Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 34 of 121
Found at i:6034406 original size:52 final size:52
Alignment explanation
Indices: 6034319--6034423 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 52
6034309 TGGATAAGAA
* * *
6034319 GACTTGTAGAAGAATAATTCTAAAGGAAAAGGGATTCTTAAAAGACAAGTTT
1 GACTTGTAAAAGAAGAATTCTAAAGGAAAAGGGATTCTTAAAAGACAAATTT
* *
6034371 GACTTGTAAAAGAAGACTTCTAAAAGGAAAA-GGATTCTTAATAGACAAATTT
1 GACTTGTAAAAGAAGAATTCT-AAAGGAAAAGGGATTCTTAAAAGACAAATTT
6034423 G
1 G
6034424 TATGCTTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 38 0.81
53 9 0.19
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.27
Consensus pattern (52 bp):
GACTTGTAAAAGAAGAATTCTAAAGGAAAAGGGATTCTTAAAAGACAAATTT
Found at i:6035290 original size:52 final size:53
Alignment explanation
Indices: 6035228--6035328 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 53
6035218 TGAACAAGAA
* * *
6035228 AACTTGCAAAAGAAGAATTCTAAGA-GAAAAGAGATTCTTAAAAGACAAGTTT
1 AACTTACAAAAGAAAAATTCTAAAAGGAAAAGAGATTCTTAAAAGACAAGTTT
* * * *
6035280 AACTTACAAAAGAAAAATTTTAAAAGGAAAAGGGGTTCTTAATAGACAA
1 AACTTACAAAAGAAAAATTCTAAAAGGAAAAGAGATTCTTAAAAGACAA
6035329 ATTTGTATGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
52 21 0.51
53 20 0.49
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.23
Consensus pattern (53 bp):
AACTTACAAAAGAAAAATTCTAAAAGGAAAAGAGATTCTTAAAAGACAAGTTT
Found at i:6036475 original size:87 final size:87
Alignment explanation
Indices: 6036357--6036530 Score: 294
Period size: 87 Copynumber: 2.0 Consensus size: 87
6036347 TACAAAAATG
6036357 CCTCAAACTCTCCAATTAGAAGCAATAAAAATGGTTATACTAAAAGATTTATTTATAATAAATGA
1 CCTCAAACTCTCCAATTAGAAGCAATAAAAATGGTTATACTAAAAGATTTATTTATAATAAATGA
*
6036422 ACAGACATAAACTTCTATTCAA
66 ACAAACATAAACTTCTATTCAA
* * *
6036444 CCTCAACCTCTCCAATTAGAAGCAATGAAAATGGTTATACTAAAAGATTTATTTATAATGAATGA
1 CCTCAAACTCTCCAATTAGAAGCAATAAAAATGGTTATACTAAAAGATTTATTTATAATAAATGA
* *
6036509 ACAAATATAAATTTCTATTCAA
66 ACAAACATAAACTTCTATTCAA
6036531 ATGGTTATGA
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.31
Consensus pattern (87 bp):
CCTCAAACTCTCCAATTAGAAGCAATAAAAATGGTTATACTAAAAGATTTATTTATAATAAATGA
ACAAACATAAACTTCTATTCAA
Found at i:6039631 original size:3 final size:3
Alignment explanation
Indices: 6039623--6039656 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
6039613 AAACATATCT
6039623 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
6039657 TCACATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6040862 original size:20 final size:21
Alignment explanation
Indices: 6040818--6040862 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
6040808 AAAATTAATA
*
6040818 CAAA-AATTAATTTTATTTAT
1 CAAATAATTAAATTTATTTAT
6040838 C-AATAATTAAATTT-TTTAT
1 CAAATAATTAAATTTATTTAT
6040857 CAAATA
1 CAAATA
6040863 TAAAATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
CAAATAATTAAATTTATTTAT
Found at i:6042518 original size:159 final size:159
Alignment explanation
Indices: 6042229--6042546 Score: 591
Period size: 159 Copynumber: 2.0 Consensus size: 159
6042219 TGTATCATTG
6042229 TAGTCATTTATTTTTTATAATTAAGGCTGCCAAAGATTGAACCCTAAACATTGGAACTAAGAGTC
1 TAGTCATTTATTTTTTATAATTAAGGCTGCCAAAGATTGAACCCTAAACATTGGAACTAAGAGTC
*
6042294 CAATATCACATGGCTATTGGCAAAGCCTGAGACTTTGGCGAAAAAATGGATGAACCATTCGGACT
66 CAACATCACATGGCTATTGGCAAAGCCTGAGACTTTGGCGAAAAAATGGATGAACCATTCGGACT
6042359 AAGTGTGAGGTTTGACATTTAACTTTTCC
131 AAGTGTGAGGTTTGACATTTAACTTTTCC
6042388 TAGTCATTTATTTTTTATAATTAAGGCTGCCAAAGATTGAACCCTAAACATTGGAACTAAGAGTC
1 TAGTCATTTATTTTTTATAATTAAGGCTGCCAAAGATTGAACCCTAAACATTGGAACTAAGAGTC
* * * *
6042453 CAACATCATATGGCTATTGGCAAAGCCTGAGACTTTGGTGAAAAAATGGATGAATCATTTGGACT
66 CAACATCACATGGCTATTGGCAAAGCCTGAGACTTTGGCGAAAAAATGGATGAACCATTCGGACT
6042518 AAGTGTGAGGTTTGACATTTAACTTTTCC
131 AAGTGTGAGGTTTGACATTTAACTTTTCC
6042547 CCAATTTTGG
Statistics
Matches: 154, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
159 154 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (159 bp):
TAGTCATTTATTTTTTATAATTAAGGCTGCCAAAGATTGAACCCTAAACATTGGAACTAAGAGTC
CAACATCACATGGCTATTGGCAAAGCCTGAGACTTTGGCGAAAAAATGGATGAACCATTCGGACT
AAGTGTGAGGTTTGACATTTAACTTTTCC
Found at i:6044726 original size:13 final size:13
Alignment explanation
Indices: 6044708--6044733 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6044698 AGGATTAGTG
6044708 GGTAGTAGTTATT
1 GGTAGTAGTTATT
6044721 GGTAGTAGTTATT
1 GGTAGTAGTTATT
6044734 AAACGTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (13 bp):
GGTAGTAGTTATT
Found at i:6047201 original size:16 final size:18
Alignment explanation
Indices: 6047164--6047221 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
6047154 ATTTTTCATA
6047164 ATTTTTTAAAATTTTATG
1 ATTTTTTAAAATTTTATG
6047182 ATTTTTTAAAATTTT-T-
1 ATTTTTTAAAATTTTATG
* * *
6047198 ATTTTTAAAAATTATATA
1 ATTTTTTAAAATTTTATG
6047216 ATTTTT
1 ATTTTT
6047222 CGAAGATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
16 13 0.36
17 2 0.06
18 21 0.58
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTTTTAAAATTTTATG
Found at i:6052815 original size:21 final size:21
Alignment explanation
Indices: 6052790--6052857 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
6052780 TTAACAGCTG
*
6052790 CATGCCTAGTTTAAGCATCAT
1 CATGCCTACTTTAAGCATCAT
*
6052811 TATGCCTACTTTAAGCATCAT
1 CATGCCTACTTTAAGCATCAT
* * *
6052832 CATGTCAATTTTAAGCATCAT
1 CATGCCTACTTTAAGCATCAT
6052853 CATGC
1 CATGC
6052858 AGTGAGTGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (21 bp):
CATGCCTACTTTAAGCATCAT
Found at i:6053444 original size:2 final size:2
Alignment explanation
Indices: 6053437--6053469 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6053427 ATTATCAATT
6053437 TA TA TA 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 TA TA TA T
6053470 CATAAATGAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6059749 original size:14 final size:14
Alignment explanation
Indices: 6059730--6059758 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6059720 CATATAATAC
6059730 CAATCTTATTATTG
1 CAATCTTATTATTG
6059744 CAATCTTATTATTG
1 CAATCTTATTATTG
6059758 C
1 C
6059759 CTCATTGAAA
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:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (14 bp):
CAATCTTATTATTG
Found at i:6065423 original size:232 final size:236
Alignment explanation
Indices: 6064965--6065440 Score: 789
Period size: 232 Copynumber: 2.0 Consensus size: 236
6064955 AAAAGACATG
*
6064965 TTACTAAATAATTAGTTAAAAACTTATAAAAAATATTTTTATTTTTAATTAAAAAGTATGAGACT
1 TTACTAAATAATTAGTTAAAAACTTAGAAAAAATATTTTTATTTTTAATTAAAAAGTATGAGACT
* * *
6065030 CAACTTTATCAAATCCAATAAAAATTTTAAAATGAAAAAAAAAAATACAAAGAGCATTTATCATT
66 AAACTTCATCAAATCCAATAAAAATTTTAAAATG-----AAAAAATACAAAGAGCATTTATCATA
*
6065095 TTTTTGTAAGTAAAAGAATCAAATAAAAAATTATTGAATTTGATTATCCAATTGAAACAAATCAA
126 TTTTTGTAAGTAAAAGAATCAAATAAAAAATTATTGAATTTGATTATCCAATTGAAACAAATAAA
6065160 AAATAAATATTAAACAATATAATTCTTCTTATACTTTCATGAATTA
191 AAATAAATATTAAACAATATAATTCTTCTTATACTTTCATGAATTA
* *
6065206 TTACTAAATAATTAGTTAAAAAGTTAGATAAAATATTTTTATTTTTAATTAAAAAGTATGAGACT
1 TTACTAAATAATTAGTTAAAAACTTAGAAAAAATATTTTTATTTTTAATTAAAAAGTATGAGACT
6065271 AAACTTCATCAAATCCAATAAAAATTTTAAAATG-AAAAA-A-AAAGAGCATTTATCA-ATTTTT
66 AAACTTCATCAAATCCAATAAAAATTTTAAAATGAAAAAATACAAAGAGCATTTATCATATTTTT
*
6065332 GTAAGTAAAAGAATCAAATAAAAAATTATTGAATTTGATTGTCCAATTGAAACAAATAAAAAATA
131 GTAAGTAAAAGAATCAAATAAAAAATTATTGAATTTGATTATCCAATTGAAACAAATAAAAAATA
* *
6065397 AATATTAAACACTATAATTCTTCTTATATTTTCATGAATTA
196 AATATTAAACAATATAATTCTTCTTATACTTTCATGAATTA
6065438 TTA
1 TTA
6065441 GATGACAAAA
Statistics
Matches: 225, Mismatches: 10, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
232 110 0.49
233 15 0.07
234 1 0.00
235 5 0.02
241 94 0.42
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (236 bp):
TTACTAAATAATTAGTTAAAAACTTAGAAAAAATATTTTTATTTTTAATTAAAAAGTATGAGACT
AAACTTCATCAAATCCAATAAAAATTTTAAAATGAAAAAATACAAAGAGCATTTATCATATTTTT
GTAAGTAAAAGAATCAAATAAAAAATTATTGAATTTGATTATCCAATTGAAACAAATAAAAAATA
AATATTAAACAATATAATTCTTCTTATACTTTCATGAATTA
Found at i:6069428 original size:3 final size:3
Alignment explanation
Indices: 6069420--6069458 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
6069410 ATTGTTGGTT
6069420 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6069459 AATCATCAAG
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6075513 original size:19 final size:18
Alignment explanation
Indices: 6075489--6075525 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
6075479 TCACTAATGG
6075489 ATGAAAAAATAATCAAAAA
1 ATGAAAAAA-AATCAAAAA
*
6075508 ATGAAAAAAAATGAAAAA
1 ATGAAAAAAAATCAAAAA
6075526 TAAAAAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.14
Consensus pattern (18 bp):
ATGAAAAAAAATCAAAAA
Found at i:6076270 original size:71 final size:71
Alignment explanation
Indices: 6076145--6076279 Score: 180
Period size: 71 Copynumber: 1.9 Consensus size: 71
6076135 GAATGATGAA
* *
6076145 AATAATATGGATCAAAGGATAAAATTTATTCTGAAATGGCTATTGCTGAGAAGCCAATGAATTGT
1 AATAATATGGATCAAAGGATAAAATTTATTCTGAAATGGCTAATGCTGAAAAGCCAATGAATTGT
6076210 GGTGAC
66 GGTGAC
* * * * * * **
6076216 AATAGTATGGATCAATGGATGAAATTTGTTGTGAAATTGCTAATGCTGAAAAGCCTGTGAATTG
1 AATAATATGGATCAAAGGATAAAATTTATTCTGAAATGGCTAATGCTGAAAAGCCAATGAATTG
6076280 CAATCAAGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
71 54 1.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (71 bp):
AATAATATGGATCAAAGGATAAAATTTATTCTGAAATGGCTAATGCTGAAAAGCCAATGAATTGT
GGTGAC
Found at i:6077258 original size:43 final size:43
Alignment explanation
Indices: 6077200--6077685 Score: 508
Period size: 43 Copynumber: 11.2 Consensus size: 43
6077190 GTTGATGAGC
* * *
6077200 TTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCATTA
1 TTTATTTTTTAAAGTTATTGAGCCTCTGTTTAGAGGAGCTTTA
* * * *
6077243 TTTATTTTTTAAAGTTGTTGAACCTCTATTTAGAGGAGCATTA
1 TTTATTTTTTAAAGTTATTGAGCCTCTGTTTAGAGGAGCTTTA
* * *
6077286 TTTATTTTCTGAAGTTATTAAGCCTCTGTTTAGAGGAGCTTTA
1 TTTATTTTTTAAAGTTATTGAGCCTCTGTTTAGAGGAGCTTTA
** ** * *
6077329 TTTATTTTCAAAAGTTGCTGAGCCTCTATTTAGA-GAACTTTTA
1 TTTATTTTTTAAAGTTATTGAGCCTCTGTTTAGAGGAGC-TTTA
* * * *
6077372 TTTATTTTTTTCAAAGTCATTAAGCTTCTTTTTAGAGGAGCTTTA
1 TTTA-TTTTTT-AAAGTTATTGAGCCTCTGTTTAGAGGAGCTTTA
** * * * *
6077417 TTTATTTTCAAAAATTATTAAGCTTCTGTTTAGATGAGCTTTA
1 TTTATTTTTTAAAGTTATTGAGCCTCTGTTTAGAGGAGCTTTA
* * * * * *
6077460 TTTATTTTTCAAAGTTGTTGAGCCTTTGTTTAAAGAACCTTTA
1 TTTATTTTTTAAAGTTATTGAGCCTCTGTTTAGAGGAGCTTTA
* * **
6077503 TTTATTTTTTTCAAAGTCATTGAGTCTCTACTTAGAGGAGCTTTA
1 TTTA-TTTTTT-AAAGTTATTGAGCCTCTGTTTAGAGGAGCTTTA
* *
6077548 TTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGA-CTTTTA
1 TTTATTTTTTAAAGTTATTGAGCCTCTGTTTAGAGGAGC-TTTA
* * *
6077591 TTTATTTTTTCAAAGTCATTAAGTCTCTGTTTAGAGGAGCTTTA
1 TTTATTTTTT-AAAGTTATTGAGCCTCTGTTTAGAGGAGCTTTA
* *
6077635 TTTATTTTTTAAAGTTATTGAGCCTCTGCTTAAAGGAGCTTTA
1 TTTATTTTTTAAAGTTATTGAGCCTCTGTTTAGAGGAGCTTTA
6077678 TTTATTTT
1 TTTATTTT
6077686 CCAAACTTGC
Statistics
Matches: 369, Mismatches: 65, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
42 4 0.01
43 250 0.68
44 57 0.15
45 55 0.15
46 3 0.01
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (43 bp):
TTTATTTTTTAAAGTTATTGAGCCTCTGTTTAGAGGAGCTTTA
Found at i:6077445 original size:131 final size:128
Alignment explanation
Indices: 6077200--6077686 Score: 552
Period size: 131 Copynumber: 3.7 Consensus size: 128
6077190 GTTGATGAGC
* * **
6077200 TTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCATTATTTATTTTTTAAAGTTGTTGAA
1 TTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAACTTTATTTATTTTTTAAAGTCATT-AA
* * *
6077265 -CCTCTATTTAGAGGAGCATTATTTATTTTCTGAAGTTATTAAGCCTCTGTTTAGAGGAGCTTTA
65 GCCTCTACTTAGAGGAGCTTTATTTATTTTC-AAAGTTATTAAGCCTCTGTTTAGAGGAGCTTTA
* *
6077329 TTTA-TTTTCAAAAGTTGCTGAGCCTCTATTTAGA-GAACTTTTATTTATTTTTTTCAAAGTCAT
1 TTTATTTTTC-AAAGTTGTTGAGCCTCTGTTTAGAGGAAC-TTTATTTA-TTTTTT-AAAGTCAT
* ** * * *
6077392 TAAGCTTCTTTTTAGAGGAGCTTTATTTATTTTCAAAAATTATTAAGCTTCTGTTTAGATGAGCT
62 TAAGCCTCTACTTAGAGGAGCTTTATTTATTTTC-AAAGTTATTAAGCCTCTGTTTAGAGGAGCT
6077457 TTA
126 TTA
* *
6077460 TTTATTTTTCAAAGTTGTTGAGCCTTTGTTTA-AAGAACCTTTATTTATTTTTTTCAAAGTCATT
1 TTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAA-CTTTATTTA-TTTTTT-AAAGTCATT
* * * *
6077524 GAGTCTCTACTTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGA-CTT
63 AAGCCTCTACTTAGAGGAGCTTTATTTA-TTTTCAAAGTTATTAAGCCTCTGTTTAGAGGAGC-T
6077588 TTA
126 TTA
** * * * * *
6077591 TTTATTTTTTCAAAGTCATTAAGTCTCTGTTTAGAGGAGCTTTATTTATTTTTTAAAGTTATTGA
1 TTTA-TTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAACTTTATTTATTTTTTAAAGTCATTAA
* *
6077656 GCCTCTGCTTAAAGGAGCTTTATTTATTTTC
65 GCCTCTACTTAGAGGAGCTTTATTTATTTTC
6077687 CAAACTTGCG
Statistics
Matches: 308, Mismatches: 38, Indels: 24
0.83 0.10 0.06
Matches are distributed among these distances:
128 8 0.03
129 38 0.12
130 43 0.14
131 173 0.56
132 43 0.14
133 3 0.01
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (128 bp):
TTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAACTTTATTTATTTTTTAAAGTCATTAAG
CCTCTACTTAGAGGAGCTTTATTTATTTTCAAAGTTATTAAGCCTCTGTTTAGAGGAGCTTTA
Found at i:6077504 original size:174 final size:170
Alignment explanation
Indices: 6077200--6077709 Score: 555
Period size: 174 Copynumber: 2.9 Consensus size: 170
6077190 GTTGATGAGC
** * * *
6077200 TTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCATTATTTATTTTTTAAAGTTGTTGAA
1 TTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTATTTA-TTTTCAAAGTTATT-AA
* * * * * *
6077265 -CCTCTATTTAGAGGAGCATTATTTA-TTTTCTGAAGTTATTAAGCCTCTGTTTAGAGGAGCTTT
64 GCTTCTGTTTAGAGGAGCTTTATTTATTTTTC-AAAGTTATTGAGCCTCTGTTTAAAGGAGCTTT
*
6077328 ATTTATTTTCAAAAGTTGCTGAGCCTCTATTTAGA-GAACTTTTA
128 ATTTATTTTC-AAAGTTGCTGAGCCTCTACTTAGAGGAAC-TTTA
* * * *
6077372 TTTATTTTTTTCAAAGTCATTAAGCTTCTTTTTAGAGGAGCTTTATTTATTTTCAAAAATTATTA
1 TTTA--TTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTC-AAAGTTATTA
* * * * *
6077437 AGCTTCTGTTTAGATGAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTTTGTTTAAAGAACCTTT
63 AGCTTCTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAAAGGAGCTTT
*** * *
6077502 ATTTATTTTTTTCAAAGTCATTGAGTCTCTACTTAGAGGAGCTTTA
128 ATTTA---TTTTCAAAGTTGCTGAGCCTCTACTTAGAGGAACTTTA
*
6077548 TTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGA-CTTTTATTTATTTTTTCAAAGTCATTA
1 TTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGC-TTTATTTA--TTTTCAAAGTTATTA
* *
6077612 AG-TCTCTGTTTAGAGGAGCTTTATTTATTTTTTAAAGTTATTGAGCCTCTGCTTAAAGGAGCTT
63 AGCT-TCTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAAAGGAGCTT
* *
6077676 TATTTATTTTCCAAACTTGC-GAGCCTCTGCTTAG
127 TATTTATTTT-CAAAGTTGCTGAGCCTCTACTTAG
6077710 GGGAGTTTTA
Statistics
Matches: 280, Mismatches: 44, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
172 20 0.07
173 12 0.04
174 134 0.48
175 74 0.26
176 32 0.11
177 8 0.03
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.47
Consensus pattern (170 bp):
TTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTCAAAGTTATTAAGC
TTCTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAAAGGAGCTTTATT
TATTTTCAAAGTTGCTGAGCCTCTACTTAGAGGAACTTTA
Found at i:6079053 original size:25 final size:27
Alignment explanation
Indices: 6079020--6079069 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
6079010 TTAATTATCC
6079020 AATGATAAA-ATTTATAAAA-ATTTCA
1 AATGATAAATATTTATAAAATATTTCA
* *
6079045 AATGTTAAATTTTTATAAAATATTT
1 AATGATAAATATTTATAAAATATTT
6079070 AGGTGAGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 9 0.43
27 4 0.19
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (27 bp):
AATGATAAATATTTATAAAATATTTCA
Found at i:6083741 original size:24 final size:25
Alignment explanation
Indices: 6083714--6083767 Score: 92
Period size: 26 Copynumber: 2.2 Consensus size: 25
6083704 GCGTTGCCGG
6083714 TAATCAAGT-GAGATATGATAGAAT
1 TAATCAAGTAGAGATATGATAGAAT
6083738 TAATCAAGTGAGAGATATGATAGAAT
1 TAATCAAGT-AGAGATATGATAGAAT
6083764 TAAT
1 TAAT
6083768 TTTTATTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 9 0.32
26 19 0.68
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (25 bp):
TAATCAAGTAGAGATATGATAGAAT
Found at i:6085141 original size:72 final size:71
Alignment explanation
Indices: 6085045--6085201 Score: 203
Period size: 74 Copynumber: 2.2 Consensus size: 71
6085035 TTTTTTTATT
* * *
6085045 TATAGTTTTAAAAAGACAATATTTTTAAGATT-AAAAACATAATCTTTT-TTTAAATTATATTTT
1 TATAATTTTAAAAAGACAATATTTTTAAGATTAAAAAACATAAT-TTTTGTTGAAACTATATTTT
6085108 CATAATTC
65 CA-AATTC
*
6085116 TATAATTTTAATAAAGA-ATATATTTTTAAGATTAAAAAAATATAATTTTTGTTGAAACTATATT
1 TATAATTTTAA-AAAGACA-ATATTTTTAAGATT-AAAAAACATAATTTTTGTTGAAACTATATT
6085180 TTCAAATTC
63 TTCAAATTC
*
6085189 TATAATTATAAAA
1 TATAATTTTAAAA
6085202 GGTCTATAAG
Statistics
Matches: 76, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
71 11 0.14
72 21 0.28
73 19 0.25
74 25 0.33
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (71 bp):
TATAATTTTAAAAAGACAATATTTTTAAGATTAAAAAACATAATTTTTGTTGAAACTATATTTTC
AAATTC
Found at i:6087653 original size:12 final size:13
Alignment explanation
Indices: 6087638--6087697 Score: 65
Period size: 12 Copynumber: 4.7 Consensus size: 13
6087628 AAATTATTTT
6087638 TTTAATTT-TATA
1 TTTAATTTATATA
6087650 TTTAATTATATATA
1 TTTAATT-TATATA
6087664 TTT--TTATATATA
1 TTTAATT-TATATA
6087676 TTTAATTT-TATA
1 TTTAATTTATATA
6087688 TTTATATTTA
1 TTTA-ATTTA
6087698 AAATAATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
12 27 0.64
13 6 0.14
14 9 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTAATTTATATA
Found at i:6087670 original size:22 final size:22
Alignment explanation
Indices: 6087643--6087698 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
6087633 ATTTTTTTAA
6087643 TTTTATATTTAATT-ATATATAT
1 TTTTATATTTAATTAAT-TATAT
* * *
6087665 TTTTATATATATTTAATTTTAT
1 TTTTATATTTAATTAATTATAT
*
6087687 ATTTATATTTAA
1 TTTTATATTTAA
6087699 AATAATATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTATATTTAATTAATTATAT
Found at i:6087675 original size:16 final size:16
Alignment explanation
Indices: 6087656--6087694 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6087646 TATATTTAAT
*
6087656 TATATATATTTTTATA
1 TATATATAATTTTATA
*
6087672 TATATTTAATTTTATA
1 TATATATAATTTTATA
*
6087688 TTTATAT
1 TATATAT
6087695 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATATAATTTTATA
Found at i:6096346 original size:148 final size:154
Alignment explanation
Indices: 6096193--6096473 Score: 396
Period size: 148 Copynumber: 1.9 Consensus size: 154
6096183 AAATTAAACG
** ** * *
6096193 ACATAAATATTCTTATAAATTTTAAGGAATAATAAATTTATCA-TTAAATTT-TTA-A-T-TTT-
1 ACATAAATAAACTTATAAATTTTAAAAAATAACAAATTTAT-ATTTAAATTTCTAACATTATTTA
*
6096252 TTTATTTATTAAAGATTATTTATCATTAAATATATAG-TTTTTATTAGTTAGTTATTTAAATATA
65 TTTATTTAATAAAGATTATTTATCATTAAATATATAGATTTTTATTAGTTAGTTATTTAAATATA
6096316 AATTGAAAAGTATTAAAAATGAATA
130 AATTGAAAAGTATTAAAAATGAATA
*
6096341 ACATAAATAAACTTATAAATTTTAAAAAATAACAAATTTATATTTCAATTTCTAACATTATTTAA
1 ACATAAATAAACTTATAAATTTTAAAAAATAACAAATTTATATTTAAATTTCTAACATTATTT-A
* * *
6096406 TTTATTTAATAATGATTATTTATCATTAAATATATAGATTTTTATTCGTTAGTTATTTAAATTTA
65 TTTATTTAATAAAGATTATTTATCATTAAATATATAGATTTTTATTAGTTAGTTATTTAAATATA
6096471 AAT
130 AAT
6096474 CAATTAAAAA
Statistics
Matches: 114, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
147 1 0.01
148 43 0.38
149 2 0.02
150 1 0.01
151 1 0.01
152 3 0.03
154 35 0.31
155 28 0.25
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (154 bp):
ACATAAATAAACTTATAAATTTTAAAAAATAACAAATTTATATTTAAATTTCTAACATTATTTAT
TTATTTAATAAAGATTATTTATCATTAAATATATAGATTTTTATTAGTTAGTTATTTAAATATAA
ATTGAAAAGTATTAAAAATGAATA
Found at i:6097417 original size:14 final size:13
Alignment explanation
Indices: 6097398--6097423 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6097388 TATCACTCAC
6097398 TTTTTTTTAAATA
1 TTTTTTTTAAATA
6097411 TTTTTTTTAAATA
1 TTTTTTTTAAATA
6097424 CTCTAAAGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTTTTAAATA
Found at i:6099479 original size:22 final size:22
Alignment explanation
Indices: 6099454--6099729 Score: 97
Period size: 22 Copynumber: 12.6 Consensus size: 22
6099444 TAAATTATGG
6099454 ATAACTTAATAGTAAATTAATA
1 ATAACTTAATAGTAAATTAATA
* * * *
6099476 ATAACATAATAGTCAATAAATT
1 ATAACTTAATAGTAAATTAATA
* * *
6099498 ATAATTTAGTAGTAAA-TAATTG
1 ATAACTTAATAGTAAATTAA-TA
** * *** *
6099520 ATAAGATAAT--TATATGCCGGTG
1 ATAACTTAATAGTAAAT--TAATA
* *
6099542 ATAACATAATAATAAA-TACATA
1 ATAACTTAATAGTAAATTA-ATA
*
6099564 ATAA-TATAATAGTAAA-TAACAA
1 ATAACT-TAATAGTAAATTAA-TA
* * *
6099586 ATAACTTAATAGTAAATCATTT
1 ATAACTTAATAGTAAATTAATA
* *
6099608 AT-ACATAATTGTAAA-TACATA
1 ATAACTTAATAGTAAATTA-ATA
* * **
6099629 A-AAATATTATAGTAAATTAAGG
1 ATAACT-TAATAGTAAATTAATA
* *
6099651 ATAATTTAATA--AAAATAAGTA
1 ATAACTTAATAGTAAATTAA-TA
* *
6099672 ATAACTTGATAGTAAATAAATA
1 ATAACTTAATAGTAAATTAATA
* *
6099694 ATAACTTAGTAATAAATTAATA
1 ATAACTTAATAGTAAATTAATA
*
6099716 ATAATTTAATAGTA
1 ATAACTTAATAGTA
6099730 GATAAGATTC
Statistics
Matches: 178, Mismatches: 57, Indels: 38
0.65 0.21 0.14
Matches are distributed among these distances:
20 10 0.06
21 26 0.15
22 127 0.71
23 12 0.07
24 3 0.02
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTAATA
Found at i:6099564 original size:14 final size:15
Alignment explanation
Indices: 6099545--6099574 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6099535 GCCGGTGATA
6099545 ACATAATAATA-AAT
1 ACATAATAATATAAT
6099559 ACATAATAATATAAT
1 ACATAATAATATAAT
6099574 A
1 A
6099575 GTAAATAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (15 bp):
ACATAATAATATAAT
Found at i:6099708 original size:11 final size:11
Alignment explanation
Indices: 6099641--6099726 Score: 59
Period size: 11 Copynumber: 7.9 Consensus size: 11
6099631 AATATTATAG
**
6099641 TAAATTAAGGA
1 TAAATTAATAA
*
6099652 TAATTTAATAA
1 TAAATTAATAA
6099663 -AAA-TAAGTAA
1 TAAATTAA-TAA
* * *
6099673 TAACTTGATAG
1 TAAATTAATAA
*
6099684 TAAATAAATAA
1 TAAATTAATAA
* *
6099695 TAACTTAGTAA
1 TAAATTAATAA
6099706 TAAATTAATAA
1 TAAATTAATAA
*
6099717 TAATTTAATA
1 TAAATTAATA
6099727 GTAGATAAGA
Statistics
Matches: 55, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
9 3 0.05
10 5 0.09
11 45 0.82
12 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (11 bp):
TAAATTAATAA
Found at i:6100045 original size:11 final size:11
Alignment explanation
Indices: 6100031--6100226 Score: 53
Period size: 11 Copynumber: 17.6 Consensus size: 11
6100021 ATAAATCATA
*
6100031 AATAACTTAAT
1 AATAAATTAAT
6100042 AATAAATTAAT
1 AATAAATTAAT
* * *
6100053 GATAATTTAGT
1 AATAAATTAAT
*
6100064 AGTAAA-TAAT
1 AATAAATTAAT
* *
6100074 -TTAGAACTTAGT
1 AATA-AA-TTAAT
6100086 AAT-AATTAAT
1 AATAAATTAAT
6100096 AATTAAAAATTAA-
1 AA-T--AAATTAAT
*
6100109 AAGTAAATCAAT
1 AA-TAAATTAAT
*
6100121 -ATAACTTAAT
1 AATAAATTAAT
* *
6100131 AAT-AACTACT
1 AATAAATTAAT
*
6100141 GATAAATTAAT
1 AATAAATTAAT
** * *
6100152 GGTTAATCAAT
1 AATAAATTAAT
*
6100163 AATAATTTAGTAT
1 AATAAATTA--AT
6100176 AATAAATTAAT
1 AATAAATTAAT
* *
6100187 GATAACTTAAT
1 AATAAATTAAT
** * *
6100198 AGCATATCAAT
1 AATAAATTAAT
*
6100209 AATAATTTAAT
1 AATAAATTAAT
*
6100220 AGTAAAT
1 AATAAAT
6100227 AATTGTTATC
Statistics
Matches: 126, Mismatches: 46, Indels: 26
0.64 0.23 0.13
Matches are distributed among these distances:
9 2 0.02
10 24 0.19
11 77 0.61
12 3 0.02
13 14 0.11
14 6 0.05
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (11 bp):
AATAAATTAAT
Found at i:6100662 original size:11 final size:11
Alignment explanation
Indices: 6100646--6100706 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
6100636 AGTTAATTAT
6100646 TAATAACTTCA
1 TAATAACTTCA
*
6100657 TAATAA-ATCA
1 TAATAACTTCA
6100667 TAAATAACTTCA
1 T-AATAACTTCA
* *
6100679 TAGTAAATT-A
1 TAATAACTTCA
*
6100689 GTAATAACTTTA
1 -TAATAACTTCA
6100701 TAATAA
1 TAATAA
6100707 ATTATCTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 5 0.12
11 30 0.75
12 5 0.12
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (11 bp):
TAATAACTTCA
Found at i:6100775 original size:22 final size:22
Alignment explanation
Indices: 6100022--6100787 Score: 188
Period size: 22 Copynumber: 34.8 Consensus size: 22
6100012 AATTTAGCGA
* *
6100022 TAAATCATAAATAACTTAATAA
1 TAAATCATTAATAACTTAATAG
* * * * *
6100044 TAAATTAATGATAATTTAGTAG
1 TAAATCATTAATAACTTAATAG
* * * *
6100066 TAAATAATTTAGAACTTAGTAATAA
1 TAAATCATTAATAAC-T--TAATAG
* * * *
6100091 TTAATAATTAA-AAATTAAAAG
1 TAAATCATTAATAACTTAATAG
* *
6100112 TAAATCAAT-ATAACTTAATAA
1 TAAATCATTAATAACTTAATAG
* * * * *
6100133 TAACT-ACTGATAAATTAATGG
1 TAAATCATTAATAACTTAATAG
* * * *
6100154 TTAATCAATAATAATTTAGTATAA
1 TAAATCATTAATAACTTA--ATAG
* * *
6100178 TAAATTAATGATAACTTAATAG
1 TAAATCATTAATAACTTAATAG
* * * *
6100200 CATATCAATAATAATTTAATAG
1 TAAATCATTAATAACTTAATAG
* ** * *
6100222 TAAATAATTGTTATCTTAGTAG
1 TAAATCATTAATAACTTAATAG
* *
6100244 TATATCAATAATAA-TATAATAG
1 TAAATCATTAATAACT-TAATAG
*
6100266 TAAATGCA-TAATAACTTAATAA
1 TAAAT-CATTAATAACTTAATAG
*
6100288 TAAATCAATT-ATAACATAATTA-
1 TAAATC-ATTAATAACTTAA-TAG
* * *
6100310 TAAATACA-TAATAGCATAGTAG
1 TAAAT-CATTAATAACTTAATAG
* * *
6100332 TAAATCAATGATAA-TGTAATAAA
1 TAAATCATTAATAACT-TAAT-AG
* * * *
6100355 AAAATAAATGATAACTTAATAG
1 TAAATCATTAATAACTTAATAG
* * * *
6100377 TTAATTATTGATAATTTAATAG
1 TAAATCATTAATAACTTAATAG
* * *
6100399 TAAATCAATGAA-AAGTTAGTAG
1 TAAATC-ATTAATAACTTAATAG
* * * *
6100421 TAAGTTACTAATAACTTAAAAG
1 TAAATCATTAATAACTTAATAG
* * ** *
6100443 TAAATTTATT-TTAGTTTAATAA
1 TAAA-TCATTAATAACTTAATAG
* * **
6100465 TAATTAAATT-ATAAACTTAGCAG
1 TAAAT-CATTAAT-AACTTAATAG
* *
6100488 TAAATCATAAATAACTTAATAA
1 TAAATCATTAATAACTTAATAG
* * *
6100510 TAAATCAATGATAACTTAGTAG
1 TAAATCATTAATAACTTAATAG
* * * * * * *
6100532 TTAATGA-CAAAAACTCAGTAA
1 TAAATCATTAATAACTTAATAG
* *
6100553 TAAATCAATGATAA--T-ATAG
1 TAAATCATTAATAACTTAATAG
* **
6100572 TAGA--ATGCATAACTGTATATAG
1 TAAATCATTAATAACT-TA-ATAG
* * * *
6100594 CAAATTATTGATAATTTAATAG
1 TAAATCATTAATAACTTAATAG
* * *
6100616 TAAATAATAAATAA-TGTCATAG
1 TAAATCATTAATAACT-TAATAG
* * * *
6100638 TTAATTATTAATAACTTCATAA
1 TAAATCATTAATAACTTAATAG
* *
6100660 TAAATCATAAATAACTTCATAG
1 TAAATCATTAATAACTTAATAG
* * * *
6100682 TAAATTAGTAATAACTTTATAA
1 TAAATCATTAATAACTTAATAG
*
6100704 TAAATTATCT-ATAACTTAATAG
1 TAAATCAT-TAATAACTTAATAG
* * **
6100726 TAAATTATCAATAACTTGGTAG
1 TAAATCATTAATAACTTAATAG
*
6100748 TAAATCATTTATAACTTAATAG
1 TAAATCATTAATAACTTAATAG
6100770 TAAATCATCT-ATAACTTA
1 TAAATCAT-TAATAACTTA
6100788 GTGATAAACT
Statistics
Matches: 531, Mismatches: 173, Indels: 80
0.68 0.22 0.10
Matches are distributed among these distances:
17 5 0.01
19 5 0.01
20 4 0.01
21 59 0.11
22 370 0.70
23 49 0.09
24 26 0.05
25 13 0.02
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.36
Consensus pattern (22 bp):
TAAATCATTAATAACTTAATAG
Found at i:6100819 original size:66 final size:66
Alignment explanation
Indices: 6100648--6100820 Score: 145
Period size: 66 Copynumber: 2.6 Consensus size: 66
6100638 TTAATTATTA
* * * * * * * * * *
6100648 ATAACTTCATAATAAATCATAAATAACTTCA-TAGTAAATTAGTAATAACTTTATAATAAATTAT
1 ATAACTTAATAGTAAATAATCAATAACTT-AGTAGAAAATCATTTATAACTTAATAATAAATCAT
6100712 CT
65 CT
* * * *
6100714 ATAACTTAATAGTAAATTATCAATAACTTGGTAGTAAATCATTTATAACTTAATAGTAAATCATC
1 ATAACTTAATAGTAAATAATCAATAACTTAGTAGAAAATCATTTATAACTTAATAATAAATCATC
6100779 T
66 T
* * *
6100780 ATAACTTAGT-GATAAACTAAT-GATAATTTAGTAGAAAATCA
1 ATAACTTAATAG-TAAA-TAATCAATAACTTAGTAGAAAATCA
6100821 GTGATAAGAT
Statistics
Matches: 87, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
65 1 0.01
66 83 0.95
67 3 0.03
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (66 bp):
ATAACTTAATAGTAAATAATCAATAACTTAGTAGAAAATCATTTATAACTTAATAATAAATCATC
T
Found at i:6101431 original size:22 final size:22
Alignment explanation
Indices: 6101310--6101446 Score: 98
Period size: 22 Copynumber: 6.2 Consensus size: 22
6101300 TAAATTAGTT
** *
6101310 AATCATTGATAATTTTGTAGTA
1 AATCATTGATAATTTAATAATA
* * *
6101332 AATCATTGATAACTTCATAAAA
1 AATCATTGATAATTTAATAATA
*
6101354 AATTAGTT-ATAACTTT-ATAATA
1 AATCA-TTGATAA-TTTAATAATA
* * * * *
6101376 AATTATTAATAACTTAGTACTA
1 AATCATTGATAATTTAATAATA
* * *
6101398 AATCCTTCATAATTTAATAGTA
1 AATCATTGATAATTTAATAATA
*
6101420 AATCATTTATAATTTAATAATA
1 AATCATTGATAATTTAATAATA
6101442 AATCA
1 AATCA
6101447 CTAATAACAT
Statistics
Matches: 91, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
21 4 0.04
22 83 0.91
23 4 0.04
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (22 bp):
AATCATTGATAATTTAATAATA
Found at i:6111335 original size:72 final size:72
Alignment explanation
Indices: 6111247--6111421 Score: 233
Period size: 72 Copynumber: 2.4 Consensus size: 72
6111237 TACGTTTTTG
* * ** *
6111247 TCTTTAAAACGTGATTTTTGTTAAAATTTCATAATTTTTAAAATAAAATTTCAATATCCATTATA
1 TCTTAAAAACGTGATTTTTATTAAAATTTCATAATTTCAAAAATAAAATTTCAATATCCACTATA
6111312 TTTCTTA
66 TTTCTTA
* * * * * *
6111319 TTTTAAAAACGTGATTTTTATTAAAATTTCATAATTTCAAAAATAAAGTTTCAATGTTCACTGTG
1 TCTTAAAAACGTGATTTTTATTAAAATTTCATAATTTCAAAAATAAAATTTCAATATCCACTATA
6111384 TTTCTTA
66 TTTCTTA
* *
6111391 TCTTAAAAATGTGATTTTTAATAAAATTTCA
1 TCTTAAAAACGTGATTTTTATTAAAATTTCA
6111422 CTGTCTTTGT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 89 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (72 bp):
TCTTAAAAACGTGATTTTTATTAAAATTTCATAATTTCAAAAATAAAATTTCAATATCCACTATA
TTTCTTA
Found at i:6111557 original size:72 final size:71
Alignment explanation
Indices: 6111427--6111595 Score: 178
Period size: 72 Copynumber: 2.4 Consensus size: 71
6111417 TTTCACTGTC
* * * * * *
6111427 TTTGTTAAAAGTTCAAAATTTAAAAATAAAATGTCAACATTCACTACATTTTTTATCTTAAAAAC
1 TTTGTTAAAATTTTAAATTTTAAAAATAAAATGTCAACATCCACTACATTTCTAATCTT-AAAAC
*
6111492 G-AGGTA
65 GAAGATA
* * * *
6111498 TTTGTTAAAATTTTAGAATTTTAAAAATAAAGTTTCAACATCCATTACGTTTCTAATCTTAAAAC
1 TTTGTTAAAATTTTA-AATTTTAAAAATAAAATGTCAACATCCACTACATTTCTAATCTTAAAAC
*
6111563 GAAGATT
65 GAAGATA
* * *
6111570 TTTGTTGAAATTTTAAAATTTCAAAA
1 TTTGTTAAAATTTTAAATTTTAAAAA
6111596 GTTAGTTTAT
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
71 28 0.35
72 53 0.65
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (71 bp):
TTTGTTAAAATTTTAAATTTTAAAAATAAAATGTCAACATCCACTACATTTCTAATCTTAAAACG
AAGATA
Found at i:6111559 original size:163 final size:164
Alignment explanation
Indices: 6111263--6111561 Score: 375
Period size: 163 Copynumber: 1.8 Consensus size: 164
6111253 AAACGTGATT
* * * * * * * *
6111263 TTTGTTAAAATTTCATAATTTTTAAAATAAAATTTCAATATCCATTATATTTCTTATTTTAAAAA
1 TTTGTTAAAAGTTCATAAATTTAAAAATAAAATGTCAACATCCACTACATTTCTTATCTTAAAAA
* * * ** * ** *
6111328 CGTGATTTTTATTAAAATTTCATAATTTCAAAAATAAAGTTTCAATGTTCACTGTGTTTCTTATC
66 CGAGATATTTATTAAAATTTCAGAATTTCAAAAATAAAGTTTCAACATCCACTACGTTTCTAATC
6111393 TTAAAAATGTGATTTTTAATAAAATTTCACTGTC
131 TTAAAAATGTGATTTTTAATAAAATTTCACTGTC
* *
6111427 TTTGTTAAAAGTTCA-AAATTTAAAAATAAAATGTCAACATTCACTACATTTTTTATCTTAAAAA
1 TTTGTTAAAAGTTCATAAATTTAAAAATAAAATGTCAACATCCACTACATTTCTTATCTTAAAAA
* * * * *
6111491 CGAGGTATTTGTTAAAATTTTAGAATTTTAAAAATAAAGTTTCAACATCCATTACGTTTCTAATC
66 CGAGATATTTATTAAAATTTCAGAATTTCAAAAATAAAGTTTCAACATCCACTACGTTTCTAATC
6111556 TTAAAA
131 TTAAAA
6111562 CGAAGATTTT
Statistics
Matches: 111, Mismatches: 24, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
163 97 0.87
164 14 0.13
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.43
Consensus pattern (164 bp):
TTTGTTAAAAGTTCATAAATTTAAAAATAAAATGTCAACATCCACTACATTTCTTATCTTAAAAA
CGAGATATTTATTAAAATTTCAGAATTTCAAAAATAAAGTTTCAACATCCACTACGTTTCTAATC
TTAAAAATGTGATTTTTAATAAAATTTCACTGTC
Found at i:6111635 original size:30 final size:30
Alignment explanation
Indices: 6111601--6111664 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
6111591 CAAAAGTTAG
6111601 TTTATCTTTCAAATCTCAATAAAATTAATA
1 TTTATCTTTCAAATCTCAATAAAATTAATA
6111631 TTTATCTTTCAAATCTCAATAAAATTAATA
1 TTTATCTTTCAAATCTCAATAAAATTAATA
6111661 TTTA
1 TTTA
6111665 AAATAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTATCTTTCAAATCTCAATAAAATTAATA
Found at i:6111707 original size:30 final size:30
Alignment explanation
Indices: 6111671--6111728 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
6111661 TTTAAAATAA
6111671 TTTTAATTCTAAATAATTTAATATTATTGT
1 TTTTAATTCTAAATAATTTAATATTATTGT
*
6111701 TTTTAATTTTAAATAATTTAATATTATT
1 TTTTAATTCTAAATAATTTAATATTATT
6111729 TAAAAAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (30 bp):
TTTTAATTCTAAATAATTTAATATTATTGT
Found at i:6112511 original size:24 final size:23
Alignment explanation
Indices: 6112456--6112509 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 23
6112446 TTTTCTTTTG
6112456 TATTTTATGTATTCTATTATTAT
1 TATTTTATGTATTCTATTATTAT
6112479 TATTATTATGTATATCT-TTATTCATT
1 TATT-TTATGTAT-TCTATTATT-A-T
6112505 TATTT
1 TATTT
6112510 ATTTTTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 5 0.19
26 5 0.19
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTTATGTATTCTATTATTAT
Found at i:6112568 original size:3 final size:3
Alignment explanation
Indices: 6112560--6112585 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6112550 AGTTATATAT
6112560 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
6112586 TTTGTAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6113188 original size:20 final size:20
Alignment explanation
Indices: 6113165--6113208 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
6113155 TGCCCAGTTT
*
6113165 CCGGCGAAGAATCCCAGAAA
1 CCGGCAAAGAATCCCAGAAA
6113185 CCGGCAAAGAATCCCAGAAA
1 CCGGCAAAGAATCCCAGAAA
6113205 CCGG
1 CCGG
6113209 TGAATTTCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.32, G:0.25, T:0.05
Consensus pattern (20 bp):
CCGGCAAAGAATCCCAGAAA
Found at i:6113243 original size:62 final size:63
Alignment explanation
Indices: 6113163--6113280 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 63
6113153 ACTGCCCAGT
* *
6113163 TTCCGGCGAAGAATCCCAGAAACCGGC-AAAGAATCCCAGAAACCGGTGAAT-TTCCGGCCAAC
1 TTCCGGCGAAAAAACCCAGAAACCGGCGAAA-AATCCCAGAAACCGGTGAATCTTCCGGCCAAC
** * * *
6113225 TTCCGGCGAAAAAACCCAGATTCCGGCGAAAATTTCCAGAATCCGGTGAATCTTCC
1 TTCCGGCGAAAAAACCCAGAAACCGGCGAAAAATCCCAGAAACCGGTGAATCTTCC
6113281 ACCGGAGTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
62 40 0.85
63 7 0.15
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (63 bp):
TTCCGGCGAAAAAACCCAGAAACCGGCGAAAAATCCCAGAAACCGGTGAATCTTCCGGCCAAC
Found at i:6113269 original size:20 final size:20
Alignment explanation
Indices: 6113226--6113270 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6113216 CCGGCCAACT
*
6113226 TCCGGCGAAAAAACCCAGAT
1 TCCGGCGAAAAAACCCAGAA
***
6113246 TCCGGCGAAAATTTCCAGAA
1 TCCGGCGAAAAAACCCAGAA
6113266 TCCGG
1 TCCGG
6113271 TGAATCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (20 bp):
TCCGGCGAAAAAACCCAGAA
Found at i:6113536 original size:14 final size:15
Alignment explanation
Indices: 6113517--6113558 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
6113507 CCGAGCCGAG
6113517 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
6113531 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
6113544 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
6113558 C
1 C
6113559 TTCTTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:6113549 original size:13 final size:14
Alignment explanation
Indices: 6113517--6113553 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
6113507 CCGAGCCGAG
6113517 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
6113531 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
6113543 TCCGAGCCGTT
1 -CCGAGCCGTT
6113554 TTCTCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:6113614 original size:11 final size:11
Alignment explanation
Indices: 6113598--6113639 Score: 75
Period size: 11 Copynumber: 3.7 Consensus size: 11
6113588 CCAGGTTTTT
6113598 TTTTTTTTGAA
1 TTTTTTTTGAA
6113609 TTTTTTTTGAA
1 TTTTTTTTGAA
6113620 TTTTTTTTTGAA
1 -TTTTTTTTGAA
6113632 TTTTTTTT
1 TTTTTTTT
6113640 TATTTGACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 19 0.63
12 11 0.37
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:6113614 original size:12 final size:12
Alignment explanation
Indices: 6113597--6113640 Score: 81
Period size: 12 Copynumber: 3.8 Consensus size: 12
6113587 TCCAGGTTTT
6113597 TTTTTTTTTGAA
1 TTTTTTTTTGAA
6113609 -TTTTTTTTGAA
1 TTTTTTTTTGAA
6113620 TTTTTTTTTGAA
1 TTTTTTTTTGAA
6113632 TTTTTTTTT
1 TTTTTTTTT
6113641 ATTTGACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.35
12 20 0.65
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:6117506 original size:8 final size:8
Alignment explanation
Indices: 6117493--6117543 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
6117483 AGATGATGAA
6117493 AAAAAAAG
1 AAAAAAAG
6117501 AAAAAATAG
1 AAAAAA-AG
6117510 AAAAAAAGG
1 AAAAAAA-G
*
6117519 AAAAAATG
1 AAAAAAAG
* *
6117527 AGAAAATG
1 AAAAAAAG
6117535 AAAAAAAG
1 AAAAAAAG
6117543 A
1 A
6117544 GATTCAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 22 0.59
9 15 0.41
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (8 bp):
AAAAAAAG
Found at i:6117512 original size:19 final size:20
Alignment explanation
Indices: 6117465--6117532 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 20
6117455 ACAATGGATG
6117465 AAAAATGAG--AAAAAAAG-
1 AAAAATGAGAAAAAAAAAGA
*
6117482 -AAGATGATGAAAAAAAAAGA
1 AAAAATGA-GAAAAAAAAAGA
*
6117502 AAAAAT-AG-AAAAAAAGGA
1 AAAAATGAGAAAAAAAAAGA
6117520 AAAAATGAGAAAA
1 AAAAATGAGAAAA
6117533 TGAAAAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
16 6 0.15
17 1 0.02
18 15 0.37
19 11 0.27
20 4 0.10
21 4 0.10
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (20 bp):
AAAAATGAGAAAAAAAAAGA
Found at i:6117513 original size:18 final size:19
Alignment explanation
Indices: 6117465--6117532 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
6117455 ACAATGGATG
6117465 AAAAATGAG-AAAAAAAGA
1 AAAAATGAGAAAAAAAAGA
**
6117483 AGATGATGA-AAAAAAAAGA
1 A-AAAATGAGAAAAAAAAGA
*
6117502 AAAAAT-AGAAAAAAAGGA
1 AAAAATGAGAAAAAAAAGA
6117520 AAAAATGAGAAAA
1 AAAAATGAGAAAA
6117533 TGAAAAAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
17 1 0.02
18 19 0.46
19 21 0.51
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (19 bp):
AAAAATGAGAAAAAAAAGA
Found at i:6117530 original size:28 final size:27
Alignment explanation
Indices: 6117465--6117532 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 27
6117455 ACAATGGATG
* ** *
6117465 AAAAATGAGAAAAAAAGAAGATGATGA
1 AAAAATGAGAAAAAAAGAAAAAAAGGA
**
6117492 AAAAAAAAGAAAAAATAGAAAAAAAGGA
1 AAAAATGAGAAAAAA-AGAAAAAAAGGA
6117520 AAAAATGAGAAAA
1 AAAAATGAGAAAA
6117533 TGAAAAAAAG
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
27 13 0.41
28 19 0.59
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (27 bp):
AAAAATGAGAAAAAAAGAAAAAAAGGA
Found at i:6118858 original size:41 final size:41
Alignment explanation
Indices: 6118775--6119610 Score: 1366
Period size: 41 Copynumber: 20.5 Consensus size: 41
6118765 AAAGTTCCGT
*
6118775 TGCCTCTGTTTAGAGGAGCAATTTATCTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTA-CTTTTCAAAGTCGTGG
*
6118817 TACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
6118858 TACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
6118899 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
6118940 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
6118981 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
6119022 TGCCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
6119062 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
6119103 TACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
6119144 TACCTCTGTTGAGAGGAGCAATTTATTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
6119185 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
6119226 TGCCTCTGTT-AGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
6119266 TGCCTCTGTTGAGAGGAGCAATTTA-TTTCCAAAGTTCGT--
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAG-TCGTGG
*
6119305 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
6119346 TGCCTCTGTTGAGAGGAGCAATTTA-TTTCCAAAGTTCGT--
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAG-TCGTGG
* *
6119385 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTT-CAAAGTCGTGG
*
6119427 TACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
6119468 TGCCTCTGTTGAAGAGGAGCAATTTACTTTCCAAAGTCGTGG
1 TGCCTCTGTTG-AGAGGAGCAATTTACTTTTCAAAGTCGTGG
6119510 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
6119551 TACCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAAGTCGTTG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTC-AAAGTCGTGG
* * *
6119592 AGTCTCTGTTTAGAGGAGC
1 TGCCTCTGTTGAGAGGAGC
6119611 TTCGGCAAAA
Statistics
Matches: 749, Mismatches: 32, Indels: 27
0.93 0.04 0.03
Matches are distributed among these distances:
39 52 0.07
40 113 0.15
41 494 0.66
42 90 0.12
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (41 bp):
TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
Found at i:6119132 original size:163 final size:163
Alignment explanation
Indices: 6118777--6119610 Score: 1364
Period size: 163 Copynumber: 5.1 Consensus size: 163
6118767 AGTTCCGTTG
* *
6118777 CCTCTGTTTAGAGGAGCAATTTATCTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTA
1 CCTCTGTTGAGAGGAGCAATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTA
*
6118842 CTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTG
65 CTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTG
*
6118907 TTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
129 TTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTA
6118942 CCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTAC
1 CCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTAC
6119007 TTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCAAAGTCGTGGTGCCTCTGTT
66 TTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCAAAGTCGTGGTGCCTCTGTT
6119072 TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTA
131 TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTA
* *
6119105 CCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTAT
1 CCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTAC
6119170 TTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTG-
66 TTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTT-CAAAGTCGTGGTGCCTCTGT
*
6119234 TTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
130 TTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTA
* *
6119268 CCTCTGTTGAGAGGAGCAATTTA-TTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTA
1 CCTCTGTTGAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAATTTA
6119330 CTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTA-TTTCCAAAGTTCGT--TGCCTCT
65 CTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTT-CAAAG-TCGTGGTGCCTCT
*
6119392 GTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTA
128 GTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTA
6119429 CCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAAGAGGAGCAATTTA
1 CCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTG-AGAGGAGCAATTTA
* *
6119494 CTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTG
65 CTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTG
*
6119559 TTGAGAGGAGCAATTTAC-TTTCAAAAGTCGTTGAGT-
129 TTTAGAGGAGCAATTTACTTTTC-AAAGTCG-TG-GTA
*
6119595 -CTCTGTTTAGAGGAGC
1 CCTCTGTTGAGAGGAGC
6119611 TTCGGCAAAA
Statistics
Matches: 633, Mismatches: 20, Indels: 32
0.92 0.03 0.05
Matches are distributed among these distances:
159 8 0.01
160 29 0.05
161 106 0.17
162 16 0.03
163 233 0.37
164 159 0.25
165 52 0.08
166 28 0.04
167 2 0.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (163 bp):
CCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTAC
TTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCAAAGTCGTGGTGCCTCTGTT
TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTA
Found at i:6119623 original size:1 final size:1
Alignment explanation
Indices: 6119617--6119719 Score: 89
Period size: 1 Copynumber: 103.0 Consensus size: 1
6119607 GAGCTTCGGC
* * ** ** * **
6119617 AAAAAAAAAAAAAAAAAACAAAAAAAACAAAAAAAAAAAATCAAAAAAATCAGAAAAAAATCAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
6119682 AAATAAAAACAAAAAAAAAAAAAATAAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6119720 TGTTGAGTTG
Statistics
Matches: 79, Mismatches: 23, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.87, C:0.06, G:0.01, T:0.06
Consensus pattern (1 bp):
A
Found at i:6119944 original size:24 final size:23
Alignment explanation
Indices: 6119889--6119942 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 23
6119879 TTTTCTTTTG
6119889 TATTTTATGTATTCTATTATTAT
1 TATTTTATGTATTCTATTATTAT
6119912 TATTATTATGTATATCT-TTATTCATT
1 TATT-TTATGTAT-TCTATTATT-A-T
6119938 TATTT
1 TATTT
6119943 ATTTTTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 5 0.19
26 5 0.19
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTTATGTATTCTATTATTAT
Found at i:6120001 original size:3 final size:3
Alignment explanation
Indices: 6119993--6120018 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6119983 AGTTATATAT
6119993 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
6120019 TTTGTAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6120626 original size:20 final size:20
Alignment explanation
Indices: 6120603--6120645 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
6120593 TGCCCAGTTT
*
6120603 CCGGCGAAGAATCCCAGAAA
1 CCGGCAAAGAATCCCAGAAA
*
6120623 CCGGTAAAGAATCCCAGAAA
1 CCGGCAAAGAATCCCAGAAA
6120643 CCG
1 CCG
6120646 ATGAATTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.30, G:0.23, T:0.07
Consensus pattern (20 bp):
CCGGCAAAGAATCCCAGAAA
Found at i:6120707 original size:20 final size:20
Alignment explanation
Indices: 6120664--6120708 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6120654 CCGGCCAACT
*
6120664 TCCGGCGAAAAAACCCAGAT
1 TCCGGCGAAAAAACCCAGAA
***
6120684 TCCGGCGAAAATTTCCAGAA
1 TCCGGCGAAAAAACCCAGAA
6120704 TCCGG
1 TCCGG
6120709 TGAATCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (20 bp):
TCCGGCGAAAAAACCCAGAA
Found at i:6120974 original size:14 final size:15
Alignment explanation
Indices: 6120955--6120996 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
6120945 CCGAGCCGAG
6120955 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
6120969 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
6120982 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
6120996 C
1 C
6120997 TTCTTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:6120987 original size:13 final size:14
Alignment explanation
Indices: 6120955--6120991 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
6120945 CCGAGCCGAG
6120955 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
6120969 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
6120981 TCCGAGCCGTT
1 -CCGAGCCGTT
6120992 TTCTCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:6121055 original size:11 final size:12
Alignment explanation
Indices: 6121041--6121071 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6121031 GGTTTTTTTT
6121041 TTTTTTTTG-AA
1 TTTTTTTTGAAA
6121052 TTTTTTTTGAAA
1 TTTTTTTTGAAA
6121064 TTTTTTTT
1 TTTTTTTT
6121072 TTATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.77
Consensus pattern (12 bp):
TTTTTTTTGAAA
Found at i:6121055 original size:12 final size:13
Alignment explanation
Indices: 6121040--6121072 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
6121030 AGGTTTTTTT
6121040 TTTTTTTTTG-AA
1 TTTTTTTTTGAAA
6121052 -TTTTTTTTGAAA
1 TTTTTTTTTGAAA
6121064 TTTTTTTTT
1 TTTTTTTTT
6121073 TATTTTGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.47
12 2 0.11
13 8 0.42
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTTTTTTTGAAA
Found at i:6124794 original size:23 final size:21
Alignment explanation
Indices: 6124762--6124812 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
6124752 AGAGAACAGA
*
6124762 AAAAAGAGCAGAGATATACATAGT
1 AAAAA-AGCAGAGAGA-A-ATAGT
*
6124786 AAAAAAGCATAGAGAAATAGT
1 AAAAAAGCAGAGAGAAATAGT
6124807 AAAAAA
1 AAAAAA
6124813 AAAATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.44
22 1 0.04
23 8 0.32
24 5 0.20
ACGTcount: A:0.63, C:0.06, G:0.18, T:0.14
Consensus pattern (21 bp):
AAAAAAGCAGAGAGAAATAGT
Found at i:6134970 original size:42 final size:41
Alignment explanation
Indices: 6134887--6134976 Score: 108
Period size: 42 Copynumber: 2.2 Consensus size: 41
6134877 GAGGAGCCTT
* * * * * *
6134887 TATTTTTAAAATTATATGTCTCTGTTTAGATGAGCCTTTTA
1 TATTTTTAAAATTATAAGCCTCTATTTAGAAGAACATTTTA
*
6134928 TATTTTTAAAATTATTAAGCCTTTATTTAGAAGAACATTTTA
1 TATTTTTAAAATTA-TAAGCCTCTATTTAGAAGAACATTTTA
6134970 TATTTTT
1 TATTTTT
6134977 TATATTTTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 14 0.34
42 27 0.66
ACGTcount: A:0.31, C:0.08, G:0.09, T:0.52
Consensus pattern (41 bp):
TATTTTTAAAATTATAAGCCTCTATTTAGAAGAACATTTTA
Found at i:6139590 original size:16 final size:17
Alignment explanation
Indices: 6139563--6139594 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6139553 TTACTAATAA
6139563 TTTTATTGCTTTTGTTT
1 TTTTATTGCTTTTGTTT
6139580 TTTTATT-CTTTTGTT
1 TTTTATTGCTTTTGTT
6139595 CATCAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.06, C:0.06, G:0.09, T:0.78
Consensus pattern (17 bp):
TTTTATTGCTTTTGTTT
Found at i:6143934 original size:14 final size:13
Alignment explanation
Indices: 6143915--6143968 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 13
6143905 ATATTTTGTA
6143915 AAAATTTAAATTTT
1 AAAATTT-AATTTT
6143929 AAAATTTAATTTT
1 AAAATTTAATTTT
*
6143942 -ATATTATAATTTAT
1 AAAATT-TAATTT-T
6143956 ATAAATTTAATTT
1 A-AAATTTAATTT
6143969 ATATATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 4 0.12
13 12 0.35
14 8 0.24
15 6 0.18
16 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAAATTTAATTTT
Found at i:6143974 original size:29 final size:26
Alignment explanation
Indices: 6143923--6143977 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 26
6143913 TAAAAATTTA
6143923 AATTTTAAAATTTAATTTTATATTAT
1 AATTTTAAAATTTAATTTTATATTAT
6143949 AATTTATATAAATTTAATTTATATATTAT
1 AATTT-TA-AAATTTAATTT-TATATTAT
6143978 TTTAATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 5 0.19
27 2 0.08
28 11 0.42
29 8 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
AATTTTAAAATTTAATTTTATATTAT
Found at i:6143984 original size:22 final size:23
Alignment explanation
Indices: 6143933--6143991 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
6143923 AATTTTAAAA
*
6143933 TTTAATTTTATATTATAATTTAT
1 TTTAATTTAATATTATAATTTAT
* *
6143956 ATAAATTTAAT-TTAT-ATATTAT
1 TTTAATTTAATATTATAAT-TTAT
*
6143978 TTTAATTTCATATT
1 TTTAATTTAATATT
6143992 TTTAATGATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
21 2 0.07
22 16 0.57
23 10 0.36
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTAATTTAATATTATAATTTAT
Found at i:6144297 original size:17 final size:17
Alignment explanation
Indices: 6144247--6144298 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
6144237 AGACATTTGA
*
6144247 AAATTTTAAAAATTTTCT
1 AAATTTTAAAAATTAT-T
* **
6144265 AATTTTTTTAAA-TATT
1 AAATTTTAAAAATTATT
6144281 AAATTTTAAAAATTATT
1 AAATTTTAAAAATTATT
6144298 A
1 A
6144299 CAACATTCTC
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
16 10 0.38
17 7 0.27
18 9 0.35
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATTTTAAAAATTATT
Found at i:6147227 original size:75 final size:73
Alignment explanation
Indices: 6147098--6147246 Score: 190
Period size: 75 Copynumber: 2.0 Consensus size: 73
6147088 TTTGATTTGG
* * *
6147098 TGTATAAAACTAAGATTAGATCAAATAGTTATGCATGAGATTGACTTTTGATTTTTTATATAAAA
1 TGTATAAAACTAAGATTAGACCAAATAATTATGCATGAGATTAACTTTTGATTTTTTATAT-AAA
6147163 GAAATCATAA
65 -AAATCATAA
* * * * * * *
6147173 TGTATGAAACTAAGGTTAGGCCAAGTAATTATTCATGAGATTAATTTTTTATTTTTTATATAAAA
1 TGTATAAAACTAAGATTAGACCAAATAATTATGCATGAGATTAACTTTTGATTTTTTATATAAAA
6147238 AATCATAA
66 AATCATAA
6147246 T
1 T
6147247 TTAAAGATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
73 10 0.16
74 3 0.05
75 51 0.80
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.40
Consensus pattern (73 bp):
TGTATAAAACTAAGATTAGACCAAATAATTATGCATGAGATTAACTTTTGATTTTTTATATAAAA
AATCATAA
Found at i:6150433 original size:12 final size:12
Alignment explanation
Indices: 6150416--6150443 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
6150406 GGTAATATTT
6150416 AATTTTAAATTG
1 AATTTTAAATTG
6150428 AATTTTAAATTG
1 AATTTTAAATTG
6150440 AATT
1 AATT
6150444 CAATTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
AATTTTAAATTG
Found at i:6150728 original size:9 final size:10
Alignment explanation
Indices: 6150702--6150731 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6150692 ATCAAATTTT
6150702 TATATTTTAA
1 TATATTTTAA
6150712 TATATTTTAA
1 TATATTTTAA
6150722 T-TATTTTAA
1 TATATTTTAA
6150731 T
1 T
6150732 CAATAAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:6151253 original size:2 final size:2
Alignment explanation
Indices: 6151246--6151287 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
6151236 CTCTAATGTG
6151246 TA TA TA TA TA TA 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 TA TA TA TA TA TA
6151288 AAATATAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6151313 original size:18 final size:18
Alignment explanation
Indices: 6151290--6151357 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 18
6151280 TATATATAAA
6151290 ATATAATTAATAAATTTT
1 ATATAATTAATAAATTTT
* *
6151308 ATATAA-AAATAAA-ATT
1 ATATAATTAATAAATTTT
* **
6151324 ATTTAACCAATAAAATTTAT
1 ATATAATTAAT-AAATTT-T
6151344 AGTATAATTAATAA
1 A-TATAATTAATAA
6151358 TATATATATG
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
16 7 0.19
17 9 0.24
18 9 0.24
19 1 0.03
20 4 0.11
21 7 0.19
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAATTAATAAATTTT
Found at i:6151542 original size:25 final size:28
Alignment explanation
Indices: 6151514--6151565 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
6151504 AATTAAATTG
6151514 CTATAG-ATTTT-TA-TATAAAAAATAC
1 CTATAGTATTTTATATTATAAAAAATAC
*
6151539 CTATTGTATTTTATATTATAAAAAATA
1 CTATAGTATTTTATATTATAAAAAATA
6151566 ATACATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 5 0.22
27 2 0.09
28 11 0.48
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (28 bp):
CTATAGTATTTTATATTATAAAAAATAC
Found at i:6159068 original size:2 final size:2
Alignment explanation
Indices: 6159061--6159103 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
6159051 CATGACTTTT
6159061 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6159103 G
1 G
6159104 CAAACTAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6159282 original size:24 final size:25
Alignment explanation
Indices: 6159248--6159300 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
6159238 AGAAAACTTT
* *
6159248 AACTCTACTACCTTGTTTAGCATCC
1 AACTCTACTACCATGTTAAGCATCC
6159273 AACTC-ACTACCATGTTAAGCATCC
1 AACTCTACTACCATGTTAAGCATCC
6159297 AACT
1 AACT
6159301 TAGAACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (25 bp):
AACTCTACTACCATGTTAAGCATCC
Found at i:6166406 original size:2 final size:2
Alignment explanation
Indices: 6166399--6166430 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6166389 CACCTCCTAC
6166399 TA 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 TA
6166431 AAGATTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6171007 original size:2 final size:2
Alignment explanation
Indices: 6171000--6171032 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6170990 AGTTCGTGAG
6171000 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
6171033 ATCACATGAG
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:6180291 original size:16 final size:16
Alignment explanation
Indices: 6180251--6180293 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
6180241 ATAAGTATGT
6180251 ATACAAACATACATAC
1 ATACAAACATACATAC
*
6180267 ATGCAAACATACATAC
1 ATACAAACATACATAC
*
6180283 ATACTAACATA
1 ATACAAACATA
6180294 TATAAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.53, C:0.23, G:0.02, T:0.21
Consensus pattern (16 bp):
ATACAAACATACATAC
Found at i:6188198 original size:13 final size:13
Alignment explanation
Indices: 6188182--6188210 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6188172 TATCTCATTT
6188182 ATCAATCTATGCA
1 ATCAATCTATGCA
6188195 ATCAATCTATGCA
1 ATCAATCTATGCA
6188208 ATC
1 ATC
6188211 TTCTATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (13 bp):
ATCAATCTATGCA
Found at i:6198788 original size:10 final size:10
Alignment explanation
Indices: 6198764--6198796 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
6198754 ATTATTATGC
*
6198764 AAAATATG-A
1 AAAATATGTG
6198773 AAAATATGTG
1 AAAATATGTG
6198783 AAAATATGTG
1 AAAATATGTG
6198793 AAAA
1 AAAA
6198797 AAAATAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (10 bp):
AAAATATGTG
Found at i:6199363 original size:483 final size:481
Alignment explanation
Indices: 6198473--6199452 Score: 1293
Period size: 483 Copynumber: 2.0 Consensus size: 481
6198463 ATATATATAA
* *
6198473 ATTAGTTTCTTTTCAAATTATATTCAAATTTTTAAAACTTATAACATATATAAAATTTATATATA
1 ATTAGTTTCTTTTCAAATTATATTCAAATTTTTAAAACTCATAACATATATAAAATTTATACATA
** * * * ** *
6198538 TTGACTTATCATTAAAAAAATAATTTTTTTTAAAATAACAGAAAAAAATCTTTTCTATAGATATT
66 TTGACTTATCATTAAAAAAATAATACTTTCTAAAATAAAAAAAAAAAAAATTTCCTATAGATATT
*
6198603 TTTGTTTACAATAATATTTATACACCTATAAAATTATATCAAATAAAAATAAATTATTCTTTTTA
131 TTTGTTTACAATAATATTTATACACCTATAAAATTATATCAAATAAAAATAAATTATCCTTTTT-
*
6198668 AAAAAAATAAAAATACATATTATTGAATGATAAATTAAATAATAAAAGAAGCATTAACATACTTT
195 -AAAAAAT---AATA-ATATTATTGAATGATAAATTAAATAATAAAAAAAGCATTAACATACTTT
6198733 CACTTTAGTAATCTTGAATAAATTATTATGCAAAATATGAAAAATATGTGAAAATATGTGAAAAA
255 CACTTTAGTAATCTTGAATAAATTATTATGCAAAATATGAAAAATATGTGAAAATATGTGAAAAA
* *
6198798 AAATAATTGAAAAAAATATTATTTTTCATAAGAATGAAACAGTAATAATAATAAAATAATCTTGA
320 AAATAAATGAAAAAAATATTATTTTTCATAAAAATGAAACAGTAATAATAATAAAATAATCTTGA
6198863 AAAAAGTTATAAAT-AAA-AAATTGCAATAGTAATAGAATATACCTTGAA-AAAAAATTACTAAA
385 AAAAAGTTATAAATAAAACAAATTGCAATAGTAATAGAATATA-CTTGAACAAAAAATTACTAAA
6198925 AAAATAAAAAAATTGATATATAATACATTACAT
449 AAAATAAAAAAATTGATATATAATACATTACAT
** *
6198958 ATTAGTTTCTTTTCAAATTATATTCAAATTTTTAAAACTCATAGTATATATAAATTTTATACATA
1 ATTAGTTTCTTTTCAAATTATATTCAAATTTTTAAAACTCATAACATATATAAAATTTATACATA
* * *
6199023 TTGACTTATCCTT-AAAAAATAA-ACTTTCTAAAATAGCAAAAAAAAAAAAAAATTTCCTTTGGA
66 TTGACTTATCATTAAAAAAATAATACTTTCTAAAAT----AAAAAAAAAAAAAATTTCCTATAGA
* * ** * * * *
6199086 TATTTTTGTTTACAATAATATTTATATC-TCTGTAAGGTTTTATTAAA-AAATATATATTATACC
127 TATTTTTGTTTACAATAATATTTATA-CACCTATAAAATTATATCAAATAAAAATAAATTAT-CC
* *
6199149 TTTTT-AAAAAT-AT-ATATTATTGAATGATAAATTAAATAATAAAAAAAGTATTAACATATTTT
190 TTTTTAAAAAATAATAATATTATTGAATGATAAATTAAATAATAAAAAAAGCATTAACATACTTT
* * *
6199211 CACTTTAGTAAT-TTGATTAAATTATTATGTAAAATATGAAAAATGT-TAGAAAATATGTGAAAA
255 CACTTTAGTAATCTTGAATAAATTATTATGCAAAATATGAAAAATATGT-GAAAATATGTG----
*
6199274 AAGAAAAAATAAAATGAAAAAAATATTATTTTTCATAAAAATGAAACTGTAATAATAATAAAATA
315 AA-AAAAAAT-AAATGAAAAAAATATTATTTTTCATAAAAATGAAACAGTAATAATAATAAAATA
*
6199339 ATCTTGAAAAAAGTTATAAATAAAAAAAAAACAAATTGCAATAGTAATAGAATATACTTTAACAA
378 ATCTTGAAAAAAGTTATAAAT------AAAACAAATTGCAATAGTAATAGAATATACTTGAACAA
* * *
6199404 AAAGTTACTGAAAAAATAAAAAAATTGATATATAATATATTACAT
437 AAAATTACTAAAAAAATAAAAAAATTGATATATAATACATTACAT
6199449 -TTAG
1 ATTAG
6199453 GGTCTTAAAT
Statistics
Matches: 435, Mismatches: 38, Indels: 39
0.85 0.07 0.08
Matches are distributed among these distances:
476 1 0.00
477 42 0.10
478 58 0.13
480 2 0.00
481 2 0.00
482 7 0.02
483 81 0.19
484 15 0.03
485 72 0.17
486 11 0.03
487 63 0.14
488 1 0.00
490 12 0.03
491 68 0.16
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.36
Consensus pattern (481 bp):
ATTAGTTTCTTTTCAAATTATATTCAAATTTTTAAAACTCATAACATATATAAAATTTATACATA
TTGACTTATCATTAAAAAAATAATACTTTCTAAAATAAAAAAAAAAAAAATTTCCTATAGATATT
TTTGTTTACAATAATATTTATACACCTATAAAATTATATCAAATAAAAATAAATTATCCTTTTTA
AAAAATAATAATATTATTGAATGATAAATTAAATAATAAAAAAAGCATTAACATACTTTCACTTT
AGTAATCTTGAATAAATTATTATGCAAAATATGAAAAATATGTGAAAATATGTGAAAAAAAATAA
ATGAAAAAAATATTATTTTTCATAAAAATGAAACAGTAATAATAATAAAATAATCTTGAAAAAAG
TTATAAATAAAACAAATTGCAATAGTAATAGAATATACTTGAACAAAAAATTACTAAAAAAATAA
AAAAATTGATATATAATACATTACAT
Found at i:6199693 original size:30 final size:31
Alignment explanation
Indices: 6199646--6199708 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
6199636 TTATTATTTA
6199646 AAAATTTACGATGAAAATT-TTTAGAATTTTT
1 AAAATTTACGATGAAAATTATTT-GAATTTTT
6199677 AAAATCTTAC-AT-AAAATTATTTGAATTTTT
1 AAAAT-TTACGATGAAAATTATTTGAATTTTT
6199707 AA
1 AA
6199709 TGCCTTACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 16 0.53
31 10 0.33
32 4 0.13
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (31 bp):
AAAATTTACGATGAAAATTATTTGAATTTTT
Found at i:6199716 original size:30 final size:30
Alignment explanation
Indices: 6199659--6199727 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
6199649 ATTTACGATG
*
6199659 AAAATTTTTAGAATTTTTAAAATCTTACAT
1 AAAATTTTTAGAATTTTTAAAACCTTACAT
** *
6199689 AAAATTATTT-GAATTTTTAATGCCTTACTT
1 AAAATT-TTTAGAATTTTTAAAACCTTACAT
*
6199719 AAATTTTTT
1 AAAATTTTT
6199728 TTAAAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 3 0.09
30 27 0.82
31 3 0.09
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (30 bp):
AAAATTTTTAGAATTTTTAAAACCTTACAT
Found at i:6199891 original size:20 final size:19
Alignment explanation
Indices: 6199842--6199891 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
6199832 ATAATTTTTT
*
6199842 AAATAAAATTATTTGGTAA
1 AAATAAAATTATTTAGTAA
*
6199861 ACAACTAAAATTATTTATTATA
1 A-AA-TAAAATTATTTAGTA-A
6199883 AAATAAAAT
1 AAATAAAAT
6199892 CCATATTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 8 0.31
21 15 0.58
22 2 0.08
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (19 bp):
AAATAAAATTATTTAGTAA
Found at i:6199949 original size:28 final size:30
Alignment explanation
Indices: 6199918--6199979 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 30
6199908 TAATTTTAAA
* *
6199918 AAATATAT-CTTTAAATTGATTT-TAT-TTT
1 AAATATATAATTTAAA-TAATTTATATATTT
6199946 AAAT-TATAATTTAAATAATTTATATATTT
1 AAATATATAATTTAAATAATTTATATATTT
6199975 AAATA
1 AAATA
6199980 AATTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
27 8 0.29
28 13 0.46
29 7 0.25
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
AAATATATAATTTAAATAATTTATATATTT
Found at i:6199971 original size:18 final size:18
Alignment explanation
Indices: 6199945--6199985 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
6199935 GATTTTATTT
6199945 TAAA-TTATA-ATTTAAA
1 TAAATTTATATATTTAAA
6199961 T-AATTTATATATTTAAA
1 TAAATTTATATATTTAAA
6199978 TAAATTTA
1 TAAATTTA
6199986 AAATTATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.09
16 6 0.27
17 8 0.36
18 6 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAATTTATATATTTAAA
Found at i:6199974 original size:17 final size:17
Alignment explanation
Indices: 6199945--6199990 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
6199935 GATTTTATTT
6199945 TAAA-TTATAATTTAAA
1 TAAATTTATAATTTAAA
6199961 T-AATTTATATATTTAAA
1 TAAATTTATA-ATTTAAA
*
6199978 TAAATTTAAAATT
1 TAAATTTATAATT
6199991 ATCAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.08
16 6 0.23
17 11 0.42
18 7 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATTTATAATTTAAA
Found at i:6212889 original size:28 final size:27
Alignment explanation
Indices: 6212835--6212890 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
6212825 GAGGTGTAGT
6212835 GGAAAAGGCCTAAACTAATTCAATGAA
1 GGAAAAGGCCTAAACTAATTCAATGAA
*
6212862 GGAACAGGCC-AAACTTAAGTTCAATGAA
1 GGAAAAGGCCTAAAC-TAA-TTCAATGAA
6212890 G
1 G
6212891 CCCAAGCTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 12 0.46
28 10 0.38
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (27 bp):
GGAAAAGGCCTAAACTAATTCAATGAA
Found at i:6216976 original size:43 final size:43
Alignment explanation
Indices: 6216894--6216986 Score: 125
Period size: 44 Copynumber: 2.2 Consensus size: 43
6216884 AAGATTCTAG
* * *
6216894 AATTTATCAGCAAGGGTTTTTTTTAGGTTTGATTTTTTTTTGAA
1 AATTTCTCAACAAGGGTTTTTTTTAGGTTTGA-TTCTTTTTGAA
* *
6216938 AATTTCTCAACAAGGGTTTTTTTT-TGTTTGATTCTTTTTGAG
1 AATTTCTCAACAAGGGTTTTTTTTAGGTTTGATTCTTTTTGAA
6216980 AATTTCT
1 AATTTCT
6216987 TCTGGGTTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 16 0.36
43 6 0.14
44 22 0.50
ACGTcount: A:0.22, C:0.08, G:0.16, T:0.55
Consensus pattern (43 bp):
AATTTCTCAACAAGGGTTTTTTTTAGGTTTGATTCTTTTTGAA
Found at i:6220672 original size:3 final size:3
Alignment explanation
Indices: 6220664--6220697 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
6220654 CAATAGCAAC
6220664 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6220698 AAGCATCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6221219 original size:19 final size:20
Alignment explanation
Indices: 6221195--6221238 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
6221185 AATTAAAAAA
6221195 TAAAAAA-TTCTAAA-ACTTC
1 TAAAAAATTTCTAAACA-TTC
6221214 TAAAAAATTTCTAAACATTC
1 TAAAAAATTTCTAAACATTC
6221234 TAAAA
1 TAAAA
6221239 TAGTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.30
20 15 0.65
21 1 0.04
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAAATTTCTAAACATTC
Found at i:6221300 original size:9 final size:9
Alignment explanation
Indices: 6221275--6221336 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
6221265 AATTCAAATA
*
6221275 AAAAATCTT
1 AAAAATTTT
*
6221284 AAATATTTT
1 AAAAATTTT
6221293 AAAAATTTTT
1 AAAAA-TTTT
6221303 AAAAAGTTTT
1 AAAAA-TTTT
* **
6221313 TAAAATTCC
1 AAAAATTTT
*
6221322 AAAAATTAT
1 AAAAATTTT
6221331 AAAAAT
1 AAAAAT
6221337 AAATAAATAT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
9 25 0.60
10 17 0.40
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (9 bp):
AAAAATTTT
Found at i:6221302 original size:10 final size:10
Alignment explanation
Indices: 6221284--6221317 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
6221274 AAAAAATCTT
6221284 AAATATTTTAA
1 AAAT-TTTTAA
6221295 AAATTTTTAA
1 AAATTTTTAA
6221305 AAAGTTTTTAA
1 AAA-TTTTTAA
6221316 AA
1 AA
6221318 TTCCAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (10 bp):
AAATTTTTAA
Found at i:6222717 original size:25 final size:23
Alignment explanation
Indices: 6222689--6222735 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
6222679 ATGCAATGGG
6222689 GATAAAATTTACATGAAGTTTTTTA
1 GATAAAATTT--ATGAAGTTTTTTA
*
6222714 GATAAAATTTGTGAAGTTTTTT
1 GATAAAATTTATGAAGTTTTTT
6222736 CTTAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
25 10 0.48
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (23 bp):
GATAAAATTTATGAAGTTTTTTA
Found at i:6224275 original size:22 final size:22
Alignment explanation
Indices: 6224250--6224334 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
6224240 TAAGATATTA
6224250 TCTTATTT-ATTTCTAAAACATT
1 TCTT-TTTCATTTCTAAAACATT
*
6224272 TCTTTTTCATTATCTTTACTAAGATATT
1 TCTTTTTCATT-TC--TA--AA-ACATT
6224300 ATCTTATTT-ATTTCTAAAACATT
1 -TCTT-TTTCATTTCTAAAACATT
6224323 TCTTTTTCATTT
1 TCTTTTTCATTT
6224335 TTCAAAACTA
Statistics
Matches: 51, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
21 6 0.12
22 15 0.29
23 6 0.12
24 2 0.04
25 2 0.04
26 2 0.04
27 2 0.04
28 6 0.12
29 7 0.14
30 3 0.06
ACGTcount: A:0.27, C:0.14, G:0.01, T:0.58
Consensus pattern (22 bp):
TCTTTTTCATTTCTAAAACATT
Found at i:6224289 original size:51 final size:51
Alignment explanation
Indices: 6224232--6224333 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
6224222 CTAAAAAATC
6224232 ATCTTTACTAAGATATTATCTTATTTATTTCTAAAACATTTCTTTTTCATT
1 ATCTTTACTAAGATATTATCTTATTTATTTCTAAAACATTTCTTTTTCATT
6224283 ATCTTTACTAAGATATTATCTTATTTATTTCTAAAACATTTCTTTTTCATT
1 ATCTTTACTAAGATATTATCTTATTTATTTCTAAAACATTTCTTTTTCATT
6224334 TTTCAAAACT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.14, G:0.02, T:0.55
Consensus pattern (51 bp):
ATCTTTACTAAGATATTATCTTATTTATTTCTAAAACATTTCTTTTTCATT
Found at i:6224381 original size:21 final size:21
Alignment explanation
Indices: 6224355--6224400 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6224345 TAAATGCAAC
*
6224355 AAAAT-AAATGACATGAATCAT
1 AAAATAAAATG-CATGAAACAT
6224376 AAAATAAAATGCATGAAACAT
1 AAAATAAAATGCATGAAACAT
6224397 AAAA
1 AAAA
6224401 CATAAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.63, C:0.09, G:0.09, T:0.20
Consensus pattern (21 bp):
AAAATAAAATGCATGAAACAT
Found at i:6224418 original size:21 final size:20
Alignment explanation
Indices: 6224355--6224418 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 20
6224345 TAAATGCAAC
*
6224355 AAAATAAATGACATGAATCAT-
1 AAAATAAA--ACATAAATCATA
6224376 AAAATAAAATGCATGAAA-CATA
1 AAAATAAAA--CAT-AAATCATA
6224398 AAACATAAAACATAAATCATA
1 AAA-ATAAAACATAAATCATA
6224419 TGCATGATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
19 1 0.03
20 3 0.08
21 21 0.58
22 5 0.14
23 6 0.17
ACGTcount: A:0.62, C:0.11, G:0.06, T:0.20
Consensus pattern (20 bp):
AAAATAAAACATAAATCATA
Found at i:6224616 original size:19 final size:19
Alignment explanation
Indices: 6224594--6224661 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
6224584 TTGACTTAGG
*
6224594 GTTTAAGGTTTAGGGCTTT-
1 GTTTAAGGTTTAAGG-TTTA
* * *
6224613 GTTTAGGGGTTAAGGTTTG
1 GTTTAAGGTTTAAGGTTTA
*
6224632 GTTT-AGAGTTTATGGTTTA
1 GTTTAAG-GTTTAAGGTTTA
6224651 GTTTAAGGTTT
1 GTTTAAGGTTT
6224662 GCCTTAGGGC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 4 0.10
19 33 0.85
20 2 0.05
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.49
Consensus pattern (19 bp):
GTTTAAGGTTTAAGGTTTA
Found at i:6224798 original size:38 final size:39
Alignment explanation
Indices: 6224756--6224933 Score: 111
Period size: 38 Copynumber: 4.6 Consensus size: 39
6224746 TTAGGTTTTG
* * * *
6224756 GTTTAGGGTTTGACTTTGGAGTTTAGGATTTGAC-TT-GT
1 GTTTAGGGTTTGACTTTAG-GTTTAAGATTTAACTTTGGA
*
6224794 GTTTAGGGTTTGATTTTAGGTTTAAGATTTAACTTTGGA
1 GTTTAGGGTTTGACTTTAGGTTTAAGATTTAACTTTGGA
** * *
6224833 GTTTAGGGTTT-AGGTTAGGGTTTAAAATTT-AGTTTAGG-
1 GTTTAGGGTTTGACTTTA-GGTTTAAGATTTAACTTT-GGA
* * * *
6224871 GTTTAAGGTTTG-GTTTAGGAGTTTAAGGTTTGACTTT--A
1 GTTTAGGGTTTGACTTTA-G-GTTTAAGATTTAACTTTGGA
* *
6224909 TGTTTTGGGTTCGACTTTAGGTTTA
1 -GTTTAGGGTTTGACTTTAGGTTTA
6224934 GGATAACACA
Statistics
Matches: 112, Mismatches: 18, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
37 12 0.11
38 48 0.43
39 44 0.39
40 8 0.07
ACGTcount: A:0.20, C:0.03, G:0.29, T:0.48
Consensus pattern (39 bp):
GTTTAGGGTTTGACTTTAGGTTTAAGATTTAACTTTGGA
Found at i:6224844 original size:20 final size:20
Alignment explanation
Indices: 6224756--6224843 Score: 92
Period size: 20 Copynumber: 4.5 Consensus size: 20
6224746 TTAGGTTTTG
6224756 GTTTAGGGTTTGACTTTGGA
1 GTTTAGGGTTTGACTTTGGA
* *
6224776 GTTTAGGATTTGAC-TT-GT
1 GTTTAGGGTTTGACTTTGGA
* *
6224794 GTTTAGGGTTTGATTTTAG-
1 GTTTAGGGTTTGACTTTGGA
* * *
6224813 GTTTAAGATTTAACTTTGGA
1 GTTTAGGGTTTGACTTTGGA
6224833 GTTTAGGGTTT
1 GTTTAGGGTTT
6224844 AGGTTAGGGT
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
18 13 0.24
19 18 0.33
20 23 0.43
ACGTcount: A:0.18, C:0.03, G:0.30, T:0.49
Consensus pattern (20 bp):
GTTTAGGGTTTGACTTTGGA
Found at i:6224855 original size:39 final size:38
Alignment explanation
Indices: 6224794--6224908 Score: 101
Period size: 39 Copynumber: 2.9 Consensus size: 38
6224784 TTTGACTTGT
**
6224794 GTTTAGGGTTTGATTTTA-GGTTTAAGATTTAACTTT-GG
1 GTTTAGGGTTT-AGGTTAGGGTTTAAGATTT-ACTTTAGG
* *
6224832 AGTTTAGGGTTTAGGTTAGGGTTTAAAATTTAGTTTAGG
1 -GTTTAGGGTTTAGGTTAGGGTTTAAGATTTACTTTAGG
* *
6224871 GTTTAAGGTTT-GGTTTAGGAGTTTAAGGTTTGACTTTA
1 GTTTAGGGTTTAGG-TTAGG-GTTTAAGATTT-ACTTTA
6224909 TGTTTTGGGT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
37 2 0.03
38 23 0.37
39 33 0.52
40 5 0.08
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.47
Consensus pattern (38 bp):
GTTTAGGGTTTAGGTTAGGGTTTAAGATTTACTTTAGG
Found at i:6224886 original size:19 final size:19
Alignment explanation
Indices: 6224833--6224902 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
6224823 TAACTTTGGA
*
6224833 GTTTAGGGTTTAGG-TTAGG
1 GTTTAAGGTTT-GGTTTAGG
** *
6224852 GTTTAAAATTTAGTTTAGG
1 GTTTAAGGTTTGGTTTAGG
6224871 GTTTAAGGTTTGGTTTAGG
1 GTTTAAGGTTTGGTTTAGG
6224890 AGTTTAAGGTTTG
1 -GTTTAAGGTTTG
6224903 ACTTTATGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
18 1 0.02
19 29 0.69
20 12 0.29
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (19 bp):
GTTTAAGGTTTGGTTTAGG
Found at i:6226163 original size:292 final size:292
Alignment explanation
Indices: 6225639--6226220 Score: 1058
Period size: 292 Copynumber: 2.0 Consensus size: 292
6225629 TGAGACAAAC
*
6225639 AAACAAAATATAACCTAAACAAAAAGGAGTAGTTTCCACTATAGCATGGAAAAGGCTTGGCTGAA
1 AAACAAAATATAACCTAAACAAAAAGGAGTAGTTTCCACTATAGCATAGAAAAGGCTTGGCTGAA
*
6225704 CCTATTAGTGGCCATTTTGAAAACCTTTTTTGTTCACACATCCACCATATATCAAGCAACCATTT
66 CCTATTAATGGCCATTTTGAAAACCTTTTTTGTTCACACATCCACCATATATCAAGCAACCATTT
*
6225769 ATCTAACACACAACTTTCATCAAACACTTAATAAACTATGAAAACACTAGTAAGTTGCTAACATT
131 ATCTAACACACAACTTTCATCAAACACTTAATAAACTATGAAAACACTAGTAAGTTACTAACATT
6225834 TTTATCTAGGAAAAGAATCATAGAAACACATGATCATGCTATAGTAATAACAAGAAAACAAAAGC
196 TTTATCTAGGAAAAGAATCATAGAAACACATGATCATGCTATAGTAATAACAAGAAAACAAAAGC
6225899 CAAAGAAATACATGAGCAAACTATAGTAACCT
261 CAAAGAAATACATGAGCAAACTATAGTAACCT
*
6225931 AAACAAAATATAACCTAAACAAAAAGGAGTAGGTTT-GACTATAGCATAGAAAAGGCTTGGCTGA
1 AAACAAAATATAACCTAAACAAAAAGGAGTA-GTTTCCACTATAGCATAGAAAAGGCTTGGCTGA
6225995 ACCTATTAATGGCCATTTTGAAAACCTTTTTTGTTCACACATCCACCATATATCAAGCAACCATT
65 ACCTATTAATGGCCATTTTGAAAACCTTTTTTGTTCACACATCCACCATATATCAAGCAACCATT
*
6226060 TATCTAACACACAACTTTTATCAAACACTTAATAAACTATGAAAACACTAGTAAGTTACTAACAT
130 TATCTAACACACAACTTTCATCAAACACTTAATAAACTATGAAAACACTAGTAAGTTACTAACAT
* * * *
6226125 TTTTATTTAGGAAAAGAATCATAGAAACATATGATCATGCTATAGTAATACCAAGAAAACAAAAT
195 TTTTATCTAGGAAAAGAATCATAGAAACACATGATCATGCTATAGTAATAACAAGAAAACAAAAG
*
6226190 CCAAAGAAATATATGAGCAAACTATAGTAAC
260 CCAAAGAAATACATGAGCAAACTATAGTAAC
6226221 AACAACCAAC
Statistics
Matches: 279, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
292 275 0.99
293 4 0.01
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (292 bp):
AAACAAAATATAACCTAAACAAAAAGGAGTAGTTTCCACTATAGCATAGAAAAGGCTTGGCTGAA
CCTATTAATGGCCATTTTGAAAACCTTTTTTGTTCACACATCCACCATATATCAAGCAACCATTT
ATCTAACACACAACTTTCATCAAACACTTAATAAACTATGAAAACACTAGTAAGTTACTAACATT
TTTATCTAGGAAAAGAATCATAGAAACACATGATCATGCTATAGTAATAACAAGAAAACAAAAGC
CAAAGAAATACATGAGCAAACTATAGTAACCT
Found at i:6227582 original size:18 final size:18
Alignment explanation
Indices: 6227559--6227623 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
6227549 CTGGTCATGG
6227559 AAAAAAAAAAAGAGCTAA
1 AAAAAAAAAAAGAGCTAA
* * * **
6227577 AAAAAAAGATAGATCTTT
1 AAAAAAAAAAAGAGCTAA
*
6227595 AAAAAAAAAAAGAG-GAA
1 AAAAAAAAAAAGAGCTAA
6227612 ACAAAAAAAAAA
1 A-AAAAAAAAAA
6227624 AAAAAAACTA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
17 1 0.03
18 34 0.97
ACGTcount: A:0.75, C:0.05, G:0.11, T:0.09
Consensus pattern (18 bp):
AAAAAAAAAAAGAGCTAA
Found at i:6229475 original size:9 final size:9
Alignment explanation
Indices: 6229457--6229489 Score: 52
Period size: 8 Copynumber: 3.9 Consensus size: 9
6229447 TTAAACTAAC
6229457 AAAT-ATAA
1 AAATAATAA
6229465 AAATAAT-A
1 AAATAATAA
6229473 AAATAATAA
1 AAATAATAA
6229482 AAATAATA
1 AAATAATA
6229490 GGAGGGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 12 0.52
9 11 0.48
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATAATAA
Found at i:6229483 original size:17 final size:16
Alignment explanation
Indices: 6229457--6229489 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
6229447 TTAAACTAAC
6229457 AAATATAAAAATAATA
1 AAATATAAAAATAATA
6229473 AAATAATAAAAATAATA
1 AAAT-ATAAAAATAATA
6229490 GGAGGGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATATAAAAATAATA
Found at i:6237370 original size:14 final size:13
Alignment explanation
Indices: 6237341--6237403 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 13
6237331 CCCAATTTCA
6237341 ATTTTATTTATTT
1 ATTTTATTTATTT
6237354 ATTTATATTT-TTAT
1 ATTT-TATTTATT-T
*
6237368 ATTTT-TTGCTTTTT
1 ATTTTATT--TATTT
6237382 ATTTTCATTT-TTT
1 ATTTT-ATTTATTT
6237395 ATTTTATTT
1 ATTTTATTT
6237404 TTTGGTTCTG
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
12 6 0.14
13 15 0.35
14 18 0.42
15 2 0.05
16 2 0.05
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (13 bp):
ATTTTATTTATTT
Found at i:6237393 original size:13 final size:12
Alignment explanation
Indices: 6237341--6237406 Score: 69
Period size: 13 Copynumber: 5.0 Consensus size: 12
6237331 CCCAATTTCA
6237341 ATTTTATTTATTT
1 ATTTTATTT-TTT
6237354 ATTTATATTTTTAT
1 ATTT-TATTTTT-T
*
6237368 ATTTTTTGCTTTTT
1 ATTTTAT--TTTTT
6237382 ATTTTCATTTTTT
1 ATTTT-ATTTTTT
6237395 ATTTTATTTTTT
1 ATTTTATTTTTT
6237407 GGTTCTGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
12 7 0.15
13 18 0.39
14 16 0.35
15 5 0.11
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (12 bp):
ATTTTATTTTTT
Found at i:6249261 original size:13 final size:13
Alignment explanation
Indices: 6249238--6249281 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
6249228 TGCTTAAGAG
6249238 AAAATGAAAAAAAT
1 AAAA-GAAAAAAAT
6249252 AAAAGAAAAAAAT
1 AAAAGAAAAAAAT
*
6249265 ATAAA-AAAAAATT
1 A-AAAGAAAAAAAT
6249278 AAAA
1 AAAA
6249282 CAAAGAAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 3 0.11
13 18 0.64
14 7 0.25
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.14
Consensus pattern (13 bp):
AAAAGAAAAAAAT
Found at i:6250237 original size:21 final size:21
Alignment explanation
Indices: 6250203--6250249 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6250193 TTTTGATAAA
6250203 AATCTGTGAATTTCAAAGAAG
1 AATCTGTGAATTTCAAAGAAG
* * *
6250224 AATCTTTGAGTTTCAAAGGAG
1 AATCTGTGAATTTCAAAGAAG
6250245 AATCT
1 AATCT
6250250 CTAAGGTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (21 bp):
AATCTGTGAATTTCAAAGAAG
Found at i:6250746 original size:40 final size:41
Alignment explanation
Indices: 6250691--6250793 Score: 165
Period size: 40 Copynumber: 2.5 Consensus size: 41
6250681 AATTGTCAGT
6250691 TGAGCCATTTATTTTTCAAAGTTCGTTGCCTCTATTCA-AA
1 TGAGCCATTTATTTTTCAAAGTTCGTTGCCTCTATTCAGAA
*
6250731 TGAGCCATTTATTTTTCAAAGTTCGTTGTCTCTATTCAGAA
1 TGAGCCATTTATTTTTCAAAGTTCGTTGCCTCTATTCAGAA
*
6250772 -GAGCAATTTATTTTTCCAAAGT
1 TGAGCCATTTATTTTT-CAAAGT
6250794 CATGTTTTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
40 51 0.86
41 8 0.14
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (41 bp):
TGAGCCATTTATTTTTCAAAGTTCGTTGCCTCTATTCAGAA
Found at i:6251013 original size:4 final size:4
Alignment explanation
Indices: 6251004--6251030 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6250994 CAATTTTAAT
6251004 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
6251031 GTATTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:6251818 original size:14 final size:14
Alignment explanation
Indices: 6251801--6251828 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6251791 TGATTTAATT
6251801 TAATAAAAATAAAA
1 TAATAAAAATAAAA
6251815 TAATAAAAATAAAA
1 TAATAAAAATAAAA
6251829 ATTTTGGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
TAATAAAAATAAAA
Found at i:6251899 original size:25 final size:25
Alignment explanation
Indices: 6251855--6251903 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
6251845 TTAATTATCC
6251855 AATGATAGAATTTATAAAAATTTCA
1 AATGATAGAATTTATAAAAATTTCA
*
6251880 AATGATA-AATTTTTATAAAATTTC
1 AATGATAGAATTTATA-AAAATTTC
6251904 TAGGTGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (25 bp):
AATGATAGAATTTATAAAAATTTCA
Found at i:6256313 original size:21 final size:20
Alignment explanation
Indices: 6256289--6256336 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
6256279 TGTCAGCTCT
6256289 AATAAATTCTAATGTTAAAAA
1 AATAAATTCTAA-GTTAAAAA
** *
6256310 AATATTTTTCTTAGTTAAAAA
1 AATA-AATTCTAAGTTAAAAA
6256331 AATAAA
1 AATAAA
6256337 AAAAGTAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (20 bp):
AATAAATTCTAAGTTAAAAA
Found at i:6257430 original size:35 final size:35
Alignment explanation
Indices: 6257391--6257521 Score: 127
Period size: 35 Copynumber: 3.7 Consensus size: 35
6257381 TCAACTATTG
* *
6257391 GTGTTGTCCCAATTATCTTATCTTTTTTATTGTTA
1 GTGTTATCCCGATTATCTTATCTTTTTTATTGTTA
* * * *
6257426 GTGTTATCCCGGTTATCTTTATCTTTTTGACTATTA
1 GTGTTATCCCGATTATC-TTATCTTTTTTATTGTTA
* ** * *
6257462 ATGTTATCTTGATCATCTTATCTTTTTTATTGTTG
1 GTGTTATCCCGATTATCTTATCTTTTTTATTGTTA
* *
6257497 GTGTTATCCTGATCATCTTTATCTT
1 GTGTTATCCCGATTATC-TTATCTT
6257522 CTCGATGGTT
Statistics
Matches: 77, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
35 43 0.56
36 34 0.44
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (35 bp):
GTGTTATCCCGATTATCTTATCTTTTTTATTGTTA
Done.