Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 44 of 62
Found at i:9655475 original size:628 final size:631
Alignment explanation
Indices: 9654590--9655846 Score: 1975
Period size: 628 Copynumber: 2.0 Consensus size: 631
9654580 TTTCATGGTG
* * * * *
9654590 TGATCAAACAATGGAGAAAATGGATTCTGATCAGGATCACATCATCCCCTCCCTCTTTCAAGTGA
1 TGATCAAACAATAGAGAAAATGGATTCTGATCAAGATCACAACATCCCCTCCCTCATTAAAGTGA
* * * *
9654655 TTTGTCCCCAAATCGATACTTGCAACGAACGAGAACAATTTTGATTTGCTTTGGGCGGGGAACTG
66 TTTATCCCCAAATCGACACTTCCAACGAACGAGAACAATTTTAATTTGCTTTGGGCGGGGAACTG
* *
9654720 CTTCACTTTTGATATACACAAAACCCATTCGAACCAAACACATCTGTATCACATCCAGAATTGGA
131 CGTCACTTTTGATATACACAAAACCCATTCGAACCAAACACATCTGTATCACATCAAGAATTGGA
* * * ** *
9654785 AGACGTTTTGATTGATATTCTCGCATATGATGAAACTGTTTAACTTCCCTCATGCACCTAGACAC
196 AGACATTCTGATTGATATTCTCGCATATGATAAAACCATTCAACTTCCCTCATGCACCTAGACAC
* *
9654850 AAAGGTGAACTTTATTCAATCTTTTAATTGAAAACATGCATGAGACAATTAAGAGTTAGTTTAAT
261 AAAGGTGAACTTTATTCAATCTTTTAATTGAAAACATCCATGAGAAAATTAAGAGTTAGTTTAAT
9654915 AAATGATCTAGTTTGGGGAATGAACTAGTTTAATTAATGAACAAACTTTATTAAATGAACTAGAT
326 AAATGATCTAGTTTGGGGAATGAACTAGTTTAATTAATGAACAAACTTTATTAAATGAACTAGAT
*
9654980 ACATAAATAAATTAACTTACTAAATAATCTAAATGCATAAATGAACTACTTCCCTAAATGAGCTA
391 ACAAAAATAAATTAACTTACTAAATAATCTAAATGCATAAATGAACTACTTCCCTAAATGAGCTA
* *
9655045 GATGATTTAAATGCAATTCATGATTAAATGAACAACACACTTATTAAATGCAA-TAAATGTTATA
456 GATGATTTAAATACAATGCATGATTAAATGAACAACACACTTATTAAATGCAATTAAATGTTATA
* * * *
9655109 AAATCTTAAAATTCACATGCAAATTATTGCATAAGAAATGTATAGAGTTCCTCCCTTATTATTTC
521 AAATCTTAAAATTCACATGCAAATTATTGCATAAGAAACGTAAAGAGTTACTCCCTTATTATTCC
*
9655174 TTATTCCTAACATCCAAAACTTAATATAAACATAC-TTCCATGGCC
586 TCATTCCTAACATCCAAAACTTAATATAAACATACTTTCCATGGCC
*
9655219 TGATCAAACCATAGAGAAAATGGATGT-TGATCAAGATCACAACATCCCCTCCCTCATTAAAGTG
1 TGATCAAACAATAGAGAAAATGGAT-TCTGATCAAGATCACAACATCCCCTCCCTCATTAAAGTG
* * *
9655283 ATTTATCCTCAAATCGACACTTCCTACGAACGAGAACAA-TTTAATTT-CTCTTGGGTGGGGAAC
65 ATTTATCCCCAAATCGACACTTCCAACGAACGAGAACAATTTTAATTTGCT-TTGGGCGGGGAAC
** *
9655346 TGCGTCACTTTTGATATACACAAAACCCATTCGAACCAAGTACATTTGTATCACATCAAGAATTG
129 TGCGTCACTTTTGATATACACAAAACCCATTCGAACCAAACACATCTGTATCACATCAAGAATTG
* *
9655411 GAAGACATTCTGATTGATCTTCTCGCATCTGATAAAACCATTCAACTTCCCTCATGCACCTAGAC
194 GAAGACATTCTGATTGATATTCTCGCATATGATAAAACCATTCAACTTCCCTCATGCACCTAGAC
*** *
9655476 ACAAAGGTGAACTTTATTCAATCTTTTAATTGAAATTTTCCATTAGAAAATTAAGAGTTAGTTTA
259 ACAAAGGTGAACTTTATTCAATCTTTTAATTGAAAACATCCATGAGAAAATTAAGAGTTAGTTTA
* * * *
9655541 ATAAATGATTTAGTTTGGGGAATGAACTAGTTTAATTAGTGAGCCAACTTTATTAAATGAACTAG
324 ATAAATGATCTAGTTTGGGGAATGAACTAGTTTAATTAATGAACAAACTTTATTAAATGAACTAG
9655606 ATACAAAAATAAATTAACTTACTAAATAATCTAAATGCATAAATGAACTACTTCCCTAAATGAGC
389 ATACAAAAATAAATTAACTTACTAAATAATCTAAATGCATAAATGAACTACTTCCCTAAATGAGC
* *
9655671 TAGATGATTTAAATATAATGCATGATTAAATGAACAACACACTTATTAAATGCAATTAATTGTTA
454 TAGATGATTTAAATACAATGCATGATTAAATGAACAACACACTTATTAAATGCAATTAAATGTTA
* * * *
9655736 TGAAATCTTAAAATTCACATGCAAATTCTTGCATAAGCAACGTAAAGAGTTACTCCCTTGTTATT
519 TAAAATCTTAAAATTCACATGCAAATTATTGCATAAGAAACGTAAAGAGTTACTCCCTTATTATT
* * * *
9655801 CCTCGTTCCTAACGTCCCAAACTTAATGTAAACATACTTTCCATGG
584 CCTCATTCCTAACATCCAAAACTTAATATAAACATACTTTCCATGG
9655847 ATGCTTGAAA
Statistics
Matches: 570, Mismatches: 54, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
627 2 0.00
628 372 0.65
629 187 0.33
630 9 0.02
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (631 bp):
TGATCAAACAATAGAGAAAATGGATTCTGATCAAGATCACAACATCCCCTCCCTCATTAAAGTGA
TTTATCCCCAAATCGACACTTCCAACGAACGAGAACAATTTTAATTTGCTTTGGGCGGGGAACTG
CGTCACTTTTGATATACACAAAACCCATTCGAACCAAACACATCTGTATCACATCAAGAATTGGA
AGACATTCTGATTGATATTCTCGCATATGATAAAACCATTCAACTTCCCTCATGCACCTAGACAC
AAAGGTGAACTTTATTCAATCTTTTAATTGAAAACATCCATGAGAAAATTAAGAGTTAGTTTAAT
AAATGATCTAGTTTGGGGAATGAACTAGTTTAATTAATGAACAAACTTTATTAAATGAACTAGAT
ACAAAAATAAATTAACTTACTAAATAATCTAAATGCATAAATGAACTACTTCCCTAAATGAGCTA
GATGATTTAAATACAATGCATGATTAAATGAACAACACACTTATTAAATGCAATTAAATGTTATA
AAATCTTAAAATTCACATGCAAATTATTGCATAAGAAACGTAAAGAGTTACTCCCTTATTATTCC
TCATTCCTAACATCCAAAACTTAATATAAACATACTTTCCATGGCC
Found at i:9656337 original size:21 final size:17
Alignment explanation
Indices: 9656265--9656353 Score: 117
Period size: 17 Copynumber: 5.2 Consensus size: 17
9656255 AATTAAGAGT
*
9656265 TAGTTTAATAAATGAAC
1 TAGTTTAATTAATGAAC
*
9656282 TAGTTTGATTAATGAAC
1 TAGTTTAATTAATGAAC
9656299 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
*
9656316 TAGTTTAATTAATGAGC
1 TAGTTTAATTAATGAAC
*
9656333 TAACTTT-ATTAAATGAAC
1 T-AGTTTAATT-AATGAAC
9656351 TAG
1 TAG
9656354 ATGCGTAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
17 52 0.83
18 11 0.17
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.39
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:9657033 original size:17 final size:17
Alignment explanation
Indices: 9657011--9657059 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
9657001 AATCAATAGT
9657011 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
** *
9657028 TAGTTTGGTGAATGAAC
1 TAGTTTAATAAATGAAC
*
9657045 TAGTTTAATTAATGA
1 TAGTTTAATAAATGA
9657060 GCTAACCTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:9657276 original size:729 final size:726
Alignment explanation
Indices: 9655208--9658975 Score: 5127
Period size: 729 Copynumber: 5.2 Consensus size: 726
9655198 TATAAACATA
* * * * *
9655208 CTTCCATGGCCTGATCAAACCATAGAGAAAATGGATGTTGATCAAGATCACAACATCCCCTCCCT
1 CTTCCATGGTCTGATCAAACAATAGAGAAAATGGATATTGATCAGGATCACATCATCCCCTCCCT
* * *
9655273 CATTAAAGTGATTTATCCTCAAATCGACACTTCCTACGAACGAGAACAA-TTTAATTTCTCTTGG
66 CATTAAAGTGATTTATCCCCAAATCGACACTT-CAACGAACGAGAACAATTTTGATTTCT-TTGG
* * * *
9655337 GTGGGGAACTGCGTCACTTTTGATATACACAAAACCCATTCGAACCAAGTACATTTGTATCACAT
129 GCGGGGAACTGCTTCACTTTTGATATACACAAAACCCATTCGAACCAAGCACATCTGTATCACAT
* *
9655402 CAAGAATTGGAAGACATTCTGATTGATCTTCTCGCATCTGATAAAACCATTCAACTTCCCTCATG
194 C-AGAATTGGAAGACATTCTGATTGATATTCTCGCATCTGATGAAACCATTCAACTTCCCTCATG
*** * *
9655467 CACCTAGACACAAAGGTGAACTTTATTCAATCTTTTAATTGAAATTTTCCATTAGAA-AATTAAG
258 CACCTAGACACAAAGGTGAACTTTATTCAATCTTTTAATTGAAAACATGCATGA-AACAATTAAG
** * * *
9655531 AGTTAGTTTAATAAATGATTTAGTTTGGGGAATGAACTAGTTTAATTAGTGAGCCAACTTTATTA
322 AGTTAGTTTAATAAATGAACTAGTTTGGTGAATGAACTAGTTTAATTAATGAGCTAACTTTATTA
* *
9655596 AATGAACTAGATACAAAAATAAATTAACTTACTAAATAATCTAAATGCATAAATGAACTACTTCC
387 AATGAACTAGATACATAAATAAAGTAACTTACTAAATAATCTAAATGCATAAATGAACTACTTCC
** *
9655661 CTAAATGAGCTAGATGATTTAAATATAATGCATGATTAAATGAACAACACACTTATTAAATGCAA
452 CTAAATGAGCTAGATGATTTAAATGCAATGCATGCTTAAATGAACAACACACTTATTAAATGCAA
* * * * * *
9655726 TTAATTGTTATGAAATCTTAAAATTCACATGCAAATTCTTGCATAAGCAACGTAAAGAGTTACTC
517 TTAA-TGTTATGAAAACTTCAAATTCTCATGCAAATTCTTGCATAAGCAATGTAAAGTGTTCCTC
* * *
9655791 CCTTGTTATTCCTCGTTCCTAACGTCCCAAACTTAATGTAAACATACTTTCCATGGATGCTTGAA
581 CCTTATTATTCCTCATTCCTCACGTCCCAAACTTAATGTAAACATACTTTCCATGGATGCTTGAA
*
9655856 ACTCCTTATAACAAATGAACTCATAAACAAGTAAAAACAAGATAAAGTAAGGTAGAACTCCCTTA
646 ACTCCGTATAACAAATGAACTCATAAACAAGTAAAAACAAGAT-AAGTAAGGTAGAACTCCCTTA
*
9655921 GAGTTAGCCTTATTGAT
710 GAGTTAGCCTTAATGAT
* * * *
9655938 CTTCCATGGCCTGATCAAACAATAGAGAAAATGGATGTTGATCACGATCACAACATCCCCTCCCT
1 CTTCCATGGTCTGATCAAACAATAGAGAAAATGGATATTGATCAGGATCACATCATCCCCTCCCT
* *
9656003 CATTAAAGTGATTTATCCCCAAATCGACACTTCATACGAACGAGAACATTTTTTATTTCTTTTGG
66 CATTAAAGTGATTTATCCCCAAATCGACACTTCA-ACGAACGAGAACAATTTTGATTTC-TTTGG
** * *
9656068 GCGGGGAACTGAGTCACTTTTGATATACACTAAACCCATTCGAACCAAGTACATCTGTATCACAT
129 GCGGGGAACTGCTTCACTTTTGATATACACAAAACCCATTCGAACCAAGCACATCTGTATCACAT
* *
9656133 CAAGAATTGGAAGACATTCTGATTGATCTTCTCGCATCTGATAAAACCATTCAACTTCCCTCATG
194 C-AGAATTGGAAGACATTCTGATTGATATTCTCGCATCTGATGAAACCATTCAACTTCCCTCATG
** * * *
9656198 CACCTAGACACAAAGGTGAACTTTATTCAATCTTTTAATTGAAAATTTCCATTAGACAATTAAGA
258 CACCTAGACACAAAGGTGAACTTTATTCAATCTTTTAATTGAAAACATGCATGAAACAATTAAGA
9656263 GTTAGTTTAATAAATGAACTAGTTTGATTAATGAACTAGTTTAATTAATGAACTAGTTTAATTAA
323 GTTAGTTTAATAAATGAACTAGTTTG------G---T-G-------AATGAACTAGTTTAATTAA
* * * * * *
9656328 TGAGCTAACTTTATTAAATGAACTAGATGCGTAAATGAAGTAGCTTACTAGATAATCTAAACGCA
371 TGAGCTAACTTTATTAAATGAACTAGATACATAAATAAAGTAACTTACTAAATAATCTAAATGCA
* * * * *
9656393 TAAATGAAGTACTTCCCTAAATGAACTAGATGATTTAAATGCAATCCATGCTTAAAAGATCAACA
436 TAAATGAACTACTTCCCTAAATGAGCTAGATGATTTAAATGCAATGCATGCTTAAATGAACAACA
* * *
9656458 TACTTATTAAATGCAATTAATGTTATGAAAACTTCAAATACTAATGCAAATTCTTGCATAAGCAA
501 CACTTATTAAATGCAATTAATGTTATGAAAACTTCAAATTCTCATGCAAATTCTTGCATAAGCAA
* * * * * *
9656523 CGTAAAGTGTTCCTCCCTTATTATTCCTCGTTCCTCACGTCCCAAGCTTAATATAAAGATATTTT
566 TGTAAAGTGTTCCTCCCTTATTATTCCTCATTCCTCACGTCCCAAACTTAATGTAAACATACTTT
** * * *
9656588 CCATGTCTGCTTGGAACTCCTTATAACAAAGGAACTCATAAACAAGTAAAAACAAGATGAAGTAA
631 CCATGGATGCTTGAAACTCCGTATAACAAATGAACTCATAAACAAGTAAAAACAAGAT-AAGTAA
9656653 GGTAGAACTCCCTTAGAGTTAGCCTTAATGAT
695 GGTAGAACTCCCTTAGAGTTAGCCTTAATGAT
* * * *
9656685 CTTTCATGGTGTGATCAAACAATGGAGAAAATGGATACTGATCAGGATCACATCA-CCCCTTCCC
1 CTTCCATGGTCTGATCAAACAATAGAGAAAATGGATATTGATCAGGATCACATCATCCCC-TCCC
* * *
9656749 TCTTTAAAGCGATTTATCCCCAAATCGACACTTACAACGAACGAGAACAA-TTTGATTTCATTTA
65 TCATTAAAGTGATTTATCCCCAAATCGACACTT-CAACGAACGAGAACAATTTTGATTTC-TTTG
* * *
9656813 GGCGGTGAACTGCTTCACTTTTGATATACACAAAATCCATT-GAAACCAAGCACATCTGTATCGC
128 GGCGGGGAACTGCTTCACTTTTGATATACACAAAACCCATTCG-AACCAAGCACATCTGTATCAC
* * * *
9656877 ATGCATAATTGGAAGACATTCTGATTGATATTCTCTCATATGATGAAACCGTTCAACTTCCCTCA
192 AT-CAGAATTGGAAGACATTCTGATTGATATTCTCGCATCTGATGAAACCATTCAACTTCCCTCA
* *
9656942 TGCACCTAGACACAAAGGTGAACTTTATTAAATCTTTTAATTGAAAACATGCATGAAACAATCAA
256 TGCACCTAGACACAAAGGTGAACTTTATTCAATCTTTTAATTGAAAACATGCATGAAACAATTAA
* *
9657007 TAGTTAGTTTAATAAATGAACTAGTTTGGTGAATGAACTAGTTTAATTAATGAGCTAACCTTATT
321 GAGTTAGTTTAATAAATGAACTAGTTTGGTGAATGAACTAGTTTAATTAATGAGCTAACTTTATT
* * *
9657072 AAATAAACTAGATGCGTAAATAAAGTAA-TTGACTAAATAATCTAAATGCATAAATGAACTACTT
386 AAATGAACTAGATACATAAATAAAGTAACTT-ACTAAATAATCTAAATGCATAAATGAACTACTT
* * *
9657136 CCCTAAATGAGCTGGATGATTTAAATGCAATGCATGCTCAAATGAAC-ACAAAACTTATTAAATG
450 CCCTAAATGAGCTAGATGATTTAAATGCAATGCATGCTTAAATGAACAAC-ACACTTATTAAATG
* *
9657200 CATTTAATGTTATGAAAACTTCATATTCTCATGCAAATTCTTGCATGAA-CAATGTAAAGTGTTC
514 CAATTAATGTTATGAAAACTTCAAATTCTCATGCAAATTCTTGCAT-AAGCAATGTAAAGTGTTC
* * * *
9657264 CTCCCTTATTATTCCTCATTCATCACGTCCCAAGCTTAAAGTAAAGATACTTTCCAT-G-T-C-T
578 CTCCCTTATTATTCCTCATTCCTCACGTCCCAAACTTAATGTAAACATACTTTCCATGGATGCTT
*
9657325 G------C-T-T------GGAACTCATAAACAAGTAAAAACAAGATGAAGTAAGGTAGAACTCCC
643 GAAACTCCGTATAACAAATGAACTCATAAACAAGTAAAAACAAGAT-AAGTAAGGTAGAACTCCC
9657376 TTAGAGTTAGCCTTAATGAT
707 TTAGAGTTAGCCTTAATGAT
* * * * * *
9657396 CTTTCATGGTGTGATCGAACAATAAAGAAAATGGATTTTGATCAGTATCACATCATCCCC-CCCT
1 CTTCCATGGTCTGATCAAACAATAGAGAAAATGGATATTGATCAGGATCACATCATCCCCTCCCT
* * * *
9657460 CTTTAAAGTGATTTGTCCCCAAATCGACACATACAACGAACGAGAACAATTTTGGTTTCCTTTGG
66 CATTAAAGTGATTTATCCCCAAATCGACAC-TTCAACGAACGAGAACAATTTTGATTT-CTTTGG
* *
9657525 GCGGGGAACTGCTTCACTTTTGATATACACAAAACCAATTCGAACCAAGCACATCTGTATCGCAT
129 GCGGGGAACTGCTTCACTTTTGATATACACAAAACCCATTCGAACCAAGCACATCTGTATCACAT
* * * * *
9657590 CCAGAATTGGAAGACATTATGATTTATAGTT-TAGCATATGATGAAAACGA-TCAACTTCCCTCA
194 -CAGAATTGGAAGACATTCTGATTGATA-TTCTCGCATCTGATG-AAACCATTCAACTTCCCTCA
*
9657653 TGCACCTAGACACAAAGGTGAACTTTATTCAATCTTTTAATTGAAAACAAGCATGAAACAATTAA
256 TGCACCTAGACACAAAGGTGAACTTTATTCAATCTTTTAATTGAAAACATGCATGAAACAATTAA
* * *
9657718 GAGATAGTTTAATAAAGGAACTAGTTTGGTGAATGAATTAGTTTAATTAATGAGCTAACTTTATT
321 GAGTTAGTTTAATAAATGAACTAGTTTGGTGAATGAACTAGTTTAATTAATGAGCTAACTTTATT
** * * * * *
9657783 AAATGAACTTCATACATAAAAAAAATAACTTAATAAAAAATCTAAAAGCATAAATGAACTACTTC
386 AAATGAACTAGATACATAAATAAAGTAACTTACTAAATAATCTAAATGCATAAATGAACTACTTC
**
9657848 CCTAAATGAGCTAGATGATTTAAATATAATGCATGCTTAAATGAACAACACACTTATTAAATGCA
451 CCTAAATGAGCTAGATGATTTAAATGCAATGCATGCTTAAATGAACAACACACTTATTAAATGCA
* * *
9657913 ATTAATGTTATGAAATCTTTAAATTCTCATGCAAATTCTTGCATAAGCAATGTAAAGAGTTCCTC
516 ATTAATGTTATGAAAACTTCAAATTCTCATGCAAATTCTTGCATAAGCAATGTAAAGTGTTCCTC
* *
9657978 CCTTATTATTCCTCATTCCTCACATCCCAAACTTAATGTAAACATCCTTTCCATGGATGCTTGAA
581 CCTTATTATTCCTCATTCCTCACGTCCCAAACTTAATGTAAACATACTTTCCATGGATGCTTGAA
* *
9658043 ACTTCGTATAACAAATGAACTCATAAACAAGTAAAAACAAGATAATATAAGGTAGAACTCCCTTA
646 ACTCCGTATAACAAATGAACTCATAAACAAGTAAAAACAAGATAA-GTAAGGTAGAACTCCCTTA
9658108 GAGTTAGCCTTAATGAT
710 GAGTTAGCCTTAATGAT
* * *
9658125 CTTCCATGGCCTGATCAAACAATAGATAAAATGGATGA-TGATCATGATCACATCATCCCCTCCC
1 CTTCCATGGTCTGATCAAACAATAGAGAAAATGGAT-ATTGATCAGGATCACATCATCCCCTCCC
* * *
9658189 TCATTAAAGTGATTTGTCCCCAAATCAACACTTGCTACGAACGAGAA-AATTTTGATTTCTCTTG
65 TCATTAAAGTGATTTATCCCCAAATCGACACTT-CAACGAACGAGAACAATTTTGATTTCT-TTG
* * * * * * * *
9658253 GGCGGGTAATTGTTTTACTTTTAATATAAACAAAACCCATTCGAACCAAGAACATATGTATCACA
128 GGCGGGGAACTGCTTCACTTTTGATATACACAAAACCCATTCGAACCAAGCACATCTGTATCACA
* * * *
9658318 TGCAGAATTGGAAGACATTCTAACTGATATTCTCACATCTGATGAAACCATTCAAATTCCCTCAT
193 T-CAGAATTGGAAGACATTCTGATTGATATTCTCGCATCTGATGAAACCATTCAACTTCCCTCAT
* *
9658383 GCACCTAGACACAAAGCTGAACTTTATTTAATCTTTTAATTGAAAACATGCATGAAACAATTAAG
257 GCACCTAGACACAAAGGTGAACTTTATTCAATCTTTTAATTGAAAACATGCATGAAACAATTAAG
** * * * *
9658448 AGTTAGTTTTTTAAATGAACTAGTTTTGTGAATGAACTATTTTAATTAATGAGATACCTTTATTA
322 AGTTAGTTTAATAAATGAACTAGTTTGGTGAATGAACTAGTTTAATTAATGAGCTAACTTTATTA
** * * * * *
9658513 GTTGAATTATAAACATAAATGAAGTAACTTACTAAATAATCTAAATGCATAAATGAAATACTTCC
387 AATGAACTAGATACATAAATAAAGTAACTTACTAAATAATCTAAATGCATAAATGAACTACTTCC
*
9658578 CTAAATGAGCTAGATGATTTAAATGCAATGCATGCTTAAATGAACAACACACTTATTAAATGTAA
452 CTAAATGAGCTAGATGATTTAAATGCAATGCATGCTTAAATGAACAACACACTTATTAAATGCAA
*
9658643 TTAATGTTATGAAAACTTCAAATTCTCATGCAAATTCTCGCATAAGCAATGTAAAGTGTTCCTCC
517 TTAATGTTATGAAAACTTCAAATTCTCATGCAAATTCTTGCATAAGCAATGTAAAGTGTTCCTCC
9658708 CTTATTATTCCTCATTCCTCACGTCCCAAACTTAATGTAAACATACTTTCCATGGATGCTTGAAA
582 CTTATTATTCCTCATTCCTCACGTCCCAAACTTAATGTAAACATACTTTCCATGGATGCTTGAAA
*
9658773 CTTCGTATAACAAATGAACTCATAAACAAGTAAAAACAAGATAATGTAAGGTAGAACTCCCTTAG
647 CTCCGTATAACAAATGAACTCATAAACAAGTAAAAACAAGATAA-GTAAGGTAGAACTCCCTTAG
*
9658838 AGTTAGCCTTAATTAT
711 AGTTAGCCTTAATGAT
* * *
9658854 CTTACATGGTCTGTTCAAACAATAAAGAAAATGGATGA-TGATCAGGATCACATCATCCCCTCCC
1 CTTCCATGGTCTGATCAAACAATAGAGAAAATGGAT-ATTGATCAGGATCACATCATCCCCTCCC
* * **
9658918 TCTTTAAAGTGATTTATCCCCAAATCGACAC-TCTACGAATAAGAACAATTTTGATTTC
65 TCATTAAAGTGATTTATCCCCAAATCGACACTTCAACGAACGAGAACAATTTTGATTTC
9658976 CCTTGGTAGG
Statistics
Matches: 2722, Mismatches: 252, Indels: 130
0.88 0.08 0.04
Matches are distributed among these distances:
710 50 0.02
711 571 0.21
712 17 0.01
713 1 0.00
714 1 0.00
715 2 0.00
717 1 0.00
718 1 0.00
719 1 0.00
721 1 0.00
722 1 0.00
723 1 0.00
725 2 0.00
726 1 0.00
727 12 0.00
728 28 0.01
729 999 0.37
730 154 0.06
731 223 0.08
732 1 0.00
736 1 0.00
737 2 0.00
740 1 0.00
741 1 0.00
745 1 0.00
746 212 0.08
747 284 0.10
748 152 0.06
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (726 bp):
CTTCCATGGTCTGATCAAACAATAGAGAAAATGGATATTGATCAGGATCACATCATCCCCTCCCT
CATTAAAGTGATTTATCCCCAAATCGACACTTCAACGAACGAGAACAATTTTGATTTCTTTGGGC
GGGGAACTGCTTCACTTTTGATATACACAAAACCCATTCGAACCAAGCACATCTGTATCACATCA
GAATTGGAAGACATTCTGATTGATATTCTCGCATCTGATGAAACCATTCAACTTCCCTCATGCAC
CTAGACACAAAGGTGAACTTTATTCAATCTTTTAATTGAAAACATGCATGAAACAATTAAGAGTT
AGTTTAATAAATGAACTAGTTTGGTGAATGAACTAGTTTAATTAATGAGCTAACTTTATTAAATG
AACTAGATACATAAATAAAGTAACTTACTAAATAATCTAAATGCATAAATGAACTACTTCCCTAA
ATGAGCTAGATGATTTAAATGCAATGCATGCTTAAATGAACAACACACTTATTAAATGCAATTAA
TGTTATGAAAACTTCAAATTCTCATGCAAATTCTTGCATAAGCAATGTAAAGTGTTCCTCCCTTA
TTATTCCTCATTCCTCACGTCCCAAACTTAATGTAAACATACTTTCCATGGATGCTTGAAACTCC
GTATAACAAATGAACTCATAAACAAGTAAAAACAAGATAAGTAAGGTAGAACTCCCTTAGAGTTA
GCCTTAATGAT
Found at i:9658473 original size:17 final size:17
Alignment explanation
Indices: 9658451--9658490 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
9658441 AATTAAGAGT
*
9658451 TAGTTTTTTAAATGAAC
1 TAGTTTTGTAAATGAAC
*
9658468 TAGTTTTGTGAATGAAC
1 TAGTTTTGTAAATGAAC
9658485 TA-TTTT
1 TAGTTTT
9658491 AATTAATGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (17 bp):
TAGTTTTGTAAATGAAC
Found at i:9659014 original size:17 final size:17
Alignment explanation
Indices: 9658992--9659063 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
9658982 TAGGGGAAGT
9658992 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
9659009 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
* *
9659026 TAGTTTAATTAATGAGC
1 TAGTTTAATAAATGAAC
* * *
9659043 TAACTTTATTATATGAAC
1 T-AGTTTAATAAATGAAC
9659061 TAG
1 TAG
9659064 ATGCGTAAAT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
17 31 0.72
18 12 0.28
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:9659506 original size:541 final size:541
Alignment explanation
Indices: 9658448--9659530 Score: 1566
Period size: 541 Copynumber: 2.0 Consensus size: 541
9658438 AACAATTAAG
** * *
9658448 AGTTAGTTTTTTAAATGAACTAGTTTTGTGAATGAACTATTTTAATTAATGAGATACCTTTATTA
1 AGTTAGTTTAATAAATGAACTAGTTTTGTGAATGAACTAGTTTAATTAATGAGATAACTTTATTA
* * *
9658513 GTTGAATTATAAACATAAATGAAGTAACTTACTAAATAATCTAAATGCATAAATGAAATACTTCC
66 GTTGAACTAGAAACATAAATGAAGTAACTTACTAAATAATCTAAATGCATAAAGGAAATACTTCC
* * * *
9658578 CTAAATGAGCTAGATGATTTAAATGCAATGCATGCTTAAATGAACAACACACTTATTAAATGTAA
131 CTAAATAAACTAGATGATTTAAATGCAATGCAAGCTTAAATGAACAACACACTTATTAAATGCAA
*
9658643 TTAATGTTATGAAAACTTCAAATTCTCATGCAAATTCTCGCATAAGCAATGTAAAGTGTTCCTCC
196 TTAATGTTATGAAAACATCAAATTCTCATGCAAATTCTCGCATAAGCAATGTAAAGTGTTCCTCC
* *
9658708 CTTATTATTCCTCATTCCTCACGTCCCAAACTTAATGTAAACATACTTTCCATGGATGCTTGAAA
261 CATATTATTCCTCATTCCTCACGTCCCAAACTTAATGTAAACATACTTTCCATGGATCCTTGAAA
* * *
9658773 CTTCGTATAACAAATGAACTCATAAACAAGTAAAAACAAGATAATGTAAGGTAGAACTCCCTTAG
326 CTCCATATAACAAAGGAACTCATAAACAAGTAAAAACAAGATAATGTAAGGTAGAACTCCCTTAG
* * *
9658838 AGTTAGCCTTAATTATCTTACATGGTCTGTTCAAACAATAAAGAAAATGGATGATGATCAGGATC
391 AGTTAGCCTTAATGATCTTACATGGTCTGATCAAACAATAAAGAAAATGAATGATGATCAGGATC
** * *
9658903 ACATCATCCCCTCCCTCTTTAAAGTGATTTATCCCCAAATCGACACTCTACGAATAAGAACAATT
456 ACATCATCCCCTCCCTCTTTAAAGCAATTTATCCCCAAATCGACACTCTACAAACAAGAACAATT
9658968 TTGATTTCCCTT-GGTAGGGGA
521 TTGATTTCCCTTGGGT-GGGGA
*
9658989 AGTTAGTTTAATAAATGAACTAG-TTTGATGAATGAACTAGTTTAATTAATGAGCTAACTTTATT
1 AGTTAGTTTAATAAATGAACTAGTTTTG-TGAATGAACTAGTTTAATTAATGAGATAACTTTATT
** * * * *
9659053 A-TATGAACTAGATGCGTAAATGAAGTAGCTTACTAAATATTCTAAATGCATAAAGGAACTACTT
65 AGT-TGAACTAGAAACATAAATGAAGTAACTTACTAAATAATCTAAATGCATAAAGGAAATACTT
* **
9659117 CCCTAAATAAACTAGATGATTTAAATGTAATGCAAGCTTAAATGAATGACACACTTATTAAATGC
129 CCCTAAATAAACTAGATGATTTAAATGCAATGCAAGCTTAAATGAACAACACACTTATTAAATGC
*
9659182 AATTAATGTTATGAAAACATCAAATTCTCATGCAAATTCTTGCATAAGCAATGTAAA-TGTTCCT
194 AATTAATGTTATGAAAACATCAAATTCTCATGCAAATTCTCGCATAAGCAATGTAAAGTGTTCCT
* * * * * *
9659246 CCCATATTATTCCTCATTCCTTACGTCGCAAGCTTAATGTAAAGATACTTTCCATGGCTCCTTGG
259 CCCATATTATTCCTCATTCCTCACGTCCCAAACTTAATGTAAACATACTTTCCATGGATCCTTGA
* * *
9659311 AGCTCCATATAACAAAGGAACTCATAAACTAGTAAAAA-AAGATGAA-GTAAGGTATAACTCCCT
324 AACTCCATATAACAAAGGAACTCATAAACAAGTAAAAACAAGAT-AATGTAAGGTAGAACTCCCT
* * * ** * * *
9659374 TATAGTTAGCCTTAATGATCTTTCATGGTGTGATCAAACAATGGAGATAATGAATGCTGATCTGG
388 TAGAGTTAGCCTTAATGATCTTACATGGTCTGATCAAACAATAAAGAAAATGAATGATGATCAGG
* * *
9659439 ATCACATCATCCCCTCCCTCTTTAAAGCAATTTGTCCCCAAATTGACACTTGCTACAAACGAGAA
453 ATCACATCATCCCCTCCCTCTTTAAAGCAATTTATCCCCAAATCGACAC-T-CTACAAACAAGAA
*
9659504 CAATTTTGATTTCCTTTGGGTGGGGA
516 CAATTTTGATTTCCCTTGGGTGGGGA
9659530 A
1 A
9659531 CTTCTACACT
Statistics
Matches: 480, Mismatches: 56, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
539 120 0.25
540 105 0.22
541 252 0.52
542 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (541 bp):
AGTTAGTTTAATAAATGAACTAGTTTTGTGAATGAACTAGTTTAATTAATGAGATAACTTTATTA
GTTGAACTAGAAACATAAATGAAGTAACTTACTAAATAATCTAAATGCATAAAGGAAATACTTCC
CTAAATAAACTAGATGATTTAAATGCAATGCAAGCTTAAATGAACAACACACTTATTAAATGCAA
TTAATGTTATGAAAACATCAAATTCTCATGCAAATTCTCGCATAAGCAATGTAAAGTGTTCCTCC
CATATTATTCCTCATTCCTCACGTCCCAAACTTAATGTAAACATACTTTCCATGGATCCTTGAAA
CTCCATATAACAAAGGAACTCATAAACAAGTAAAAACAAGATAATGTAAGGTAGAACTCCCTTAG
AGTTAGCCTTAATGATCTTACATGGTCTGATCAAACAATAAAGAAAATGAATGATGATCAGGATC
ACATCATCCCCTCCCTCTTTAAAGCAATTTATCCCCAAATCGACACTCTACAAACAAGAACAATT
TTGATTTCCCTTGGGTGGGGA
Found at i:9661570 original size:22 final size:22
Alignment explanation
Indices: 9661543--9661584 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9661533 ATAATGCAAG
**
9661543 TTAGATGAAAGGTTAAATGCAT
1 TTAGATGAAAGACTAAATGCAT
9661565 TTAGATGAAAGACTAAATGC
1 TTAGATGAAAGACTAAATGC
9661585 TTAACTGTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (22 bp):
TTAGATGAAAGACTAAATGCAT
Found at i:9661623 original size:81 final size:81
Alignment explanation
Indices: 9661488--9661874 Score: 490
Period size: 81 Copynumber: 4.8 Consensus size: 81
9661478 CTATTATAAA
* *
9661488 ATGAAAGACTAAATGCCTAACTGTGCATTTGGTAGAAAGGTACAAATAATGCAAGTTAGATGAAA
1 ATGAAAGACTAAATGCCTAACTGTGCATTTGGAAGAAAGGTACCAATAATGCAAGTTAGATGAAA
9661553 GGTTAAATGCATTTAG
66 GGTTAAATGCATTTAG
* *
9661569 ATGAAAGACTAAATGCTTAACTGTGCATTTGGAAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
1 ATGAAAGACTAAATGCCTAACTGTGCATTTGGAAGAAAGGTACCAATAATGCAAGTTAGATGAAA
9661634 GGTTAAATGCATTTAG
66 GGTTAAATGCATTTAG
* * * * * * * *
9661650 ATGAAATACTAAATACCTAACTATGCATTTGGCAGAAAGGTATCGATAATGCAAGTCAGGTGAAA
1 ATGAAAGACTAAATGCCTAACTGTGCATTTGGAAGAAAGGTACCAATAATGCAAGTTAGATGAAA
* *
9661715 GGTTGAATGCCTTTAG
66 GGTTAAATGCATTTAG
* * * * * *
9661731 ATGAAAGACTTAATGCCTAACTTTGCATTTGGCAA-AAAGGTCCCAAAAATGCAAGTTAAATAAA
1 ATGAAAGACTAAATGCCTAACTGTGCATTTGG-AAGAAAGGTACCAATAATGCAAGTTAGATGAA
*
9661795 AGGTTAAATGCCTTTAG
65 AGGTTAAATGCATTTAG
* * * * * *
9661812 AGGAAATG-TTAAATGCCTAACTGTGCATCTTGGAAAAAATGTGCCACTAATGCAAGTTAGATG
1 ATGAAA-GACTAAATGCCTAACTGTGCAT-TTGGAAGAAAGGTACCAATAATGCAAGTTAGATG
9661875 GGAAATGGTG
Statistics
Matches: 262, Mismatches: 40, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
81 235 0.90
82 27 0.10
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.27
Consensus pattern (81 bp):
ATGAAAGACTAAATGCCTAACTGTGCATTTGGAAGAAAGGTACCAATAATGCAAGTTAGATGAAA
GGTTAAATGCATTTAG
Found at i:9661932 original size:46 final size:46
Alignment explanation
Indices: 9661881--9663528 Score: 1770
Period size: 46 Copynumber: 36.3 Consensus size: 46
9661871 GATGGGAAAT
* * ** **
9661881 GGTGCATAATTGGCATGAAAGGATACCATAAATAAAAAAACATAGT
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* *
9661927 GGTGCATAATTGGCAAGAAAGGATACCATAAATGAAAATGCATAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * * * * *
9661973 GGTGGATAATAGACTTGAAATGATGCCATAAATG-AAATTCATAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * * *
9662018 GCTGCATAATTGGCATGAATGTATTG-CATACATGAAAAT-C----C
1 GGTGCATAATTGGCATGAAAGGA-TGCCATAAATGAAAATGCATAAC
* * * * * *
9662059 -ATGAATAATTGGCATGAAATGATTCCATAAAT-AAAATGAACAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
** * *
9662103 GCCGCATAATTGGCGA-GAAAGGATGTCATAAATTAAAATGCATAAC
1 GGTGCATAATTGGC-ATGAAAGGATGCCATAAATGAAAATGCATAAC
*
9662149 GGTACATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
** *
9662195 GGTGCATAATTACCATGAAAGGATGCCATAGATGAAAATGCATAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* *
9662241 GGTGCATAATTCGCATGAAAGGATGCCATAAATGAAAATTCATAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * * * *
9662287 AGTGCATAATTGGCATGAAAAGTTGCCATAAATGAAAATGAATAAT
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
*
9662333 GGTGCATAATTGGCATGAAAGGATGTCATAAATGAAAATGCATAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * *
9662379 GGTGCATAATTGGCATAAAAGGATGCCATAAAAGAAAATGTATAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * * *
9662425 GGTTCATAATTGGTAGGAAAGGATTCTC-TAAATGAAAATGCATAAC
1 GGTGCATAATTGGCATGAAAGGATGC-CATAAATGAAAATGCATAAC
* * * *
9662471 GGTGTATAATTGGCATGAAATGATGCCATAAATAAAAATGCATAAT
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * *
9662517 GGTGCAAAACTGGCATGAAACGATGCCATAAATGAAAATGCATAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * * *
9662563 GGTGCATAATTGGCATGGAAGGGTGCCATAAATGAAAATGAATAAT
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * *
9662609 GGTGCATAATTGGCATGAAAGGATGTCTTAAATGAAATTGCATAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * *
9662655 GGTGAATAATTGG-AGAGAAAGGGTGCCATAAATGAAAATGCATAAC
1 GGTGCATAATTGGCA-TGAAAGGATGCCATAAATGAAAATGCATAAC
** *
9662701 GGTATATAATTGGCATGAAAGGATGCCATAAATGAAAAATACA-AAGC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATG-AAAATGCATAA-C
* * * * *
9662748 GGTGTATAATTAGCATGAAAGGATGTCATAAATTAAAATGAATAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* *
9662794 GGTGCATATTTGGCATGAAAGGATGCCATAAATGAAAATGCATAAT
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * * *
9662840 GGTGCATAATTGCCATGAAAGGATGCTATAAATGAAAATGAATAGC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* ** *
9662886 AGCACATAATTGGCTTGAAAGGATGCCATAAAT-AAAATGCATAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* *
9662931 GGTGCATAATTGGCATGAAATGATGTCATAAATG-AAATGC-TAA-
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * *
9662974 TGTGCATAATTGCCATGAAA-GATGCTATAAATG-AAATG---AA-
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * * *
9663014 TGAGCCTAATT-GCTTGAAA-GAT-CCATAAAT-AAAATGCATAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * *
9663056 GGTGCATAATTGGCATGAAATGATGTCATAAATGAAAATGCTTAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * * * *
9663102 GGTGCATAATTGGTAAGAAATGATGCCATAAATGAAAATGTATAAT
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * * *
9663148 GATGCCTAATTTGCACGAAAGGAT-CCTATAAATGAAAATGCATAAC
1 GGTGCATAATTGGCATGAAAGGATGCC-ATAAATGAAAATGCATAAC
** * *
9663194 TTTACATAATTGGCATGAAAGGATGCCATAAATGAAAATGC-TGAAA
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCAT-AAC
* * *
9663240 GGTGCATAATTGGCATGAAAGGATGTCGTAAATGAAAATGCATAAT
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* *
9663286 GGTGCATAATTGGCATGAAAGGATGCCGTAAATGAAAATGCATAAT
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * * * * * * *
9663332 GGTGCTTAATAGGAATGAAAAGATGCCATACATGAAATTGAATAGC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* *
9663378 TGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGGATAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
* * * * ** *
9663424 GATGTATAATTAGCATAAAATTATGCCATAAATGAAAATGAATAAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
*** * * * * *
9663470 AACGTATAATTAGCATGAAAGGATGCCACAAATGAAAATACATGAC
1 GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
*
9663516 GGTGTATTAATTG
1 GGTGCA-TAATTG
9663529 CATATAAAGT
Statistics
Matches: 1337, Mismatches: 231, Indels: 67
0.82 0.14 0.04
Matches are distributed among these distances:
38 12 0.01
39 15 0.01
40 34 0.03
41 3 0.00
42 24 0.02
43 25 0.02
44 7 0.01
45 113 0.08
46 1054 0.79
47 50 0.04
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (46 bp):
GGTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC
Found at i:9662350 original size:23 final size:21
Alignment explanation
Indices: 9662288--9662409 Score: 59
Period size: 22 Copynumber: 5.4 Consensus size: 21
9662278 ATTCATAACA
9662288 GTGCATAATTGGCATGAAAAG
1 GTGCATAATTGGCATGAAAAG
* * **
9662309 TTGCCATAAATGAAAATGAATAATG
1 GTG-CATAATTG-GCATGAA-AA-G
9662334 GTGCATAATTGGCATG-AAAG
1 GTGCATAATTGGCATGAAAAG
* ** *
9662354 GATGTCATAAATGAAAATGCATAACG
1 G-TG-CATAATTG-GCATG-A-AAAG
9662380 GTGCATAATTGGCAT-AAAAG
1 GTGCATAATTGGCATGAAAAG
9662400 GATGCCATAA
1 G-TG-CATAA
9662410 AAGAAAATGT
Statistics
Matches: 73, Mismatches: 16, Indels: 23
0.65 0.14 0.21
Matches are distributed among these distances:
20 6 0.08
21 9 0.12
22 20 0.27
23 13 0.18
24 16 0.22
25 5 0.07
26 4 0.05
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.25
Consensus pattern (21 bp):
GTGCATAATTGGCATGAAAAG
Found at i:9662880 original size:23 final size:22
Alignment explanation
Indices: 9662808--9662881 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 22
9662798 CATATTTGGC
9662808 ATGAAAGGATGCCATAAATGAAA
1 ATGAAAGGATG-CATAAATGAAA
* **
9662831 ATGCATAATGG-TGCATAATTG-CC
1 ATG-A-AA-GGATGCATAAATGAAA
9662854 ATGAAAGGATGCTATAAATGAAA
1 ATGAAAGGATGC-ATAAATGAAA
9662877 ATGAA
1 ATGAA
9662882 TAGCAGCACA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
20 2 0.05
21 5 0.13
22 7 0.18
23 11 0.28
24 8 0.21
25 4 0.10
26 2 0.05
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (22 bp):
ATGAAAGGATGCATAAATGAAA
Found at i:9666844 original size:19 final size:20
Alignment explanation
Indices: 9666816--9666855 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
9666806 GGATAATAAT
9666816 ATAAGTAATGCAAA-GAAATA
1 ATAAGTAATG-AAATGAAATA
9666836 ATAAG-AATGAAATGAAATA
1 ATAAGTAATGAAATGAAATA
9666855 A
1 A
9666856 AGAAAAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 11 0.58
20 5 0.26
ACGTcount: A:0.62, C:0.03, G:0.15, T:0.20
Consensus pattern (20 bp):
ATAAGTAATGAAATGAAATA
Found at i:9674839 original size:81 final size:81
Alignment explanation
Indices: 9674702--9675091 Score: 550
Period size: 81 Copynumber: 4.8 Consensus size: 81
9674692 CTGTTATAAA
9674702 ATGAAAGACTAAATGCCTAACTATGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
1 ATGAAAGACTAAATGCCTAACTATGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
9674767 TGTTAAATGCATTTAG
66 TGTTAAATGCATTTAG
* * * * * *
9674783 ATGAAAAACTAATTGCCTAATTATTCATTTGGCAGAAAGGTGTCAATAATGAAAGTTAGATGAAA
1 ATGAAAGACTAAATGCCTAACTATGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
*
9674848 -GTTTAAATACATTTAG
66 TG-TTAAATGCATTTAG
* *
9674864 ATGAAAGACTAAATGCCTAACTGTGCATTTGGAAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
1 ATGAAAGACTAAATGCCTAACTATGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
*
9674929 TGTTAAATGCCTTTAG
66 TGTTAAATGCATTTAG
*
9674945 ATGAAAGACTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
1 ATGAAAGACTAAATGCCTAACTATGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
* * * *
9675010 GGTCAATTGCCTTTAG
66 TGTTAAATGCATTTAG
* ** * * *
9675026 AGGAAAGGTTAAATGCCTAACTTTGCATTTTGGCATAAAGGTG-CAACTAATGCAAGTTAGCTGA
1 ATGAAAGACTAAATGCCTAACTATGCA-TTTGGCAGAAAGGTGCCAA-TAATGCAAGTTAGATGA
9675090 AA
64 AA
9675092 AATAGTGCAT
Statistics
Matches: 278, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.00
81 244 0.88
82 33 0.12
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.28
Consensus pattern (81 bp):
ATGAAAGACTAAATGCCTAACTATGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
TGTTAAATGCATTTAG
Found at i:9674957 original size:22 final size:22
Alignment explanation
Indices: 9674919--9674962 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9674909 ATAATGCAAG
*
9674919 TTAGATGAAATGTTAAATGCCT
1 TTAGATGAAATGCTAAATGCCT
9674941 TTAGATGAAA-GACTAAATGCCT
1 TTAGATGAAATG-CTAAATGCCT
9674963 AACTGTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (22 bp):
TTAGATGAAATGCTAAATGCCT
Found at i:9675025 original size:22 final size:22
Alignment explanation
Indices: 9675000--9675043 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9674990 ATAATGCAAG
* *
9675000 TTAGATGAAAGGTCAATTGCCT
1 TTAGAGGAAAGGTCAAATGCCT
*
9675022 TTAGAGGAAAGGTTAAATGCCT
1 TTAGAGGAAAGGTCAAATGCCT
9675044 AACTTTGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (22 bp):
TTAGAGGAAAGGTCAAATGCCT
Found at i:9675149 original size:46 final size:46
Alignment explanation
Indices: 9675096--9677595 Score: 2376
Period size: 46 Copynumber: 54.8 Consensus size: 46
9675086 CTGAAAAATA
* ** * *
9675096 GTGCATAATTGCCATGAAAAAATGCCATAAATAAAAATGAATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
*
9675142 GTGCATAATTGGCATGAAAGGATTCCATAAATGAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * ** *
9675188 CTGCATAATTGGCATAAAAGGATTACATAAATGAAAATGTATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* *
9675234 GTGCATAATTGGCATGAAATGATGCCATAAATAAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * * *
9675280 GTTCATAATTGGCATGAAAGAATACCATAAATGAAAATGAATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
*** * *** *
9675326 ACACATAATTGGTATGAAAGGATGCCATAAATGAAAATATGTAACA
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* *
9675372 GTGCATAATTGGCATGAACGTATGCCATAAATGAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
*
9675418 GTGCATAATTAGCATGAAAGGATGCCATAAATGAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * *
9675464 ATGCATATAATTGGTATGAAAGTATGCCATAAATGAAAATGCATAACG
1 GTGC--ATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* *
9675512 GTGCATAATTGGCATGAAAGGATGTCATAAATGAAAATGCATAATG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * *
9675558 GTACATAATTAGCATGAAAAGATGCCATAAAT---AA---A-AA--
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
*
9675595 -TGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACA
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
** * *
9675640 GTGCATAATTGGCATGAAATAATGCCATAAATGAAAAT-AATAATG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
** * *
9675685 GTAAATAATTGGCATGGAAGGATACCATAAATGAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * * ** *
9675731 GTACATAATTGGCATGAAAGGATGTCATATATGAAAATTAATAACA
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
** * * *
9675777 ACGCATAATTTGCATGAAAGGATTCCATAAAAGAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* **
9675823 GTGCATAATTGGCATGAAATGATTTCATAAATGAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * * * *
9675869 GTGGATAATTGGGATGAAAGTATGCCATAAATGTAAATGCATAATG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * * * *
9675915 GTGCCTAATTGGCTTGAACGAATTCCATAAATGAAAATGCATAA--
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * *
9675959 GAGCATAATTAGCATGAAATGATGCCATAAATGAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * ** * *
9676005 ATCCATATAATTGGGTTGAAAGGATGCCATAAATGAAAATACATAACT
1 GTGC--ATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * *
9676053 TTGTATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAATG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * * *
9676099 GTGCATAATTAGCATGAAATGATGCCATAAATAAAAATGCATAGCG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* ** *
9676145 ATGCATAATTAACATAAAAGGATGCCATAAATGAAAATGCATAA-G
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * * *
9676190 AGTGAATAATTGGCATGAAAGGATGCCCTAAATGAAAATGAATAATG
1 -GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
** **
9676237 GTAAATAATTGGCAT-AGAAGGATGCCATAAATGAAAACACATAACG
1 GTGCATAATTGGCATGA-AAGGATGCCATAAATGAAAATGCATAACG
* * * *
9676283 GTGCATAATTGGCATGAAAGGATGACATATATGAAAATGAATAACAA
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAAC-G
** * *
9676330 CAG-ATAATTGGCATGAAAGGATTCCATAATTGAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * * *
9676375 CTACATAATTGGCATGGAAGGATACCATAAATGAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
*
9676421 GTGCATAATTGGCATGAAAGGATACCATAAATGAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * * *
9676467 GTCCATATTTAGAATGAAAGGATGCCATAAATGAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * ** *
9676513 ATCAATGCATATAATTGGTATGAAAGGATGCCATAAATGAAAACACATAACA
1 ----GTGC--ATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* *
9676565 GTGCATAATTGGCATGAAATGATGCCATAAATG-AAATGCATAACA
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * * * *
9676610 ATGCATATAATTGGAATGAAATGATGCCATAAATGAAAATGCCTAACT
1 GTGC--ATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
*
9676658 GTGCATAATTGGCATGAAATGG-TGCCATAAATGAAAATGCATAATG
1 GTGCATAATTGGCATGAAA-GGATGCCATAAATGAAAATGCATAACG
*
9676704 GTGCATAATTAGCATGAAAGGATGCCATAAATGAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * *
9676750 ATGCATAATTGGCATGAAAGGATGCCATAAATGAAAATACATAATG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * * *
9676796 GTGCATAATTGACATGGAATGATGCCATAAATGAAAATACATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* *
9676842 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCCTAACT
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * * * * **
9676888 ATGCAT--TTGG-AAGAATGG-TACCA-ATAATCCAAGTTAG-ATGAA--
1 GTGCATAATTGGCATGAAAGGATGCCATA-AAT-GAAAAT-GCAT-AACG
* * * * ** * * **
9676930 ATG-TTAAAT-GCCT-TTA-GATG--AAAAACT--AAATGCCTAATT
1 GTGCATAATTGGCATGAAAGGATGCCATAAA-TGAAAATGCATAACG
* ** ** *
9676969 GTGCAT--CTGGCA-GAAAGG-TGCCA-ATAATGCAAGTTAAATGAAAG
1 GTGCATAATTGGCATGAAAGGATGCCATA-AATG-AAAATGCAT-AACG
* * * * * ** * * *
9677013 GT---TAAATGCCTTTAGAGGA----A-AGGT-TAAATGCCTAACT
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * * * *
9677050 GTGCAT-TTTTGCAT-AAAGG-TGCCACT-AATACAAGTTAGATGAAAAACG
1 GTGCATAATTGGCATGAAAGGATGCCA-TAAAT-GAA---A-ATGCATAACG
* *
9677098 GTGCATAATTGGCATGAAAGGATGTCATAAATGAAAATGCATAATG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * *
9677144 GTGCATAATTGTCATGAAATGATGCCATAAATGAAAATGCATAACA
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* ** * * *
9677190 TTTAATAATTGGCATGAAAGGATTCCATAGATGAAAATACATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
9677236 GTGCATAAATT-GCATGAAAGGATGCCATAAATGAAAATGCATAACG
1 GTGCAT-AATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * *
9677282 GTGCATAATTAGCATGAAATGATGCGATAAATGAAAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * *
9677328 GTGCATAATAT-GCATGAAAGGATACCATAAATAAAAATGCATAACA
1 GTGCATAAT-TGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * * *
9677374 ATGCATAATTGACATGAAAGGATGTCATAAAT-ATTAATGCATAACG
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGA-AAATGCATAACG
* * * * *
9677420 GTTCATAATTAGTATGAAAGGATGCCATAAATGAAAATGTATAACA
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
* * * *
9677466 GTGCATAATTGGCAT-AGAAGAATGCTATAAATGAAAATGAATAATG
1 GTGCATAATTGGCATGA-AAGGATGCCATAAATGAAAATGCATAACG
* * * *
9677512 ATGCATAATTGGCATGAAATGATGCCATAAATGAAAATGAATAACA
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
** * * *
9677558 ACGAATAATTGGCATGAAAGGATGCCACATATGAAAAT
1 GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAAT
9677596 ACATGATTGT
Statistics
Matches: 2001, Mismatches: 364, Indels: 178
0.79 0.14 0.07
Matches are distributed among these distances:
36 28 0.01
37 7 0.00
38 11 0.01
39 14 0.01
40 10 0.00
41 12 0.01
42 14 0.01
43 21 0.01
44 52 0.03
45 61 0.03
46 1564 0.78
47 41 0.02
48 107 0.05
49 6 0.00
50 10 0.00
51 7 0.00
52 36 0.02
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.25
Consensus pattern (46 bp):
GTGCATAATTGGCATGAAAGGATGCCATAAATGAAAATGCATAACG
Found at i:9675553 original size:36 final size:36
Alignment explanation
Indices: 9675513--9675637 Score: 124
Period size: 36 Copynumber: 3.2 Consensus size: 36
9675503 TGCATAACGG
*
9675513 TGCATAATTGGCATGAAAGGATGTCATAAATGAAAA
1 TGCATAATTGGCATGAAAGGATGCCATAAATGAAAA
* * *
9675549 TGCATAATGGTACATAATTAGCATGAAAAGATGCCATAAATAAAAA
1 TGC--------A--TAATTGGCATGAAAGGATGCCATAAATGAAAA
9675595 TGCATAATTGGCATGAAAGGATGCCATAAATGAAAA
1 TGCATAATTGGCATGAAAGGATGCCATAAATGAAAA
9675631 TGCATAA
1 TGCATAA
9675638 CAGTGCATAA
Statistics
Matches: 72, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
36 39 0.54
38 1 0.01
44 1 0.01
46 31 0.43
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.24
Consensus pattern (36 bp):
TGCATAATTGGCATGAAAGGATGCCATAAATGAAAA
Found at i:9676128 original size:22 final size:22
Alignment explanation
Indices: 9676057--9676128 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 22
9676047 ATAACTTTGT
* *
9676057 ATAATTGGCATGAAAGGATGCC
1 ATAATTAGCATGAAATGATGCC
* ** *
9676079 ATAAATGAAAATGCATAATGGTG-C
1 AT-AATTAGCATG-A-AATGATGCC
9676103 ATAATTAGCATGAAATGATGCC
1 ATAATTAGCATGAAATGATGCC
9676125 ATAA
1 ATAA
9676129 ATAAAAATGC
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
21 6 0.17
22 8 0.22
23 13 0.36
24 4 0.11
25 5 0.14
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (22 bp):
ATAATTAGCATGAAATGATGCC
Found at i:9677011 original size:81 final size:81
Alignment explanation
Indices: 9676876--9677093 Score: 274
Period size: 81 Copynumber: 2.7 Consensus size: 81
9676866 CCATAAATGA
* * * * * *
9676876 AAATGCCTAACTATGCATTTGGAAGAATGGTACCAATAATCCAAGTTAGATGAAATGTTAAATGC
1 AAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATACAAGTTAGATGAAAGGTTAAATGC
*
9676941 CTTTAGATGAAAAACT
66 CTTTAGAGGAAAAACT
* * * *
9676957 AAATGCCTAATTGTGCATCTGGCAGAAAGGTGCCAATAATGCAAGTTAAATGAAAGGTTAAATGC
1 AAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATACAAGTTAGATGAAAGGTTAAATGC
***
9677022 CTTTAGAGGAAAGGTT
66 CTTTAGAGGAAAAACT
* * *
9677038 AAATGCCTAACTGTGCATTTTTGCATAAAGGTGCCACTAATACAAGTTAGATGAAA
1 AAATGCCTAACTGTGCA-TTTGGCAGAAAGGTGCCAATAATACAAGTTAGATGAAA
9677094 AACGGTGCAT
Statistics
Matches: 116, Mismatches: 20, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
81 84 0.72
82 32 0.28
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (81 bp):
AAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATACAAGTTAGATGAAAGGTTAAATGC
CTTTAGAGGAAAAACT
Found at i:9677551 original size:23 final size:23
Alignment explanation
Indices: 9677487--9677552 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
9677477 GCATAGAAGA
*
9677487 ATGCTATAAATGAAAATGAATAATG
1 ATGCCATAAATGAAAATG-A-AATG
* **
9677512 ATG-CATAATTG-GCATGAAATG
1 ATGCCATAAATGAAAATGAAATG
9677533 ATGCCATAAATGAAAATGAA
1 ATGCCATAAATGAAAATGAA
9677553 TAACAACGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
21 7 0.22
22 8 0.25
23 8 0.25
24 6 0.19
25 3 0.09
ACGTcount: A:0.48, C:0.08, G:0.18, T:0.26
Consensus pattern (23 bp):
ATGCCATAAATGAAAATGAAATG
Found at i:9684961 original size:39 final size:39
Alignment explanation
Indices: 9684863--9685011 Score: 145
Period size: 39 Copynumber: 3.8 Consensus size: 39
9684853 ATACCTAGTT
* * * *
9684863 CATATGGTGGATGCAACCTTAAGCGTATGCACTTTGTTG
1 CATATGGTGGACGCAACCTTATGCGTAAGCACTTTGGTG
* * * * * *
9684902 CATATGGTGAACGTAGCCTTATGCGTAAGAACTTCGGTA
1 CATATGGTGGACGCAACCTTATGCGTAAGCACTTTGGTG
* * *
9684941 CATATGGTGGACGCAACCTTATACGTGAGCAGTTTGGTG
1 CATATGGTGGACGCAACCTTATGCGTAAGCACTTTGGTG
* * * *
9684980 TATATGTTGGACACAACCTTATGTGTAAGCAC
1 CATATGGTGGACGCAACCTTATGCGTAAGCAC
9685012 ATCGATGCAA
Statistics
Matches: 84, Mismatches: 26, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (39 bp):
CATATGGTGGACGCAACCTTATGCGTAAGCACTTTGGTG
Found at i:9688318 original size:26 final size:26
Alignment explanation
Indices: 9688287--9688602 Score: 141
Period size: 26 Copynumber: 13.5 Consensus size: 26
9688277 ATGCATTAAG
9688287 GCATGAAAAGATGCCATAATTAAAAT
1 GCATGAAAAGATGCCATAATTAAAAT
* * *
9688313 ACATGAAAGGATG-C---ATT--AAG
1 GCATGAAAAGATGCCATAATTAAAAT
*
9688333 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAAGATGCCATAATTAAAAT
*
9688359 GCATG-AAAGAATG-C---ATT--AAG
1 GCATGAAAAG-ATGCCATAATTAAAAT
9688379 GCATGAAAAGATGCCATAATTAAAAT
1 GCATGAAAAGATGCCATAATTAAAAT
* *
9688405 GCATGAAAGGATG-C---ATT--AAG
1 GCATGAAAAGATGCCATAATTAAAAT
*
9688425 GCATGAAATGATGCCATAATTAAAAT
1 GCATGAAAAGATGCCATAATTAAAAT
* * *
9688451 -CTATGAAAGGAT----TCATT--AAG
1 GC-ATGAAAAGATGCCATAATTAAAAT
* * *
9688471 GCATGAAAGGACGCCATAACTAAAAT
1 GCATGAAAAGATGCCATAATTAAAAT
* * *
9688497 GTATGAAATGATG-C---ATT--AAG
1 GCATGAAAAGATGCCATAATTAAAAT
*
9688517 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAAGATGCCATAATTAAAAT
* *
9688543 GCATGAAAGGATG-C---ATT--AAG
1 GCATGAAAAGATGCCATAATTAAAAT
*
9688563 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAAGATGCCATAATTAAAAT
* *
9688589 GCATTAAAGGATGC
1 GCATGAAAAGATGC
9688603 ATTAGGGCAA
Statistics
Matches: 220, Mismatches: 30, Indels: 80
0.67 0.09 0.24
Matches are distributed among these distances:
20 77 0.35
21 10 0.05
22 18 0.08
24 18 0.08
25 9 0.04
26 88 0.40
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (26 bp):
GCATGAAAAGATGCCATAATTAAAAT
Found at i:9688647 original size:46 final size:46
Alignment explanation
Indices: 9688262--9688635 Score: 597
Period size: 46 Copynumber: 8.1 Consensus size: 46
9688252 AGAGTATGTA
*
9688262 AAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGCCATAATT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATT
*
9688308 AAAATACATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATT
* *
9688354 AAAATGCATGAAAGAATGCATTAAGGCATGAAAAGATGCCATAATT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATT
*
9688400 AAAATGCATGAAAGGATGCATTAAGGCATGAAATGATGCCATAATT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATT
* * *
9688446 AAAAT-CTATGAAAGGATTCATTAAGGCATGAAAGGACGCCATAACT
1 AAAATGC-ATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATT
* *
9688492 AAAATGTATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATT
9688538 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATT
* * * *
9688584 AAAATGCATTAAAGGATGCATTAGGGCAAGAATGGATGCCATAATT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATT
*
9688630 TAAATG
1 AAAATG
9688636 TTTAAATGGA
Statistics
Matches: 303, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 302 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (46 bp):
AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATT
Found at i:9690701 original size:24 final size:24
Alignment explanation
Indices: 9690674--9690725 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
9690664 AACGGATATA
*
9690674 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
9690698 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
9690722 TCAA
1 TCAA
9690726 GTAACATATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:9690782 original size:48 final size:48
Alignment explanation
Indices: 9690697--9690811 Score: 162
Period size: 48 Copynumber: 2.4 Consensus size: 48
9690687 CATAAATCAG
*
9690697 GTCAAGTATCATATCAGAAATCAGGTCAAGTAACATATCAGAATCCAA
1 GTCAAGTATCAGATCAGAAATCAGGTCAAGTAACATATCAGAATCCAA
* * *
9690745 GTCAAGTATCAGATCA-AAATCCATGTC-AGATATCATATCAGAATCCAT
1 GTCAAGTATCAGATCAGAAAT-CAGGTCAAG-TAACATATCAGAATCCAA
9690793 GTCAAGTATCAGATCAGAA
1 GTCAAGTATCAGATCAGAA
9690812 TTCAAATCGA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
47 6 0.10
48 52 0.87
49 2 0.03
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAAATCAGGTCAAGTAACATATCAGAATCCAA
Found at i:9690812 original size:24 final size:24
Alignment explanation
Indices: 9690697--9690812 Score: 146
Period size: 24 Copynumber: 4.8 Consensus size: 24
9690687 CATAAATCAG
*
9690697 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCATATCAG-AATCCAT
* *
9690721 GTCAAGTAACATATCAGAATCCAA
1 GTCAAGTATCATATCAGAATCCAT
* *
9690745 GTCAAGTATCAGATCAAAATCCAT
1 GTCAAGTATCATATCAGAATCCAT
9690769 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCATATCAGAATCCAT
*
9690793 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCATATCAGAAT
9690813 TCAAATCGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
23 5 0.06
24 73 0.91
25 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAT
Found at i:9690828 original size:72 final size:71
Alignment explanation
Indices: 9690703--9690835 Score: 171
Period size: 72 Copynumber: 1.9 Consensus size: 71
9690693 TCAGGTCAAG
* * *
9690703 TATCATATCAGAAATCAGGTCAAGTAACATATCAGAATCCAAGTCAAGTATCAGATCAAAATCCA
1 TATCATATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAAATCAAGAATCAGAT-AAAATCCA
9690768 TGTCAGA
65 TGTCAGA
* * *
9690775 TATCATATCAG-AATCCATGTCAAGTATCAGATCAGAATTCAAATCGAA-AATCAGATAAAAT
1 TATCATATCAGAAAT-CAGGTCAAGTAACAGATCAGAATCCAAATC-AAGAATCAGATAAAAT
9690836 ATTCATGTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
71 8 0.15
72 43 0.81
73 2 0.04
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (71 bp):
TATCATATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAAATCAAGAATCAGATAAAATCCAT
GTCAGA
Found at i:9693360 original size:15 final size:15
Alignment explanation
Indices: 9693340--9693378 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
9693330 GGTCAACGCC
*
9693340 GGTCAATGGTCAAAG
1 GGTCAACGGTCAAAG
*
9693355 GGTCAACGGTCAACG
1 GGTCAACGGTCAAAG
9693370 GGTCAACGG
1 GGTCAACGG
9693379 GTCGGGTCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.36, T:0.15
Consensus pattern (15 bp):
GGTCAACGGTCAAAG
Found at i:9695461 original size:24 final size:24
Alignment explanation
Indices: 9695434--9695485 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
9695424 AACGGATATA
*
9695434 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
9695458 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
9695482 TCAA
1 TCAA
9695486 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:9695569 original size:24 final size:24
Alignment explanation
Indices: 9695457--9695572 Score: 130
Period size: 24 Copynumber: 4.8 Consensus size: 24
9695447 CATAAATCAG
* *
9695457 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAT
* * *
9695481 GTCAAGTAACAGATCAAAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
*
9695505 GTCAAGTATCAGATCAAAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
9695529 -TGC-AGATATCAGATCAGAATCCAT
1 GT-CAAG-TATCAGATCAGAATCCAT
9695553 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
9695573 TCAAATCGAA
Statistics
Matches: 80, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
23 6 0.08
24 71 0.89
25 3 0.04
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:9695588 original size:48 final size:48
Alignment explanation
Indices: 9695490--9695595 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 48
9695480 GGTCAAGTAA
* * *
9695490 CAGATCAAAATCCAAGTCAAGTATCAGATCAAAATCCATTGCAGATAT
1 CAGATCAAAATCCAAGTCAAGTATCAGATCAAAATCAATCGCAGAAAT
* * *
9695538 CAGATCAGAATCCATGTCAAGTATCAGATCAGAATTCAAATCG-A-AAAT
1 CAGATCAAAATCCAAGTCAAGTATCAGATCA-AAATC-AATCGCAGAAAT
9695586 CAGAT-AAAAT
1 CAGATCAAAAT
9695596 ATTCATGTGA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
47 4 0.08
48 37 0.76
49 5 0.10
50 3 0.06
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (48 bp):
CAGATCAAAATCCAAGTCAAGTATCAGATCAAAATCAATCGCAGAAAT
Found at i:9695588 original size:72 final size:71
Alignment explanation
Indices: 9695463--9695595 Score: 162
Period size: 72 Copynumber: 1.9 Consensus size: 71
9695453 TCAGGTCAAG
* * *
9695463 TATCATATCAGAAATCAGGTCAAGTAACAGATCAAAATCCAAGTCAAGTATCAGATCAAAATCCA
1 TATCAGATCAGAAATCAGGTCAAGTAACAGATCAAAATCCAAATCAAGAATCAGAT-AAAATCCA
9695528 TTGCAGA
65 TTGCAGA
* * * *
9695535 TATCAGATCAG-AATCCATGTCAAGTATCAGATCAGAATTCAAATCGAA-AATCAGATAAAAT
1 TATCAGATCAGAAAT-CAGGTCAAGTAACAGATCAAAATCCAAATC-AAGAATCAGATAAAAT
9695596 ATTCATGTGA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
71 8 0.15
72 42 0.81
73 2 0.04
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (71 bp):
TATCAGATCAGAAATCAGGTCAAGTAACAGATCAAAATCCAAATCAAGAATCAGATAAAATCCAT
TGCAGA
Found at i:9698142 original size:18 final size:18
Alignment explanation
Indices: 9698119--9698159 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
9698109 AATGGGTCAA
9698119 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
9698137 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
*
9698155 AGGGT
1 CGGGT
9698160 TGTGACCGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.20, G:0.51, T:0.17
Consensus pattern (18 bp):
CGGGTCAACGGGTCGGGT
Found at i:9703431 original size:22 final size:23
Alignment explanation
Indices: 9703392--9703444 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
9703382 TATCGATACT
*
9703392 GTAAGGG-GGTATCAATACCATA
1 GTAAGGGTAGTATCAATACCATA
* *
9703414 GT-AGGGTAGTATCGATACCATG
1 GTAAGGGTAGTATCAATACCATA
9703436 GTAAGGGTA
1 GTAAGGGTA
9703445 TCAATACCCG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 16 0.62
23 6 0.23
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.25
Consensus pattern (23 bp):
GTAAGGGTAGTATCAATACCATA
Found at i:9703451 original size:20 final size:20
Alignment explanation
Indices: 9703398--9703452 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
9703388 TACTGTAAGG
*
9703398 GGGTATCAATACCATAGTAG
1 GGGTATCAATACCATAGTAA
* *
9703418 GGTAGTATCGATACCATGGTAA
1 GG--GTATCAATACCATAGTAA
9703440 GGGTATCAATACC
1 GGGTATCAATACC
9703453 CGAAAACATC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 12 0.41
22 17 0.59
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (20 bp):
GGGTATCAATACCATAGTAA
Found at i:9703461 original size:95 final size:95
Alignment explanation
Indices: 9703333--9703533 Score: 242
Period size: 95 Copynumber: 2.1 Consensus size: 95
9703323 GGTAGATTCA
* * ** * *
9703333 ATACCATGGTAAGGGTATCGATACTAGGTAACATCGAATCTAAAATCGGTATCGATA-CTGTAAG
1 ATACCATGGTAAGGGTATCAATACCAGAAAACATCAAATCTAAAATCGGTATCGATATCAG-AAG
* *
9703397 GGGGTATCAATACCATAGTAGGGTAGTATCG
65 GGGGTATCAATACCATAGTAGAGAAGTATCG
* * *
9703428 ATACCATGGTAAGGGTATCAATACCCGAAAACATCAAATTTAAAATTGGTATCGATATCAGAAGG
1 ATACCATGGTAAGGGTATCAATACCAGAAAACATCAAATCTAAAATCGGTATCGATATCAGAAGG
* * * *
9703493 GGGTATTAGTACTATAGTATAGAAGTATCG
66 GGGTATCAATACCATAGTAGAGAAGTATCG
*
9703523 ATACCAGGGTA
1 ATACCATGGTA
9703534 GTAGTATCGA
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
95 87 0.98
96 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (95 bp):
ATACCATGGTAAGGGTATCAATACCAGAAAACATCAAATCTAAAATCGGTATCGATATCAGAAGG
GGGTATCAATACCATAGTAGAGAAGTATCG
Found at i:9703954 original size:26 final size:26
Alignment explanation
Indices: 9703915--9704170 Score: 209
Period size: 26 Copynumber: 10.8 Consensus size: 26
9703905 TTAGAGTATG
9703915 TAAAATGCATGAAAGGATGCCATAAT
1 TAAAATGCATGAAAGGATGCCATAAT
* *
9703941 TACAATGCATGAAAGGATGTCATAAT
1 TAAAATGCATGAAAGGATGCCATAAT
*
9703967 TAAAATGCATGAAAGGAT---A-CAT
1 TAAAATGCATGAAAGGATGCCATAAT
* * * *
9703989 T--CAGGTATGAATGGATGCCATAAT
1 TAAAATGCATGAAAGGATGCCATAAT
*
9704013 TAAAATGCATGAAATGATG-C---AT
1 TAAAATGCATGAAAGGATGCCATAAT
* * *
9704035 T--AAGGCATGAAAGGATACAATAAT
1 TAAAATGCATGAAAGGATGCCATAAT
9704059 TAAAATGCATGAAAGGATG-C---AT
1 TAAAATGCATGAAAGGATGCCATAAT
*
9704081 T--AAGGCATGAAAGGATGCCATAAT
1 TAAAATGCATGAAAGGATGCCATAAT
9704105 TAAAATGCATGAAAGGATG-C---AT
1 TAAAATGCATGAAAGGATGCCATAAT
* * *
9704127 T--AAGGCATGAAAGAAGGCCATAAT
1 TAAAATGCATGAAAGGATGCCATAAT
9704151 TAAAATGCATGAAAGGATGC
1 TAAAATGCATGAAAGGATGC
9704171 ATTAGAACAT
Statistics
Matches: 177, Mismatches: 29, Indels: 48
0.70 0.11 0.19
Matches are distributed among these distances:
20 52 0.29
21 2 0.01
22 12 0.07
23 2 0.01
24 12 0.07
25 2 0.01
26 95 0.54
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.23
Consensus pattern (26 bp):
TAAAATGCATGAAAGGATGCCATAAT
Found at i:9704016 original size:46 final size:46
Alignment explanation
Indices: 9703915--9704203 Score: 373
Period size: 46 Copynumber: 6.2 Consensus size: 46
9703905 TTAGAGTATG
* *
9703915 TAAAATGCATGAAAGGATGCCATAATTACAATGCATGAAAGGATGTCATAAT
1 TAAAATGCATGAAAGGATG-C---ATT--AAGGCATGAAAGGATGCCATAAT
* * * *
9703967 TAAAATGCATGAAAGGATACATTCAGGTATGAATGGATGCCATAAT
1 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
* * *
9704013 TAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATACAATAAT
1 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
9704059 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
1 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
* *
9704105 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAAGGCCATAAT
1 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
* * *
9704151 TAAAATGCATGAAAGGATGCATT-AGAACATGAATGGATGACATAAT
1 TAAAATGCATGAAAGGATGCATTAAG-GCATGAAAGGATGCCATAAT
*
9704197 TTAAATG
1 TAAAATG
9704204 TTTAAATGGA
Statistics
Matches: 212, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
45 2 0.01
46 188 0.89
48 3 0.01
51 1 0.00
52 18 0.08
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (46 bp):
TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
Found at i:9704044 original size:20 final size:20
Alignment explanation
Indices: 9704019--9704139 Score: 98
Period size: 20 Copynumber: 5.5 Consensus size: 20
9704009 TAATTAAAAT
*
9704019 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
9704039 GCATGAAAGGATACAATAATTAAAAT
1 GCATGAAAGGATGC----ATT--AAG
9704065 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
9704085 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
9704111 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
9704131 GCATGAAAG
1 GCATGAAAG
9704140 AAGGCCATAA
Statistics
Matches: 82, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
20 38 0.46
21 1 0.01
22 6 0.07
24 6 0.07
25 1 0.01
26 30 0.37
ACGTcount: A:0.45, C:0.10, G:0.24, T:0.21
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:9707834 original size:23 final size:24
Alignment explanation
Indices: 9707794--9707841 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
9707784 TTAAATATTA
* *
9707794 TATTTTGATTTTACATGATTAAAT
1 TATTTTGATTTGAAATGATTAAAT
9707818 TATTTT-ATTTGAAATGATTAAAT
1 TATTTTGATTTGAAATGATTAAAT
9707841 T
1 T
9707842 TGTAACTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.54
Consensus pattern (24 bp):
TATTTTGATTTGAAATGATTAAAT
Found at i:9710502 original size:18 final size:18
Alignment explanation
Indices: 9710460--9710512 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
9710450 TTTAAATGTT
9710460 TTATTTTGATAAATTATA
1 TTATTTTGATAAATTATA
* ** *
9710478 TTGTTTTGATTTATTATG
1 TTATTTTGATAAATTATA
* *
9710496 TTATTTTTATAATTTAT
1 TTATTTTGATAAATTAT
9710513 TTCACCTTGT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (18 bp):
TTATTTTGATAAATTATA
Found at i:9711582 original size:2 final size:2
Alignment explanation
Indices: 9711575--9711626 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
9711565 GTATTATTTC
*
9711575 AT AT AT AT GT AT AT -T AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9711615 AT AT AT AT AT AT
1 AT AT AT AT AT AT
9711627 TATCTATTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:9711591 original size:20 final size:19
Alignment explanation
Indices: 9711557--9711629 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
9711547 GCATTACGTT
*
9711557 TATAT-TATGTATTATTTCA
1 TATATATATATATTATTT-A
*
9711576 TATATATGTATATTA-TTA
1 TATATATATATATTATTTA
*
9711594 TATATATATATATATATATA
1 TATATATATATAT-TATTTA
9711614 TATATATATATATTAT
1 TATATATATATATTAT
9711630 CTATTTCTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 13 0.28
19 12 0.26
20 22 0.47
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (19 bp):
TATATATATATATTATTTA
Found at i:9712283 original size:21 final size:22
Alignment explanation
Indices: 9712238--9712285 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
9712228 AACGCATATC
9712238 AAAATGTAGTTTTAATAAAATT
1 AAAATGTAGTTTTAATAAAATT
* * * *
9712260 AAAATTTATTTTTATTAAAATA
1 AAAATGTAGTTTTAATAAAATT
9712282 AAAA
1 AAAA
9712286 ATGCATTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
AAAATGTAGTTTTAATAAAATT
Found at i:9726366 original size:50 final size:49
Alignment explanation
Indices: 9726255--9726426 Score: 145
Period size: 50 Copynumber: 3.5 Consensus size: 49
9726245 TGATTGGATC
* * * * **
9726255 TCCTTTTCTTTTCCTAATCTAACCTACCCTGAAGA--ATAG-AAAAAATA
1 TCCTTTTCTTTTCCCAATCTGACCTACCATAAAGAGCA-AGCAAATTATA
* *
9726302 TCAACTTTTCTTTTCCCCATCTGACCTACCATGAAGAGCAA-CAAATTATA
1 TC--CTTTTCTTTTCCCAATCTGACCTACCATAAAGAGCAAGCAAATTATA
** * * *
9726352 TCCTCATTTCTTTTCCTGATCTAACCTACCATAAAGAGCAATGTAACTTATA
1 TCCT--TTTCTTTTCCCAATCTGACCTACCATAAAGAGCAA-GCAAATTATA
9726404 TCCTTTTCTTTTCCCAATCTGAC
1 TCCTTTTCTTTTCCCAATCTGAC
9726427 ATTCCCTAAT
Statistics
Matches: 101, Mismatches: 15, Indels: 15
0.77 0.11 0.11
Matches are distributed among these distances:
47 2 0.02
48 2 0.02
49 29 0.29
50 56 0.55
51 1 0.01
52 11 0.11
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (49 bp):
TCCTTTTCTTTTCCCAATCTGACCTACCATAAAGAGCAAGCAAATTATA
Found at i:9726770 original size:49 final size:50
Alignment explanation
Indices: 9726653--9726876 Score: 183
Period size: 48 Copynumber: 4.6 Consensus size: 50
9726643 GCAAATCTAT
* ** * **
9726653 TTTCTTTTCCCGATCTGACCTACTTTGAAGAGCAG--C-ATAGCATATTCA
1 TTTCTTTTCTCGATCTGACCTACCCTAAAGAGCAGTACAATAG-ATCCTCA
* * *
9726701 TTTCTTTTATCGATCAGACCTACCCTGAAGAGCAGTACAATAGATCCTC-
1 TTTCTTTTCTCGATCTGACCTACCCTAAAGAGCAGTACAATAGATCCTCA
* * * ** * *
9726750 TTTCTTTTCTCGATTTGACCTACCCTAAAGAGTAGTAGAGCAAAT-CTCC
1 TTTCTTTTCTCGATCTGACCTACCCTAAAGAGCAGTACAATAGATCCTCA
* * * * * * *
9726799 TTTC-TTTCCCAATCTGACCTACCTTAAAGAGCTGTAGAGTTGATCC-CA
1 TTTCTTTTCTCGATCTGACCTACCCTAAAGAGCAGTACAATAGATCCTCA
9726847 TTTCTTTTCTCGATCTGACCTACCCTAAAG
1 TTTCTTTTCTCGATCTGACCTACCCTAAAG
9726877 TGCAACAGAG
Statistics
Matches: 141, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
48 69 0.49
49 63 0.45
50 5 0.04
51 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.34
Consensus pattern (50 bp):
TTTCTTTTCTCGATCTGACCTACCCTAAAGAGCAGTACAATAGATCCTCA
Found at i:9726781 original size:97 final size:98
Alignment explanation
Indices: 9726653--9726903 Score: 265
Period size: 97 Copynumber: 2.6 Consensus size: 98
9726643 GCAAATCTAT
* ** * * * * *
9726653 TTTCTTTTCCCGATCTGACCTACTTTGAAGAGCAGCATAGCATAT-TCATTTCTTTTATCGATCA
1 TTTCTTTTCTCGATCTGACCTACCCTAAAGAGCAGCAGAGCAAATCTCATTTCTTTTACCAATCA
*
9726717 GACCTACCCTGAAGAGCAGTACAATAGATCCTC-
66 GACCTACCCTAAAGAGCAGTACAATAGATCC-CA
* * * * * *
9726750 TTTCTTTTCTCGATTTGACCTACCCTAAAGAGTAGTAGAGCAAATCTCCTTTC-TTTCCCAATCT
1 TTTCTTTTCTCGATCTGACCTACCCTAAAGAGCAGCAGAGCAAATCTCATTTCTTTTACCAATCA
* * * * *
9726814 GACCTACCTTAAAGAGCTGTAGAGTTGATCCCA
66 GACCTACCCTAAAGAGCAGTACAATAGATCCCA
* * *
9726847 TTTCTTTTCTCGATCTGACCTACCCTAAAGTGCAACAGAGTAAATCTCATTTCTTTT
1 TTTCTTTTCTCGATCTGACCTACCCTAAAGAGCAGCAGAGCAAATCTCATTTCTTTT
9726904 TTTATCTAAC
Statistics
Matches: 124, Mismatches: 27, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
96 1 0.01
97 114 0.92
98 9 0.07
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (98 bp):
TTTCTTTTCTCGATCTGACCTACCCTAAAGAGCAGCAGAGCAAATCTCATTTCTTTTACCAATCA
GACCTACCCTAAAGAGCAGTACAATAGATCCCA
Found at i:9726851 original size:48 final size:49
Alignment explanation
Indices: 9726408--9726903 Score: 166
Period size: 49 Copynumber: 10.2 Consensus size: 49
9726398 CTTATATCCT
* * * ** * * *
9726408 TTTCTTTTCCCAATCTGACATTCCCTAATGAGCGGTAAAGTATATCTCC
1 TTTCTTTTCCCAATCTGACCTACCCTAAAGAGTAGTAGAGCAAATCTCC
*** * * * * *
9726457 ATTTCTTTTCTTGATCTGACCAACCCTAAAGAGCAGTGGAGGAGATCT--
1 -TTTCTTTTCCCAATCTGACCTACCCTAAAGAGTAGTAGAGCAAATCTCC
** ** * * * *
9726505 TTT-TTTTCCTGATCTGACCTACCCTAAAGAACATTATAACAAATCTCTT
1 TTTCTTTTCCCAATCTGACCTACCCTAAAGAGTAGTAGAGCAAATCTC-C
* * * * ** * * **
9726554 TTTCTCTTCTCAATCTGACATACCCTGAATTGTAG-CGAAGCACATCTTAT
1 TTTCTTTTCCCAATCTGACCTACCCTAAAGAGTAGTAG-AGCAAATC-TCC
* * * * * * **
9726604 TTTCTTTT-CCATATATGACCAACCATAAAGGGCAGTGGAGCAAATCTAT
1 TTTCTTTTCCCA-ATCTGACCTACCCTAAAGAGTAGTAGAGCAAATCTCC
* ** * * * * * *
9726653 TTTCTTTTCCCGATCTGACCTACTTTGAAGAGCAGCATAGCATAT-TCA
1 TTTCTTTTCCCAATCTGACCTACCCTAAAGAGTAGTAGAGCAAATCTCC
** * * * * * ** *
9726701 TTTCTTTTATCGATCAGACCTACCCTGAAGAGCAGTACAATAGATC-CTC
1 TTTCTTTTCCCAATCTGACCTACCCTAAAGAGTAGTAGAGCAAATCTC-C
* * *
9726750 TTTCTTTTCTCGATTTGACCTACCCTAAAGAGTAGTAGAGCAAATCTCC
1 TTTCTTTTCCCAATCTGACCTACCCTAAAGAGTAGTAGAGCAAATCTCC
* ***
9726799 TTTC-TTTCCCAATCTGACCTACCTTAAAGAGCT-GTAGAGTTGATC-CC
1 TTTCTTTTCCCAATCTGACCTACCCTAAAGAG-TAGTAGAGCAAATCTCC
* * * * ** * *
9726846 ATTTCTTTTCTCGATCTGACCTACCCTAAAGTGCAACAGAGTAAATCTCA
1 -TTTCTTTTCCCAATCTGACCTACCCTAAAGAGTAGTAGAGCAAATCTCC
9726896 TTTCTTTT
1 TTTCTTTT
9726904 TTTATCTAAC
Statistics
Matches: 330, Mismatches: 99, Indels: 35
0.71 0.21 0.08
Matches are distributed among these distances:
46 34 0.10
47 5 0.02
48 73 0.22
49 121 0.37
50 95 0.29
51 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.35
Consensus pattern (49 bp):
TTTCTTTTCCCAATCTGACCTACCCTAAAGAGTAGTAGAGCAAATCTCC
Found at i:9727214 original size:48 final size:48
Alignment explanation
Indices: 9726653--9727340 Score: 226
Period size: 49 Copynumber: 14.1 Consensus size: 48
9726643 GCAAATCTAT
** * *
9726653 TTTCTTTTCCCGATCTGACCTACTTTGAAGAGCAGCATAGCATAT-TCA
1 TTTC-TTTCCCGATCTGACCTACCCTGAAGAGCAGCAGAACATATCTCA
** * * * * *
9726701 TTTCTTTTATCGATCAGACCTACCCTGAAGAGCAGTACAATAGATCCTC-
1 TTTC-TTTCCCGATCTGACCTACCCTGAAGAGCAGCAGAACATAT-CTCA
* * * * * * * *
9726750 TTTCTTTTCTCGATTTGACCTACCCTAAAGAGTAGTAGAGCAAATCTCC
1 TTTC-TTTCCCGATCTGACCTACCCTGAAGAGCAGCAGAACATATCTCA
* * * * * ** *
9726799 TTTCTTTCCCAATCTGACCTACCTTAAAGAGCTGTAG-AGTTGATCCCA
1 TTTCTTTCCCGATCTGACCTACCCTGAAGAGCAGCAGAACAT-ATCTCA
* * * * ** *
9726847 TTTCTTTTCTCGATCTGACCTACCCTAAAGTGCAACAGAGTAAATCTCA
1 TTTC-TTTCCCGATCTGACCTACCCTGAAGAGCAGCAGAACATATCTCA
**** * * * * *
9726896 TTTCTTTTTTTATCTAACCTACCATGAGGAACAGC-GAAACATATCTCT
1 TTTCTTTCCCGATCTGACCTACCCTGAAGAGCAGCAG-AACATATCTCA
* ** * * * *
9726944 TTTATTTTCTTGATCTGACCTACCTTGAAGCGTAAC-GAAGCATATCTCA
1 TTT-CTTTCCCGATCTGACCTACCCTGAAGAGCAGCAGAA-CATATCTCA
* * * * * * * *** * *
9726993 TTTGTTTTTCAGATTTAACCTACCATGAATAGCAATGGAGCATATCTCCT
1 TTT-CTTTCCCGATCTGACCTACCCTGAAGAGCAGCAGAACATATCT-CA
* * * * * * * *
9727043 TTTCTTTTCCCGATATGGCATACCATGAAGAACAACA-CACTAGATCTCA
1 TTTC-TTTCCCGATCTGACCTACCCTGAAGAGCAGCAGAAC-ATATCTCA
* * * * * *
9727092 TTT-TTTCTCAATCAGACCTACCTTGAAGAGCAGC-GAAGCAGATCCCA
1 TTTCTTTCCCGATCTGACCTACCCTGAAGAGCAGCAGAA-CATATCTCA
* * ** *
9727139 TTT-TTCTCACGATCTGATCTTTCCTGAAGAGCAGCGGAACATATCTCA
1 TTTCTT-TCCCGATCTGACCTACCCTGAAGAGCAGCAGAACATATCTCA
* * * * * * * * *
9727187 TTTCTTTCCCTATCTGACCTACTCTGAAGATCAACATAGCTTATCCCCC
1 TTTCTTTCCCGATCTGACCTACCCTGAAGAGCAGCAGAACATAT-CTCA
** * * * *
9727236 TTTCTTTTCTTGATATAACCTACCCTGAAGAGCAGCAAAACATATCTCC
1 TTTC-TTTCCCGATCTGACCTACCCTGAAGAGCAGCAGAACATATCTCA
** * * *
9727285 TTTCTCTTCTAGATTTGACCTACCCTGAAGAGCAGC-GCAACATATGTCT
1 TTTCT-TTCCCGATCTGACCTACCCTGAAGAGCAGCAG-AACATATCTCA
9727334 TTTCTTT
1 TTTCTTT
9727341 TCTTAAACTG
Statistics
Matches: 470, Mismatches: 148, Indels: 44
0.71 0.22 0.07
Matches are distributed among these distances:
47 36 0.08
48 168 0.36
49 202 0.43
50 64 0.14
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (48 bp):
TTTCTTTCCCGATCTGACCTACCCTGAAGAGCAGCAGAACATATCTCA
Found at i:9727288 original size:49 final size:49
Alignment explanation
Indices: 9727161--9727365 Score: 171
Period size: 49 Copynumber: 4.2 Consensus size: 49
9727151 TCTGATCTTT
** * * * *
9727161 CCTGAAGAGCAGCGGAACATATCTCATTTCTTTCCCT-ATCTGACCTAC
1 CCTGAAGAGCAGCAAAACATATCTCCTTTCTTTTCTTGATATGACCTAC
* * * * * * * *
9727209 TCTGAAGATCAACATAGCTTATCCCCCTTTCTTTTCTTGATATAACCTAC
1 CCTGAAGAGCAGCAAAACATAT-CTCCTTTCTTTTCTTGATATGACCTAC
* * *
9727259 CCTGAAGAGCAGCAAAACATATCTCCTTTCTCTTCTAGATTTGACCTAC
1 CCTGAAGAGCAGCAAAACATATCTCCTTTCTTTTCTTGATATGACCTAC
** * * *
9727308 CCTGAAGAGCAGCGCAACATATGTCTTTTCTTTTCTT-AAACTGACCTAC
1 CCTGAAGAGCAGCAAAACATATCTCCTTTCTTTTCTTGATA-TGACCTAC
*
9727357 CTTGAAGAG
1 CCTGAAGAG
9727366 TAATGGAGTA
Statistics
Matches: 121, Mismatches: 33, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
48 16 0.13
49 80 0.66
50 25 0.21
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (49 bp):
CCTGAAGAGCAGCAAAACATATCTCCTTTCTTTTCTTGATATGACCTAC
Found at i:9729285 original size:17 final size:19
Alignment explanation
Indices: 9729258--9729292 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
9729248 TAAGGTGCAA
9729258 ATTATTTTTATAT-TATGT
1 ATTATTTTTATATATATGT
9729276 ATTA-TTTTATATATATG
1 ATTATTTTTATATATATG
9729293 CATATATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
ATTATTTTTATATATATGT
Found at i:9730336 original size:20 final size:20
Alignment explanation
Indices: 9730313--9730359 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
9730303 GGAAGTTTGG
*
9730313 AAACTTTTGAGAAAGTTTCA
1 AAACTTTTGAGAAAGTATCA
*
9730333 AAAC-TTTGTGAAAGTATCA
1 AAACTTTTGAGAAAGTATCA
9730352 AAACTTTT
1 AAACTTTT
9730360 AAATGCATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (20 bp):
AAACTTTTGAGAAAGTATCA
Found at i:9730631 original size:20 final size:21
Alignment explanation
Indices: 9730585--9730634 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
9730575 AAATGTTTTT
9730585 CATA-TTTAAAAAGCTTTAAA
1 CATATTTTAAAAAGCTTTAAA
* * *
9730605 TACATTTTAAACA-CTTTAAA
1 CATATTTTAAAAAGCTTTAAA
9730625 CATATTTTAA
1 CATATTTTAA
9730635 TTAACTCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (21 bp):
CATATTTTAAAAAGCTTTAAA
Found at i:9733359 original size:20 final size:20
Alignment explanation
Indices: 9733334--9733383 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
9733324 TAGTATTTTT
*
9733334 CATATTTATAAA-GCTTTAAA
1 CATATTT-TAAACACTTTAAA
9733354 CATATTTTAAACACTTTAAA
1 CATATTTTAAACACTTTAAA
*
9733374 CATATCTTAA
1 CATATTTTAA
9733384 TTAACTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (20 bp):
CATATTTTAAACACTTTAAA
Found at i:9737241 original size:19 final size:20
Alignment explanation
Indices: 9737199--9737245 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
9737189 TACTATGGTG
* *
9737199 GAAATTAATGTTAGAGTGTT
1 GAAATTGATGTTAGAATGTT
9737219 GAAATTGATGTTAGAAT-TT
1 GAAATTGATGTTAGAATGTT
9737238 GAAATTGA
1 GAAATTGA
9737246 CCCATTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:9738492 original size:22 final size:22
Alignment explanation
Indices: 9738464--9738508 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
9738454 CACTGGTTGT
*
9738464 TATATATGATGTTTATCATGAA
1 TATATATGATGTTTATCACGAA
9738486 TATATATGATGTTTATCACGAA
1 TATATATGATGTTTATCACGAA
9738508 T
1 T
9738509 GTTATTTCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (22 bp):
TATATATGATGTTTATCACGAA
Found at i:9738695 original size:34 final size:33
Alignment explanation
Indices: 9738657--9738754 Score: 133
Period size: 34 Copynumber: 2.9 Consensus size: 33
9738647 CATAATTGGT
* * *
9738657 AGTACTAGTGTGTCTAGAAAAGGCACATAGCATC
1 AGTACTAGAGTGTCTAGCAAAGGCACATAGCA-A
9738691 AGTACTAGAGTGTCTAGCAAAGGCACATAGCAA
1 AGTACTAGAGTGTCTAGCAAAGGCACATAGCAA
* *
9738724 ATGTAATAGAGTGTCTAGCAAAGTCACATAG
1 A-GTACTAGAGTGTCTAGCAAAGGCACATAG
9738755 TATAGGCATC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 1 0.02
34 57 0.98
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.22
Consensus pattern (33 bp):
AGTACTAGAGTGTCTAGCAAAGGCACATAGCAA
Found at i:9748409 original size:21 final size:21
Alignment explanation
Indices: 9748370--9748410 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9748360 CACAAAAAAA
**
9748370 TCATTCATGGGGTTGAAATAT
1 TCATTCATGGGGTCAAAATAT
*
9748391 TCATTTATGGGGTCAAAATA
1 TCATTCATGGGGTCAAAATA
9748411 CCTAACTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.37
Consensus pattern (21 bp):
TCATTCATGGGGTCAAAATAT
Found at i:9771683 original size:20 final size:20
Alignment explanation
Indices: 9771646--9771684 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9771636 AGATTGAGTG
* * *
9771646 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
9771666 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
9771685 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:9771900 original size:19 final size:20
Alignment explanation
Indices: 9771854--9771913 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
9771844 TTCCTCTGTG
9771854 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
9771877 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
9771896 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
9771914 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:9785780 original size:3 final size:3
Alignment explanation
Indices: 9785772--9785836 Score: 95
Period size: 3 Copynumber: 23.3 Consensus size: 3
9785762 ATTTTTTATT
9785772 TAA TAA TAA TAA TAA TAA T-A TAA T-A TAA T-A TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9785816 TAA TAA -AA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
9785837 GAAAAAAATT
Statistics
Matches: 57, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
2 10 0.18
3 47 0.82
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9785796 original size:11 final size:11
Alignment explanation
Indices: 9785772--9785834 Score: 101
Period size: 11 Copynumber: 5.7 Consensus size: 11
9785762 ATTTTTTATT
9785772 TAATAATAATAA
1 TAATAAT-ATAA
9785784 TAATAATATAA
1 TAATAATATAA
9785795 T-ATAATATAA
1 TAATAATATAA
9785805 TAATAATATAA
1 TAATAATATAA
*
9785816 TAATAAAATAA
1 TAATAATATAA
9785827 TAATAATA
1 TAATAATA
9785835 ATGAAAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
10 10 0.21
11 31 0.65
12 7 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAATATAA
Found at i:9798941 original size:83 final size:83
Alignment explanation
Indices: 9798799--9798964 Score: 287
Period size: 83 Copynumber: 2.0 Consensus size: 83
9798789 ATAACAACAG
**
9798799 TAGCCAATTCATCATTAAGAGGAAATCCAAGCTTTTCAAACGTTTGGATATAGGTCATCATTATT
1 TAGCCAATTCATCATTAAGAGGAAATCCAAGCTTTTCAAACGTTTGGATATAGCCCATCATTATT
9798864 GATGACATGAGCTCCTAC
66 GATGACATGAGCTCCTAC
* * *
9798882 TAGCCAATTCATCTTTAAGAGGAAATCCCAGCTTTTCAAACGTTTGGATGTAGCCCATCATTATT
1 TAGCCAATTCATCATTAAGAGGAAATCCAAGCTTTTCAAACGTTTGGATATAGCCCATCATTATT
9798947 GATGACATGAGCTCCTAC
66 GATGACATGAGCTCCTAC
9798965 AGGAGTTTCC
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (83 bp):
TAGCCAATTCATCATTAAGAGGAAATCCAAGCTTTTCAAACGTTTGGATATAGCCCATCATTATT
GATGACATGAGCTCCTAC
Found at i:9818782 original size:22 final size:22
Alignment explanation
Indices: 9818750--9818792 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9818740 TCGAAATAAC
9818750 ATTCATAATAAACATCATATAT
1 ATTCATAATAAACATCATATAT
* * *
9818772 ATTCATGATAAGCATCGTATA
1 ATTCATAATAAACATCATATA
9818793 AAATCACTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (22 bp):
ATTCATAATAAACATCATATAT
Found at i:9822309 original size:2 final size:2
Alignment explanation
Indices: 9822304--9822340 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
9822294 AGTAATATTA
*
9822304 AT AT AT AT TT GAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
9822341 GCGGTTGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 31 0.97
3 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:9838539 original size:19 final size:20
Alignment explanation
Indices: 9838496--9838541 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
9838486 TACTATGCAG
*
9838496 GAAATTAATGTTAGAGTGTT
1 GAAATTAATGTTAGAATGTT
*
9838516 GAAATTGATGTTAGAATG-T
1 GAAATTAATGTTAGAATGTT
9838535 GAAATTA
1 GAAATTA
9838542 GACCTTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (20 bp):
GAAATTAATGTTAGAATGTT
Found at i:9845791 original size:40 final size:40
Alignment explanation
Indices: 9845747--9845853 Score: 142
Period size: 40 Copynumber: 2.7 Consensus size: 40
9845737 TATCGATTAA
* * *
9845747 GCACTTCGGTACATATGGTGGGAATGACCTTATGTGTATT
1 GCACTTCGGTGCATATGGTGGGAACGACCTTATGTGTAAT
*
9845787 GCACTTCGGTGCATATGGTGGGCACGACCTTATGTGTAAT
1 GCACTTCGGTGCATATGGTGGGAACGACCTTATGTGTAAT
* * * *
9845827 GTACATAGGTGCATATGGTGGAAACGA
1 GCACTTCGGTGCATATGGTGGGAACGA
9845854 TTATATTATG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (40 bp):
GCACTTCGGTGCATATGGTGGGAACGACCTTATGTGTAAT
Found at i:9869936 original size:5 final size:5
Alignment explanation
Indices: 9869928--9870036 Score: 60
Period size: 5 Copynumber: 20.4 Consensus size: 5
9869918 AATATTATAT
* * * *
9869928 AAGAA AAGAA AAAAA ACAGAA ATGAA GAAAAA AAGAA GAAGAAA AAGAC
1 AAGAA AAGAA AAGAA A-AGAA AAGAA -AAGAA AAGAA -AAG-AA AAGAA
* *
9869977 AAGAAA ATAGAA AA-AA ATCA-AA AAGAA AAGAA AATAA AATAA AATGAA
1 AAG-AA A-AGAA AAGAA A--AGAA AAGAA AAGAA AAGAA AAGAA AA-GAA
*
9870025 AAGAA AATAA AA
1 AAGAA AAGAA AA
9870037 AATAAGAGAA
Statistics
Matches: 83, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
4 4 0.05
5 49 0.59
6 26 0.31
7 4 0.05
ACGTcount: A:0.77, C:0.03, G:0.14, T:0.06
Consensus pattern (5 bp):
AAGAA
Found at i:9870006 original size:32 final size:32
Alignment explanation
Indices: 9869931--9870017 Score: 81
Period size: 32 Copynumber: 2.7 Consensus size: 32
9869921 ATTATATAAG
*
9869931 AAAAGAAAAA-AAACAG-AAATGAAGAAAAAAAGA
1 AAAAGAAAAAGAAA-AGAAAAT--AGAAAAAAACA
* *
9869964 AGAAGAAAAAGACAAGAAAATAGAAAAAAATCA
1 AAAAGAAAAAGAAAAGAAAATAGAAAAAAA-CA
*
9869997 AAAAG-AAAAGAAAATAAAATA
1 AAAAGAAAAAGAAAAGAAAATA
9870018 AAATGAAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
32 23 0.51
33 16 0.36
34 6 0.13
ACGTcount: A:0.77, C:0.03, G:0.14, T:0.06
Consensus pattern (32 bp):
AAAAGAAAAAGAAAAGAAAATAGAAAAAAACA
Found at i:9870007 original size:27 final size:26
Alignment explanation
Indices: 9869969--9870036 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 26
9869959 AAAGAAGAAG
*
9869969 AAAAAGACAAGAAAATAGAAA-AAAAT
1 AAAAAGAAAAGAAAATA-AAATAAAAT
9869995 CAAAAAGAAAAGAAAATAAAATAAAAT
1 -AAAAAGAAAAGAAAATAAAATAAAAT
* *
9870022 GAAAAGAAAATAAAA
1 AAAAAGAAAAGAAAA
9870037 AATAAGAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.43
27 21 0.57
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.09
Consensus pattern (26 bp):
AAAAAGAAAAGAAAATAAAATAAAAT
Found at i:9870025 original size:21 final size:22
Alignment explanation
Indices: 9869977--9870036 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
9869967 AGAAAAAGAC
*
9869977 AAGAAAATAGAAA-AAAATCAAA
1 AAGAAAAGA-AAATAAAATCAAA
9869999 AAGAAAAGAAAATAAAAT-AAA
1 AAGAAAAGAAAATAAAATCAAA
*
9870020 ATGAAAAGAAAATAAAA
1 AAGAAAAGAAAATAAAA
9870037 AATAAGAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 22 0.63
22 13 0.37
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (22 bp):
AAGAAAAGAAAATAAAATCAAA
Found at i:9870052 original size:16 final size:17
Alignment explanation
Indices: 9869930--9870052 Score: 56
Period size: 16 Copynumber: 6.8 Consensus size: 17
9869920 TATTATATAA
*
9869930 GAAAAGAAAAAAAACA-
1 GAAAAGAAAAAAAAAAT
* *
9869946 GAAATGAAGAAAAAAA-
1 GAAAAGAAAAAAAAAAT
* *
9869962 GAAGAAGAAAAAGACAA-
1 GAA-AAGAAAAAAAAAAT
*
9869979 GAAAATAGAAAAAAATCAAAAA
1 G-AAA-AG-AAAAAA--AAAAT
9870001 GAAAAGAAAATAAAATAAAAT
1 GAAAAG--AA-AAAA-AAAAT
9870022 GAAAAGAAAATAAAAAAT
1 GAAAAGAAAA-AAAAAAT
*
9870040 -AAGAGAAAAAAAA
1 GAAAAGAAAAAAAA
9870053 TATTTCACTT
Statistics
Matches: 85, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
16 20 0.24
17 19 0.22
18 11 0.13
19 9 0.11
20 2 0.02
21 19 0.22
22 5 0.06
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (17 bp):
GAAAAGAAAAAAAAAAT
Found at i:9870052 original size:21 final size:22
Alignment explanation
Indices: 9870000--9870054 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
9869990 AAAATCAAAA
9870000 AGAAAAGAAAATAAAATAAAATG
1 AGAAAA-AAAATAAAATAAAATG
*
9870023 A-AAAGAAAATAAAA-AATAA-G
1 AGAAAAAAAATAAAATAA-AATG
9870043 AGAAAAAAAATA
1 AGAAAAAAAATA
9870055 TTTCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 4 0.14
21 20 0.71
22 3 0.11
23 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (22 bp):
AGAAAAAAAATAAAATAAAATG
Found at i:9875394 original size:20 final size:19
Alignment explanation
Indices: 9875348--9875402 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
9875338 ACTAATTCCA
9875348 GTGGTATCGATACCAAGAG
1 GTGGTATCGATACCAAGAG
* * *
9875367 GGGAGTATCGATACTATGAG
1 GTG-GTATCGATACCAAGAG
*
9875387 GATGGTATCGAAACCA
1 G-TGGTATCGATACCA
9875403 TTCTTAACAG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 25 0.89
21 1 0.04
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.22
Consensus pattern (19 bp):
GTGGTATCGATACCAAGAG
Found at i:9875970 original size:54 final size:55
Alignment explanation
Indices: 9875822--9875989 Score: 239
Period size: 55 Copynumber: 3.0 Consensus size: 55
9875812 ATTACCAGAT
* * * *
9875822 GGCACTAAGTTTGCTAAAACTTAAGAAATTCATACTAAGAGTATGAATTTCTGTATG
1 GGCACTATGTATGC-AAAAC-TAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
* *
9875879 GGCACTTTGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
1 GGCACTATGTATGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
* *
9875934 GGCACTATGTATGC-GAACTAAGAAATTCATACTAAGTGTATGAATTTGCGTATG
1 GGCACTATGTATGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
9875988 GG
1 GG
9875990 AAATATATGT
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
54 40 0.39
55 46 0.45
56 5 0.05
57 11 0.11
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (55 bp):
GGCACTATGTATGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
Found at i:9876295 original size:68 final size:68
Alignment explanation
Indices: 9876205--9876387 Score: 251
Period size: 68 Copynumber: 2.7 Consensus size: 68
9876195 ATTAATGGCT
* * *
9876205 TAACTCTGCATTTGACATAAAGGTGTCAATTATGCCAATTAGATGAAAGACTAAGTGCCTTTGAG
1 TAACTATGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTTTGAG
9876270 GCC
66 GCC
* * * ** *
9876273 TAACTATGCATTTTACAAAAAGGTGTCAATTATACCAGCTAGATGAAAGGTTAAGTTCCTTTGAG
1 TAACTATGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTTTGAG
9876338 GCC
66 GCC
* *
9876341 TAACTGTGCATTTGACAGAAAA-ATGTCAATTATGCCAGTTAGATGAA
1 TAACTATGCATTTGACA-AAAAGGTGTCAATTATGCCAGTTAGATGAA
9876388 CGATTAAATA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
68 96 0.96
69 4 0.04
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (68 bp):
TAACTATGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTTTGAG
GCC
Found at i:9876491 original size:81 final size:81
Alignment explanation
Indices: 9876366--9876546 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 81
9876356 CAGAAAAATG
* * **
9876366 TCAATTATGCCAGTTAGATGAACGATTAAATACCGCTGAGTAAAAGATTAATGACCTAGCTATGC
1 TCAATTATGACAATTAGATGAACGATTAAATACAACTGAGTAAAAGATTAATGACCTAGCTATGC
9876431 AATTGGCAGAAAGGTA
66 AATTGGCAGAAAGGTA
* * * * * * *
9876447 TCAATTATGACAATTATATGAATGGTTAAATACAATTGAGTAAAAGATTAATGGCCTAGCTTTGT
1 TCAATTATGACAATTAGATGAACGATTAAATACAACTGAGTAAAAGATTAATGACCTAGCTATGC
* *
9876512 AATTGGTAGAAAGGTG
66 AATTGGCAGAAAGGTA
* *
9876528 TCAATTATGTCAGTTAGAT
1 TCAATTATGACAATTAGAT
9876547 AAACTGTTGA
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (81 bp):
TCAATTATGACAATTAGATGAACGATTAAATACAACTGAGTAAAAGATTAATGACCTAGCTATGC
AATTGGCAGAAAGGTA
Found at i:9876600 original size:71 final size:72
Alignment explanation
Indices: 9876482--9876621 Score: 176
Period size: 71 Copynumber: 2.0 Consensus size: 72
9876472 TTAAATACAA
* * ** * *
9876482 TTGAGTAAAAGATTAATGGCCTAGCTTTGTAATTGGTAGAAAGGTGTCAATTATGTC-AGTTAG-
1 TTGAGTAAAAGATTAATGGCCTAGCTATGCAATTGACAAAAAAGTGTCAATTATG-CAAGTTAGA
9876545 ATAAACTG
65 ATAAACTG
* * *
9876553 TTGAGTAAAATATTATTGGCCTAGCTATGCATTTGACAAAAAAGTGTCAATTATGCAAGTTAGAA
1 TTGAGTAAAAGATTAATGGCCTAGCTATGCAATTGACAAAAAAGTGTCAATTATGCAAGTTAGAA
9876618 TAAA
66 TAAA
9876622 GGAATTATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
70 1 0.02
71 52 0.90
72 5 0.09
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (72 bp):
TTGAGTAAAAGATTAATGGCCTAGCTATGCAATTGACAAAAAAGTGTCAATTATGCAAGTTAGAA
TAAACTG
Found at i:9876868 original size:45 final size:45
Alignment explanation
Indices: 9876660--9877035 Score: 351
Period size: 45 Copynumber: 8.3 Consensus size: 45
9876650 GTACATAAGT
* * * * * * * * **
9876660 GGCATGAAAGAATGTCATAAATGAAATGTATAATAGTGTATAAAA
1 GGCATGAAAGGATGCCATAATTGAAATGCATATTGGTGCATTATC
* * * * * **
9876705 GGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG-TTTAAAA
1 GGCATGAAAGGATGCCATAATTGAAATGCATATTGGTGCATT-ATC
* ** *
9876750 GACATGAAAGGATGCCATAATTGAAATATATATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATTGGTGCATTATC
*
9876795 GGCCTGAAAGGATGCCATAATTGAAATGCATATTGGTGCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATTGGTGCATTATC
* * * *
9876840 GGCATGGAAGAATGCCATAATTGAAATGCATATGGGTTCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATTGGTGCATTATC
* *
9876885 GGCATAAAAGGATGCCATAATTGAAATGCATA-TGCTTGCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATTG-GTGCATTATC
* ** *
9876930 GACATGAAAGGATGTTATAATTGAAATGCATATTAGTGCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATTGGTGCATTATC
* ** * * *
9876975 GGCATGAAAGAATGCCATAAATAAAAATGTACAATGGTGCATTATC
1 GGCATGAAAGGATGCCAT-AATTGAAATGCATATTGGTGCATTATC
* *
9877021 AGCATGAATGGATGC
1 GGCATGAAAGGATGC
9877036 TCTCAATGAA
Statistics
Matches: 278, Mismatches: 48, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
44 2 0.01
45 240 0.86
46 36 0.13
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (45 bp):
GGCATGAAAGGATGCCATAATTGAAATGCATATTGGTGCATTATC
Found at i:9878712 original size:22 final size:22
Alignment explanation
Indices: 9878687--9878728 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9878677 ATTTGGAGGT
*
9878687 TATATTTATATA-TTTGTGTTCA
1 TATATTGATATAGTTT-TGTTCA
9878709 TATATTGATATAGTTTTGTT
1 TATATTGATATAGTTTTGTT
9878729 TAAAACAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (22 bp):
TATATTGATATAGTTTTGTTCA
Found at i:9880174 original size:46 final size:46
Alignment explanation
Indices: 9880102--9880229 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
9880092 GGTAAACATG
* * *
9880102 AAAATAATCTTACGAGCTTATAGGATTAAATGGTAGGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATTGGT
* *
9880148 AAAATAAGATTACGAGCTTATGGGATTAAATGGTAAGTATTTTGGT
1 AAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATTGGT
9880194 AAAATAAGCTTACGAGCTTATGGGA-TAAATGGTAAG
1 AAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAG
9880230 AGATTTTATA
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
45 11 0.14
46 65 0.86
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.32
Consensus pattern (46 bp):
AAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATTGGT
Found at i:9880556 original size:12 final size:12
Alignment explanation
Indices: 9880539--9880567 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
9880529 ATTTTGTTGG
9880539 ACAAATTTGAAT
1 ACAAATTTGAAT
9880551 ACAAATTTGAAT
1 ACAAATTTGAAT
9880563 ACAAA
1 ACAAA
9880568 GTGACATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (12 bp):
ACAAATTTGAAT
Found at i:9890236 original size:19 final size:20
Alignment explanation
Indices: 9890188--9890237 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
9890178 TTCATGTACT
*
9890188 ATGTTGGAATTAATGTTAGA
1 ATGTTGAAATTAATGTTAGA
*
9890208 GTGTTGAAATTAATGTTAGA
1 ATGTTGAAATTAATGTTAGA
9890228 ATG-TGAAATT
1 ATGTTGAAATT
9890238 GGGTCATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (20 bp):
ATGTTGAAATTAATGTTAGA
Found at i:9892766 original size:19 final size:19
Alignment explanation
Indices: 9892730--9892767 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9892720 GAACACTAGT
*
9892730 TAGTTTTGGCATTGAAATA
1 TAGTTTTGGCATTAAAATA
9892749 TAGTTTTGTGC-TTAAAATA
1 TAGTTTTG-GCATTAAAATA
9892768 AAAATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (19 bp):
TAGTTTTGGCATTAAAATA
Found at i:9894200 original size:24 final size:24
Alignment explanation
Indices: 9894155--9894204 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
9894145 TGGTGGTTGA
* *
9894155 TTTAATGGTTTCTTGAACTTTATT
1 TTTAATGGTATATTGAACTTTATT
* *
9894179 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTGAACTTTATT
9894203 TT
1 TT
9894205 GGTTCTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.04, G:0.12, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTGAACTTTATT
Found at i:9897155 original size:21 final size:20
Alignment explanation
Indices: 9897117--9897155 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
9897107 TATGTTCTTC
*
9897117 ATTCACCTCTTTATCTCTAA
1 ATTCACCTCTTTAACTCTAA
*
9897137 ATTCATCCTTTTTAACTCT
1 ATTCA-CCTCTTTAACTCT
9897156 CTCATTTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTCACCTCTTTAACTCTAA
Found at i:9898236 original size:26 final size:27
Alignment explanation
Indices: 9898177--9898237 Score: 83
Period size: 25 Copynumber: 2.3 Consensus size: 27
9898167 TTGGCTTTGC
*
9898177 TTTCATTT-TGAAATTCTTTTTTTTTCT
1 TTTC-TTTCTGAAATTCTTTTTTTGTCT
9898204 TTT-TTTCTGAAATT-TTTTTTTGTCT
1 TTTCTTTCTGAAATTCTTTTTTTGTCT
9898229 TTTCTTTCT
1 TTTCTTTCT
9898238 TTTCGTACTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 16 0.52
26 12 0.39
27 3 0.10
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.72
Consensus pattern (27 bp):
TTTCTTTCTGAAATTCTTTTTTTGTCT
Found at i:9921876 original size:22 final size:22
Alignment explanation
Indices: 9921851--9921893 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
9921841 GCCCATCATA
9921851 TGCACTAGGTATCCTTTAGTGT
1 TGCACTAGGTATCCTTTAGTGT
9921873 TGCACTAGGTATCCTTTAGTG
1 TGCACTAGGTATCCTTTAGTG
9921894 CTAAACCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (22 bp):
TGCACTAGGTATCCTTTAGTGT
Found at i:9934436 original size:13 final size:13
Alignment explanation
Indices: 9934418--9934468 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
9934408 ACAAAAACCT
9934418 ATAAAATAAAATA
1 ATAAAATAAAATA
*
9934431 ATAAAA-CAAATA
1 ATAAAATAAAATA
9934443 ATTAAAACTAAAATA
1 A-TAAAA-TAAAATA
9934458 A-ATAAATAAAA
1 ATA-AAATAAAA
9934469 CATGACAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
12 6 0.19
13 17 0.53
14 3 0.09
15 6 0.19
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAAAATAAAATA
Found at i:9934460 original size:19 final size:19
Alignment explanation
Indices: 9934432--9934469 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9934422 AATAAAATAA
*
9934432 TAAAACAAATAATTAAAAC
1 TAAAACAAATAAATAAAAC
*
9934451 TAAAATAAATAAATAAAAC
1 TAAAACAAATAAATAAAAC
9934470 ATGACAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAACAAATAAATAAAAC
Found at i:9938266 original size:26 final size:26
Alignment explanation
Indices: 9938237--9938335 Score: 78
Period size: 26 Copynumber: 3.8 Consensus size: 26
9938227 TCCTAAGTGT
*
9938237 CACTTTCGAGTGCAAGTGATATGAGG
1 CACTTTCAAGTGCAAGTGATATGAGG
* *
9938263 CACTTTTAAGTGCAAGTGATCCACGA--
1 CACTTTCAAGTGCAAGTGAT--ATGAGG
* * * *
9938289 CACTATCGAGTACAA-TCGATATGTGG
1 CACTTTCAAGTGCAAGT-GATATGAGG
*
9938315 CACTTTCAAGTGCATGTGATA
1 CACTTTCAAGTGCAAGTGATA
9938336 CATAACACTT
Statistics
Matches: 54, Mismatches: 13, Indels: 12
0.68 0.16 0.15
Matches are distributed among these distances:
24 2 0.04
25 1 0.02
26 47 0.87
27 1 0.02
28 3 0.06
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (26 bp):
CACTTTCAAGTGCAAGTGATATGAGG
Found at i:9938344 original size:52 final size:51
Alignment explanation
Indices: 9938241--9938360 Score: 134
Period size: 52 Copynumber: 2.3 Consensus size: 51
9938231 AAGTGTCACT
* * * *
9938241 TTCGAGTGCAAGTGATATGAGGCACTTTTAAGTGCAAGTGATCCACGACAC
1 TTCGAGTACAAGTGATATGAGGCACTTTCAAGTGCAAGTGATACACAACAC
* * *
9938292 TATCGAGTACAA-TCGATATGTGGCACTTTCAAGTGCATGTGATACATAACAC
1 T-TCGAGTACAAGT-GATATGAGGCACTTTCAAGTGCAAGTGATACACAACAC
*
9938344 TTACGAGTAAAAGTGAT
1 TT-CGAGTACAAGTGAT
9938361 GTGGGCATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
51 3 0.05
52 53 0.93
53 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (51 bp):
TTCGAGTACAAGTGATATGAGGCACTTTCAAGTGCAAGTGATACACAACAC
Found at i:9939269 original size:137 final size:137
Alignment explanation
Indices: 9939046--9939322 Score: 511
Period size: 137 Copynumber: 2.0 Consensus size: 137
9939036 TTTAGGAAAT
9939046 TTTGAAGGTTATTAAATTAATCTTGGAAATATTATTTTCACAATTTTAAAATCATGGAAAATAAT
1 TTTGAAGGTTATTAAATTAATCTTGGAAATATTATTTTCACAATTTTAAAATCATGGAAAATAAT
*
9939111 ATGGATCATTGGATTTAAGAATTTATTTCCATGCTCAATTTGGATCATTGGATGAAAAGTAGCAA
66 ATGGATCATTGGATTTAAGAATTTATTTCCATGCTCAATTTGGATCATTGGATGAAAAGTAACAA
9939176 AATTAACA
131 AATTAA-A
*
9939184 TTTGAAGGTTATTAAATTAATCTTGGAAATATTATTTTCA-TATTTTAAAATCATGGAAAATAAT
1 TTTGAAGGTTATTAAATTAATCTTGGAAATATTATTTTCACAATTTTAAAATCATGGAAAATAAT
*
9939248 ATGGATCATTGGATTTGAGAATTTATTTCCATGCTCAATTTGGATCATTGGATGAAAAGTAACAA
66 ATGGATCATTGGATTTAAGAATTTATTTCCATGCTCAATTTGGATCATTGGATGAAAAGTAACAA
9939313 AATTAAA
131 AATTAAA
9939320 TTT
1 TTT
9939323 TTTGCATAGT
Statistics
Matches: 136, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
136 4 0.03
137 92 0.68
138 40 0.29
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (137 bp):
TTTGAAGGTTATTAAATTAATCTTGGAAATATTATTTTCACAATTTTAAAATCATGGAAAATAAT
ATGGATCATTGGATTTAAGAATTTATTTCCATGCTCAATTTGGATCATTGGATGAAAAGTAACAA
AATTAAA
Found at i:9939491 original size:15 final size:15
Alignment explanation
Indices: 9939471--9939500 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9939461 TTAAATGAAT
9939471 TTTAAATTCATTTAA
1 TTTAAATTCATTTAA
9939486 TTTAAATTCATTTAA
1 TTTAAATTCATTTAA
9939501 GCTTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAAATTCATTTAA
Found at i:9945525 original size:19 final size:20
Alignment explanation
Indices: 9945489--9945527 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9945479 TTGTATATTA
*
9945489 ATGTTAGAGTGTTGAAATTG
1 ATGTTAGAATGTTGAAATTG
9945509 ATGTTAGAATG-TGAAATTG
1 ATGTTAGAATGTTGAAATTG
9945528 GGCTACATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.38
Consensus pattern (20 bp):
ATGTTAGAATGTTGAAATTG
Found at i:9947791 original size:44 final size:44
Alignment explanation
Indices: 9947728--9947826 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
9947718 AACCCAACAA
* * * ***
9947728 TATCGATACCTCTCAAGGAGTATCGATACTACTATGTGTAGTAG
1 TATCGATACCGCCCAAGGAGTATCCATACTACTATGCAAAGTAG
9947772 TATCGATACCGCCCAAGGAGTATCCATACTACTATGCAAAGTAG
1 TATCGATACCGCCCAAGGAGTATCCATACTACTATGCAAAGTAG
*
9947816 TATCAATACCG
1 TATCGATACCG
9947827 GTCATGGTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (44 bp):
TATCGATACCGCCCAAGGAGTATCCATACTACTATGCAAAGTAG
Found at i:9951396 original size:21 final size:21
Alignment explanation
Indices: 9951371--9951410 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9951361 AAGACTTTAT
9951371 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
9951392 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
9951411 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:9955270 original size:23 final size:23
Alignment explanation
Indices: 9955235--9955279 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
9955225 CGCTATGTAT
* *
9955235 CGATACCCCCTTTCCATGGGTAC
1 CGATACCACCTTTCAATGGGTAC
* *
9955258 CGATACCATCTTTGAATGGGTA
1 CGATACCACCTTTCAATGGGTA
9955280 TAGATACCCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (23 bp):
CGATACCACCTTTCAATGGGTAC
Found at i:9960246 original size:20 final size:21
Alignment explanation
Indices: 9960196--9960249 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
9960186 ATTGTAAGAA
9960196 CAGTATCGATACTCGATGATAG
1 CAGTATCGATACTC-ATGATAG
* *
9960218 CAATATCGATACT-ATGCTAG
1 CAGTATCGATACTCATGATAG
*
9960238 TAGTATCGATAC
1 CAGTATCGATAC
9960250 CTTGCAAGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 16 0.57
22 12 0.43
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (21 bp):
CAGTATCGATACTCATGATAG
Found at i:9962204 original size:21 final size:21
Alignment explanation
Indices: 9962178--9962218 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
9962168 CCCGTATATG
9962178 GGGTATCGGTACCCCTTCATA
1 GGGTATCGGTACCCCTTCATA
*
9962199 GGGTATCGGTACTCCTTCAT
1 GGGTATCGGTACCCCTTCAT
9962219 TAAATTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (21 bp):
GGGTATCGGTACCCCTTCATA
Found at i:9964320 original size:342 final size:343
Alignment explanation
Indices: 9963686--9964366 Score: 1166
Period size: 342 Copynumber: 2.0 Consensus size: 343
9963676 CTTAACTTTT
9963686 AAATCAAAATTTTCTTTTTCAAAACCTTCAATTTTTATTTTTGAAAGCTCTAAATCCTTTTTCAA
1 AAATCAAAATTTTCTTTTTCAAAACCTTCAATTTTTATTTTTGAAAGCTCTAAATCCTTTTTCAA
*
9963751 AATTTCATTTTGGCTTTCAAAATCTGTTTTTGTTTTCAAAAGAAAATCATTTTCAAGTTTAAATT
66 AATTTCATTTTGGCTTTCAAAATCTGTTTTTGTTTTCAAAAGAAAATCATTTTCAAGTATAAATT
* * *
9963816 TTGAAATCATTTTTCTATATTTGGAGTTCATGGTCTCAAACACCAAAACTAATTCATCGTAGGCA
131 TTGAAATCATTTTTCTATATTTGGAGTTCATGGTCTCAAACACCAAAAATAATTCATCGGAGGAA
*
9963881 GCTTGTAGCTCATCAAAAGAATATGAATTTAATTCATTTGAGTTAGAAGAAACCTTGAGCTCTTC
196 GCTTGTAGCTCATCAAAAGAATATGAATTTAATTCATTTGAGTTAGAAGAAACCTCGAGCTCTTC
* * *
9963946 ACGAGCCAATTGAGACACCAATTTTGTTGGTTCTTCTTTCTTGTTTCCATGGATTTCCTCGAGCT
261 ACGAGCCAATAGAGACACCAATTTTATTGGTTCTTCTTTATTGTTTCCATGGATTTCCTCGAGCT
9964011 TATTCCAAAGCTCCATTG
326 TATTCCAAAGCTCCATTG
* * *
9964029 AAATCAAAATTTTCTTTTTCCAAGCGTTCAATTTTTATTTTTGAAAGCTCTAAATCCTTTTTCAA
1 AAATCAAAATTTTCTTTTTCAAAACCTTCAATTTTTATTTTTGAAAGCTCTAAATCCTTTTTCAA
*
9964094 AATTTCATTTTGGCTTTCAAAATCTGTTTTTTTTTTCAAAAGAAAATCATTTTCAAGTAT-AATT
66 AATTTCATTTTGGCTTTCAAAATCTGTTTTTGTTTTCAAAAGAAAATCATTTTCAAGTATAAATT
* ** *
9964158 TTGAAATTATTTTTCTATATTTGGAGTTCATGGTCTCAAATTCCAAAAATAATTCATTGGAGGAA
131 TTGAAATCATTTTTCTATATTTGGAGTTCATGGTCTCAAACACCAAAAATAATTCATCGGAGGAA
* * *
9964223 GCTTGTAGCTTATCAAAAGAATATGAATTTAATTCATTTGAGTTAGAAGATACCTCGGGCTCTTC
196 GCTTGTAGCTCATCAAAAGAATATGAATTTAATTCATTTGAGTTAGAAGAAACCTCGAGCTCTTC
* *
9964288 ACGAGCCAATAGAGACACCACTTTTATTGGTTCTTCTTTATTGTTTCCATTGATTTCCTCGAGCT
261 ACGAGCCAATAGAGACACCAATTTTATTGGTTCTTCTTTATTGTTTCCATGGATTTCCTCGAGCT
9964353 TATTCCAAAGCTCC
326 TATTCCAAAGCTCC
9964367 TTGGCACTTG
Statistics
Matches: 317, Mismatches: 21, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
342 197 0.62
343 120 0.38
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (343 bp):
AAATCAAAATTTTCTTTTTCAAAACCTTCAATTTTTATTTTTGAAAGCTCTAAATCCTTTTTCAA
AATTTCATTTTGGCTTTCAAAATCTGTTTTTGTTTTCAAAAGAAAATCATTTTCAAGTATAAATT
TTGAAATCATTTTTCTATATTTGGAGTTCATGGTCTCAAACACCAAAAATAATTCATCGGAGGAA
GCTTGTAGCTCATCAAAAGAATATGAATTTAATTCATTTGAGTTAGAAGAAACCTCGAGCTCTTC
ACGAGCCAATAGAGACACCAATTTTATTGGTTCTTCTTTATTGTTTCCATGGATTTCCTCGAGCT
TATTCCAAAGCTCCATTG
Found at i:9965431 original size:21 final size:18
Alignment explanation
Indices: 9965406--9965459 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 18
9965396 TTGTAGCCAA
*
9965406 GGGGTATGGGTACCCCTGCAG
1 GGGGTATCGGTACCCCT---G
* *
9965427 GGGGTATTGGTACACCTG
1 GGGGTATCGGTACCCCTG
9965445 GGGGTATCGGTACCC
1 GGGGTATCGGTACCC
9965460 TCTTTGCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 14 0.48
21 15 0.52
ACGTcount: A:0.15, C:0.22, G:0.41, T:0.22
Consensus pattern (18 bp):
GGGGTATCGGTACCCCTG
Found at i:9973770 original size:31 final size:31
Alignment explanation
Indices: 9973672--9973762 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
9973662 CAATTTAAGG
9973672 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
9973703 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
9973734 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
9973763 TTCAAAATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 12 0.20
31 37 0.62
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:9973849 original size:19 final size:19
Alignment explanation
Indices: 9973827--9973874 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
9973817 AATGTTTTTA
* *
9973827 TGAATAGTAAATTACTATT
1 TGAACAGTAAATCACTATT
*
9973846 TGAACAGTAAATCACTGTT
1 TGAACAGTAAATCACTATT
9973865 TGAACAGTAA
1 TGAACAGTAA
9973875 CCCGAGGCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (19 bp):
TGAACAGTAAATCACTATT
Found at i:9974006 original size:21 final size:21
Alignment explanation
Indices: 9973980--9974021 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9973970 ATTTGAATAT
*
9973980 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
9974001 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
9974022 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:9974083 original size:21 final size:21
Alignment explanation
Indices: 9974050--9974089 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
9974040 TTTGAGTAGA
*
9974050 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
9974072 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
9974090 AGATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:9974343 original size:34 final size:32
Alignment explanation
Indices: 9974304--9974373 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
9974294 TTTTGTAAAG
*
9974304 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
9974338 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
9974370 GGGA
1 GGGA
9974374 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:9974772 original size:24 final size:24
Alignment explanation
Indices: 9974740--9974785 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
9974730 TCTTCCAGAT
9974740 GATGTATAAAACATCTATGTACAC
1 GATGTATAAAACATCTATGTACAC
9974764 GATGTATAAAACATCTATGTAC
1 GATGTATAAAACATCTATGTAC
9974786 CATATCATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (24 bp):
GATGTATAAAACATCTATGTACAC
Found at i:9979425 original size:42 final size:41
Alignment explanation
Indices: 9979325--9979576 Score: 152
Period size: 42 Copynumber: 5.9 Consensus size: 41
9979315 GATGTTGTTT
* * *
9979325 CAACTCCCTATGTGATGGAAGTGAA-CGAAATGTTCATGTTGACC
1 CAAC-CCCTTTGTGATGGAA-TCAAGCGAAATGTT--TGTTCACC
* *
9979369 CAATTCCTTTTGTGATGGAATCAAGC-ACAATGTTTGTTCACC
1 CAA-CCCCTTTGTGATGGAATCAAGCGA-AATGTTTGTTCACC
* * *
9979411 CAACCCCTTATGTGATGGGATCAAGCGAAATGTTTGTTGACT
1 CAACCCCTT-TGTGATGGAATCAAGCGAAATGTTTGTTCACC
* * **
9979453 CGACTCCTTTGTGATGGAATTGAGCGAAATGTTAATG-TCGA-C
1 CAACCCCTTTGTGATGGAATCAAGCGAAATGTT--TGTTC-ACC
* * * * * * *
9979495 CAATTCCCTCTGTTATGGAATCGAGTGAAATATTGATGTTGACC
1 CAA-CCCCTTTGTGATGGAATCAAGCGAAATGTT--TGTTCACC
* * *
9979539 CAACTCCTTCTGTGATGGAGTCGAGCGAAATGTTTGTT
1 CAACCCCTT-TGTGATGGAATCAAGCGAAATGTTTGTT
9979577 GTTTAACCAA
Statistics
Matches: 162, Mismatches: 34, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
41 25 0.15
42 51 0.31
43 38 0.23
44 48 0.30
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (41 bp):
CAACCCCTTTGTGATGGAATCAAGCGAAATGTTTGTTCACC
Found at i:9979553 original size:128 final size:127
Alignment explanation
Indices: 9979335--9979577 Score: 303
Period size: 128 Copynumber: 1.9 Consensus size: 127
9979325 CAACTCCCTA
* * * *
9979335 TGTGATGGAAGTGAACGAAATGTTCATGTTGACCCAATTCCTTTTGTGATGGAATCAAGCACAAT
1 TGTGATGGAAGTGAACGAAATGTTAATGTCGACCCAATTCCCTCTGTGATGGAATCAAGCACAAT
*
9979400 GTTTGTTCACCCAACCCCTTATGTGATGG-GATCAAGCGAAATGTTTGTTGACTCGACTCCTT
66 ATTTGTTCACCCAACCCCTTATGTGATGGAG-TCAAGCGAAATGTTTGTTGACTCGACTCCTT
* * * * *
9979462 TGTGATGGAATTGAGCGAAATGTTAATGTCGA-CCAATTCCCTCTGTTATGGAATCGAGTGA-AA
1 TGTGATGGAAGTGAACGAAATGTTAATGTCGACCCAATTCCCTCTGTGATGGAATCAAG-CACAA
* * * *
9979525 TATTGATGTTGACCCAACTCCTTCTGTGATGGAGTCGAGCGAAATGTTTGTTG
65 TATT--TGTTCACCCAACCCCTTATGTGATGGAGTCAAGCGAAATGTTTGTTG
9979578 TTTAACCAAC
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
126 27 0.28
127 29 0.30
128 41 0.42
129 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (127 bp):
TGTGATGGAAGTGAACGAAATGTTAATGTCGACCCAATTCCCTCTGTGATGGAATCAAGCACAAT
ATTTGTTCACCCAACCCCTTATGTGATGGAGTCAAGCGAAATGTTTGTTGACTCGACTCCTT
Found at i:9979600 original size:45 final size:45
Alignment explanation
Indices: 9979350--9979695 Score: 154
Period size: 45 Copynumber: 8.0 Consensus size: 45
9979340 TGGAAGTGAA
* * * * * *
9979350 CGAAATGTTCATG-TTGACCCAATTCCTTTTGTGATGGAATCAAG
1 CGAAATGTTGATGTTTGAACCAACTCCTTCTATGATGGAATCATG
* * * * * * *
9979394 C-ACAATGTT--TG-TTCACCCAACCCCTTATGTGATGGGATCAAG
1 CGA-AATGTTGATGTTTGAACCAACTCCTTCTATGATGGAATCATG
* * *
9979436 CGAAATGTT--TG-TTG-ACTCGACTCCTT-TGTGATGGAATTGA-G
1 CGAAATGTTGATGTTTGAAC-CAACTCCTTCTATGATGGAA-TCATG
* * * * * *
9979477 CGAAATGTTAATG-TCG-ACCAATTCCCTCTGTTATGGAATCGA-G
1 CGAAATGTTGATGTTTGAACCAACTCCTTCTATGATGGAATC-ATG
* * * * *
9979520 TGAAATATTGATG-TTGACCCAACTCCTTCTGTGATGGAGTCGA-G
1 CGAAATGTTGATGTTTGAACCAACTCCTTCTATGATGGAATC-ATG
* * *
9979564 CGAAATGTTTGTTGTTT-AACCAACTCATTCTATGATGGAATCATT
1 CGAAATG-TTGATGTTTGAACCAACTCCTTCTATGATGGAATCATG
* * *
9979609 TGAAATGTTGATGTTTGACCCAACTCCTTCTATGATGGAATCAAG
1 CGAAATGTTGATGTTTGAACCAACTCCTTCTATGATGGAATCATG
* * * * *
9979654 CAAAATATTGATG--TGAACCCAACTCCCTCTGTTATGGAATCA
1 CGAAATGTTGATGTTTGAA-CCAACTCCTTCTATGATGGAATCA
9979696 AATCTATAAA
Statistics
Matches: 241, Mismatches: 47, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
41 20 0.08
42 55 0.23
43 34 0.14
44 64 0.27
45 66 0.27
46 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (45 bp):
CGAAATGTTGATGTTTGAACCAACTCCTTCTATGATGGAATCATG
Found at i:9979691 original size:89 final size:86
Alignment explanation
Indices: 9979325--9979695 Score: 288
Period size: 89 Copynumber: 4.3 Consensus size: 86
9979315 GATGTTGTTT
* * ** * * *
9979325 CAACTCCCTATGTGATGGAAGTGAACGAAATGTTCATGTTGACCCAATTCCTTTTGTGATGGAAT
1 CAACTCCCTCTGTGATGGAA-TCAGTGAAATGTTGATGTTGACCCAACTCCTTCTGTGATGGAAT
* * *
9979390 CAAGCACAATGTT--TGTTCACC
65 CAAGCAAAATGTTGATG-TGAAC
* * * * *
9979411 CAAC-CCCTTATGTGATGGGATCAAGCGAAATGTT--TGTTGACTCGACTCCTT-TGTGATGGAA
1 CAACTCCC-TCTGTGATGGAATC-AGTGAAATGTTGATGTTGACCCAACTCCTTCTGTGATGGAA
** * *
9979472 TTGAGCGAAATGTTAATGTCG-AC
64 TCAAGCAAAATGTTGATGT-GAAC
* * * *
9979495 CAATTCCCTCTGTTATGGAATCGAGTGAAATATTGATGTTGACCCAACTCCTTCTGTGATGGAGT
1 CAACTCCCTCTGTGATGGAATC-AGTGAAATGTTGATGTTGACCCAACTCCTTCTGTGATGGAAT
* * * *
9979560 CGAGCGAAATGTTTGTTGTTTAAC
65 CAAGCAAAATG-TTGATG-TGAAC
** * * *
9979584 CAACTCATTCTATGATGGAATCATTTGAAATGTTGATGTTTGACCCAACTCCTTCTATGATGGAA
1 CAACTCCCTCTGTGATGGAATCA-GTGAAATGTTGATG-TTGACCCAACTCCTTCTGTGATGGAA
*
9979649 TCAAGCAAAATATTGATGTGAACC
64 TCAAGCAAAATGTTGATGTGAA-C
*
9979673 CAACTCCCTCTGTTATGGAATCA
1 CAACTCCCTCTGTGATGGAATCA
9979696 AATCTATAAA
Statistics
Matches: 226, Mismatches: 44, Indels: 27
0.76 0.15 0.09
Matches are distributed among these distances:
83 20 0.09
84 39 0.17
85 9 0.04
86 40 0.18
87 20 0.09
88 8 0.04
89 57 0.25
90 33 0.15
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (86 bp):
CAACTCCCTCTGTGATGGAATCAGTGAAATGTTGATGTTGACCCAACTCCTTCTGTGATGGAATC
AAGCAAAATGTTGATGTGAAC
Found at i:9979694 original size:44 final size:44
Alignment explanation
Indices: 9979309--9979696 Score: 272
Period size: 44 Copynumber: 8.9 Consensus size: 44
9979299 AACTAAAAGT
*** * * *
9979309 AATATTGATGTTGTTTCAACTCCCTATGTGATGGAAGTGAA-CGA
1 AATATTGATGTTGACCCAACTCCTTCTGTGATGGAA-TCAAGCGA
* * * *
9979353 AATGTTCATGTTGACCCAATTCCTTTTGTGATGGAATCAAGC-A
1 AATATTGATGTTGACCCAACTCCTTCTGTGATGGAATCAAGCGA
* * * * *
9979396 CAATGTT--TGTTCACCCAACCCCTTATGTGATGGGATCAAGCGA
1 -AATATTGATGTTGACCCAACTCCTTCTGTGATGGAATCAAGCGA
* * * **
9979439 AATGTT--TGTTGACTCGACTCCTT-TGTGATGGAATTGAGCGA
1 AATATTGATGTTGACCCAACTCCTTCTGTGATGGAATCAAGCGA
* * * * * * * *
9979480 AATGTTAATGTCGA-CCAATTCCCTCTGTTATGGAATCGAGTGA
1 AATATTGATGTTGACCCAACTCCTTCTGTGATGGAATCAAGCGA
* *
9979523 AATATTGATGTTGACCCAACTCCTTCTGTGATGGAGTCGAGCGA
1 AATATTGATGTTGACCCAACTCCTTCTGTGATGGAATCAAGCGA
* * * * * * ***
9979567 AATGTTTGTTGTTTAACCAACTCATTCTATGATGGAATCATTTGA
1 AAT-ATTGATGTTGACCCAACTCCTTCTGTGATGGAATCAAGCGA
* * *
9979612 AATGTTGATGTTTGACCCAACTCCTTCTATGATGGAATCAAGCAA
1 AATATTGATG-TTGACCCAACTCCTTCTGTGATGGAATCAAGCGA
* *
9979657 AATATTGATG-TGAACCCAACTCCCTCTGTTATGGAATCAA
1 AATATTGATGTTG-ACCCAACTCCTTCTGTGATGGAATCAA
9979697 ATCTATAAAA
Statistics
Matches: 273, Mismatches: 61, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
41 21 0.08
42 54 0.20
43 38 0.14
44 91 0.33
45 69 0.25
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (44 bp):
AATATTGATGTTGACCCAACTCCTTCTGTGATGGAATCAAGCGA
Found at i:9980532 original size:17 final size:18
Alignment explanation
Indices: 9980510--9980650 Score: 74
Period size: 17 Copynumber: 7.3 Consensus size: 18
9980500 CAAAGAGGTT
9980510 TTATATTTAATTTT-ATA
1 TTATATTTAATTTTAATA
*
9980527 TTATATTTGATTTTAATA
1 TTATATTTAATTTTAATA
* *
9980545 TTAAATTTTTAATATTAA-A
1 TT--ATATTTAATTTTAATA
9980564 TATATTAATATTAATTTTTAATA
1 T-TA-T-AT-TTAA-TTTTAATA
* * *
9980587 TTA-ATTTAATATAAATT
1 TTATATTTAATTTTAATA
9980604 TTA-ATATTAATTTTTTAATA
1 TTATAT-TTAA--TTTTAATA
*
9980624 TTATATTATAGATATTTAATT
1 TTATATT-TA-AT-TTTAATA
9980645 TTATAT
1 TTATAT
9980651 CATATAAATT
Statistics
Matches: 95, Mismatches: 13, Indels: 28
0.70 0.10 0.21
Matches are distributed among these distances:
17 23 0.24
18 14 0.15
19 5 0.05
20 23 0.24
21 20 0.21
22 8 0.08
23 2 0.02
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (18 bp):
TTATATTTAATTTTAATA
Found at i:9980569 original size:36 final size:35
Alignment explanation
Indices: 9980536--9980626 Score: 102
Period size: 30 Copynumber: 2.7 Consensus size: 35
9980526 ATTATATTTG
9980536 ATTTTAATATTAAATTTTTAATATTAAATATATTA
1 ATTTTAATATTAAATTTTTAATATTAAATATATTA
* * * *
9980571 ATATTAATTTTTAA-TATTAAT-TT-AATATA--A
1 ATTTTAATATTAAATTTTTAATATTAAATATATTA
*
9980601 ATTTTAATATTAATTTTTTAATATTA
1 ATTTTAATATTAAATTTTTAATATTA
9980627 TATTATAGAT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
30 11 0.25
31 6 0.14
32 8 0.18
33 2 0.05
34 6 0.14
35 11 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (35 bp):
ATTTTAATATTAAATTTTTAATATTAAATATATTA
Found at i:9980609 original size:23 final size:24
Alignment explanation
Indices: 9980538--9980616 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 24
9980528 TATATTTGAT
9980538 TTTAATATTAAATTTTTAATATTAAATA
1 TTTAATATTAAA-TTTTAATATT--A-A
*
9980566 TATTAATATTAATTTTTAATATTAA
1 T-TTAATATTAAATTTTAATATTAA
9980591 TTTAATA-TAAATTTTAATATTAA
1 TTTAATATTAAATTTTAATATTAA
9980614 TTT
1 TTT
9980617 TTTAATATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
23 18 0.38
24 6 0.12
25 2 0.04
26 1 0.02
28 11 0.23
29 10 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTAATATTAAATTTTAATATTAA
Found at i:9980702 original size:20 final size:19
Alignment explanation
Indices: 9980642--9980703 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
9980632 TAGATATTTA
*
9980642 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
9980661 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
9980679 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
9980699 ATTTT
1 ATTTT
9980704 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:9981201 original size:31 final size:31
Alignment explanation
Indices: 9981164--9981223 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
9981154 TAGTTGTATG
* * *
9981164 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTAAGTATTGAAAAACTAA
9981195 AATTATTTAAATCTAAGTATTGAAAAACT
1 AATTATTTAAATCTAAGTATTGAAAAACT
9981224 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTAAGTATTGAAAAACTAA
Found at i:9990612 original size:15 final size:15
Alignment explanation
Indices: 9990594--9990624 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9990584 CATGTGAATT
*
9990594 TCTTTTTCTTTTTTC
1 TCTTTTTCTTCTTTC
9990609 TCTTTTTCTTCTTTC
1 TCTTTTTCTTCTTTC
9990624 T
1 T
9990625 TCTTCTCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
TCTTTTTCTTCTTTC
Done.