Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 140 of 373
Found at i:46377289 original size:27 final size:27
Alignment explanation
Indices: 46377203--46377298 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 27
46377193 GGAAGTATTG
* * *
46377203 TACTGGTGACTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATTTACTGT
* * *
46377230 TACTGGTGGCTATGGCACAATTACTGA
1 TACTGGTGGCTATGCCACATTTACTGT
* *
46377257 TACTGGTGGCTTTGCCACATTTATTGT
1 TACTGGTGGCTATGCCACATTTACTGT
* *
46377284 TTCTGGTAGCTATGC
1 TACTGGTGGCTATGC
46377299 TGCGTTATTA
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACATTTACTGT
Found at i:46377307 original size:26 final size:26
Alignment explanation
Indices: 46377277--46377334 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
46377267 TTTGCCACAT
* *
46377277 TTATTGTTTCTGGTAGCTATGCTGCG
1 TTATTGTTACTGGTAGCTATCCTGCG
* *
46377303 TTATTATTACTGGTAGCTTTCCTGCG
1 TTATTGTTACTGGTAGCTATCCTGCG
*
46377329 ATATTG
1 TTATTG
46377335 GTGTGCTGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.47
Consensus pattern (26 bp):
TTATTGTTACTGGTAGCTATCCTGCG
Found at i:46381674 original size:40 final size:40
Alignment explanation
Indices: 46381581--46381797 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
46381571 AAGCCAAGTA
* * *
46381581 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
46381619 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
46381659 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
46381699 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
46381739 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
46381779 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46381798 TTATCATCCA
Statistics
Matches: 162, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 12 0.07
39 18 0.11
40 132 0.81
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:46384139 original size:27 final size:27
Alignment explanation
Indices: 46384097--46384206 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 27
46384087 GTCGTTAAGA
*
46384097 CCCTAATTTTTAAAATTACCGAAATAC
1 CCCTAATTTGTAAAATTACCGAAATAC
* *
46384124 CCCTAATTTGTGAAATTACCGAAATGC
1 CCCTAATTTGTAAAATTACCGAAATAC
* * **
46384151 CTCTGATTTGTAAAATTACAAAAATAC
1 CCCTAATTTGTAAAATTACCGAAATAC
* *
46384178 CCCCAATTTGTAAAATAACC-ATAATAC
1 CCCTAATTTGTAAAATTACCGA-AATAC
46384205 CC
1 CC
46384207 TTATAGGGTA
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
26 1 0.01
27 67 0.99
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (27 bp):
CCCTAATTTGTAAAATTACCGAAATAC
Found at i:46384217 original size:27 final size:27
Alignment explanation
Indices: 46384187--46384412 Score: 242
Period size: 27 Copynumber: 8.4 Consensus size: 27
46384177 CCCCCAATTT
* * *
46384187 GTAAAATAACCATAATACCCTTATAGG
1 GTAAAATGACCGTAATACCCTTGTAGG
* * *
46384214 GTAAAATTACTGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCTTGTAGG
46384241 GTAAAATGACCGTAATACCAC-TGTAGG
1 GTAAAATGACCGTAATACC-CTTGTAGG
* *
46384268 GTAAAATGATCGTAATACCCTTATAGG
1 GTAAAATGACCGTAATACCCTTGTAGG
*
46384295 GTAAAATGATCGTAATACCCTTGTAGG
1 GTAAAATGACCGTAATACCCTTGTAGG
* *
46384322 GTAAAATGACCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATACCCTTGTAGG
* ** *
46384349 ATAGGATTACCGTAATATCCC-TGTAGG
1 GTAAAATGACCGTAATA-CCCTTGTAGG
* * *
46384376 GTAAAATGATCATAATA-CCTCTGTATG
1 GTAAAATGACCGTAATACCCT-TGTAGG
46384403 GTAAAATGAC
1 GTAAAATGAC
46384413 GATTATGCCT
Statistics
Matches: 168, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
25 2 0.01
26 1 0.01
27 161 0.96
28 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCTTGTAGG
Found at i:46384245 original size:81 final size:81
Alignment explanation
Indices: 46384160--46384412 Score: 206
Period size: 81 Copynumber: 3.1 Consensus size: 81
46384150 CCTCTGATTT
* * ** *
46384160 GTAAAATTACAAAAATACCCCCAAT-TTGTAAAATAACCATAATACCCTTATAGGGTAAAATTA-
1 GTAAAATGACAAAAATA-CCACAATAGGGTAAAATAACCATAATACCCTTATAGGGTAAAATGAT
46384223 CTGTAATACCCCTGTAGG
65 C-GTAATACCCCTGTAGG
*** ** * * *
46384241 GTAAAATGACCGTAATACCACTGTAGGGTAAAATGATCGTAATACCCTTATAGGGTAAAATGATC
1 GTAAAATGACAAAAATACCACAATAGGGTAAAATAACCATAATACCCTTATAGGGTAAAATGATC
*
46384306 GTAATACCCTTGTAGG
66 GTAATACCCCTGTAGG
*** * * * ** * * *
46384322 GTAAAATGACCGTAATACCCCTATAGGATAGGATTACCGTAATATCCC-TGTAGGGTAAAATGAT
1 GTAAAATGACAAAAATACCACAATAGGGTAAAATAACCATAATA-CCCTTATAGGGTAAAATGAT
* * *
46384386 CATAATACCTCTGTATG
65 CGTAATACCCCTGTAGG
46384403 GTAAAATGAC
1 GTAAAATGAC
46384413 GATTATGCCT
Statistics
Matches: 143, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
80 4 0.03
81 135 0.94
82 4 0.03
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (81 bp):
GTAAAATGACAAAAATACCACAATAGGGTAAAATAACCATAATACCCTTATAGGGTAAAATGATC
GTAATACCCCTGTAGG
Found at i:46384616 original size:27 final size:27
Alignment explanation
Indices: 46384586--46384648 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
46384576 CTGTTATTAA
46384586 TGGCTATGCCACAATTACTAATACTGG
1 TGGCTATGCCACAATTACTAATACTGG
* * * *
46384613 TGGCTTTGCCACATTTACTATTTCTGG
1 TGGCTATGCCACAATTACTAATACTGG
*
46384640 TAGCTATGC
1 TGGCTATGC
46384649 TATATTGTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (27 bp):
TGGCTATGCCACAATTACTAATACTGG
Found at i:46384839 original size:33 final size:34
Alignment explanation
Indices: 46384796--46384861 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
46384786 ACTATTCTGT
*
46384796 TACTGTATAGGGCTAAGGCCCAGACTG-TACTGA
1 TACTGAATAGGGCTAAGGCCCAGACTGTTACTGA
*
46384829 TACTGAATAGGGCTCAGGCCCAGACTGTTACTG
1 TACTGAATAGGGCTAAGGCCCAGACTGTTACTG
46384862 CATGCATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (34 bp):
TACTGAATAGGGCTAAGGCCCAGACTGTTACTGA
Found at i:46389952 original size:21 final size:21
Alignment explanation
Indices: 46389928--46389967 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
46389918 TTTAACATTG
*
46389928 ATTTGATAAAATTCACATTCA
1 ATTTCATAAAATTCACATTCA
**
46389949 ATTTCATTCAATTCACATT
1 ATTTCATAAAATTCACATT
46389968 TTAGGCAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (21 bp):
ATTTCATAAAATTCACATTCA
Found at i:46397724 original size:20 final size:21
Alignment explanation
Indices: 46397687--46397725 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
46397677 AAAGGGACAT
46397687 TATGCATGTATTTGATTGAGC
1 TATGCATGTATTTGATTGAGC
* *
46397708 TATG-ATGTGTTTTATTGA
1 TATGCATGTATTTGATTGA
46397726 AACAGTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (21 bp):
TATGCATGTATTTGATTGAGC
Found at i:46399198 original size:42 final size:42
Alignment explanation
Indices: 46399152--46399232 Score: 94
Period size: 42 Copynumber: 1.9 Consensus size: 42
46399142 ATGTTATTTT
*
46399152 TATTATTATATAT-TTTACTTATAAATTATATT-TTATTATATA
1 TATTATT-TATATATTTTCTTATAAATTAT-TTATTATTATATA
* * *
46399194 TATTATTTTTTTATTTTTTTATAAATTATTTATTATTAT
1 TATTATTTATATATTTTCTTATAAATTATTTATTATTAT
46399233 TCATTAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
41 5 0.15
42 28 0.85
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (42 bp):
TATTATTTATATATTTTCTTATAAATTATTTATTATTATATA
Found at i:46399215 original size:25 final size:25
Alignment explanation
Indices: 46399176--46399233 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
46399166 TTACTTATAA
46399176 ATTA-TATTTTATTATATATATTATTT
1 ATTATTATTTTATTATA-A-ATTATTT
*
46399202 -TT-TTATTTTTTTATAAATTATTT
1 ATTATTATTTTATTATAAATTATTT
46399225 ATTATTATT
1 ATTATTATT
46399234 CATTAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 7 0.25
24 3 0.11
25 18 0.64
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (25 bp):
ATTATTATTTTATTATAAATTATTT
Found at i:46411638 original size:44 final size:44
Alignment explanation
Indices: 46411575--46411702 Score: 148
Period size: 44 Copynumber: 2.9 Consensus size: 44
46411565 GATCCAAGAT
*
46411575 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGGCA
1 GATTAGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGGCA
* * ***
46411619 GATTAGGCGTCTCTGTATTGTCAGAGAGTAGATCAAAGATAATA
1 GATTAGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGGCA
* * * * *
46411663 GATTTGGCATCTCTATATTTGACGGAGAGCAGATCGAAGA
1 GATTAGGCATCTCTGTA-TTGTCAGAGAGCAGATCAAAGA
46411703 CATAGCAAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
44 52 0.74
45 18 0.26
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
GATTAGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGGCA
Found at i:46411782 original size:89 final size:88
Alignment explanation
Indices: 46411689--46412240 Score: 482
Period size: 89 Copynumber: 6.2 Consensus size: 88
46411679 ATTTGACGGA
*
46411689 GAGCAGATCGAAGACATAGCAAATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC-AATGTTTTCACATCGAAGTAGATCCAAGATG
*
46411754 GTTTGGCATCCTTGCATTTACAAG
65 ATTTGGCATCCTTGCATTTACAAG
* *
46411778 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCTAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC-AATGTTTTCACATCGAAGTAGATCCAAGATG
* * *
46411843 ATTTGGCATCCTTGCGTTCATAAG
65 ATTTGGCATCCTTGCATTTACAAG
* * * ** * * * *
46411867 GAGCAGTTCGAAGACATAGCTGATTTGGCTTTC-ACGTGTTCAC-GCTGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCAATGTTTTCACATC-GAAGTAGATCCAAGATG
* *
46411930 ATTTGGCATCTTTGTATTGT-C-AG
65 ATTTGGCATCCTTGCATT-TACAAG
* * * * ** * ** * * *
46411953 CGAGTAGATC-AA-AGATGGTAGAT-TTGCCATCTCTGTATTGTCAGA--G-AGCAGATCGAAGA
1 -GAGCAGATCGAAGACATAGCAGATCTAACCTTCAATGT-TT-TCACATCGAAGTAGATCCAAGA
* * *
46412012 TAAGAGATTTGACAT-C-TCCATATTTGAC-GG
63 T----GATTTGGCATCCTTGC--ATTT-ACAAG
* * *
46412042 AGAGTAGATCAAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGAT
1 -GAGCAGATCGAAGACATAGCAGATCTAACCTTC-AATGTTTTCACATCGAAGTAGATCCAAGAT
* *
46412107 GGTTTGGCATCCTTGCGTTTACAAG
64 GATTTGGCATCCTTGCATTTACAAG
46412132 GAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCA-ATGTTTTCACATCGAAGTAGATCCAAGATG
* ** *
46412197 ATTTGGCATCCTTACGCTCACAAG
65 ATTTGGCATCCTTGCATTTACAAG
46412221 GAGCAGATCGAAGACATAGC
1 GAGCAGATCGAAGACATAGC
46412241 TGATTTGGCT
Statistics
Matches: 371, Mismatches: 66, Indels: 52
0.76 0.13 0.11
Matches are distributed among these distances:
84 17 0.05
85 10 0.03
86 7 0.02
87 50 0.13
88 12 0.03
89 223 0.60
90 14 0.04
91 13 0.04
92 9 0.02
93 4 0.01
94 12 0.03
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (88 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCAATGTTTTCACATCGAAGTAGATCCAAGATGA
TTTGGCATCCTTGCATTTACAAG
Found at i:46411990 original size:44 final size:44
Alignment explanation
Indices: 46411924--46412056 Score: 133
Period size: 44 Copynumber: 3.0 Consensus size: 44
46411914 AAGTAGATCC
* * *
46411924 AAGATGATTTGGCATCTTTGTATTGTCAGCGAGTAGATCAAAGAT
1 AAGA-GATTTGACATCTCTGTATTGTCAGAGAGTAGATCAAAGAT
* * * *
46411969 -GGTAGATTTGCCATCTCTGTATTGTCAGAGAGCAGATCGAAGAT
1 AAG-AGATTTGACATCTCTGTATTGTCAGAGAGTAGATCAAAGAT
** * *
46412013 AAGAGATTTGACATCTCCATATTTGACGGAGAGTAGATCAAAGA
1 AAGAGATTTGACATCTCTGTA-TTGTCAGAGAGTAGATCAAAGA
46412057 CATAGCAGAT
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
44 51 0.72
45 20 0.28
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (44 bp):
AAGAGATTTGACATCTCTGTATTGTCAGAGAGTAGATCAAAGAT
Found at i:46412203 original size:354 final size:354
Alignment explanation
Indices: 46411543--46412364 Score: 1274
Period size: 354 Copynumber: 2.3 Consensus size: 354
46411533 AGATATGATC
* *
46411543 TTCAGGTGTTTACGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAGAT
1 TTCACGTGTTCACGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAGAT
* * * * * *
46411608 CAAAGATGGCAGATTAGGCGTCTCTGTATTGTCAGAGAGTAGATCAAAGATAATAGATTTGGCAT
66 CAAAGATGGCAGATTTGACGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAAGAGATTTGACAT
* *
46411673 CTCTATATTTGACGGAGAGCAGATCGAAGACATAGCAAATCTAACCTTCGAATGTTTTCACATCG
131 CTCCATATTTGACGGAGAGCAGATCAAAGACATAGCAAATCTAACCTTCGAATGTTTTCACATCG
46411738 AAGTAGATCCAAGATGGTTTGGCATCCTTGCATTTACAAGGAGCAGATCGAAGACATAGCAGATC
196 AAGTAGATCCAAGATGGTTTGGCATCCTTGCATTTACAAGGAGCAGATCGAAGACATAGCAGATC
* * * * *
46411803 TAACCTTCGGATGTTTTCACATCGAAGTAGATCTAAGATGATTTGGCATCCTTGCGTTCATAAGG
261 TAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTACGCTCACAAGG
*
46411868 AGCAGTTCGAAGACATAGCTGATTTGGCT
326 AGCAGATCGAAGACATAGCTGATTTGGCT
* * *
46411897 TTCACGTGTTCACGCTGAAGTAGATCCAAGATGATTTGGCATCTTTGTATTGTCAGCGAGTAGAT
1 TTCACGTGTTCACGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAGAT
* * *
46411962 CAAAGATGGTAGATTTGCCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAAGAGATTTGACAT
66 CAAAGATGGCAGATTTGACGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAAGAGATTTGACAT
* * *
46412027 CTCCATATTTGACGGAGAGTAGATCAAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCG
131 CTCCATATTTGACGGAGAGCAGATCAAAGACATAGCAAATCTAACCTTCGAATGTTTTCACATCG
*
46412092 AAGTAGATCCAAGATGGTTTGGCATCCTTGCGTTTACAAGGAGCAGATCGAAGACATAGCAGATC
196 AAGTAGATCCAAGATGGTTTGGCATCCTTGCATTTACAAGGAGCAGATCGAAGACATAGCAGATC
46412157 TAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTACGCTCACAAGG
261 TAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTACGCTCACAAGG
46412222 AGCAGATCGAAGACATAGCTGATTTGGCT
326 AGCAGATCGAAGACATAGCTGATTTGGCT
** ** ** *
46412251 TTCACGTGTTCACATTGAAACAGATCC-A-A-GATTTGGTGTCTCTGTATGGTCAGAGAGCAGAT
1 TTCACGTGTTCACGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAGAT
* * * *
46412313 CGAAA-ATAGCAGATTTGACGTCTATGTATGGTCAGAGAGCAAATCGAAGATA
66 C-AAAGATGGCAGATTTGACGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
46412365 GCAAATTTGG
Statistics
Matches: 425, Mismatches: 42, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
351 68 0.16
352 4 0.01
353 1 0.00
354 352 0.83
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (354 bp):
TTCACGTGTTCACGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAGAT
CAAAGATGGCAGATTTGACGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAAGAGATTTGACAT
CTCCATATTTGACGGAGAGCAGATCAAAGACATAGCAAATCTAACCTTCGAATGTTTTCACATCG
AAGTAGATCCAAGATGGTTTGGCATCCTTGCATTTACAAGGAGCAGATCGAAGACATAGCAGATC
TAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTACGCTCACAAGG
AGCAGATCGAAGACATAGCTGATTTGGCT
Found at i:46412342 original size:44 final size:44
Alignment explanation
Indices: 46412281--46412471 Score: 274
Period size: 44 Copynumber: 4.3 Consensus size: 44
46412271 CAGATCCAAG
* * *
46412281 ATTTGGTGTCTCTGTATGGTCAGAGAGCAGATCGAAAATAGCAG
1 ATTTGGCGTCTCTGTATGGTCAGAGAGCAGATCGAAGATAGCAA
* * *
46412325 ATTTGACGTCTATGTATGGTCAGAGAGCAAATCGAAGATAGCAA
1 ATTTGGCGTCTCTGTATGGTCAGAGAGCAGATCGAAGATAGCAA
* *
46412369 ATTTGGCATTTCTGTATGGTCAGAGAGCAGATCGAAGATAGCAA
1 ATTTGGCGTCTCTGTATGGTCAGAGAGCAGATCGAAGATAGCAA
* * * *
46412413 ATTTGGTGTCTCAGTATTGTCAGGGAGCAGATCGAAGATAGCAA
1 ATTTGGCGTCTCTGTATGGTCAGAGAGCAGATCGAAGATAGCAA
46412457 ATTTGGCGTCTCTGT
1 ATTTGGCGTCTCTGT
46412472 GTTCGACGGA
Statistics
Matches: 128, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 128 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (44 bp):
ATTTGGCGTCTCTGTATGGTCAGAGAGCAGATCGAAGATAGCAA
Found at i:46412384 original size:88 final size:88
Alignment explanation
Indices: 46412289--46412497 Score: 276
Period size: 88 Copynumber: 2.4 Consensus size: 88
46412279 AGATTTGGTG
*
46412289 TCTCTGTATGGTCAGAGAGCAGATCGAAAATAGCAGATTTGACGTCT-ATGTATGGTCAGAGAGC
1 TCTCTGTATGGTCAGAGAGCAGATCGAAAATAGCAAATTTGACGTCTCA-GTATGGTCAGAGAGC
46412353 AAATCGAAGATAGCAAATTTGGCA
65 AAATCGAAGATAGCAAATTTGGCA
* * ** * *
46412377 TTTCTGTATGGTCAGAGAGCAGATCGAAGATAGCAAATTTGGTGTCTCAGTATTGTCAGGGAGCA
1 TCTCTGTATGGTCAGAGAGCAGATCGAAAATAGCAAATTTGACGTCTCAGTATGGTCAGAGAGCA
* *
46412442 GATCGAAGATAGCAAATTTGGCG
66 AATCGAAGATAGCAAATTTGGCA
* * * *
46412465 TCTCTGTGTTCGACGGAGAGCAGATCGAAAATA
1 TCTCTGT-ATGGTCAGAGAGCAGATCGAAAATA
46412498 TCAGCATGAT
Statistics
Matches: 104, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
88 83 0.80
89 21 0.20
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.26
Consensus pattern (88 bp):
TCTCTGTATGGTCAGAGAGCAGATCGAAAATAGCAAATTTGACGTCTCAGTATGGTCAGAGAGCA
AATCGAAGATAGCAAATTTGGCA
Found at i:46415433 original size:15 final size:15
Alignment explanation
Indices: 46415415--46415508 Score: 52
Period size: 20 Copynumber: 5.9 Consensus size: 15
46415405 TAAACATTAG
46415415 TTATATATTATTTTA
1 TTATATATTATTTTA
46415430 TTATCCATCATGTTATTTTA
1 TTAT--AT-A--TTATTTTA
*
46415450 TTAT-T-CTATATTTA
1 TTATATATTAT-TTTA
*
46415464 CTTATAAATTATATTTTA
1 -TTATATA-T-TATTTTA
*
46415482 TTATATATT-TATTA
1 TTATATATTATTTTA
46415496 -TATATATTATTTT
1 TTATATATTATTTT
46415509 TATTTTTTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 25
0.66 0.07 0.27
Matches are distributed among these distances:
13 11 0.18
14 11 0.18
15 9 0.15
16 1 0.02
17 9 0.15
18 5 0.08
19 3 0.05
20 12 0.20
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (15 bp):
TTATATATTATTTTA
Found at i:46415481 original size:32 final size:30
Alignment explanation
Indices: 46415450--46415512 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
46415440 TGTTATTTTA
*
46415450 TTATTCTATATTTACTTATA-A-ATTATATT
1 TTATTATATATTTA-TTATATATATTATATT
46415479 TTATTATATATTTATTATATATATTAT-TT
1 TTATTATATATTTATTATATATATTATATT
46415508 TTATT
1 TTATT
46415513 TTTTTATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 5 0.16
29 21 0.68
30 5 0.16
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (30 bp):
TTATTATATATTTATTATATATATTATATT
Found at i:46415494 original size:11 final size:11
Alignment explanation
Indices: 46415471--46415506 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
46415461 TTACTTATAA
46415471 ATTATAT-TTT
1 ATTATATATTT
46415481 ATTATATATTT
1 ATTATATATTT
46415492 ATTATATATATT
1 ATTATATAT-TT
46415504 ATT
1 ATT
46415507 TTTATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.29
11 12 0.50
12 5 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATATATTT
Found at i:46419928 original size:48 final size:47
Alignment explanation
Indices: 46419770--46419936 Score: 178
Period size: 46 Copynumber: 3.6 Consensus size: 47
46419760 TGATATGTGT
* * * *
46419770 GCTAGTGTAAGACATGTGTGGGACATGCATCGACCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTATGAGA
* * * * * *
46419816 GCCAATGTAAGACATGTCTCGGACATGTATCGGCATTGAG-ATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTATGAGA
*
46419862 GCTAGTGTAAGATATGTCTGGGACATGCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG-TATG-AGA
* *
46419910 GCTAGTGTAAGACCTGTCTGGAACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
46419937 GTGTCAGCTT
Statistics
Matches: 97, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
46 67 0.69
47 1 0.01
48 28 0.29
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTATGAGA
Found at i:46426503 original size:46 final size:48
Alignment explanation
Indices: 46426436--46426556 Score: 165
Period size: 46 Copynumber: 2.6 Consensus size: 48
46426426 TGATATGTGT
*
46426436 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATTAAGACA-AG-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCAAGACATAGAA
* * * *
46426482 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAGAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCAAGACATAGAA
* *
46426530 GCTAGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
46426557 GCGTCAGCTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 38 0.58
47 2 0.03
48 26 0.39
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCAAGACATAGAA
Found at i:46429510 original size:37 final size:37
Alignment explanation
Indices: 46429460--46429538 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
46429450 TTATTACGAA
* *
46429460 GTCTTACCCGGACATAATCTC-CACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATC-CACACACGAAGTCATCGG
*
46429497 GTCTTACCCGGACAAAATCCACACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCACACACGAAGTCATCGG
46429534 GTCTT
1 GTCTT
46429539 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 37 0.97
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCACACACGAAGTCATCGG
Found at i:46429735 original size:47 final size:47
Alignment explanation
Indices: 46429657--46430118 Score: 764
Period size: 47 Copynumber: 9.7 Consensus size: 47
46429647 CCCTTCGGGA
* * * * * *
46429657 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46429704 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46429751 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46429798 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46429845 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46429892 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46429941 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46429990 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46430037 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46430084 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
46430119 AGAATCCTAA
Statistics
Matches: 397, Mismatches: 15, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 302 0.76
49 94 0.24
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46430004 original size:192 final size:190
Alignment explanation
Indices: 46429657--46430097 Score: 760
Period size: 192 Copynumber: 2.3 Consensus size: 190
46429647 CCCTTCGGGA
* * * * * * * *
46429657 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
46429720 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
46429785 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46429845 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
46429910 ACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
46429975 CATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46430037 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
46430098 GCATGTTCAC
Statistics
Matches: 239, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
188 47 0.20
190 46 0.19
192 146 0.61
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46430085 original size:239 final size:235
Alignment explanation
Indices: 46429657--46430118 Score: 782
Period size: 239 Copynumber: 1.9 Consensus size: 235
46429647 CCCTTCGGGA
* * *
46429657 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACAC
46429722 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
46429787 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
46429852 CATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
196 CATATATACA-TGTTCACATCCATCACATCGGCCATTAGGC
* * * *
46429892 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATAT
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCAC--ATATAT
*
46429957 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
46430022 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
127 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
46430087 ATCACATATATGCATGTTCACATCCATCACAT
192 ATCACATATATACATGTTCACATCCATCACAT
46430119 AGAATCCTAA
Statistics
Matches: 212, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
235 10 0.05
236 1 0.00
237 37 0.17
238 1 0.00
239 163 0.77
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (235 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATACATGTTCACATCCATCACATCGGCCATTAGGC
Found at i:46436522 original size:38 final size:38
Alignment explanation
Indices: 46436479--46436554 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
46436469 ACATTTACAA
46436479 GAGAGACCATACTTTTGCTTGTTGAAGTTGCACCACTT
1 GAGAGACCATACTTTTGCTTGTTGAAGTTGCACCACTT
46436517 GAGAGACCATACTTTTGCTTGTTGAAGTTGCACCACTT
1 GAGAGACCATACTTTTGCTTGTTGAAGTTGCACCACTT
46436555 CTTATATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (38 bp):
GAGAGACCATACTTTTGCTTGTTGAAGTTGCACCACTT
Found at i:46440889 original size:6 final size:6
Alignment explanation
Indices: 46440833--46440869 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
46440823 AAATCTACTA
46440833 AAAAAT AAACAAT AAACAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAA-AAT AAA-AAT AAAAAT AAAAAT AAAAA
46440870 GTAGTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:46445142 original size:40 final size:40
Alignment explanation
Indices: 46445059--46445281 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
46445049 TTGAATGCTG
* * * * * *
46445059 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
46445099 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
46445139 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* **
46445179 TCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
46445219 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
46445258 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
46445282 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 117 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:46445196 original size:80 final size:79
Alignment explanation
Indices: 46445059--46445316 Score: 261
Period size: 80 Copynumber: 3.3 Consensus size: 79
46445049 TTGAATGCTG
* * * * * * *
46445059 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGTTAAG-TCCCGAAGGCATT
*
46445123 TGTGCGAGATACTAAA
64 TGTACGAGATACTAAA
* *
46445139 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTT
* **
46445204 GTACGAGTTGTTAAA
65 GTACGAGATACTAAA
* * * * *
46445219 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTTG
* * *
46445284 AACGAGGA-GCTATA
66 TACGA-GATACTAAA
*
46445298 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
46445317 TACGTGATTT
Statistics
Matches: 150, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
78 14 0.09
79 48 0.32
80 84 0.56
81 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TACGAGATACTAAA
Found at i:46445279 original size:79 final size:80
Alignment explanation
Indices: 46445135--46445316 Score: 242
Period size: 79 Copynumber: 2.3 Consensus size: 80
46445125 TGCGAGATAC
* *
46445135 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGC
46445200 ATTCGTACGAGTTGT
66 ATTCGTACGAGTTGT
* * *
46445215 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGC
* * ** *
46445279 ATTTGAACGAGGAGC
66 ATTCGTACGAGTTGT
* *
46445294 TATATCC-GGTTAAATCCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGG
46445317 TACGTGATTT
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 14 0.16
79 48 0.54
80 27 0.30
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGC
ATTCGTACGAGTTGT
Found at i:46460565 original size:21 final size:22
Alignment explanation
Indices: 46460539--46460579 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
46460529 CACTAGGTAC
46460539 AGGGGC-ACACGCCCATGTGGG
1 AGGGGCAACACGCCCATGTGGG
*
46460560 AGGGGCAACATGCCCATGTG
1 AGGGGCAACACGCCCATGTG
46460580 ACCAACTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.22, C:0.27, G:0.39, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGGG
Found at i:46461876 original size:46 final size:46
Alignment explanation
Indices: 46461784--46461997 Score: 186
Period size: 46 Copynumber: 4.6 Consensus size: 46
46461774 TATCTGTGCC
* * *
46461784 GATGCCATGTCCCAGACATGGTCTTACACT-G-ATACATCTTGTAGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGGAGCT
*
46461830 GATGCATGTCCCAGACATGTTTTACACTGGCTTACATCTCGGAGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGGAGCT
* * * * * * *
46461876 GAAGCATGTCCCAAACATGTCTTACACTAGCACT-CGTCTC-AATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TTACATCTCGGA-GCT
* * * **
46461922 GATGCCATGTCCCAGACATGGTCTTACATTGGCTTTCATAATATG-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACAT-CTCGGAGCT
46461970 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
46461998 AGCTCACACA
Statistics
Matches: 136, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
44 9 0.07
45 16 0.12
46 62 0.46
47 29 0.21
48 19 0.14
49 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGGAGCT
Found at i:46461971 original size:94 final size:92
Alignment explanation
Indices: 46461830--46462000 Score: 236
Period size: 94 Copynumber: 1.8 Consensus size: 92
46461820 TCTTGTAGCT
* * *
46461830 GATGCATGTCCCAGACATGTTTTACACTGGCTTACATCTCGGAGCTGAAGCATGTCCCAAACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATAGGAGCTGAAGCATGTCCCAAACATG
46461895 TCTTACACTAGCACTCGTCTCAATGCC
66 TCTTACACTAGCACTCGTCTCAATGCC
* * * * *
46461922 GATGCCATGTCCCAGACATGGTCTTACATTGGCTTTCATAATATG-GCTGATGCATGTCCCAGAC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACAT-ATAGGAGCTGAAGCATGTCCCAAAC
46461986 ATGTCTTACACTAGC
63 ATGTCTTACACTAGC
46462001 TCACACAAGC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 4 0.06
93 14 0.21
94 48 0.71
95 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATAGGAGCTGAAGCATGTCCCAAACATG
TCTTACACTAGCACTCGTCTCAATGCC
Found at i:46481519 original size:21 final size:21
Alignment explanation
Indices: 46481495--46481540 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
46481485 ATAAAGGCTA
46481495 ATGTTGGATATACCACAATCT
1 ATGTTGGATATACCACAATCT
*
46481516 ATGTTGTATATACCACAATCT
1 ATGTTGGATATACCACAATCT
46481537 ATGT
1 ATGT
46481541 AATGGGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (21 bp):
ATGTTGGATATACCACAATCT
Found at i:46485450 original size:30 final size:30
Alignment explanation
Indices: 46485410--46485469 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
46485400 GATGTGAGTT
*
46485410 ACACATGGCCTAGACACACGCTCG-TGTGTC
1 ACACACGGCCTAGACACACGC-CGATGTGTC
*
46485440 ACACACGGCCTAGACTCACGCCGATGTGTC
1 ACACACGGCCTAGACACACGCCGATGTGTC
46485470 TACCTGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.18
Consensus pattern (30 bp):
ACACACGGCCTAGACACACGCCGATGTGTC
Found at i:46489542 original size:20 final size:20
Alignment explanation
Indices: 46489503--46489563 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
46489493 ACCGAAGTGT
* * *
46489503 AACAGAGGCATCAGATTGCA
1 AACAGAGGCACCAAAGTGCA
* *
46489523 AGCAGAGGTACCAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
*
46489543 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCACCAAAGTGCA
46489563 A
1 A
46489564 TCCTGTACAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.41, C:0.21, G:0.28, T:0.10
Consensus pattern (20 bp):
AACAGAGGCACCAAAGTGCA
Found at i:46489970 original size:217 final size:217
Alignment explanation
Indices: 46489595--46490031 Score: 757
Period size: 217 Copynumber: 2.0 Consensus size: 217
46489585 AACCATATTG
* * * * * ** *
46489595 GCATGCTAATTGTATCCTAGTGATTTCTACATTCAACCGGGCATTATATGAAAATTTTTTACCTT
1 GCATGCTAATTGTATCCTAGTGATTACTACACTCAACCAGACATTATATGAAAATCTGGTACCTA
* *
46489660 TATACATATGCATCAACCAGAGGCACTTCATCGTTTCTGTACACATAATATAAATTCATTATGCT
66 TATACATATGAATCAACCAGAGGCACTTCATCGTTTCTGTACAAATAATATAAATTCATTATGCT
46489725 CATGTAAAAAATGTGAAATCACAAGGATTGTCACCATCCATTATCCATTTTCATATGAATTTGAT
131 CATGTAAAAAATGTGAAATCACAAGGATTGTCACCATCCATTATCCATTTTCATATGAATTTGAT
46489790 TTCATTATCCAATATTATATAA
196 TTCATTATCCAATATTATATAA
*
46489812 GCATGCTAATTGTATCCTAGTGATTACTACGCTCAACCAGACATTATATGAAAATCTGGTACCTA
1 GCATGCTAATTGTATCCTAGTGATTACTACACTCAACCAGACATTATATGAAAATCTGGTACCTA
*
46489877 TATACATATGAATCAACCAGAGGCACTTCATCGTTTTTGTACAAATAATATAAATTCATTATGCT
66 TATACATATGAATCAACCAGAGGCACTTCATCGTTTCTGTACAAATAATATAAATTCATTATGCT
*
46489942 CATGTAAAAAATGTGAAATCACAAGGATTGTCACCATCCATTATTCATTTTCATATGAATTTGAT
131 CATGTAAAAAATGTGAAATCACAAGGATTGTCACCATCCATTATCCATTTTCATATGAATTTGAT
46490007 TTCATTATCCAATATTATATAA
196 TTCATTATCCAATATTATATAA
46490029 GCA
1 GCA
46490032 ACTTATGAAT
Statistics
Matches: 207, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
217 207 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (217 bp):
GCATGCTAATTGTATCCTAGTGATTACTACACTCAACCAGACATTATATGAAAATCTGGTACCTA
TATACATATGAATCAACCAGAGGCACTTCATCGTTTCTGTACAAATAATATAAATTCATTATGCT
CATGTAAAAAATGTGAAATCACAAGGATTGTCACCATCCATTATCCATTTTCATATGAATTTGAT
TTCATTATCCAATATTATATAA
Found at i:46501873 original size:22 final size:22
Alignment explanation
Indices: 46501843--46501896 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
46501833 ATACGTTTGA
*
46501843 CACACAGCCATAAT-TAGGTTGG
1 CACAAAGCCAT-ATGTAGGTTGG
*
46501865 CACAGAGCCATATGTAGGTTGG
1 CACAAAGCCATATGTAGGTTGG
*
46501887 CGCAAAGCCA
1 CACAAAGCCA
46501897 AAATCAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (22 bp):
CACAAAGCCATATGTAGGTTGG
Found at i:46502374 original size:27 final size:27
Alignment explanation
Indices: 46502321--46502705 Score: 283
Period size: 27 Copynumber: 14.2 Consensus size: 27
46502311 TTTCACCCTA
* * * *
46502321 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
** *
46502348 CAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
46502375 CAATGGTATTTCT-ATAATTTTTA-AAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-T
* *
46502403 CAAGGGTATTTCT-ATAATTTTATAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
* * * *
46502430 TAGGGGTATTTTTGTAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
46502457 CGAGGGCATTTTAGTAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
46502484 CAGGGGTATTTTGGTAATTTTACAAATT
1 CAAGGGTATTTTGGTAATTTTACAAA-T
* * *
46502512 GAA-GGTATTTTAGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
46502538 CAAGGGTATTTTAGTAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** **
46502565 TAAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
46502592 CAAAGGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
46502619 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
46502646 CAGGGGTATTTTGGTAATTTTGCTAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * **
46502673 CGAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
46502700 CAAGGG
1 CAAGGG
46502706 CATTCAGTAA
Statistics
Matches: 294, Mismatches: 57, Indels: 14
0.81 0.16 0.04
Matches are distributed among these distances:
26 4 0.01
27 264 0.90
28 26 0.09
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:46502519 original size:81 final size:81
Alignment explanation
Indices: 46502434--46502743 Score: 268
Period size: 81 Copynumber: 3.8 Consensus size: 81
46502424 ATAAATTAGG
* *
46502434 GGTATTTTTGTAATTTTCCAAATCGAGGGCATTTTAGTAATTTTCCAAATCAGGGGTATTTTGGT
1 GGTATTTTTGTAATTTTCCAAATCAAGGGCATTTTAGTAATTTTACAAATCAGGGGTATTTTGGT
*
46502499 AATTTTACAAATTGAA
66 AATTTTACAAATCGAA
* * * * ** * * ***
46502515 GGTATTTTAGTAATTTTACAAGTCAAGGGTATTTTAGTAATTTTACAGGTTAAGGGTATTTCAAT
1 GGTATTTTTGTAATTTTCCAAATCAAGGGCATTTTAGTAATTTTACAAATCAGGGGTATTTTGGT
** *
46502580 AATTTTACAGGTCAAA
66 AATTTTACAAATCGAA
* * * * * *
46502596 GGTA-TTTCGATAA-TTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
1 GGTATTTTTG-TAATTTTC-CAAATCAAGGGCATTTTAGTAATTTTACAAATCAGGGGTATTTTG
* * *
46502659 GTAATTTTGCTAATCGAG
64 GTAATTTTACAAATCGAA
** * * ** *
46502677 GGTATTTTTGTAATTTTGTAAATCAAGGGCA-TTCAGTAATTCTACTCTAT-AGGGGTATTTTAG
1 GGTATTTTTGTAATTTTCCAAATCAAGGGCATTTTAGTAATTTTAC-AAATCAGGGGTATTTTGG
46502740 TAAT
65 TAAT
46502744 ACTAGCCTAC
Statistics
Matches: 174, Mismatches: 50, Indels: 11
0.74 0.21 0.05
Matches are distributed among these distances:
80 34 0.20
81 133 0.76
82 7 0.04
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
GGTATTTTTGTAATTTTCCAAATCAAGGGCATTTTAGTAATTTTACAAATCAGGGGTATTTTGGT
AATTTTACAAATCGAA
Found at i:46508229 original size:53 final size:54
Alignment explanation
Indices: 46508162--46508365 Score: 212
Period size: 53 Copynumber: 3.8 Consensus size: 54
46508152 TTCCTTTTTA
* * * *
46508162 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTT-TTG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
46508215 AACTCACCATTGCCATGCCTTGGCATAGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
46508269 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTACTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
46508324 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATC
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
46508366 TTTAAACCCT
Statistics
Matches: 118, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 43 0.36
54 35 0.30
55 40 0.34
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:46508297 original size:108 final size:109
Alignment explanation
Indices: 46508172--46508368 Score: 297
Period size: 109 Copynumber: 1.8 Consensus size: 109
46508162 AACTTACCAT
* * * * *
46508172 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTT-TTGAACTCACCATTGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATATACTTGCCTTGTAGAACTCACCAATGCCATGCCTT
46508236 GGCATAGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAA
66 GGCATAGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAA
* *
46508280 TGCCATGTCTTGACATGGTCTTACATGATTTACTTGCCTTGTAGAACTTACCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATATACTTGCCTTGTAGAACTCACCAATGCCATGCCTT
* * *
46508345 GGCATGGTCTTACTTGGTATCTTT
66 GGCATAGTCTTACATGGGATCTTT
46508369 AAACCCTAAT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
108 36 0.46
109 42 0.54
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (109 bp):
TGCCATGTCTTGACATGGTCTTACATGATATACTTGCCTTGTAGAACTCACCAATGCCATGCCTT
GGCATAGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAA
Found at i:46517924 original size:43 final size:43
Alignment explanation
Indices: 46517869--46518024 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 43
46517859 TGCCATATCA
* * * *
46517869 CAGATATGGTCTTACATGTTATCACATATTGATGCCAGTGTCC
1 CAGACATGGTCTTACATGTAATCACATATTGATGCCAATGTCT
* * * * * *
46517912 CAGACAGGGTCTTACACGAAATTGA-TTAATGATGCCAATGTCT
1 CAGACATGGTCTTACATGTAA-TCACATATTGATGCCAATGTCT
* * **
46517955 CAGACATGGTCTTACATGGAATCTCA-ATACAATGCCAATGTCT
1 CAGACATGGTCTTACATGTAATCACATAT-TGATGCCAATGTCT
46517998 CAGACATGGTCTTACATGTAATCACAT
1 CAGACATGGTCTTACATGTAATCACAT
46518025 CTCGATAACC
Statistics
Matches: 88, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
42 2 0.02
43 84 0.95
44 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (43 bp):
CAGACATGGTCTTACATGTAATCACATATTGATGCCAATGTCT
Found at i:46538158 original size:258 final size:258
Alignment explanation
Indices: 46537701--46538217 Score: 982
Period size: 258 Copynumber: 2.0 Consensus size: 258
46537691 CGTATAATGC
46537701 CTCATAAGGTGCCATCTTTAACTTGGACTGATAACTGTTATTATAAGCGAATTCAACCGAAGGTA
1 CTCATAAGGTGCCATCTTTAACTTGGACTGATAACTGTTATTATAAGCGAATTCAACCGAAGGTA
*
46537766 GATAATTTTCCCAACTACCTTGAAACTCAAGAACACAACATTTAAGAATATCTTCAAGTGTTTGG
66 GATAATTTTCCCAACTACCTTGAAACTCAAGAACACAACATTTAAGAATATCTTCAAGTGTCTGG
**
46537831 ATTATTCTCTCGGATTGTCCATCAGTCTGTGGGTGGAAAGTAGTACTAAAATTTAGTTTTGTTCC
131 ATTATTCTCTCGGATTGTCCATCAGTCTGTGGGTGGAAAGTAGTACTAAAATTTAGTTTCATTCC
46537896 CAAAGCCGCTTACAACTTTGTCCAAAATCGTGACGTAAATCTCAGATCTCTATCTGAAATAAT
196 CAAAGCCGCTTACAACTTTGTCCAAAATCGTGACGTAAATCTCAGATCTCTATCTGAAATAAT
46537959 CTCATAAGGTGCCATCTTTAAAC-TGGACTGATAACTGTTATTATAAGCGAATTCAACCGAAGGT
1 CTCATAAGGTGCCATCTTT-AACTTGGACTGATAACTGTTATTATAAGCGAATTCAACCGAAGGT
*
46538023 AGATAATTTTCCCAACTACCTTGGAACTCAAGAACACAACATTTAAGAATATCTTCAAGTGTCTG
65 AGATAATTTTCCCAACTACCTTGAAACTCAAGAACACAACATTTAAGAATATCTTCAAGTGTCTG
46538088 GATTATTCTCTCGGATTGTCCATCAGTCTGTGGGTGGAAAGTAGTACTAAAATTTAGTTTCATTC
130 GATTATTCTCTCGGATTGTCCATCAGTCTGTGGGTGGAAAGTAGTACTAAAATTTAGTTTCATTC
46538153 CCAAAGCCGCTTACAACTTTGTCCAAAATCGTGACGTAAATCTCAGATCTCTATCTGAAATAAT
195 CCAAAGCCGCTTACAACTTTGTCCAAAATCGTGACGTAAATCTCAGATCTCTATCTGAAATAAT
46538217 C
1 C
46538218 GACAATGTCA
Statistics
Matches: 254, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
258 251 0.99
259 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (258 bp):
CTCATAAGGTGCCATCTTTAACTTGGACTGATAACTGTTATTATAAGCGAATTCAACCGAAGGTA
GATAATTTTCCCAACTACCTTGAAACTCAAGAACACAACATTTAAGAATATCTTCAAGTGTCTGG
ATTATTCTCTCGGATTGTCCATCAGTCTGTGGGTGGAAAGTAGTACTAAAATTTAGTTTCATTCC
CAAAGCCGCTTACAACTTTGTCCAAAATCGTGACGTAAATCTCAGATCTCTATCTGAAATAAT
Found at i:46538987 original size:26 final size:27
Alignment explanation
Indices: 46538936--46538989 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
46538926 TCATTAACAT
*
46538936 TTGGGCCTCAACCCATCACAGTATCAA
1 TTGGGCCTCAACCCATCACAGAATCAA
* *
46538963 TTGGGCCT-AGCCCATCTCAGAATCAA
1 TTGGGCCTCAACCCATCACAGAATCAA
46538989 T
1 T
46538990 ATAAACTGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (27 bp):
TTGGGCCTCAACCCATCACAGAATCAA
Found at i:46539005 original size:32 final size:32
Alignment explanation
Indices: 46538963--46539041 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
46538953 ACAGTATCAA
* * *
46538963 TTGGGCCTAGCCCATCTCAGAATCAATATAAAC
1 TTGGGCCTAGCCCATATAAGAACCAATAT-AAC
* *
46538996 -TGGGCCTAGCCTATATAAGAACCAATATCAC
1 TTGGGCCTAGCCCATATAAGAACCAATATAAC
46539027 TTGGGCCTAGCCCAT
1 TTGGGCCTAGCCCAT
46539042 TTCAATATCA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
31 2 0.05
32 37 0.95
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (32 bp):
TTGGGCCTAGCCCATATAAGAACCAATATAAC
Found at i:46540698 original size:37 final size:37
Alignment explanation
Indices: 46540648--46540726 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
46540638 TTATTACGAA
* * *
46540648 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
46540685 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
46540722 GTCTT
1 GTCTT
46540727 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:46540902 original size:40 final size:44
Alignment explanation
Indices: 46540848--46541246 Score: 240
Period size: 47 Copynumber: 8.6 Consensus size: 44
46540838 TTCGGGACTT
46540848 ATCACATTCATCACATCGACCATTAGGCCCTATCACATATATATA
1 ATCACATT-ATCACATCGACCATTAGGCCCTATCACATATATATA
*
46540893 CACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATA
1 -A---TCACATT-ATCACATCGACCATTAGGCCCTATCACATATATATA
* * *
46540942 CACTTTCACATTCATCACATCGGCCATTAGG-CATAT-AC--A-CT-T-
1 -A---TCACATT-ATCACATCGACCATTAGGCCCTATCACATATATATA
* **
46540984 -TCACATTCATCACATCGGCCATTAGGCATTATCACATATATACGCT-
1 ATCACATT-ATCACATCGACCATTAGGCCCTATCACATATATA---TA
* * * *
46541030 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 ATCACATT-ATCACATCGACCATTAGGCCCTATCACATATATATA
* * ** *
46541075 CTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACA
1 --ATCACATT-ATCACATCGACCATTAGGCCCTATCACATATATATA
* * ** *
46541122 CTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACA
1 --ATCACATT-ATCACATCGACCATTAGGCCCTATCACATATATATA
* * * *
46541169 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 --ATCACATT-ATCACATCGACCATTAGGCCCTATCACATATATATA
* *
46541216 CTTTCACATTCATCACATCGGCCATTAGGCC
1 --ATCACATT-ATCACATCGACCATTAGGCC
46541247 ATACTATCAT
Statistics
Matches: 327, Mismatches: 10, Indels: 31
0.89 0.03 0.08
Matches are distributed among these distances:
37 26 0.08
38 3 0.01
39 2 0.01
41 1 0.00
42 1 0.00
43 1 0.00
44 1 0.00
45 1 0.00
46 2 0.01
47 211 0.65
48 4 0.01
49 74 0.23
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.31
Consensus pattern (44 bp):
ATCACATTATCACATCGACCATTAGGCCCTATCACATATATATA
Found at i:46541078 original size:94 final size:94
Alignment explanation
Indices: 46540844--46541246 Score: 628
Period size: 94 Copynumber: 4.3 Consensus size: 94
46540834 GCCCTTCGGG
* *
46540844 ACTTATCACATTCATCACATCGACCATTAGGCCCTATCACATATATATACACTTTCACATTCATC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
**
46540909 ACATCGGCCATTAGGCCCTATCACATATATATAC
63 ACATCGGCCATTAGGCATTATCAC--ATATATAC
46540943 ACTTTCACATTCATCACATCGGCCATTAGG--------C--ATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
46540998 TCGGCCATTAGGCATTATCACATATATAC
66 TCGGCCATTAGGCATTATCACATATATAC
*
46541027 GCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
46541092 TCGGCCATTAGGCATTATCACATATATAC
66 TCGGCCATTAGGCATTATCACATATATAC
*
46541121 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
46541186 TCGGCCATTAGGCCTTATCACATATATAC
66 TCGGCCATTAGGCATTATCACATATATAC
46541215 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
46541247 ATACTATCAT
Statistics
Matches: 286, Mismatches: 8, Indels: 25
0.90 0.03 0.08
Matches are distributed among these distances:
84 37 0.13
86 43 0.15
90 1 0.00
92 1 0.00
94 175 0.61
98 25 0.09
99 4 0.01
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.31
Consensus pattern (94 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCATTATCACATATATAC
Found at i:46541114 original size:22 final size:23
Alignment explanation
Indices: 46541081--46541161 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
46541071 TACACTTTCA
46541081 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
**** ***
46541104 CATT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
46541128 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
46541151 CATT-ATCACAT
1 CATTCATCACAT
46541162 ATATACACTT
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 14 0.34
23 12 0.29
24 8 0.20
25 7 0.17
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (23 bp):
CATTCATCACATCGGCCATTAGG
Found at i:46541159 original size:141 final size:132
Alignment explanation
Indices: 46540844--46541249 Score: 634
Period size: 141 Copynumber: 3.0 Consensus size: 132
46540834 GCCCTTCGGG
* **
46540844 ACTTATCACATTCATCACATCGACCATTAGGCCCTATCACATATATATACACTTTCACATTCATC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCATTATCAC--ATATATACACTTTCACATTCATC
*
46540909 ACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG-
63 ACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46540973 CATATAC
126 CATATAC
*
46540980 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACGCTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTTTCACATTCATCACA
46541045 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTAT
66 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG------
46541110 CACATATATAC
125 C-C--ATATAC
46541121 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTTTCACATTCATCACA
46541186 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCATA
66 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCATA
46541250 CTATCATTTC
Statistics
Matches: 254, Mismatches: 6, Indels: 24
0.89 0.02 0.08
Matches are distributed among these distances:
131 38 0.15
132 3 0.01
133 45 0.18
134 1 0.00
135 33 0.13
136 4 0.02
139 1 0.00
141 129 0.51
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (132 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCATAT
AC
Found at i:46541246 original size:47 final size:47
Alignment explanation
Indices: 46540974--46541245 Score: 517
Period size: 47 Copynumber: 5.8 Consensus size: 47
46540964 GCCATTAGGC
46540974 ATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACAT
* *
46541021 ATATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACAT
46541068 ATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACAT
46541115 ATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACAT
*
46541162 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACAT
46541209 ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGC
46541246 CATACTATCA
Statistics
Matches: 220, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 220 1.00
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACAT
Found at i:46546638 original size:30 final size:30
Alignment explanation
Indices: 46546604--46546664 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46546594 TCCTTAACTC
46546604 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
46546634 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
46546664 A
1 A
46546665 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:46552505 original size:32 final size:32
Alignment explanation
Indices: 46552469--46552553 Score: 116
Period size: 32 Copynumber: 2.7 Consensus size: 32
46552459 CCCATTGCAG
* * *
46552469 TATCAATTGGGCCTAGCCCATCTCAGAATCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
***
46552501 TATCAGTTGGGCCTAGCATTTATCAGAACCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
46552533 TATCAGTTGGGCCTAGCCCAT
1 TATCAGTTGGGCCTAGCCCAT
46552554 TTCAATATCA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (32 bp):
TATCAGTTGGGCCTAGCCCATATCAGAACCAA
Found at i:46564247 original size:47 final size:47
Alignment explanation
Indices: 46564184--46564436 Score: 371
Period size: 47 Copynumber: 5.4 Consensus size: 47
46564174 CCCTTCGGGA
* * *
46564184 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
46564231 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
46564278 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
46564325 CGTATCTCATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
46564372 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
46564419 CTTATCACATATACACAC
1 CTTATCACATATATACAC
46564437 CTTGTACATC
Statistics
Matches: 187, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 187 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:46573262 original size:55 final size:53
Alignment explanation
Indices: 46573118--46573264 Score: 159
Period size: 55 Copynumber: 2.7 Consensus size: 53
46573108 ACTTACTATC
* *
46573118 GCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGGACTCACCATT
1 GCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGGACTCACCAAT
* * * * * * * * *
46573171 GCAATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAAT
1 GCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GGA-CTCACCAAT
* *
46573226 GCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTT
1 GCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTT
46573265 GTAGAAATTA
Statistics
Matches: 74, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
53 35 0.47
54 2 0.03
55 37 0.50
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.38
Consensus pattern (53 bp):
GCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGGACTCACCAAT
Found at i:46576203 original size:30 final size:30
Alignment explanation
Indices: 46576145--46576203 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
46576135 TTTACGAGCC
* *
46576145 TAGGGGCCAAAGTGTAAACATGTGAAAGTT
1 TAGGGGCCAAAATGTAAACATGTAAAAGTT
* **
46576175 TAGGGGTCAAAATGTAAATTTGTAAAAGT
1 TAGGGGCCAAAATGTAAACATGTAAAAGT
46576204 GTGATTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (30 bp):
TAGGGGCCAAAATGTAAACATGTAAAAGTT
Found at i:46577092 original size:150 final size:151
Alignment explanation
Indices: 46576820--46577154 Score: 564
Period size: 150 Copynumber: 2.2 Consensus size: 151
46576810 GTGAGTCACG
* *
46576820 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGATCACGTGTGTAGTACTAAG
1 TGTGTAATACTAAGTGCAGGCTACTATGCATACCCGTTAACTTTGATCACGTGTGTAGTACTAAG
* *
46576885 TGTAGGCTACCACGTGTATCAGATGGTTAAGTCACATGTGTAGTACTAAGTGCAGGCTACTACGT
66 TGCAGGCTACCACGTGTATCAGATGGTTAAGTCACATGTCTAGTACTAAGTGCAGGCTACTACGT
46576950 GTACCAAATTGATAGGTCGCA
131 GTACCAAATTGATAGGTCGCA
*
46576971 TGTGTACTACTAAGTGCAGGCTACTATGCATACCCGTT-ACTTTGATCACGTGTGTAGTACTAAG
1 TGTGTAATACTAAGTGCAGGCTACTATGCATACCCGTTAACTTTGATCACGTGTGTAGTACTAAG
* * * *
46577035 TGCAGGCTACTACGTGTATCAGATGGTTAATTCACGTGTCTAGTACTAAGTGCAGGCTACTATGT
66 TGCAGGCTACCACGTGTATCAGATGGTTAAGTCACATGTCTAGTACTAAGTGCAGGCTACTACGT
*
46577100 GTACCAGATTGATAGGTCGCA
131 GTACCAAATTGATAGGTCGCA
*
46577121 TATGTAATACTAAGTGCAGGCTACTATGCATACC
1 TGTGTAATACTAAGTGCAGGCTACTATGCATACC
46577155 AGCGAGCTTC
Statistics
Matches: 173, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
150 137 0.79
151 36 0.21
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (151 bp):
TGTGTAATACTAAGTGCAGGCTACTATGCATACCCGTTAACTTTGATCACGTGTGTAGTACTAAG
TGCAGGCTACCACGTGTATCAGATGGTTAAGTCACATGTCTAGTACTAAGTGCAGGCTACTACGT
GTACCAAATTGATAGGTCGCA
Found at i:46577156 original size:50 final size:50
Alignment explanation
Indices: 46576814--46577148 Score: 298
Period size: 50 Copynumber: 6.7 Consensus size: 50
46576804 TCCGTTGTGA
* * * * *
46576814 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* * * * * * * * *
46576865 ATCACGTGTGTAGTACTAAGTGTAGGCTACCACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* *
46576915 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * ** * *
46576965 GTCGCATGTGTACTACTAAGTGCAGGCTACTATGCATACCCG-TT-ACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* * * * * * *
46577015 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * *
46577065 TTCACGTGTCTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * *
46577115 GTCGCATATGTAATACTAAGTGCAGGCTACTATG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATG
46577149 CATACCAGCG
Statistics
Matches: 224, Mismatches: 55, Indels: 11
0.77 0.19 0.04
Matches are distributed among these distances:
48 1 0.00
49 2 0.01
50 184 0.82
51 36 0.16
52 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
Found at i:46577378 original size:16 final size:16
Alignment explanation
Indices: 46577357--46577388 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46577347 AGAATGGAGT
46577357 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
46577373 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
46577389 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:46584438 original size:53 final size:52
Alignment explanation
Indices: 46584369--46584472 Score: 145
Period size: 53 Copynumber: 2.0 Consensus size: 52
46584359 TTTCCTTTTT
* * * *
46584369 AACTTACCATTTCCATGCCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTACCATGCCTTGACATGGTCTTACATGG-ATCCTTACCTTATG
* *
46584422 AACTCACCATTACCATGCCTTGGCATGGTCTTACATGGATCTTTACCTTAT
1 AACTCACCATTACCATGCCTTGACATGGTCTTACATGGATCCTTACCTTAT
46584473 AGTAGTTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
52 11 0.24
53 34 0.76
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (52 bp):
AACTCACCATTACCATGCCTTGACATGGTCTTACATGGATCCTTACCTTATG
Found at i:46585587 original size:33 final size:33
Alignment explanation
Indices: 46585549--46585621 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
46585539 GTTGCACACG
*
46585549 CCCGTGTGCTTGGGGACACGCCCATGTCCCACA
1 CCCGTGTGCTTGGGAACACGCCCATGTCCCACA
46585582 CCCGTGTGCTTGGGAACACGCCCATGTCCCACA
1 CCCGTGTGCTTGGGAACACGCCCATGTCCCACA
46585615 CCCGTGT
1 CCCGTGT
46585622 TGAATTTTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.15, C:0.40, G:0.26, T:0.19
Consensus pattern (33 bp):
CCCGTGTGCTTGGGAACACGCCCATGTCCCACA
Found at i:46589709 original size:40 final size:40
Alignment explanation
Indices: 46589642--46589818 Score: 200
Period size: 40 Copynumber: 4.5 Consensus size: 40
46589632 ACCCAAGTAT
*
46589642 CTTCGGGAT-TTAG-CCGGATATAACAACTTGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTTGCACAAATGC
* * *
46589681 CCTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTTGCACAAATGC
* * *
46589721 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTTGCACAAATGC
* *
46589761 CTTCGGGACATAGCCCGGATATAGCAA-TTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTT-GCACAAATGC
* *
46589801 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
46589819 TTATCATCCG
Statistics
Matches: 115, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 99 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTTGCACAAATGC
Found at i:46589775 original size:80 final size:79
Alignment explanation
Indices: 46589642--46589818 Score: 232
Period size: 80 Copynumber: 2.2 Consensus size: 79
46589632 ACCCAAGTAT
* * *
46589642 CTTCGGGAT-TTAGCCGGATATAACAACTTGCACAAATGCCCTCGGGTCTTAGCCCAGATATAGC
1 CTTCGGG-TCTTAGCCGGATATAACAACTAGCACAAATGCCCTCGGGACATAGCCCAGATATAGC
46589706 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * *
46589721 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAG
1 CTTCGGGTCTTAG-CCGGATATAA-CAACTAGCACAAATGCCCTCGGGACATAGCCCAGATATAG
*
46589785 CAATTCGCACAAATGC
64 CAACTCGCACAAATGC
*
46589801 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAG-CCGG
46589819 TTATCATCCG
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 11 0.13
80 73 0.85
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAACAACTAGCACAAATGCCCTCGGGACATAGCCCAGATATAGCA
ACTCGCACAAATGC
Found at i:46593551 original size:46 final size:46
Alignment explanation
Indices: 46593491--46593718 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
46593481 TTTGACATGA
* * * * * *
46593491 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
46593537 TGCCATGGCATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
46593583 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAACAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
46593629 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
46593675 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
46593719 AGAGCACACT
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 162 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:46594457 original size:17 final size:18
Alignment explanation
Indices: 46594426--46594463 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
46594416 GATAGGCCGA
46594426 AATGGGCCATACGGGCCC
1 AATGGGCCATACGGGCCC
*
46594444 AATGGGCC-TACGGGTCC
1 AATGGGCCATACGGGCCC
46594461 AAT
1 AAT
46594464 TGGATAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.24, C:0.29, G:0.32, T:0.16
Consensus pattern (18 bp):
AATGGGCCATACGGGCCC
Found at i:46594693 original size:27 final size:27
Alignment explanation
Indices: 46594661--46594721 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
46594651 CTCGACTTGT
46594661 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACCAAAGTACCCCCGATTTAC
* *** *
46594688 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCCCGATTTAC
46594715 AAAATTA
1 AAAATTA
46594722 TTGAAATACC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCCCGATTTAC
Found at i:46594858 original size:27 final size:27
Alignment explanation
Indices: 46594717--46594857 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
46594707 CGATTTACAA
* * *
46594717 AATTATTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
46594744 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
46594771 AATTACTGAAATACCATTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
46594798 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
46594825 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
46594852 AATTAC
1 AATTAC
46594858 CATTTTGCCC
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:46595499 original size:27 final size:27
Alignment explanation
Indices: 46595484--46595576 Score: 84
Period size: 27 Copynumber: 3.4 Consensus size: 27
46595474 TTTGCCACAT
46595484 TATCTGTTTCTGGTGGCTATGACACAAA
1 TATCTG-TTCTGGTGGCTATGACACAAA
*
46595512 TATCTGTTCTGGTGGCTCT-AC-CATAA
1 TATCTGTTCTGGTGGCTATGACACA-AA
* * * **
46595538 TATCTATATCTGGTGACTCTGTTAC-AA
1 TATCTGT-TCTGGTGGCTATGACACAAA
46595565 TATCTGTTCTGG
1 TATCTGTTCTGG
46595577 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
25 2 0.04
26 15 0.27
27 31 0.56
28 6 0.11
29 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (27 bp):
TATCTGTTCTGGTGGCTATGACACAAA
Found at i:46595703 original size:6 final size:6
Alignment explanation
Indices: 46595694--46595818 Score: 96
Period size: 6 Copynumber: 20.3 Consensus size: 6
46595684 TTGCATTCAC
* * *
46595694 ATTCTG ATTCTG ATTCTG -TTACCTA ATACTG ATTCTG -TCTCCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG AT-T-CTG ATTCTG
* * *
46595744 ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
46595793 ATTCTG ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
46595819 AATGTTTCTT
Statistics
Matches: 94, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.05
6 77 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:46595729 original size:31 final size:28
Alignment explanation
Indices: 46595694--46595798 Score: 76
Period size: 31 Copynumber: 3.6 Consensus size: 28
46595684 TTGCATTCAC
*
46595694 ATTCTGATTCTGATTCTGTTACCTAATACTG
1 ATTCTGATTCTAATTCTG-TACCT-AT-CTG
46595725 ATTCTG-TCTCCTAATTCTG-A--T-TCTG
1 ATTCTGAT-T-CTAATTCTGTACCTATCTG
* *
46595750 ATTCTGATTTTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGT-ACCT-A-TCTG
46595781 ATTCTGATTCTAATTCTG
1 ATTCTGATTCTAATTCTG
46595799 ATTTTGATTC
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
24 7 0.12
25 10 0.17
26 3 0.05
28 2 0.03
30 2 0.03
31 27 0.46
32 8 0.14
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (28 bp):
ATTCTGATTCTAATTCTGTACCTATCTG
Found at i:46595765 original size:18 final size:18
Alignment explanation
Indices: 46595694--46595818 Score: 96
Period size: 19 Copynumber: 6.8 Consensus size: 18
46595684 TTGCATTCAC
46595694 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
* *
46595712 -TTACCTAATACTGATTCTG
1 ATT--CTGATTCTGATTCTG
*
46595731 -TCTCCTAATTCTGATTCTG
1 AT-T-CTGATTCTGATTCTG
*
46595750 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
*
46595768 -TCACCTGATTCTGATTCTG
1 AT--TCTGATTCTGATTCTG
* *
46595787 ATTCTAATTCTGATTTTG
1 ATTCTGATTCTGATTCTG
46595805 ATTCT-AGTTCTGAT
1 ATTCTGA-TTCTGAT
46595819 AATGTTTCTT
Statistics
Matches: 89, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.04
18 38 0.43
19 44 0.49
20 3 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTG
Found at i:46595779 original size:37 final size:37
Alignment explanation
Indices: 46595697--46595801 Score: 140
Period size: 37 Copynumber: 2.8 Consensus size: 37
46595687 CATTCACATT
* *
46595697 CTGATTCTGATTCTG-TTACCTAATACTGATTCTGTCTC
1 CTGATTCTGATTCTGATT--CTAATTCTGATTCTGTCAC
* * *
46595735 CTAATTCTGATTCTGATTCTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTAATTCTGATTCTGTCAC
46595772 CTGATTCTGATTCTGATTCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTGATT
46595802 TTGATTCTAG
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
37 42 0.72
38 14 0.24
39 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTAATTCTGATTCTGTCAC
Found at i:46595998 original size:13 final size:13
Alignment explanation
Indices: 46595980--46596005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46595970 TTCACACTGA
46595980 GTTTTTGTAAACT
1 GTTTTTGTAAACT
46595993 GTTTTTGTAAACT
1 GTTTTTGTAAACT
46596006 CACCTCGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
GTTTTTGTAAACT
Found at i:46598578 original size:3 final size:3
Alignment explanation
Indices: 46598559--46598607 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
46598549 TTTTATACTA
*
46598559 AAT AATT AAT AAT -AT AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46598602 AA- AAT A
1 AAT AAT A
46598608 TCTCCTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:46598581 original size:11 final size:11
Alignment explanation
Indices: 46598560--46598603 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
46598550 TTTATACTAA
46598560 ATAATTAATAAT
1 ATAA-TAATAAT
46598572 ATAATAATAAT
1 ATAATAATAAT
46598583 GA-AATAATAAT
1 -ATAATAATAAT
*
46598594 AAAATAATAA
1 ATAATAATAA
46598604 AATATCTCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.03
11 24 0.80
12 5 0.17
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:46598589 original size:14 final size:14
Alignment explanation
Indices: 46598559--46598599 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
46598549 TTTTATACTA
46598559 AATAATTAATAATAT
1 AATAA-TAATAATAT
46598574 AATAATAATGAA-AT
1 AATAATAAT-AATAT
46598588 AATAATAA-AATA
1 AATAATAATAATA
46598600 ATAAAATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 2 0.08
13 1 0.04
14 14 0.58
15 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (14 bp):
AATAATAATAATAT
Found at i:46600656 original size:34 final size:34
Alignment explanation
Indices: 46600550--46600665 Score: 137
Period size: 34 Copynumber: 3.4 Consensus size: 34
46600540 CTGATACTGT
* * * **
46600550 AATGGGCTTAGGCCC-TACTGGTACTGTTATTGA
1 AATGGGCTCAGGCCCAGACTGCTACTGTTACAGA
*
46600583 AATGCGCTCAGGCCCAGACTGCTACTGTTACTA-A
1 AATGGGCTCAGGCCCAGACTGCTACTGTTAC-AGA
46600617 AATGGGCTCAGGCCCAGACTGCTACTGTTACAGA
1 AATGGGCTCAGGCCCAGACTGCTACTGTTACAGA
* *
46600651 TATGGGCTAAGGCCC
1 AATGGGCTCAGGCCC
46600666 TAACTGAAAC
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
33 14 0.20
34 57 0.80
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (34 bp):
AATGGGCTCAGGCCCAGACTGCTACTGTTACAGA
Found at i:46605507 original size:30 final size:29
Alignment explanation
Indices: 46605397--46605521 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
46605387 AAGTCTACAT
* *
46605397 ACATCCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
46605425 TCATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
46605454 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
46605483 ACATTCATATGGCCCCAGTAGGCCCAAATC
1 ACATTCATATGG-CCCATTAGGCCCAAATC
46605513 ACATTCATA
1 ACATTCATA
46605522 CTTATGAATT
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
28 20 0.23
29 43 0.49
30 25 0.28
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:46605518 original size:59 final size:57
Alignment explanation
Indices: 46605404--46605518 Score: 176
Period size: 59 Copynumber: 2.0 Consensus size: 57
46605394 CATACATCCA
* * *
46605404 TATGGCCCACTAGGCCCAATCTCATTCGTATGGCCCATTAGGCCCAAATCACATTCG
1 TATGGCCCACTAGGCCCAATCACATTCATATGGCCCAGTAGGCCCAAATCACATTCG
*
46605461 TATGGCCCATTAGGCCCAAATCACATTCATATGGCCCCAGTAGGCCCAAATCACATTC
1 TATGGCCCACTAGGCCC-AATCACATTCATATGG-CCCAGTAGGCCCAAATCACATTC
46605519 ATACTTATGA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
57 16 0.31
58 14 0.27
59 22 0.42
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCATATGGCCCAGTAGGCCCAAATCACATTCG
Found at i:46609997 original size:45 final size:45
Alignment explanation
Indices: 46609933--46610020 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
46609923 GTCATATGTG
46609933 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCCT
1 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCCT
46609978 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCC
1 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCC
46610021 ATACCAAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (45 bp):
TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCCT
Found at i:46610862 original size:15 final size:15
Alignment explanation
Indices: 46610844--46610897 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46610834 ATCCTAGATC
*
46610844 TCTTTGTTCTGGAAT
1 TCTTTATTCTGGAAT
*
46610859 TCTTTATTCTGGATT
1 TCTTTATTCTGGAAT
* *
46610874 TCTCTA-TCTTGGATT
1 TCTTTATTC-TGGAAT
46610889 TCTTTATTC
1 TCTTTATTC
46610898 GGTTTCCTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 2 0.06
15 29 0.88
16 2 0.06
ACGTcount: A:0.13, C:0.17, G:0.13, T:0.57
Consensus pattern (15 bp):
TCTTTATTCTGGAAT
Found at i:46610892 original size:30 final size:30
Alignment explanation
Indices: 46610818--46610897 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
46610808 CATAGTATCA
* * *
46610818 TATCTTGGGTTTCTTTATCCTAGATCTCTT
1 TATCTTGGATTTCTTTATTCTAGATCTCTC
* * * *
46610848 TGT-TCTGGAATTCTTTATTCTGGATTTCTC
1 TATCT-TGGATTTCTTTATTCTAGATCTCTC
46610878 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
46610898 GGTTTCCTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
29 1 0.03
30 37 0.95
31 1 0.03
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTAGATCTCTC
Found at i:46613347 original size:46 final size:46
Alignment explanation
Indices: 46613291--46613515 Score: 267
Period size: 46 Copynumber: 4.9 Consensus size: 46
46613281 GGATATATGG
46613291 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAA
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAA
*
46613337 GCGTCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAA
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAA
* *** * * *
46613383 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTC-ACTTATGGATGC-AA
* * * *
46613430 GCATTCGAGCTCGTTGAGTTGATTCTGAGTTCACTTATGGATGCGGAC
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGC--AA
* *
46613478 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
46613516 GCGGGTTACA
Statistics
Matches: 152, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
46 114 0.75
47 35 0.23
48 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAA
Found at i:46615055 original size:93 final size:93
Alignment explanation
Indices: 46614896--46615066 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
46614886 GGATGGTTGA
* * * * *
46614896 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
46614961 TGAGTCCGAGTTCGTGGAATGTAACTAG
66 TGAGTCCGAGTTCGTGGAATGTAACTAG
* * *
46614989 GCATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
46615054 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
46615067 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:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGGAATGTAACTAG
Found at i:46615065 original size:46 final size:46
Alignment explanation
Indices: 46614900--46615071 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
46614890 GGTTGAGCAT
* * * *
46614900 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * *
46614946 CTGAACTCGTTGAGTTGAGTCCGAGTT--C--GTGGAATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG-ATGCAA--ACGC
* *
46614991 ATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
*
46615039 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46615072 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 1 0.01
45 2 0.02
46 55 0.54
47 24 0.24
48 3 0.03
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:46617249 original size:45 final size:45
Alignment explanation
Indices: 46617185--46617276 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
46617175 GTCATATGTG
46617185 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCCT
1 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCCT
46617230 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCCT
1 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCCT
46617275 TA
1 TA
46617277 CCAAAGTGGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (45 bp):
TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCCT
Found at i:46618102 original size:15 final size:15
Alignment explanation
Indices: 46618082--46618137 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
46618072 GTATCTTGGG
46618082 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
46618097 TTTCTTTATTATGGA
1 TTTCTTTATTCTGGA
*
46618112 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
46618127 TTTCTTTATTC
1 TTTCTTTATTC
46618138 AGTTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 1 0.03
15 32 0.91
16 2 0.06
ACGTcount: A:0.14, C:0.14, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:46630541 original size:27 final size:27
Alignment explanation
Indices: 46630491--46630543 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
46630481 AAAACACCAA
*
46630491 GAAATGGAAGCCTTTGTGGAAATCTAT
1 GAAATAGAAGCCTTTGTGGAAATCTAT
*
46630518 GAAATAGAAGCTCTTT-TGGTAATCTA
1 GAAATAGAAGC-CTTTGTGGAAATCTA
46630544 AGGAAAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (27 bp):
GAAATAGAAGCCTTTGTGGAAATCTAT
Found at i:46649957 original size:16 final size:16
Alignment explanation
Indices: 46649918--46649951 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46649908 GAAAACATCT
*
46649918 CAAAAGAATAAAGAATA
1 CAAAA-AATAAAGAAAA
46649935 CAAAAAATAAAGAAAA
1 CAAAAAATAAAGAAAA
46649951 C
1 C
46649952 CCAAAACTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.74, C:0.09, G:0.09, T:0.09
Consensus pattern (16 bp):
CAAAAAATAAAGAAAA
Found at i:46652935 original size:31 final size:32
Alignment explanation
Indices: 46652883--46652942 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
46652873 ACATAGGATT
* *
46652883 TCGATATGTGATGTGCGAGTAAGACCATGGCA
1 TCGATATATGATGTACGAGTAAGACCATGGCA
46652915 TCGATATATG-TGTACGAGTAAGACCATG
1 TCGATATATGATGTACGAGTAAGACCATG
46652943 TTTAATACGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (32 bp):
TCGATATATGATGTACGAGTAAGACCATGGCA
Found at i:46653004 original size:56 final size:56
Alignment explanation
Indices: 46652918--46653051 Score: 214
Period size: 56 Copynumber: 2.4 Consensus size: 56
46652908 CATGGCATCG
*
46652918 ATATATGTGTACGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCA
1 ATATATGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCA
** * *
46652974 ATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATTGATATGTGATTCCG
1 ATATATGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCA
*
46653030 ATATATGTGTCCGAGTAAGACC
1 ATATATGTGTACGAGTAAGACC
46653052 CTGTCTGGGA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (56 bp):
ATATATGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCA
Found at i:46653069 original size:56 final size:56
Alignment explanation
Indices: 46652916--46653081 Score: 210
Period size: 56 Copynumber: 3.0 Consensus size: 56
46652906 ACCATGGCAT
*
46652916 CGATATATGTGTACGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTACGAGTAAGACCCTGTTTAATACGTTGGCATCGATATGTGATTC
* ** *
46652972 CAATATATGTGTGTGAGTAAGACCAC-GTTTAATACGTTGGCATTGATATGTGATTC
1 CGATATATGTGTACGAGTAAGACC-CTGTTTAATACGTTGGCATCGATATGTGATTC
* * ***
46653028 CGATATATGTGTCCGAGTAAGACCCTGTCTGGGACAG-TGGCATCGATATGTGAT
1 CGATATATGTGTACGAGTAAGACCCTGTTTAATAC-GTTGGCATCGATATGTGAT
46653082 AACATGTAAG
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
55 1 0.01
56 92 0.98
57 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (56 bp):
CGATATATGTGTACGAGTAAGACCCTGTTTAATACGTTGGCATCGATATGTGATTC
Found at i:46657076 original size:27 final size:27
Alignment explanation
Indices: 46657046--46657150 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
46657036 ACGAGGCTGC
* *
46657046 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
46657073 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
46657099 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
46657126 CAGATAATTGTGGCATAGTCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
46657151 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
26 8 0.11
27 59 0.84
28 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:46657588 original size:16 final size:15
Alignment explanation
Indices: 46657567--46657596 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46657557 AAAATACCGA
46657567 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
46657583 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
46657597 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:46658576 original size:31 final size:31
Alignment explanation
Indices: 46658519--46658620 Score: 125
Period size: 31 Copynumber: 3.3 Consensus size: 31
46658509 ATTTGTTTGG
* * *
46658519 ATCAGAATCAGA-ATTAGGTGATAGAATCAAA
1 ATCAGAATCA-ATATCAGGTAACAGAATCAAA
* * *
46658550 ATCGGTATCAGTATCAGGTAACAGAATCAAA
1 ATCAGAATCAATATCAGGTAACAGAATCAAA
46658581 ATCAGAATCAATATCAGGTAACAGAATCAAAA
1 ATCAGAATCAATATCAGGTAACAGAATC-AAA
46658613 ATCAGAAT
1 ATCAGAAT
46658621 GTGAATGCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
31 49 0.82
32 11 0.18
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.22
Consensus pattern (31 bp):
ATCAGAATCAATATCAGGTAACAGAATCAAA
Found at i:46658799 original size:27 final size:26
Alignment explanation
Indices: 46658760--46658858 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 26
46658750 CAGTTATCAA
* *
46658760 ATATTGTGACAGAGTCACCAAATACAG
1 ATATTGTGGCAGAGCCACCAAA-ACAG
*
46658787 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAGAGCCACCAAAACAG
*
46658813 ATATTTGTGGCATAGCCACCAGAAACAG
1 ATA-TTGTGGCAGAGCCACCA-AAACAG
* *
46658841 ATAATGTGGCAAAGCCAC
1 ATATTGTGGCAGAGCCAC
46658859 TTAACAGAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 48 0.76
28 8 0.13
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
ATATTGTGGCAGAGCCACCAAAACAG
Found at i:46659045 original size:22 final size:22
Alignment explanation
Indices: 46659017--46659081 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
46659007 GCAAATACGT
*
46659017 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
46659039 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
46659061 TTGACACAAAGCAATAATCAG
1 TTGGCACAAAGCCATAATCAG
46659082 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:46659555 original size:27 final size:27
Alignment explanation
Indices: 46659507--46659728 Score: 275
Period size: 27 Copynumber: 8.3 Consensus size: 27
46659497 GGGGCAAAAT
* * * *
46659507 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
46659533 GGTGATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
46659560 AGTAATTCTACCCTACAGGAGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
46659587 GATAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
46659614 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
46659641 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
46659668 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
46659695 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
46659722 GGTAATT
1 GGTAATT
46659729 TTCTAAATCA
Statistics
Matches: 166, Mismatches: 29, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
26 13 0.08
27 153 0.92
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:46659755 original size:54 final size:54
Alignment explanation
Indices: 46659537--46659757 Score: 160
Period size: 54 Copynumber: 4.1 Consensus size: 54
46659527 TATCTCGGTG
* ** ** ***
46659537 ATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTAC-AGGAGTATTGCGATA
1 ATTCTACCCTACAGGGGTATTTCGGTAATTCTACAATACAAGG-GTAAAACGATA
* * * ** * * ***
46659591 ATTCTACCTTACAAGGGTATTTCAGTAATTCTACCTTATAGGGGTATTTCGATA
1 ATTCTACCCTACAGGGGTATTTCGGTAATTCTACAATACAAGGGTAAAACGATA
** * *** *
46659645 ATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTA
1 ATTCTACCCTACAGGGGTATTTCGGTAATTCTACAATACAAGGGTAAAACGATA
*
46659699 ATTCTACCCTATAGGGGTATTTCGGTAATTTTCTA-AAT-CAAGGGTAAAACGATA
1 ATTCTACCCTACAGGGGTATTTCGGTAA--TTCTACAATACAAGGGTAAAACGATA
46659753 ATTCT
1 ATTCT
46659758 GTAAATCAAG
Statistics
Matches: 142, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
54 134 0.94
55 3 0.02
56 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (54 bp):
ATTCTACCCTACAGGGGTATTTCGGTAATTCTACAATACAAGGGTAAAACGATA
Found at i:46659755 original size:81 final size:81
Alignment explanation
Indices: 46659586--46659757 Score: 204
Period size: 81 Copynumber: 2.1 Consensus size: 81
46659576 AGGAGTATTG
* *
46659586 CGATAATTCTACCTTACAAGGGTATTTCAGTAATTCTACCTTATAGGGGTATTTCGATAATTCTA
1 CGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTCTA
** * ***
46659651 CCCTACAGGGGTATTT
66 CAATACAAGGGTAAAA
* * * *
46659667 CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGTAATTTTC
1 CGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAA--TTC
46659732 TA-AAT-CAAGGGTAAAA
64 TACAATACAAGGGTAAAA
46659748 CGATAATTCT
1 CGATAATTCT
46659758 GTAAATCAAG
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
81 70 0.92
82 1 0.01
83 5 0.07
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (81 bp):
CGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTCTA
CAATACAAGGGTAAAA
Found at i:46659808 original size:27 final size:27
Alignment explanation
Indices: 46659778--46659842 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
46659768 GGTACTTTGG
46659778 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * *
46659805 TAATTTTACAGGTCGAGGGTATTTTAC
1 TAATTTTACAAGTCGAGGGTATTTCAA
*
46659832 TAATTTCACAA
1 TAATTTTACAA
46659843 ATTAGGGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:46659852 original size:81 final size:81
Alignment explanation
Indices: 46659767--46660108 Score: 278
Period size: 81 Copynumber: 4.2 Consensus size: 81
46659757 TGTAAATCAA
* **
46659767 GGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTACAGGTCGA-GGGTATTTT
1 GGGTACTTTGGTAATTTTACAAATCAG-GGGTATTTCAATAATTTTACA-AACGAGGGGTATTTT
**
46659830 -ACTAATTTCACAAATTAG
64 GA-TAATTTCACAAACCAG
* * *** *
46659848 GGGTAGTTTGGTAATTTAACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGA
1 GGGTACTTTGGTAATTTTACAAATCAGGGGTATTTCAATAATTTTACAAACGAGGGGTATTTTGA
*
46659913 TAATTTTACAAACCAG
66 TAATTTCACAAACCAG
* * *** *
46659929 GGGTATTTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GGGTA-CTTTGGTAATTTTACAAATCAGGGGTATTTCAATAATTTTACAAACGAGGGGTATTTTG
* * * * *
46659994 GTAATTTTATAAACAAA
65 ATAATTTCACAAACCAG
* * * *** * * * *
46660011 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTT-A
1 GGGTACTTTGGTAATTTTACAAATCAGGGGTATTTCAATAATTTTACAAACGAGGGGTATTTTGA
** *
46660075 GCGATTTTACAAACCAG
66 -TAATTTCACAAACCAG
*
46660092 GGGTATTTTGGTAATTT
1 GGGTACTTTGGTAATTT
46660109 GGTAAACTAA
Statistics
Matches: 225, Mismatches: 31, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
80 2 0.01
81 147 0.65
82 76 0.34
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (81 bp):
GGGTACTTTGGTAATTTTACAAATCAGGGGTATTTCAATAATTTTACAAACGAGGGGTATTTTGA
TAATTTCACAAACCAG
Found at i:46660101 original size:54 final size:54
Alignment explanation
Indices: 46659767--46660108 Score: 373
Period size: 54 Copynumber: 6.3 Consensus size: 54
46659757 TGTAAATCAA
* ** * * * ***
46659767 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTC-G
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
** * ** * * * * *
46659820 AGGGTATTTTACTAATTTCACAAATTAGGGGTAGTTTGGTAATTTAACAAATCAG
1 -GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
46659875 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT-GATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG-TAATTTTACAAACCAG
* * *
46659929 GGGTATTTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTA-TTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
46659984 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * **
46660038 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGCGATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
46660092 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
46660109 GGTAAACTAA
Statistics
Matches: 250, Mismatches: 34, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
53 1 0.00
54 197 0.79
55 51 0.20
56 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:46660115 original size:27 final size:27
Alignment explanation
Indices: 46659821--46660108 Score: 378
Period size: 27 Copynumber: 10.6 Consensus size: 27
46659811 TACAGGTCGA
** * **
46659821 GGGTATTTTACTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
46659848 GGGTAGTTTGGTAATTTAACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
46659875 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
46659902 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
46659929 GGGTATTTTTGGTAATTTTACAAACCAG
1 GGGTA-TTTTGGTAATTTTACAAACCAG
*
46659957 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
46659984 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
46660011 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
46660038 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* **
46660065 GGGTATTTTAGCGATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
46660092 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
46660109 GGTAAACTAA
Statistics
Matches: 229, Mismatches: 31, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
27 203 0.89
28 26 0.11
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:46664081 original size:43 final size:43
Alignment explanation
Indices: 46664032--46664175 Score: 234
Period size: 43 Copynumber: 3.3 Consensus size: 43
46664022 TACTATAATG
* *
46664032 GCACTAAGTGTGCGATACAATTATAACTTCGGCTAATTAATTG
1 GCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAATTA
*
46664075 GCACTAAATGTGCGATACAATTATAGCTTCGGCTAATTAATTA
1 GCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAATTA
* * *
46664118 GCACTAAGTGTGAGACACAATTATAGCTTCGGTTAATTAATTA
1 GCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAATTA
46664161 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
46664176 GTTCGTTGAA
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 93 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.31
Consensus pattern (43 bp):
GCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAATTA
Found at i:46680757 original size:48 final size:48
Alignment explanation
Indices: 46680701--46680799 Score: 180
Period size: 48 Copynumber: 2.1 Consensus size: 48
46680691 GCGTAAAGCG
*
46680701 TAAAAGTTCCATACTATTAGTTAAAGGTGTTAATTGACCTTGGATTTT
1 TAAAAGTTCCATACTATTAGTTAAAGGTGTTAATTGACCATGGATTTT
*
46680749 TAAAAGTTCCATGCTATTAGTTAAAGGTGTTAATTGACCATGGATTTT
1 TAAAAGTTCCATACTATTAGTTAAAGGTGTTAATTGACCATGGATTTT
46680797 TAA
1 TAA
46680800 TATAATGGCC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.40
Consensus pattern (48 bp):
TAAAAGTTCCATACTATTAGTTAAAGGTGTTAATTGACCATGGATTTT
Found at i:46681892 original size:43 final size:43
Alignment explanation
Indices: 46681836--46681986 Score: 259
Period size: 43 Copynumber: 3.5 Consensus size: 43
46681826 AACTTCGGTT
46681836 TAATATAA-TGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
1 TAAT-TAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
46681879 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
*
46681922 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* *
46681965 TAATTAAGTAGCACTAAGTGTG
1 TAATTAATTGGCACTAAGTGTG
46681987 TGAGTTAGTT
Statistics
Matches: 104, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
42 3 0.03
43 101 0.97
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (43 bp):
TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
Found at i:46688493 original size:29 final size:29
Alignment explanation
Indices: 46688430--46688497 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
46688420 TAATCAACCG
*
46688430 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
46688459 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
46688488 CGCACACTTA
1 CGCACACTTA
46688498 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:46688609 original size:174 final size:174
Alignment explanation
Indices: 46688319--46688646 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
46688309 AACTCAAGGT
* *
46688319 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
46688384 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
46688449 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
46688493 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
46688558 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
46688623 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
46688647 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:46688640 original size:29 final size:29
Alignment explanation
Indices: 46688606--46688677 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
46688596 ATCAACCGCG
* * *
46688606 CACACTTAGTGCCATGCACTTTAAACTCA
1 CACACTTAGTGCCATACAATTTAAACCCA
** *
46688635 CACACTTAGTGCTGTACAATTTAAACCCG
1 CACACTTAGTGCCATACAATTTAAACCCA
46688664 CACACTTAGTGCCA
1 CACACTTAGTGCCA
46688678 ATCTCATGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATACAATTTAAACCCA
Found at i:46696411 original size:29 final size:29
Alignment explanation
Indices: 46696348--46696415 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
46696338 TAATCAACCG
*
46696348 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
46696377 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
46696406 CGCACACTTA
1 CGCACACTTA
46696416 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:46696527 original size:174 final size:174
Alignment explanation
Indices: 46696237--46696564 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
46696227 AACTCAAGGT
* *
46696237 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
46696302 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
46696367 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
46696411 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
46696476 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
46696541 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
46696565 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:46696558 original size:29 final size:29
Alignment explanation
Indices: 46696524--46696595 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
46696514 ATCAACCGCG
* * *
46696524 CACACTTAGTGCCATGCACTTTAAACTCA
1 CACACTTAGTGCCATACAATTTAAACCCA
** *
46696553 CACACTTAGTGCTGTACAATTTAAACCCG
1 CACACTTAGTGCCATACAATTTAAACCCA
46696582 CACACTTAGTGCCA
1 CACACTTAGTGCCA
46696596 ATCTCATGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATACAATTTAAACCCA
Found at i:46704512 original size:40 final size:41
Alignment explanation
Indices: 46704459--46704555 Score: 121
Period size: 40 Copynumber: 2.4 Consensus size: 41
46704449 TATCTCGGTA
46704459 TCGCACACTTAGTGCC-TCATATAG-TCGAAGCTA-TTCCAAC
1 TCGCACACTTAGTGCCAT-ATATAGCT-GAAGCTATTTCCAAC
* * *
46704499 TCGCACACTTAGTGCCATTTGTAGCTGAAGCTATTTCGAAC
1 TCGCACACTTAGTGCCATATATAGCTGAAGCTATTTCCAAC
46704540 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
46704556 AACATAGTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
40 43 0.84
41 8 0.16
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATATATAGCTGAAGCTATTTCCAAC
Found at i:46711976 original size:40 final size:40
Alignment explanation
Indices: 46711928--46712017 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 40
46711918 GGTATCGCAA
*
46711928 ACTTAGTGCC-TAATATAGCCGAAGCTA-TTCTAACTTGCAC
1 ACTTAGTGCCAT-ATATAGCCGAAGCTATTTCAAAC-TGCAC
* * *
46711968 ACTTAGTGCCATTTGTAGCTGAAGCTATTTCAAACTGCAC
1 ACTTAGTGCCATATATAGCCGAAGCTATTTCAAACTGCAC
46712008 ACTTAGTGCC
1 ACTTAGTGCC
46712018 GAACATAGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 37 0.84
41 7 0.16
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (40 bp):
ACTTAGTGCCATATATAGCCGAAGCTATTTCAAACTGCAC
Found at i:46730374 original size:19 final size:19
Alignment explanation
Indices: 46730350--46730389 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
46730340 GATTTATAAA
46730350 TGTTTATTAGTTATTTAAT
1 TGTTTATTAGTTATTTAAT
46730369 TGTTTATTAGTTATTTAAT
1 TGTTTATTAGTTATTTAAT
46730388 TG
1 TG
46730390 CTATGAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (19 bp):
TGTTTATTAGTTATTTAAT
Found at i:46730558 original size:43 final size:44
Alignment explanation
Indices: 46730509--46730675 Score: 180
Period size: 43 Copynumber: 3.9 Consensus size: 44
46730499 GATTATCGAG
* *
46730509 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
*
46730553 -TGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
* * * * * * *
46730595 ATATGATTTCGTATAAGACCCTGTCTAGGAAAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
* * * *
46730638 ATGTGATAACATGTAAGACCGTATCTAGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCAT
46730676 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 7 0.07
43 95 0.93
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
Done.