Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 369 of 433
Found at i:115808945 original size:22 final size:23
Alignment explanation
Indices: 115808903--115808958 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
115808893 ATAAAAAACA
* * *
115808903 AAAAAAATAAATAAAAGGAAAGG
1 AAAAAAAGAAAGAAAAGGAAAAG
*
115808926 AAAAAGAGAAAGAAAA-GAAAAG
1 AAAAAAAGAAAGAAAAGGAAAAG
115808948 AAAAAAAGAAA
1 AAAAAAAGAAA
115808959 AAGGAGAGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 15 0.54
23 13 0.46
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (23 bp):
AAAAAAAGAAAGAAAAGGAAAAG
Found at i:115809859 original size:57 final size:57
Alignment explanation
Indices: 115809790--115809901 Score: 224
Period size: 57 Copynumber: 2.0 Consensus size: 57
115809780 GGACAGTGTA
115809790 ACAAGATCGGTGAATCCACAAATCCCATACCCCTGAAGTTGCAGTGGGACGAATTAC
1 ACAAGATCGGTGAATCCACAAATCCCATACCCCTGAAGTTGCAGTGGGACGAATTAC
115809847 ACAAGATCGGTGAATCCACAAATCCCATACCCCTGAAGTTGCAGTGGGACGAATT
1 ACAAGATCGGTGAATCCACAAATCCCATACCCCTGAAGTTGCAGTGGGACGAATT
115809902 GAAGTTATAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (57 bp):
ACAAGATCGGTGAATCCACAAATCCCATACCCCTGAAGTTGCAGTGGGACGAATTAC
Found at i:115809986 original size:45 final size:42
Alignment explanation
Indices: 115809917--115810590 Score: 176
Period size: 45 Copynumber: 15.0 Consensus size: 42
115809907 TATAATGGTG
115809917 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGCCACTA
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAG---CTA
* * * * *
115809962 AATCCTATCTCCCTGAAGTAGTAGTGGAGCAGGTTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGCTA
* * *
115810004 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAGAGTTAG-TG
1 AA-TCTTATCTCCCTGAAGTTGTAGTAGAGCAGA-TTGA---AGCTA
* * * * * *
115810050 AATCTCATTTCTCTGAAGTTGCAGTGGAACAGATTGAAGCTATCAATTA
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAG----C---TA
** * *
115810099 CAGATCTTATCTCTTTGAAGTTTTAGTAGAGCAGA-TCATAGC-A
1 -A-ATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGA-AGCTA
* * * *
115810142 AACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGCTA
** * * * *
115810184 TTAGCCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGATA
1 --AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGCTA
* * * * * **
115810228 GCGAATCTTATTTCCTTAAAGTTGCAGTGGAATAGATTGAAGCTATAAA
1 ---AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGC--T--A
* * ** *
115810277 TTACAGTTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAAC-A
1 --A-A--TCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGCTA
* * * * * *
115810323 AA-CTTTATCTCCCTGAAGTTGCAATGGAGCAAACTGAAGATA
1 AATC-TTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGCTA
* * ** * **
115810365 GTGAATCTCATTTCCCTGAAGTTACAGTGGAATAGATTGAAGCTATAA
1 ---AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGC--T-A
* * * *
115810413 GTTACAGCTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAAC-A
1 ---A-A--TCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGCTA
* * *
115810460 AACCTTATCTCCCTAAAGTTGTAGTGGAGCA-AGTTGAAG-TCA
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGA-TTGAAGCT-A
* * * * * * *
115810502 CTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGATA
1 --AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGCTA
* * * * *
115810546 GTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTA
1 ---AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGCTA
115810591 TAAATAAATA
Statistics
Matches: 466, Mismatches: 115, Indels: 96
0.69 0.17 0.14
Matches are distributed among these distances:
40 2 0.00
41 85 0.18
42 10 0.02
43 29 0.06
44 76 0.16
45 157 0.34
46 5 0.01
47 6 0.01
48 5 0.01
49 4 0.01
50 3 0.01
51 84 0.18
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (42 bp):
AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGCTA
Found at i:115810068 original size:88 final size:86
Alignment explanation
Indices: 115809919--115810210 Score: 266
Period size: 88 Copynumber: 3.3 Consensus size: 86
115809909 TAATGGTGAA
* * *
115809919 TCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGCCACTAAATC-CTATCTCCCTGAAGTAG
1 TCTTATCTCCCTGAAGTTGTAGTAGAGCAGA-TG-AG-TAGTAAATCTC-ATCTCCCTGAAGTTG
115809983 TAGTGGAGCAGGTTGAAGTTA-AAG
62 TAGTGGAGCAGGTTGAAGTTATAAG
* * * * *
115810007 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAGAGTTAGTGAATCTCATTTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGTAGTAGAGCAGA-T-GAG-TAGTAAATCTCATCTCCCTGAAGTTGT
* *
115810072 AGTGGAACAGATTGAAGCTATCAATTACAG
63 AGTGGAGCAGGTTGAAG-T-T--A-TA-AG
** * * * * *
115810102 ATCTTATCTCTTTGAAGTTTTAGTAGAGCAGATCA-TAGCAAACCTTATCTCCCTGAAGTTGTAG
1 -TCTTATCTCCCTGAAGTTGTAGTAGAGCAGATGAGTAGTAAATCTCATCTCCCTGAAGTTGTAG
*
115810166 TGGAGCAGGTTGAAGTTATTAG
65 TGGAGCAGGTTGAAGTTATAAG
*
115810188 CCTTATCTCCCTGAAGTTGTAGT
1 TCTTATCTCCCTGAAGTTGTAGT
115810211 GGAGTAGACT
Statistics
Matches: 163, Mismatches: 31, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
85 19 0.12
86 2 0.01
87 1 0.01
88 67 0.41
89 3 0.02
90 2 0.01
91 1 0.01
92 36 0.22
94 2 0.01
95 3 0.02
96 27 0.17
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (86 bp):
TCTTATCTCCCTGAAGTTGTAGTAGAGCAGATGAGTAGTAAATCTCATCTCCCTGAAGTTGTAGT
GGAGCAGGTTGAAGTTATAAG
Found at i:115810267 original size:181 final size:180
Alignment explanation
Indices: 115809918--115810353 Score: 554
Period size: 181 Copynumber: 2.4 Consensus size: 180
115809908 ATAATGGTGA
* * * * *
115809918 ATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGCCACTAAATCC-TATCTCCCTGAAGTA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCAA--AAC-AAA-CCTTATCTCCCTGAAGTT
* *
115809982 GTAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAGAGTTA
61 GTAGTGGAGCAGGTTGAAGTTAAAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAGAGATA
* * *
115810047 GTGAATCTCATTTCTCTGAAGTTGCAGTGGAACAGATTGAAGCTATCAATTACAG
126 GCGAATCTCATTTCTCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAG
* ** * *
115810102 ATCTTATCTCTTTGAAGTTTTAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTTGTAGT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCCTGAAGTTGTAGT
* * * *
115810167 GGAGCAGGTTGAAGTTATTAGCCTTATCTCCCTGAAGTTGTAGTGGAGTAGACT-GAAGATAGCG
66 GGAGCAGGTTGAAGTTA-AAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAG-AGATAGCG
* *
115810231 AATCTTATTTC-CTTAAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAG
129 AATCTCATTTCTC-TAAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAG
* * * *
115810283 TTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACTTTATCTCCCTGAAGTTGCAAT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCCTGAAGTTGTAGT
115810348 GGAGCA
66 GGAGCA
115810354 AACTGAAGAT
Statistics
Matches: 220, Mismatches: 28, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
179 2 0.01
180 41 0.19
181 146 0.66
183 2 0.01
184 29 0.13
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (180 bp):
ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCCTGAAGTTGTAGT
GGAGCAGGTTGAAGTTAAAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAGAGATAGCGAA
TCTCATTTCTCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAG
Found at i:115810394 original size:137 final size:137
Alignment explanation
Indices: 115810188--115810491 Score: 482
Period size: 137 Copynumber: 2.2 Consensus size: 137
115810178 AAGTTATTAG
* * * * *
115810188 CCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGATAGCGAATCTTATTTCCTTAAAGTTGC
1 CCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTGAAGATAGCGAATCTCATTTCCCTAAAGTTAC
*
115810253 AGTGGAATAGATTGAAGCTATAAATTACAGTTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA
66 AGTGGAATAGATTGAAGCTATAAATTACAGCTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA
115810318 AAACAAA
131 AAACAAA
* * * * *
115810325 CTTTATCTCCCTGAAGTTGCAATGGAGCAAACTGAAGATAGTGAATCTCATTTCCCTGAAGTTAC
1 CCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTGAAGATAGCGAATCTCATTTCCCTAAAGTTAC
* *
115810390 AGTGGAATAGATTGAAGCTATAAGTTACAGCTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTA
66 AGTGGAATAGATTGAAGCTATAAATTACAGCTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA
115810455 AAACAAA
131 AAACAAA
*
115810462 CCTTATCTCCCTAAAGTTGTAGTGGAGCAA
1 CCTTATCTCCCTGAAGTTGTAGTGGAGCAA
115810492 GTTGAAGTCA
Statistics
Matches: 150, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
137 150 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (137 bp):
CCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTGAAGATAGCGAATCTCATTTCCCTAAAGTTAC
AGTGGAATAGATTGAAGCTATAAATTACAGCTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA
AAACAAA
Found at i:115810514 original size:181 final size:182
Alignment explanation
Indices: 115810285--115810750 Score: 523
Period size: 182 Copynumber: 2.6 Consensus size: 182
115810275 AATTACAGTT
* * * * * *
115810285 CTTATCTCTCTGAAGTTGCAGTAGAGC-AGATCAAAACA-AACT-TTATCTCCCTGAAGTTGCAA
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAAGTTGAAATCACAAGTCTTATCTCCCTGAAGTTGCAA
* *
115810347 TGGAGCAAACTGAAGATAGTGAATCTCATTTCCCTGAAGTTACAGTGGAATAGATTGAAGCTATA
66 TGGAGCAAACTGAAGATAGTGAATCTCATTTCCCTGAAGTTACAGTGGAACAAATTGAAGCTATA
* * * * *
115810412 AGT-TACAGCTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACAAAC
131 AATAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAAA
* * * *
115810463 CTTATCTCCCTAAAGTTGTAGTGGAGCAAGTTGAAGTCACTAGTCTTATCTCCCTGAAGTTGCAA
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAAGTTGAAATCACAAGTCTTATCTCCCTGAAGTTGCAA
* * * *
115810528 TGGAGCAGACTAAAGATAGTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATA
66 TGGAGCAAACTGAAGATAGTGAATCTCATTTCCCTGAAGTTACAGTGGAACAAATTGAAGCTATA
* * * * *
115810593 AATAAATAGATTTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAAA
131 AATAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAAA
* * ** * * *
115810645 CTTATCTCCTTGAAGTTGCAGTAGAGCTGGTTGAAATTACAAGTCTTATC-ACCTTAAGGTTGCA
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAAGTTGAAATCACAAGTCTTATCTCCCTGAA-GTTGCA
* * * *
115810709 GTGAAGCAAACTGAAGAAAGCT-AATC-CTATCTCCCTGAAGTT
65 ATGGAGCAAACTGAAGATAG-TGAATCTC-ATTTCCCTGAAGTT
115810751 GTAGTGGAGT
Statistics
Matches: 237, Mismatches: 44, Indels: 10
0.81 0.15 0.03
Matches are distributed among these distances:
178 23 0.10
179 7 0.03
180 2 0.01
181 86 0.36
182 118 0.50
183 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (182 bp):
CTTATCTCCCTAAAGTTGCAGTAGAGCAAGTTGAAATCACAAGTCTTATCTCCCTGAAGTTGCAA
TGGAGCAAACTGAAGATAGTGAATCTCATTTCCCTGAAGTTACAGTGGAACAAATTGAAGCTATA
AATAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAAA
Found at i:115810586 original size:89 final size:85
Alignment explanation
Indices: 115810421--115810587 Score: 199
Period size: 89 Copynumber: 1.9 Consensus size: 85
115810411 AAGTTACAGC
* * * *
115810421 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACAAACCTTATCTCCCTAAAGTTGTAGTG
1 TCTTATCTCCCTGAAGTTGCAATAGAGCAGACTAAAACAAACCTTATCTCCCTAAAGTTGCAGTG
* *
115810486 GAGCAAGTTGAAGTCACTAG
66 GAACAAATTGAAGTCACTAG
* * * * *
115810506 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGATAGTGAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAATAGAGCAGACTAAA-ACA---AACCTTATCTCCCTAAAGTTGC
115810571 AGTGGAACAAATTGAAG
62 AGTGGAACAAATTGAAG
115810588 CTATAAATAA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 32 0.48
86 2 0.03
89 33 0.49
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (85 bp):
TCTTATCTCCCTGAAGTTGCAATAGAGCAGACTAAAACAAACCTTATCTCCCTAAAGTTGCAGTG
GAACAAATTGAAGTCACTAG
Found at i:115810587 original size:318 final size:319
Alignment explanation
Indices: 115810008--115810671 Score: 942
Period size: 318 Copynumber: 2.1 Consensus size: 319
115809998 AAGTTAAAGT
* * * * *
115810008 CTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAGAGTTAGTGAATCTCATTTCTCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAATAGAGCAAACTAGAGATAGTGAATCTCATTTCCCTGAAGTTACA
* ** *
115810073 GTGGAACAGATTGAAGCTATCAATTACAGATCTTATCTCTTTGAAGTTTTAGTAGAGCAGATCAT
66 GTGGAACAGATTGAAGCTATCAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAA
* * * * *
115810138 AGCAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTATTAGCCTTATCTCCCTGAA
131 AACAAACCTTATCTCCCTAAAGTTGTAGTGGAGCAAGTTGAAGTCACTAGCCTTATCTCCCTGAA
* * * * * * *
115810203 GTTGTAGTGGAGTAGACTGAAGATAGCGAATCTTATTTCCTTAAAGTTGCAGTGGAATAGATTGA
196 GTTGCAATGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTGA
*
115810268 AGCTATAAAT-TACAG-TTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAAC-AAA
261 AGCTATAAATAAACAGATT-TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAAA
*
115810325 CTTTATCTCCCTGAAGTTGCAATGGAGCAAACT-GAAGATAGTGAATCTCATTTCCCTGAAGTTA
1 C-TTATCTCCCTGAAGTTGCAATAGAGCAAACTAG-AGATAGTGAATCTCATTTCCCTGAAGTTA
* *
115810389 CAGTGGAATAGATTGAAGCTAT-AAGTTACAGCTCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
64 CAGTGGAACAGATTGAAGCTATCAA-TTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
* *
115810453 TAAAACAAACCTTATCTCCCTAAAGTTGTAGTGGAGCAAGTTGAAGTCACTAGTCTTATCTCCCT
128 CAAAACAAACCTTATCTCCCTAAAGTTGTAGTGGAGCAAGTTGAAGTCACTAGCCTTATCTCCCT
* *
115810518 GAAGTTGCAATGGAGCAGACTAAAGATAGTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAAT
193 GAAGTTGCAATGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAAAT
* * * *
115810583 TGAAGCTATAAATAAATAGATTTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAAA
258 TGAAGCTATAAATAAACAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAAA
* *
115810645 CTTATCTCCTTGAAGTTGCAGTAGAGC
1 CTTATCTCCCTGAAGTTGCAATAGAGC
115810672 TGGTTGAAAT
Statistics
Matches: 305, Mismatches: 36, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
317 4 0.01
318 236 0.77
319 59 0.19
320 6 0.02
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (319 bp):
CTTATCTCCCTGAAGTTGCAATAGAGCAAACTAGAGATAGTGAATCTCATTTCCCTGAAGTTACA
GTGGAACAGATTGAAGCTATCAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAA
AACAAACCTTATCTCCCTAAAGTTGTAGTGGAGCAAGTTGAAGTCACTAGCCTTATCTCCCTGAA
GTTGCAATGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTGA
AGCTATAAATAAACAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAAA
Found at i:115810849 original size:183 final size:182
Alignment explanation
Indices: 115810641--115810986 Score: 460
Period size: 183 Copynumber: 1.9 Consensus size: 182
115810631 AGATCATAGC
* * * * ** * *
115810641 AAAACTTATCTCCTTGAAGTTGCAGTAGAGCTGGTTGAAATTACAAGTCTTATCACCTTAAGGTT
1 AAAACTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAACCACAAGTCTTATCACCCTAAAGTT
* * **
115810706 GCAGTGAAGCAAACTGAAGA-AAGCTAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAA
66 GCAGCGAAGCAAACTGAAGACAA-CTAATCCTATCTCCCTAAAGTTGTAGTGGAGAAGATTAAAA
* * *
115810770 CGACGAGTCCTATACCTCTGAAGTTGCAGTAGGTCAAATCAAATCTACCATGG
130 CAACAAGTCCTATACCTCTAAAGTTGCAGTAGGTCAAATCAAATCTACCATGG
* * * *
115810823 AAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTTAACCCACAAGTCTTATCTCCCTAAAGT
1 AAAA-CTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAACCACAAGTCTTATCACCCTAAAGT
* * **
115810888 TGCAGCGGAGCAGACTGAAGACAACTAATCCTATCTCCCTAAAGTTGTAGTGGAGAAGATTAAGG
65 TGCAGCGAAGCAAACTGAAGACAACTAATCCTATCTCCCTAAAGTTGTAGTGGAGAAGATTAAAA
115810953 CAACAAGTCCTATACCTCTAAAGTTGCAGTAGGT
130 CAACAAGTCCTATACCTCTAAAGTTGCAGTAGGT
115810987 AAGATTAAAC
Statistics
Matches: 139, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
182 4 0.03
183 133 0.96
184 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (182 bp):
AAAACTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAACCACAAGTCTTATCACCCTAAAGTT
GCAGCGAAGCAAACTGAAGACAACTAATCCTATCTCCCTAAAGTTGTAGTGGAGAAGATTAAAAC
AACAAGTCCTATACCTCTAAAGTTGCAGTAGGTCAAATCAAATCTACCATGG
Found at i:115810890 original size:44 final size:45
Alignment explanation
Indices: 115810825--115810941 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 45
115810815 TACCATGGAA
* * * * *
115810825 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTTAA-CCCAC-
1 AATCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAGACAACT
* *
115810868 AAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAACT
1 AA-TCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAGACAACT
* *
115810914 AATCCTATCTCCCTAAAGTTGTAGTGGA
1 AATCTTATCTCCCTAAAGTTGCAGTGGA
115810942 GAAGATTAAG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
43 2 0.03
44 31 0.51
45 26 0.43
46 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAGACAACT
Found at i:115810927 original size:45 final size:44
Alignment explanation
Indices: 115810866--115810981 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 44
115810856 GATTTAACCC
* *
115810866 ACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACA
1 ACAAGTCCTATCTCCCTAAAGTTGCAGCGGAGAAGA-TGAAGACA
* * * *
115810911 ACTAA-TCCTATCTCCCTAAAGTTGTAGTGGAGAAGATTAAGGCA
1 AC-AAGTCCTATCTCCCTAAAGTTGCAGCGGAGAAGATGAAGACA
*
115810955 ACAAGTCCTATAC-CTCTAAAGTTGCAG
1 ACAAGTCCTAT-CTCCCTAAAGTTGCAG
115810982 TAGGTAAGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
43 2 0.03
44 26 0.43
45 30 0.50
46 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (44 bp):
ACAAGTCCTATCTCCCTAAAGTTGCAGCGGAGAAGATGAAGACA
Found at i:115811022 original size:183 final size:183
Alignment explanation
Indices: 115810683--115811024 Score: 438
Period size: 183 Copynumber: 1.9 Consensus size: 183
115810673 GGTTGAAATT
* * * *
115810683 ACAAGTCTTATCACCTTAAGGTTGCAGTGAAGCAAACTGAAGAAAGCTAATCCTATCTCCCTGAA
1 ACAAGTCTTATCACCCTAAAGTTGCAGCGAAGCAAACTGAAGAAAGCTAATCCTATCTCCCTAAA
** * * *
115810748 GTTGTAGTGGAGTGGATTAAAACGACGAGTCCTATACCTCTGAAGTTGCAGTAGGTCAAATCAAA
66 GTTGTAGTGGAGAAGATTAAAACAACAAGTCCTATACCTCTAAAGTTGCAGTAGGTCAAATCAAA
* * *** * *
115810813 TCTACCATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTTAACCC
131 CCTACAAACCAAAATCTCACCTCCCTGAAGTTGCAGTGGAACAGATTTAACCC
* * *
115810866 ACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAA-CTAATCCTATCTCCCTAA
1 ACAAGTCTTATCACCCTAAAGTTGCAGCGAAGCAAACTGAAGA-AAGCTAATCCTATCTCCCTAA
** *
115810930 AGTTGTAGTGGAGAAGATTAAGGCAACAAGTCCTATACCTCTAAAGTTGCAGTAGGT-AAGATTA
65 AGTTGTAGTGGAGAAGATTAAAACAACAAGTCCTATACCTCTAAAGTTGCAGTAGGTCAA-ATCA
115810994 AACCTA-AAACCACAAATCTCACCTCCCTGAA
129 AACCTACAAACCA-AAATCTCACCTCCCTGAA
115811025 TTTGTAGCAG
Statistics
Matches: 134, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
182 4 0.03
183 128 0.96
184 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (183 bp):
ACAAGTCTTATCACCCTAAAGTTGCAGCGAAGCAAACTGAAGAAAGCTAATCCTATCTCCCTAAA
GTTGTAGTGGAGAAGATTAAAACAACAAGTCCTATACCTCTAAAGTTGCAGTAGGTCAAATCAAA
CCTACAAACCAAAATCTCACCTCCCTGAAGTTGCAGTGGAACAGATTTAACCC
Found at i:115812389 original size:3 final size:3
Alignment explanation
Indices: 115812375--115812486 Score: 91
Period size: 3 Copynumber: 37.0 Consensus size: 3
115812365 TTTTCCTTAC
* * *
115812375 TAT TAT TTT TAT TAT CAT TAAT TAT TAT TAT AAT TACT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * ** * *
115812421 TAT TAC TAT TAT TAT TAG TAT TAT TAT TAC TGC CAT TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
115812469 TAC TAT TAT AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
115812487 ATATCTCTTT
Statistics
Matches: 84, Mismatches: 22, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
2 2 0.02
3 77 0.92
4 5 0.06
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:115814848 original size:50 final size:50
Alignment explanation
Indices: 115814773--115814949 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
115814763 CCATGGAAAC
115814773 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
115814823 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
115814873 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
115814923 TAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
115814950 CTGATCAGTG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:115815197 original size:31 final size:31
Alignment explanation
Indices: 115814927--115815190 Score: 411
Period size: 31 Copynumber: 8.5 Consensus size: 31
115814917 AAATGATAAC
115814927 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
115814958 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
115814989 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
115815020 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
115815051 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
115815082 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* * *
115815113 TGAAAAGTGGTAACTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
115815144 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
115815175 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
115815191 TGGCTACAAG
Statistics
Matches: 217, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 217 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:115815293 original size:47 final size:47
Alignment explanation
Indices: 115815224--115815344 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 47
115815214 GTGATTTCTA
*
115815224 TATAAGACCATATCTGGGATATGGCATC-GTTGTGATATATG-CTACTG
1 TATAAGACCATATCTGGGATATGGCATCAG-TGAGATATATGACTAC-G
* * *
115815271 TATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTACG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTACG
* * *
115815318 TGTAAGACCATAGCTGGGCTATGGCAT
1 TATAAGACCATATCTGGGATATGGCAT
115815345 TATTATGTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 60 0.94
48 4 0.06
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (47 bp):
TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTACG
Found at i:115817957 original size:28 final size:28
Alignment explanation
Indices: 115817905--115818019 Score: 153
Period size: 28 Copynumber: 4.1 Consensus size: 28
115817895 CATGACTATT
115817905 AATGTGATTGGG-CTGATGGGCCATATG
1 AATGTGATTGGGCCTGATGGGCCATATG
115817932 AATGTGATTGGGCCTGATGGGCCATATG
1 AATGTGATTGGGCCTGATGGGCCATATG
* *
115817960 AATATGATTAGGGTC-GATGGGCCATATG
1 AATGTGATT-GGGCCTGATGGGCCATATG
* * *
115817988 AATGAGATTGGGCCTAAATGGGCCAAATG
1 AATGTGATTGGGCCT-GATGGGCCATATG
115818017 AAT
1 AAT
115818020 AAGTATGGAC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
27 16 0.21
28 43 0.56
29 18 0.23
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTGATGGGCCATATG
Found at i:115818402 original size:54 final size:53
Alignment explanation
Indices: 115818318--115818687 Score: 271
Period size: 54 Copynumber: 6.8 Consensus size: 53
115818308 TAATAAAGAG
* ** * *
115818318 AAATTACCGAAATACCCCCGATTTACAAAATTACCGAAATACCCCTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATA-CCCTAATTTGTA
* * * * * *
115818372 AAATTACCGAAATACCTTCTATATGTAAAATTACTAAAATACCCTTATAATGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTAAT-TTGTA
** **
115818426 AAATTACCGAAATACACC-CGATTTACAAAATTACCAAAATACCCTCAATTTACA
1 AAATTACCGAAATAC-CCTCGATTTGTAAAATTACCAAAATACCCT-AATTTGTA
** * * * *
115818480 AAATTATTGAAATACCCCCAATTTGTAAAATTACCAAAATACCCTTATAGTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTAAT-TTGTA
** * * ** * *
115818534 AAATTACTAAAATACCCT-TATAGTGTAAAATTACTGAAATACCCTCGATTTCTA
1 AAATTACCGAAATACCCTCGAT-TTGTAAAATTACCAAAATACCCT-AATTTGTA
* * *
115818588 AAATTACC-ATAATACCCTCGATTTATAAAATTACTAAAATACCTCTAATTTTTAA
1 AAATTACCGA-AATACCCTCGATTTGTAAAATTACCAAAATACC-CTAATTTGT-A
** * * * *
115818643 AAATTATTGAAATTCCCTTG-TAGTGTAAAATTACTAAAATACCCT
1 AAATTACCGAAATACCCTCGAT-TTGTAAAATTACCAAAATACCCT
115818688 TGTAGTATAA
Statistics
Matches: 251, Mismatches: 52, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
53 13 0.05
54 194 0.77
55 43 0.17
56 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.31
Consensus pattern (53 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTAATTTGTA
Found at i:115818483 original size:81 final size:80
Alignment explanation
Indices: 115818344--115818686 Score: 268
Period size: 81 Copynumber: 4.2 Consensus size: 80
115818334 CCCGATTTAC
* * * * * *
115818344 AAAATTACCGAAATACCCCTGATTTGTAAAATTACCGAAATACCTTCTATATGT-AAAATTACTA
1 AAAATTACCGAAATACCCC-GATTTATAAAATTACCAAAATACCCTCAAT-TTTAAAAATTACTG
*
115818408 AAATACCCTTATAATGT
64 AAATACCCTTATATTGT
* *
115818425 AAAATTACCGAAATACACCCGATTTACAAAATTACCAAAATACCCTCAA-TTTACAAAATTATTG
1 AAAATTACCGAAATAC-CCCGATTTATAAAATTACCAAAATACCCTCAATTTTA-AAAATTACTG
**
115818489 AAATACCCCCA-ATTTGT
64 AAATACCCTTATA-TTGT
* ** * * * * * *
115818506 AAAATTACCAAAATACCCTTATAGTGTAAAATTACTAAAATACCCTTATAGTGT-AAAATTACTG
1 AAAATTACCGAAATACCCCGAT-TTATAAAATTACCAAAATACCCTCA-ATTTTAAAAATTACTG
* *
115818570 AAATACCCTCGAT-TTCT
64 AAATACCCT-TATATTGT
* *
115818587 AAAATTACC-ATAATACCCTCGATTTATAAAATTACTAAAATA-CCTCTAATTTTTAAAAATTAT
1 AAAATTACCGA-AATACCC-CGATTTATAAAATTACCAAAATACCCTC-AA-TTTTAAAAATTAC
* * *
115818650 TGAAATTCCCTTGTAGTGT
62 TGAAATACCCTTATATTGT
**
115818669 AAAATTACTAAAATACCC
1 AAAATTACCGAAATACCC
115818687 TTGTAGTATA
Statistics
Matches: 208, Mismatches: 38, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
79 2 0.01
80 10 0.05
81 152 0.73
82 41 0.20
83 3 0.01
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (80 bp):
AAAATTACCGAAATACCCCGATTTATAAAATTACCAAAATACCCTCAATTTTAAAAATTACTGAA
ATACCCTTATATTGT
Found at i:115818548 original size:108 final size:108
Alignment explanation
Indices: 115818318--115818540 Score: 313
Period size: 108 Copynumber: 2.1 Consensus size: 108
115818308 TAATAAAGAG
* * * **
115818318 AAATTACCGAAATACCCCCGATTTACAAAATTACCGAAATACCCCTGATTTGTAAAATTACCGAA
1 AAATTACCGAAATACACCCGATTTACAAAATTACCAAAATACCCCTAATTTACAAAATTACCGAA
** * *
115818383 ATACCTTCTATATGTAAAATTACTAAAATACCCTTATAATGTA
66 ATACCCCCAATATGTAAAATTACCAAAATACCCTTATAATGTA
**
115818426 AAATTACCGAAATACACCCGATTTACAAAATTACCAAAATA-CCCTCAATTTACAAAATTATTGA
1 AAATTACCGAAATACACCCGATTTACAAAATTACCAAAATACCCCT-AATTTACAAAATTACCGA
* *
115818490 AATACCCCCAATTTGTAAAATTACCAAAATACCCTTATAGTGTA
65 AATACCCCCAATATGTAAAATTACCAAAATACCCTTATAATGTA
115818534 AAATTAC
1 AAATTAC
115818541 TAAAATACCC
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
107 4 0.04
108 97 0.96
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (108 bp):
AAATTACCGAAATACACCCGATTTACAAAATTACCAAAATACCCCTAATTTACAAAATTACCGAA
ATACCCCCAATATGTAAAATTACCAAAATACCCTTATAATGTA
Found at i:115818638 original size:27 final size:26
Alignment explanation
Indices: 115818318--115818644 Score: 215
Period size: 27 Copynumber: 12.1 Consensus size: 26
115818308 TAATAAAGAG
* * **
115818318 AAATTACCGAAATACCCCCGATTTACA
1 AAATTACCAAAATA-CCCTGATTTGTA
*
115818345 AAATTACCGAAATACCCCTGATTTGTA
1 AAATTACCAAAATA-CCCTGATTTGTA
* *
115818372 AAATTACCGAAATACCTTCT-ATATGTA
1 AAATTACCAAAATACC--CTGATTTGTA
* * *
115818399 AAATTACTAAAATACCCTTATAATGTA
1 AAATTACCAAAATACCCTGAT-TTGTA
* * **
115818426 AAATTACCGAAATACACCCGATTTACA
1 AAATTACCAAAATAC-CCTGATTTGTA
* **
115818453 AAATTACCAAAATACCCTCAATTTACA
1 AAATTACCAAAATACCCT-GATTTGTA
*** **
115818480 AAATTATTGAAATACCCCCAATTTGTA
1 AAATTACCAAAATA-CCCTGATTTGTA
* *
115818507 AAATTACCAAAATACCCTTATAGTGTA
1 AAATTACCAAAATACCCTGAT-TTGTA
* * *
115818534 AAATTACTAAAATACCCTTATAGTGTA
1 AAATTACCAAAATACCCTGAT-TTGTA
** *
115818561 AAATTACTGAAATACCCTCGATTTCTA
1 AAATTACCAAAATACCCT-GATTTGTA
* *
115818588 AAATTACCATAATACCCTCGATTTATA
1 AAATTACCAAAATACCCT-GATTTGTA
* * *
115818615 AAATTACTAAAATACCTCTAATTTTTA
1 AAATTACCAAAATACC-CTGATTTGTA
115818642 AAA
1 AAA
115818645 ATTATTGAAA
Statistics
Matches: 249, Mismatches: 41, Indels: 20
0.80 0.13 0.06
Matches are distributed among these distances:
25 2 0.01
26 11 0.04
27 223 0.90
28 13 0.05
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (26 bp):
AAATTACCAAAATACCCTGATTTGTA
Found at i:115818682 original size:27 final size:27
Alignment explanation
Indices: 115818503--115818727 Score: 177
Period size: 27 Copynumber: 8.3 Consensus size: 27
115818493 ACCCCCAATT
* *
115818503 TGTAAAATTACCAAAATACCCTTATAG
1 TGTAAAATTACTAAAATACCCTTGTAG
*
115818530 TGTAAAATTACTAAAATACCCTTATAG
1 TGTAAAATTACTAAAATACCCTTGTAG
* * *
115818557 TGTAAAATTACTGAAATACCCTCG-ATT
1 TGTAAAATTACTAAAATACCCTTGTA-G
* * * * *
115818584 TCTAAAATTACCATAATACCCTCG-ATT
1 TGTAAAATTACTAAAATACCCTTGTA-G
* ** *
115818611 TATAAAATTACTAAAATACCTCTAAT-T
1 TGTAAAATTACTAAAATACC-CTTGTAG
* * * *
115818638 TTTAAAAATTATTGAAATTCCCTTGTAG
1 TGT-AAAATTACTAAAATACCCTTGTAG
115818666 TGTAAAATTACTAAAATACCCTTGTAG
1 TGTAAAATTACTAAAATACCCTTGTAG
* * * *
115818693 TATAAAATGACTGACATACCCTTGTAG
1 TGTAAAATTACTAAAATACCCTTGTAG
*
115818720 GGTAAAAT
1 TGTAAAAT
115818728 GGTTGTTTTG
Statistics
Matches: 162, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 143 0.88
28 18 0.11
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (27 bp):
TGTAAAATTACTAAAATACCCTTGTAG
Found at i:115819279 original size:32 final size:34
Alignment explanation
Indices: 115819243--115819309 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 34
115819233 AGTGCCACCG
* *
115819243 TTATTGAAT-GGGCTTAGGCCCAGA-CTTTACTA
1 TTATTGAATAGGGCTCAGGCCCAGAGCGTTACTA
115819275 TTATTGAATAGGGCTCAGGCCCAGAGCGTTACTA
1 TTATTGAATAGGGCTCAGGCCCAGAGCGTTACTA
115819309 T
1 T
115819310 ATGCGCTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 9 0.29
33 14 0.45
34 8 0.26
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (34 bp):
TTATTGAATAGGGCTCAGGCCCAGAGCGTTACTA
Found at i:115821787 original size:29 final size:27
Alignment explanation
Indices: 115821679--115821790 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 27
115821669 ACTATTAATG
** *
115821679 TGATTGGGTAGATTGGCCATATGAATA
1 TGATTGGGCCGATGGGCCATATGAATA
*
115821706 TGATTGGGCCTGATGGGCCATATAAATA
1 TGATTGGGCC-GATGGGCCATATGAATA
115821734 TGATTAGGGCCGATGGGCCATATGAATGA
1 TGATT-GGGCCGATGGGCCATATGAAT-A
*
115821763 -GATTGGGCCGAAATGGGCCAAATGAATA
1 TGATTGGGCCG--ATGGGCCATATGAATA
115821791 AGTGTGGATC
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.19
28 40 0.54
29 20 0.27
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.26
Consensus pattern (27 bp):
TGATTGGGCCGATGGGCCATATGAATA
Found at i:115822118 original size:27 final size:27
Alignment explanation
Indices: 115822088--115822322 Score: 206
Period size: 27 Copynumber: 8.7 Consensus size: 27
115822078 TAATAAATAG
* *
115822088 AAATTACCAAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCTATTTGTA
* * *
115822115 AAATTATCGAAATACCTTCGATTTGTA
1 AAATTACCGAAATACCCTCTATTTGTA
*
115822142 AAATTACTGAAATACCCTCTATTTGTA
1 AAATTACCGAAATACCCTCTATTTGTA
* * *
115822169 AAATTACCAAAATA-CCTTTATAATGTA
1 AAATTACCGAAATACCCTCTAT-TTGTA
** * *
115822196 AAATTACTAAAATA-CCTTTATAGTGTA
1 AAATTACCGAAATACCCTCTAT-TTGTA
* *
115822223 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCTATTTGTA
* * * *
115822250 AAATTACTGAAATACCCCCAATTTCTGA
1 AAATTACCGAAATACCCTCTATTTGT-A
* * *
115822278 AAATTATCGAAATACCCT-TGTCGTGTA
1 AAATTACCGAAATACCCTCTAT-TTGTA
*
115822305 AAATTACCTAAATACCCT
1 AAATTACCGAAATACCCT
115822323 TGTAGTCTAA
Statistics
Matches: 170, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
26 6 0.04
27 141 0.83
28 23 0.14
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCTATTTGTA
Found at i:115822170 original size:54 final size:54
Alignment explanation
Indices: 115822088--115822322 Score: 237
Period size: 54 Copynumber: 4.3 Consensus size: 54
115822078 TAATAAATAG
*
115822088 AAATTACCAAAATACCCTCAATTTGTAAAATTATCGAAATACCTTCGAT-TTGTA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTATCGAAATACCTT-GATATTGTA
* * * * * *
115822142 AAATTACTGAAATACCCTCTATTTGTAAAATTACCAAAATACCTTTATAATGTA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTATCGAAATACCTTGATATTGTA
** * *
115822196 AAATTACTAAAATA-CCTTTATAGTGTAAAATTATCGAAATACCCTCGAT-TTGTA
1 AAATTACTAAAATACCCTCAAT-TTGTAAAATTATCGAAATA-CCTTGATATTGTA
* * * **
115822250 AAATTACTGAAATACCCCCAATTTCTGAAAATTATCGAAATACCCTTG-TCGTGTA
1 AAATTACTAAAATACCCTCAATTTGT-AAAATTATCGAAATA-CCTTGATATTGTA
115822305 AAATTACCT-AAATACCCT
1 AAATTA-CTAAAATACCCT
115822323 TGTAGTCTAA
Statistics
Matches: 150, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
53 8 0.05
54 93 0.62
55 47 0.31
56 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCAATTTGTAAAATTATCGAAATACCTTGATATTGTA
Found at i:115822323 original size:27 final size:26
Alignment explanation
Indices: 115822138--115822362 Score: 132
Period size: 27 Copynumber: 8.3 Consensus size: 26
115822128 ACCTTCGATT
*
115822138 TGTAAAATTACTGAAATACCCTCTAT-T
1 TGTAAAATTACT-AAATACCCT-TATAG
* * *
115822165 TGTAAAATTACCAAAATACCTTTATAA
1 TGTAAAATTA-CTAAATACCCTTATAG
*
115822192 TGTAAAATTACTAAAATACCTTTATAG
1 TGTAAAATTACT-AAATACCCTTATAG
* * *
115822219 TGTAAAATTATCGAAATACCCTCGAT-T
1 TGTAAAATTA-CTAAATACCCT-TATAG
** *
115822246 TGTAAAATTACTGAAATACCCCCA-ATT
1 TGTAAAATTACT-AAATACCCTTATA-G
* * * *
115822273 TCTGAAAATTATCGAAATACCCTTGTCG
1 TGT-AAAATTA-CTAAATACCCTTATAG
*
115822301 TGTAAAATTACCTAAATACCCTTGTAG
1 TGTAAAATTA-CTAAATACCCTTATAG
* * * *
115822328 TCTAAAATGACTGACATACCCCTATAG
1 TGTAAAATTACT-AAATACCCTTATAG
*
115822355 GGTAAAAT
1 TGTAAAAT
115822363 GGACGTTTTA
Statistics
Matches: 156, Mismatches: 30, Indels: 24
0.74 0.14 0.11
Matches are distributed among these distances:
26 8 0.05
27 126 0.81
28 21 0.13
29 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (26 bp):
TGTAAAATTACTAAATACCCTTATAG
Found at i:115823742 original size:13 final size:14
Alignment explanation
Indices: 115823724--115823754 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
115823714 TTAGCCGAAC
115823724 ACAAATATG-TTTA
1 ACAAATATGCTTTA
115823737 ACAAATATGCTTTA
1 ACAAATATGCTTTA
115823751 ACAA
1 ACAA
115823755 TTGTTCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (14 bp):
ACAAATATGCTTTA
Found at i:115829027 original size:40 final size:40
Alignment explanation
Indices: 115828919--115829128 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
115828909 CGGGATTTAA
* * * * *
115828919 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
115828959 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115828999 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115829039 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115829079 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115829119 CCGGATATAT
1 CCGGATATAT
115829129 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:115837160 original size:40 final size:40
Alignment explanation
Indices: 115837052--115837261 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
115837042 CGGGATTTAA
* * * * *
115837052 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
115837092 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115837132 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115837172 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115837212 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115837252 CCGGATATAT
1 CCGGATATAT
115837262 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:115839766 original size:40 final size:40
Alignment explanation
Indices: 115839658--115839867 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
115839648 CGGGATTTAA
* * * * *
115839658 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
115839698 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115839738 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115839778 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115839818 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115839858 CCGGATATAT
1 CCGGATATAT
115839868 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:115847895 original size:40 final size:40
Alignment explanation
Indices: 115847787--115847996 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
115847777 CGGGATTTAA
* * * * *
115847787 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
115847827 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115847867 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115847907 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115847947 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115847987 CCGGATATAT
1 CCGGATATAT
115847997 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:115849813 original size:43 final size:43
Alignment explanation
Indices: 115849765--115849856 Score: 125
Period size: 43 Copynumber: 2.1 Consensus size: 43
115849755 TGTCACACAT
*
115849765 TGGCATCGATATGTG-TTCTCATGTAAGACC-CTGTCCAGGACAG
1 TGGCATCGATATGTGATT-ACATGTAAGACCAC-GTCCAGGACAG
* *
115849808 TGGCATCGATATGTGATTACATGTAAGACCACGTCTAGGACAT
1 TGGCATCGATATGTGATTACATGTAAGACCACGTCCAGGACAG
115849851 TGGCAT
1 TGGCAT
115849857 TGTATGATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 41 0.93
44 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (43 bp):
TGGCATCGATATGTGATTACATGTAAGACCACGTCCAGGACAG
Found at i:115854162 original size:43 final size:43
Alignment explanation
Indices: 115854072--115854236 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 43
115854062 TGTCATGCTG
* *
115854072 TGATTT-CGTGTAAGACCGTGTCTGGGATGTTGGCATCG-ACTT
1 TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCATCGTA-TT
* * *
115854114 ATGATTTATGTGTAAGACCATGTCTGGGACATTAGCATCGTATT
1 -TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCATCGTATT
* * *
115854158 TGATTT-CGTGTAAGACCCTGTCTGGGATGGTGGCATCGATATT
1 TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCATCG-TATT
* * * *
115854201 TGA-TTACATGTAAGACCACGCCTGGGACTTTGGCAT
1 TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCAT
115854237 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
42 28 0.28
43 42 0.42
44 29 0.29
45 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCATCGTATT
Found at i:115857644 original size:19 final size:19
Alignment explanation
Indices: 115857610--115857648 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
115857600 GATTTCATAC
*
115857610 TTTGGCCCATTTTCTCTGTT
1 TTTGGCCCAGTTTCTC-GTT
115857630 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
115857648 T
1 T
115857649 CGTTTGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 6 0.33
20 8 0.44
ACGTcount: A:0.03, C:0.26, G:0.18, T:0.54
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:115863502 original size:8 final size:8
Alignment explanation
Indices: 115863491--115863523 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
115863481 AATTCCTTAC
115863491 CTCCTCTT
1 CTCCTCTT
115863499 CTCCTCTT
1 CTCCTCTT
*
115863507 C-CCTTTT
1 CTCCTCTT
115863514 CTCCTCTT
1 CTCCTCTT
115863522 CT
1 CT
115863524 AGGGTGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (8 bp):
CTCCTCTT
Found at i:115871703 original size:15 final size:15
Alignment explanation
Indices: 115871680--115871710 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
115871670 ATTCCTTACC
115871680 CCCTCTTCTCCTCTT
1 CCCTCTTCTCCTCTT
*
115871695 CCCTTTTCTCCTCTT
1 CCCTCTTCTCCTCTT
115871710 C
1 C
115871711 TAGGGTGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (15 bp):
CCCTCTTCTCCTCTT
Found at i:115877867 original size:18 final size:19
Alignment explanation
Indices: 115877834--115877870 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
115877824 ACTGAAACTA
115877834 TTCTTAGGTTTCTATTTTG
1 TTCTTAGGTTTCTATTTTG
*
115877853 TTCTT-GGTTTTTATTTTG
1 TTCTTAGGTTTCTATTTTG
115877871 GTTATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (19 bp):
TTCTTAGGTTTCTATTTTG
Found at i:115881482 original size:12 final size:12
Alignment explanation
Indices: 115881465--115881491 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
115881455 TGATCGGTTT
115881465 GAGGGATTTTAG
1 GAGGGATTTTAG
115881477 GAGGGATTTTAG
1 GAGGGATTTTAG
115881489 GAG
1 GAG
115881492 AAGATCAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.44, T:0.30
Consensus pattern (12 bp):
GAGGGATTTTAG
Found at i:115883193 original size:34 final size:33
Alignment explanation
Indices: 115883149--115883215 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
115883139 CTAACATTGA
*
115883149 AATGGACTAAGG-CCTACACTGATACTGATACTGT
1 AATGGACTAAGGCCCTA-ACTGAAACTGA-ACTGT
*
115883183 AATGGGCTAAGGCCCTAACTGAAACTGAACTGT
1 AATGGACTAAGGCCCTAACTGAAACTGAACTGT
115883216 TACTGATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 5 0.17
34 21 0.70
35 4 0.13
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (33 bp):
AATGGACTAAGGCCCTAACTGAAACTGAACTGT
Found at i:115883709 original size:25 final size:26
Alignment explanation
Indices: 115883675--115883725 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
115883665 ACAAGGGACG
115883675 AGATATTCT-AAATCTTCGTTAAGAT
1 AGATATTCTAAAATCTTCGTTAAGAT
115883700 AGATATTCTAAAATCTTCGTTAAGAT
1 AGATATTCTAAAATCTTCGTTAAGAT
115883726 CGTAAAGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (26 bp):
AGATATTCTAAAATCTTCGTTAAGAT
Found at i:115885925 original size:66 final size:68
Alignment explanation
Indices: 115885847--115885982 Score: 206
Period size: 71 Copynumber: 2.0 Consensus size: 68
115885837 TAGTACCACT
*
115885847 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
115885909 CACG
65 CACG
115885913 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
115885978 ATCAC
63 ATCAC
115885983 TTACTATGGA
Statistics
Matches: 63, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
66 13 0.21
67 6 0.10
68 1 0.02
69 1 0.02
71 42 0.67
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:115892629 original size:66 final size:69
Alignment explanation
Indices: 115892551--115892686 Score: 215
Period size: 71 Copynumber: 2.0 Consensus size: 69
115892541 TAGTACCACT
*
115892551 CATGCGACCTAGCCA-ATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
115892613 CACG
66 CACG
*
115892617 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGCCACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
115892682 ATCAC
64 ATCAC
115892687 TTACTATGGA
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
66 14 0.22
67 6 0.10
69 1 0.02
71 42 0.67
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.35
Consensus pattern (69 bp):
CATGCGACCTAGCCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
CACG
Found at i:115899460 original size:13 final size:13
Alignment explanation
Indices: 115899438--115899470 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
115899428 AAGGGTTTGT
115899438 TTAT-TAAACTAA
1 TTATCTAAACTAA
115899450 TTATCTAAACTAA
1 TTATCTAAACTAA
*
115899463 TTAACTAA
1 TTATCTAA
115899471 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:115902522 original size:22 final size:21
Alignment explanation
Indices: 115902474--115902527 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
115902464 CGACATGCAG
* *
115902474 AGTTTTCAAAAATCAATGTGA
1 AGTTTTAAAAAATCAATGTAA
115902495 AGTTTTAAAAAATCAATGTAA
1 AGTTTTAAAAAATCAATGTAA
* *
115902516 AATTTTTAAAAA
1 AGTTTTAAAAAA
115902528 GTTCCTACCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (21 bp):
AGTTTTAAAAAATCAATGTAA
Found at i:115903807 original size:41 final size:41
Alignment explanation
Indices: 115903750--115903831 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
115903740 AAGAGAAAAG
*
115903750 AAGAATAAAAAAGATTATGGTTATGGTGGTGGTGCGACAGT
1 AAGAATAAAAAAGATTATGGTTATGGTGGTGGTGCAACAGT
115903791 AAGAATAAAAAAGATTATGGTTATGGTGGTGGTGCAACAGT
1 AAGAATAAAAAAGATTATGGTTATGGTGGTGGTGCAACAGT
115903832 GGTCCAACGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.27
Consensus pattern (41 bp):
AAGAATAAAAAAGATTATGGTTATGGTGGTGGTGCAACAGT
Found at i:115905312 original size:134 final size:132
Alignment explanation
Indices: 115905056--115905600 Score: 436
Period size: 133 Copynumber: 4.1 Consensus size: 132
115905046 GGGTGTTTCA
* * * * * ** * ** *
115905056 TCATTGTTTTAAGATCACAAACAATTCATTAAGAATTTACCGA-TTCATAATCGCAACTTTATCT
1 TCATTGATTTACGATCATAAACAATTCATTAAGAGTTT-CTGATTTC-CGATCACAACTCCATTT
* * * * *
115905120 AAACAGTTCA-TGATTTGAGATCACAACTGTAATTTTTAAAATTCACTGATTTATGATCACAGCT
64 AAACAGTTCACTGATTT-AGATCACAACTGTCACTTTTAAAACTCGCTGATTTACGATCACAGCT
115905184 TCAGT
128 TCAGT
* * * * * * *
115905189 TCATTTATTTAGGATAATAAACAATTCAGTAAGAGTTTGCTGACTTCCGATTACAACTCTATTTA
1 TCATTGATTTACGATCATAAACAATTCATTAAGAGTTT-CTGATTTCCGATCACAACTCCATTTA
*
115905254 AACAGTTCACTGATTTATGATCACAACTGTCACTTTTAAAACTCGCTAATTTACGATCACAGCTT
65 AACAGTTCACTGATTTA-GATCACAACTGTCACTTTTAAAACTCGCTGATTTACGATCACAGCTT
*
115905319 GAGT
129 CAGT
* * *
115905323 TCATTGATTTACGATCATGAACAATTCATTAAGA-ATTCATCGATTTACTG-TCACAACTCCA-T
1 TCATTGATTTACGATCATAAACAATTCATTAAGAGTTTC-T-GATTT-CCGATCACAACTCCATT
* * * * * * ** * * * *
115905385 TAAGCAGTTCATTGATATAAGATCATAATTGTCATTTTTAAATTTTGTTGGTTTACGATCACAGT
63 TAAACAGTTCACTGAT-TTAGATCACAACTGTCACTTTTAAAACTCGCTGATTTACGATCACAGC
115905450 TTCAGT
127 TTCAGT
* * * * * * *
115905456 TCATTGATTTACAATCATAAGCAATTCATTAA-ATGTTCACCGATTTACAATCGCAACTCCATTT
1 TCATTGATTTACGATCATAAACAATTCATTAAGA-GTT-TCTGATTTCCGATCACAACTCCATTT
* * * * * * * *
115905520 AAACAGTTCGCTGATTTACAATCACAACAGGCACTTTTAAAGCTTGCTTATTTACTATCACAGCT
64 AAACAGTTCACTGATTTA-GATCACAACTGTCACTTTTAAAACTCGCTGATTTACGATCACAGCT
115905585 TCAGT
128 TCAGT
*
115905590 TTATTGATTTA
1 TCATTGATTTA
115905601 TGATTGCATC
Statistics
Matches: 325, Mismatches: 74, Indels: 25
0.77 0.17 0.06
Matches are distributed among these distances:
132 2 0.01
133 160 0.49
134 160 0.49
135 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (132 bp):
TCATTGATTTACGATCATAAACAATTCATTAAGAGTTTCTGATTTCCGATCACAACTCCATTTAA
ACAGTTCACTGATTTAGATCACAACTGTCACTTTTAAAACTCGCTGATTTACGATCACAGCTTCA
GT
Found at i:115905632 original size:98 final size:98
Alignment explanation
Indices: 115905512--115905698 Score: 286
Period size: 98 Copynumber: 1.9 Consensus size: 98
115905502 ACAATCGCAA
* * * *
115905512 CTCCATTTAAACAGTTCGCTGATTTACAATCACAAC-AGGCACTTTTAAAGCTTGCTTATTTACT
1 CTCCATTTAAACAGTTCACTGATTTACAATCACAACTA-GCACTTTTAAAGCTCGCTGATTTACG
*
115905576 ATCACAGCTTCAGTTTATTGATTTATGATTGCAT
65 ATCACAACTTCAGTTTATTGATTTATGATTGCAT
** *
115905610 CTCCATTTAAACAGTTCACTGATTTATGATCACAACTATCACTTTTAAAGCTCGCTGATTTACGA
1 CTCCATTTAAACAGTTCACTGATTTACAATCACAACTAGCACTTTTAAAGCTCGCTGATTTACGA
115905675 TCACAACTTCAGTTTATTGATTTA
66 TCACAACTTCAGTTTATTGATTTA
115905699 CGATCATGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
98 79 0.99
99 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (98 bp):
CTCCATTTAAACAGTTCACTGATTTACAATCACAACTAGCACTTTTAAAGCTCGCTGATTTACGA
TCACAACTTCAGTTTATTGATTTATGATTGCAT
Found at i:115905903 original size:134 final size:134
Alignment explanation
Indices: 115905610--115905879 Score: 398
Period size: 134 Copynumber: 2.0 Consensus size: 134
115905600 ATGATTGCAT
* * * *
115905610 CTCCATTTAAACAG-TTCACTGATTTATGATCACAACTATCACTTTTAAAGCTCGCTGATTTACG
1 CTCCATTTAAAAAGCTT-GCTGATTTACGATCACAAATATCACTTTTAAAGCTCGCTGATTTACG
*
115905674 ATCACAACTTCAGTTTATTGATTTACGATCATGAACAATTCATTAAGAGTTTGCCAATTTACAAT
65 ATCACAACTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTTGCCAATTTACAAT
*
115905739 CGCAA
130 CACAA
* * * *
115905744 CTCCATTTAAAAAGCTTGTTGATTTACGATCACAAATGTCACTTTTAAAGCTCGTTGTTTTACGA
1 CTCCATTTAAAAAGCTTGCTGATTTACGATCACAAATATCACTTTTAAAGCTCGCTGATTTACGA
* * * *
115905809 TCACAGCTTCAGTTCATTGATTTATGATCATGAACAATTCATTAAGAGTTTGTCGATTTACAATC
66 TCACAACTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTTGCCAATTTACAATC
115905874 ACAA
131 ACAA
115905878 CT
1 CT
115905880 TTATTCTCAT
Statistics
Matches: 121, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
134 119 0.98
135 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (134 bp):
CTCCATTTAAAAAGCTTGCTGATTTACGATCACAAATATCACTTTTAAAGCTCGCTGATTTACGA
TCACAACTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTTGCCAATTTACAATC
ACAA
Found at i:115907654 original size:18 final size:18
Alignment explanation
Indices: 115907633--115907684 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
115907623 ATTTGTCAGG
115907633 TTTTTATATTTTCTTTT-C
1 TTTTTATATTTT-TTTTAC
*
115907651 TTTTTTTATTTTTTTTAC
1 TTTTTATATTTTTTTTAC
115907669 TTTTT-TACTTTTTTTT
1 TTTTTATA-TTTTTTTT
115907685 TATATTTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 6 0.19
18 25 0.81
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTATATTTTTTTTAC
Found at i:115907657 original size:8 final size:9
Alignment explanation
Indices: 115907646--115907683 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
115907636 TTATATTTTC
115907646 TTTT-CTTT
1 TTTTACTTT
*
115907654 TTTTATTTT
1 TTTTACTTT
115907663 TTTTAC-TT
1 TTTTACTTT
115907671 TTTTACTTT
1 TTTTACTTT
115907680 TTTT
1 TTTT
115907684 TTATATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 12 0.46
9 14 0.54
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTACTTT
Found at i:115907767 original size:36 final size:36
Alignment explanation
Indices: 115907698--115907771 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
115907688 ATTTTGTATC
*
115907698 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
115907735 TTTCTTA-ATTTATTTTACTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
115907771 T
1 T
115907772 AATTTTGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:115907776 original size:18 final size:17
Alignment explanation
Indices: 115907725--115907772 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
115907715 TTTTTTAAGT
*
115907725 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
115907743 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
115907761 TTTATATTATTA
1 TTTATATTATTA
115907773 ATTTTGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:115907847 original size:22 final size:23
Alignment explanation
Indices: 115907761--115907853 Score: 74
Period size: 22 Copynumber: 4.1 Consensus size: 23
115907751 ACTTATTTAA
115907761 TTTATATTATTAATTTTGAAAA-AT
1 TTTATATTATT-ATTTT-AAAATAT
*
115907785 TTGTA-A-TA-TATATTTAAAATGT
1 TT-TATATTATTAT-TTTAAAATAT
*
115907807 TTTATAATATT-TTTTAAAAT-T
1 TTTATATTATTATTTTAAAATAT
115907828 TTTA-ATTATTATTTTAAAAATAT
1 TTTATATTATTATTTT-AAAATAT
115907851 TTT
1 TTT
115907854 TTAACTTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
20 5 0.09
21 17 0.29
22 21 0.36
23 9 0.16
24 4 0.07
25 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (23 bp):
TTTATATTATTATTTTAAAATAT
Found at i:115907853 original size:23 final size:22
Alignment explanation
Indices: 115907761--115907846 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 22
115907751 ACTTATTTAA
115907761 TTTATATTATTAATTTTGAAAAATT
1 TTTATATTATT-ATTTT--AAAATT
*
115907786 TGTA-A-TA-TATATTTAAAATGT
1 TTTATATTATTAT-TTTAAAAT-T
*
115907807 TTTATAATATT-TTTTAAAATT
1 TTTATATTATTATTTTAAAATT
115907828 TTTA-ATTATTATTTTAAAA
1 TTTATATTATTATTTTAAAA
115907847 ATATTTTTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
20 10 0.19
21 19 0.37
22 13 0.25
23 5 0.10
24 2 0.04
25 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (22 bp):
TTTATATTATTATTTTAAAATT
Found at i:115907910 original size:37 final size:36
Alignment explanation
Indices: 115907869--115907939 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
115907859 TTTATATATA
*
115907869 TATTTGTGAAATTAATTATTTATAAATTTTAAAAATG
1 TATTTGTCAAATTAATTATTTA-AAATTTTAAAAATG
* *
115907906 TATTTTTCAAATTAATTTTTTAAAATTTTAAAAA
1 TATTTGTCAAATTAATTATTTAAAATTTTAAAAA
115907940 AAATAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 12 0.39
37 19 0.61
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (36 bp):
TATTTGTCAAATTAATTATTTAAAATTTTAAAAATG
Found at i:115908087 original size:19 final size:20
Alignment explanation
Indices: 115908065--115908106 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
115908055 TTTTCATAGA
*
115908065 TTTTGTCTT-TTTCTTTAA-
1 TTTTTTCTTCTTTCTTTAAG
*
115908083 TTTTTTTTTCTTTCTTTAAG
1 TTTTTTCTTCTTTCTTTAAG
115908103 TTTT
1 TTTT
115908107 ATATTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTTTCTTCTTTCTTTAAG
Found at i:115908628 original size:10 final size:9
Alignment explanation
Indices: 115908609--115908716 Score: 67
Period size: 10 Copynumber: 11.6 Consensus size: 9
115908599 AAATTCTATG
115908609 TAAAAT-TT
1 TAAAATATT
*
115908617 AAAAATATT
1 TAAAATATT
115908626 TAAAATCATT
1 TAAAAT-ATT
115908636 TAAAATATT
1 TAAAATATT
*
115908645 AAAAAATATT
1 -TAAAATATT
*
115908655 TTAAATCATT
1 TAAAAT-ATT
*
115908665 TTAAATCATT
1 TAAAAT-ATT
* *
115908675 TTAAATGTTT
1 TAAAAT-ATT
*
115908685 TATAATATT
1 TAAAATATT
*
115908694 AAAAATATAT
1 TAAAATAT-T
*
115908704 T-TAATATT
1 TAAAATATT
115908712 TAAAA
1 TAAAA
115908717 AATAATTTGA
Statistics
Matches: 79, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
8 7 0.09
9 29 0.37
10 43 0.54
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (9 bp):
TAAAATATT
Found at i:115908680 original size:29 final size:29
Alignment explanation
Indices: 115908609--115908670 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
115908599 AAATTCTATG
*
115908609 TAAAAT-TT-AAAAATATTTAAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
115908636 TAAAATATTAAAAAATATTTTAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
*
115908665 TTAAAT
1 TAAAAT
115908671 CATTTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 6 0.19
28 2 0.06
29 23 0.74
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (29 bp):
TAAAATATTAAAAAATATTTTAAATCATT
Found at i:115908733 original size:31 final size:34
Alignment explanation
Indices: 115908686--115908775 Score: 107
Period size: 33 Copynumber: 2.7 Consensus size: 34
115908676 TAAATGTTTT
115908686 ATAATATTAAAAATATA-TTTAATATTTA-AAAA
1 ATAATATTAAAAATATATTTTAATATTTATAAAA
*
115908718 ATAAT-TTGAAAATATATTTTTAATATTTATAAAA
1 ATAATATTAAAAATATA-TTTTAATATTTATAAAA
*
115908752 ATATATATTATAAAACAT-TTTTAA
1 ATA-ATATTA-AAAATATATTTTAA
115908776 AAAATACATT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
31 10 0.20
32 5 0.10
33 11 0.22
34 7 0.14
35 8 0.16
36 2 0.04
37 6 0.12
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (34 bp):
ATAATATTAAAAATATATTTTAATATTTATAAAA
Found at i:115912217 original size:30 final size:30
Alignment explanation
Indices: 115912165--115912287 Score: 183
Period size: 30 Copynumber: 4.1 Consensus size: 30
115912155 GGTCAAATAG
* * *
115912165 ACTCGAACCGCCTATATCCGGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
*
115912195 ACTCAAACCACCCATGTCCGGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
*
115912225 ACTCGAACCACCCATGTCCAGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
* *
115912255 ACTCGAACCACCTATGTCCGGGTTATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
115912285 ACT
1 ACT
115912288 GCTCTGGGAC
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 84 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (30 bp):
ACTCGAACCACCCATGTCCGGGTGATATGA
Found at i:115915460 original size:21 final size:24
Alignment explanation
Indices: 115915429--115915475 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
115915419 AAAAGAATTT
115915429 AAAAATAATATT-TAAA-ATTGTA
1 AAAAATAATATTATAAATATTGTA
*
115915451 AAAAAT-ATATTATAAATATTTTA
1 AAAAATAATATTATAAATATTGTA
115915474 AA
1 AA
115915476 TATACATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 10 0.45
23 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AAAAATAATATTATAAATATTGTA
Found at i:115915660 original size:27 final size:26
Alignment explanation
Indices: 115915593--115915660 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 26
115915583 TTTAAAAAAA
* * *
115915593 TATTTAGAATATTATGATTTCTTATAT
1 TATTTAAAAT-TTATAATTTCTTAAAT
* * *
115915620 TATTAAAAAATTATAATTTTTTAAAT
1 TATTTAAAATTTATAATTTCTTAAAT
115915646 GTATTTAAAATTTAT
1 -TATTTAAAATTTAT
115915661 TTAAAATTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
26 13 0.41
27 19 0.59
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (26 bp):
TATTTAAAATTTATAATTTCTTAAAT
Found at i:115915661 original size:11 final size:11
Alignment explanation
Indices: 115915634--115915670 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
115915624 AAAAAATTAT
115915634 AATTT-TTT-A
1 AATTTATTTAA
*
115915643 AATGTATTTAA
1 AATTTATTTAA
115915654 AATTTATTTAA
1 AATTTATTTAA
115915665 AATTTA
1 AATTTA
115915671 AAAAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 4 0.17
10 3 0.12
11 17 0.71
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (11 bp):
AATTTATTTAA
Found at i:115916141 original size:22 final size:22
Alignment explanation
Indices: 115916116--115916206 Score: 64
Period size: 22 Copynumber: 4.1 Consensus size: 22
115916106 TAAAGTTAAA
115916116 AAAATTTTTAAAAATAATAATT
1 AAAATTTTTAAAAATAATAATT
* *
115916138 AAAA-TTTTAAAAAAAATTA-T
1 AAAATTTTTAAAAATAATAATT
* *
115916158 AAAACATTTTAAATAT-AT-ATT
1 AAAA-TTTTTAAAAATAATAATT
* *
115916179 ACAATTTTTTTAAAATTAATAATAT
1 A-AA-ATTTTTAAAAATAATAAT-T
115916204 AAA
1 AAA
115916207 TTAAATAAGT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
20 6 0.11
21 17 0.32
22 22 0.42
23 2 0.04
24 4 0.08
25 2 0.04
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTTTTAAAAATAATAATT
Found at i:115916147 original size:21 final size:20
Alignment explanation
Indices: 115916116--115916186 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
115916106 TAAAGTTAAA
115916116 AAAATTTTTAAAAATAATAATT
1 AAAA-TTTTAAAAATAAT-ATT
* *
115916138 AAAATTTTAAAAAAAATTATA
1 AAAATTTTAAAAATAA-TATT
*
115916159 AAACATTTTAAATAT-ATATT
1 AAA-ATTTTAAAAATAATATT
*
115916179 ACAATTTT
1 AAAATTTT
115916187 TTTAAAATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 5 0.12
20 5 0.12
21 17 0.41
22 14 0.34
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATTTTAAAAATAATATT
Found at i:115916236 original size:36 final size:37
Alignment explanation
Indices: 115916196--115916269 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
115916186 TTTTAAAATT
*
115916196 AATAATAT-AAA-TTAAATAAGTAAAATAAAT-TAAGAA
1 AATAATATAAAACTTAAAAAAG-AAAA-AAATCTAAGAA
115916232 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
1 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
115916269 A
1 A
115916270 GAGACAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 12 0.35
37 14 0.41
38 8 0.24
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (37 bp):
AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
Found at i:115916241 original size:18 final size:18
Alignment explanation
Indices: 115916191--115916242 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
115916181 AATTTTTTTA
*
115916191 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
115916209 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
115916227 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
115916243 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:115916947 original size:17 final size:17
Alignment explanation
Indices: 115916927--115916963 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
115916917 TTATTTTAAA
115916927 AAAAATGAAAC-TATAT
1 AAAAATGAAACATATAT
*
115916943 GAAAATGAAACATATAT
1 AAAAATGAAACATATAT
115916960 AAAA
1 AAAA
115916964 CATCTGAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.65, C:0.05, G:0.08, T:0.22
Consensus pattern (17 bp):
AAAAATGAAACATATAT
Found at i:115926468 original size:26 final size:26
Alignment explanation
Indices: 115926434--115926490 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
115926424 ATGATTTGGC
* * *
115926434 TTTTTATTATTTAAATTTTTA-TAAT
1 TTTTTATTATATAAAATTTTAGTAAG
115926459 TTTTTAATTATATAAAATTTTAGTAAG
1 TTTTT-ATTATATAAAATTTTAGTAAG
115926486 TTTTT
1 TTTTT
115926491 CTCGTTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 5 0.19
26 14 0.52
27 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTTTATTATATAAAATTTTAGTAAG
Found at i:115929148 original size:46 final size:45
Alignment explanation
Indices: 115929094--115929266 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 45
115929084 TGGTTGAGCA
*
115929094 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
* * * * *
115929140 TCCTAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAA-T--G
* *
115929185 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATTGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-TGATGCGAATG
* * *
115929233 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
115929267 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAATG
Found at i:115929250 original size:93 final size:93
Alignment explanation
Indices: 115929091--115929261 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
115929081 GGATGGTTGA
* * * *
115929091 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCTAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
115929156 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
115929184 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATTGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
115929249 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
115929262 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:115933238 original size:23 final size:23
Alignment explanation
Indices: 115933212--115933255 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
115933202 TGTACTCCGA
*
115933212 TACTCTTATTACTTGCACTTCGG
1 TACTCTTATTACTAGCACTTCGG
* *
115933235 TACTCTTGTTCCTAGCACTTC
1 TACTCTTATTACTAGCACTTC
115933256 AATCTGATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.16, C:0.30, G:0.11, T:0.43
Consensus pattern (23 bp):
TACTCTTATTACTAGCACTTCGG
Found at i:115934354 original size:32 final size:32
Alignment explanation
Indices: 115934313--115934376 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
115934303 AGATAACTTG
115934313 TATTAGTAGATGAACCTAATTATGTTCTTAGT
1 TATTAGTAGATGAACCTAATTATGTTCTTAGT
115934345 TATTAGTAGATGAACCTAATTATGTTCTTAGT
1 TATTAGTAGATGAACCTAATTATGTTCTTAGT
115934377 CTAATAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (32 bp):
TATTAGTAGATGAACCTAATTATGTTCTTAGT
Found at i:115951784 original size:55 final size:54
Alignment explanation
Indices: 115951701--115951859 Score: 196
Period size: 55 Copynumber: 2.9 Consensus size: 54
115951691 TACGTGGTAT
*
115951701 CCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATG-GGA
1 CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGA
* * * * ***
115951753 CCTTTGCCTTATAGTAACTCATGAATGCCATGTCTTGACATGGACTTACATGATTT
1 CC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGA
* *
115951809 CCTTACCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGA
1 CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGA
115951860 TATCCTTATC
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 9 0.10
54 34 0.38
55 42 0.47
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (54 bp):
CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGA
Found at i:115951855 original size:54 final size:54
Alignment explanation
Indices: 115951678--115951872 Score: 214
Period size: 54 Copynumber: 3.6 Consensus size: 54
115951668 ATTTTCATAT
* * * * * *
115951678 CTTGACATGGTGTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGC
1 CTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGC
** * * *
115951731 CTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATGAATGCCATGT
1 CTTGGCATGGTCTTACATGATATCC-TTACCTTATAG-AACTCATCAATGCCATGC
* * * *
115951786 CTTGACATGGACTTACATGATTTCCTTACCTTATAGAACTTATCAATGCCATGC
1 CTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGC
*
115951840 CTTGGCATGGTCTTACATGATATCCTTATCTTA
1 CTTGGCATGGTCTTACATGATATCCTTACCTTA
115951873 CCAAATGCCA
Statistics
Matches: 118, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 27 0.23
54 45 0.38
55 42 0.36
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGC
Found at i:115955051 original size:27 final size:27
Alignment explanation
Indices: 115955013--115955065 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
115955003 AGTTATACAT
**
115955013 CTCATAAGGGCATAGTAGTCATTTTAC
1 CTCATAAGGGCATAACAGTCATTTTAC
*
115955040 CTCATAGGGGCATAACAGTCATTTTA
1 CTCATAAGGGCATAACAGTCATTTTA
115955066 TTAATTTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (27 bp):
CTCATAAGGGCATAACAGTCATTTTAC
Found at i:115957390 original size:12 final size:13
Alignment explanation
Indices: 115957367--115957405 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
115957357 TGGCCCATTA
115957367 CAGTAACAGTAAT
1 CAGTAACAGTAAT
*
115957380 CAGT-GCAGTAA-
1 CAGTAACAGTAAT
115957391 CAGTAACAGTAAT
1 CAGTAACAGTAAT
115957404 CA
1 CA
115957406 ACACAGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 4 0.18
12 12 0.55
13 6 0.27
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (13 bp):
CAGTAACAGTAAT
Found at i:115957390 original size:18 final size:17
Alignment explanation
Indices: 115957367--115957400 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
115957357 TGGCCCATTA
115957367 CAGTAACAGTAATCAGTG
1 CAGTAACAGTAA-CAGTG
115957385 CAGTAACAGTAACAGT
1 CAGTAACAGTAACAGT
115957401 AATCAACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (17 bp):
CAGTAACAGTAACAGTG
Found at i:115957419 original size:24 final size:24
Alignment explanation
Indices: 115957366--115957413 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
115957356 TTGGCCCATT
***
115957366 ACAGTAACAGTAATCAGTGCAGTA
1 ACAGTAACAGTAATCAACACAGTA
115957390 ACAGTAACAGTAATCAACACAGTA
1 ACAGTAACAGTAATCAACACAGTA
115957414 TTAGTATCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.19
Consensus pattern (24 bp):
ACAGTAACAGTAATCAACACAGTA
Found at i:115957794 original size:22 final size:22
Alignment explanation
Indices: 115957748--115957795 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
115957738 TATAAGCATA
* *
115957748 CATCACATAGAGGCAAAATAGT
1 CATCACATAGAGGCAAAACAAT
*
115957770 CATCACATAGGGGCAAAACAAT
1 CATCACATAGAGGCAAAACAAT
115957792 CATC
1 CATC
115957796 TTACCATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.17
Consensus pattern (22 bp):
CATCACATAGAGGCAAAACAAT
Found at i:115957811 original size:27 final size:27
Alignment explanation
Indices: 115957773--115957905 Score: 169
Period size: 27 Copynumber: 5.0 Consensus size: 27
115957763 AAATAGTCAT
* *
115957773 CACATAGGGGCAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* * *
115957800 CATATAAGGGCAAAATAGTCA-TTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
*
115957826 CACATAAGGGAAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
*
115957853 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* * *
115957880 CACATAGGGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAACAATCATTTTA
115957906 TCATATTGGG
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 21 0.23
27 71 0.77
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAACAATCATTTTAC
Found at i:115957844 original size:53 final size:53
Alignment explanation
Indices: 115957751--115957894 Score: 190
Period size: 53 Copynumber: 2.8 Consensus size: 53
115957741 AAGCATACAT
115957751 CACAT-AGAGGCAAAATAGTCA--T--CACATAGGGGCAAAACAATCATCTTAC
1 CACATAAG-GGCAAAATAGTCATTTACCACATAGGGGCAAAACAATCATCTTAC
* * * *
115957800 CATATAAGGGCAAAATAGTCATTTACCACATAAGGGAAAAACAATCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTACCACATAGGGGCAAAACAATCATCTTAC
*
115957853 CACATAAGGGCAAAACAGTCATTTTACCACATAGGGGCAAAA
1 CACATAAGGGCAAAATAGTCA-TTTACCACATAGGGGCAAAA
115957895 TAGTCATTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
49 17 0.21
50 2 0.02
51 1 0.01
53 43 0.53
54 18 0.22
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (53 bp):
CACATAAGGGCAAAATAGTCATTTACCACATAGGGGCAAAACAATCATCTTAC
Found at i:115966922 original size:41 final size:41
Alignment explanation
Indices: 115966788--115967013 Score: 314
Period size: 41 Copynumber: 5.5 Consensus size: 41
115966778 ACATAAAATT
*
115966788 TGCTAGGC-ATAAAGCCT-AGTATAATACA-CGGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCC
*
115966828 TGCTAGGCAATAAGCCTGATATAATACACCGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGC--ACAAAGCC
115966871 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* *
115966912 TGCTAGGCAATAAGCCTGATTTAAAACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * *
115966953 TACTAGGCAATAAGCCTGATATAATACGCCGGCGCAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
*
115966994 TACTAGGCAATAAAGCCTGA
1 TGCTAGGCAAT-AAGCCTGA
115967014 ATATCACTGA
Statistics
Matches: 170, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
40 23 0.14
41 100 0.59
42 8 0.05
43 39 0.23
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.18
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:115973958 original size:25 final size:25
Alignment explanation
Indices: 115973929--115973978 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
115973919 CGTTATAATA
* * *
115973929 TAAAAATGACCGTTTTGCCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
115973954 TAAAAATGACCATTATACCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
115973979 GTTTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (25 bp):
TAAAAATGACCATTATACCCCTAGG
Found at i:115974040 original size:20 final size:20
Alignment explanation
Indices: 115974015--115974065 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
115974005 ATTTTGATAA
*
115974015 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
115974035 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
115974055 ACATGAGATGT
1 ACATGACATGT
115974066 TCATAAATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:115974142 original size:23 final size:23
Alignment explanation
Indices: 115974112--115974254 Score: 223
Period size: 23 Copynumber: 6.1 Consensus size: 23
115974102 AGGAAGTGCA
115974112 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
115974135 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
115974159 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
115974182 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
115974206 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
115974229 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
115974252 AAA
1 AAA
115974255 AGAGGCAAGG
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
23 67 0.61
24 42 0.39
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:115974179 original size:47 final size:47
Alignment explanation
Indices: 115974110--115974256 Score: 258
Period size: 47 Copynumber: 3.1 Consensus size: 47
115974100 GGAGGAAGTG
115974110 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
115974157 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
115974204 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
115974251 TAAAAG
1 CAAAAG
115974257 AGGCAAGGCC
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 95 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:115974504 original size:31 final size:31
Alignment explanation
Indices: 115974469--115974532 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
115974459 CGTTTACAGT
*
115974469 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
115974500 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
115974531 AA
1 AA
115974533 TATGAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:115974531 original size:7 final size:7
Alignment explanation
Indices: 115974519--115974553 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
115974509 GGCCCAGTAT
115974519 TATGAAA
1 TATGAAA
115974526 TATGAAA
1 TATGAAA
115974533 TATGAAA
1 TATGAAA
115974540 TATGAAA
1 TATGAAA
115974547 TATGAAA
1 TATGAAA
115974554 AGGGCTACGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:115976660 original size:41 final size:41
Alignment explanation
Indices: 115976526--115976826 Score: 446
Period size: 41 Copynumber: 7.3 Consensus size: 41
115976516 ACATAAAATT
*
115976526 TGCTAGGC-ATAAAGCCT-AGTAT-ATACACCGGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCC
*
115976566 TGCTAGGCAATAAGCCTGATATAATACACCGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGC--ACAAAGCC
*
115976609 TGCTAGGCAATAAGCCTGATATAATACACTGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * *
115976650 TGCTTGGCAATAAGCTTGATTTAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* *
115976691 TGCTAGGCAATAAGCCTGATTTAATACACTGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * *
115976732 TGCTAGGCAATAAGCCTGATTTAAAACACCAGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
115976773 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
115976814 TGCTAGGCAATAA
1 TGCTAGGCAATAA
115976827 AGCCCGAATA
Statistics
Matches: 239, Mismatches: 17, Indels: 9
0.90 0.06 0.03
Matches are distributed among these distances:
40 17 0.07
41 184 0.77
43 38 0.16
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:115981685 original size:19 final size:18
Alignment explanation
Indices: 115981645--115981688 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
115981635 CTTTGGCCGA
*
115981645 ATATACTTTTCATATGCAC
1 ATATA-TTTTCATATACAC
*
115981664 ATATATTTTCATTTACATC
1 ATATATTTTCATATACA-C
115981683 ATATAT
1 ATATAT
115981689 AATTAGTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (18 bp):
ATATATTTTCATATACAC
Found at i:115981924 original size:43 final size:43
Alignment explanation
Indices: 115981877--115982012 Score: 138
Period size: 43 Copynumber: 3.2 Consensus size: 43
115981867 TCCCTGACGT
*
115981877 GGTCTTACATGTAATCACATATCGATGCCACTATCCCAGACAG
1 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG
** * * * *
115981920 GGTCTTACA-CAAATCAAATA-CGATGTCGA-TGTCCCAAACAA
1 GGTCTTACATGTAATCACATATCGATG-CCACTGTCCCAGACAG
*
115981961 GGTCTTACATGTAATCACATATTGATGCCAAC-GTCCCAGAC-G
1 GGTCTTACATGTAATCACATATCGATGCC-ACTGTCCCAGACAG
115982003 TGGTCTTACA
1 -GGTCTTACA
115982013 CGAGAACACA
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
41 23 0.32
42 19 0.26
43 31 0.42
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG
Found at i:115982028 original size:43 final size:43
Alignment explanation
Indices: 115981858--115982025 Score: 132
Period size: 43 Copynumber: 4.0 Consensus size: 43
115981848 ATATCGTACA
* * *
115981858 ATGCCAACGTCCCTGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
* *
115981901 ATGCC-ACTATCCCAGACAG-GGTCTTACAC--AAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAA-CACATATCG
* * * * ** * * *
115981942 ATGTCGATGTCCCAAACAAGGTCTTACATGTAATCACATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
115981985 ATGCCAACGTCCCAGACGTGGTCTTACACG-AGAACACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTA-AACACATAT
115982026 TGAAAATCCT
Statistics
Matches: 94, Mismatches: 22, Indels: 18
0.70 0.16 0.13
Matches are distributed among these distances:
41 24 0.26
42 14 0.15
43 55 0.59
44 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
Found at i:115984371 original size:60 final size:59
Alignment explanation
Indices: 115984295--115984431 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
115984285 AACTATGTTA
* * *
115984295 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGACCCAGATTAATACTG
* * *
115984355 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGACCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGACCCAGATTAATACTG
115984415 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
115984432 GTTAACACTG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 1 0.01
60 51 0.76
61 15 0.22
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGACCCAGATTAATACTG
Found at i:115991601 original size:22 final size:21
Alignment explanation
Indices: 115991576--115991624 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
115991566 TTTGTACTTA
*
115991576 AATTATTAACATAATGAATTTT
1 AATTATT-ACATAATAAATTTT
**
115991598 AATTAATTTTATAATAAATTTT
1 AATT-ATTACATAATAAATTTT
115991620 AATTA
1 AATTA
115991625 ATTTTGATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.83
23 3 0.13
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTATTACATAATAAATTTT
Found at i:115991605 original size:10 final size:10
Alignment explanation
Indices: 115991587--115991638 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
115991577 ATTATTAACA
*
115991587 TAATGAATTT
1 TAATTAATTT
115991597 TAATTAATTTT
1 TAATTAA-TTT
*
115991608 ATAATAAATTT
1 -TAATTAATTT
115991619 TAATTAATTT
1 TAATTAATTT
*
115991629 TGATT-ATTT
1 TAATTAATTT
115991638 T
1 T
115991639 TGACAGAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 5 0.14
10 19 0.53
11 6 0.17
12 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (10 bp):
TAATTAATTT
Found at i:115991625 original size:22 final size:22
Alignment explanation
Indices: 115991586--115991629 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
115991576 AATTATTAAC
*
115991586 ATAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
115991608 ATAATAAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
115991630 GATTATTTTT
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:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:115991899 original size:10 final size:10
Alignment explanation
Indices: 115991881--115991932 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
115991871 ATTATTAACA
*
115991881 TAATGAATTT
1 TAATTAATTT
115991891 TAATTAATTT
1 TAATTAATTT
*
115991901 TATAGTAAATTT
1 TA-A-TTAATTT
115991913 TAATTAATTT
1 TAATTAATTT
*
115991923 TGATT-ATTT
1 TAATTAATTT
115991932 T
1 T
115991933 TGACAGAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 5 0.14
10 21 0.58
11 2 0.06
12 8 0.22
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (10 bp):
TAATTAATTT
Found at i:115992077 original size:294 final size:294
Alignment explanation
Indices: 115991536--115992116 Score: 1045
Period size: 294 Copynumber: 2.0 Consensus size: 294
115991526 ATTATTGTCA
*
115991536 AAAATTATATAAATATTATAAAATAATTATTTTGTACTTAAATTATTAACATAATGAATTTTAAT
1 AAAACTATATAAATATTATAAAATAATTATTTTGTACTTAAATTATTAACATAATGAATTTTAAT
115991601 TAATTTTATAATAAATTTTAATTAATTTTGATTATTTTTGACAGAATTGCACAAAGGGCAAGAAT
66 TAATTTTATAATAAATTTTAATTAATTTTGATTATTTTTGACAGAATTGCACAAAGGGCAAGAAT
* ** * *
115991666 TGGCTCGACAGACACTGCTAGAAGCGTAAAACTGAGAAGCGATTTTTGAGGCATCGAGACAAATG
131 TGGCTCGACAGACACTGCTAAAAGCACAAAACCGAGAAGCGATTTTTGAGGCATCGAAACAAATG
*
115991731 AATTTTTCAGCTAAAGATGGTCCAAATTATGTGTATTAATTCATAATATAATAAATTTTAATTTT
196 AATTTTTCAGCTAAAGACGGTCCAAATTATGTGTATTAATTCATAATATAATAAATTTTAATTTT
115991796 AATCCAATTTAATTTGGGTTAAATAAAATTAATT
261 AATCCAATTTAATTTGGGTTAAATAAAATTAATT
115991830 AAAACTATATAAATATTATAAAATAATTATTTTGTACTTAAATTATTAACATAATGAATTTTAAT
1 AAAACTATATAAATATTATAAAATAATTATTTTGTACTTAAATTATTAACATAATGAATTTTAAT
* *
115991895 TAATTTTATAGTAAATTTTAATTAATTTTGATTATTTTTGACAGAATTGCACAAAGGGCGAGAAT
66 TAATTTTATAATAAATTTTAATTAATTTTGATTATTTTTGACAGAATTGCACAAAGGGCAAGAAT
* * *
115991960 TGGCTCGGCAGACACTGCTAAAAGCACAAAACCGTGAAGCGATTTTTGAGGCATCGAAACGAATG
131 TGGCTCGACAGACACTGCTAAAAGCACAAAACCGAGAAGCGATTTTTGAGGCATCGAAACAAATG
*
115992025 AATTTTTCAGCTAAAGACGGTCCAAATTATGTGTATTAATTCATAGTATAATAAATTTTAATTTT
196 AATTTTTCAGCTAAAGACGGTCCAAATTATGTGTATTAATTCATAATATAATAAATTTTAATTTT
115992090 AATCCAATTTAATTTGGGTTAAATAAA
261 AATCCAATTTAATTTGGGTTAAATAAA
115992117 TTATTATTAA
Statistics
Matches: 274, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
294 274 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.37
Consensus pattern (294 bp):
AAAACTATATAAATATTATAAAATAATTATTTTGTACTTAAATTATTAACATAATGAATTTTAAT
TAATTTTATAATAAATTTTAATTAATTTTGATTATTTTTGACAGAATTGCACAAAGGGCAAGAAT
TGGCTCGACAGACACTGCTAAAAGCACAAAACCGAGAAGCGATTTTTGAGGCATCGAAACAAATG
AATTTTTCAGCTAAAGACGGTCCAAATTATGTGTATTAATTCATAATATAATAAATTTTAATTTT
AATCCAATTTAATTTGGGTTAAATAAAATTAATT
Found at i:115993614 original size:27 final size:27
Alignment explanation
Indices: 115993485--115993598 Score: 165
Period size: 27 Copynumber: 4.2 Consensus size: 27
115993475 ATTACCAAAG
* * * *
115993485 TACCCCCGATTTACAGAATTACCGTTC
1 TACCCTCGATTTATAGAATTACCATTT
115993512 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
115993539 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
115993566 TACACTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
115993593 TACCCT
1 TACCCT
115993599 TAATTTACAA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:115993640 original size:81 final size:81
Alignment explanation
Indices: 115993491--115993641 Score: 176
Period size: 81 Copynumber: 1.9 Consensus size: 81
115993481 AAAGTACCCC
* * * *** * *
115993491 CGATTTACAGAATTACCGTTCTACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTATAGA
1 CGATTTACAGAATTACCGTTCTACCCTCAATTTACAAAATTACCAAAATACCCCTGATTTATAAA
115993556 ATTACCATTTTACACT
66 ATTACCATTTTACACT
* * * * * *
115993572 CGATTTATAGAATTACCGTTTTACCCTTAATTTACAAAATTACTAAAATACCCCTGGTTTGTAAA
1 CGATTTACAGAATTACCGTTCTACCCTCAATTTACAAAATTACCAAAATACCCCTGATTTATAAA
115993637 ATTAC
66 ATTAC
115993642 TAAAATACCT
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
81 56 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (81 bp):
CGATTTACAGAATTACCGTTCTACCCTCAATTTACAAAATTACCAAAATACCCCTGATTTATAAA
ATTACCATTTTACACT
Found at i:115993665 original size:28 final size:27
Alignment explanation
Indices: 115993607--115993679 Score: 110
Period size: 28 Copynumber: 2.7 Consensus size: 27
115993597 CTTAATTTAC
* *
115993607 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCTGATTTCT
115993634 AAAATTACTAAAATACCTCCTGATTTCT
1 AAAATTACTAAAATACC-CCTGATTTCT
*
115993662 AAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
115993680 TCGACTTGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
27 18 0.43
28 24 0.57
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGATTTCT
Found at i:115993693 original size:28 final size:28
Alignment explanation
Indices: 115993607--115993976 Score: 157
Period size: 27 Copynumber: 13.7 Consensus size: 28
115993597 CTTAATTTAC
*
115993607 AAAATTACTAAAATACCC-CTGGTTTGT
1 AAAATTACTAAAATACCCTCTGATTTGT
*
115993634 AAAATTACTAAAATA-CCTCCTGATTTCT
1 AAAATTACTAAAATACCCT-CTGATTTGT
* *
115993662 AAAATTACTGAAATACCCTC-GACTTGT
1 AAAATTACTAAAATACCCTCTGATTTGT
* * * *
115993689 AAAAATTACCAAAGTACCCTC-GGTTTAT
1 -AAAATTACTAAAATACCCTCTGATTTGT
**** **
115993717 AAAATTACTGCTTTACCCT-TGATTTAC
1 AAAATTACTAAAATACCCTCTGATTTGT
* ***
115993744 AGAATTACTATTTTACCCT-TGA-TT-T
1 AAAATTACTAAAATACCCTCTGATTTGT
* *** *
115993769 ACAAATTACCATTTTACCCTC--AATTGT
1 A-AAATTACTAAAATACCCTCTGATTTGT
* **
115993796 GAAATTACTAAAATACCC-CT-ATAGGGT
1 AAAATTACTAAAATACCCTCTGAT-TTGT
* * *
115993823 AGAATTACCAAAACACCC-CT-AGTTTGT
1 AAAATTACTAAAATACCCTCTGA-TTTGT
* * *
115993850 AAAATTACCAAAATA-CCACTGGTTTGT
1 AAAATTACTAAAATACCCTCTGATTTGT
* ** *
115993877 GAAATTACCGAAATACCCTC-AATTTGT
1 AAAATTACTAAAATACCCTCTGATTTGT
* * **
115993904 AAAATTACCAAAATACCC-CTAATTTAC
1 AAAATTACTAAAATACCCTCTGATTTGT
115993931 AAAATTA-TAGAAATACCCT-TGATTTGT
1 AAAATTACTA-AAATACCCTCTGATTTGT
* * * *
115993958 AGATTTACCAAAACACCCT
1 AAAATTACTAAAATACCCT
115993977 TATAGGATGA
Statistics
Matches: 266, Mismatches: 58, Indels: 38
0.73 0.16 0.10
Matches are distributed among these distances:
25 3 0.01
26 40 0.15
27 172 0.65
28 48 0.18
29 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (28 bp):
AAAATTACTAAAATACCCTCTGATTTGT
Found at i:115993936 original size:54 final size:54
Alignment explanation
Indices: 115993473--115993975 Score: 205
Period size: 54 Copynumber: 9.3 Consensus size: 54
115993463 TTAGTTTACC
* * * *** *
115993473 AAATTACCAAAGTACCCCCGATTTACAGAATTACCGTTCTACCCTCGATTTATA
1 AAATTACCAAAATACCCCTGATTTACAAAATTACCGAAATACCCTCGATTTGTA
* *** * * * ** * *
115993527 GAATTACCATTTTACCCTTGATTTATAGAATTACC-ATTTTACACTCGATTTATA
1 AAATTACCAAAATACCCCTGATTTACAAAATTACCGA-AATACCCTCGATTTGTA
* **** * * ** *
115993581 GAATTACCGTTTTACCCTTAATTTACAAAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTACAAAATTACCGAAATACCCTC-GATTTGTA
* * *
115993635 AAATTACTAAAATACCTCCTGATTT-CTAAAATTACTGAAATACCCTCGACTTGTAA
1 AAATTACCAAAATACC-CCTGATTTAC-AAAATTACCGAAATACCCTCGATTTGT-A
* * * * *** * **
115993691 AAATTACCAAAGTA-CCCTCGGTTTATAAAATTACTGCTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCCT-GATTTACAAAATTACCGAAATACCCTCGATTTGTA
* * *** * ** * *
115993745 GAATTACTATTTTACCCTTGATTTAC-AAATTACC-ATTTTACCCTC-AATTGTG
1 AAATTACCAAAATACCCCTGATTTACAAAATTACCGA-AATACCCTCGATTTGTA
* **** * * * *
115993797 AAATTACTAAAATACCCCT-ATAGGGTAGAATTACCAAAACACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCCTGAT-TTACAAAATTACCGAAATACCCTCGA-TTTGTA
* * *** *
115993851 AAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCCTGATTTACAAAATTACCGAAATACCCTCGATTTGTA
* ** *
115993905 AAATTACCAAAATACCCCTAATTTACAAAATTATAGAAATACCCTTGATTTGTA
1 AAATTACCAAAATACCCCTGATTTACAAAATTACCGAAATACCCTCGATTTGTA
* * *
115993959 GATTTACCAAAACACCC
1 AAATTACCAAAATACCC
115993976 TTATAGGATG
Statistics
Matches: 336, Mismatches: 95, Indels: 36
0.72 0.20 0.08
Matches are distributed among these distances:
51 2 0.01
52 18 0.05
53 28 0.08
54 214 0.64
55 60 0.18
56 14 0.04
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGATTTACAAAATTACCGAAATACCCTCGATTTGTA
Found at i:115993966 original size:81 final size:81
Alignment explanation
Indices: 115993825--115993976 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
115993815 TATAGGGTAG
* ** * *
115993825 AATTACCAAAACACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 AATTACCAAAACACCCCTAATTTACAAAATTACCAAAATACCACTGATTTGTGAAATTACCAAAA
*
115993890 TACCCTCAATTTGTAA
66 CACCCTCAATTTGTAA
* * *
115993906 AATTACCAAAATACCCCTAATTTACAAAATTA-TAGAAATACC-CTTGATTTGT-AGATTTACCA
1 AATTACCAAAACACCCCTAATTTACAAAATTACCA-AAATACCAC-TGATTTGTGA-AATTACCA
115993968 AAACACCCT
63 AAACACCCT
115993977 TATAGGATGA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
80 3 0.05
81 56 0.95
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCAAAACACCCCTAATTTACAAAATTACCAAAATACCACTGATTTGTGAAATTACCAAAA
CACCCTCAATTTGTAA
Found at i:115994805 original size:20 final size:20
Alignment explanation
Indices: 115994780--115994866 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
115994770 GATATGATAT
*
115994780 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
115994800 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
*
115994820 ATATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
115994840 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
115994860 ACATGAT
1 ACATGAT
115994867 GTATTCATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:115995013 original size:25 final size:26
Alignment explanation
Indices: 115994916--115995051 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
115994906 GAGGAACTGC
115994916 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
115994942 AAAAGGGCTTATGCCCCAGTTTAACG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
115994968 AAAAGGGCTTATGCCCCAGTTTATTT
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * *
115994994 AAAAGGGATT-TGCCCTAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
115995019 AAAAAGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
115995042 AAAAGAGGCT
1 AAAAG-GGCT
115995052 AGGCCTCCAG
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.04
24 8 0.08
25 27 0.28
26 56 0.59
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:115995249 original size:42 final size:42
Alignment explanation
Indices: 115995184--115995275 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
115995174 TAGTCTCCCC
* * ** *
115995184 AAATAGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
115995226 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
115995268 AAATGGGC
1 AAATGGGC
115995276 CTATGGACCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:115995334 original size:31 final size:31
Alignment explanation
Indices: 115995299--115995377 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
115995289 CGTTTATAGT
115995299 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
115995330 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
115995361 AACGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
115995378 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:116001723 original size:7 final size:7
Alignment explanation
Indices: 116001708--116001741 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
116001698 TCAAGTAATT
*
116001708 CATTGAA
1 CATTTAA
116001715 CATTTAA
1 CATTTAA
116001722 CATTTAA
1 CATTTAA
116001729 CATTTAA
1 CATTTAA
116001736 CATTTA
1 CATTTA
116001742 CTAATATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (7 bp):
CATTTAA
Found at i:116011220 original size:25 final size:25
Alignment explanation
Indices: 116011191--116011238 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
116011181 TTATAACATG
* * *
116011191 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
116011216 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
116011239 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:116011306 original size:20 final size:20
Alignment explanation
Indices: 116011283--116011340 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
116011273 AAACATGGTC
116011283 TGTATGATATACACATGACA
1 TGTATGATATACACATGACA
*
116011303 TGTATGATACACACATGACA
1 TGTATGATATACACATGACA
*
116011323 TGTATGATATGCACATGA
1 TGTATGATATACACATGA
116011341 TGTATTCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (20 bp):
TGTATGATATACACATGACA
Found at i:116011418 original size:24 final size:24
Alignment explanation
Indices: 116011391--116011580 Score: 233
Period size: 24 Copynumber: 8.0 Consensus size: 24
116011381 GAGGAAGTGG
116011391 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
116011415 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
116011438 TAAAGGGCATATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
116011462 AAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
116011486 AAAAGGGCTTACGCCCTAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
116011509 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
116011533 AAAAGGGATTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
116011557 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
116011581 ATGATAAAGC
Statistics
Matches: 144, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
23 40 0.28
24 94 0.65
25 10 0.07
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:116011461 original size:47 final size:48
Alignment explanation
Indices: 116011391--116011581 Score: 219
Period size: 47 Copynumber: 4.0 Consensus size: 48
116011381 GAGGAAGTGG
* *
116011391 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCATATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATA
* * *
116011438 TAAAGGGCATATGCCCCAGTTATCAAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCATATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATA
* * * *
116011486 AAAAGGGCTTACGCCCTAGTTAT-TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCATATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATA
* * *
116011533 AAAAGGG-ATTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAGGGCA-TATGCCCCAGTTATCAAAAG-GGCTTATGCC-CCAGTTATA
116011582 TGATAAAGCA
Statistics
Matches: 122, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
47 82 0.67
48 28 0.23
49 12 0.10
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (48 bp):
AAAAGGGCATATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATA
Found at i:116011507 original size:71 final size:71
Alignment explanation
Indices: 116011391--116011580 Score: 283
Period size: 71 Copynumber: 2.7 Consensus size: 71
116011381 GAGGAAGTGG
116011391 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATTAAAGGGCATATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATTAAAGGGCATATGCCCCA
*
116011456 GTTATC
66 GTTATA
* * *
116011462 AAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTACGCCCTAGTTATTAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATTAAAGGGCATATGCCCCA
116011527 GTTATA
66 GTTATA
* * * *
116011533 AAAAGGGATTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTACGCC-CCAGTTAT
116011581 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
71 97 0.91
72 10 0.09
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATTAAAGGGCATATGCCCCA
GTTATA
Found at i:116011809 original size:31 final size:31
Alignment explanation
Indices: 116011774--116011837 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
116011764 CGTTTACAGT
*
116011774 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
116011805 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
116011836 AA
1 AA
116011838 TTGAAAAGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:116014141 original size:15 final size:16
Alignment explanation
Indices: 116014111--116014142 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
116014101 CACCTAAATT
116014111 ACATAATGATTTGCCA
1 ACATAATGATTTGCCA
116014127 ACATAATGA-TTGCCA
1 ACATAATGATTTGCCA
116014142 A
1 A
116014143 TAGAGCAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (16 bp):
ACATAATGATTTGCCA
Found at i:116020507 original size:42 final size:43
Alignment explanation
Indices: 116020414--116020566 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 43
116020404 GTCCCAGGTG
*
116020414 TGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACA
1 TGGTCTTACATGAAATCAAATATCGATGCCACTATCCCAGACA
* * *
116020457 GGGTCTTACATGAAATCAAATAT-GATGTCGA-TGTCCCAGACA
1 TGGTCTTACATGAAATCAAATATCGATG-CCACTATCCCAGACA
* * * * *
116020499 TGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCCTGACG
1 TGGTCTTACATG-AAATCA-AATATCGATGCC-ACTATCCCAGACA
* * *
116020543 TGGTCTTACACGAAAACACATATC
1 TGGTCTTACATGAAATCAAATATC
116020567 AGATCTTATG
Statistics
Matches: 90, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
42 25 0.28
43 38 0.42
44 27 0.30
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
TGGTCTTACATGAAATCAAATATCGATGCCACTATCCCAGACA
Done.