGCTTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
3152903 TTATGAATGA
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
64 108 0.98
65 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (65 bp):
ATGCTTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:3154101 original size:16 final size:14
Alignment explanation
Indices: 3154048--3154104 Score: 78
Period size: 15 Copynumber: 3.9 Consensus size: 14
3154038 CTTTGATTGA
3154048 TTGATTCTTTCTTTTT
1 TTGATT-TTT-TTTTT
*
3154064 TTGATTTTTTTCTT
1 TTGATTTTTTTTTT
3154078 TTGATTTTTTTTATT
1 TTGATTTTTTTT-TT
3154093 TTGATTTTTTTT
1 TTGATTTTTTTT
3154105 AAAAGTCTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 15 0.39
15 17 0.45
16 6 0.16
ACGTcount: A:0.09, C:0.05, G:0.07, T:0.79
Consensus pattern (14 bp):
TTGATTTTTTTTTT
Found at i:3154521 original size:5 final size:5
Alignment explanation
Indices: 3154511--3154603 Score: 177
Period size: 5 Copynumber: 18.4 Consensus size: 5
3154501 TTATGTTTTA
3154511 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
3154561 ATTAT ATTAT ATTAT ATTTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT A-TTAT ATTAT ATTAT ATTAT ATTAT AT
3154604 AAACTAAAGA
Statistics
Matches: 87, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
5 82 0.94
6 5 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:3156227 original size:23 final size:23
Alignment explanation
Indices: 3156197--3156282 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 23
3156187 GCTTTATCGA
* *
3156197 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
3156220 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
3156241 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
3156263 T-AGGCACTTTATGTGTCGTA
1 TCAGGCACCTCATGTGTCGTA
3156283 CTCTAATCAG
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.65
22 1 0.02
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:3168929 original size:23 final size:23
Alignment explanation
Indices: 3168903--3168946 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
3168893 TAGATATGTG
*
3168903 ATGACGTTATCTT-ATAAATATAC
1 ATGAAGTTATCTTGA-AAATATAC
*
3168926 ATGAATTTATCTTGAAAATAT
1 ATGAAGTTATCTTGAAAATAT
3168947 GTTGAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATAC
Found at i:3172268 original size:17 final size:17
Alignment explanation
Indices: 3172248--3172280 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3172238 TTATAAAGAT
3172248 TTAATATGAT-TAAACAA
1 TTAA-ATGATATAAACAA
3172265 TTAAATGATATAAACA
1 TTAAATGATATAAACA
3172281 GTAAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (17 bp):
TTAAATGATATAAACAA
Found at i:3172314 original size:13 final size:13
Alignment explanation
Indices: 3172296--3172320 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3172286 TTTAATTTAA
3172296 TAATATAAATAGC
1 TAATATAAATAGC
3172309 TAATATAAATAG
1 TAATATAAATAG
3172321 ATTAGATTGA
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):
TAATATAAATAGC
Found at i:3175309 original size:97 final size:96
Alignment explanation
Indices: 3175134--3175309 Score: 219
Period size: 96 Copynumber: 1.8 Consensus size: 96
3175124 AGTGACAAGA
* * *
3175134 AGAGCAAACAAAATGCAATGACAAGCAGTACTAGCAAATGAAAAATAAGTCAATTTACAAGGATA
1 AGAGCAAACAAAATACAATGACAAACAGCACTAGCAAATGAAAAATAAGTCAATTTACAAGGATA
* *
3175199 GGAATAATTATGATAGCACTAACCTTCATTT
66 GAAATAATCATGATAGCACTAACCTTCATTT
* * * * * * *
3175230 AGAGCAAACCAAATATAATGACAAACAGCATTGGCAAATGCAATAATCAGTCACTTT-CTAAGGA
1 AGAGCAAACAAAATACAATGACAAACAGCACTAGCAAATG-AAAAATAAGTCAATTTAC-AAGGA
3175294 TAGAAATAATCATGAT
64 TAGAAATAATCATGAT
3175310 GTGAAGGAGG
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
96 34 0.52
97 32 0.48
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.23
Consensus pattern (96 bp):
AGAGCAAACAAAATACAATGACAAACAGCACTAGCAAATGAAAAATAAGTCAATTTACAAGGATA
GAAATAATCATGATAGCACTAACCTTCATTT
Found at i:3182211 original size:16 final size:16
Alignment explanation
Indices: 3182190--3182223 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3182180 AATCTTTAAG
3182190 TTAGTCTAAACACGTC
1 TTAGTCTAAACACGTC
*
3182206 TTAGTCTAAACTCGTC
1 TTAGTCTAAACACGTC
3182222 TT
1 TT
3182224 TGGGTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (16 bp):
TTAGTCTAAACACGTC
Found at i:3183239 original size:43 final size:43
Alignment explanation
Indices: 3183175--3183338 Score: 265
Period size: 43 Copynumber: 3.8 Consensus size: 43
3183165 GCTTATTGAA
* * *
3183175 AAAAACGCCGTTAAAGGTCAAGACTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * *
3183218 AAAAGCGCCGCTAAAGATCAAGGCTTTTAGCGGCATTTGTAGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
3183261 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
3183304 AAAAGCGCCACTAAAGGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
3183339 CTTTTTCTAC
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 111 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:3183490 original size:32 final size:31
Alignment explanation
Indices: 3183413--3183494 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
3183403 CTTCCTGCAT
* * *
3183413 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATACAACCAAAAACAACAAATATAACA
* * * *
3183444 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATACAACCAAAAACAACAAATATAACA
3183475 TAAAAATACAACCAAAAACA
1 T-AAAATACAACCAAAAACA
3183495 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 26 0.62
32 16 0.38
ACGTcount: A:0.61, C:0.20, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAACA
Found at i:3189367 original size:9 final size:9
Alignment explanation
Indices: 3189353--3189480 Score: 112
Period size: 9 Copynumber: 13.6 Consensus size: 9
3189343 ATGTATTAGT
3189353 TAAGTTATG
1 TAAGTTATG
3189362 TAAGTTGTTATG
1 TAA---GTTATG
*
3189374 TACGTTATG
1 TAAGTTATG
*
3189383 TGAGTTATG
1 TAAGTTATG
*
3189392 TAAATTATG
1 TAAGTTATG
3189401 TAAGTTATG
1 TAAGTTATG
*
3189410 TGAGTTATG
1 TAAGTTATG
3189419 TAAGTTGTTATG
1 TAA---GTTATG
*
3189431 TAAATTATG
1 TAAGTTATG
* *
3189440 TACGTTATA
1 TAAGTTATG
*
3189449 TGAGTTATG
1 TAAGTTATG
3189458 TAAGTTATG
1 TAAGTTATG
* *
3189467 TAATTTATT
1 TAAGTTATG
3189476 TAAGT
1 TAAGT
3189481 AATGATCAAT
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
9 77 0.82
12 17 0.18
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:3189480 original size:57 final size:57
Alignment explanation
Indices: 3189353--3189480 Score: 168
Period size: 57 Copynumber: 2.2 Consensus size: 57
3189343 ATGTATTAGT
** *
3189353 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTGAGTTATATAAATTATGTAAGTTATG
* * *
3189410 TGAGTTATGTAAGTTGTTATGTAAATTATGT-ACGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTGA-GTTATATAAATTATGTAAGTTATG
* *
3189467 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
3189481 AATGATCAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 1 0.02
57 60 0.98
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTGAGTTATATAAATTATGTAAGTTATG
Found at i:3193734 original size:18 final size:19
Alignment explanation
Indices: 3193713--3193748 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3193703 TTTGAAATTC
3193713 TTCATCTCT-CAATTCTAT
1 TTCATCTCTGCAATTCTAT
*
3193731 TTCATCTTTGCAATTCTA
1 TTCATCTCTGCAATTCTA
3193749 CAGAAAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.25, G:0.03, T:0.50
Consensus pattern (19 bp):
TTCATCTCTGCAATTCTAT
Found at i:3194432 original size:39 final size:38
Alignment explanation
Indices: 3194323--3194432 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 38
3194313 CAATTAAACA
** *
3194323 TTTAGTGGCGTTTTACAAAAGCGTCGCTAATTCTCAGT
1 TTTAGTGGCGTTTTTTAAAAGCGCCGCTAATTCTCAGT
* *
3194361 TTTTGTGGCGTTTTTTACGAAAGCGCCACTAATTCTCTA-T
1 TTTAGTGGCGTTTTTTA--AAAGCGCCGCTAATTCTC-AGT
*
3194401 TTTAGTGGCGTTTTTGTAAAAACGCCGCTAAT
1 TTTAGTGGCGTTTTT-TAAAAGCGCCGCTAAT
3194433 GCCTCTACAC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
38 14 0.23
39 12 0.20
40 31 0.52
41 3 0.05
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (38 bp):
TTTAGTGGCGTTTTTTAAAAGCGCCGCTAATTCTCAGT
Found at i:3195779 original size:21 final size:21
Alignment explanation
Indices: 3195732--3195786 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
3195722 TATGGATTAG
* * *
3195732 TGTTTATGGTTTATGTTTTAA
1 TGTTTAAGGTTTAGGGTTTAA
**
3195753 AATTTAAGGTTTAGGGTTTAA
1 TGTTTAAGGTTTAGGGTTTAA
*
3195774 TGTTTAAGATTTA
1 TGTTTAAGGTTTA
3195787 AAGGTTTACA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (21 bp):
TGTTTAAGGTTTAGGGTTTAA
Found at i:3196143 original size:41 final size:41
Alignment explanation
Indices: 3196097--3196393 Score: 323
Period size: 41 Copynumber: 7.3 Consensus size: 41
3196087 CGTTTGGACC
* *
3196097 AAAAACGCCGCTATTAATCAGTTTTTAGTGGTGTTTTGGAT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
* * * * *
3196138 AAAAACGCCACAATTGATTAGTTTTTAGTGGCATTTGGGAT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
* * *
3196179 AAAAACGCCGCAATTAATCAGTTTTTAGTGGCGTTTGGGAT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
* * *
3196220 TAAAACGCCGCTATTGATTAGCTTTTAGTGGCG-TTTGG-T
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
* **
3196259 GAAAAACGCCGCTATTGACCAGTTTTTAGTGGCGTTTTGGCC
1 -AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
* * * **
3196301 AAAAACGCCGCTATTGACCAGTTTTTAATGGCGTTTTTGCC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
* * * *
3196342 AAAAACGCCGCTATAGTTTAGTTTTTAGTGGCGTTTCGG--
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
*
3196381 ACAAACGCCGCTA
1 AAAAACGCCGCTA
3196394 ATGTTTATTA
Statistics
Matches: 221, Mismatches: 32, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
39 13 0.06
40 33 0.15
41 175 0.79
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (41 bp):
AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
Found at i:3196305 original size:122 final size:122
Alignment explanation
Indices: 3196085--3196393 Score: 345
Period size: 122 Copynumber: 2.5 Consensus size: 122
3196075 AACTTTTTGC
* * * *
3196085 GGCGTTT-GGACCAAAAACGCCGCTATTAATCAGTTTTTAGTGGTGTTTTGGAT-AAAAACGCCA
1 GGCGTTTGGGA-CAAAAACGCCGCTATTGATTAGTTTTTAGTGGCG-TTTGG-TGAAAAACGCCG
* ** * * *
3196148 CAATTGATTAGTTTTTAGTGGCATTTGGGATAAAAACGCCGCAATTAATCAGTTTTTAGT
63 CTATTGACCAGTTTTTAGTGGCATTTGGGACAAAAACGCCGCAATTAACCAGTTTTTAAT
** *
3196208 GGCGTTTGGGATTAAAACGCCGCTATTGATTAGCTTTTAGTGGCGTTTGGTGAAAAACGCCGCTA
1 GGCGTTTGGGACAAAAACGCCGCTATTGATTAGTTTTTAGTGGCGTTTGGTGAAAAACGCCGCTA
* * * * *
3196273 TTGACCAGTTTTTAGTGGCGTTTTGGCCAAAAACGCCGCTATTGACCAGTTTTTAAT
66 TTGACCAGTTTTTAGTGGCATTTGGGACAAAAACGCCGCAATTAACCAGTTTTTAAT
** * * * * *
3196330 GGCGTTTTTGCCAAAAACGCCGCTATAGTTTAGTTTTTAGTGGCGTTTCG-GACAAACGCCGCTA
1 GGCGTTTGGGACAAAAACGCCGCTATTGATTAGTTTTTAGTGGCGTTTGGTGAAAAACGCCGCTA
3196394 ATGTTTATTA
Statistics
Matches: 156, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
121 14 0.09
122 104 0.67
123 35 0.22
124 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (122 bp):
GGCGTTTGGGACAAAAACGCCGCTATTGATTAGTTTTTAGTGGCGTTTGGTGAAAAACGCCGCTA
TTGACCAGTTTTTAGTGGCATTTGGGACAAAAACGCCGCAATTAACCAGTTTTTAAT
Found at i:3201519 original size:16 final size:16
Alignment explanation
Indices: 3201498--3201568 Score: 124
Period size: 16 Copynumber: 4.4 Consensus size: 16
3201488 GTTTGGTTCA
*
3201498 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
3201514 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
3201530 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
3201546 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
3201562 CTGTAAT
1 CTGTAAT
3201569 AAGTAATTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:3202529 original size:40 final size:40
Alignment explanation
Indices: 3202410--3202531 Score: 217
Period size: 40 Copynumber: 3.0 Consensus size: 40
3202400 CTTAAGTATA
*
3202410 TCTGTTAATACATACTTCATCCGGATAAATTATATAGGTT
1 TCTGTTAATACATACTTCATCCGGATAAATTATATAGTTT
*
3202450 TCTGTTAATACATACTTCAACCGGATAAATTATATAGTTT
1 TCTGTTAATACATACTTCATCCGGATAAATTATATAGTTT
*
3202490 TCTGTTAATACATACTTCATCCGGATAAATTATACAGTTT
1 TCTGTTAATACATACTTCATCCGGATAAATTATATAGTTT
3202530 TC
1 TC
3202532 ACTCAAATGC
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (40 bp):
TCTGTTAATACATACTTCATCCGGATAAATTATATAGTTT
Found at i:3217244 original size:54 final size:53
Alignment explanation
Indices: 3217181--3217353 Score: 158
Period size: 55 Copynumber: 3.2 Consensus size: 53
3217171 TTTTTTATGT
* *
3217181 TGGCCTGTCAATGGCCGGCACCAGAGTACGAGTTTCAAAAAAAAAATTTAGTAC
1 TGGCCTGTCAATGGCCGACACCAGAGTACGAGTTTCAAAAAAAAAATTT-GTGC
* ***
3217235 TGGCCTGTCAATAGCCGACACCA-AGTAC-A--AAAAAAAAATCAAAATTTTTTGGTGC
1 TGGCCTGTCAATGGCCGACACCAGAGTACGAGTTTCAAAAAA--AAAA---TTT-GTGC
* * * *
3217290 TGGACTGTCAATGGCCAATAGCAGAGTACGAGTTTCAAAAAAAAAA-TTGTGC
1 TGGCCTGTCAATGGCCGACACCAGAGTACGAGTTTCAAAAAAAAAATTTGTGC
3217342 TGGCCTGTCAAT
1 TGGCCTGTCAAT
3217354 TCGGTTGTAC
Statistics
Matches: 94, Mismatches: 16, Indels: 20
0.72 0.12 0.15
Matches are distributed among these distances:
50 6 0.06
52 20 0.21
53 7 0.07
54 21 0.22
55 24 0.26
56 5 0.05
57 5 0.05
59 6 0.06
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (53 bp):
TGGCCTGTCAATGGCCGACACCAGAGTACGAGTTTCAAAAAAAAAATTTGTGC
Found at i:3217318 original size:109 final size:107
Alignment explanation
Indices: 3217005--3217353 Score: 422
Period size: 109 Copynumber: 3.3 Consensus size: 107
3216995 ATCAGTATTT
* * *
3217005 AAAAAAAAATTGGTGCTGGCTTGTCAATGGCCGACACCAAGTACAAAAACAAATCAAATTTTTTT
1 AAAAAAAAATTGGTGCTGGCCTGTCAATAGCCGACACCAAGTACAAAAAAAAATCAAATTTTTTT
* * * *
3217070 GATGC-AGCCTCTCAATGGCCGGCACCAGAGTACTAGCTTCAAAA
66 GATGCTGGCCTGTCAATGGCCGGCACCAGAGTACGAGTTTC---A
* *
3217114 AAAAAAAAATTTGGTGCTGGCCTGTCAATAGCCGGCACCAAGTAC----AAAAATCAATTTTTTT
1 AAAAAAAAA-TTGGTGCTGGCCTGTCAATAGCCGACACCAAGTACAAAAAAAAATCAAATTTTTT
* *
3217175 TTATGTTGGCCTGTCAATGGCCGGCACCAGAGTACGAGTTTCA
65 TGATGCTGGCCTGTCAATGGCCGGCACCAGAGTACGAGTTTCA
* * *
3217218 AAAAAAAAATTTAGTACTGGCCTGTCAATAGCCGACACCAAGTACAAAAAAAAAATCAAAATTTT
1 AAAAAAAAA-TTGGTGCTGGCCTGTCAATAGCCGACACCAAGTAC-AAAAAAAAATCAAATTTTT
* * *** *
3217283 TTGGTGCTGGACTGTCAATGGCCAATAGCAGAGTACGAGTTTCA
64 TTGATGCTGGCCTGTCAATGGCCGGCACCAGAGTACGAGTTTCA
3217327 AAAAAAAAATT-GTGCTGGCCTGTCAAT
1 AAAAAAAAATTGGTGCTGGCCTGTCAAT
3217354 TCGGTTGTAC
Statistics
Matches: 208, Mismatches: 25, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
104 43 0.21
106 18 0.09
107 46 0.22
108 2 0.01
109 67 0.32
110 32 0.15
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (107 bp):
AAAAAAAAATTGGTGCTGGCCTGTCAATAGCCGACACCAAGTACAAAAAAAAATCAAATTTTTTT
GATGCTGGCCTGTCAATGGCCGGCACCAGAGTACGAGTTTCA
Found at i:3219763 original size:16 final size:16
Alignment explanation
Indices: 3219741--3219783 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
3219731 ACGAAATTTA
*
3219741 AATATTTTATTGAAAT
1 AATATTTTATTAAAAT
*
3219757 GATATTTTAATTAAAAT
1 AATATTTT-ATTAAAAT
3219774 AAT-TTTTATT
1 AATATTTTATT
3219784 TAATAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 3 0.13
16 11 0.48
17 9 0.39
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
AATATTTTATTAAAAT
Found at i:3220379 original size:29 final size:31
Alignment explanation
Indices: 3220335--3220393 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
3220325 ACTTGTGTTT
3220335 TTAAATATGAAAAGTAAAATG-ACTAAATTCC
1 TTAAATATGAAAAGTAAAA-GAACTAAATTCC
*
3220366 TTAAA-AT-AAAAGTAAGAGAACTAAATTC
1 TTAAATATGAAAAGTAAAAGAACTAAATTC
3220394 TAAATACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 1 0.04
29 18 0.69
30 2 0.08
31 5 0.19
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.27
Consensus pattern (31 bp):
TTAAATATGAAAAGTAAAAGAACTAAATTCC
Found at i:3222075 original size:17 final size:18
Alignment explanation
Indices: 3222037--3222078 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
3222027 TCTAACTAAG
3222037 TAAATATTAATATAATATT
1 TAAAT-TTAATATAATATT
*
3222056 TAAATTTAATATCA-ATT
1 TAAATTTAATATAATATT
3222073 TAAATT
1 TAAATT
3222079 AATTTTGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 8 0.36
19 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTTAATATAATATT
Found at i:3250126 original size:14 final size:14
Alignment explanation
Indices: 3250107--3250146 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3250097 TTGATTGCCA
3250107 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
3250121 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
3250135 GAAAAATGTTTT
1 GTAAAATGTTTT
3250147 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:3250155 original size:20 final size:20
Alignment explanation
Indices: 3250130--3250169 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3250120 CGTAAAATGA
*
3250130 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
3250150 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
3250170 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:3250159 original size:34 final size:35
Alignment explanation
Indices: 3250115--3250181 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
3250105 CAGTAAAATG
*
3250115 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
3250149 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
3250182 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:3250540 original size:26 final size:26
Alignment explanation
Indices: 3250507--3250564 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
3250497 ATATCAAAAT
3250507 TTATAGAGACCAATTTAAAATCTAGA
1 TTATAGAGACCAATTTAAAATCTAGA
*
3250533 TTATAGAGACCAATTTAATATCTAGA
1 TTATAGAGACCAATTTAAAATCTAGA
3250559 TTATAG
1 TTATAG
3250565 TTTGAGGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (26 bp):
TTATAGAGACCAATTTAAAATCTAGA
Found at i:3252672 original size:27 final size:27
Alignment explanation
Indices: 3252634--3252732 Score: 92
Period size: 27 Copynumber: 3.6 Consensus size: 27
3252624 AAATCTTTCT
3252634 AACTATGGACAAGAAACCGATTCACAA
1 AACTATGGACAAGAAACCGATTCACAA
* * *
3252661 AACTATGGACAAGAAACCAATAACATAA
1 AACTATGGACAAGAAACCGAT-TCACAA
** * * *
3252689 AAGAACT-AACCCAGAAACTGATTCACAA
1 AACTA-TGGA-CAAGAAACCGATTCACAA
3252717 AACTATGGACAAGAAA
1 AACTATGGACAAGAAA
3252733 ATATACCTTT
Statistics
Matches: 53, Mismatches: 15, Indels: 8
0.70 0.20 0.11
Matches are distributed among these distances:
27 27 0.51
28 16 0.30
29 10 0.19
ACGTcount: A:0.53, C:0.20, G:0.13, T:0.14
Consensus pattern (27 bp):
AACTATGGACAAGAAACCGATTCACAA
Found at i:3253145 original size:14 final size:14
Alignment explanation
Indices: 3253126--3253152 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3253116 GAAAATCCGT
3253126 AAAATATTTTCCAG
1 AAAATATTTTCCAG
3253140 AAAATATTTTCCA
1 AAAATATTTTCCA
3253153 CCAATCAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (14 bp):
AAAATATTTTCCAG
Found at i:3260372 original size:32 final size:31
Alignment explanation
Indices: 3260323--3260394 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
3260313 TTAATAAATG
3260323 AATATATATAAAATTATTACATGTT-AAATTAAA
1 AATA-ATATAAAATTATT-C-TGTTGAAATTAAA
* * *
3260356 AATAATATAAACTTATTCTTTTGAATTTAAA
1 AATAATATAAAATTATTCTGTTGAAATTAAA
3260387 AATAATAT
1 AATAATAT
3260395 GTTCAGGCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.09
31 16 0.46
32 12 0.34
33 4 0.11
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (31 bp):
AATAATATAAAATTATTCTGTTGAAATTAAA
Found at i:3261581 original size:28 final size:29
Alignment explanation
Indices: 3261524--3261579 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
3261514 CCGAGCCTTG
*
3261524 GGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGCAAAAATGTAATTATGAAAAAGTTTA
* *
3261553 GGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGCAAAAATGTAATTATGAAAAAGTT
3261580 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (29 bp):
GGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:3261809 original size:13 final size:13
Alignment explanation
Indices: 3261791--3261822 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3261781 TTTCCAGAAA
3261791 TTATGAATTTATT
1 TTATGAATTTATT
3261804 TTATGAATTTATT
1 TTATGAATTTATT
*
3261817 TGATGA
1 TTATGA
3261823 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:3262030 original size:50 final size:50
Alignment explanation
Indices: 3261917--3262157 Score: 288
Period size: 49 Copynumber: 4.7 Consensus size: 50
3261907 ATTTGGGTAA
* * *
3261917 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
3261973 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3262023 AGAGGTCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3262072 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
3262122 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
3262158 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
49 45 0.27
50 45 0.27
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:3262075 original size:49 final size:51
Alignment explanation
Indices: 3261917--3262164 Score: 288
Period size: 50 Copynumber: 4.8 Consensus size: 51
3261907 ATTTGGGTAA
* *
3261917 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GATCACG
* * *
3261973 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
* * *
3262023 AGAGGTCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGA-GATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
* * *
3262072 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
** *
3262122 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
3262165 TGTTATTATC
Statistics
Matches: 168, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
49 45 0.27
50 46 0.27
51 36 0.21
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
Found at i:3262096 original size:99 final size:103
Alignment explanation
Indices: 3261917--3262165 Score: 355
Period size: 99 Copynumber: 2.4 Consensus size: 103
3261907 ATTTGGGTAA
3261917 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
3261982 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
3262023 AGAGGTCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
3262084 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
3262122 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
3262166 GTTATTATCA
Statistics
Matches: 131, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
98 1 0.01
99 51 0.39
100 23 0.18
101 15 0.11
104 2 0.02
105 15 0.11
106 24 0.18
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:3265313 original size:26 final size:26
Alignment explanation
Indices: 3265280--3265330 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
3265270 TCCATGATCT
* *
3265280 CATAGGAGATGATCAATTGAGATGAC
1 CATAGGAGATAATCAAGTGAGATGAC
3265306 CATAGGAGATAATCAAGTGAGATGA
1 CATAGGAGATAATCAAGTGAGATGA
3265331 TCCTGACGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.41, C:0.10, G:0.27, T:0.22
Consensus pattern (26 bp):
CATAGGAGATAATCAAGTGAGATGAC
Found at i:3267558 original size:62 final size:62
Alignment explanation
Indices: 3267473--3267617 Score: 200
Period size: 62 Copynumber: 2.3 Consensus size: 62
3267463 TGTTCATATC
* **
3267473 TTTCACTCAAATTTGGATTATATTGTGACACATTATACTTTTAAAGCCTAAAATGCAACCCCA
1 TTTC-CTCAAAATTGGACCATATTGTGACACATTATACTTTTAAAGCCTAAAATGCAACCCCA
* * * *
3267536 TTTCCTCAAAATTGGACCATATTGTGGCACATTATGCTTTTGAAGTCTAAAATGCAACCCCA
1 TTTCCTCAAAATTGGACCATATTGTGACACATTATACTTTTAAAGCCTAAAATGCAACCCCA
* *
3267598 TCTCCTCAAGATTGGACCAT
1 TTTCCTCAAAATTGGACCAT
3267618 GATGGCCTTG
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
62 69 0.95
63 4 0.05
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (62 bp):
TTTCCTCAAAATTGGACCATATTGTGACACATTATACTTTTAAAGCCTAAAATGCAACCCCA
Found at i:3275448 original size:30 final size:31
Alignment explanation
Indices: 3275412--3275483 Score: 110
Period size: 33 Copynumber: 2.3 Consensus size: 31
3275402 AAATATACAA
3275412 ACATACAAA-GTAATAATTAAATAATGCATG
1 ACATACAAAGGTAATAATTAAATAATGCATG
*
3275442 ATATACAAAAAGGTAATAATTAAATAATGCATG
1 ACATAC--AAAGGTAATAATTAAATAATGCATG
3275475 ACATACAAA
1 ACATACAAA
3275484 AAAAGAGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
30 5 0.14
31 3 0.08
32 3 0.08
33 26 0.70
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.25
Consensus pattern (31 bp):
ACATACAAAGGTAATAATTAAATAATGCATG
Found at i:3275460 original size:33 final size:33
Alignment explanation
Indices: 3275421--3275485 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
3275411 AACATACAAA
*
3275421 GTAATAATTAAATAATGCATGATATACAAAAAG
1 GTAATAATTAAATAATGCATGACATACAAAAAG
3275454 GTAATAATTAAATAATGCATGACATACAAAAA
1 GTAATAATTAAATAATGCATGACATACAAAAA
3275486 AAGAGTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (33 bp):
GTAATAATTAAATAATGCATGACATACAAAAAG
Found at i:3276140 original size:3 final size:3
Alignment explanation
Indices: 3276132--3276227 Score: 53
Period size: 3 Copynumber: 32.7 Consensus size: 3
3276122 CAAGTAAAAT
* * * *
3276132 ATA ATA ATA AT- ATA AAA ATA ATG AT- GTA A-A ATA ATA ATA ATA ATTT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
*
3276178 GTGA A-A A-A ATA ATA TATA ATAA ATA ATA ATA AT- ATA TATA ATA A-A
1 AT-A ATA ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA
3276223 ATA AT
1 ATA AT
3276228 CTTATAATGT
Statistics
Matches: 73, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
2 13 0.18
3 50 0.68
4 10 0.14
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3276149 original size:19 final size:19
Alignment explanation
Indices: 3276007--3276151 Score: 56
Period size: 19 Copynumber: 7.2 Consensus size: 19
3275997 AATAAATGTT
3276007 ATATAATAA-AATATAATTTAA
1 ATATAATAATAATATAA---AA
*
3276028 ATAT-ATAAGAA-ATAAGAA
1 ATATAATAATAATATAA-AA
3276046 ATATAATAGATAATAT-AAA
1 ATATAATA-ATAATATAAAA
3276065 ATAATGAA-AATATATATGTAAGAACA
1 AT-AT-AATAATA-ATA--T-A-AA-A
3276091 ATATATATAAATAAT-TAATAA
1 ATATA-AT-AATAATATAA-AA
3276112 ATAT-ATAATACA-AGT-AAA
1 ATATAATAATA-ATA-TAAAA
3276130 ATATAATAATAATATAAAA
1 ATATAATAATAATATAAAA
3276149 ATA
1 ATA
3276152 ATGATGTAAA
Statistics
Matches: 99, Mismatches: 2, Indels: 48
0.66 0.01 0.32
Matches are distributed among these distances:
18 18 0.18
19 27 0.27
20 19 0.19
21 16 0.16
22 3 0.03
23 1 0.01
24 1 0.01
25 5 0.05
26 5 0.05
27 4 0.04
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (19 bp):
ATATAATAATAATATAAAA
Found at i:3276233 original size:20 final size:22
Alignment explanation
Indices: 3276091--3276221 Score: 62
Period size: 22 Copynumber: 6.0 Consensus size: 22
3276081 TGTAAGAACA
3276091 ATATAT-ATAAATAATTAATAA-
1 ATATATAATAAATAA-TAATAAT
* *
3276112 ATATATAATACA-AGTAA-AAT
1 ATATATAATAAATAATAATAAT
*
3276132 ATA-ATAATAATATAAAAATAAT
1 ATATATAATAA-ATAATAATAAT
* *
3276154 GATGTAAAAT-AATAATAATAAT
1 -ATATATAATAAATAATAATAAT
* *
3276176 -T-TGTGAAAAAATAATATATAAT
1 ATATAT-AATAAATAATA-ATAAT
*
3276198 AAATAATAATAATATATATAATAA
1 ATAT-ATAATAA-ATA-ATAATAA
3276222 AATAATCTTA
Statistics
Matches: 81, Mismatches: 14, Indels: 26
0.67 0.12 0.21
Matches are distributed among these distances:
19 9 0.11
20 10 0.12
21 17 0.21
22 22 0.27
23 3 0.04
24 9 0.11
25 8 0.10
26 3 0.04
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.34
Consensus pattern (22 bp):
ATATATAATAAATAATAATAAT
Done.