Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 142 of 276
Found at i:46278227 original size:49 final size:49
Alignment explanation
Indices: 46278155--46278329 Score: 224
Period size: 49 Copynumber: 3.5 Consensus size: 49
46278145 TGAGGTCACG
*
46278155 TGTGTAGTATTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * * *
46278204 TGTGTAGTACTAAGTGCATGCTACTATGCGTACCTGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* *
46278255 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
*
46278304 TGTGTAGTACTAAGTGCAAGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
46278330 TGCATACCAG
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 63 0.61
50 2 0.02
51 39 0.38
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:46278327 original size:100 final size:100
Alignment explanation
Indices: 46278150--46278337 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
46278140 TATTGTGAGG
*
46278150 TCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
* *
46278215 AAGTGCATGCTACTATGCGTACCTGAAAACTGTGA
66 AAGTGCAAGCTACTATGCATACCTGAAAACTGTGA
* *
46278250 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGTATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
46278315 AAGTGCAAGCTACTATGCATACC
66 AAGTGCAAGCTACTATGCATACC
46278338 AGATAGCTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAAGCTACTATGCATACCTGAAAACTGTGA
Found at i:46280916 original size:24 final size:26
Alignment explanation
Indices: 46280868--46280916 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
46280858 AGTCAATATA
* *
46280868 AATTTATATACCTCATATTCTAATAC
1 AATTTATATACATCATATTCGAATAC
46280894 AATTTA-ATACATC-TATTCGAATA
1 AATTTATATACATCATATTCGAATA
46280917 TATATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 6 0.29
26 6 0.29
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (26 bp):
AATTTATATACATCATATTCGAATAC
Found at i:46280921 original size:2 final size:2
Alignment explanation
Indices: 46280914--46280938 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46280904 ATCTATTCGA
46280914 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
46280939 AAAGCACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46283929 original size:22 final size:22
Alignment explanation
Indices: 46283901--46283982 Score: 146
Period size: 22 Copynumber: 3.7 Consensus size: 22
46283891 TGATTTTGCT
*
46283901 CGGCACTAAGCCTGAATAACAC
1 CGGCACTAAGCCTGAACAACAC
46283923 CGGCACTAAGCCTGAACAACAC
1 CGGCACTAAGCCTGAACAACAC
46283945 CGGCACTAAGCCTGAACAACAC
1 CGGCACTAAGCCTGAACAACAC
*
46283967 CGGCACTAAGCTTGAA
1 CGGCACTAAGCCTGAA
46283983 TAAAACCTCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.35, C:0.33, G:0.20, T:0.12
Consensus pattern (22 bp):
CGGCACTAAGCCTGAACAACAC
Found at i:46285433 original size:8 final size:8
Alignment explanation
Indices: 46285420--46285471 Score: 68
Period size: 8 Copynumber: 6.4 Consensus size: 8
46285410 GAAATATATA
*
46285420 TTTTTATT
1 TTTTTAAT
46285428 TTTTTAAT
1 TTTTTAAT
**
46285436 TTTAAAGAT
1 TTTTTA-AT
46285445 TTTTTAAT
1 TTTTTAAT
46285453 TTTTTAAT
1 TTTTTAAT
46285461 TTTTTAAT
1 TTTTTAAT
46285469 TTT
1 TTT
46285472 AAAAAATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
8 32 0.84
9 6 0.16
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTTTAAT
Found at i:46285487 original size:33 final size:33
Alignment explanation
Indices: 46285420--46285488 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
46285410 GAAATATATA
* * * ***
46285420 TTTTTATTTTTTTAATTTTAAAGATTTTTTAAT
1 TTTTTAATTTTTTAATTTTAAAAAATTAAAAAT
46285453 TTTTTAATTTTTTAATTTTAAAAAATTAAAAAT
1 TTTTTAATTTTTTAATTTTAAAAAATTAAAAAT
46285486 TTT
1 TTT
46285489 ATGTATTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (33 bp):
TTTTTAATTTTTTAATTTTAAAAAATTAAAAAT
Found at i:46285763 original size:30 final size:29
Alignment explanation
Indices: 46285727--46285789 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 29
46285717 CATTCTTTGG
46285727 TTTAATTTGGATGTTTTCATCTTTTCATAT
1 TTTAATTTGGATGTTTTCATCTTTT-ATAT
* **
46285757 TTTAATTTGGTTGTTTTTGTCTTTTATAT
1 TTTAATTTGGATGTTTTCATCTTTTATAT
46285786 TTTA
1 TTTA
46285790 TAAATCAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.65
Consensus pattern (29 bp):
TTTAATTTGGATGTTTTCATCTTTTATAT
Found at i:46286742 original size:34 final size:34
Alignment explanation
Indices: 46286704--46286770 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
46286694 AAAAATTATT
*
46286704 TAAATTAAGGTT-TATG-GTTTTTAAATAGATTAAG
1 TAAATTAAGGTTCTA-GAG-TTTTAAATAAATTAAG
*
46286738 TAAATTAGGGTTCTAGAGTTTTAAATAAATTAA
1 TAAATTAAGGTTCTAGAGTTTTAAATAAATTAA
46286771 ATTAGAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 26 0.90
35 3 0.10
ACGTcount: A:0.40, C:0.01, G:0.16, T:0.42
Consensus pattern (34 bp):
TAAATTAAGGTTCTAGAGTTTTAAATAAATTAAG
Found at i:46286803 original size:22 final size:22
Alignment explanation
Indices: 46286751--46286797 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
46286741 ATTAGGGTTC
*
46286751 TAGAGTTTTAAATAAATTAAAT
1 TAGAGTTTAAAATAAATTAAAT
46286773 TAGAGTTTAAAATAAATTAAAT
1 TAGAGTTTAAAATAAATTAAAT
46286795 TAG
1 TAG
46286798 GATTTATGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (22 bp):
TAGAGTTTAAAATAAATTAAAT
Found at i:46286846 original size:34 final size:34
Alignment explanation
Indices: 46286790--46286856 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
46286780 TAAAATAAAT
*
46286790 TAAATTAGGATTTATGGTTTTTAAATAAATTAAG
1 TAAATTAGGATTTATGGGTTTTAAATAAATTAAG
* *
46286824 TAAATTAGGGTTCTA-GGGTTTTAGATAAATTAA
1 TAAATTAGGATT-TATGGGTTTTAAATAAATTAA
46286857 ATTAGGGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.42
Consensus pattern (34 bp):
TAAATTAGGATTTATGGGTTTTAAATAAATTAAG
Found at i:46286865 original size:22 final size:22
Alignment explanation
Indices: 46286837--46286889 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
46286827 ATTAGGGTTC
* * *
46286837 TAGGGTTTTAGATAAATTAAAT
1 TAGGGTTTAAAATAAAATAAAT
46286859 TAGGGTTTAAAATAAAATAAAT
1 TAGGGTTTAAAATAAAATAAAT
*
46286881 TATGGTTTA
1 TAGGGTTTA
46286890 TGATTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (22 bp):
TAGGGTTTAAAATAAAATAAAT
Found at i:46286951 original size:86 final size:85
Alignment explanation
Indices: 46286704--46286952 Score: 390
Period size: 86 Copynumber: 2.9 Consensus size: 85
46286694 AAAAATTATT
*
46286704 TAAATTAAGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGAGTTTTAAATAAATT
1 TAAATT-AGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGAGTTTTAGATAAATT
* *
46286769 AAATTAGAGTTTAAAATAAAT
65 AAATTAGGGTTTAAAATAAAA
* *
46286790 TAAATTAGGATTTATGGTTTTTAAATAAATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATT
1 TAAATTAGG-TTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGAGTTTTAGATAAATT
46286855 AAATTAGGGTTTAAAATAAAA
65 AAATTAGGGTTTAAAATAAAA
* * *
46286876 TAAATTATGGTTTATGATTTTTAAATAGATTAAGTAAATTCGGGTTTTAGAGTTTTAGATAAATT
1 TAAATTA-GGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGAGTTTTAGATAAATT
*
46286941 AAATTTGGGTTT
65 AAATTAGGGTTT
46286953 TTGGTTAAAA
Statistics
Matches: 150, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
85 3 0.02
86 145 0.97
87 2 0.01
ACGTcount: A:0.40, C:0.01, G:0.17, T:0.42
Consensus pattern (85 bp):
TAAATTAGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGAGTTTTAGATAAATTA
AATTAGGGTTTAAAATAAAA
Found at i:46287011 original size:229 final size:226
Alignment explanation
Indices: 46286732--46287441 Score: 897
Period size: 229 Copynumber: 3.1 Consensus size: 226
46286722 TTTTAAATAG
* * *
46286732 ATTAAGTAAATTAGGGTTCTAGAGTTTTAAATAAATTAAATTAGAGTTTAAAATAAATTAAATTA
1 ATTAATTAAATTAGGGTTTTAGA-TTTT-AATAAATTAAATCAGAGTTTAAAATAAATTAAATTA
46286797 GGATTTATGGTTTTTAAATAAATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAG
64 GG-TTTATGGTTTTTAAATAAATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAG
* * * *
46286862 GGTTTAAAATAAAATAAATTATGGTTTATGATTTTTAAATAGATTAAGTAAATTCGGGTTTTAGA
128 GGTTTAAAATAAATTAAATTA-GGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTCTAGG
* *
46286927 GTTTTAGATAAATTAAATTTGGGTTTTTGGTTAAA
192 GTTTTAGATAAATTAAATTAGGGTTTTAGGTTAAA
* *
46286962 ATTAATTAAATTAGGGTTTTAGATTTTAGATAAATCAAATCAGAGTTTAAAATAAATCAAATTAG
1 ATTAATTAAATTAGGGTTTTAGATTTTA-ATAAATTAAATCAGAGTTTAAAATAAATTAAATTA-
*
46287027 GGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGG
64 GGTTTATGGTTTTTAAATAAATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGG
* *
46287092 GTTTAAAATAAATTAAATTAGAGTTTATGGTTTTTAAATAGATTAAGTAAATTAGAGTTCTAGGG
129 GTTTAAAATAAATTAAATTAG-GTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGG
***
46287157 TTTTAGATAAATTAAATTAGGG-TTTAAAAT-AA
193 TTTTAGATAAATTAAATTAGGGTTTTAGGTTAAA
* * * * * ** * * *
46287189 ATTAAACTAGAGTTTATGGTTTTTGAATAGATTAAGTAAATTAGGGTTCCAGGGTTTTAGATAAA
1 ATT-AATTA-A-ATTAGGGTTTTAG-AT--TTTAA-TAAATTA--AAT-CAGAGTTTAAAATAAA
**** *
46287254 TTAAATTAAGGTTT-TGGGTTTTGGGTTAAAATTAAGTAAATTAGGGTTCTAAGGTTTTAGATAA
56 TTAAATT-AGGTTTAT-GGTTTTTAAAT-AAATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAA
46287318 ATTAAATTAGGGTTTAAAAT-AATTAAATTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTA
118 ATTAAATTAGGGTTTAAAATAAATTAAATTA-GGTTTATGATTTTTAAATAGATTAAGTAAATTA
* *
46287382 GGGTTCTAGGGTTTTAGATAAATTACATTAGGGTTTTGGGTTAAA
182 GGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTTAGGTTAAA
46287427 ATTAATTAAATTAGG
1 ATTAATTAAATTAGG
46287442 TATTGTGTTA
Statistics
Matches: 416, Mismatches: 45, Indels: 33
0.84 0.09 0.07
Matches are distributed among these distances:
227 5 0.01
228 10 0.02
229 177 0.43
230 33 0.08
231 2 0.00
232 1 0.00
233 9 0.02
235 6 0.01
236 104 0.25
237 64 0.15
238 5 0.01
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (226 bp):
ATTAATTAAATTAGGGTTTTAGATTTTAATAAATTAAATCAGAGTTTAAAATAAATTAAATTAGG
TTTATGGTTTTTAAATAAATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGGGT
TTAAAATAAATTAAATTAGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTT
TAGATAAATTAAATTAGGGTTTTAGGTTAAA
Found at i:46287017 original size:22 final size:22
Alignment explanation
Indices: 46286991--46287032 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
46286981 TAGATTTTAG
46286991 ATAAATCAAATCAGAGTTTAAA
1 ATAAATCAAATCAGAGTTTAAA
* *
46287013 ATAAATCAAATTAGGGTTTA
1 ATAAATCAAATCAGAGTTTA
46287033 TGGTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (22 bp):
ATAAATCAAATCAGAGTTTAAA
Found at i:46287024 original size:143 final size:144
Alignment explanation
Indices: 46286816--46287095 Score: 429
Period size: 143 Copynumber: 2.0 Consensus size: 144
46286806 GTTTTTAAAT
* * * *
46286816 AAATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTAAAATAAAATAAAT
1 AAATTAAGTAAATTAGGGTTCTAGGATTTTAGATAAATCAAATCAGAGTTTAAAATAAAATAAAT
* * *
46286881 TATGGTTTATGATTTTTAAATAGATTAAGTAAATTCGGGTTTTAGAGTTTTAGATAAATTAAATT
66 TAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTCTAGAGTTTTAGATAAATTAAATT
*
46286946 TGGGTTTTTGGTTA
131 AGGGTTTTTGGTTA
* *
46286960 AAATTAATTAAATTAGGGTTTTA-GATTTTAGATAAATCAAATCAGAGTTTAAAAT-AAATCAAA
1 AAATTAAGTAAATTAGGGTTCTAGGATTTTAGATAAATCAAATCAGAGTTTAAAATAAAAT-AAA
* *
46287023 TTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAAT
65 TTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTCTAGAGTTTTAGATAAATTAAAT
46287088 TAGGGTTT
130 TAGGGTTT
46287096 AAAATAAATT
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
142 4 0.03
143 98 0.80
144 21 0.17
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (144 bp):
AAATTAAGTAAATTAGGGTTCTAGGATTTTAGATAAATCAAATCAGAGTTTAAAATAAAATAAAT
TAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTCTAGAGTTTTAGATAAATTAAATT
AGGGTTTTTGGTTA
Found at i:46287075 original size:34 final size:34
Alignment explanation
Indices: 46287020--46287085 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
46287010 AAAATAAATC
* *
46287020 AAATTAGGGTTTATGGTTTTTAAATAGATTAAGT
1 AAATTAGGGTTTATGGGTTTTAAATAAATTAAGT
*
46287054 AAATTAGGGTTCTA-GGGTTTTAGATAAATTAA
1 AAATTAGGGTT-TATGGGTTTTAAATAAATTAA
46287086 ATTAGGGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.41
Consensus pattern (34 bp):
AAATTAGGGTTTATGGGTTTTAAATAAATTAAGT
Found at i:46287080 original size:86 final size:86
Alignment explanation
Indices: 46286962--46287267 Score: 488
Period size: 86 Copynumber: 3.6 Consensus size: 86
46286952 TTTGGTTAAA
* * * * * * *
46286962 ATTAATTAAATTAGGGTTTTA-GATTTTAGATAAATCAAATCAGAGTTTAAAATAAATCAAATTA
1 ATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTAAAATAAATTAAATTA
*
46287026 GGGTTTATGGTTTTTAAATAG
66 GAGTTTATGGTTTTTAAATAG
46287047 ATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTAAAATAAATTAAATTA
1 ATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTAAAATAAATTAAATTA
46287112 GAGTTTATGGTTTTTAAATAG
66 GAGTTTATGGTTTTTAAATAG
* *
46287133 ATTAAGTAAATTAGAGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTAAAATAAATTAAACTA
1 ATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTAAAATAAATTAAATTA
*
46287198 GAGTTTATGGTTTTTGAATAG
66 GAGTTTATGGTTTTTAAATAG
* *
46287219 ATTAAGTAAATTAGGGTTCCAGGGTTTTAGATAAATTAAATTAAGGTTT
1 ATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTT
46287268 TGGGTTTTGG
Statistics
Matches: 206, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
85 19 0.09
86 187 0.91
ACGTcount: A:0.40, C:0.03, G:0.18, T:0.40
Consensus pattern (86 bp):
ATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTAAAATAAATTAAATTA
GAGTTTATGGTTTTTAAATAG
Found at i:46287094 original size:22 final size:22
Alignment explanation
Indices: 46287066--46287204 Score: 99
Period size: 22 Copynumber: 6.4 Consensus size: 22
46287056 ATTAGGGTTC
*
46287066 TAGGGTTTTAGATAAATTAAAT
1 TAGGGTTTAAGATAAATTAAAT
*
46287088 TAGGGTTTAAAATAAATTAAAT
1 TAGGGTTTAAGATAAATTAAAT
* * * **
46287110 TAGAGTTTATGGT-TTTTAAA-
1 TAGGGTTTAAGATAAATTAAAT
* *
46287130 TA--GATTAAG-TAAATTAGAGTT
1 TAGGGTTTAAGATAAATTA-A-AT
*
46287151 CTAGGGTTTTAGATAAATTAAAT
1 -TAGGGTTTAAGATAAATTAAAT
* *
46287174 TAGGGTTTAAAATAAATTAAAC
1 TAGGGTTTAAGATAAATTAAAT
*
46287196 TAGAGTTTA
1 TAGGGTTTA
46287205 TGGTTTTTGA
Statistics
Matches: 89, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
17 1 0.01
18 8 0.09
19 1 0.01
20 2 0.02
21 5 0.06
22 58 0.65
23 1 0.01
24 6 0.07
25 7 0.08
ACGTcount: A:0.42, C:0.01, G:0.17, T:0.40
Consensus pattern (22 bp):
TAGGGTTTAAGATAAATTAAAT
Found at i:46287161 original size:34 final size:34
Alignment explanation
Indices: 46287105--46287171 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
46287095 TAAAATAAAT
* *
46287105 TAAATTAGAGTTTATGGTTTTTAAATAGATTAAG
1 TAAATTAGAGTTTATGGGTTTTAAATAAATTAAG
*
46287139 TAAATTAGAGTTCTA-GGGTTTTAGATAAATTAA
1 TAAATTAGAGTT-TATGGGTTTTAAATAAATTAA
46287172 ATTAGGGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.42
Consensus pattern (34 bp):
TAAATTAGAGTTTATGGGTTTTAAATAAATTAAG
Found at i:46287243 original size:64 final size:66
Alignment explanation
Indices: 46287175--46287333 Score: 191
Period size: 65 Copynumber: 2.5 Consensus size: 66
46287165 AAATTAAATT
* * * * *
46287175 AGGGTTTAAAATAAATTAAACTAGAGTTTAT-GGTTTTTGAAT-AGATTAAGTAAATTAGGGTTC
1 AGGGTTTTAGATAAATTAAATTAGAGTTTATGGGTTTTGGAATAAAATTAAGTAAATTAGGGTTC
46287238 C
66 C
**
46287239 AGGGTTTTAGATAAATTAAATTA-AGGTTT-TGGGTTTTGGGTTAAAATTAAGTAAATTAGGGTT
1 AGGGTTTTAGATAAATTAAATTAGA-GTTTATGGGTTTTGGAATAAAATTAAGTAAATTAGGGTT
*
46287302 CT
65 CC
* *
46287304 AAGGTTTTAGATAAATTAAATTAGGGTTTA
1 AGGGTTTTAGATAAATTAAATTAGAGTTTA
46287334 AAATAATTAA
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
63 2 0.03
64 32 0.40
65 46 0.57
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.40
Consensus pattern (66 bp):
AGGGTTTTAGATAAATTAAATTAGAGTTTATGGGTTTTGGAATAAAATTAAGTAAATTAGGGTTC
C
Found at i:46287250 original size:30 final size:30
Alignment explanation
Indices: 46287216--46287331 Score: 90
Period size: 30 Copynumber: 3.7 Consensus size: 30
46287206 GGTTTTTGAA
* *
46287216 TAGATTAAGTAAATTAGGGTTCCAGGGTTT
1 TAGATAAAGTAAATTAGGGTTCTAGGGTTT
* * *
46287246 TAGATAAATTAAATTAAGGTT-TTGGGTTTTGGGT
1 TAGATAAAGTAAATTAGGGTTCTAGGG--TT---T
* * *
46287280 TAAAATTAAGTAAATTAGGGTTCTAAGGTTT
1 T-AGATAAAGTAAATTAGGGTTCTAGGGTTT
*
46287311 TAGATAAATTAAATTAGGGTT
1 TAGATAAAGTAAATTAGGGTT
46287332 TAAAATAATT
Statistics
Matches: 65, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
29 3 0.05
30 35 0.54
31 4 0.06
34 4 0.06
35 16 0.25
36 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (30 bp):
TAGATAAAGTAAATTAGGGTTCTAGGGTTT
Found at i:46287260 original size:150 final size:148
Alignment explanation
Indices: 46287089--46287423 Score: 478
Period size: 150 Copynumber: 2.2 Consensus size: 148
46287079 AAATTAAATT
* *
46287089 AGGGTTTAAAATAAATTAAATTAGAGTTTAT-GGTTTT-TAAATAGATTAAGTAAATTAGAGTTC
1 AGGGTTTTAGATAAATTAAATTAGAGTTT-TGGGTTTTGTAAA-A-ATTAAGTAAATTAGAGTTC
* * *
46287152 TAGGGTTTTAGATAAATTAAATTAGGGTTTAAAATAAATTAAACTAGAGTTTATGGTTTTTGAAT
63 TAAGGTTTTAGATAAATTAAATTAGGGTTTAAAAT-AATTAAACTAGAGTTTATGATTTTTAAAT
46287217 AGATTAAGTAAATTAGGGTTCC
127 AGATTAAGTAAATTAGGGTTCC
* *
46287239 AGGGTTTTAGATAAATTAAATTA-AGGTTTTGGGTTTTGGGTTAAAATTAAGTAAATTAGGGTTC
1 AGGGTTTTAGATAAATTAAATTAGA-GTTTTGGGTTTT--GTAAAAATTAAGTAAATTAGAGTTC
* *
46287303 TAAGGTTTTAGATAAATTAAATTAGGGTTTAAAATAATTAAATTAGGGTTTATGATTTTTAAATA
63 TAAGGTTTTAGATAAATTAAATTAGGGTTTAAAATAATTAAACTAGAGTTTATGATTTTTAAATA
*
46287368 GATTAAGTAAATTAGGGTTCT
128 GATTAAGTAAATTAGGGTTCC
* *
46287389 AGGGTTTTAGATAAATTACATTAGGGTTTTGGGTT
1 AGGGTTTTAGATAAATTAAATTAGAGTTTTGGGTT
46287424 AAAATTAATT
Statistics
Matches: 167, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
149 2 0.01
150 109 0.65
151 52 0.31
152 1 0.01
153 3 0.02
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.41
Consensus pattern (148 bp):
AGGGTTTTAGATAAATTAAATTAGAGTTTTGGGTTTTGTAAAAATTAAGTAAATTAGAGTTCTAA
GGTTTTAGATAAATTAAATTAGGGTTTAAAATAATTAAACTAGAGTTTATGATTTTTAAATAGAT
TAAGTAAATTAGGGTTCC
Found at i:46287397 original size:34 final size:34
Alignment explanation
Indices: 46287332--46287406 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 34
46287322 AATTAGGGTT
* * *
46287332 TAAAATAATTAAATTAGGGTTTATGATTTTTAAA
1 TAAATTAAGTAAATTAGGGTTTATGAGTTTTAAA
* * *
46287366 TAGATTAAGTAAATTAGGGTTCTA-GGGTTTTAGA
1 TAAATTAAGTAAATTAGGGTT-TATGAGTTTTAAA
46287400 TAAATTA
1 TAAATTA
46287407 CATTAGGGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
34 31 0.94
35 2 0.06
ACGTcount: A:0.40, C:0.01, G:0.17, T:0.41
Consensus pattern (34 bp):
TAAATTAAGTAAATTAGGGTTTATGAGTTTTAAA
Found at i:46287400 original size:30 final size:28
Alignment explanation
Indices: 46287366--46287441 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 28
46287356 GATTTTTAAA
*
46287366 TAGATTAAGTAAATTAGGGTTCTAGGGTTT
1 TAGATTAATTAAATTAGGGTT-TAGGG-TT
* * *
46287396 TAGATAAATTACATTAGGGTTTTGGGTT
1 TAGATTAATTAAATTAGGGTTTAGGGTT
* *
46287424 AAAATTAATTAAATTAGG
1 TAGATTAATTAAATTAGG
46287442 TATTGTGTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 16 0.42
29 4 0.11
30 18 0.47
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (28 bp):
TAGATTAATTAAATTAGGGTTTAGGGTT
Found at i:46287439 original size:28 final size:30
Alignment explanation
Indices: 46287325--46287441 Score: 89
Period size: 28 Copynumber: 3.9 Consensus size: 30
46287315 TAAATTAAAT
46287325 TAGGGTTTAAAA-TAATTAAATTAGGGTT-
1 TAGGGTTTAAAATTAATTAAATTAGGGTTC
** *
46287353 TATGATTTTTAAATAGATTAAGTAAATTAGGGTTC
1 TA-G-GGTTT-AA-A-ATTAATTAAATTAGGGTTC
* * * *
46287388 TAGGGTTTTAGATAAATTACATTAGGGTT-
1 TAGGGTTTAAAATTAATTAAATTAGGGTTC
*
46287417 TTGGG-TTAAAATTAATTAAATTAGG
1 TAGGGTTTAAAATTAATTAAATTAGG
46287442 TATTGTGTTA
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
28 18 0.27
29 5 0.07
30 18 0.27
31 2 0.03
32 2 0.03
33 4 0.06
34 16 0.24
35 2 0.03
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.41
Consensus pattern (30 bp):
TAGGGTTTAAAATTAATTAAATTAGGGTTC
Found at i:46287742 original size:95 final size:94
Alignment explanation
Indices: 46287558--46287752 Score: 318
Period size: 94 Copynumber: 2.1 Consensus size: 94
46287548 ACACTGTTAA
* * *
46287558 CAAAAATATAGAAAAAAGCTACCACGTGGATGATCTTTTGCTACATTAGTTCCTGAAAAATAATT
1 CAAAAATACAGAAAAAAGCTACCACGTGGATGATCTTTTGCTACAGTAGTTCCTAAAAAATAATT
*
46287623 TTGAGAAGACGTTTCTGAACAAATAGTGT
66 TTGAGAAGACGTTTCTAAACAAATAGTGT
* *
46287652 CAAAAATACAGAAAAAAGCTATCACGTGGATGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAAT
1 CAAAAATACAGAAAAAAGCTACCACGTGGATGATCTTTTGCTACAGTAGTTCCT-AAAAAATAAT
*
46287717 TTTGAGAAGACGTTTCTAAATAAATAGTGT
65 TTTGAGAAGACGTTTCTAAACAAATAGTGT
46287747 CAAAAA
1 CAAAAA
46287753 CGCTTCAAAC
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
94 50 0.54
95 43 0.46
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.29
Consensus pattern (94 bp):
CAAAAATACAGAAAAAAGCTACCACGTGGATGATCTTTTGCTACAGTAGTTCCTAAAAAATAATT
TTGAGAAGACGTTTCTAAACAAATAGTGT
Found at i:46287874 original size:125 final size:126
Alignment explanation
Indices: 46287662--46287954 Score: 489
Period size: 125 Copynumber: 2.3 Consensus size: 126
46287652 CAAAAATACA
** * *
46287662 GAAAAAAGCTATCACGTGGATGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGA
1 GAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAATTTTAAGAAGA
*
46287727 CGTTTCTAAATAAATAGTGTCAAAAACGCTTCAAACAGGATGCAATGTCATCAAAATTTCT
66 CGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAACAGGATGCAATGTCATCAAAATTTCT
* *
46287788 GAAAAAAGCTCCCACATGGACGTTCTTTTGCTACAGTAGTTCCT-AAAAAATAATTTTAAGAAGA
1 GAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAATTTTAAGAAGA
*
46287852 TGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAACAGGATGCAATGTCATCAAAATTTCT
66 CGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAACAGGATGCAATGTCATCAAAATTTCT
* *
46287913 GAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAGTTC
1 GAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTC
46287955 ATGCTTAGCC
Statistics
Matches: 155, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
125 116 0.75
126 39 0.25
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (126 bp):
GAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAATTTTAAGAAGA
CGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAACAGGATGCAATGTCATCAAAATTTCT
Found at i:46289246 original size:13 final size:14
Alignment explanation
Indices: 46289228--46289261 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
46289218 TTTTGAATAA
46289228 TAATGTT-ATTACT
1 TAATGTTCATTACT
46289241 TAATGTTGCATTACT
1 TAATGTT-CATTACT
46289256 TAATGT
1 TAATGT
46289262 ACTTCATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
15 12 0.63
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (14 bp):
TAATGTTCATTACT
Found at i:46292068 original size:18 final size:18
Alignment explanation
Indices: 46292035--46292074 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
46292025 TGTATTAAAT
46292035 TGAATTGAAATTAAATTA
1 TGAATTGAAATTAAATTA
*
46292053 TGAA-TGAAATTGAAATTT
1 TGAATTGAAATT-AAATTA
46292071 TGAA
1 TGAA
46292075 AGTTTACTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (18 bp):
TGAATTGAAATTAAATTA
Found at i:46292467 original size:24 final size:22
Alignment explanation
Indices: 46292421--46292467 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
46292411 ATTGGACTGT
* *
46292421 TACTGAATAAATGATTGATTGA
1 TACTGAATAAATGATTAAATGA
46292443 TACTGAATAATAATGATTAAATGA
1 TACTGAAT-A-AATGATTAAATGA
46292467 T
1 T
46292468 TGTTATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 1 0.05
24 12 0.57
ACGTcount: A:0.45, C:0.04, G:0.15, T:0.36
Consensus pattern (22 bp):
TACTGAATAAATGATTAAATGA
Found at i:46298830 original size:46 final size:47
Alignment explanation
Indices: 46298668--46298939 Score: 219
Period size: 47 Copynumber: 5.7 Consensus size: 47
46298658 AGGGTCTAAT
* * * *
46298668 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCATCTATCAA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTTTCATAT-TGAG
* * * * * * * **
46298715 GTCGATACCATATCCCAAACATGGTCTTACACTGGCTCTCACATATCCG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTTTCATAT-TGAG
* *
46298764 TGCCGATGCCATGTCCCAGACATATCTTACACTAGCTTACATATTGAG
1 -GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTTTCATATTGAG
* * * ** *
46298812 GTCGATG-CATGTCCCAGACATGTCTTACACTAGCTTTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTTTCATATTGAG
* * * *
46298858 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTTCATAATGTG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTTTCATATTGAG
**
46298906 GCCGATG-CATGTCTTAGACATGTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGC
46298940 GCACAAATGA
Statistics
Matches: 179, Mismatches: 41, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
46 50 0.28
47 62 0.35
48 26 0.15
49 23 0.13
50 18 0.10
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTTTCATATTGAG
Found at i:46301393 original size:30 final size:30
Alignment explanation
Indices: 46301359--46301417 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
46301349 CTTTGAGCTC
**
46301359 GGTGATTGTGTGGACGTTGTTGATGGGCCA
1 GGTGATTGTGTGGACACTGTTGATGGGCCA
*
46301389 GGTGATTGTGTGGGCACTGTTGATGGGCC
1 GGTGATTGTGTGGACACTGTTGATGGGCC
46301418 CGTGCCGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.12, C:0.12, G:0.44, T:0.32
Consensus pattern (30 bp):
GGTGATTGTGTGGACACTGTTGATGGGCCA
Found at i:46301946 original size:14 final size:14
Alignment explanation
Indices: 46301923--46301953 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
46301913 TATTAGTTAT
*
46301923 ATACATAATACTAA
1 ATACAAAATACTAA
46301937 ATACAAAATACTAA
1 ATACAAAATACTAA
46301951 ATA
1 ATA
46301954 TGAAACGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (14 bp):
ATACAAAATACTAA
Found at i:46302969 original size:54 final size:54
Alignment explanation
Indices: 46302893--46303004 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
46302883 TATAAAATAC
* ** *
46302893 AAATTAATTAAAATTATGTAAATGAAAAAAATATTAAATAGTATTCAAAAATTA
1 AAATGAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
* * *
46302947 AAATGAATTAAAATTACATAAATGGAAAAAGTATTAAATAATATTCAAAATTTA
1 AAATGAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
46303001 AAAT
1 AAAT
46303005 AAACCTTACC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (54 bp):
AAATGAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
Found at i:46303195 original size:21 final size:21
Alignment explanation
Indices: 46303162--46303205 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
46303152 TATGAAGAGC
*
46303162 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
** *
46303183 TTTGAGAGCTTTAGGGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
46303204 TT
1 TT
46303206 GTAGAGATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (21 bp):
TTTGAGAAATTTAAGGAGAAA
Found at i:46304635 original size:32 final size:32
Alignment explanation
Indices: 46304583--46304645 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
46304573 AATAAGATTT
*
46304583 AATATTAAATTTAATCTAATATTTAAATTGATA
1 AATATTAAATTTAATCTAATA-TTAAAGTGATA
* *
46304616 AATATTATA-TTAATTTAATATTAAAGTGAT
1 AATATTAAATTTAATCTAATATTAAAGTGAT
46304646 TTAAGTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 9 0.33
32 10 0.37
33 8 0.30
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (32 bp):
AATATTAAATTTAATCTAATATTAAAGTGATA
Found at i:46309528 original size:60 final size:60
Alignment explanation
Indices: 46309432--46309561 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 60
46309422 GTAAGTAATA
* * * ** * *
46309432 TGTGGAAATAATAAGTTGACATGACATTACGTATATGATAGTATGTTTGGCGCATCCA-AT
1 TGTGGAAATAATAAGCTAAAATGACATTACACATATGATAATATGCTTGGCGCAT-CAGAT
* *
46309492 TGTGGAAATAATAGGCTAAAATGGCATTACACATATGATAATATGCTTGGCGCATCAGAT
1 TGTGGAAATAATAAGCTAAAATGACATTACACATATGATAATATGCTTGGCGCATCAGAT
*
46309552 TTTGGAAATA
1 TGTGGAAATA
46309562 GCAGAACTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 2 0.03
60 57 0.97
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (60 bp):
TGTGGAAATAATAAGCTAAAATGACATTACACATATGATAATATGCTTGGCGCATCAGAT
Found at i:46310964 original size:16 final size:17
Alignment explanation
Indices: 46310938--46310976 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
46310928 ATTTTTTTAA
46310938 TAAAT-TTAAA-TAATT
1 TAAATATTAAATTAATT
*
46310953 TGAATATTAAATTAATT
1 TAAATATTAAATTAATT
46310970 TAAATAT
1 TAAATAT
46310977 ATTTTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 4 0.20
16 5 0.25
17 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TAAATATTAAATTAATT
Found at i:46311095 original size:20 final size:22
Alignment explanation
Indices: 46311057--46311097 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
46311047 ATTTTCAAAT
46311057 TTTCAAAATATTTATTAGAAAA
1 TTTCAAAATATTTATTAGAAAA
46311079 TTTCAAAAT-TTTA-TAGAAA
1 TTTCAAAATATTTATTAGAAA
46311098 TAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 4 0.21
22 9 0.47
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (22 bp):
TTTCAAAATATTTATTAGAAAA
Found at i:46311232 original size:3 final size:3
Alignment explanation
Indices: 46311224--46311347 Score: 248
Period size: 3 Copynumber: 41.3 Consensus size: 3
46311214 ATCATAAATT
46311224 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
46311272 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
46311320 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
46311348 ACTTTGAAAG
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 121 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:46311800 original size:14 final size:14
Alignment explanation
Indices: 46311781--46311810 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46311771 ATTATTAATT
46311781 ATAATTCATATTAA
1 ATAATTCATATTAA
*
46311795 ATAATTTATATTAA
1 ATAATTCATATTAA
46311809 AT
1 AT
46311811 TTATATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTCATATTAA
Found at i:46313190 original size:42 final size:42
Alignment explanation
Indices: 46313140--46313236 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
46313130 CTGAGACTAT
* * *
46313140 GTGTAAGACCATATCTGGGATATGGAATCATTGTGAGATTTC
1 GTGTAAGACCATATATGGGATATGGAATCAATATGAGATTTC
* *
46313182 GTGTAAGACCATATATGGGATATGGCATCAATATGAGATTTT
1 GTGTAAGACCATATATGGGATATGGAATCAATATGAGATTTC
*
46313224 GTGTGAGACCATA
1 GTGTAAGACCATA
46313237 GTTGGGCTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATATATGGGATATGGAATCAATATGAGATTTC
Found at i:46320471 original size:42 final size:42
Alignment explanation
Indices: 46320411--46320504 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 42
46320401 GGAGACTATG
*
46320411 TGTAAGACCATATCTGGGATATGGCA-TCATTATGAGATTTCA
1 TGTAAGACCATATATGGGATATGGCATTCA-TATGAGATTTCA
*
46320453 TGTAAGACCATATATGGGATATGGCATTGATATGAGATTTCA
1 TGTAAGACCATATATGGGATATGGCATTCATATGAGATTTCA
*
46320495 TGTGAGACCA
1 TGTAAGACCA
46320505 ATACTAGGCT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
42 46 0.96
43 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATATATGGGATATGGCATTCATATGAGATTTCA
Found at i:46322197 original size:46 final size:46
Alignment explanation
Indices: 46322114--46322271 Score: 203
Period size: 46 Copynumber: 3.5 Consensus size: 46
46322104 TCCCATTCAC
* * * * * * *
46322114 GGTCTTATTTATCTT-TGACATGATGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
*
46322159 GGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
46322205 GGTCTTATTCA-TTTCTCGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCT-GTCATGTTGCCATGGTATCTTTCAACCAT
* *
46322251 GGTTTTATTCATTTTATGTCA
1 GGTCTTATTCATTTTCTGTCA
46322272 CCCATGGTCT
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
45 17 0.17
46 78 0.79
47 4 0.04
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (46 bp):
GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
Found at i:46322318 original size:72 final size:72
Alignment explanation
Indices: 46322201--46322336 Score: 263
Period size: 72 Copynumber: 1.9 Consensus size: 72
46322191 TATCTTTCAA
*
46322201 CCATGGTCTTATTCATTTCTCGTCATGTTGCCATGGTATCTTTCAACCATGGTTTTATTCATTTT
1 CCATGGTCTTATTCATTTCTCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTT
46322266 ATGTCAC
66 ATGTCAC
46322273 CCATGGTCTTATTCATTTCTCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT
1 CCATGGTCTTATTCATTTCTCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT
46322337 CTCGTCATGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.46
Consensus pattern (72 bp):
CCATGGTCTTATTCATTTCTCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTT
ATGTCAC
Found at i:46322365 original size:118 final size:118
Alignment explanation
Indices: 46322157--46322382 Score: 418
Period size: 118 Copynumber: 1.9 Consensus size: 118
46322147 TCTTTCAACT
46322157 ATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCTC
1 ATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCTC
*
46322222 GTCATGTTGCCATGGTATCTTTCAACCATGGTTTTATTCATTTTATGTCACCC
66 GTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATGTCACCC
*
46322275 ATGGTCTTATTCA-TTTCTCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCT
1 ATGGTCTTACTCATTTTCT-GTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCT
46322339 CGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT
65 CGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT
46322383 CTCGTCATGT
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
117 5 0.05
118 100 0.95
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.45
Consensus pattern (118 bp):
ATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCTC
GTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATGTCACCC
Found at i:46322429 original size:46 final size:46
Alignment explanation
Indices: 46322273--46322421 Score: 298
Period size: 46 Copynumber: 3.2 Consensus size: 46
46322263 TTTATGTCAC
46322273 CCATGGTCTTATTCATTTCTCGTCATGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTCTCGTCATGTTGCCATGGTATCTTTCAA
46322319 CCATGGTCTTATTCATTTCTCGTCATGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTCTCGTCATGTTGCCATGGTATCTTTCAA
46322365 CCATGGTCTTATTCATTTCTCGTCATGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTCTCGTCATGTTGCCATGGTATCTTTCAA
46322411 CCATGGTCTTA
1 CCATGGTCTTA
46322422 CACATTTCAT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 103 1.00
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.43
Consensus pattern (46 bp):
CCATGGTCTTATTCATTTCTCGTCATGTTGCCATGGTATCTTTCAA
Found at i:46328413 original size:38 final size:38
Alignment explanation
Indices: 46328362--46328442 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
46328352 ATATTTGATG
* * *
46328362 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCAGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
46328400 TATATCCAGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCAGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
46328438 TATAT
1 TATAT
46328443 TCGGGCCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.32
Consensus pattern (38 bp):
TATATCCAGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
Found at i:46336035 original size:46 final size:46
Alignment explanation
Indices: 46335968--46336062 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
46335958 TTGAATGTTT
*
46335968 TAGGTTGTGTATTGACGCAAGAAGGTAAAGTAATAGCTTATGCATC
1 TAGGTTGTGTATTGACGCAAGAAGGTAAAGTAACAGCTTATGCATC
*
46336014 TAGGTTGTGTATTGATGCAAGAAGGTAAAGTAACAGCTTATGCATC
1 TAGGTTGTGTATTGACGCAAGAAGGTAAAGTAACAGCTTATGCATC
46336060 TAG
1 TAG
46336063 ACAGCTAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.31
Consensus pattern (46 bp):
TAGGTTGTGTATTGACGCAAGAAGGTAAAGTAACAGCTTATGCATC
Found at i:46339162 original size:40 final size:40
Alignment explanation
Indices: 46339102--46339189 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
46339092 CGGATGATAA
* * *
46339102 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGAACCGAAGGCATTTGCGCGAGTTGCTATAT
*
46339142 CCGGGCTAAGAACCGAAGGCATTTGCGCGAGTTGTTATAT
1 CCGGGCTAAGAACCGAAGGCATTTGCGCGAGTTGCTATAT
46339182 CC-GGCTAA
1 CCGGGCTAA
46339190 ATCCCGAGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 6 0.14
40 38 0.86
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGAACCGAAGGCATTTGCGCGAGTTGCTATAT
Found at i:46339466 original size:22 final size:22
Alignment explanation
Indices: 46339426--46339467 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46339416 GAATGTGCAT
*
46339426 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
46339448 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
46339468 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:46342514 original size:24 final size:25
Alignment explanation
Indices: 46342444--46342514 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
46342434 CAACTCAAAA
* *
46342444 GAGCATCCCATTAT-TAGCCCTCT-C
1 GAGCTTCCCATTATATAGCTCT-TGC
*
46342468 GAGCTTCCCATTATATAGTTCTTGC
1 GAGCTTCCCATTATATAGCTCTTGC
*
46342493 GAGCTTCTCATTA-ATAGCTCTT
1 GAGCTTCCCATTATATAGCTCTT
46342515 CGTAGCATCC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 22 0.55
25 18 0.45
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.37
Consensus pattern (25 bp):
GAGCTTCCCATTATATAGCTCTTGC
Found at i:46342759 original size:25 final size:25
Alignment explanation
Indices: 46342644--46342760 Score: 78
Period size: 25 Copynumber: 4.8 Consensus size: 25
46342634 AACTCTCTGA
* *
46342644 AGCTTCCCG--ATATGGCTCGCTTG
1 AGCTTCCCGTTATATGGCTCACATG
* * * **
46342667 AACTTCCTGATATATGGCT-ATCCGG
1 AGCTTCCCGTTATATGGCTCA-CATG
* ** *
46342692 AGCTTCCCGTTATATAGCTCGGATA
1 AGCTTCCCGTTATATGGCTCACATG
**
46342717 AGCTTCCCGTTACGTGGCTCACATG
1 AGCTTCCCGTTATATGGCTCACATG
*
46342742 AGCTTCCCGTTTTATGGCT
1 AGCTTCCCGTTATATGGCT
46342761 TGAGAGAGGG
Statistics
Matches: 67, Mismatches: 23, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
23 7 0.10
25 60 0.90
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.32
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCACATG
Found at i:46345379 original size:26 final size:27
Alignment explanation
Indices: 46345333--46345389 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
46345323 CTTTATTAAA
46345333 TTTTATTTGTGCTCTTTATTA-TTTCT
1 TTTTATTTGTGCTCTTTATTAGTTTCT
*
46345359 TTTTATTT-TG-TACTTTGATTAGTTTGT
1 TTTTATTTGTGCT-CTTT-ATTAGTTTCT
46345386 TTTT
1 TTTT
46345390 GGTGTGTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 1 0.04
25 6 0.22
26 12 0.44
27 8 0.30
ACGTcount: A:0.12, C:0.07, G:0.11, T:0.70
Consensus pattern (27 bp):
TTTTATTTGTGCTCTTTATTAGTTTCT
Found at i:46350403 original size:32 final size:30
Alignment explanation
Indices: 46350356--46350419 Score: 92
Period size: 32 Copynumber: 2.1 Consensus size: 30
46350346 TATTTTTGTT
*
46350356 AAAAATCAAACCTTTATTTTAAAATAGTTAA
1 AAAAATCAAAACTTTATTTTAAAA-AGTTAA
*
46350387 AAAAGATCAAAACTTTATTTTAAAAATTTAA
1 AAAA-ATCAAAACTTTATTTTAAAAAGTTAA
46350418 AA
1 AA
46350420 TTTTCCTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 11 0.37
32 19 0.63
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (30 bp):
AAAAATCAAAACTTTATTTTAAAAAGTTAA
Found at i:46351673 original size:42 final size:42
Alignment explanation
Indices: 46351549--46351682 Score: 155
Period size: 42 Copynumber: 3.2 Consensus size: 42
46351539 CCTTCATATA
* * *
46351549 CAATGAAAAAGTAAATAGACCTCTACGA-TTGGGCCTCTAAATG
1 CAATG-AAAAGTAAATGGACCTCCAC-ACCTGGGCCTCTAAATG
* * * *
46351592 TAACGAAAAGTAAATGGCCCTCCAC-CCTTGGGCCCCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACC-TGGGCCTCTAAATG
*
46351634 CAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
46351676 CAATGAA
1 CAATGAA
46351683 TGCTTTTCTT
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 71 0.93
43 5 0.07
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (42 bp):
CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
Found at i:46352095 original size:12 final size:13
Alignment explanation
Indices: 46352080--46352129 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
46352070 TCTCTCTCTA
46352080 TTTT-TCTTCTTT
1 TTTTGTCTTCTTT
46352092 TTTTGT-TTCTTT
1 TTTTGTCTTCTTT
* *
46352104 TTTTGTTTTGTTGT
1 TTTTGTCTTCTT-T
46352118 TTTT-TCTTCTTT
1 TTTTGTCTTCTTT
46352130 CTTCTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 17 0.53
13 10 0.31
14 5 0.16
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.82
Consensus pattern (13 bp):
TTTTGTCTTCTTT
Found at i:46364730 original size:30 final size:31
Alignment explanation
Indices: 46364653--46364736 Score: 145
Period size: 31 Copynumber: 2.8 Consensus size: 31
46364643 TTCGGTCTCG
46364653 TCATAT-ACTGGGCCGAAGCCTTTTCAAAAA
1 TCATATCACTGGGCCGAAGCCTTTTCAAAAA
*
46364683 TCATATCACTGGGCCGAAGCCTTTTCATAAA
1 TCATATCACTGGGCCGAAGCCTTTTCAAAAA
46364714 TCATATCACT-GGCCGAAGCCTTT
1 TCATATCACTGGGCCGAAGCCTTT
46364737 ACTGTAAGCG
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
30 19 0.37
31 33 0.63
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
TCATATCACTGGGCCGAAGCCTTTTCAAAAA
Found at i:46364992 original size:25 final size:25
Alignment explanation
Indices: 46364964--46365050 Score: 138
Period size: 25 Copynumber: 3.5 Consensus size: 25
46364954 ATAACTTGGA
* *
46364964 CAAAGCCCTTTTTGATAAACTGGGG
1 CAAAGCCCTTTTCGGTAAACTGGGG
*
46364989 CAAAGCCCTTTTCGGTAAACTGGGA
1 CAAAGCCCTTTTCGGTAAACTGGGG
46365014 CAAAGCCCTTTTCGGTAAACTGGGG
1 CAAAGCCCTTTTCGGTAAACTGGGG
*
46365039 CATAGCCCTTTT
1 CAAAGCCCTTTT
46365051 AGCACTTCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (25 bp):
CAAAGCCCTTTTCGGTAAACTGGGG
Found at i:46365015 original size:50 final size:50
Alignment explanation
Indices: 46364956--46365050 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
46364946 CTCTTTTAAT
* *
46364956 AACTTGGACAAAGCCCTTTTTGATAAACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGACAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTTCGGTA
* *
46365006 AACTGGGACAAAGCCCTTTTCGGTAAACTGGGGCATAGCCCTTTT
1 AACTGGGACAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTT
46365051 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (50 bp):
AACTGGGACAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTTCGGTA
Found at i:46365902 original size:27 final size:27
Alignment explanation
Indices: 46365867--46365923 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
46365857 GGGCATATTT
*
46365867 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
46365894 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
46365921 GTC
1 GTC
46365924 TTTTACCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:46366014 original size:27 final size:27
Alignment explanation
Indices: 46365988--46366159 Score: 118
Period size: 27 Copynumber: 6.3 Consensus size: 27
46365978 ATCTACAAAC
*
46365988 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
46366015 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
46366044 CAAGGGTATTTCTA-TAATTTTGTAAAT
1 CAAGGGTATTTC-AGTAATTTTGTAAAT
* ** ** *
46366071 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** *
46366098 CAGGGGTATTTTGGTAATTTTCCT-AAT
1 CAAGGGTATTTCAGTAATTTT-GTAAAT
* **
46366125 CGAGGGTATTTTGGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
46366152 CGAGGGTA
1 CAAGGGTA
46366160 AAACGATAAT
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
26 2 0.02
27 92 0.75
28 7 0.06
29 20 0.16
30 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:46366089 original size:56 final size:55
Alignment explanation
Indices: 46365964--46366145 Score: 153
Period size: 54 Copynumber: 3.3 Consensus size: 55
46365954 CATCCTACAA
* * * * *
46365964 GGGTGTTTTGGTAA-ATCTACAAACCAAGGGTATTTC-AGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTTACAAACCAAGGGTATTTCTA-TAATTTTGTAAATCAG
* * * *
46366018 TGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTATAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTTACAAA-CCAAGGGTATTTCTATAATTTTGTAAATCAG
* * *
46366074 GGGTATTTTGGTAA-TTTTACAAACCAGGGGTATTT-TGGTAATTTTCCT-AATC-G
1 GGGTATTTTGGTAATTTTTACAAACCAAGGGTATTTCT-ATAATTTT-GTAAATCAG
46366127 AGGGTATTTTGGTAATTTT
1 -GGGTATTTTGGTAATTTT
46366146 GTAAATCGAG
Statistics
Matches: 103, Mismatches: 16, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
53 2 0.02
54 44 0.43
55 20 0.19
56 36 0.35
57 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.41
Consensus pattern (55 bp):
GGGTATTTTGGTAATTTTTACAAACCAAGGGTATTTCTATAATTTTGTAAATCAG
Found at i:46366169 original size:27 final size:27
Alignment explanation
Indices: 46366139--46366292 Score: 188
Period size: 27 Copynumber: 5.7 Consensus size: 27
46366129 GGTATTTTGG
*
46366139 TAATTTTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
46366166 TAATTCTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* * *
46366193 TAATTCTATAAATCGATGGTAAAA-TA
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
46366219 GTAATTCTAG-AAATCGAGGGTAAAACGG
1 -TAATTCT-GTAAATCGAGGGTAAAACGA
* *
46366247 TAATTTTGTAAATCGAGGGTAAAA-TA
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
46366273 GTAATTCTATAAATCGAGGG
1 -TAATTCTGTAAATCGAGGG
46366293 CATTTCAGTA
Statistics
Matches: 109, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
26 2 0.02
27 107 0.98
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGA
Found at i:46366303 original size:81 final size:80
Alignment explanation
Indices: 46366122--46366305 Score: 219
Period size: 81 Copynumber: 2.3 Consensus size: 80
46366112 TAATTTTCCT
* * *
46366122 AATCGAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
1 AATCGAGGG-AATTTAGTAATTTAGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
*
46366187 AAACGATAATTCTATA
65 AAAAGATAATTCTATA
* ** * *
46366203 AATCGATGGTAAAATAGTAATTCTAG-AAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGT
1 AATCGA-GGGAATTTAGTAATT-TAGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGT
46366267 AAAATAG-TAATTCTATA
64 AAAA-AGATAATTCTATA
*
46366284 AATCGAGGGCATTTCAGTAATT
1 AATCGAGGGAATTT-AGTAATT
46366306 GGTAAACTAA
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
80 4 0.05
81 77 0.90
82 5 0.06
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.31
Consensus pattern (80 bp):
AATCGAGGGAATTTAGTAATTTAGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAA
AAAGATAATTCTATA
Found at i:46366305 original size:54 final size:54
Alignment explanation
Indices: 46366137--46366292 Score: 233
Period size: 54 Copynumber: 2.9 Consensus size: 54
46366127 AGGGTATTTT
* *
46366137 GGTAATTTTGTAAATCGAGGGTAAAA-CGATAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAATAG-TAATTCTATAAATCGAGGGTAAAAC
* * * * *
46366191 GATAATTCTATAAATCGATGGTAAAATAGTAATTCTAGAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
46366245 GGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGG
1 GGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGG
46366293 CATTTCAGTA
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 88 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (54 bp):
GGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
Found at i:46367498 original size:3 final size:3
Alignment explanation
Indices: 46367492--46367545 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
46367482 TAAAAAAAGG
* * * * *
46367492 ATA ATA ATA TTTA TTA ATA ATA ATA ATA GTA GTA ATA ATA ATG ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46367538 ATA ATA AT
1 ATA ATA AT
46367546 TTAAGCCACT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
3 42 0.95
4 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:46370914 original size:13 final size:13
Alignment explanation
Indices: 46370896--46370920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46370886 TATATGATAT
46370896 GTGTGAAAATTTC
1 GTGTGAAAATTTC
46370909 GTGTGAAAATTT
1 GTGTGAAAATTT
46370921 TATCATTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:46380955 original size:85 final size:84
Alignment explanation
Indices: 46380843--46381012 Score: 259
Period size: 85 Copynumber: 2.0 Consensus size: 84
46380833 AACTAATTAA
* *
46380843 CTAAACTAAGGGTGCACAGAGATAAAATTAGGGAAAAGCTTTCGGGAAAACTTGATTGATGAAGA
1 CTAAACTAAGGGTGCACAGAGAGAAAATTAGGGAAAAGCTTTCGGGAAAACTCGATTGATGAAGA
*
46380908 CAATACCCAAGGAAAAATC
66 CAATACCCAAAGAAAAATC
* * * *
46380927 CNTAAACTAAGGGTGCACAGAGAGAAAATTGGGGAAAAGCTTTTGGGAAAACTCGATTTATTAAG
1 C-TAAACTAAGGGTGCACAGAGAGAAAATTAGGGAAAAGCTTTCGGGAAAACTCGATTGATGAAG
*
46380992 ATAATACCCAAAGAAAAATC
65 ACAATACCCAAAGAAAAATC
46381012 C
1 C
46381013 ACCTAGACTT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 1 0.01
85 76 0.99
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (84 bp):
CTAAACTAAGGGTGCACAGAGAGAAAATTAGGGAAAAGCTTTCGGGAAAACTCGATTGATGAAGA
CAATACCCAAAGAAAAATC
Found at i:46381991 original size:13 final size:13
Alignment explanation
Indices: 46381973--46381999 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46381963 GCTCGACAGG
46381973 GACACGCCCGTGT
1 GACACGCCCGTGT
46381986 GACACGCCCGTGT
1 GACACGCCCGTGT
46381999 G
1 G
46382000 CGATTTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:46398027 original size:46 final size:46
Alignment explanation
Indices: 46397960--46398125 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
46397950 CGCCCCTAAG
*
46397960 TGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAA
* * *
46398006 TGAACTCAGACTCAACTCAACGAGTTCGGTGCCTAGTT-ACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG-G-C-A-TTCGCATCCATAAA
* * * *
46398052 CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAA
*
46398098 TG-ACTCGGGCTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
46398126 ATGCTCAACC
Statistics
Matches: 98, Mismatches: 14, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 25 0.26
46 55 0.56
47 2 0.02
48 2 0.02
49 4 0.04
50 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAA
Found at i:46399613 original size:48 final size:48
Alignment explanation
Indices: 46399561--46399652 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
46399551 ATCATACATT
* *
46399561 GATGCCAATGCCATAACCCAGATATGGTCTTACATGGGATCACAGATC
1 GATGCCAATGCCATAACCCAGACATGGCCTTACATGGGATCACAGATC
* **
46399609 GATGCTAATGCCATGTCCCAGACATGGCCTTACATGGGATCACA
1 GATGCCAATGCCATAACCCAGACATGGCCTTACATGGGATCACA
46399653 CATAACCCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (48 bp):
GATGCCAATGCCATAACCCAGACATGGCCTTACATGGGATCACAGATC
Found at i:46401139 original size:42 final size:43
Alignment explanation
Indices: 46401093--46401180 Score: 115
Period size: 46 Copynumber: 2.0 Consensus size: 43
46401083 AGATATTTTT
* *
46401093 TTTTTCTTCCATGGGAC-TTTTTAAAAACAAATAGATCAAGAC
1 TTTTTATTCCATGGGACTTTTTTAAAAAAAAATAGATCAAGAC
*
46401135 TTTTTATTTCATGGGACTTTTTTTTTAAAAAAAAATAGATCAAGAC
1 TTTTTATTCCATGGGAC---TTTTTTAAAAAAAAATAGATCAAGAC
46401181 CCTTACCTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
42 15 0.38
46 24 0.62
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.40
Consensus pattern (43 bp):
TTTTTATTCCATGGGACTTTTTTAAAAAAAAATAGATCAAGAC
Found at i:46401994 original size:20 final size:20
Alignment explanation
Indices: 46401969--46402007 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
46401959 ACGGGATTGC
*
46401969 ACTTTGGTGTCTCTGTTTGT
1 ACTTTGGTGCCTCTGTTTGT
46401989 ACTTTGGTGCCTCTGTTTG
1 ACTTTGGTGCCTCTGTTTG
46402008 CACATTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.18, G:0.26, T:0.51
Consensus pattern (20 bp):
ACTTTGGTGCCTCTGTTTGT
Found at i:46402635 original size:91 final size:91
Alignment explanation
Indices: 46402526--46402891 Score: 696
Period size: 91 Copynumber: 4.0 Consensus size: 91
46402516 ATGCTCTGTA
* *
46402526 AATGCAATATTAGTGACAGAGTTATGTGTTTAAATATCAAAGAGTGATTTGTTTTGATTTGAACT
1 AATGCGATATTAGTGACAGAGTTATGTATTTAAATATCAAAGAGTGATTTGTTTTGATTTGAACT
46402591 ATCATGGTTTAGGAATTGCTCAATTG
66 ATCATGGTTTAGGAATTGCTCAATTG
46402617 AATGCGATATTAGTGACAGAGTTATGTATTTAAATATCAAAGAGTGATTTGTTTTGATTTGAACT
1 AATGCGATATTAGTGACAGAGTTATGTATTTAAATATCAAAGAGTGATTTGTTTTGATTTGAACT
46402682 ATCATGGTTTAGGAATTGCTCAATTG
66 ATCATGGTTTAGGAATTGCTCAATTG
46402708 AATGCGATATTAGTGACAGAGTTATGTATTTAAATATCAAAGAGTGATTTGTTTTGATTTGAACT
1 AATGCGATATTAGTGACAGAGTTATGTATTTAAATATCAAAGAGTGATTTGTTTTGATTTGAACT
46402773 ATCATGGTTTAGGAATTGCTCAATTG
66 ATCATGGTTTAGGAATTGCTCAATTG
46402799 AATGCGATATTAGTGACAGAGTTATGTATTTAAATATCAAAGAGTGATTTGTTTTGATTTGAACT
1 AATGCGATATTAGTGACAGAGTTATGTATTTAAATATCAAAGAGTGATTTGTTTTGATTTGAACT
**
46402864 ATCATGGTTTATAAATTGCTCAATTG
66 ATCATGGTTTAGGAATTGCTCAATTG
46402890 AA
1 AA
46402892 AGTTTTAGTA
Statistics
Matches: 271, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 271 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.40
Consensus pattern (91 bp):
AATGCGATATTAGTGACAGAGTTATGTATTTAAATATCAAAGAGTGATTTGTTTTGATTTGAACT
ATCATGGTTTAGGAATTGCTCAATTG
Found at i:46404577 original size:17 final size:17
Alignment explanation
Indices: 46404528--46404584 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
46404518 TACTATTTAA
46404528 AAATTTTTATAGTATTC
1 AAATTTTTATAGTATTC
* *
46404545 GAA---TTA-A-TAATC
1 AAATTTTTATAGTATTC
46404557 AAATTTTTATAGTATTC
1 AAATTTTTATAGTATTC
46404574 AAATTTATTAT
1 AAATTT-TTAT
46404585 TTTTATATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 11
0.67 0.09 0.24
Matches are distributed among these distances:
12 6 0.20
13 1 0.03
14 3 0.10
15 3 0.10
16 1 0.03
17 12 0.40
18 4 0.13
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (17 bp):
AAATTTTTATAGTATTC
Found at i:46405765 original size:116 final size:116
Alignment explanation
Indices: 46405561--46406174 Score: 1023
Period size: 116 Copynumber: 5.3 Consensus size: 116
46405551 TATTTGTACA
*
46405561 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
46405626 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
46405677 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
46405742 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
* *
46405793 AACATTTTGAATGTTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
46405858 TGTAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGA
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
** * * * *
46405909 AATGTTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTATTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
46405974 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGA
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
** * *
46406025 AATGTTTTGAATATTTTTATATTATTTCATGTAATAAAATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
46406090 TATAATTTAATTTTAT-TTTTTAATAAAATGAAAATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
*
46406140 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
46406175 AAAATATAAA
Statistics
Matches: 476, Mismatches: 22, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
115 67 0.14
116 409 0.86
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
Found at i:46416620 original size:7 final size:7
Alignment explanation
Indices: 46416586--46416623 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
46416576 TTGTACTTGT
*
46416586 GGTTTAA
1 GGTTTAG
46416593 GGTTTAG
1 GGTTTAG
*
46416600 GATTTAG
1 GGTTTAG
46416607 GGTTTAG
1 GGTTTAG
46416614 GGTTTAG
1 GGTTTAG
46416621 GGT
1 GGT
46416624 CTCAAGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:46416680 original size:15 final size:15
Alignment explanation
Indices: 46416660--46416691 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46416650 TTTAATTTAG
46416660 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
46416675 AAGATAAATATATAT
1 AAGATAAATATAAAT
46416690 AA
1 AA
46416692 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:46419112 original size:39 final size:39
Alignment explanation
Indices: 46419069--46419146 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
46419059 AAGTAGAGAA
*
46419069 CTTAAATTTGTTATTTTGCATGATTATTTGAGATCTGCT
1 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCT
*
46419108 CTTAAATTTGTTATTCTGCATGATTATTTGAGATTTGCT
1 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCT
46419147 TTTGTCAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.51
Consensus pattern (39 bp):
CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCT
Found at i:46419136 original size:20 final size:20
Alignment explanation
Indices: 46419074--46419137 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
46419064 GAGAACTTAA
*
46419074 ATTTGTTATTTTGCATGATT
1 ATTTGTTATTCTGCATGATT
** *
46419094 ATTTGAGA-TCTGC-T-CTT
1 ATTTGTTATTCTGCATGATT
46419111 AAATTTGTTATTCTGCATGATT
1 --ATTTGTTATTCTGCATGATT
46419133 ATTTG
1 ATTTG
46419138 AGATTTGCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 10 0.31
20 16 0.50
21 1 0.03
22 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (20 bp):
ATTTGTTATTCTGCATGATT
Found at i:46422310 original size:26 final size:26
Alignment explanation
Indices: 46422281--46422435 Score: 265
Period size: 26 Copynumber: 6.0 Consensus size: 26
46422271 ATTCCCATCT
*
46422281 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
46422307 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
46422333 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
46422359 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
46422385 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
46422411 TGGAACATTTACCTAACCCATTATC
1 TGGAACATTTACCTAACCCATTATC
46422436 GATTTGTACC
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 120 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.34
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:46422343 original size:52 final size:52
Alignment explanation
Indices: 46422281--46422435 Score: 292
Period size: 52 Copynumber: 3.0 Consensus size: 52
46422271 ATTCCCATCT
* *
46422281 TGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCA
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCA
46422333 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCA
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCA
46422385 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATC
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATC
46422436 GATTTGTACC
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 101 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.34
Consensus pattern (52 bp):
TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCA
Found at i:46427845 original size:13 final size:14
Alignment explanation
Indices: 46427829--46427857 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46427819 TTATAAATAT
46427829 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
46427842 TTATAATGGTTTAA
1 TTATAATGGTTTAA
46427856 TT
1 TT
46427858 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:46432960 original size:25 final size:25
Alignment explanation
Indices: 46432926--46432976 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
46432916 TTCCTTATAA
**
46432926 ACTTTAAATTAGAAATTCTATTAGG
1 ACTTTAAATTAGAAATTAGATTAGG
*
46432951 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGAAATTAGATTAGG
46432976 A
1 A
46432977 TTTTCCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGAAATTAGATTAGG
Found at i:46435179 original size:25 final size:25
Alignment explanation
Indices: 46435151--46435201 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
46435141 TTCCTTATAA
**
46435151 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
46435176 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
46435201 A
1 A
46435202 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:46435200 original size:12 final size:12
Alignment explanation
Indices: 46435154--46435201 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
46435144 CTTATAAACT
46435154 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
46435166 TTCTATTAGGACT
1 TTAAATTAGGA-A
46435179 TTAAATTAGGAA
1 TTAAATTAGGAA
*
46435191 TTAGATTAGGA
1 TTAAATTAGGA
46435202 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:46439479 original size:75 final size:74
Alignment explanation
Indices: 46439344--46439485 Score: 198
Period size: 75 Copynumber: 1.9 Consensus size: 74
46439334 TTCCCCTGCT
* *
46439344 GTTGATTTCATGTTCTTTTCTGATTTTTATTTCAGTTTTTATGTCATTAAATACTGGTTTAAGTT
1 GTTGATTTCATGCTCTTTTCTGATATTTATTTCAGTTTTTATGTCATTAAATACTGGTTTAAGTT
46439409 GAAGTTGAA
66 GAAGTTGAA
* * *
46439418 GTTGATTTCATGCTCTTTTCCT-A-ATTTATTTCTGTTTTTATATGTCATTAAATATTTGTTTAA
1 GTTGATTTCATGCTCTTTT-CTGATATTTATTTCAG-TTTT-TATGTCATTAAATACTGGTTTAA
46439481 GTTGA
63 GTTGA
46439486 CATTATTATG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
73 9 0.15
74 23 0.38
75 28 0.47
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (74 bp):
GTTGATTTCATGCTCTTTTCTGATATTTATTTCAGTTTTTATGTCATTAAATACTGGTTTAAGTT
GAAGTTGAA
Found at i:46447649 original size:21 final size:20
Alignment explanation
Indices: 46447610--46447650 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46447600 TTTTTAAAAA
* *
46447610 AAAATTTAAAATAACATATG
1 AAAACTTAAAATAAAATATG
46447630 AAAACTTAAAATAATAATATG
1 AAAACTTAAAATAA-AATATG
46447651 TGGAAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAACTTAAAATAAAATATG
Found at i:46453579 original size:22 final size:22
Alignment explanation
Indices: 46453548--46453596 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
46453538 AAATTAACCC
*
46453548 AACCATAGCCTATATCAGCTCA
1 AACCACAGCCTATATCAGCTCA
46453570 AACCACAGCCTATATCAGCTCA
1 AACCACAGCCTATATCAGCTCA
46453592 AACCA
1 AACCA
46453597 AAGAAATAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.35, G:0.08, T:0.18
Consensus pattern (22 bp):
AACCACAGCCTATATCAGCTCA
Found at i:46453854 original size:27 final size:27
Alignment explanation
Indices: 46453824--46454042 Score: 290
Period size: 27 Copynumber: 8.1 Consensus size: 27
46453814 ACGAAGTCAT
46453824 CAGATACAGAT-ATTGTGGCAGAGCCAC
1 CAGAT-CAGATAATTGTGGCAGAGCCAC
*
46453851 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGATCAGATAATTGTGGCAGAGCCAC
46453878 CAGGA-CAGAT-ATATGTGGCAGAGCCAC
1 CA-GATCAGATAAT-TGTGGCAGAGCCAC
*
46453905 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGATCAGATAATTGTGGCAGAGCCAC
46453932 CAGGA-CAGAT-ATATGTGGCAGAGCCAC
1 CA-GATCAGATAAT-TGTGGCAGAGCCAC
*
46453959 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGATCAGATAATTGTGGCAGAGCCAC
46453986 CAGGA-CAGAT-ATATGTGGCAGAGCCAC
1 CA-GATCAGATAAT-TGTGGCAGAGCCAC
*
46454013 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGATCAGATAATTGTGGCAGAGCCAC
46454040 CAG
1 CAG
46454043 GACGCTTCCT
Statistics
Matches: 172, Mismatches: 7, Indels: 26
0.84 0.03 0.13
Matches are distributed among these distances:
26 17 0.10
27 143 0.83
28 12 0.07
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATCAGATAATTGTGGCAGAGCCAC
Found at i:46453897 original size:54 final size:54
Alignment explanation
Indices: 46453829--46454045 Score: 427
Period size: 54 Copynumber: 4.0 Consensus size: 54
46453819 GTCATCAGAT
46453829 ACAGATAT-TGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
1 ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
46453882 ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
1 ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
46453936 ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
1 ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
46453990 ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
1 ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
46454044 AC
1 AC
46454046 GCTTCCTCTA
Statistics
Matches: 163, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
53 8 0.05
54 155 0.95
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (54 bp):
ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
Found at i:46455697 original size:26 final size:26
Alignment explanation
Indices: 46455666--46455773 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
46455656 TGAAATTCCC
*
46455666 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
46455692 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
46455718 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
46455744 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
46455770 ATCA
1 ATCA
46455774 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:46457809 original size:29 final size:29
Alignment explanation
Indices: 46457774--46457831 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
46457764 CCCCTTGTTT
46457774 TTGTGGCTAGAACCCTCTAGTTTTTACAA
1 TTGTGGCTAGAACCCTCTAGTTTTTACAA
*
46457803 TTGTGGCTAGAACCCTCTATTTTTTACAA
1 TTGTGGCTAGAACCCTCTAGTTTTTACAA
46457832 GACTCAACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.40
Consensus pattern (29 bp):
TTGTGGCTAGAACCCTCTAGTTTTTACAA
Found at i:46458272 original size:20 final size:20
Alignment explanation
Indices: 46458225--46458272 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
46458215 TACAAGATGT
* * *
46458225 ATGGGTAGAAGTGGACTTGT
1 ATGGGTAGAAGAGGACCTGA
**
46458245 ATTAGTAGAAGAGGACCTGA
1 ATGGGTAGAAGAGGACCTGA
46458265 ATGGGTAG
1 ATGGGTAG
46458273 GAGTCCCCCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.38, T:0.25
Consensus pattern (20 bp):
ATGGGTAGAAGAGGACCTGA
Found at i:46459303 original size:10 final size:9
Alignment explanation
Indices: 46459281--46459320 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
46459271 AAAAGAACCA
*
46459281 TTTTATAAT
1 TTTTATTAT
46459290 TTTTATTGAT
1 TTTTATT-AT
46459300 TTTTATT-T
1 TTTTATTAT
46459308 TTTTATTAT
1 TTTTATTAT
46459317 TTTT
1 TTTT
46459321 CACCATATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.29
9 11 0.39
10 9 0.32
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (9 bp):
TTTTATTAT
Found at i:46466890 original size:26 final size:26
Alignment explanation
Indices: 46466854--46466909 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
46466844 GAAGAAGGAA
46466854 TAAACCATAACTATATTAAGCATGAT
1 TAAACCATAACTATATTAAGCATGAT
46466880 TAAACCATAACTATATTAAGCATGAT
1 TAAACCATAACTATATTAAGCATGAT
46466906 TAAA
1 TAAA
46466910 TCATTCCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.30
Consensus pattern (26 bp):
TAAACCATAACTATATTAAGCATGAT
Found at i:46479220 original size:26 final size:26
Alignment explanation
Indices: 46479189--46479296 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
46479179 TGATACAAAT
46479189 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
46479215 TTATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46479241 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
46479267 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46479293 TGAT
1 TGAT
46479297 GGGAATTTAA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:46497791 original size:17 final size:19
Alignment explanation
Indices: 46497760--46497798 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
46497750 CTCGACCTAT
*
46497760 TAGACCGTGTTGG-CCACA
1 TAGACCGTGTGGGCCCACA
46497778 TAGA-CGTGTGGGCCCACA
1 TAGACCGTGTGGGCCCACA
46497796 TAG
1 TAG
46497799 GTGAACCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.21
Consensus pattern (19 bp):
TAGACCGTGTGGGCCCACA
Found at i:46503892 original size:2 final size:2
Alignment explanation
Indices: 46503887--46503912 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46503877 TAAGATGAGT
46503887 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
46503913 AAATCCATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46506858 original size:42 final size:43
Alignment explanation
Indices: 46506787--46506916 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 43
46506777 ATTAGGTTGT
* * *
46506787 TATAGTGATTATGTGTAAGACCGTGTCTGGGACATTGGCATCG
1 TATATTGATTATGTGTAAGACCCTGTCTGGGACAGTGGCATCG
*
46506830 TATATTGATT-TGTGTAAGACCCTTTCTGGGACAGTGGCATCG
1 TATATTGATTATGTGTAAGACCCTGTCTGGGACAGTGGCATCG
* ** * * * *
46506872 -ATATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTG
1 TATAT-TGATTATGTGTAAGACCCTGTCTGGGACAGTGGCATCG
46506914 TAT
1 TAT
46506917 GAGCTTATGT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.05
42 40 0.55
43 29 0.40
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (43 bp):
TATATTGATTATGTGTAAGACCCTGTCTGGGACAGTGGCATCG
Found at i:46507525 original size:21 final size:20
Alignment explanation
Indices: 46507496--46507534 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46507486 CTTGTTTTGG
*
46507496 TATGTTTATCATAATTGTTGA
1 TATGGTTAT-ATAATTGTTGA
*
46507517 TATGGTTATATAGTTGTT
1 TATGGTTATATAATTGTT
46507535 CTTTTGGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.54
Consensus pattern (20 bp):
TATGGTTATATAATTGTTGA
Found at i:46509983 original size:42 final size:41
Alignment explanation
Indices: 46509872--46509993 Score: 140
Period size: 42 Copynumber: 3.0 Consensus size: 41
46509862 TGAATTTCCT
* *
46509872 TTTAACTCTAATGGGTTTCCGTTTAGCTC-TTGAGCTTCAG
1 TTTAACCCTCATGGGTTTCCGTTTAGCTCTTTGAGCTTCAG
** * **
46509912 AATAACCCTTC-TGGGTTTCAGTTCCGCTCTTTCGAGCTTCAG
1 TTTAACCC-TCATGGGTTTCCGTTTAGCTCTTT-GAGCTTCAG
46509954 TTTAACCCTCATGGGTTTCCGTTTAGCTCTTATGAGCTTC
1 TTTAACCCTCATGGGTTTCCGTTTAGCTCTT-TGAGCTTC
46509994 CATTCAACCC
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
40 20 0.31
41 5 0.08
42 39 0.60
43 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (41 bp):
TTTAACCCTCATGGGTTTCCGTTTAGCTCTTTGAGCTTCAG
Found at i:46510003 original size:42 final size:41
Alignment explanation
Indices: 46509882--46510022 Score: 121
Period size: 42 Copynumber: 3.4 Consensus size: 41
46509872 TTTAACTCTA
* * * *
46509882 ATGGGTTTCCGTTTAGCTC-TTGAGCTTCAGAATAACCCTTC
1 ATGGGTTTCAGTTTAGCTCTTTGAGCTTC-CATTAACCCATC
**
46509923 -TGGGTTTCAGTTCCGCTCTTTCGAGCTT-CAGTTTAACCC-TC
1 ATGGGTTTCAGTTTAGCTCTTT-GAGCTTCCA--TTAACCCATC
*
46509964 ATGGGTTTCCGTTTAGCTCTTATGAGCTTCCATTCAACCCAT-
1 ATGGGTTTCAGTTTAGCTCTT-TGAGCTTCCATT-AACCCATC
*
46510006 ATAGGTTTCAGTTTAGC
1 ATGGGTTTCAGTTTAGC
46510023 ACTTATGTGC
Statistics
Matches: 81, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
40 16 0.20
41 6 0.07
42 55 0.68
43 4 0.05
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (41 bp):
ATGGGTTTCAGTTTAGCTCTTTGAGCTTCCATTAACCCATC
Found at i:46516292 original size:26 final size:26
Alignment explanation
Indices: 46516246--46516298 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
46516236 TCAAACATGC
*
46516246 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
46516272 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
46516298 A
1 A
46516299 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:46517815 original size:26 final size:26
Alignment explanation
Indices: 46517784--46517891 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
46517774 TGAAATTCCC
46517784 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
46517810 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
46517836 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
46517862 GTCATGAAACATTTACCT-AACACATT
1 ATCATGGAACATTTACCTAAAC-CATT
46517888 ATCA
1 ATCA
46517892 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
25 2 0.03
26 71 0.97
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:46517861 original size:52 final size:52
Alignment explanation
Indices: 46517784--46517891 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
46517774 TGAAATTCCC
* *
46517784 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
* * *
46517836 ATCATGGAATATTTACCTAATCCATTGTCATGAAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
46517888 ATCA
1 ATCA
46517892 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
Found at i:46519417 original size:37 final size:37
Alignment explanation
Indices: 46519367--46519440 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
46519357 TTTCGACAAT
46519367 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
1 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
46519404 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
1 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
46519441 CTTGATTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (37 bp):
AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
Found at i:46520493 original size:14 final size:13
Alignment explanation
Indices: 46520470--46520501 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
46520460 AGGATATCAA
46520470 AACAATAATTAAG
1 AACAATAATTAAG
46520483 AACACATAATTAAG
1 AACA-ATAATTAAG
46520497 AACAA
1 AACAA
46520502 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:46522214 original size:37 final size:37
Alignment explanation
Indices: 46522158--46522312 Score: 183
Period size: 37 Copynumber: 4.2 Consensus size: 37
46522148 ACTTAATGCG
*
46522158 TGGCGTGTTATCG-GTTGGATTAGCTCTTATGAGCATT
1 TGGCATGTTATCGAG-TGGATTAGCTCTTATGAGCATT
* *
46522195 TGGCGTGTTATCGAATGGATTAGCT-TTGATGAGCATT
1 TGGCATGTTATCGAGTGGATTAGCTCTT-ATGAGCATT
* * *
46522232 TGGCATGTTATCTAGTGGATTAGCTTTTATGAGTATT
1 TGGCATGTTATCGAGTGGATTAGCTCTTATGAGCATT
* * *
46522269 TGGCATGTTATTGGGTGGATTAGCTCTTATGA-TA-T
1 TGGCATGTTATCGAGTGGATTAGCTCTTATGAGCATT
46522304 TGGCATGTT
1 TGGCATGTT
46522313 TTGGTTGGAT
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
35 10 0.09
36 4 0.04
37 90 0.85
38 2 0.02
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.42
Consensus pattern (37 bp):
TGGCATGTTATCGAGTGGATTAGCTCTTATGAGCATT
Found at i:46530135 original size:11 final size:11
Alignment explanation
Indices: 46530119--46530151 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
46530109 TTATAGCCGA
46530119 AAAATAAAAAT
1 AAAATAAAAAT
46530130 AAAATAAATAA-
1 AAAATAAA-AAT
46530141 AAAATAAAAAT
1 AAAATAAAAAT
46530152 TTCCTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.10
11 16 0.80
12 2 0.10
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:46530140 original size:15 final size:16
Alignment explanation
Indices: 46530120--46530149 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46530110 TATAGCCGAA
46530120 AAAT-AAAAATAAAAT
1 AAATAAAAAATAAAAT
46530135 AAATAAAAAATAAAA
1 AAATAAAAAATAAAA
46530150 ATTTCCTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAAAAATAAAAT
Found at i:46530393 original size:25 final size:23
Alignment explanation
Indices: 46530347--46530393 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
46530337 TATTTTACTT
*
46530347 TGGGCTAATAATTTGCTTGTAAG
1 TGGGCTAATAATTGGCTTGTAAG
46530370 TGGGCTAGATAATTGGACTTGTAA
1 TGGGCTA-ATAATTGG-CTTGTAA
46530394 CAGGGACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 7 0.33
25 7 0.33
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.36
Consensus pattern (23 bp):
TGGGCTAATAATTGGCTTGTAAG
Found at i:46531676 original size:11 final size:11
Alignment explanation
Indices: 46531656--46531709 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
46531646 AAAGCAACAG
*
46531656 CAAAATAGCAC
1 CAAAACAGCAC
46531667 CAAAACAGCAC
1 CAAAACAGCAC
*
46531678 C-AAACAGCAA
1 CAAAACAGCAC
*
46531688 CAAAACAACAC
1 CAAAACAGCAC
*
46531699 AAAAAACAGCA
1 -CAAAACAGCA
46531710 TCACCAACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 9 0.26
11 18 0.51
12 8 0.23
ACGTcount: A:0.61, C:0.30, G:0.07, T:0.02
Consensus pattern (11 bp):
CAAAACAGCAC
Found at i:46531885 original size:9 final size:9
Alignment explanation
Indices: 46531871--46531901 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
46531861 ATCGAAGAAA
46531871 CATCGTCCT
1 CATCGTCCT
46531880 CATCGTCCT
1 CATCGTCCT
*
46531889 CATCGTCAT
1 CATCGTCCT
46531898 CATC
1 CATC
46531902 ATTATTGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.16, C:0.42, G:0.10, T:0.32
Consensus pattern (9 bp):
CATCGTCCT
Found at i:46537079 original size:57 final size:57
Alignment explanation
Indices: 46537012--46537125 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
46537002 GACTAGTAAA
46537012 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
1 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
46537069 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
1 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
46537126 ACTAACACTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.19, C:0.04, G:0.19, T:0.58
Consensus pattern (57 bp):
TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
Found at i:46542091 original size:6 final size:6
Alignment explanation
Indices: 46542082--46542116 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
46542072 ATTTTCTTGC
46542082 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
46542117 CACTTGAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:46542625 original size:96 final size:97
Alignment explanation
Indices: 46542431--46542625 Score: 241
Period size: 96 Copynumber: 2.0 Consensus size: 97
46542421 GTCATACTTA
* * ** *
46542431 TATTCTTCTCTAGTTGGATATTTAATTGAACATTGGAAACCCTTATGATGTTTTGAACTACACTA
1 TATTCTTCTCTAGTTGGATATTTAATTGAACATTGAAAACCCTCATGACCTTTTGAACTACACCA
* * *
46542496 ATAAAATTGCACAAAAGGTGATAGCTCATTTG
66 ATAAAATTGCACAAAAGGTGAGAGATCAGTTG
* *
46542528 TATTC-TCTCTATTTGGATATTTCATT-AGACATTGAAAACCCTCATGACCTTTTGAACTACACC
1 TATTCTTCTCTAGTTGGATATTTAATTGA-ACATTGAAAACCCTCATGACCTTTTGAACTACACC
* * **
46542591 AATAACATTTCACAGTAGGTGAGAGATCAGTTG
65 AATAAAATTGCACAAAAGGTGAGAGATCAGTTG
46542624 TA
1 TA
46542626 CTCCTCCTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
95 1 0.01
96 77 0.93
97 5 0.06
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (97 bp):
TATTCTTCTCTAGTTGGATATTTAATTGAACATTGAAAACCCTCATGACCTTTTGAACTACACCA
ATAAAATTGCACAAAAGGTGAGAGATCAGTTG
Found at i:46548886 original size:53 final size:54
Alignment explanation
Indices: 46548778--46549309 Score: 595
Period size: 53 Copynumber: 9.9 Consensus size: 54
46548768 TTAGTTTACC
* * * *
46548778 AAATTACGGAAATACCC-CCAGTTGTAAAATTACC-AAAGTACCC-CTGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAA-TACCCTC-GATTTGTA
** * *
46548831 AAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAATACCGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* *
46548884 AAATTACTGAAATACCATCGATTTGTAAAATTACCGAAATACCGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * *
46548937 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGA-TTTGTA
* *
46548991 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * * *
46549045 AAATTAC-CAAAGTACCCCCGATTTATAAAATTACCCAAATATCCTCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * *
46549099 AAATTA-TCAAAATATCGTTGA-TTGTAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
** **
46549152 AAATTACTGAAATACAGTCGA-TTGTAAAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
**
46549205 AAATTA-TCGAAATACCCTC-AGTTTGTAAAATTATTGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGA-TTTGTAAAATTACCGAAATACCCTCGATTTGTA
* *
46549259 AAATTACTGAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCCCGATTT
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAA-TACCCTCGATTT
46549310 ACAGAATTAC
Statistics
Matches: 411, Mismatches: 52, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
52 3 0.01
53 203 0.49
54 195 0.47
55 10 0.02
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
Done.