Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 9 of 292
Found at i:2508487 original size:17 final size:17
Alignment explanation
Indices: 2508467--2508506 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
2508457 CTGGAGTTCG
2508467 CCAAATGGCAAATCCCA
1 CCAAATGGCAAATCCCA
*
2508484 CCAAATGGCGAATCCCA
1 CCAAATGGCAAATCCCA
2508501 CCAAAT
1 CCAAAT
2508507 ATGCCACACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.40, C:0.35, G:0.12, T:0.12
Consensus pattern (17 bp):
CCAAATGGCAAATCCCA
Found at i:2514808 original size:37 final size:38
Alignment explanation
Indices: 2514742--2514821 Score: 126
Period size: 37 Copynumber: 2.1 Consensus size: 38
2514732 GCAATTGATT
*
2514742 TTAAAATTATTAAAGTTATTTTTTTAAATATAAAATTA
1 TTAAAATTATTAAAGTTATTTTTTGAAATATAAAATTA
* *
2514780 TTAAAATTATTATA-TTATTTTTTGAAATATAAACTTA
1 TTAAAATTATTAAAGTTATTTTTTGAAATATAAAATTA
2514817 TTAAA
1 TTAAA
2514822 TAGATCATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 26 0.67
38 13 0.33
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (38 bp):
TTAAAATTATTAAAGTTATTTTTTGAAATATAAAATTA
Found at i:2517641 original size:52 final size:52
Alignment explanation
Indices: 2517563--2517667 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
2517553 GAAGAATTTA
*
2517563 GAAAAAAATAGAGTTTTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTG
1 GAAAAAAATAGAGTTGTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTG
2517615 GAAAAAAATAGAGTTGTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTG
1 GAAAAAAATAGAGTTGTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTG
2517667 G
1 G
2517668 CGCTAGGGCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (52 bp):
GAAAAAAATAGAGTTGTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTG
Found at i:2518478 original size:9 final size:9
Alignment explanation
Indices: 2518464--2518493 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2518454 GGAGTGTAGA
2518464 AGGCACTTG
1 AGGCACTTG
2518473 AGGCACTTG
1 AGGCACTTG
*
2518482 AGGCACTAG
1 AGGCACTTG
2518491 AGG
1 AGG
2518494 AAAGAAGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.37, T:0.17
Consensus pattern (9 bp):
AGGCACTTG
Found at i:2519451 original size:928 final size:913
Alignment explanation
Indices: 2517730--2520083 Score: 2477
Period size: 928 Copynumber: 2.5 Consensus size: 913
2517720 GATCTGATGG
* * * * * * *
2517730 TGGTTTAATTGGTAGGGGAGTGGTGGATGAGAGGTGGAAAAATAATGCAATAGTTGGTGGTAGAT
1 TGGTTCAATTGGAAAGGGAGTGGTAGAGGAGAGGAGGAAAAATAATGCAATAGGTGGTGGTAGAT
* *
2517795 GGCTAAAGTAAATTG-AAAATGGAGAGAAAAAGGG-AGGAGCCAAGGAAGGGGACAACAATAGGG
66 GGCTAAAGTAAA-TGAAAAATGGAGAG-AAAAGGGAAGGAGCCAAGGAGGGGGACGACAATA-GG
* * * * * * *
2517858 GGAAAAGAGTAAGTAATAGTGAAACTAAAGATGTTACTCACTTGTCTAGGTGTAATGAATCATCT
128 GAAAAAGAGTAAGCAAAAGTGAAACAAAAGATGTTACTTACTTGTCTAGGTGTAATGAATCAACA
* * * *
2517923 TACATGGTAAAGTTGA--AAAAAATGTATGTTGAAGGGACAATGGAGCAGAAAGGGGATCATGTT
193 CACATGGAAAAGATGATGAAAAAA-GTATGTTG-AGGGACAATGGAGCAAAAAGGGGATCATGTT
* * * * *
2517986 TGTAAACATATGGTATGTTAACTTATTAAGATAGGAAAGAAATCCTCCCATGCAAGACAACAAAT
256 TGTAAACATATGGTATGTTGACTTGTTAAGAAATGAAAGAAATCCTCCCATGCAAGGCAACAAAT
**
2518051 GGACAGA-AAAGGGGGATATTGACTGTTCAAATTTGGCAGAAAAATAAATAAAAATATGGATAGT
321 GGAC-GACAAA-GGGGATATTGACCATTCAAATTTGGCAGAAAAATAAATAAAAATATGGATAGT
* * * *
2518115 GTGAAGACTTGAACCTAAGACCTTAAGGAAACAAATTAAGCTCTTAAACATTAGACTGACT--C-
384 GTGAAGACTTGAACCT-AGGCCTTAAGGAAACTAATTAAGCTCTTAACCATTAGACTAACTCACT
* * * *
2518177 ACTTGTTCACAGACTACAACATTTATTTTAAAAACATGGTGTGACTTTTGCTAAGGTTTGACGGA
448 ACTTGTTCACAAACTACAACA-TTATTTTAAAAACATGGTGTGACATTTGCTAAGGTTTAACGCA
* * *
2518242 AAATTGCACAACATAGAAAATAGTGTGAGGGAAGAGATACAAACACATGTCATCAAGGACATCCT
512 AAATTGCACAACATAGAAAATAATGTGAGAGAAGAGATACAAACACATGCCATCAAGGACATCCT
* * *
2518307 CACCACTACTTGATCACTAAAAAAATTTAGGAGTGGCCACACTCGGTTCATTAACCTAATTTCTA
577 CACCACTACTTGATCACTAAAAAAAATTAGGAGTGACCACACTCGGTGCATTAACCTAATTTCTA
* * ** * ** * *
2518372 CTAAGCTGGGTTTTGGGAAAAGAAAAAGATCACCAATGCCTTTGGATGCACGGTAGAGGTCCTGC
642 CTAAGCTAGGTTTTGGGAAAAGAAAAAGATCACCAAAGCCGGTGGAGGCACGACAGAAGTCCGGC
* * * *
2518437 GAGAAGTAGATGGGTGAGGAGTGTAGAAGGCACTTGAGGCACTTGAGGCACTAGAGGAAAGAAGG
707 GAGAAG-AGATGGGTGAGGAGTGTAGAAGGCACTTGAGACACTAGAGGAACAAGAGGAAAGAAGG
**
2518502 AGAAAATAGAAAGGGAAAAGAAATAGAGAAGAAGAAGATAGAAAAAAAAAGAGTTATTTTCGATG
771 AGAAAATAGAAAGACAAAAG--A-AGAG-AGAA-AAG--AG--------A-A-TTATTTTCGATG
* * ** * **
2518567 GGGGTGCACAATGATGGTGGCC-A-TG-ATGGT-G-CTAGGGTAGCAGTTGAGGATTACAAAAGA
819 GGGGTGCACAATGATGGTGGCCAATTGAACGGTGGACTAGGGCAGCAGCGGAGCAACACAAAAGA
* ** * *
2518627 AATAAACGTCGAAAAAGGGGATATTCAATGA
884 AAGAAACG-AAAAAAAGGGGAGATTCAATAA
* * *
2518658 TGGTTCAATTGGAAAGGGAGTGGTAGAGGAGAGGGGGAAAAATAATCCAATAGGTGGTAGTAGAT
1 TGGTTCAATTGGAAAGGGAGTGGTAGAGGAGAGGAGGAAAAATAATGCAATAGGTGGTGGTAGAT
* * * *
2518723 GGCTAAAGTAAATGAAAAATGGAGAGAAGAGGGAATGAGCGAAGGCGGGGGACGACAATAGGGAA
66 GGCTAAAGTAAATGAAAAATGGAGAGAAAAGGGAAGGAGCCAAGGAGGGGGACGACAATAGGGAA
* * *
2518788 AAAAAGTAAGGAAAAGTTAAACAAAAGATGTTACTTACTTGTCTAGGTGTAATGAATCAACACAC
131 AAAGAGTAAGCAAAAGTGAAACAAAAGATGTTACTTACTTGTCTAGGTGTAATGAATCAACACAC
* * * *
2518853 ATGGAAAAGATGATGAAAAAAGTATGTTGAGGGTATAATGGAGCAAAAAAGGAATCATGCTTGTA
196 ATGGAAAAGATGATGAAAAAAGTATGTTGAGGG-ACAATGGAGCAAAAAGGGGATCATGTTTGTA
* * * * *
2518918 AAAATGTGGTATGTTGACTTGTTAAGAAATGAAAGAAATCCTCCTATACAAGGCAAAAAATGGAC
260 AACATATGGTATGTTGACTTGTTAAGAAATGAAAGAAATCCTCCCATGCAAGGCAACAAATGGAC
* *
2518983 GACAAA-AGGATTATTGACCATTCAAATTTGGCAGAAAAATAAATAAAAATATGG-TGAGTGTTA
325 GACAAAGGGGA-TATTGACCATTCAAATTTGGCAGAAAAATAAATAAAAATATGGAT-AGTGTGA
* * * *
2519046 AGACTTGAACCTAGGCTTTTAATGAAACTAACTAAGCTTTTAACCATTAGACTAACTCACTTACT
388 AGACTTGAACCTAGGC-CTTAAGGAAACTAATTAAGCTCTTAACCATTAGACTAACTCAC-TACT
* * * * *
2519111 TGGTCACAAACTACAATATATATTTTAAAAACATGGTGTGACCTTTGCTATGGTTTAATGCAAAA
451 TGTTCACAAACTACAACAT-TATTTTAAAAACATGGTGTGACATTTGCTAAGGTTTAACGCAAAA
* *
2519176 TTGC-C-TCGTATAGAAAATAATGTGAGAGAAGAGATTCAAACACA-GACCATCAAGGACAT-CT
515 TTGCACAAC--ATAGAAAATAATGTGAGAGAAGAGATACAAACACATG-CCATCAAGGACATCCT
* * * *
2519237 CCACCACTACTTGATCACTAAAAAAAATTGGGTGTGACCACTCTTGGTGCATTAATCC-AATTTC
577 -CACCACTACTTGATCACTAAAAAAAATTAGGAGTGACCACACTCGGTGCATTAA-CCTAATTTC
* * * **
2519301 TACTAAGTTAGTTTTTGGGAAAAGAAAATGATCATGAAAGCCGGTGGAGGCACGACA-ATAGTCC
640 TACTAAGCTAGGTTTTGGGAAAAGAAAAAGATCACCAAAGCCGGTGGAGGCACGACAGA-AGTCC
* * *** *
2519365 GGCTTA-ACG-GA-GGAG-GAGG-G-G-AGAAGGGGGTTGCA-ACACTAGAGGAAAGAATGAGAG
704 GGC-GAGAAGAGATGG-GTGAGGAGTGTAGAAGGCACTTG-AGACACTAGAGG-AACAA-GAG-G
* * * * ** *
2519422 AATGAAGAGAGAAAA-AGAAATACAAAAGAAGAGAGAAAAGAGAATTCTTTTTGATGGTTGTGCT
763 AAAGAAG-GAGAAAATAGAAAGACAAAAGAAGAGAGAAAAGAGAATTATTTTCGATGGGGGTGCA
* * * * * *
2519486 CAATGGTGGTGGCCATAATGTTGAACGGTGGCACTAGGGCGGCGGCGGAGCAACACAGAGGAGAG
827 CAATGATGGTGGCC--AA--TTGAACGGTGG-ACTAGGGCAGCAGCGGAGCAACACAAAAGAAAG
* * ***
2519551 GAGCGAAAAAAAGGGGAGATTTGGTAA
887 AAACGAAAAAAAGGGGAGATTCAATAA
* ** * * * ** * * * *
2519578 TAGTTCAGCTGGCATGGGAATGGTAGAGGAGAGGACAAAAAATAGTGCAACAGGTGATGGTTGAT
1 TGGTTCAATTGGAAAGGGAGTGGTAGAGGAGAGGAGGAAAAATAATGCAATAGGTGGTGGTAGAT
** * *
2519643 GGCTAAAGTAAAACAAAAATGGAGAAAAAACGGGAAGGAGCCAAGGAGGGGGATGACAATAGGGA
66 GGCTAAAGTAAATGAAAAATGGAGAGAAAA-GGGAAGGAGCCAAGGAGGGGGACGACAATAGGGA
* * * * *
2519708 GAGAAGAGTAAGCAAAAGTGAAACAAAATATGTTACTTACTTTTCTAGGTGTAATGAATTAGCAC
130 -AAAAGAGTAAGCAAAAGTGAAACAAAAGATGTTACTTACTTGTCTAGGTGTAATGAATCAACAC
*
2519773 ACAT-GATAAAGATGATG-AAAAAGATATGCTGATGGGACAATGGAGCAAAAAGGGGATCATGTT
194 ACATGGA-AAAGATGATGAAAAAAG-TATGTTGA-GGGACAATGGAGCAAAAAGGGGATCATGTT
* * *
2519836 TGTAAACATATGGTATGTTGACTTGTTAATAAATGAAAGAAATGCTCCCATGCAAGGCAACAAGT
256 TGTAAACATATGGTATGTTGACTTGTTAAGAAATGAAAGAAATCCTCCCATGCAAGGCAACAAAT
* *
2519901 GGACGACAAAGGGGCGTATTGACCATTCAAATTTGGAAGAAAAATAAATAAAAATATGGATAGTG
321 GGACGACAAAGGGG-ATATTGACCATTCAAATTTGGCAGAAAAATAAATAAAAATATGGATAGTG
* *
2519966 TGGAGACTTGAACCTAGGACCTTAAGGAAACTAATTAAGCTCTTAACCATTAGGCTAACTCACCT
385 TGAAGACTTGAACCTAGG-CCTTAAGGAAACTAATTAAGCTCTTAACCATTAGACTAACTCA-CT
2520031 ACTTGTTCACAAACTACAACACTTATTTTAAAAACATGGTGTGACATTTGCTA
448 ACTTGTTCACAAACTACAACA-TTATTTTAAAAACATGGTGTGACATTTGCTA
2520084 CTGTTTGAAA
Statistics
Matches: 1191, Mismatches: 187, Indels: 101
0.81 0.13 0.07
Matches are distributed among these distances:
911 28 0.02
912 1 0.00
913 1 0.00
914 1 0.00
917 2 0.00
918 4 0.00
919 1 0.00
920 91 0.08
921 63 0.05
922 167 0.14
923 156 0.13
924 8 0.01
925 21 0.02
926 12 0.01
927 181 0.15
928 215 0.18
929 18 0.02
930 6 0.01
931 212 0.18
932 3 0.00
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (913 bp):
TGGTTCAATTGGAAAGGGAGTGGTAGAGGAGAGGAGGAAAAATAATGCAATAGGTGGTGGTAGAT
GGCTAAAGTAAATGAAAAATGGAGAGAAAAGGGAAGGAGCCAAGGAGGGGGACGACAATAGGGAA
AAAGAGTAAGCAAAAGTGAAACAAAAGATGTTACTTACTTGTCTAGGTGTAATGAATCAACACAC
ATGGAAAAGATGATGAAAAAAGTATGTTGAGGGACAATGGAGCAAAAAGGGGATCATGTTTGTAA
ACATATGGTATGTTGACTTGTTAAGAAATGAAAGAAATCCTCCCATGCAAGGCAACAAATGGACG
ACAAAGGGGATATTGACCATTCAAATTTGGCAGAAAAATAAATAAAAATATGGATAGTGTGAAGA
CTTGAACCTAGGCCTTAAGGAAACTAATTAAGCTCTTAACCATTAGACTAACTCACTACTTGTTC
ACAAACTACAACATTATTTTAAAAACATGGTGTGACATTTGCTAAGGTTTAACGCAAAATTGCAC
AACATAGAAAATAATGTGAGAGAAGAGATACAAACACATGCCATCAAGGACATCCTCACCACTAC
TTGATCACTAAAAAAAATTAGGAGTGACCACACTCGGTGCATTAACCTAATTTCTACTAAGCTAG
GTTTTGGGAAAAGAAAAAGATCACCAAAGCCGGTGGAGGCACGACAGAAGTCCGGCGAGAAGAGA
TGGGTGAGGAGTGTAGAAGGCACTTGAGACACTAGAGGAACAAGAGGAAAGAAGGAGAAAATAGA
AAGACAAAAGAAGAGAGAAAAGAGAATTATTTTCGATGGGGGTGCACAATGATGGTGGCCAATTG
AACGGTGGACTAGGGCAGCAGCGGAGCAACACAAAAGAAAGAAACGAAAAAAAGGGGAGATTCAA
TAA
Found at i:2520100 original size:923 final size:920
Alignment explanation
Indices: 2517767--2520100 Score: 2546
Period size: 931 Copynumber: 2.5 Consensus size: 920
2517757 TGAGAGGTGG
* **
2517767 AAAAATAATGCAATAGTTGGTGGTAGATGGCTAAAGTAAATTGAAAATGGAGAGAAAAAGGG-AG
1 AAAAATAATGCAATAGGTGGTGGTAGATGGCTAAAGTAAATCAAAAATGGAGA-AAAAAGGGAAG
* * * * * *
2517831 GAGCCAAGGAAGGGGACAACAATAGGGGGAAAAGAGTAAGTAATAGTGAAACTAAAGATGTTACT
65 GAGCCAAGGAGGGGGACGACAATAGGGAGAAAAGAGTAAGCAAAAGTGAAACAAAAGATGTTACT
* * ** * * *
2517896 CACTTGTCTAGGTGTAATGAATCATCTTACATGGTAAAGTTGA-AAAAAATG-TATGTTGAAGGG
130 TACTTGTCTAGGTGTAATGAATCAACACACATGATAAAGATGATGAAAAA-GATATGTTG-AGGG
* * * * *
2517959 ACAATGGAGCAGAAAGGGGATCATGTTTGTAAACATATGGTATGTTAACTTATTAAGATAGGAAA
193 ACAATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTATGTTGACTTGTTAAGAAATGAAA
* **
2518024 GAAATCCTCCCATGCAAGACAACAAATGGACAGA-AAAGGGGGATATTGACTGTTCAAATTTGGC
258 GAAATCCTCCCATGCAAGGCAACAAATGGAC-GACAAAGGGGG-TATTGACCATTCAAATTTGGC
* *
2518088 AGAAAAATAAATAAAAATATGGATAGTGTGAAGACTTGAACCTAAGACCTTAAGGAAACAAATTA
321 AGAAAAATAAATAAAAATATGGATAGTGTGAAGACTTGAACCTAGGACCTTAAGGAAACTAATTA
* * *
2518153 AGCTCTTAAACATTAGACTGACT---C-ACTTGTTCACAGACTACAACATTTATTTTAAAAACAT
386 AGCTCTTAACCATTAGACTAACTCACCTACTTGTTCACAAACTACAACA-TTATTTTAAAAACAT
* * * * * *
2518214 GGTGTGACTTTTGCTAAGGTTTGACGGAAAATTGCACAACATAGAAAATAGTGTGAGGGAAGAGA
450 GGTGTGACATTTGCT-ATGTTTGAAGCAAAATTGCACAACATAGAAAATAATGTGAGAGAAGAGA
* * *
2518279 TACAAACACATGTCATCAAGGACATCCTCACCACTACTTGATCACTAAAAAAATTTAGGAGTGGC
514 TACAAACACATGCCATCAAGGACATCCTCACCACTACTTGATCACTAAAAAAAATTAGGAGTGAC
* * *
2518344 CACACTCGGTTCATTAACCTAATTTCTACTAAGCTGGGTTTTGGGAAAAGAAAAAGATCACCAAT
579 CACACTCGGTGCATTAACCTAATTTCTACTAAGCTAGGTTTTGGGAAAAGAAAAAGATCACCAAA
** * ** * *
2518409 GCCTTTGGATGCACGGTAGAGGTCCTGCGAGAAGTAGATGGGTGAGGAGTGTAGAAGGCACTTGA
644 GCCGGTGGAGGCACGACAGAAGTCCGGCGAGAAG-AGATGGGTGAGGAGTGTAGAAGG--C--GA
* * *
2518474 GGCACTTGAGGCACTAGAGGAAAGAAGGAGAAAATAGAAAGGGAAAAGAAATAGAGAAGAAGAAG
704 GG--CTTGAGACACTAGAGGAAAGAAGGAGAAAATAGAAAGGAAAAAGAAATA-ACAAGAAGAAG
* *
2518539 ATAGAAAAAAAAAGAGTTATTTTCGATGGGGGTGCACAATGATGGTGGCCATGATGGTGCTAGGG
766 A-AGAAAAAAAAAGAATTATTTTCGATGGGGGTGCACAATGATGGTGGCCATGACGGTGCTAGGG
* ** * ** * ** * * * *
2518604 TAGCAGTTGAGGATTACAAAAGAAATAAACGTCGAAAAAGGGGATATTCAATGATGGTTCAATTG
830 CAGCAGCGGAGCAACACAAAAGAAAGAAACGTAAAAAAAGGGGAGATTCAATAATAGTTCAACTG
* ***
2518669 GAAAGGGAGTGGTAGAGGAGAGGGGG
895 GAAAGGGAATGGTAGAGGAGAGGACA
* * * * * *
2518695 AAAAATAATCCAATAGGTGGTAGTAGATGGCTAAAGTAAATGAAAAATGGAGAGAAGAGGGAATG
1 AAAAATAATGCAATAGGTGGTGGTAGATGGCTAAAGTAAATCAAAAATGGAGAAAAAAGGGAAGG
* * * * *
2518760 AGCGAAGGCGGGGGACGACAATAGGGA-AAAAAAGTAAGGAAAAGTTAAACAAAAGATGTTACTT
66 AGCCAAGGAGGGGGACGACAATAGGGAGAAAAGAGTAAGCAAAAGTGAAACAAAAGATGTTACTT
2518824 ACTTGTCTAGGTGTAATGAATCAACACACATGGA-AAAGATGATGAAAAA-AGTATGTTGAGGGT
131 ACTTGTCTAGGTGTAATGAATCAACACACAT-GATAAAGATGATGAAAAAGA-TATGTTGAGGG-
* * * * * *
2518887 ATAATGGAGCAAAAAAGGAATCATGCTTGTAAAAATGTGGTATGTTGACTTGTTAAGAAATGAAA
193 ACAATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTATGTTGACTTGTTAAGAAATGAAA
* * * * **
2518952 GAAATCCTCCTATACAAGGCAAAAAATGGACGACAAAAGGATTATTGACCATTCAAATTTGGCAG
258 GAAATCCTCCCATGCAAGGCAACAAATGGACGACAAAGGGGGTATTGACCATTCAAATTTGGCAG
* * * *
2519017 AAAAATAAATAAAAATATGG-TGAGTGTTAAGACTTGAACCTAGG-CTTTTAATGAAACTAACTA
323 AAAAATAAATAAAAATATGGAT-AGTGTGAAGACTTGAACCTAGGAC-CTTAAGGAAACTAATTA
* * * *
2519080 AGCTTTTAACCATTAGACTAACTCACTTACTTGGTCACAAACTACAATATATATTTTAAAAACAT
386 AGCTCTTAACCATTAGACTAACTCACCTACTTGTTCACAAACTACAACAT-TATTTTAAAAACAT
* *
2519145 GGTGTGACCTTTGCTATGGTTT-AATGCAAAATTGC-C-TCGTATAGAAAATAATGTGAGAGAAG
450 GGTGTGACATTTGCTAT-GTTTGAA-GCAAAATTGCACAAC--ATAGAAAATAATGTGAGAGAAG
* * *
2519207 AGATTCAAACACA-GACCATCAAGGACAT-CTCCACCACTACTTGATCACTAAAAAAAATTGGGT
511 AGATACAAACACATG-CCATCAAGGACATCCT-CACCACTACTTGATCACTAAAAAAAATTAGGA
* * * * *
2519270 GTGACCACTCTTGGTGCATTAATCC-AATTTCTACTAAGTTAGTTTTTGGGAAAAGAAAATGATC
574 GTGACCACACTCGGTGCATTAA-CCTAATTTCTACTAAGCTAGGTTTTGGGAAAAGAAAAAGATC
** * *
2519334 ATGAAAGCCGGTGGAGGCACGACA-ATAGTCCGGCTTA-ACG-GA-GGAG-GAGG-G-G-AGAAG
638 ACCAAAGCCGGTGGAGGCACGACAGA-AGTCCGGC-GAGAAGAGATGG-GTGAGGAGTGTAGAAG
* *
2519391 G-G-GG-TTGCA-ACACTAGAGGAAAGAATGAGAGAAT-GAAGAGAGAAAAAGAAAT-ACAA-AA
700 GCGAGGCTTG-AGACACTAGAGGAAAGAAGGAGAAAATAGAA-AG-GAAAAAGAAATAACAAGAA
* * * * ** * *
2519449 GAAG-AG-AGAAAAGAGAATTCTTTTTGATGGTTGTGCTCAATGGTGGTGGCCATAATGTTGAAC
762 GAAGAAGAAAAAAAAAGAATTATTTTCGATGGGGGTGCACAATGATGGTGGCC---A---TG-AC
* * * * * * * ***
2519512 GGTGGCACTAGGGCGGCGGCGGAGCAACACAGAGGAGAGGAGCG-AAAAAAAGGGGAGATTTGGT
820 GGT-G--CTAGGGCAGCAGCGGAGCAACACAAAAGAAAGAAACGTAAAAAAAGGGGAGATTCAAT
* * *
2519576 AATAGTTCAGCTGGCATGGGAATGGTAGAGGAGAGGACA
882 AATAGTTCAACTGGAAAGGGAATGGTAGAGGAGAGGACA
* * * * *
2519615 AAAAATAGTGCAACAGGTGATGGTTGATGGCTAAAGTAAAACAAAAATGGAGAAAAAACGGGAAG
1 AAAAATAATGCAATAGGTGGTGGTAGATGGCTAAAGTAAATCAAAAATGGAGAAAAAA-GGGAAG
* * *
2519680 GAGCCAAGGAGGGGGATGACAATAGGGAGAGAAGAGTAAGCAAAAGTGAAACAAAATATGTTACT
65 GAGCCAAGGAGGGGGACGACAATAGGGAGAAAAGAGTAAGCAAAAGTGAAACAAAAGATGTTACT
* * * *
2519745 TACTTTTCTAGGTGTAATGAATTAGCACACATGATAAAGATGATGAAAAAGATATGCTGATGGGA
130 TACTTGTCTAGGTGTAATGAATCAACACACATGATAAAGATGATGAAAAAGATATGTTGA-GGGA
*
2519810 CAATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTATGTTGACTTGTTAATAAATGAAAG
194 CAATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTATGTTGACTTGTTAAGAAATGAAAG
* * *
2519875 AAATGCTCCCATGCAAGGCAACAAGTGGACGACAAAGGGGCGTATTGACCATTCAAATTTGGAAG
259 AAATCCTCCCATGCAAGGCAACAAATGGACGACAAAGGGG-GTATTGACCATTCAAATTTGGCAG
*
2519940 AAAAATAAATAAAAATATGGATAGTGTGGAGACTTGAACCTAGGACCTTAAGGAAACTAATTAAG
323 AAAAATAAATAAAAATATGGATAGTGTGAAGACTTGAACCTAGGACCTTAAGGAAACTAATTAAG
*
2520005 CTCTTAACCATTAGGCTAACTCACCTACTTGTTCACAAACTACAACACTTATTTTAAAAACATGG
388 CTCTTAACCATTAGACTAACTCACCTACTTGTTCACAAACTACAACA-TTATTTTAAAAACATGG
*
2520070 TGTGACATTTGCTACTGTTTGAAACAAAATT
452 TGTGACATTTGCTA-TGTTTGAAGCAAAATT
2520101 ACACTACCTA
Statistics
Matches: 1172, Mismatches: 186, Indels: 101
0.80 0.13 0.07
Matches are distributed among these distances:
911 36 0.03
912 2 0.00
914 7 0.01
915 6 0.01
916 27 0.02
917 13 0.01
918 4 0.00
919 3 0.00
920 92 0.08
921 55 0.05
922 174 0.15
923 164 0.14
924 6 0.01
925 6 0.01
926 3 0.00
927 173 0.15
928 177 0.15
929 4 0.00
930 8 0.01
931 209 0.18
932 3 0.00
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (920 bp):
AAAAATAATGCAATAGGTGGTGGTAGATGGCTAAAGTAAATCAAAAATGGAGAAAAAAGGGAAGG
AGCCAAGGAGGGGGACGACAATAGGGAGAAAAGAGTAAGCAAAAGTGAAACAAAAGATGTTACTT
ACTTGTCTAGGTGTAATGAATCAACACACATGATAAAGATGATGAAAAAGATATGTTGAGGGACA
ATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTATGTTGACTTGTTAAGAAATGAAAGAA
ATCCTCCCATGCAAGGCAACAAATGGACGACAAAGGGGGTATTGACCATTCAAATTTGGCAGAAA
AATAAATAAAAATATGGATAGTGTGAAGACTTGAACCTAGGACCTTAAGGAAACTAATTAAGCTC
TTAACCATTAGACTAACTCACCTACTTGTTCACAAACTACAACATTATTTTAAAAACATGGTGTG
ACATTTGCTATGTTTGAAGCAAAATTGCACAACATAGAAAATAATGTGAGAGAAGAGATACAAAC
ACATGCCATCAAGGACATCCTCACCACTACTTGATCACTAAAAAAAATTAGGAGTGACCACACTC
GGTGCATTAACCTAATTTCTACTAAGCTAGGTTTTGGGAAAAGAAAAAGATCACCAAAGCCGGTG
GAGGCACGACAGAAGTCCGGCGAGAAGAGATGGGTGAGGAGTGTAGAAGGCGAGGCTTGAGACAC
TAGAGGAAAGAAGGAGAAAATAGAAAGGAAAAAGAAATAACAAGAAGAAGAAGAAAAAAAAAGAA
TTATTTTCGATGGGGGTGCACAATGATGGTGGCCATGACGGTGCTAGGGCAGCAGCGGAGCAACA
CAAAAGAAAGAAACGTAAAAAAAGGGGAGATTCAATAATAGTTCAACTGGAAAGGGAATGGTAGA
GGAGAGGACA
Found at i:2520295 original size:3 final size:3
Alignment explanation
Indices: 2520277--2520311 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
2520267 AAAATAACTC
*
2520277 TCT TTT TCT CTCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT -TCT TCT TCT TCT TCT TCT TCT TCT T
2520312 TATTTTTCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:2520778 original size:14 final size:14
Alignment explanation
Indices: 2520761--2520787 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2520751 TCGTACTCTA
2520761 CTTTTAATGAAGGG
1 CTTTTAATGAAGGG
2520775 CTTTTAATGAAGG
1 CTTTTAATGAAGG
2520788 ACTGATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (14 bp):
CTTTTAATGAAGGG
Found at i:2538194 original size:29 final size:30
Alignment explanation
Indices: 2538153--2538211 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
2538143 GAATTGAATC
2538153 AAATCAAAATTTCATATATAAAATTGCACA
1 AAATCAAAATTTCATATATAAAATTGCACA
* *
2538183 AAATC-AAATTTCATGTATACAATTGCACA
1 AAATCAAAATTTCATATATAAAATTGCACA
2538212 TTAAACTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATATATAAAATTGCACA
Found at i:2538546 original size:29 final size:30
Alignment explanation
Indices: 2538493--2538553 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
2538483 TAAAAACTGC
* *
2538493 ACATGAACTTTGGTTTAATGTGCAATATTAT
1 ACATAAACTTTGATTT-ATGTGCAATATTAT
*
2538524 ACATAAACTTTGATTT-TGTGCAATTTTAT
1 ACATAAACTTTGATTTATGTGCAATATTAT
2538553 A
1 A
2538554 TATGATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 13 0.48
31 14 0.52
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (30 bp):
ACATAAACTTTGATTTATGTGCAATATTAT
Found at i:2539538 original size:8 final size:9
Alignment explanation
Indices: 2539521--2539545 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2539511 TTCAAGTAAT
2539521 ATTAAAAAA
1 ATTAAAAAA
2539530 ATTAAAAAA
1 ATTAAAAAA
2539539 ATTAAAA
1 ATTAAAA
2539546 TAGGTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
ATTAAAAAA
Found at i:2545445 original size:55 final size:57
Alignment explanation
Indices: 2545349--2545458 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 57
2545339 AATCTGTTTG
* * *
2545349 TATTTCAAATTTTTTTTACTTTTGTTTTCTGTTTTGATGTACTTCTGATATATAGGA
1 TATTTCAAATTTTCTTTACTCTTGTTTTCTGTTTTGATGTACTCCTGATATATAGGA
* *
2545406 TATTTCAAA-TTTCTTTGCTCTTGTTTT-TGTTTTGGTGTACTCCTGATATATAG
1 TATTTCAAATTTTCTTTACTCTTGTTTTCTGTTTTGATGTACTCCTGATATATAG
2545459 AAGTTAGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
55 24 0.50
56 15 0.31
57 9 0.19
ACGTcount: A:0.19, C:0.11, G:0.14, T:0.56
Consensus pattern (57 bp):
TATTTCAAATTTTCTTTACTCTTGTTTTCTGTTTTGATGTACTCCTGATATATAGGA
Found at i:2548243 original size:16 final size:17
Alignment explanation
Indices: 2548217--2548250 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2548207 TGAGGAGGTA
2548217 TATATGGTTGTTTGAAT
1 TATATGGTTGTTTGAAT
2548234 TATA-GGTTGTTTGAAT
1 TATATGGTTGTTTGAAT
2548250 T
1 T
2548251 CTCTCACTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (17 bp):
TATATGGTTGTTTGAAT
Found at i:2558992 original size:24 final size:24
Alignment explanation
Indices: 2558965--2559019 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
2558955 TATAATTGAT
2558965 ATTGCATTTGACTT-TGTATATGAA
1 ATTGCATTTGA-TTCTGTATATGAA
2558989 ATTGCATTTGATTCTGTATATGAA
1 ATTGCATTTGATTCTGTATATGAA
2559013 ATTGCAT
1 ATTGCAT
2559020 CTATATTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.45
Consensus pattern (24 bp):
ATTGCATTTGATTCTGTATATGAA
Found at i:2560223 original size:21 final size:22
Alignment explanation
Indices: 2560185--2560226 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2560175 TTGTTAGGAT
2560185 TTAAATAATATAATTTTATAAA
1 TTAAATAATATAATTTTATAAA
*
2560207 TTAAATAA-ATTATTTTATAA
1 TTAAATAATATAATTTTATAA
2560227 TATATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAATAATATAATTTTATAAA
Found at i:2570005 original size:2 final size:2
Alignment explanation
Indices: 2569998--2570028 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2569988 GATGCATCAA
2569998 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2570029 ATACATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2570131 original size:2 final size:2
Alignment explanation
Indices: 2570124--2570154 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2570114 AAACCTAATA
*
2570124 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2570155 AAAAGATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2570602 original size:26 final size:26
Alignment explanation
Indices: 2570563--2570670 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
2570553 TGATACAAAT
2570563 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
2570589 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
2570615 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
2570641 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
2570667 TGAT
1 TGAT
2570671 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 75 0.97
27 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:2575092 original size:46 final size:46
Alignment explanation
Indices: 2575032--2575153 Score: 174
Period size: 46 Copynumber: 2.7 Consensus size: 46
2575022 TTTGGCGTGA
* * * *
2575032 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTTCATGTCACGT
*
2575078 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
*
2575124 TGCCATGGTATCTTTCAACCATTGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
2575154 ACACAGGTTG
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 5 0.07
46 63 0.93
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
Found at i:2575173 original size:38 final size:38
Alignment explanation
Indices: 2575122--2575194 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
2575112 TTCATGTCAC
*
2575122 GTTGCCATGGTATCTTTCAACCATTGTCTTACACACAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
*
2575160 GTTGCCATGGTATCTTTCAACCATGGTTTTACACA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
2575195 TTTCATATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (38 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
Found at i:2589535 original size:22 final size:22
Alignment explanation
Indices: 2589489--2589535 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
2589479 CTGCTATGTT
* *
2589489 CCTAGGTCACACGGGCGTTTGC
1 CCTAGGTCACACGGGCATGTGC
2589511 CCTA-GTCACACGGGCATGTGTC
1 CCTAGGTCACACGGGCATGTG-C
2589533 CCT
1 CCT
2589536 TCATATGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.15, C:0.34, G:0.28, T:0.23
Consensus pattern (22 bp):
CCTAGGTCACACGGGCATGTGC
Found at i:2593687 original size:39 final size:39
Alignment explanation
Indices: 2593616--2593690 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
2593606 GATGTTTTTA
*
2593616 AGTATTGTGACATATGCTTAAATGTCATGTGATTATATG
1 AGTATTGTGACATATGCTTAAATGTCAGGTGATTATATG
* ** *
2593655 AGTATTGTGATATATGCTTGTATGTTAGGTGATTAT
1 AGTATTGTGACATATGCTTAAATGTCAGGTGATTAT
2593691 GTGTAATATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (39 bp):
AGTATTGTGACATATGCTTAAATGTCAGGTGATTATATG
Found at i:2595807 original size:24 final size:24
Alignment explanation
Indices: 2595780--2595850 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
2595770 ATCACAGAAA
2595780 GTGTACAT-TGGCACTATGTGTGCG
1 GTGTA-ATATGGCACTATGTGTGCG
*
2595804 GTGTAGTATGGCACTATGTGTGCG
1 GTGTAATATGGCACTATGTGTGCG
*
2595828 GAGTTGAATA--GCACTATGTGTGC
1 GTG-T-AATATGGCACTATGTGTGC
2595851 TGATTTGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.02
24 36 0.88
25 1 0.02
26 3 0.07
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.32
Consensus pattern (24 bp):
GTGTAATATGGCACTATGTGTGCG
Found at i:2595871 original size:26 final size:24
Alignment explanation
Indices: 2595790--2595860 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
2595780 GTGTACATTG
* * * *
2595790 GCACTATGTGTGCGGTGTAGTATG
1 GCACTATGTGTGCGGAGTTGAATA
2595814 GCACTATGTGTGCGGAGTTGAATA
1 GCACTATGTGTGCGGAGTTGAATA
* *
2595838 GCACTATGTGTGCTGATTTGAAT
1 GCACTATGTGTGCGGAGTTGAAT
2595861 GTCAACATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGGAGTTGAATA
Found at i:2603786 original size:24 final size:24
Alignment explanation
Indices: 2603759--2603806 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
2603749 ATCACAGAAA
2603759 GTGTACAT-TGGCACTATGTGTGCG
1 GTGTA-ATATGGCACTATGTGTGCG
*
2603783 GTGTAGTATGGCACTATGTGTGCG
1 GTGTAATATGGCACTATGTGTGCG
2603807 AAGTTGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.17, C:0.15, G:0.35, T:0.33
Consensus pattern (24 bp):
GTGTAATATGGCACTATGTGTGCG
Found at i:2603839 original size:24 final size:24
Alignment explanation
Indices: 2603769--2603829 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
2603759 GTGTACATTG
** * * *
2603769 GCACTATGTGTGCGGTGTAGTATG
1 GCACTATGTGTGCGAAGTTGAATA
2603793 GCACTATGTGTGCGAAGTTGAATA
1 GCACTATGTGTGCGAAGTTGAATA
2603817 GCACTATGTGTGC
1 GCACTATGTGTGC
2603830 TGATTTGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (24 bp):
GCACTATGTGTGCGAAGTTGAATA
Found at i:2609114 original size:13 final size:13
Alignment explanation
Indices: 2609096--2609134 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
2609086 ATAATTTAAT
2609096 TTAATTAATTATG
1 TTAATTAATTATG
*
2609109 TTAATTAATTAAG
1 TTAATTAATTATG
2609122 TTAATTTAATTAT
1 TTAA-TTAATTAT
2609135 TTTTCAACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (13 bp):
TTAATTAATTATG
Found at i:2610695 original size:30 final size:30
Alignment explanation
Indices: 2610661--2610723 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
2610651 TGCGAAAAAG
*
2610661 AAAGCAAAACAAAATCTAAGTCCAAAAGTT
1 AAAGCAAAACAAAATCCAAGTCCAAAAGTT
*
2610691 AAAGCAAAACAAAGTCCAAGTCCAAAAGTT
1 AAAGCAAAACAAAATCCAAGTCCAAAAGTT
2610721 AAA
1 AAA
2610724 ACCATACAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.17, G:0.11, T:0.14
Consensus pattern (30 bp):
AAAGCAAAACAAAATCCAAGTCCAAAAGTT
Found at i:2611428 original size:18 final size:18
Alignment explanation
Indices: 2611401--2611435 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2611391 TTCAGAATCC
2611401 TAGGCCCACATGCCCGTA
1 TAGGCCCACATGCCCGTA
*
2611419 TAGGCTCACATGCCCGT
1 TAGGCCCACATGCCCGT
2611436 GTGGGCCTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.37, G:0.23, T:0.20
Consensus pattern (18 bp):
TAGGCCCACATGCCCGTA
Found at i:2618702 original size:14 final size:15
Alignment explanation
Indices: 2618678--2618707 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2618668 GGATATCAAA
2618678 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
2618693 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
2618707 A
1 A
2618708 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:2620692 original size:24 final size:24
Alignment explanation
Indices: 2620648--2620710 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
2620638 AGAAAGAAAC
2620648 AAATGAAA-AAAAATAAAATA-TAA
1 AAATGAAATAAAAA-AAAATATTAA
* * *
2620671 AAGTTAAATTAAAAAAATATATTAA
1 AAATGAAA-TAAAAAAAAATATTAA
2620696 AAATGAAATAAAAAA
1 AAATGAAATAAAAAA
2620711 TGACTAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 6 0.19
24 12 0.38
25 14 0.44
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (24 bp):
AAATGAAATAAAAAAAAATATTAA
Found at i:2624702 original size:3 final size:3
Alignment explanation
Indices: 2624694--2624733 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
2624684 CATTGAATGG
*
2624694 CTT CTT CTT CTT CTT CTT CTT CTT TTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
2624734 AAGGTGTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:2627632 original size:12 final size:12
Alignment explanation
Indices: 2627596--2627638 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
2627586 CAATAAAAAA
2627596 TATTATTTTTATT
1 TATTA-TTTTATT
* *
2627609 TAATA-CTTATT
1 TATTATTTTATT
2627620 TATTATTTTATT
1 TATTATTTTATT
2627632 TATTATT
1 TATTATT
2627639 CAATTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
11 9 0.36
12 12 0.48
13 4 0.16
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (12 bp):
TATTATTTTATT
Found at i:2632002 original size:434 final size:422
Alignment explanation
Indices: 2631199--2632018 Score: 1106
Period size: 434 Copynumber: 1.9 Consensus size: 422
2631189 TTATATAAAC
* * ** * *
2631199 TTAAAATTTTGATTGATTTGATGCCATCTATAATTGAGTTTTAACTCAGTTATAAAGTTACAAAA
1 TTAAAATTTTGATTGAGTTGATGACATCTATAATCAAGTTCTAACTCAGTTATAAACTTACAAAA
* *
2631264 AATCTCTTATTTGTACAAAGCAATAGATATTATTTTGAGGGTAATTTTAGTTTTTCATATAAAAT
66 AATCTCTTATTTATACAAAGCAATAGATATTATTTTGAGGGTAATTTCAGTTTTTCATATAAAAT
* *
2631329 TTAGAACAAATAATTTTACCCAAACGGGAGTTGAACTCAAAACATTATGATTTCAACTAAAGAAA
131 TTAGAACAAATAATTTTACCCAAACGGGAATTAAACTCAAAACATTATGATTTCAACTAAAGAAA
* ** * *
2631394 TATAATAACCACCAACTCAATAATGTTAACTAATACTATTATAGTGCTTTTGTCTTTTTATATTT
196 TATAATAACCACCAACTCAATAATATTAACTAATACTATTATAGCACTTTTATCTTTTTATACTT
* * **
2631459 TTATATAATCTTTAAATAAAAAATCAAACACCGCGTATCTAAAAATTGAAAACATGTTTAATAAA
261 TTATATAATCTTTAAATAAAAAATCAAACACCACGTATCCAAAAATCAAAAACATGTTTAATAAA
2631524 TTTTATATACAAGCTTTTTACCACTCCACCTATTGTTATTGTTGAATAAATTTTAAAAGAATTTT
326 TTTTATATACAAGCTTTTTACCACTCCACCTATTGTTATTGTTGAATAAATTTTAAAAGAATTTT
2631589 TTTTCTACCCAATGACATAATCTAATATCTAG
391 TTTTCTACCCAATGACATAATCTAATATCTAG
* *
2631621 TTAAAATTTTGATTGAGTTGATGACAT-TCATAATCAAGTTCTAATTCAGTTATAAACTTACCAA
1 TTAAAATTTTGATTGAGTTGATGACATCT-ATAATCAAGTTCTAACTCAGTTATAAACTTACAAA
* * *
2631685 AAGTCTCTTATTTATACAAAGCAATAGATATTATTTTGAGGGTAATTTCACTTTTTTTATATAAA
65 AAATCTCTTATTTATACAAAGCAATAGATATTATTTTGAGGGTAATTTCA-GTTTTTCATATAAA
* * ** *
2631750 ATTTAGAATAAATACTTTTA-CTTAACGGGAATTAAATCCAAAAAGTTACGATAAACTTTATGAT
129 ATTTAGAACAAATAATTTTACCCAAACGGGAATTAAA--C-------T-C-A-AAACATTATGAT
* * * *
2631814 TTCAACTAAAGCAATATAATAGCTACCAACTCAATAATATTAACTAATATTATTATAGCACTTTT
182 TTCAACTAAAGAAATATAATAACCACCAACTCAATAATATTAACTAATACTATTATAGCACTTTT
* * * *
2631879 ATCTTTTTATACTTTTATATATTTTTTAAATAAAAAATTAAATACCACGTATCCAAAAATCAAAA
247 ATCTTTTTATACTTTTATATAATCTTTAAATAAAAAATCAAACACCACGTATCCAAAAATCAAAA
* * * * *
2631944 ACATGTTTAATAAATTTTATATACAAGTTTTTTATCAGTCCACTTA-TGATTTTTGTTGAATAAA
312 ACATGTTTAATAAATTTTATATACAAGCTTTTTACCACTCCACCTATTG-TTATTGTTGAATAAA
2632008 TTTTAAAAGAA
376 TTTTAAAAGAA
2632019 AATGTTTTAT
Statistics
Matches: 341, Mismatches: 42, Indels: 18
0.85 0.10 0.04
Matches are distributed among these distances:
421 1 0.00
422 113 0.33
423 30 0.09
424 1 0.00
431 1 0.00
432 1 0.00
433 3 0.01
434 191 0.56
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (422 bp):
TTAAAATTTTGATTGAGTTGATGACATCTATAATCAAGTTCTAACTCAGTTATAAACTTACAAAA
AATCTCTTATTTATACAAAGCAATAGATATTATTTTGAGGGTAATTTCAGTTTTTCATATAAAAT
TTAGAACAAATAATTTTACCCAAACGGGAATTAAACTCAAAACATTATGATTTCAACTAAAGAAA
TATAATAACCACCAACTCAATAATATTAACTAATACTATTATAGCACTTTTATCTTTTTATACTT
TTATATAATCTTTAAATAAAAAATCAAACACCACGTATCCAAAAATCAAAAACATGTTTAATAAA
TTTTATATACAAGCTTTTTACCACTCCACCTATTGTTATTGTTGAATAAATTTTAAAAGAATTTT
TTTTCTACCCAATGACATAATCTAATATCTAG
Found at i:2633742 original size:77 final size:77
Alignment explanation
Indices: 2633615--2633768 Score: 247
Period size: 77 Copynumber: 2.0 Consensus size: 77
2633605 AGGATCACTT
* * * *
2633615 GTTGTAAGTGTTTGAAGATAGTGGATACTTTTCACTGAGCTAGACTCAGCAAACGTAGAAAAATT
1 GTTGTAAGTGTTTGAAGATAGTGGATACGTCTCACTAAGCTAGACTCAGCAAACGTAGAAAAACT
2633680 GAACAACATAAA
66 GAACAACATAAA
*
2633692 GTTGTAAGTGTTTGAAGGTAGTGGATACGTCTCACTAAGCTAG-CTTCAGCAAACGTAGAAAAAC
1 GTTGTAAGTGTTTGAAGATAGTGGATACGTCTCACTAAGCTAGAC-TCAGCAAACGTAGAAAAAC
2633756 TGAACAACATAAA
65 TGAACAACATAAA
2633769 CAAACTTTGT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
76 1 0.01
77 70 0.99
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (77 bp):
GTTGTAAGTGTTTGAAGATAGTGGATACGTCTCACTAAGCTAGACTCAGCAAACGTAGAAAAACT
GAACAACATAAA
Found at i:2635890 original size:13 final size:13
Alignment explanation
Indices: 2635872--2635897 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2635862 ATATAAAAAG
2635872 AAAAGTAAAATAT
1 AAAAGTAAAATAT
2635885 AAAAGTAAAATAT
1 AAAAGTAAAATAT
2635898 TTTCTACCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAAGTAAAATAT
Found at i:2641065 original size:27 final size:27
Alignment explanation
Indices: 2641035--2641281 Score: 291
Period size: 27 Copynumber: 9.2 Consensus size: 27
2641025 TTAGTTTACC
2641035 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * ** *
2641062 AAATCACTAAAATATCATTGGTTTAT-
1 AAATTACCAAAATACCCCTGGTTTGTA
*
2641088 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
2641115 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
2641142 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
2641169 AAATTACTAAAATACCCTTTG-TTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
2641195 AAATTACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
2641222 AAAATACCAAAAAACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
2641249 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
2641276 AAATTA
1 AAATTA
2641282 TTGAAATACC
Statistics
Matches: 184, Mismatches: 34, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 42 0.23
27 142 0.77
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:2641109 original size:53 final size:53
Alignment explanation
Indices: 2641035--2641293 Score: 322
Period size: 53 Copynumber: 4.8 Consensus size: 53
2641025 TTAGTTTACC
* * *
2641035 AAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATATCATTGGTTTAT
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTAT
* * *
2641088 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTA-T
*
2641142 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTG-TTAT
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTAT
* * * * * * *
2641194 AAAATTACCAAAATACCACTGGTTTGTAAAAATACCAAAAAACCCCTGATTTGT
1 -AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTAT
* * * *
2641248 GAAATTACCAAAATACCCCTGATTTGTGAAATTATTGAAATACCCT
1 -AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCT
2641294 CGACCTGTAA
Statistics
Matches: 175, Mismatches: 28, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
53 91 0.52
54 84 0.48
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (53 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTAT
Found at i:2641197 original size:80 final size:79
Alignment explanation
Indices: 2641035--2641268 Score: 272
Period size: 80 Copynumber: 2.9 Consensus size: 79
2641025 TTAGTTTACC
* * * ** * *
2641035 AAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATATCATTGGTTTATAAATCACCAAAA
1 AAATTACCAAAATA-CCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAATTACCAAAA
*
2641100 TACCCCTGGTTTGTA
65 TACCCCTGGTTTATA
** *
2641115 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCC-TGGTTTGTAAAATTACCAAAATACCCCTGGTTTGT-AAATTACCAAA
* *
2641180 ATACCCTTTG-TTATA
64 ATACCCCTGGTTTATA
* * *
2641195 AAATTACCAAAATACCACTGGTTTGTAAAAATACCAAAAAACCCCTGATTTGTGAAATTACCAAA
1 AAATTACCAAAATACC-CTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGT-AAATTACCAAA
2641260 ATACCCCTG
64 ATACCCCTG
2641269 ATTTGTGAAA
Statistics
Matches: 129, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.02
80 108 0.84
81 18 0.14
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (79 bp):
AAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAATTACCAAAAT
ACCCCTGGTTTATA
Found at i:2641216 original size:107 final size:105
Alignment explanation
Indices: 2641029--2641364 Score: 359
Period size: 107 Copynumber: 3.1 Consensus size: 105
2641019 AATACTTTAG
* * * * * *
2641029 TTTACCAAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATATCATTGGTTTATAAATCA
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTCGTTTA-AAATTA
*
2641094 CCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGG
65 CCAAAATA-CCCTGGTTTGTAAAATTACCAAAATACCCTTGA
*
2641136 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTATAAAATTA
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTCGTT-TAAAATTA
* * *
2641201 CCAAAATACCACTGGTTTGTAAAAATACCAAAAAACCCCTGA
65 CCAAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTTGA
*** * * * * *
2641243 TTTGTGAAATTACCAAAATACCCCTGATTTGTGAAATTATTGAAATACCC-TCGACCTGTAAAAT
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTCG---TTTAAAAT
*** ** *
2641307 TATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTTGA
63 TACCAAAATACCCT-GGTTTGTAAAATTACCAAAATACCCTTGA
*
2641351 TTTACAGAATTACC
1 TTTACAAAATTACC
2641365 GTTTTACCCT
Statistics
Matches: 191, Mismatches: 32, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
106 4 0.02
107 136 0.71
108 50 0.26
109 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (105 bp):
TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTCGTTTAAAATTAC
CAAAATACCCTGGTTTGTAAAATTACCAAAATACCCTTGA
Found at i:2641307 original size:54 final size:53
Alignment explanation
Indices: 2641035--2641352 Score: 268
Period size: 54 Copynumber: 5.9 Consensus size: 53
2641025 TTAGTTTACC
* * * * *
2641035 AAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATATCATTGGTT-TA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCGATTGTA
* * * *
2641087 TAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTT-TACA
1 -AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCGATTGT--A
* *
2641142 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTG-TTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC-TCGATTGTA
* * * * *
2641195 AAATTACCAAAATACCACTGGTTTGTAAAAATACCAAAAAACCC-CTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTC-GA-TTGTA
* * * * *
2641249 AAATTACCAAAATACCCCTGATTTGTGAAATTATTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCGA-TTGTA
*** ** * * *
2641303 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTTGATT
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACTAAAATACCCTCGATT
2641353 TACAGAATTA
Statistics
Matches: 220, Mismatches: 36, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
52 1 0.00
53 92 0.42
54 121 0.55
55 6 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCGATTGTA
Found at i:2641345 original size:27 final size:27
Alignment explanation
Indices: 2641035--2641401 Score: 212
Period size: 27 Copynumber: 13.7 Consensus size: 27
2641025 TTAGTTTACC
*
2641035 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * * * * *
2641062 AAATCACTAAAATATCATTGGTTTAT-
1 AAATTACCAAAATACCCTCGATTTGTA
* *
2641088 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * **
2641115 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
2641142 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
2641169 AAATTACTAAAATACCCT--TTGTTATA
1 AAATTACCAAAATACCCTCGAT-TTGTA
*
2641195 AAATTACCAAAATACCACT-GGTTTGTA
1 AAATTACCAAAATACC-CTCGATTTGTA
* * *
2641222 AAAATACCAAAAAACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
*
2641249 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
*** **
2641276 AAATTATTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
2641303 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
2641330 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* **** **
2641357 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
2641384 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
2641402 TGTAGGGTAG
Statistics
Matches: 273, Mismatches: 55, Indels: 24
0.78 0.16 0.07
Matches are distributed among these distances:
25 1 0.00
26 40 0.15
27 230 0.84
28 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:2641418 original size:27 final size:27
Alignment explanation
Indices: 2641385--2641579 Score: 250
Period size: 27 Copynumber: 7.3 Consensus size: 27
2641375 CGATTTACAA
*
2641385 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
2641412 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
2641439 AATTATCGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
2641466 AATTACCGAAATACCCATATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
2641493 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
2641520 AATTACTAAAATACCCCTGTAGGGT-G
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
2641546 AAATTACCGAGATA-CCTTGTGGGGTAA
1 -AATTACCGAAATACCCCTGTAGGGTAG
2641573 AATTACC
1 AATTACC
2641580 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 17 0.12
27 129 0.88
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:2641741 original size:16 final size:16
Alignment explanation
Indices: 2641720--2641750 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2641710 CAAATATGGG
*
2641720 CATGACATTCTGCATA
1 CATGACATGCTGCATA
2641736 CATGACATGCTGCAT
1 CATGACATGCTGCAT
2641751 GGGTTGGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (16 bp):
CATGACATGCTGCATA
Found at i:2642058 original size:22 final size:22
Alignment explanation
Indices: 2642007--2642070 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
2641997 TAAAGCCTTT
* *
2642007 TGATTATGGCTTTGTGTCAACC
1 TGATTATGGCTCTGTGCCAACC
*
2642029 T-ACATATGGCTCTGTGCCAACC
1 TGA-TTATGGCTCTGTGCCAACC
*
2642051 TGATTATGGCTGTGTGCCAA
1 TGATTATGGCTCTGTGCCAA
2642071 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.34
Consensus pattern (22 bp):
TGATTATGGCTCTGTGCCAACC
Found at i:2642259 original size:27 final size:27
Alignment explanation
Indices: 2642229--2642330 Score: 109
Period size: 27 Copynumber: 3.8 Consensus size: 27
2642219 ATTCTGTTAA
* *
2642229 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
2642256 GTGGCTATGCCACAAATATCTG-CTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
2642283 GTGGCTCTGTCACAATATCTGTATT-TG
1 GTGGCTCTGCCACAATATCTGT-TTCTG
* *
2642310 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
2642331 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.12
27 49 0.75
28 8 0.12
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:2642287 original size:54 final size:53
Alignment explanation
Indices: 2642229--2642330 Score: 125
Period size: 54 Copynumber: 1.9 Consensus size: 53
2642219 ATTCTGTTAA
* * *
2642229 GTGGCTTTGCCACATTATCTGT-TTCTGGTGGCTATGCCACAAATATCTGCTCTG
1 GTGGCTCTGCCACAATATCTGTATT-TGGTGACTATGCCAC-AATATCTGCTCTG
* * *
2642283 GTGGCTCTGTCACAATATCTGTATTTGGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTGTATTTGGTGACTATGCCACAATATCTG
2642331 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
53 8 0.20
54 31 0.76
55 2 0.05
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATTTGGTGACTATGCCACAATATCTGCTCTG
Found at i:2642512 original size:31 final size:31
Alignment explanation
Indices: 2642467--2642578 Score: 152
Period size: 31 Copynumber: 3.6 Consensus size: 31
2642457 TTGCATTCAC
*
2642467 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
* *
2642499 ATTATGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * *
2642530 ATTCTGATTCTGATTTTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
2642561 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
2642579 ATTCTGATTT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 66 0.92
32 6 0.08
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:2642544 original size:6 final size:6
Alignment explanation
Indices: 2642467--2642587 Score: 86
Period size: 6 Copynumber: 19.5 Consensus size: 6
2642457 TTGCATTCAC
* * * *
2642467 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTATG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
2642517 -TTACCTG ATACTG ATTCTG ATTCTG ATTTTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
2642567 ATTCTG ATTCTG ATTCTG ATT
1 ATTCTG ATTCTG ATTCTG ATT
2642588 TTAGTTCTGA
Statistics
Matches: 90, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
5 5 0.06
6 70 0.78
7 12 0.13
8 3 0.03
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:2647081 original size:29 final size:29
Alignment explanation
Indices: 2647011--2647071 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
2647001 TTTAATGTTT
2647011 AAGT-AAAGAAAATAGTTTAATAAAATGA
1 AAGTAAAAGAAAATAGTTTAATAAAATGA
2647039 AAGTAAAAGAAAATAGTTTAATAAAATGA
1 AAGTAAAAGAAAATAGTTTAATAAAATGA
2647068 AAGT
1 AAGT
2647072 TGAGATAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.25
Consensus pattern (29 bp):
AAGTAAAAGAAAATAGTTTAATAAAATGA
Found at i:2652406 original size:18 final size:18
Alignment explanation
Indices: 2652383--2652420 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2652373 TATATGAACT
*
2652383 ATTTTATAAA-TAATTTAA
1 ATTTTA-AAACTAAATTAA
2652401 ATTTTAAAACTAAATTAA
1 ATTTTAAAACTAAATTAA
2652419 AT
1 AT
2652421 CAGAACATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTTAAAACTAAATTAA
Found at i:2654502 original size:13 final size:13
Alignment explanation
Indices: 2654484--2654511 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2654474 AGAAAATACG
2654484 AGAGCATATATAA
1 AGAGCATATATAA
2654497 AGAGCATATATAA
1 AGAGCATATATAA
2654510 AG
1 AG
2654512 GGATGGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.07, G:0.18, T:0.21
Consensus pattern (13 bp):
AGAGCATATATAA
Found at i:2656906 original size:13 final size:13
Alignment explanation
Indices: 2656888--2656930 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
2656878 TAATTTTTTT
2656888 CTAAATATTATCA
1 CTAAATATTATCA
2656901 CTAAATA--ATC-
1 CTAAATATTATCA
*
2656911 CTAGATATTATCA
1 CTAAATATTATCA
2656924 CTAAATA
1 CTAAATA
2656931 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:2657497 original size:17 final size:18
Alignment explanation
Indices: 2657464--2657508 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
2657454 GAAGGAGCAG
*
2657464 AAGCAAGAAGCAAGAAAC
1 AAGCAAAAAGCAAGAAAC
*
2657482 AAGCAAAAAG-AAGAAAG
1 AAGCAAAAAGCAAGAAAC
2657499 AAGCATAAAA
1 AAGCA-AAAA
2657509 AAATATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.67, C:0.11, G:0.20, T:0.02
Consensus pattern (18 bp):
AAGCAAAAAGCAAGAAAC
Found at i:2666320 original size:23 final size:22
Alignment explanation
Indices: 2666271--2666334 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
2666261 CCTGATCAGT
*
2666271 ATACGACACATAAAGTGCCTAA
1 ATACGACACACAAAGTGCCTAA
* *
2666293 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCT-AA
*
2666315 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
2666335 GATCAGTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.44
22 4 0.12
23 15 0.44
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTAA
Found at i:2666335 original size:23 final size:23
Alignment explanation
Indices: 2666271--2666336 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
2666261 CCTGATCAGT
2666271 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** *
2666293 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
2666315 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
2666337 TCAGTAAAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:2671618 original size:8 final size:8
Alignment explanation
Indices: 2671506--2671627 Score: 59
Period size: 9 Copynumber: 14.2 Consensus size: 8
2671496 CCATAAAAAT
*
2671506 AATTAGAA
1 AATTATAA
*
2671514 AA-TAAAA
1 AATTATAA
2671521 AATTATAA
1 AATTATAA
2671529 AA-TATAAA
1 AATTAT-AA
**
2671537 AAAAATAA
1 AATTATAA
2671545 AATTGATATA
1 AATT-ATA-A
2671555 AACTTATGAA
1 AA-TTAT-AA
*
2671565 AATAATTAA
1 AATTA-TAA
*
2671574 AAGTAATAA
1 AA-TTATAA
*
2671583 AATTGTAA
1 AATTATAA
*
2671591 ATATTAAAA
1 A-ATTATAA
*
2671600 AATATAAAA
1 AAT-TATAA
2671609 AATTATAA
1 AATTATAA
2671617 AATTAATAA
1 AATT-ATAA
2671626 AA
1 AA
2671628 CATGTTTAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
7 9 0.10
8 31 0.34
9 36 0.40
10 12 0.13
11 3 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (8 bp):
AATTATAA
Found at i:2671656 original size:30 final size:28
Alignment explanation
Indices: 2671581--2671677 Score: 83
Period size: 29 Copynumber: 3.4 Consensus size: 28
2671571 TAAAAGTAAT
* *
2671581 AAAATTGTAAATATT-A-AAAAATATA-A
1 AAAATTTTAAA-ATTAATAAAAATGTATA
* *
2671607 AAAATTATAAAATTAATAAAACATGTTTA
1 AAAATTTTAAAATTAATAAAA-ATGTATA
* *
2671636 AAATATTTTAAATTTTATAAAAATGTATA
1 AAA-ATTTTAAAATTAATAAAAATGTATA
2671665 AAAATTCTTAAAA
1 AAAATT-TTAAAA
2671678 ACCTATAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
25 3 0.05
26 11 0.19
27 4 0.07
28 6 0.11
29 18 0.32
30 15 0.26
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (28 bp):
AAAATTTTAAAATTAATAAAAATGTATA
Found at i:2671705 original size:9 final size:9
Alignment explanation
Indices: 2671589--2671723 Score: 53
Period size: 10 Copynumber: 14.2 Consensus size: 9
2671579 ATAAAATTGT
2671589 AAATATTAA
1 AAATATTAA
2671598 AAA-ATATAA
1 AAATAT-TAA
2671607 AAA-ATTATA
1 AAATATTA-A
*
2671616 AAATTAATAA
1 AAA-TATTAA
* *
2671626 AACATGTTTA
1 AA-ATATTAA
*
2671636 AAATATTTTA
1 AAATA-TTAA
* *
2671646 AATTTTATAA
1 AAATAT-TAA
*
2671656 AAATGTATAA
1 AAATAT-TAA
*
2671666 AAATTCTTAA
1 AAA-TATTAA
2671676 AAACCTA-TAA
1 AAA--TATTAA
**
2671686 AAATAAAAA
1 AAATATTAA
2671695 AAATATTAA
1 AAATATTAA
2671704 AAAT-TTAA
1 AAATATTAA
2671712 AAAGTATTAA
1 AAA-TATTAA
2671722 AA
1 AA
2671724 TTGATATAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 23
0.72 0.12 0.17
Matches are distributed among these distances:
8 13 0.13
9 32 0.33
10 46 0.47
11 7 0.07
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (9 bp):
AAATATTAA
Found at i:2671773 original size:9 final size:9
Alignment explanation
Indices: 2671684--2671796 Score: 59
Period size: 9 Copynumber: 12.2 Consensus size: 9
2671674 AAAAACCTAT
*
2671684 AAAAATAAA
1 AAAAATATA
*
2671693 AAAAATATT
1 AAAAATATA
*
2671702 AAAAATTTA
1 AAAAATATA
* *
2671711 AAAAGTATT
1 AAAAATATA
*
2671720 AAAATTGATA
1 AAAAAT-ATA
*
2671730 TAAAAT-TA
1 AAAAATATA
*
2671738 TAAAATTATA
1 -AAAAATATA
*
2671748 AATAATCATA
1 AAAAAT-ATA
*
2671758 AATAATATA
1 AAAAATATA
2671767 AAAAATA-A
1 AAAAATATA
*
2671775 AATATATTATA
1 AA-A-AATATA
*
2671786 AAAATTATA
1 AAAAATATA
2671795 AA
1 AA
2671797 TTATAAATTA
Statistics
Matches: 80, Mismatches: 17, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
8 5 0.06
9 51 0.64
10 21 0.26
11 3 0.04
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATATA
Found at i:2671802 original size:28 final size:28
Alignment explanation
Indices: 2671731--2671808 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
2671721 AAATTGATAT
2671731 AAAATTATAAAATTAT-AAATA-ATCATA
1 AAAATTAT-AAATTATAAAATATATCATA
** *
2671758 AATAA-TATAAAAAATAAAATATATTATA
1 AA-AATTATAAATTATAAAATATATCATA
*
2671786 AAAATTATAAATTATAAATTATA
1 AAAATTATAAATTATAAAATATA
2671809 AAAAAAAAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
26 5 0.12
27 12 0.29
28 24 0.59
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (28 bp):
AAAATTATAAATTATAAAATATATCATA
Found at i:2672937 original size:19 final size:18
Alignment explanation
Indices: 2672913--2672952 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
2672903 ATAAAATCAA
* *
2672913 ATAATAAATATGTAATTAT
1 ATAATAAAAATAT-ATTAT
2672932 ATAATAAAAATATATTAT
1 ATAATAAAAATATATTAT
2672950 ATA
1 ATA
2672953 TATCATTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
ATAATAAAAATATATTAT
Found at i:2672954 original size:22 final size:22
Alignment explanation
Indices: 2672912--2672955 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2672902 TATAAAATCA
*
2672912 AATAATAAATATGTAATTATAT
1 AATAATAAATATATAATTATAT
*
2672934 AATAA-AAATATATTATATATAT
1 AATAATAAATATATAAT-TATAT
2672956 CATTATGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
AATAATAAATATATAATTATAT
Found at i:2678100 original size:97 final size:101
Alignment explanation
Indices: 2677883--2678232 Score: 297
Period size: 97 Copynumber: 3.5 Consensus size: 101
2677873 AAACAGATTC
* * * * *
2677883 CATTGATTCATAAAGGGGTGTGATTG-GACCAAAGGTAAGAATAGTGCCATTCGG-TTCATTGCC
1 CATTGATTCACAAAGGGGTGTGTTTGAG-CCAAAGGTAAGAATAGT-ACA-T-GGTTTCATTACA
* * ** * * *
2677946 AAT-GCGAACTCCATTATGAATCCACCATTACAAGGATTT
62 AATGGTGGACTCCATTACAAATCCACCATTACGAGCAATT
* * *
2677985 CATTGATTCATAAAGGGGTGTGTTTGAGCCAAAGGCAAGAATAGTAC-T-GTTT-ATTGA-ATAT
1 CATTGATTCACAAAGGGGTGTGTTTGAGCCAAAGGTAAGAATAGTACATGGTTTCATT-ACAAAT
*
2678046 -GTGGACTCCATTACAAATCCACCATAACGAGCAATT
65 GGTGGACTCCATTACAAATCCACCATTACGAGCAATT
* * * *
2678082 CATTCATTCAGAAA-GGG-GTGTTTGAGCCAAAGGTAATAATATTACCGATTGGTTTCATTATCA
1 CATTGATTCACAAAGGGGTGTGTTTGAGCCAAAGGTAAGAATAGTA-C-A-TGGTTTCATTA-CA
* *
2678145 AATGGTGGACCCCATTACAAATCCACCATTACGAGCACTT
62 AATGGTGGACTCCATTACAAATCCACCATTACGAGCAATT
* ** * *
2678185 GATTTGATTCACAAAGTAGTGTGTTTGAGCCAAGGGTAAGAACAGTAC
1 CA-TTGATTCACAAAGGGGTGTGTTTGAGCCAAAGGTAAGAATAGTAC
2678233 CATCACATGC
Statistics
Matches: 201, Mismatches: 32, Indels: 27
0.77 0.12 0.10
Matches are distributed among these distances:
95 24 0.12
96 4 0.02
97 46 0.23
98 2 0.01
99 2 0.01
100 5 0.02
101 4 0.02
102 44 0.22
103 35 0.17
104 10 0.05
105 2 0.01
106 23 0.11
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (101 bp):
CATTGATTCACAAAGGGGTGTGTTTGAGCCAAAGGTAAGAATAGTACATGGTTTCATTACAAATG
GTGGACTCCATTACAAATCCACCATTACGAGCAATT
Found at i:2682898 original size:3 final size:3
Alignment explanation
Indices: 2682890--2682926 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
2682880 GAATTATTTC
*
2682890 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2682927 AGAAATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2684310 original size:89 final size:84
Alignment explanation
Indices: 2684162--2684417 Score: 231
Period size: 89 Copynumber: 3.0 Consensus size: 84
2684152 TTTTTTTTTC
* * * ** * * *
2684162 AAAATTAAAAGTAAATAAAATTCGTTTTGGGATTTATTCTCGTCGTTTAACAGGA-TTTATTCCA
1 AAAATTAAAGGTAAATAAAATACGTTTCGAAATTTATTCTCGCCATTCAAC-GGATTTTATTCCA
2684226 TTATTTTAATTT-TATTTCCAAA
65 TTATTTT-ATTTCTATTTCC--A
*
2684248 CAGGAAATTAAAGGTAAATAAAATCCGTTTCGAAATTTATTCTCGCCATTCAACGGATTTTATTC
1 -A--AAATTAAAGGTAAATAAAATACGTTTCGAAATTTATTCTCGCCATTCAACGGATTTTATTC
* *
2684313 TATTATTTTGTTTCTATTTCCA
63 CATTATTTTATTTCTATTTCCA
* * * *
2684335 AAAATTAAAGTTAAATAAAA-ACATTTC-AAGATTGATTCCCGCCATTCAAC-GATTTTATTCCA
1 AAAATTAAAGGTAAATAAAATACGTTTCGAA-ATTTATTCTCGCCATTCAACGGATTTTATTCCA
* *
2684397 -AATTTT-TTTTTA-TTCCA
65 TTATTTTATTTCTATTTCCA
2684414 AAAA
1 AAAA
2684418 CGAGTAAAAT
Statistics
Matches: 146, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
79 9 0.06
80 5 0.03
81 5 0.03
82 13 0.09
83 23 0.16
84 18 0.12
86 1 0.01
87 2 0.01
88 6 0.04
89 64 0.44
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (84 bp):
AAAATTAAAGGTAAATAAAATACGTTTCGAAATTTATTCTCGCCATTCAACGGATTTTATTCCAT
TATTTTATTTCTATTTCCA
Found at i:2684461 original size:78 final size:79
Alignment explanation
Indices: 2684263--2684586 Score: 291
Period size: 79 Copynumber: 4.1 Consensus size: 79
2684253 AATTAAAGGT
* * * * * *
2684263 AAATAAAATCCGTTTCGAAATTTATTCTCGCCATTCAACGGATTTTATTCTATTATTTTGTTTCT
1 AAATAAAATCCGTTTCGGAATTGATTCCCGCCGTTCAAC-GATTTTATTCCA-AATTTTGTTT-T
** *
2684328 ATTTCCAAAAATTAAAGTT
63 ATTTCCAAAAA--CGAGTA
* * * * *
2684347 AAATAAAA-ACATTTC-AAGATTGATTCCCGCCATTCAACGATTTTATTCCAAATTTTTTTTTA-
1 AAATAAAATCCGTTTCGGA-ATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTTGTTTTAT
2684409 TTCCAAAAACGAGTA
65 TTCCAAAAACGAGTA
* * *
2684424 AAATAAAATCTGTTTCGGAATTGATTCCCTCCGTTCAATGATTTTATTCCAAATTTTGTTTTATT
1 AAATAAAATCCGTTTCGGAATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTTGTTTTATT
*
2684489 TTCAAAAACGAGTA
66 TCCAAAAACGAGTA
* * * * ** * *
2684503 AAATAAAATCCGTTTTGGGATTGAGTCTCGCCGTTCAACGGGTTTATT--ACATTTTGATTTTGT
1 AAATAAAATCCGTTTCGGAATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTTG-TTTTAT
*
2684566 TGCCAAAAACGAG-A
65 TTCCAAAAACGAGTA
*
2684580 AATTAAA
1 AAATAAA
2684587 TTAAATAAAA
Statistics
Matches: 202, Mismatches: 33, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
77 25 0.12
78 60 0.30
79 63 0.31
80 2 0.01
81 8 0.04
82 13 0.06
83 23 0.11
84 8 0.04
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (79 bp):
AAATAAAATCCGTTTCGGAATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTTGTTTTATT
TCCAAAAACGAGTA
Found at i:2689217 original size:49 final size:49
Alignment explanation
Indices: 2689089--2689353 Score: 163
Period size: 49 Copynumber: 5.5 Consensus size: 49
2689079 GATGTGTATC
*
2689089 CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCAATAAATGAGAG
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCAAGAAATGAGAG
* * * **** *
2689138 CCAGTGTAAGACCTATCT-GGACATGACATCGGTTTTAAGATATGCA-AG
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCAAGAAATG-AGAG
* * *** ** *
2689186 CTAGTGTAAAACCTGTTTGGGACATGGCATCGGC-TTGAGGTAT--G-T
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCAAGAAATGAGAG
** *
2689231 C-AGTGTAAGACCTGTCTGGGACATGGCATCAACA-C-AGATGAGTGAGAG
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCAAGA--AATGAGAG
* * ** * * * *
2689279 CCAGTGTAAGACCTATCTGGGACATGGCATCGGCTTCGATATATGAAAG
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCAAGAAATGAGAG
*
2689328 -TCAGTGTAAGACCTGTCTAGGACATG
1 CT-AGTGTAAGACCTGTCTGGGACATG
2689354 ACATTGACTT
Statistics
Matches: 165, Mismatches: 38, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
43 2 0.01
44 28 0.17
45 2 0.01
47 1 0.01
48 43 0.26
49 86 0.52
50 1 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (49 bp):
CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCAAGAAATGAGAG
Found at i:2689300 original size:93 final size:93
Alignment explanation
Indices: 2689188--2689408 Score: 257
Period size: 98 Copynumber: 2.3 Consensus size: 93
2689178 TATGCAAGCT
* * * *
2689188 AGTGTAAAACCTGTTTGGGACATGGCATCGGCTT-GAGGTAT-GTCAGTGTAAGACCTGTCTGGG
1 AGTGTAAGACCTATTTGGGACATGGCATCGGCTTCGAGATATAGTCAGTGTAAGACCTGTCTAGG
*
2689251 ACATGGCATCAACACAGATGAGTGAGAGCC
66 ACATGACATCAACACAGAT--GTGAGAGCC
* *
2689281 AGTGTAAGACCTATCTGGGACATGGCATCGGCTTCGATATATGAAAGTCAGTGTAAGACCTGTCT
1 AGTGTAAGACCTATTTGGGACATGGCATCGGCTTCGAGATAT---AGTCAGTGTAAGACCTGTCT
** **
2689346 AGGACATGACATTGACTTAGATGTGAGAGCC
63 AGGACATGACATCAACACAGATGTGAGAGCC
* *
2689377 AGTGTAAGACCATATTTGGAACATGGCGTCGG
1 AGTGTAAGACC-TATTTGGGACATGGCATCGG
2689409 TATCGTACCT
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
93 31 0.29
94 5 0.05
96 20 0.19
97 17 0.16
98 35 0.32
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (93 bp):
AGTGTAAGACCTATTTGGGACATGGCATCGGCTTCGAGATATAGTCAGTGTAAGACCTGTCTAGG
ACATGACATCAACACAGATGTGAGAGCC
Found at i:2689767 original size:55 final size:55
Alignment explanation
Indices: 2689678--2689792 Score: 221
Period size: 55 Copynumber: 2.1 Consensus size: 55
2689668 ATGGTTGTTA
*
2689678 TTTCGACATTTACATGCAACTTACTAAGCTTTGTGCTTACCTTTTTCCTTTCCAT
1 TTTCTACATTTACATGCAACTTACTAAGCTTTGTGCTTACCTTTTTCCTTTCCAT
2689733 TTTCTACATTTACATGCAACTTACTAAGCTTTGTGCTTACCTTTTTCCTTTCCAT
1 TTTCTACATTTACATGCAACTTACTAAGCTTTGTGCTTACCTTTTTCCTTTCCAT
2689788 TTTCT
1 TTTCT
2689793 TGTAGTGCCG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.19, C:0.25, G:0.08, T:0.48
Consensus pattern (55 bp):
TTTCTACATTTACATGCAACTTACTAAGCTTTGTGCTTACCTTTTTCCTTTCCAT
Found at i:2699137 original size:11 final size:11
Alignment explanation
Indices: 2699121--2699146 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2699111 AAGTATAAAG
2699121 ACTTCTATATT
1 ACTTCTATATT
2699132 ACTTCTATATT
1 ACTTCTATATT
2699143 ACTT
1 ACTT
2699147 TTACTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (11 bp):
ACTTCTATATT
Found at i:2699896 original size:19 final size:20
Alignment explanation
Indices: 2699860--2699900 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 20
2699850 AAAACTTGAA
2699860 TTTGTAAGAGAAATTATTTTT
1 TTTGTAAGAG-AATTATTTTT
2699881 TTTGTAAGAG-ATTATTTTT
1 TTTGTAAGAGAATTATTTTT
2699900 T
1 T
2699901 CTTTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
21 10 0.50
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (20 bp):
TTTGTAAGAGAATTATTTTT
Found at i:2700951 original size:21 final size:21
Alignment explanation
Indices: 2700927--2700972 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2700917 AATACATTTC
*
2700927 AAAAATAAAAATAAAAA-AAAG
1 AAAAA-AAAAAGAAAAAGAAAG
2700948 AAAAAAAAAAGAAAAAGAAAG
1 AAAAAAAAAAGAAAAAGAAAG
2700969 AAAA
1 AAAA
2700973 CTCTTGTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.87, C:0.00, G:0.09, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAAGAAAAAGAAAG
Found at i:2700952 original size:10 final size:10
Alignment explanation
Indices: 2700939--2700972 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
2700929 AAATAAAAAT
2700939 AAAAAAAAGAA
1 AAAAAAAAG-A
2700950 AAAAAAAAGA
1 AAAAAAAAGA
*
2700960 AAAAGAAAGA
1 AAAAAAAAGA
2700970 AAA
1 AAA
2700973 CTCTTGTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:2700953 original size:11 final size:11
Alignment explanation
Indices: 2700939--2700972 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2700929 AAATAAAAAT
2700939 AAAAAAAAGAA
1 AAAAAAAAGAA
2700950 AAAAAAAAG-A
1 AAAAAAAAGAA
*
2700960 AAAAGAAAGAA
1 AAAAAAAAGAA
2700971 AA
1 AA
2700973 CTCTTGTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:2700962 original size:17 final size:16
Alignment explanation
Indices: 2700933--2700972 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
2700923 TTTCAAAAAT
*
2700933 AAAAATAAAAAAAAGA
1 AAAAAAAAAAAAAAGA
2700949 AAAAAAAAAGAAAAAGA
1 AAAAAAAAA-AAAAAGA
2700966 AAGAAAA
1 AA-AAAA
2700973 CTCTTGTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 9 0.43
18 4 0.19
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAAAAAGA
Found at i:2701733 original size:30 final size:30
Alignment explanation
Indices: 2701697--2701759 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
2701687 ACTTATTTTA
2701697 TTGTTAATTTT-TTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTT-TTATTTTAAAGGCAT
*
2701727 TTGTTAATTTTGTTTTTATTTTAGAGGCAT
1 TTGTTAATTTTGTTTTTATTTTAAAGGCAT
2701757 TTG
1 TTG
2701760 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.22, C:0.03, G:0.14, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTTTTATTTTAAAGGCAT
Found at i:2705325 original size:36 final size:34
Alignment explanation
Indices: 2705291--2705385 Score: 120
Period size: 34 Copynumber: 2.8 Consensus size: 34
2705281 ATGCTCAAGT
* *
2705291 GAGCCATTCCAACCAGTACACCAAATGCTCTCAA
1 GAGCCAATCCAACCAGCACACCAAATGCTCTCAA
*
2705325 GAGCCAATCCATCCAGCACACCAAATGCTCGT-AA
1 GAGCCAATCCAACCAGCACACCAAATGCTC-TCAA
* * *
2705359 GAGCAAATCTATCCAGCACACCAAATG
1 GAGCCAATCCAACCAGCACACCAAATG
2705386 TTTTATATCG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
34 54 0.98
35 1 0.02
ACGTcount: A:0.37, C:0.34, G:0.14, T:0.16
Consensus pattern (34 bp):
GAGCCAATCCAACCAGCACACCAAATGCTCTCAA
Found at i:2708850 original size:28 final size:28
Alignment explanation
Indices: 2708808--2708863 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
2708798 TCATAGTTTC
*
2708808 TTTTGGAAAGCTATATGGAAGCTTGACA
1 TTTTGGAAAGCTATATGGAAGCTCGACA
*
2708836 TTTTGGAAAGGTATATGGAAGCTCGACA
1 TTTTGGAAAGCTATATGGAAGCTCGACA
2708864 CTATCCCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (28 bp):
TTTTGGAAAGCTATATGGAAGCTCGACA
Found at i:2720606 original size:2 final size:2
Alignment explanation
Indices: 2720579--2720633 Score: 76
Period size: 2 Copynumber: 26.5 Consensus size: 2
2720569 CCATCGCTTC
2720579 AT AT -T AT AT CAT AT CAT AT CAT 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
2720621 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
2720634 ACAAGATACA
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
1 1 0.02
2 42 0.86
3 6 0.12
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2720761 original size:17 final size:17
Alignment explanation
Indices: 2720713--2720770 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 17
2720703 ATGTATCAAA
*
2720713 TAAAATTTAAATAATTT
1 TAAAAATTAAATAATTT
*
2720730 AAGTAAAATTAAATAAATTT
1 TA--AAAATTAAAT-AATTT
*
2720750 TAAAAATT-AATATTTT
1 TAAAAATTAAATAATTT
2720766 TAAAA
1 TAAAA
2720771 TATTCAGTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
16 9 0.26
17 4 0.12
18 6 0.18
19 9 0.26
20 6 0.18
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
TAAAAATTAAATAATTT
Found at i:2721505 original size:31 final size:31
Alignment explanation
Indices: 2721469--2721527 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
2721459 CACAAGTTGT
*
2721469 TTAAAACATTAGAAT-AATTTTTTTAAAAATA
1 TTAAAACATTAGAATGAA-TTATTTAAAAATA
*
2721500 TTAAAATATTAGAATGAATTATTTAAAA
1 TTAAAACATTAGAATGAATTATTTAAAA
2721528 TTTATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.41
Consensus pattern (31 bp):
TTAAAACATTAGAATGAATTATTTAAAAATA
Found at i:2725235 original size:23 final size:23
Alignment explanation
Indices: 2725167--2725241 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
2725157 CCTGATCAGT
** *
2725167 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAGGTGCCTGAA
2725189 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACGAGGTGCCTGAA
2725209 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGAA
*
2725232 ATACTACACA
1 ATACGACACA
2725242 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
20 1 0.02
21 34 0.76
22 1 0.02
23 9 0.20
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.15
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTGAA
Found at i:2725249 original size:23 final size:23
Alignment explanation
Indices: 2725167--2725253 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
2725157 CCTGATCAGT
*
2725167 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
2725189 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
2725209 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
* *
2725232 ATACTACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
2725254 TCGATAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
22 1 0.02
23 18 0.33
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:2726716 original size:16 final size:17
Alignment explanation
Indices: 2726681--2726716 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
2726671 CCTAATTCTC
2726681 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
2726697 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
2726712 CCTTC
1 CCTTC
2726717 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:2727500 original size:3 final size:3
Alignment explanation
Indices: 2727488--2727539 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
2727478 TTCTTCTTCT
* * * *
2727488 TCC TCT TCC TCC TCC TCC TCC TTC TCC TCC TCC TCC TTC TCT TCC TCC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
2727536 TCC T
1 TCC T
2727540 ATTCTTCCTC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (3 bp):
TCC
Found at i:2727503 original size:12 final size:12
Alignment explanation
Indices: 2727488--2727549 Score: 70
Period size: 12 Copynumber: 5.2 Consensus size: 12
2727478 TTCTTCTTCT
2727488 TCCTCTTCCTCC
1 TCCTCTTCCTCC
* *
2727500 TCCTCCTCCTTC
1 TCCTCTTCCTCC
*
2727512 TCCTCCTCCTCC
1 TCCTCTTCCTCC
*
2727524 TTCTCTTCCTCC
1 TCCTCTTCCTCC
* *
2727536 TCCTATTCTTCC
1 TCCTCTTCCTCC
2727548 TC
1 TC
2727550 ATTTGCTCCC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.02, C:0.55, G:0.00, T:0.44
Consensus pattern (12 bp):
TCCTCTTCCTCC
Found at i:2727506 original size:15 final size:15
Alignment explanation
Indices: 2727477--2727549 Score: 78
Period size: 15 Copynumber: 4.8 Consensus size: 15
2727467 CTTCACCATT
*
2727477 CTTCTTCTTCTTCCT-
1 CTTC-TCTTCCTCCTC
*
2727492 CTTCCTCCTCCTCCTC
1 CTT-CTCTTCCTCCTC
*
2727508 CTTCTCCTCCTCCTC
1 CTTCTCTTCCTCCTC
2727523 CTTCTCTTCCTCCTC
1 CTTCTCTTCCTCCTC
2727538 CTAT-TCTTCCTC
1 CT-TCTCTTCCTC
2727550 ATTTGCTCCC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
15 47 0.90
16 5 0.10
ACGTcount: A:0.01, C:0.52, G:0.00, T:0.47
Consensus pattern (15 bp):
CTTCTCTTCCTCCTC
Found at i:2740683 original size:11 final size:11
Alignment explanation
Indices: 2740667--2740691 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2740657 AATTTACGGA
2740667 GTGTCATTAAG
1 GTGTCATTAAG
2740678 GTGTCATTAAG
1 GTGTCATTAAG
2740689 GTG
1 GTG
2740692 GAATTAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (11 bp):
GTGTCATTAAG
Found at i:2742889 original size:15 final size:15
Alignment explanation
Indices: 2742869--2742899 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2742859 TTATGATTAA
2742869 AGTTTATACGAGCTT
1 AGTTTATACGAGCTT
*
2742884 AGTTTATATGAGCTT
1 AGTTTATACGAGCTT
2742899 A
1 A
2742900 CTAAGTATTC
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:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (15 bp):
AGTTTATACGAGCTT
Found at i:2744449 original size:6 final size:6
Alignment explanation
Indices: 2744438--2744470 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
2744428 ATTATTTTTA
2744438 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATT
2744471 TTCTATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTAAT
Found at i:2744452 original size:19 final size:18
Alignment explanation
Indices: 2744419--2744491 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 18
2744409 TTTTATTAAA
2744419 ATTAATA-TAATTATTTTT
1 ATTAATATTAA-TATTTTT
**
2744437 AATTAATATTAATATTAAT
1 -ATTAATATTAATATTTTT
2744456 ATTAATATTAATATTTTCT
1 ATTAATATTAATATTTT-T
2744475 ATTAA-ATTTAATATTTT
1 ATTAATA-TTAATATTTT
2744492 CCATTTTTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 16 0.34
19 28 0.60
20 3 0.06
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTAATATTAATATTTTT
Found at i:2744454 original size:37 final size:37
Alignment explanation
Indices: 2744412--2744489 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 37
2744402 GAAAATATTT
2744412 TATTAAAATTAATA-TAATTATTTT-TAATT-AATATTAA
1 TATTAAAATTAATATTAA-TATTTTCT-ATTAAAT-TTAA
*
2744449 TATTAATATTAATATTAATATTTTCTATTAAATTTAA
1 TATTAAAATTAATATTAATATTTTCTATTAAATTTAA
2744486 TATT
1 TATT
2744490 TTCCATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
37 30 0.81
38 7 0.19
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (37 bp):
TATTAAAATTAATATTAATATTTTCTATTAAATTTAA
Found at i:2744458 original size:25 final size:23
Alignment explanation
Indices: 2744405--2744458 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
2744395 CCGAGAGGAA
2744405 AATA-TTTTATTAAAATTAATAT
1 AATATTTTTATTAAAATTAATAT
*
2744427 AATTATTTTTAATTAATATTAATATT
1 AA-TATTTTT-ATTAAAATTAATA-T
2744453 AATATT
1 AATATT
2744459 AATATTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 2 0.07
24 4 0.15
25 16 0.59
26 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATTTTTATTAAAATTAATAT
Found at i:2744778 original size:21 final size:21
Alignment explanation
Indices: 2744754--2744805 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
2744744 TTATTTTTTG
2744754 AATTTTTAATCTAAAAATTGT-
1 AATTTTTAATCTAAAAATT-TC
2744775 AATTTTTAATCTAAAAATTTC
1 AATTTTTAATCTAAAAATTTC
2744796 AATTTTTAAT
1 AATTTTTAAT
2744806 ATTTATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (21 bp):
AATTTTTAATCTAAAAATTTC
Found at i:2745034 original size:19 final size:19
Alignment explanation
Indices: 2745012--2745070 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
2745002 TTCAATTAAA
2745012 TTATATTTTATGTATTATT
1 TTATATTTTATGTATTATT
* *
2745031 TTATCATTATATTATATTA-T
1 TTAT-ATTTTA-TGTATTATT
*
2745051 TTAAATTTTCATGTATTATT
1 TTATATTTT-ATGTATTATT
2745071 ATATTATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 14 0.45
20 11 0.35
21 6 0.19
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (19 bp):
TTATATTTTATGTATTATT
Found at i:2745044 original size:5 final size:5
Alignment explanation
Indices: 2745006--2745082 Score: 50
Period size: 5 Copynumber: 15.0 Consensus size: 5
2744996 AAAATTTTCA
* * * * *
2745006 ATTAA ATTAT ATTTT A-TGT ATTAT TTTAT CATTAT ATTAT ATTAT -TTAA
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT -ATTAT ATTAT ATTAT ATTAT
*
2745055 ATTTT CATGTATT ATTAT ATTAT ATTAT
1 ATTAT -AT-TA-T ATTAT ATTAT ATTAT
2745083 TTAAATATAA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
4 6 0.11
5 38 0.68
6 8 0.14
7 3 0.05
8 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:2745174 original size:9 final size:9
Alignment explanation
Indices: 2745104--2745180 Score: 52
Period size: 9 Copynumber: 8.2 Consensus size: 9
2745094 TTATTATTAT
2745104 TTTTAAA-A
1 TTTTAAATA
2745112 TTTTAAAATA
1 TTTT-AAATA
* *
2745122 TGTTATATA
1 TTTTAAATA
2745131 TTATTAAAT-
1 TT-TTAAATA
*
2745140 TTATAAATAA
1 TTTTAAAT-A
2745150 TTTACTAAA-A
1 TTT--TAAATA
2745160 TATTTAAATA
1 T-TTTAAATA
2745170 TTTTAAATA
1 TTTTAAATA
2745179 TT
1 TT
2745181 GTCTAAAATG
Statistics
Matches: 54, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
8 9 0.17
9 24 0.44
10 15 0.28
11 2 0.04
12 4 0.07
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (9 bp):
TTTTAAATA
Found at i:2746733 original size:51 final size:51
Alignment explanation
Indices: 2746671--2746778 Score: 153
Period size: 51 Copynumber: 2.1 Consensus size: 51
2746661 ATCCTTAAAG
* * *
2746671 TTTACACATTCTATTAATTTGGTCTTAATTTAATAAATTTAACCTACAATA
1 TTTACACATTCTATCAATTTAGTCTTAATTTAACAAATTTAACCTACAATA
* * * *
2746722 TTTACAGATTCTGTCAATTTAGTCTTAATTTAACAAATTTAGCTTACAATA
1 TTTACACATTCTATCAATTTAGTCTTAATTTAACAAATTTAACCTACAATA
2746773 TTTACA
1 TTTACA
2746779 TAGAATATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (51 bp):
TTTACACATTCTATCAATTTAGTCTTAATTTAACAAATTTAACCTACAATA
Found at i:2748772 original size:9 final size:9
Alignment explanation
Indices: 2748701--2748775 Score: 50
Period size: 9 Copynumber: 8.1 Consensus size: 9
2748691 TATTATTATA
2748701 TTTAAA-AT
1 TTTAAATAT
2748709 TTTCAAATAT
1 TTT-AAATAT
*
2748719 TTTATATAT
1 TTTAAATAT
2748728 TATT--ATAT
1 T-TTAAATAT
2748736 TTATAAATAATT
1 TT-TAAAT-A-T
2748748 TATTAAA-AT
1 T-TTAAATAT
*
2748757 ATTAAATAT
1 TTTAAATAT
2748766 TTTAAATAT
1 TTTAAATAT
2748775 T
1 T
2748776 GTCTAAATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
7 1 0.02
8 14 0.26
9 21 0.39
10 10 0.19
11 1 0.02
12 6 0.11
13 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (9 bp):
TTTAAATAT
Found at i:2748793 original size:57 final size:58
Alignment explanation
Indices: 2748675--2748794 Score: 129
Period size: 57 Copynumber: 2.1 Consensus size: 58
2748665 TATATTAAAT
** * * *
2748675 TATTTAAATAATAAATTATTATTATATTTAAAATTTTCAAATATTTTATATATTATTA
1 TATTTAAATAATAAATTATTAAAATATTTAAAATTTTCAAATATTGTATAAATTATAA
* * *
2748733 TATTTATA-AATAATTTATTAAAATA-TTAAATATTTT-AAATATTGTCTAAATTAATAA
1 TATTTAAATAATAAATTATTAAAATATTTAAA-ATTTTCAAATATTGTATAAATT-ATAA
2748790 TATTT
1 TATTT
2748795 TTTTGGTTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
56 18 0.35
57 27 0.52
58 7 0.13
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.52
Consensus pattern (58 bp):
TATTTAAATAATAAATTATTAAAATATTTAAAATTTTCAAATATTGTATAAATTATAA
Found at i:2749403 original size:16 final size:17
Alignment explanation
Indices: 2749374--2749406 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2749364 ATTAAATTTA
2749374 AAAAAAAAAGAATTGTT
1 AAAAAAAAAGAATTGTT
*
2749391 AAAAATAAA-AATTGTT
1 AAAAAAAAAGAATTGTT
2749407 TCAGTTGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (17 bp):
AAAAAAAAAGAATTGTT
Found at i:2757853 original size:86 final size:85
Alignment explanation
Indices: 2757752--2758051 Score: 309
Period size: 87 Copynumber: 3.5 Consensus size: 85
2757742 TTAAATGGTT
* * *
2757752 GGAATAAATCTCGAAACAGATTTTATTTAATTTTAATTTCTCGTTTTGGCAACAAAATTAAAATG
1 GGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTTCTCGTTTTGGAAACAAAATCAAAATG
* * *
2757817 TAATAAATTCGTTGAACGGCT
66 -AATAAATACATTGAACGGCG
* * *
2757838 GGAATAAATCCCGAAACAGATTTTATTTTAATTTTAA-TACTCATTTTGGAAATAAAATCAAAAT
1 GGAATAAATCCCGAAACAGATTTTA-TTTAATTTTAATTTCTCGTTTTGGAAACAAAATCAAAA-
* *
2757902 TGGAATAAAAACTATTGAACGACG
64 T-GAATAAATAC-ATTGAACGGCG
* * * * * *
2757926 GGAATAAATCCCGAAGC-GAATTTTATTTAACTTTAATTCCCCG-TTTGGAAAGAAAATAGAAAA
1 GGAATAAATCCCGAAACAG-ATTTTATTTAATTTTAATTTCTCGTTTTGGAAACAAAAT-CAAAA
*
2757989 TAGAATAAAATCCATTGAACGGCG
64 T-GAAT-AAATACATTGAACGGCG
* * *
2758013 GGAATAAATGCCGAAACGGATTTTATTTACTTTTAATTT
1 GGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTT
2758052 GGAAACAAAA
Statistics
Matches: 178, Mismatches: 27, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
86 45 0.25
87 90 0.51
88 43 0.24
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (85 bp):
GGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTTCTCGTTTTGGAAACAAAATCAAAATG
AATAAATACATTGAACGGCG
Found at i:2760911 original size:17 final size:18
Alignment explanation
Indices: 2760889--2760931 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
2760879 ATTTTTATTG
2760889 TTTATTATATTA-ATGAT-
1 TTTATTATATTATAT-ATA
*
2760906 TTTATTATTTTATATATA
1 TTTATTATATTATATATA
2760924 TTTATTAT
1 TTTATTAT
2760932 TATTTATAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTATTATATTATATATA
Found at i:2770853 original size:19 final size:18
Alignment explanation
Indices: 2770829--2770864 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
2770819 ATGATCTAAA
2770829 TATTATTTTTTATATTTTT
1 TATTATTTTTTA-ATTTTT
2770848 TATTATTTTTTAATTTT
1 TATTATTTTTTAATTTT
2770865 CTAATTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TATTATTTTTTAATTTTT
Found at i:2770854 original size:10 final size:10
Alignment explanation
Indices: 2770829--2770859 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
2770819 ATGATCTAAA
2770829 TATTATTTTT
1 TATTATTTTT
2770839 TA-TATTTTT
1 TATTATTTTT
2770848 TATTATTTTT
1 TATTATTTTT
2770858 TA
1 TA
2770860 ATTTTCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TATTATTTTT
Found at i:2770863 original size:8 final size:9
Alignment explanation
Indices: 2770832--2770864 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
2770822 ATCTAAATAT
2770832 TATTTTTTA
1 TATTTTTTA
2770841 TATTTTTTA
1 TATTTTTTA
2770850 TTATTTTTTA
1 -TATTTTTTA
2770860 -ATTTT
1 TATTTT
2770865 CTAATTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.22
9 9 0.39
10 9 0.39
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TATTTTTTA
Found at i:2772735 original size:13 final size:13
Alignment explanation
Indices: 2772717--2772741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2772707 TTATAATTTT
2772717 AAAATATTTTTAA
1 AAAATATTTTTAA
2772730 AAAATATTTTTA
1 AAAATATTTTTA
2772742 TTTTTTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAATATTTTTAA
Found at i:2772778 original size:7 final size:7
Alignment explanation
Indices: 2772768--2772793 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2772758 TTTATTTAAA
2772768 AAATTAT
1 AAATTAT
2772775 AAATTAT
1 AAATTAT
2772782 AAATTAT
1 AAATTAT
2772789 AAATT
1 AAATT
2772794 TTTTTGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTAT
Found at i:2773010 original size:15 final size:15
Alignment explanation
Indices: 2772990--2773024 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2772980 ACCTGAACTG
**
2772990 ATTTTTTAATTTTTT
1 ATTTTTTAATAATTT
2773005 ATTTTTTAATAATTT
1 ATTTTTTAATAATTT
2773020 ATTTT
1 ATTTT
2773025 CTTTTGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTTTTAATAATTT
Found at i:2773866 original size:23 final size:25
Alignment explanation
Indices: 2773834--2773881 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
2773824 CTCATTAAAT
*
2773834 TTTTTAATAAAT-TTTATTTTTTTA
1 TTTTTAATAAATATTAATTTTTTTA
2773858 TTTTT-ATAAATATTAATTTTTTTA
1 TTTTTAATAAATATTAATTTTTTTA
2773882 ATAATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTTAATAAATATTAATTTTTTTA
Found at i:2785989 original size:41 final size:41
Alignment explanation
Indices: 2785900--2785990 Score: 98
Period size: 41 Copynumber: 2.2 Consensus size: 41
2785890 GTCCTAAACT
*
2785900 TTAAACCTTAAACCTAAACCATACATCTTACACCCTCAACC
1 TTAAACCTTAAACCTAAACCATACATCTTAAACCCTCAACC
* * *
2785941 TTCAACCTT-AACTCTAAACCCT-CAGTCTTAAACCC-CAAATC
1 TTAAACCTTAAAC-CTAAACCATACA-TCTTAAACCCTC-AACC
2785982 TTAAACCTT
1 TTAAACCTT
2785991 GAATCATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
40 6 0.14
41 36 0.86
ACGTcount: A:0.36, C:0.35, G:0.01, T:0.27
Consensus pattern (41 bp):
TTAAACCTTAAACCTAAACCATACATCTTAAACCCTCAACC
Found at i:2790823 original size:42 final size:42
Alignment explanation
Indices: 2790765--2790850 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
2790755 CACCATAAAA
2790765 TTTAAAATTTTAACTGTTTAAAGATTAAGGATAA-ATAATAT
1 TTTAAAATTTTAACTGTTTAAAGATTAAGGATAACATAATAT
* * ** *
2790806 TTTAAATATTTTGACTGTTTTAATTTTAAGGATAACATATTAT
1 TTTAAA-ATTTTAACTGTTTAAAGATTAAGGATAACATAATAT
2790849 TT
1 TT
2790851 ATCCTTCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 6 0.16
42 24 0.63
43 8 0.21
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (42 bp):
TTTAAAATTTTAACTGTTTAAAGATTAAGGATAACATAATAT
Found at i:2790886 original size:101 final size:102
Alignment explanation
Indices: 2790759--2790967 Score: 345
Period size: 101 Copynumber: 2.1 Consensus size: 102
2790749 CTCAACCACC
*
2790759 ATAAAA-TTTAAAATTTTAACTGTTTAAAGATTAAGGATAAATAATATTTTAAATATTTTGACTG
1 ATAAAATTTTAAAATTTTAACTATTTAAAGATTAAGGATAAATAATATTTTAAATATTTTGACTG
*
2790823 TTTTAATTTTAAGGAT-AACATATTATTTATCC-TTCA
66 TTTTAATTTTAAGG-TCAAAATATTATTTATCCTTTCA
* *
2790859 ATAAAATTTTAAAATTTTAACTATTTAAATATTAAGGATAAATAATATTTTAAATATTTTGATTG
1 ATAAAATTTTAAAATTTTAACTATTTAAAGATTAAGGATAAATAATATTTTAAATATTTTGACTG
2790924 TTTTAATTTTAAGGTCAAAATATTATTTATCCTTTCA
66 TTTTAATTTTAAGGTCAAAATATTATTTATCCTTTCA
2790961 A-AAAATT
1 ATAAAATT
2790968 CAAAAAATAT
Statistics
Matches: 102, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
100 7 0.07
101 90 0.88
102 5 0.05
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (102 bp):
ATAAAATTTTAAAATTTTAACTATTTAAAGATTAAGGATAAATAATATTTTAAATATTTTGACTG
TTTTAATTTTAAGGTCAAAATATTATTTATCCTTTCA
Found at i:2790975 original size:31 final size:31
Alignment explanation
Indices: 2790940--2790998 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
2790930 TTTTAAGGTC
2790940 AAAATATTATTTATCCTTTCAAAAAATTCAA
1 AAAATATTATTTATCCTTTCAAAAAATTCAA
*
2790971 AAAATATTATTTATCCTTTCATAAAATT
1 AAAATATTATTTATCCTTTCAAAAAATT
2790999 TTAACGGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (31 bp):
AAAATATTATTTATCCTTTCAAAAAATTCAA
Found at i:2791095 original size:32 final size:31
Alignment explanation
Indices: 2791055--2791116 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
2791045 TTTGAAGGAT
*
2791055 AAAATATTATTTATCCTTTCATCAAATTTTA
1 AAAATATTATTTATCCTTTCATAAAATTTTA
* *
2791086 AAAACTATTATTTCTCTTTTCATAAAATTTT
1 AAAA-TATTATTTATCCTTTCATAAAATTTT
2791117 CAAATTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (31 bp):
AAAATATTATTTATCCTTTCATAAAATTTTA
Found at i:2791346 original size:20 final size:21
Alignment explanation
Indices: 2791302--2791367 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
2791292 CATAAGTGTT
* * *
2791302 AACCTTAAACCCTAAGCTCTA
1 AACCATAAATCCTAACCTCTA
*
2791323 AACCATAAATCTTAACCT-TA
1 AACCATAAATCCTAACCTCTA
*
2791343 AACCTTAAATCCTAACCTCTA
1 AACCATAAATCCTAACCTCTA
2791364 AACC
1 AACC
2791368 CTAACCTTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 18 0.47
21 20 0.53
ACGTcount: A:0.41, C:0.32, G:0.02, T:0.26
Consensus pattern (21 bp):
AACCATAAATCCTAACCTCTA
Found at i:2791386 original size:41 final size:41
Alignment explanation
Indices: 2791302--2791394 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 41
2791292 CATAAGTGTT
* * * *
2791302 AACCTTAAACCCTAAGCTCTAAACCATAAATCTTAACCTTA
1 AACCTTAAATCCTAACCTCTAAACCATAAACCTTAACCCTA
* *
2791343 AACCTTAAATCCTAACCTCTAAACCCT-AACCTTGAGCCCTA
1 AACCTTAAATCCTAACCTCTAAACCATAAACCTT-AACCCTA
2791384 AA-CTATAAATC
1 AACCT-TAAATC
2791395 ATAAAGCATG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
40 7 0.16
41 37 0.84
ACGTcount: A:0.40, C:0.31, G:0.03, T:0.26
Consensus pattern (41 bp):
AACCTTAAATCCTAACCTCTAAACCATAAACCTTAACCCTA
Found at i:2791477 original size:7 final size:7
Alignment explanation
Indices: 2791471--2791515 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
2791461 AAGCCCTAAG
*
2791471 TCTTAAG
1 TCTTAAA
2791478 TCTTAAA
1 TCTTAAA
*
2791485 CCTTAAA
1 TCTTAAA
*
2791492 CCTTAAA
1 TCTTAAA
2791499 TCTTAAA
1 TCTTAAA
2791506 TCTTAAA
1 TCTTAAA
2791513 TCT
1 TCT
2791516 ATATCCTAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (7 bp):
TCTTAAA
Found at i:2791496 original size:21 final size:21
Alignment explanation
Indices: 2791453--2791512 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
2791443 TTTTGAGCCC
* * **
2791453 TAAATCTTAAGCCCTAAGTCT
1 TAAATCTTAAACCTTAAACCT
*
2791474 TAAGTCTTAAACCTTAAACCT
1 TAAATCTTAAACCTTAAACCT
*
2791495 TAAATCTTAAATCTTAAA
1 TAAATCTTAAACCTTAAA
2791513 TCTATATCCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (21 bp):
TAAATCTTAAACCTTAAACCT
Done.