Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 72 of 126
Found at i:14519755 original size:7 final size:7
Alignment explanation
Indices: 14519728--14519771 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
14519718 TTAAAATTTG
14519728 ATTTAA-
1 ATTTAAT
14519734 ATTTAAT
1 ATTTAAT
14519741 A--T-AT
1 ATTTAAT
14519745 ATTTAAT
1 ATTTAAT
14519752 ATTTAAT
1 ATTTAAT
14519759 ATTTAAT
1 ATTTAAT
14519766 ATTTAA
1 ATTTAA
14519772 ACTTAATTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
4 3 0.09
5 1 0.03
6 7 0.21
7 23 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTTAAT
Found at i:14519922 original size:33 final size:33
Alignment explanation
Indices: 14519880--14519947 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
14519870 AAGAGGAAAG
14519880 AAATTACTAGTTTTACTTTTCTTTTGTTACAAC
1 AAATTACTAGTTTTACTTTTCTTTTGTTACAAC
14519913 AAATTACTAGTTTTACTTTTCTTTTGTTACAAC
1 AAATTACTAGTTTTACTTTTCTTTTGTTACAAC
14519946 AA
1 AA
14519948 GTTTCCGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (33 bp):
AAATTACTAGTTTTACTTTTCTTTTGTTACAAC
Found at i:14520072 original size:17 final size:17
Alignment explanation
Indices: 14520029--14520073 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
14520019 ATAATTATAT
*
14520029 AAATTA-ATTAAATTAA
1 AAATTATATTAAAATAA
14520045 AATATT-T-TTAAAATAA
1 AA-ATTATATTAAAATAA
14520061 AAATTATATTAAA
1 AAATTATATTAAA
14520074 TAGATGAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
15 3 0.12
16 13 0.54
17 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTATATTAAAATAA
Found at i:14521387 original size:45 final size:45
Alignment explanation
Indices: 14521297--14521387 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
14521287 AAAGAAAAAA
* * * *
14521297 CAAAACAATTTCCAAGCACCTTCCTCCGTCAACCTTTGTATTTCT
1 CAAAACAATTTCCAAACACCTTCCTACGTCAACCTCTGTAGTTCT
* * *
14521342 CAAAGCAATTTCCAAACACCTTCCTATGTCAACCTCTGTCGTTCT
1 CAAAACAATTTCCAAACACCTTCCTACGTCAACCTCTGTAGTTCT
14521387 C
1 C
14521388 TGTTTTTATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.34, G:0.08, T:0.32
Consensus pattern (45 bp):
CAAAACAATTTCCAAACACCTTCCTACGTCAACCTCTGTAGTTCT
Found at i:14521931 original size:52 final size:51
Alignment explanation
Indices: 14521859--14522000 Score: 175
Period size: 52 Copynumber: 2.8 Consensus size: 51
14521849 TGGATCATAA
14521859 ACTTGTAAAAGAAGAA-TTTTAAGAA-AAAAAAAATTTTTAATAAGTAAATTTG
1 ACTTGTAAAA-AA-AATTTTTAA-AAGAAAAAAAATTTTTAATAAGTAAATTTG
* *
14521911 ACTTGTAAGAAAAAATTTTTAAAAGAAAATAAATTTTTAATAGGTAAATTTG
1 ACTTGTAA-AAAAAATTTTTAAAAGAAAAAAAATTTTTAATAAGTAAATTTG
* * *
14521963 A-TT-TAAAAAAAATTTTTAAAAGGAAAGATATTTTTAAT
1 ACTTGTAAAAAAAATTTTTAAAAGAAAAAAAATTTTTAAT
14522001 GGACAAGTTT
Statistics
Matches: 82, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
49 29 0.35
50 3 0.04
51 6 0.07
52 42 0.51
53 2 0.02
ACGTcount: A:0.52, C:0.01, G:0.11, T:0.36
Consensus pattern (51 bp):
ACTTGTAAAAAAAATTTTTAAAAGAAAAAAAATTTTTAATAAGTAAATTTG
Found at i:14522275 original size:104 final size:104
Alignment explanation
Indices: 14522133--14522339 Score: 290
Period size: 104 Copynumber: 2.0 Consensus size: 104
14522123 CTTATGGGTG
* * * * * *
14522133 TGCATATTTGTTTGTGAGTGGACTAGAGGAGATTGAGAGAGTTCATATAGGTATAATGTATAAGA
1 TGCATATTTATTTGTGAGTGGACTAGAAGAGACTGAGAGAGTCCACATAAGTATAATGTATAAGA
*
14522198 GCATATG-GTTATGTGTTTAGTTATGTTGAAAGAGTGCAT
66 GCATATGAG-TATGTGTTTAGTTATGTTGAAAAAGTGCAT
* * * *
14522237 TGCATGTTTATTTGTGAGTGGACTAGAAGAGACTGAGAGGGTCCACATAAGTATGATGTATGAGA
1 TGCATATTTATTTGTGAGTGGACTAGAAGAGACTGAGAGAGTCCACATAAGTATAATGTATAAGA
*
14522302 GCATATGAGTATGTGTTTGGTTATGTTGAAAAAGTGCA
66 GCATATGAGTATGTGTTTAGTTATGTTGAAAAAGTGCA
14522340 CAAAGGTTTG
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
104 89 0.99
105 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.29, T:0.34
Consensus pattern (104 bp):
TGCATATTTATTTGTGAGTGGACTAGAAGAGACTGAGAGAGTCCACATAAGTATAATGTATAAGA
GCATATGAGTATGTGTTTAGTTATGTTGAAAAAGTGCAT
Found at i:14523333 original size:123 final size:122
Alignment explanation
Indices: 14523021--14523334 Score: 328
Period size: 123 Copynumber: 2.6 Consensus size: 122
14523011 CCAACACCAT
* * ** * * * * * *
14523021 CACCATCGCCATCCTCAATTGCATCAACCCCAGCCCTGATCCTATCGAGTTCTGCCAAGCGTATT
1 CACCATCACCATCCTCTACAGCAACAACCCCAGCTCTGGTCCTATCGAATTCTGGCAAGCGCATT
* **
14523086 GATAGGATGGGTAGTAGCCTCACCAGTTCCAGTTTCGGCTTCACAGAAGACTCTGCAA
66 GATAGAATGGCCAGTAGCCTCACCAGTTCCAGTTTCGGC-TCACAGAAGACTCTGCAA
* * * * * * *
14523144 CACCATCACCTTCCTCTAGAGCAACAGCCCCAGCTCTTGTCTTATCGAATTCTGGCAAGTGGATT
1 CACCATCACCATCCTCTACAGCAACAACCCCAGCTCTGGTCCTATCGAATTCTGGCAAGCGCATT
* * * *
14523209 GATAGAATGTCCAGTAGCCTCACCTGTTCCAG-TTCTGG-T-ACTGCAGCACTCTCAGCAA
66 GATAGAATGGCCAGTAGCCTCACCAGTTCCAGTTTC-GGCTCACAGAAG-ACTCT--GCAA
* *
14523267 CACCATCACCATCGTCTACAGCAACAACCCCAGCTCTGGTCCTATCGAATTCTGGCAACCGCATT
1 CACCATCACCATCCTCTACAGCAACAACCCCAGCTCTGGTCCTATCGAATTCTGGCAAGCGCATT
14523332 GAT
66 GAT
14523335 CAGGCTTGCA
Statistics
Matches: 156, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
120 5 0.03
121 6 0.04
122 3 0.02
123 142 0.91
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (122 bp):
CACCATCACCATCCTCTACAGCAACAACCCCAGCTCTGGTCCTATCGAATTCTGGCAAGCGCATT
GATAGAATGGCCAGTAGCCTCACCAGTTCCAGTTTCGGCTCACAGAAGACTCTGCAA
Found at i:14527258 original size:26 final size:26
Alignment explanation
Indices: 14527222--14527273 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
14527212 TGACTGATTA
*
14527222 ACTTTCTCTGATTAAACTTTATTGCT
1 ACTTTCTCTGATTAAACTGTATTGCT
14527248 ACTTTCTCTGATTAAACTGTATTGCT
1 ACTTTCTCTGATTAAACTGTATTGCT
14527274 GCAAAAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.48
Consensus pattern (26 bp):
ACTTTCTCTGATTAAACTGTATTGCT
Found at i:14532355 original size:32 final size:32
Alignment explanation
Indices: 14532270--14532361 Score: 87
Period size: 32 Copynumber: 2.8 Consensus size: 32
14532260 TCACTATCCC
* *
14532270 ATTTTTCGAAAATATATTTTCAAAAAGATTTATA
1 ATTTTTTGAAAATTTATTTT-AAAAA-ATTTATA
* * *
14532304 ATATTTTGATAAA-TCATTTTTAAAAATTTATA
1 ATTTTTTGA-AAATTTATTTTAAAAAATTTATA
* *
14532336 TTTTTTTGAAAATTTATTTTCAAAAA
1 ATTTTTTGAAAATTTATTTTAAAAAA
14532362 GGTTTAGGAC
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
31 3 0.06
32 25 0.53
33 4 0.09
34 12 0.26
35 3 0.06
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (32 bp):
ATTTTTTGAAAATTTATTTTAAAAAATTTATA
Found at i:14532387 original size:66 final size:66
Alignment explanation
Indices: 14532271--14532398 Score: 159
Period size: 66 Copynumber: 1.9 Consensus size: 66
14532261 CACTATCCCA
* * *
14532271 TTTTTCGAAAATATATTTTCAAAAAGATTTATAATATTTTGATAAATCATTTTTAAAAATTTATA
1 TTTTTCGAAAATATATTTTCAAAAAGATTTAGAATATTTTGAGAAATCATTTTCAAAAATTTATA
14532336 T
66 T
* * * * * *
14532337 TTTTTTGAAAATTTATTTTCAAAAAGGTTTAGGA-CTTTTGAGAAATTCATTTTCGAAAATTT
1 TTTTTCGAAAATATATTTTCAAAAAGATTTAGAATATTTTGAGAAA-TCATTTTCAAAAATTT
14532399 GTATAAAGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 9 0.17
66 43 0.83
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (66 bp):
TTTTTCGAAAATATATTTTCAAAAAGATTTAGAATATTTTGAGAAATCATTTTCAAAAATTTATA
T
Found at i:14536158 original size:126 final size:126
Alignment explanation
Indices: 14535928--14536183 Score: 449
Period size: 126 Copynumber: 2.0 Consensus size: 126
14535918 GGGGTCGAGG
*
14535928 TGGTGGGTACCCTTCTGGAACTGGAAGAGGCACCCGTGACGATGCAGCGCCTTCAGGTGGCTGTG
1 TGGTGGGTACCCTTCTGGAACTGGAAGAGGCACCCGTGACGATGCAGCACCTTCAGGTGGCTGTG
*
14535993 GCTGACGATGTGGTTTTTGCTGATAGCCATTGGTCTGATCTGCTGACATAGGCTGTTGTGT
66 GCTGACGATGTGGTTTTTGCTGATAGCCATTGGTCTGATCCGCTGACATAGGCTGTTGTGT
*
14536054 TGGTGGGTACCCTTCTGGAACTGGAAGAGGCTCCCGTGACGATGCAGCACCTTCAGGTGGCTGTG
1 TGGTGGGTACCCTTCTGGAACTGGAAGAGGCACCCGTGACGATGCAGCACCTTCAGGTGGCTGTG
* * * *
14536119 GCTGTCGATGTGGTTTTTGCTGATAGCCATTGTTGTGATCCGCTGACTTAGGCTGTTGTGT
66 GCTGACGATGTGGTTTTTGCTGATAGCCATTGGTCTGATCCGCTGACATAGGCTGTTGTGT
14536180 TGGT
1 TGGT
14536184 TCATCGTTAG
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 123 1.00
ACGTcount: A:0.15, C:0.20, G:0.34, T:0.31
Consensus pattern (126 bp):
TGGTGGGTACCCTTCTGGAACTGGAAGAGGCACCCGTGACGATGCAGCACCTTCAGGTGGCTGTG
GCTGACGATGTGGTTTTTGCTGATAGCCATTGGTCTGATCCGCTGACATAGGCTGTTGTGT
Found at i:14536397 original size:18 final size:18
Alignment explanation
Indices: 14536376--14536411 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14536366 GAATTGGTTG
14536376 CGACTATGACGATTATCT
1 CGACTATGACGATTATCT
*
14536394 CGACTATGATGATTATCT
1 CGACTATGACGATTATCT
14536412 TTGGGATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (18 bp):
CGACTATGACGATTATCT
Found at i:14537675 original size:26 final size:30
Alignment explanation
Indices: 14537636--14537707 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 30
14537626 AAACAAAAAA
14537636 TTATTTAAAAATAA-AAA-AT-TTA-TAAT
1 TTATTTAAAAATAATAAATATATTATTAAT
*
14537662 TTATTTAAACATAATAAATATGATTATTAAT
1 TTATTTAAAAATAATAAATAT-ATTATTAAT
14537693 TTATTTAAGAAATAA
1 TTATTTAA-AAATAA
14537708 ATTAAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 13 0.34
27 3 0.08
28 2 0.05
30 3 0.08
31 12 0.32
32 5 0.13
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (30 bp):
TTATTTAAAAATAATAAATATATTATTAAT
Found at i:14539205 original size:20 final size:20
Alignment explanation
Indices: 14539180--14539230 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 20
14539170 TTGTAAACTA
*
14539180 TGTAATATGATTATATTTTT
1 TGTAATATGATTATATTTTG
*
14539200 TGT-A-AT-ATCATATTTTG
1 TGTAATATGATTATATTTTG
14539217 TGTAATATGATTAT
1 TGTAATATGATTAT
14539231 GTTCACATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
17 12 0.48
18 3 0.12
19 3 0.12
20 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (20 bp):
TGTAATATGATTATATTTTG
Found at i:14539684 original size:21 final size:21
Alignment explanation
Indices: 14539659--14539699 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14539649 ACAATTAAAG
*
14539659 ACAATGTTCTAATAAAAAATT
1 ACAATGTTCTAACAAAAAATT
*
14539680 ACAATGTTTTAACAAAAAAT
1 ACAATGTTCTAACAAAAAAT
14539700 ATAGTGTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.32
Consensus pattern (21 bp):
ACAATGTTCTAACAAAAAATT
Found at i:14540298 original size:17 final size:17
Alignment explanation
Indices: 14540264--14540299 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14540254 GTTGTTGTTA
*
14540264 TTGGTGAGTTATTGCTG
1 TTGGTGAGTTATTACTG
*
14540281 TTGGTGAGTTGTTACTG
1 TTGGTGAGTTATTACTG
14540298 TT
1 TT
14540300 AGAGGTTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.06, G:0.33, T:0.50
Consensus pattern (17 bp):
TTGGTGAGTTATTACTG
Found at i:14543173 original size:60 final size:60
Alignment explanation
Indices: 14543104--14543220 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 60
14543094 TATTGGTCCC
* * *
14543104 TAAAATTTGAAAAGTTTTAATTGAGTTA-TCAATTACCCAAACGTGTGTTAATTTGGTTTA
1 TAAAATTTGAAAAGTTCTAATTGAG-TACTCAATTACCCAAACATGTGTCAATTTGGTTTA
* * * *
14543164 TAAATTTTGAAAAGTTCTAATTGCGTACTCAATTACCTAAGCATGTGTCAATTTGGT
1 TAAAATTTGAAAAGTTCTAATTGAGTACTCAATTACCCAAACATGTGTCAATTTGGT
14543221 CCCTTCGTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
59 2 0.04
60 47 0.96
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (60 bp):
TAAAATTTGAAAAGTTCTAATTGAGTACTCAATTACCCAAACATGTGTCAATTTGGTTTA
Found at i:14545527 original size:16 final size:16
Alignment explanation
Indices: 14545495--14545527 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14545485 CGATAAATGA
14545495 ATGATAATGATTATTT
1 ATGATAATGATTATTT
14545511 ATGATGAATGATT-TTT
1 ATGAT-AATGATTATTT
14545527 A
1 A
14545528 CAAATTGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (16 bp):
ATGATAATGATTATTT
Found at i:14546031 original size:127 final size:127
Alignment explanation
Indices: 14545798--14546054 Score: 426
Period size: 127 Copynumber: 2.0 Consensus size: 127
14545788 AAGTGTATGT
14545798 TTAGGGTTTTGTCAATTTGTATCATTCACAAAGCAAGAAAAACATCATAAAATAATGAAGCCCAA
1 TTAGGGTTTTGTCAATTTGTATCATTCACAAAGCAAGAAAAACATCATAAAATAATGAAGCCCAA
*
14545863 AAACATGAACCCTAAAATAATCCCTAAATCTAAACTAAGCTCATAAAAAGAATTCAAACATGA
66 AAACATGAACCCTAAAATAATCCCTAAATCTAAACTAAGCTCATAAAAA-AATTCAAACATAA
* * * * *
14545926 TTAGGG-TTTGTCAATTTTTATCATTCACAAAGCAAGCAAAACATCCTAAAATAATGAAGTCCGA
1 TTAGGGTTTTGTCAATTTGTATCATTCACAAAGCAAGAAAAACATCATAAAATAATGAAGCCCAA
* *
14545990 AAACGTGAACCCTAAAATAATCTCTAAATCTAAACTAAGCTCATAAAAAAATTCAAACATAA
66 AAACATGAACCCTAAAATAATCCCTAAATCTAAACTAAGCTCATAAAAAAATTCAAACATAA
14546052 TTA
1 TTA
14546055 ATAAACATAT
Statistics
Matches: 121, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
126 15 0.12
127 100 0.83
128 6 0.05
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.26
Consensus pattern (127 bp):
TTAGGGTTTTGTCAATTTGTATCATTCACAAAGCAAGAAAAACATCATAAAATAATGAAGCCCAA
AAACATGAACCCTAAAATAATCCCTAAATCTAAACTAAGCTCATAAAAAAATTCAAACATAA
Found at i:14548840 original size:21 final size:21
Alignment explanation
Indices: 14548810--14548851 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
14548800 TAATTTTTTT
*
14548810 ATTTGAAATTATCTAAATTTAA
1 ATTTGAAATTAT-TAAAATTAA
14548832 ATTT-AAATTATTAAAATTAA
1 ATTTGAAATTATTAAAATTAA
14548852 TAATTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTTGAAATTATTAAAATTAA
Found at i:14548856 original size:22 final size:21
Alignment explanation
Indices: 14548810--14548859 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
14548800 TAATTTTTTT
*
14548810 ATTTGAAATTATCTAAATTTAA
1 ATTT-AAATTATCTAAATTAAA
14548832 ATTTAAATTAT-TAAAATTAATA
1 ATTTAAATTATCT-AAATTAA-A
14548854 ATTTAA
1 ATTTAA
14548860 TATTTTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 13 0.52
22 11 0.44
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
ATTTAAATTATCTAAATTAAA
Found at i:14549911 original size:6 final size:6
Alignment explanation
Indices: 14549864--14549902 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
14549854 GAGGAGGAGA
* * *
14549864 AGGCGG AGGCGG AGGCGG AGGTGG AGGCGT TGGCGG AGG
1 AGGCGG AGGCGG AGGCGG AGGCGG AGGCGG AGGCGG AGG
14549903 AGGTGGAGGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.13, G:0.64, T:0.08
Consensus pattern (6 bp):
AGGCGG
Found at i:14550387 original size:102 final size:102
Alignment explanation
Indices: 14550281--14550487 Score: 297
Period size: 102 Copynumber: 2.0 Consensus size: 102
14550271 TCAAACGCTC
* * * *
14550281 CTGTTGCTGGGGTTGGTCCCAAGTTTGAAAACCTGGTGGATTGTTATTGCTTTTTGGAGGATTCT
1 CTGTTGCTGGGATTGGCCCCAAGTTTGAAAACCTGGTGGATTGTTACTGCTTTTCGGAGGATTCT
* *
14550346 CTGGCAAAGGAAGAGCCCCAACTGATGGCAGCTGTTG
66 CTGGCAAAGGAAGAGCCCCAACAGAGGGCAGCTGTTG
* * * *
14550383 CTGTTGCTGGGATTGGCCCCAAGTTTGCAAACTTGGTGGATTGTTACTGCTTTTCGGATGATTTT
1 CTGTTGCTGGGATTGGCCCCAAGTTTGAAAACCTGGTGGATTGTTACTGCTTTTCGGAGGATTCT
* * *
14550448 GTGGCAAAGGAAGAGCCCCAACAGGGGGCAGTTGTTG
66 CTGGCAAAGGAAGAGCCCCAACAGAGGGCAGCTGTTG
14550485 CTG
1 CTG
14550488 GGAACTTTGT
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (102 bp):
CTGTTGCTGGGATTGGCCCCAAGTTTGAAAACCTGGTGGATTGTTACTGCTTTTCGGAGGATTCT
CTGGCAAAGGAAGAGCCCCAACAGAGGGCAGCTGTTG
Found at i:14552743 original size:4 final size:4
Alignment explanation
Indices: 14552736--14552817 Score: 56
Period size: 4 Copynumber: 19.5 Consensus size: 4
14552726 TTTTGTTTGC
** * * **
14552736 TTAT TTAT TTAT TTAT TGGT TAAAT TGAT ATTAT TTAT TTAT TTAT TGGT
1 TTAT TTAT TTAT TTAT TTAT T-TAT TTAT -TTAT TTAT TTAT TTAT TTAT
* *
14552786 TAAAT TGAT ATTAT TTAT TTAT TTAT TTAT TT
1 T-TAT TTAT -TTAT TTAT TTAT TTAT TTAT TT
14552818 TGTGAATGAG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
4 52 0.84
5 10 0.16
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (4 bp):
TTAT
Found at i:14552816 original size:34 final size:30
Alignment explanation
Indices: 14552736--14552812 Score: 154
Period size: 30 Copynumber: 2.6 Consensus size: 30
14552726 TTTTGTTTGC
14552736 TTATTTATTTATTTATTGGTTAAATTGATA
1 TTATTTATTTATTTATTGGTTAAATTGATA
14552766 TTATTTATTTATTTATTGGTTAAATTGATA
1 TTATTTATTTATTTATTGGTTAAATTGATA
14552796 TTATTTATTTATTTATT
1 TTATTTATTTATTTATT
14552813 TATTTTGTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.64
Consensus pattern (30 bp):
TTATTTATTTATTTATTGGTTAAATTGATA
Found at i:14553540 original size:58 final size:60
Alignment explanation
Indices: 14553422--14553560 Score: 165
Period size: 58 Copynumber: 2.4 Consensus size: 60
14553412 GAATACAAAG
* * * *
14553422 TTAAAAGTATCAATTTTTTTTTAAGATAAAATTATCAAAAGATATTTTTTTGATAAAAAA
1 TTAAAAGTATCAATTTTTCTTAAAAATAAAATTATCAAAAGATATTTTTTTGACAAAAAA
* * ** * * *
14553482 TTGAGAGTATCAATTTTTCTTAAAAATAAAATT-T-AAAATTTTTTTTTTTTACGAAAAA
1 TTAAAAGTATCAATTTTTCTTAAAAATAAAATTATCAAAAGATATTTTTTTGACAAAAAA
14553540 TTAAAAGTATCAATTTTTCTT
1 TTAAAAGTATCAATTTTTCTT
14553561 GAATAAATGC
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
58 37 0.56
59 1 0.02
60 28 0.42
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.46
Consensus pattern (60 bp):
TTAAAAGTATCAATTTTTCTTAAAAATAAAATTATCAAAAGATATTTTTTTGACAAAAAA
Found at i:14553593 original size:2 final size:2
Alignment explanation
Indices: 14553586--14553614 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14553576 TCTTGTTTAG
14553586 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 A
14553615 ATAAGAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14563821 original size:59 final size:59
Alignment explanation
Indices: 14563709--14563825 Score: 146
Period size: 59 Copynumber: 2.0 Consensus size: 59
14563699 ATTTGAATCT
* * * * *
14563709 AAAAAAAGGGGGGTTCAAATTAAAAACCCATAAAGGGCAGTTTGAAGTAAAAAAAAAAA
1 AAAAAAAAGAGGGCTCAAATTAAAAACCCACAAAGGGCAGTCTGAAGTAAAAAAAAAAA
* * **
14563768 AAAAAAAAGAGGGCTCAAATTAAAAACCTACAAAGGGCGGTCTG-AGTTTAAAAAAAAA
1 AAAAAAAAGAGGGCTCAAATTAAAAACCCACAAAGGGCAGTCTGAAGTAAAAAAAAAAA
14563826 GGGGGGGCTC
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
58 12 0.24
59 37 0.76
ACGTcount: A:0.55, C:0.10, G:0.20, T:0.15
Consensus pattern (59 bp):
AAAAAAAAGAGGGCTCAAATTAAAAACCCACAAAGGGCAGTCTGAAGTAAAAAAAAAAA
Found at i:14563846 original size:52 final size:52
Alignment explanation
Indices: 14563778--14563878 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
14563768 AAAAAAAAGA
* * **
14563778 GGGCTCAAATTAAAAACCTACAAAGGGCGGTCTGAGTTTAAAAAAAAAGGGG
1 GGGCTCAAATTAAAAACCTAAAAAGAGCGGTCTGAGTCCAAAAAAAAAGGGG
* * *
14563830 GGGCTCAAATTGAAAACCTAAAAAGAGTGGTTTGAGTCCAAAAAAAAAG
1 GGGCTCAAATTAAAAACCTAAAAAGAGCGGTCTGAGTCCAAAAAAAAAG
14563879 CTCAAATTGA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.45, C:0.13, G:0.25, T:0.18
Consensus pattern (52 bp):
GGGCTCAAATTAAAAACCTAAAAAGAGCGGTCTGAGTCCAAAAAAAAAGGGG
Found at i:14564586 original size:13 final size:13
Alignment explanation
Indices: 14564568--14564592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14564558 TTAGTTAAAG
14564568 AAAAATCAAAATC
1 AAAAATCAAAATC
14564581 AAAAATCAAAAT
1 AAAAATCAAAAT
14564593 AGAAAGAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATCAAAATC
Found at i:14564725 original size:59 final size:57
Alignment explanation
Indices: 14564626--14565018 Score: 454
Period size: 59 Copynumber: 6.7 Consensus size: 57
14564616 TTTTATGTAG
* * * *
14564626 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTGAAAATTT--ATTTTTAA
*
14564685 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-CTTTTTTGAAAATTTA-TTTTTAA
* *
14564744 GGAAAATTGATACTTTCAACTTTTTCCT-AAAAATGTTTTTTTGCAAATTTTAATTTTTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAAT-CTTTTTTG-AAAATTT-ATTTTTAA
* * *
14564804 GGGAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTT-AAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTGAAAATTTATTTTTAA
* * * *
14564860 GGAGAATTGGTACTTTCAACTTTTTCCT-AAAAATTTTTTTTTTGGAAATTTTGATTTTTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAA--TCTTTTTT-GAAAATTT-ATTTTTAA
* *
14564921 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTT-AAAATTTATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTGAAAATTTA-TTTTTAA
* *
14564978 GAAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATCTTTTTT
14565019 TGGAATTTTT
Statistics
Matches: 288, Mismatches: 31, Indels: 32
0.82 0.09 0.09
Matches are distributed among these distances:
56 32 0.11
57 61 0.21
58 6 0.02
59 87 0.30
60 70 0.24
61 32 0.11
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTGAAAATTTATTTTTAA
Found at i:14564934 original size:117 final size:117
Alignment explanation
Indices: 14564626--14565036 Score: 628
Period size: 117 Copynumber: 3.5 Consensus size: 117
14564616 TTTTATGTAG
* * * * *
14564626 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGGAAATTTCGATTTTCAAGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTTGGAAATTTTGATTTTTAAGGAAA
*
14564690 ATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTTAA
66 ATTGATACTTTCAACTTTTCCTCAAAAA-CCCTTTTT-AAAATTTATTTTTTAA
* * * * *
14564744 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATGTTTTTTTGCAAATTTTAATTTTTAAGGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTTGGAAATTTTGATTTTTAAGGAAA
14564809 ATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTAAAATTTA-TTTTTAA
66 ATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTAAAATTTATTTTTTAA
* * *
14564860 GGAGAATTGGTACTTTCAACTTTTTCCTAAAAATTTTTTTTTTGGAAATTTTGATTTTTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAA-TTTTTTTTTGGAAATTTTGATTTTTAAGGAA
14564925 AATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTAAAATTTATTTTTTAA
65 AATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTAAAATTTATTTTTTAA
* * *
14564978 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAATTTTTGATTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTTGGAAATTTTGATTTTTA
14565037 TTTAAAGAAA
Statistics
Matches: 267, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
116 38 0.14
117 104 0.39
118 74 0.28
119 51 0.19
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTTGGAAATTTTGATTTTTAAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTAAAATTTATTTTTTAA
Found at i:14565090 original size:8 final size:8
Alignment explanation
Indices: 14565051--14565116 Score: 71
Period size: 8 Copynumber: 7.9 Consensus size: 8
14565041 AAGAAAACAG
14565051 AATAAAAA
1 AATAAAAA
14565059 AATACATAAA
1 AATA-A-AAA
* *
14565069 AATGAAAT
1 AATAAAAA
14565077 AATAAAAA
1 AATAAAAA
14565085 AATAAAGAA
1 AATAAA-AA
14565094 AAGTAAAAA
1 AA-TAAAAA
14565103 AAT-AAAA
1 AATAAAAA
14565110 AATAAAA
1 AATAAAA
14565117 TAAAGATAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
7 7 0.14
8 22 0.45
9 10 0.20
10 10 0.20
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.15
Consensus pattern (8 bp):
AATAAAAA
Found at i:14565095 original size:25 final size:25
Alignment explanation
Indices: 14565051--14565133 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 25
14565041 AAGAAAACAG
* *
14565051 AATAAAAAAATACATAAAAA-TGAAAT
1 AATAAAAAAATA-A-AAAAAGTAAAAA
14565077 AATAAAAAAATAAAGAAAAGTAAAAA
1 AATAAAAAAATAAA-AAAAGTAAAAA
14565103 AAT-AAAAAATAAAATAAAGATAAAAA
1 AATAAAAAAATAAAA-AAAG-TAAAAA
14565129 GAATA
1 -AATA
14565134 TTAAATAAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
24 2 0.04
25 19 0.39
26 25 0.51
27 3 0.06
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.16
Consensus pattern (25 bp):
AATAAAAAAATAAAAAAAGTAAAAA
Found at i:14565128 original size:27 final size:25
Alignment explanation
Indices: 14565081--14565142 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
14565071 TGAAATAATA
14565081 AAAAAATAAAGAAAAGTAAAAAAAT
1 AAAAAATAAAGAAAAGTAAAAAAAT
14565106 AAAAAATAAA-ATAAAGATAAAAAGAAT
1 AAAAAATAAAGA-AAAG-TAAAAA-AAT
**
14565133 ATTAAATAAA
1 AAAAAATAAA
14565143 CCTAATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 1 0.03
25 14 0.44
26 6 0.19
27 11 0.34
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.16
Consensus pattern (25 bp):
AAAAAATAAAGAAAAGTAAAAAAAT
Found at i:14565164 original size:8 final size:8
Alignment explanation
Indices: 14565051--14565173 Score: 51
Period size: 8 Copynumber: 14.9 Consensus size: 8
14565041 AAGAAAACAG
*
14565051 AATAAAAA
1 AATAAATA
*
14565059 AATACAT-
1 AATAAATA
14565066 AA-AAATGA
1 AATAAAT-A
14565074 AAT-AATA
1 AATAAATA
*
14565081 AAAAAATA
1 AATAAATA
*
14565089 AAGAAAAGTA
1 AA-TAAA-TA
*
14565099 AAAAAATA
1 AATAAATA
14565107 AA-AAATAA
1 AATAAAT-A
14565115 AATAAAGATA
1 AAT-AA-ATA
*
14565125 AAAAGAAT-
1 AATA-AATA
*
14565133 ATTAAATA
1 AATAAATA
14565141 AACCT-AATA
1 AA--TAAATA
14565150 TAATAAATA
1 -AATAAATA
14565159 AATAAATA
1 AATAAATA
14565167 AATAAAT
1 AATAAAT
14565174 TTAAAAAAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 32
0.69 0.06 0.24
Matches are distributed among these distances:
6 3 0.03
7 12 0.13
8 42 0.46
9 19 0.21
10 13 0.14
11 2 0.02
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (8 bp):
AATAAATA
Found at i:14565480 original size:20 final size:21
Alignment explanation
Indices: 14565436--14565490 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
14565426 AGAACACTGG
** *
14565436 TGGGAATTTTCATCGGGATTC
1 TGGGAATTTTCATCCAGAATC
14565457 TGGGAATTTTCA-CCAGAATC
1 TGGGAATTTTCATCCAGAATC
**
14565477 TGGGTTTTTTCATC
1 TGGGAATTTTCATC
14565491 GGAAGTTCGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (21 bp):
TGGGAATTTTCATCCAGAATC
Found at i:14566540 original size:118 final size:113
Alignment explanation
Indices: 14566274--14566686 Score: 499
Period size: 118 Copynumber: 3.5 Consensus size: 113
14566264 TTGCGTAGGA
* * * * *
14566274 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGGAATTTTGATTTTCAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTTGAAATTTTGATTTTTAAGG-GAATT
*
14566338 GTACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAGAATTTTATTTTTAAGG
65 GTACTTTCAACTTTTCCTCAAAAA-CCCTTTTT-AA-AA-TTTATTTTTAAGG
14566391 AAAATTGATACTTTCAACTTTTCCCTAAAAAATGTTTTTTTTGAAAATATTTGATTTTTAAGGGA
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAAT-TTTTTTTTG-AAAT-TTTGATTTTTAAGGGA
14566456 ATTGTTACTTTCCAACTTTTCCTCAAAAACCCTTTTTAAAATTTA-TTTTAAGG
62 ATTG-TACTTT-CAACTTTTCCTCAAAAACCCTTTTTAAAATTTATTTTTAAGG
* * *
14566509 AGAATTGGTACTTTCCAACTTTTCCCTAAAAATTTTTTTTTGGGGAAATTTTGATTTTTAAAGGA
1 AAAATTGATACTTT-CAACTTTTCCCTAAAAATTTTTTTTT---GAAATTTTGATTTTTAAGGGA
14566574 ATTGATACTTTTCAACTTTTCCTC-AAAACCCTTTTTAAAATTTATTTTTTTAAGG
62 ATTG-TAC-TTTCAACTTTTCCTCAAAAACCCTTTTTAAAATTTA--TTTTTAAGG
* * * *
14566629 AAAATTGATACGTTCAACTTTTTCCTAAATAATGTTTTTTTGGAATTTTTGATTTTTA
1 AAAATTGATACTTTCAACTTTTCCCTAAA-AAT-TTTTTTTTGAAATTTTGATTTTTA
14566687 TTTAAAGAAA
Statistics
Matches: 263, Mismatches: 16, Indels: 33
0.84 0.05 0.11
Matches are distributed among these distances:
117 53 0.20
118 80 0.30
119 37 0.14
120 33 0.13
121 17 0.06
122 26 0.10
123 17 0.06
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (113 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTTGAAATTTTGATTTTTAAGGGAATTG
TACTTTCAACTTTTCCTCAAAAACCCTTTTTAAAATTTATTTTTAAGG
Found at i:14566733 original size:14 final size:14
Alignment explanation
Indices: 14566707--14566769 Score: 60
Period size: 15 Copynumber: 4.5 Consensus size: 14
14566697 ATAGAATAAA
14566707 AAAATACATAAAAAT
1 AAAATA-ATAAAAAT
*
14566722 GAAATAAT-AAAA-
1 AAAATAATAAAAAT
14566734 AAAATAA-AGAAAAGT
1 AAAATAATA-AAAA-T
*
14566749 AAAAAAATAAAAAT
1 AAAATAATAAAAAT
14566763 AAAATAA
1 AAAATAA
14566770 ATATAAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
12 6 0.15
13 8 0.21
14 9 0.23
15 15 0.38
16 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (14 bp):
AAAATAATAAAAAT
Found at i:14566746 original size:27 final size:28
Alignment explanation
Indices: 14566704--14566770 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
14566694 AAAATAGAAT
* * * *
14566704 AAAAAAATACATAAAAATGAAATAAT-A
1 AAAAAAATAAAGAAAAATAAAAAAATAA
*
14566731 AAAAAAATAAAGAAAAGTAAAAAAATAA
1 AAAAAAATAAAGAAAAATAAAAAAATAA
14566759 AAATAAAATAAA
1 AAA-AAAATAAA
14566771 TATAAAAAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 21 0.64
28 4 0.12
29 8 0.24
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (28 bp):
AAAAAAATAAAGAAAAATAAAAAAATAA
Found at i:14566768 original size:11 final size:11
Alignment explanation
Indices: 14566694--14566777 Score: 52
Period size: 11 Copynumber: 7.8 Consensus size: 11
14566684 TTATTTAAAG
*
14566694 AAAATAGAATA
1 AAAATAAAATA
14566705 AAAA-AATACATA
1 AAAATAA-A-ATA
*
14566717 AAAATGAAATA
1 AAAATAAAATA
*
14566728 ATAAAAAAAATA
1 A-AAATAAAATA
* *
14566740 AAGA-AAAGT-
1 AAAATAAAATA
14566749 -AAA-AAAATA
1 AAAATAAAATA
14566758 AAAATAAAATA
1 AAAATAAAATA
*
14566769 AATATAAAA
1 AAAATAAAA
14566778 AGAATATTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
8 6 0.11
10 8 0.14
11 25 0.44
12 17 0.30
13 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:14566771 original size:15 final size:15
Alignment explanation
Indices: 14566707--14566777 Score: 69
Period size: 14 Copynumber: 4.9 Consensus size: 15
14566697 ATAGAATAAA
*
14566707 AAAATACATAAAAAT
1 AAAATAAATAAAAAT
*
14566722 GAAAT-AAT-AAAA-
1 AAAATAAATAAAAAT
* *
14566734 AAAATAAAGAAAAGT
1 AAAATAAATAAAAAT
14566749 AAAA-AAATAAAAAT
1 AAAATAAATAAAAAT
14566763 AAAATAAATATAAAA
1 AAAATAAATA-AAAA
14566778 AGAATATTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
12 4 0.09
13 6 0.14
14 17 0.39
15 13 0.30
16 4 0.09
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.17
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:14567621 original size:30 final size:29
Alignment explanation
Indices: 14567575--14567679 Score: 88
Period size: 30 Copynumber: 3.4 Consensus size: 29
14567565 TAAAAATCAA
14567575 ATAAATAAATAAAAAATAGATA-ATTAGAACAG
1 ATAAAT-AA-AAAAAATAGATATATTA-AA-AG
* *
14567607 ATAAATAAAAAAAATAGATATATTATAGG
1 ATAAATAAAAAAAATAGATATATTAAAAG
*
14567636 ATAAATAAAAGAAAATAACAGATATA-TAATTAG
1 ATAAATAAAA-AAAAT---AGATATATTAA-AAG
14567669 ATAAATAAAAA
1 ATAAATAAAAA
14567680 TACAAAAATC
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
29 11 0.18
30 18 0.29
31 6 0.10
32 9 0.15
33 18 0.29
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.24
Consensus pattern (29 bp):
ATAAATAAAAAAAATAGATATATTAAAAG
Found at i:14567638 original size:29 final size:29
Alignment explanation
Indices: 14567575--14567679 Score: 88
Period size: 33 Copynumber: 3.4 Consensus size: 29
14567565 TAAAAATCAA
*
14567575 ATAAATAAATAAAAAATAGATA-ATTAGAACAG
1 ATAAAT-AA-AAAAAATAGATATATTAG--TAG
14567607 ATAAATAAAAAAAATAGATATATTA-TAGG
1 ATAAATAAAAAAAATAGATATATTAGTA-G
* *
14567636 ATAAATAAAAGAAAATAACAGATATATAATTAG
1 ATAAATAAAA-AAAAT---AGATATATTAGTAG
14567669 ATAAATAAAAA
1 ATAAATAAAAA
14567680 TACAAAAATC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
28 1 0.02
29 11 0.17
30 17 0.27
31 6 0.09
32 7 0.11
33 20 0.31
34 2 0.03
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.24
Consensus pattern (29 bp):
ATAAATAAAAAAAATAGATATATTAGTAG
Found at i:14567698 original size:17 final size:16
Alignment explanation
Indices: 14567676--14567715 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
14567666 TAGATAAATA
14567676 AAAATACAAAAATCAAT
1 AAAATACAAAAAT-AAT
*
14567693 AAAATATAAAAATAAT
1 AAAATACAAAAATAAT
14567709 AATAATA
1 AA-AATA
14567716 ATAATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATACAAAAATAAT
Found at i:14567710 original size:9 final size:9
Alignment explanation
Indices: 14567672--14567731 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
14567662 TAATTAGATA
14567672 AATAAAAAT
1 AATAAAAAT
*
14567681 -ACAAAAAT
1 AATAAAAAT
14567689 CAAT-AAAAT
1 -AATAAAAAT
14567698 -ATAAAAAT
1 AATAAAAAT
*
14567706 AATAATAAT
1 AATAAAAAT
14567715 AATAATAATAT
1 AATAA-AA-AT
14567726 AATAAA
1 AATAAA
14567732 TATATAACTA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
7 2 0.05
8 12 0.29
9 17 0.41
10 3 0.07
11 7 0.17
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (9 bp):
AATAAAAAT
Found at i:14567711 original size:3 final size:3
Alignment explanation
Indices: 14567690--14567730 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
14567680 TACAAAAATC
*
14567690 AAT AA- AAT -AT AAA AAT AAT AAT AAT AAT AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14567731 ATATATAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 6 0.18
3 27 0.82
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:14567733 original size:9 final size:9
Alignment explanation
Indices: 14567694--14567749 Score: 50
Period size: 8 Copynumber: 6.6 Consensus size: 9
14567684 AAAATCAATA
14567694 AAATATAA-
1 AAATATAAT
14567702 AAATAATAAT
1 AAAT-ATAAT
14567712 -AATAATAAT
1 AAAT-ATAAT
14567721 -AATATAAT
1 AAATATAAT
14567729 AAATAT-AT
1 AAATATAAT
*
14567737 AACTAT-AT
1 AAATATAAT
14567745 AAATA
1 AAATA
14567750 ATATACATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
8 22 0.51
9 21 0.49
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
AAATATAAT
Found at i:14567750 original size:37 final size:38
Alignment explanation
Indices: 14567657--14567756 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
14567647 AAAATAACAG
* * *
14567657 ATATATAATTAGATAAATAAAAATACAAAAATCAATAA
1 ATATATAAATATATAAATAATAATACAAAAATCAATAA
* *
14567695 A-ATATAAAAATA-ATAATAATAATA-ATAATAT-AATAA
1 ATATATAAATATATA-AATAATAATACA-AAAATCAATAA
*
14567731 ATATATAACTATATAAATAAT-ATACA
1 ATATATAAATATATAAATAATAATACA
14567757 TATAAATCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
36 11 0.22
37 37 0.74
38 2 0.04
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (38 bp):
ATATATAAATATATAAATAATAATACAAAAATCAATAA
Found at i:14567753 original size:9 final size:10
Alignment explanation
Indices: 14567704--14567754 Score: 54
Period size: 9 Copynumber: 5.1 Consensus size: 10
14567694 AAATATAAAA
14567704 ATAATAATA-
1 ATAATAATAT
14567713 ATAATAATAAT
1 ATAATAAT-AT
14567724 ATAATAA-AT
1 ATAATAATAT
14567733 AT-ATAACTAT
1 ATAATAA-TAT
14567743 ATAAATAATAT
1 AT-AATAATAT
14567754 A
1 A
14567755 CATATAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 4 0.11
9 12 0.33
10 5 0.14
11 11 0.31
12 4 0.11
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (10 bp):
ATAATAATAT
Found at i:14567759 original size:23 final size:20
Alignment explanation
Indices: 14567695--14567794 Score: 52
Period size: 20 Copynumber: 5.0 Consensus size: 20
14567685 AAATCAATAA
14567695 AATATAAA-A-ATAAT-AAT
1 AATATAAATATATAATAAAT
14567712 AATA-ATAATAATATAATAAAT
1 AATATA-AAT-ATATAATAAAT
*
14567733 -ATATAACTATATAAATAATAT
1 AATATAAATATAT-AATAA-AT
* **
14567754 ACATATAAATCTATTCTAAAT
1 A-ATATAAATATATAATAAAT
*
14567775 AA-A-AAATAAATAAATAAAT
1 AATATAAATATAT-AATAAAT
14567794 A
1 A
14567795 CAGATATACA
Statistics
Matches: 63, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
16 1 0.02
17 6 0.10
18 6 0.10
19 12 0.19
20 16 0.25
21 9 0.14
22 3 0.05
23 10 0.16
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
AATATAAATATATAATAAAT
Found at i:14567761 original size:15 final size:16
Alignment explanation
Indices: 14567715--14567763 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
14567705 TAATAATAAT
14567715 AATA-ATAA-TATAATA
1 AATATATAACTAT-ATA
14567730 AATATATAACTATATA
1 AATATATAACTATATA
14567746 AATA-ATATAC-ATATA
1 AATATATA-ACTATATA
14567761 AAT
1 AAT
14567764 CTATTCTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 15 0.48
16 13 0.42
17 3 0.10
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATATAACTATATA
Found at i:14568086 original size:37 final size:35
Alignment explanation
Indices: 14568029--14568106 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 35
14568019 AACATTGTCA
14568029 TTTTTTGTTTTTTGTATTTTTTGTGTTTT-TTTATTAT
1 TTTTTTGTTTTTTGTATTTTTTGT-TTTTGTTT-TT-T
14568066 TTTTTTGTTTCTTTGT-TTTTTTGTTTTTGTTTTTT
1 TTTTTTGTTT-TTTGTATTTTTTGTTTTTGTTTTTT
14568101 TTTTTT
1 TTTTTT
14568107 ACCAAAGCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 7 0.18
36 6 0.15
37 21 0.54
38 5 0.13
ACGTcount: A:0.04, C:0.01, G:0.10, T:0.85
Consensus pattern (35 bp):
TTTTTTGTTTTTTGTATTTTTTGTTTTTGTTTTTT
Found at i:14568092 original size:8 final size:8
Alignment explanation
Indices: 14568029--14568106 Score: 63
Period size: 8 Copynumber: 9.5 Consensus size: 8
14568019 AACATTGTCA
14568029 TTTTTTGT
1 TTTTTTGT
*
14568037 TTTTTGTAT
1 TTTTT-TGT
14568046 TTTTTGTGTTT
1 TTTTT-TG--T
*
14568057 TTTTATTAT
1 TTTT-TTGT
14568066 TTTTTTGT
1 TTTTTTGT
*
14568074 TTCTTTGT
1 TTTTTTGT
14568082 TTTTTTG-
1 TTTTTTGT
14568089 -TTTTTGT
1 TTTTTTGT
14568096 TTTTTT-T
1 TTTTTTGT
14568103 TTTT
1 TTTT
14568107 ACCAAAGCTC
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
6 6 0.10
7 5 0.09
8 26 0.45
9 14 0.24
11 6 0.10
12 1 0.02
ACGTcount: A:0.04, C:0.01, G:0.10, T:0.85
Consensus pattern (8 bp):
TTTTTTGT
Found at i:14568092 original size:22 final size:20
Alignment explanation
Indices: 14568030--14568106 Score: 70
Period size: 19 Copynumber: 3.9 Consensus size: 20
14568020 ACATTGTCAT
* *
14568030 TTTTTG-TTTTTTGTATTT-
1 TTTTTGTTTTTTTTTTTTTG
* * *
14568048 TTTGTGTTTTTTTATTATT-
1 TTTTTGTTTTTTTTTTTTTG
14568067 TTTTTGTTTCTTTGTTTTTTTG
1 TTTTTGTTT-TTT-TTTTTTTG
14568089 TTTTTGTTTTTTTTTTTT
1 TTTTTGTTTTTTTTTTTT
14568107 ACCAAAGCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
18 5 0.10
19 17 0.35
20 9 0.19
21 8 0.17
22 9 0.19
ACGTcount: A:0.04, C:0.01, G:0.10, T:0.84
Consensus pattern (20 bp):
TTTTTGTTTTTTTTTTTTTG
Found at i:14568248 original size:42 final size:42
Alignment explanation
Indices: 14568113--14568518 Score: 582
Period size: 42 Copynumber: 10.1 Consensus size: 42
14568103 TTTTACCAAA
14568113 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
14568154 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* *
14568195 GCTCCTTTAAACAGAGGCACCACGACTTTGAAAAATTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
14568237 GCTCCTCTAAACAGAGGCACCACGACTTTG--AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
14568277 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
14568319 GCTCCTCT--A-A-AGGC-CCACGAC-TTG--AAAGT-AATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
**
14568352 G--CC-CT--A-A-AGGCACCACGACTTTGGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* *
14568387 GCTCCTCTAAACAGAGACACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
14568429 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* * *
14568471 GCTCATCTAAACAGAGGCACCATGACTTTGAAAAATTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
14568513 GCTCCT
1 GCTCCT
14568519 TGGCAATCAT
Statistics
Matches: 337, Mismatches: 13, Indels: 29
0.89 0.03 0.08
Matches are distributed among these distances:
30 8 0.02
31 9 0.03
32 3 0.01
33 5 0.01
34 9 0.03
35 5 0.01
36 3 0.01
37 9 0.03
38 6 0.02
39 1 0.00
40 41 0.12
41 76 0.23
42 162 0.48
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
Found at i:14568275 original size:82 final size:83
Alignment explanation
Indices: 14568113--14568518 Score: 585
Period size: 82 Copynumber: 5.1 Consensus size: 83
14568103 TTTTACCAAA
14568113 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA-TAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
14568177 GACTTTGAAAAATAAATT
66 GACTTTGAAAAGTAAATT
* *
14568195 GCTCCTTTAAACAGAGGCACCACGACTTTGAAAAATTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
14568260 GACTTTG-AAAGTAAATT
66 GACTTTGAAAAGTAAATT
*
14568277 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATTAAATTGCTCCTCT--A-A-AGGC-CCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
14568337 GAC-TTG-AAAGT-AATT
66 GACTTTGAAAAGTAAATT
** *
14568352 G--CC-CT--A-A-AGGCACCACGACTTTGGGAAAGTAAATTGCTCCTCTAAACAGAGACACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
14568410 GACTTTGGAAAAGTAAATT
66 GACTTT-GAAAAGTAAATT
* *
14568429 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCATCTAAACAGAGGCACCAT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
14568494 GACTTTGAAAAATTAAATT
66 GACTTTG-AAAAGTAAATT
14568513 GCTCCT
1 GCTCCT
14568519 TGGCAATCAT
Statistics
Matches: 293, Mismatches: 13, Indels: 34
0.86 0.04 0.10
Matches are distributed among these distances:
68 33 0.11
69 1 0.00
70 2 0.01
71 1 0.00
72 5 0.02
73 9 0.03
74 2 0.01
75 6 0.02
76 13 0.04
77 12 0.04
78 4 0.01
79 3 0.01
80 3 0.01
82 93 0.32
83 38 0.13
84 68 0.23
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
GACTTTGAAAAGTAAATT
Found at i:14568785 original size:16 final size:16
Alignment explanation
Indices: 14568764--14568802 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
14568754 ATGCTATGCA
14568764 AATGCATATGAATTTC
1 AATGCATATGAATTTC
14568780 AATGCATATGAATTTC
1 AATGCATATGAATTTC
14568796 AATGCAT
1 AATGCAT
14568803 GCTATGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (16 bp):
AATGCATATGAATTTC
Found at i:14569771 original size:12 final size:12
Alignment explanation
Indices: 14569749--14569794 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
14569739 TTTTTTATTT
14569749 TTTTATTTTCTCA
1 TTTT-TTTTCTCA
14569762 TTTTTTTTCTCA
1 TTTTTTTTCTCA
* *
14569774 TTTTTTTCCT-T
1 TTTTTTTTCTCA
14569785 TTTTTTTTCT
1 TTTTTTTTCT
14569795 TTTCTCATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 9 0.30
12 17 0.57
13 4 0.13
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTTCTCA
Found at i:14569776 original size:28 final size:27
Alignment explanation
Indices: 14569738--14569806 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 27
14569728 TTTGAATCTC
14569738 TTTTTT-T-ATTTTTTT-ATTTTCTCATT
1 TTTTTTCTCATTTTTTTCATTTT-T-ATT
* *
14569764 TTTTTTCTCATTTTTTTCCTTTTTTTT
1 TTTTTTCTCATTTTTTTCATTTTTATT
14569791 TTCTTTTCTCATTTTT
1 TT-TTTTCTCATTTTT
14569807 CATCCATTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 6 0.16
27 5 0.14
28 22 0.59
29 4 0.11
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (27 bp):
TTTTTTCTCATTTTTTTCATTTTTATT
Found at i:14573983 original size:118 final size:117
Alignment explanation
Indices: 14573652--14574000 Score: 549
Period size: 117 Copynumber: 3.0 Consensus size: 117
14573642 TGTGTAGGAA
*
14573652 AAATTGATACTTTCAACTTTTTCTCAAAAATCCTTTTTTTGAAAATTTATTTTTTAAGGAAAATT
1 AAATTGATACTTTCAACTTTTTCTCAAAAA-CC-CTTTTT-AAAATTTATTTTTTAAGGAAAATT
* *
14573717 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAA-TTTGATTTTTAAGGG
63 GATACTTTCAACTTTTCCCTAAAAATGTTTTTTTGGAAATTTTGATTTTTAAGAG
* * *
14573771 AAATTGATACTTTCAATTTTTTCTCAAAAACCCTTTTTAAAATTTA-TTTTTAAGGAGAATTGGT
1 AAATTGATACTTTCAACTTTTTCTCAAAAACCCTTTTTAAAATTTATTTTTTAAGGAAAATTGAT
14573835 ACTTTCAACTTTTCCCTAAAAATGTTTTTTTTGGAAATTTTGATTTTTAAGAG
66 ACTTTCAACTTTTCCCTAAAAATG-TTTTTTTGGAAATTTTGATTTTTAAGAG
* *
14573888 AAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTAAAATTTATTTTTTAAAGAAAATTGAT
1 AAATTGATACTTTCAACTTTTTCTCAAAAACCCTTTTTAAAATTTATTTTTTAAGGAAAATTGAT
* * *
14573953 ACTTTCAACTTTTTCCTAAAAATGTTTTTTTGGAATTTTTTATTTTTA
66 ACTTTCAACTTTTCCCTAAAAATGTTTTTTTGGAAATTTTGATTTTTA
14574001 TTTAAAGAAA
Statistics
Matches: 213, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
115 39 0.18
116 20 0.09
117 85 0.40
118 40 0.19
119 29 0.14
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.48
Consensus pattern (117 bp):
AAATTGATACTTTCAACTTTTTCTCAAAAACCCTTTTTAAAATTTATTTTTTAAGGAAAATTGAT
ACTTTCAACTTTTCCCTAAAAATGTTTTTTTGGAAATTTTGATTTTTAAGAG
Found at i:14574060 original size:27 final size:27
Alignment explanation
Indices: 14574018--14574098 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
14574008 AAAATAGAAT
* * * *
14574018 AAAAAAATACATAAAAATGAAATAATA
1 AAAAAAATAAAGAAAAATAAAAAAATA
*
14574045 AAAAAAATAAAGAAAAGTAAAAAAATA
1 AAAAAAATAAAGAAAAATAAAAAAATA
* * *
14574072 AAAAATA-AAATAAAGATAAAAAGAATA
1 AAAAAAATAAAGAAAAATAAAAA-AATA
14574099 TTAAATAAAC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 12 0.27
27 32 0.73
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (27 bp):
AAAAAAATAAAGAAAAATAAAAAAATA
Found at i:14574080 original size:25 final size:27
Alignment explanation
Indices: 14574003--14574107 Score: 78
Period size: 25 Copynumber: 4.0 Consensus size: 27
14573993 TATTTTTATT
* *
14574003 TAAAGA-AAATAGAATAAAAAA-ATACA
1 TAAAGATAAAAAGAATAAAAAATA-AAA
* *
14574029 TAAAAATGAAATAATAA-AAAAAATAAAGA
1 TAAAGAT-AAA-AAGAATAAAAAATAAA-A
14574058 -AAAG-TAAAAA-AATAAAAAATAAAA
1 TAAAGATAAAAAGAATAAAAAATAAAA
**
14574082 TAAAGATAAAAAGAATATTAAATAAA
1 TAAAGATAAAAAGAATAAAAAATAAA
14574108 CCTAATCTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
24 3 0.05
25 16 0.25
26 14 0.22
27 12 0.19
28 13 0.21
29 5 0.08
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.17
Consensus pattern (27 bp):
TAAAGATAAAAAGAATAAAAAATAAAA
Found at i:14574093 original size:12 final size:11
Alignment explanation
Indices: 14574015--14574093 Score: 52
Period size: 12 Copynumber: 6.7 Consensus size: 11
14574005 AAGAAAATAG
14574015 AATAAAAAAATA
1 AATAAAAAAA-A
* **
14574027 CATAAAAATGA
1 AATAAAAAAAA
14574038 AATAATAAAAAA
1 AATAA-AAAAAA
14574050 AATAAAGAAAAGTA
1 AATAAA-AAAA--A
14574064 AA-AAAATAAAA
1 AATAAAA-AAAA
*
14574075 AATAAAATAAA
1 AATAAAAAAAA
*
14574086 GATAAAAA
1 AATAAAAA
14574094 GAATATTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
11 18 0.35
12 25 0.48
13 6 0.12
14 3 0.06
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.15
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:14575978 original size:80 final size:80
Alignment explanation
Indices: 14575875--14576034 Score: 239
Period size: 80 Copynumber: 2.0 Consensus size: 80
14575865 AGTCTAAGTT
* * * * *
14575875 ACTTATTTTAGACTTCAGGTCCATCCAGGTCATTTTGTTTTGGATTTTAGCCTATGTCAAATCCT
1 ACTTATTTCAAACTTCAAGTCCATCCAGGTCATTTTATTTTGGATTTCAGCCTATGTCAAATCCT
14575940 TCTTCAATTCAGTCC
66 TCTTCAATTCAGTCC
* * *
14575955 ACTTATTTCAAACTTCAATTCCATCTAGGTCATTTTATTTTGGATTTCAGCCTATGTCAGATCCT
1 ACTTATTTCAAACTTCAAGTCCATCCAGGTCATTTTATTTTGGATTTCAGCCTATGTCAAATCCT
*
14576020 TCTTCGATTCAGTCC
66 TCTTCAATTCAGTCC
14576035 TTAGCCTATG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 71 1.00
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.42
Consensus pattern (80 bp):
ACTTATTTCAAACTTCAAGTCCATCCAGGTCATTTTATTTTGGATTTCAGCCTATGTCAAATCCT
TCTTCAATTCAGTCC
Found at i:14576145 original size:85 final size:85
Alignment explanation
Indices: 14576039--14576460 Score: 375
Period size: 85 Copynumber: 5.0 Consensus size: 85
14576029 CAGTCCTTAG
* * *
14576039 CCTATGCCAGATCTTTTTTTGGTTTAATCCAAGTTACTTATTTTAGATTTTGGTTCCATCCAGGT
1 CCTATGCCAAATCTTTCTTTGGTTTAATCCAAGTTACTTATTTTAGACTTTGGTTCCATCCAGGT
*
14576104 CATTTTGTTTTGGATTTTGA
66 CATTTTGTTTTAGATTTTGA
* * * * * ** *
14576124 CCAATGCCAAATCTTTCTTTGGTTTATTCCAAGTTACTTATTTTAGACATCGGATCCATTTAAGT
1 CCTATGCCAAATCTTTCTTTGGTTTAATCCAAGTTACTTATTTTAGACTTTGGTTCCATCCAGGT
* * *
14576189 TATTTTGTTTTGGATTTTGG
66 CATTTTGTTTTAGATTTTGA
* * * * * *
14576209 CCTATGCCAAATCCTTCTTCGGTTTAGTCCAAGTTACTTATTTTAGGCTTTGGTTCCGTCCAGAT
1 CCTATGCCAAATCTTTCTTTGGTTTAATCCAAGTTACTTATTTTAGACTTTGGTTCCATCCAGGT
* *
14576274 CATTTTGTTTCAGA-TTTCA
66 CATTTTGTTTTAGATTTTGA
* * * * * * * * *
14576293 GCTTATGCCAAATCTTTTTTTGGTTCAGTCTAAGTTACTTATCTTT-GA-TTTCGATTTCGTTCA
1 -CCTATGCCAAATCTTTCTTTGGTTTAATCCAAGTTACTTAT-TTTAGACTTT-GGTTCCATCCA
* * **
14576356 GGTCATGTTGTTTTAGAATTCAA
63 GGTCATTTTGTTTTAGATTTTGA
* * * * * * * **
14576379 CCTATGCCAAATCCCTT-TTTAGTTCAATTCAAGTTATTTATTTTACACTTTAGTTCCATCCATT
1 CCTATGCCAAAT-CTTTCTTTGGTTTAATCCAAGTTACTTATTTTAGACTTTGGTTCCATCCAGG
14576443 TCATTTTGTTTTAGATTT
65 TCATTTTGTTTTAGATTT
14576461 CAGCCTATGC
Statistics
Matches: 267, Mismatches: 63, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
84 9 0.03
85 246 0.92
86 12 0.04
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (85 bp):
CCTATGCCAAATCTTTCTTTGGTTTAATCCAAGTTACTTATTTTAGACTTTGGTTCCATCCAGGT
CATTTTGTTTTAGATTTTGA
Found at i:14576369 original size:170 final size:169
Alignment explanation
Indices: 14576037--14576472 Score: 455
Period size: 170 Copynumber: 2.6 Consensus size: 169
14576027 TTCAGTCCTT
* * *
14576037 AGCCTATGCCAGATCTTTTTTTGGTTTAATCCAAGTTACTTATTTTAGATTTTGGTTCCATCCAG
1 AGCCTATGCCAAATC-CTTTTTGGTTTAATCCAAGTTACTTATTTTAGACTTTGGTTCCATCCAG
* * * * * *
14576102 GTCATTTTGTTTTGGATTT-TGACCAATGCCAAATCTTTCTTTGGTTTATTCCAAGTTACTTATT
65 ATCATTTTGTTTTAGATTTCAG-CCTATGCCAAATCTTTCTTTGGTTCAGTCCAAGTTACTTATT
* * * * * *
14576166 TTAGACATCGGATCCATTTAAGTTATTTTGTTTTGGATTTT
129 TTAGACATCGGATCCATTCAAGTCATGTTGTTTTAGAATTC
* * * * *
14576207 GGCCTATGCCAAATCCTTCTTCGGTTTAGTCCAAGTTACTTATTTTAGGCTTTGGTTCCGTCCAG
1 AGCCTATGCCAAATCCTT-TTTGGTTTAATCCAAGTTACTTATTTTAGACTTTGGTTCCATCCAG
* * * *
14576272 ATCATTTTGTTTCAGATTTCAGCTTATGCCAAATCTTTTTTTGGTTCAGTCTAAGTTACTTATCT
65 ATCATTTTGTTTTAGATTTCAGCCTATGCCAAATCTTTCTTTGGTTCAGTCCAAGTTACTTAT-T
** * * *
14576337 TT-GATTTC-GATTTCGTTCAGGTCATGTTGTTTTAGAATTC
129 TTAGACATCGGA-TCCATTCAAGTCATGTTGTTTTAGAATTC
* * * * * * * *
14576377 AACCTATGCCAAATCCCTTTTTAGTTCAATTCAAGTTATTTATTTTACACTTTAGTTCCATCCAT
1 AGCCTATGCCAAAT-CCTTTTTGGTTTAATCCAAGTTACTTATTTTAGACTTTGGTTCCATCCAG
*
14576442 TTCATTTTGTTTTAGATTTCAGCCTATGCCA
65 ATCATTTTGTTTTAGATTTCAGCCTATGCCA
14576473 GATCCATCTT
Statistics
Matches: 216, Mismatches: 45, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
169 4 0.02
170 204 0.94
171 8 0.04
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.46
Consensus pattern (169 bp):
AGCCTATGCCAAATCCTTTTTGGTTTAATCCAAGTTACTTATTTTAGACTTTGGTTCCATCCAGA
TCATTTTGTTTTAGATTTCAGCCTATGCCAAATCTTTCTTTGGTTCAGTCCAAGTTACTTATTTT
AGACATCGGATCCATTCAAGTCATGTTGTTTTAGAATTC
Found at i:14576679 original size:14 final size:14
Alignment explanation
Indices: 14576668--14576694 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14576658 AAGGATAACA
14576668 AAATAAAAATAAAT
1 AAATAAAAATAAAT
14576682 AAATAAAAATAAA
1 AAATAAAAATAAA
14576695 GTTTTAGTCC
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:14577619 original size:56 final size:57
Alignment explanation
Indices: 14577559--14577820 Score: 327
Period size: 57 Copynumber: 4.6 Consensus size: 57
14577549 AATTATTTTT
* *
14577559 AGGAAAAGTTGGAAGTATCAATTTTCTTTGAAAATAAAATTTC-AAAAAATGCTTTA
1 AGGAAAAATTGAAAGTATCAATTTTCTTTGAAAATAAAATTTCAAAAAAATGCTTTA
* *
14577615 AGGAAAAATTGTAAGTATCAATTTT-TCTTGAAGATAAAATTTCAAAAAAATGCTTTA
1 AGGAAAAATTGAAAGTATCAATTTTCT-TTGAAAATAAAATTTCAAAAAAATGCTTTA
* * *
14577672 A-GAAAAAGTTGAAAGTAGCAATTTTCCTTAAAAATAAAAATTTCAAAAAAAATTGCTTTA
1 AGGAAAAA-TTGAAAGTATCAATTTTCTTTGAAAAT-AAAATTTC-AAAAAAA-TGCTTTA
* * *
14577732 AGGAAAAATTAAAAGTAT-AATTTTCTTT-TAAATAAAATTTCAAAAAAAAATGTTTTA
1 AGGAAAAATTGAAAGTATCAATTTTCTTTGAAAATAAAATTTC--AAAAAAATGCTTTA
*
14577789 AGGAAAAATTGAAAGTATCAATTTTCCTTGAA
1 AGGAAAAATTGAAAGTATCAATTTTCTTTGAA
14577821 TAAAGAATTA
Statistics
Matches: 179, Mismatches: 16, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
55 1 0.01
56 44 0.25
57 66 0.37
58 29 0.16
59 17 0.09
60 16 0.09
61 6 0.03
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (57 bp):
AGGAAAAATTGAAAGTATCAATTTTCTTTGAAAATAAAATTTCAAAAAAATGCTTTA
Found at i:14577789 original size:117 final size:115
Alignment explanation
Indices: 14577542--14577817 Score: 348
Period size: 117 Copynumber: 2.4 Consensus size: 115
14577532 TTTTAAATAA
* * * * * * *
14577542 CAAAAAAAATTATTTTTAGGAAAAGTTGGAAGTATCAATTTTCTTTGAAAATAAAATTTCAAAAA
1 CAAAAAAAAATGTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAA
**
14577607 ATGCTTTAAGGAAAAATTGTAAGTATCAATTTTTCTTGAAGATAAAATTT
66 ATGCTTTAAGGAAAAATTAAAAGTATCAATTTTTCTTGAAGATAAAATTT
* *
14577657 C--AAAAAAATGCTTTAAGAAAAAGTTGAAAGTAGCAATTTTCCTTAAAAATAAAAATTTCAAAA
1 CAAAAAAAAATGTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTC--AA
*
14577720 AAAATTGCTTTAAGGAAAAATTAAAAGTAT-AA-TTTTCTTTTAA-ATAAAATTT
63 AAAA-TGCTTTAAGGAAAAATTAAAAGTATCAATTTTTC-TTGAAGATAAAATTT
14577772 CAAAAAAAAATGTTTTAAGGAAAAA-TTGAAAGTATCAATTTTCCTT
1 CAAAAAAAAATGTTTTAA-GAAAAAGTTGAAAGTATCAATTTTCCTT
14577818 GAATAAAGAA
Statistics
Matches: 139, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
113 40 0.29
114 8 0.06
115 16 0.12
116 12 0.09
117 57 0.41
118 6 0.04
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (115 bp):
CAAAAAAAAATGTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAA
ATGCTTTAAGGAAAAATTAAAAGTATCAATTTTTCTTGAAGATAAAATTT
Found at i:14578585 original size:22 final size:22
Alignment explanation
Indices: 14578553--14578596 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14578543 ATTAGTATTT
*
14578553 ATAAAACTCAAGTTCGACTCAA
1 ATAAAACTCAAATTCGACTCAA
*
14578575 ATAAAATTCAAATTCGACTCAA
1 ATAAAACTCAAATTCGACTCAA
14578597 TTATTATCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.25
Consensus pattern (22 bp):
ATAAAACTCAAATTCGACTCAA
Found at i:14578715 original size:10 final size:10
Alignment explanation
Indices: 14578702--14578731 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
14578692 ATCAAGCTTT
14578702 TATATTTTAA
1 TATATTTTAA
14578712 TATATTTTAA
1 TATATTTTAA
14578722 T-TATTTTAA
1 TATATTTTAA
14578731 T
1 T
14578732 TAATAAAATA
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:14578728 original size:9 final size:9
Alignment explanation
Indices: 14578704--14578733 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
14578694 CAAGCTTTTA
14578704 TATTTTAAT
1 TATTTTAAT
14578713 ATATTTTAAT
1 -TATTTTAAT
14578723 TATTTTAAT
1 TATTTTAAT
14578732 TA
1 TA
14578734 ATAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:14584852 original size:30 final size:30
Alignment explanation
Indices: 14584818--14584876 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
14584808 ATCGTTTTAA
14584818 TCTTCAAATTTAAAATCAAACTTAAACTCG
1 TCTTCAAATTTAAAATCAAACTTAAACTCG
14584848 TCTTCAAATTTAAAATCAAACTTAAACTC
1 TCTTCAAATTTAAAATCAAACTTAAACTC
14584877 AAACTTGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (30 bp):
TCTTCAAATTTAAAATCAAACTTAAACTCG
Found at i:14600631 original size:111 final size:111
Alignment explanation
Indices: 14600437--14600658 Score: 417
Period size: 111 Copynumber: 2.0 Consensus size: 111
14600427 ATCAAGTGGT
14600437 TCTGATTTTACAGGCTTTAAGTTAACCATGTTCAGCTTGCTGACAGTCACTGACTCTCCAGGTGA
1 TCTGATTTTACAGGCTTTAAGTTAACCATGTTCAGCTTGCTGACAGTCACTGACTCTCCAGGTGA
*
14600502 GCTGATATTTGCAACAACTTCGCGCGAATCCACTTTAACTAATGAG
66 GCTGATATTTGCAACAACTTCGCACGAATCCACTTTAACTAATGAG
*
14600548 TCTGATTTTACAGGCTTTAAGTTAACCATGTTCAGCTTGCTGACAGTCACTGATTCTCCAGGTGA
1 TCTGATTTTACAGGCTTTAAGTTAACCATGTTCAGCTTGCTGACAGTCACTGACTCTCCAGGTGA
*
14600613 GCTGATATTTGCAACAACTTCGCACGAATCCACTTTAACTGATGAG
66 GCTGATATTTGCAACAACTTCGCACGAATCCACTTTAACTAATGAG
14600659 CCAGAAGGTT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 108 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (111 bp):
TCTGATTTTACAGGCTTTAAGTTAACCATGTTCAGCTTGCTGACAGTCACTGACTCTCCAGGTGA
GCTGATATTTGCAACAACTTCGCACGAATCCACTTTAACTAATGAG
Found at i:14607395 original size:17 final size:18
Alignment explanation
Indices: 14607363--14607400 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
14607353 GTCATAATGT
*
14607363 TTTAGTCACGAGGGAGAA
1 TTTAGTCACGAAGGAGAA
*
14607381 TTTAGT-ACGAAGGAGGA
1 TTTAGTCACGAAGGAGAA
14607398 TTT
1 TTT
14607401 TTGTGCCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (18 bp):
TTTAGTCACGAAGGAGAA
Found at i:14608199 original size:23 final size:22
Alignment explanation
Indices: 14608173--14608225 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
14608163 TACATTGACT
* *
14608173 CAAACATAATATAATAATATATA
1 CAAA-ATAATATAAAAAAATATA
14608196 CAAATATAATATAAAAAAATATA
1 CAAA-ATAATATAAAAAAATATA
14608219 -AAAATAA
1 CAAAATAA
14608226 CATTATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.15
22 3 0.11
23 20 0.74
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (22 bp):
CAAAATAATATAAAAAAATATA
Found at i:14608206 original size:15 final size:15
Alignment explanation
Indices: 14608186--14608219 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14608176 ACATAATATA
* *
14608186 ATAATATATACAAAT
1 ATAATATAAAAAAAT
14608201 ATAATATAAAAAAAT
1 ATAATATAAAAAAAT
14608216 ATAA
1 ATAA
14608220 AAATAACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAATATAAAAAAAT
Found at i:14612039 original size:121 final size:121
Alignment explanation
Indices: 14611825--14612057 Score: 337
Period size: 121 Copynumber: 1.9 Consensus size: 121
14611815 TTCTGCATCA
* * * *
14611825 TTTTATCTTGTTGCTTTCCATTCCTCTTTCTCATTGTTGTCCTAGATTCATCTAGTGGAGTCTGT
1 TTTTATCTTGTTACTTCCCACTCCTCTTTCCCATTGTTGTCCTAGATTCATCTAGTGGAGTCTGT
* *
14611890 TAGTCAATATTGTTTAATCATTGAATCTGATTT-ATCTTGCCATTTAGTTTGTATCC
66 TAGTCAATATTGTTGAATCATTGAATCTGATTTGA-CTTGCAATTTAGTTTGTATCC
* *
14611946 TTTTATCTTGTTACTTCCCACTCCTCTTTCCCATTGTTGTCCTAGACTTTAT-TTGTGGAGTCTG
1 TTTTATCTTGTTACTTCCCACTCCTCTTTCCCATTGTTGTCCTAGA-TTCATCTAGTGGAGTCTG
*
14612010 TTGGTCAATATTGTTCGAA-CATTGAATCTGATTTGACTTGCAATTTAG
65 TTAGTCAATATTGTT-GAATCATTGAATCTGATTTGACTTGCAATTTAG
14612058 GTGCCCCGTG
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
121 93 0.93
122 7 0.07
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (121 bp):
TTTTATCTTGTTACTTCCCACTCCTCTTTCCCATTGTTGTCCTAGATTCATCTAGTGGAGTCTGT
TAGTCAATATTGTTGAATCATTGAATCTGATTTGACTTGCAATTTAGTTTGTATCC
Found at i:14615727 original size:22 final size:22
Alignment explanation
Indices: 14615699--14615740 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14615689 AATACTGGCA
14615699 GTAAAATGTAAACATTAGTGAG
1 GTAAAATGTAAACATTAGTGAG
* *
14615721 GTAAAATGTGAACCTTAGTG
1 GTAAAATGTAAACATTAGTG
14615741 CTGTAGACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (22 bp):
GTAAAATGTAAACATTAGTGAG
Found at i:14619322 original size:2 final size:2
Alignment explanation
Indices: 14619315--14619341 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14619305 AATCCATGAA
14619315 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
14619342 TATATATAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:14622329 original size:24 final size:23
Alignment explanation
Indices: 14622302--14622356 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
14622292 TATATATAAT
14622302 TTTTTAAAAATTTTAATTATATCA
1 TTTTTAAAAATTTT-ATTATATCA
* * *
14622326 TTTTT-ATAATTTTTTTATATTA
1 TTTTTAAAAATTTTATTATATCA
*
14622348 TATTTAAAA
1 TTTTTAAAA
14622357 TTGTAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 11 0.44
23 9 0.36
24 5 0.20
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTTAAAAATTTTATTATATCA
Found at i:14630007 original size:16 final size:16
Alignment explanation
Indices: 14629986--14630017 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14629976 AACCATGACC
*
14629986 TTTCATCGCTTTCTCT
1 TTTCATCCCTTTCTCT
14630002 TTTCATCCCTTTCTCT
1 TTTCATCCCTTTCTCT
14630018 AACCTTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.34, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTCATCCCTTTCTCT
Found at i:14633305 original size:24 final size:26
Alignment explanation
Indices: 14633267--14633314 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
14633257 CTATAACTTA
*
14633267 AATATAAAAAATTAAGTTT-TTTTAT
1 AATATAAAAAATTAAATTTATTTTAT
14633292 AATAT-AAAAATTAAATTTATTTT
1 AATATAAAAAATTAAATTTATTTT
14633315 TACATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
AATATAAAAAATTAAATTTATTTTAT
Found at i:14633594 original size:7 final size:7
Alignment explanation
Indices: 14633582--14633653 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
14633572 ATCAATTAAA
14633582 TTAAATT
1 TTAAATT
14633589 TTAAA-T
1 TTAAATT
*
14633595 TTAATTT
1 TTAAATT
14633602 TTAAATT
1 TTAAATT
*
14633609 TTAAAATA
1 TT-AAATT
14633617 TTATAA--
1 TTA-AATT
14633623 TTAAATT
1 TTAAATT
**
14633630 AAAAATT
1 TTAAATT
*
14633637 TTTAATT
1 TTAAATT
*
14633644 TTGAATT
1 TTAAATT
14633651 TTA
1 TTA
14633654 TAAAAATAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
5 2 0.04
6 8 0.16
7 32 0.64
8 8 0.16
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (7 bp):
TTAAATT
Found at i:14633598 original size:13 final size:13
Alignment explanation
Indices: 14633577--14633609 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
14633567 TATTAATCAA
14633577 TTAAA-TTAAATT
1 TTAAATTTAAATT
*
14633589 TTAAATTTAATTT
1 TTAAATTTAAATT
14633602 TTAAATTT
1 TTAAATTT
14633610 TAAAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTAAATTTAAATT
Found at i:14633799 original size:12 final size:12
Alignment explanation
Indices: 14633784--14633809 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14633774 TATTAATCAA
14633784 TTAAATTTAATT
1 TTAAATTTAATT
14633796 TTAAATTTAATT
1 TTAAATTTAATT
14633808 TT
1 TT
14633810 TATATTTTAA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAAATTTAATT
Found at i:14633947 original size:208 final size:208
Alignment explanation
Indices: 14633523--14634146 Score: 1127
Period size: 208 Copynumber: 3.0 Consensus size: 208
14633513 GAATTTTTTT
* *
14633523 TAAGTTATCTCTTAAATTAAGGTTATT-AGTTGAGCTAAAAAATTTATTAATCAATTAAATTAAA
1 TAAGTTATCTCTTAAATTAAGGTTATTCA-TTGAGGTAAAAAATTTATTAATCAATTAAATTTAA
* *
14633587 TTTTAAATTTAATTTTTAAATTTTAAAATATTATAATTAAATTAAAAATTTTT--AATTTTGAAT
65 TTTTAAATTTAATTTTTATATTTTAAAATATTATAATTAAATT-AAATTTTTTAAAATTTTGAAT
14633650 TTTATAAAAATAATTATAAAATTAAGTTAATTTGATGAAAATCAATAAAAATAATTATTTTGGGA
129 TTTATAAAAATAATTATAAAATTAAGTTAATTTGATGAAAATCAATAAAAATAATTATTTTGGGA
14633715 GAAAAGTGTTTAATA
194 GAAAAGTGTTTAATA
14633730 TAAGTTATCTCTTAAATTAAGGTTATTCATTGAGGTAAAAAATTTATTAATCAATTAAATTTAAT
1 TAAGTTATCTCTTAAATTAAGGTTATTCATTGAGGTAAAAAATTTATTAATCAATTAAATTTAAT
14633795 TTTAAATTTAATTTTTATATTTTAAAATATTATAATTAAATTAAATTTTTTAAAATTTTGAATTT
66 TTTAAATTTAATTTTTATATTTTAAAATATTATAATTAAATTAAATTTTTTAAAATTTTGAATTT
14633860 TATAAAAATAATTATAAAATTAAGTTAATTTGATGAAAATCAATAAAAATAATTATTTTGGGAGA
131 TATAAAAATAATTATAAAATTAAGTTAATTTGATGAAAATCAATAAAAATAATTATTTTGGGAGA
14633925 AAAGTGTTTAATA
196 AAAGTGTTTAATA
14633938 TAAGTTATCTCTTAAATTAAGGTTATTCATTGAGGTAAAAAATTTATTAATCAATTAAATTTAAT
1 TAAGTTATCTCTTAAATTAAGGTTATTCATTGAGGTAAAAAATTTATTAATCAATTAAATTTAAT
14634003 TTTAAATTTAATTTTTATATTTTAAAATATTATAATTAAATTAAATTTTTTAAAATTTTGAATTT
66 TTTAAATTTAATTTTTATATTTTAAAATATTATAATTAAATTAAATTTTTTAAAATTTTGAATTT
*
14634068 TATAAAAATAATTATAAAATTAAGTTAATTTTATGAAAATCAATAAAAA-AA--A-TTTGGGAGA
131 TATAAAAATAATTATAAAATTAAGTTAATTTGATGAAAATCAATAAAAATAATTATTTTGGGAGA
*
14634129 AAAGTATTTAATA
196 AAAGTGTTTAATA
14634142 TAAGT
1 TAAGT
14634147 GGTTCAATTT
Statistics
Matches: 408, Mismatches: 6, Indels: 9
0.96 0.01 0.02
Matches are distributed among these distances:
204 26 0.06
205 1 0.00
206 8 0.02
207 104 0.25
208 269 0.66
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (208 bp):
TAAGTTATCTCTTAAATTAAGGTTATTCATTGAGGTAAAAAATTTATTAATCAATTAAATTTAAT
TTTAAATTTAATTTTTATATTTTAAAATATTATAATTAAATTAAATTTTTTAAAATTTTGAATTT
TATAAAAATAATTATAAAATTAAGTTAATTTGATGAAAATCAATAAAAATAATTATTTTGGGAGA
AAAGTGTTTAATA
Found at i:14634007 original size:12 final size:12
Alignment explanation
Indices: 14633992--14634017 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14633982 TATTAATCAA
14633992 TTAAATTTAATT
1 TTAAATTTAATT
14634004 TTAAATTTAATT
1 TTAAATTTAATT
14634016 TT
1 TT
14634018 TATATTTTAA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAAATTTAATT
Found at i:14636465 original size:18 final size:18
Alignment explanation
Indices: 14636430--14636469 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14636420 TTAGTTTAAT
14636430 TTTATGTTAATTGATTGA
1 TTTATGTTAATTGATTGA
* * *
14636448 TTTATTTTATTTGTTTGA
1 TTTATGTTAATTGATTGA
14636466 TTTA
1 TTTA
14636470 ATTCTTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (18 bp):
TTTATGTTAATTGATTGA
Found at i:14637390 original size:20 final size:19
Alignment explanation
Indices: 14637358--14637414 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
14637348 TGGTTATATG
14637358 ATTTATTAGTAAAATATTAA
1 ATTTATTAGTAAAAT-TTAA
14637378 ATTT-TTAGTTAAAATTT-A
1 ATTTATTAG-TAAAATTTAA
*
14637396 A-TTATTAAT-AAATTTAA
1 ATTTATTAGTAAAATTTAA
14637413 AT
1 AT
14637415 AAAAAACACA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 6 0.19
17 5 0.16
18 5 0.16
19 6 0.19
20 10 0.31
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (19 bp):
ATTTATTAGTAAAATTTAA
Found at i:14637746 original size:19 final size:19
Alignment explanation
Indices: 14637722--14637772 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
14637712 TTTTAAAAAT
14637722 TTATAATATAATATTTAAA
1 TTATAATATAATATTTAAA
*
14637741 TTATAA-AT-TTA-TT-AA
1 TTATAATATAATATTTAAA
14637756 -T-TAATATAATATTTAAA
1 TTATAATATAATATTTAAA
14637773 AATTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 3 0.12
14 3 0.12
15 4 0.15
16 4 0.15
17 4 0.15
18 2 0.08
19 6 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATAATATAATATTTAAA
Found at i:14637748 original size:27 final size:29
Alignment explanation
Indices: 14637695--14637776 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 29
14637685 AATGAAATAT
*
14637695 TTAATATAGTATTTAAATTTTAAAAATTTA
1 TTAATATAATATTTAAA-TTTAAAAATTTA
*
14637725 -TAATATAATATTTAAA-TTATAAATTTA
1 TTAATATAATATTTAAATTTAAAAATTTA
14637752 TTAAT-TAATA--TAATATTTAAAAATT
1 TTAATATAATATTTAA-ATTTAAAAATT
14637777 ATTTATCCGA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
25 3 0.07
26 1 0.02
27 23 0.50
28 4 0.09
29 15 0.33
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
TTAATATAATATTTAAATTTAAAAATTTA
Found at i:14637943 original size:14 final size:14
Alignment explanation
Indices: 14637907--14637945 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
14637897 CATTATATTA
14637907 TAATTTAA-AA-AT
1 TAATTTAATAATAT
14637919 T-ATTT-ATAATAT
1 TAATTTAATAATAT
14637931 TAATTTAATAATAT
1 TAATTTAATAATAT
14637945 T
1 T
14637946 GAATAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
10 1 0.04
11 6 0.26
12 4 0.17
13 4 0.17
14 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TAATTTAATAATAT
Found at i:14643243 original size:50 final size:50
Alignment explanation
Indices: 14643189--14643286 Score: 160
Period size: 50 Copynumber: 2.0 Consensus size: 50
14643179 GGTTTGCATT
* *
14643189 TTGGATTTATCTAACTAATTAATCTTTATATTTTATGCTGTAATTAGTTA
1 TTGGATTTATCTAACTAATTAATCTTTACATTTTATGCTGGAATTAGTTA
* *
14643239 TTGGATTTATCTAACTACTTAATCTTTGCATTTTATGCTGGAATTAGT
1 TTGGATTTATCTAACTAATTAATCTTTACATTTTATGCTGGAATTAGT
14643287 CTGTTTTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (50 bp):
TTGGATTTATCTAACTAATTAATCTTTACATTTTATGCTGGAATTAGTTA
Found at i:14645557 original size:15 final size:15
Alignment explanation
Indices: 14645527--14645583 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
14645517 CCTGCAGAAA
14645527 GACACAAAT-GCTAAG
1 GACACAAATGGC-AAG
*
14645542 GAAACAAATGGCAAG
1 GACACAAATGGCAAG
* * *
14645557 GACACGAACGACAAG
1 GACACAAATGGCAAG
14645572 GACACAAATGGC
1 GACACAAATGGC
14645584 GTGGAAGTTC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
15 31 0.94
16 2 0.06
ACGTcount: A:0.47, C:0.21, G:0.25, T:0.07
Consensus pattern (15 bp):
GACACAAATGGCAAG
Found at i:14646203 original size:15 final size:15
Alignment explanation
Indices: 14646183--14646213 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14646173 AAATGGGTTC
14646183 AAACTAAACTTGATA
1 AAACTAAACTTGATA
14646198 AAACTAAACTTGATA
1 AAACTAAACTTGATA
14646213 A
1 A
14646214 TTCGTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (15 bp):
AAACTAAACTTGATA
Found at i:14646400 original size:25 final size:26
Alignment explanation
Indices: 14646349--14646401 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
14646339 TTTATTTATA
* *
14646349 ATTTTTTTTATAATTTTAAATTGTCATG
1 ATTTTTATTAAAATTTTAAA-T-TCATG
14646377 ATTTTTATTAAAATTTTAAA-TCATG
1 ATTTTTATTAAAATTTTAAATTCATG
14646402 TCGTATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 5 0.22
28 18 0.78
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.57
Consensus pattern (26 bp):
ATTTTTATTAAAATTTTAAATTCATG
Found at i:14650512 original size:61 final size:61
Alignment explanation
Indices: 14650439--14650555 Score: 207
Period size: 61 Copynumber: 1.9 Consensus size: 61
14650429 CATGATTCTT
* *
14650439 TATTTCTACTACTATTAACACTCAGGTTAAAGAGAAAGACTTTAAATTTTTAGCAATTCCC
1 TATTTCTACTACTATTAACACTAAGGTTAAAAAGAAAGACTTTAAATTTTTAGCAATTCCC
*
14650500 TATTTCTACTACTATTAACAGTAAGGTTAAAAAGAAAGACTTTAAATTTTTAGCAA
1 TATTTCTACTACTATTAACACTAAGGTTAAAAAGAAAGACTTTAAATTTTTAGCAA
14650556 ATAAATTAGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (61 bp):
TATTTCTACTACTATTAACACTAAGGTTAAAAAGAAAGACTTTAAATTTTTAGCAATTCCC
Found at i:14651619 original size:19 final size:21
Alignment explanation
Indices: 14651597--14651641 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
14651587 TTATTGTCAT
14651597 AAATTT-TGTTTTA-ATAAAA
1 AAATTTATGTTTTATATAAAA
* *
14651616 AAATTTATTTTTTATATATAA
1 AAATTTATGTTTTATATAAAA
14651637 AAATT
1 AAATT
14651642 AAAAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 6 0.27
21 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AAATTTATGTTTTATATAAAA
Found at i:14654764 original size:2 final size:2
Alignment explanation
Indices: 14654757--14654786 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14654747 TTAAACCCAT
14654757 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
14654787 AAGATAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14654970 original size:32 final size:32
Alignment explanation
Indices: 14654934--14654999 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
14654924 AAAGTGGACA
14654934 TGTAAGGAGAAGACTAACAATTGCCTCCATGG
1 TGTAAGGAGAAGACTAACAATTGCCTCCATGG
14654966 TGTAAGGAGAAGACTAACAATTGCCTCCATGG
1 TGTAAGGAGAAGACTAACAATTGCCTCCATGG
14654998 TG
1 TG
14655000 ATCTAATGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (32 bp):
TGTAAGGAGAAGACTAACAATTGCCTCCATGG
Found at i:14661275 original size:22 final size:22
Alignment explanation
Indices: 14661212--14661277 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
14661202 ATTTTCATAG
* * *
14661212 AATTTTTAAAAAAATTGATTTT
1 AATTTTTTATAAAATTAATTTT
* * *
14661234 AATGTATT-TAATATTAAATTTT
1 AATTTTTTATAAAATT-AATTTT
14661256 AATTTTTTATAAAATTAATTTT
1 AATTTTTTATAAAATTAATTTT
14661278 TCATAATTTT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
21 5 0.15
22 22 0.67
23 6 0.18
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (22 bp):
AATTTTTTATAAAATTAATTTT
Found at i:14661354 original size:29 final size:29
Alignment explanation
Indices: 14661296--14661354 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
14661286 TTTATTATCA
*
14661296 AAAATTAAAAAAATCATAAAAAATATTTTT
1 AAAATTAAAAAAA-CATAAAAAATAATTTT
* *
14661326 AAAATGTAAAAAAA-ATAAGATATAATTTT
1 AAAAT-TAAAAAAACATAAAAAATAATTTT
14661355 TGGACCTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
29 12 0.48
30 5 0.20
31 8 0.32
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAATTAAAAAAACATAAAAAATAATTTT
Found at i:14668002 original size:16 final size:16
Alignment explanation
Indices: 14667981--14668015 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
14667971 GAATTAGAGT
14667981 TTCATGCTTTCTATCA
1 TTCATGCTTTCTATCA
14667997 TTCATGCTTTCTATCA
1 TTCATGCTTTCTATCA
14668013 TTC
1 TTC
14668016 TTTTACCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.26, G:0.06, T:0.51
Consensus pattern (16 bp):
TTCATGCTTTCTATCA
Found at i:14673673 original size:22 final size:22
Alignment explanation
Indices: 14673630--14673673 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
14673620 ATTTTTTGTC
* *
14673630 CTTAATTCTAGGGATAGAAATA
1 CTTAATTCTAGAGATACAAATA
* *
14673652 CTTAATTTTAGAGATACTAATA
1 CTTAATTCTAGAGATACAAATA
14673674 TAAATATATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:14687214 original size:22 final size:22
Alignment explanation
Indices: 14687186--14687229 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14687176 CTAAATCTTC
*
14687186 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14687208 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14687230 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:14690699 original size:18 final size:18
Alignment explanation
Indices: 14690673--14690707 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14690663 TAATCCATGA
*
14690673 GAACCAGAAGCTTTACCT
1 GAACCAGAAACTTTACCT
*
14690691 GAACTAGAAACTTTACC
1 GAACCAGAAACTTTACC
14690708 CAAAGAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (18 bp):
GAACCAGAAACTTTACCT
Found at i:14690937 original size:23 final size:25
Alignment explanation
Indices: 14690882--14690940 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
14690872 AAAGGGTTCG
* * *
14690882 GCAATGAAGGCCTAAACAGGATTCG
1 GCAATGAAGGCCTAAACAGAAGTCA
14690907 GCAATGAAGGCCTAAA-A-AAGTCA
1 GCAATGAAGGCCTAAACAGAAGTCA
14690930 GCAATGAAGGC
1 GCAATGAAGGC
14690941 TGAAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 14 0.45
24 1 0.03
25 16 0.52
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (25 bp):
GCAATGAAGGCCTAAACAGAAGTCA
Found at i:14691116 original size:22 final size:22
Alignment explanation
Indices: 14691088--14691131 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14691078 CTAAATCTTC
*
14691088 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14691110 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14691132 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:14691747 original size:21 final size:22
Alignment explanation
Indices: 14691721--14691761 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14691711 TAAATGGTTC
14691721 TGAGGAAAATGGTG-CAGTGCA
1 TGAGGAAAATGGTGACAGTGCA
*
14691742 TGAGGAAATTGGTGACAGTG
1 TGAGGAAAATGGTGACAGTG
14691762 ACAGTGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.32, C:0.07, G:0.39, T:0.22
Consensus pattern (22 bp):
TGAGGAAAATGGTGACAGTGCA
Found at i:14694346 original size:34 final size:33
Alignment explanation
Indices: 14694308--14694383 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 33
14694298 TCTGGATATA
* * *
14694308 AATTTTTGATAAGTTTTGTAATTTACCAAAAAT
1 AATTTTTGAAAAATTTTATAATTTACCAAAAAT
* * *
14694341 GAATTTATGAAAAATTTTATAATTTATCATAAAT
1 -AATTTTTGAAAAATTTTATAATTTACCAAAAAT
14694375 AGATTTTTG
1 A-ATTTTTG
14694384 GAAAGCTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
33 1 0.03
34 33 0.97
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (33 bp):
AATTTTTGAAAAATTTTATAATTTACCAAAAAT
Found at i:14697182 original size:21 final size:21
Alignment explanation
Indices: 14697141--14697183 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14697131 TTTCTAGAAG
* *
14697141 CAAAGCAATGGTTTTATCATT
1 CAAAGCAATGGTCTTAGCATT
14697162 CAAA-CAATGGATCTTAGCATT
1 CAAAGCAATGG-TCTTAGCATT
14697183 C
1 C
14697184 TCTAATATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (21 bp):
CAAAGCAATGGTCTTAGCATT
Found at i:14702238 original size:4 final size:4
Alignment explanation
Indices: 14702229--14702262 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
14702219 TGATTAATTG
14702229 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
14702263 TAGATTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:14702449 original size:150 final size:151
Alignment explanation
Indices: 14702173--14702631 Score: 705
Period size: 150 Copynumber: 3.0 Consensus size: 151
14702163 TAAACCCTAG
** * *
14702173 TATGTTTGTATGTATGTATGGCTTTGTTTTTGAAAATAATGAAAATTGATTAATTGGTATGTA-T
1 TATGTTTGTATGTAAATATGGCTTTGTTTTTGAAAATAATGAAAATTGAATAATGGGTATGTACT
* ** *
14702237 GTATGTATGTATGTATGTATGTATGTTAGATTGTTAGTGTATATGGCATGGCATCCATGGATGGA
66 -T-T-T-T-TATTTATGTATGTATGTTAGATTGTTAGTGTATATGGCATAACATCCATGGATGTA
*
14702302 TGTGTGTATGTATATGAGCATTTGAC
126 TGTGTGTATGTATATGAGCATCTGAC
*
14702328 TATGTTTGTATGTAAATATGGCTTT-TTTATGAAAATAATGAAAATTGAATAATGGGTATGTACT
1 TATGTTTGTATGTAAATATGGCTTTGTTTTTGAAAATAATGAAAATTGAATAATGGGTATGTACT
14702392 TTTTTATTTATGTATGTATGTTAGATTGTTAGTGTATATGGCATAACATCCATGGATGTATGTGT
66 TTTTTATTTATGTATGTATGTTAGATTGTTAGTGTATATGGCATAACATCCATGGATGTATGTGT
14702457 GTATGTATATGAGCATCTGAC
131 GTATGTATATGAGCATCTGAC
* *
14702478 TATGTTTGTATGTAAACATGGCTTTGTTTTTGAAAATAATGAAAATTGAATAATGGGTATTTAC-
1 TATGTTTGTATGTAAATATGGCTTTGTTTTTGAAAATAATGAAAATTGAATAATGGGTATGTACT
* *
14702542 --TTT-TTTATGTATGTATGTTAAATTGTTAGTGTATATGGCATTACATCCATGGATGTATGTGT
66 TTTTTATTTATGTATGTATGTTAGATTGTTAGTGTATATGGCATAACATCCATGGATGTATGTGT
14702604 GTATGTATATGAGCATCTGAC
131 GTATGTATATGAGCATCTGAC
14702625 TATGTTT
1 TATGTTT
14702632 ATGTTTACAT
Statistics
Matches: 287, Mismatches: 15, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
147 85 0.30
148 3 0.01
150 101 0.35
151 37 0.13
152 1 0.00
153 1 0.00
154 35 0.12
155 24 0.08
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (151 bp):
TATGTTTGTATGTAAATATGGCTTTGTTTTTGAAAATAATGAAAATTGAATAATGGGTATGTACT
TTTTTATTTATGTATGTATGTTAGATTGTTAGTGTATATGGCATAACATCCATGGATGTATGTGT
GTATGTATATGAGCATCTGAC
Found at i:14706819 original size:13 final size:13
Alignment explanation
Indices: 14706801--14706835 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
14706791 ACCTTGTTAA
14706801 TTATTTAATTTTT
1 TTATTTAATTTTT
14706814 TTATTTTAATTTTT
1 TTA-TTTAATTTTT
14706828 TTATTTAA
1 TTATTTAA
14706836 AAATTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTATTTAATTTTT
Found at i:14709088 original size:25 final size:25
Alignment explanation
Indices: 14709051--14709116 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
14709041 ATATTTATAT
* **
14709051 ATTTATTTA-TTTATTTATCAACGA
1 ATTTATTAATTTTATTTATCAAAAA
*
14709075 ATTTATTAATTTTATTTATGAAAAA
1 ATTTATTAATTTTATTTATCAAAAA
*
14709100 ATTTATAAATTTTATTT
1 ATTTATTAATTTTATTT
14709117 TCTTTTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 8 0.22
25 28 0.78
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (25 bp):
ATTTATTAATTTTATTTATCAAAAA
Found at i:14710543 original size:29 final size:28
Alignment explanation
Indices: 14710511--14710572 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
14710501 TATATAGGTG
*
14710511 CTTATATTTTT-ATTATATTTAAATAAATT
1 CTTA-ATTTTTAATT-TATATAAATAAATT
*
14710540 CTTAATTTTTAATTTGTATAAATAAATT
1 CTTAATTTTTAATTTATATAAATAAATT
*
14710568 ATTAA
1 CTTAA
14710573 CGACCAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (28 bp):
CTTAATTTTTAATTTATATAAATAAATT
Found at i:14711583 original size:1 final size:1
Alignment explanation
Indices: 14711577--14711601 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
14711567 GATTTTCCAT
14711577 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
14711602 CCCACCGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:14712844 original size:19 final size:19
Alignment explanation
Indices: 14712820--14712859 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
14712810 TGATTTGGAA
*
14712820 ATTTTTTTAATTTTTTAAT
1 ATTTTTTTAATTTTGTAAT
*
14712839 ATTTTTTTTATTTTGTAAT
1 ATTTTTTTAATTTTGTAAT
14712858 AT
1 AT
14712860 ATTAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
ATTTTTTTAATTTTGTAAT
Done.