Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 187 of 190
Found at i:32274284 original size:16 final size:16
Alignment explanation
Indices: 32274248--32274284 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
32274238 TTTGATAATT
*
32274248 AAAAAATAAAAAATAA
1 AAAAAATAAAAAACAA
*
32274264 TAAAAATAAAAAACAA
1 AAAAAATAAAAAACAA
32274280 AAAAA
1 AAAAA
32274285 GTAGTTGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAAAATAAAAAACAA
Found at i:32275636 original size:54 final size:56
Alignment explanation
Indices: 32275578--32275697 Score: 165
Period size: 54 Copynumber: 2.2 Consensus size: 56
32275568 TTTTCTTTCA
* * *
32275578 AAAAAAATAA-TAAAAAAATTTCTAAATAGGCCC-ATGGTGAAAAATTTAGAAA-T
1 AAAAAAATAATTAAAAAAATTTCTAAATAGACCCAATGATGAAAAATTTAAAAATT
*
32275631 AAAAAAATAATTAAAAAAATTTCTAAATAGACCCAAATTATGAAAAATTTAAAAATT
1 AAAAAAATAATTAAAAAAATTTCTAAATAGACCC-AATGATGAAAAATTTAAAAATT
32275688 CAAAAAAATA
1 -AAAAAAATA
32275698 TGTTTTTAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
53 10 0.17
54 22 0.38
56 16 0.28
57 1 0.02
58 9 0.16
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.25
Consensus pattern (56 bp):
AAAAAAATAATTAAAAAAATTTCTAAATAGACCCAATGATGAAAAATTTAAAAATT
Found at i:32277754 original size:37 final size:37
Alignment explanation
Indices: 32277704--32277778 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
32277694 ACATGACATG
*
32277704 ATCCATGTGTATTTATATTATTTAATAAATATGTTAT
1 ATCCATGTGTATTTATATAATTTAATAAATATGTTAT
32277741 ATCCATGTGTATTTATATAATTTAATAAATATGTTAT
1 ATCCATGTGTATTTATATAATTTAATAAATATGTTAT
32277778 A
1 A
32277779 CTTAAATTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.49
Consensus pattern (37 bp):
ATCCATGTGTATTTATATAATTTAATAAATATGTTAT
Found at i:32277863 original size:16 final size:16
Alignment explanation
Indices: 32277818--32277868 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
32277808 TATCCACAAC
32277818 TAATTAAATTCATGAA
1 TAATTAAATTCATGAA
* *
32277834 T-GTCATAGATTCATGAA
1 TAAT--TAAATTCATGAA
32277851 TAATTAAATTCATGAA
1 TAATTAAATTCATGAA
32277867 TA
1 TA
32277869 GTTGGATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 1 0.04
16 14 0.50
17 12 0.43
18 1 0.04
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (16 bp):
TAATTAAATTCATGAA
Found at i:32279691 original size:23 final size:24
Alignment explanation
Indices: 32279664--32279710 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
32279654 ATGTCTTAAA
32279664 AACA-CAATAAAAAAAAAAAAAAG
1 AACACCAATAAAAAAAAAAAAAAG
* * *
32279687 AACACCATTAAGAAAAAAGAAAAG
1 AACACCAATAAAAAAAAAAAAAAG
32279711 CTGGAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.74, C:0.11, G:0.09, T:0.06
Consensus pattern (24 bp):
AACACCAATAAAAAAAAAAAAAAG
Found at i:32281036 original size:2 final size:2
Alignment explanation
Indices: 32281029--32281055 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32281019 TACCTACTTT
32281029 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32281056 GCATTTCTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32283862 original size:2 final size:2
Alignment explanation
Indices: 32283855--32283880 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32283845 CTAACATCTC
32283855 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
32283881 TAGTGTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32287428 original size:357 final size:358
Alignment explanation
Indices: 32286908--32287582 Score: 927
Period size: 359 Copynumber: 1.9 Consensus size: 358
32286898 ATTATAAAGG
* * *
32286908 AAATAAAATTTATAAAATTTTTTAAATGAAACGAAAATCTAATTTTTCTCTTAATTTTAAAAATT
1 AAATAAAATTTATAAAATTTTTAAAAGGAAACGAAAATCTAATTTTTCCCTTAATTTTAAAAATT
* * * * * ** *
32286973 CAACTAGAACCAGGGTAAAATTGTATTTTAGTTTCCTTCAAAATAATTATAAAATTTTTATTTTT
66 CAACTAAAACAAAGGAAAAATGGTACCTTAGTTTCCTTCAAAATAATTATAAAAATTTTATTTTT
* * *
32287038 TTAATAAATATATTTTAGTATGATAATAAAAAGTAATAATTTTGAGTCCATTA-CCTAATTCTAT
131 TTAATAAATATATTTTAGTATGATAACAAAAAGTAATAATTATGAATCCATTACCCTAATTCTAT
** ** *
32287102 TT-ATTTTTATTTTATTTTATTAAATTTTATTT-TTTCAATATTTACAAATTTTGATAATAATAT
196 TTCATTTTTATTTTATTTTAGGAAATTTTATTTCCCT-AATATTTACAAATTTTGATAAAAATAT
* *
32287165 AAAATTAATTCCTATTAAAAATAAAGTTAG-AAACTATTTTTAACAAAAAAGAAAGAAATAATGC
260 AAAATTAAATCCAATTAAAAATAAAGTT-GTAAACTATTTTTAACAAAAAAGAAAGAAATAATGC
32287229 ATACCAGAATAATCTAAATATATTTATTAGTAAAA
324 ATACCAGAATAATCTAAATATATTTATTAGTAAAA
* * *
32287264 AAATAAAATTTTTAAAA-TTTTAAAAGGAAAC-AAAAT-TATCGTTTTTCCCTTAATTTTGAAAA
1 AAATAAAATTTATAAAATTTTTAAAAGGAAACGAAAATCTA--ATTTTTCCCTTAATTTTAAAAA
* * *
32287326 TTCAACTTAAAATCAAAGGAAAAAGTGGTACCTTATTTTCTTTCATAATAATTATAAAAATTTTA
64 TTCAAC-TAAAA-CAAAGGAAAAA-TGGTACCTTAGTTTCCTTCAAAATAATTATAAAAATTTTA
*
32287391 -TTTTTTAATAAATATATTTT-GTTATGATAGCAAAAAGTAATAATTATGAATCCATTACCCTAA
126 TTTTTTTAATAAATATATTTTAG-TATGATAACAAAAAGTAATAATTATGAATCCATTACCCTAA
* *
32287454 TTCTATTTCTTTTTTATTTTATTTTAGGAAATTTTATTTCCCTAATATTTATAAATTTTGATAAA
190 TTCTATTTCATTTTTATTTTATTTTAGGAAATTTTATTTCCCTAATATTTACAAATTTTGATAAA
* *
32287519 AATATAAAATTAAATCCAATTAAAAATAAAGTTGTAGATTATTTTTAACAAAAAAGAAAGAAAT
255 AATATAAAATTAAATCCAATTAAAAATAAAGTTGTAAACTATTTTTAACAAAAAAGAAAGAAAT
32287583 GAAATATATT
Statistics
Matches: 277, Mismatches: 32, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
353 2 0.01
354 5 0.02
355 37 0.13
356 21 0.08
357 59 0.21
358 47 0.17
359 105 0.38
360 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (358 bp):
AAATAAAATTTATAAAATTTTTAAAAGGAAACGAAAATCTAATTTTTCCCTTAATTTTAAAAATT
CAACTAAAACAAAGGAAAAATGGTACCTTAGTTTCCTTCAAAATAATTATAAAAATTTTATTTTT
TTAATAAATATATTTTAGTATGATAACAAAAAGTAATAATTATGAATCCATTACCCTAATTCTAT
TTCATTTTTATTTTATTTTAGGAAATTTTATTTCCCTAATATTTACAAATTTTGATAAAAATATA
AAATTAAATCCAATTAAAAATAAAGTTGTAAACTATTTTTAACAAAAAAGAAAGAAATAATGCAT
ACCAGAATAATCTAAATATATTTATTAGTAAAA
Found at i:32289865 original size:2 final size:2
Alignment explanation
Indices: 32289858--32289882 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32289848 TACACAAAAC
32289858 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32289883 ATTAGGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32292072 original size:15 final size:16
Alignment explanation
Indices: 32292049--32292084 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
32292039 CCACAAAATT
*
32292049 AAAATAAAAAGAAAA-
1 AAAAAAAAAAGAAAAG
32292064 AAAAAAAAAAGAAAAG
1 AAAAAAAAAAGAAAAG
32292080 AAAAA
1 AAAAA
32292085 GAAACCCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAGAAAAG
Found at i:32293539 original size:69 final size:69
Alignment explanation
Indices: 32293428--32293564 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
32293418 AGTCAAGAAG
* *
32293428 ATAAAACAATGACTTTAGAACAAGTTTGGAACCCGCCCCACTTCCATCC-GCCCTAATACAATCA
1 ATAAAACAATGAATTTAGAACAAGTTTGGAACCCACCCCACTTCCA-CCTGCCCTAATACAATCA
32293492 GGAGC
65 GGAGC
32293497 ATAAAACAATGAATTTAGAACAAGTTTGGAACCCACCCCACTTCCACCTGCCCTAATACAATCAG
1 ATAAAACAATGAATTTAGAACAAGTTTGGAACCCACCCCACTTCCACCTGCCCTAATACAATCAG
32293562 GAG
66 GAG
32293565 AAAGAAGACT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
68 2 0.03
69 63 0.97
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.20
Consensus pattern (69 bp):
ATAAAACAATGAATTTAGAACAAGTTTGGAACCCACCCCACTTCCACCTGCCCTAATACAATCAG
GAGC
Found at i:32296041 original size:2 final size:2
Alignment explanation
Indices: 32296034--32296060 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32296024 CCAAAAGCCT
32296034 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32296061 GTGCCCTTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32296747 original size:2 final size:2
Alignment explanation
Indices: 32296740--32296765 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32296730 ATTTTGTTTC
32296740 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
32296766 TCATCAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32297712 original size:66 final size:65
Alignment explanation
Indices: 32297560--32297713 Score: 179
Period size: 66 Copynumber: 2.4 Consensus size: 65
32297550 CAAAATAGTG
* * * *
32297560 ATTTAAGGTGTTTTTAAT-AAAAAAAACACTTTAAATAATTCTCAATATTTTTTTTAAAAGGGAT
1 ATTTAAGGTATTTTTAATAAAAAAAAACACCTTAAATAATCCTC-ATAATTTTTTTAAAAGGGAT
32297624 T
65 T
* * * *
32297625 ATTTAAGGCATTTTTAGTAAAAAAAAATACCTTAAATAATACCTTC-TAATTTTTTTAAAA-GTA
1 ATTTAAGGTATTTTTAATAAAAAAAAACACCTTAAATAAT-CC-TCATAATTTTTTTAAAAGGGA
32297688 TT
64 TT
32297690 ATTTAAGGTATTTTTAACTAAAAA
1 ATTTAAGGTATTTTTAA-TAAAAA
32297714 CGCTTTAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
65 34 0.45
66 38 0.51
67 1 0.01
68 2 0.03
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (65 bp):
ATTTAAGGTATTTTTAATAAAAAAAAACACCTTAAATAATCCTCATAATTTTTTTAAAAGGGATT
Found at i:32297713 original size:65 final size:64
Alignment explanation
Indices: 32297560--32297713 Score: 177
Period size: 65 Copynumber: 2.4 Consensus size: 64
32297550 CAAAATAGTG
* * * *
32297560 ATTTAAGGTGTTTTTAATAAAAAAAACACTTTAAATAATTCTCAATATTTTTTTTAAAAGGGATT
1 ATTTAAGGTATTTTTAATAAAAAAAACACCTTAAATAATCCTC-ATAATTTTTTTAAAAGGGATT
* * * *
32297625 ATTTAAGGCATTTTTAGTAAAAAAAAATACCTTAAATAATACCTTC-TAATTTTTTTAAAA-GTA
1 ATTTAAGGTATTTTTAAT-AAAAAAAACACCTTAAATAAT-CC-TCATAATTTTTTTAAAAGGGA
32297688 TT
63 TT
32297690 ATTTAAGGTATTTTTAACTAAAAA
1 ATTTAAGGTATTTTTAA-TAAAAA
32297714 CGCTTTAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
65 39 0.52
66 33 0.44
67 1 0.01
68 2 0.03
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (64 bp):
ATTTAAGGTATTTTTAATAAAAAAAACACCTTAAATAATCCTCATAATTTTTTTAAAAGGGATT
Found at i:32297871 original size:180 final size:177
Alignment explanation
Indices: 32297673--32298016 Score: 451
Period size: 180 Copynumber: 1.9 Consensus size: 177
32297663 ATACCTTCTA
* * * *
32297673 ATTTTTTTAAAAGTATTATTTAAG-GTATTTTTAACTAAAAACGCTTTAAATAA-TCAATTTCAT
1 ATTTTTTGAAAAGTATTATTTAAGAGT-TTTTT-ACTAAAAACACCTTAAATAATTC-ATTTAAT
* * * *
32297736 TACTTATAAGATTTAATAGATAAAATATAAAAAAAATTAGAGTAGCTTAGTTGGTTAGAA-TATA
63 TACTTATAAGATTTAAGAGATAAAATAT-AAAAAAATTAGAATAGCTCA-TTGGTTA-AAGCATA
* * ** * *
32297800 TGATTATTAATTATAAGGTCCTAGGTTCGATTTTTTTTTTCTAGCGCTTTAAT
125 TGACTATTAATCATAAGGTAATAGGTTCAATCTTTTTTTTCTAGCGCTTTAAT
* *
32297853 ATTTTTTGAAAGGTATTATTTAAGAAGTTTTTTACTAAAAATACCTTAAATAATTCATTTAATTA
1 ATTTTTTGAAAAGTATTATTTAAG-AGTTTTTTACTAAAAACACCTTAAATAATTCATTTAATTA
*
32297918 CTTATAAGATTTAAGAGATAAAATATAAAAAAATTAGAATAGCTCATTGGTTAAAGCATATGCCT
65 CTTATAAGATTTAAGAGATAAAATATAAAAAAATTAGAATAGCTCATTGGTTAAAGCATATGACT
32297983 ATTAATCATAAGGTAATAGGTTCAATCTTTTTTT
130 ATTAATCATAAGGTAATAGGTTCAATCTTTTTTT
32298017 AACGCTTATT
Statistics
Matches: 143, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
177 2 0.01
178 42 0.29
179 18 0.13
180 72 0.50
181 7 0.05
182 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (177 bp):
ATTTTTTGAAAAGTATTATTTAAGAGTTTTTTACTAAAAACACCTTAAATAATTCATTTAATTAC
TTATAAGATTTAAGAGATAAAATATAAAAAAATTAGAATAGCTCATTGGTTAAAGCATATGACTA
TTAATCATAAGGTAATAGGTTCAATCTTTTTTTTCTAGCGCTTTAAT
Found at i:32298368 original size:122 final size:122
Alignment explanation
Indices: 32298151--32298371 Score: 295
Period size: 122 Copynumber: 1.8 Consensus size: 122
32298141 TAAGAAAGGC
* ** *
32298151 TTTAAATAATCTTAAAAAAAAATTAATATTATTTAAGGTGTTTTTTTAATCAAAAAACGTCTTAA
1 TTTAAATAATCATAAAAAAAAATTAATATTATTTAAGACG-TTTTTTAATCAAAAAACATCTTAA
32298216 ATAATGCTAAACAATTTTTTTAAGGAATTATTTAAAATATTTTTTTATTAGAAAACGT
65 ATAATGCTAAACAATTTTTTTAAGGAATTATTTAAAATATTTTTTTATTAGAAAACGT
* * *
32298274 TTTAAATAATCCAT-AAAACAAATTAATATTGTTTAAGACG-TTTTTGATCAAAAAA-ATACCTT
1 TTTAAATAAT-CATAAAAAAAAATTAATATTATTTAAGACGTTTTTTAATCAAAAAACAT--CTT
* * *
32298336 AAATAATGTTGAACAATTTTTTTAAGGGATTATTTA
63 AAATAATGCTAAACAATTTTTTTAAGGAATTATTTA
32298372 TGGTTTTTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
120 1 0.01
121 14 0.16
122 36 0.42
123 32 0.38
124 2 0.02
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (122 bp):
TTTAAATAATCATAAAAAAAAATTAATATTATTTAAGACGTTTTTTAATCAAAAAACATCTTAAA
TAATGCTAAACAATTTTTTTAAGGAATTATTTAAAATATTTTTTTATTAGAAAACGT
Found at i:32298381 original size:122 final size:122
Alignment explanation
Indices: 32298151--32298405 Score: 291
Period size: 122 Copynumber: 2.1 Consensus size: 122
32298141 TAAGAAAGGC
* ** *
32298151 TTTAAATAATCTTAAAAAAAAATTAATATTATTTAAGGTGTTTTTTTAATCAAAAAACGTCTTAA
1 TTTAAATAATCATAAAAAAAAATTAATATTATTTAAGACG-TTTTTTAATCAAAAAACATCTTAA
*
32298216 ATAATGCTAAACAATTTTTTTAAGGAATTATTTAAAATATTTTTTTATTAGAAAACGT
65 ATAATGCTAAACAATTTTTTTAAGGAATTATTTAAAATATTTTTTTATTAAAAAACGT
* * *
32298274 TTTAAATAATCCAT-AAAACAAATTAATATTGTTTAAGACG-TTTTTGATCAAAAAA-ATACCTT
1 TTTAAATAAT-CATAAAAAAAAATTAATATTATTTAAGACGTTTTTTAATCAAAAAACAT--CTT
* * * *** * * *
32298336 AAATAATGTTGAACAATTTTTTTAAGGGATTATTTATGGTTTTTTTTTGTTAAAAAATGT
63 AAATAATGCTAAACAATTTTTTTAAGGAATTATTTAAAATATTTTTTTATTAAAAAACGT
*
32298396 CTTAAATAAT
1 TTTAAATAAT
32298406 TTTTTTCAAA
Statistics
Matches: 111, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
120 1 0.01
121 14 0.13
122 62 0.56
123 32 0.29
124 2 0.02
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (122 bp):
TTTAAATAATCATAAAAAAAAATTAATATTATTTAAGACGTTTTTTAATCAAAAAACATCTTAAA
TAATGCTAAACAATTTTTTTAAGGAATTATTTAAAATATTTTTTTATTAAAAAACGT
Found at i:32314347 original size:2 final size:2
Alignment explanation
Indices: 32314340--32314365 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32314330 ATCTATCCAA
32314340 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
32314366 TCTGTTCCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32317874 original size:6 final size:6
Alignment explanation
Indices: 32317858--32317890 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
32317848 AAAAAGCCGA
32317858 TCTGCCT TCTGCT TCTGCT TCTGCT TCTGCT TC
1 TCTG-CT TCTGCT TCTGCT TCTGCT TCTGCT TC
32317891 CGGGTTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.00, C:0.36, G:0.15, T:0.48
Consensus pattern (6 bp):
TCTGCT
Found at i:32318775 original size:2 final size:2
Alignment explanation
Indices: 32318768--32318800 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32318758 TTCGAATTCA
32318768 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32318801 GATAACAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32324324 original size:24 final size:26
Alignment explanation
Indices: 32324292--32324353 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
32324282 TTTTTTTAAT
32324292 AAATCAATATATTTTA-ATTATTT-TA
1 AAAT-AATATATTTTATATTATTTATA
32324317 AAATAATA-A-TTTATATTATTTAATA
1 AAATAATATATTTTATATTATTT-ATA
32324342 AAA-AATATATTT
1 AAATAATATATTT
32324354 ACTAAACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
22 4 0.12
23 8 0.25
24 8 0.25
25 10 0.31
26 2 0.06
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AAATAATATATTTTATATTATTTATA
Found at i:32324437 original size:16 final size:16
Alignment explanation
Indices: 32324416--32324447 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32324406 AAAAAATTAA
32324416 AATTTTTTATTATTTT
1 AATTTTTTATTATTTT
*
32324432 AATTTTTTTTTATTTT
1 AATTTTTTATTATTTT
32324448 CCCCTTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
AATTTTTTATTATTTT
Found at i:32332769 original size:28 final size:28
Alignment explanation
Indices: 32332737--32332793 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
32332727 AACTGGTTGT
32332737 GATAACTGGTATCTTTTGCAACTCTATA
1 GATAACTGGTATCTTTTGCAACTCTATA
32332765 GATAACTGGTATCTTTTGCAACTCTATA
1 GATAACTGGTATCTTTTGCAACTCTATA
32332793 G
1 G
32332794 TATCCTGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (28 bp):
GATAACTGGTATCTTTTGCAACTCTATA
Found at i:32334142 original size:4 final size:4
Alignment explanation
Indices: 32334133--32334163 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
32334123 TCATCATTTC
32334133 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCT
32334164 ACCACCAGCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TCTT
Found at i:32337908 original size:2 final size:2
Alignment explanation
Indices: 32337901--32337925 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32337891 GCTTCAGCTT
32337901 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
32337926 TCTATATGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32340286 original size:2 final size:2
Alignment explanation
Indices: 32340281--32340323 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
32340271 AAAATCTTTC
32340281 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32340322 TA
1 TA
32340324 GGACCAATGC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32342555 original size:3 final size:3
Alignment explanation
Indices: 32342547--32342585 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
32342537 TAAATAAATA
32342547 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32342586 GTAAAACAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32349678 original size:2 final size:2
Alignment explanation
Indices: 32349671--32349723 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
32349661 TTCCATATTT
* *
32349671 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32349713 TA TA TA TA TA T
1 TA TA TA TA TA T
32349724 TTTTATCCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:32363040 original size:15 final size:15
Alignment explanation
Indices: 32363016--32363050 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32363006 AGATTAATGG
*
32363016 ATTTTGGGTAACAAT
1 ATTTTAGGTAACAAT
*
32363031 ATTTTAGGTAAGAAT
1 ATTTTAGGTAACAAT
32363046 ATTTT
1 ATTTT
32363051 GTGTTCCTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (15 bp):
ATTTTAGGTAACAAT
Found at i:32366049 original size:21 final size:21
Alignment explanation
Indices: 32366025--32366079 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
32366015 TTTGTATTTT
*
32366025 TGCTATGTAAATGATGGATCA
1 TGCTATATAAATGATGGATCA
32366046 TGCTATATAAATGATGGATCA
1 TGCTATATAAATGATGGATCA
*
32366067 TGCT-TATGAATGA
1 TGCTATATAAATGA
32366080 AATGAGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 8 0.25
21 24 0.75
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.35
Consensus pattern (21 bp):
TGCTATATAAATGATGGATCA
Found at i:32366513 original size:27 final size:28
Alignment explanation
Indices: 32366483--32366536 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
32366473 TTGAATGGTA
*
32366483 ATATATTTTG-CAATGATTTATGAATTG
1 ATATATTTTGACAATGATCTATGAATTG
*
32366510 ATATATTTTGACATTGATCTATGAATT
1 ATATATTTTGACAATGATCTATGAATT
32366537 TATGAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (28 bp):
ATATATTTTGACAATGATCTATGAATTG
Found at i:32366586 original size:28 final size:29
Alignment explanation
Indices: 32366507--32366587 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 29
32366497 GATTTATGAA
* *
32366507 TTGATATATTTTGACATTGATCTATGAATTT
1 TTGAAATATTTTGACATT-AT-GATGAATTT
* **
32366538 ATGAAATA-TTTGACAGAATGATG-ATTT
1 TTGAAATATTTTGACATTATGATGAATTT
32366565 TTGAAATATTTTGACATTATGAT
1 TTGAAATATTTTGACATTATGAT
32366588 TTGACGAATG
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
27 11 0.27
28 15 0.37
29 2 0.05
30 7 0.17
31 6 0.15
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.46
Consensus pattern (29 bp):
TTGAAATATTTTGACATTATGATGAATTT
Found at i:32368143 original size:2 final size:2
Alignment explanation
Indices: 32368136--32368171 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
32368126 TGGTTGATCA
32368136 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32368172 TGAAGTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32377659 original size:12 final size:12
Alignment explanation
Indices: 32377642--32377678 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
32377632 AGTAGTATCT
32377642 ATAGATAAATAG
1 ATAGATAAATAG
32377654 ATAGATAAATAG
1 ATAGATAAATAG
*
32377666 ATATATAAA-AG
1 ATAGATAAATAG
32377677 AT
1 AT
32377679 GACAAGGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (12 bp):
ATAGATAAATAG
Found at i:32378135 original size:2 final size:2
Alignment explanation
Indices: 32378128--32378160 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
32378118 GCTTTAGTTT
32378128 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32378161 CTTGATATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:32379511 original size:3 final size:3
Alignment explanation
Indices: 32379503--32379542 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
32379493 CGATATGTTG
32379503 ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
32379543 CCTCCAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:32379518 original size:20 final size:20
Alignment explanation
Indices: 32379503--32379542 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 20
32379493 CGATATGTTG
32379503 ATAATAATAATAATATAATA
1 ATAATAATAATAATATAATA
32379523 ATAATAATAATAATAATAAT
1 ATAATAATAATAAT-ATAAT
32379543 CCTCCAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAATAATAATAATATAATA
Found at i:32391008 original size:2 final size:2
Alignment explanation
Indices: 32391001--32391030 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32390991 TACGTATGTG
32391001 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32391031 AAGTGTAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32398155 original size:5 final size:5
Alignment explanation
Indices: 32398145--32398171 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
32398135 CTATGTAAAT
32398145 TTTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT
32398172 AGATAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:32401570 original size:2 final size:2
Alignment explanation
Indices: 32401563--32401592 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
32401553 TCAATGCTGA
*
32401563 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32401593 GTTGATACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:32406853 original size:22 final size:22
Alignment explanation
Indices: 32406827--32406870 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
32406817 TTTATATTTA
* *
32406827 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAAATAAG
32406849 TATTTGTATCCCTAGAAATAAG
1 TATTTGTATCCCTAGAAATAAG
32406871 GAAAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (22 bp):
TATTTGTATCCCTAGAAATAAG
Found at i:32407044 original size:22 final size:22
Alignment explanation
Indices: 32407019--32407060 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
32407009 TATATATTTA
32407019 TATTTATAT-CTCTAGAATTAAG
1 TATTTATATAC-CTAGAATTAAG
*
32407041 TATTTGTATACCTAGAATTA
1 TATTTATATACCTAGAATTA
32407061 CGGACAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTATATACCTAGAATTAAG
Found at i:32407331 original size:100 final size:101
Alignment explanation
Indices: 32407154--32407346 Score: 300
Period size: 100 Copynumber: 1.9 Consensus size: 101
32407144 AGTTGTATAT
* *
32407154 CTAAGGTGCTTGTATAATTCTTTATGAGCAGTTTTTCAATATACATTCAATTTTACTCTTAGTTT
1 CTAAGGAGATTGTATAATTCTTTATGAGCAGTTTTTCAATATACATTCAATTTTACTCTTAGTTT
*
32407219 TTCACATAGTTTTATTTATTAGTTTTTCCACAAAAC
66 TCCACATAGTTTTATTTATTAGTTTTTCCACAAAAC
* * *
32407255 CTAAGGAGATTGTATAGTTCTTTATGAGCAG-TTTTCAATCTACATTCAGTTTTACTCTTAGTTT
1 CTAAGGAGATTGTATAATTCTTTATGAGCAGTTTTTCAATATACATTCAATTTTACTCTTAGTTT
*
32407319 TCCACACT-GTTTTATTTCTTAGTTTTTC
66 TCCACA-TAGTTTTATTTATTAGTTTTTC
32407347 TACATGGTAT
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
100 55 0.65
101 29 0.35
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (101 bp):
CTAAGGAGATTGTATAATTCTTTATGAGCAGTTTTTCAATATACATTCAATTTTACTCTTAGTTT
TCCACATAGTTTTATTTATTAGTTTTTCCACAAAAC
Found at i:32417322 original size:90 final size:90
Alignment explanation
Indices: 32417169--32417352 Score: 323
Period size: 90 Copynumber: 2.0 Consensus size: 90
32417159 TTTGTTTAGA
* *
32417169 CTTTGTGCTTTTAGAATGACACAAAACCTCATTAGCAGGAGGAATTAACTTCCTTTCTGCAGATA
1 CTTTGTGCTTTTAGAATGACACAAAACCTCATTAGCAGGAGGAATTAACTTCCTTCCTCCAGATA
32417234 AATCTGATGGAGATGCATCAGGCTT
66 AATCTGATGGAGATGCATCAGGCTT
* *
32417259 CTTTGTGCTTTTAGAATGACACAAAACCTCATTAGCAGGAGGAGTTAACTTCCTTCCTCCAGATG
1 CTTTGTGCTTTTAGAATGACACAAAACCTCATTAGCAGGAGGAATTAACTTCCTTCCTCCAGATA
*
32417324 AATCTGTTGGAGATGCATCAGGCTT
66 AATCTGATGGAGATGCATCAGGCTT
32417349 CTTT
1 CTTT
32417353 TTGTCATCAA
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (90 bp):
CTTTGTGCTTTTAGAATGACACAAAACCTCATTAGCAGGAGGAATTAACTTCCTTCCTCCAGATA
AATCTGATGGAGATGCATCAGGCTT
Found at i:32417405 original size:30 final size:30
Alignment explanation
Indices: 32417369--32417437 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
32417359 TCAACATTCA
* *
32417369 CAAGGGAAGAACCACCTTCCTGAGCACCAT
1 CAAGGGAAGAACCACCTTCCTCAGCACCAC
*
32417399 CAAGGGATGAACCACCTTCCTCAGCACCAC
1 CAAGGGAAGAACCACCTTCCTCAGCACCAC
32417429 CAAGGGAAG
1 CAAGGGAAG
32417438 TAAGACCTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.12
Consensus pattern (30 bp):
CAAGGGAAGAACCACCTTCCTCAGCACCAC
Found at i:32426658 original size:30 final size:30
Alignment explanation
Indices: 32426622--32426697 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
32426612 TTGACAGTTA
32426622 ATGCACCTTCACCAACAGTCAAATATTCTC
1 ATGCACCTTCACCAACAGTCAAATATTCTC
* * * * *
32426652 ATGCACCTTCACAAACTGTCCAGTCTTCTC
1 ATGCACCTTCACCAACAGTCAAATATTCTC
**
32426682 ATGTGCCTTCACCAAC
1 ATGCACCTTCACCAAC
32426698 CTCTTCTCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.28, C:0.36, G:0.09, T:0.28
Consensus pattern (30 bp):
ATGCACCTTCACCAACAGTCAAATATTCTC
Found at i:32435298 original size:2 final size:2
Alignment explanation
Indices: 32435293--32435336 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
32435283 TGTGTGTGTG
*
32435293 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32435335 TA
1 TA
32435337 AATAAGCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:32443876 original size:1 final size:1
Alignment explanation
Indices: 32443870--32443895 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
32443860 TAAGGGCTAC
32443870 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
32443896 CCTATAAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:32444440 original size:2 final size:2
Alignment explanation
Indices: 32444433--32444457 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32444423 AAAGAAAAGG
32444433 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
32444458 TGCTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32455380 original size:21 final size:21
Alignment explanation
Indices: 32455354--32455405 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
32455344 TGCTAAACTT
*
32455354 TAGCACGCTCTTACTTTATTC
1 TAGCACGCTCTTACTTAATTC
* * *
32455375 TAGCACGTTCTTCCTTAATTT
1 TAGCACGCTCTTACTTAATTC
*
32455396 TGGCACGCTC
1 TAGCACGCTC
32455406 CTATTCTCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.29, G:0.13, T:0.40
Consensus pattern (21 bp):
TAGCACGCTCTTACTTAATTC
Found at i:32456671 original size:160 final size:161
Alignment explanation
Indices: 32456406--32456735 Score: 583
Period size: 160 Copynumber: 2.1 Consensus size: 161
32456396 AACTAAGTTT
* * * *
32456406 AAAACTTTTTATAAGTTTAATATCATGTATTGAAGTTATCAAAACTATTAAAACAGAACAATAAT
1 AAAACTTTTGATAAGTTTAATATCATGTATTAAAGCTATCAAAACTATTAAAACAGAACAATAAC
*
32456471 TGTTAATTCGCATATTTACCTTTTAATGGCTAAAAAAGTTCATTCATTGGAATACGTTTGTTATC
66 TGTTAATTCGCATATTTACCTTTTAATGGCTAAAAAAGTTCATTCATTGGAATACGTTTATTATC
32456536 ATAAACTTATGATTTAC-TTTTGCTTTCTTGC
131 ATAAACTTATGATTT-CTTTTTGCTTTCTTGC
32456567 -AAACTTTTGATAAGTTTAATATCATGTATTAAAGCTATCAAAACTATTAAAACAGAACAATAAC
1 AAAACTTTTGATAAGTTTAATATCATGTATTAAAGCTATCAAAACTATTAAAACAGAACAATAAC
*
32456631 TGTTAATTTGCATATTTACCTTTTAATGGCTAAAAAAGTTCATTCATTGGAATACGTTTATTATC
66 TGTTAATTCGCATATTTACCTTTTAATGGCTAAAAAAGTTCATTCATTGGAATACGTTTATTATC
32456696 ATAAACTTATGATTTCTTTTTGCTTTCTTGC
131 ATAAACTTATGATTTCTTTTTGCTTTCTTGC
32456727 AAAACTTTT
1 AAAACTTTT
32456736 TGATCCACTT
Statistics
Matches: 161, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
159 1 0.01
160 152 0.94
161 8 0.05
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.42
Consensus pattern (161 bp):
AAAACTTTTGATAAGTTTAATATCATGTATTAAAGCTATCAAAACTATTAAAACAGAACAATAAC
TGTTAATTCGCATATTTACCTTTTAATGGCTAAAAAAGTTCATTCATTGGAATACGTTTATTATC
ATAAACTTATGATTTCTTTTTGCTTTCTTGC
Found at i:32463196 original size:354 final size:355
Alignment explanation
Indices: 32462571--32463296 Score: 1053
Period size: 354 Copynumber: 2.0 Consensus size: 355
32462561 CCTTTTACAG
* * * *
32462571 TAAAACGCCTTCAATATACCACGATGGTTATAGAAGGCGTTTATTAAAAAATGCGCCTTCAATAT
1 TAAAACGCCTTCAATATACCACGATGGTTATAGAAGACATTTATTAAAAAATACGACTTCAATAT
* ** * * * *
32462636 ATCATTAAACTTAGTAATATATTACGGAAGGTATTTGTTAATAATAGACGCCTTTAATATTTTTT
66 ATCATTAAACTTAGTAATACATTACGGAAGACATTTGTTAATAACAAACGCCTTCAATATTTTTC
* * * * **
32462701 CTCAAAAAATTTTGGGCATTGTTAAAGGCATCTTTTACTGTAAAATACCTTCAATATGCCGTCAC
131 CTCAAAAAATTTTGGGCATTATTAAAGGCATCTTTTACTATAAAATACATTCAATATACCACCAC
32462766 ACAAATTTTAATACGATTATTAAATGCGTATATTCAAGAAAAATACCTTTAATATTTGCTATTAG
196 ACAAATTTTAATACGATTATTAAATGCGTATATTCAAGAAAAATACCTTTAATATTTGCTATTAG
* * ** * *
32462831 ATTTTGTAGATAATTAGTGATGGTGTTTGTAGATAGCAACGCCTTCAATAATTTCATTAAAAAAA
261 ATTTTGTAGATAAATAGTGAAGGCATTTGCAGATAGCAACACCTTCAATAATTTCATTAAAAAAA
32462896 -TTTAGAATTATTAAAAGCGTCTTTTATTA
326 TTTTAGAATTATTAAAAGCGTCTTTTATTA
* *
32462925 TAAAACGCCTTCAATATACCATGATGGTTATAGAAGATATTTATTCAAAAAA-ACGACTTCAATA
1 TAAAACGCCTTCAATATACCACGATGGTTATAGAAGACATTTATT-AAAAAATACGACTTCAATA
* * *
32462989 TA-CATTTAAACTTAGTAATCCATTACTGAAGACGTTTGTTAATAACAAACGCCTTCAATATTTT
65 TATCA-TTAAACTTAGTAATACATTACGGAAGACATTTGTTAATAACAAACGCCTTCAATATTTT
* *
32463053 TCCTCAAAAAATTTTGGGCATTATTAAAGGCATCTTTTATTATAAAATATATTCAATATACCACC
129 TCCTCAAAAAATTTTGGGCATTATTAAAGGCATCTTTTACTATAAAATACATTCAATATACCACC
* * *
32463118 ACACAAATTTTAATACGGTTATTAAATGTGTATATTCAAGAAAAATGCCTTTAATATTTGCTATT
194 ACACAAATTTTAATACGATTATTAAATGCGTATATTCAAGAAAAATACCTTTAATATTTGCTATT
*
32463183 AGATTTTGTAGATAAATAGTGAAGGCATTTGCAGATAGTAACACCTTCAATAATTTCATTAAAAA
259 AGATTTTGTAGATAAATAGTGAAGGCATTTGCAGATAGCAACACCTTCAATAATTTCATTAAAAA
* * *
32463248 AATTTTTTGGATTATTAAATGCGTCTTTTATTA
324 AA-TTTTAGAATTATTAAAAGCGTCTTTTATTA
**
32463281 TAAATTGCCTTCAATA
1 TAAAACGCCTTCAATA
32463297 ATTTGTTATA
Statistics
Matches: 329, Mismatches: 39, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
353 2 0.01
354 281 0.85
355 6 0.02
356 40 0.12
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.37
Consensus pattern (355 bp):
TAAAACGCCTTCAATATACCACGATGGTTATAGAAGACATTTATTAAAAAATACGACTTCAATAT
ATCATTAAACTTAGTAATACATTACGGAAGACATTTGTTAATAACAAACGCCTTCAATATTTTTC
CTCAAAAAATTTTGGGCATTATTAAAGGCATCTTTTACTATAAAATACATTCAATATACCACCAC
ACAAATTTTAATACGATTATTAAATGCGTATATTCAAGAAAAATACCTTTAATATTTGCTATTAG
ATTTTGTAGATAAATAGTGAAGGCATTTGCAGATAGCAACACCTTCAATAATTTCATTAAAAAAA
TTTTAGAATTATTAAAAGCGTCTTTTATTA
Found at i:32470200 original size:24 final size:24
Alignment explanation
Indices: 32470186--32470233 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
32470176 TATTAATTTG
* *
32470186 ATATTTTATTTTTATATCATATTT
1 ATATTATATTATTATATCATATTT
32470210 ATATTATATTATTATATCATATTT
1 ATATTATATTATTATATCATATTT
32470234 TAAATTATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (24 bp):
ATATTATATTATTATATCATATTT
Found at i:32470208 original size:13 final size:13
Alignment explanation
Indices: 32470192--32470234 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
32470182 TTTGATATTT
32470192 TATTTTTATATCA
1 TATTTTTATATCA
*
32470205 TA--TTTATATTA
1 TATTTTTATATCA
*
32470216 TATTATTATATCA
1 TATTTTTATATCA
32470229 TATTTT
1 TATTTT
32470235 AAATTATCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 10 0.42
13 14 0.58
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTTTATATCA
Found at i:32470248 original size:15 final size:15
Alignment explanation
Indices: 32470224--32470253 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32470214 TATATTATTA
*
32470224 TATCATATTTTAAAT
1 TATCAAATTTTAAAT
32470239 TATCAAATTTTAAAT
1 TATCAAATTTTAAAT
32470254 AAATTAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
TATCAAATTTTAAAT
Found at i:32470797 original size:23 final size:21
Alignment explanation
Indices: 32470771--32470826 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
32470761 TTTTTTTAAA
* *
32470771 AATTAAGTGTTACATTTACTTAT
1 AATTAAATATTACA-TT-CTTAT
32470794 AATTAAATATTACATTCTTAT
1 AATTAAATATTACATTCTTAT
* *
32470815 AATCAATTATTA
1 AATTAAATATTA
32470827 TTTTACTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 15 0.52
22 2 0.07
23 12 0.41
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (21 bp):
AATTAAATATTACATTCTTAT
Found at i:32470815 original size:21 final size:23
Alignment explanation
Indices: 32470771--32470843 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
32470761 TTTTTTTAAA
* *
32470771 AATTAAGTGTTACATTTACTTAT
1 AATTAAATATTACATTTACTTAT
32470794 AATTAAATATTACA-TT-CTTAT
1 AATTAAATATTACATTTACTTAT
* * * *
32470815 AATCAATTATTA-TTTTACTAAAT
1 AATTAAATATTACATTTACT-TAT
32470838 AATTAA
1 AATTAA
32470844 TTAATAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
21 17 0.43
22 4 0.10
23 19 0.47
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (23 bp):
AATTAAATATTACATTTACTTAT
Found at i:32476083 original size:12 final size:12
Alignment explanation
Indices: 32476068--32476111 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
32476058 TTTATTTAAA
32476068 ATTTTATATTTT
1 ATTTTATATTTT
*
32476080 ATTTTAAATTTT
1 ATTTTATATTTT
32476092 ATTTTA-ATTTT
1 ATTTTATATTTT
32476103 -TTATTATAT
1 ATT-TTATAT
32476112 AAATTAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 2 0.07
11 8 0.28
12 19 0.66
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTTATATTTT
Found at i:32476103 original size:19 final size:19
Alignment explanation
Indices: 32476061--32476102 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
32476051 TAAATTGTTT
* *
32476061 ATTTAAAATTTTATATTTT
1 ATTTTAAATTTTATATTTA
32476080 ATTTTAAATTTTAT-TTTA
1 ATTTTAAATTTTATATTTA
32476098 ATTTT
1 ATTTT
32476103 TTATTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTAAATTTTATATTTA
Found at i:32488654 original size:29 final size:29
Alignment explanation
Indices: 32488621--32488679 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
32488611 TATTTGTCTA
32488621 TCTATAACATGCATCTTCTAGATGAAAAG
1 TCTATAACATGCATCTTCTAGATGAAAAG
32488650 TCTATAACATGCATCTTCTAGATGAAAAG
1 TCTATAACATGCATCTTCTAGATGAAAAG
32488679 T
1 T
32488680 AAGCTTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (29 bp):
TCTATAACATGCATCTTCTAGATGAAAAG
Found at i:32496262 original size:25 final size:26
Alignment explanation
Indices: 32496204--32496269 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
32496194 ATATTTGATA
*
32496204 TAATAAA-ATATATATTTTATTCAAT
1 TAATAAATATATATATTTCATTCAAT
*
32496229 AAATCAAATAT-TATTATTTCATT-AAT
1 TAAT-AAATATATA-TATTTCATTCAAT
*
32496255 TAATAAATAAATATA
1 TAATAAATATATATA
32496270 AATCTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
25 10 0.30
26 13 0.39
27 10 0.30
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (26 bp):
TAATAAATATATATATTTCATTCAAT
Found at i:32496311 original size:16 final size:17
Alignment explanation
Indices: 32496290--32496334 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
32496280 ATAAATATAC
32496290 AAAAAATAATATTT-TT
1 AAAAAATAATATTTATT
*
32496306 AAAAAAT-TTATTTATT
1 AAAAAATAATATTTATT
32496322 AATAAAATAATAT
1 AA-AAAATAATAT
32496335 CATCTTATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 5 0.21
16 11 0.46
17 5 0.21
18 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAAATAATATTTATT
Found at i:32501791 original size:15 final size:16
Alignment explanation
Indices: 32501771--32501896 Score: 79
Period size: 15 Copynumber: 8.2 Consensus size: 16
32501761 AAATTTCTTA
*
32501771 AATTTTTAAGAAT-TT
1 AATTTTTAATAATATT
32501786 AATTTTT-ATAATATT
1 AATTTTTAATAATATT
**
32501801 -ATTTAAAATAAT-TT
1 AATTTTTAATAATATT
32501815 AA-TTTT-ATAATATT
1 AATTTTTAATAATATT
* *
32501829 ATTTTTTAAAGAAT-TT
1 AATTTTT-AATAATATT
*
32501845 AATTCTT-ATAATATT
1 AATTTTTAATAATATT
* *
32501860 AATTTTTAAAAAAATT
1 AATTTTTAATAATATT
* *
32501876 CAATTCTTATATATTATT
1 -AATTTTTA-ATAATATT
32501894 AAT
1 AAT
32501897 GATTGAACCG
Statistics
Matches: 83, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
13 5 0.06
14 19 0.23
15 27 0.33
16 13 0.16
17 14 0.17
18 5 0.06
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
AATTTTTAATAATATT
Found at i:32501854 original size:31 final size:31
Alignment explanation
Indices: 32501778--32501893 Score: 150
Period size: 32 Copynumber: 3.8 Consensus size: 31
32501768 TTAAATTTTT
*
32501778 AAGAATTTAATTTTTATAATATTA--TTTAA
1 AAGAATTTAATTCTTATAATATTATTTTTAA
* *
32501807 AATAATTTAATT-TTATAATATTATTTTTTA
1 AAGAATTTAATTCTTATAATATTATTTTTAA
32501837 AAGAATTTAATTCTTATAATATTAATTTTTAA
1 AAGAATTTAATTCTTATAATATT-ATTTTTAA
* *
32501869 AAAAATTCAATTCTTAT-ATATTATT
1 AAGAATTTAATTCTTATAATATTATT
32501894 AATGATTGAA
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
28 11 0.14
29 11 0.14
30 18 0.23
31 15 0.19
32 22 0.29
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.53
Consensus pattern (31 bp):
AAGAATTTAATTCTTATAATATTATTTTTAA
Found at i:32501980 original size:29 final size:29
Alignment explanation
Indices: 32501924--32501980 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
32501914 TAAAACAATT
* ***
32501924 ATATTTTAAAAATTAAATTCTTTTAAATA
1 ATATTATAAAAATTAAATTCTCAAAAATA
*
32501953 ATATTATAAAGATTAAATTCTCAAAAAT
1 ATATTATAAAAATTAAATTCTCAAAAAT
32501981 CGAAAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (29 bp):
ATATTATAAAAATTAAATTCTCAAAAATA
Found at i:32508555 original size:23 final size:23
Alignment explanation
Indices: 32508508--32508557 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
32508498 TTTATAGAGC
* **
32508508 TTTTTGAGATTCAAATCTTAGAT
1 TTTTTAAGATTCAAATCCCAGAT
*
32508531 TTTTTAAGATTCAAATCCCATAT
1 TTTTTAAGATTCAAATCCCAGAT
32508554 TTTT
1 TTTT
32508558 ATGTCGAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (23 bp):
TTTTTAAGATTCAAATCCCAGAT
Found at i:32526825 original size:63 final size:58
Alignment explanation
Indices: 32526735--32526902 Score: 160
Period size: 61 Copynumber: 2.8 Consensus size: 58
32526725 TTTTTTTAAA
* * * *
32526735 GATTATTCAAGGTATTTTT-AGTAAAAAACATCTTGAATAATCTCTTTTCTTTTTTTTTTG
1 GATTATTCAATGTGTTTTTGACT-AAAAA-ATCTTGAATAATCT-TTTTCTCTTTTTTTTG
* * * * *
32526795 GTATTATTTAAGGTGTTTTTTTGCCTAAAAATGTCTTAAATAAT-TTTTTCTCTTTTTTTTG
1 G-ATTATTCAA--TGTGTTTTTGACTAAAAA-ATCTTGAATAATCTTTTTCTCTTTTTTTTG
32526856 GATTATTCAATGTGTTTTTGACTAAAAAATTCTTTGAATAATCTTTT
1 GATTATTCAATGTGTTTTTGACTAAAAAA-TC-TTGAATAATCTTTT
32526903 ATAAAAAATT
Statistics
Matches: 87, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
58 18 0.21
59 8 0.09
60 13 0.15
61 24 0.28
62 1 0.01
63 22 0.25
64 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.11, T:0.53
Consensus pattern (58 bp):
GATTATTCAATGTGTTTTTGACTAAAAAATCTTGAATAATCTTTTTCTCTTTTTTTTG
Found at i:32533299 original size:2 final size:2
Alignment explanation
Indices: 32533292--32533321 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32533282 GCGCATGCAA
32533292 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
32533322 TATTACTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:32542052 original size:24 final size:24
Alignment explanation
Indices: 32542005--32542054 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
32541995 TTAAAGTAAC
*
32542005 TTAAGCATGGTTAACCAAAGAAGT
1 TTAAGCATGGTCAACCAAAGAAGT
*
32542029 TTAAGCATGGTCAACTAAAGAAGT
1 TTAAGCATGGTCAACCAAAGAAGT
32542053 TT
1 TT
32542055 CAGGTCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (24 bp):
TTAAGCATGGTCAACCAAAGAAGT
Found at i:32542683 original size:76 final size:76
Alignment explanation
Indices: 32542507--32542660 Score: 218
Period size: 76 Copynumber: 2.0 Consensus size: 76
32542497 TAGTTTAACT
* ** * *
32542507 TTTAAGCCTTGAAGGCTTGTCTTAATAGGTACCATAGCTTCTATTTCAAATGCTAGGTAAAATAA
1 TTTAAGCCTTAAAGGCTAATCTTAACAAGTACCATAGCTTCTATTTCAAATGCTAGGTAAAATAA
* *
32542572 GGTTTTATCTA
66 AGTTTCATCTA
* * *
32542583 TTTAAGCCTTAAAGGCTAATCTTAACAAGTACCATAGCTTTTATTTTAAATGCTAGGTGAAATAA
1 TTTAAGCCTTAAAGGCTAATCTTAACAAGTACCATAGCTTCTATTTCAAATGCTAGGTAAAATAA
32542648 AGTTTCATCTA
66 AGTTTCATCTA
32542659 TT
1 TT
32542661 GGTACCTTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
76 68 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (76 bp):
TTTAAGCCTTAAAGGCTAATCTTAACAAGTACCATAGCTTCTATTTCAAATGCTAGGTAAAATAA
AGTTTCATCTA
Found at i:32549477 original size:40 final size:41
Alignment explanation
Indices: 32549406--32549485 Score: 135
Period size: 40 Copynumber: 1.9 Consensus size: 41
32549396 ATGAACTTGG
32549406 TTCTTTTTGGGTTCAGGATTTTTAGGTTTACTGTTAAAAAATT
1 TTCTTTTTGGGTTC--GATTTTTAGGTTTACTGTTAAAAAATT
32549449 TTCTTTTTGGGTTC-ATTTTTAGGTTTACTGTTAAAAA
1 TTCTTTTTGGGTTCGATTTTTAGGTTTACTGTTAAAAA
32549486 TTCCTAGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
40 23 0.62
43 14 0.38
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (41 bp):
TTCTTTTTGGGTTCGATTTTTAGGTTTACTGTTAAAAAATT
Found at i:32549975 original size:8 final size:10
Alignment explanation
Indices: 32549949--32549976 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
32549939 AACTGAAAGT
32549949 ATTTGTGTGC
1 ATTTGTGTGC
32549959 ATTTGTGTGC
1 ATTTGTGTGC
32549969 ATTTGTGT
1 ATTTGTGT
32549977 TGATATGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.07, G:0.29, T:0.54
Consensus pattern (10 bp):
ATTTGTGTGC
Found at i:32552940 original size:18 final size:18
Alignment explanation
Indices: 32552913--32552948 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
32552903 ATTCTTCTTC
32552913 TTCTTCTTGAATAAGTGA
1 TTCTTCTTGAATAAGTGA
*
32552931 TTCTTTTTGAATAAGTGA
1 TTCTTCTTGAATAAGTGA
32552949 ATAGATCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (18 bp):
TTCTTCTTGAATAAGTGA
Found at i:32553445 original size:2 final size:2
Alignment explanation
Indices: 32553438--32553462 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32553428 ACTTGTGGAT
32553438 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
32553463 GCGTGTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:32556574 original size:80 final size:80
Alignment explanation
Indices: 32556421--32556574 Score: 229
Period size: 80 Copynumber: 1.9 Consensus size: 80
32556411 CATTTGAAGG
* * *
32556421 GGTACGAGTTTATTTGATATTCCTTCTGCTTTAATCTTATCTAGCTGTTATATTTTGCTTCTTTT
1 GGTACAAGTTTATTTGATATTCCTTCAGCATTAATCTTATCTAGCTGTTATATTTTGCTTCTTTT
*
32556486 TTAGTATGTTTGGAA
66 TGAGTATGTTTGGAA
* * *
32556501 GGTACAAGTTTATTTGATATTTCTTCAGCATTAATCTTATCTTGCTTTTATATTTTGCTTCTCTT
1 GGTACAAGTTTATTTGATATTCCTTCAGCATTAATCTTATCTAGCTGTTATATTTTGCTTCT-TT
32556566 TTGA-TATGT
65 TTGAGTATGT
32556575 GTGATATTGC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 61 0.92
81 5 0.08
ACGTcount: A:0.19, C:0.13, G:0.14, T:0.53
Consensus pattern (80 bp):
GGTACAAGTTTATTTGATATTCCTTCAGCATTAATCTTATCTAGCTGTTATATTTTGCTTCTTTT
TGAGTATGTTTGGAA
Found at i:32567614 original size:82 final size:82
Alignment explanation
Indices: 32567477--32567641 Score: 294
Period size: 82 Copynumber: 2.0 Consensus size: 82
32567467 ATTCTTCTAA
**
32567477 ATCTGGCAGTACTTTTATATTTATATTATGTTCTTAAAGTTAACATTCTTGCTTGACTTGTTCTA
1 ATCTGGCAGTACTTTTATATTTATATTATGTTCTTAAAGTTAACATTCTTGCTTGACTCATTCTA
32567542 AGTATATGAAAAAAGTT
66 AGTATATGAAAAAAGTT
*
32567559 ATCTGGCAGTACTTTTATATTTATATTATGTTCTTAAAGTTAATATTCTTGCTTGACTCATTCTA
1 ATCTGGCAGTACTTTTATATTTATATTATGTTCTTAAAGTTAACATTCTTGCTTGACTCATTCTA
*
32567624 AGTATATGACAAAAGTT
66 AGTATATGAAAAAAGTT
32567641 A
1 A
32567642 ATATGAAAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.45
Consensus pattern (82 bp):
ATCTGGCAGTACTTTTATATTTATATTATGTTCTTAAAGTTAACATTCTTGCTTGACTCATTCTA
AGTATATGAAAAAAGTT
Found at i:32568485 original size:119 final size:122
Alignment explanation
Indices: 32568268--32568510 Score: 318
Period size: 119 Copynumber: 2.0 Consensus size: 122
32568258 TCTTTCATTT
* *
32568268 TCTACGTTATTTGCCTTGGTGTTAGCTTTCTACATTTGGAGTTTTTCTTTTCTGGAAGATTTGTC
1 TCTACGTTATTTACCTTGGTGTTAGCTTTCTACATGTGGAGTTTTTCTTTTCTGGAAGATTTG-C
**
32568333 GTGCGTAGCTTTGCTTATTTATTTTTAGGCT-G-G-TTATCTGCTTCTTGTTTGCATA
65 GTGCGTAGCTAAGCTTATTTATTTTTAGGCTGGTGATTATCTGCTTCTTGTTTGCATA
* * *
32568388 TCTAGGTTATTTATCTTGGTTTTAGCTTTCTACATGTGGAG-TTTTC-TTTCATGGAAGATTTG-
1 TCTACGTTATTTACCTTGGTGTTAGCTTTCTACATGTGGAGTTTTTCTTTTC-TGGAAGATTTGC
*
32568450 GTGTGTATGGCTAAGCTTATTTATTTTTAGGCTGGTGAAATTATCTGCTTCTTGTTTGCAT
65 GTGCGTA--GCTAAGCTTATTTATTTTTAGGCTGGTG--ATTATCTGCTTCTTGTTTGCAT
32568511 TCATGTGGTT
Statistics
Matches: 107, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
117 6 0.06
118 4 0.04
119 38 0.36
120 37 0.35
121 1 0.01
124 21 0.20
ACGTcount: A:0.16, C:0.13, G:0.21, T:0.50
Consensus pattern (122 bp):
TCTACGTTATTTACCTTGGTGTTAGCTTTCTACATGTGGAGTTTTTCTTTTCTGGAAGATTTGCG
TGCGTAGCTAAGCTTATTTATTTTTAGGCTGGTGATTATCTGCTTCTTGTTTGCATA
Found at i:32583016 original size:22 final size:22
Alignment explanation
Indices: 32582991--32583034 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
32582981 ATTTTTTGTC
32582991 CTTAATTCTA-AGGATACAAATA
1 CTTAATTCTAGA-GATACAAATA
32583013 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
32583035 TAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:32583046 original size:22 final size:22
Alignment explanation
Indices: 32583003--32583046 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
32582993 TAATTCTAAG
* *
32583003 GATACAAATACTTAATTCTAGA
1 GATACAAATACTAAATTATAGA
32583025 GATACAAATA-TAAATATATAGA
1 GATACAAATACTAAAT-TATAGA
32583047 TTACAAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (22 bp):
GATACAAATACTAAATTATAGA
Found at i:32584602 original size:157 final size:156
Alignment explanation
Indices: 32584061--32584983 Score: 1540
Period size: 157 Copynumber: 5.8 Consensus size: 156
32584051 GTTAGTTGTT
* *
32584061 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCTCTCACCTCAAG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
*
32584126 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
32584191 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
32584217 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
32584282 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAG-----A
* * *
32584347 AAAATCAAAATCAGCCAAGTAATTAATTATC
126 AAAATCAAGATCAACCAATTAATTAATTATC
*
32584378 GGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
* * *
32584443 AGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAA
66 AGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
32584508 TCAAGATCAACCAATTAATTAATTATC
130 TCAAGATCAACCAATTAATTAATTATC
*
32584535 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCTCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
32584600 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAG------
* * *
32584665 AAAAATCAAAATCAGCCAAGTAATTAATTATC
125 AAAAATCAAGATCAACCAATTAATTAATTATC
*
32584697 GGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
* * *
32584762 AGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAA
66 AGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
32584827 TCAAGATCAACCAATTAATTAATTATC
130 TCAAGATCAACCAATTAATTAATTATC
32584854 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
* *
32584919 AGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
66 AGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
32584984 AGAAAAAAAA
Statistics
Matches: 723, Mismatches: 31, Indels: 25
0.93 0.04 0.03
Matches are distributed among these distances:
156 156 0.22
157 270 0.37
161 114 0.16
162 148 0.20
163 35 0.05
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (156 bp):
GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
CAAGATCAACCAATTAATTAATTATC
Found at i:32584852 original size:319 final size:319
Alignment explanation
Indices: 32584063--32584997 Score: 1761
Period size: 319 Copynumber: 2.9 Consensus size: 319
32584053 TAGTTGTTGA
* *
32584063 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCTCTCACCTCAAGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
* *
32584128 TATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
32584192 AAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAA
131 AAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAA
32584257 ATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCC
196 ATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCC
32584322 GTCGTCGGATTAATTAAAG-AAAAAAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
261 GTCGTCGGATTAATTAAAGAAAAAAAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
32584380 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
32584445 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
32584510 AAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAA
131 AAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAA
*
32584575 ATTGAGAAAATTCTCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCC
196 ATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCC
32584640 GTCGTCGGATTAATTAAAGAAAAAAAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
261 GTCGTCGGATTAATTAAAGAAAAAAAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
32584699 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
32584764 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
32584829 AAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAA
131 AAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAA
* *
32584894 ATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTC
196 ATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTC
32584959 CGTCGTCGGATTAATTAAAGAAAAAAGAAAAA--AAAATCA
260 CGTCGTCGGATTAATTAAAGAAAAAA-AAAAATCAAAATCA
32584998 AGATCAAAAT
Statistics
Matches: 606, Mismatches: 8, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
317 82 0.14
318 191 0.32
319 286 0.47
320 42 0.07
321 5 0.01
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.29
Consensus pattern (319 bp):
AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
AAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAA
ATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCC
GTCGTCGGATTAATTAAAGAAAAAAAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
Found at i:32585033 original size:1 final size:1
Alignment explanation
Indices: 32585029--32585059 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
32585019 AAAAAAATTC
32585029 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
32585060 CCTGGAGCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:32585983 original size:3 final size:3
Alignment explanation
Indices: 32585975--32586003 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
32585965 ATCTTACAAA
32585975 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
32586004 ATATATAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:32586187 original size:20 final size:20
Alignment explanation
Indices: 32586165--32586229 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
32586155 TTACCCATTT
* *
32586165 GGGCCAGGCCCAAATGATCT
1 GGGCCAGGCCCAATTGATCC
*
32586185 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
* *
32586205 GAGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
32586225 GGGCC
1 GGGCC
32586230 CGGACCTGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.17
Consensus pattern (20 bp):
GGGCCAGGCCCAATTGATCC
Found at i:32586347 original size:1 final size:1
Alignment explanation
Indices: 32586343--32586444 Score: 87
Period size: 1 Copynumber: 102.0 Consensus size: 1
32586333 TTATTTTTGA
* * * * * ** ** *
32586343 TTTTTTTTATTTTTGTTTTTATTTTTGTTTTTATTTTTTTGATTTTTTTTTGATTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
32586408 TTTTGTTTTTTTGTTTTTTTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
32586445 GGCCGAAGCT
Statistics
Matches: 77, Mismatches: 24, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:32586411 original size:12 final size:12
Alignment explanation
Indices: 32586345--32586442 Score: 103
Period size: 12 Copynumber: 7.9 Consensus size: 12
32586335 ATTTTTGATT
32586345 TTTTTTATTTTTG
1 TTTTTT-TTTTTG
*
32586358 TTTTTATTTTTG
1 TTTTTTTTTTTG
32586370 TTTTTATTTTTT-
1 TTTTT-TTTTTTG
*
32586382 TGATTTTTTTTTG
1 T-TTTTTTTTTTG
32586395 ATTTTTTTTGTTT-
1 -TTTTTTTT-TTTG
32586408 TTTTGTTTTTTTG
1 TTTT-TTTTTTTG
32586421 -TTTTTTTTTTG
1 TTTTTTTTTTTG
32586432 TTTTTTTTTTT
1 TTTTTTTTTTT
32586443 TTGGCCGAAG
Statistics
Matches: 73, Mismatches: 4, Indels: 17
0.78 0.04 0.18
Matches are distributed among these distances:
11 8 0.11
12 38 0.52
13 23 0.32
14 4 0.05
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.87
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:32586497 original size:41 final size:39
Alignment explanation
Indices: 32586452--32586986 Score: 721
Period size: 41 Copynumber: 13.0 Consensus size: 39
32586442 TTTGGCCGAA
* *
32586452 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAG--GCAACGAC-TTTGAAAAATAAATT
* *
32586493 GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAAC-GACTTTGAAAAATAAATT
32586533 GCTCCTCTAAACAGAGGCAACACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGC-A-ACGACTTT-GAAAAATAAATT
32586575 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAAC-G-ACTTTGAAAAATAAATT
*
32586616 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAC-TTTGAAAAATAAATT
32586658 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAAC-G-ACTTTGAAAAATAAATT
*
32586699 GCTCCTCTAAATAGAGGCAACGAACTTTGAAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTG--AAAAATAAATT
*
32586741 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAATAAATT
32586782 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAATAAATT
32586824 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAAC-G-ACTTTGAAAAATAAATT
*
32586865 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAATAAATT
32586906 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAAC-G-ACTTTGAAAAATAAATT
32586947 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAA-TAAAT
32586987 ACTCCTAGAC
Statistics
Matches: 459, Mismatches: 11, Indels: 48
0.89 0.02 0.09
Matches are distributed among these distances:
39 10 0.02
40 59 0.13
41 241 0.53
42 136 0.30
43 10 0.02
44 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.22
Consensus pattern (39 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAATAAATT
Found at i:32586633 original size:83 final size:83
Alignment explanation
Indices: 32586452--32586967 Score: 796
Period size: 83 Copynumber: 6.3 Consensus size: 83
32586442 TTTGGCCGAA
* * * *
32586452 GCTCCTCTAAACAGAGAC-TCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAGGCAAC-ACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACG
* *
32586515 G-ACTTTGGAAAGTAAATT
65 GAACTTTGAAAAATAAATT
32586533 GCTCCTCTAAACAGAGGCAACACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCAACACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGG
32586598 AACTTTGAAAAATAAATT
66 AACTTTGAAAAATAAATT
* * *
32586616 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCAACACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGG
32586681 AACTTTGAAAAATAAATT
66 AACTTTGAAAAATAAATT
* *
32586699 GCTCCTCTAAATAGAGGC-A-ACGAACTTTGAAAAAAATAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCAACACG-ACTTTG-GAAAAATAAATTGCTCCTCTAAACAGAGGCA--
*
32586762 AC-G-ACTTTGAAAAGTAAATT
62 ACGGAACTTTGAAAAATAAATT
*
32586782 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCAACACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGG
32586847 AACTTTGAAAAATAAATT
66 AACTTTGAAAAATAAATT
* *
32586865 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCAACACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGG
32586929 AACTTTGAAAAATAAATT
66 AACTTTGAAAAATAAATT
32586947 GCTCCTCTAAACAGAGGCAAC
1 GCTCCTCTAAACAGAGGCAAC
32586968 GAACTTTGAA
Statistics
Matches: 403, Mismatches: 21, Indels: 21
0.91 0.05 0.05
Matches are distributed among these distances:
81 31 0.08
82 111 0.28
83 249 0.62
84 7 0.02
85 5 0.01
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCAACACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGG
AACTTTGAAAAATAAATT
Found at i:32589931 original size:128 final size:130
Alignment explanation
Indices: 32589695--32589953 Score: 353
Period size: 128 Copynumber: 2.0 Consensus size: 130
32589685 TTTGATACTA
* * * * ** *
32589695 GTTGATGGGGAGATATGTTACACTTGGAGTCCCATAAGAGCATACCAGAGAGTCCATATATACAT
1 GTTGATGGGGAGATATGTCACACTTGGAGTCACAGAAGAGCACACCAGAGAACCCATACATACAT
* ** * *
32589760 GTTGGACACCATTTGAGCCCAAAAGCTTAAGCTATTGGGTTCTTGGGTCTTCCGTGTATATATAG
66 GTTGGACACCATTTGAGCCCAAAAGCTCAAGCTATTAAGTTCTTGGGTCCTCCATGTATATATAG
*
32589825 GTTGAT-GGGAGATATGTCACACTTGGAGCTCAC-GGA-AGCACACCAGAGAACCCATACATACA
1 GTTGATGGGGAGATATGTCACACTTGGAG-TCACAGAAGAGCACACCAGAGAACCCATACATACA
* *
32589887 TGTTGGACATCATTTGAGCCTAAAAGCTCAAGCTATTAAGTTCTTGGGTCCTCCATGTATATATA
65 TGTTGGACACCATTTGAGCCCAAAAGCTCAAGCTATTAAGTTCTTGGGTCCTCCATGTATATATA
32589952 G
130 G
32589953 G
1 G
32589954 ACATCTCATT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
128 82 0.73
129 22 0.19
130 9 0.08
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (130 bp):
GTTGATGGGGAGATATGTCACACTTGGAGTCACAGAAGAGCACACCAGAGAACCCATACATACAT
GTTGGACACCATTTGAGCCCAAAAGCTCAAGCTATTAAGTTCTTGGGTCCTCCATGTATATATAG
Found at i:32590616 original size:4 final size:4
Alignment explanation
Indices: 32590609--32590643 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
32590599 TATATATATA
* *
32590609 TATG TATG TATG TATG TATG CATT TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
32590644 TCTTTATTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.03, G:0.20, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:32594718 original size:22 final size:22
Alignment explanation
Indices: 32594678--32594721 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
32594668 TGTATATTTA
**
32594678 TATTTGTATTTCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
*
32594700 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
32594722 GAAGATTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:32601720 original size:20 final size:20
Alignment explanation
Indices: 32601697--32601739 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
32601687 GCACTCACTT
32601697 TAACTTTTGAGTATACTTTG
1 TAACTTTTGAGTATACTTTG
* * *
32601717 TAACTTTTTATTATTCTTTG
1 TAACTTTTGAGTATACTTTG
32601737 TAA
1 TAA
32601740 ACCCTAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (20 bp):
TAACTTTTGAGTATACTTTG
Found at i:32611783 original size:2 final size:2
Alignment explanation
Indices: 32611778--32611807 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32611768 CGCTACAAAC
32611778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32611808 GGGTCCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32613165 original size:4 final size:4
Alignment explanation
Indices: 32613156--32613187 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
32613146 GCCTTCTATA
32613156 TCCC TCCC T-CC -CCC TCCC TCCC TCCC TCCC TC
1 TCCC TCCC TCCC TCCC TCCC TCCC TCCC TCCC TC
32613188 TCTCTCTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 4 0.15
4 22 0.85
ACGTcount: A:0.00, C:0.75, G:0.00, T:0.25
Consensus pattern (4 bp):
TCCC
Found at i:32613192 original size:2 final size:2
Alignment explanation
Indices: 32613185--32613215 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
32613175 CCCTCCCTCC
32613185 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
32613216 ATTTTGCCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:32617618 original size:7 final size:7
Alignment explanation
Indices: 32617606--32617630 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32617596 TGCGCCTAAC
32617606 TCACTCT
1 TCACTCT
32617613 TCACTCT
1 TCACTCT
32617620 TCACTCT
1 TCACTCT
32617627 TCAC
1 TCAC
32617631 CAACTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.44, G:0.00, T:0.40
Consensus pattern (7 bp):
TCACTCT
Found at i:32617836 original size:3 final size:3
Alignment explanation
Indices: 32617828--32617865 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
32617818 TGTCTTGTCT
32617828 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
32617866 GATAGTTATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:32622737 original size:36 final size:36
Alignment explanation
Indices: 32622690--32622762 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 36
32622680 ATGAAGAGAA
*
32622690 TTCCAAATTACCGTTACTTCTAGG-GTTCTTAGATTT
1 TTCCAAATTACCATTACTTCT-GGAGTTCTTAGATTT
32622726 TTCCAAATTACCATTACTTCTGGAGTTCTTAGATTT
1 TTCCAAATTACCATTACTTCTGGAGTTCTTAGATTT
32622762 T
1 T
32622763 AGCAGAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 2 0.06
36 33 0.94
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.45
Consensus pattern (36 bp):
TTCCAAATTACCATTACTTCTGGAGTTCTTAGATTT
Found at i:32623205 original size:14 final size:15
Alignment explanation
Indices: 32623177--32623208 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
32623167 TGAATAAAAT
32623177 TAATTATATTTTAAA
1 TAATTATATTTTAAA
32623192 TAATTATA-TTTAAA
1 TAATTATATTTTAAA
32623206 TAA
1 TAA
32623209 AAATAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATATTTTAAA
Found at i:32623482 original size:21 final size:20
Alignment explanation
Indices: 32623452--32623491 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
32623442 AAAGCCAAAA
*
32623452 TTCTTTTTTATTATTTTTCTT
1 TTCTTATTTATT-TTTTTCTT
32623473 TTCTTATTTATTTTTTTCT
1 TTCTTATTTATTTTTTTCT
32623492 AACAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (20 bp):
TTCTTATTTATTTTTTTCTT
Found at i:32623486 original size:17 final size:16
Alignment explanation
Indices: 32623452--32623487 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
32623442 AAAGCCAAAA
32623452 TTCTTTTTTATTATTT
1 TTCTTTTTTATTATTT
32623468 TTCTTTTCTTATTTATTT
1 TTCTTTT-TTA-TTATTT
32623486 TT
1 TT
32623488 TTCTAACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (16 bp):
TTCTTTTTTATTATTT
Found at i:32627095 original size:18 final size:18
Alignment explanation
Indices: 32627074--32627141 Score: 118
Period size: 18 Copynumber: 3.8 Consensus size: 18
32627064 TGTGTTATAT
32627074 TTATTACATGATAAATAG
1 TTATTACATGATAAATAG
32627092 TTATTACATGATAAATAG
1 TTATTACATGATAAATAG
* *
32627110 TTATTACATGATAAACAA
1 TTATTACATGATAAATAG
32627128 TTATTACATGATAA
1 TTATTACATGATAA
32627142 CGGCCTAAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (18 bp):
TTATTACATGATAAATAG
Found at i:32635299 original size:207 final size:208
Alignment explanation
Indices: 32634934--32635758 Score: 1030
Period size: 221 Copynumber: 3.9 Consensus size: 208
32634924 AAGCACCAGC
* * * * * *
32634934 ACGTACAAGTTTCAGTATAGACAAGTCCTAAAACCACTTTAAGAAGCATTC-TACCTATCAACAC
1 ACGTACAAGTATCAGTATAGACAATTCCTGAAACCACTTTAAGAACCATTCTTACCTAGCAACAT
* * * * *
32634998 CCTTCCCAGG-AGTTCCACCACACCATGCAACCTTAGCATCACCCTTGATTACGCTACCATCGAC
66 CCTT-CCAGGCAGTCCCACCACACCATGCAACCTTAGCTTGACCCTTGATTATGTTACCATCGAC
** *
32635062 CAGCTCCCCGTGTACATCAGGGTTTACAGCCTTCAGGATTCCATTCCCAGCACACAAAGAATGTT
130 CAATTCCCCGTGTACATCAGGGTTTACAGCCTTCAGGATTCCATTCCCATCACACAAAGAATGTT
32635127 TCATTTAGAACAAAT
195 TCATTTA-AACAAAT
* ** * *
32635142 -C-TACTAGTATCAGTATAGACAATTCAGGAAACCACTTCAAGAACCATTCTTACCTAGCAGCAT
1 ACGTACAAGTATCAGTATAGACAATTCCTGAAACCACTTTAAGAACCATTCTTACCTAGCAACAT
* *
32635205 CCTTCGCAGG-AGCCCCACCACACCACGCAACCTTAGCTTGACCCTTGATTATGTTACCATCGAC
66 CCTTC-CAGGCAGTCCCACCACACCATGCAACCTTAGCTTGACCCTTGATTATGTTACCATCGAC
* * *
32635269 CAATTCTCCGTGTACATCAGGGTTTACAGCCTTCGGGATTCCATTCCCCTCACACAAAGAATGTT
130 CAATTCCCCGTGTACATCAGGGTTTACAGCCTTCAGGATTCCATTCCCATCACACAAAGAATGTT
32635334 TCATTTAAAACAAAT
195 TCATTT-AAACAAAT
32635349 CCACAAGCAAGCACGTACAAGTATCAGTATAGACAATTCCTGAAACCACTTTAAGAACCATTCTT
1 ------------ACGTACAAGTATCAGTATAGACAATTCCTGAAACCACTTTAAGAACCATTCTT
* * *
32635414 ACCTAGCAACATCCTTCCCGGTAGTCCCACCACACCATGCAACCTTAGCTTGACACTTGATTATG
54 ACCTAGCAACATCCTTCCAGGCAGTCCCACCACACCATGCAACCTTAGCTTGACCCTTGATTATG
* * *
32635479 TTACCATCCACCAATTCCCCGTGTACATCAGGGTTTACAGCCTTCAGGATTCCTTTCCCTTCACA
119 TTACCATCGACCAATTCCCCGTGTACATCAGGGTTTACAGCCTTCAGGATTCCATTCCCATCACA
*
32635544 CAAAGAATGTTTCGTTTAATACAAAT
184 CAAAGAATGTTTCATTTAA-ACAAAT
32635570 CCCCAAGCAAGCATGTACAAGTATCAGTATAGACAATTCCTGAAACCACTTTAAGAACCATTCTT
1 ---------A-C--GTACAAGTATCAGTATAGACAATTCCTGAAACCACTTTAAGAACCATTCTT
* * *
32635635 ACCTAGCAACATCCTTCCCGGCAGTCCCACCACACCGTGCAACCTTAGCTCGACCCTTGATTATG
54 ACCTAGCAACATCCTTCCAGGCAGTCCCACCACACCATGCAACCTTAGCTTGACCCTTGATTATG
* *
32635700 TTACCATCGACCAGTTCCCCGTGTACATCAGGGTTTACAACCTTCAGGATTCCATTCCC
119 TTACCATCGACCAATTCCCCGTGTACATCAGGGTTTACAGCCTTCAGGATTCCATTCCC
32635759 TTCCCAACAC
Statistics
Matches: 541, Mismatches: 54, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
206 41 0.08
207 138 0.26
208 1 0.00
218 3 0.01
219 1 0.00
220 6 0.01
221 351 0.65
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.26
Consensus pattern (208 bp):
ACGTACAAGTATCAGTATAGACAATTCCTGAAACCACTTTAAGAACCATTCTTACCTAGCAACAT
CCTTCCAGGCAGTCCCACCACACCATGCAACCTTAGCTTGACCCTTGATTATGTTACCATCGACC
AATTCCCCGTGTACATCAGGGTTTACAGCCTTCAGGATTCCATTCCCATCACACAAAGAATGTTT
CATTTAAACAAAT
Found at i:32638669 original size:14 final size:14
Alignment explanation
Indices: 32638650--32638689 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
32638640 GATAGCTCCT
32638650 AGCATGTGCAAGGA
1 AGCATGTGCAAGGA
32638664 AGCATGTGCAAGGA
1 AGCATGTGCAAGGA
32638678 AGCATGTGCAAG
1 AGCATGTGCAAG
32638690 TGCAACAGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (14 bp):
AGCATGTGCAAGGA
Found at i:32641169 original size:17 final size:17
Alignment explanation
Indices: 32641147--32641182 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
32641137 CCATAATCAC
32641147 AAATATTCTTTGCATCT
1 AAATATTCTTTGCATCT
*
32641164 AAATATTCTTTGTATCT
1 AAATATTCTTTGCATCT
32641181 AA
1 AA
32641183 TCTTGACTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (17 bp):
AAATATTCTTTGCATCT
Found at i:32648191 original size:18 final size:18
Alignment explanation
Indices: 32648168--32648202 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
32648158 CCTCTCAAAC
32648168 TCCAGCAAATTTACAAGA
1 TCCAGCAAATTTACAAGA
*
32648186 TCCAGCGAATTTACAAG
1 TCCAGCAAATTTACAAG
32648203 TTGCAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (18 bp):
TCCAGCAAATTTACAAGA
Found at i:32648613 original size:42 final size:42
Alignment explanation
Indices: 32648551--32648630 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
32648541 ACTTAATAAA
*
32648551 AAACTTGAATCAGCTGTTAATGATCAAACAAAAAAAAATCAT
1 AAACTTGAACCAGCTGTTAATGATCAAACAAAAAAAAATCAT
* *
32648593 AAACTTGAACCAGCTTTTAATGATCTAACAAAAAAAAA
1 AAACTTGAACCAGCTGTTAATGATCAAACAAAAAAAAA
32648631 GCTCCTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.53, C:0.15, G:0.09, T:0.24
Consensus pattern (42 bp):
AAACTTGAACCAGCTGTTAATGATCAAACAAAAAAAAATCAT
Found at i:32656250 original size:34 final size:35
Alignment explanation
Indices: 32656212--32656299 Score: 128
Period size: 34 Copynumber: 2.5 Consensus size: 35
32656202 CTTCACACAC
*
32656212 ATCTACTAAAGAGTAATCATAAATC-TTTA-CATG
1 ATCTACTAAAGAGTAACCATAAATCTTTTACCATG
32656245 TATCTACTAAAGAGTAACCATAAATCTTTTACGCATG
1 -ATCTACTAAAGAGTAACCATAAATCTTTTAC-CATG
32656282 -TCTACTAAAGAGTAACCA
1 ATCTACTAAAGAGTAACCA
32656300 GCATCCCTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
34 24 0.48
35 22 0.44
37 4 0.08
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (35 bp):
ATCTACTAAAGAGTAACCATAAATCTTTTACCATG
Found at i:32661212 original size:32 final size:31
Alignment explanation
Indices: 32661171--32661240 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 31
32661161 TTTAATTATG
32661171 AAACAAACCAAATAGGCTTCTCTCACTTACAA
1 AAACAAACCAAATAGGCTTCTCTCACTTAC-A
32661203 AAACAAACCAAATAGGCTTCTCTCACTTACA
1 AAACAAACCAAATAGGCTTCTCTCACTTACA
32661234 AAACAAA
1 AAACAAA
32661241 AGTTCAAGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 8 0.21
32 30 0.79
ACGTcount: A:0.47, C:0.27, G:0.06, T:0.20
Consensus pattern (31 bp):
AAACAAACCAAATAGGCTTCTCTCACTTACA
Found at i:32669004 original size:26 final size:26
Alignment explanation
Indices: 32668975--32669028 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
32668965 TAAACCTAGC
32668975 ACACATGCAGCCTTAAGCTAGAAACT
1 ACACATGCAGCCTTAAGCTAGAAACT
*
32669001 ACACATGCAGCCTTAAGCTATAAACT
1 ACACATGCAGCCTTAAGCTAGAAACT
32669027 AC
1 AC
32669029 GGTCCATGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.28, G:0.13, T:0.20
Consensus pattern (26 bp):
ACACATGCAGCCTTAAGCTAGAAACT
Found at i:32672673 original size:21 final size:23
Alignment explanation
Indices: 32672635--32672681 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
32672625 TGAAAACATA
*
32672635 AAATATATTTTTTTA-TTTTATT
1 AAATATATTTTATTATTTTTATT
32672657 AAATATA-TTTATTATTTTTATT
1 AAATATATTTTATTATTTTTATT
32672679 AAA
1 AAA
32672682 ATTTTAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
AAATATATTTTATTATTTTTATT
Found at i:32672814 original size:21 final size:21
Alignment explanation
Indices: 32672790--32672832 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
32672780 CTTAATTTAA
* *
32672790 AATACGATA-AAATAATGATAT
1 AATACAATATAAA-AATAATAT
32672811 AATACAATATAAAAATAATAT
1 AATACAATATAAAAATAATAT
32672832 A
1 A
32672833 CAAAAATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (21 bp):
AATACAATATAAAAATAATAT
Found at i:32689568 original size:11 final size:11
Alignment explanation
Indices: 32689552--32689576 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32689542 GGGAAGGTAC
32689552 ATGTATATATA
1 ATGTATATATA
32689563 ATGTATATATA
1 ATGTATATATA
32689574 ATG
1 ATG
32689577 ATGTTGACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (11 bp):
ATGTATATATA
Found at i:32702883 original size:11 final size:11
Alignment explanation
Indices: 32702854--32702890 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
32702844 TATAAAAAAT
*
32702854 AAATAAAATTA
1 AAATTAAATTA
32702865 ATAATTAAATTA
1 A-AATTAAATTA
32702877 AAATTAAATTA
1 AAATTAAATTA
32702888 AAA
1 AAA
32702891 CAATATGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTAAATTA
Found at i:32703156 original size:41 final size:40
Alignment explanation
Indices: 32703056--32703139 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
32703046 ACCAAAAAAA
*
32703056 AATTGACCCTTATGATTCAATGTACATGAATTTTTTATAT
1 AATTGACCCTTATGATTCAATGAACATGAATTTTTTATAT
*
32703096 AATTGACCCTCATGATTCAATGAACATGAATTTTTTATAT
1 AATTGACCCTTATGATTCAATGAACATGAATTTTTTATAT
32703136 AATT
1 AATT
32703140 TTACTTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.43
Consensus pattern (40 bp):
AATTGACCCTTATGATTCAATGAACATGAATTTTTTATAT
Found at i:32703552 original size:19 final size:19
Alignment explanation
Indices: 32703516--32703558 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
32703506 TAGATACAAC
*
32703516 ATATAAAAATAACTTATAT
1 ATATAAAAATAACATATAT
*
32703535 GTATAAAATATAA-ATATAT
1 ATATAAAA-ATAACATATAT
32703554 ATATA
1 ATATA
32703559 TATATTAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
ATATAAAAATAACATATAT
Found at i:32710040 original size:60 final size:60
Alignment explanation
Indices: 32709951--32710064 Score: 133
Period size: 60 Copynumber: 1.9 Consensus size: 60
32709941 ATAGAAAAGG
* * * * * * *
32709951 TATTTTATAATTATGGTAAAATAGTATTATAGTGATTTTTGTTAATTAT-AAAAGAAGCA
1 TATTTTATAATTACGATAAAATAGCATTATAATAATTTTGGCTAATTATGAAAAGAAGCA
32710010 TATTTCTATAATTACGATAAAAATA-CATTATAATAATTTTGGCTAATTATGAAAA
1 TATTT-TATAATTACGAT-AAAATAGCATTATAATAATTTTGGCTAATTATGAAAA
32710065 AAATAATATT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
59 5 0.11
60 30 0.67
61 10 0.22
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (60 bp):
TATTTTATAATTACGATAAAATAGCATTATAATAATTTTGGCTAATTATGAAAAGAAGCA
Found at i:32710639 original size:31 final size:30
Alignment explanation
Indices: 32710603--32710664 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
32710593 TTAATTTTGA
32710603 TCAATAATAGGAGT-AAGGGTATTTTCATAAT
1 TCAATAATA--AGTGAAGGGTATTTTCATAAT
**
32710634 TCAATAATAAGTGATTGGTATTTTCATAAT
1 TCAATAATAAGTGAAGGGTATTTTCATAAT
32710664 T
1 T
32710665 ATAATATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 3 0.11
30 16 0.57
31 9 0.32
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.40
Consensus pattern (30 bp):
TCAATAATAAGTGAAGGGTATTTTCATAAT
Found at i:32724213 original size:2 final size:2
Alignment explanation
Indices: 32724208--32724241 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
32724198 AAACCCAATC
32724208 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32724242 TACAACATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.