Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 45 of 147
Found at i:9036931 original size:338 final size:339
Alignment explanation
Indices: 9036310--9037176 Score: 1556
Period size: 338 Copynumber: 2.6 Consensus size: 339
9036300 AAACTGAACA
*
9036310 AGCATCAGATGAAGAACATACTGAGCAAGACGCTTGTTCAATAATGTTAACTGAACAAGCATAAG
1 AGCATCAGATGAAGAACATACTGAGCAAGACGCTTGTTCAATAATTTTAACTGAACAAGCATAAG
* *
9036375 CAGCCGGAAAATTCAAATATCGGTGAACAAAAATATTTACACCGGCGAGTGGTTCAAAGTTTATC
66 CAGCCGGAAAATTCAAATATCGGTGAACAAAAATATTTACACCGGCGAGTGGTTCAAAGTTTCTT
*
9036440 TTGGAATGCATGGTCTTTTCTCTTTCTAGGTTTGAAATTTCATCCCTTAATTCAACTGTTTCAAC
131 TTGGAATGCATGGCCTTTTCTCTTTCTAGGTTTGAAATTTCATCCCTTAATTCAACTGTTTCAAC
* *
9036505 CAACTATTTCATTGCAAATAATCGCCCGATAAGCAAAGGGAATGCTGTTCAAAAGAATTAGTTAC
196 CAACTATTTCATTGCAAATAATCGCCCAATAAGCAAAGGGAATGATGTTCAAAAGAATTAGTTAC
9036570 ATATGGATCAAAATTTAAAGAATCCA-TTTTTTTCCTACAGTATACATGATCTCTAATTCCCCAT
261 ATATGGATCAAAATTTAAAGAATCCATTTTTTTTCCTACAGTATACATGATCTCTAATTCCCCAT
9036634 CTTTGCAGATGTTT
326 CTTTGCAGATGTTT
* *
9036648 AGCAGCAGATGAAGAACTTACTGAGCAAGACGCTTGTTCAATAATTTTAACTGAACAAGCATAAG
1 AGCATCAGATGAAGAACATACTGAGCAAGACGCTTGTTCAATAATTTTAACTGAACAAGCATAAG
* * *
9036713 CAGCAGGAAAATTCAAATATCGGTGAACAAAAATATTTATACCGGCGAGTGGTTCAAAATTTCTT
66 CAGCCGGAAAATTCAAATATCGGTGAACAAAAATATTTACACCGGCGAGTGGTTCAAAGTTTCTT
9036778 TTGGAATGCATGGCCTTTTCTCTTTCTAGGTTTGAAATTTCATCCCTTAATTCAACTGTTTCAAC
131 TTGGAATGCATGGCCTTTTCTCTTTCTAGGTTTGAAATTTCATCCCTTAATTCAACTGTTTCAAC
*
9036843 CAACTATTTCATTGCAAGTAATCGCCCAATAAGCAAAGGGAATGATGTTCAAAAGAATTAGTTAC
196 CAACTATTTCATTGCAAATAATCGCCCAATAAGCAAAGGGAATGATGTTCAAAAGAATTAGTTAC
9036908 ATATGGATCAAAATTTAAAGAATCCATTTTTTTTCCTACAGTATACATGATCTCTAATTCCCCAT
261 ATATGGATCAAAATTTAAAGAATCCATTTTTTTTCCTACAGTATACATGATCTCTAATTCCCCAT
9036973 CTTTGCAGATGTTT
326 CTTTGCAGATGTTT
* *
9036987 ACCATCAGATGAAGAACATACTGAGCAAGACGCTTGTTCAATAATTTTAACTGAACAAGCGTAAG
1 AGCATCAGATGAAGAACATACTGAGCAAGACGCTTGTTCAATAATTTTAACTGAACAAGCATAAG
* *
9037052 CAGCCGGAAAATTCAAATATCGGTGAACAAAAATATTTACACCGGCGAGTGCTTCAAAGTTTCCT
66 CAGCCGGAAAATTCAAATATCGGTGAACAAAAATATTTACACCGGCGAGTGGTTCAAAGTTTCTT
* * *
9037117 TTGGAATGCGTGGCCTTTTCTCTTTCTAGGTTTGAAATTTCACCCCATAATTCAACTGTT
131 TTGGAATGCATGGCCTTTTCTCTTTCTAGGTTTGAAATTTCATCCCTTAATTCAACTGTT
9037177 CATTGATCAC
Statistics
Matches: 504, Mismatches: 24, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
338 274 0.54
339 230 0.46
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (339 bp):
AGCATCAGATGAAGAACATACTGAGCAAGACGCTTGTTCAATAATTTTAACTGAACAAGCATAAG
CAGCCGGAAAATTCAAATATCGGTGAACAAAAATATTTACACCGGCGAGTGGTTCAAAGTTTCTT
TTGGAATGCATGGCCTTTTCTCTTTCTAGGTTTGAAATTTCATCCCTTAATTCAACTGTTTCAAC
CAACTATTTCATTGCAAATAATCGCCCAATAAGCAAAGGGAATGATGTTCAAAAGAATTAGTTAC
ATATGGATCAAAATTTAAAGAATCCATTTTTTTTCCTACAGTATACATGATCTCTAATTCCCCAT
CTTTGCAGATGTTT
Found at i:9045150 original size:2 final size:2
Alignment explanation
Indices: 9045138--9045173 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
9045128 ATGTGGATTC
*
9045138 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9045174 GTAACTGTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:9048957 original size:24 final size:24
Alignment explanation
Indices: 9048893--9048963 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
9048883 CAATGCTTGT
* *
9048893 TTTATAATTAAAAATATAATATAA
1 TTTAAAATTAAAAAAATAATATAA
9048917 --TAAAA-TAATATACAAATAATATAA
1 TTTAAAATTAA-A-A-AAATAATATAA
*
9048941 TTTAAAATTAAAAAAATTATATA
1 TTTAAAATTAAAAAAATAATATA
9048964 TAAATTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
21 3 0.08
22 5 0.13
23 1 0.03
24 19 0.50
25 1 0.03
26 6 0.16
27 3 0.08
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (24 bp):
TTTAAAATTAAAAAAATAATATAA
Found at i:9050641 original size:145 final size:154
Alignment explanation
Indices: 9050457--9050759 Score: 408
Period size: 162 Copynumber: 2.0 Consensus size: 154
9050447 AAATTTGTTA
* * **
9050457 GACTAACATACTATAGCTAAATGCCCAATTGGTTGTTGGGTTAATG-T-TTAG-TGGGT-T-T-T
1 GACTAACATACTATAGCTAAATGCCCAATTGGTTATTGGGTTAAGGATAAAAGCTGGGTATATGT
9050516 TTT-T-TTTT-TTTGTAACTTGTTGAATTATTGAAATAATTTTTTTATATAGCCCTGGTTTTGAA
66 TTTGTGTTTTATTTGTAACTTGTTGAATTATTGAAATAATTTTTTTATATAGCCCTGGTTTTGAA
9050578 TTTTACTTTTTTTAGTGTTAGTTG
131 TTTTACTTTTTTTAGTGTTAGTTG
**
9050602 GACTAACATACTATAGCTAAATGCCCAATTGGTTATTGGGTTAAGGATACAAAAGCCTTTTGTAT
1 GACTAACATACTATAGCTAAATGCCCAATTGGTTATTGGGTTAAGGAT--AAAAG-C-TGGGTAT
*
9050667 AAATGTTTTGTGGGTTTTATTTGTAACTTGTTGAATTGTTGAAATAATTTTTTTATATAGCCCTG
62 --ATGTTTTGT--GTTTTATTTGTAACTTGTTGAATTATTGAAATAATTTTTTTATATAGCCCTG
9050732 GTTTTGAATTTTACTTTTTTTAGTGTTA
123 GTTTTGAATTTTACTTTTTTTAGTGTTA
9050760 CTATATATTT
Statistics
Matches: 134, Mismatches: 7, Indels: 17
0.85 0.04 0.11
Matches are distributed among these distances:
145 44 0.33
146 1 0.01
149 2 0.01
152 3 0.02
153 1 0.01
156 1 0.01
157 4 0.03
158 1 0.01
161 4 0.03
162 73 0.54
ACGTcount: A:0.25, C:0.09, G:0.18, T:0.48
Consensus pattern (154 bp):
GACTAACATACTATAGCTAAATGCCCAATTGGTTATTGGGTTAAGGATAAAAGCTGGGTATATGT
TTTGTGTTTTATTTGTAACTTGTTGAATTATTGAAATAATTTTTTTATATAGCCCTGGTTTTGAA
TTTTACTTTTTTTAGTGTTAGTTG
Found at i:9051138 original size:16 final size:16
Alignment explanation
Indices: 9051117--9051233 Score: 62
Period size: 16 Copynumber: 7.4 Consensus size: 16
9051107 AATTGATTCT
9051117 AAAATAATTCAAACCC
1 AAAATAATTCAAACCC
* **
9051133 AAAATAATTCATA-TT
1 AAAATAATTCAAACCC
*
9051148 ATAAATAATTTAAACCC
1 A-AAATAATTCAAACCC
* * *
9051165 AAAATTATTTAAATCC
1 AAAATAATTCAAACCC
*
9051181 AAAA-ATATTCAAA--T
1 AAAATA-ATTCAAACCC
* *
9051195 AAAACAATTCAAACTC
1 AAAATAATTCAAACCC
* * **
9051211 GAAATAATCCAAATTC
1 AAAATAATTCAAACCC
9051227 AAAATAA
1 AAAATAA
9051234 ATTTTACCTC
Statistics
Matches: 77, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
14 11 0.14
15 2 0.03
16 63 0.82
17 1 0.01
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.27
Consensus pattern (16 bp):
AAAATAATTCAAACCC
Found at i:9056023 original size:50 final size:51
Alignment explanation
Indices: 9055960--9056066 Score: 198
Period size: 50 Copynumber: 2.1 Consensus size: 51
9055950 TTTGAACTAC
*
9055960 TTTTTTGCAAACTAGAAGGTAGGGGTCAACAAATTAAAAAT-AAAATTTTT
1 TTTTTTGCAAACTAGAAGGTAGGCGTCAACAAATTAAAAATAAAAATTTTT
9056010 TTTTTTGCAAACTAGAAGGTAGGCGTCAACAAATTAAAAATAAAAATTTTT
1 TTTTTTGCAAACTAGAAGGTAGGCGTCAACAAATTAAAAATAAAAATTTTT
9056061 TTTTTT
1 TTTTTT
9056067 TTTCGATTTG
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 40 0.73
51 15 0.27
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.37
Consensus pattern (51 bp):
TTTTTTGCAAACTAGAAGGTAGGCGTCAACAAATTAAAAATAAAAATTTTT
Found at i:9057507 original size:23 final size:23
Alignment explanation
Indices: 9057481--9057526 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
9057471 CCAAACAAGG
*
9057481 GTCCGTGATGGGTAGCTGATTCA
1 GTCCGTGATGGGCAGCTGATTCA
9057504 GTCCGTGATGGGCAGCTGATTCA
1 GTCCGTGATGGGCAGCTGATTCA
9057527 ATTTTCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.35, T:0.28
Consensus pattern (23 bp):
GTCCGTGATGGGCAGCTGATTCA
Found at i:9058157 original size:39 final size:40
Alignment explanation
Indices: 9058089--9058164 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
9058079 TATTTCTATT
* * * * *
9058089 AAAATTTTGTTCTTTTGATGTAGTAAAAAAAATTATACTA
1 AAAATTTTATCCTTATGATGTAATAAAAAAAAATATACTA
9058129 AAAATTTTATCCTTATGATGTAAT-AAAAAAAATATA
1 AAAATTTTATCCTTATGATGTAATAAAAAAAAATATA
9058165 ATTTTCAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 11 0.35
40 20 0.65
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (40 bp):
AAAATTTTATCCTTATGATGTAATAAAAAAAAATATACTA
Found at i:9059260 original size:32 final size:31
Alignment explanation
Indices: 9059224--9059287 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 31
9059214 TTTTTAATAT
* * *
9059224 TTAAATTTGATTCGATCTGATATTATATAAAA
1 TTAAATTCGATTCGATCCGAAATTA-ATAAAA
9059256 TTAAATTCGATTCGATCCGAAATTAATAAAA
1 TTAAATTCGATTCGATCCGAAATTAATAAAA
9059287 T
1 T
9059288 ATTATTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 7 0.24
32 22 0.76
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (31 bp):
TTAAATTCGATTCGATCCGAAATTAATAAAA
Found at i:9059310 original size:12 final size:13
Alignment explanation
Indices: 9059295--9059354 Score: 56
Period size: 12 Copynumber: 4.8 Consensus size: 13
9059285 AATATTATTT
9059295 TAAATA-TAAATA
1 TAAATATTAAATA
9059307 TAAA-ATTAAATA
1 TAAATATTAAATA
* *
9059319 TATATA-AAAATA
1 TAAATATTAAATA
*
9059331 TATATAATTAAATA
1 TAAAT-ATTAAATA
9059345 TAAA-ATTAAA
1 TAAATATTAAA
9059355 AAAATAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
11 1 0.03
12 29 0.73
13 2 0.05
14 8 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TAAATATTAAATA
Found at i:9059335 original size:16 final size:16
Alignment explanation
Indices: 9059298--9059336 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9059288 ATTATTTTAA
* *
9059298 ATATAAATATAAAATT
1 ATATATATATAAAAAT
*
9059314 AAATATATATAAAAAT
1 ATATATATATAAAAAT
9059330 ATATATA
1 ATATATA
9059337 ATTAAATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATATATAAAAAT
Found at i:9059347 original size:22 final size:22
Alignment explanation
Indices: 9059294--9059355 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
9059284 AAATATTATT
*
9059294 TTAAATATAAATATAAAATTAA
1 TTAAATATAAAAATAAAATTAA
* * *
9059316 ATATATATAAAAAT-ATATATAA
1 TTAAATATAAAAATAAAAT-TAA
*
9059338 TTAAATATAAAATTAAAA
1 TTAAATATAAAAATAAAA
9059356 AAATAATTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
21 3 0.10
22 25 0.83
23 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TTAAATATAAAAATAAAATTAA
Found at i:9062061 original size:14 final size:14
Alignment explanation
Indices: 9062042--9062071 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9062032 AAGCACAAGA
9062042 ACAGTTGCATAAGC
1 ACAGTTGCATAAGC
*
9062056 ACAGTTGCATCAGC
1 ACAGTTGCATAAGC
9062070 AC
1 AC
9062072 GTCAGACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (14 bp):
ACAGTTGCATAAGC
Found at i:9066849 original size:20 final size:20
Alignment explanation
Indices: 9066799--9066851 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
9066789 CAGCATGATT
9066799 AATTATATTATTTAAAATCA
1 AATTATATTATTTAAAATCA
9066819 AATTGA-ATTATTTAAAATCA
1 AATT-ATATTATTTAAAATCA
*
9066839 AATTATTTTATTT
1 AATTATATTATTT
9066852 TATTTTCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (20 bp):
AATTATATTATTTAAAATCA
Found at i:9067158 original size:22 final size:22
Alignment explanation
Indices: 9067118--9067159 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9067108 AAAATAATTC
* *
9067118 ATTTAATATATTTTTTATTTAT
1 ATTTAAAATATTTTATATTTAT
*
9067140 ATTTAAAATTTTTTATATTT
1 ATTTAAAATATTTTATATTT
9067160 CACCAATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTAAAATATTTTATATTTAT
Found at i:9069990 original size:13 final size:13
Alignment explanation
Indices: 9069972--9069996 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9069962 TTACTATAGT
9069972 TTTTTTTGTTTTG
1 TTTTTTTGTTTTG
9069985 TTTTTTTGTTTT
1 TTTTTTTGTTTT
9069997 CCTTTGTCGA
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:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:9070685 original size:21 final size:21
Alignment explanation
Indices: 9070656--9070695 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9070646 AAATATAAAT
* *
9070656 AATTGTGTAATTAAATTAATA
1 AATTATGTAATCAAATTAATA
9070677 AATTATGTAATCAAATTAA
1 AATTATGTAATCAAATTAA
9070696 ATTCAAATAA
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:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (21 bp):
AATTATGTAATCAAATTAATA
Found at i:9071655 original size:6 final size:6
Alignment explanation
Indices: 9071639--9071708 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
9071629 AAAACTGAAA
* * * *
9071639 TAAAA- TAAAAT TAAAAT CAAAAT CAAAAT TAATA- TAAAAA TAAAAGT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAA-T
* * *
9071686 CAAAAT TACAAT CAAAAT TAAAA
1 TAAAAT TAAAAT TAAAAT TAAAA
9071709 ATTTTGAGCT
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
5 9 0.18
6 38 0.75
7 4 0.08
ACGTcount: A:0.67, C:0.07, G:0.01, T:0.24
Consensus pattern (6 bp):
TAAAAT
Found at i:9071666 original size:12 final size:12
Alignment explanation
Indices: 9071636--9071708 Score: 71
Period size: 12 Copynumber: 6.2 Consensus size: 12
9071626 ACCAAAACTG
9071636 AAAT-AAAA-TA
1 AAATCAAAATTA
* *
9071646 AAATTAAAATCA
1 AAATCAAAATTA
9071658 AAATCAAAATTA
1 AAATCAAAATTA
* *
9071670 ATAT-AAAAATA
1 AAATCAAAATTA
9071681 AAAGTCAAAATTA
1 AAA-TCAAAATTA
*
9071694 CAATCAAAATTA
1 AAATCAAAATTA
9071706 AAA
1 AAA
9071709 ATTTTGAGCT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
10 4 0.08
11 12 0.24
12 26 0.52
13 8 0.16
ACGTcount: A:0.68, C:0.07, G:0.01, T:0.23
Consensus pattern (12 bp):
AAATCAAAATTA
Found at i:9076325 original size:19 final size:19
Alignment explanation
Indices: 9076301--9076343 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
9076291 ATTTTAATTG
9076301 TATAAAAATT-T-AAAATA
1 TATAAAAATTATAAAAATA
9076318 TATATAAAATTAATAAAAATA
1 TATA-AAAATT-ATAAAAATA
9076339 TATAA
1 TATAA
9076344 TTCAATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.18
18 6 0.27
20 2 0.09
21 10 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TATAAAAATTATAAAAATA
Found at i:9076325 original size:53 final size:51
Alignment explanation
Indices: 9076234--9076337 Score: 122
Period size: 53 Copynumber: 2.0 Consensus size: 51
9076224 TATTTTTATA
* *
9076234 TATTATTTTAATATATAAAATTTAATATATTTAAATAAATTTTAATATAAAAT
1 TATTATTTTAATATATAAAATTTAATATATATAAATAAA-ATTAATA-AAAAT
* *
9076287 TATTATTTTAATTGTATAAAAATTTAA-A-ATATATATAAAATTAATAAAAAT
1 TATTATTTTAA-TATAT-AAAATTTAATATATATAAATAAAATTAATAAAAAT
9076338 ATATAATTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
51 5 0.11
52 6 0.13
53 20 0.44
54 5 0.11
55 9 0.20
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (51 bp):
TATTATTTTAATATATAAAATTTAATATATATAAATAAAATTAATAAAAAT
Found at i:9078796 original size:20 final size:20
Alignment explanation
Indices: 9078771--9078816 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
9078761 ACAAAAGTCT
*
9078771 GAAGTTACAGATGTATTTTA
1 GAAGTTACAGATATATTTTA
9078791 GAAGTTACAGATATATTTTA
1 GAAGTTACAGATATATTTTA
9078811 GAAGTT
1 GAAGTT
9078817 CAAGGCTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (20 bp):
GAAGTTACAGATATATTTTA
Found at i:9084221 original size:22 final size:22
Alignment explanation
Indices: 9084196--9084249 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
9084186 ATATTTTGAT
9084196 TTTTTTATTT-ATTAATTT-ATAA
1 TTTTTTATTTGA--AATTTAATAA
*
9084218 TTTTATATTTGAAATTTAATAA
1 TTTTTTATTTGAAATTTAATAA
9084240 TTTTTT-TTTG
1 TTTTTTATTTG
9084250 TTTTGGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 9 0.32
22 18 0.64
23 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTTTATTTGAAATTTAATAA
Found at i:9084310 original size:14 final size:15
Alignment explanation
Indices: 9084283--9084315 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9084273 ATTATTTTGC
9084283 TATTAAATTAATTTT
1 TATTAAATTAATTTT
*
9084298 TATT-AATTTATTTT
1 TATTAAATTAATTTT
9084312 TATT
1 TATT
9084316 TTTGTGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTAAATTAATTTT
Found at i:9088799 original size:18 final size:18
Alignment explanation
Indices: 9088776--9088850 Score: 69
Period size: 18 Copynumber: 4.2 Consensus size: 18
9088766 TATAGTTATT
9088776 ATCCACCACAAATGTATC
1 ATCCACCACAAATGTATC
* * *
9088794 ATCCACCTCAAATATATA
1 ATCCACCACAAATGTATC
**
9088812 ATTTACCACAAATGTATC
1 ATCCACCACAAATGTATC
** * *
9088830 CCCCACTACGAATGTATC
1 ATCCACCACAAATGTATC
9088848 ATC
1 ATC
9088851 TTCAAATATA
Statistics
Matches: 41, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.37, C:0.31, G:0.05, T:0.27
Consensus pattern (18 bp):
ATCCACCACAAATGTATC
Found at i:9093470 original size:22 final size:20
Alignment explanation
Indices: 9093437--9093517 Score: 83
Period size: 22 Copynumber: 3.9 Consensus size: 20
9093427 ATAATCAAAA
9093437 TTTTA-TATTTTAATATATATT
1 TTTTATTATTTTAAT-TA-ATT
**
9093458 TTTTATTATTTTAATTAAAA
1 TTTTATTATTTTAATTAATT
* *
9093478 TATTATTATTTTATTTTAATAT
1 TTTTATTATTTTA-ATTAAT-T
9093500 TTTTATTATTTTAATTAA
1 TTTTATTATTTTAATTAA
9093518 AATAGTTTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
20 13 0.27
21 15 0.31
22 21 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATTATTTTAATTAATT
Found at i:9093478 original size:41 final size:42
Alignment explanation
Indices: 9093428--9093521 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
9093418 TTTATACATA
* *
9093428 TAATCAAAATTTTA-TATTTTAATAT-ATATTTTTTATTATTT
1 TAATTAAAATATTATTATTTTAATATAATA-TTTTTATTATTT
* *
9093469 TAATTAAAATATTATTATTTTATTTTAATATTTTTATTATTT
1 TAATTAAAATATTATTATTTTAATATAATATTTTTATTATTT
9093511 TAATTAAAATA
1 TAATTAAAATA
9093522 GTTTTGAGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
41 12 0.26
42 32 0.68
43 3 0.06
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (42 bp):
TAATTAAAATATTATTATTTTAATATAATATTTTTATTATTT
Found at i:9093830 original size:3 final size:3
Alignment explanation
Indices: 9093822--9093852 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9093812 TGTATAAATC
9093822 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9093853 GTCTATTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9093986 original size:10 final size:11
Alignment explanation
Indices: 9093964--9093997 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
9093954 AAATTTAATA
9093964 ATTTATATATTT
1 ATTT-TATATTT
9093976 ATTTT-TATTT
1 ATTTTATATTT
9093986 ATTTTATATTT
1 ATTTTATATTT
9093997 A
1 A
9093998 ATATATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.48
11 7 0.33
12 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTTTATATTT
Found at i:9094726 original size:19 final size:18
Alignment explanation
Indices: 9094704--9094749 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
9094694 ATATGAAATA
9094704 TATTTTATAATT-TTTAATT
1 TATTTT-TAATTATTTAA-T
*
9094723 TATTTTTTATTATTTAAT
1 TATTTTTAATTATTTAAT
9094741 TATTTTTAA
1 TATTTTTAA
9094750 CCTAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TATTTTTAATTATTTAAT
Found at i:9095028 original size:12 final size:12
Alignment explanation
Indices: 9095004--9095036 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
9094994 TGATCGGATT
9095004 AAATATT-TAAA
1 AAATATTATAAA
9095015 AAATATTATAAA
1 AAATATTATAAA
9095027 AAATATTATA
1 AAATATTATA
9095037 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAATATTATAAA
Found at i:9096105 original size:4 final size:4
Alignment explanation
Indices: 9096082--9096130 Score: 55
Period size: 4 Copynumber: 12.0 Consensus size: 4
9096072 TAATGACTTA
* *
9096082 AATT AATTT AA-T AATC AATT AATT AGTTT AATT AATT AATT AATT AATT
1 AATT AA-TT AATT AATT AATT AATT A-ATT AATT AATT AATT AATT AATT
9096131 CGATTAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
3 3 0.08
4 28 0.74
5 7 0.18
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (4 bp):
AATT
Found at i:9096136 original size:21 final size:21
Alignment explanation
Indices: 9096082--9096137 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
9096072 TAATGACTTA
*
9096082 AATTAATTTAA-TAATCAATT
1 AATTAATTCAATTAATCAATT
* * *
9096102 AATTAGTTTAATTAATTAATT
1 AATTAATTCAATTAATCAATT
*
9096123 AATTAATTCGATTAA
1 AATTAATTCAATTAA
9096138 AACTAAATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (21 bp):
AATTAATTCAATTAATCAATT
Found at i:9096137 original size:25 final size:25
Alignment explanation
Indices: 9096083--9096137 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
9096073 AATGACTTAA
9096083 ATTAATTTAATAATCAATTAATTAG
1 ATTAATTTAATAATCAATTAATTAG
* * *
9096108 TTTAA-TTAATTAATTAATTAATTCG
1 ATTAATTTAA-TAATCAATTAATTAG
9096133 ATTAA
1 ATTAA
9096138 AACTAAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (25 bp):
ATTAATTTAATAATCAATTAATTAG
Found at i:9098925 original size:12 final size:11
Alignment explanation
Indices: 9098892--9098927 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
9098882 GACTTGAAAA
*
9098892 TGACTTAAAGT
1 TGACATAAAGT
9098903 TGACATAAAGT
1 TGACATAAAGT
9098914 TGACACTAAAGT
1 TGACA-TAAAGT
9098926 TG
1 TG
9098928 TGGGGATCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (11 bp):
TGACATAAAGT
Found at i:9100324 original size:18 final size:18
Alignment explanation
Indices: 9100298--9100332 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9100288 GAAAGACAAA
* *
9100298 AAAGTTGAAGATCAGAAG
1 AAAGATGAAGATAAGAAG
9100316 AAAGATGAAGATAAGAA
1 AAAGATGAAGATAAGAA
9100333 AACTCCAATC
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:0.57, C:0.03, G:0.26, T:0.14
Consensus pattern (18 bp):
AAAGATGAAGATAAGAAG
Found at i:9100728 original size:16 final size:16
Alignment explanation
Indices: 9100707--9100767 Score: 77
Period size: 16 Copynumber: 3.6 Consensus size: 16
9100697 TGATTGAAAT
9100707 TAATTTAATAAATAAA
1 TAATTTAATAAATAAA
*
9100723 TAATTTAATTAATTAATAAT
1 TAATTTAA-T-A--AATAAA
9100743 TAATTTAATAAATAAA
1 TAATTTAATAAATAAA
9100759 TAATTTAAT
1 TAATTTAAT
9100768 TTGGTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 22 0.56
17 1 0.03
18 2 0.05
19 1 0.03
20 13 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATTTAATAAATAAA
Found at i:9100734 original size:20 final size:20
Alignment explanation
Indices: 9100706--9100761 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
9100696 ATGATTGAAA
9100706 TTAATTTAATAAATAAATAAT
1 TTAA-TTAATAAATAAATAAT
* *
9100727 TTAATTAATTAATAATTAAT
1 TTAATTAATAAATAAATAAT
*
9100747 TTAATAAATAAATAA
1 TTAATTAATAAATAA
9100762 TTTAATTTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 27 0.87
21 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAATTAATAAATAAATAAT
Found at i:9104978 original size:6 final size:6
Alignment explanation
Indices: 9104958--9105025 Score: 68
Period size: 6 Copynumber: 11.7 Consensus size: 6
9104948 ACCAAAAGTC
* **
9104958 AAAT-A AAAT-A AAATCA AAATCA AAATCA AAATTA TTATCA AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* * *
9105004 AAGTCA AAATTA CAATCA AAAT
1 AAATCA AAATCA AAATCA AAAT
9105026 TAATGAGTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
5 9 0.18
6 41 0.82
ACGTcount: A:0.63, C:0.12, G:0.01, T:0.24
Consensus pattern (6 bp):
AAATCA
Found at i:9104998 original size:24 final size:24
Alignment explanation
Indices: 9104969--9105025 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
9104959 AATAAAATAA
*
9104969 AATCAAAATCAAAATCAAAATTAT
1 AATCAAAATCAAAATCAAAATTAC
* *
9104993 TATCAAAATCAAAGTCAAAATTAC
1 AATCAAAATCAAAATCAAAATTAC
9105017 AATCAAAAT
1 AATCAAAAT
9105026 TAATGAGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.25
Consensus pattern (24 bp):
AATCAAAATCAAAATCAAAATTAC
Found at i:9109122 original size:22 final size:21
Alignment explanation
Indices: 9109091--9109131 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
9109081 AATTCAATTT
* *
9109091 AATTTGATTTATTGATTTTTAA
1 AATTTAATTT-TTAATTTTTAA
9109113 AATTTAATTTTTAATTTTT
1 AATTTAATTTTTAATTTTT
9109132 TTATATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (21 bp):
AATTTAATTTTTAATTTTTAA
Found at i:9109297 original size:2 final size:2
Alignment explanation
Indices: 9109290--9109318 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9109280 TCCAAACTTA
9109290 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9109319 TTAATATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9109310 original size:13 final size:13
Alignment explanation
Indices: 9109292--9109317 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9109282 CAAACTTAAT
9109292 ATATATATATATA
1 ATATATATATATA
9109305 ATATATATATATA
1 ATATATATATATA
9109318 TTTAATATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:9109312 original size:17 final size:17
Alignment explanation
Indices: 9109290--9109325 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
9109280 TCCAAACTTA
9109290 ATATATATATATATAAT
1 ATATATATATATATAAT
*
9109307 ATATATATATATTTAAT
1 ATATATATATATATAAT
9109324 AT
1 AT
9109326 TCAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATATATATATAAT
Found at i:9109325 original size:15 final size:15
Alignment explanation
Indices: 9109288--9109318 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9109278 AATCCAAACT
9109288 TAATATATATATATA
1 TAATATATATATATA
9109303 TAATATATATATATA
1 TAATATATATATATA
9109318 T
1 T
9109319 TTAATATTCA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATATATATATATA
Found at i:9116976 original size:26 final size:27
Alignment explanation
Indices: 9116931--9116985 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
9116921 AAGTTTTCTG
* *
9116931 TTATGAAATTTAAATTTATAAGATATTT
1 TTATGAAA-TTAAAATTATAAAATATTT
9116959 TTATGAAA-TAAAATTATAAAATATTT
1 TTATGAAATTAAAATTATAAAATATTT
9116985 T
1 T
9116986 ATATCATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.68
28 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (27 bp):
TTATGAAATTAAAATTATAAAATATTT
Found at i:9118433 original size:23 final size:23
Alignment explanation
Indices: 9118406--9118450 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
9118396 ATGTCAGCAT
*
9118406 GAAATATAATATGATAATTTTAC
1 GAAATATAATATAATAATTTTAC
9118429 GAAATATAATATAATAATTTTA
1 GAAATATAATATAATAATTTTA
9118451 ATATTTTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (23 bp):
GAAATATAATATAATAATTTTAC
Found at i:9120131 original size:8 final size:10
Alignment explanation
Indices: 9120109--9120143 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
9120099 ATCGAAATTT
9120109 TATATTTTAA
1 TATATTTTAA
9120119 TATATTTTAA
1 TATATTTTAA
9120129 TATATTTTAA
1 TATATTTTAA
9120139 TATAT
1 TATAT
9120144 GAATTCGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATATTTTAA
Found at i:9120880 original size:19 final size:20
Alignment explanation
Indices: 9120858--9120901 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
9120848 ATTAATAATC
9120858 TTTAAAT-TATAATA-AAAT
1 TTTAAATGTATAATATAAAT
9120876 ATTT-AATGTATAATATAAAT
1 -TTTAAATGTATAATATAAAT
9120896 TTTAAA
1 TTTAAA
9120902 AATTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.14
19 13 0.59
20 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TTTAAATGTATAATATAAAT
Found at i:9125483 original size:2 final size:2
Alignment explanation
Indices: 9125476--9125504 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9125466 TCACTTCTTT
9125476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9125505 GTAATCACTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9127902 original size:12 final size:13
Alignment explanation
Indices: 9127877--9127905 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9127867 TAATTAAGAA
9127877 TAAATTTGAAATT
1 TAAATTTGAAATT
9127890 TAAATTT-AAATT
1 TAAATTTGAAATT
9127902 TAAA
1 TAAA
9127906 AATTTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
TAAATTTGAAATT
Found at i:9129862 original size:2 final size:2
Alignment explanation
Indices: 9129857--9129884 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9129847 AATTCAAAAA
9129857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9129885 TTTGTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9138977 original size:2 final size:2
Alignment explanation
Indices: 9138921--9138959 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9138911 GGAAGAAATG
9138921 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9138960 AAAATAGCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9140262 original size:28 final size:28
Alignment explanation
Indices: 9140223--9140284 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
9140213 TTTTATATTT
* *
9140223 TAAAAA-AATCTTGTTATAACTTTAAAA
1 TAAAAACAATCTTATTATAACTTCAAAA
*
9140250 TAAAAACATTCTTATTATAACTTCAAAA
1 TAAAAACAATCTTATTATAACTTCAAAA
*
9140278 TAGAAAC
1 TAAAAAC
9140285 TCTAACAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.52, C:0.11, G:0.03, T:0.34
Consensus pattern (28 bp):
TAAAAACAATCTTATTATAACTTCAAAA
Found at i:9141599 original size:20 final size:20
Alignment explanation
Indices: 9141574--9141625 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
9141564 ATATAACATT
9141574 TTTTTAAATAAAATTTAAAA
1 TTTTTAAATAAAATTTAAAA
9141594 TTTTTAAATAAAATTTAAAA
1 TTTTTAAATAAAATTTAAAA
9141614 TTTTTAAATAAA
1 TTTTTAAATAAA
9141626 TATCTTACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTTAAATAAAATTTAAAA
Found at i:9141997 original size:19 final size:19
Alignment explanation
Indices: 9141970--9142014 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
9141960 AGATAAATAT
* *
9141970 TAAAATAAAATTTCAAAGA
1 TAAATTAAAATTTAAAAGA
9141989 TAAATTAAAAATTTAAAAGA
1 TAAATT-AAAATTTAAAAGA
9142009 -AAATTA
1 TAAATTA
9142015 TGCTCCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 10 0.43
20 12 0.52
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (19 bp):
TAAATTAAAATTTAAAAGA
Found at i:9142001 original size:20 final size:19
Alignment explanation
Indices: 9141976--9142014 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
9141966 ATATTAAAAT
*
9141976 AAAATTTCAAAGATAAATTA
1 AAAATTTAAAAGA-AAATTA
9141996 AAAATTTAAAAGAAAATTA
1 AAAATTTAAAAGAAAATTA
9142015 TGCTCCAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAATTTAAAAGAAAATTA
Found at i:9145895 original size:105 final size:105
Alignment explanation
Indices: 9145713--9145922 Score: 393
Period size: 105 Copynumber: 2.0 Consensus size: 105
9145703 TGAAGGAGAA
9145713 TGTTCTTAGAGTTGGAGGAGGAGAAGTTTCTGTACCATTTTTGCAAGGTTGGTGACTGTAATTAG
1 TGTTCTTAGAGTTGGAGGAGGAGAAGTTTCTGTACCATTTTTGCAAGGTTGGTGACTGTAATTAG
* *
9145778 TGGTATAATCGAGCCAAATTGATATATTGCCATGCTTGAG
66 GGGTATAATCGAGCCAAATTGATACATTGCCATGCTTGAG
9145818 TGTTCTTAGAGTTGGAGGAGGAGAAGTTTCTGTACCATTTTTGCAAGGTTGGTGACTGTAATTAG
1 TGTTCTTAGAGTTGGAGGAGGAGAAGTTTCTGTACCATTTTTGCAAGGTTGGTGACTGTAATTAG
*
9145883 GGGTGTAATCGAGCCAAATTGATACATTGCCATGCTTGAG
66 GGGTATAATCGAGCCAAATTGATACATTGCCATGCTTGAG
9145923 CTAGGCTCAA
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 102 1.00
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (105 bp):
TGTTCTTAGAGTTGGAGGAGGAGAAGTTTCTGTACCATTTTTGCAAGGTTGGTGACTGTAATTAG
GGGTATAATCGAGCCAAATTGATACATTGCCATGCTTGAG
Found at i:9145998 original size:20 final size:20
Alignment explanation
Indices: 9145973--9146018 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
9145963 GAGTTTGATC
9145973 GAGCTCTATTTTTCATGCTT
1 GAGCTCTATTTTTCATGCTT
9145993 GAGCTCTATTTTTCATGCTT
1 GAGCTCTATTTTTCATGCTT
9146013 GAGCTC
1 GAGCTC
9146019 GGTTCGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (20 bp):
GAGCTCTATTTTTCATGCTT
Found at i:9157962 original size:22 final size:22
Alignment explanation
Indices: 9157937--9157980 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9157927 ATTTTTTATC
* *
9157937 CTTAATTTTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9157959 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9157981 TAAATATATA
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:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:9157992 original size:22 final size:22
Alignment explanation
Indices: 9157940--9157992 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
9157930 TTTTATCCTT
* * *
9157940 AATTTTAGGGATACAAATACTT
1 AATTATAGAGATACAAATACTA
*
9157962 AATTCTAGAGATACAAATA-TA
1 AATTATAGAGATACAAATACTA
9157983 AATATATAGA
1 AAT-TATAGA
9157993 TTACAAGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (22 bp):
AATTATAGAGATACAAATACTA
Found at i:9158767 original size:7 final size:6
Alignment explanation
Indices: 9158746--9158836 Score: 53
Period size: 6 Copynumber: 15.2 Consensus size: 6
9158736 TATTTTCTTT
* * *
9158746 TTTTTA TTTATT- TTTGTA TTTTACA TTTTTA -TTTTA -TTTTA TTTTCA
1 TTTTTA TTT-TTA TTTTTA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA
* * * * * *
9158793 TTATTA TTATTA TTATTA TTATTTA TATATA TATTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA T
9158837 CTTATGTATT
Statistics
Matches: 68, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
5 11 0.16
6 46 0.68
7 11 0.16
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.71
Consensus pattern (6 bp):
TTTTTA
Found at i:9158785 original size:25 final size:23
Alignment explanation
Indices: 9158736--9158836 Score: 69
Period size: 25 Copynumber: 4.1 Consensus size: 23
9158726 TATGTAAGTC
* *
9158736 TATTTTCTTTTTTTTATTTATTTTT
1 TATTTTCATTTTTAT-TTTA-TTTT
9158761 GTATTTTACATTTTTATTTTA-TTT
1 -TATTTT-CATTTTTATTTTATTTT
* *
9158785 TATTTTCATTATTATTATTATTAT
1 TATTTTCATTTTTATT-TTATTTT
* * *
9158809 TATTATTTATATATATATTTATTTT
1 TATT-TTCATTTTTAT-TTTATTTT
9158834 TAT
1 TAT
9158837 CTTATGTATT
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
22 9 0.15
23 9 0.15
24 9 0.15
25 16 0.26
26 11 0.18
27 7 0.11
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (23 bp):
TATTTTCATTTTTATTTTATTTT
Found at i:9158800 original size:3 final size:3
Alignment explanation
Indices: 9158774--9158907 Score: 73
Period size: 3 Copynumber: 42.7 Consensus size: 3
9158764 TTTTACATTT
9158774 TTA TT- TTA TT- TTA TT- TTCA TTA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA
* * *
9158818 TATA TATA TTTA TTT TTA -TC TTA TGTA TTTA TTTA TTCA TTA CTA TTA
1 T-TA T-TA -TTA TTA TTA TTA TTA T-TA -TTA -TTA TT-A TTA TTA TTA
* *
9158866 TTTA TTA ATA -TA TATA TCCA -TA TTA TTA TTA TTA TTA TTA TT
1 -TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TT
9158908 TTTCTCTGTT
Statistics
Matches: 106, Mismatches: 10, Indels: 30
0.73 0.07 0.21
Matches are distributed among these distances:
2 10 0.09
3 63 0.59
4 31 0.29
5 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:9158850 original size:23 final size:22
Alignment explanation
Indices: 9158805--9158859 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
9158795 ATTATTATTA
9158805 TTATTATTATTTATATATATAT
1 TTATTATTATTTATATATATAT
* * *
9158827 TTATTTTTATCTTATGTATTTAT
1 TTATTATTAT-TTATATATATAT
9158850 TTATTCATTA
1 TTATT-ATTA
9158860 CTATTATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.33
23 15 0.56
24 3 0.11
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (22 bp):
TTATTATTATTTATATATATAT
Found at i:9159932 original size:11 final size:10
Alignment explanation
Indices: 9159918--9159974 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
9159908 TTTAATATTC
9159918 TTTTATCTTTA
1 TTTT-TCTTTA
*
9159929 TTTTATTTTTA
1 TTTT-TCTTTA
*
9159940 TTTTTGTTTTA
1 TTTTT-CTTTA
*
9159951 CTTTTCTTTA
1 TTTTTCTTTA
9159961 TTTTT-TTTA
1 TTTTTCTTTA
9159970 TTTTT
1 TTTTT
9159975 TATTTTCACA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 9 0.22
10 9 0.22
11 23 0.56
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:9159938 original size:17 final size:17
Alignment explanation
Indices: 9159918--9159968 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
9159908 TTTAATATTC
9159918 TTTTATCTTTATTTTAT
1 TTTTATCTTTATTTTAT
* *
9159935 TTTTATTTTTGTTTTA-
1 TTTTATCTTTATTTTAT
*
9159951 CTTT-TCTTTATTTT-T
1 TTTTATCTTTATTTTAT
9159966 TTT
1 TTT
9159969 ATTTTTTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 10 0.37
16 3 0.11
17 14 0.52
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTATCTTTATTTTAT
Found at i:9160174 original size:57 final size:57
Alignment explanation
Indices: 9160027--9160296 Score: 307
Period size: 58 Copynumber: 4.7 Consensus size: 57
9160017 AATAAAATAA
* * * *
9160027 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCT-TAAAAT-AAATTTTC
1 AAAAAATATTTTT-GAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTCC
* **
9160083 AAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAGGTTTCC
1 AAAAAATA--TTTTTGA-GAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTCC
*
9160143 AAAAAATATTTTTGAGAAAAGTTGAAAGTATCAA-TTTTCTTCGAAATTAAAGTTT-C
1 AAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTTTC-TCGAAATTAAAATTTCC
* * * * * *
9160199 AAAATATATTTTGGAAAAAAGTTAAAAGTATCAATTTTTCTCGAGATTAAAATTTCTA
1 AAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTC-C
*
9160257 AAAAAATATTTTAT-AAAAAAGTTGAAAGTATCAATTTTTC
1 AAAAAATATTTT-TGAGAAAAGTTGAAAGTATCAATTTTTC
9160297 CTGCACAAAA
Statistics
Matches: 185, Mismatches: 19, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
56 56 0.30
57 39 0.21
58 74 0.40
59 4 0.02
60 12 0.06
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.37
Consensus pattern (57 bp):
AAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTCC
Found at i:9163841 original size:26 final size:26
Alignment explanation
Indices: 9163778--9163841 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
9163768 TTAACAGGGT
*
9163778 TCGACAATGAAAGCCTAAAATAAAAG
1 TCGACAATGAAGGCCTAAAATAAAAG
* *
9163804 TCGACAATGAAGGTCTAAAATAGAAG
1 TCGACAATGAAGGCCTAAAATAAAAG
9163830 TC-AGCAATGAAG
1 TCGA-CAATGAAG
9163842 ACTGAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 1 0.03
26 33 0.97
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.17
Consensus pattern (26 bp):
TCGACAATGAAGGCCTAAAATAAAAG
Found at i:9163849 original size:26 final size:26
Alignment explanation
Indices: 9163778--9163850 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
9163768 TTAACAGGGT
* *
9163778 TCGACAATGAAAGCCTAAAATAAAAG
1 TCGACAATGAAGGACTAAAATAAAAG
* *
9163804 TCGACAATGAAGGTCTAAAATAGAAG
1 TCGACAATGAAGGACTAAAATAAAAG
9163830 TC-AGCAATGAA-GACTGAAAAT
1 TCGA-CAATGAAGGACT-AAAAT
9163851 TTTGCTTCCC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.10
26 37 0.90
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.18
Consensus pattern (26 bp):
TCGACAATGAAGGACTAAAATAAAAG
Found at i:9170158 original size:3 final size:3
Alignment explanation
Indices: 9170150--9170181 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9170140 AGGAAGAAAG
9170150 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9170182 AGAATCAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9171505 original size:10 final size:10
Alignment explanation
Indices: 9171490--9171515 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
9171480 CAATAGTATA
9171490 AAATTTAAAT
1 AAATTTAAAT
9171500 AAATTTAAAT
1 AAATTTAAAT
9171510 AAATTT
1 AAATTT
9171516 TGATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AAATTTAAAT
Found at i:9174278 original size:2 final size:2
Alignment explanation
Indices: 9174271--9174296 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9174261 CTATCTTGAG
9174271 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9174297 TTGTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9174464 original size:25 final size:24
Alignment explanation
Indices: 9174427--9174483 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
9174417 GTAATTTATA
*
9174427 TTTAAAATAAATT-TTATAATT-AT
1 TTTAAATTAAATTATTA-AATTAAT
9174450 TATTAAATTATAATTATTAAATTAAT
1 T-TTAAATTA-AATTATTAAATTAAT
9174476 TTTAAATT
1 TTTAAATT
9174484 GAATACAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 1 0.03
24 7 0.24
25 15 0.52
26 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTAAATTAAATTATTAAATTAAT
Found at i:9176874 original size:20 final size:19
Alignment explanation
Indices: 9176851--9176894 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
9176841 CAACTCTCCA
*
9176851 TTTTCCCTTTTCTCTCTTTT
1 TTTTCCCTTTTCT-TCTTTC
**
9176871 TTTTGGCTTTTCTTCTTTC
1 TTTTCCCTTTTCTTCTTTC
9176890 TTTTC
1 TTTTC
9176895 TTGGTTTGCG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.00, C:0.25, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTCCCTTTTCTTCTTTC
Found at i:9182982 original size:2 final size:2
Alignment explanation
Indices: 9182975--9183014 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
9182965 TATTTTAGTG
*
9182975 TA TA TA TA TA TA TA TA TG TA TA T- TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9183015 TACTATTGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9185516 original size:92 final size:92
Alignment explanation
Indices: 9185393--9185578 Score: 327
Period size: 92 Copynumber: 2.0 Consensus size: 92
9185383 AATCCAATTA
* * *
9185393 CAAAGATTGGATTATTATGACAAGTTGATATCATAAATTCGTTTGTTTTCCTCATTTCATTGTTT
1 CAAAGATTGGATTATTATGACAAGTTGATATCATAAATTCGTTTATTTGCCTCATTTCATTGTCT
*
9185458 CAACGGAAAATTGTTCCATATATTTTT
66 CAACGGAAAATTATTCCATATATTTTT
9185485 CAAAGATTGGATTATTATGACAAGTTGATATCATAAATTCGTTTATTTGCCTCATTTCATTGTCT
1 CAAAGATTGGATTATTATGACAAGTTGATATCATAAATTCGTTTATTTGCCTCATTTCATTGTCT
*
9185550 CAATGGAAAATTATTCCATATATTTTT
66 CAACGGAAAATTATTCCATATATTTTT
9185577 CA
1 CA
9185579 CAATTAATGT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (92 bp):
CAAAGATTGGATTATTATGACAAGTTGATATCATAAATTCGTTTATTTGCCTCATTTCATTGTCT
CAACGGAAAATTATTCCATATATTTTT
Found at i:9186453 original size:13 final size:12
Alignment explanation
Indices: 9186434--9186469 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
9186424 AAAATAAATA
9186434 AATAAAAAATTT
1 AATAAAAAATTT
9186446 AATAAAAAATTT
1 AATAAAAAATTT
9186458 AATAAAAAATTT
1 AATAAAAAATTT
9186470 GAACTATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATAAAAAATTT
Found at i:9191580 original size:52 final size:52
Alignment explanation
Indices: 9191492--9191648 Score: 192
Period size: 52 Copynumber: 3.0 Consensus size: 52
9191482 TGGACAAGAA
* * * *
9191492 GACTTGCAAAAGAAGAATTC-CAAGAGAAAGATGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGA-GATTCTTAATAGGCAAGTTT
* *
9191544 GATTTGCAAGAGAAGAATTCTAAAAAGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGAGATTCTTAATAGGCAAGTTT
* * * *
9191596 GACTTAC-AGAAGAAGAATTCTAAGAGGAAAGAGATTCTTAATGGGCAAGTTT
1 GACTTGCAAG-AGAAGAATTCTAAAAAGAAAGAGATTCTTAATAGGCAAGTTT
9191648 G
1 G
9191649 TATGGTTATA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.89
53 8 0.09
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAAAAGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:9192964 original size:16 final size:16
Alignment explanation
Indices: 9192939--9192973 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
9192929 CATATATTTA
9192939 TATATATATGTATATG
1 TATATATATGTATATG
*
9192955 TATATGTATGTATATG
1 TATATATATGTATATG
9192971 TAT
1 TAT
9192974 GATTGATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (16 bp):
TATATATATGTATATG
Found at i:9192970 original size:6 final size:6
Alignment explanation
Indices: 9192931--9192973 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
9192921 AGTGATTTCA
* *
9192931 TATATT TATATA TATATG TATATG TATATG --TATG TATATG TAT
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TAT
9192974 GATTGATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
6 29 0.88
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (6 bp):
TATATG
Found at i:9206144 original size:23 final size:23
Alignment explanation
Indices: 9206116--9206161 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9206106 CACCAACAAT
9206116 TTTATAATCCACTGCATCCAGAG
1 TTTATAATCCACTGCATCCAGAG
9206139 TTTATAATCCACTGCATCCAGAG
1 TTTATAATCCACTGCATCCAGAG
9206162 CCAATTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (23 bp):
TTTATAATCCACTGCATCCAGAG
Found at i:9208058 original size:2 final size:2
Alignment explanation
Indices: 9208045--9208076 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9208035 CTTATGGGGT
*
9208045 AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9208077 GCTGGTGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9208297 original size:28 final size:27
Alignment explanation
Indices: 9208240--9208322 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 27
9208230 TAATTATATA
* *
9208240 AATAATATGATTAGATAAAATATAACAT
1 AATAATATGATTA-ATATAATATAAAAT
9208268 AATAATATGATATAATTATAATA-AAAAT
1 AATAATATGAT-TAA-TATAATATAAAAT
* * *
9208296 AAAAATATAATTAATATAATTTAAAAT
1 AATAATATGATTAATATAATATAAAAT
9208323 TTTTAATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
26 6 0.13
27 8 0.17
28 25 0.53
29 8 0.17
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (27 bp):
AATAATATGATTAATATAATATAAAAT
Found at i:9209008 original size:23 final size:25
Alignment explanation
Indices: 9208947--9209009 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
9208937 ATTATATTTG
*
9208947 ATAATTTAAAGTATAATATGATGAT
1 ATAATTTAAAATATAATATGATGAT
*
9208972 ATAATAATAAAAAATATAA-A-GATGAT
1 ATAAT--T-TAAAATATAATATGATGAT
9208998 ATAATTTAAAAT
1 ATAATTTAAAAT
9209010 TTTAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
23 5 0.16
24 1 0.03
25 5 0.16
26 11 0.34
27 2 0.06
28 8 0.25
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (25 bp):
ATAATTTAAAATATAATATGATGAT
Found at i:9209099 original size:20 final size:21
Alignment explanation
Indices: 9209076--9209131 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
9209066 ACATAATTTT
9209076 TATATAAAATATAAT-ATTAA
1 TATATAAAATATAATAATTAA
* *
9209096 TATATAAATTATTAATAATTTA
1 TATATAAAATA-TAATAATTAA
9209118 TATGATACAAATAT
1 TAT-ATA-AAATAT
9209132 TGATTATCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 10 0.34
21 4 0.14
22 7 0.24
23 4 0.14
24 4 0.14
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TATATAAAATATAATAATTAA
Found at i:9210023 original size:22 final size:20
Alignment explanation
Indices: 9209972--9210025 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
9209962 AAAAATAAGA
9209972 AATAAATTTAAT-ATAATTT
1 AATAAATTTAATAATAATTT
* *
9209991 AA-AATTTTAATAATTATTAT
1 AATAAATTTAATAATAATT-T
9210011 ATATAAATTTAATAA
1 A-ATAAATTTAATAA
9210026 AATAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 8 0.29
19 7 0.25
20 2 0.07
21 1 0.04
22 10 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAAATTTAATAATAATTT
Found at i:9210071 original size:69 final size:69
Alignment explanation
Indices: 9209992--9210136 Score: 161
Period size: 69 Copynumber: 2.1 Consensus size: 69
9209982 ATATAATTTA
* * * * * *
9209992 AAATTTTAATA-ATTATTAT-ATATAAATTTAATAAAATAAAAAATATATATTTTATTTTTTTAT
1 AAATTATAATATATAATTATCATATAAA-AT-ATAAAAT-AAAAATATAAATTTTAATATTTTAT
9210055 -TGATAT
63 ATGATAT
* * *
9210061 AAATTATAATATATAATTTTCATATAAAATATAATATAAATATATAAATTTTAATATTTTATATG
1 AAATTATAATATATAATTATCATATAAAATATAAAATAAAAATATAAATTTTAATATTTTATATG
9210126 ATAT
66 ATAT
9210130 AAATTAT
1 AAATTAT
9210137 TAAATTTAAG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
68 21 0.33
69 29 0.45
70 7 0.11
71 7 0.11
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (69 bp):
AAATTATAATATATAATTATCATATAAAATATAAAATAAAAATATAAATTTTAATATTTTATATG
ATAT
Found at i:9210074 original size:60 final size:68
Alignment explanation
Indices: 9210002--9210136 Score: 169
Period size: 60 Copynumber: 2.1 Consensus size: 68
9209992 AAATTTTAAT
* * *
9210002 AATTATTATATATAAATTT-A-AT-AAA-ATAA-A-AAATATAT-ATTTTATTTTTTTAT-TGAT
1 AATTATAATATATAAATTTCATATAAAATATAATATAAATATATAATTTTAATATTTTATATGAT
9210059 ATA
66 ATA
*
9210062 AATTATAATATATAATTTTCATATAAAATATAATATAAATATATAAATTTTAATATTTTATATGA
1 AATTATAATATATAAATTTCATATAAAATATAATATAAATATAT-AATTTTAATATTTTATATGA
9210127 TATA
65 TATA
9210131 AATTAT
1 AATTAT
9210137 TAAATTTAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
60 17 0.27
61 1 0.02
62 2 0.03
63 3 0.05
64 4 0.06
65 1 0.02
66 8 0.13
68 13 0.21
69 13 0.21
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (68 bp):
AATTATAATATATAAATTTCATATAAAATATAATATAAATATATAATTTTAATATTTTATATGAT
ATA
Found at i:9210103 original size:18 final size:18
Alignment explanation
Indices: 9210057--9210109 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
9210047 TTTTTTATTG
*
9210057 ATATAAATTATAATATATA
1 ATATAAA-TATAAAATATA
* **
9210076 ATTTTCATATAAAATATA
1 ATATAAATATAAAATATA
9210094 ATATAAATATATAAAT
1 ATATAAATATA-AAAT
9210110 TTTAATATTT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAAATATAAAATATA
Found at i:9210650 original size:28 final size:31
Alignment explanation
Indices: 9210601--9210675 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 31
9210591 TATTTTACTT
* *
9210601 TTTAAATAAATTCTTA-CATTTTTA-TTATA
1 TTTAAATAAATTTTTATCATTTTGATTTATA
*
9210630 -TTAAATAAATTTTTATC-TTTTGATTTGTA
1 TTTAAATAAATTTTTATCATTTTGATTTATA
*
9210659 TTTAAATAAGTTTTTAT
1 TTTAAATAAATTTTTAT
9210676 TTCAAACAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
28 19 0.49
29 5 0.13
30 15 0.38
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (31 bp):
TTTAAATAAATTTTTATCATTTTGATTTATA
Found at i:9211193 original size:18 final size:18
Alignment explanation
Indices: 9211170--9211205 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9211160 ATTGTTTTTC
9211170 TTTTAAACTCATCTTTAT
1 TTTTAAACTCATCTTTAT
* *
9211188 TTTTAACCTCATTTTTAT
1 TTTTAAACTCATCTTTAT
9211206 CTAATAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTAAACTCATCTTTAT
Found at i:9213080 original size:12 final size:12
Alignment explanation
Indices: 9213058--9213087 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
9213048 AATTTAATTA
9213058 AATTAATTTATAT
1 AATT-ATTTATAT
9213071 AATTATTTATAT
1 AATTATTTATAT
9213083 AATTA
1 AATTA
9213088 CAATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTATTTATAT
Found at i:9213477 original size:30 final size:31
Alignment explanation
Indices: 9213441--9213505 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
9213431 AGAGTATGTA
9213441 TTTTTTATTT-AAATTAAAATAAAATTCAAG
1 TTTTTTATTTAAAATTAAAATAAAATTCAAG
*
9213471 TTTTTTATTTAAAATTAAAATAAAATTTAAG
1 TTTTTTATTTAAAATTAAAATAAAATTCAAG
9213502 TTTT
1 TTTT
9213506 CTTTTTTCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 10 0.30
31 23 0.70
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.51
Consensus pattern (31 bp):
TTTTTTATTTAAAATTAAAATAAAATTCAAG
Found at i:9213822 original size:16 final size:16
Alignment explanation
Indices: 9213789--9213834 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
9213779 AAAATTAACA
9213789 TATATATATTTATATAAT
1 TATA-ATATTT-TATAAT
*
9213807 TATAATATTTTTTAAT
1 TATAATATTTTATAAT
9213823 TAT-ATATTTTAT
1 TATAATATTTTAT
9213835 TTGGATAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 8 0.31
16 8 0.31
17 6 0.23
18 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATAATATTTTATAAT
Found at i:9215922 original size:8 final size:9
Alignment explanation
Indices: 9215887--9215929 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
9215877 TCGAGTCGAA
9215887 TTATATATTT
1 TTATA-ATTT
9215897 TTATTAATTT
1 TTA-TAATTT
9215907 TTATAATTT
1 TTATAATTT
9215916 TTA-AATTT
1 TTATAATTT
9215924 TTATAA
1 TTATAA
9215930 AATAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.26
9 11 0.35
10 10 0.32
11 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTATAATTT
Found at i:9215922 original size:17 final size:18
Alignment explanation
Indices: 9215887--9215929 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 18
9215877 TCGAGTCGAA
9215887 TTATATATTTTTATTAATTT
1 TTATA-ATTTTTA-TAATTT
9215907 TTATAATTTTTA-AATTT
1 TTATAATTTTTATAATTT
9215924 TTATAA
1 TTATAA
9215930 AATAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.48
19 7 0.30
20 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATAATTTTTATAATTT
Found at i:9215984 original size:22 final size:23
Alignment explanation
Indices: 9215947--9216001 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
9215937 ATAATTATTT
* *
9215947 TATATATAAATTTATTTAAAT-A
1 TATATAAAAATTTATTAAAATAA
9215969 TAT-TAAAAATCTTATTAAAATAA
1 TATATAAAAAT-TTATTAAAATAA
9215992 TATATAAAAA
1 TATATAAAAA
9216002 ATAAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.21
22 12 0.43
23 4 0.14
24 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TATATAAAAATTTATTAAAATAA
Found at i:9225150 original size:24 final size:25
Alignment explanation
Indices: 9225109--9225157 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
9225099 TAATTTTTAT
9225109 TTCATAAAAATTTAAAATACATATA
1 TTCATAAAAATTTAAAATACATATA
9225134 TTCATAAAAATTT-AAATACATATA
1 TTCATAAAAATTTAAAATACATATA
9225158 AAAACTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (25 bp):
TTCATAAAAATTTAAAATACATATA
Found at i:9226774 original size:48 final size:48
Alignment explanation
Indices: 9226716--9226818 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 48
9226706 TTTATTGACA
* ** * *
9226716 AAATACTATTACCAACCTGCTTTAATA-CAAACAAAAATTTTTATCGGT
1 AAATATTATTACCAACCTAATTTAATATC-AACAAAAATTTTCATCGAT
* * *
9226764 AAATATTATTATCAATCTAATTTAATATCAACGAAAATTTTCATCGAT
1 AAATATTATTACCAACCTAATTTAATATCAACAAAAATTTTCATCGAT
9226812 AAATATT
1 AAATATT
9226819 TTATCAATGA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 45 0.98
49 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (48 bp):
AAATATTATTACCAACCTAATTTAATATCAACAAAAATTTTCATCGAT
Found at i:9229124 original size:4 final size:4
Alignment explanation
Indices: 9229115--9229140 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
9229105 TGCTCACACC
9229115 AGCT AGCT AGCT AGCT AGCT AGCT AG
1 AGCT AGCT AGCT AGCT AGCT AGCT AG
9229141 AAAGAGACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (4 bp):
AGCT
Found at i:9233661 original size:14 final size:15
Alignment explanation
Indices: 9233628--9233666 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
9233618 ATTAAGTTTG
* *
9233628 AATTGAATTATTTAA
1 AATTAAATTAATTAA
9233643 AATTAAATTAATT-A
1 AATTAAATTAATTAA
9233657 AATTAAATTA
1 AATTAAATTA
9233667 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
AATTAAATTAATTAA
Found at i:9233698 original size:25 final size:25
Alignment explanation
Indices: 9233649--9233699 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
9233639 TTAAAATTAA
* * **
9233649 ATTAATTAAATTAAATTATTTTTTT
1 ATTAATTAAATAAAATAATAATTTT
9233674 ATTAATTAAATAAAATAATAATTTT
1 ATTAATTAAATAAAATAATAATTTT
9233699 A
1 A
9233700 AAAATTAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTAATTAAATAAAATAATAATTTT
Found at i:9234532 original size:11 final size:11
Alignment explanation
Indices: 9234499--9234534 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
9234489 AAGCTCAAAA
9234499 CATAGCCTAAC
1 CATAGCCTAAC
*
9234510 AATAGCCTAAC
1 CATAGCCTAAC
*
9234521 CGTAGCCTAAC
1 CATAGCCTAAC
9234532 CAT
1 CAT
9234535 TCGATTTCGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.36, C:0.33, G:0.11, T:0.19
Consensus pattern (11 bp):
CATAGCCTAAC
Found at i:9241941 original size:13 final size:12
Alignment explanation
Indices: 9241884--9241943 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 12
9241874 TACGAAGATC
9241884 ATATAAATAAAA
1 ATATAAATAAAA
*
9241896 CATATAAA-AATA
1 -ATATAAATAAAA
* *
9241908 ATATAATTTAAA
1 ATATAAATAAAA
* *
9241920 ATTTTAATAAAA
1 ATATAAATAAAA
9241932 ATTATAAATAAA
1 A-TATAAATAAA
9241944 TTTAATAAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
11 6 0.17
12 14 0.40
13 15 0.43
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATAAATAAAA
Found at i:9242023 original size:25 final size:23
Alignment explanation
Indices: 9241984--9242030 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
9241974 AATTTTTATA
*
9241984 TTTTTATAAATTATAATATATAAG
1 TTTTTATAAAATATAA-ATATAAG
9242008 TTTTATATAAAATATAAATATAA
1 TTTT-TATAAAATATAAATATAA
9242031 ATATAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTTTATAAAATATAAATATAAG
Found at i:9242055 original size:32 final size:31
Alignment explanation
Indices: 9241971--9242059 Score: 92
Period size: 31 Copynumber: 2.8 Consensus size: 31
9241961 ATATATTTTT
*
9241971 TATAATTTTTATATTTT-TATAAATTATAATA
1 TATAAATTTTATATTTTATATAAA-TATAATA
* ***
9242002 TATAAGTTTTATATAAAATATAAATATAA-A
1 TATAAATTTTATATTTTATATAAATATAATA
9242032 TATAAATTATTAATATTTTATATAAATA
1 TATAAATT-TT-ATATTTTATATAAATA
9242060 ATTACTTGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
30 8 0.17
31 20 0.43
32 19 0.40
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (31 bp):
TATAAATTTTATATTTTATATAAATATAATA
Found at i:9246284 original size:48 final size:48
Alignment explanation
Indices: 9246213--9246309 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
9246203 AATCAATCAT
*
9246213 TTATTTTTCTAACCAATTCTATATTTTGCCTTTGTCATTAAAAATTAC
1 TTATTTTTCTAACCAATTCTATATTTTGCCTTTCTCATTAAAAATTAC
* *
9246261 TTATTTTTCTAACCAATTCTATATTTTTCCTTTCTTATTAAAAATTAC
1 TTATTTTTCTAACCAATTCTATATTTTGCCTTTCTCATTAAAAATTAC
9246309 T
1 T
9246310 GTCATGTTGC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.29, C:0.16, G:0.02, T:0.53
Consensus pattern (48 bp):
TTATTTTTCTAACCAATTCTATATTTTGCCTTTCTCATTAAAAATTAC
Found at i:9246583 original size:29 final size:29
Alignment explanation
Indices: 9246546--9246615 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
9246536 AATAGAATGT
**
9246546 TTAATATAAATATTGACAAAATTTTTATTA
1 TTAA-ATAAATATTGACAAAATTTGAATTA
**
9246576 TTAAATAAATATTGATTAAATTTGAATTA
1 TTAAATAAATATTGACAAAATTTGAATTA
9246605 -TAAAT-AATATT
1 TTAAATAAATATT
9246616 TTTAATAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 6 0.17
28 5 0.14
29 21 0.58
30 4 0.11
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (29 bp):
TTAAATAAATATTGACAAAATTTGAATTA
Found at i:9253863 original size:30 final size:30
Alignment explanation
Indices: 9253816--9253873 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
9253806 ATTATTATTT
*
9253816 AATATTTTAATTTTATAT-ATTAATAATAAG
1 AATATTATAATTTTATATAATTAA-AATAAG
9253846 AATATTAT-ATTTATATATAATTAAAATA
1 AATATTATAATTT-TATATAATTAAAATA
9253874 TAATTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 4 0.16
30 16 0.64
31 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (30 bp):
AATATTATAATTTTATATAATTAAAATAAG
Found at i:9253881 original size:28 final size:28
Alignment explanation
Indices: 9253821--9253884 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
9253811 TATTTAATAT
9253821 TTTA-ATTTTATATATTAATAATAAGAA
1 TTTATATTTTATATATTAATAATAAGAA
*
9253848 TATTATATTTATATATAATTAA-AAT-ATAA
1 T-TTATATTT-TATAT-ATTAATAATAAGAA
9253877 TTTATATT
1 TTTATATT
9253885 AAAAATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
27 1 0.03
28 10 0.31
29 8 0.25
30 8 0.25
31 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (28 bp):
TTTATATTTTATATATTAATAATAAGAA
Found at i:9253882 original size:22 final size:27
Alignment explanation
Indices: 9253827--9253883 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 27
9253817 ATATTTTAAT
9253827 TTTATATATTAATAATAAGAATATTATA
1 TTTATATATTAAT-ATAAGAATATTATA
9253855 TTTATATA-TAAT-TAA-AATA-TA-A
1 TTTATATATTAATATAAGAATATTATA
9253877 TTTATAT
1 TTTATAT
9253884 TAAAAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
22 8 0.28
23 2 0.07
24 4 0.14
25 3 0.10
27 4 0.14
28 8 0.28
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
TTTATATATTAATATAAGAATATTATA
Found at i:9253898 original size:16 final size:17
Alignment explanation
Indices: 9253865--9253898 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9253855 TTTATATATA
9253865 ATTAAAATATAATTTAT
1 ATTAAAATATAATTTAT
*
9253882 ATTAAAA-ATATTTTAT
1 ATTAAAATATAATTTAT
9253898 A
1 A
9253899 AATATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAAATATAATTTAT
Found at i:9254966 original size:14 final size:14
Alignment explanation
Indices: 9254947--9254974 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9254937 CGATAATTTT
9254947 TCGAAATTCTATTC
1 TCGAAATTCTATTC
9254961 TCGAAATTCTATTC
1 TCGAAATTCTATTC
9254975 GTTTATACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (14 bp):
TCGAAATTCTATTC
Found at i:9261639 original size:15 final size:14
Alignment explanation
Indices: 9261618--9261663 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
9261608 TTCATTTAAT
*
9261618 TTTAAATTGAATTA
1 TTTAAATTAAATTA
9261632 TTTAAAATTAAATTA
1 TTT-AAATTAAATTA
*
9261647 ATTAAATTAAATTA
1 TTTAAATTAAATTA
9261661 TTT
1 TTT
9261664 TATTTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
TTTAAATTAAATTA
Found at i:9263130 original size:15 final size:15
Alignment explanation
Indices: 9263110--9263143 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9263100 CTTGCTATTT
*
9263110 TTATTTCTAATAGAA
1 TTATTTCTAATAAAA
*
9263125 TTATTTCTTATAAAA
1 TTATTTCTAATAAAA
9263140 TTAT
1 TTAT
9263144 GGTCTATTTG
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:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (15 bp):
TTATTTCTAATAAAA
Found at i:9268757 original size:11 final size:11
Alignment explanation
Indices: 9268743--9268801 Score: 66
Period size: 11 Copynumber: 5.3 Consensus size: 11
9268733 AAATTTTAAA
9268743 TTATATTATTT
1 TTATATTATTT
*
9268754 TTATATTTTTAT
1 TTATATTATT-T
9268766 TTATATTATTT
1 TTATATTATTT
*
9268777 TTATCA-TATTA
1 TTAT-ATTATTT
*
9268788 TTATATTATAT
1 TTATATTATTT
9268799 TTA
1 TTA
9268802 AAATTATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 1 0.03
11 28 0.70
12 11 0.28
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATATTATTT
Found at i:9268762 original size:23 final size:23
Alignment explanation
Indices: 9268735--9268801 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
9268725 TTTTATGAAA
9268735 ATTTTAAATTATATTATTTTTAT-
1 ATTTT-AATTATATTATTTTTATC
*
9268758 ATTTTTATTTATATTATTTTTATC
1 A-TTTTAATTATATTATTTTTATC
* *
9268782 ATATT-ATTATATTATATTTA
1 ATTTTAATTATATTATTTTTA
9268802 AAATTATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
22 13 0.34
23 20 0.53
24 5 0.13
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTTTAATTATATTATTTTTATC
Found at i:9268767 original size:14 final size:15
Alignment explanation
Indices: 9268748--9268789 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
9268738 TTAAATTATA
*
9268748 TTATTTTTA-TATTT
1 TTATTTATATTATTT
9268762 TTATTTATATTATTT
1 TTATTTATATTATTT
*
9268777 TTA-TCATATTATT
1 TTATTTATATTATT
9268790 ATATTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTATATTATTT
Found at i:9268809 original size:23 final size:22
Alignment explanation
Indices: 9268742--9268810 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 22
9268732 AAAATTTTAA
* * *
9268742 ATTATATTATTTTTATATTTTT
1 ATTATATTATTTTAAAATTATT
**
9268764 ATTTATATTATTTTTATCA-TATT
1 A-TTATATTA-TTTTAAAATTATT
9268787 ATTATATTATATTTAAAATTATT
1 ATTATATTAT-TTTAAAATTATT
9268810 A
1 A
9268811 AATCTAACGC
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
21 1 0.03
22 14 0.38
23 17 0.46
24 5 0.14
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTATATTATTTTAAAATTATT
Done.