Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 114 of 211
Found at i:32105361 original size:9 final size:9
Alignment explanation
Indices: 32105347--32105377 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
32105337 GTTAAACGAA
32105347 TCGAGTTAT
1 TCGAGTTAT
*
32105356 TCGAGTTAA
1 TCGAGTTAT
32105365 TCGAGTTAT
1 TCGAGTTAT
32105374 TCGA
1 TCGA
32105378 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:32105448 original size:9 final size:9
Alignment explanation
Indices: 32105431--32105467 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
32105421 TGAGTTTTCG
32105431 AATTCGAAT
1 AATTCGAAT
*
32105440 AACTCGAAT
1 AATTCGAAT
32105449 AATTCGAAT
1 AATTCGAAT
32105458 AATTCGAAT
1 AATTCGAAT
32105467 A
1 A
32105468 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:32124487 original size:20 final size:19
Alignment explanation
Indices: 32124462--32124514 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
32124452 TAATAGTATT
32124462 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
*
32124481 GTTATT-ATCTTAATATTTAA
1 -TTATTAAT-TTAATATTAAA
32124501 -T-TTAATTTAATATT
1 TTATTAATTTAATATT
32124515 TATCTTGTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 10 0.33
18 3 0.10
19 2 0.07
20 15 0.50
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:32128470 original size:26 final size:26
Alignment explanation
Indices: 32128434--32128485 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
32128424 ATTGCCAGAA
*
32128434 GGTTTTGATC-TTCAAATAAAATAGTT
1 GGTTTTGATCTTTC-AAGAAAATAGTT
32128460 GGTTTTGATCTTTCAAGAAAATAGTT
1 GGTTTTGATCTTTCAAGAAAATAGTT
32128486 TTTCTCTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (26 bp):
GGTTTTGATCTTTCAAGAAAATAGTT
Found at i:32135726 original size:50 final size:51
Alignment explanation
Indices: 32135610--32135736 Score: 152
Period size: 50 Copynumber: 2.5 Consensus size: 51
32135600 CGGATATCCG
* * *
32135610 GTGGCCTGCACATAGTACCAC-CTTTGTTGCCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACAC-TTGTTGCCAAAACTACCTTATTCACAAA
** * *
32135661 GTGGGTTTCACATAGTACCACACTTG-TGACCAAAACTATC-TATTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTTG-CCAAAACTACCTTATTCACAAA
32135711 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
32135737 AGCCACTAGT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
50 34 0.52
51 30 0.46
52 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTTGCCAAAACTACCTTATTCACAAA
Found at i:32136183 original size:17 final size:17
Alignment explanation
Indices: 32136161--32136193 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
32136151 CACTATAGCA
32136161 ATTCGTAATTTCCATTT
1 ATTCGTAATTTCCATTT
32136178 ATTCGTAATTTCCATT
1 ATTCGTAATTTCCATT
32136194 GTTATCAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (17 bp):
ATTCGTAATTTCCATTT
Found at i:32139287 original size:50 final size:50
Alignment explanation
Indices: 32139175--32139300 Score: 177
Period size: 50 Copynumber: 2.5 Consensus size: 50
32139165 GGATATCCGA
*
32139175 TGGCCTGCACATAGTACCAC-CTTTGTTGCCAAAGCTACCTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACAC-TTGTTGCCAAAGCTA-CTTCTTCACAAAG
*
32139226 TGGCCTTCACATAGTACCACACTTG-TGACCAAAGCTA-TGTCTTCTCAAAG
1 TGGCCTTCACATAGTACCACACTTGTTG-CCAAAGCTACT-TCTTCACAAAG
32139276 TGGCCTTCACATAGTACCACACTTG
1 TGGCCTTCACATAGTACCACACTTG
32139301 AGCCACTAGT
Statistics
Matches: 70, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
49 1 0.01
50 37 0.53
51 31 0.44
52 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (50 bp):
TGGCCTTCACATAGTACCACACTTGTTGCCAAAGCTACTTCTTCACAAAG
Found at i:32144058 original size:40 final size:40
Alignment explanation
Indices: 32143983--32144083 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
32143973 ACAAACGCCA
* * *
32143983 CTAAAAATCAAGCATTAGCGGCGCTTTTATAAAAACACAT
1 CTAAAAGTCAAGCATTAGCGGCGCTTTTAGAAAAACACAG
* * * *
32144023 CTAAAGGTCAAGCATTAGCGGCGCCTTTT-GGAAAACGCCG
1 CTAAAAGTCAAGCATTAGCGGCG-CTTTTAGAAAAACACAG
32144063 CTAAAAGT-AAGCATTAGCGGC
1 CTAAAAGTCAAGCATTAGCGGC
32144084 ATTTTTTGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
39 13 0.25
40 34 0.65
41 5 0.10
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (40 bp):
CTAAAAGTCAAGCATTAGCGGCGCTTTTAGAAAAACACAG
Found at i:32144091 original size:39 final size:40
Alignment explanation
Indices: 32143977--32144108 Score: 99
Period size: 40 Copynumber: 3.3 Consensus size: 40
32143967 TGGATAACAA
* * * * *
32143977 ACGCCACTAAAAATCAAGCATTAGCGGC-GCTTTTATAAAA
1 ACGCCGCTAAAAGTCAAGCATTAGCGGCACCTTTT-GAAAG
* ** * *
32144017 ACACATCTAAAGGTCAAGCATTAGCGGCGCCTTTTGGAAA-
1 ACGCCGCTAAAAGTCAAGCATTAGCGGCACCTTTT-GAAAG
**
32144057 ACGCCGCTAAAAGT-AAGCATTAGCGGCATTTTTTGAAAG
1 ACGCCGCTAAAAGTCAAGCATTAGCGGCACCTTTTGAAAG
* *
32144096 GCGCCGCAAAAAG
1 ACGCCGCTAAAAG
32144109 CCTAAGCCCA
Statistics
Matches: 73, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
38 4 0.05
39 28 0.38
40 33 0.45
41 8 0.11
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (40 bp):
ACGCCGCTAAAAGTCAAGCATTAGCGGCACCTTTTGAAAG
Found at i:32144344 original size:41 final size:41
Alignment explanation
Indices: 32144143--32144343 Score: 312
Period size: 41 Copynumber: 4.9 Consensus size: 41
32144133 TGAGTTTTTG
* *
32144143 GGGCATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
32144184 GGGCCTTTAGTGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
32144225 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * ** *
32144266 GGGCCTTTAGCGACATTTTTGAAAAAAAGCCGCTAATACTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
32144307 GGGCCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
32144344 AATAATAAAT
Statistics
Matches: 144, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 144 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:32145058 original size:14 final size:14
Alignment explanation
Indices: 32145009--32145060 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
32144999 CATATTTTAA
*
32145009 GGTTTAGGGAGTAT
1 GGTTTAGGGATTAT
*
32145023 GGGTTTAGAGATTAT
1 -GGTTTAGGGATTAT
* *
32145038 TGATTAGGGATTAT
1 GGTTTAGGGATTAT
32145052 GGTTTAGGG
1 GGTTTAGGG
32145061 GTTGGGATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.38
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:32145078 original size:21 final size:22
Alignment explanation
Indices: 32145041--32145096 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
32145031 AGATTATTGA
*
32145041 TTAGGGA-TTATGGTTTAGGGG
1 TTAGGGATTTAAGGTTTAGGGG
32145062 TT-GGGATTTAAGGTTTAGGGG
1 TTAGGGATTTAAGGTTTAGGGG
*
32145083 TTAGGGGTTTAAGG
1 TTAGGGATTTAAGG
32145097 GTTAAGTACG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 4 0.13
21 17 0.55
22 10 0.32
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.38
Consensus pattern (22 bp):
TTAGGGATTTAAGGTTTAGGGG
Found at i:32145206 original size:290 final size:290
Alignment explanation
Indices: 32144817--32145351 Score: 869
Period size: 290 Copynumber: 1.8 Consensus size: 290
32144807 AGAAAGGGGT
* * *
32144817 TTAGGGGTTAAGAGTTAGGGATTTAGGGGTCGAGTTAGGATTTTGGGCGTTTAGATTAATTTTTT
1 TTAGGGGTTAAAAGTTAGGGATTTAGGGATCGAGTTAGGATTTT-GGAGTTTAGATTAATTTTTT
*
32144882 TAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGT
65 TAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAAATAATAATAAATTTGTTTAGGGT
* * *
32144947 TTTTGGTTTAGGGTATATGATTTA-TTTAAGATTTAAGGCTGGTTTAGGAGTTCATATTTTAAGG
130 TTTTAGTTTAGGGTATATGA-TTAGTTTAAGATTTAAGGCCGGTTTAGGAATTCATATTTTAAGG
* * * * *
32145011 TTTAGGGAGTATGGGTTTAGAGATTATTGATTAGGGA-TTATGGTTTAGGGGTTGGGATTTAAGG
194 TTTAGGGAATATGGATTTAGAGATTATGGATTAAGGATTTAAGGTTTAGGGGTTGGGATTTAAGG
32145075 TTTAGGGGTTAGGGGTTTAAGGGTTAAGTACG
259 TTTAGGGGTTAGGGGTTTAAGGGTTAAGTACG
* *
32145107 TTAGGGGTTAAAAGTTAGGGATTTAGGGATCGGGTTAGGGTTTT-GAGTTTAGATTAATTATTTT
1 TTAGGGGTTAAAAGTTAGGGATTTAGGGATCGAGTTAGGATTTTGGAGTTTAGATTAA-T-TTTT
*
32145171 TTAATTTATATTTTAAATATGTTCTTATGTAATTGTAAAAGAAATAATAATAAATTTGTTTAGGG
64 TTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAAATAATAATAAATTTGTTTAGGG
32145236 TTTTTAGTTTAGGGTATATGATTAGTTTAAGATTTAAGGCCGGTTTAGGAATTCATATTTTAAGG
129 TTTTTAGTTTAGGGTATATGATTAGTTTAAGATTTAAGGCCGGTTTAGGAATTCATATTTTAAGG
*
32145301 TTTAGGGAATATGGATTTAGGGATTATGGATTAAGGATTTAAGGTTTAGGG
194 TTTAGGGAATATGGATTTAGAGATTATGGATTAAGGATTTAAGGTTTAGGG
32145352 ATTCAAGAGT
Statistics
Matches: 225, Mismatches: 16, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
288 12 0.05
289 4 0.02
290 197 0.88
291 12 0.05
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.43
Consensus pattern (290 bp):
TTAGGGGTTAAAAGTTAGGGATTTAGGGATCGAGTTAGGATTTTGGAGTTTAGATTAATTTTTTT
AATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAAATAATAATAAATTTGTTTAGGGTT
TTTAGTTTAGGGTATATGATTAGTTTAAGATTTAAGGCCGGTTTAGGAATTCATATTTTAAGGTT
TAGGGAATATGGATTTAGAGATTATGGATTAAGGATTTAAGGTTTAGGGGTTGGGATTTAAGGTT
TAGGGGTTAGGGGTTTAAGGGTTAAGTACG
Found at i:32145321 original size:15 final size:15
Alignment explanation
Indices: 32145301--32145332 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32145291 TATTTTAAGG
32145301 TTTAGGGAATATGGA
1 TTTAGGGAATATGGA
*
32145316 TTTAGGGATTATGGA
1 TTTAGGGAATATGGA
32145331 TT
1 TT
32145333 AAGGATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (15 bp):
TTTAGGGAATATGGA
Found at i:32145353 original size:22 final size:22
Alignment explanation
Indices: 32145294--32145354 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
32145284 GAATTCATAT
* *
32145294 TTTAAGGTTTAGGGAATATGGA
1 TTTAAGGTTTAGGGATTAAGGA
* * *
32145316 TTTAGGGATTATGGATTAAGGA
1 TTTAAGGTTTAGGGATTAAGGA
32145338 TTTAAGGTTTAGGGATT
1 TTTAAGGTTTAGGGATT
32145355 CAAGAGTCGG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.31, T:0.39
Consensus pattern (22 bp):
TTTAAGGTTTAGGGATTAAGGA
Found at i:32145921 original size:21 final size:22
Alignment explanation
Indices: 32145895--32145937 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
32145885 CGCTTTTATT
*
32145895 CCTAAA-TTCCCCCCTGAAATC
1 CCTAAATTTCCCCCCTAAAATC
32145916 CCTAAATTTTCCCCCCTAAAAT
1 CCTAAA-TTTCCCCCCTAAAAT
32145938 TGGTATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
23 13 0.68
ACGTcount: A:0.30, C:0.40, G:0.02, T:0.28
Consensus pattern (22 bp):
CCTAAATTTCCCCCCTAAAATC
Found at i:32149573 original size:43 final size:43
Alignment explanation
Indices: 32149512--32149706 Score: 148
Period size: 43 Copynumber: 4.6 Consensus size: 43
32149502 AAATTAGTGG
* *
32149512 CGTTTTTTTATAAA-CGCCGCTAAAGAAC-CGTACTTTTAGCGA
1 CGTTTGTTGATAAAGCGCCGCTAAAGAACACGTAC-TTTAGCGA
* * * *
32149554 CGTTTG-TGATAAAAGCGCCGCTAAAGATCATGTTCTTTAGGGA
1 CGTTTGTTGAT-AAAGCGCCGCTAAAGAACACGTACTTTAGCGA
* * * * * *
32149597 CGTTTGTTGATAAAGTGCCGCTAAAGATCATGTTCTTTAACGG
1 CGTTTGTTGATAAAGCGCCGCTAAAGAACACGTACTTTAGCGA
** * * *
32149640 CGATTT-TTG-TAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
1 CG-TTTGTTGATAAAGCGCCGCTAAAGAACACGTACTTTAGCGA
* * *
32149682 TGTTTGTGGGTAAAGCGCCGCTAAA
1 CGTTTGTTGATAAAGCGCCGCTAAA
32149707 ATTCTTGTTC
Statistics
Matches: 131, Mismatches: 15, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
41 6 0.05
42 41 0.31
43 74 0.56
44 10 0.08
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
CGTTTGTTGATAAAGCGCCGCTAAAGAACACGTACTTTAGCGA
Found at i:32149654 original size:85 final size:85
Alignment explanation
Indices: 32149565--32149772 Score: 233
Period size: 85 Copynumber: 2.4 Consensus size: 85
32149555 GTTTGTGATA
* *
32149565 AAAGCGCCGCTAAAGATCATGTTCTTTAG-GGACGTTTGTTGATAAAGTGCCGCTAAAGA-TCAT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGG-CGTTTGTGGATAAAGCGCCGCTAAA-ATTCAT
32149628 GTTCTTTAACGGCGATTTTTGT
64 GTTCTTTAACGGCGATTTTTGT
* * * *
32149650 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGTAAAGCGCCGCTAAAATTCTTGT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGATAAAGCGCCGCTAAAATTCATGT
* * *
32149715 TCTTTAGCGGTG-TTTGTGGGT
66 TCTTTAACGGCGATTT-T-TGT
* * * * *
32149736 AAAGTGTCACTAAAGAACATGATCTTTAGCGGCGTTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
32149773 TTTCATATAA
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
84 4 0.04
85 65 0.63
86 34 0.33
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (85 bp):
AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGATAAAGCGCCGCTAAAATTCATGT
TCTTTAACGGCGATTTTTGT
Found at i:32149716 original size:43 final size:43
Alignment explanation
Indices: 32149546--32149772 Score: 239
Period size: 43 Copynumber: 5.3 Consensus size: 43
32149536 GAACCGTACT
* *
32149546 TTTAGCGACGTTTGT-GATAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGT-AAAGCGCCGCTAAAGATCATGTTC
* * *
32149589 TTTAG-GGACGTTTGTTGATAAAGTGCCGCTAAAGATCATGTTC
1 TTTAGCGG-CGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
* * *
32149632 TTTAACGGCGATTT-T-TGTAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCG-TTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
* *
32149674 TTTAGCGGTGTTTGTGGGTAAAGCGCCGCTAAA-ATTCTTGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGA-TCATGTTC
* * * * * *
32149717 TTTAGCGGTGTTTGTGGGTAAAGTGTCACTAAAGAACATGATC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
32149760 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
32149773 TTTCATATAA
Statistics
Matches: 157, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
41 3 0.02
42 33 0.21
43 112 0.71
44 9 0.06
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
Found at i:32162278 original size:24 final size:24
Alignment explanation
Indices: 32162245--32162291 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
32162235 AAAACAAAAG
32162245 CTAAGATGAGTAATTACTAAATAA
1 CTAAGATGAGTAATTACTAAATAA
*
32162269 CTAAGGTGAGTAATTACTAAATA
1 CTAAGATGAGTAATTACTAAATA
32162292 TTTATCCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.30
Consensus pattern (24 bp):
CTAAGATGAGTAATTACTAAATAA
Found at i:32164429 original size:92 final size:90
Alignment explanation
Indices: 32164318--32164501 Score: 305
Period size: 92 Copynumber: 2.0 Consensus size: 90
32164308 TATGATACAT
32164318 TAGGTCAAATTAGTAATAATACCGAAAGAAATTTATTACCTTACATAACCTAGGATTAATGTGAT
1 TAGGTCAAATTAGTAATAATACCGAAAGAAATTTATTACCTTACATAACCTAGGATTAATGTGAT
*
32164383 TAAATTGTTTTAGTATATAAATATCAC
66 TAAATTGTTTCA--ATATAAATATCAC
* * *
32164410 TAGGTCAAATTAGTAATAATATCGAAAGAAATTTATTACCTTGCATAACGTAGGATTAATGTGAT
1 TAGGTCAAATTAGTAATAATACCGAAAGAAATTTATTACCTTACATAACCTAGGATTAATGTGAT
*
32164475 TAAATTGTTTCAATATATATATCAC
66 TAAATTGTTTCAATATAAATATCAC
32164500 TA
1 TA
32164502 TTACCTCACT
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
90 14 0.16
92 73 0.84
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.36
Consensus pattern (90 bp):
TAGGTCAAATTAGTAATAATACCGAAAGAAATTTATTACCTTACATAACCTAGGATTAATGTGAT
TAAATTGTTTCAATATAAATATCAC
Found at i:32167387 original size:23 final size:21
Alignment explanation
Indices: 32167339--32167386 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
32167329 TGCAATTGAG
32167339 GCACACGCCTGTGTGCAAGAA
1 GCACACGCCTGTGTGCAAGAA
*
32167360 GCACACGCCTGTGTGGAAGAA
1 GCACACGCCTGTGTGCAAGAA
32167381 GCACAC
1 GCACAC
32167387 AACCGTATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.12
Consensus pattern (21 bp):
GCACACGCCTGTGTGCAAGAA
Found at i:32167397 original size:21 final size:21
Alignment explanation
Indices: 32167339--32167397 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
32167329 TGCAATTGAG
* * *
32167339 GCACACGCCTGTGTGCAAGAA
1 GCACACACCTGTATGGAAGAA
* *
32167360 GCACACGCCTGTGTGGAAGAA
1 GCACACACCTGTATGGAAGAA
32167381 GCACACAACC-GTATGGA
1 GCACAC-ACCTGTATGGA
32167398 GGAGATACAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 32 0.94
22 2 0.06
ACGTcount: A:0.31, C:0.27, G:0.29, T:0.14
Consensus pattern (21 bp):
GCACACACCTGTATGGAAGAA
Found at i:32175033 original size:15 final size:15
Alignment explanation
Indices: 32175015--32175080 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 15
32175005 TAAATCTAGC
32175015 AATCTAAAATTCAAA
1 AATCTAAAATTCAAA
32175030 AATCT--AATTC-AA
1 AATCTAAAATTCAAA
* *
32175042 AATCTAAAGTT-GAA
1 AATCTAAAATTCAAA
32175056 AATCCT-AAATTCTAAGA
1 AAT-CTAAAATTC-AA-A
32175073 AATCTAAA
1 AATCTAAA
32175081 TCAAAATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
12 7 0.17
13 5 0.12
14 12 0.30
15 7 0.17
16 3 0.08
17 6 0.15
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.29
Consensus pattern (15 bp):
AATCTAAAATTCAAA
Found at i:32175059 original size:14 final size:13
Alignment explanation
Indices: 32175015--32175087 Score: 60
Period size: 15 Copynumber: 5.2 Consensus size: 13
32175005 TAAATCTAGC
32175015 AATCTAAAATTCAAA
1 AATCT-AAATTC-AA
32175030 AATCT-AATTCAA
1 AATCTAAATTCAA
*
32175042 AATCTAAAGTTGAA
1 AATCTAAA-TTCAA
32175056 AATCCTAAATTCTAAGA
1 AAT-CTAAATTC--A-A
32175073 AATCTAAA-TCAA
1 AATCTAAATTCAA
32175085 AAT
1 AAT
32175088 TTAATTTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
12 11 0.22
13 8 0.16
14 9 0.18
15 12 0.24
16 6 0.12
17 4 0.08
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.29
Consensus pattern (13 bp):
AATCTAAATTCAA
Found at i:32175110 original size:55 final size:58
Alignment explanation
Indices: 32175028--32175175 Score: 144
Period size: 62 Copynumber: 2.5 Consensus size: 58
32175018 CTAAAATTCA
* * *
32175028 AAAATCTAATTCAAAATCTAA-AGTTGAAAATCCT-AA-AT-TCTAAG-AAATCTAAATC
1 AAAATTTAATTTAAAACCTAATA-TTGAAAATCCTAAATATATCTAAGAAAATC-AAATC
* * *
32175083 AAAATTTAATTTAAAACTTAATATTGAAAAGCTTAAAATATAAGATCTAAGAAAATCAAATC
1 AAAATTTAATTTAAAACCTAATATTGAAAATCCT-AAATAT---ATCTAAGAAAATCAAATC
*
32175145 AAAATTTAATTTAAAACCTAATATTTAAAAT
1 AAAATTTAATTTAAAACCTAATATTGAAAAT
32175176 GCAATACATA
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
55 26 0.35
56 1 0.01
57 2 0.03
58 2 0.03
62 39 0.52
63 5 0.07
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.32
Consensus pattern (58 bp):
AAAATTTAATTTAAAACCTAATATTGAAAATCCTAAATATATCTAAGAAAATCAAATC
Found at i:32175302 original size:36 final size:38
Alignment explanation
Indices: 32175237--32175316 Score: 146
Period size: 36 Copynumber: 2.2 Consensus size: 38
32175227 TAACTTCTAA
32175237 AAACTTAACATTTACATAAAAAAAATTAAAATAAAAAC
1 AAACTTAACATTTACATAAAAAAAATTAAAATAAAAAC
32175275 AAACTT-ACATTTACAT-AAAAAAATTAAAATAAAAAC
1 AAACTTAACATTTACATAAAAAAAATTAAAATAAAAAC
32175311 AAACTT
1 AAACTT
32175317 TTTTCTAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.62
37 10 0.24
38 6 0.14
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (38 bp):
AAACTTAACATTTACATAAAAAAAATTAAAATAAAAAC
Found at i:32175735 original size:19 final size:18
Alignment explanation
Indices: 32175690--32175735 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
32175680 AAAATCAATC
32175690 AAATAAATTAAATAAAAGA
1 AAATAAA-TAAATAAAAGA
**
32175709 AACCAAATAAGATAAAAGA
1 AAATAAATAA-ATAAAAGA
32175728 AAATAAAT
1 AAATAAAT
32175736 TTGTGAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.17
Consensus pattern (18 bp):
AAATAAATAAATAAAAGA
Found at i:32178648 original size:22 final size:22
Alignment explanation
Indices: 32178620--32178680 Score: 113
Period size: 22 Copynumber: 2.8 Consensus size: 22
32178610 AAATCACTTT
32178620 AAAACGCTTTCAACTAGAATTG
1 AAAACGCTTTCAACTAGAATTG
32178642 AAAACGCTTTCAACTAGAATTG
1 AAAACGCTTTCAACTAGAATTG
*
32178664 AAAACGCTTCCAACTAG
1 AAAACGCTTTCAACTAG
32178681 TAAGGTTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (22 bp):
AAAACGCTTTCAACTAGAATTG
Found at i:32179044 original size:21 final size:21
Alignment explanation
Indices: 32179017--32179066 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
32179007 GTCCACGCCC
*
32179017 AAAATA-AATTAA-AATAAAT
1 AAAATATAATTAATAAAAAAT
32179036 AAAATATAATTAATAAAAAAT
1 AAAATATAATTAATAAAAAAT
32179057 AAAATA-AATT
1 AAAATATAATT
32179067 GGGTTACCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 6 0.21
20 10 0.36
21 12 0.43
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAATATAATTAATAAAAAAT
Found at i:32180055 original size:16 final size:16
Alignment explanation
Indices: 32180030--32180073 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
32180020 ATTTAGTTAA
* *
32180030 TTTCTCTTGAGTATAT
1 TTTCTTTTGAATATAT
32180046 TTTCTTTTGAATATAT
1 TTTCTTTTGAATATAT
32180062 TTT-TTTT-AATAT
1 TTTCTTTTGAATAT
32180074 GATCATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 5 0.19
15 4 0.15
16 17 0.65
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.64
Consensus pattern (16 bp):
TTTCTTTTGAATATAT
Found at i:32184025 original size:23 final size:23
Alignment explanation
Indices: 32184007--32184051 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
32183997 AGCTAATTTT
32184007 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
32184030 TTCTAAATATTATCACTAAATA
1 TTCTAAATATTATCACTAAATA
32184052 TTATCACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (23 bp):
TTCTAAATATTATCACTAAATAA
Found at i:32184027 original size:13 final size:13
Alignment explanation
Indices: 32184009--32184087 Score: 98
Period size: 13 Copynumber: 6.5 Consensus size: 13
32183999 CTAATTTTTT
32184009 CTAAATATTATCA
1 CTAAATATTATCA
*
32184022 CTAAATA--AT-T
1 CTAAATATTATCA
32184032 CTAAATATTATCA
1 CTAAATATTATCA
32184045 CTAAATATTATCA
1 CTAAATATTATCA
*
32184058 CTAAATA--AT-T
1 CTAAATATTATCA
32184068 CTAAATATTATCA
1 CTAAATATTATCA
32184081 CTAAATA
1 CTAAATA
32184088 ATTCAAAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
10 14 0.25
11 4 0.07
12 4 0.07
13 34 0.61
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:32184049 original size:36 final size:36
Alignment explanation
Indices: 32184009--32184087 Score: 158
Period size: 36 Copynumber: 2.2 Consensus size: 36
32183999 CTAATTTTTT
32184009 CTAAATATTATCACTAAATAATTCTAAATATTATCA
1 CTAAATATTATCACTAAATAATTCTAAATATTATCA
32184045 CTAAATATTATCACTAAATAATTCTAAATATTATCA
1 CTAAATATTATCACTAAATAATTCTAAATATTATCA
32184081 CTAAATA
1 CTAAATA
32184088 ATTCAAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (36 bp):
CTAAATATTATCACTAAATAATTCTAAATATTATCA
Found at i:32184071 original size:23 final size:23
Alignment explanation
Indices: 32184045--32184096 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
32184035 AATATTATCA
32184045 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
32184068 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
32184091 CAAAAT
1 CTAAAT
32184097 TTAAAAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:32191961 original size:13 final size:13
Alignment explanation
Indices: 32191937--32191970 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
32191927 CAAAAAGGTT
*
32191937 GAAAGTAAAAAAAG
1 GAAAG-AAAAAAAA
32191951 GAAAGAAAAAAAA
1 GAAAGAAAAAAAA
32191964 GAAAGAA
1 GAAAGAA
32191971 TTTATTAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (13 bp):
GAAAGAAAAAAAA
Found at i:32192087 original size:13 final size:13
Alignment explanation
Indices: 32192069--32192111 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
32192059 TAGATTTTTC
32192069 CTAAATATTATCA
1 CTAAATATTATCA
*
32192082 CTAAATA--AT-T
1 CTAAATATTATCA
32192092 CTAAATATTATCA
1 CTAAATATTATCA
32192105 CTAAATA
1 CTAAATA
32192112 ATTTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:32192099 original size:23 final size:23
Alignment explanation
Indices: 32192069--32192119 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
32192059 TAGATTTTTC
32192069 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
32192092 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
32192115 -TAAAT
1 CTAAAT
32192120 TTTAAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:32194663 original size:19 final size:19
Alignment explanation
Indices: 32194639--32194734 Score: 147
Period size: 19 Copynumber: 4.9 Consensus size: 19
32194629 ATAATTTTTG
*
32194639 ATGATATGCAATATTAGAT
1 ATGATATGCAATCTTAGAT
*
32194658 ATGATATGCAATCCTAGAT
1 ATGATATGCAATCTTAGAT
32194677 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
32194696 ATGATATATGCAATCTTAGAT
1 ATG--ATATGCAATCTTAGAT
*
32194717 ATGATATGTAATCTTAGA
1 ATGATATGCAATCTTAGA
32194735 AGATATGATT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
19 52 0.73
21 19 0.27
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:32194716 original size:40 final size:38
Alignment explanation
Indices: 32194639--32194741 Score: 147
Period size: 40 Copynumber: 2.7 Consensus size: 38
32194629 ATAATTTTTG
*
32194639 ATGATATGCAATATTAGATATGATATGCAATCCTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCCTAGAT
*
32194677 ATGATATGCAATCTTAGATATGATATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATG--ATATGCAATCCTAGAT
*
32194717 ATGATATGTAATCTTAGA-A-GATATG
1 ATGATATGCAATCTTAGATATGATATG
32194742 ATTTTGTAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
36 5 0.08
38 22 0.37
39 1 0.02
40 32 0.53
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.36
Consensus pattern (38 bp):
ATGATATGCAATCTTAGATATGATATGCAATCCTAGAT
Found at i:32194753 original size:23 final size:22
Alignment explanation
Indices: 32194673--32194757 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
32194663 ATGCAATCCT
*
32194673 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
32194694 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
32194713 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
32194735 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
32194758 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:32194767 original size:22 final size:23
Alignment explanation
Indices: 32194723--32194767 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
32194713 AGATATGATA
*
32194723 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
32194746 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
32194768 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:32195939 original size:19 final size:20
Alignment explanation
Indices: 32195900--32195939 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
32195890 TTCTAGGCCT
* *
32195900 TTGTAATATTTATTATTGCA
1 TTGTAATATTTAATATAGCA
32195920 TTGT-ATATTTAATATAGCA
1 TTGTAATATTTAATATAGCA
32195939 T
1 T
32195940 CACATCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (20 bp):
TTGTAATATTTAATATAGCA
Found at i:32196298 original size:98 final size:98
Alignment explanation
Indices: 32196183--32196377 Score: 363
Period size: 98 Copynumber: 2.0 Consensus size: 98
32196173 CTAAAAACAA
* *
32196183 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
32196248 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
32196281 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
32196346 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
32196378 ATTTTATTGT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:32199518 original size:2 final size:2
Alignment explanation
Indices: 32199511--32199551 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
32199501 AACTATGTAA
32199511 TC TC TC TC TC TC TC TC 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 TC TC TC TC TC TC TC TC T
32199552 TTGTTATTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:32202381 original size:100 final size:101
Alignment explanation
Indices: 32202207--32202422 Score: 299
Period size: 100 Copynumber: 2.1 Consensus size: 101
32202197 CAATTATTCA
* * *
32202207 AACGTAAGATCATGGTTGGATCATGGCAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATT
1 AACGTAAGACCATGGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATT
* * * *
32202272 ATGATGATAAGATCATAA-TTGGTTATGGCACTATG
66 ATGATGATAAGACCATAACTAGGTTATGACACTACG
* * * *
32202307 GACGTAAGACCATGGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATT
1 AACGTAAGACCATGGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATT
* *
32202372 CTGATGATAAGACCATAACTAGGTTATTACACTACG
66 ATGATGATAAGACCATAACTAGGTTATGACACTACG
*
32202408 AATGTAAGACCATGG
1 AACGTAAGACCATGG
32202423 CAGGGCCATG
Statistics
Matches: 100, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
100 74 0.74
101 26 0.26
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (101 bp):
AACGTAAGACCATGGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATT
ATGATGATAAGACCATAACTAGGTTATGACACTACG
Found at i:32205145 original size:17 final size:17
Alignment explanation
Indices: 32205123--32205163 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
32205113 TGTGGAGGGG
32205123 CACACGCCCGTGTGGGA
1 CACACGCCCGTGTGGGA
*
32205140 CACACGCTCGTGTGGGA
1 CACACGCCCGTGTGGGA
32205157 CACACGC
1 CACACGC
32205164 ACATGTGGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.20, C:0.37, G:0.32, T:0.12
Consensus pattern (17 bp):
CACACGCCCGTGTGGGA
Found at i:32205170 original size:17 final size:17
Alignment explanation
Indices: 32205123--32205171 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
32205113 TGTGGAGGGG
*
32205123 CACACGCCCGTGTGGGA
1 CACACGCACGTGTGGGA
*
32205140 CACACGCTCGTGTGGGA
1 CACACGCACGTGTGGGA
*
32205157 CACACGCACATGTGG
1 CACACGCACGTGTGG
32205172 CCACTCGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.14
Consensus pattern (17 bp):
CACACGCACGTGTGGGA
Found at i:32205766 original size:16 final size:16
Alignment explanation
Indices: 32205742--32205772 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32205732 TTTACTTCCG
32205742 AAAAATAAAATAAATT
1 AAAAATAAAATAAATT
*
32205758 AAAATTAAAATAAAT
1 AAAAATAAAATAAAT
32205773 AACTAAATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATAAAATAAATT
Found at i:32209104 original size:17 final size:16
Alignment explanation
Indices: 32209078--32209109 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
32209068 TTTACTTCCA
32209078 AAAAATAAAATAAATT
1 AAAAATAAAATAAATT
32209094 AAAAATCAAAATAAAT
1 AAAAAT-AAAATAAAT
32209110 AACTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATAAAATAAATT
Found at i:32209649 original size:101 final size:101
Alignment explanation
Indices: 32209529--32209755 Score: 321
Period size: 101 Copynumber: 2.2 Consensus size: 101
32209519 CAATTATTCA
* * *
32209529 AACGTCAGACCATGGTTGGACCATGATAGTGTTTATATGTAAGACCATAGCTAGGCTATGGCATT
1 AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATT
* *
32209594 ATGATGATAAAACCATAACCT-GGTTATGGCACTATG
66 ATAATGATAAAACCATAA-CTAGGTTATGGCACTACG
* * *
32209630 GACGTAAGACCATGGTTGGACTATGACAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATT
1 AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATT
* *
32209695 CTAATGATAAGACCATAACTAGGTTATGGCACTACG
66 ATAATGATAAAACCATAACTAGGTTATGGCACTACG
* * *
32209731 AATGTAAGACCATGGTAGGGCCATG
1 AACGTAAGACCATGGTTGGACCATG
32209756 GCAATGCATA
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
100 2 0.02
101 108 0.98
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (101 bp):
AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATT
ATAATGATAAAACCATAACTAGGTTATGGCACTACG
Found at i:32209711 original size:33 final size:35
Alignment explanation
Indices: 32209633--32209711 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
32209623 CACTATGGAC
* * *
32209633 GTAAGACCATGGTTGGACTATGACAGTGTTTATAT
1 GTAAGACCATAGCTGGACTATGACAGTGTCTATAT
*
32209668 GTAAGACCATAGCTGGGCTATGACA-T-TCTA-AT
1 GTAAGACCATAGCTGGACTATGACAGTGTCTATAT
32209700 GATAAGACCATA
1 G-TAAGACCATA
32209712 ACTAGGTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 3 0.08
33 13 0.33
34 1 0.03
35 22 0.56
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (35 bp):
GTAAGACCATAGCTGGACTATGACAGTGTCTATAT
Found at i:32209739 original size:33 final size:32
Alignment explanation
Indices: 32209666--32209743 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
32209656 CAGTGTTTAT
* * * *
32209666 ATGTAAGACCATAGCTGGGCTATGACATTCTA
1 ATGTAAGACCATAACTAGGCTATGACATACGA
* *
32209698 ATGATAAGACCATAACTAGGTTATGGCACTACGA
1 ATG-TAAGACCATAACTAGGCTATGACA-TACGA
32209732 ATGTAAGACCAT
1 ATGTAAGACCAT
32209744 GGTAGGGCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 3 0.08
33 29 0.76
34 6 0.16
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (32 bp):
ATGTAAGACCATAACTAGGCTATGACATACGA
Found at i:32215642 original size:49 final size:49
Alignment explanation
Indices: 32215588--32215686 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
32215578 AGAAAAGTAA
32215588 TTAATTAAAATTAATTTATAATTTTTATTTTAGAAAATAGAAAAACATG
1 TTAATTAAAATTAATTTATAATTTTTATTTTAGAAAATAGAAAAACATG
32215637 TTAATTAAAATTAATTTATAATTTTTATTTTAGAAAATAGAAAAACATG
1 TTAATTAAAATTAATTTATAATTTTTATTTTAGAAAATAGAAAAACATG
32215686 T
1 T
32215687 ATTGGGTTGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.43
Consensus pattern (49 bp):
TTAATTAAAATTAATTTATAATTTTTATTTTAGAAAATAGAAAAACATG
Found at i:32221847 original size:18 final size:18
Alignment explanation
Indices: 32221820--32221856 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
32221810 CTGGTGCGTT
*
32221820 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
32221838 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
32221856 T
1 T
32221857 TCTTTTCCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:32222315 original size:25 final size:25
Alignment explanation
Indices: 32222287--32222334 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
32222277 TATTTTGATA
32222287 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
32222312 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
32222335 ATTTTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:32222426 original size:23 final size:24
Alignment explanation
Indices: 32222395--32222887 Score: 378
Period size: 23 Copynumber: 21.8 Consensus size: 24
32222385 ATTAATACCC
* * *
32222395 TTAAGTTAAAAACTCTAACATAAT
1 TTAACTTAAAAACCCTAACCTAAT
*
32222419 TTAA-TTAAAAACCTTAAACC--A-
1 TTAACTTAAAAACCCT-AACCTAAT
*
32222440 TTAACTTAAAAACCTTAGACCTAA-
1 TTAACTTAAAAACCCTA-ACCTAAT
* *
32222464 TTAAATTAAAAACCCTAACC---C
1 TTAACTTAAAAACCCTAACCTAAT
*
32222485 TTAACTTAAAAACCATAACCTAA-
1 TTAACTTAAAAACCCTAACCTAAT
* ** *
32222508 TTAAATTAAAAATTCTAACC---C
1 TTAACTTAAAAACCCTAACCTAAT
32222529 TTAACTTAAAAACCCTAACCTAA-
1 TTAACTTAAAAACCCTAACCTAAT
32222552 TTAACTTAAAAACCCTAACCTAA-
1 TTAACTTAAAAACCCTAACCTAAT
* *
32222575 TTAAATTAAAAACCCTAACC---C
1 TTAACTTAAAAACCCTAACCTAAT
32222596 TTAACTTAAAAACCCTAACCTAA-
1 TTAACTTAAAAACCCTAACCTAAT
32222619 TTAACTTAAAAACCCTAACCTAA-
1 TTAACTTAAAAACCCTAACCTAAT
32222642 TTAACTTAAAAACCCTAACCT-AT
1 TTAACTTAAAAACCCTAACCTAAT
* ** *
32222665 TTAAATTAAAAACTTTAGCCTAA-
1 TTAACTTAAAAACCCTAACCTAAT
* *
32222688 TTAAATTAAAAACCCTAGCCTAA-
1 TTAACTTAAAAACCCTAACCTAAT
* *
32222711 TTAAATT-AAAACCCTAACC---C
1 TTAACTTAAAAACCCTAACCTAAT
32222731 TTAACTTAAAAACCCTAACCTAAT
1 TTAACTTAAAAACCCTAACCTAAT
*
32222755 TTAA-TTAAAAA-CCTAAAACCCTAAACCC
1 TTAACTTAAAAACCCT--AA-CCT-AA--T
* *
32222783 TAAACTTAAAAACCCTAACC---C
1 TTAACTTAAAAACCCTAACCTAAT
* *
32222804 TTAACTTAAAAACACTAAACC---C
1 TTAACTTAAAAACCCT-AACCTAAT
*
32222826 TTAACTTAAAAACCCTAACC---C
1 TTAACTTAAAAACCCTAACCTAAT
32222847 TTAACTTAAAAACCCTAACCTAA-
1 TTAACTTAAAAACCCTAACCTAAT
*
32222870 TTAAATTAAAAACCCTAA
1 TTAACTTAAAAACCCTAA
32222888 ATGAAATTAA
Statistics
Matches: 402, Mismatches: 31, Indels: 73
0.79 0.06 0.14
Matches are distributed among these distances:
20 6 0.01
21 111 0.28
22 50 0.12
23 183 0.46
24 30 0.07
25 3 0.01
26 2 0.00
27 2 0.00
28 5 0.01
29 7 0.02
30 3 0.01
ACGTcount: A:0.48, C:0.24, G:0.01, T:0.27
Consensus pattern (24 bp):
TTAACTTAAAAACCCTAACCTAAT
Found at i:32222515 original size:44 final size:44
Alignment explanation
Indices: 32222391--32222887 Score: 454
Period size: 44 Copynumber: 11.0 Consensus size: 44
32222381 AACAATTAAT
* * * * *
32222391 ACCCTTAAGTTAAAAACTCTAACATAATTTAATTAAAAACCTTAA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-A
* *
32222436 ACCATTAACTTAAAAACCTTAGACCTAATTAAATTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTA-ACCTAATTAAATTAAAAACCCTA
* **
32222481 ACCCTTAACTTAAAAACCATAACCTAATTAAATTAAAAATTCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
*
32222525 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* * * *
32222569 ACCTAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* *
32222613 ACCTAATTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* * ** *
32222659 ACCTATTTAAATTAAAAACTTTAGCCTAATTAAATTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* * * * *
32222705 GCCTAATTAAATT-AAAACCCTAACC--CTTAACTTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* *
32222748 ACCTAATTTAA-TTAAAAA-CCTAAAACCCTAAACCCTAAACTTAAAAACCCTA
1 ACC---CTTAACTTAAAAACCCT--AA-CCT-AA--TTAAA-TTAAAAACCCTA
* * *
32222800 ACCCTTAACTTAAAAACACTAAACC--CTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCT-AACCTAATTAAATTAAAAACCCTA
32222843 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
32222887 A
1 A
32222888 ATGAAATTAA
Statistics
Matches: 385, Mismatches: 47, Indels: 41
0.81 0.10 0.09
Matches are distributed among these distances:
42 4 0.01
43 54 0.14
44 135 0.35
45 48 0.12
46 108 0.28
49 6 0.02
50 10 0.03
51 5 0.01
52 15 0.04
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.27
Consensus pattern (44 bp):
ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
Found at i:32222557 original size:67 final size:67
Alignment explanation
Indices: 32222391--32222887 Score: 505
Period size: 67 Copynumber: 7.3 Consensus size: 67
32222381 AACAATTAAT
* * * * *
32222391 ACCCTTAAGTTAAAAACTCTAACATAATTTAA-TTAAAAACCTTAAACC--ATTAACTTAAAAAC
1 ACCCTTAACTTAAAAACCCTAACCTAA-TTAACTTAAAAACCCT-AACCTAATTAAATTAAAAAC
*
32222453 CTTA
64 CCTA
* * * *
32222457 GACCTAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCATAACCTAATTAAATTAAAAA
1 -ACC--CTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAA
**
32222520 TTCTA
63 CCCTA
32222525 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCC
1 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCC
32222590 TA
66 TA
*
32222592 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCC
1 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCC
32222657 TA
66 TA
* * ** * * *
32222659 ACCTATTTAAATTAAAAACTTTAGCCTAATTAAATTAAAAACCCTAGCCTAATTAAATT-AAAAC
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAAC
32222723 CCTA
64 CCTA
*
32222727 ACCCTTAACTTAAAAACCCTAACCTAATTTAA-TTAAAAA-CCTAAAACCCTAAACCCTAAACTT
1 ACCCTTAACTTAAAAACCCTAACCTAA-TTAACTTAAAAACCCT--AA-CCT-AA--TTAAA-TT
32222790 AAAAACCCTA
58 AAAAACCCTA
* * * *
32222800 ACCCTTAACTTAAAAACACTAAACC--CTTAACTTAAAAACCCTAACC--CTTAACTTAAAAACC
1 ACCCTTAACTTAAAAACCCT-AACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACC
32222861 CTA
65 CTA
* *
32222864 ACCTAATTAAATTAAAAACCCTAA
1 ACC--CTTAACTTAAAAACCCTAA
32222888 ATGAAATTAA
Statistics
Matches: 367, Mismatches: 40, Indels: 48
0.81 0.09 0.11
Matches are distributed among these distances:
64 15 0.04
65 27 0.07
66 48 0.13
67 127 0.35
68 29 0.08
69 65 0.18
70 2 0.01
71 10 0.03
72 9 0.02
73 31 0.08
74 4 0.01
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.27
Consensus pattern (67 bp):
ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCC
TA
Found at i:32222797 original size:22 final size:22
Alignment explanation
Indices: 32222769--32222888 Score: 165
Period size: 21 Copynumber: 5.5 Consensus size: 22
32222759 TTAAAAACCT
*
32222769 AAAACCCTAAACCCTAAACTTA
1 AAAACCCTAAACCCTTAACTTA
32222791 AAAACCCT-AACCCTTAACTTA
1 AAAACCCTAAACCCTTAACTTA
*
32222812 AAAACACTAAACCCTTAACTTA
1 AAAACCCTAAACCCTTAACTTA
32222834 AAAACCCT-AACCCTTAACTTA
1 AAAACCCTAAACCCTTAACTTA
* *
32222855 AAAACCCT-AACCTAATTAAATTA
1 AAAACCCTAAACC--CTTAACTTA
32222878 AAAACCCTAAA
1 AAAACCCTAAA
32222889 TGAAATTAAT
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
21 44 0.49
22 28 0.31
23 15 0.17
24 2 0.02
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAACCCTAAACCCTTAACTTA
Found at i:32222822 original size:43 final size:43
Alignment explanation
Indices: 32222769--32222864 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
32222759 TTAAAAACCT
32222769 AAAACCCTAAACCCTAAACTTAAAAACCCTAACCCTTAACTTA
1 AAAACCCTAAACCCTAAACTTAAAAACCCTAACCCTTAACTTA
* *
32222812 AAAACACTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTA
1 AAAACCCTAAACCCTAAACTTAAAAACCCTAACCCTTAACTTA
32222855 AAAACCCTAA
1 AAAACCCTAA
32222865 CCTAATTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (43 bp):
AAAACCCTAAACCCTAAACTTAAAAACCCTAACCCTTAACTTA
Found at i:32223035 original size:116 final size:116
Alignment explanation
Indices: 32222892--32223131 Score: 383
Period size: 116 Copynumber: 2.1 Consensus size: 116
32222882 CCCTAAATGA
* * **
32222892 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTAGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGAGTTGGAAAAATG-TTTTGACTAGTACTAACAAT
* *
32222957 TAATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTATATAATCTGATAATTTTTACTAACCATTAATACAATTTATC
* *
32223008 AATTAATAATTTTACATTCACATAATGTTAGAGTTGGAAAAATGTTTTGACTGGTATTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGAGTTGGAAAAATGTTTTGACTAGTACTAACAATT
*
32223073 AATAATTTTATATAATCTGATAATTTTTACTAACCATTAATACAATTTATT
66 AATAATTTTATATAATCTGATAATTTTTACTAACCATTAATACAATTTATC
32223124 AATTAATA
1 AATTAATA
32223132 GTTTCACAAA
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
115 39 0.34
116 75 0.66
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGAGTTGGAAAAATGTTTTGACTAGTACTAACAATT
AATAATTTTATATAATCTGATAATTTTTACTAACCATTAATACAATTTATC
Found at i:32226368 original size:125 final size:125
Alignment explanation
Indices: 32226146--32226522 Score: 582
Period size: 125 Copynumber: 3.0 Consensus size: 125
32226136 CCCAAACATG
* *
32226146 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTC
1 CTACTATAGCAAAAGCGCGTCCATGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
*
32226211 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
66 CTAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
*
32226271 CTACTATAGCAAAAGCACGTCCATGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTATAGCAAAAGCGCGTCCATGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
*
32226336 CTAAAAGCGATTTTATACTATTTACTCAGAAACGTC-AAAAAAATTATTTCTTCCATGAC
66 CTAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
* * *
32226395 CTACTGTAGCAAAAGCGTGTCCACT-AGGGCGGGA-TTTCACAAATTCTTCTCAAATAGCATCCT
1 CTACTATAGCAAAAGCGCGTCCA-TGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCT
* *** *
32226458 GTTAGAAGCGATTTTATACTATTTGA-TCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
65 GCTAGAAGCGATTTTATACTATTT-ACTCAGAAACGTCAA-AAAAAATTATTTCTTCCATGAC
32226520 CTA
1 CTA
32226523 AAAACCCTAA
Statistics
Matches: 233, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
123 62 0.27
124 53 0.23
125 118 0.51
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTATAGCAAAAGCGCGTCCATGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
Found at i:32228688 original size:9 final size:10
Alignment explanation
Indices: 32228664--32228692 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
32228654 CACATGTGAC
32228664 AAAAAAATAT
1 AAAAAAATAT
32228674 AAAAAAATA-
1 AAAAAAATAT
32228683 AAAAAAATAT
1 AAAAAAATAT
32228693 TAAACTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:32228688 original size:19 final size:19
Alignment explanation
Indices: 32228664--32228716 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
32228654 CACATGTGAC
32228664 AAAAAAATATAAAAAAATA
1 AAAAAAATATAAAAAAATA
* ***
32228683 AAAAAAATATTAAACTTTA
1 AAAAAAATATAAAAAAATA
*
32228702 ATAAAAATATAAAAA
1 AAAAAAATATAAAAA
32228717 TATTTAAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAAAATATAAAAAAATA
Found at i:32228716 original size:28 final size:29
Alignment explanation
Indices: 32228667--32228751 Score: 88
Period size: 28 Copynumber: 3.0 Consensus size: 29
32228657 ATGTGACAAA
*
32228667 AAAATATAA-AAAAATAAAAAAAATA-TT
1 AAAATTTAATAAAAATAAAAAAAATATTT
* *
32228694 AAACTTTAATAAAAAT-ATAAAAATATTT
1 AAAATTTAATAAAAATAAAAAAAATATTT
*
32228722 AAAATTTACTAAAAATTAGAAAAAAA-ATTT
1 AAAATTTAATAAAAA-TA-AAAAAAATATTT
32228752 GTAAAAATTG
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
27 15 0.32
28 21 0.45
29 1 0.02
30 4 0.09
31 6 0.13
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.29
Consensus pattern (29 bp):
AAAATTTAATAAAAATAAAAAAAATATTT
Found at i:32228784 original size:19 final size:19
Alignment explanation
Indices: 32228769--32228806 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
32228759 TTGTAAAATT
32228769 TTATGAAAAT-CATAAAAAA
1 TTAT-AAAATGCATAAAAAA
32228788 TTATAAAATGCATAAAAAA
1 TTATAAAATGCATAAAAAA
32228807 AGGTCATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (19 bp):
TTATAAAATGCATAAAAAA
Found at i:32229064 original size:10 final size:10
Alignment explanation
Indices: 32229051--32229105 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
32229041 ATTTATAAAA
32229051 TTTTATATAT
1 TTTTATATAT
*
32229061 TTTTCTATAT
1 TTTTATATAT
*
32229071 TTCTATATA-
1 TTTTATATAT
32229080 TTTTATA-AT
1 TTTTATATAT
32229089 TTTTA-ATGAT
1 TTTTATAT-AT
32229099 TTTTATA
1 TTTTATA
32229106 ATCTTTTTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
8 2 0.05
9 11 0.30
10 23 0.62
11 1 0.03
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATATAT
Found at i:32236840 original size:22 final size:23
Alignment explanation
Indices: 32236805--32236851 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
32236795 ACATATACAT
**
32236805 TGATTCTATGATGTAA-AAAAAA
1 TGATTCTACAATGTAAGAAAAAA
*
32236827 TGATTCTACAATGTAAGAAAGAA
1 TGATTCTACAATGTAAGAAAAAA
32236850 TG
1 TG
32236852 GAGTGATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (23 bp):
TGATTCTACAATGTAAGAAAAAA
Found at i:32247151 original size:236 final size:235
Alignment explanation
Indices: 32246731--32247171 Score: 695
Period size: 236 Copynumber: 1.9 Consensus size: 235
32246721 GAGGGCTGAA
* * *
32246731 TTCAAACAGAAATCAATGATAGACTGGATACAAAGGGCAACTTAACACGAAATTGGTTCATATGA
1 TTCAAACAGAAATCAATAATAGACTGGATACAAAGGGCAACTCAACACAAAATTGGTTCATATGA
* * * *
32246796 TGGTCAAAAGCAAGCACTGTAGGGCCACTATAAGGATATTAACTGATTTGGTGGGGAATAAATTG
66 TGGTCAAAAGCAAGCACTGTAGGGACACTATAAGCATATTAACTGATTTGGAGGGAAATAAATTG
* *
32246861 GAAACTTCGCAGCAGATTGCAAGGGAAGTCACAATGTTCTTCAAGCAGTTGTTGGCTACTGCAGA
131 GAAACTTCCCAGCAGATTGCAAGGGAAGTCACAATGTTCTTCAAGCAATTGTTGGCTACTGCAGA
*
32246926 TGGCCAGATTCAAAGAGTTGAGCTGGCCGAGGAATGTTTC
196 CGGCCAGATTCAAAGAGTTGAGCTGGCCGAGGAATGTTTC
*
32246966 TTCAAACAGAAATCAATAATAGACTGGATACAAATGGGCAACTCAACACAAAATTGTTTCATATG
1 TTCAAACAGAAATCAATAATAGACTGGATACAAA-GGGCAACTCAACACAAAATTGGTTCATATG
* * * *
32247031 ATGGTCAAAAGCAAGCACTTTAGGGACACTATAA-CATTTTTATCTGATTTGGAGGTAAATAAAT
65 ATGGTCAAAAGCAAGCACTGTAGGGACACTATAAGCA-TATTAACTGATTTGGAGGGAAATAAAT
** *
32247095 TGGAAACTTCCCAGCAGATTTTAAGGGAAGTCACAATGTTCTTCAAGTAATTGTTGGCTACTGCA
129 TGGAAACTTCCCAGCAGATTGCAAGGGAAGTCACAATGTTCTTCAAGCAATTGTTGGCTACTGCA
32247160 GACGGCCAGATT
194 GACGGCCAGATT
32247172 ACAGGATGCA
Statistics
Matches: 186, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
235 34 0.18
236 152 0.82
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (235 bp):
TTCAAACAGAAATCAATAATAGACTGGATACAAAGGGCAACTCAACACAAAATTGGTTCATATGA
TGGTCAAAAGCAAGCACTGTAGGGACACTATAAGCATATTAACTGATTTGGAGGGAAATAAATTG
GAAACTTCCCAGCAGATTGCAAGGGAAGTCACAATGTTCTTCAAGCAATTGTTGGCTACTGCAGA
CGGCCAGATTCAAAGAGTTGAGCTGGCCGAGGAATGTTTC
Found at i:32250173 original size:108 final size:108
Alignment explanation
Indices: 32249979--32250182 Score: 313
Period size: 108 Copynumber: 1.9 Consensus size: 108
32249969 ACCAATAACA
* *
32249979 TTAAATACTACTAGAAACTCAGCATTTACAATAAAGAAAACCAAATAATCAATGAAAATTAACAA
1 TTAAACACTACTAGAAACTCAGCATTTACAATAAAAAAAACCAAATAATCAATGAAAATTAACAA
* *
32250044 TCCTCAGACCAATGATATTCCAATCAGTAAACAGCAGCTAATT
66 TCATCAGACCAATAATATTCCAATCAGTAAACAGCAGCTAATT
* *
32250087 TTAAACACTACTAGAAACTTAGCATTTACAATAAAAAAAACCAAATAATCAATTAAAATTAACAA
1 TTAAACACTACTAGAAACTCAGCATTTACAATAAAAAAAACCAAATAATCAATGAAAATTAACAA
*
32250152 TCAT-AGGACCAATAA-ATTTCCATTCAGTAAA
66 TCATCA-GACCAATAATA-TTCCAATCAGTAAA
32250183 TTTATAAACC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 2 0.02
108 85 0.98
ACGTcount: A:0.50, C:0.18, G:0.07, T:0.25
Consensus pattern (108 bp):
TTAAACACTACTAGAAACTCAGCATTTACAATAAAAAAAACCAAATAATCAATGAAAATTAACAA
TCATCAGACCAATAATATTCCAATCAGTAAACAGCAGCTAATT
Found at i:32252131 original size:27 final size:27
Alignment explanation
Indices: 32252101--32252155 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
32252091 AGTAGCAGAA
*
32252101 CAAACATTATATGCAATCTCTCAGTTT
1 CAAACATTATATGCAATCGCTCAGTTT
32252128 CAAACATTATATGCAATCGCTCAGTTT
1 CAAACATTATATGCAATCGCTCAGTTT
32252155 C
1 C
32252156 TCTTATAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.35
Consensus pattern (27 bp):
CAAACATTATATGCAATCGCTCAGTTT
Found at i:32253078 original size:13 final size:13
Alignment explanation
Indices: 32253060--32253096 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
32253050 TAAAGTACCC
32253060 GTGTCCGACACTT
1 GTGTCCGACACTT
32253073 GTGTCCGACACTT
1 GTGTCCGACACTT
*
32253086 GTGTCCAACAC
1 GTGTCCGACAC
32253097 ATGAATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.19, C:0.32, G:0.22, T:0.27
Consensus pattern (13 bp):
GTGTCCGACACTT
Found at i:32254253 original size:14 final size:14
Alignment explanation
Indices: 32254234--32254260 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32254224 CGCACCCTCC
32254234 AAATAAAATAAAAA
1 AAATAAAATAAAAA
32254248 AAATAAAATAAAA
1 AAATAAAATAAAA
32254261 TTAATGGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (14 bp):
AAATAAAATAAAAA
Found at i:32275289 original size:16 final size:16
Alignment explanation
Indices: 32275252--32275291 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
32275242 ATGGAATATG
*
32275252 GCTGTAATAGAATAAA
1 GCTGTAATAGAACAAA
* *
32275268 GTTGTAATAGAACGAA
1 GCTGTAATAGAACAAA
32275284 GCTGTAAT
1 GCTGTAAT
32275292 TAGTAATTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (16 bp):
GCTGTAATAGAACAAA
Found at i:32275497 original size:56 final size:60
Alignment explanation
Indices: 32275435--32275604 Score: 197
Period size: 56 Copynumber: 2.8 Consensus size: 60
32275425 TTTTTTTACG
* *
32275435 TATAATTATTATTAAATATAATTTAATAAAAAAT-A-A-ATAATTTAATTATACT-TTAA
1 TATAATTATTATTAAATATAATTTAATAAAAAATAATATATAATTTAATAACACTCTTAA
* *
32275491 TATAATTATTATTAAATATAATTTAACAAAGATAATAATATATAATTTAATAACATTCTTAA
1 TATAATTATTATTAAATATAATTTAATAAA-A-AATAATATATAATTTAATAACACTCTTAA
*
32275553 TATAATTATTATCAAAATATGAA-TTAATAAAAATCATAATATATAATATTAA
1 TATAATTATTAT-TAAATAT-AATTTAATAAAAA--ATAATATATAAT-TTAA
32275605 AAAATAATAT
Statistics
Matches: 97, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
56 29 0.30
57 1 0.01
58 3 0.03
59 1 0.01
60 1 0.01
61 14 0.14
62 17 0.18
63 25 0.26
64 6 0.06
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (60 bp):
TATAATTATTATTAAATATAATTTAATAAAAAATAATATATAATTTAATAACACTCTTAA
Found at i:32279069 original size:13 final size:13
Alignment explanation
Indices: 32279047--32279084 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
32279037 GGGGTTAGAA
*
32279047 ATCTGTATATCTG
1 ATCTGCATATCTG
32279060 ATCTGCATATCTG
1 ATCTGCATATCTG
32279073 ATCTGCATATCT
1 ATCTGCATATCT
32279085 ATAACTGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (13 bp):
ATCTGCATATCTG
Found at i:32284864 original size:11 final size:12
Alignment explanation
Indices: 32284840--32284865 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32284830 GAGTTCTTCT
32284840 AAAAGGCCTAAA
1 AAAAGGCCTAAA
32284852 AAAAGGCCTAAA
1 AAAAGGCCTAAA
32284864 AA
1 AA
32284866 GAATGTCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.15, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAAGGCCTAAA
Found at i:32286272 original size:33 final size:33
Alignment explanation
Indices: 32286224--32286287 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
32286214 TGCATTATTG
32286224 CACTGTACTGATACTGTATT-GGGCTAAGGCCCA
1 CACTGTACTGATACTG-ATTAGGGCTAAGGCCCA
* * *
32286257 CACTGTATTGTTACTGATTAGGGCTCAGGCC
1 CACTGTACTGATACTGATTAGGGCTAAGGCC
32286288 TGGACTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 24 0.89
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (33 bp):
CACTGTACTGATACTGATTAGGGCTAAGGCCCA
Found at i:32287804 original size:36 final size:32
Alignment explanation
Indices: 32287762--32287826 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 32
32287752 CAAAAAATTA
32287762 TATAATATCCAAATAATAACAACAAAATTGTAGTAC
1 TATAATA-CCAAA-AA-AACAAC-AAATTGTAGTAC
*
32287798 TATAATAGCAAAAAAACAACAAATTGTAG
1 TATAATACCAAAAAAACAACAAATTGTAG
32287827 CAGGAAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 9 0.32
33 6 0.21
34 2 0.07
35 4 0.14
36 7 0.25
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (32 bp):
TATAATACCAAAAAAACAACAAATTGTAGTAC
Found at i:32290559 original size:31 final size:31
Alignment explanation
Indices: 32290524--32290604 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
32290514 TTCATGTATC
32290524 ATTATATTAAATTATTTAAATATTATTCATT
1 ATTATATTAAATTATTTAAATATTATTCATT
* *
32290555 ATTATATTAAATTATTTAAATTTTATTTATT
1 ATTATATTAAATTATTTAAATATTATTCATT
*
32290586 ATTATATTTAATT-TTTAAA
1 ATTATATTAAATTATTTAAA
32290605 ATAGTTTATG
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 6 0.13
31 41 0.87
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (31 bp):
ATTATATTAAATTATTTAAATATTATTCATT
Found at i:32290568 original size:10 final size:10
Alignment explanation
Indices: 32290524--32290581 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 10
32290514 TTCATGTATC
32290524 ATTATATTAA
1 ATTATATTAA
32290534 ATTAT-TTAA
1 ATTATATTAA
*
32290543 A-TATTATTCATT
1 ATTA-TATT-A-A
32290555 ATTATATTAA
1 ATTATATTAA
32290565 ATTAT-TTAA
1 ATTATATTAA
*
32290574 ATTTTATT
1 ATTATATT
32290582 TATTATTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
8 2 0.05
9 14 0.36
10 14 0.36
11 2 0.05
12 5 0.13
13 2 0.05
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTATATTAA
Found at i:32291736 original size:43 final size:43
Alignment explanation
Indices: 32291675--32291760 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
32291665 TATTATATTT
32291675 CTATTACCATAATATAAATGACCTAAATTGATAAGTGCTAAAA
1 CTATTACCATAATATAAATGACCTAAATTGATAAGTGCTAAAA
* * *
32291718 CTATTACGATAATTTAAATGACCTAAATTGATAAGTGTTAAAA
1 CTATTACCATAATATAAATGACCTAAATTGATAAGTGCTAAAA
32291761 GAAACATGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (43 bp):
CTATTACCATAATATAAATGACCTAAATTGATAAGTGCTAAAA
Found at i:32293075 original size:20 final size:20
Alignment explanation
Indices: 32293052--32293095 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
32293042 TAATTTAGCC
*
32293052 ATTTTTATTTTTATTTTAAT
1 ATTTTTATTTTTAATTTAAT
*
32293072 ATTTTTGTTTTTAATTTAAT
1 ATTTTTATTTTTAATTTAAT
32293092 -TTTT
1 ATTTT
32293096 ACATTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
ATTTTTATTTTTAATTTAAT
Found at i:32295157 original size:28 final size:29
Alignment explanation
Indices: 32295117--32295171 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
32295107 GTATGATCAA
* *
32295117 GAAATGAGTAGATCAGTTG-TTAATCGTGG
1 GAAATGAGAAGATC-GTTGAGTAATCGTGG
32295146 GAAA-GAGAAGATCGTTGAGTAATCGT
1 GAAATGAGAAGATCGTTGAGTAATCGT
32295172 CTTCGATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 15 0.65
29 4 0.17
ACGTcount: A:0.35, C:0.07, G:0.31, T:0.27
Consensus pattern (29 bp):
GAAATGAGAAGATCGTTGAGTAATCGTGG
Found at i:32316229 original size:11 final size:10
Alignment explanation
Indices: 32316211--32316259 Score: 57
Period size: 11 Copynumber: 4.9 Consensus size: 10
32316201 GAGCATTTGA
32316211 GAGC-AAAAT
1 GAGCAAAAAT
*
32316220 GAGCGAAAAAC
1 GAGC-AAAAAT
32316231 GAG-AAAAAT
1 GAGCAAAAAT
32316240 GAGCACAAAAT
1 GAGCA-AAAAT
32316251 GAGCAAAAA
1 GAGCAAAAA
32316260 CCAAAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 12 0.35
10 5 0.15
11 17 0.50
ACGTcount: A:0.59, C:0.12, G:0.22, T:0.06
Consensus pattern (10 bp):
GAGCAAAAAT
Found at i:32316249 original size:20 final size:21
Alignment explanation
Indices: 32316211--32316259 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
32316201 GAGCATTTGA
32316211 GAGC-AAAATGAGCGAAAAAC
1 GAGCAAAAATGAGCGAAAAAC
*
32316231 GAG-AAAAATGAGC-ACAAAAT
1 GAGCAAAAATGAGCGA-AAAAC
32316251 GAGCAAAAA
1 GAGCAAAAA
32316260 CCAAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 19 0.76
21 5 0.20
ACGTcount: A:0.59, C:0.12, G:0.22, T:0.06
Consensus pattern (21 bp):
GAGCAAAAATGAGCGAAAAAC
Found at i:32316393 original size:17 final size:17
Alignment explanation
Indices: 32316373--32316417 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
32316363 CACACGGCCG
*
32316373 TGTGAGCTACACAGTCA
1 TGTGAGCCACACAGTCA
* *
32316390 TGTGAGCCACACGGTCG
1 TGTGAGCCACACAGTCA
32316407 TGTGAGCCACA
1 TGTGAGCCACA
32316418 TGGGCTACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (17 bp):
TGTGAGCCACACAGTCA
Found at i:32316579 original size:9 final size:9
Alignment explanation
Indices: 32316562--32316598 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
32316552 TGAGTTTTCG
32316562 AATTCGAAT
1 AATTCGAAT
*
32316571 AACTCGAAT
1 AATTCGAAT
*
32316580 AATTCAAAT
1 AATTCGAAT
32316589 AATTCGAAT
1 AATTCGAAT
32316598 A
1 A
32316599 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:32316681 original size:30 final size:31
Alignment explanation
Indices: 32316647--32316707 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
32316637 AAACTTTTTT
32316647 ACTTT-TCCCTCAAAACTTTTACT-CCTTCCC
1 ACTTTCTCCC-CAAAACTTTTACTCCCTTCCC
*
32316677 ACTTTCTCCCCAAAACTTTTATTCCCTTCCC
1 ACTTTCTCCCCAAAACTTTTACTCCCTTCCC
32316708 CTCCCAACCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 17 0.61
31 11 0.39
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (31 bp):
ACTTTCTCCCCAAAACTTTTACTCCCTTCCC
Found at i:32316862 original size:30 final size:30
Alignment explanation
Indices: 32316815--32316873 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
32316805 AACCTTTTAT
* *
32316815 TTTTCTCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCAAAACTTTTACTCCCTTCCCAC
*
32316844 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCC-AAAACTTTTACTCCCTTCCCA
32316874 TCTCACCTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
30 13 0.52
31 5 0.20
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.42
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:32319325 original size:20 final size:20
Alignment explanation
Indices: 32319300--32319348 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
32319290 AATATTTAGT
32319300 AAAGAACTTAAAGTTCTATG
1 AAAGAACTTAAAGTTCTATG
*
32319320 AAAGAACTTAAAGTTTTATG
1 AAAGAACTTAAAGTTCTATG
*
32319340 AAAAAACTT
1 AAAGAACTT
32319349 GAGAAGTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (20 bp):
AAAGAACTTAAAGTTCTATG
Found at i:32324182 original size:7 final size:7
Alignment explanation
Indices: 32324172--32324202 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
32324162 AAAATCATTT
32324172 ATCATAA
1 ATCATAA
32324179 ATCATAA
1 ATCATAA
32324186 ATCATAA
1 ATCATAA
32324193 ATCATAA
1 ATCATAA
32324200 ATC
1 ATC
32324203 GCCGGGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (7 bp):
ATCATAA
Found at i:32324188 original size:21 final size:21
Alignment explanation
Indices: 32324163--32324202 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32324153 CTCAAAAGTA
**
32324163 AAATCATTTATCATAAATCAT
1 AAATCATAAATCATAAATCAT
32324184 AAATCATAAATCATAAATC
1 AAATCATAAATCATAAATC
32324203 GCCGGGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATCATAAATCATAAATCAT
Found at i:32324331 original size:191 final size:191
Alignment explanation
Indices: 32324007--32324393 Score: 765
Period size: 191 Copynumber: 2.0 Consensus size: 191
32323997 AGGACTTAGA
32324007 AAATCGCCGGGAAACCCACTTGTAGATTTTTATATGTATTCCACTTGGATTACGAGTAAGTAAAG
1 AAATCGCCGGGAAACCCACTTGTAGATTTTTATATGTATTCCACTTGGATTACGAGTAAGTAAAG
32324072 TGCGTGTGTGTTACGCGCTGAGGTTGAGAGTGAGATTTTGTGTAACTCGCTCGAGACAAAACAAA
66 TGCGTGTGTGTTACGCGCTGAGGTTGAGAGTGAGATTTTGTGTAACTCGCTCGAGACAAAACAAA
32324137 CTAGTGACCAAGCATCCTCAAAAGTAAAATCATTTATCATAAATCATAAATCATAAATCAT
131 CTAGTGACCAAGCATCCTCAAAAGTAAAATCATTTATCATAAATCATAAATCATAAATCAT
32324198 AAATCGCCGGGAAACCCACTTGTAGATTTTTATATGTATTCCACTTGGATTACGAGTAAGTAAAG
1 AAATCGCCGGGAAACCCACTTGTAGATTTTTATATGTATTCCACTTGGATTACGAGTAAGTAAAG
*
32324263 TGTGTGTGTGTTACGCGCTGAGGTTGAGAGTGAGATTTTGTGTAACTCGCTCGAGACAAAACAAA
66 TGCGTGTGTGTTACGCGCTGAGGTTGAGAGTGAGATTTTGTGTAACTCGCTCGAGACAAAACAAA
32324328 CTAGTGACCAAGCATCCTCAAAAGTAAAATCATTTATCATAAATCATAAATCATAAATCAT
131 CTAGTGACCAAGCATCCTCAAAAGTAAAATCATTTATCATAAATCATAAATCATAAATCAT
32324389 AAATC
1 AAATC
32324394 TGGCTTTAAC
Statistics
Matches: 195, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
191 195 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (191 bp):
AAATCGCCGGGAAACCCACTTGTAGATTTTTATATGTATTCCACTTGGATTACGAGTAAGTAAAG
TGCGTGTGTGTTACGCGCTGAGGTTGAGAGTGAGATTTTGTGTAACTCGCTCGAGACAAAACAAA
CTAGTGACCAAGCATCCTCAAAAGTAAAATCATTTATCATAAATCATAAATCATAAATCAT
Found at i:32324373 original size:7 final size:7
Alignment explanation
Indices: 32324363--32324393 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
32324353 AAAATCATTT
32324363 ATCATAA
1 ATCATAA
32324370 ATCATAA
1 ATCATAA
32324377 ATCATAA
1 ATCATAA
32324384 ATCATAA
1 ATCATAA
32324391 ATC
1 ATC
32324394 TGGCTTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (7 bp):
ATCATAA
Found at i:32324379 original size:21 final size:21
Alignment explanation
Indices: 32324354--32324393 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32324344 CTCAAAAGTA
**
32324354 AAATCATTTATCATAAATCAT
1 AAATCATAAATCATAAATCAT
32324375 AAATCATAAATCATAAATC
1 AAATCATAAATCATAAATC
32324394 TGGCTTTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATCATAAATCATAAATCAT
Found at i:32324439 original size:3 final size:3
Alignment explanation
Indices: 32324431--32324459 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
32324421 TTTTGTGATT
32324431 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
32324460 GAATTTTGTT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:32325232 original size:17 final size:17
Alignment explanation
Indices: 32325210--32325244 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
32325200 GCGTTTTTAG
*
32325210 GAGAGAGAAATGAAAAC
1 GAGAGAAAAATGAAAAC
32325227 GAGAGAAAAATGAAAAC
1 GAGAGAAAAATGAAAAC
32325244 G
1 G
32325245 CGTCCTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.60, C:0.06, G:0.29, T:0.06
Consensus pattern (17 bp):
GAGAGAAAAATGAAAAC
Found at i:32325239 original size:58 final size:58
Alignment explanation
Indices: 32325169--32325285 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
32325159 GTTGTTTTTG
* * * *
32325169 GAGAGAGAAATGAAAACGCATCATGTAGGACGCGTTTTTAGGAGAGAGAAATGAAAAC
1 GAGAGAAAAATGAAAACGCATCATGAAGAACGCGTTTTTAGGAGAGAAAAATGAAAAC
* * *
32325227 GAGAGAAAAATGAAAACGCGTCCTGAAGAACGTGTTTTTAGGAGAGAAAAATGAAAAC
1 GAGAGAAAAATGAAAACGCATCATGAAGAACGCGTTTTTAGGAGAGAAAAATGAAAAC
32325285 G
1 G
32325286 CGTCCTGCAG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.44, C:0.10, G:0.28, T:0.17
Consensus pattern (58 bp):
GAGAGAAAAATGAAAACGCATCATGAAGAACGCGTTTTTAGGAGAGAAAAATGAAAAC
Found at i:32325571 original size:6 final size:6
Alignment explanation
Indices: 32325560--32325584 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
32325550 GGTTTAAATA
32325560 TTTCTT TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT T
32325585 GAGGGAGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:32333268 original size:27 final size:27
Alignment explanation
Indices: 32333238--32333415 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32333228 ATATTAAGTC
* * *
32333238 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
32333265 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
32333293 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
32333320 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
32333347 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
32333374 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
32333401 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32333416 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:32333322 original size:55 final size:54
Alignment explanation
Indices: 32333238--32333415 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
32333228 ATATTAAGTC
* * *
32333238 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
32333293 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
32333347 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
32333401 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32333416 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:32333404 original size:81 final size:82
Alignment explanation
Indices: 32333259--32333414 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
32333249 TGCTATATAA
* *
32333259 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
32333324 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
32333341 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
32333404 ACACTTAGTGC
65 ACACTTAGTGC
32333415 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:32339783 original size:20 final size:21
Alignment explanation
Indices: 32339750--32339793 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
32339740 GTACTCGTCG
32339750 AAAGACTAAGGAAA-TGGACC
1 AAAGACTAAGGAAACTGGACC
*
32339770 AAAGACT-AGAGAAACTGGAGC
1 AAAGACTAAG-GAAACTGGACC
32339791 AAA
1 AAA
32339794 TGCAAAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 11 0.52
21 8 0.38
ACGTcount: A:0.52, C:0.14, G:0.25, T:0.09
Consensus pattern (21 bp):
AAAGACTAAGGAAACTGGACC
Found at i:32342194 original size:13 final size:13
Alignment explanation
Indices: 32342178--32342221 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
32342168 ATTCAATAAA
32342178 AAAAATCAAAAAC
1 AAAAATCAAAAAC
*
32342191 AAAAAAT-AAAAAT
1 -AAAAATCAAAAAC
32342204 AAAAATCAAAAAC
1 AAAAATCAAAAAC
32342217 AAAAA
1 AAAAA
32342222 AGGAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 6 0.22
13 15 0.56
14 6 0.22
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (13 bp):
AAAAATCAAAAAC
Found at i:32342228 original size:26 final size:25
Alignment explanation
Indices: 32342175--32342232 Score: 89
Period size: 26 Copynumber: 2.3 Consensus size: 25
32342165 CAGATTCAAT
*
32342175 AAAAAAAATCAAAAACAAAAAATAA
1 AAAAAAAATCAAAAACAAAAAAGAA
*
32342200 AAATAAAAATCAAAAACAAAAAAGGA
1 AAA-AAAAATCAAAAACAAAAAAGAA
32342226 AAAAAAA
1 AAAAAAA
32342233 TTTCAAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 7 0.23
26 23 0.77
ACGTcount: A:0.83, C:0.07, G:0.03, T:0.07
Consensus pattern (25 bp):
AAAAAAAATCAAAAACAAAAAAGAA
Found at i:32351255 original size:20 final size:19
Alignment explanation
Indices: 32351229--32351286 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
32351219 ATAAAAGCAA
32351229 ATGAGCTTAAAATGAGCT-G
1 ATGAGC-TAAAATGAGCTCG
*
32351248 ATTGAGCTAAGAGTGAGCTCG
1 A-TGAGCTAA-AATGAGCTCG
32351269 ATGAGCTAAAATTGAGCT
1 ATGAGCTAAAA-TGAGCT
32351287 AAATGAACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 5 0.15
20 26 0.79
21 2 0.06
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (19 bp):
ATGAGCTAAAATGAGCTCG
Found at i:32351292 original size:20 final size:19
Alignment explanation
Indices: 32351227--32351292 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
32351217 ATATAAAAGC
32351227 AAATGAGCTTAAAATGAGCT
1 AAATGAGC-TAAAATGAGCT
* * *
32351247 GATTGAGCTAAGAGTGAGCT
1 AAATGAGCTAA-AATGAGCT
**
32351267 CGATGAGCTAAAATTGAGCT
1 AAATGAGCTAAAA-TGAGCT
32351287 AAATGA
1 AAATGA
32351293 ACTTGAAGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 4 0.11
20 31 0.89
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (19 bp):
AAATGAGCTAAAATGAGCT
Found at i:32352443 original size:24 final size:23
Alignment explanation
Indices: 32352418--32352462 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
32352408 TTGAGCGAGA
32352418 AAAGAACA-AAGAAAATGAAAATG
1 AAAGAA-AGAAGAAAATGAAAATG
32352441 AAAGAAATGAAGAAAATGAAAA
1 AAAGAAA-GAAGAAAATGAAAA
32352463 AGATGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 1 0.05
23 6 0.30
24 13 0.65
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.09
Consensus pattern (23 bp):
AAAGAAAGAAGAAAATGAAAATG
Found at i:32352530 original size:18 final size:19
Alignment explanation
Indices: 32352509--32352544 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
32352499 AAAGCGAAAA
*
32352509 GAGATTGA-AAAAGAATTT
1 GAGATTGAGAAAAAAATTT
32352527 GAGATTGAGAAAAAAATT
1 GAGATTGAGAAAAAAATT
32352545 GACAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (19 bp):
GAGATTGAGAAAAAAATTT
Found at i:32356931 original size:8 final size:8
Alignment explanation
Indices: 32356920--32356962 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
32356910 ATTTTAAAAT
32356920 TTTTTATA
1 TTTTTATA
32356928 TTTTTATA
1 TTTTTATA
32356936 TTTTTGA-A
1 TTTTT-ATA
32356944 -TTTTATA
1 TTTTTATA
*
32356951 TTTATATA
1 TTTTTATA
32356959 TTTT
1 TTTT
32356963 AAAATATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 1 0.03
7 5 0.17
8 23 0.77
9 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (8 bp):
TTTTTATA
Found at i:32356961 original size:15 final size:15
Alignment explanation
Indices: 32356922--32356963 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32356912 TTTAAAATTT
32356922 TTTATAT-TTTTATA
1 TTTATATATTTTATA
*
32356936 TTTTTGA-ATTTTATA
1 TTTAT-ATATTTTATA
32356951 TTTATATATTTTA
1 TTTATATATTTTA
32356964 AAATATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TTTATATATTTTATA
Found at i:32360571 original size:19 final size:21
Alignment explanation
Indices: 32360538--32360576 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
32360528 TAGAGTTTGT
32360538 AAAATGAGATGAATTTTAAAA
1 AAAATGAGATGAATTTTAAAA
32360559 AAAAT-AGAT-AATTTTAAA
1 AAAATGAGATGAATTTTAAA
32360577 TTAACATACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (21 bp):
AAAATGAGATGAATTTTAAAA
Found at i:32361345 original size:18 final size:20
Alignment explanation
Indices: 32361310--32361346 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
32361300 GTGGGAATTT
*
32361310 AAAAAAAGAATAGGTGAAAC
1 AAAAAAAGAATAGCTGAAAC
32361330 AAAAAAA-AA-AGCTGAAA
1 AAAAAAAGAATAGCTGAAA
32361347 AGAAACAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.44
19 2 0.12
20 7 0.44
ACGTcount: A:0.70, C:0.05, G:0.16, T:0.08
Consensus pattern (20 bp):
AAAAAAAGAATAGCTGAAAC
Found at i:32375355 original size:106 final size:106
Alignment explanation
Indices: 32375170--32375376 Score: 292
Period size: 106 Copynumber: 2.0 Consensus size: 106
32375160 AGTTTGGCCT
* *
32375170 TTATTATATGCTTTTTCCTGGGGTAGCTATCATTTTGGTTAAAAAAACTTATACTCAATGGTCTC
1 TTATTATATGCTTTTTCATGGGGTAGCTACCATTTTGGTTAAAAAAACTTATACTCAATGGTCTC
* *
32375235 TCCTCTTTGCTTTTGGCAAAACATAGTGATAGCTTTAGCCA
66 TCATCTTTGCTTTTGGCAAAACATAATGATAGCTTTAGCCA
*** *
32375276 TTATTATATGCTTTTTCAT-GGGTGAGCTACCATTTTGGTTAAAATTGCTT-TAACTTAATGGTC
1 TTATTATATGCTTTTTCATGGGGT-AGCTACCATTTTGGTTAAAAAAACTTAT-ACTCAATGGTC
* *
32375339 TCTTATCTTTGCTTTTGGCAAAGCATAATGATAGCTTT
64 TCTCATCTTTGCTTTTGGCAAAACATAATGATAGCTTT
32375377 GGTTGAGGCC
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
105 5 0.06
106 84 0.94
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (106 bp):
TTATTATATGCTTTTTCATGGGGTAGCTACCATTTTGGTTAAAAAAACTTATACTCAATGGTCTC
TCATCTTTGCTTTTGGCAAAACATAATGATAGCTTTAGCCA
Found at i:32377175 original size:91 final size:91
Alignment explanation
Indices: 32377049--32377256 Score: 301
Period size: 91 Copynumber: 2.3 Consensus size: 91
32377039 TTGATTTTAG
* *
32377049 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* *
32377114 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* *
32377141 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
32377206 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
32377232 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
32377257 GTTATAATTA
Statistics
Matches: 105, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
91 86 0.82
92 19 0.18
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:32377383 original size:118 final size:120
Alignment explanation
Indices: 32377272--32377567 Score: 499
Period size: 120 Copynumber: 2.5 Consensus size: 120
32377262 AATTATTTTA
* *
32377272 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATT-T-TTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
*
32377334 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
32377390 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
32377455 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTCTTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
32377510 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
32377568 ATGATTAAAT
Statistics
Matches: 166, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
118 51 0.31
119 3 0.02
120 107 0.64
121 5 0.03
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:32377430 original size:15 final size:15
Alignment explanation
Indices: 32377395--32377446 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
32377385 TTAAGAATTT
*
32377395 TATTAAATTAT-ATA
1 TATTTAATTATAATA
32377409 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
32377423 TATTTAATAATAAT-
1 TATTTAATTATAATA
32377437 TATGTTAATT
1 TAT-TTAATT
32377447 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:32377539 original size:18 final size:17
Alignment explanation
Indices: 32377511--32377545 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32377501 ATTCTTAAGA
*
32377511 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
32377528 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
32377546 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Done.