Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold102
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1727112
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.30
Warning! 166202 characters in sequence are not A, C, G, or T
File 2 of 5
Found at i:63 original size:4 final size:4
Alignment explanation
Indices: 56--131 Score: 145
Period size: 4 Copynumber: 19.2 Consensus size: 4
46 ATATAAACAG
56 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
104 TATC TATC TATC TATC TATC TATC -ATC T
1 TATC TATC TATC TATC TATC TATC TATC T
132 GTCTGTGCAT
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 3 0.04
4 68 0.96
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TATC
Found at i:8614 original size:16 final size:16
Alignment explanation
Indices: 8595--8627 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8585 CACCGAGACT
8595 AGGCATCACCTTTATG
1 AGGCATCACCTTTATG
8611 AGGCATCACCTTTATG
1 AGGCATCACCTTTATG
8627 A
1 A
8628 AACCACCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (16 bp):
AGGCATCACCTTTATG
Found at i:8962 original size:20 final size:20
Alignment explanation
Indices: 8937--8990 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
8927 TGATCACATA
8937 ATACAATATCATAATATATG
1 ATACAATATCATAATATATG
*
8957 ATACAATAT-AGTATTATATG
1 ATACAATATCA-TAATATATG
8977 ATACAATATCATAA
1 ATACAATATCATAA
8991 CAGATAATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (20 bp):
ATACAATATCATAATATATG
Found at i:9000 original size:20 final size:20
Alignment explanation
Indices: 8934--9001 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
8924 ATTTGATCAC
8934 ATAATACAATATCATAATAT
1 ATAATACAATATCATAATAT
* *
8954 ATGATACAATAT-AGTATTAT
1 ATAATACAATATCA-TAATAT
* * *
8974 ATGATACAATATCATAACAG
1 ATAATACAATATCATAATAT
8994 ATAATACA
1 ATAATACA
9002 TCACAATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.32
Consensus pattern (20 bp):
ATAATACAATATCATAATAT
Found at i:12341 original size:2 final size:2
Alignment explanation
Indices: 12334--12359 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12324 ATGTATGGTG
12334 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
12360 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19479 original size:9 final size:9
Alignment explanation
Indices: 19457--19505 Score: 71
Period size: 9 Copynumber: 5.3 Consensus size: 9
19447 ACAATTTGTC
19457 CGTTGTCTGT
1 CGTTGTC-GT
19467 CGTTGTCGT
1 CGTTGTCGT
*
19476 CGTTGTCAT
1 CGTTGTCGT
*
19485 CGTAGTCGT
1 CGTTGTCGT
19494 CGTTGTCGT
1 CGTTGTCGT
19503 CGT
1 CGT
19506 CGTTGTAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
9 28 0.80
10 7 0.20
ACGTcount: A:0.04, C:0.22, G:0.31, T:0.43
Consensus pattern (9 bp):
CGTTGTCGT
Found at i:19988 original size:166 final size:165
Alignment explanation
Indices: 19681--22126 Score: 2609
Period size: 166 Copynumber: 14.7 Consensus size: 165
19671 GGTATTTTTC
* * * * * *** *
19681 AAAAATCTTCTTCTCAAAACCTTTTCGGCCTGAAAAGCTTAAACTT-GTGTGGAGGCATCCGT-A
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TTAAAATGGAAGCATCC-TCA
* * * * *
19744 GGTAGTGTAAATTCAAGTTTGTTCAAATCATGGTCCCCGTGGGTAGGGTGAGACCACAACAGGGG
64 GGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGG
* * *
19809 GATCAACTTTTACATTGGAATATATAGAGAACATCTTT
129 GAT-AATTTTTACATAGGAATATATAGAGAAAATCTTT
* * * *
19847 AATAATCTTCTTCTCAAAAACTATAAGGCCAGAAAAGCTCAAATTAAAATGGGAGCATCCTCAGA
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
* * * * * * * *
19912 TAATGTAGATTCAAGTTTGTTCAAATCATAGTCCCTGGTGGTATGGTGGGGTCACAATTGGGGAA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGGA
* *
19977 TGGATTTTTACATAGGAATATATAGAAAAAATCTTT
131 T-AATTTTTACATAGGAATATATAGAGAAAATCTTT
* * *
20013 TAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTAAAATGGAAGCATCCCCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
* * *
20078 TAGTGTAGCA-TCACGTTTGTTCAAAGCATGGTCCCCGGGGGTAGGGTGGAGCCACAATAGGGGG
66 TAGTGTAG-ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGG
* *
20142 ATCATGTTTTGCATAGGAATATATAGAGAAAATCTTT
130 ATAAT-TTTTACATAGGAATATATAGAGAAAATCTTT
* * *
20179 AAAATTCTTCTTCTCAAAAACTA-TAGGGCCTGAAAAGCTCAAATTAAAATGGAAGCATCCCCAG
1 AAAAATCTTCTTCTCAAAAACTATTA-GGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAG
* * * *
20243 GTAGTGTAGAATCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCATACTTGGGGG
65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGG
* ** *
20308 ATCAAGTTTTACATAGGAATATATAGA-AATTTTTTT
130 AT-AATTTTTACATAGGAATATATAGAGAAAATCTTT
*
20344 AAAAATCTTCTTCTCAAAAACTA-TAGGGCCAGAAAAGCTCAATTTAAAATGGAAGCATCCTCAG
1 AAAAATCTTCTTCTCAAAAACTATTA-GGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAG
* * * *
20408 GTAGTGTAGTTTTAAGTTTGTTCAAATCATAGTCCCTGGGGGTAGGGTGGGGCCACAATAGGGGG
65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGG
* * *
20473 ATCATGTTTTGCATAGGAATATGTAGAGAAAATC-TT
130 ATAAT-TTTTACATAGGAATATATAGAGAAAATCTTT
* * * ** *
20509 AAAAATTCTTCTTCTCAAAAACTATAAGGTCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTCAG
1 AAAAA-TCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAG
* * * ** * * *
20574 GTAGTATAGAATCAAGTTTTTTCAAATCATGGTAACTGAGGGTAGGGTGGGGCCACAATGATGGG
65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAT-AGGGG
*
20639 G-TCAAGTTTTACATACGCATGTAGGAATATATAGTGAAAATCTTT
129 GAT-AA-TTTT---TA--CA--TAGGAATATATAGAGAAAATCTTT
* * ** *
20684 AAAAAATCTTCTTCTCAAAAGCTATTAGGCCAGGAAAGCTCAAATTTGAGTGGGAA-CATCCTCA
1 -AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAAT-GGAAGCATCCTCA
* * * * * * **
20748 GATAGTGTAGAATCAAGTTTCTTCAAATCGTGGTTCTCGAAGGTAGGGTGGGGCCACAATTA-GG
64 GGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAA-TAGGG
* *
20812 GGATACATTTTTAACCAT--GAATATAAAGAGAAAATCTTGA
128 GGATA-ATTTTT-A-CATAGGAATATATAGAGAAAATCTT-T
** * * **** * *
20852 AAAAAAGTTCTT-TGAAAAACTATTTGGCCA-AGAAAGCTCAAATTGGCGTGTAACCATCCTCAG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGA-AAAGCTCAAATTAAAATGGAAGCATCCTCAG
* * * **
20915 ATAATGTAGATTCAAGTTTTTTCAAATCATGGTCCCCGGGGAAAGGGTGGGGCCACAAT-GGGGG
65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGG
**
20979 ATAA-----ATGTA--AATATATAGAGAAAATCTTT
130 ATAATTTTTACATAGGAATATATAGAGAAAATCTTT
* * * * * *** *
21008 AAAAAACCTT-TTCT-TAAAACAATTAGGCCTGAAAAGCTTAAACTT-GTGTGGAGGCATCCTCA
1 -AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TTAAAATGGAAGCATCCTCA
* ** *
21070 GGTAGTGTAGATTCAAATTTGTTCAAATCATGGTCCCCGTTGGTAGGGTGGGGCCACAACAGGGG
64 GGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGG
* * *
21135 GATCAAATTTTACATTGGAATTTATAGAGAAAAATCTTTT
129 GAT-AATTTTTACATAGGAATATATAGAG-AAAATC-TTT
* ** * *
21175 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGGAA-CAAT-CTAA
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAAT-GGAAGC-ATCCTCA
* * *
21238 GATAGTGTAGAATCAAGTTTGTTCAAATCATGCTCCCCGGGGGTAGGGTGGGGCCACAATAGGGG
64 GGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGG
* *
21303 GATCATGTTTTACATAGGAATATATAGAGAACATCTTT
129 GATAAT-TTTTACATAGGAATATATAGAGAAAATCTTT
* * * * *
21341 AATAATCTTCTTCTCAAAAACGATTAGGCCAGAAAAGCTGAAATCAAAGTGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
* * * * * *
21406 TAGTGTAGATTCAGGTTTGTTCAAATCATAGTCCCTGGTGGTATGGTGGGGTCACAAT-GGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGG-
* *
21470 ATGGATTTTTACATAGGAATATATAGAAAAAATCTTT
130 AT-AATTTTTACATAGGAATATATAGAGAAAATCTTT
* ** *
21507 TAAAA---TCTTCTCAAAAACTACAAGGCCAGGAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
* * * *
21569 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGTGGGTAGGGTGGAGCCACAATAAGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGGA
* *
21634 TCAAGTTTTACATGGGAATATAAATAGAGAAAATCTTT
131 T-AATTTTTACATAGGAATAT--ATAGAGAAAATCTTT
* * * *
21672 AACAATCTTCTTCTAAAAAACTTTTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCCCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
*
21737 TAGTGTAGCA-TCAAGTTTGTTCAAAGCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGG
66 TAGTGTAG-ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGG
* * *
21801 ATCATGTTTTGCATTGGAATATATAGAGAAAATCTTT
130 ATAAT-TTTTACATAGGAATATATAGAGAAAATCTTT
** * * *
21838 AAATTTCTTCCTCTCAAAAACTATTAGGCCTGAAAAGCTCAAATTAAAATGGAAGCATCCCCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
* * * *
21903 TAGTGTAGAATCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCATACTTGGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGGA
* * ** *
21968 TCAAGTTTTACAAAGGAATATATAGAGAATTTTTTT
131 T-AATTTTTACATAGGAATATATAGAGAAAATCTTT
* *
22004 AAAAATCTACTTCTCAAAAACTA-TAGGGCCAGAAAAGCTCAATTTAAAATGGAAGCATCCTCAG
1 AAAAATCTTCTTCTCAAAAACTATTA-GGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAG
* * * *
22068 GTAGTGTAGTTTTAAGTTTGTTCAAATCATAGTCCCTGGGGGTAGGGTGGGGCCACAAT
65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAT
22127 NNNNNNNNNN
Statistics
Matches: 1926, Mismatches: 285, Indels: 138
0.82 0.12 0.06
Matches are distributed among these distances:
156 87 0.05
157 37 0.02
158 3 0.00
163 121 0.06
164 6 0.00
165 211 0.11
166 1009 0.52
167 59 0.03
168 236 0.12
169 7 0.00
170 1 0.00
171 3 0.00
172 3 0.00
174 28 0.01
175 105 0.05
176 10 0.01
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (165 bp):
AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGGA
TAATTTTTACATAGGAATATATAGAGAAAATCTTT
Found at i:20493 original size:331 final size:331
Alignment explanation
Indices: 19674--22126 Score: 2656
Period size: 331 Copynumber: 7.4 Consensus size: 331
19664 ATTTGTTGGT
* * * * * * *** *
19674 ATTTTTCAAAAATCTTCTTCTCAAAACCTTTTCGGCCTGAAAAGCTTAAACTT-GTGTGGAGGCA
1 ATTTTTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TTAAAATGGAAGCA
* * * *
19738 TCCGT-AGGTAGTGTAAATTCAAGTTTGTTCAAATCATGGTCCCCGTGGGTAGGGTGAGACCACA
65 TCC-TCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACA
* ** * *
19802 ACAGGGGGATCAACTTTTACATTGGAATATATAGAGAACATCTTTAATAA-TCTTCTTCTCAAAA
129 ATAGGGGGATCATGTTTTACATAGGAATATATAGAGAAAATCTTTAA-AATTCTTCTTCTCAAAA
* * * *
19866 ACTATAAGGCCAGAAAAGCTCAAATTAAAATGGGAGCATCCTCAGATAATGTAGATTCAAGTTTG
193 ACTATAAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGAATCAAGTTTG
* * * * * * ** *
19931 TTCAAATCATAGTCCCTGGTGGTATGGTGGGGTCACAATTGGGGAATGGATTTTTACATAGGAAT
258 TTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGAAT
19996 ATATAGAAAAA
323 ATATAG--AAA
* *
20007 ATCTTTT-AAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTAAAATGGAAGCAT
1 ATTTTTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCAT
* * * *
20071 CCCCAGGTAGTGTAGCA-TCACGTTTGTTCAAAGCATGGTCCCCGGGGGTAGGGTGGAGCCACAA
66 CCTCAGGTAGTGTAG-ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAA
*
20135 TAGGGGGATCATGTTTTGCATAGGAATATATAGAGAAAATCTTTAAAATTCTTCTTCTCAAAAAC
130 TAGGGGGATCATGTTTTACATAGGAATATATAGAGAAAATCTTTAAAATTCTTCTTCTCAAAAAC
* * *
20200 TATAGGGCCTGAAAAGCTCAAATTAAAATGGAAGCATCCCCAGGTAGTGTAGAATCAAGTTTGTT
195 TATAAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGAATCAAGTTTGTT
* *
20265 CAAATCATGGTCCCCGGGGGTAGGGTGGGGCCATACTTGGGGGATCAAGTTTTACATAGGAATAT
260 CAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGAATAT
20330 ATAGAAA
325 ATAGAAA
* *
20337 TTTTTTTAAAAATCTTCTTCTCAAAAACTA-TAGGGCCAGAAAAGCTCAATTTAAAATGGAAGCA
1 ATTTTTTAAAAATCTTCTTCTCAAAAACTATTA-GGCCAGAAAAGCTCAAATTAAAATGGAAGCA
* * * *
20401 TCCTCAGGTAGTGTAGTTTTAAGTTTGTTCAAATCATAGTCCCTGGGGGTAGGGTGGGGCCACAA
65 TCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAA
* * *
20466 TAGGGGGATCATGTTTTGCATAGGAATATGTAGAGAAAATCTTAAAAATTCTTCTTCTCAAAAAC
130 TAGGGGGATCATGTTTTACATAGGAATATATAGAGAAAATCTTTAAAATTCTTCTTCTCAAAAAC
* * ** * * *
20531 TATAAGGTCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTCAGGTAGTATAGAATCAAGTTTTTT
195 TATAAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGAATCAAGTTTGTT
** * *
20596 CAAATCATGGTAACTGAGGGTAGGGTGGGGCCACAA-TGATGGGG-TCAAGTTTTACATACGCAT
260 CAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTG--GGGGATCAAG-TTT---TA--CA-
20659 GTAGGAATATATAGTGAAA
316 -TAGGAATATATA--GAAA
* * * * ** *
20678 ATCTTTAAAAAATCTTCTTCTCAAAAGCTATTAGGCCAGGAAAGCTCAAATTTGAGTGGGAA-CA
1 ATTTTTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAAT-GGAAGCA
* * * * * * **
20742 TCCTCAGATAGTGTAGAATCAAGTTTCTTCAAATCGTGGTTCTCGAAGGTAGGGTGGGGCCACAA
65 TCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAA
* * *** *
20807 TTA-GGGGATACAT-TTTTAACCAT--GAATATAAAGAGAAAATCTTGAAAAAAAGTTCTT-TGA
130 -TAGGGGGAT-CATGTTTT-A-CATAGGAATATATAGAGAAAATCTT-TAAAATTCTTCTTCTCA
** **** * * * * *
20867 AAAACTATTTGGCCA-AGAAAGCTCAAATTGGCGTGTAACCATCCTCAGATAATGTAGATTCAAG
190 AAAACTATAAGGCCAGA-AAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGAATCAAG
* ** * *
20931 TTTTTTCAAATCATGGTCCCCGGGGAAAGGGTGGGGCCACAA-TGGGGGAT-AA-ATGTA-A-A-
254 TTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAG
* *
20990 -TATATAGAGAAA
319 GAATATATAGAAA
* * * * * * * *** *
21002 ATCTTTAAAAAACCTT-TTCT-TAAAACAATTAGGCCTGAAAAGCTTAAACTT-GTGTGGAGGCA
1 ATTTTTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TTAAAATGGAAGCA
* **
21064 TCCTCAGGTAGTGTAGATTCAAATTTGTTCAAATCATGGTCCCCGTTGGTAGGGTGGGGCCACAA
65 TCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAA
* ** * * *
21129 CAGGGGGATCAAATTTTACATTGGAATTTATAGAGAAAAATCTTTTAAAAATCTTCTTCTCAAAA
130 TAGGGGGATCATGTTTTACATAGGAATATATAGAG-AAAATC-TTTAAAATTCTTCTTCTCAAAA
* * ** * * *
21194 ACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGGAA-CAAT-CTAAGATAGTGTAGAATCAAGTT
193 ACTATAAGGCCAGAAAAGCTCAAATTAAAAT-GGAAGC-ATCCTCAGGTAGTGTAGAATCAAGTT
* * *
21257 TGTTCAAATCATGCTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGGATCATGTTTTACATAGGA
256 TGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGA
21322 ATATATAGAGAA
321 ATATATAGA-AA
* * * * * *
21334 CA-TCTTTAATAATCTTCTTCTCAAAAACGATTAGGCCAGAAAAGCTGAAATCAAAGTGGAAGCA
1 -ATTTTTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCA
* * * * * *
21398 TCCTCAGGTAGTGTAGATTCAGGTTTGTTCAAATCATAGTCCCTGGTGGTATGGTGGGGTCACAA
65 TCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAA
* *
21463 T-GGGGGAATGGAT-TTTTACATAGGAATATATAGAAAAAATCTTTTAAAA----TCTTCTCAAA
130 TAGGGGG-AT-CATGTTTTACATAGGAATATATAGAGAAAATC-TTTAAAATTCTTCTTCTCAAA
* * *
21522 AACTACAAGGCCAGGAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTT
192 AACTATAAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGAATCAAGTTT
* * * ** *
21587 GTTCAAATCATGGTCCCTGTGGGTAGGGTGGAGCCACAATAAGGGGATCAAGTTTTACATGGGAA
257 GTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGAA
21652 TATAAATAGAGAA
322 TAT--ATAGA-AA
* * * * *
21665 AATCTTTAACAATCTTCTTCTAAAAAACTTTTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCAT
1 ATTTTTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCAT
* *
21730 CCCCAGGTAGTGTAGCA-TCAAGTTTGTTCAAAGCATGGTCCCCGGGGGTAGGGTGGGGCCACAA
66 CCTCAGGTAGTGTAG-ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAA
* * * *
21794 TAGGGGGATCATGTTTTGCATTGGAATATATAGAGAAAATCTTTAAATTTCTTCCTCTCAAAAAC
130 TAGGGGGATCATGTTTTACATAGGAATATATAGAGAAAATCTTTAAAATTCTTCTTCTCAAAAAC
* * *
21859 TATTAGGCCTGAAAAGCTCAAATTAAAATGGAAGCATCCCCAGGTAGTGTAGAATCAAGTTTGTT
195 TATAAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGAATCAAGTTTGTT
* * *
21924 CAAATCATGGTCCCCGGGGGTAGGGTGGGGCCATACTTGGGGGATCAAGTTTTACAAAGGAATAT
260 CAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGAATAT
21989 ATAGAGAA
325 ATAGA-AA
* * *
21997 TTTTTTTAAAAATCTACTTCTCAAAAACTA-TAGGGCCAGAAAAGCTCAATTTAAAATGGAAGCA
1 ATTTTTTAAAAATCTTCTTCTCAAAAACTATTA-GGCCAGAAAAGCTCAAATTAAAATGGAAGCA
* * * *
22061 TCCTCAGGTAGTGTAGTTTTAAGTTTGTTCAAATCATAGTCCCTGGGGGTAGGGTGGGGCCACAA
65 TCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAA
22126 T
130 T
22127 NNNNNNNNNN
Statistics
Matches: 1793, Mismatches: 259, Indels: 137
0.82 0.12 0.06
Matches are distributed among these distances:
320 3 0.00
321 7 0.00
322 103 0.06
323 22 0.01
324 109 0.06
325 12 0.01
326 7 0.00
327 3 0.00
328 8 0.00
329 121 0.07
330 21 0.01
331 421 0.23
332 413 0.23
333 31 0.02
334 240 0.13
335 3 0.00
337 3 0.00
339 18 0.01
340 1 0.00
341 223 0.12
342 21 0.01
343 3 0.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (331 bp):
ATTTTTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCAT
CCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAT
AGGGGGATCATGTTTTACATAGGAATATATAGAGAAAATCTTTAAAATTCTTCTTCTCAAAAACT
ATAAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGAATCAAGTTTGTTC
AAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGAATATA
TAGAAA
Found at i:20621 original size:497 final size:495
Alignment explanation
Indices: 19743--22126 Score: 2720
Period size: 497 Copynumber: 4.8 Consensus size: 495
19733 AGGCATCCGT
* * * *
19743 AGGTAGTGTA-AATTCAAGTTTGTTCAAATCATGGTCCCCGTGGGTAGGGTGAGACCACAACAGG
1 AGGTAGTGTAGAA-TCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGG
* * * *
19807 GGGATCAACTTTTACATTGGAATATATAGAGAACATCTTTAATAATCTTCTTCTCAAAAACTATA
65 GGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTAT-
* * *
19872 AGGCCAGAAAAGCTCAAATTAAAATGGGAGCATCCTCAGATAATGTAGATTCAAGTTTGTTCAAA
129 AGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAA
* * * * *
19937 TCATAGTCCCTGGTGGTATGGTGGGGTCACAATTGGGGAATGGATTTTTACATAGGAATATATAG
194 TCATAGTCCCTGGGGGTAGGGTGGGGCCACAA-TGGGGGAT-CATTTTTACATAGGAATATATAG
* * * *
20002 AAAAAATCTTTTAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTAAAATGGAA
257 AGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATAAGGCCAGGAAAGCTCAAATTTAAATGGAA
* * * * *
20067 GCATCCCCAGGTAGTGTAGCA-TCACGTTTGTTCAAAGCATGGTCCCCGGGGGTAGGGTGGAGCC
322 GCATCCTCAGGTAGTGTAG-ATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGTGGGGCC
* * *
20131 ACAATAGGGGGATCATGTTTTGCATAGGAATATATAGAGAAAATCTTTAAAATTCTTCTTCTCAA
386 ACAATAGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAA
*
20196 AAACTA-TAGGGCCTGAAAAGCTCAAATTAAAAT-GGAAGCATCCCC
451 AAACTATTA-GGCCAGAAAAGCTCAAATTAAAATGGGAA-CATCCCC
* * *
20241 AGGTAGTGTAGAATCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCATACTTGGG
1 AGGTAGTGTAGAATCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGG
** *
20306 GGATCAAGTTTTACATAGGAATATATAGA-AATTTTTTTAAAAATCTTCTTCTCAAAAACTATAG
66 GGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATA-
* * *
20370 GGCCAGAAAAGCTCAATTTAAAATGGAAGCATCCTCAGGTAGTGTAGTTTTAAGTTTGTTCAAAT
130 GGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAAT
* *
20435 CATAGTCCCTGGGGGTAGGGTGGGGCCACAATAGGGGGATCATGTTTTGCATAGGAATATGTAGA
195 CATAGTCCCTGGGGGTAGGGTGGGGCCACAAT-GGGGGATCAT-TTTTACATAGGAATATATAGA
* * *
20500 GAAAATC-TTAAAAATTCTTCTTCTCAAAAACTATAAGGTCAGGAAAGCTCAAATTTGAGTGGAA
258 GAAAATCTTTAAAAA-TCTTCTTCTCAAAAACTATAAGGCCAGGAAAGCTCAAATTTAAATGGAA
* * * ** *
20564 GCATCCTCAGGTAGTATAGAATCAAGTTTTTTCAAATCATGGTAACTGAGGGTAGGGTGGGGCCA
322 GCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGTGGGGCCA
* *
20629 CAATGATGGGG-TCAAGTTTTACATACGCATGTAGGAATATATAGTGAAAATCTTTAAAAAATCT
387 CAAT-AGGGGGATCAAG-TTT---TA--CA--TAGGAATATATAGAGAAAATCTTT-AAAAATCT
* * ** * *
20693 TCTTCTCAAAAGCTATTAGGCCAGGAAAGCTCAAATTTGAGTGGGAACATCCTC
442 TCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGGAACATCCCC
* * * * * **
20747 AGATAGTGTAGAATCAAGTTTCTTCAAATCGTGGTTCTCGAAGGTAGGGTGGGGCCACAATTA-G
1 AGGTAGTGTAGAATCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAA-TAGG
* * * ** *
20811 GGGAT-ACATTTTTAACCAT--GAATATAAAGAGAAAATCTTGAAAAAAAGTTCTT-TGAAAAAC
65 GGGATCA-AGTTTT-A-CATAGGAATATATAGAGAAAATCTT-TAAAAATCTTCTTCTCAAAAAC
* **** * * * * *
20872 TATTTGGCCA-AGAAAGCTCAAATTGGCGTGTAACCATCCTCAGATAATGTAGATTCAAGTTTTT
126 TA-TAGGCCAGA-AAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGT
* * ** *
20936 TCAAATCATGGTCCCCGGGGAAAGGGTGGGGCCACAATGGGGGAT-A-----A-AT-GTAAATAT
189 TCAAATCATAGTCCCTGGGGGTAGGGTGGGGCCACAATGGGGGATCATTTTTACATAG-GAATAT
* * * * * * * * ***
20993 ATAGAGAAAATCTTTAAAAAACCTT-TTCT-TAAAACAATTAGGCCTGAAAAGCTTAAACTTGTG
253 ATAGAGAAAATCTTT-AAAAATCTTCTTCTCAAAAACTATAAGGCCAGGAAAGCTCAAATTTAAA
* * * **
21056 TGGAGGCATCCTCAGGTAGTGTAGATTCAAATTTGTTCAAATCATGGTCCCCGTTGGTAGGGTGG
317 TGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGTGG
* * * *
21121 GGCCACAACAGGGGGATCAAATTTTACATTGGAATTTATAGAGAAAAATCTTTTAAAAATCTTCT
382 GGCCACAATAGGGGGATCAAGTTTTACATAGGAATATATAGAG-AAAATC-TTTAAAAATCTTCT
* ** * **
21186 TCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGGAACAAT-CTA
445 TCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGGAAC-ATCCCC
* *
21237 AGATAGTGTAGAATCAAGTTTGTTCAAATCATGCTCCCCGGGGGTAGGGTGGGGCCACAATAGGG
1 AGGTAGTGTAGAATCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGG
* * * *
21302 GGATCATGTTTTACATAGGAATATATAGAGAACATCTTTAATAATCTTCTTCTCAAAAACGATTA
66 GGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTA-TA
* * * *
21367 GGCCAGAAAAGCTGAAATCAAAGTGGAAGCATCCTCAGGTAGTGTAGATTCAGGTTTGTTCAAAT
130 GGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAAT
* * * *
21432 CATAGTCCCTGGTGGTATGGTGGGGTCACAATGGGGGAATGGATTTTTACATAGGAATATATAGA
195 CATAGTCCCTGGGGGTAGGGTGGGGCCACAATGGGGG-AT-CATTTTTACATAGGAATATATAGA
* * * *
21497 AAAAATCTTTTAAAA---TCTTCTCAAAAACTACAAGGCCAGGAAAGCTCAAATTAAAATGGAAG
258 GAAAATCTTTAAAAATCTTCTTCTCAAAAACTATAAGGCCAGGAAAGCTCAAATTTAAATGGAAG
* *
21559 CATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGTGGGTAGGGTGGAGCCAC
323 CATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGTGGGGCCAC
* * * *
21624 AATAAGGGGATCAAGTTTTACATGGGAATATAAATAGAGAAAATCTTTAACAATCTTCTTCTAAA
388 AATAGGGGGATCAAGTTTTACATAGGAATAT--ATAGAGAAAATCTTTAAAAATCTTCTTCTCAA
*
21689 AAACTTTTAGGCCAGAAAAGCTCAAATTAAAAT-GGAAGCATCCCC
451 AAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGGAA-CATCCCC
* *
21734 AGGTAGTGTAGCATCAAGTTTGTTCAAAGCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGG
1 AGGTAGTGTAGAATCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGG
* * * ** *
21799 GGATCATGTTTTGCATTGGAATATATAGAGAAAATCTTTAAATTTCTTCCTCTCAAAAACTATTA
66 GGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTA-TA
* * *
21864 GGCCTGAAAAGCTCAAATTAAAATGGAAGCATCCCCAGGTAGTGTAGAATCAAGTTTGTTCAAAT
130 GGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAAT
* * * * * *
21929 CATGGTCCCCGGGGGTAGGGTGGGGCCATACTTGGGGGATCAAGTTTTACAAAGGAATATATAGA
195 CATAGTCCCTGGGGGTAGGGTGGGGCCACA-ATGGGGGATC-ATTTTTACATAGGAATATATAGA
** * * * *
21994 GAATTTTTTTAAAAATCTACTTCTCAAAAACTATAGGGCCAGAAAAGCTC-AATTTAAAATGGAA
258 GAAAATCTTTAAAAATCTTCTTCTCAAAAACTATAAGGCCAGGAAAGCTCAAATTT-AAATGGAA
* * *
22058 GCATCCTCAGGTAGTGTAGTTTTAAGTTTGTTCAAATCATAGTCCCTGGGGGTAGGGTGGGGCCA
322 GCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGTGGGGCCA
22123 CAAT
387 CAAT
22127 NNNNNNNNNN
Statistics
Matches: 1589, Mismatches: 236, Indels: 120
0.82 0.12 0.06
Matches are distributed among these distances:
488 3 0.00
489 24 0.02
490 236 0.15
491 11 0.01
493 3 0.00
495 1 0.00
496 29 0.02
497 740 0.47
498 129 0.08
499 38 0.02
500 106 0.07
501 1 0.00
503 2 0.00
505 25 0.02
506 126 0.08
507 101 0.06
508 14 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (495 bp):
AGGTAGTGTAGAATCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGG
GGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATAG
GCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATC
ATAGTCCCTGGGGGTAGGGTGGGGCCACAATGGGGGATCATTTTTACATAGGAATATATAGAGAA
AATCTTTAAAAATCTTCTTCTCAAAAACTATAAGGCCAGGAAAGCTCAAATTTAAATGGAAGCAT
CCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGTGGGGCCACAAT
AGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACT
ATTAGGCCAGAAAAGCTCAAATTAAAATGGGAACATCCCC
Found at i:41198 original size:2 final size:2
Alignment explanation
Indices: 41191--41233 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
41181 NNNNNNNNNN
41191 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
41233 T
1 T
41234 TTTTTGATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:45420 original size:2 final size:2
Alignment explanation
Indices: 45413--45454 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
45403 AACACCTTAC
45413 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
45455 GCGTTTAGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:50878 original size:67 final size:67
Alignment explanation
Indices: 50776--50911 Score: 236
Period size: 67 Copynumber: 2.0 Consensus size: 67
50766 AATATTAATT
50776 GGAACACCAACTGGTTGCCAAGTTGATCAGTAAAAAAAATATATGCATATGTACTTGATATTATA
1 GGAACACCAACTGGTTGCCAAGTTGATCAGTAAAAAAAATATATGCATATGTACTTGATATTATA
50841 AA
66 AA
* ** *
50843 GGAACACCAATTGGTTGTTAATTTGATCAGTAAAAAAAATATATGCATATGTACTTGATATTATA
1 GGAACACCAACTGGTTGCCAAGTTGATCAGTAAAAAAAATATATGCATATGTACTTGATATTATA
50908 AA
66 AA
50910 GG
1 GG
50912 CATAAACAGA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (67 bp):
GGAACACCAACTGGTTGCCAAGTTGATCAGTAAAAAAAATATATGCATATGTACTTGATATTATA
AA
Found at i:69574 original size:22 final size:22
Alignment explanation
Indices: 69549--69592 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
69539 GGAAAACCTA
*
69549 TTTTC-TATCAGTATATTGCACC
1 TTTTCATATCAG-ATAATGCACC
69571 TTTTCAATATCAGATAATGCAC
1 TTTTC-ATATCAGATAATGCAC
69593 TTTATTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 8 0.42
24 6 0.32
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (22 bp):
TTTTCATATCAGATAATGCACC
Found at i:82991 original size:15 final size:15
Alignment explanation
Indices: 82967--83003 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
82957 CAGGCTTAAT
82967 TGTG-TATTATCTTG
1 TGTGATATTATCTTG
82981 TGTGATATTATCTTG
1 TGTGATATTATCTTG
*
82996 TGTAATAT
1 TGTGATAT
83004 ACTAGTGTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.22, C:0.05, G:0.19, T:0.54
Consensus pattern (15 bp):
TGTGATATTATCTTG
Found at i:88952 original size:17 final size:17
Alignment explanation
Indices: 88930--88963 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
88920 TGGCTTATCG
*
88930 GATATATATTTACGGAT
1 GATATACATTTACGGAT
88947 GATATACATTTACGGAT
1 GATATACATTTACGGAT
88964 TACCAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (17 bp):
GATATACATTTACGGAT
Found at i:101592 original size:100 final size:100
Alignment explanation
Indices: 101419--101708 Score: 519
Period size: 100 Copynumber: 2.9 Consensus size: 100
101409 GCACAGACAA
* * *
101419 ATTCAGGATGACCTCTACTGGAACCTGCACCAAGTTCTTCATCTATGATAAAAGAGAAGTACAAG
1 ATTCAGGATGACTTCTACAGGAACCTGCACCAAGTTCTTCATCTATGATAAAAGAGCAGTACAAG
101484 GGAGATAACTCTCTACTACAATAATACAGGCACAG
66 GGAGATAACTCTCTACTACAATAATACAGGCACAG
101519 ATTCAGGATGACTTCTACAGGAACCTGCACCAAGTTCTTCATCTATGATAAAAGAGCAGTACAAG
1 ATTCAGGATGACTTCTACAGGAACCTGCACCAAGTTCTTCATCTATGATAAAAGAGCAGTACAAG
*
101584 GGAGATAACTCTCTACTACAATAATACGGGCACAG
66 GGAGATAACTCTCTACTACAATAATACAGGCACAG
*
101619 ATTCAGGATGACTTCTACAGGAACCTGCACCAAGTTCTTCATCTACGATAAAAGAGCAAG-ACAA
1 ATTCAGGATGACTTCTACAGGAACCTGCACCAAGTTCTTCATCTATGATAAAAGAGC-AGTACAA
101683 GGGAGATAACTCTCTACTACAATAAT
65 GGGAGATAACTCTCTACTACAATAAT
101709 GTAGGAAGTT
Statistics
Matches: 184, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
100 182 0.99
101 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (100 bp):
ATTCAGGATGACTTCTACAGGAACCTGCACCAAGTTCTTCATCTATGATAAAAGAGCAGTACAAG
GGAGATAACTCTCTACTACAATAATACAGGCACAG
Found at i:109038 original size:36 final size:36
Alignment explanation
Indices: 108988--109059 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
108978 GACCGACTAC
108988 CTCACCGACATCATAGTAAGTCAGTCACCCCCGCCA
1 CTCACCGACATCATAGTAAGTCAGTCACCCCCGCCA
*
109024 CTCACCGACGTCATAGTAAGTCAGTCACCCCCGCCA
1 CTCACCGACATCATAGTAAGTCAGTCACCCCCGCCA
109060 TTCCTACACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.42, G:0.15, T:0.17
Consensus pattern (36 bp):
CTCACCGACATCATAGTAAGTCAGTCACCCCCGCCA
Found at i:112016 original size:2 final size:2
Alignment explanation
Indices: 112009--112052 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
111999 CATGTATGAT
112009 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
112051 GA
1 GA
112053 ATTTCGTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:119964 original size:50 final size:51
Alignment explanation
Indices: 119809--120024 Score: 317
Period size: 51 Copynumber: 4.2 Consensus size: 51
119799 CATGTACAAT
* * *
119809 CAAACAATTGGTTACTCTGAGTCAATTTTAACTTAAACAAATTCTCAATGCTTA
1 CAAACAATTGGTTACTCTGAGTC-A--GTAACTTAAACAAATTCTCTATGCTGA
* * *
119863 CAAACGATTGGTTACTCTGATTCAGTAACTTAAACAAATTCTCTATACTGA
1 CAAACAATTGGTTACTCTGAGTCAGTAACTTAAACAAATTCTCTATGCTGA
* *
119914 CAAACAAATGGTTACTC-GAGTCAGTAACTTAAACAAATTCTGTATGCTGA
1 CAAACAATTGGTTACTCTGAGTCAGTAACTTAAACAAATTCTCTATGCTGA
*
119964 CAAACAATTGGTTACTCTGAGTCAGTAACTTAAACAAATTCTCTATGCTAA
1 CAAACAATTGGTTACTCTGAGTCAGTAACTTAAACAAATTCTCTATGCTGA
120015 CAAACAATTG
1 CAAACAATTG
120025 AAAATAATCA
Statistics
Matches: 147, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
50 46 0.31
51 79 0.54
53 1 0.01
54 21 0.14
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (51 bp):
CAAACAATTGGTTACTCTGAGTCAGTAACTTAAACAAATTCTCTATGCTGA
Found at i:119989 original size:101 final size:104
Alignment explanation
Indices: 119809--120021 Score: 315
Period size: 101 Copynumber: 2.1 Consensus size: 104
119799 CATGTACAAT
* * * *
119809 CAAACAATTGGTTACTCTGAGTCAATTTTAACTTAAACAAATTCTCAATGCTTACAAACGATTGG
1 CAAACAAATGGTTACTCTGAGTCAA-TGTAACTTAAACAAATTCTCAATGCTGACAAACAATTGG
* *
119874 TTACTCTGATTCAGTAACTTAAACAAATTCTCTATACTGA
65 TTACTCTGAGTCAGTAACTTAAACAAATTCTCTATACTAA
**
119914 CAAACAAATGGTTACTC-GAGTC-A-GTAACTTAAACAAATTCTGTATGCTGACAAACAATTGGT
1 CAAACAAATGGTTACTCTGAGTCAATGTAACTTAAACAAATTCTCAATGCTGACAAACAATTGGT
*
119976 TACTCTGAGTCAGTAACTTAAACAAATTCTCTATGCTAA
66 TACTCTGAGTCAGTAACTTAAACAAATTCTCTATACTAA
120015 CAAACAA
1 CAAACAA
120022 TTGAAAATAA
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
101 77 0.78
103 1 0.01
104 5 0.05
105 16 0.16
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (104 bp):
CAAACAAATGGTTACTCTGAGTCAATGTAACTTAAACAAATTCTCAATGCTGACAAACAATTGGT
TACTCTGAGTCAGTAACTTAAACAAATTCTCTATACTAA
Found at i:124335 original size:2 final size:2
Alignment explanation
Indices: 124328--124438 Score: 160
Period size: 2 Copynumber: 58.0 Consensus size: 2
124318 GTTAAATAAT
124328 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * *
124370 GA GA GA GA GA GA GA -A AA AA GA GA GA -A GA -A GA -A AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
124408 -A GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
124439 AGCATTATTA
Statistics
Matches: 102, Mismatches: 2, Indels: 10
0.89 0.02 0.09
Matches are distributed among these distances:
1 5 0.05
2 97 0.95
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
GA
Found at i:128763 original size:32 final size:33
Alignment explanation
Indices: 128696--128773 Score: 122
Period size: 34 Copynumber: 2.4 Consensus size: 33
128686 GATTTTGGTC
128696 TCAATTTTCAACATTGAAAAATGACCCCCCCGGG
1 TCAATTTTCAACATTGAAAAATGA-CCCCCCGGG
* *
128730 TCAATATTCAACGTTGAAAAATGA-CCCCCGGG
1 TCAATTTTCAACATTGAAAAATGACCCCCCGGG
128762 TCAATTTTCAAC
1 TCAATTTTCAAC
128774 CCGGGTCAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 19 0.46
34 22 0.54
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (33 bp):
TCAATTTTCAACATTGAAAAATGACCCCCCGGG
Found at i:135075 original size:42 final size:42
Alignment explanation
Indices: 135030--135256 Score: 170
Period size: 42 Copynumber: 5.4 Consensus size: 42
135020 GCAACTTATG
* * *
135030 AGTTGCATGTCAACATATTTATCTCGCATGTGAACATAATTG
1 AGTTGCATGTCAACATATTTAACTCGCATGTGAACATAAATA
** ** * * * *
135072 AGTTGCATGTTGACATAAATAAGTAGCTTGTGAACATAACTA
1 AGTTGCATGTCAACATATTTAACTCGCATGTGAACATAAATA
** * *
135114 AACTGCATGTC-ACTATATTTACCTCGCATGTTAACATAAATA
1 AGTTGCATGTCAAC-ATATTTAACTCGCATGTGAACATAAATA
* * *** * * *
135156 AGTTGCACGTGAACATAACAAAGTTGCATGTTG-ACATAAACA
1 AGTTGCATGTCAACATATTTAACTCGCATG-TGAACATAAATA
* * * *
135198 AGTTGCATGTCAGCATATTTATCTTGCATGTTAACATAAATA
1 AGTTGCATGTCAACATATTTAACTCGCATGTGAACATAAATA
*
135240 AGTTGCATGTCGACATA
1 AGTTGCATGTCAACATA
135257 AATAAGTTGC
Statistics
Matches: 136, Mismatches: 45, Indels: 8
0.72 0.24 0.04
Matches are distributed among these distances:
41 3 0.02
42 130 0.96
43 3 0.02
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (42 bp):
AGTTGCATGTCAACATATTTAACTCGCATGTGAACATAAATA
Found at i:135079 original size:21 final size:21
Alignment explanation
Indices: 135028--135110 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 21
135018 ATGCAACTTA
*
135028 TGAGTTGCATGTCAACAT-AT
1 TGAGTTGCATGTGAACATAAT
*
135048 TTA-TCTCGCATGTGAACATAAT
1 TGAGT-T-GCATGTGAACATAAT
*
135070 TGAGTTGCATGTTG-ACATAAA
1 TGAGTTGCATG-TGAACATAAT
* * *
135091 TAAGTAGCTTGTGAACATAA
1 TGAGTTGCATGTGAACATAA
135111 CTAAACTGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
19 1 0.02
20 5 0.10
21 36 0.72
22 7 0.14
23 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (21 bp):
TGAGTTGCATGTGAACATAAT
Found at i:135172 original size:21 final size:21
Alignment explanation
Indices: 135055--135268 Score: 141
Period size: 21 Copynumber: 10.2 Consensus size: 21
135045 TATTTATCTC
* *
135055 GCATGTGAACATAATTGAGTT
1 GCATGTGAACATAAATAAGTT
*
135076 GCATGTTG-ACATAAATAAGTA
1 GCATG-TGAACATAAATAAGTT
* * **
135097 GCTTGTGAACATAACTAAACT
1 GCATGTGAACATAAATAAGTT
* ** ** *
135118 GCATGT-CACTATATTTACCTC
1 GCATGTGAAC-ATAAATAAGTT
*
135139 GCATGTTAACATAAATAAGTT
1 GCATGTGAACATAAATAAGTT
*
135160 GCACGTGAACATAACA-AAGTT
1 GCATGTGAACATAA-ATAAGTT
*
135181 GCATGTTG-ACATAAACAAGTT
1 GCATG-TGAACATAAATAAGTT
* * ** **
135202 GCATGTCAGCATATTTATCTT
1 GCATGTGAACATAAATAAGTT
*
135223 GCATGTTAACATAAATAAGTT
1 GCATGTGAACATAAATAAGTT
135244 GCATGTCG-ACATAAATAAGTT
1 GCATGT-GAACATAAATAAGTT
135265 GCAT
1 GCAT
135269 TTAGCATCTT
Statistics
Matches: 145, Mismatches: 39, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
20 6 0.04
21 132 0.91
22 7 0.05
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (21 bp):
GCATGTGAACATAAATAAGTT
Found at i:135193 original size:84 final size:82
Alignment explanation
Indices: 135033--135268 Score: 280
Period size: 84 Copynumber: 2.8 Consensus size: 82
135023 ACTTATGAGT
* * * *
135033 TGCATGTCAACATATTTATCTCGCATGTGAACATAATTGAGTTGCATGTTGACATAAATAAGTAG
1 TGCATGTC-ACATATTTATCTCGCATGTTAACATAAATAAGTTGCATG-TGACATAAATAAGTTG
*
135098 CTTGTGAACAT-AACTAAAC
64 CATGTGAACATAAAC-AAAC
* *
135117 TGCATGTCACTATATTTACCTCGCATGTTAACATAAATAAGTTGCACGTGAACATAACA-AAGTT
1 TGCATGTCAC-ATATTTATCTCGCATGTTAACATAAATAAGTTGCATGTG-ACATAA-ATAAGTT
**
135181 GCATGTTG-ACATAAACAAGT
63 GCATG-TGAACATAAACAAAC
*
135201 TGCATGTCAGCATATTTATCTTGCATGTTAACATAAATAAGTTGCATGTCGACATAAATAAGTTG
1 TGCATGTCA-CATATTTATCTCGCATGTTAACATAAATAAGTTGCATGT-GACATAAATAAGTTG
135266 CAT
64 CAT
135269 TTAGCATCTT
Statistics
Matches: 132, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
83 5 0.04
84 119 0.90
85 8 0.06
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (82 bp):
TGCATGTCACATATTTATCTCGCATGTTAACATAAATAAGTTGCATGTGACATAAATAAGTTGCA
TGTGAACATAAACAAAC
Found at i:135370 original size:21 final size:21
Alignment explanation
Indices: 135339--135397 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
135329 ATTGCAAATT
**
135339 TCTTGCATGTCAACATAGTTA
1 TCTTGCATGTCAACATAACTA
* * * *
135360 TGTTTCATGTCGACACAACTA
1 TCTTGCATGTCAACATAACTA
135381 TCTTGCATGTCAACATA
1 TCTTGCATGTCAACATA
135398 TTTGATAGAA
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (21 bp):
TCTTGCATGTCAACATAACTA
Found at i:135795 original size:13 final size:13
Alignment explanation
Indices: 135777--135801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
135767 GGCTGAAGCT
135777 AGCAGCCACTAAC
1 AGCAGCCACTAAC
135790 AGCAGCCACTAA
1 AGCAGCCACTAA
135802 GCCCATAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.36, G:0.16, T:0.08
Consensus pattern (13 bp):
AGCAGCCACTAAC
Found at i:137362 original size:16 final size:16
Alignment explanation
Indices: 137329--137367 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
137319 AAAAAGACTA
* *
137329 ACAAACAGACGGACGG
1 ACAAACAGACAGAAGG
*
137345 ACCAACAGACAGAAGG
1 ACAAACAGACAGAAGG
137361 ACAAACA
1 ACAAACA
137368 TAACAGAGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.26, G:0.23, T:0.00
Consensus pattern (16 bp):
ACAAACAGACAGAAGG
Found at i:137379 original size:2 final size:2
Alignment explanation
Indices: 137372--137412 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
137362 CAAACATAAC
137372 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
137413 TAGATTGACC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:142702 original size:96 final size:98
Alignment explanation
Indices: 142513--142705 Score: 277
Period size: 96 Copynumber: 2.0 Consensus size: 98
142503 GTATTATAGC
* * *
142513 ATACATTTCATTAAAAAAAGCCAATGAATTTTCACCCTAGCATTGTTTCTTCATTTCCGTCGAGC
1 ATACATTTCATTAAAAAAAGCCAATGAATTTTCACCCTAGCATTGTTTCATAATTTCCGTCAAGC
* *
142578 GGAATAGAAAGTATGCCAGACAATAAGAACTAT
66 AGAATAGAAAGAATGCCAGACAATAAGAACTAT
* *
142611 ATACATTTCA-T-AAAAGAG-CATATGAATTTTCACCCTAGTATTGTTTCATAATTTCCGTCAAG
1 ATACATTTCATTAAAAAAAGCCA-ATGAATTTTCACCCTAGCATTGTTTCATAATTTCCGTCAAG
142673 CAGAATAGAAAGAATGCCAGAC-ATAAAGAACTA
65 CAGAATAGAAAGAATGCCAGACAAT-AAGAACTA
142706 CAATGAACAT
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
95 4 0.05
96 71 0.83
97 1 0.01
98 10 0.12
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (98 bp):
ATACATTTCATTAAAAAAAGCCAATGAATTTTCACCCTAGCATTGTTTCATAATTTCCGTCAAGC
AGAATAGAAAGAATGCCAGACAATAAGAACTAT
Found at i:149726 original size:2 final size:2
Alignment explanation
Indices: 149719--149743 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
149709 ACTGGCTTAG
149719 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
149744 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:151838 original size:4 final size:4
Alignment explanation
Indices: 151831--151989 Score: 275
Period size: 4 Copynumber: 39.8 Consensus size: 4
151821 CAAACAAAAC
151831 ATAG ATAG ATAG ATCA- ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG AT-AG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
*
151879 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG AAAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
* *
151927 ATAG AAAG ATAG ATAG ATAG ATAG AAAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
151975 ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATA
151990 TTGACAAGTG
Statistics
Matches: 147, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
3 1 0.01
4 145 0.99
5 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.24, T:0.23
Consensus pattern (4 bp):
ATAG
Found at i:153017 original size:12 final size:12
Alignment explanation
Indices: 153000--153025 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
152990 ATTGGTCGGG
153000 TTATTTATTTGT
1 TTATTTATTTGT
153012 TTATTTATTTGT
1 TTATTTATTTGT
153024 TT
1 TT
153026 TCATTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTATTTATTTGT
Found at i:154529 original size:2 final size:2
Alignment explanation
Indices: 154516--154552 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
154506 ATTCAGTGGT
* *
154516 AG AG AG AA AG AG AG AG AG AG AG AG TG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
154553 TTGTTTTTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.46, T:0.03
Consensus pattern (2 bp):
AG
Found at i:172055 original size:10 final size:10
Alignment explanation
Indices: 172040--172071 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
172030 TCTTTGTCTC
172040 TTACTTTTAA
1 TTACTTTTAA
172050 TTACTTTTAA
1 TTACTTTTAA
172060 TTACTTTTAA
1 TTACTTTTAA
172070 TT
1 TT
172072 CAAATTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.62
Consensus pattern (10 bp):
TTACTTTTAA
Found at i:175323 original size:166 final size:163
Alignment explanation
Indices: 174960--175345 Score: 508
Period size: 166 Copynumber: 2.3 Consensus size: 163
174950 TTATAGATAA
* *
174960 CACATACTTTGTATCTACACTACCTGA-G-GCTTTCACAAAAGTTTCAGCTTTCCTGGCTGATTA
1 CACA-ACTTTGTATCTACACTACCTGAGGTGCTTCCACAAAAGTTTCAGATTTCCTGGCTGATTA
* * * * *
175023 GTTTCTGAGAAGAAGATTTTTAAGGTATACTCTAGGTATTCATATGTTAAACTTCGACCCTCATT
65 GTTTCTGAAAAGAAGATTTTTAAGATATACTCTAGATATACATATGTTAAACTTCGACCCCCATT
** *
175088 GTCGCCCCACTGTACCCCCGGGGGTCATGATTTT
130 GTCGCCCCACCCTACCCCCGGGGGTCATGAATTT
* * * *
175122 CACAACTTTGAATTTACACTATCTGAGGATGCTTCCACAAAAGTGTCAGATTTCCTAGGC-GATT
1 CACAACTTTGTATCTACACTACCTGAGG-TGCTTCCACAAAAGTTTCAGATTTCCT-GGCTGATT
*
175186 AGTTTCTGAAAAGAAGATTTTTAAAGATATACTCTATATATACATATGTTAAACTTCGACCCCCC
64 AGTTTCTGAAAAGAAGATTTTT-AAGATATACTCTAGATATACATATGTTAAACTTCGA-CCCCC
* * *
175251 ATTGTGGCCCCACCCTACTCTCGGGGGTCATGAATTT
127 ATTGTCGCCCCACCCTACCCCCGGGGGTCATGAATTT
* * *
175288 CACAATTTTGTATCTACACTACCTGAGGTTGCTTCCACACAAGTTTCAGTTTTCCTGG
1 CACAACTTTGTATCTACACTACCTGAGG-TGCTTCCACAAAAGTTTCAGATTTCCTGG
175346 TCTTATGGTT
Statistics
Matches: 192, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
161 19 0.10
162 5 0.03
164 48 0.25
165 37 0.19
166 83 0.43
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (163 bp):
CACAACTTTGTATCTACACTACCTGAGGTGCTTCCACAAAAGTTTCAGATTTCCTGGCTGATTAG
TTTCTGAAAAGAAGATTTTTAAGATATACTCTAGATATACATATGTTAAACTTCGACCCCCATTG
TCGCCCCACCCTACCCCCGGGGGTCATGAATTT
Found at i:175549 original size:12 final size:12
Alignment explanation
Indices: 175532--175564 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
175522 TGAAAAGTTT
175532 ACAGACAGACGG
1 ACAGACAGACGG
*
175544 ACAGACGGACGG
1 ACAGACAGACGG
175556 AC-GACAGAC
1 ACAGACAGAC
175565 AAAATGTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.39, C:0.27, G:0.33, T:0.00
Consensus pattern (12 bp):
ACAGACAGACGG
Found at i:180748 original size:6 final size:6
Alignment explanation
Indices: 180737--180774 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
180727 TTTTTTTTGG
180737 TTTGTT TTTGTT TTTGTT TTTGTT TTT-TT TTT-TT TTTG
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTG
180775 GGGGNNNNNN
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTGTT
Found at i:180758 original size:18 final size:16
Alignment explanation
Indices: 180727--180774 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
180717 GTTTTTGGGG
**
180727 TTTTTTTTGGTTTGTT
1 TTTTTTTTTTTTTGTT
180743 TTTGTTTTTGTTTTTGTT
1 TTT-TTTTT-TTTTTGTT
180761 TTTTTTTTTTTTTG
1 TTTTTTTTTTTTTG
180775 GGGGNNNNNN
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 9 0.32
17 10 0.36
18 9 0.32
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTTTTTGTT
Found at i:180862 original size:1 final size:1
Alignment explanation
Indices: 180856--180889 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
180846 NNNNNNNNNN
*
180856 TTTTTTTTTTTTTTGTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
180890 GGGGGGGGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:182441 original size:290 final size:291
Alignment explanation
Indices: 181927--182502 Score: 831
Period size: 290 Copynumber: 2.0 Consensus size: 291
181917 AATTATGTGT
* * *
181927 AACTTTGTAGGTTTATACCTGAGACCAACTGCATTTCTGAATCGGCTGATTCTTCCTCCCTCTCT
1 AACTTTGAAGGCTTATACCTGAGACCAACTGCATCTCTGAATCGGCTGATTCTTCCTCCCTCTCT
* * *
181992 GACTCGTGGTCCTCATGATCTGCCCGTTGCCCAGATTTTCCTGTGAGGGGCCCCTCAGCTTGGTT
66 GACTCGTGGTCCTCA--ATCTGCCCGTTGCCCAGATTTTCCTGTGAGAGGCCACTCAGCATGGTT
* * * * * *
182057 TTGTGCAAGAAGATCTGTAGGTTGATTGAATATAATGTGCTTTTATAAACCAACAAATAGATAAA
129 TTGTGCAAGAAGACCTATAGGTTGATAGAAAAAAATGTGCTTTTATAAACCAACAAATAGAAAAA
* * *
182122 TAAACTTGCACATATGTATTTACTATAATAAATGTACAAATTTAGTCGGACTATTTATTAATTGA
194 TAAAATTGCACACATGTATTTACTATAATAAATGTACAAATTTAATCGGACTATTTATTAATTGA
*
182187 ATCTGAGCTAATGATTAATTTGTTATTATGTAA
259 ATCTGAGCTAATGAGTAATTTGTTATTATGTAA
* *
182220 AACTTTGAAGGCTTATACCTGAGACCGACTGCATCTGTGAATCGGCTGATTCTTCCTCCCTCTCT
1 AACTTTGAAGGCTTATACCTGAGACCAACTGCATCTCTGAATCGGCTGATTCTTCCTCCCTCTCT
* *
182285 GACTTGTGGTCCTC-ATCTGCCCGTTGCCCAGATTTTCCTGTGATGAGG-CATTCAGCATGGTTT
66 GACTCGTGGTCCTCAATCTGCCCGTTGCCCAGATTTTCCTGTGA-GAGGCCACTCAGCATGGTTT
*
182348 TGTGCAAGAAGACCTATAGGTTGATAGAAAAAAAATGTGCTTTTAT-AACTTC-A-AAATGGAAA
130 TGTGCAAGAAGACCTATAGGTTGATAG-AAAAAAATGTGCTTTTATAAAC--CAACAAATAGAAA
* **
182410 AATAAAATTGC-CTACATGTATTTTCTATAATAAATGTACAAATTTAATCTTACTATTTATTAAT
192 AATAAAATTGCAC-ACATGTATTTACTATAATAAATGTACAAATTTAATCGGACTATTTATTAAT
182474 TGAATCTGAGCTAATGAGTAATTTGTTAT
256 TGAATCTGAGCTAATGAGTAATTTGTTAT
182503 AATTTGATAT
Statistics
Matches: 254, Mismatches: 24, Indels: 13
0.87 0.08 0.04
Matches are distributed among these distances:
289 1 0.00
290 159 0.63
291 20 0.08
292 1 0.00
293 73 0.29
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (291 bp):
AACTTTGAAGGCTTATACCTGAGACCAACTGCATCTCTGAATCGGCTGATTCTTCCTCCCTCTCT
GACTCGTGGTCCTCAATCTGCCCGTTGCCCAGATTTTCCTGTGAGAGGCCACTCAGCATGGTTTT
GTGCAAGAAGACCTATAGGTTGATAGAAAAAAATGTGCTTTTATAAACCAACAAATAGAAAAATA
AAATTGCACACATGTATTTACTATAATAAATGTACAAATTTAATCGGACTATTTATTAATTGAAT
CTGAGCTAATGAGTAATTTGTTATTATGTAA
Found at i:187594 original size:166 final size:165
Alignment explanation
Indices: 187083--188438 Score: 1841
Period size: 166 Copynumber: 8.2 Consensus size: 165
187073 CTGAAAACTG
* *
187083 ACGACTTTGTTTATTTTTTAACCAAAATTTTCAAACAAATTTTCGTCAAAGATTTCTCAGCAACT
1 ACGACTTTGTTTA--TTTTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACT
*
187148 GTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATCGTGGGATATA
64 GTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATAGTGGGATATA
187213 TTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATA
129 TTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATA
* *
187250 ACGACTTTGTTTATTTGTAGCCAAAATTTTCAAAGAAATTTTTGTCAAAGAATTCTCAGCAACTG
1 ACGACTTTGTTTATTT-TAGCCAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACTG
* * * *
187315 TTTATTGCAGATGCTTG-AATTTTTACACAGTATTTGTATAGGCATGCCATATTGCGGGATGTAT
65 TTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATAGTGGGATATAT
*
187379 TTTTGTACCAATCGGACGTCAACTTCCTGTTTAATA
130 TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATA
* * *
187415 ACGACTTTGTTTATTTTCAGCAAAAATTTTCAAACAAATTTTCGTCAATGAATTCTCAGCAATTG
1 ACGACTTTGTTTATTTT-AGCCAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACTG
** * * *
187480 TTTATCGCAGATATTTGAAATTTTTACACAGTATTTTTATAGGCATGCTATATAGTGGGATGTAT
65 TTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATAGTGGGATATAT
* * * *
187545 TTTTGTACCAATCGGACGTAAACTTCCTATTTAATG
130 TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATA
* * *
187581 A-GTACTATGTTTATTTTTAGCCAAAATTTTCAAACAAATTTCCGTCAAAGATTTCTCAGCAACT
1 ACG-ACTTTGTTTA-TTTTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACT
* * *
187645 ATTTATCGTAGATGCTTGAAATTTTTACACACTATTTGTATAGGCATGCCATA-ATGTGGGATAT
64 GTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATA-GTGGGATAT
187709 ATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATA
128 ATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATA
* * *
187747 ACGACTTTGCTTATTTTCAGCAAAAATTTTCAAACAAATTTTTGTCAAAGAATTCTCAGCAACTG
1 ACGACTTTGTTTATTTT-AGCCAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACTG
* * * *
187812 TTTATTGCAGATGCTTGAAATTTTTACACAATATTTGTATATGCATGCCATATCA-TGGGATGTA
65 TTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATAT-AGTGGGATATA
* *
187876 TTTTTGTACTAATCGGACGTCAACTT-CTGTTAAATG
129 TTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATA
* ** * *
187912 ACGACTTTGTTTATTTTTAGCCAAAATTGTCAAATTAATTTCCGTCAAAG-ACTCTCAGCAACTG
1 ACGACTTTGTTTA-TTTTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACTG
* * *
187976 TTTATCGCAGATGCTTGAAATTTTAACACACTATTTGTATAGGCATGCCATATTGTGGGATATAT
65 TTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATAGTGGGATATAT
* *
188041 TTTTGTATCAATCGGACGTCAAACTTCCTGTGAAATA
130 TTTTGTACCAATCGGACGTC-AACTTCCTGTTAAATA
* * * *
188078 ATGACTTTGTTTATGTTTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATTTCTCAGCAGCTA
1 ACGACTTTGTTTAT-TTTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACTG
* * * *
188143 TTT-TCTGCAGATGCTTGAAATTTTAACACAGTGTTTGT-TAAGGCATGCCGTATCA-TGGTATA
65 TTTATC-GCAGATGCTTGAAATTTTTACACAGTATTTGTAT-AGGCATGCCATAT-AGTGGGATA
* * *
188205 TATTTTTGTACCAATCAGATGTCAACTTCCTGTTAAATG
127 TATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATA
* * *
188244 A-GTACTTTGTTTATTTTAGCCAAAATTTTCGAACAAATTTTCCTCAAAGATTTCTCAGCAACTG
1 ACG-ACTTTGTTTATTTTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACTG
* * * *
188308 TTTATCGCAGATGCTTGAAATTTTAACACACTATTTGTTTAGGCATGCCATATTGTGGGATATAT
65 TTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATAGTGGGATATAT
* * * * * *
188373 TTCTGTACCAATCGGATGCCAGCTTTCTGTTTAATA
130 TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATA
*
188409 ACGACTTTGTTTATTTTCAGCAAAAATTTT
1 ACGACTTTGTTTATTTT-AGCCAAAATTTT
188439 GCTTATTTTG
Statistics
Matches: 1054, Mismatches: 110, Indels: 51
0.87 0.09 0.04
Matches are distributed among these distances:
164 90 0.09
165 358 0.34
166 506 0.48
167 99 0.09
168 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (165 bp):
ACGACTTTGTTTATTTTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACTGT
TTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATAGTGGGATATATT
TTTGTACCAATCGGACGTCAACTTCCTGTTAAATA
Found at i:188067 original size:497 final size:496
Alignment explanation
Indices: 187085--188436 Score: 1989
Period size: 497 Copynumber: 2.7 Consensus size: 496
187075 GAAAACTGAC
* * *
187085 GACTTTGTTTATTTTTTAACCAAAATTTTCAAACAAATTTTCGTCAAAGATTTCTCAGCAACTGT
1 GACTATGTTTA-TTTTTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATTTCTCAGCAACTAT
187150 TTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATCGTGGGATATATT
65 TTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATCGTGGGATATATT
187215 TTTGTACCAATCGGACGTCAACTTCCTGTTAAATAACGACTTTGTTTATTTGTAGCCAAAATTTT
130 TTTGTACCAATCGGACGTCAACTTCCTGTTAAATAACGACTTTGTTTATTT-TAGCCAAAATTTT
*
187280 CAAAGAAATTTTTGTCAAAGAATTCTCAGCAACTGTTTATTGCAGATGCTTG-AATTTTTACACA
194 CAAACAAATTTTTGTCAAAGAATTCTCAGCAACTGTTTATTGCAGATGCTTGAAATTTTTACACA
* *
187344 GTATTTGTATAGGCATGCCATATTGCGGGATGTATTTTTGTACCAATCGGACGTCAACTTCCTGT
259 ATATTTGTATAGGCATGCCATATTGTGGGATGTATTTTTGTACCAATCGGACGTCAACTT-CTGT
* * * *
187409 TTAATAACGACTTTGTTTATTTTCAGCAAAAATTTTCAAACAAATTTTCGTCAATGAATTCTCAG
323 TTAATAACGACTTTGTTTATTTTCAGCAAAAATTGTCAAACAAATTTCCGTCAAAGAACTCTCAG
* * * * * *
187474 CAATTGTTTATCGCAGATATTTGAAATTTTTACACAGTATTTTTATAGGCATGCTATATAGTGGG
388 CAACTGTTTATCGCAGATACTTGAAATTTTAACACACTATTTGTATAGGCATGCCATATAGTGGG
* ** *
187539 ATGTATTTTTGTACCAATCGGACGTAAACTTCCTATTTAATGA-
453 ATATATTTTTGTACCAATCGGACGTAAACTTCCTATGAAATAAT
*
187582 GTACTATGTTTATTTTTAGCCAAAATTTTCAAACAAATTTCCGTCAAAGATTTCTCAGCAACTAT
1 G-ACTATGTTTATTTTTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATTTCTCAGCAACTAT
* *
187647 TTATCGTAGATGCTTGAAATTTTTACACACTATTTGTATAGGCATGCCATAAT-GTGGGATATAT
65 TTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCAT-ATCGTGGGATATAT
* *
187711 TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATAACGACTTTGCTTATTTTCAGCAAAAATTT
129 TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATAACGACTTTGTTTATTTT-AGCCAAAATTT
187776 TCAAACAAATTTTTGTCAAAGAATTCTCAGCAACTGTTTATTGCAGATGCTTGAAATTTTTACAC
193 TCAAACAAATTTTTGTCAAAGAATTCTCAGCAACTGTTTATTGCAGATGCTTGAAATTTTTACAC
* ** *
187841 AATATTTGTATATGCATGCCATATCATGGGATGTATTTTTGTACTAATCGGACGTCAACTTCTGT
258 AATATTTGTATAGGCATGCCATATTGTGGGATGTATTTTTGTACCAATCGGACGTCAACTTCTGT
* * * * **
187906 TAAATGACGACTTTGTTTATTTTTAGCCAAAATTGTCAAATTAATTTCCGTCAAAG-ACTCTCAG
323 TTAATAACGACTTTGTTTATTTTCAGCAAAAATTGTCAAACAAATTTCCGTCAAAGAACTCTCAG
* *
187970 CAACTGTTTATCGCAGATGCTTGAAATTTTAACACACTATTTGTATAGGCATGCCATATTGTGGG
388 CAACTGTTTATCGCAGATACTTGAAATTTTAACACACTATTTGTATAGGCATGCCATATAGTGGG
* *
188035 ATATATTTTTGTATCAATCGGACGTCAAACTTCCTGTGAAATAAT
453 ATATATTTTTGTACCAATCGGACGT-AAACTTCCTATGAAATAAT
* * *
188080 GACTTTGTTTATGTTTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATTTCTCAGCAGCTATT
1 GACTATGTTTATTTTTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATTTCTCAGCAACTATT
* * * * *
188145 T-TCTGCAGATGCTTGAAATTTTAACACAGTGTTTGT-TAAGGCATGCCGTATCATGGTATATAT
66 TATC-GCAGATGCTTGAAATTTTTACACAGTATTTGTAT-AGGCATGCCATATCGTGGGATATAT
* * *
188208 TTTTGTACCAATCAGATGTCAACTTCCTGTTAAATGA-GTACTTTGTTTATTTTAGCCAAAATTT
129 TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATAACG-ACTTTGTTTATTTTAGCCAAAATTT
* ** * * *
188272 TCGAACAAATTTTCCTCAAAGATTTCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTAACAC
193 TCAAACAAATTTTTGTCAAAGAATTCTCAGCAACTGTTTATTGCAGATGCTTGAAATTTTTACAC
* * * * * * *
188337 ACTATTTGTTTAGGCATGCCATATTGTGGGATATATTTCTGTACCAATCGGATGCCAGCTTTCTG
258 AATATTTGTATAGGCATGCCATATTGTGGGATGTATTTTTGTACCAATCGGACGTCAAC-TTCTG
188402 TTTAATAACGACTTTGTTTATTTTCAGCAAAAATT
322 TTTAATAACGACTTTGTTTATTTTCAGCAAAAATT
188437 TTGCTTATTT
Statistics
Matches: 768, Mismatches: 76, Indels: 22
0.89 0.09 0.03
Matches are distributed among these distances:
496 211 0.27
497 479 0.62
498 78 0.10
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (496 bp):
GACTATGTTTATTTTTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATTTCTCAGCAACTATT
TATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATCGTGGGATATATTT
TTGTACCAATCGGACGTCAACTTCCTGTTAAATAACGACTTTGTTTATTTTAGCCAAAATTTTCA
AACAAATTTTTGTCAAAGAATTCTCAGCAACTGTTTATTGCAGATGCTTGAAATTTTTACACAAT
ATTTGTATAGGCATGCCATATTGTGGGATGTATTTTTGTACCAATCGGACGTCAACTTCTGTTTA
ATAACGACTTTGTTTATTTTCAGCAAAAATTGTCAAACAAATTTCCGTCAAAGAACTCTCAGCAA
CTGTTTATCGCAGATACTTGAAATTTTAACACACTATTTGTATAGGCATGCCATATAGTGGGATA
TATTTTTGTACCAATCGGACGTAAACTTCCTATGAAATAAT
Found at i:188154 original size:331 final size:332
Alignment explanation
Indices: 187083--188438 Score: 1978
Period size: 331 Copynumber: 4.1 Consensus size: 332
187073 CTGAAAACTG
* * * *
187083 ACGACTTTGTTTATTTTTTAACCAAAATTTTCAAACAAATTTTCGTCAAAGATTTCTCAGCAACT
1 ACGACTTTGTTTA-TTTTCAGCAAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACT
*
187148 GTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATCGTGGGATATA
65 GTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATCATGGGATATA
* *
187213 TTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATAACG-ACTTTGTTTATTTGTAGCCAAAAT
130 TTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGA-GTACTTTGTTTATTTTTAGCCAAAAT
* ** * * *
187277 TTTCAAAGAAATTTTTGTCAAAGAATTCTCAGCAACTGTTTATTGCAGATGCTTG-AATTTTTAC
194 TTTCAAACAAATTTCCGTCAAAGATTTCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTAAC
* * *
187341 ACAGTATTTGTATAGGCATGCCATATTGCGGGATGTATTTTTGTACCAATCGGACGTCAACTTCC
259 ACACTATTTGTATAGGCATGCCATATTGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCC
*
187406 TGTTTAATA
324 TGTTAAATA
* *
187415 ACGACTTTGTTTATTTTCAGCAAAAATTTTCAAACAAATTTTCGTCAATGAATTCTCAGCAATTG
1 ACGACTTTGTTTATTTTCAGCAAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACTG
** * * *
187480 TTTATCGCAGATATTTGAAATTTTTACACAGTATTTTTATAGGCATGCTATAT-AGTGGGATGTA
66 TTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATCA-TGGGATATA
* * * *
187544 TTTTTGTACCAATCGGACGTAAACTTCCTATTTAATGAGTACTATGTTTATTTTTAGCCAAAATT
130 TTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAGTACTTTGTTTATTTTTAGCCAAAATT
* * *
187609 TTCAAACAAATTTCCGTCAAAGATTTCTCAGCAACTATTTATCGTAGATGCTTGAAATTTTTACA
195 TTCAAACAAATTTCCGTCAAAGATTTCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTAACA
*
187674 CACTATTTGTATAGGCATGCCATAATGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCT
260 CACTATTTGTATAGGCATGCCATATTGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCT
187739 GTTAAATA
325 GTTAAATA
* *
187747 ACGACTTTGCTTATTTTCAGCAAAAATTTTCAAACAAATTTTTGTCAAAGAATTCTCAGCAACTG
1 ACGACTTTGTTTATTTTCAGCAAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACTG
* * * *
187812 TTTATTGCAGATGCTTGAAATTTTTACACAATATTTGTATATGCATGCCATATCATGGGATGTAT
66 TTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATCATGGGATATAT
*
187877 TTTTGTACTAATCGGACGTCAACTT-CTGTTAAATGACG-ACTTTGTTTATTTTTAGCCAAAATT
131 TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGA-GTACTTTGTTTATTTTTAGCCAAAATT
* ** *
187940 GTCAAATTAATTTCCGTCAAAGA-CTCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTAACA
195 TTCAAACAAATTTCCGTCAAAGATTTCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTAACA
*
188004 CACTATTTGTATAGGCATGCCATATTGTGGGATATATTTTTGTATCAATCGGACGTCAAACTTCC
260 CACTATTTGTATAGGCATGCCATATTGTGGGATATATTTTTGTACCAATCGGACGTC-AACTTCC
*
188069 TGTGAAATA
324 TGTTAAATA
* * * *
188078 ATGACTTTGTTTATGTTT-AGCCAAAATTTTCAAACAAATTTTCGTCAAAGATTTCTCAGCAGCT
1 ACGACTTTGTTTAT-TTTCAGCAAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACT
* * * * *
188142 ATTT-TCTGCAGATGCTTGAAATTTTAACACAGTGTTTGT-TAAGGCATGCCGTATCATGGTATA
65 GTTTATC-GCAGATGCTTGAAATTTTTACACAGTATTTGTAT-AGGCATGCCATATCATGGGATA
* *
188205 TATTTTTGTACCAATCAGATGTCAACTTCCTGTTAAATGAGTACTTTGTTTA-TTTTAGCCAAAA
128 TATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAGTACTTTGTTTATTTTTAGCCAAAA
*
188269 TTTTCGAACAAATTTTCC-TCAAAGATTTCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTA
193 TTTTCAAACAAA-TTTCCGTCAAAGATTTCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTA
* * * * *
188333 ACACACTATTTGTTTAGGCATGCCATATTGTGGGATATATTTCTGTACCAATCGGATGCCAGCTT
257 ACACACTATTTGTATAGGCATGCCATATTGTGGGATATATTTTTGTACCAATCGGACGTCAACTT
* *
188398 TCTGTTTAATA
322 CCTGTTAAATA
188409 ACGACTTTGTTTATTTTCAGCAAAAATTTT
1 ACGACTTTGTTTATTTTCAGCAAAAATTTT
188439 GCTTATTTTG
Statistics
Matches: 920, Mismatches: 90, Indels: 29
0.89 0.09 0.03
Matches are distributed among these distances:
330 98 0.11
331 468 0.51
332 353 0.38
333 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (332 bp):
ACGACTTTGTTTATTTTCAGCAAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACTG
TTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATATCATGGGATATAT
TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAGTACTTTGTTTATTTTTAGCCAAAATTT
TCAAACAAATTTCCGTCAAAGATTTCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTAACAC
ACTATTTGTATAGGCATGCCATATTGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTG
TTAAATA
Found at i:189218 original size:24 final size:24
Alignment explanation
Indices: 189186--189235 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
189176 TAATTAGGAC
189186 TTTACTGTTTTTCATTGGTTATGA
1 TTTACTGTTTTTCATTGGTTATGA
189210 TTTACTGTTTTTCATTGGTTATGA
1 TTTACTGTTTTTCATTGGTTATGA
189234 TT
1 TT
189236 GTATTTACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (24 bp):
TTTACTGTTTTTCATTGGTTATGA
Found at i:193084 original size:214 final size:213
Alignment explanation
Indices: 192715--193141 Score: 845
Period size: 214 Copynumber: 2.0 Consensus size: 213
192705 AAAGTATGGA
192715 CTTGATCGCATTTACTTAATGAAATGAGAATGTTGTAGCGTGCATATAAAATGGGGTGCAAGTAA
1 CTTGATCGCATTTACTTAATGAAATGAGAATGTTGTAGCGTGCATATAAAATGGGGTGCAAGTAA
192780 AAAACTCTTCAGCGGTCAACAGGAAGCAATCTCTCTGCATTCTTTCCTTAAACAGACACAAAAAA
66 AAAACTCTTCAGCGGTCAACAGGAAGCAATCTCTCTGCATTCTTTCCTTAAACAGACACAAAAAA
192845 TAAATAGAATTGCGCGCATTCTAAATTTTGGGATTTTTGTAATAAATTTTAATGTTGATATATTG
131 TAAATAGAATTGCGCGCATTCTAAATTTTGGGATTTTTGTAATAAATTTTAATGTTGATATATTG
192910 CAATAAAAACTTATATAT
196 CAATAAAAACTTATATAT
192928 NCTTGATCGCATTTACTTAATGAAATGAGAATGTTGTAGCGTGCATATAAAATGGGGTGCAAGTA
1 -CTTGATCGCATTTACTTAATGAAATGAGAATGTTGTAGCGTGCATATAAAATGGGGTGCAAGTA
192993 AAAAACTCTTCAGCGGTCAACAGGAAGCAATCTCTCTGCATTCTTTCCTTAAACAGACACAAAAA
65 AAAAACTCTTCAGCGGTCAACAGGAAGCAATCTCTCTGCATTCTTTCCTTAAACAGACACAAAAA
193058 ATAAATAGAATTGCGCGCATTCTAAATTTTGGGATTTTTGTAATAAATTTTAATGTTGATATATT
130 ATAAATAGAATTGCGCGCATTCTAAATTTTGGGATTTTTGTAATAAATTTTAATGTTGATATATT
193123 GCAATAAAAACTTATATAT
195 GCAATAAAAACTTATATAT
193142 ATANNNNNNN
Statistics
Matches: 213, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 213 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (213 bp):
CTTGATCGCATTTACTTAATGAAATGAGAATGTTGTAGCGTGCATATAAAATGGGGTGCAAGTAA
AAAACTCTTCAGCGGTCAACAGGAAGCAATCTCTCTGCATTCTTTCCTTAAACAGACACAAAAAA
TAAATAGAATTGCGCGCATTCTAAATTTTGGGATTTTTGTAATAAATTTTAATGTTGATATATTG
CAATAAAAACTTATATAT
Found at i:226210 original size:194 final size:194
Alignment explanation
Indices: 225877--226262 Score: 718
Period size: 194 Copynumber: 2.0 Consensus size: 194
225867 AACGTAGTGA
225877 AATGAAATGCGCTGTTTTTGCAAATGTACCAATCTCGATTCAAACATTTTAAAGATTACCTTCTC
1 AATGAAATGCGCTGTTTTTGCAAATGTACCAATCTCGATTCAAACATTTTAAAGATTACCTTCTC
*
225942 TAAAATGAGTTTGTCCATCACACCTTTTATCTGAAATAAAAAAAAATTAGCAAGTAAAATAGGGA
66 TAAAATGAGTTTGTCCATCACACCTTTTATCTGAAATAAAAAAAAAATAGCAAGTAAAATAGGGA
* *
226007 AATTATATGTGATATCAATGGCAGTATGCTAGTGGATTAAATTGATTCTAATCTTTTTAAGATT
131 AAATATATGTGATATCAATGACAGTATGCTAGTGGATTAAATTGATTCTAATCTTTTTAAGATT
226071 AATGAAATGCGCTGTTTTTGCAAATGTACCAATCTCGATTCAAACATTTTAAAGATTACCTTCTC
1 AATGAAATGCGCTGTTTTTGCAAATGTACCAATCTCGATTCAAACATTTTAAAGATTACCTTCTC
*
226136 TAAAATGAGTTTGTCCATCACACCTTTTATTTGAAATAAAAAAAAAATAGCAAGTAAAATAGGGA
66 TAAAATGAGTTTGTCCATCACACCTTTTATCTGAAATAAAAAAAAAATAGCAAGTAAAATAGGGA
* *
226201 AAATATATGTGATATCAATGACAGTATGCTAGTGGTTTAAATTTATTCTAATCTTTTTAAGA
131 AAATATATGTGATATCAATGACAGTATGCTAGTGGATTAAATTGATTCTAATCTTTTTAAGA
226263 CACACACACT
Statistics
Matches: 186, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
194 186 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (194 bp):
AATGAAATGCGCTGTTTTTGCAAATGTACCAATCTCGATTCAAACATTTTAAAGATTACCTTCTC
TAAAATGAGTTTGTCCATCACACCTTTTATCTGAAATAAAAAAAAAATAGCAAGTAAAATAGGGA
AAATATATGTGATATCAATGACAGTATGCTAGTGGATTAAATTGATTCTAATCTTTTTAAGATT
Found at i:230037 original size:2 final size:2
Alignment explanation
Indices: 230030--230096 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
230020 AATAAATAAC
230030 GA GA GA GA GA GA GA GA GA GA GA GA -A GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
230071 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
230097 TAATAGTGGA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:234780 original size:12 final size:12
Alignment explanation
Indices: 234765--234791 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
234755 GATATGGTAT
234765 ATGATATATCAA
1 ATGATATATCAA
234777 ATGATATATCAA
1 ATGATATATCAA
234789 ATG
1 ATG
234792 GTCTTGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.33
Consensus pattern (12 bp):
ATGATATATCAA
Found at i:236970 original size:26 final size:26
Alignment explanation
Indices: 236934--237012 Score: 149
Period size: 26 Copynumber: 3.0 Consensus size: 26
236924 ACTATCACTG
*
236934 TTAATTTTAAACAATGGAAACAAAGA
1 TTAATTTTAAACAGTGGAAACAAAGA
236960 TTAATTTTAAACAGTGGAAACAAAGA
1 TTAATTTTAAACAGTGGAAACAAAGA
236986 TTAATTTTAAACAGTGGAAACAAAGA
1 TTAATTTTAAACAGTGGAAACAAAGA
237012 T
1 T
237013 ATTCTCGATC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.28
Consensus pattern (26 bp):
TTAATTTTAAACAGTGGAAACAAAGA
Found at i:239568 original size:2 final size:2
Alignment explanation
Indices: 239563--239613 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
239553 TTTGTAAAAA
239563 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
239605 CT CT CT CT C
1 CT CT CT CT C
239614 AGACAAAGGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:242851 original size:4 final size:4
Alignment explanation
Indices: 242842--242897 Score: 112
Period size: 4 Copynumber: 14.0 Consensus size: 4
242832 TATGTTTCCA
242842 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
242890 AGAT AGAT
1 AGAT AGAT
242898 GTAGATATAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AGAT
Found at i:242864 original size:43 final size:43
Alignment explanation
Indices: 242784--242865 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
242774 AATATTGGTC
* *
242784 ACACTTATGTTTCCAAGGTAGATAGAAATATAAATAGATGGAA
1 ACACTTATGTTTCCAAGATAGATAGAAAGATAAATAGATGGAA
* *
242827 ACACTTATGTTTCCAAGATAGATAGATAGATAGATAGAT
1 ACACTTATGTTTCCAAGATAGATAGAAAGATAAATAGAT
242866 AGATAGATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (43 bp):
ACACTTATGTTTCCAAGATAGATAGAAAGATAAATAGATGGAA
Found at i:255838 original size:21 final size:21
Alignment explanation
Indices: 255812--255855 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
255802 TTGTTCTTCG
255812 GTTAAAAAATGATCATAAACT
1 GTTAAAAAATGATCATAAACT
255833 GTTAAAAAATGATCATAAACT
1 GTTAAAAAATGATCATAAACT
255854 GT
1 GT
255856 GTAATGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (21 bp):
GTTAAAAAATGATCATAAACT
Found at i:259058 original size:29 final size:31
Alignment explanation
Indices: 259015--259072 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
259005 ATCTCAAGAA
*
259015 CAATAAACAATGAAAAATAACTC-CTTTAAT
1 CAATAAACAAAGAAAAATAACTCTCTTTAAT
*
259045 CAAT-AACAAAGAAAGATAACTCTCTTTA
1 CAATAAACAAAGAAAAATAACTCTCTTTA
259073 TTTCGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.52, C:0.17, G:0.05, T:0.26
Consensus pattern (31 bp):
CAATAAACAAAGAAAAATAACTCTCTTTAAT
Found at i:261314 original size:98 final size:98
Alignment explanation
Indices: 261145--261338 Score: 361
Period size: 98 Copynumber: 2.0 Consensus size: 98
261135 CACCCATTGT
*
261145 GTATTTTTATGACACAGAGACCATGGTGCTTGACTATGTTATTATTGCTGCATTTACTTTTCTTT
1 GTATTTTTATGACACAGAGACCATGGTGCTCGACTATGTTATTATTGCTGCATTTACTTTTCTTT
261210 GCGTCGGATTTATTGGAAATTCTATCACCGTGG
66 GCGTCGGATTTATTGGAAATTCTATCACCGTGG
261243 GTATTTTTATGACACAGAGACCATGGTGCTCGACTATGTTATTATTGCTGCATTTACTTTTCTTT
1 GTATTTTTATGACACAGAGACCATGGTGCTCGACTATGTTATTATTGCTGCATTTACTTTTCTTT
* *
261308 GGGTCGGATTTATTTGAAATTCTATCACCGT
66 GCGTCGGATTTATTGGAAATTCTATCACCGT
261339 TGGTTTTATT
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (98 bp):
GTATTTTTATGACACAGAGACCATGGTGCTCGACTATGTTATTATTGCTGCATTTACTTTTCTTT
GCGTCGGATTTATTGGAAATTCTATCACCGTGG
Found at i:269797 original size:31 final size:31
Alignment explanation
Indices: 269762--269829 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
269752 ACAATGGTAA
269762 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
1 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
*
269793 CATTCTCAGCAGTTATCTCTCTTTGGCCATT
1 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
269824 CATTCT
1 CATTCT
269830 TACGCATAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.16, C:0.31, G:0.10, T:0.43
Consensus pattern (31 bp):
CATTCTCAGCAGTTATCTCTCTTTGCCCATT
Found at i:271145 original size:15 final size:15
Alignment explanation
Indices: 271125--271154 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
271115 AGTGGAGCCT
271125 CAGATATCCGGACGC
1 CAGATATCCGGACGC
271140 CAGATATCCGGACGC
1 CAGATATCCGGACGC
271155 TTCACTTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
CAGATATCCGGACGC
Found at i:276225 original size:33 final size:33
Alignment explanation
Indices: 276188--276250 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
276178 TACTGTACCA
*
276188 CACTGTA-TCCCACTGTACCCCACTGTACAGAGC
1 CACTGTACT-CCACTGTACCCCACTGGACAGAGC
*
276221 CACTGTACTCCACTGTACTCCACTGGACAG
1 CACTGTACTCCACTGTACCCCACTGGACAG
276251 CACAGTACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.24, C:0.38, G:0.16, T:0.22
Consensus pattern (33 bp):
CACTGTACTCCACTGTACCCCACTGGACAGAGC
Found at i:276318 original size:42 final size:42
Alignment explanation
Indices: 276264--276427 Score: 242
Period size: 42 Copynumber: 3.9 Consensus size: 42
276254 AGTACCTACC
276264 CACTGACCAGCACTGTACCTCACTGTACACCACTGTACGGGG
1 CACTGACCAGCACTGTACCTCACTGTACACCACTGTACGGGG
276306 CACTGACCAGCACTGTACCTCACTGTACACCACTGTACGGGG
1 CACTGACCAGCACTGTACCTCACTGTACACCACTGTACGGGG
* *
276348 CACTGACCAGCACTGTACCCCACTGTACACCACTGTACAGGG
1 CACTGACCAGCACTGTACCTCACTGTACACCACTGTACGGGG
* * **
276390 TACTGACAAATACTGTACAC-CACTGTA-ACCCACTGTAC
1 CACTGACCAGCACTGTAC-CTCACTGTACA-CCACTGTAC
276428 CTAGTATGTT
Statistics
Matches: 114, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
41 1 0.01
42 112 0.98
43 1 0.01
ACGTcount: A:0.27, C:0.35, G:0.18, T:0.20
Consensus pattern (42 bp):
CACTGACCAGCACTGTACCTCACTGTACACCACTGTACGGGG
Found at i:276366 original size:84 final size:84
Alignment explanation
Indices: 276153--276427 Score: 245
Period size: 84 Copynumber: 3.2 Consensus size: 84
276143 TACTGTAAAT
* * * *
276153 CCACTGTACACCCACTGTACAGAGCTACTGTACCA-CACTGTATCCCACTGTACCCCACTGTACA
1 CCACTGTA-ACCCACTGTACGGGGC-ACTG-ACCAGCACTGTACCCCACTGTACACCACTGTACA
* ** *
276217 GAGCCACTGTAC-TCCACTGTACT
63 G-GGCACTG-ACAAACACTGTACA
* * * **** * *
276240 CCACTG-GACAGCACAGTACCTACCCACTGACCAGCACTGTACCTCACTGTACACCACTGTACGG
1 CCACTGTAAC-CCACTGTA-CGGGGCACTGACCAGCACTGTACCCCACTGTACACCACTGTACAG
* *
276304 GGCACTGACCAGCACTGTAC-
64 GGCACTGACAAACACTGTACA
276324 CTCACTGT-ACACCACTGTACGGGGCACTGACCAGCACTGTACCCCACTGTACACCACTGTACAG
1 C-CACTGTAAC-CCACTGTACGGGGCACTGACCAGCACTGTACCCCACTGTACACCACTGTACAG
* *
276388 GGTACTGACAAATACTGTACA
64 GGCACTGACAAACACTGTACA
276409 CCACTGTAACCCACTGTAC
1 CCACTGTAACCCACTGTAC
276428 CTAGTATGTT
Statistics
Matches: 154, Mismatches: 26, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
84 73 0.47
85 37 0.24
86 36 0.23
87 8 0.05
ACGTcount: A:0.27, C:0.37, G:0.17, T:0.20
Consensus pattern (84 bp):
CCACTGTAACCCACTGTACGGGGCACTGACCAGCACTGTACCCCACTGTACACCACTGTACAGGG
CACTGACAAACACTGTACA
Found at i:276386 original size:10 final size:10
Alignment explanation
Indices: 276131--276386 Score: 105
Period size: 10 Copynumber: 24.1 Consensus size: 10
276121 CTACTGTATA
276131 ACCACTGTAC
1 ACCACTGTAC
*
276141 -CCTACTGTAA
1 ACC-ACTGTAC
276151 ATCCACTGTAC
1 A-CCACTGTAC
276162 ACCCACTGTAC
1 A-CCACTGTAC
*
276173 AGAGCTACTGTAC
1 --A-CCACTGTAC
276186 -CACACTGTATC
1 AC-CACTGTA-C
276197 -CCACTGTAC
1 ACCACTGTAC
*
276206 CCCACTGTAC
1 ACCACTGTAC
276216 AGAGCCACTGTAC
1 --A-CCACTGTAC
*
276229 TCCACTGTAC
1 ACCACTGTAC
* *
276239 TCCACTGGAC
1 ACCACTGTAC
* *
276249 AGCACAGTACC
1 ACCACTGTA-C
276260 TACCCACTG-ACC
1 -A-CCACTGTA-C
*
276272 AGCACTGTAC
1 ACCACTGTAC
276282 -CTCACTGTAC
1 AC-CACTGTAC
276292 ACCACTGTAC
1 ACCACTGTAC
**
276302 GGGGCACTG-ACC
1 --ACCACTGTA-C
*
276314 AGCACTGTAC
1 ACCACTGTAC
276324 -CTCACTGTAC
1 AC-CACTGTAC
276334 ACCACTGTAC
1 ACCACTGTAC
**
276344 GGGGCACTG-ACC
1 --ACCACTGTA-C
*
276356 AGCACTGTAC
1 ACCACTGTAC
*
276366 CCCACTGTAC
1 ACCACTGTAC
276376 ACCACTGTAC
1 ACCACTGTAC
276386 A
1 A
276387 GGGTACTGAC
Statistics
Matches: 192, Mismatches: 27, Indels: 54
0.70 0.10 0.20
Matches are distributed among these distances:
9 4 0.02
10 121 0.63
11 27 0.14
12 18 0.09
13 22 0.11
ACGTcount: A:0.26, C:0.38, G:0.16, T:0.20
Consensus pattern (10 bp):
ACCACTGTAC
Found at i:280359 original size:10 final size:10
Alignment explanation
Indices: 280346--280533 Score: 94
Period size: 10 Copynumber: 17.8 Consensus size: 10
280336 GTACCGTGTC
280346 GTACAGTGGG
1 GTACAGTGGG
*
280356 GTACAGTGATG
1 GTACAGTG-GG
*
280367 GT-CAGTGCCCG
1 GTACAGTG--GG
*
280378 GTACAGTGGC
1 GTACAGTGGG
280388 GTACAGTGGG
1 GTACAGTGGG
*
280398 GTACAGTGCTG
1 GTACAGTG-GG
**
280409 GT-CAGTGCCCT
1 GTACAGTG--GG
*
280420 GTACAGTGGC
1 GTACAGTGGG
280430 GTACAGTGGG
1 GTACAGTGGG
*
280440 GTACAGTGGAA
1 GTACAGTGG-G
*
280451 GT-CAGTAGGACT
1 GTACAGT-GG--G
*
280463 GTACAGTGGT
1 GTACAGTGGG
280473 GTACAGTGGG
1 GTACAGTGGG
* **
280483 ATACAGTGTT
1 GTACAGTGGG
* **
280493 GTTCAGTAGAAAT
1 GTACAGT-G--GG
280506 GTACAGTGGG
1 GTACAGTGGG
280516 GTACAGTGGG
1 GTACAGTGGG
280526 GTACAGTG
1 GTACAGTG
280534 AAGGTCAGTG
Statistics
Matches: 140, Mismatches: 25, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
10 97 0.69
11 17 0.12
12 15 0.11
13 11 0.08
ACGTcount: A:0.22, C:0.15, G:0.39, T:0.24
Consensus pattern (10 bp):
GTACAGTGGG
Found at i:280404 original size:42 final size:42
Alignment explanation
Indices: 280345--280564 Score: 246
Period size: 42 Copynumber: 5.2 Consensus size: 42
280335 AGTACCGTGT
* *
280345 CGTACAGTGGGGTACAGTGATGGTCAGTGCCCGGTACAGTGG
1 CGTACAGTGGGGTACAGTGATGGTCAGTGCACTGTACAGTGG
* *
280387 CGTACAGTGGGGTACAGTGCTGGTCAGTGCCCTGTACAGTGG
1 CGTACAGTGGGGTACAGTGATGGTCAGTGCACTGTACAGTGG
* *
280429 CGTACAGTGGGGTACAGTGGA-AGTCAGTAGGACTGTACAGTGG
1 CGTACAGTGGGGTACAGT-GATGGTCAGT-GCACTGTACAGTGG
* * * * * *
280472 TGTACAGTGGGATACAGTGTTGTTCAGTAGAAATGTACAGTGG
1 CGTACAGTGGGGTACAGTGATGGTCAGT-GCACTGTACAGTGG
* * * *
280515 GGTACAGTGGGGTACAGTGAAGGTCAGTGAAATGTACAGTGAG
1 CGTACAGTGGGGTACAGTGATGGTCAGTGCACTGTACAGTG-G
280558 -GTACAGT
1 CGTACAGT
280565 CAATGTACAG
Statistics
Matches: 156, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
42 85 0.54
43 71 0.46
ACGTcount: A:0.24, C:0.15, G:0.38, T:0.24
Consensus pattern (42 bp):
CGTACAGTGGGGTACAGTGATGGTCAGTGCACTGTACAGTGG
Found at i:280542 original size:20 final size:20
Alignment explanation
Indices: 280346--280564 Score: 83
Period size: 20 Copynumber: 10.3 Consensus size: 20
280336 GTACCGTGTC
280346 GTACAGTGGGGTACAGTGATG
1 GTACAGTGGGGTACAGTGA-G
*
280367 GT-CAGTGCCCGGTACAGTG-G
1 GTACAGTG--GGGTACAGTGAG
*
280387 CGTACAGTGGGGTACAGTGCTG
1 -GTACAGTGGGGTACAGTG-AG
**
280409 GT-CAGTGCCCTGTACAGTG-G
1 GTACAGTG--GGGTACAGTGAG
*
280429 CGTACAGTGGGGTACAGTGGAA
1 -GTACAGTGGGGTACAGT-GAG
*
280451 GT-CAGTAGGACTGTACAGTG-G
1 GTACAGT-GG--GGTACAGTGAG
* **
280472 TGTACAGTGGGATACAGTGTT
1 -GTACAGTGGGGTACAGTGAG
* ** *
280493 GTTCAGTAGAAATGTACAGTGGG
1 GTACAGT-G--GGGTACAGTGAG
280516 GTACAGTGGGGTACAGTGAAG
1 GTACAGTGGGGTACAGTG-AG
**
280537 GT-CAGTGAAATGTACAGTGAG
1 GTACAGTG--GGGTACAGTGAG
280558 GTACAGT
1 GTACAGT
280565 CAATGTACAG
Statistics
Matches: 149, Mismatches: 24, Indels: 49
0.67 0.11 0.22
Matches are distributed among these distances:
20 58 0.39
21 21 0.14
22 46 0.31
23 24 0.16
ACGTcount: A:0.24, C:0.14, G:0.38, T:0.24
Consensus pattern (20 bp):
GTACAGTGGGGTACAGTGAG
Found at i:280553 original size:22 final size:21
Alignment explanation
Indices: 280502--280576 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
280492 TGTTCAGTAG
*
280502 AAATGTACAGTGGGGTACAGT
1 AAATGTACAGTGAGGTACAGT
***
280523 -GGGGTACAGTGAAGGT-CAGT
1 AAATGTACAGTG-AGGTACAGT
280543 GAAATGTACAGTGAGGTACAGT
1 -AAATGTACAGTGAGGTACAGT
*
280565 CAATGTACAGTG
1 AAATGTACAGTG
280577 GATGTCAGAC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 12 0.29
21 18 0.43
22 12 0.29
ACGTcount: A:0.32, C:0.11, G:0.35, T:0.23
Consensus pattern (21 bp):
AAATGTACAGTGAGGTACAGT
Found at i:280561 original size:10 final size:10
Alignment explanation
Indices: 280346--280564 Score: 58
Period size: 10 Copynumber: 20.7 Consensus size: 10
280336 GTACCGTGTC
*
280346 GTACAGTGGG
1 GTACAGTGAG
280356 GTACAGTGATG
1 GTACAGTGA-G
*
280367 GT-CAGTGCCCG
1 GTACAGTG--AG
280378 GTACAGTG-G
1 GTACAGTGAG
*
280387 CGTACAGTGGG
1 -GTACAGTGAG
*
280398 GTACAGTGCTG
1 GTACAGTG-AG
**
280409 GT-CAGTGCCCT
1 GTACAGTG--AG
280420 GTACAGTG-G
1 GTACAGTGAG
*
280429 CGTACAGTGGG
1 -GTACAGTGAG
*
280440 GTACAGTGGAA
1 GTACAGT-GAG
*
280451 GT-CAGTAGGACT
1 GTACAGT--GA-G
280463 GTACAGTG-G
1 GTACAGTGAG
280472 TGTACAGTG-G
1 -GTACAGTGAG
**
280482 GATACAGTGTT
1 G-TACAGTGAG
* *
280493 GTTCAGTAGAAAT
1 GTACAGT-G--AG
*
280506 GTACAGTGGG
1 GTACAGTGAG
*
280516 GTACAGTGGG
1 GTACAGTGAG
280526 GTACAGTGAAG
1 GTACAGTG-AG
*
280537 GT-CAGTGAAAT
1 GTACAGTG--AG
280548 GTACAGTGAG
1 GTACAGTGAG
280558 GTACAGT
1 GTACAGT
280565 CAATGTACAG
Statistics
Matches: 166, Mismatches: 19, Indels: 48
0.71 0.08 0.21
Matches are distributed among these distances:
9 2 0.01
10 105 0.63
11 30 0.18
12 18 0.11
13 11 0.07
ACGTcount: A:0.24, C:0.14, G:0.38, T:0.24
Consensus pattern (10 bp):
GTACAGTGAG
Found at i:280589 original size:21 final size:21
Alignment explanation
Indices: 280545--280595 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
280535 AGGTCAGTGA
*
280545 AATGTACAGTGAGGTACAGTC
1 AATGTACAGTGAGGTACAGAC
*
280566 AATGTACAGTGGATGT-CAGAC
1 AATGTACAGT-GAGGTACAGAC
280587 AATGT-CAGT
1 AATGTACAGT
280596 CAATATTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 4 0.15
21 19 0.70
22 4 0.15
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.25
Consensus pattern (21 bp):
AATGTACAGTGAGGTACAGAC
Found at i:281036 original size:19 final size:17
Alignment explanation
Indices: 280990--281041 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 17
280980 TTTACAAAAT
280990 CATATTATACAATATTTA
1 CATA-TATACAATATTTA
*
281008 -TTATATACAATATTATA
1 CATATATACAATATT-TA
281025 CATATGATACAATATTT
1 CATAT-ATACAATATTT
281042 TATTAAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 11 0.38
17 4 0.14
18 4 0.14
19 10 0.34
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (17 bp):
CATATATACAATATTTA
Found at i:281059 original size:33 final size:36
Alignment explanation
Indices: 280990--281078 Score: 114
Period size: 33 Copynumber: 2.6 Consensus size: 36
280980 TTTACAAAAT
*
280990 CATATTATACAATA-TTTATTATATACAATATTATA
1 CATATGATACAATATTTTATTATATACAATATTATA
281025 CATATGATACAATATTTTATTA-A-AC-ATATTATA
1 CATATGATACAATATTTTATTATATACAATATTATA
* *
281058 CATAAGATACCATATTATTAT
1 CATATGATACAATATT-TTAT
281079 AATACATTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
33 22 0.45
34 6 0.12
35 14 0.29
36 7 0.14
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (36 bp):
CATATGATACAATATTTTATTATATACAATATTATA
Found at i:281168 original size:15 final size:15
Alignment explanation
Indices: 281124--281185 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
281114 AACAATATCG
281124 TATCATATGATACAA
1 TATCATATGATACAA
*
281139 TATTATAT-ATTACAA
1 TATCATATGA-TACAA
*
281154 TATCATATGAAACAA
1 TATCATATGATACAA
* *
281169 TATCATGTGATGCAA
1 TATCATATGATACAA
281184 TA
1 TA
281186 CTACATGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
14 1 0.03
15 37 0.95
16 1 0.03
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.35
Consensus pattern (15 bp):
TATCATATGATACAA
Found at i:281211 original size:15 final size:15
Alignment explanation
Indices: 281124--281221 Score: 63
Period size: 15 Copynumber: 6.2 Consensus size: 15
281114 AACAATATCG
*
281124 TATCATATGATACAA
1 TATCATATAATACAA
* *
281139 TATTATATATTACAA
1 TATCATATAATACAA
281154 TATCATATGAA-ACAA
1 TATCATAT-AATACAA
*
281169 TATCATGTGATGCAATACTA
1 TATCA--T-AT--AATACAA
* *
281189 CATGATATAATACAA
1 TATCATATAATACAA
**
281204 TATCATATTTTACAA
1 TATCATATAATACAA
281219 TAT
1 TAT
281222 ACATGTATTA
Statistics
Matches: 63, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
15 48 0.76
16 1 0.02
17 3 0.05
18 3 0.05
19 2 0.03
20 6 0.10
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (15 bp):
TATCATATAATACAA
Found at i:281854 original size:171 final size:172
Alignment explanation
Indices: 281431--281884 Score: 777
Period size: 172 Copynumber: 2.6 Consensus size: 172
281421 GCAGTATACT
* ** *
281431 AGTATCGACCAAGGCTGATTTAGGAACTTGATCAAGGTATTAGTGGTATAAACATTTGGTATAAA
1 AGTATCGACCAATGCTGATTTTCGAACTTGACCAAGGTATTAGTGGTATAAACATTTGGTATAAA
*
281496 TTTCATGTAAAA-CCGTCAAAATTTGTAGGCATGAGAGCACTTACAAGGTCAATTTTTGGATAAA
66 TTTAATG-AAAATCCGTCAAAATTTGTAGGCATGAGAGCACTTACAAGGTCAATTTTTGGATAAA
281560 ACAGAGTCATTATTGTGGTCAAAGTCCCATAACTCCAACAAAA
130 ACAGAGTCATTATTGTGGTCAAAGTCCCATAACTCCAACAAAA
* *
281603 AGTATCGACCAATGCTGATTTTCGAACTTGACCAAAGTATTAGTAGTATAAACATTTGGTATAAA
1 AGTATCGACCAATGCTGATTTTCGAACTTGACCAAGGTATTAGTGGTATAAACATTTGGTATAAA
* *
281668 TTTAATGAAAATCCGTCAACATTTGTAGGCATGAGAACACTTACAAGGTCAATTTTTGGATAAAA
66 TTTAATGAAAATCCGTCAAAATTTGTAGGCATGAGAGCACTTACAAGGTCAATTTTTGGATAAAA
*
281733 CAGAGTCATTATTGTGGTCAAAGTCCCA-AACTGCAACAAAA
131 CAGAGTCATTATTGTGGTCAAAGTCCCATAACTCCAACAAAA
*
281774 AGTATCGACCAATGCTGATTTTCGAACTTGACCAAGGTAATAGTGGTATAAACATTTGGTATAAA
1 AGTATCGACCAATGCTGATTTTCGAACTTGACCAAGGTATTAGTGGTATAAACATTTGGTATAAA
*
281839 TTTAATGAAAATCCGTCAAAATTTGTAGGCATGAGAGCGCTTACAA
66 TTTAATGAAAATCCGTCAAAATTTGTAGGCATGAGAGCACTTACAA
281885 AAAAGTGTGA
Statistics
Matches: 265, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
171 121 0.46
172 144 0.54
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (172 bp):
AGTATCGACCAATGCTGATTTTCGAACTTGACCAAGGTATTAGTGGTATAAACATTTGGTATAAA
TTTAATGAAAATCCGTCAAAATTTGTAGGCATGAGAGCACTTACAAGGTCAATTTTTGGATAAAA
CAGAGTCATTATTGTGGTCAAAGTCCCATAACTCCAACAAAA
Found at i:281902 original size:4 final size:4
Alignment explanation
Indices: 281893--281940 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
281883 AAAAAAGTGT
* * * * *
281893 GACG GACG GACA CACG GACG AACG GACG GACG GACA CACG GACG GACG
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG
281941 CCTGGCATTT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.31, C:0.29, G:0.40, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:281911 original size:12 final size:12
Alignment explanation
Indices: 281894--281939 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
281884 AAAAAGTGTG
281894 ACGGACGGACAC
1 ACGGACGGACAC
* **
281906 ACGGACGAACGG
1 ACGGACGGACAC
281918 ACGGACGGACAC
1 ACGGACGGACAC
281930 ACGGACGGAC
1 ACGGACGGAC
281940 GCCTGGCATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.33, C:0.30, G:0.37, T:0.00
Consensus pattern (12 bp):
ACGGACGGACAC
Found at i:286461 original size:21 final size:21
Alignment explanation
Indices: 286437--286570 Score: 110
Period size: 21 Copynumber: 6.4 Consensus size: 21
286427 CGATAAACCT
286437 GATAGGATTAACGCACGATAG
1 GATAGGATTAACGCACGATAG
*
286458 GATAGGATTAAAGCACGATAG
1 GATAGGATTAACGCACGATAG
* * * *
286479 AACAGTA-TACACGCACGATAT
1 GATAGGATTA-ACGCACGATAG
*
286500 GATAGAATTAACGCACGATAG
1 GATAGGATTAACGCACGATAG
* * * *
286521 AACAGTA-TACACGCACGATAA
1 GATAGGATTA-ACGCACGATAG
* ** *
286542 GATAGGATTGATACACGATAC
1 GATAGGATTAACGCACGATAG
286563 GATAGGAT
1 GATAGGAT
286571 AGGATTGTAA
Statistics
Matches: 88, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
20 4 0.05
21 81 0.92
22 3 0.03
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (21 bp):
GATAGGATTAACGCACGATAG
Found at i:286494 original size:42 final size:42
Alignment explanation
Indices: 286447--286550 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
286437 GATAGGATTA
*
286447 ACGCACGATAGGATAGGATTAAAGCACGATAGAACAGTATAC
1 ACGCACGATAAGATAGGATTAAAGCACGATAGAACAGTATAC
* * *
286489 ACGCACGATATGATAGAATTAACGCACGATAGAACAGTATAC
1 ACGCACGATAAGATAGGATTAAAGCACGATAGAACAGTATAC
286531 ACGCACGATAAGATAGGATT
1 ACGCACGATAAGATAGGATT
286551 GATACACGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.18
Consensus pattern (42 bp):
ACGCACGATAAGATAGGATTAAAGCACGATAGAACAGTATAC
Found at i:299891 original size:90 final size:92
Alignment explanation
Indices: 299692--299900 Score: 253
Period size: 94 Copynumber: 2.3 Consensus size: 92
299682 AGAGAGGTGT
* * * *
299692 TTGTCCATCATCGTTCGTTGGC-GGGGGTAAGGGGGCATCACCAAAAAAAAACCCACAACAACAA
1 TTGTCCATCATCCTTCGTTGGCGGGGGGGAAGGGGGCATCAACAAAAAAAAACCAACAACAACAA
*
299756 ACAACAACATAAAAACCGTCTTCGTAAGAT
66 ACAACAAC---AAAACCGTCTTCGTAAGAG
* * ** * **
299786 TTGCCCATTATCCTTCGTTGGCGGGGGGGGGGGGGGCATTAAC-AAAGTAAACCAACAACAACAA
1 TTGTCCATCATCCTTCGTTGGCGGGGGGGAAGGGGGCATCAACAAAAAAAAACCAACAACAACAA
299850 ACAACAAC-AAACCGTCTTCGTAAGAG
66 ACAACAACAAAACCGTCTTCGTAAGAG
*
299876 TTGTCCATCATCCTTCGCTGGCGGG
1 TTGTCCATCATCCTTCGTTGGCGGG
299901 TGTAAGCAGC
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
90 39 0.39
94 45 0.45
95 15 0.15
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.20
Consensus pattern (92 bp):
TTGTCCATCATCCTTCGTTGGCGGGGGGGAAGGGGGCATCAACAAAAAAAAACCAACAACAACAA
ACAACAACAAAACCGTCTTCGTAAGAG
Found at i:300276 original size:23 final size:23
Alignment explanation
Indices: 300250--300410 Score: 97
Period size: 23 Copynumber: 7.3 Consensus size: 23
300240 AATCTAAGTG
* *
300250 TGTGGTTTTGTAAGATCTTACTA
1 TGTGGTATTGTAAGATCTAACTA
300273 TGTGGTATTGT-AGAATCTAAC--
1 TGTGGTATTGTAAG-ATCTAACTA
* * *
300294 TGTGGTTTTTTAGGA--T--CTA
1 TGTGGTATTGTAAGATCTAACTA
* *
300313 TGTGGTACTGTAAGATCTAAGTA
1 TGTGGTATTGTAAGATCTAACTA
**
300336 TGTGGTACAGTAAGATCTAACTA
1 TGTGGTATTGTAAGATCTAACTA
* * *
300359 TGTGGTATAGT-AGTATCTTACTT
1 TGTGGTATTGTAAG-ATCTAACTA
* * *
300382 TGCGGTATTGT-AGAATGTAACTG
1 TGTGGTATTGTAAG-ATCTAACTA
300405 TGTGGT
1 TGTGGT
300411 TTATGTGATA
Statistics
Matches: 107, Mismatches: 22, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
17 1 0.01
19 12 0.11
21 11 0.10
22 5 0.05
23 78 0.73
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (23 bp):
TGTGGTATTGTAAGATCTAACTA
Found at i:300318 original size:19 final size:19
Alignment explanation
Indices: 300270--300324 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 19
300260 TAAGATCTTA
300270 CTATGTGGTATTGTAGAAT
1 CTATGTGGTATTGTAGAAT
* * *
300289 CTAACTGTGGTTTTTTAGGAT
1 CT-A-TGTGGTATTGTAGAAT
*
300310 CTATGTGGTACTGTA
1 CTATGTGGTATTGTA
300325 AGATCTAAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 11 0.39
20 2 0.07
21 15 0.54
ACGTcount: A:0.22, C:0.09, G:0.25, T:0.44
Consensus pattern (19 bp):
CTATGTGGTATTGTAGAAT
Found at i:302625 original size:44 final size:44
Alignment explanation
Indices: 302576--302756 Score: 156
Period size: 44 Copynumber: 4.2 Consensus size: 44
302566 TTATTATGCA
* * *
302576 GATTGATGTACAATACAATGGTTTACCTGAAATCGTTATACGTG
1 GATTGATGTACAATACAATTGTTTACCTGATATCGTAATACGTG
* * * *
302620 GATTGATGTACATTACAA---TTTACGTTATATCGTAATAAGTG
1 GATTGATGTACAATACAATTGTTTACCTGATATCGTAATACGTG
** * *
302661 GATTGACATACAATACAATTGTTT-CCATGATATTGTAATATGTG
1 GATTGATGTACAATACAATTGTTTACC-TGATATCGTAATACGTG
* *** * *
302705 GATGGATGTATTTTACAATTATTTACGTGATATCGTTAA-ACGTG
1 GATTGATGTACAATACAATTGTTTACCTGATATCG-TAATACGTG
302749 GATTGATG
1 GATTGATG
302757 ATACCGTAAT
Statistics
Matches: 107, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
41 33 0.31
43 1 0.01
44 69 0.64
45 4 0.04
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (44 bp):
GATTGATGTACAATACAATTGTTTACCTGATATCGTAATACGTG
Found at i:302841 original size:36 final size:37
Alignment explanation
Indices: 302800--302878 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 37
302790 TAATAATATA
* *
302800 GTTTACCGTAATACGTGG-TTAATGTACATCATAATT
1 GTTTACCGTAATACGTGGATGAATGTACATCACAATT
* * * *
302836 GTTTACTGTTATACGTGGATGAATGTACTTTACAATT
1 GTTTACCGTAATACGTGGATGAATGTACATCACAATT
302873 GTTTAC
1 GTTTAC
302879 ATGGTCGATA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 16 0.44
37 20 0.56
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.42
Consensus pattern (37 bp):
GTTTACCGTAATACGTGGATGAATGTACATCACAATT
Found at i:302903 original size:48 final size:47
Alignment explanation
Indices: 302843--303063 Score: 194
Period size: 48 Copynumber: 4.8 Consensus size: 47
302833 ATTGTTTACT
*
302843 GTTATACGTGGATGAATGTACTTTACAATTGTTTACATGGTCGATATC
1 GTTATACGTGGATTAATGTACTTTACAATTGTTTAC-TGGTCGATATC
* * *
302891 GTTATACATGGATTAATGTA-TATTACAATTGTTTACTGTAATACGTGGTATC
1 GTTATACGTGGATTAATGTACT-TTACAATTGTTTACTG--GT-C--GATATC
* *
302943 GTTATAGGTGGATTAATGTACATTACAATTGTTTAC----CG-TA--
1 GTTATACGTGGATTAATGTACTTTACAATTGTTTACTGGTCGATATC
* *
302983 ---ATACGTGGATGAATGTACTTTACAATTATTTACGTGGTCGATATC
1 GTTATACGTGGATTAATGTACTTTACAATTGTTTAC-TGGTCGATATC
* * *
303028 GTAATACGTGGATTAGTGTACATTACAATTGTTTAC
1 GTTATACGTGGATTAATGTACTTTACAATTGTTTAC
303064 CGTAATACGT
Statistics
Matches: 140, Mismatches: 15, Indels: 36
0.73 0.08 0.19
Matches are distributed among these distances:
37 29 0.21
42 4 0.03
43 3 0.02
45 1 0.01
47 3 0.02
48 61 0.44
49 1 0.01
50 1 0.01
52 37 0.26
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.40
Consensus pattern (47 bp):
GTTATACGTGGATTAATGTACTTTACAATTGTTTACTGGTCGATATC
Found at i:302958 original size:52 final size:52
Alignment explanation
Indices: 302887--302990 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
302877 ACATGGTCGA
* *
302887 TATCGTTATACATGGATTAATGTATATTACAATTGTTTACTGTAATACGTGG
1 TATCGTTATACATGGATTAATGTACATTACAATTGTTTACCGTAATACGTGG
**
302939 TATCGTTATAGGTGGATTAATGTACATTACAATTGTTTACCGTAATACGTGG
1 TATCGTTATACATGGATTAATGTACATTACAATTGTTTACCGTAATACGTGG
302991 ATGAATGTAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (52 bp):
TATCGTTATACATGGATTAATGTACATTACAATTGTTTACCGTAATACGTGG
Found at i:303000 original size:37 final size:37
Alignment explanation
Indices: 302944--303626 Score: 747
Period size: 37 Copynumber: 17.8 Consensus size: 37
302934 CGTGGTATCG
* *
302944 TTATAGGTGGATTAATGTACATTACAATTGTTTACCG
1 TTATACGTGGATTAATGTACATTACAATTGTTTACCA
* * * *
302981 TAATACGTGGATGAATGTACTTTACAATTATTTACGTGGTCGATA
1 TTATACGTGGATTAATGTACATTACAATTGTTTAC-----C---A
* *
303026 TCGTAATACGTGGATTAGTGTACATTACAATTGTTTACCG
1 T--T-ATACGTGGATTAATGTACATTACAATTGTTTACCA
* * *
303066 TAATACGTGGATTAATGTACATTACAAATGTTAACCA
1 TTATACGTGGATTAATGTACATTACAATTGTTTACCA
*
303103 TTATACGTGGATTAATCTACATTACAATTGTTTACCA
1 TTATACGTGGATTAATGTACATTACAATTGTTTACCA
* *
303140 CTATACGTGGATTAATGTACATTACAGTTGTTTACCA
1 TTATACGTGGATTAATGTACATTACAATTGTTTACCA
* * *
303177 TTATACGTGGATTAGTGTACATTACAATTGTTAACCG
1 TTATACGTGGATTAATGTACATTACAATTGTTTACCA
*
303214 TAATACGTGGTATCGTTATACGTGGATTA-ATGTACAATACAATTGTTTACCA
1 TTATACGTGG-A---TTA-A--T-G--TACAT-TAC-A----ATTGTTTACCA
*
303266 TTATACGTGGATTAGTGTACATTACAATTGTTTACCA
1 TTATACGTGGATTAATGTACATTACAATTGTTTACCA
*
303303 TTATACGTGGATTAATGTACATTGCAATTGTTTACCA
1 TTATACGTGGATTAATGTACATTACAATTGTTTACCA
* * *
303340 TTATACGTGGATTAATGTACATTAGAGTTGTTTGCCA
1 TTATACGTGGATTAATGTACATTACAATTGTTTACCA
* *
303377 TTATACGTGGATTAATGTACATTAGAGTTGTTTACCA
1 TTATACGTGGATTAATGTACATTACAATTGTTTACCA
*
303414 TTATACGTGGATTAATGTACATTACAGTTGTTTACCA
1 TTATACGTGGATTAATGTACATTACAATTGTTTACCA
*
303451 TTATACGTGGATTAATGTACATTACAGTTGTTTACCA
1 TTATACGTGGATTAATGTACATTACAATTGTTTACCA
* *
303488 TTATACGTGGATTAATGTACATTATAAATGTTTACCA
1 TTATACGTGGATTAATGTACATTACAATTGTTTACCA
* * *
303525 TTATACGTGGATTAATGTACATTATAAATGTTTACCG
1 TTATACGTGGATTAATGTACATTACAATTGTTTACCA
* * * **
303562 TTATACGTGGATTACTGTACATTACAGTTGTATACTG
1 TTATACGTGGATTAATGTACATTACAATTGTTTACCA
* * * *
303599 TAATATGTGGATGAATGTACTTTACAAT
1 TTATACGTGGATTAATGTACATTACAAT
303627 CATTTACGTG
Statistics
Matches: 559, Mismatches: 59, Indels: 56
0.83 0.09 0.08
Matches are distributed among these distances:
37 480 0.86
38 1 0.00
40 1 0.00
41 4 0.01
42 6 0.01
43 3 0.01
44 2 0.00
45 3 0.01
46 2 0.00
47 5 0.01
48 33 0.06
51 1 0.00
52 18 0.03
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (37 bp):
TTATACGTGGATTAATGTACATTACAATTGTTTACCA
Found at i:303069 original size:137 final size:136
Alignment explanation
Indices: 302814--303075 Score: 416
Period size: 137 Copynumber: 1.9 Consensus size: 136
302804 ACCGTAATAC
* * * *
302814 GTGGTTAATGTACATCATAATTGTTTACTGTTATACGTGGATGAATGTACTTTACAATTGTTTAC
1 GTGGTTAATGTACATCACAATTGTTTACCGTAATACGTGGATGAATGTACTTTACAATTATTTAC
* * *
302879 ATGGTCGATATCGTTATACATGGATTAATGTATATTACAATTGTTTACTGTAATACGTGGTATCG
66 ATGGTCGATATCGTAATACATGGATTAATGTACATTACAATTGTTTACCGTAATACGTGGTATCG
302944 TTATAG
131 TTATAG
*
302950 GTGGATTAATGTACATTACAATTGTTTACCGTAATACGTGGATGAATGTACTTTACAATTATTTA
1 GTGG-TTAATGTACATCACAATTGTTTACCGTAATACGTGGATGAATGTACTTTACAATTATTTA
* * *
303015 CGTGGTCGATATCGTAATACGTGGATTAGTGTACATTACAATTGTTTACCGTAATACGTGG
65 CATGGTCGATATCGTAATACATGGATTAATGTACATTACAATTGTTTACCGTAATACGTGG
303076 ATTAATGTAC
Statistics
Matches: 114, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
136 4 0.04
137 110 0.96
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (136 bp):
GTGGTTAATGTACATCACAATTGTTTACCGTAATACGTGGATGAATGTACTTTACAATTATTTAC
ATGGTCGATATCGTAATACATGGATTAATGTACATTACAATTGTTTACCGTAATACGTGGTATCG
TTATAG
Found at i:303255 original size:52 final size:52
Alignment explanation
Indices: 303177--303275 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 52
303167 TTGTTTACCA
* * *
303177 TTATACGTGGATTAGTGTACATTACAATTGTTAACCGTAATACGTGGTATCG
1 TTATACGTGGATTAATGTACAATACAATTGTTAACCATAATACGTGGTATCG
* *
303229 TTATACGTGGATTAATGTACAATACAATTGTTTACCATTATACGTGG
1 TTATACGTGGATTAATGTACAATACAATTGTTAACCATAATACGTGG
303276 ATTAGTGTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.37
Consensus pattern (52 bp):
TTATACGTGGATTAATGTACAATACAATTGTTAACCATAATACGTGGTATCG
Found at i:303292 original size:89 final size:89
Alignment explanation
Indices: 303141--303312 Score: 299
Period size: 89 Copynumber: 1.9 Consensus size: 89
303131 TGTTTACCAC
* *
303141 TATACGTGGATTAATGTACATTACAGTTGTTTACCATTATACGTGGATTAGTGTACATTACAATT
1 TATACGTGGATTAATGTACAATACAATTGTTTACCATTATACGTGGATTAGTGTACATTACAATT
*
303206 GTTAACCGTAATACGTGGTATCGT
66 GTTAACCATAATACGTGGTATCGT
303230 TATACGTGGATTAATGTACAATACAATTGTTTACCATTATACGTGGATTAGTGTACATTACAATT
1 TATACGTGGATTAATGTACAATACAATTGTTTACCATTATACGTGGATTAGTGTACATTACAATT
* *
303295 GTTTACCATTATACGTGG
66 GTTAACCATAATACGTGG
303313 ATTAATGTAC
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 78 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (89 bp):
TATACGTGGATTAATGTACAATACAATTGTTTACCATTATACGTGGATTAGTGTACATTACAATT
GTTAACCATAATACGTGGTATCGT
Found at i:303512 original size:21 final size:21
Alignment explanation
Indices: 303486--303550 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
303476 AGTTGTTTAC
303486 CATTATACGTGGATTAATGTA
1 CATTATACGTGGATTAATGTA
**
303507 CATTATAAAT-G--T--T-TA
1 CATTATACGTGGATTAATGTA
303522 CCATTATACGTGGATTAATGTA
1 -CATTATACGTGGATTAATGTA
303544 CATTATA
1 CATTATA
303551 AATGTTTACC
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
15 2 0.06
16 9 0.27
17 1 0.03
18 1 0.03
19 1 0.03
20 1 0.03
21 16 0.48
22 2 0.06
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (21 bp):
CATTATACGTGGATTAATGTA
Found at i:303770 original size:37 final size:37
Alignment explanation
Indices: 303720--303834 Score: 212
Period size: 37 Copynumber: 3.1 Consensus size: 37
303710 TTAATGTACA
*
303720 GTACATTACAATTGTTAACCGTAATACATGGATTGAT
1 GTACATTACAATTGTTAACCGTAATACGTGGATTGAT
303757 GTACATTACAATTGTTAACCGTAATACGTGGATTGAT
1 GTACATTACAATTGTTAACCGTAATACGTGGATTGAT
*
303794 GTACATTACAATTGTTAACCGTAGTACGTGGATTGAT
1 GTACATTACAATTGTTAACCGTAATACGTGGATTGAT
303831 GTAC
1 GTAC
303835 TGTACATTAC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 76 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (37 bp):
GTACATTACAATTGTTAACCGTAATACGTGGATTGAT
Found at i:307571 original size:8 final size:8
Alignment explanation
Indices: 307554--307596 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
307544 AAGTGGGACA
307554 GACAGACG
1 GACAGACG
*
307562 GACGGACG
1 GACAGACG
*
307570 GACAGACA
1 GACAGACG
307578 GACAGACG
1 GACAGACG
*
307586 GACTGACG
1 GACAGACG
307594 GAC
1 GAC
307597 GCAGAGGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.35, C:0.26, G:0.37, T:0.02
Consensus pattern (8 bp):
GACAGACG
Found at i:307574 original size:20 final size:20
Alignment explanation
Indices: 307549--307588 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
307539 AACTGAAGTG
*
307549 GGACAGACAGACGGACGGAC
1 GGACAGACAGACAGACGGAC
307569 GGACAGACAGACAGACGGAC
1 GGACAGACAGACAGACGGAC
307589 TGACGGACGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.38, T:0.00
Consensus pattern (20 bp):
GGACAGACAGACAGACGGAC
Found at i:307582 original size:24 final size:24
Alignment explanation
Indices: 307550--307596 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
307540 ACTGAAGTGG
307550 GACAGACAGACGGACGGACGGACA
1 GACAGACAGACGGACGGACGGACA
*
307574 GACAGACAGACGGACTGACGGAC
1 GACAGACAGACGGACGGACGGAC
307597 GCAGAGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.26, G:0.36, T:0.02
Consensus pattern (24 bp):
GACAGACAGACGGACGGACGGACA
Found at i:308267 original size:44 final size:44
Alignment explanation
Indices: 308196--308538 Score: 332
Period size: 44 Copynumber: 7.6 Consensus size: 44
308186 ACAGTAGACC
* * * *
308196 AGAACATGAATGTACCTTACTAAACCTAAATAACGCACTACACT
1 AGAACATAAATATACCTCACTATACCTAAATAACGCACTACACT
* * * *
308240 AGAACATTATTATACCTCACTATACCTAAATAACGTACTACACC
1 AGAACATAAATATACCTCACTATACCTAAATAACGCACTACACT
* *
308284 AG-A-TTGAATATACCTCACTATACCTAAATAACGCACTACACTAT
1 AGAACATAAATATACCTCACTATACCTAAATAACGCACTACAC--T
* * * *
308328 ACCAGAACATGAATATACCTCACTATATCTAAATAACGTACTACACC
1 ---AGAACATAAATATACCTCACTATACCTAAATAACGCACTACACT
* * *
308375 AGAACATGAATTTACCTCAATATACCTAAATAACGCACTACACT
1 AGAACATAAATATACCTCACTATACCTAAATAACGCACTACACT
* * *
308419 AGAACATAAATGTACCTTC-CTATACCTAAATGACGTACTACACTATACT
1 AGAACATAAATATACC-TCACTATACCTAAAT-A---AC-GCACTACACT
* *
308468 AGAACATAAATGTACCTCACTATACCTAAATATCGCACTACACT
1 AGAACATAAATATACCTCACTATACCTAAATAACGCACTACACT
* * * *
308512 AGAACATGAATGTAACTTACTATACCT
1 AGAACATAAATATACCTCACTATACCT
308539 TACCATACCT
Statistics
Matches: 253, Mismatches: 32, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
42 34 0.13
43 1 0.00
44 135 0.53
45 4 0.02
47 2 0.01
48 6 0.02
49 71 0.28
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.26
Consensus pattern (44 bp):
AGAACATAAATATACCTCACTATACCTAAATAACGCACTACACT
Found at i:308472 original size:93 final size:88
Alignment explanation
Indices: 308193--308538 Score: 419
Period size: 93 Copynumber: 3.8 Consensus size: 88
308183 AGAACAGTAG
* * * *
308193 ACCAGAACATGAATGTACCTTACTAAACCTAAATAACGCACTACACTAGAACATTATTATACCTC
1 ACCAGAACATGAATGTACCTCACTATACCTAAATAACGCACTACACTAGAACATGAATATACCTC
308258 ACTATACCTAAATAACGTACTAC
66 ACTATACCTAAATAACGTACTAC
* *
308281 ACCAG-A-TTGAATATACCTCACTATACCTAAATAACGCACTACACTATACCAGAACATGAATAT
1 ACCAGAACATGAATGTACCTCACTATACCTAAATAACGCACTACAC--T---AGAACATGAATAT
*
308344 ACCTCACTATATCTAAATAACGTACTAC
61 ACCTCACTATACCTAAATAACGTACTAC
* * * *
308372 ACCAGAACATGAATTTACCTCAATATACCTAAATAACGCACTACACTAGAACATAAATGTACCTT
1 ACCAGAACATGAATGTACCTCACTATACCTAAATAACGCACTACACTAGAACATGAATATACC-T
*
308437 C-CTATACCTAAATGACGTACTAC
65 CACTATACCTAAATAACGTACTAC
* * *
308460 ACTATACTAGAACATAAATGTACCTCACTATACCTAAATATCGCACTACACTAGAACATGAATGT
1 AC----C-AGAACATGAATGTACCTCACTATACCTAAATAACGCACTACACTAGAACATGAATAT
* *
308525 AACTTACTATACCT
61 ACCTCACTATACCT
308539 TACCATACCT
Statistics
Matches: 223, Mismatches: 21, Indels: 23
0.84 0.08 0.09
Matches are distributed among these distances:
86 34 0.15
87 1 0.00
88 42 0.19
89 2 0.01
91 44 0.20
92 3 0.01
93 97 0.43
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (88 bp):
ACCAGAACATGAATGTACCTCACTATACCTAAATAACGCACTACACTAGAACATGAATATACCTC
ACTATACCTAAATAACGTACTAC
Found at i:308488 original size:26 final size:26
Alignment explanation
Indices: 308410--308492 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
308400 CTAAATAACG
*
308410 CACTACACTAGAACATAAATGTACCTT
1 CACTATACTAGAACATAAATGTACC-T
* *
308437 C-CTATACCT--AA-AT-GACGTA-CT
1 CACTATA-CTAGAACATAAATGTACCT
308458 ACACTATACTAGAACATAAATGTACCT
1 -CACTATACTAGAACATAAATGTACCT
308485 CACTATAC
1 CACTATAC
308493 CTAAATATCG
Statistics
Matches: 43, Mismatches: 5, Indels: 17
0.66 0.08 0.26
Matches are distributed among these distances:
21 1 0.02
22 4 0.09
23 9 0.21
24 4 0.09
25 4 0.09
26 16 0.37
27 5 0.12
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (26 bp):
CACTATACTAGAACATAAATGTACCT
Found at i:312963 original size:20 final size:20
Alignment explanation
Indices: 312938--313013 Score: 89
Period size: 25 Copynumber: 3.5 Consensus size: 20
312928 AAACGAAATA
312938 GAAACGAAACGAAATCTACCGAAAC
1 GAAACGAAACGAAATCTA-C----C
*
312963 GAAACGAAACGAAACCTACC
1 GAAACGAAACGAAATCTACC
312983 GAAACGAAACGAAATCCTACC
1 GAAACGAAACGAAAT-CTACC
313004 GAAACGAAAC
1 GAAACGAAAC
313014 AAGACGAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
20 15 0.31
21 15 0.31
24 1 0.02
25 17 0.35
ACGTcount: A:0.51, C:0.26, G:0.16, T:0.07
Consensus pattern (20 bp):
GAAACGAAACGAAATCTACC
Found at i:312967 original size:25 final size:25
Alignment explanation
Indices: 312938--312996 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
312928 AAACGAAATA
*
312938 GAAACGAAACGAAATCTACCGAAAC
1 GAAACGAAACGAAACCTACCGAAAC
312963 GAAACGAAACGAAACCTACCGAAAC
1 GAAACGAAACGAAACCTACCGAAAC
312988 GAAACGAAA
1 GAAACGAAA
312997 TCCTACCGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.54, C:0.24, G:0.17, T:0.05
Consensus pattern (25 bp):
GAAACGAAACGAAACCTACCGAAAC
Found at i:313013 original size:5 final size:5
Alignment explanation
Indices: 312926--312996 Score: 63
Period size: 5 Copynumber: 14.0 Consensus size: 5
312916 CTGTAAAGTG
* * *
312926 CGAAA CGAAA TAGAAA CGAAA CGAAA TC-TAC CGAAA CGAAA CGAAA CGAAA
1 CGAAA CGAAA -CGAAA CGAAA CGAAA -CGAAA CGAAA CGAAA CGAAA CGAAA
** *
312977 CCTAC CGAAA CGAAA CGAAA
1 CGAAA CGAAA CGAAA CGAAA
312997 TCCTACCGAA
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
4 1 0.02
5 45 0.88
6 5 0.10
ACGTcount: A:0.55, C:0.23, G:0.17, T:0.06
Consensus pattern (5 bp):
CGAAA
Found at i:313532 original size:5 final size:5
Alignment explanation
Indices: 313524--313570 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
313514 TTTTCAGTAA
* * *
313524 GTTTC GTTTC GTTTC GTTTT GATTTC GTTTT GTTTT GTTTC GTTTC G
1 GTTTC GTTTC GTTTC GTTTC G-TTTC GTTTC GTTTC GTTTC GTTTC G
313571 GTAAGTTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.02, C:0.13, G:0.21, T:0.64
Consensus pattern (5 bp):
GTTTC
Found at i:313551 original size:16 final size:15
Alignment explanation
Indices: 313524--313570 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
313514 TTTTCAGTAA
*
313524 GTTTCGTTTCGTTTC
1 GTTTTGTTTCGTTTC
*
313539 GTTTTGATTTCGTTTT
1 GTTTTG-TTTCGTTTC
313555 GTTTTGTTTCGTTTC
1 GTTTTGTTTCGTTTC
313570 G
1 G
313571 GTAAGTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 14 0.50
16 14 0.50
ACGTcount: A:0.02, C:0.13, G:0.21, T:0.64
Consensus pattern (15 bp):
GTTTTGTTTCGTTTC
Found at i:318026 original size:179 final size:178
Alignment explanation
Indices: 317434--319233 Score: 2781
Period size: 179 Copynumber: 10.0 Consensus size: 178
317424 GGCTGCCAAA
* * * * *
317434 AGGGTTCCCTTATTATACGGATAACTCCTCCTACAGTTTTCAAGATAGGAAATTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
* *
317499 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTACGATTTTGATTTTCGATAATTAATAAA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTTCGATAATTAATGAA
317564 AAAAACCCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
131 AAAAA-CCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
*
317613 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTATGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
* * * * *
317678 GATCAATTGTACATATTTCAGAGGTGTGCATACTGCTAGGAATTTGA-TTTCTGATAATTTATCA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTTC-GATAATTAAT-G
* * *
317742 AAAAAATACCAGCTTTTGAACTTAATCATTTTTTGGCAAAATACTGCACAT
129 AAAAAA-ACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
* * *
317793 AGGGTACCCTCATTGTATGGATAACTCCTTCTACAGTTCTCAAGATAAGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
* * *
317858 GATCAATTGTACATAAAACAGAGGTGTGCATATTGCTACGATTTTGATTTTCGATAATTAATGAA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTTCGATAATTAATGAA
*
317923 AAAAACCCAGCTTTTGAACTTCGTCATTTTTTGGCAAAATATTGCATAT
131 AAAAA-CCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
*
317972 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTAT-TTCTGC
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGT-TCTTTTGC
* * *
318036 AGATCAATTGTACATATATCAGAGGTGTGCATACTGCTAGGAATTTGA-TTTCTGATAATTTATG
65 AGATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTTC-GATAATTAATG
*
318100 AAAAAATACCAGCTTTTGAACTTAGTCATTCTTTGGCAAAATATTGCATAT
129 AAAAAA-ACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
* *
318151 AGGGTTCCCTCATTGTACGGATAACTTCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
* *
318216 GATCAATTGTACATATTTCAGAGGTGTGCATATTGCTAGGATTTTGATTTTCAATAATTAATGAA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTTCGATAATTAATGAA
318281 AAAATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
131 AAAA-ACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
* * *
318330 AGGGTACCCTCATTGTACGGATAA-TAACTCCTACAGTTCTCAAGATAAGAAGCTGTTCTTTTGC
1 AGGGTACCCTCATTGTACGGATAACT-CCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGC
* *
318394 AGATCATTTGTACATATATCAGAGGTGTGCAT-TCTGCTAGGAATTTGA-TTTCTGATAATTAAT
65 AGATCAATTGTACATATATCAGAGGTGTGCATAT-TGCTAGGATTTTGATTTTC-GATAATTAAT
*
318457 CAAAAAAATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
128 -GAAAAAA-ACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
* *
318510 AGGGTACCCTCATTGTACGGATAACTCCTTCTACAGTTCTCAAGATAAGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
* * *
318575 GATCAATTGTACATAAATCAGAGGTGTGCATATTGCTACGATTTTGATTTTCAATAATTAATGAA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTTCGATAATTAATG-A
318640 AAAAAACCCAGCTTTTGAACTTAGTCA-TTTTTGGCAAAATATTGCATAT
130 AAAAAA-CCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
318689 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
* * * *
318754 GATCAATTGTACATATATCAGAGGTGTGCATACTGCTAGGAATTTGA-TATCTGATAATTTATGA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTTC-GATAATTAATGA
318818 AAAAATACCAGCTTTTGAACTTAGTCATTCTTTT-GCAAAATATTGCATAT
130 AAAAA-ACCAGCTTTTGAACTTAGTCATT-TTTTGGCAAAATATTGCATAT
* *
318868 AGGGTACCCTCATTGTACGGATAACTTCTCCTACAGTTCTAAAGATAGGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
* * *
318933 GATCAATTGTTCATATTTCAGAGGTGTGCATATTGCTAGGATTTTGATTTTCAATAATTAATGAA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTTCGATAATTAATGAA
* *
318998 AAAATACCAGCTTTTGAACTTAATCATTTTTTGGCAAAATATTGCACAT
131 AAAA-ACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
* *
319047 AGGGTACCCTCATTGTATGGATAACTCCTTCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
* * * *
319112 GATCAATTGTACATAAATCAGAGATGTGCATATTGCTAGGATTTTGATTTCCAATAATTAATGAA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTTCGATAATTAATG-A
*
319177 AAAAATACCAGCTTTTGAACTTACTCATTTTTTGGCAAAATATTGCATAT
130 AAAAA-ACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
*
319227 AAGGTAC
1 AGGGTAC
319234 TCCATTTCAC
Statistics
Matches: 1494, Mismatches: 101, Indels: 51
0.91 0.06 0.03
Matches are distributed among these distances:
178 49 0.03
179 1021 0.68
180 413 0.28
181 11 0.01
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (178 bp):
AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTTCGATAATTAATGAA
AAAAACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
Found at i:318631 original size:359 final size:359
Alignment explanation
Indices: 317434--319233 Score: 2986
Period size: 359 Copynumber: 5.0 Consensus size: 359
317424 GGCTGCCAAA
* * * * *
317434 AGGGTTCCCTTATTATACGGATAACTCCTCCTACAGTTTTCAAGATAGGAAATTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
*
317499 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTACGATTTTGATTTTCGATAATTAAT-AA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTACGATTTTGATTTTCAATAATTAATGAA
317563 AAAAAACCCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTG
131 AAAAAACCCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTG
*
317628 TACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTATGCAGATCAATTGTACATA
196 TACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACATA
*
317693 TTTCAGAGGTGTGCATACTGCTAGGAATTTGATTTCTGATAATTTATCAAAAAAATACCAGCTTT
261 TATCAGAGGTGTGCATACTGCTAGGAATTTGATTTCTGATAATTTAT-AAAAAAATACCAGCTTT
* * *
317758 TGAACTTAATCATTTTTTGGCAAAATACTGCACAT
325 TGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
* * *
317793 AGGGTACCCTCATTGTATGGATAACTCCTTCTACAGTTCTCAAGATAAGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
* * *
317858 GATCAATTGTACATAAAACAGAGGTGTGCATATTGCTACGATTTTGATTTTCGATAATTAATG-A
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTACGATTTTGATTTTCAATAATTAATGAA
*
317922 AAAAAACCCAGCTTTTGAACTTCGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTG
131 AAAAAACCCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTG
*
317987 TACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTAT-TTCTGCAGATCAATTGTACAT
196 TACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGT-TCTTTTGCAGATCAATTGTACAT
*
318051 ATATCAGAGGTGTGCATACTGCTAGGAATTTGATTTCTGATAATTTATGAAAAAATACCAGCTTT
260 ATATCAGAGGTGTGCATACTGCTAGGAATTTGATTTCTGATAATTTATAAAAAAATACCAGCTTT
*
318116 TGAACTTAGTCATTCTTTGGCAAAATATTGCATAT
325 TGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
* *
318151 AGGGTTCCCTCATTGTACGGATAACTTCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
* *
318216 GATCAATTGTACATATTTCAGAGGTGTGCATATTGCTAGGATTTTGATTTTCAATAATTAATGAA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTACGATTTTGATTTTCAATAATTAATGAA
*
318281 AAAATA-CCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTG
131 AAAAAACCCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTG
* * * *
318345 TACGGATAA-TAACTCCTACAGTTCTCAAGATAAGAAGCTGTTCTTTTGCAGATCATTTGTACAT
196 TACGGATAACT-CCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACAT
* *
318409 ATATCAGAGGTGTGCATTCTGCTAGGAATTTGATTTCTGATAATTAATCAAAAAAATACCAGCTT
260 ATATCAGAGGTGTGCATACTGCTAGGAATTTGATTTCTGATAATTTAT-AAAAAAATACCAGCTT
318474 TTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
324 TTGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
* *
318510 AGGGTACCCTCATTGTACGGATAACTCCTTCTACAGTTCTCAAGATAAGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
*
318575 GATCAATTGTACATAAATCAGAGGTGTGCATATTGCTACGATTTTGATTTTCAATAATTAATGAA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTACGATTTTGATTTTCAATAATTAATGAA
318640 AAAAAACCCAGCTTTTGAACTTAGTCA-TTTTTGGCAAAATATTGCATATAGGGTACCCTCATTG
131 AAAAAACCCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTG
318704 TACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACATA
196 TACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACATA
* *
318769 TATCAGAGGTGTGCATACTGCTAGGAATTTGATATCTGATAATTTATGAAAAAATACCAGCTTTT
261 TATCAGAGGTGTGCATACTGCTAGGAATTTGATTTCTGATAATTTATAAAAAAATACCAGCTTTT
318834 GAACTTAGTCATTCTTTT-GCAAAATATTGCATAT
326 GAACTTAGTCATT-TTTTGGCAAAATATTGCATAT
* *
318868 AGGGTACCCTCATTGTACGGATAACTTCTCCTACAGTTCTAAAGATAGGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
* * *
318933 GATCAATTGTTCATATTTCAGAGGTGTGCATATTGCTAGGATTTTGATTTTCAATAATTAATGAA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTACGATTTTGATTTTCAATAATTAATGAA
* * *
318998 AAAATA-CCAGCTTTTGAACTTAATCATTTTTTGGCAAAATATTGCACATAGGGTACCCTCATTG
131 AAAAAACCCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTG
* *
319062 TATGGATAACTCCTTCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACATA
196 TACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACATA
* * * * ** *
319127 AATCAGAGATGTGCATATTGCTAGGATTTTGATTTCCAATAATTAATGAAAAAAATACCAGCTTT
261 TATCAGAGGTGTGCATACTGCTAGGAATTTGATTTCTGATAATTTAT-AAAAAAATACCAGCTTT
*
319192 TGAACTTACTCATTTTTTGGCAAAATATTGCATAT
325 TGAACTTAGTCATTTTTTGGCAAAATATTGCATAT
*
319227 AAGGTAC
1 AGGGTAC
319234 TCCATTTCAC
Statistics
Matches: 1350, Mismatches: 79, Indels: 24
0.93 0.05 0.02
Matches are distributed among these distances:
357 21 0.02
358 638 0.47
359 669 0.50
360 22 0.02
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (359 bp):
AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
GATCAATTGTACATATATCAGAGGTGTGCATATTGCTACGATTTTGATTTTCAATAATTAATGAA
AAAAAACCCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTG
TACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACATA
TATCAGAGGTGTGCATACTGCTAGGAATTTGATTTCTGATAATTTATAAAAAAATACCAGCTTTT
GAACTTAGTCATTTTTTGGCAAAATATTGCATAT
Found at i:323697 original size:164 final size:164
Alignment explanation
Indices: 323357--324168 Score: 946
Period size: 164 Copynumber: 4.9 Consensus size: 164
323347 GTTGCATAGT
* * *
323357 TATGATGTCCATGAAGCCCTCTACAAAAAAATTGTGAAATTCATGGCCCCTGGGTCAGGGGTTCT
1 TATGATGTCCATGAAGCCCTCTAC--CAAAATTGTGAAATTCATGACCCCT--GT-A-GGGTTCA
* *
323422 GGCTCTAGGGTTGGGCCTATATGGCCATATAGTAAAAATGTATTAAATCCTAGAAAATCTTCTTC
60 GGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCCTAGAAAATCTTCTTC
* * * *
323487 TCTACTAC-CATATATATTTGTTAAAAACTGAATCCATAAT
125 TCTACT-CTCATATATATTTGTTAAAAACTAAATACATGAG
* *
323527 TATGATGTCCATGAAGCCCTCTACCAAAATTTTGAAATTCATGACCCCT-T-GGGTTCAGACTCT
1 TATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGTAGGGTTCAGGCTCT
* * *
323590 AGGGTGGGGCCAATATGGCCGTATAGTTAAAATGTATTAAATCCTAGAAAAAATCTTCTTCTCTG
66 AGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCCTAG--AAAATCTTCTTCTCTA
* *
323655 CTCTCAAATATATTTGTTAAAAACTAAATGCATGAG
129 CTCTCATATATATTTGTTAAAAACTAAATACATGAG
**
323691 TATGATGAACATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCCTGTCAGGGGTTCAGGC
1 TATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGA-CCCCTGT-A-GGGTTCAGGC
** *
323756 TCTAGGGTGGACCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAA---TCTTCTCT
63 TCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCCTAGAAAATCTTCTTCTCT
* *
323818 ACTCTCATATATATATTTGTTAAAAACTAAAAACTTG-G
128 ACTCTC--ATATATATTTGTTAAAAACTAAATACATGAG
*
323856 TTATGATGTCCATGAGGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAG
1 -TATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCT--GT-A-GGGTTCAG
* * * * *
323921 TCTCTAGGTTGGGGGCAATATGGCTATATAGTAAAAATGTATTAAATCCTTGAAAATCTTCTTCT
61 GCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCCTAGAAAATCTTCTTCT
* * * *
323986 CTTCTCTCATATATATTTGTTTAAAACTAAATTCATGAT
126 CTACTCTCATATATATTTGTTAAAAACTAAATACATGAG
* * *
324025 TATGATGTCCACG-AGGCC-CT---AAAATTTTGAAATTCATGACCCCTGGGTAAGGGGTTCAGG
1 TATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCT--GT-A-GGGTTCAGG
* * * *
324085 CGCTAGGATGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAAAACAAATCTTCTTC
62 CTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCCT-AGA-AAATCTTCTTC
*
324150 TCTACTCCCATATATATTT
125 TCTACTCTCATATATATTT
324169 TGAATACATG
Statistics
Matches: 562, Mismatches: 61, Indels: 43
0.84 0.09 0.06
Matches are distributed among these distances:
162 54 0.10
163 82 0.15
164 99 0.18
165 40 0.07
166 69 0.12
167 68 0.12
168 59 0.10
169 54 0.10
170 37 0.07
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (164 bp):
TATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGTAGGGTTCAGGCTCT
AGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCCTAGAAAATCTTCTTCTCTACT
CTCATATATATTTGTTAAAAACTAAATACATGAG
Found at i:324080 original size:330 final size:331
Alignment explanation
Indices: 323384--324244 Score: 1023
Period size: 330 Copynumber: 2.6 Consensus size: 331
323374 CCTCTACAAA
* * *
323384 AAAATTGTGAAATTCATGGCCCCTGGGTCAGGGGTTCTGGCTCTAGGGTTGGGCCTATATGGCCA
1 AAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCTAGGG-TGGGCCAATATGGCCA
* *
323449 TATAGTAAAAATGTATTAAATCCTAGAAAATCTTCT-T-CTCTACTACCATATATATTTGTTAAA
65 TATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTCTACTCT-C-A-TATATATATTTGTTAAA
* ** *
323512 AACTGAATCCATAATTATGATGTCCATGAAGCCCTCTACCAAAATTTTGAAATTCATGACCCCT-
127 AACT-AA-ACATGGTTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTG
* *
323576 --T---GGGTTCAGACTCTAGGGTGGGGCCAATATGGCCGTATAGTTAAAATGTATTAAATCCTA
190 GGTCAGGGGTTCAGACTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCCTA
323636 GAAAAAATCTTCTTCTCTGCTCTCAAATATATTTGTTAAAAACTAAATGCATGAGTATGATGAAC
255 G-AAAAATCTTCTTCTCTGCTCTCAAATATATTTGTTAAAAACTAAATGCATGAGTATGATGAAC
*
323701 ATGAAGCCCTCTACC
319 ACGAAGCCCTCT--C
*
323716 AAAATTGTGAAATTCATGACCCCCT--GTCAGGGGTTCAGGCTCTAGGGTGGACCCAATATGGCC
1 AAAATTGTGAAATTCATGA-CCCCTGGGTCAGGGGTTCAGGCTCTAGGGTGG-GCCAATATGGCC
323779 ATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTCTACTCTCATATATATATTTGTTAAAAA
64 ATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTCTACTCTCATATATATATTTGTTAAAAA
* *
323844 CTAAAAACTTGGTTATGATGTCCATGAGGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGG
129 CT--AAACATGGTTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGG
* * * * *
323909 TCAGGGGTTCAGTCTCTAGGTTGGGGGCAATATGGCTATATAGTAAAAATGTATTAAATCCTTG-
192 TCAGGGGTTCAGACTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCCTAGA
* * * * * **
323973 AAAATCTTCTTCTCTTCTCTCATATATATTTGTTTAAAACTAAATTCATGATTATGATGTCCACG
257 AAAATCTTCTTCTCTGCTCTCAAATATATTTGTTAAAAACTAAATGCATGAGTATGATGAACACG
*
324038 -AGGCC-CT-
322 AAGCCCTCTC
* * * *
324045 AAAATTTTGAAATTCATGACCCCTGGGTAAGGGGTTCAGGCGCTAGGATGGGGCCAATATGGCCA
1 AAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCTAGGGT-GGGCCAATATGGCCA
* *
324110 TATAGTAAAAATGTATTAAATCTTAAAACAAATCTTCTTCTCTACTCCCATATATAT-TTTG---
65 TATAGTAAAAATGTATTAAATCTT-AGA-AAA---TCTTCTCTACTCTCATATATATATTTGTTA
*** * *
324171 --AA-T--ACATGGTTATGATGTCCACT-ATTTCCTCTACCAAAATTGTGAAATTAATGGCCCCT
125 AAAACTAAACATGGTTATGATGTCCA-TGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCT
324230 GGGTCAGGGGTTCAG
189 GGGTCAGGGGTTCAG
324245 GACATGGGGG
Statistics
Matches: 467, Mismatches: 42, Indels: 48
0.84 0.08 0.09
Matches are distributed among these distances:
324 63 0.13
325 1 0.00
328 6 0.01
329 20 0.04
330 129 0.28
331 74 0.16
332 25 0.05
333 14 0.03
334 61 0.13
335 21 0.04
336 53 0.11
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (331 bp):
AAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCTAGGGTGGGCCAATATGGCCAT
ATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTCTACTCTCATATATATATTTGTTAAAAACT
AAACATGGTTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAG
GGGTTCAGACTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCCTAGAAAAA
TCTTCTTCTCTGCTCTCAAATATATTTGTTAAAAACTAAATGCATGAGTATGATGAACACGAAGC
CCTCTC
Found at i:327870 original size:2 final size:2
Alignment explanation
Indices: 327865--327905 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
327855 CTTGCTAGAA
327865 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
327906 ATAGATAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:331901 original size:21 final size:22
Alignment explanation
Indices: 331863--331903 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
331853 AAAATCGGTA
*
331863 AGAAAAAAAAAGGAGAAGAATG
1 AGAAAAAAAAAGCAGAAGAATG
*
331885 AGAAAAAAAAA-CCGAAGAA
1 AGAAAAAAAAAGCAGAAGAA
331904 AAACAATAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.71, C:0.05, G:0.22, T:0.02
Consensus pattern (22 bp):
AGAAAAAAAAAGCAGAAGAATG
Found at i:339824 original size:53 final size:53
Alignment explanation
Indices: 339755--339938 Score: 289
Period size: 53 Copynumber: 3.5 Consensus size: 53
339745 TGTTTTCAAA
*
339755 ATTGTCAGATAGTTGTCAGCAACATAAGTAATTGTAATCTGAGTCATTACACAC
1 ATTGTCAG-TAGATGTCAGCAACATAAGTAATTGTAATCTGAGTCATTACACAC
* *
339809 ATTGTCAGTAGTTGTCAGCAACATAAGTAATTGT-GTCCTGAGTCATTACACAC
1 ATTGTCAGTAGATGTCAGCAACATAAGTAATTGTAAT-CTGAGTCATTACACAC
*
339862 ATTGTCAGTAGATGTCACCAACATAAGTAATTGTAATCTGAGTCATTACACAC
1 ATTGTCAGTAGATGTCAGCAACATAAGTAATTGTAATCTGAGTCATTACACAC
* *
339915 ATTCTCAGTAGAGGTCAGCAACAT
1 ATTGTCAGTAGATGTCAGCAACAT
339939 TGGCTCCTGA
Statistics
Matches: 121, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 111 0.92
54 9 0.07
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (53 bp):
ATTGTCAGTAGATGTCAGCAACATAAGTAATTGTAATCTGAGTCATTACACAC
Found at i:340776 original size:54 final size:54
Alignment explanation
Indices: 340601--341449 Score: 770
Period size: 54 Copynumber: 15.8 Consensus size: 54
340591 TCAGTGTTGA
* * ** * * * *
340601 CACCAACACTAGGTAATTGTAATCCTTGTCAGGAGTACACAACCTATCTGTGGTGG
1 CACCAACACTA-GTAACTGTAATCTTTGT-ATCATTACACAACATGTCTATGGTGG
* *
340657 CATCAACACTAGTAACTGCAATCTTTGTATCATT--AC-ACATGTC-AGTGGTGG
1 CACCAACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCTA-TGGTGG
* *
340708 CACCAACACTAGTAAATGTAATCATTGTATCATTACACAACATGTCTATGGTGG
1 CACCAACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCTATGGTGG
* * *
340762 CACCAACACCAGTAACTGTAATCTTTGTATCATTACACAACATGTCTGTGGTGA
1 CACCAACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCTATGGTGG
* * ** * *
340816 CACCAACTCTAGTAACTCTAATCTTTGTCAGGAGTATACA-AAC-TGGCTGTGGTGG
1 CACCAACACTAGTAACTGTAATCTTTGT-ATCA-T-TACACAACATGTCTATGGTGG
* * * *
340871 CTCCAATACTAGTAACTGTAATCTTTGTGTCATTACACAACCTGTCTATGGTGG
1 CACCAACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCTATGGTGG
** * * *
340925 CATTAACACTAGTAAATGTAATCTTTGTATCATTACACAACATGT-TGGTGGTGA
1 CACCAACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCT-ATGGTGG
* ** * * * *
340979 CACCAACTCTAGTAACTGTAATCTTTGTCAGGAGTACACAACCTGGCTGA-AGTGG
1 CACCAACACTAGTAACTGTAATCTTTGT-ATCATTACACAACATGTCT-ATGGTGG
* ** * *
341034 CATCAACACTAGTAACTACAATCATTGTATCATTACACAACATGTC-AGTGGTGA
1 CACCAACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCTA-TGGTGG
* * * * * *
341088 CACCACCACTAGTAATTGTAATCGTTCTATCA-CA-AC-ACATTTC-AGTGGTGG
1 CACCAACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCTA-TGGTGG
* *
341139 CACCAGCACTAGTAACTGTAATCTTCG-ATCATTACACAACATGTC-AGTGGTGG
1 CACCAACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCTA-TGGTGG
* *
341192 CACCAACACTAGTAAGTGTAATCTTTGTATCATTACACAACATGTC-AGTGGTGA
1 CACCAACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCTA-TGGTGG
** * * * * *
341246 CACCAACACTAGTAACTGTAATCTTTGTTAGGAGTATACAACCTGGCTGTGGTGG
1 CACCAACACTAGTAACTGTAATCTTTG-TATCATTACACAACATGTCTATGGTGG
* * * *
341301 CTCCAATACTAGTAACTTTAATCTTTGTATCATT--AC-AGATGTC-AGTGGTGG
1 CACCAACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCTA-TGGTGG
* * * * *
341352 CACCAGCACTTA-TAACTGTAATCTTTGTAACATTACACAATATGTC-AGTGATGA
1 CACCAACAC-TAGTAACTGTAATCTTTGTATCATTACACAACATGTCTA-TGGTGG
*
341406 CACCAACACCAGTAACTGTAATCTTTGTATCATTACACAACATG
1 CACCAACACTAGTAACTGTAATCTTTGTATCATTACACAACATG
341450 AACACTAGTA
Statistics
Matches: 646, Mismatches: 120, Indels: 56
0.79 0.15 0.07
Matches are distributed among these distances:
50 4 0.01
51 113 0.17
52 15 0.02
53 49 0.08
54 314 0.49
55 131 0.20
56 16 0.02
57 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (54 bp):
CACCAACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCTATGGTGG
Found at i:341559 original size:54 final size:54
Alignment explanation
Indices: 341450--343892 Score: 2467
Period size: 54 Copynumber: 45.4 Consensus size: 54
341440 ACACAACATG
* ** * * * *
341450 AACACTAGTAAGTGTAATCTTTGTCAGGAGTACACAACCTGTCTGTGGTGGCACC
1 AACACTAGTAACTGTAATCTTTGT-ATCATTACACAACATGTCAGTGGTGACACC
* * * * *
341505 AACACCAGTAACTGTAATATTTTTATCATCACACAATATGTCAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* *
341559 AACACTAGTAACTGTAATCTTTGTATCAATACACAATATGTCAGTGGTTG-CACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGG-TGACACC
* * * *
341613 AACACTAGTAACTATAATCTTTGTATCAATACACAATATGTCAGAGGTTG-CACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGG-TGACACC
* * *
341667 AACACTAGTAGCTATAATCTTTGTATCATT--AC-ACATGTCAGTGGTGGCACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* *
341718 AACACTAGTAACTGTAATCTTTGGATCATTACACAACCTGTCTA-TGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTC-AGTGGTGACACC
* **
341772 AACACTAGTAAATGTAATCTTTGTATCATTACACAACATGTTGGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* * * * * * * * *
341826 AACTCTAGTAACTGTAATCTTTGTCAGCAGTACACAACCTGGCTGTAGTGGCATC
1 AACACTAGTAACTGTAATCTTTGT-ATCATTACACAACATGTCAGTGGTGACACC
** * *
341881 AACACTAGTAACTACAATCATTGTATCATTACACAACATGTCAGTGGTGACACTG
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACAC-C
* * *
341936 AA-ACAAGTAACTGTAAT-TGTTGTATCA-TA-AC-ACATTTCAGTGGTGGCACC
1 AACACTAGTAACTGTAATCT-TTGTATCATTACACAACATGTCAGTGGTGACACC
**
341986 GGCACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* * * * *
342040 AACACTAGTAAATGTAAT-TGTTGTATTA-TA-AC-ACATTTCAGTGGTGGCATC
1 AACACTAGTAACTGTAATCT-TTGTATCATTACACAACATGTCAGTGGTGACACC
*
342091 AGCACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
** ** * * * * * *
342145 AACACTAGTAACTGTAATCTTTGTTAGGAGAATACAACCTGGCTGTGGTGGCTCC
1 AACACTAGTAACTGTAATCTTTG-TATCATTACACAACATGTCAGTGGTGACACC
* * * * *
342200 AATACTAGTAACTGTAAACTTTGTGTCATT--AC-AGATGTCAGTGGTGGCACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* **
342251 AGCACTTTTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* ** * * * *
342305 AACACTAGTAAGTGTAATCTTTGTCAGGAGTACACAACCTGTCTGTGGTGGCACC
1 AACACTAGTAACTGTAATCTTTGT-ATCATTACACAACATGTCAGTGGTGACACC
* * *
342360 AACACCAGTAACTGTAATCTTTTTATCATTACACAATATGTCAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* * *
342414 AACACTAGAAACTGTAATCTTTGTATCAATACACAATATGTCAGTGGTTG-CACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGG-TGACACC
* * *
342468 AACACTAGTAACTATAATCTTTGTATCAATACACAATATGTCAGTGGTTG-CACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGG-TGACACC
* * * *
342522 AATACTAGTAGCTATAATCTTCGTATCATT--AC-ACATGTCAGTGGTTG-CACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGG-TGACACC
* * *
342573 AACACTAGTAACTGTAATCTTTGTATAATTACACAACATGTGTA-TGGTGGCACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGT-CAGTGGTGACACC
* * * **
342627 AACATTAGGAAATGTAATCTTTGTATCATT--AC-ACATGTTGGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* * **** * * * **
342678 AGCACTAGTAACTGTTATCTTTGTCAGGGGTAAACAACCTGTCTGTGGTTTCACC
1 AACACTAGTAACTGTAATCTTTGT-ATCATTACACAACATGTCAGTGGTGACACC
* *
342733 AACACTAGTAACTGTAATCTTTTTATCATTACACAATATGTCAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* * * *
342787 AACACTAGTAACTGTAATCTATGTATCAATACACAATATGACAGTGGTTG-CACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGG-TGACACC
** *
342841 AACACTAGTAACTGTAATCTTTGTATCATTACACAGTATGTCAGTGGTGGCACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* *
342895 AACAATAGTAACTGTAATCTTCGTATCATTGA-ACAACATGGT--GCTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATT-ACACAACAT-GTCAG-TGGTGACACC
* * * **** * * *
342949 AGCACTAGTAACTGTTATTTTTGTCAGGGGTACACAACCTGTCTGTGGTGGCA-C
1 AACACTAGTAACTGTAATCTTTGT-ATCATTACACAACATGTCAGTGGTGACACC
* * * *
343003 AACACCAGTAACTGTTATCTTTTTATCATTACACAATATGTCAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
343057 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* * *
343111 AGCACT-GATAACTGTAATCTTTGTATCATCACACAACATGTCAGTGGTGGCACC
1 AACACTAG-TAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* **** * * **
343165 AACACTAGTAACTGTTATCTTTGTCAGGGGTACACAACCTGTCTGTGGCAACACC
1 AACACTAGTAACTGTAATCTTTGT-ATCATTACACAACATGTCAGTGGTGACACC
* *
343220 AACACTAGTAACTATAATCTTTGTATCATCACACAACATGTCAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* * **** * * *
343274 AACACTAGTAACTGTTATTTTTGTCAGGGGTACACAACCTGTCTGTGGTGGCA-C
1 AACACTAGTAACTGTAATCTTTGT-ATCATTACACAACATGTCAGTGGTGACACC
*
343328 AACACCAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* * *
343382 AGCACT-GATAACTGTAATCTTTGTATCATCACACAACATGTCAGTGGTGGCACC
1 AACACTAG-TAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* **** * * **
343436 AACACTAGTAACTGTTATCTTTGTCAGGGGTACACAACCTGTCTGTGGCAACACC
1 AACACTAGTAACTGTAATCTTTGT-ATCATTACACAACATGTCAGTGGTGACACC
* *
343491 AACACTAGTAACTATAATCTTTGTATCATCACACAACATGTCAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* * **** * * *
343545 AACACTAGTAACTGTTATTTTTGTCAGGGGTACACAACCTGTCTGTGGTGGCA-C
1 AACACTAGTAACTGTAATCTTTGT-ATCATTACACAACATGTCAGTGGTGACACC
* *
343599 AACACCAGTAACTGTAATCTTTGTATCATTACACAATATGTCAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* * * * *
343653 ATCAATTGTAACTATAATCTTTGTATCATTACACAATATGTCAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
** * * * * * * *
343707 AGTACTTGGAACTGTAATCTTTTTCTTATTACACAATATGACAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* * ** * * *
343761 AGCACTTGTAAAAGTAATCTTTGTATCATTGCACAATATGTCATTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
** * * * * * * *
343815 AGTACTTGGAACTGTAATCTTTTTCTTATTACACAATATGACAGTGGTGACACC
1 AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
* * *
343869 AGCACTTGTAACTGTAAACTTTGT
1 AACACTAGTAACTGTAATCTTTGT
343893 CTTGTTGAAG
Statistics
Matches: 1975, Mismatches: 357, Indels: 113
0.81 0.15 0.05
Matches are distributed among these distances:
50 3 0.00
51 233 0.12
52 20 0.01
53 83 0.04
54 1298 0.66
55 337 0.17
56 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (54 bp):
AACACTAGTAACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACC
Found at i:344049 original size:126 final size:126
Alignment explanation
Indices: 343824--344053 Score: 343
Period size: 126 Copynumber: 1.8 Consensus size: 126
343814 CAGTACTTGG
* * * *
343824 AACTGTAATCTTTTTCTTATTACACAATATGACAGTGGTGACACCAGCACTTGTAACTGTAAACT
1 AACTGTAATCTTTGTATCATTACACAACATGACAGTGGTGACACCAGCACTTGTAACTGTAAACT
* * *
343889 TTGTCTTGTTGAAGAACATGTCAGCAGTGGCACCAACACCAGTGGTTTCACCAACACTAGT
66 TTGTCTTGTTGAACAACATGCCAGCAGTGACACCAACACCAGTGGTTTCACCAACACTAGT
*
343950 AACTGTAATCTTTGTATCATTACACAACATGTCAGTGGTGACACCAGCACTTGTAACTGTAAACT
1 AACTGTAATCTTTGTATCATTACACAACATGACAGTGGTGACACCAGCACTTGTAACTGTAAACT
* * ***
344015 TTGTCTTGTTGCACAATATGCCATTGGTGACACCAACAC
66 TTGTCTTGTTGAACAACATGCCAGCAGTGACACCAACAC
344054 TAGTAACTGT
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
126 91 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (126 bp):
AACTGTAATCTTTGTATCATTACACAACATGACAGTGGTGACACCAGCACTTGTAACTGTAAACT
TTGTCTTGTTGAACAACATGCCAGCAGTGACACCAACACCAGTGGTTTCACCAACACTAGT
Found at i:344073 original size:54 final size:54
Alignment explanation
Indices: 343927--344073 Score: 177
Period size: 54 Copynumber: 2.7 Consensus size: 54
343917 GGCACCAACA
** *
343927 CCAGTGGTTTCACCAACACTAGTAACTGTAATCTTTGTATCATTACACAACATG
1 CCAGTGGTGACACCAACACTAGTAACTGTAATCTTTGTCTCATTACACAACATG
* * * * ** * *
343981 TCAGTGGTGACACCAGCACTTGTAACTGTAAACTTTGTCTTGTTGCACAATATG
1 CCAGTGGTGACACCAACACTAGTAACTGTAATCTTTGTCTCATTACACAACATG
* *
344035 CCATTGGTGACACCAACACTAGTAACTGTTATCTTTGTC
1 CCAGTGGTGACACCAACACTAGTAACTGTAATCTTTGTC
344074 AGGGGTACAC
Statistics
Matches: 76, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (54 bp):
CCAGTGGTGACACCAACACTAGTAACTGTAATCTTTGTCTCATTACACAACATG
Found at i:347499 original size:2 final size:2
Alignment explanation
Indices: 347492--347534 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
347482 GGATTACTAA
347492 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
347534 T
1 T
347535 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:354094 original size:166 final size:166
Alignment explanation
Indices: 353811--354778 Score: 1039
Period size: 166 Copynumber: 5.9 Consensus size: 166
353801 AACTATTAAA
* * * * *
353811 TAGGCCAGGAAAGCTCAAATTAAAATGGGAGCATACTCAGATAGTGTAGATTCAAGTTAGTTCAA
1 TAGGCCAGAAAAGCTCAAATTAGAATGGAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTCAA
* * * * * *
353876 ATCATACTCCCAGGGGGTAGGGTGGGGCCACAATGGGGGGATCAAGTTTTACATAGGAATTTATA
66 ATCATAGTCCCTGGGGGTAGGGTGGGGCCACAATGGGGGAATGAATTTTTACATAGGAATATATA
353941 GAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTAT
131 GAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTAT
* *
353977 TAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAA
1 TAGGCCAGAAAAGCTCAAATTAGAATGGAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTCAA
*
354042 ATCATAGTCCCTGGGGGTAGGGTGGGGCCACAATGGGGGAATGGATTTTTACATAGGAATATATA
66 ATCATAGTCCCTGGGGGTAGGGTGGGGCCACAATGGGGGAATGAATTTTTACATAGGAATATATA
*
354107 GAGAAAATCTTTAAAAATCTTCTTCCCAAAAACTAT
131 GAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTAT
* * *
354143 TAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTCAA
1 TAGGCCAGAAAAGCTCAAATTAGAATGGAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTCAA
* * * *
354208 ATCATAGTCCCCGGGGGTAGGGTGGGGCCACAACGGGGGGAA-CAAGTTTTACATAGGAATATAT
66 ATCATAGTCCCTGGGGGTAGGGTGGGGCCACAA-TGGGGGAATGAATTTTTACATAGGAATATAT
* *
354272 AGAGAAAATCTTTATAAAAAT-TTCTT-TTAAAAACCAT
130 AGAGAAAATC-TT-TAAAAATCTTCTTCTCAAAAACTAT
* * * * * * * *
354309 TTGGCCA-AGAAAGCTCAAATTGGCATGTAACCATCCTCATATAATGTTGATTCAAGTTTGTTCA
1 TAGGCCAGA-AAAGCTCAAATTAGAATGGAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTCA
* * *
354373 AATCATGGTCACTGGGGGTAGGGTGGGGCCACAATGGGGG-AT-ATATTTTT--AT----ATAGA
65 AATCATAGTCCCTGGGGGTAGGGTGGGGCCACAATGGGGGAATGA-ATTTTTACATAGGAATATA
* *
354430 GAGA-AAAATCTTT-AAAATCTTCTTCTC-AAAACCAT
129 TAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTAT
* * * * * * *
354465 TAGGCCAGGAAAGCCCAAATTTGAGTGGAAGCATTCC-CAGATCGTATAGATTCAAGTTTGTTTA
1 TAGGCCAGAAAAGCTCAAATTAGAATGGAAGCA-TCCTCAGATAGTGTAGATTCAAGTTTGTTCA
* * * *
354529 AATAATAGT-CC-AGGGGTAGGGTGAGGCCACAAT-GGGGAATGAATTTTTACTTAGGAATATAT
65 AATCATAGTCCCTGGGGGTAGGGTGGGGCCACAATGGGGGAATGAATTTTTACATAGGAATATAT
* * *
354591 AGAGAAAATCTTTAAAAATCTTCTTTTTAAAGACTAT
130 AGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTAT
* * ** * * * * *
354628 TTGGCCAGAAAAAAGCTTAAACTT-GTGTAGAGGCATCCTCGGGTAGTGTAAATTCAAGTTTG--
1 TAGGCCAG--AAAAGCTCAAA-TTAGAATGGAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTT
* * * * * *** * **
354690 C-AA-GATAGTCCCTAGTGATAGGGCGGGGCCGTGATGGCGGTTTGAATTTTTACATAGGAATAT
63 CAAATCATAGTCCCTGGGGGTAGGGTGGGGCCACAATGGGGGAATGAATTTTTACATAGGAATAT
*
354753 ATAGAGAAAATCTTTAAAAATATTCT
128 ATAGAGAAAATCTTTAAAAATCTTCT
354779 GTGAAAGTTT
Statistics
Matches: 678, Mismatches: 96, Indels: 58
0.81 0.12 0.07
Matches are distributed among these distances:
153 4 0.01
154 28 0.04
155 7 0.01
156 67 0.10
157 6 0.01
158 6 0.01
159 7 0.01
160 7 0.01
161 14 0.02
162 16 0.02
163 30 0.04
164 53 0.08
165 44 0.06
166 368 0.54
167 14 0.02
168 7 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (166 bp):
TAGGCCAGAAAAGCTCAAATTAGAATGGAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTCAA
ATCATAGTCCCTGGGGGTAGGGTGGGGCCACAATGGGGGAATGAATTTTTACATAGGAATATATA
GAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTAT
Found at i:361409 original size:2 final size:2
Alignment explanation
Indices: 361402--361461 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
361392 TCACTATCTA
361402 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
361444 TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC
361462 AAAATAGATG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:363469 original size:16 final size:16
Alignment explanation
Indices: 363448--363478 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
363438 AATTCGTTTC
363448 AACGGATATAATGAAT
1 AACGGATATAATGAAT
363464 AACGGATATAATGAA
1 AACGGATATAATGAA
363479 GTAAATCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.19, T:0.23
Consensus pattern (16 bp):
AACGGATATAATGAAT
Found at i:367354 original size:48 final size:50
Alignment explanation
Indices: 367244--367495 Score: 307
Period size: 53 Copynumber: 5.0 Consensus size: 50
367234 TAATGATAAA
*
367244 ACAAGTCATTGCAATAGTGATATGTAACAAGTTACATGTATGTGACTCATTAT
1 ACAAGTCATTGCAATAGTGATATGTAACAAGTTA-A--TATGTGACTCATTCT
*
367297 ACAAGTCATTGCAATAGTGATAGGTAACAAGTT-A-ATGTGACTCATTCT
1 ACAAGTCATTGCAATAGTGATATGTAACAAGTTAATATGTGACTCATTCT
* *
367345 ACAAGTCATTGCAATAGTGATAGGTAACAAGTTACATGTATGTGACTTATTCT
1 ACAAGTCATTGCAATAGTGATATGTAACAAGTTA-A--TATGTGACTCATTCT
367398 ACAAGTCATTGCAATAGTGATATGTAACAAGTT-A-ATGTGACTCATTCT
1 ACAAGTCATTGCAATAGTGATATGTAACAAGTTAATATGTGACTCATTCT
* * * * * * *
367446 A-TAGCCATAGCAATAGTGATATGCAACAAGTCAGTTATATGACTCATTCT
1 ACAAGTCATTGCAATAGTGATATGTAACAAGTTA-ATATGTGACTCATTCT
367496 GCAATGCAAT
Statistics
Matches: 179, Mismatches: 12, Indels: 19
0.85 0.06 0.09
Matches are distributed among these distances:
47 26 0.15
48 60 0.34
50 14 0.08
51 2 0.01
53 77 0.43
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (50 bp):
ACAAGTCATTGCAATAGTGATATGTAACAAGTTAATATGTGACTCATTCT
Found at i:367419 original size:101 final size:101
Alignment explanation
Indices: 367244--367476 Score: 387
Period size: 101 Copynumber: 2.3 Consensus size: 101
367234 TAATGATAAA
367244 ACAAGTCATTGCAATAGTGATATGTAACAAGTTACATGTATGTGACTCATTATACAAGTCATTGC
1 ACAAGTCATTGCAATAGTGATATGTAACAAGTTACATGTATGTGACTCATTATACAAGTCATTGC
367309 AATAGTGATAGGTAACAAGTTAATGTGACTCATTCT
66 AATAGTGATAGGTAACAAGTTAATGTGACTCATTCT
* * *
367345 ACAAGTCATTGCAATAGTGATAGGTAACAAGTTACATGTATGTGACTTATTCTACAAGTCATTGC
1 ACAAGTCATTGCAATAGTGATATGTAACAAGTTACATGTATGTGACTCATTATACAAGTCATTGC
*
367410 AATAGTGATATGTAACAAGTTAATGTGACTCATTCT
66 AATAGTGATAGGTAACAAGTTAATGTGACTCATTCT
* * * *
367446 A-TAGCCATAGCAATAGTGATATGCAACAAGT
1 ACAAGTCATTGCAATAGTGATATGTAACAAGT
367477 CAGTTATATG
Statistics
Matches: 123, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 25 0.20
101 98 0.80
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (101 bp):
ACAAGTCATTGCAATAGTGATATGTAACAAGTTACATGTATGTGACTCATTATACAAGTCATTGC
AATAGTGATAGGTAACAAGTTAATGTGACTCATTCT
Found at i:382691 original size:28 final size:27
Alignment explanation
Indices: 382631--382701 Score: 106
Period size: 28 Copynumber: 2.6 Consensus size: 27
382621 CAGAACACTC
* *
382631 ACTCACTGAGTAAGTGGCCCAAAGGAA
1 ACTCACTGAGTATGTGGCCAAAAGGAA
382658 ACTCACTGAGTATGTGGTCCAAAAGGAA
1 ACTCACTGAGTATGTGG-CCAAAAGGAA
*
382686 ACTCACTGAATATGTG
1 ACTCACTGAGTATGTG
382702 ATCAATAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 16 0.40
28 24 0.60
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (27 bp):
ACTCACTGAGTATGTGGCCAAAAGGAA
Done.