Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 37 of 131
Found at i:12042462 original size:40 final size:40
Alignment explanation
Indices: 12042379--12042464 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
12042369 CTAATATTGC
* * *
12042379 AGACAAACTGCCAGTAATGTAGATAAGCCACCAGTAATGT
1 AGACAAACCGCCAGTAATGTAGACAAGCCACCAGAAATGT
* *
12042419 AGACAAACCGCCAGTAATGTGGACAAGCCACCA-AAATTTT
1 AGACAAACCGCCAGTAATGTAGACAAGCCACCAGAAA-TGT
12042459 AGACAA
1 AGACAA
12042465 GATGCTAGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (40 bp):
AGACAAACCGCCAGTAATGTAGACAAGCCACCAGAAATGT
Found at i:12043505 original size:35 final size:35
Alignment explanation
Indices: 12043466--12043540 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
12043456 ATCTATGGAG
12043466 AATCATGAGAGTAGAAAAGATAAGTATGAACAATA
1 AATCATGAGAGTAGAAAAGATAAGTATGAACAATA
12043501 AATCATGAGAGTAGAAAAGATAAGTATGAACAATA
1 AATCATGAGAGTAGAAAAGATAAGTATGAACAATA
12043536 AATCA
1 AATCA
12043541 ATATTACAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.55, C:0.07, G:0.19, T:0.20
Consensus pattern (35 bp):
AATCATGAGAGTAGAAAAGATAAGTATGAACAATA
Found at i:12046152 original size:55 final size:56
Alignment explanation
Indices: 12046066--12046183 Score: 193
Period size: 55 Copynumber: 2.1 Consensus size: 56
12046056 TTTGGAGGTT
* *
12046066 GGGTATCGCGATACCACTTTAGATGGCTTCAATTCTTCTCGTTTCAACACTAC-AA
1 GGGTATCGCAATACCACTGTAGATGGCTTCAATTCTTCTCGTTTCAACACTACTAA
* *
12046121 GGGTATCGCAATACCACTGTAGATGGTTTCAATTCTTCTCGTTTCAACACTACTAG
1 GGGTATCGCAATACCACTGTAGATGGCTTCAATTCTTCTCGTTTCAACACTACTAA
12046177 GGGTATC
1 GGGTATC
12046184 ACAACTTCCA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 50 0.86
56 8 0.14
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (56 bp):
GGGTATCGCAATACCACTGTAGATGGCTTCAATTCTTCTCGTTTCAACACTACTAA
Found at i:12047267 original size:21 final size:23
Alignment explanation
Indices: 12047229--12047271 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
12047219 TTTTTCGAGT
*
12047229 TTAATATTTTTGCCCAAACTTTA
1 TTAATATTTTTGCACAAACTTTA
12047252 TTAA-ATTTTTG-ACAAACTTT
1 TTAATATTTTTGCACAAACTTT
12047272 CAAGGTGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.49
Consensus pattern (23 bp):
TTAATATTTTTGCACAAACTTTA
Found at i:12050720 original size:18 final size:18
Alignment explanation
Indices: 12050682--12050721 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12050672 GAGGTTGTGA
* *
12050682 AAGAACCAGTGTGTTTGG
1 AAGAACCAGTGTGTGTAG
*
12050700 AAGAACCTGTGTGTGTAG
1 AAGAACCAGTGTGTGTAG
12050718 AAGA
1 AAGA
12050722 GCCGGATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.33, T:0.25
Consensus pattern (18 bp):
AAGAACCAGTGTGTGTAG
Found at i:12050896 original size:18 final size:18
Alignment explanation
Indices: 12050875--12050911 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12050865 AACCAGAGGT
12050875 TTTGAAAGAACCTGTGTG
1 TTTGAAAGAACCTGTGTG
* *
12050893 TTTGGAGGAACCTGTGTG
1 TTTGAAAGAACCTGTGTG
12050911 T
1 T
12050912 GTAGAAGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.11, G:0.32, T:0.35
Consensus pattern (18 bp):
TTTGAAAGAACCTGTGTG
Found at i:12050908 original size:198 final size:198
Alignment explanation
Indices: 12050668--12051038 Score: 625
Period size: 198 Copynumber: 1.9 Consensus size: 198
12050658 TGGAAGAGTG
*
12050668 ACCAGAGGTTGTGAAAGAACCAGTGTGTTTGGAAGAACCTGTGTGTGTAGAAGAGCCGGATTTTG
1 ACCAGAGGTTGTGAAAGAACCAGTGTGTTTGGAAGAACCTGTGTGTGTAGAAGAGCCAGATTTTG
* *
12050733 TATGAGTAGAAGTCGTGTGACTATTACTCTTATGAGAAGTAGAACCAGAAGAATGGCTCGAAATA
66 TATGAGCAGAAGTCGTGTGACTATTACTCTTATGAGAACTAGAACCAGAAGAATGGCTCGAAATA
12050798 GAACCAGTAGTTGTATGGCCACCAGTCGTAGCAGAACCAGTGTTTGTGGAAGAGCCTGAAATTTT
131 GAACCAGTAGTTGTATGGCCACCAGTCGTAGCAGAACCAGTGTTTGTGGAAGAGCCTGAAATTTT
12050863 AGA
196 AGA
* * *
12050866 ACCAGAGGTTTTGAAAGAACCTGTGTGTTTGGAGGAACCTGTGTGTGTAGAAGAGCCAGATTTTG
1 ACCAGAGGTTGTGAAAGAACCAGTGTGTTTGGAAGAACCTGTGTGTGTAGAAGAGCCAGATTTTG
* * * * *
12050931 TATGAGCAGATGTCGTGTGACTGTTAGTCTTATGAGAACTAGAACCTGAAGAGTGGCTCGAAATA
66 TATGAGCAGAAGTCGTGTGACTATTACTCTTATGAGAACTAGAACCAGAAGAATGGCTCGAAATA
* *
12050996 GAACCAGTAGTTGTATGGCCATCAGTTGTAGCAGAACCAGTGT
131 GAACCAGTAGTTGTATGGCCACCAGTCGTAGCAGAACCAGTGT
12051039 GATTGGAAGA
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
198 160 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (198 bp):
ACCAGAGGTTGTGAAAGAACCAGTGTGTTTGGAAGAACCTGTGTGTGTAGAAGAGCCAGATTTTG
TATGAGCAGAAGTCGTGTGACTATTACTCTTATGAGAACTAGAACCAGAAGAATGGCTCGAAATA
GAACCAGTAGTTGTATGGCCACCAGTCGTAGCAGAACCAGTGTTTGTGGAAGAGCCTGAAATTTT
AGA
Found at i:12051191 original size:33 final size:33
Alignment explanation
Indices: 12051148--12051222 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
12051138 GGCTTGAAAT
* *
12051148 AGAACTAGTAGTTTCATGGCCATCAATCGTAGC
1 AGAACCAGTAGTTGCATGGCCATCAATCGTAGC
* * *
12051181 AGAACCAGTAGTTGCATGGCCATTAGTCGTAGT
1 AGAACCAGTAGTTGCATGGCCATCAATCGTAGC
12051214 AGAACCAGT
1 AGAACCAGT
12051223 GCTAGTGGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (33 bp):
AGAACCAGTAGTTGCATGGCCATCAATCGTAGC
Found at i:12051483 original size:18 final size:18
Alignment explanation
Indices: 12051462--12051503 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
12051452 GAGGTTGTCA
12051462 AAGAACCAGTGTGACTGG
1 AAGAACCAGTGTGACTGG
* **
12051480 AAGAACCGGTGTGTGTGG
1 AAGAACCAGTGTGACTGG
12051498 AAGAAC
1 AAGAAC
12051504 TAGATTTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.36, T:0.17
Consensus pattern (18 bp):
AAGAACCAGTGTGACTGG
Found at i:12051531 original size:198 final size:198
Alignment explanation
Indices: 12051181--12051649 Score: 683
Period size: 198 Copynumber: 2.4 Consensus size: 198
12051171 CAATCGTAGC
* * *
12051181 AGAACCAGTAGTTGCATGGCCATTAGTCGTAGTAGAACCAGTGCTAGTGGAAGAGCCTGAAGTTT
1 AGAACCAGTAGTTGCATGGCCATCAGTCGTAGCAGAACCAGTGTTAGTGGAAGAGCCTGAAGTTT
* * ** * * *
12051246 TGGAACCAGATGTTGTGAAAGAACCAGTGTGTTTGGATGAACCTGTGTGTGTAGAAGAGCCTGAT
66 TGGAACCAGAGGTTGTCAAAGAACCAGTGTGACTGGAAGAACCGGTGTGTGTAGAAGAGACTGAT
* *
12051311 TTTGTATGACCGGAACTCATGTGACTATTAGTCTTATGAGAACTAGAACCTGAAGAGTG-GCTTA
131 TTTGTATGACCAGAACTCATGTGACTATTAGTCTTATGAGAACTAGAACCTGAAGAG-GCGCTCA
12051375 AAAT
195 AAAT
*
12051379 AGAACCAGTAGTTGCACT-GCCATCAGTCGTAGCAGAACCAGTGTTTGTGGAAGAGCCTGAAGTT
1 AGAACCAGTAGTTGCA-TGGCCATCAGTCGTAGCAGAACCAGTGTTAGTGGAAGAGCCTGAAGTT
*
12051443 TTGGAACCAGAGGTTGTCAAAGAACCAGTGTGACTGGAAGAACCGGTGTGTGTGGAAGA-ACTAG
65 TTGGAACCAGAGGTTGTCAAAGAACCAGTGTGACTGGAAGAACCGGTGTGTGTAGAAGAGACT-G
* *
12051507 ATTTTGTATGACTAGAAGTCATGTGACTATTAGTCTTATGAGAACTAGAACCTGAAGAGGCGCTC
129 ATTTTGTATGACCAGAACTCATGTGACTATTAGTCTTATGAGAACTAGAACCTGAAGAGGCGCTC
*
12051572 AAAGT
194 AAAAT
* * * * * *
12051577 AGAACCGGTAGCTGTATGGCCATCAGTCGTAGCAGAACCAATGTTCGTGGAAGAGCTTGAAGTTT
1 AGAACCAGTAGTTGCATGGCCATCAGTCGTAGCAGAACCAGTGTTAGTGGAAGAGCCTGAAGTTT
12051642 TGGAACCA
66 TGGAACCA
12051650 AAACTATTGC
Statistics
Matches: 244, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
197 4 0.02
198 239 0.98
199 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (198 bp):
AGAACCAGTAGTTGCATGGCCATCAGTCGTAGCAGAACCAGTGTTAGTGGAAGAGCCTGAAGTTT
TGGAACCAGAGGTTGTCAAAGAACCAGTGTGACTGGAAGAACCGGTGTGTGTAGAAGAGACTGAT
TTTGTATGACCAGAACTCATGTGACTATTAGTCTTATGAGAACTAGAACCTGAAGAGGCGCTCAA
AAT
Found at i:12054297 original size:880 final size:884
Alignment explanation
Indices: 12052199--12054902 Score: 4331
Period size: 880 Copynumber: 3.0 Consensus size: 884
12052189 AGTACTTGTG
* * * *
12052199 GAAGAACCTGGAGTTTTAAAACCAGAACTATGACTTGCGGAAGAGTGACTAGAAGCTGTAAACGA
1 GAAGAGCCTGAAGCTTTAAAACCAGAACTATGACTTGCGGAAGAGTGACCAGAAGCTGTAAACGA
* * * *
12052264 GCCAGAGTGAGCGACATTGCTTGAACTTGTATGACCAAATCCCTTATGGCTATTAGTTGTGAAAG
66 ACCAGAGTGAGCAAAATTGCTTGAACTTGTATGACCAGATCCCTTATGGCTATTAGTTGTGAAAG
* * *
12052329 AACTAACGCCTGTGGAAGGGCTCGAAGGAGGAGTAGAAGCTGTAGGACCATTTGTCATTGAAGTA
131 AACTAACACCTGTGGAAGGGCTCGAAGAAGGAGTAGAAGCTGTAGGACCATTTGTCACTGAAGTA
*
12052394 CTAGTGCCTGTGGAAGCACCCGTATCTTTAGTACTAGTTGCTTTAGAATTACAAGAATGTGAGAA
196 CTAGTGCCTGTGGAAGCACCCGTATCTTTAGTACTAGTTGCTTTAGAATTACAAGAATGTGAAAA
* * * *
12052459 ACAACAAGTAGACAAGTCAAAACCCACAAAATTAATATAGAATATGTAAAAGCATGTTAAATAAA
261 ACAAGAAGTAGACAAGTCAAAACCCACAAAATTATTATAAAATATGTAAAAGCATGTTAAATAGA
* *
12052524 TAAAGTAATACAAAAAAGATAGAAAATTTGAACCTGAAGGGTTACTTGTAGAAGACTTAGATCCT
326 TAAAATAATACAAAAAAGATAGAAAATTTGAACCTGAAGGGTTACTTGTAGAAGACTTAGATCCG
12052589 TCAGAACCTAATAAAAAGTCAACATTCATATAATGGTTAAAAACCTTAGAATCATTATAACATTA
391 TCAGAACCTAATAAAAAGTCAACATTCATATAATGGTTAAAAACCTTAGAATCATTATAACATTA
12052654 TTAAGAACTCAACATCATAAAATAACCATAAATAGTTGAACTAGATGACGATCTTG-AGTTTTAG
456 TTAAGAACTCAACATCATAAAATAACCATAAATAGTTGAACTAGATGACGATCTTGAAGTTTTAG
* * * * *
12052718 TAAGTCCAGCACCTGTGGAAGGGCTAGTAGGAATAAAAGTCGTAGGACCGTTAGTCGCTGAAGCA
521 CAGGTCCAGCACCTGTGGAAGGGCTCGTAGGAATAAAAGTCGTAGAACCATTAGTCGCTGAAGCA
*
12052783 TTGGTACCCATGGAAGCACTTTCATTTTTAGTACTTGAAGCCTTAGAATTACCAGAAACTGATAA
586 TTGGTACCCATGGAAGCACTTTCATTTTTAGTACTTGAAGCCTTAGAATTACCAGACACTGATAA
* * * * * *
12052848 AGAATAGATAGATATGTCACGACCCATAAAA-TTTCTAGAACTTTATTATAAAGTCTGTATAAGC
651 AGAATAGATAGCTATGTCAAGACCCA-AAAATTTTCCAGAACTTGATTATAAAGTATGTATCAGC
* * * * *
12052912 ATGTTAAATGGATGAAATAAAAGAAAATGATATGGAATCCAAACCTGAAGAGTCACTTGTAGAAG
715 ATGTCAAATGGATGAAATAATAGAAAATGATAGGGAATCCAAACCTGAAGAATCACTCGTAGAAG
* * *
12052977 ACTTAGATCCTTCAGAACCTAATAAAAAGTAAAAAGTCATATAAATGTTAAAAACTTTAGAATCG
780 ACTTATATCCTTCAGAACC---------------A-TCATATAAATGTTAAAAACTTTAAAATCA
* * * *
12053042 TTATAACCTTATAAAAAACCCAACATCATAAAATAGCCAAAAGTAGTTGAACCTGAT
829 TTATAACCTTAT-AAAAACCCAAAATCATAAAATAACAAAAAATAGTTGAACCTGAT
* * * *
12053099 GAGGAGCCTGAAGCTTTAAAACCAGAACTATGACTTGCAGAAGAGTGACCAGAATCTGTAAATGA
1 GAAGAGCCTGAAGCTTTAAAACCAGAACTATGACTTGCGGAAGAGTGACCAGAAGCTGTAAACGA
* *
12053164 ACCAGAGTGAGCAAAATTGCTTGAACTTGTATGATCAGATCCTTTATGGCTATTAGTTGTGAAAG
66 ACCAGAGTGAGCAAAATTGCTTGAACTTGTATGACCAGATCCCTTATGGCTATTAGTTGTGAAAG
* * * *
12053229 AACTAACACCTCTGGAAGGACTCGAAGAAGGGGTAGAAGCTGTAGGACCGTTTGTCACTGAAGTA
131 AACTAACACCTGTGGAAGGGCTCGAAGAAGGAGTAGAAGCTGTAGGACCATTTGTCACTGAAGTA
* *
12053294 CTAGTGCCCGTGGAAGCATCCGTATCTTTAGTACTAGTTGCTTTAGAATTACAAGAATGTGAAAA
196 CTAGTGCCTGTGGAAGCACCCGTATCTTTAGTACTAGTTGCTTTAGAATTACAAGAATGTGAAAA
*
12053359 ACAAGAAGTAGACAAGTCAAAACCCACAAAATTATTATAAAATATGTAAAATCATGTTAAATAGA
261 ACAAGAAGTAGACAAGTCAAAACCCACAAAATTATTATAAAATATGTAAAAGCATGTTAAATAGA
12053424 TAAAATAATACAAAAAAGATAGAAAATTTGAACCTGAAGGGTTACTTGTAGAAGACTTAGATCCG
326 TAAAATAATACAAAAAAGATAGAAAATTTGAACCTGAAGGGTTACTTGTAGAAGACTTAGATCCG
* *
12053489 TCAGAACCTACTAAAAAGTCAACATTCATATAATGGTTAAAAACATTAGAATCATTATAACATTA
391 TCAGAACCTAATAAAAAGTCAACATTCATATAATGGTTAAAAACCTTAGAATCATTATAACATTA
* * * * *
12053554 TTAGGAGCTCAACATCATGAAATAATCATAAATAGTTGAACTAGATGACAATCTTGAAGTTTTAG
456 TTAAGAACTCAACATCATAAAATAACCATAAATAGTTGAACTAGATGACGATCTTGAAGTTTTAG
12053619 CAGGTCCAGCACCTGTGGAAGGGCTCGTAGGAATAAAAGTCGTAGAACCATTAGTCGCTGAAGCA
521 CAGGTCCAGCACCTGTGGAAGGGCTCGTAGGAATAAAAGTCGTAGAACCATTAGTCGCTGAAGCA
*
12053684 TTGGTACCCATGGAAGCACTTTCATTTTTAGTACTTGAAGCCTTAGAATTACCAGACACTGGTAA
586 TTGGTACCCATGGAAGCACTTTCATTTTTAGTACTTGAAGCCTTAGAATTACCAGACACTGATAA
12053749 AGAATAGATAGCTATGTCAAGACCCAAAAATTTTCCAG-ACTTGATTATAAAGTATGTATCAGCA
651 AGAATAGATAGCTATGTCAAGACCCAAAAATTTTCCAGAACTTGATTATAAAGTATGTATCAGCA
12053813 TGTCAAATGGATGAAATAATAGAAAATGATAGGGAATCCAAACCTGAAGAATCACTCGTAGAAGA
716 TGTCAAATGGATGAAATAATAGAAAATGATAGGGAATCCAAACCTGAAGAATCACTCGTAGAAGA
12053878 CTTATATCCTTCAGAACC-T-A-ATAAATGTTAAAAACTTTAAAATCATTATAACCTTATAAAAA
781 CTTATATCCTTCAGAACCATCATATAAATGTTAAAAACTTTAAAATCATTATAACCTTATAAAAA
*
12053940 CCCAAAATCATAAAATAACAAAAAATTGTTGAACCTGAT
846 CCCAAAATCATAAAATAACAAAAAATAGTTGAACCTGAT
*
12053979 GAAGAGCCTGAAGCTTTAAAACCATAACTATGACTTGCGGAAGAGTGACCAGAAGCTGTAAACGA
1 GAAGAGCCTGAAGCTTTAAAACCAGAACTATGACTTGCGGAAGAGTGACCAGAAGCTGTAAACGA
*
12054044 ACCAGAGTGAGCAAAATTGCTTGAACTTGTATGACCAGATCCCTTATGGTTATTAGTTGTGAAAG
66 ACCAGAGTGAGCAAAATTGCTTGAACTTGTATGACCAGATCCCTTATGGCTATTAGTTGTGAAAG
12054109 AACTAACACCTGTGGAAGGGCTCGAAGAAGGAGTAGAAGCTGTAGGACCATTTGTCACTGAAGTA
131 AACTAACACCTGTGGAAGGGCTCGAAGAAGGAGTAGAAGCTGTAGGACCATTTGTCACTGAAGTA
* *
12054174 CTAGTGCCTGTGGAAGCAGCCGTATTTTTAGTACTAGTTGCTTTAGAATTACAAGAATGTGAAAA
196 CTAGTGCCTGTGGAAGCACCCGTATCTTTAGTACTAGTTGCTTTAGAATTACAAGAATGTGAAAA
* **
12054239 ACAGGAAGTAGACAAGTCAAAACCCACAAAATTATTATAAAATATGTACGAGCATGTTAAATAGA
261 ACAAGAAGTAGACAAGTCAAAACCCACAAAATTATTATAAAATATGTAAAAGCATGTTAAATAGA
*
12054304 TAAAATAATACAAAAAAGATAGAAAATTTGAACCTGATGGGTTACTTGTAGAAGACTTAGATCCG
326 TAAAATAATACAAAAAAGATAGAAAATTTGAACCTGAAGGGTTACTTGTAGAAGACTTAGATCCG
*
12054369 TCAGAACCTAATAAAAAGTCAACATTCATATAATGGTTAAAAACCTTAGAATCATTATAAAATTA
391 TCAGAACCTAATAAAAAGTCAACATTCATATAATGGTTAAAAACCTTAGAATCATTATAACATTA
*
12054434 TTAAGAACTCAACATCATAAAATAACCATAAATAGTTGAACTAGTTGACGATCTTGAAGTTTTAG
456 TTAAGAACTCAACATCATAAAATAACCATAAATAGTTGAACTAGATGACGATCTTGAAGTTTTAG
12054499 CAGGTCCAGCACCTGTGGAAGGGCTCGTAGGAATAAAAGTCGTAGAACCATTAGTCGCTGAAGCA
521 CAGGTCCAGCACCTGTGGAAGGGCTCGTAGGAATAAAAGTCGTAGAACCATTAGTCGCTGAAGCA
12054564 TTGGTACCCATGGAAGCACTTTCATTTTTAGTACTTGAAGCCTTAGAATTACCAGACACTGATAA
586 TTGGTACCCATGGAAGCACTTTCATTTTTAGTACTTGAAGCCTTAGAATTACCAGACACTGATAA
* *
12054629 ATAATAGATAGCTATGTCAAGACCCAAAAATTTTCCAGAACTTGATTATAAATTATGTATCAGCA
651 AGAATAGATAGCTATGTCAAGACCCAAAAATTTTCCAGAACTTGATTATAAAGTATGTATCAGCA
12054694 TGTCAAATGGATGAAATAATAGAAAATGATAGGGAATCCAAACCTGAAGAATCACTCGTAGAAGA
716 TGTCAAATGGATGAAATAATAGAAAATGATAGGGAATCCAAACCTGAAGAATCACTCGTAGAAGA
* *
12054759 CTTATATCCTTCAGAACCTAATAAAAAGTCAAAATTCATATAAATGCTAAAAACTTTAACATCAT
781 CTTATATCCTTCAGAA-C-----------C---A-TCATATAAATGTTAAAAACTTTAAAATCAT
* *
12054824 TAAAACCTTATAAAAACCCAAAATCATAAAATAACAAAAAATAGCTGAACCTGAT
830 TATAACCTTATAAAAACCCAAAATCATAAAATAACAAAAAATAGTTGAACCTGAT
*
12054879 GAGGAGCCTGAAGCTTTAAAACCA
1 GAAGAGCCTGAAGCTTTAAAACCA
12054903 NNNNNNNNNN
Statistics
Matches: 1680, Mismatches: 102, Indels: 44
0.92 0.06 0.02
Matches are distributed among these distances:
880 696 0.41
881 141 0.08
882 2 0.00
883 1 0.00
893 1 0.00
898 1 0.00
899 1 0.00
900 676 0.40
901 161 0.10
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (884 bp):
GAAGAGCCTGAAGCTTTAAAACCAGAACTATGACTTGCGGAAGAGTGACCAGAAGCTGTAAACGA
ACCAGAGTGAGCAAAATTGCTTGAACTTGTATGACCAGATCCCTTATGGCTATTAGTTGTGAAAG
AACTAACACCTGTGGAAGGGCTCGAAGAAGGAGTAGAAGCTGTAGGACCATTTGTCACTGAAGTA
CTAGTGCCTGTGGAAGCACCCGTATCTTTAGTACTAGTTGCTTTAGAATTACAAGAATGTGAAAA
ACAAGAAGTAGACAAGTCAAAACCCACAAAATTATTATAAAATATGTAAAAGCATGTTAAATAGA
TAAAATAATACAAAAAAGATAGAAAATTTGAACCTGAAGGGTTACTTGTAGAAGACTTAGATCCG
TCAGAACCTAATAAAAAGTCAACATTCATATAATGGTTAAAAACCTTAGAATCATTATAACATTA
TTAAGAACTCAACATCATAAAATAACCATAAATAGTTGAACTAGATGACGATCTTGAAGTTTTAG
CAGGTCCAGCACCTGTGGAAGGGCTCGTAGGAATAAAAGTCGTAGAACCATTAGTCGCTGAAGCA
TTGGTACCCATGGAAGCACTTTCATTTTTAGTACTTGAAGCCTTAGAATTACCAGACACTGATAA
AGAATAGATAGCTATGTCAAGACCCAAAAATTTTCCAGAACTTGATTATAAAGTATGTATCAGCA
TGTCAAATGGATGAAATAATAGAAAATGATAGGGAATCCAAACCTGAAGAATCACTCGTAGAAGA
CTTATATCCTTCAGAACCATCATATAAATGTTAAAAACTTTAAAATCATTATAACCTTATAAAAA
CCCAAAATCATAAAATAACAAAAAATAGTTGAACCTGAT
Found at i:12058158 original size:18 final size:18
Alignment explanation
Indices: 12058135--12058170 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12058125 GCTTGTGAAG
12058135 TTTGAGAAGAGTCAGAAC
1 TTTGAGAAGAGTCAGAAC
**
12058153 TTTGAGAATTGTCAGAAC
1 TTTGAGAAGAGTCAGAAC
12058171 CGAATCCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (18 bp):
TTTGAGAAGAGTCAGAAC
Found at i:12058973 original size:18 final size:18
Alignment explanation
Indices: 12058935--12058984 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
12058925 ATGCTCAAAG
* *
12058935 GAACCAGAATGTGAATAT
1 GAACTAGAATGTGAAGAT
*
12058953 GAACTAGAATGTGAAGCT
1 GAACTAGAATGTGAAGAT
*
12058971 GAACTTGAATGTGA
1 GAACTAGAATGTGA
12058985 CAAAGAGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (18 bp):
GAACTAGAATGTGAAGAT
Found at i:12059416 original size:210 final size:210
Alignment explanation
Indices: 12059052--12059824 Score: 885
Period size: 210 Copynumber: 3.8 Consensus size: 210
12059042 TGAAAAGCCA
* * * * *
12059052 GAAGCCTTAGAATTACTAGAACCTGACAGAGAACCAGAACTTGTAGAGGAACCAGAAGCCTCATG
1 GAAGCCTTAGAATTTCTAGAACCTGATAAAGAACCAGAACTTGTAGAGGAACTAGAAGCCCCATG
* * * ** * *
12059117 -TTCTAATGAAGACTTAGAAGCCGTTGTAGGA-CTAGAATCCTTAGAATTGTTCAAACCAGAATT
66 ATT-TAATGAAGACTGAGAAGCCGTAGTAGAATC-AGAATCCTTAGAATTGTTGGAACCTGAGTT
12059180 TGTGGATGAGTTAGCAGCACTAGAACCAGAATGCTTAAAAGAACCAGAATGCGAAGATAAACTAG
129 TGTGGATGAGTTAGCAGCACTAGAACCAGAATGCTTAAAAGAACCAGAATGCGAAGATAAACTAG
*
12059245 AATTTGAGGATGAGCTT
194 AATTTGAGGATGAGCAT
* * * **
12059262 GAAGCCTTATAATTTCTAGAACCTGATAAAGAACCAGAACTTGCAGAGGAATTAGAAGCCTTATG
1 GAAGCCTTAGAATTTCTAGAACCTGATAAAGAACCAGAACTTGTAGAGGAACTAGAAGCCCCATG
* * *
12059327 GTTTAATGAAGACTGAGAAGCCGTAGTAGAATCAGAACCCTTAGAACTGTTGGAACCTGAGTTTG
66 ATTTAATGAAGACTGAGAAGCCGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCTGAGTTTG
* * * * *
12059392 TGGAGGAGTTACCAGCAATAGAACCAAAATGATTAAAAGAACCAGAATGCGAAGATGAAA-TAGA
131 TGGATGAGTTAGCAGCACTAGAACCAGAATGCTTAAAAGAACCAGAATGCGAAGAT-AAACTAGA
*
12059456 ATTTGAGGATGACCCAT
195 ATTTGAGGATGA-GCAT
* * * * *
12059473 -AAGCCTTATAATTGCTAGAACCTGATAAAGAACCAGAACTTGAAGAGGAATTAGAAGCCCCACG
1 GAAGCCTTAGAATTTCTAGAACCTGATAAAGAACCAGAACTTGTAGAGGAACTAGAAGCCCCATG
* * * *
12059537 ATTTAATGTAGACTGAGAAGCCGCAGTAGAAACAGAATCATTAGAATTGTTGGAACCT-ATGTTT
66 ATTTAATGAAGACTGAGAAGCCGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCTGA-GTTT
* * *
12059601 GTGGAAGAGTTAGAAGCACCAGAACCAGAATGCTTAAAAGAA-C----TG-G-AG-T---CT-G-
130 GTGGATGAGTTAGCAGCACTAGAACCAGAATGCTTAAAAGAACCAGAATGCGAAGATAAACTAGA
12059653 A----A-GATGAGCCA-
195 ATTTGAGGATGAG-CAT
* * * *
12059664 AAAGCCTTAGAACTAT-TAGAACCTGATAAAGAATCAGAACTTGTGGAGGAACTAGAAGCCCCAT
1 GAAGCCTTAGAA-TTTCTAGAACCTGATAAAGAACCAGAACTTGTAGAGGAACTAGAAGCCCCAT
* * *
12059728 GATTTAATGAAGACTGAGAAGCCGTTGTAGAATCAGAATCCTTAGAATGGTTAGAACCTGAGTTT
65 GATTTAATGAAGACTGAGAAGCCGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCTGAGTTT
*
12059793 ATGGATGAGTTAGCAGCACTAGAACCAGAATG
130 GTGGATGAGTTAGCAGCACTAGAACCAGAATG
12059825 TGAAGATGAA
Statistics
Matches: 490, Mismatches: 63, Indels: 38
0.83 0.11 0.06
Matches are distributed among these distances:
192 144 0.29
193 3 0.01
197 1 0.00
198 1 0.00
199 1 0.00
202 1 0.00
203 2 0.00
204 1 0.00
205 2 0.00
209 2 0.00
210 324 0.66
211 8 0.02
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (210 bp):
GAAGCCTTAGAATTTCTAGAACCTGATAAAGAACCAGAACTTGTAGAGGAACTAGAAGCCCCATG
ATTTAATGAAGACTGAGAAGCCGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCTGAGTTTG
TGGATGAGTTAGCAGCACTAGAACCAGAATGCTTAAAAGAACCAGAATGCGAAGATAAACTAGAA
TTTGAGGATGAGCAT
Found at i:12060023 original size:192 final size:191
Alignment explanation
Indices: 12059429--12060043 Score: 750
Period size: 192 Copynumber: 3.2 Consensus size: 191
12059419 AATGATTAAA
* * * * *
12059429 AGAACCAGAATGCGAAGATGAAATAGAATTTGAGGATGACCCATAAGCCTTATAATTGCTAGAAC
1 AGAACCAGAATGTGAAGATGAACTGGAATTTGAGGATGAGCC-TAAACCTTATAATTGCTAGAAC
* * *
12059494 CTGATAAAGAACCAGAACTTGAAGAGGAATTAGAAGCCCCACGATTTAATGTAGACTGAGAAGCC
65 CTGATAAAGAACTAGAACTTGAAGAGGAATTAGAAGCCCCATGATTTAATGAAGACTGAGAAGCC
* * * * * *
12059559 GCAGTAGAAACAGAATCATTAGAATTGTTGGAA-CCTATGTTTGTGGAAGAGTTAGAAGCACC
130 GTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCCGA-GTTTGTGGATGAGTTAGAAGCACT
* * * * * * * * **
12059621 AGAACCAGAATGCTTAA-AAGAACTGGAGTCTGAAGATGAGCCAAAAGCCTTAGAACTATTAGAA
1 AGAACCAGAATG-TGAAGATGAACTGGAATTTGAGGATGAGCCTAAA-CCTTATAATTGCTAGAA
** *
12059685 CCTGATAAAGAA-TCAGAACTTGTGGAGGAACTAGAAGCCCCATGATTTAATGAAGACTGAGAAG
64 CCTGATAAAGAACT-AGAACTTGAAGAGGAATTAGAAGCCCCATGATTTAATGAAGACTGAGAAG
* * * * * *
12059749 CCGTTGTAGAATCAGAATCCTTAGAATGGTTAGAACCTGAGTTTATGGATGAGTTAGCAGCACT
128 CCGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCCGAGTTTGTGGATGAGTTAGAAGCACT
* *
12059813 AGAACCAGAATGTGAAGATGAACTGGAATTTGCGGATAAGCCTGAAACCTTATAATTGCTAGAAC
1 AGAACCAGAATGTGAAGATGAACTGGAATTTGAGGATGAGCCT-AAACCTTATAATTGCTAGAAC
* ** **
12059878 CTGATAAAGAACTAGAACTTGCAGAGGAATTAGAAGCCTTATGATTTAATGAAGACTGAGAAGTT
65 CTGATAAAGAACTAGAACTTGAAGAGGAATTAGAAGCCCCATGATTTAATGAAGACTGAGAAGCC
*
12059943 GTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCCGAGTTTGTGGATGAGTTAGTAGCACT
130 GTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCCGAGTTTGTGGATGAGTTAGAAGCACT
* * * *
12060005 AGAACCGGAATGTGAAGATAAACTAGATTTTGAGGATGA
1 AGAACCAGAATGTGAAGATGAACTGGAATTTGAGGATGA
12060044 TCCAGAAGTT
Statistics
Matches: 352, Mismatches: 64, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
191 5 0.01
192 339 0.96
193 8 0.02
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (191 bp):
AGAACCAGAATGTGAAGATGAACTGGAATTTGAGGATGAGCCTAAACCTTATAATTGCTAGAACC
TGATAAAGAACTAGAACTTGAAGAGGAATTAGAAGCCCCATGATTTAATGAAGACTGAGAAGCCG
TAGTAGAATCAGAATCCTTAGAATTGTTGGAACCCGAGTTTGTGGATGAGTTAGAAGCACT
Found at i:12060329 original size:18 final size:18
Alignment explanation
Indices: 12060261--12060323 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
12060251 ATGCTTAAAA
* *
12060261 GAACTTGAATGTGAAGAA
1 GAACCTGAATGTGAAGAT
*
12060279 GAA-CTAGAATGTGAATAT
1 GAACCT-GAATGTGAAGAT
12060297 GAACCTGAATGTGAAGAT
1 GAACCTGAATGTGAAGAT
*
12060315 GAGCCTGAA
1 GAACCTGAA
12060324 GCTGAAACTG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
17 1 0.03
18 35 0.92
19 2 0.05
ACGTcount: A:0.41, C:0.10, G:0.27, T:0.22
Consensus pattern (18 bp):
GAACCTGAATGTGAAGAT
Found at i:12060873 original size:165 final size:165
Alignment explanation
Indices: 12060685--12061060 Score: 592
Period size: 165 Copynumber: 2.3 Consensus size: 165
12060675 GCCATAGCAG
* *
12060685 AACTAGAATCCTTAGACTTGTTAGAATCTCCGAATGAGCTAGAACCCTTCCAAGAACCATAATGT
1 AACTAGAATCCTTAGAATTGTTAGAATCTCCGAATGAGCTAGAACCCTTCCAAGAACCAGAATGT
* *
12060750 GAAGATGAACTAGAATGTGACAATGAGCTGGAAGATTTGGAATGGCTAGAACCTGATAAAGAACT
66 GAAGATGAACTAGAATGTGACAATGAGCTAGAAGATTTAGAATGGCTAGAACCTGATAAAGAACT
*
12060815 AGAAGTTCCAGAGGATCTAGAATCCCCATGACCTA
131 AGAAGTTCCAGAGGAACTAGAATCCCCATGACCTA
*
12060850 AACTAGAATCCTTAGAATTGTTAGAATCTTCGAATGAGCTAGAACCCTTCCAAGAACCAGAATGT
1 AACTAGAATCCTTAGAATTGTTAGAATCTCCGAATGAGCTAGAACCCTTCCAAGAACCAGAATGT
* *
12060915 GAAGATGAACTAGAATGTGACAATGAGTTAGAAGCTTTAGAATGGCTAGAACCTGATAAAGAACT
66 GAAGATGAACTAGAATGTGACAATGAGCTAGAAGATTTAGAATGGCTAGAACCTGATAAAGAACT
**
12060980 AGAAGTTGTAGAGGAACTAGAATCCCCATGACCTA
131 AGAAGTTCCAGAGGAACTAGAATCCCCATGACCTA
** * * * *
12061015 AACCGGAATCTTTAGAATTATTAGAATCTACGGGA-GAGCTAGAACC
1 AACTAGAATCCTTAGAATTGTTAGAATCT-CCGAATGAGCTAGAACC
12061061 TTTAAATGAA
Statistics
Matches: 193, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
165 191 0.99
166 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (165 bp):
AACTAGAATCCTTAGAATTGTTAGAATCTCCGAATGAGCTAGAACCCTTCCAAGAACCAGAATGT
GAAGATGAACTAGAATGTGACAATGAGCTAGAAGATTTAGAATGGCTAGAACCTGATAAAGAACT
AGAAGTTCCAGAGGAACTAGAATCCCCATGACCTA
Found at i:12061097 original size:165 final size:165
Alignment explanation
Indices: 12060689--12061112 Score: 514
Period size: 165 Copynumber: 2.6 Consensus size: 165
12060679 TAGCAGAACT
* * * * * *
12060689 AGAATCCTTAGACTTGTTAGAATCTCCGAATGAGCTAGAACCCTTCCAAGAACCATAATGTGAAG
1 AGAATCCTTAGAATTATTAGAATCTACGAATGAGCTAGAACCCTTCAAAGAACCAGAATCTGAAG
* * * *
12060754 ATGAACTAGAATGTGACAATGAGCTGGAAGATTTGGAATGGCTAGAACCTGATAAAGAACTAGAA
66 AAGAACCAGAATGTGACAATGAGCTAGAAGATTTAGAATGGCTAGAACCTGATAAAGAACTAGAA
* *
12060819 GTTCCAGAGGATCTAGAATCCCCATGACCTAAACT
131 GTTCCAGAGGAACTAGAATCCCCATGACCTAAACC
* * * *
12060854 AGAATCCTTAGAATTGTTAGAATCTTCGAATGAGCTAGAACCCTTCCAAGAACCAGAATGTGAAG
1 AGAATCCTTAGAATTATTAGAATCTACGAATGAGCTAGAACCCTTCAAAGAACCAGAATCTGAAG
* * * *
12060919 ATGAACTAGAATGTGACAATGAGTTAGAAGCTTTAGAATGGCTAGAACCTGATAAAGAACTAGAA
66 AAGAACCAGAATGTGACAATGAGCTAGAAGATTTAGAATGGCTAGAACCTGATAAAGAACTAGAA
**
12060984 GTTGTAGAGGAACTAGAATCCCCATGACCTAAACC
131 GTTCCAGAGGAACTAGAATCCCCATGACCTAAACC
* * * * * *
12061019 GGAATCTTTAGAATTATTAGAATCTACGGGA-GAGCTAGAA-CCTTTAAATGAACCTGAACTCTT
1 AGAATCCTTAGAATTATTAGAATCTAC-GAATGAGCTAGAACCCTTCAAA-GAACCAGAA-TCTG
* *
12061082 AA-AAGATCCAGAATGTGA-AGATGAACTAGAA
63 AAGAAGAACCAGAATGTGACA-ATGAGCTAGAA
12061113 TGTGAAGATG
Statistics
Matches: 229, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
164 7 0.03
165 216 0.94
166 6 0.03
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (165 bp):
AGAATCCTTAGAATTATTAGAATCTACGAATGAGCTAGAACCCTTCAAAGAACCAGAATCTGAAG
AAGAACCAGAATGTGACAATGAGCTAGAAGATTTAGAATGGCTAGAACCTGATAAAGAACTAGAA
GTTCCAGAGGAACTAGAATCCCCATGACCTAAACC
Found at i:12061136 original size:18 final size:18
Alignment explanation
Indices: 12061089--12061130 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
12061079 CTTAAAAGAT
12061089 CCAGAATGTGAAGATGAA
1 CCAGAATGTGAAGATGAA
* *
12061107 CTAGAATGTGAAGATGAG
1 CCAGAATGTGAAGATGAA
12061125 CCAGAA
1 CCAGAA
12061131 GCTGAACTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.29, T:0.17
Consensus pattern (18 bp):
CCAGAATGTGAAGATGAA
Found at i:12064192 original size:22 final size:22
Alignment explanation
Indices: 12064151--12064192 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12064141 TTTGAGTTCA
*
12064151 GTTTTTGATGATTTTTTTTTAC
1 GTTTTTGATGATTTTGTTTTAC
12064173 GTTTTTGA-GATTGTTGTTTT
1 GTTTTTGATGATT-TTGTTTT
12064193 GTATTCTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.12, C:0.02, G:0.19, T:0.67
Consensus pattern (22 bp):
GTTTTTGATGATTTTGTTTTAC
Found at i:12064889 original size:41 final size:41
Alignment explanation
Indices: 12064814--12064930 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
12064804 ACTATGTTTA
* * *
12064814 GCACTTAATGTGC--GATTGGGAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGAGATTGAG-ATAGCTTCGGCTATATAAG
*
12064854 GCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATGTAAG
1 GCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATAAG
* *
12064895 GCACTTAGTATGCGAGATT-ATAATAGCTTCGGCTAT
1 GCACTTAGTGTGCGAGATTGA-GATAGCTTCGGCTAT
12064931 GCGATGGTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
40 13 0.19
41 49 0.72
42 6 0.09
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (41 bp):
GCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATAAG
Found at i:12064931 original size:41 final size:41
Alignment explanation
Indices: 12064834--12064931 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 41
12064824 TGCGATTGGG
* * *
12064834 AATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTGA
1 AATAGCTTCGGCTATGTAAGGCACTTAGTATGCGAGATTGA
*
12064875 GATAGCTTCGGCTATGTAAGGCACTTAGTATGCGAGATT-A
1 AATAGCTTCGGCTATGTAAGGCACTTAGTATGCGAGATTGA
12064915 TAATAGCTTCGGCTATG
1 -AATAGCTTCGGCTATG
12064932 CGATGGTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.02
41 50 0.98
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (41 bp):
AATAGCTTCGGCTATGTAAGGCACTTAGTATGCGAGATTGA
Found at i:12066002 original size:19 final size:20
Alignment explanation
Indices: 12065954--12066002 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
12065944 GCGTAAATTG
12065954 AATTTGGTATAATTAGCCTC
1 AATTTGGTATAATTAGCCTC
** *
12065974 AAAATAGTATAATTAG-CTC
1 AATTTGGTATAATTAGCCTC
12065993 AATTTGGTAT
1 AATTTGGTAT
12066003 GTTTCGGTCG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (20 bp):
AATTTGGTATAATTAGCCTC
Found at i:12067404 original size:11 final size:11
Alignment explanation
Indices: 12067390--12067449 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
12067380 AATATCATTG
12067390 AAAATATTATA
1 AAAATATTATA
12067401 AAAATATAAATATA
1 AAAATAT---TATA
12067415 AAAA-ATT-TA
1 AAAATATTATA
12067424 TAAAAT-TTAT-
1 -AAAATATTATA
12067434 AAAATATTATA
1 AAAATATTATA
12067445 AAAAT
1 AAAAT
12067450 TATATGAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
9 7 0.17
10 11 0.27
11 13 0.32
13 2 0.05
14 8 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATTATA
Found at i:12067428 original size:9 final size:9
Alignment explanation
Indices: 12067390--12067477 Score: 65
Period size: 9 Copynumber: 9.6 Consensus size: 9
12067380 AATATCATTG
12067390 AAAATATTAT
1 AAAAT-TTAT
*
12067400 AAAA-ATAT
1 AAAATTTAT
* *
12067408 -AAATATAA
1 AAAATTTAT
12067416 AAAATTTAT
1 AAAATTTAT
12067425 AAAATTTAT
1 AAAATTTAT
12067434 AAAATATTAT
1 AAAAT-TTAT
12067444 AAAAATTATAT
1 -AAAATT-TAT
* *
12067455 GAACTTTAT
1 AAAATTTAT
12067464 AAAAATTTA-
1 -AAAATTTAT
12067473 AAAAT
1 AAAAT
12067478 CACAAAAGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
7 3 0.05
8 11 0.17
9 23 0.36
10 19 0.30
11 8 0.12
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (9 bp):
AAAATTTAT
Found at i:12067436 original size:20 final size:20
Alignment explanation
Indices: 12067411--12067476 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 20
12067401 AAAATATAAA
12067411 TATAAAAAATTTATAAAATT
1 TATAAAAAATTTATAAAATT
* *
12067431 TATAAAATA-TTATAAAAAT
1 TATAAAAAATTTATAAAATT
** *
12067450 TATATGAACTTTATAAAAATT
1 TATAAAAAATTTAT-AAAATT
12067471 TA-AAAA
1 TATAAAA
12067477 TCACAAAAGT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 14 0.40
20 14 0.40
21 7 0.20
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TATAAAAAATTTATAAAATT
Found at i:12067447 original size:30 final size:30
Alignment explanation
Indices: 12067411--12067476 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
12067401 AAAATATAAA
12067411 TATAAAAAATT-TATAAAATTTATAAAATAT
1 TATAAAAAATTATATAAAATTTATAAAA-AT
* *
12067441 TAT-AAAAATTATATGAACTTTATAAAAAT
1 TATAAAAAATTATATAAAATTTATAAAAAT
12067470 T-TAAAAA
1 TATAAAAA
12067477 TCACAAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 1 0.03
29 14 0.44
30 17 0.53
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (30 bp):
TATAAAAAATTATATAAAATTTATAAAAAT
Found at i:12068014 original size:10 final size:9
Alignment explanation
Indices: 12067992--12068066 Score: 51
Period size: 10 Copynumber: 7.7 Consensus size: 9
12067982 AAAAACATAA
*
12067992 ATAAAATTT
1 ATAAAAATT
*
12068001 ATAAAAGCTT
1 ATAAAA-ATT
*
12068011 ATAAAAAATC
1 AT-AAAAATT
12068021 ATAAAAACTT
1 ATAAAAA-TT
12068031 ATAAAAAATT
1 AT-AAAAATT
* *
12068041 ATAATGAGTT
1 ATAA-AAATT
12068051 ATAAAAAGTT
1 ATAAAAA-TT
12068061 ATAAAA
1 ATAAAA
12068067 TTTTTGAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
9 14 0.27
10 29 0.56
11 9 0.17
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:12068017 original size:20 final size:20
Alignment explanation
Indices: 12067994--12068066 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
12067984 AAACATAAAT
*
12067994 AAAATTTATAAAAGCTTATA
1 AAAAATTATAAAAGCTTATA
* *
12068014 AAAAATCATAAAAACTTATA
1 AAAAATTATAAAAGCTTATA
*
12068034 AAAAATTATAATGAG-TTATA
1 AAAAATTATAA-AAGCTTATA
*
12068054 AAAAGTTATAAAA
1 AAAAATTATAAAA
12068067 TTTTTGAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.30
Consensus pattern (20 bp):
AAAAATTATAAAAGCTTATA
Found at i:12068660 original size:19 final size:20
Alignment explanation
Indices: 12068636--12068677 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
12068626 CTTGAATTTC
12068636 TTATAAGTTTTTA-AAATAT
1 TTATAAGTTTTTATAAATAT
*
12068655 TTATAAGTTTTTATAAATTT
1 TTATAAGTTTTTATAAATAT
12068675 TTA
1 TTA
12068678 AAATATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TTATAAGTTTTTATAAATAT
Found at i:12068851 original size:68 final size:68
Alignment explanation
Indices: 12068779--12068917 Score: 269
Period size: 68 Copynumber: 2.0 Consensus size: 68
12068769 ATTTTAAAGC
12068779 AAAGTTTATATAAAATTTTAATATTTTACAATATTAATAATTTCTTATGATTTTTTATTAGAAAA
1 AAAGTTTATATAAAATTTTAATATTTTACAATATTAATAATTTCTTATGATTTTTTATTAGAAAA
12068844 ATG
66 ATG
*
12068847 AAAGTTTATATAAATTTTTAATATTTTACAATATTAATAATTTCTTATGATTTTTTATTAGAAAA
1 AAAGTTTATATAAAATTTTAATATTTTACAATATTAATAATTTCTTATGATTTTTTATTAGAAAA
12068912 ATG
66 ATG
12068915 AAA
1 AAA
12068918 TATTAAATTG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (68 bp):
AAAGTTTATATAAAATTTTAATATTTTACAATATTAATAATTTCTTATGATTTTTTATTAGAAAA
ATG
Found at i:12069264 original size:25 final size:28
Alignment explanation
Indices: 12069217--12069286 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 28
12069207 TTAAAAGAGT
* *
12069217 CCAAAATATTTTTCACTTGTTAAGGGG-
1 CCAAAATTTTTTTTACTTGTTAAGGGGC
12069244 CCAAAATTTTTTTTA-TT-TTAAGGGGC
1 CCAAAATTTTTTTTACTTGTTAAGGGGC
12069270 CCAAAATATTTTTTTAC
1 CCAAAAT-TTTTTTTAC
12069287 CAACTTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
25 8 0.21
26 9 0.24
27 21 0.55
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (28 bp):
CCAAAATTTTTTTTACTTGTTAAGGGGC
Found at i:12078068 original size:23 final size:22
Alignment explanation
Indices: 12078042--12078087 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
12078032 ATTGAAAATA
12078042 AATAATATAAAAATATAAAATGT
1 AATAATATAAAAATA-AAAATGT
*
12078065 AATAATATAAAAATAAATATGT
1 AATAATATAAAAATAAAAATGT
12078087 A
1 A
12078088 CGATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (22 bp):
AATAATATAAAAATAAAAATGT
Found at i:12078856 original size:15 final size:15
Alignment explanation
Indices: 12078827--12078865 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
12078817 TTCTTTTTTT
*
12078827 TTAAGATAAATATTAA
1 TTAA-ATAAAAATTAA
12078843 TTAAATAAAAATTAA
1 TTAAATAAAAATTAA
*
12078858 TTAGATAA
1 TTAAATAA
12078866 TTTATCCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (15 bp):
TTAAATAAAAATTAA
Found at i:12085585 original size:42 final size:42
Alignment explanation
Indices: 12085509--12085701 Score: 208
Period size: 42 Copynumber: 4.6 Consensus size: 42
12085499 AAATGGTTTT
* * *
12085509 ACAAGCTATTTATCAGCGAAGCTCCCCACGTGAGCTTAAATG
1 ACAATCTATGTATCAGCGAAGCTCCCCACATGAGCTTAAATG
* * * *
12085551 ACAATCTATGTATCAACGAAGCTCCCTAAATGAGCTTAAGTG
1 ACAATCTATGTATCAGCGAAGCTCCCCACATGAGCTTAAATG
* * * * *
12085593 ATAAGCTGTGTATCAGCGAAGCTCCCCACATGAGCTGAAGTG
1 ACAATCTATGTATCAGCGAAGCTCCCCACATGAGCTTAAATG
* * *
12085635 ACAAGT-TATGTATTAGTGAAGCTCCCCACATGAGTTTAAATG
1 ACAA-TCTATGTATCAGCGAAGCTCCCCACATGAGCTTAAATG
* * *
12085677 ACAATTTGTGTATCAACGAAGCTCC
1 ACAATCTATGTATCAGCGAAGCTCC
12085702 ACATACAAGC
Statistics
Matches: 123, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
41 1 0.01
42 122 0.99
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (42 bp):
ACAATCTATGTATCAGCGAAGCTCCCCACATGAGCTTAAATG
Found at i:12088287 original size:39 final size:39
Alignment explanation
Indices: 12088243--12088374 Score: 151
Period size: 39 Copynumber: 3.4 Consensus size: 39
12088233 TTACTTGTAC
* *
12088243 GCATATATCACATTACACATATAATCACGTAACATTGAA
1 GCATATATCACAATACACATATAATCACGTAACATTCAA
* *
12088282 GCATATATCACAATACTCATATAATCA-GATAA-ATTTTAA
1 GCATATATCACAATACACATATAATCACG-TAACA-TTCAA
* * * *
12088321 GCGTACATCACAATACTCATATAATCACATAACATTCAA
1 GCATATATCACAATACACATATAATCACGTAACATTCAA
*
12088360 GCATATACCACAATA
1 GCATATATCACAATA
12088375 TACACAATCA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
38 2 0.03
39 76 0.96
40 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.28
Consensus pattern (39 bp):
GCATATATCACAATACACATATAATCACGTAACATTCAA
Found at i:12109650 original size:20 final size:19
Alignment explanation
Indices: 12109627--12109669 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
12109617 AAACAAGTAG
12109627 AGTAAGCATAAAAAATGCTT
1 AGTAAG-ATAAAAAATGCTT
*
12109647 AGTAAGTTAAAAAATGCTT
1 AGTAAGATAAAAAATGCTT
12109666 AGTA
1 AGTA
12109670 TGTTCAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.28
Consensus pattern (19 bp):
AGTAAGATAAAAAATGCTT
Found at i:12111526 original size:9 final size:9
Alignment explanation
Indices: 12111512--12111536 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
12111502 CAGATTGAGA
12111512 CTTGGTGCC
1 CTTGGTGCC
12111521 CTTGGTGCC
1 CTTGGTGCC
12111530 CTTGGTG
1 CTTGGTG
12111537 TGTTTGGGAG
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:0.00, C:0.28, G:0.36, T:0.36
Consensus pattern (9 bp):
CTTGGTGCC
Found at i:12137180 original size:21 final size:22
Alignment explanation
Indices: 12137154--12137194 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
12137144 AGCACATAAA
*
12137154 AGAAAAATCAA-AAAAAAATAT
1 AGAAAAATAAATAAAAAAATAT
*
12137175 AGAAAATTAAATAAAAAAAT
1 AGAAAAATAAATAAAAAAAT
12137195 TTTCTTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (22 bp):
AGAAAAATAAATAAAAAAATAT
Found at i:12137481 original size:43 final size:43
Alignment explanation
Indices: 12137433--12137562 Score: 260
Period size: 43 Copynumber: 3.0 Consensus size: 43
12137423 AAAATCCATG
12137433 TTCCTAAAGTCTATTGTTCCTAAAAATTAAAACCCTACTAAAT
1 TTCCTAAAGTCTATTGTTCCTAAAAATTAAAACCCTACTAAAT
12137476 TTCCTAAAGTCTATTGTTCCTAAAAATTAAAACCCTACTAAAT
1 TTCCTAAAGTCTATTGTTCCTAAAAATTAAAACCCTACTAAAT
12137519 TTCCTAAAGTCTATTGTTCCTAAAAATTAAAACCCTACTAAAT
1 TTCCTAAAGTCTATTGTTCCTAAAAATTAAAACCCTACTAAAT
12137562 T
1 T
12137563 ATCTCTTGAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (43 bp):
TTCCTAAAGTCTATTGTTCCTAAAAATTAAAACCCTACTAAAT
Found at i:12143407 original size:16 final size:16
Alignment explanation
Indices: 12143388--12143436 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
12143378 AAAGAATGAC
12143388 AAAATGCATGAATATT
1 AAAATGCATGAATATT
12143404 AAAA--CAT--ATATCT
1 AAAATGCATGAATAT-T
12143417 -AAATGCATGAATATT
1 AAAATGCATGAATATT
12143432 AAAAT
1 AAAAT
12143437 ATATATCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
12 7 0.26
13 1 0.04
14 6 0.22
15 1 0.04
16 12 0.44
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (16 bp):
AAAATGCATGAATATT
Found at i:12143420 original size:28 final size:28
Alignment explanation
Indices: 12143389--12143445 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
12143379 AAGAATGACA
12143389 AAATGCATGAATATTAAAACATATATCT
1 AAATGCATGAATATTAAAACATATATCT
*
12143417 AAATGCATGAATATTAAAATATATATCT
1 AAATGCATGAATATTAAAACATATATCT
12143445 A
1 A
12143446 CTGCATACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (28 bp):
AAATGCATGAATATTAAAACATATATCT
Found at i:12143457 original size:28 final size:28
Alignment explanation
Indices: 12143389--12143459 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
12143379 AAGAATGACA
*
12143389 AAATGCATGAATATTAAAACATATATCT
1 AAATGCATCAATATTAAAACATATATCT
* *
12143417 AAATGCATGAATATTAAAATATATATCT
1 AAATGCATCAATATTAAAACATATATCT
*
12143445 -ACTGCATACAATATT
1 AAATGCAT-CAATATT
12143460 TACAACACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
27 6 0.15
28 33 0.85
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (28 bp):
AAATGCATCAATATTAAAACATATATCT
Found at i:12147242 original size:35 final size:36
Alignment explanation
Indices: 12147203--12147272 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
12147193 AGCTCTTATG
*
12147203 AGCATCTGGCATG-TTTGGAAGGATTGGCTCGTGTA
1 AGCATATGGCATGTTTTGGAAGGATTGGCTCGTGTA
* *
12147238 AGCATATGGCGTGTTTTGGAGGGATTGGCTCGTGT
1 AGCATATGGCATGTTTTGGAAGGATTGGCTCGTGT
12147273 GAGCTTCTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 11 0.35
36 20 0.65
ACGTcount: A:0.17, C:0.13, G:0.37, T:0.33
Consensus pattern (36 bp):
AGCATATGGCATGTTTTGGAAGGATTGGCTCGTGTA
Found at i:12147288 original size:36 final size:36
Alignment explanation
Indices: 12147216--12147293 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
12147206 ATCTGGCATG
*
12147216 TTTGGAAGGATTGGCTCGTGTAAGCATATGGCGTGT
1 TTTGGAAGGATTGGCTCGTGTAAGCATATAGCGTGT
* * * * *
12147252 TTTGGAGGGATTGGCTCGTGTGAGCTTCTAGTGTGT
1 TTTGGAAGGATTGGCTCGTGTAAGCATATAGCGTGT
12147288 TTTGGA
1 TTTGGA
12147294 TTGACAATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.15, C:0.10, G:0.37, T:0.37
Consensus pattern (36 bp):
TTTGGAAGGATTGGCTCGTGTAAGCATATAGCGTGT
Found at i:12151925 original size:26 final size:26
Alignment explanation
Indices: 12151883--12151958 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
12151873 TTATCATCCA
* *
12151883 AATTTTA-CCTTAGTAAATTTTTTAT
1 AATTTTACCCTTAGTAAAATTTTGAT
*
12151908 AATTTTACCCTTGGTAAAATTTTGAT
1 AATTTTACCCTTAGTAAAATTTTGAT
* **
12151934 GATTTTACCCCCAGTAAAATTTTGA
1 AATTTTACCCTTAGTAAAATTTTGA
12151959 GAAAATTATG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 7 0.16
26 36 0.84
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (26 bp):
AATTTTACCCTTAGTAAAATTTTGAT
Found at i:12152077 original size:6 final size:6
Alignment explanation
Indices: 12152066--12152119 Score: 90
Period size: 6 Copynumber: 9.0 Consensus size: 6
12152056 AAGATTGCAA
* *
12152066 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTCC ATTTCC
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
12152114 ATTTTC
1 ATTTTC
12152120 GGAAATGTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (6 bp):
ATTTTC
Found at i:12153607 original size:51 final size:51
Alignment explanation
Indices: 12153519--12153718 Score: 226
Period size: 51 Copynumber: 3.9 Consensus size: 51
12153509 CACCCATAAT
* * * *
12153519 CAATGCTATCCGGTTCATATAGTATCCTACACTTAGTACTACACATGTGAC
1 CAATACTATCCGGTACATATAGTAGCCTACACATAGTACTACACATGTGAC
* * *
12153570 CAATACTATCCGGTACATGTAGTAGCCTGCACATAGTACTACACACGTGAC
1 CAATACTATCCGGTACATATAGTAGCCTACACATAGTACTACACATGTGAC
* * * *
12153621 CAA-AGCTATCCGGTACACATAGTAGCATGCACTTAGTACTACACATGTGAC
1 CAATA-CTATCCGGTACATATAGTAGCCTACACATAGTACTACACATGTGAC
***
12153672 C-ATAACTATCTTATAC-TCATAGTAGCCTACACATAGTACTACACATG
1 CAAT-ACTATCCGGTACAT-ATAGTAGCCTACACATAGTACTACACATG
12153719 AGTTCTCATA
Statistics
Matches: 126, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
50 2 0.02
51 123 0.98
52 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (51 bp):
CAATACTATCCGGTACATATAGTAGCCTACACATAGTACTACACATGTGAC
Found at i:12153699 original size:102 final size:102
Alignment explanation
Indices: 12153523--12153716 Score: 266
Period size: 102 Copynumber: 1.9 Consensus size: 102
12153513 CATAATCAAT
* * * * *
12153523 GCTATCCGGTTCATATAGTATCCTACACTTAGTACTACACATGTGACCAATACTATCCGGTACAT
1 GCTATCCGGTACACATAGTAGCATACACTTAGTACTACACATGTGACCAATACTATCCGATACAT
* *
12153588 GTAGTAGCCTGCACATAGTACTACACACGTGACCAAA
66 ATAGTAGCCTACACATAGTACTACACACGTGACCAAA
* **
12153625 GCTATCCGGTACACATAGTAGCATGCACTTAGTACTACACATGTGACC-ATAACTATCTTATAC-
1 GCTATCCGGTACACATAGTAGCATACACTTAGTACTACACATGTGACCAAT-ACTATCCGATACA
12153688 TCATAGTAGCCTACACATAGTACTACACA
65 T-ATAGTAGCCTACACATAGTACTACACA
12153717 TGAGTTCTCA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
101 3 0.04
102 77 0.96
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (102 bp):
GCTATCCGGTACACATAGTAGCATACACTTAGTACTACACATGTGACCAATACTATCCGATACAT
ATAGTAGCCTACACATAGTACTACACACGTGACCAAA
Found at i:12154370 original size:45 final size:45
Alignment explanation
Indices: 12154314--12154404 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
12154304 TCTATAAAAC
12154314 ATCAAAACACATGCATTTCATCCATGTGTAAATTTTTAAACACAA
1 ATCAAAACACATGCATTTCATCCATGTGTAAATTTTTAAACACAA
12154359 ATCAAAACACATGCATTTCATCCATGTGTAAATTTTTAAACACAA
1 ATCAAAACACATGCATTTCATCCATGTGTAAATTTTTAAACACAA
12154404 A
1 A
12154405 CCCTAGTTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.31
Consensus pattern (45 bp):
ATCAAAACACATGCATTTCATCCATGTGTAAATTTTTAAACACAA
Found at i:12164611 original size:41 final size:41
Alignment explanation
Indices: 12164549--12164705 Score: 206
Period size: 41 Copynumber: 3.8 Consensus size: 41
12164539 TGTTGTAAGT
*
12164549 TCAGGCTTTATGCCTAACAGGCTTTATGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* *
12164590 TCAGGCTTTAAGCCTAGCAGGCTCTATGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* * * * * *
12164631 TCAGACTTTATGTCTAGCAGGCTTTGTACCGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* * *
12164672 TCGGGCTTTGTGCCTAGTAGGCTTTATGCCGGTG
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTG
12164706 TTTTATACAA
Statistics
Matches: 98, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
Found at i:12165560 original size:69 final size:69
Alignment explanation
Indices: 12165478--12165906 Score: 723
Period size: 69 Copynumber: 6.2 Consensus size: 69
12165468 TTCGAAAATA
12165478 ATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATATGCT
1 ATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATATGCT
12165543 GCCT
66 GCCT
*
12165547 ATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATATGCT
1 ATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATATGCT
12165612 GCCT
66 GCCT
* * *
12165616 ATTTGTTGTATATATGCTGTTAAATTTTGGTATAAAAGTACTGTTAAATTTGGTATGTATATGCT
1 ATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATATGCT
12165681 GCCT
66 GCCT
* * *
12165685 ATTTACTGTATGTATGCTGTTAAAATTTTGGTGTAAAAGTGCTATTAAATTTGGTATGTATATGC
1 ATTTGCTGTATATATGCTGTT-AAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATATGC
12165750 TGCCT
65 TGCCT
**
12165755 ATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTTATATGTATATGCT
1 ATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATATGCT
12165820 GCCT
66 GCCT
* *
12165824 ATTTACTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGCATGTATATGCT
1 ATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATATGCT
* *
12165889 ACCC
66 GCCT
*
12165893 ATTTGTTGTATATA
1 ATTTGCTGTATATA
12165907 AGAGGCGCTG
Statistics
Matches: 337, Mismatches: 22, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
69 273 0.81
70 64 0.19
ACGTcount: A:0.26, C:0.08, G:0.20, T:0.45
Consensus pattern (69 bp):
ATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATATGCT
GCCT
Found at i:12165862 original size:208 final size:207
Alignment explanation
Indices: 12165478--12165906 Score: 714
Period size: 208 Copynumber: 2.1 Consensus size: 207
12165468 TTCGAAAATA
* *
12165478 ATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATATGCT
1 ATTTACTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTATTAAATTTGGTATGTATATGCT
* *
12165543 GCCTATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
66 GCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGATATGTATA
** *
12165608 TGCTGCCTATTTGTTGTATATATGCTGTTAAATTTTGGTATAAAAGTACTGTTAAATTTGGTATG
131 TGCTGCCTATTTACTGTATATATGCTGTTAAATTTTGGTATAAAAGTACTGTTAAATTTGGCATG
12165673 TATATGCTGCCT
196 TATATGCTGCCT
*
12165685 ATTTACTGTATGTATGCTGTTAAAATTTTGGTGTAAAAGTGCTATTAAATTTGGTATGTATATGC
1 ATTTACTGTATATATGCTGTT-AAATTTTGGTGTAAAAGTGCTATTAAATTTGGTATGTATATGC
*
12165750 TGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTTATATGTAT
65 TGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGATATGTAT
* *
12165815 ATGCTGCCTATTTACTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGCAT
130 ATGCTGCCTATTTACTGTATATATGCTGTTAAATTTTGGTATAAAAGTACTGTTAAATTTGGCAT
* *
12165880 GTATATGCTACCC
195 GTATATGCTGCCT
**
12165893 ATTTGTTGTATATA
1 ATTTACTGTATATA
12165907 AGAGGCGCTG
Statistics
Matches: 205, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
207 19 0.09
208 186 0.91
ACGTcount: A:0.26, C:0.08, G:0.20, T:0.45
Consensus pattern (207 bp):
ATTTACTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTATTAAATTTGGTATGTATATGCT
GCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGATATGTATA
TGCTGCCTATTTACTGTATATATGCTGTTAAATTTTGGTATAAAAGTACTGTTAAATTTGGCATG
TATATGCTGCCT
Found at i:12169575 original size:23 final size:23
Alignment explanation
Indices: 12169549--12169613 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
12169539 GTTAACAATT
12169549 AATTAATTTTTTAATATTAAAAA
1 AATTAATTTTTTAATATTAAAAA
* *
12169572 AATT-A-TTTTTAATTTTTTAAAA
1 AATTAATTTTTTAA-TATTAAAAA
*
12169594 AATTAAATTTTTAAATATTA
1 AATT-AATTTTTTAATATTA
12169614 GTGTTTTTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 7 0.21
22 12 0.36
23 4 0.12
24 4 0.12
25 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTAATTTTTTAATATTAAAAA
Found at i:12172552 original size:15 final size:15
Alignment explanation
Indices: 12172529--12172593 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 15
12172519 TATTTTATTG
*
12172529 AATATTTTTTCGAAA
1 AATAATTTTTCGAAA
*
12172544 AATAATTTTAC-AAA
1 AATAATTTTTCGAAA
*
12172558 AA-AATTTATTTGAAAAA
1 AATAATTT-TTCG--AAA
12172575 AATAATTTTT-GAAA
1 AATAATTTTTCGAAA
12172589 AATAA
1 AATAA
12172594 ATAAAATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
13 5 0.12
14 14 0.34
15 9 0.22
16 1 0.02
17 7 0.17
18 5 0.12
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (15 bp):
AATAATTTTTCGAAA
Found at i:12172585 original size:16 final size:16
Alignment explanation
Indices: 12172541--12172590 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
12172531 TATTTTTTCG
**
12172541 AAAAATAATTTTACAA
1 AAAAATAATTTTTGAA
12172557 AAAAAT--TTATTTGAA
1 AAAAATAATT-TTTGAA
12172572 AAAAATAATTTTTGAA
1 AAAAATAATTTTTGAA
12172588 AAA
1 AAA
12172591 TAAATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 2 0.07
15 10 0.34
16 15 0.52
17 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (16 bp):
AAAAATAATTTTTGAA
Found at i:12173662 original size:21 final size:21
Alignment explanation
Indices: 12173628--12173668 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12173618 GGGGGAAAGT
*
12173628 GGGAAGAAGTAAAAGTTTTGA
1 GGGAAGAAGTAAAAGGTTTGA
12173649 GGGAA-AAGTAAAAAGGTTTG
1 GGGAAGAAGT-AAAAGGTTTG
12173669 GGAGTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAGAAGTAAAAGGTTTGA
Found at i:12174324 original size:13 final size:12
Alignment explanation
Indices: 12174298--12174336 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12174288 TTAAAATGTA
12174298 TTAAAATATTAT
1 TTAAAATATTAT
12174310 TTAAAATATTTAT
1 TTAAAATA-TTAT
**
12174323 TTTGAATATTAT
1 TTAAAATATTAT
12174335 TT
1 TT
12174337 GCAATAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (12 bp):
TTAAAATATTAT
Found at i:12174934 original size:18 final size:19
Alignment explanation
Indices: 12174908--12174946 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
12174898 CTAAAACTTT
*
12174908 ATTTTAATATTT-TTATGC
1 ATTTCAATATTTATTATGC
12174926 ATTTCAATATTTATTATGC
1 ATTTCAATATTTATTATGC
12174945 AT
1 AT
12174947 ATTTTATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (19 bp):
ATTTCAATATTTATTATGC
Found at i:12182238 original size:13 final size:13
Alignment explanation
Indices: 12182216--12182247 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
12182206 GCCCCCTTGC
12182216 TTAT-TTCTTTAT
1 TTATATTCTTTAT
12182228 TTATATTCTTTAT
1 TTATATTCTTTAT
12182241 TTATATT
1 TTATATT
12182248 TCTCTCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATATTCTTTAT
Found at i:12182313 original size:14 final size:14
Alignment explanation
Indices: 12182294--12182320 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12182284 TCAATTTCTT
12182294 TTATTTTTTCATTC
1 TTATTTTTTCATTC
12182308 TTATTTTTTCATT
1 TTATTTTTTCATT
12182321 TATTTTTCGT
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:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTTTCATTC
Found at i:12182323 original size:12 final size:12
Alignment explanation
Indices: 12182288--12182327 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
12182278 GCCCTTTCAA
*
12182288 TTTCTTTTATTT
1 TTTCATTTATTT
12182300 TTTCATTCTTATTT
1 TTTCA-T-TTATTT
12182314 TTTCATTTATTT
1 TTTCATTTATTT
12182326 TT
1 TT
12182328 CGTCTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 12 0.48
13 2 0.08
14 11 0.44
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTCATTTATTT
Found at i:12186555 original size:18 final size:18
Alignment explanation
Indices: 12186524--12186558 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12186514 CCCAAATCAA
*
12186524 ATAAATAAACAAAAATAT
1 ATAAAAAAACAAAAATAT
*
12186542 ATAAAAAAATAAAAATA
1 ATAAAAAAACAAAAATA
12186559 AAAAACAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (18 bp):
ATAAAAAAACAAAAATAT
Found at i:12194120 original size:46 final size:46
Alignment explanation
Indices: 12194053--12194140 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
12194043 ATCGCATCAG
12194053 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAA
1 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAA
* *
12194099 GTCTTATCTCCTTTAGATTACAGTGGAATAGACCGAAGAATT
1 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
12194141 CCTAATTGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (46 bp):
GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAA
Found at i:12194507 original size:50 final size:50
Alignment explanation
Indices: 12194389--12194518 Score: 120
Period size: 50 Copynumber: 2.6 Consensus size: 50
12194379 CGGTGGATCC
* * * **
12194389 TACTTCCCCAACATTGCAGTTAGAA-AGATTGAAGCTGCAATAGTAAATCT
1 TACTTCCCCGACATTGCAG-TAGAACAGATTGAAGCTACAACAACAAATCT
* * * ** * *
12194439 TACTGCCCAGTCGGTGCAGTGGAACAGATTGAAGCTACAACAACGAATCT
1 TACTTCCCCGACATTGCAGTAGAACAGATTGAAGCTACAACAACAAATCT
12194489 TACTTCCCCGACATTGCAGTTA-AACAGATT
1 TACTTCCCCGACATTGCAG-TAGAACAGATT
12194519 AAAGTTTCGA
Statistics
Matches: 60, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
49 4 0.07
50 55 0.92
51 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (50 bp):
TACTTCCCCGACATTGCAGTAGAACAGATTGAAGCTACAACAACAAATCT
Found at i:12194744 original size:15 final size:14
Alignment explanation
Indices: 12194720--12194762 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
12194710 GACCCAAATC
12194720 AAATAAATAAACAAA
1 AAATAAATAAA-AAA
*
12194735 AAATATATAAAAAA
1 AAATAAATAAAAAA
12194749 ATAA-AAATAAAAAA
1 A-AATAAATAAAAAA
12194763 CAAAATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATAAATAAAAAA
Found at i:12195084 original size:17 final size:17
Alignment explanation
Indices: 12195062--12195098 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
12195052 CAAACAGCAG
12195062 CAATGAGAAAAAAGAAA
1 CAATGAGAAAAAAGAAA
12195079 CAATGAGAAAAAAGAAA
1 CAATGAGAAAAAAGAAA
12195096 CAA
1 CAA
12195099 AAAAGATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.70, C:0.08, G:0.16, T:0.05
Consensus pattern (17 bp):
CAATGAGAAAAAAGAAA
Found at i:12196174 original size:293 final size:292
Alignment explanation
Indices: 12195647--12196233 Score: 978
Period size: 293 Copynumber: 2.0 Consensus size: 292
12195637 TTTGCGCCAC
* *
12195647 TAGTCCTCCTGATTTGTTTCATTGATTTAATTCGGTTTTTTGTTTATTTTCAAAATTTGCCCCAC
1 TAGTCCTCCTGATTTGTTTCATTGATTTAATTCGGTTTTTTGTTTATTTACAAAATTTCCCCCAC
* *
12195712 ATTTTCGATATTACTTCATTTTGGTCCATTTGCAGCGCAGCGTTTGAGTGGGCAAGGAATATTTC
66 ATTTTCGATATTACTTCATTTTAGCCCATTTGCAGCGCAGCGTTTGAGTGGGCAAGGAATATTTC
*
12195777 CTATTTTAGTCCCTATGTTATTCGCGCTTTGTAATTTGGACTTTTCCTTTTGTTTATTTCAGATT
131 CTATTTTAGTCCCTATGTTATTCGCGCTTTGCAATTTGGACTTTTCCTTTTGTTTATTTCAGATT
*
12195842 TACCCCTAAATTTCTGCTTTAATTCCAAATCAGCCCATTGTTTTATTAATTAGTTTAATATCAAT
196 TACCCCAAAATTTCTGCTTTAATTCCAAATCAGCCCATTGTTTTATTAATTAGTTTAATATCAAT
*
12195907 TTATTATTATTATTTGGTATTTTTTATTATTGT
261 TTATTATTATTATTTGGTA-TTTTCATTATTGT
* * *
12195940 TAGTCCTCCTGATTTGTTTCTTTGATTTAATTCGTTTTTTTGTTTATTTACAAAATTTCCCCCAT
1 TAGTCCTCCTGATTTGTTTCATTGATTTAATTCGGTTTTTTGTTTATTTACAAAATTTCCCCCAC
* * *
12196005 ATTTTTGATATTATTTCATTTTAGCCCATTTGTAGCGC-GTCGTTTGAGTGGGCAAGGAATATTT
66 ATTTTCGATATTACTTCATTTTAGCCCATTTGCAGCGCAG-CGTTTGAGTGGGCAAGGAATATTT
* *
12196069 TCTATTTTAGTCCCTATGTTATTCGCGTTTTGCAATTTGGACTTTTCCTTTTGTTTATTTCAGAT
130 CCTATTTTAGTCCCTATGTTATTCGCGCTTTGCAATTTGGACTTTTCCTTTTGTTTATTTCAGAT
* * *
12196134 TTATCCCAAAATTTCTGCTTTAATTCCAAATCAGCCCATTGTTTTATTAATTAGTTTAATATTAT
195 TTACCCCAAAATTTCTGCTTTAATTCCAAATCAGCCCATTGTTTTATTAATTAGTTTAATATCAA
*
12196199 TTTATTATTATTATTTGTTATTTTCATTATTGT
260 TTTATTATTATTATTTGGTATTTTCATTATTGT
12196232 TA
1 TA
12196234 TATTTGGTTA
Statistics
Matches: 274, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
292 15 0.05
293 259 0.95
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.50
Consensus pattern (292 bp):
TAGTCCTCCTGATTTGTTTCATTGATTTAATTCGGTTTTTTGTTTATTTACAAAATTTCCCCCAC
ATTTTCGATATTACTTCATTTTAGCCCATTTGCAGCGCAGCGTTTGAGTGGGCAAGGAATATTTC
CTATTTTAGTCCCTATGTTATTCGCGCTTTGCAATTTGGACTTTTCCTTTTGTTTATTTCAGATT
TACCCCAAAATTTCTGCTTTAATTCCAAATCAGCCCATTGTTTTATTAATTAGTTTAATATCAAT
TTATTATTATTATTTGGTATTTTCATTATTGT
Found at i:12196369 original size:18 final size:16
Alignment explanation
Indices: 12196335--12196370 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
12196325 TTATATAATA
12196335 TATTTTTAATAACTTT
1 TATTTTTAATAACTTT
12196351 TATTTTATAATATACTTT
1 TATTTT-TAATA-ACTTT
12196369 TA
1 TA
12196371 AAAGCCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTTTAATAACTTT
Found at i:12196387 original size:28 final size:28
Alignment explanation
Indices: 12196325--12196387 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
12196315 GAATTGTTTG
* *
12196325 TTATATAATATATTTTTAATAACTTTTA
1 TTATATAATATACTTTTAATAACATTTA
*
12196353 TTTTATAATATACTTTTAA-AAGCCATTT-
1 TTATATAATATACTTTTAATAA--CATTTA
12196381 TTATATA
1 TTATATA
12196388 TTTCATCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 2 0.07
28 23 0.79
29 4 0.14
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (28 bp):
TTATATAATATACTTTTAATAACATTTA
Found at i:12198091 original size:14 final size:14
Alignment explanation
Indices: 12198072--12198100 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12198062 AACAATCAGA
12198072 CCCTAATTGTTAGG
1 CCCTAATTGTTAGG
12198086 CCCTAATTGTTAGG
1 CCCTAATTGTTAGG
12198100 C
1 C
12198101 AACTGGTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (14 bp):
CCCTAATTGTTAGG
Found at i:12199019 original size:9 final size:9
Alignment explanation
Indices: 12199005--12199041 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
12198995 TATAGTTTGA
12199005 TATTCGAAT
1 TATTCGAAT
12199014 TATTCGAAT
1 TATTCGAAT
12199023 TATTC-AAGT
1 TATTCGAA-T
12199032 TATTCGAAT
1 TATTCGAAT
12199041 T
1 T
12199042 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12204958 original size:154 final size:155
Alignment explanation
Indices: 12204655--12204963 Score: 611
Period size: 154 Copynumber: 2.0 Consensus size: 155
12204645 TTAAAATTAA
12204655 GTATAGAATATGATTATGAGTTTAATGAATTTAAATTTAAATTTTTAAAAATAAAGTATTTAAAT
1 GTATAGAATATGATTATGAGTTTAATGAATTTAAATTTAAATTTTTAAAAATAAAGTATTTAAAT
12204720 AATAATACTAAAAGAAATTAAATAAAATAGTAAACATACTTAAAAATTTAAATCACTGAAAATAT
66 AATAATACTAAAAGAAATTAAATAAAATAGTAAACATACTTAAAAATTTAAATCACTGAAAATAT
12204785 TAAGTTTTAGTTTATTTAATTTTTT
131 TAAGTTTTAGTTTATTTAATTTTTT
12204810 GTATAGAATA-GATTATGAGTTTAATGAATTTAAATTTAAATTTTTAAAAATAAAGTATTTAAAT
1 GTATAGAATATGATTATGAGTTTAATGAATTTAAATTTAAATTTTTAAAAATAAAGTATTTAAAT
12204874 AATAATACTAAAAGAAATTAAATAAAATAGTAAACATACTTAAAAATTTAAATCACTGAAAATAT
66 AATAATACTAAAAGAAATTAAATAAAATAGTAAACATACTTAAAAATTTAAATCACTGAAAATAT
12204939 TAAGTTTTAGTTTATTTAATTTTTT
131 TAAGTTTTAGTTTATTTAATTTTTT
12204964 TTCTATAGGT
Statistics
Matches: 154, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
154 144 0.94
155 10 0.06
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (155 bp):
GTATAGAATATGATTATGAGTTTAATGAATTTAAATTTAAATTTTTAAAAATAAAGTATTTAAAT
AATAATACTAAAAGAAATTAAATAAAATAGTAAACATACTTAAAAATTTAAATCACTGAAAATAT
TAAGTTTTAGTTTATTTAATTTTTT
Found at i:12205997 original size:90 final size:93
Alignment explanation
Indices: 12205877--12206113 Score: 309
Period size: 90 Copynumber: 2.6 Consensus size: 93
12205867 TGAGAAATTA
* * * * *
12205877 AATTAATAGGTTAGATAATAATATAAATTTTAATTGAGATAAATAGGAGTTTAAATTGAATTAGG
1 AATTAATAGGTTAGATAATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAAATTAAATTAGG
* ***
12205942 -TAATTAGAG-TTTAATTTA-TGACTTT
66 AGAATTAGAGTTTTAATTTATTGAAAAT
*
12205967 AATTAATAGGTTAAATAATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAAATTAAATTAGG
1 AATTAATAGGTTAGATAATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAAATTAAATTAGG
* *
12206032 AGAATTAGGGTTTTAATTTATTTAAAAT
66 AGAATTAGAGTTTTAATTTATTGAAAAT
* ** *
12206060 ACTTAATAATTTAGATGATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAA
1 AATTAATAGGTTAGATAATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAA
12206114 GGTTTCTCAA
Statistics
Matches: 127, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
90 59 0.46
91 7 0.06
92 9 0.07
93 52 0.41
ACGTcount: A:0.43, C:0.01, G:0.14, T:0.42
Consensus pattern (93 bp):
AATTAATAGGTTAGATAATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAAATTAAATTAGG
AGAATTAGAGTTTTAATTTATTGAAAAT
Found at i:12206029 original size:27 final size:26
Alignment explanation
Indices: 12205998--12206049 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
12205988 TTTAGATTTT
*
12205998 AATTAAGATAATTAGGAGTTTAAATTA
1 AATTAAGAGAATTAGG-GTTTAAATTA
* *
12206025 AATTAGGAGAATTAGGGTTTTAATT
1 AATTAAGAGAATTAGGGTTTAAATT
12206050 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (26 bp):
AATTAAGAGAATTAGGGTTTAAATTA
Found at i:12208930 original size:25 final size:25
Alignment explanation
Indices: 12208908--12208991 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 25
12208898 GTATGCTCTC
12208908 ACGAGCTGTAGACCGGTAAGCTCAT
1 ACGAGCTGTAGACCGGTAAGCTCAT
* **
12208933 ACGAGCTG-AGAACCTGTAAGCTTTT
1 ACGAGCTGTAG-ACCGGTAAGCTCAT
* * *
12208958 ACGAGCTGCAAATCGGTAAGCTCAT
1 ACGAGCTGTAGACCGGTAAGCTCAT
12208983 ACGAGCTGT
1 ACGAGCTGT
12208992 GGTGTGTCCG
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
24 2 0.04
25 45 0.94
26 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (25 bp):
ACGAGCTGTAGACCGGTAAGCTCAT
Found at i:12212743 original size:18 final size:17
Alignment explanation
Indices: 12212717--12212750 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12212707 TCTTTACTTA
12212717 TTTTATTTTTTTCCTTTC
1 TTTTA-TTTTTTCCTTTC
*
12212735 TTTTCTTTTTTCCTTT
1 TTTTATTTTTTCCTTT
12212751 TTGCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTTTTCCTTTC
Found at i:12212758 original size:17 final size:17
Alignment explanation
Indices: 12212723--12212760 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
12212713 CTTATTTTAT
*
12212723 TTTTTTCCTTTCTTTTC
1 TTTTTTCCTTTCTTCTC
12212740 TTTTTTCCTTT-TTGCTC
1 TTTTTTCCTTTCTT-CTC
12212757 TTTT
1 TTTT
12212761 GCTTCAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTTCCTTTCTTCTC
Found at i:12213650 original size:18 final size:18
Alignment explanation
Indices: 12213627--12213669 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
12213617 ACCCAATTCA
**
12213627 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
12213645 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
12213663 AACCCAA
1 AACCCAA
12213670 TCCATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:12213720 original size:6 final size:6
Alignment explanation
Indices: 12213711--12213745 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
12213701 AAATAAAATT
*
12213711 CTAAAA CTAAAA CGAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
12213746 GTCTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.66, C:0.17, G:0.03, T:0.14
Consensus pattern (6 bp):
CTAAAA
Found at i:12213798 original size:9 final size:9
Alignment explanation
Indices: 12213784--12213824 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
12213774 TGTAGTGATT
12213784 TAATTCGGG
1 TAATTCGGG
*
12213793 TAATTCGGT
1 TAATTCGGG
12213802 TAATTCGGG
1 TAATTCGGG
*
12213811 TAATTCGGT
1 TAATTCGGG
12213820 TAATT
1 TAATT
12213825 TTTAACCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (9 bp):
TAATTCGGG
Found at i:12213806 original size:18 final size:18
Alignment explanation
Indices: 12213783--12213824 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
12213773 ATGTAGTGAT
12213783 TTAATTCGGGTAATTCGG
1 TTAATTCGGGTAATTCGG
12213801 TTAATTCGGGTAATTCGG
1 TTAATTCGGGTAATTCGG
12213819 TTAATT
1 TTAATT
12213825 TTTAACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.43
Consensus pattern (18 bp):
TTAATTCGGGTAATTCGG
Found at i:12216735 original size:32 final size:33
Alignment explanation
Indices: 12216685--12216746 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
12216675 ACTTAAGAAA
*
12216685 CAAACATAAATATTAAAATAAT-AAATTTATTT
1 CAAACATAAATATAAAAATAATAAAATTTATTT
* *
12216717 CAAATATATATATAAAAATAATAAAATTTA
1 CAAACATAAATATAAAAATAATAAAATTTA
12216747 GATAACATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 19 0.73
33 7 0.27
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (33 bp):
CAAACATAAATATAAAAATAATAAAATTTATTT
Found at i:12218988 original size:39 final size:41
Alignment explanation
Indices: 12218938--12219034 Score: 155
Period size: 40 Copynumber: 2.4 Consensus size: 41
12218928 GTTAATTATT
12218938 CCCTGAATTGCACATA-TGTG-CCATGTTTGTACTTCGGTAC
1 CCCTGAATTGCACATACT-TGCCCATGTTTGTACTTCGGTAC
*
12218978 CCCTG-ATTGCACATACTTGCCCCTGTTTGTACTTCGGTAC
1 CCCTGAATTGCACATACTTGCCCATGTTTGTACTTCGGTAC
12219018 CCCTGAATTGCACATAC
1 CCCTGAATTGCACATAC
12219035 ATTCCCTTGT
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
39 12 0.23
40 30 0.57
41 11 0.21
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.33
Consensus pattern (41 bp):
CCCTGAATTGCACATACTTGCCCATGTTTGTACTTCGGTAC
Found at i:12219020 original size:20 final size:20
Alignment explanation
Indices: 12218961--12219022 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
12218951 ATATGTGCCA
12218961 TGTTTGTACTTCGGTACCCC
1 TGTTTGTACTTCGGTACCCC
* * * * *
12218981 TGATTGCACATAC-TTGCCCC
1 TGTTTGTAC-TTCGGTACCCC
12219001 TGTTTGTACTTCGGTACCCC
1 TGTTTGTACTTCGGTACCCC
12219021 TG
1 TG
12219023 AATTGCACAT
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.13, C:0.31, G:0.19, T:0.37
Consensus pattern (20 bp):
TGTTTGTACTTCGGTACCCC
Found at i:12219046 original size:41 final size:41
Alignment explanation
Indices: 12218938--12219046 Score: 145
Period size: 40 Copynumber: 2.7 Consensus size: 41
12218928 GTTAATTATT
*
12218938 CCCTGAATTGCACAT--ATGTGCCATGTTTGTACTTCGGTAC
1 CCCTGAATTGCACATACAT-TCCCATGTTTGTACTTCGGTAC
*
12218978 CCCTG-ATTGCACATAC-TTGCCCCTGTTTGTACTTCGGTAC
1 CCCTGAATTGCACATACATT-CCCATGTTTGTACTTCGGTAC
*
12219018 CCCTGAATTGCACATACATTCCCTTGTTT
1 CCCTGAATTGCACATACATTCCCATGTTT
12219047 ACACTCTGGT
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
39 10 0.16
40 30 0.49
41 19 0.31
42 2 0.03
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (41 bp):
CCCTGAATTGCACATACATTCCCATGTTTGTACTTCGGTAC
Found at i:12220474 original size:57 final size:58
Alignment explanation
Indices: 12220277--12220476 Score: 162
Period size: 57 Copynumber: 3.4 Consensus size: 58
12220267 TCGGTTAACC
12220277 AACCGGTTAACCGACCCGAAATAACATTAACCGAATTAACCGATCTTTCAAAATCTTT
1 AACCGGTTAACCGACCCGAAATAACATTAACCGAATTAACCGATCTTTCAAAATCTTT
**** *** * * *
12220335 AACC-GTTAACCGTA-CCGAAATTTTTTTCAAAAAAATTAACCGAAC---CGAAATTTTTTCGGT
1 AACCGGTTAACCG-ACCCGAAATAACATT-AACCGAATTAACCGATCTTTC-AAA----ATC-TT
12220395 T
58 T
12220396 AACCACGGTTAACCGACCCGAAATAACATTAACCGAATTAACCGATCTTTCAAAATCTTT
1 AA-C-CGGTTAACCGACCCGAAATAACATTAACCGAATTAACCGATCTTTCAAAATCTTT
12220456 AACC-GTTAACCGTA-CCGAAAT
1 AACCGGTTAACCG-ACCCGAAAT
12220477 TTTTTTCAAA
Statistics
Matches: 106, Mismatches: 20, Indels: 33
0.67 0.13 0.21
Matches are distributed among these distances:
55 1 0.01
56 3 0.03
57 32 0.30
58 20 0.19
59 1 0.01
60 6 0.06
61 6 0.06
62 1 0.01
63 15 0.14
64 17 0.16
65 3 0.03
66 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (58 bp):
AACCGGTTAACCGACCCGAAATAACATTAACCGAATTAACCGATCTTTCAAAATCTTT
Found at i:12220483 original size:121 final size:123
Alignment explanation
Indices: 12220266--12220518 Score: 492
Period size: 121 Copynumber: 2.1 Consensus size: 123
12220256 GGGGTGTTCA
12220266 TTCGGTTAACCAACCGGTTAACCGACCCGAAATAACATTAACCGAATTAACCGATCTTTCAAAAT
1 TTCGGTTAACCAACCGGTTAACCGACCCGAAATAACATTAACCGAATTAACCGATCTTTCAAAAT
12220331 CTTTAACCGTTAACCGTACCGAAATTTTTTTCAAAAAAATTAACCGAACCGAAATTTT
66 CTTTAACCGTTAACCGTACCGAAATTTTTTTCAAAAAAATTAACCGAACCGAAATTTT
12220389 TTCGGTTAACC-A-CGGTTAACCGACCCGAAATAACATTAACCGAATTAACCGATCTTTCAAAAT
1 TTCGGTTAACCAACCGGTTAACCGACCCGAAATAACATTAACCGAATTAACCGATCTTTCAAAAT
12220452 CTTTAACCGTTAACCGTACCGAAATTTTTTTCAAAAAAATTAACCGAACCGAAATTTT
66 CTTTAACCGTTAACCGTACCGAAATTTTTTTCAAAAAAATTAACCGAACCGAAATTTT
12220510 TTCGGTTAA
1 TTCGGTTAA
12220519 TTCGGTCGGT
Statistics
Matches: 130, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
121 118 0.91
122 1 0.01
123 11 0.08
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (123 bp):
TTCGGTTAACCAACCGGTTAACCGACCCGAAATAACATTAACCGAATTAACCGATCTTTCAAAAT
CTTTAACCGTTAACCGTACCGAAATTTTTTTCAAAAAAATTAACCGAACCGAAATTTT
Found at i:12220926 original size:95 final size:95
Alignment explanation
Indices: 12220760--12221194 Score: 268
Period size: 95 Copynumber: 4.6 Consensus size: 95
12220750 TTACAGTGTT
* * **
12220760 GAAGTGGTTCTTCTATTAAACTTATCAAACAGTTTCCTCTTTGAGGTGTCAGCTTTAGATTATAT
1 GAAGTGATTCTTCTATTAAACTTAGCAAACAGTTTCCTCTTTGAGGTGTCAGCTTTAGAAAATAT
* * ** *
12220825 TGAATTTTGGCTAAATGTTTTAAGAGGCTA
66 TAAATTTTGCCTAAATGCATTAAAAGGCTA
* ** * * * *
12220855 GAAGTGTTTCTTCTATTAAACTTAGCAAGTAGTTTTCTCTTTGGGGTGTCGGCTTTTGAAAATAT
1 GAAGTGATTCTTCTATTAAACTTAGCAAACAGTTTCCTCTTTGAGGTGTCAGCTTTAGAAAATAT
* *
12220920 TAAATTTTGCCTAAGTGCATTAAAATGCTA
66 TAAATTTTGCCTAAATGCATTAAAAGGCTA
* * * * ** * * ** * * * *
12220950 GAAGCGATTCTTCTATTAAACTTATCGAGCAACTTCCTATTTGGGGTGTTTG-TTTTGTAACTTT
1 GAAGTGATTCTTCTATTAAACTTAGCAAACAGTTTCCTCTTTGAGGTGTCAGCTTTAGAAAATAT
* * * *
12221014 GTAAAATTTAG-CTAAGTGCCTTAAGAGGCTA
66 -T-AAATTTTGCCTAAATGCATTAAAAGGCTA
* * * * * * * * ** *
12221045 GAAGCGATTCTTTTATTGAACTTAGCGAGCAATTTCCTC-TTGAGGTGTCTGCTTTATAACTTTG
1 GAAGTGATTCTTCTATTAAACTTAGCAAACAGTTTCCTCTTTGAGGTGTCAGCTTTAGAA-AATA
* * * * *
12221109 TTCAATTTAG-CTAAGTACCTTAAAAGGCTA
65 TTAAATTTTGCCTAAATGCATTAAAAGGCTA
** * * * * * *
12221139 GAAACGATTCTTCTAGTAAACTTAACGAGCATTTTCCTC-TCGAGGTGTCAGCTTTA
1 GAAGTGATTCTTCTATTAAACTTAGCAAACAGTTTCCTCTTTGAGGTGTCAGCTTTA
12221195 TAACTTTGTA
Statistics
Matches: 277, Mismatches: 59, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
94 92 0.33
95 176 0.64
96 9 0.03
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (95 bp):
GAAGTGATTCTTCTATTAAACTTAGCAAACAGTTTCCTCTTTGAGGTGTCAGCTTTAGAAAATAT
TAAATTTTGCCTAAATGCATTAAAAGGCTA
Found at i:12221137 original size:94 final size:94
Alignment explanation
Indices: 12220921--12221205 Score: 354
Period size: 94 Copynumber: 3.0 Consensus size: 94
12220911 TGAAAATATT
* * * * *
12220921 AAATTTTGCCTAAGTGCATTAAAATGCTAGAAGCGATTCTTCTATTAAACTTATCGAGCAACTTC
1 AAATTTAG-CTAAGTGCCTTAAAAGGCTAGAAGCGATTCTTCTATTAAACTTAACGAGCAATTTC
* * * * *
12220986 CTATTTGGGGTGTTTGTTTTGTAACTTTGTA
65 CT-CTTGAGGTGTCTGCTTTATAACTTTGTA
* * * *
12221017 AAATTTAGCTAAGTGCCTTAAGAGGCTAGAAGCGATTCTTTTATTGAACTTAGCGAGCAATTTCC
1 AAATTTAGCTAAGTGCCTTAAAAGGCTAGAAGCGATTCTTCTATTAAACTTAACGAGCAATTTCC
*
12221082 TCTTGAGGTGTCTGCTTTATAACTTTGTT
66 TCTTGAGGTGTCTGCTTTATAACTTTGTA
* * * * *
12221111 CAATTTAGCTAAGTACCTTAAAAGGCTAGAAACGATTCTTCTAGTAAACTTAACGAGCATTTTCC
1 AAATTTAGCTAAGTGCCTTAAAAGGCTAGAAGCGATTCTTCTATTAAACTTAACGAGCAATTTCC
* *
12221176 TCTCGAGGTGTCAGCTTTATAACTTTGTA
66 TCTTGAGGTGTCTGCTTTATAACTTTGTA
12221205 A
1 A
12221206 GGCTAAAAAG
Statistics
Matches: 162, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
94 104 0.64
95 51 0.31
96 7 0.04
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (94 bp):
AAATTTAGCTAAGTGCCTTAAAAGGCTAGAAGCGATTCTTCTATTAAACTTAACGAGCAATTTCC
TCTTGAGGTGTCTGCTTTATAACTTTGTA
Found at i:12224583 original size:13 final size:11
Alignment explanation
Indices: 12224547--12224577 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
12224537 TTGCTCGCAT
12224547 TAATTTTTATA
1 TAATTTTTATA
*
12224558 TTATTTTTATA
1 TAATTTTTATA
12224569 TAATTTTTA
1 TAATTTTTA
12224578 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:12224684 original size:30 final size:30
Alignment explanation
Indices: 12224650--12224712 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
12224640 ACTTAACAAG
12224650 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
12224680 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
12224710 CAA
1 CAA
12224713 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:12226567 original size:38 final size:38
Alignment explanation
Indices: 12226518--12226608 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 38
12226508 GCGAAATGAA
* *
12226518 TATCTACTGGTCCTTTGAGGTGACACCATGTTGACAAT
1 TATCAACTGGTCCTTTGAGGCGACACCATGTTGACAAT
* * * **
12226556 TATCCACTGGTCCTTTGGGGCGACACCGTGTTGACGGT
1 TATCAACTGGTCCTTTGAGGCGACACCATGTTGACAAT
12226594 TATCAACTGGTCCTT
1 TATCAACTGGTCCTT
12226609 CGTAATAACC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (38 bp):
TATCAACTGGTCCTTTGAGGCGACACCATGTTGACAAT
Found at i:12234578 original size:22 final size:21
Alignment explanation
Indices: 12234548--12234597 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
12234538 GAGTGACTCA
*
12234548 AATAATTAATTTCG-AAAAATT
1 AATAATTAAATT-GAAAAAATT
12234569 AAGTAATTAAATTGAAAAAATT
1 AA-TAATTAAATTGAAAAAATT
12234591 AATAATT
1 AATAATT
12234598 GAATGACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (21 bp):
AATAATTAAATTGAAAAAATT
Found at i:12236831 original size:27 final size:27
Alignment explanation
Indices: 12236785--12236841 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
12236775 GCAGCAGCTC
* *
12236785 GTGGTGAAGTGTGAGCTGTCTCTACAA
1 GTGGTGAAGTGCGAGCTGTCTCCACAA
*
12236812 GTGGTGAAGTGCGAGTTGTCTCCACAA
1 GTGGTGAAGTGCGAGCTGTCTCCACAA
12236839 GTG
1 GTG
12236842 TCAAAGTGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.16, G:0.35, T:0.28
Consensus pattern (27 bp):
GTGGTGAAGTGCGAGCTGTCTCCACAA
Found at i:12236848 original size:27 final size:27
Alignment explanation
Indices: 12236785--12236850 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
12236775 GCAGCAGCTC
* * *
12236785 GTGGTGAAGTGTGAGCTGTCTCTACAA
1 GTGGTAAAGTGCGAGCTGTCTCCACAA
* *
12236812 GTGGTGAAGTGCGAGTTGTCTCCACAA
1 GTGGTAAAGTGCGAGCTGTCTCCACAA
12236839 GT-GTCAAAGTGC
1 GTGGT-AAAGTGC
12236851 AAGATGCTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.27
Consensus pattern (27 bp):
GTGGTAAAGTGCGAGCTGTCTCCACAA
Found at i:12238600 original size:45 final size:45
Alignment explanation
Indices: 12238512--12238614 Score: 111
Period size: 45 Copynumber: 2.3 Consensus size: 45
12238502 GAGCAAGAAA
* ** *
12238512 ATAGCTAAAAGATTCTATGACATCATGATATAAATGAGTAAGACC
1 ATAGCTGAAAGACACTATGACATCATGATATAAAAGAGTAAGACC
* * *
12238557 ATAGTTGAAAGACACTATGACATCATGGTA-AACAAGA-TCAAGACT
1 ATAGCTGAAAGACACTATGACATCATGATATAA-AAGAGT-AAGACC
12238602 ATAGCTGAAAGAC
1 ATAGCTGAAAGAC
12238615 GTTATGGCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
44 3 0.06
45 45 0.94
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (45 bp):
ATAGCTGAAAGACACTATGACATCATGATATAAAAGAGTAAGACC
Found at i:12247886 original size:50 final size:49
Alignment explanation
Indices: 12247824--12247953 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 49
12247814 AACACCATTT
* *
12247824 GTGGACAAGCCACCACTAATTTGTAGATAAATTGCCATTGATAACACTTA
1 GTGGACAAGCCACCACTAATTTGTAGATAAATTGCCA-CGAAAACACTTA
* * * * *
12247874 GTGGACACGCCACCAC--ATATGCATATATATATTGCCACGAAAACACTTT
1 GTGGACAAGCCACCACTAATTTG--TAGATAAATTGCCACGAAAACACTTA
* *
12247923 GTGGACAGGCCACCACTAATTTGCAGATAAA
1 GTGGACAAGCCACCACTAATTTGTAGATAAA
12247954 CTGCTACGTA
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
48 4 0.06
49 29 0.45
50 27 0.42
51 4 0.06
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (49 bp):
GTGGACAAGCCACCACTAATTTGTAGATAAATTGCCACGAAAACACTTA
Found at i:12254186 original size:21 final size:21
Alignment explanation
Indices: 12254161--12254200 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12254151 TGAGCTTCTA
12254161 ATATATCAACCATAACAAGTC
1 ATATATCAACCATAACAAGTC
*
12254182 ATATATCAACCATTACAAG
1 ATATATCAACCATAACAAG
12254201 GCTACTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (21 bp):
ATATATCAACCATAACAAGTC
Found at i:12255449 original size:25 final size:26
Alignment explanation
Indices: 12255365--12255451 Score: 117
Period size: 25 Copynumber: 3.5 Consensus size: 26
12255355 AGCTATAAAT
*
12255365 GGTAAGCTC-TTCTGAGCTGAATAAC
1 GGTAAGCTCATACTGAGCTGAATAAC
*
12255390 GGTAAGCTCCT-CTGAGCTGAATAAC
1 GGTAAGCTCATACTGAGCTGAATAAC
* *
12255415 GGTAAGCTCATAC-GAGCTGAGTATC
1 GGTAAGCTCATACTGAGCTGAATAAC
12255440 GGTAAGCTCATA
1 GGTAAGCTCATA
12255452 AGAGCTGGAA
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
25 55 0.96
26 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (26 bp):
GGTAAGCTCATACTGAGCTGAATAAC
Found at i:12256379 original size:22 final size:23
Alignment explanation
Indices: 12256352--12256394 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
12256342 TTATCTTTAA
12256352 TTACCT-A-TTTACAAAATTACCC
1 TTACCTAACTTTA-AAAATTACCC
12256374 TTACCTAACTTTAAAAATTAC
1 TTACCTAACTTTAAAAATTAC
12256395 ACTAATGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (23 bp):
TTACCTAACTTTAAAAATTACCC
Found at i:12261043 original size:16 final size:16
Alignment explanation
Indices: 12261024--12261074 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
12261014 CTATTTATCA
* * *
12261024 TTTTCACAATCTAGAT
1 TTTTCACAGTCTACAG
12261040 TTTTCACAGTCTACAG
1 TTTTCACAGTCTACAG
*
12261056 TTTTCACAGTCTATAG
1 TTTTCACAGTCTACAG
12261072 TTT
1 TTT
12261075 CAAATCTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (16 bp):
TTTTCACAGTCTACAG
Found at i:12264664 original size:14 final size:15
Alignment explanation
Indices: 12264633--12264668 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
12264623 TATTTGAAAA
12264633 ATTTTAATGAATTTT
1 ATTTTAATGAATTTT
*
12264648 ATTTTAATGTA-TTT
1 ATTTTAATGAATTTT
12264662 ATTTTAA
1 ATTTTAA
12264669 GGATAATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
ATTTTAATGAATTTT
Found at i:12269223 original size:51 final size:51
Alignment explanation
Indices: 12269144--12269256 Score: 172
Period size: 51 Copynumber: 2.2 Consensus size: 51
12269134 CTGATCAGTA
*
12269144 ACAAGTGATAAGTAGTAGCTTCAACTACACTTATCTGATTAGTGACAAGTG
1 ACAAGTGATAAGTAGTAGCTTCAACTACACTTATCTGATCAGTGACAAGTG
* * * *
12269195 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTTATCAGTGACAAGTG
1 ACAAGTGATAAGTAGTAGCTTCAACTACACTTATCTGATCAGTGACAAGTG
*
12269246 ACAAGAGATAA
1 ACAAGTGATAA
12269257 ATGTGATCCG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.28
Consensus pattern (51 bp):
ACAAGTGATAAGTAGTAGCTTCAACTACACTTATCTGATCAGTGACAAGTG
Found at i:12278354 original size:93 final size:93
Alignment explanation
Indices: 12278236--12278412 Score: 248
Period size: 93 Copynumber: 1.9 Consensus size: 93
12278226 TTTTCGCAAC
* * * *
12278236 ACATGCATCATAAATGACCACTAGAAGAGTCAATATTTAAGTCCAGTTTCTATGAGCCTCTACAA
1 ACATGCATAATAAATGACCACTAGAAGAGTCAATATTTAAGTCCAGTGTCCATGAACCTCTACAA
12278301 GAAAAGCTATCTTCGTCAACAATCACAT
66 GAAAAGCTATCTTCGTCAACAATCACAT
* * * * *
12278329 ACATGCATAATAAA-GAACCGCTAGAAGAGTCGATGTTTAAGTTCAGTGTCCATGAACCTTTACA
1 ACATGCATAATAAATG-ACCACTAGAAGAGTCAATATTTAAGTCCAGTGTCCATGAACCTCTACA
*
12278393 AGAAAAGCTATCTTGGTCAA
65 AGAAAAGCTATCTTCGTCAA
12278413 TAAATACCAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (93 bp):
ACATGCATAATAAATGACCACTAGAAGAGTCAATATTTAAGTCCAGTGTCCATGAACCTCTACAA
GAAAAGCTATCTTCGTCAACAATCACAT
Found at i:12281072 original size:21 final size:20
Alignment explanation
Indices: 12281038--12281078 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
12281028 CTTCAAGATT
12281038 TAAAAATATCAAAAATATTA
1 TAAAAATATCAAAAATATTA
* *
12281058 TAAAAACTATTAAAACTATTA
1 TAAAAA-TATCAAAAATATTA
12281079 AATATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAATATCAAAAATATTA
Found at i:12281109 original size:28 final size:28
Alignment explanation
Indices: 12281050--12281111 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
12281040 AAAATATCAA
*
12281050 AAATATTATAAAAACTATTAAAACTATT
1 AAATATTATAAAAACTATTAAAACTATG
*
12281078 AAATATTATAAAATA-TTTTGAAAA-TATG
1 AAATATTATAAAA-ACTATT-AAAACTATG
12281106 AAATAT
1 AAATAT
12281112 AATATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (28 bp):
AAATATTATAAAAACTATTAAAACTATG
Found at i:12289278 original size:23 final size:23
Alignment explanation
Indices: 12289251--12289303 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
12289241 TTATCTGATA
*
12289251 TGTGTCGTAATGACACAATATGG
1 TGTGTAGTAATGACACAATATGG
12289274 TGTGTAGTAATGACACAATATGG
1 TGTGTAGTAATGACACAATATGG
12289297 TGTGTAG
1 TGTGTAG
12289304 GGATGACTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.32
Consensus pattern (23 bp):
TGTGTAGTAATGACACAATATGG
Found at i:12289309 original size:23 final size:23
Alignment explanation
Indices: 12289259--12289310 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
12289249 TATGTGTCGT
*
12289259 AATGACACAATATGGTGTGTAGT
1 AATGACACAATATGGTGTGTAGG
12289282 AATGACACAATATGGTGTGTAGG
1 AATGACACAATATGGTGTGTAGG
*
12289305 GATGAC
1 AATGAC
12289311 TGAGTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.27
Consensus pattern (23 bp):
AATGACACAATATGGTGTGTAGG
Found at i:12292254 original size:24 final size:25
Alignment explanation
Indices: 12292226--12292281 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
12292216 TCATCATATA
12292226 CATGTATCATCCATTT-CA-ATATTT
1 CATGTATCAT-CATTTCCATATATTT
* *
12292250 CATGTACCATCATTTCCATGTATTT
1 CATGTATCATCATTTCCATATATTT
12292275 CATGTAT
1 CATGTAT
12292282 ATACCTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.19
24 11 0.41
25 11 0.41
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.45
Consensus pattern (25 bp):
CATGTATCATCATTTCCATATATTT
Found at i:12292474 original size:25 final size:25
Alignment explanation
Indices: 12292422--12292509 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 25
12292412 GTACATGTAT
*
12292422 GCTCATACAAGCT--ATAAACGGTAA
1 GCTCATACGAGCTGAAT-AACGGTAA
* * *
12292446 GCTCCTTCGAGCTGAATAACGGTAT
1 GCTCATACGAGCTGAATAACGGTAA
* *
12292471 GCTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
12292496 GCTCATAAGAGCTG
1 GCTCATACGAGCTG
12292510 GAATCAGTAA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 10 0.19
25 40 0.77
26 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:12301628 original size:260 final size:260
Alignment explanation
Indices: 12301167--12301689 Score: 983
Period size: 260 Copynumber: 2.0 Consensus size: 260
12301157 ATTTGTGAAT
12301167 TTTTTGATGATTGAATAAGGCTGACATGTTAAGTTTATTTTACTTTGGATAGTTGTTGTTTATGT
1 TTTTTGATGATTGAATAAGGCTGACATGTTAAGTTTATTTTACTTTGGATAGTTGTTGTTTATGT
*
12301232 TTAAATTGTGGTTCCAATTAGAGAATATTGGTTAGGCACATAGGTTGATTGTGAATTGGTATGTT
66 TTAAATTGTGGTTCCAATTAGAGAATATTGGTTAGGCACATAGGTTGACTGTGAATTGGTATGTT
* *
12301297 TTTGCATGTTTTGGCACATTTTTAATAGATTTCAATGTTGGTTAAAGCATAGCTTGGAGCCTAAG
131 TTTGCATGTTTTGACACATTTTTAATAGATTTCAATGTTGGTTAAAGCATAGCTTGCAGCCTAAG
12301362 TTTTAGTGTGTGAGATGGTTTGAATTTAAAGGTGTTTTTGGGCACATATAACCTGTGACACAGTC
196 TTTTAGTGTGTGAGATGGTTTGAATTTAAAGGTGTTTTTGGGCACATATAACCTGTGACACAGTC
* *
12301427 TTTTTGATGATTGAATAAGGTTGACATGTTGAGTTTATTTTACTTTGGATAGTTGTTGTTTATGT
1 TTTTTGATGATTGAATAAGGCTGACATGTTAAGTTTATTTTACTTTGGATAGTTGTTGTTTATGT
12301492 TTAAATTGTGGTTCCAATTAGAGAATATTGGTTAGGCACATAGGTTGACTGTGAATTGGTATGTT
66 TTAAATTGTGGTTCCAATTAGAGAATATTGGTTAGGCACATAGGTTGACTGTGAATTGGTATGTT
*
12301557 TTTGCATGTTTTGACACATTTTTAATAGGTTTCAATGTTGGTTAAAGCATAGCTTGCAGCCTAAG
131 TTTGCATGTTTTGACACATTTTTAATAGATTTCAATGTTGGTTAAAGCATAGCTTGCAGCCTAAG
*
12301622 TTTTAGTGTGTGAGATGGTTTGTATTTAAAGGTGTTTTTGGGCACATATAACCTGTGACACAGTC
196 TTTTAGTGTGTGAGATGGTTTGAATTTAAAGGTGTTTTTGGGCACATATAACCTGTGACACAGTC
12301687 TTT
1 TTT
12301690 CACATGGCCG
Statistics
Matches: 256, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
260 256 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.43
Consensus pattern (260 bp):
TTTTTGATGATTGAATAAGGCTGACATGTTAAGTTTATTTTACTTTGGATAGTTGTTGTTTATGT
TTAAATTGTGGTTCCAATTAGAGAATATTGGTTAGGCACATAGGTTGACTGTGAATTGGTATGTT
TTTGCATGTTTTGACACATTTTTAATAGATTTCAATGTTGGTTAAAGCATAGCTTGCAGCCTAAG
TTTTAGTGTGTGAGATGGTTTGAATTTAAAGGTGTTTTTGGGCACATATAACCTGTGACACAGTC
Found at i:12303546 original size:14 final size:15
Alignment explanation
Indices: 12303514--12303552 Score: 62
Period size: 14 Copynumber: 2.6 Consensus size: 15
12303504 GTGTAGATAA
12303514 TAAAATTTAAATTCTT
1 TAAAATTTAAA-TCTT
12303530 TAAAATTTAAA-CTT
1 TAAAATTTAAATCTT
12303544 TAAAATTTA
1 TAAAATTTA
12303553 GTTAATCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 12 0.52
16 11 0.48
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (15 bp):
TAAAATTTAAATCTT
Found at i:12303596 original size:31 final size:30
Alignment explanation
Indices: 12303561--12303648 Score: 110
Period size: 31 Copynumber: 3.0 Consensus size: 30
12303551 TAGTTAATCA
12303561 ATAATAATTTTGAAACTAATTTAAAATTTAG
1 ATAATAATTTT-AAACTAATTTAAAATTTAG
* *
12303592 ATAATAAGTTT-AA--AATTTAAATTTTAG
1 ATAATAATTTTAAACTAATTTAAAATTTAG
*
12303619 ATAATAAATTTTAAGCTAATTTAAAATTTA
1 ATAAT-AATTTTAAACTAATTTAAAATTTA
12303649 AACTATTTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 18 0.38
28 5 0.10
29 3 0.06
31 22 0.46
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (30 bp):
ATAATAATTTTAAACTAATTTAAAATTTAG
Found at i:12303608 original size:27 final size:29
Alignment explanation
Indices: 12303578--12303648 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 29
12303568 TTTTGAAACT
12303578 AATTTAAAATTTAGATAAT-AAGTTTAA-
1 AATTTAAAATTTAGATAATAAAGTTTAAC
* *
12303605 AATTTAAATTTTAGATAATAAATTTTAAGC
1 AATTTAAAATTTAGATAATAAAGTTTAA-C
12303635 TAATTTAAAATTTA
1 -AATTTAAAATTTA
12303649 AACTATTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 18 0.49
28 7 0.19
31 12 0.32
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (29 bp):
AATTTAAAATTTAGATAATAAAGTTTAAC
Found at i:12303664 original size:16 final size:17
Alignment explanation
Indices: 12303605--12303664 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 17
12303595 ATAAGTTTAA
*
12303605 AATTTAAATTTTAGA-T
1 AATTTAAATTTTAAACT
*
12303621 AA--TAAATTTTAAGCT
1 AATTTAAATTTTAAACT
*
12303636 AATTTAAAATTTAAACT
1 AATTTAAATTTTAAACT
*
12303653 -ATTTCAATTTTA
1 AATTTAAATTTTA
12303665 TTTAATATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 9 0.26
15 3 0.09
16 12 0.34
17 11 0.31
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (17 bp):
AATTTAAATTTTAAACT
Found at i:12305553 original size:47 final size:47
Alignment explanation
Indices: 12305484--12305574 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
12305474 TCTATGTCCT
*
12305484 TAAATTTTCGGTTAACCTTTTATATGTTAGTACTATCACTAAAGCCC
1 TAAATTTTCGGTTAACCTTTTATAAGTTAGTACTATCACTAAAGCCC
** *
12305531 TAAATTTTTTGTTAACCTTTTATAAGTTAGTACTATCATTAAAG
1 TAAATTTTCGGTTAACCTTTTATAAGTTAGTACTATCACTAAAG
12305575 ACAATTGGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (47 bp):
TAAATTTTCGGTTAACCTTTTATAAGTTAGTACTATCACTAAAGCCC
Found at i:12309276 original size:20 final size:21
Alignment explanation
Indices: 12309253--12309295 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
12309243 CTTAGTTTCG
12309253 TTTTGTCATTTT-TTTTTATT
1 TTTTGTCATTTTATTTTTATT
*
12309273 TTTTTTCATTTTCATTTTTATT
1 TTTTGTCATTTT-ATTTTTATT
12309295 T
1 T
12309296 ATTTTTCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
22 9 0.45
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTGTCATTTTATTTTTATT
Found at i:12309896 original size:25 final size:23
Alignment explanation
Indices: 12309852--12309898 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 23
12309842 TTTAAAATTT
12309852 TTATTTTTATCATTATTATTATA
1 TTATTTTTATCATTATTATTATA
12309875 TTATTTATTATCATTTATTATTAT
1 TTATTT-TTATCA-TTATTATTAT
12309899 TTTTATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 6 0.27
24 6 0.27
25 10 0.45
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (23 bp):
TTATTTTTATCATTATTATTATA
Found at i:12310223 original size:22 final size:21
Alignment explanation
Indices: 12310197--12310248 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
12310187 ATAATTTAAA
12310197 ATATACATTCATTTTCTATAGT
1 ATATACATTCATTTTC-ATAGT
* * *
12310219 ATATATATACATTTTCATATT
1 ATATACATTCATTTTCATAGT
*
12310240 ATAAACATT
1 ATATACATT
12310249 TTTATTGTTC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (21 bp):
ATATACATTCATTTTCATAGT
Done.