Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold290
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 591627
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 4 of 4
Found at i:505985 original size:35 final size:35
Alignment explanation
Indices: 505909--505983 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
505899 AAGGAAGAAA
* *
505909 GAAAAAGATAGTGTCCTGCTTTTTGAGGACAAAGT
1 GAAAAAGATAGTGTCATGCTTTTCGAGGACAAAGT
505944 GAAAAAGAGTA-TGTCATGCTTTTCGAGGACAAAG-
1 GAAAAAGA-TAGTGTCATGCTTTTCGAGGACAAAGT
505978 GAAAAA
1 GAAAAA
505984 AGGAAAATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 6 0.16
35 29 0.78
36 2 0.05
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.24
Consensus pattern (35 bp):
GAAAAAGATAGTGTCATGCTTTTCGAGGACAAAGT
Found at i:506096 original size:45 final size:44
Alignment explanation
Indices: 505960--506370 Score: 353
Period size: 45 Copynumber: 9.3 Consensus size: 44
505950 GAGTATGTCA
505960 TGCT-TTTCGAGGAC-AAA-GGAAAA-AAGGAAAATGAAA-TGCGTCC
1 TGCTCTTT-GAGGACAAAAGGGAAAAGAA-G-AAAT-AAAGTGCGTCC
* * *
506003 TGCTCTTTGAGGACAAAA-GAAAAAGGA-AAATAAAGTGTGTCC
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAGAAATAAAGTGCGTCC
* * * *
506045 TGCTCTTTAAGGATAAAAGGGAAAAGAAAGAAATGAAGTGCATCC
1 TGCTCTTTGAGGACAAAAGGGAAAAG-AAGAAATAAAGTGCGTCC
* * * * *
506090 TACTCTTTGAGGACAAAAGGAGAAAAGAAGAAATGAAGCGTGTCA
1 TGCTCTTTGAGGACAAAAGG-GAAAAGAAGAAATAAAGTGCGTCC
* * * *
506135 TGCTCTTTAAGGACAAAAGAGAAAAGGA-AAATAAAGTGCTTCC
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAGAAATAAAGTGCGTCC
* *
506178 TGCTCTTTGAGGACAAAAAGGAAAAGAAGAAAATAAAGTGCGGCC
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAG-AAATAAAGTGCGTCC
* * * * *
506223 TGCTCTTTGAGGACAAAAGGAGAAAAAAAGGGAATGGAA--CCTGTCA
1 TGCTCTTTGAGGACAAAAGG-GAAAAGAA-GAAAT-AAAGTGC-GTCC
* *
506269 TGCTCTTTGAGGAC-AAAGGAGATAAGGA-AAATAAAGTGCGTCC
1 TGCTCTTTGAGGACAAAAGG-GAAAAGAAGAAATAAAGTGCGTCC
* *
506312 TACTCTTTGAGGACAAAAGGGGAAAA-AAGGAAATGAAGTGCGTCC
1 TGCTCTTTGAGGACAAAA-GGGAAAAGAA-GAAATAAAGTGCGTCC
*
506357 TGCCCTTTGAGGAC
1 TGCTCTTTGAGGAC
506371 TAGAAGGTGC
Statistics
Matches: 296, Mismatches: 52, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
41 3 0.01
42 28 0.09
43 70 0.24
44 27 0.09
45 133 0.45
46 32 0.11
47 3 0.01
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.19
Consensus pattern (44 bp):
TGCTCTTTGAGGACAAAAGGGAAAAGAAGAAATAAAGTGCGTCC
Found at i:506204 original size:133 final size:132
Alignment explanation
Indices: 505960--506370 Score: 503
Period size: 134 Copynumber: 3.1 Consensus size: 132
505950 GAGTATGTCA
* * * * *
505960 TGCT-TTTCGAGGAC-AAAGGAAAAAAGGA-AAATGAAATGCGTCCTGCTCTTTGAGGACAAAAG
1 TGCTCTTT-GAGGACAAAAGGAGAAAAGAAGAAATG-AACGTGTCATGCTCTTTGAGGACAAAAG
* *
506022 A-AAAAGGAAAATAAAGTG-TGTCCTGCTCTTTAAGGATAAAAGGGAAAAGAAAGAAATGAAGTG
64 AGAAAAGGAAAATAAAGTGCT-TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTG
*
506085 CATCC
128 CGTCC
* *
506090 TACTCTTTGAGGACAAAAGGAGAAAAGAAGAAATGAAGCGTGTCATGCTCTTTAAGGACAAAAGA
1 TGCTCTTTGAGGACAAAAGGAGAAAAGAAGAAATGAA-CGTGTCATGCTCTTTGAGGACAAAAGA
* *
506155 GAAAAGGAAAATAAAGTGCTTCCTGCTCTTTGAGGACAAAAAGGAAAAG-AAGAAAATAAAGTGC
65 GAAAAGGAAAATAAAGTGCTTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAAG-AAATGAAGTGC
*
506219 GGCC
129 GTCC
* * * *
506223 TGCTCTTTGAGGACAAAAGGAGAAAAAAAGGGAATGGAACCTGTCATGCTCTTTGAGGACAAAGG
1 TGCTCTTTGAGGACAAAAGGAGAAAAGAA-GAAAT-GAACGTGTCATGCTCTTTGAGGACAAAAG
* * * *
506288 AGATAAGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAGGGGAAAA-AAGGAAATGAAGTG
64 AGAAAAGGAAAATAAAGTGCTTCCTGCTCTTTGAGGACAAAA-GGGAAAAGAAAGAAATGAAGTG
506352 CGTCC
128 CGTCC
*
506357 TGCCCTTTGAGGAC
1 TGCTCTTTGAGGAC
506371 TAGAAGGTGC
Statistics
Matches: 243, Mismatches: 27, Indels: 18
0.84 0.09 0.06
Matches are distributed among these distances:
130 9 0.04
131 17 0.07
132 31 0.13
133 82 0.34
134 93 0.38
135 11 0.05
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.19
Consensus pattern (132 bp):
TGCTCTTTGAGGACAAAAGGAGAAAAGAAGAAATGAACGTGTCATGCTCTTTGAGGACAAAAGAG
AAAAGGAAAATAAAGTGCTTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGCGT
CC
Found at i:506229 original size:88 final size:88
Alignment explanation
Indices: 505969--506248 Score: 327
Period size: 88 Copynumber: 3.2 Consensus size: 88
505959 ATGCTTTTCG
* * * *
505969 AGGACAAAGGAAAAAAGGAAAATGAAA-TGCGTCCTGCTCTTTGAGGAC-AAAA-GAAAA-AGGA
1 AGGACAAAAGAGAAAAGGAAAAT-AAAGTGCATCCTGCTCTTTGAGGACAAAAAGGAAAAGAAGA
506030 AAATAAAGTGTGTCCTGCTCTTTA
65 AAATAAAGTGTGTCCTGCTCTTTA
* * * * * *
506054 AGGATAAAAGGGAAAAGAAAGAAATGAAGTGCATCCTACTCTTTGAGGACAAAAGGAGAAAAGAA
1 AGGACAAAAGAGAAAAG-GA-AAATAAAGTGCATCCTGCTCTTTGAGGACAAAAAG-GAAAAGAA
* * *
506119 G-AAATGAAGCGTGTCATGCTCTTTA
63 GAAAATAAAGTGTGTCCTGCTCTTTA
*
506144 AGGACAAAAGAGAAAAGGAAAATAAAGTGCTTCCTGCTCTTTGAGGACAAAAAGGAAAAGAAGAA
1 AGGACAAAAGAGAAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAAGGAAAAGAAGAA
* * *
506209 AATAAAGTGCGGCCTGCTCTTTG
66 AATAAAGTGTGTCCTGCTCTTTA
506232 AGGACAAAAGGAGAAAA
1 AGGACAAAA-GAGAAAA
506249 AAAGGGAATG
Statistics
Matches: 160, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
85 13 0.08
86 3 0.02
87 32 0.20
88 61 0.38
89 8 0.05
90 41 0.26
91 2 0.01
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.18
Consensus pattern (88 bp):
AGGACAAAAGAGAAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAAGGAAAAGAAGAA
AATAAAGTGTGTCCTGCTCTTTA
Found at i:506318 original size:134 final size:133
Alignment explanation
Indices: 506003--506370 Score: 510
Period size: 134 Copynumber: 2.8 Consensus size: 133
505993 AAATGCGTCC
* * *
506003 TGCTCTTTGAGGACAAAAGA-AAAAGGAAAATAAAGTGTGTCCTGCTCTTTAAGGATAAAAGGGA
1 TGCTCTTTGAGGACAAAAGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGA
* * * *
506067 AAAGAA-AGAAATGAAGTGCATCCTACTCTTTGAGGACAAAAGGAGAAAAGAAGAAATGAAGCGT
66 AAAGAAGA-AAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAGAAAAAAAGAAATGAAGCCT
506131 GTCA
130 GTCA
* * *
506135 TGCTCTTTAAGGACAAAAGAGAAAAGGAAAATAAAGTGCTTCCTGCTCTTTGAGGACAAAAAGGA
1 TGCTCTTTGAGGACAAAAGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGA
* * *
506200 AAAGAAGAAAATAAAGTGCGGCCTGCTCTTTGAGGACAAAAGGAGAAAAAAAGGGAATGGAA-CC
66 AAAGAAGAAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAGAAAAAAA-GAAAT-GAAGCC
506264 TGTCA
129 TGTCA
* * *
506269 TGCTCTTTGAGGACAAAGGAGATAAGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAGGGG
1 TGCTCTTTGAGGACAAAAGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA-GGG
* *
506334 AAAA-AAGGAAATGAAGTGCGTCCTGCCCTTTGAGGAC
65 AAAAGAAGAAAATGAAGTGCGTCCTGCTCTTTGAGGAC
506371 TAGAAGGTGC
Statistics
Matches: 208, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
132 19 0.09
133 84 0.40
134 96 0.46
135 9 0.04
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.19
Consensus pattern (133 bp):
TGCTCTTTGAGGACAAAAGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGA
AAAGAAGAAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAGAAAAAAAGAAATGAAGCCTG
TCA
Found at i:506610 original size:46 final size:45
Alignment explanation
Indices: 506417--506611 Score: 150
Period size: 46 Copynumber: 4.3 Consensus size: 45
506407 GAAGACATCT
*
506417 TGCTTTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGC-GTCC
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAA-GAAGTGCAGTCC
* * * * * *
506462 TGCTTTTTGAGGACAAAAGGGGAAAGGAAGGGAATGGAA-TG-TGTTC
1 TGCTCTTTGAGGACAAAA-GGGAAAAGAA-AGAA-AGAAGTGCAGTCC
* * * * * *
506508 TGCACTTTAAGGTC-AAAGGAGAAAAGGAAA-ATA-AAGTACAGTCT
1 TGCTCTTTGAGGACAAAAGG-GAAAA-GAAAGAAAGAAGTGCAGTCC
506552 TGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAACGAAGTGCAGTCC
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAA-GAAGTGCAGTCC
* *
506598 TGCCCTTCGAGGAC
1 TGCTCTTTGAGGAC
506612 GAGGAGGTGC
Statistics
Matches: 114, Mismatches: 24, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
44 23 0.20
45 30 0.26
46 48 0.42
47 6 0.05
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.20
Consensus pattern (45 bp):
TGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAAGAAGTGCAGTCC
Found at i:506954 original size:45 final size:45
Alignment explanation
Indices: 506886--507088 Score: 227
Period size: 45 Copynumber: 4.6 Consensus size: 45
506876 CTTTGAGGGA
*
506886 GAAG-GCGTCTTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAAT
1 GAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAAT
* *
506930 GAAGTGCGTCCTGCTTTTTGAGGACAAAAGAGGAAAAGAAAGG-AAT
1 GAAGTGCGTCCTGCTCTTTGAGGACAAAAG-GAAAAAG-AAGGAAAT
* * *
506976 GGAA-TGTGTCCTGCTCTTTGAGGAC-AAAGGAGAAA-AAGAAAAT
1 -GAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAAT
* * *
507019 AAAGTGCGTCCTGATCTTTGAGGACAAAAGGGAAAAGAAGGAAAT
1 GAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAAT
* * * *
507064 GAAGTACATCCTACCCTTTGAGGAC
1 GAAGTGCGTCCTGCTCTTTGAGGAC
507089 TAGGAGGTGC
Statistics
Matches: 131, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
42 5 0.04
43 22 0.17
44 16 0.12
45 53 0.40
46 28 0.21
47 7 0.05
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (45 bp):
GAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAAT
Found at i:506997 original size:239 final size:239
Alignment explanation
Indices: 506175--507430 Score: 1716
Period size: 239 Copynumber: 5.3 Consensus size: 239
506165 ATAAAGTGCT
* * * *
506175 TCCTGCTCTTTGAGGACAAAAAGGAAAAGAAGAAAATAAAGTGCGGCCTGCTCTTTGAGGACAAA
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAA
* ** * *
506240 AG-GAGAAAAAAAGGGAATGGAACCTGTCATGCTCTTTGAGGACAAAGGAGATAAGGAAAATAAA
66 AGAG-GAAAAGAAGGGAATGGAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAA
* *
506304 GTGCGTCCTACTCTTTGAGGACAAAAGGGGAAAA-AAGGAAATGAAGTGCGTCCTGCCCTTTGAG
130 GTGCATCCTACTCTTTGAGGACAAAA-GGGAAAAGAAGGAAATGAAGTGCATCCTGCCCTTTGAG
* * * * *
506368 GACTAGAAGGTGCCATCAACTTGTTTGGGCTTTGAAGGAGAAGACA
194 GACTAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCG
* * * *
506414 TCTTGCTTTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGCGTCCTGCTTTTTGAGGACAAA
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAA
* * * * * *
506479 AGGGGAAAGGAAGGGAATGGAATGTGTTCTGCACTTTAAGGTCAAAGGAGAAAAGGAAAATAAAG
66 AGAGGAAAAGAAGGGAATGGAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAG
* * * * * *
506544 TACAGTCTTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAACGAAGTGCAGTCCTGCCCTTCGAG
131 TGCA-TCCTACTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCA-TCCTGCCCTTTGAG
* * *
506609 GACGAGGAGGTGCCATCAACTTGTGTAGGCTTTGAAGGAGAAGGCAG
194 GACTAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGC-G
* * * *
506656 TCCTGCTCTTTAAGGACAAAAGGGAAAAGAAGGAAATGAAGT--GTGCTGCACTTTAAGGACAAA
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAA
* * * * * *
506719 ATAGGAAAAGAAGGGAATGGAATGTGTCCTACCCTTTGAGGATAAGGGGGAAAAGGAAAATAAAG
66 AGAGGAAAAGAAGGGAATGGAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAG
* * ** * * *
506784 TGCATCCTACTCTTTGAAGATAAAAAAGAAAATAAGGAAATAAAATGCATCCTGCCCTTTGAGGA
131 TGCATCCTACTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCCCTTTGAGGA
* *
506849 CTAAGAGGTGCCACCAACTTGTGTGGGCTTTGAGGGAGAAGGCG
196 CTAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCG
* * *
506893 TCTTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAATGAAGTGCGTCCTGCTTTTTGAGGACAAA
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAA
* *
506958 AGAGGAAAAGAAAGGAATGGAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAAGAAAATAAAG
66 AGAGGAAAAGAAGGGAATGGAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAG
* * *
507023 TGCGTCCTGA-TCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTACATCCTACCCTTTGAGG
131 TGCATCCT-ACTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCCCTTTGAGG
* *
507087 ACTAGGAGGTGCCACTAACTTGTGTGGGCTTTGAAGGAGAAGGCA
195 ACTAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCG
*
507132 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCTTGCTCTTTGAGGACAAA
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAA
* * * *
507197 AGAAGAAAAGAAGGGAATAGAATGTGTCCTGCTCTTTGAGGACAAGGGGGAAAAGGAAAATAAAG
66 AGAGGAAAAGAAGGGAATGGAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAG
* * ** *
507262 TGCATCCTGCTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAAGTGTGTTCTG-CCTTTGAGGA
131 TGCATCCTACTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCCCTTTGAGGA
*
507326 CTAGGAGGTGCCACGAACTTGTGTGGGCTTTGAAGGA-AAGGCG
196 CTAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCG
* *
507369 TCCTGCTCTTTGAGGTCAAAAGGGAAAAAAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAC
507431 TAGGAGGTGC
Statistics
Matches: 887, Mismatches: 121, Indels: 20
0.86 0.12 0.02
Matches are distributed among these distances:
237 104 0.12
238 99 0.11
239 485 0.55
240 108 0.12
241 53 0.06
242 38 0.04
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (239 bp):
TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAA
AGAGGAAAAGAAGGGAATGGAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAG
TGCATCCTACTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCCCTTTGAGGA
CTAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCG
Found at i:507185 original size:45 final size:45
Alignment explanation
Indices: 507132--507326 Score: 236
Period size: 45 Copynumber: 4.4 Consensus size: 45
507122 GGAGAAGGCA
507132 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCG
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCG
* * * *
507177 TCTTGCTCTTTGAGGACAAAAGAAGAAAAGAAGGGAATAGAA-TGTG
1 TCCTGCTCTTTGAGGACAAAAG-GGAAAAGAAGGAAAT-GAAGTGCG
** * * *
507223 TCCTGCTCTTTGAGGACAAGGGGGAAAAG--GAAAATAAAGTGCA
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCG
* *
507266 TCCTGCTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAAGTGTG
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCG
*
507311 TTCTGC-CTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
507327 TAGGAGGTGC
Statistics
Matches: 124, Mismatches: 21, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
42 2 0.02
43 32 0.26
44 10 0.08
45 42 0.34
46 35 0.28
47 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (45 bp):
TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCG
Found at i:507463 original size:104 final size:104
Alignment explanation
Indices: 507266--507490 Score: 353
Period size: 103 Copynumber: 2.2 Consensus size: 104
507256 ATAAAGTGCA
* * *
507266 TCCTGCTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAAGTGTGTTCTGCCTTTGAGGACTAGG
1 TCCTGCTCTTTGAGGACAAAAAGGAAAAAAAGGAAATGAAGTGCGTCCTGCCTTTGAGGACTAGG
*
507331 AGGTGCCACGAACTTGTGTGGGCTTTGAAGGA-AAGGCG
66 AGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCG
* *
507369 TCCTGCTCTTTGAGGTCAAAAGGGAAAAAAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACTAG
1 TCCTGCTCTTTGAGGACAAAAAGGAAAAAAAGGAAATGAAGTGCGTCCTGC-CTTTGAGGACTAG
*
507434 GAGGTGCCCCCAACTTGTGTGGGCTTTGAAGGAGAAGGCG
65 GAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCG
* *
507474 TCTTACTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
507491 TAGAAGGTGC
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 46 0.42
104 44 0.40
105 20 0.18
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (104 bp):
TCCTGCTCTTTGAGGACAAAAAGGAAAAAAAGGAAATGAAGTGCGTCCTGCCTTTGAGGACTAGG
AGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCG
Found at i:507562 original size:62 final size:61
Alignment explanation
Indices: 507412--508114 Score: 711
Period size: 62 Copynumber: 11.4 Consensus size: 61
507402 AAATGAAGTG
* * * * * * *
507412 CGTCCTGCTCTTTGAGGACTAGGAGGTGCCCCCAACTTGTGTGGGCTTT--GAAGGAGAAGG
1 CGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
* * ** *
507472 CGTCTTACTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAATA
1 CGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
* * * * * *
507534 CATCCTGCACTTTGAGGACTAAAGGGTGCCACCAACTCGTGCGGGCTGTGAAAAGAAAAAGG
1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
* * * * * *
507596 TGTCCTACTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGG
1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
* * * * *
507657 TGTCTTGCTCTTTGAGGACTAATGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGA
1 CGTCCTGCTCTTTGAGGACTAA-AGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
* * * *
507719 TGTCTTACTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAGAAGA
1 CGTCCTGCTCTTTGAGGACT-AAA-GGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAA-AAGA
* * **
507783 TGCCCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTCAGCTTT-AAAA-AAAAAGA
1 CG-TCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
* * *
507844 CGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTCATGTGGGCTTTAAAAAG-AGAAGG
1 CGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
* * * * * * * *
507905 CGTCTTGCTCCTTGAGGACTGAAAAGT-CCACCAATTTGTGTGGTCTTTAAAAGGAGAAAG-
1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
* * * * * *
507965 CATCTTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGATTTAAAAGGAAAAAAGA
1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAAGA
*
508028 CATCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
*
508090 CATCCTGCTCTTTGAGGACTAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAGG
508115 GCTAAAAGGG
Statistics
Matches: 547, Mismatches: 77, Indels: 37
0.83 0.12 0.06
Matches are distributed among these distances:
60 131 0.24
61 119 0.22
62 161 0.29
63 89 0.16
64 32 0.06
65 15 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (61 bp):
CGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
Found at i:514520 original size:157 final size:158
Alignment explanation
Indices: 514304--514589 Score: 373
Period size: 157 Copynumber: 1.8 Consensus size: 158
514294 AAAATAAAAT
* ** *
514304 CGGGGTTGGAGTATCCCCTTAGAAATAACAGGGTTGGAGCATCATTGATTATAGAAAATCGGCGT
1 CGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGCATCATTGATTATAGAAAATCAACAT
* ** *
514369 TTTAAAAATAAAATCGAGGTTGGA-TATCCCCTCGAAGGTAACGGGGTTGGAGTATCACCGATTG
66 TTTAAAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAGTATCACCGATTG
514433 TGGAAAATCAAAGCTTTAGAAATAAGGC
131 TGGAAAATCAAAGCTTTAGAAATAAGGC
* * *
514461 CGGGGTTGGAGTAT-CCCTGCCA-AAATAACGGGGTTGGAGTATCCTTGATTAT-GAGAAATCAA
1 CGGGGTTGGAGTATCCCCT--CAGAAATAACAGGGTTGGAGCATCATTGATTATAGA-AAATCAA
* * * * *
514523 TATTTTAGAAATAAAGTCGGGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAGTATCCCCGA
63 CATTTTAAAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAGTATCACCGA
514588 TT
128 TT
514590 ATGAAGAATT
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
156 6 0.06
157 68 0.62
158 35 0.32
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (158 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGCATCATTGATTATAGAAAATCAACAT
TTTAAAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAGTATCACCGATTG
TGGAAAATCAAAGCTTTAGAAATAAGGC
Found at i:514613 original size:79 final size:79
Alignment explanation
Indices: 514250--514636 Score: 325
Period size: 79 Copynumber: 4.9 Consensus size: 79
514240 TAGAGATGAC
* * * * ** ** *
514250 AACGGGGCTAGAGTATCCCCTGATTATGGAAAATCGGTGTTCCAAAAATAAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTATCACC-GATTATAGAAAATCAATGTTTTAGAAATAAAATCGGGGTTGGAG
* *
514315 TATCCCCTTAGAAAT
65 TATCCCCTCAAAAAT
* * ** *** * *
514330 AACAGGGTTGGAGCATCATTGATTATAGAAAATCGGCGTTTTAAAAATAAAATCGAGGTTGGA-T
1 AACGGGGTTGGAGTATCACCGATTATAGAAAATCAATGTTTTAGAAATAAAATCGGGGTTGGAGT
* **
514394 ATCCCCTCGAAGGT
66 ATCCCCTCAAAAAT
* * * * ***
514408 AACGGGGTTGGAGTATCACCGATTGTGGAAAATCAAAGCTTTAGAAATAAGGCCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCACCGATTATAGAAAATCAATGTTTTAGAAATAAAATCGGGGTTGGAGT
*
514473 AT-CCCTGCCAAAAT
66 ATCCCCT-CAAAAAT
* * *
514487 AACGGGGTTGGAGTATC-CTTGATTAT-GAGAAATCAATATTTTAGAAATAAAGTCGGGGTTGGA
1 AACGGGGTTGGAGTATCAC-CGATTATAGA-AAATCAATGTTTTAGAAATAAAATCGGGGTTGGA
514550 GTATCCCCTCAAAAAT
64 GTATCCCCTCAAAAAT
* * ** * * *
514566 AACGGGATTGGAGTATCCCCGATTAT-GAAGAATTGATTTTTTGGAAATAAAATTGGGGTTGGAG
1 AACGGGGTTGGAGTATCACCGATTATAGAA-AATCAATGTTTTAGAAATAAAATCGGGGTTGGAG
514630 TATCCCC
65 TATCCCC
514637 GTTGGCGCCC
Statistics
Matches: 249, Mismatches: 51, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
78 66 0.27
79 165 0.66
80 18 0.07
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCACCGATTATAGAAAATCAATGTTTTAGAAATAAAATCGGGGTTGGAGT
ATCCCCTCAAAAAT
Found at i:515274 original size:45 final size:44
Alignment explanation
Indices: 515138--515554 Score: 322
Period size: 45 Copynumber: 9.4 Consensus size: 44
515128 AAAAAGAGTA
* * *
515138 CGTCCTACT-TTTCGAGGAC-AAA-GGAAAAAAGTAAAACGAAATG
1 CGTCCTGCTCTTT-GAGGACAAAAGGGAAAAAAG-AAAATGAAGTG
* * *
515181 CGTCCTGCTCTTTGAGGACAAAA--GAAGAAGGAAAATAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAGAAAATGAAGTG
* *
515223 CGTCCTACTCTTTGAGGATAAAAGGGAAAATAAGAAAATGAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGGGAAAA-AAGAAAATGAAGTG
* * * *
515268 CATCCTACTTTTTGAGGACAAAAGGAGAAAAGAAGGAAATGGAACGT-
1 CGTCCTGCTCTTTGAGGACAAAAGG-GAAAA-AAGAAAAT-GAA-GTG
* *
515315 -GTCTTGCTCTTTGAGGAC-AAA-GGAGAAAAGGAAAAT-AAGGTG
1 CGTCCTGCTCTTTGAGGACAAAAGGGA-AAAAAGAAAATGAA-GTG
* *
515357 CGTCCTGTTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGGGAAAA-AAGAAAATGAAGTG
* * *
515402 TGTCCTACTTTTTGAGGACAAAAGGG-AAAAAGAAGGGAATGGAAG-G
1 CGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAGAA---AAT-GAAGTG
* * * * *
515448 TGTCCTGCTCTTTGAGGA-TAAA-GTAGAAAAGGAAAATAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGGGA-AAAAAGAAAATGAAGTG
* * **
515491 CGTCCTGCTCTTTGAGGATAAAAGGGAAAATAAGGAAACAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGGGAAAA-AAGAAAATGAAGTG
* *
515536 CATCCTGCCCTTTGAGGAC
1 CGTCCTGCTCTTTGAGGAC
515555 TAGGAGGTGC
Statistics
Matches: 302, Mismatches: 47, Indels: 48
0.76 0.12 0.12
Matches are distributed among these distances:
41 4 0.01
42 32 0.11
43 69 0.23
44 30 0.10
45 103 0.34
46 55 0.18
47 7 0.02
48 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (44 bp):
CGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAGAAAATGAAGTG
Found at i:515328 original size:46 final size:44
Alignment explanation
Indices: 515182--516032 Score: 378
Period size: 45 Copynumber: 18.4 Consensus size: 44
515172 AACGAAATGC
* *
515182 GTCCTGCTCTTTGAGGACAAAA--G--AAGAAGGAAAATAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGG-AAATGAAG-GT
* * * *
515224 GTCCTACTCTTTGAGGATAAAAGGGAAAATAAGAAAATGAA-GT
1 GTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGGT
* * *
515267 GCATCCTACTTTTTGAGGACAAAAGGAGAAAAGAAGGAAATGGAACGT
1 G--TCCTGCTCTTTGAGGACAAAAGG-GAAAAGAAGGAAAT-GAAGGT
* *
515315 GTCTTGCTCTTTGAGGAC-AAAGGAGAAAAG--GAAAAT-AAGGT
1 GTCCTGCTCTTTGAGGACAAAAGG-GAAAAGAAGGAAATGAAGGT
*
515356 GCGTCCTGTTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGT
1 --GTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAG-GT
* * *
515403 GTCCTACTTTTTGAGGACAAAAGGGAAAAAGAAGGGAATGGAAGGT
1 GTCCTGCTCTTTGAGGACAAAAGGG-AAAAGAAGGAAAT-GAAGGT
* * * * *
515449 GTCCTGCTCTTTGAGGA-TAAAGTAGAAAAG--GAAAATAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAAG-GGAAAAGAAGGAAATGAAG-GT
* * * *
515492 GTCCTGCTCTTTGAGGATAAAAGGGAAAATAAGGAAA-CAAAGT
1 GTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGGT
* ** * * *** *
515535 GCATCCTGCCCTTTGAGGACTAGGAGGTGCCACTAACTTGTATGGCCTTTGAAGGAGAAGGC
1 G--TCCTGCTCTTTGAGGAC-AAAAGG-G--A--AA--AG-AAGG-AAATG------AAGGT
* *
515597 GTCTTGCTCTTTGAGGTCAAAAGGGAAAAGAAGGAAATGAA-GT
1 GTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGGT
** *
515640 GCATCCTGCAT-TTTGAGGACAAAAGGGGGAAAA-AAGGGAACGGAATGT
1 G--TCCTGC-TCTTTGAGGACAAAA--GGGAAAAGAA-GGAAATGAAGGT
* * * *
515688 GTCCTGCTCTTTGAGGGC-AAAGGAGAAAAG--GAAAATAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAAGG-GAAAAGAAGGAAATGAAG-GT
*
515731 GTCCTGCTCTTTGAGGACAAATGGGAAAAGAAGGAAATGAAGTGT
1 GTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAG-GT
* ** * * *** *
515776 GTCCTGCCCTTTGAGGACTAGGAGGTGCCACCAACTTGTATGGGCTTTGAAGGAGAAG
1 GTCCTGCTCTTTGAGGAC-AAAAGG-G--A--AA--AG-A-AGGAAATGAA-G-G--T
* * *
515834 GCATCCTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAATGATGTGG
1 G--TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAG-GT
* * *
515881 GTCCTGCACTTTGAGGACAAAAGGGGAAAAGAAGGGAATGGAATGT
1 GTCCTGCTCTTTGAGGACAAAA-GGGAAAAGAAGGAAAT-GAAGGT
* * ** * * *
515927 GTCATGCTCTTTGACGACAAGGGGGAAAAG--GAAAATAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAG-GT
* *
515970 GTCCTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAATGAAGTGC
1 GTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAG-GT
516015 GTCCTGC-CTTTCGAGGAC
1 GTCCTGCTCTTT-GAGGAC
516033 TAGGAGGTGC
Statistics
Matches: 610, Mismatches: 122, Indels: 151
0.69 0.14 0.17
Matches are distributed among these distances:
41 4 0.01
42 30 0.05
43 116 0.19
44 27 0.04
45 194 0.32
46 120 0.20
47 29 0.05
48 6 0.01
49 4 0.01
50 6 0.01
51 8 0.01
52 2 0.00
53 1 0.00
54 8 0.01
55 6 0.01
56 4 0.01
58 3 0.00
59 8 0.01
60 30 0.05
62 4 0.01
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.21
Consensus pattern (44 bp):
GTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGGT
Found at i:515416 original size:88 final size:86
Alignment explanation
Indices: 515139--515431 Score: 276
Period size: 88 Copynumber: 3.3 Consensus size: 86
515129 AAAAGAGTAC
* * * * *
515139 GTCCTACT-TTTCGAGGACAAAGGAAAAAAGTAAAACGAAATGCGTCCTGCTCTTTGAGGACAAA
1 GTCCTACTCTTT-GAGGACAAAGG-GAAAAGGAAAA-TAAGTGCGTCCTGTTCTTTGAGGACAAA
* *
515203 A--G--AAGAAGGAAAATAAAGTGC
63 AGGGAAAAGAAGG-AAATGAAGTGT
* * * *
515224 GTCCTACTCTTTGAGGATAAAAGGGAAAATAAGAAAATGAAGTGCATCCTACTT-TTTGAGGACA
1 GTCCTACTCTTTGAGGA-CAAAGGG-AAA-AGGAAAAT-AAGTGCGTCCT-GTTCTTTGAGGACA
*
515288 AAAGGAGAAAAGAAGGAAATGGAA-CGT
61 AAAGG-GAAAAGAAGGAAAT-GAAGTGT
* *
515315 GTCTTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAGGTGCGTCCTGTTCTTTGAGGACAAAA
1 GTCCTACTCTTTGAGGACAAAGG-GAAAAGGAAAATAA-GTGCGTCCTGTTCTTTGAGGACAAAA
515380 GGGAAAAGAAGGAAATGAAGTGT
64 GGGAAAAGAAGGAAATGAAGTGT
*
515403 GTCCTACTTTTTGAGGACAAAAGGGAAAA
1 GTCCTACTCTTTGAGGAC-AAAGGGAAAA
515432 AGAAGGGAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 31
0.76 0.10 0.14
Matches are distributed among these distances:
85 13 0.08
86 11 0.07
87 30 0.18
88 41 0.24
89 35 0.21
90 9 0.05
91 21 0.12
92 9 0.05
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.21
Consensus pattern (86 bp):
GTCCTACTCTTTGAGGACAAAGGGAAAAGGAAAATAAGTGCGTCCTGTTCTTTGAGGACAAAAGG
GAAAAGAAGGAAATGAAGTGT
Found at i:515554 original size:134 final size:133
Alignment explanation
Indices: 515140--515541 Score: 544
Period size: 134 Copynumber: 3.0 Consensus size: 133
515130 AAAGAGTACG
* * * * * * *
515140 TCCTACTTTTCGAGGAC-AAAGGAAAAAAGTA--AAACGAAATGCGTCCTGCTCTTTGAGGACAA
1 TCCTACTTTTTGAGGACAAAAGGAGAAAAGAAGGAAATGGAACGTGTCCTGCTCTTTGAGGACAA
* *
515202 A-AGAAGAAGGAAAATAAAGTGCGTCCTACTCTTTGAGGATAAAAGGGAAAATAAGAAAATGAAG
66 AGAGAA-AAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAAGGGAAAATAAGGAAATGAAG
515266 TGCA
130 TGCA
*
515270 TCCTACTTTTTGAGGACAAAAGGAGAAAAGAAGGAAATGGAACGTGTCTTGCTCTTTGAGGACAA
1 TCCTACTTTTTGAGGACAAAAGGAGAAAAGAAGGAAATGGAACGTGTCCTGCTCTTTGAGGACAA
* * * *
515335 AGGAGAAAAGGAAAATAAGGTGCGTCCTGTTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAG
66 A-GAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAAGGGAAAATAAGGAAATGAAG
**
515400 TGTG
130 TGCA
* * *
515404 TCCTACTTTTTGAGGACAAAAGG-GAAAAAGAAGGGAATGGAAGGTGTCCTGCTCTTTGAGGATA
1 TCCTACTTTTTGAGGACAAAAGGAG-AAAAGAAGGAAATGGAACGTGTCCTGCTCTTTGAGGACA
**
515468 AAGTAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAAGGGAAAATAAGGAAACAAA
65 AAG-AGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAAGGGAAAATAAGGAAATGAA
515533 GTGCA
129 GTGCA
515538 TCCT
1 TCCT
515542 GCCCTTTGAG
Statistics
Matches: 237, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
130 16 0.07
131 12 0.05
133 29 0.12
134 176 0.74
135 4 0.02
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (133 bp):
TCCTACTTTTTGAGGACAAAAGGAGAAAAGAAGGAAATGGAACGTGTCCTGCTCTTTGAGGACAA
AGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAAGGGAAAATAAGGAAATGAAGT
GCA
Found at i:515784 original size:239 final size:239
Alignment explanation
Indices: 515356--516137 Score: 1162
Period size: 239 Copynumber: 3.3 Consensus size: 239
515346 AAAATAAGGT
* * *
515356 GCGTCCTGTTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGTGTCCTACTTTTTGAGGAC
1 GCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGTGTCCTGCATTTTGAGGAC
* * * *
515421 AAAAGGGAAAAAGAAGGGAATGGAAGGTGTCCTGCTCTTTGAGGATAAAGTAGAAAAGGAAAATA
66 AAAAGGGGAAAAGAAGGGAATGGAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATA
* * ** *
515486 AAGTGCGTCCTGCTCTTTGAGGATAAAAGGGAAAATAAGGAAACAAAGTGCATCCTGCCCTTTGA
131 AAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGA
* *
515551 GGACTAGGAGGTGCCACTAACTTGTATGGCCTTTGAAGGAGAAG
196 GGACTAGGAGGTGCCACCAACTTGTATGGGCTTTGAAGGAGAAG
* * **
515595 GCGTCTTGCTCTTTGAGGTCAAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCATTTTGAGGAC
1 GCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGTGTCCTGCATTTTGAGGAC
* *
515660 AAAAGGGGGAAAA-AAGGGAACGGAATGTGTCCTGCTCTTTGAGGGCAAAGGAGAAAAGGAAAAT
66 AAAA-GGGGAAAAGAAGGGAATGGAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAT
* *
515724 AAAGTGCGTCCTGCTCTTTGAGGACAAATGGGAAAAGAAGGAAATGAAGTGTGTCCTGCCCTTTG
130 AAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTG
515789 AGGACTAGGAGGTGCCACCAACTTGTATGGGCTTTGAAGGAGAAG
195 AGGACTAGGAGGTGCCACCAACTTGTATGGGCTTTGAAGGAGAAG
* * * * *
515834 GCATCCTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAATGATGTGGGTCCTGCACTTTGAGGAC
1 GCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGTGTCCTGCATTTTGAGGAC
* * * *
515899 AAAAGGGGAAAAGAAGGGAATGGAATGTGTCATGCTCTTTGACGACAAGGGGGAAAAGGAAAATA
66 AAAAGGGGAAAAGAAGGGAATGGAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATA
*
515964 AAGTGCGTCCTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAATGAAGTGCGTCCTG-CCTTTCG
131 AAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTT-G
* *
516028 AGGACTAGGAGGTGCCACCAACTTGTAAGGGCTTTAAAGGA-AAG
195 AGGACTAGGAGGTGCCACCAACTTGTATGGGCTTTGAAGGAGAAG
* *
516072 GCGTCCTACTCTTT--GGACAAAAGGAGAAAAGAAGGAAATAAAGTGTGTCCTGC-TCTTTGAGG
1 GCGTCCTGCTCTTTGAGGACAAAAGG-GAAAAGAAGGAAATGAAGTGTGTCCTGCAT-TTTGAGG
516134 ACAA
64 ACAA
516138 GGAGGTGCCA
Statistics
Matches: 490, Mismatches: 48, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
236 10 0.02
237 35 0.07
238 28 0.06
239 410 0.84
240 7 0.01
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (239 bp):
GCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGTGTCCTGCATTTTGAGGAC
AAAAGGGGAAAAGAAGGGAATGGAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATA
AAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGA
GGACTAGGAGGTGCCACCAACTTGTATGGGCTTTGAAGGAGAAG
Found at i:515790 original size:88 final size:88
Alignment explanation
Indices: 515627--515791 Score: 212
Period size: 88 Copynumber: 1.9 Consensus size: 88
515617 AAGGGAAAAG
* *
515627 AAGGAAATGAAGTGCATCCTGCATTTTGAGGACAAAAGGGGGAAAAAAGGGAACGGAATGTGTCC
1 AAGGAAATAAAGTGCATCCTGCATTTTGAGGACAAAAGGGGGAAAAAAGGGAAAGGAATGTGTCC
*
515692 TGCTCTTTGAGGGCAAAGGAGAA
66 TGCCCTTTGAGGGCAAAGGAGAA
* * *
515715 AAGGAAAATAAAGTGCGTCCTGC-TCTTTGAGGAC-AAA-TGGGAAAAGAA-GGAAATGAAGTGT
1 AAGG-AAATAAAGTGCATCCTGCAT-TTTGAGGACAAAAGGGGGAAAA-AAGGGAAAGGAA-TGT
515776 GTCCTGCCCTTTGAGG
62 GTCCTGCCCTTTGAGG
515792 ACTAGGAGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
87 14 0.21
88 28 0.42
89 25 0.37
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (88 bp):
AAGGAAATAAAGTGCATCCTGCATTTTGAGGACAAAAGGGGGAAAAAAGGGAAAGGAATGTGTCC
TGCCCTTTGAGGGCAAAGGAGAA
Found at i:516141 original size:103 final size:103
Alignment explanation
Indices: 515963--516182 Score: 300
Period size: 103 Copynumber: 2.1 Consensus size: 103
515953 AAAGGAAAAT
* *
515963 AAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAATGAAGTGCGTCCTGCCTTTCG
1 AAAG-GCGTCCTACTCTTT-AGGACAAAAGGAAAAAGAAGGAAATAAAGTGCGTCCTGCCTTTCG
*
516028 AGGACTAGGAGGTGCCACCAACTTGTAAGGGCTTTAAAGG
64 AGGACAAGGAGGTGCCACCAACTTGTAAGGGCTTTAAAGG
*
516068 AAAGGCGTCCTACTCTTT-GGACAAAAGGAGAAAAGAAGGAAATAAAGTGTGTCCTGCTCTTT-G
1 AAAGGCGTCCTACTCTTTAGGACAAAAGGA-AAAAGAAGGAAATAAAGTGCGTCCTGC-CTTTCG
* ** *
516131 AGGACAAGGAGGTGCCACTAACTTGTGTGGGCTTTGAAGG
64 AGGACAAGGAGGTGCCACCAACTTGTAAGGGCTTTAAAGG
*
516171 AGAAGGTGTCCT
1 A-AAGGCGTCCT
516183 TCTTTTTGAG
Statistics
Matches: 103, Mismatches: 9, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
102 11 0.11
103 62 0.60
104 26 0.25
105 4 0.04
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (103 bp):
AAAGGCGTCCTACTCTTTAGGACAAAAGGAAAAAGAAGGAAATAAAGTGCGTCCTGCCTTTCGAG
GACAAGGAGGTGCCACCAACTTGTAAGGGCTTTAAAGG
Found at i:516275 original size:62 final size:62
Alignment explanation
Indices: 516118--516446 Score: 346
Period size: 62 Copynumber: 5.4 Consensus size: 62
516108 AATAAAGTGT
* * * * * **
516118 GTCCTGCTCTTTGAGGAC-AAGGAGGTGCCACTAACTTGTGTGGGCTTTG--AAGGAGAAGGT
1 GTCCTGCTCTTTGAGGACTAAAG-GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGAC
* * * *
516178 GTCCTTCTTTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGAC
1 GTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGAC
* * * * **
516240 GTCTTGCTGTTTGAGGACTAAAGGGTGTCATCAACTCGTGTGGGCTTTGAAAAGAAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGAC
* * * * **
516302 GTCCTACTCTTTGAGGACTTAAA-GGTGCCACCAACTTGTGTGAGCTTT-AAAAGGAAAAGGT
1 GTCCTGCTCTTTGAGGAC-TAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGAC
* * *
516363 GTCCTGCTCTTTGAGGACTAAAGAGCGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGAC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGAC
*
516425 GTCTTGCTCTTTGAGGACTAAA
1 GTCCTGCTCTTTGAGGACTAAA
516447 AGGGCGTCAT
Statistics
Matches: 225, Mismatches: 36, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
60 44 0.20
61 52 0.23
62 125 0.56
63 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (62 bp):
GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGAC
Found at i:516427 original size:185 final size:185
Alignment explanation
Indices: 516111--516456 Score: 502
Period size: 185 Copynumber: 1.9 Consensus size: 185
516101 AGAAGGAAAT
* * * * *
516111 AAAGTGTGTCCTGCTCTTTGAGGACAAGGAGGTGCCACTAACTTGTGTGGGCTTTGAAGGAGAAG
1 AAAGTGTGTCCTACTCTTTGAGGACAA-GAGGTGCCACCAACTTGTGTGAGCTTTAAAGGAAAAG
* * * **
516176 GTGTCCTTCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGACG
65 GTGTCCTGCTCTTTGAGGACTAGAAGGCGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAGACG
* *
516241 TCTTGCTGTTTGAGGACT-AAAGGGTGTCATCAACTCGTGTGGGCTTTGAAAAGAA
130 TCTTGCTCTTTGAGGACTAAAAGGGCGTCATCAACTCGTGTGGGCTTTGAAAAGAA
516296 AAAG-GTGTCCTACTCTTTGAGGACTTAA-AGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAA
1 AAAGTGTGTCCTACTCTTTGAGGAC--AAGAGGTGCCACCAACTTGTGTGAGCTTT-AAAGGAAA
*
516359 AGGTGTCCTGCTCTTTGAGGACTA-AAGAGCGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAG
63 AGGTGTCCTGCTCTTTGAGGACTAGAAG-GCGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAG
516423 ACGTCTTGCTCTTTGAGGACTAAAAGGGCGTCAT
127 ACGTCTTGCTCTTTGAGGACTAAAAGGGCGTCAT
516457 TCAAAACCAA
Statistics
Matches: 143, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
184 46 0.32
185 84 0.59
186 13 0.09
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (185 bp):
AAAGTGTGTCCTACTCTTTGAGGACAAGAGGTGCCACCAACTTGTGTGAGCTTTAAAGGAAAAGG
TGTCCTGCTCTTTGAGGACTAGAAGGCGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAGACGT
CTTGCTCTTTGAGGACTAAAAGGGCGTCATCAACTCGTGTGGGCTTTGAAAAGAA
Found at i:516435 original size:123 final size:123
Alignment explanation
Indices: 516111--516449 Score: 400
Period size: 123 Copynumber: 2.7 Consensus size: 123
516101 AGAAGGAAAT
* * * * *
516111 AAAGTGTGTCCTGCTCTTTGAGGAC-AAGGAGGTGCCACTAACTTGTGTGGGCTTTG--AAGGAG
1 AAAG-GTGTCCTGCTCTTTGAGGACTAAAGA-GTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* *
516173 AAGGTGTCCTTCTTTTTGAGGAC-TAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA
64 AAGGTGT-CTTCTCTTTGAGGACTTA-AAGGTGCCACCAACTTGTGTGAGCTTTAAAAAGAA
** * * * * *
516234 AAAGACGTCTTGCTGTTTGAGGACTAAAGGGTGTCATCAACTCGTGTGGGCTTTGAAAAGAAAAA
1 AAAGGTGTCCTGCTCTTTGAGGACTAAAGAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAA
* *
516299 GGTGTCCTACTCTTTGAGGACTTAAAGGTGCCACCAACTTGTGTGAGCTTT-AAAAGGA
66 GGTGT-CTTCTCTTTGAGGACTTAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAAGAA
* *
516357 AAAGGTGTCCTGCTCTTTGAGGACTAAAGAGCGCCACCAACTCATGTGGGCTTTGAAAAGAAAAA
1 AAAGGTGTCCTGCTCTTTGAGGACTAAAGAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAA
** *
516422 GACGTCTTGCTCTTTGAGGACTAAAAGG
66 GGTGTCTT-CTCTTTGAGGACTTAAAGG
516450 GCGTCATTCA
Statistics
Matches: 182, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
122 39 0.21
123 90 0.49
124 51 0.28
125 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (123 bp):
AAAGGTGTCCTGCTCTTTGAGGACTAAAGAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAA
GGTGTCTTCTCTTTGAGGACTTAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAAGAA
Found at i:516836 original size:45 final size:45
Alignment explanation
Indices: 516741--517108 Score: 299
Period size: 45 Copynumber: 8.3 Consensus size: 45
516731 TAAGGGAGAG
* * *
516741 GCTCTTTGAGGACAAAA--G-AAGAAGGAAAATAAAGTGCGTCCT
1 GCTCTTTGAGGACAAAAGGGAAAAAAAGAAAATGAAGTGCGTCCT
* *
516783 GCTCTTTGAGGATAAAAGGGAAAAAAAGAAAATGAAGTGCATCCT
1 GCTCTTTGAGGACAAAAGGGAAAAAAAGAAAATGAAGTGCGTCCT
* * * *
516828 ACTTTTTGAGGACAAAAGGAGAAAAGAAGGAAATGGAACGT--GTCCT
1 GCTCTTTGAGGACAAAAGG-GAAAAAAAGAAAAT-GAA-GTGCGTCCT
* * *
516874 GCTCTTTGAGGAC-AAA-GGAGAAAAGGAAAAT-AAGGTGCGTCAT
1 GCTCTTTGAGGACAAAAGGGAAAAAAAGAAAATGAA-GTGCGTCCT
* * * *
516917 GTTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGTGTCCT
1 GCTCTTTGAGGACAAAAGGGAAAAAAAGAAAATGAAGTGCGTCCT
* ** * *
516962 GCTTTTTGAGGACAAAAGGGAAAAAGAAGGGAATAGAAG-GTGTCTT
1 GCTCTTTGAGGACAAAAGGGAAAAA-AAGAAAAT-GAAGTGCGTCCT
* * * * *
517008 ACTCTTTGAGGAC-AAA-GTAGAAAAGGAAAATAAAGTGCGTCCT
1 GCTCTTTGAGGACAAAAGGGAAAAAAAGAAAATGAAGTGCGTCCT
* * * * **
517051 GCTCTTTGAGGATAAAAGGGAAAATAAGGAAACGAAGTGTATCCT
1 GCTCTTTGAGGACAAAAGGGAAAAAAAGAAAATGAAGTGCGTCCT
* *
517096 GCCCTTTAAGGAC
1 GCTCTTTGAGGAC
517109 TAGGAGGTGC
Statistics
Matches: 255, Mismatches: 55, Indels: 29
0.75 0.16 0.09
Matches are distributed among these distances:
41 4 0.02
42 19 0.07
43 47 0.18
44 13 0.05
45 110 0.43
46 53 0.21
47 7 0.03
48 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.21
Consensus pattern (45 bp):
GCTCTTTGAGGACAAAAGGGAAAAAAAGAAAATGAAGTGCGTCCT
Found at i:516959 original size:88 final size:89
Alignment explanation
Indices: 516743--517062 Score: 283
Period size: 89 Copynumber: 3.6 Consensus size: 89
516733 AGGGAGAGGC
* * *
516743 TCTTTGAGGACAAAA--G--AAGAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAAGGGA
1 TCTTTGAGGACAAAAGGGAAAAGAAGG-AAATGAAGTGTGTCCTGCTCTTTGAGGA-CAAA-GGA
* *
516804 AAAAAAGAAAATGAAGTGCATCCTACT
63 GAAAAAGAAAATGAAGTGCATCATACT
*
516831 T-TTTGAGGACAAAAGGAGAAAAGAAGGAAATGGAA-CGTGTCCTGCTCTTTGAGGACAAAGGAG
1 TCTTTGAGGACAAAAGG-GAAAAGAAGGAAAT-GAAGTGTGTCCTGCTCTTTGAGGACAAAGGAG
* * *
516894 AAAAGGAAAAT-AAGGTGCGTCAT-GT
64 AAAAAGAAAATGAA-GTGCATCATACT
*
516919 TCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGTGTCCTGCTTTTTGAGGACAAAAGG-GA
1 TCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGAC-AAAGGAGA
*
516983 AAAAGAAGGGAATAGAAGGTG--TCTTAC-
65 AAAAGAA---AAT-GAA-GTGCATCATACT
* * * *
517010 TCTTTGAGGAC-AAAGTAGAAAAG--GAAAATAAAGTGCGTCCTGCTCTTTGAGGA
1 TCTTTGAGGACAAAAG-GGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGA
517063 TAAAAGGGAA
Statistics
Matches: 196, Mismatches: 19, Indels: 33
0.79 0.08 0.13
Matches are distributed among these distances:
87 16 0.08
88 46 0.23
89 66 0.34
90 8 0.04
91 45 0.23
92 9 0.05
93 6 0.03
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (89 bp):
TCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAGAA
AAAGAAAATGAAGTGCATCATACT
Found at i:516967 original size:134 final size:133
Alignment explanation
Indices: 516741--517097 Score: 520
Period size: 134 Copynumber: 2.7 Consensus size: 133
516731 TAAGGGAGAG
516741 GCTCTTTGAGGACAAA-AGAAGAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAAGGGAA
1 GCTCTTTGAGGACAAAGAGAA-AAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAAGGGAA
* * * *
516805 AAAAAGAAAATGAAGTGCATCCTACTTTTTGAGGACAAAA-GGAGAAAAGAAGGAAATGGAACGT
65 AAAAAGGAAATGAAGTGTATCCTGCTTTTTGAGGACAAAAGGGA-AAAAGAAGGAAATAGAACGT
516869 GTCCT
129 GTCCT
* * * *
516874 GCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAGGTGCGTCATGTTCTTTGAGGACAAAAGGGAA
1 GCTCTTTGAGGACAAA-GAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAAGGGAA
* * * *
516939 AAGAAGGAAATGAAGTGTGTCCTGCTTTTTGAGGACAAAAGGGAAAAAGAAGGGAATAGAAGGTG
65 AAAAAGGAAATGAAGTGTATCCTGCTTTTTGAGGACAAAAGGGAAAAAGAAGGAAATAGAACGTG
*
517004 TCTT
130 TCCT
*
517008 ACTCTTTGAGGACAAAGTAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAAGGGAA
1 GCTCTTTGAGGACAAAG-AGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAAGGGAA
* *
517073 AATAAGGAAACGAAGTGTATCCTGC
65 AAAAAGGAAATGAAGTGTATCCTGC
517098 CCTTTAAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
133 17 0.09
134 175 0.88
135 7 0.04
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.20
Consensus pattern (133 bp):
GCTCTTTGAGGACAAAGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAAGGGAAA
AAAAGGAAATGAAGTGTATCCTGCTTTTTGAGGACAAAAGGGAAAAAGAAGGAAATAGAACGTGT
CCT
Found at i:517251 original size:43 final size:44
Alignment explanation
Indices: 517149--517300 Score: 139
Period size: 44 Copynumber: 3.5 Consensus size: 44
517139 GAAGGAGAAG
* * * **
517149 GCGTCCTGCTCTTTGAGGTCAAAAAGGAAAAAAAGGAAATGGAA-T
1 GCGTCCTGCACTTTGAGGAC-AAAAGGGAAAAAAGGAAA-CAAAGT
* * * * * *
517194 GTGTTCAGCTCTTTGAGGAC-AAA-GGAGAAAAGGAAAATAAAGT
1 GCGTCCTGCACTTTGAGGACAAAAGGGAAAAAAGG-AAACAAAGT
*
517237 GCGTCCTGTACTTTGAGGACAAAAGGGAAAAAAGGAAACAAAGT
1 GCGTCCTGCACTTTGAGGACAAAAGGGAAAAAAGGAAACAAAGT
*
517281 GCGTCCTGCCCTTTGAGGAC
1 GCGTCCTGCACTTTGAGGAC
517301 TAGGAGGTGC
Statistics
Matches: 86, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 10 0.12
43 22 0.26
44 29 0.34
45 25 0.29
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.20
Consensus pattern (44 bp):
GCGTCCTGCACTTTGAGGACAAAAGGGAAAAAAGGAAACAAAGT
Found at i:517418 original size:105 final size:105
Alignment explanation
Indices: 517237--517614 Score: 568
Period size: 105 Copynumber: 3.6 Consensus size: 105
517227 AAAATAAAGT
**
517237 GCGTCCTG-TACTTTGAGGACAAAAGGGAAAA-AAGGAAACAAAGTGCGTCCTGCCCTTTGAGGA
1 GCGTCCTGCT-CTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGA
517300 CTAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAG
65 CTAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAG
* *
517341 GCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTACATCCTGCCCTTTGAGGAC
1 GCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGAC
*
517406 TAGGAGGTGCCACCAACTTGTGTGGGCTTTAAAGGA-AAG
66 TAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAG
* * * * *
517445 GCGT-TTGGCCCTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGTGTCCTGCTCTTTGAGGA
1 GCGTCCT-GCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGA
517509 CTAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-GAAG
65 CTAGGAGGTGCCACCAACTTGTGTGGGCTTTG-AAGGAGAAG
* * * *
517550 GCGTCCTGCTCTTTGAGGACAAAAGGGAAAATAAGGAAATGAAGTGTGTCCTACTCTTTGAGGAC
1 GCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGAC
517615 AAAAGGGGAA
Statistics
Matches: 250, Mismatches: 18, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
103 1 0.00
104 118 0.47
105 130 0.52
106 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (105 bp):
GCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGAC
TAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAG
Found at i:517616 original size:45 final size:45
Alignment explanation
Indices: 517550--517747 Score: 201
Period size: 45 Copynumber: 4.4 Consensus size: 45
517540 GAAAGGGAAG
*
517550 GCGTCCTGCTCTTTGAGGACAAAAGGGAAAATAAGGAAATGAAGT
1 GCGTCCTGCTCTTTGAGGACAAAAGGGAAAATAAGGAAATAAAGT
* * * *
517595 GTGTCCTACTCTTTGAGGACAAAAGGGGAAAAAAAGGGAATGGAAAGT
1 GCGTCCTGCTCTTTGAGGACAAAA-GGGAAAATAAGGAAAT--AAAGT
**
517643 --GTCCTGCTCTTTGAGGAC--AAGGG-GGA-AAGGAAAATAAAGT
1 GCGTCCTGCTCTTTGAGGACAAAAGGGAAAATAAGG-AAATAAAGT
* * * *
517683 GCATCCTACTCTTTGAGGATAATAGGGAAAATAAGGAAATAAAGT
1 GCGTCCTGCTCTTTGAGGACAAAAGGGAAAATAAGGAAATAAAGT
* *
517728 GCGTCATGCCCTTTGAGGAC
1 GCGTCCTGCTCTTTGAGGAC
517748 TAGGAAGTGC
Statistics
Matches: 123, Mismatches: 20, Indels: 20
0.75 0.12 0.12
Matches are distributed among these distances:
40 5 0.04
41 4 0.03
42 19 0.15
43 3 0.02
44 6 0.05
45 47 0.38
46 35 0.28
48 4 0.03
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (45 bp):
GCGTCCTGCTCTTTGAGGACAAAAGGGAAAATAAGGAAATAAAGT
Found at i:517646 original size:46 final size:46
Alignment explanation
Indices: 517552--517670 Score: 163
Period size: 46 Copynumber: 2.6 Consensus size: 46
517542 AAGGGAAGGC
* *
517552 GTCCTGCTCTTTGAGGACAAAA-GGGAAAATAAGGAAATGAAGTGT
1 GTCCTGCTCTTTGAGGACAAAAGGGGAAAAAAAGGAAATGAAGAGT
* *
517597 GTCCTACTCTTTGAGGACAAAAGGGGAAAAAAAGGGAATGGAA-AGT
1 GTCCTGCTCTTTGAGGACAAAAGGGGAAAAAAAGGAAAT-GAAGAGT
*
517643 GTCCTGCTCTTTGAGGAC-AAGGGGGAAA
1 GTCCTGCTCTTTGAGGACAAAAGGGGAAA
517671 GGAAAATAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 30 0.45
46 33 0.50
47 3 0.05
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (46 bp):
GTCCTGCTCTTTGAGGACAAAAGGGGAAAAAAAGGAAATGAAGAGT
Found at i:517875 original size:238 final size:238
Alignment explanation
Indices: 517455--518329 Score: 1269
Period size: 239 Copynumber: 3.7 Consensus size: 238
517445 GCGTTTGGCC
* * * *
517455 CTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGTGTCCTGCTCTTTGAGGACTAGGAGGTGC
1 CTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTAGGAAGTGC
*
517520 CACCAACTTGTGTGGGCTTTGAAAGG-GAAGGCGTCCTGCTCTTTGAGGACAAAAGGGAAAATAA
66 CACCAACTTGTGTGGGCTTTG-AAGGAGAAGGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAA
* * *
517584 GGAAATGAAGTGTGTCCTACTCTTTGAGGACAAAAGGGGAAAA-AAAGGGAATGGAAAGTGTCCT
130 AGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAAGGGGAAAAGAAA-GGAATGGAATGTGTCCT
* *
517648 GCTCTTTGAGGACAAGGGGGAAAGGAAAATAAAGTGCATCCTACT
194 ACTCTTTGAGGACAAGGGGGAAAGGAAAATAAAGTGCGTCCTACT
* * * * *
517693 CTTTGAGGATAATAGGGAAAATAAGGAAATAAAGTGCGTCATGCCCTTTGAGGACTAGGAAGTGC
1 CTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTAGGAAGTGC
* * * * * *
517758 CACCAACTTGTGTGGTCTTTGCAGGAGAAGGTGACTTGCTCTTTGAGGACAAAAGGGAAAAGAAG
66 CACCAACTTGTGTGGGCTTTGAAGGAGAAGGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAA
* *
517823 GAAATGAAGTGCGTCCTGCAT-TTTGAGGACAAAAGAGGAAAAGAAAGGAATGGAATGTGTCCTA
131 GAAATGAAGTGTGTCCTGC-TCTTTGAGGACAAAAGGGGAAAAGAAAGGAATGGAATGTGTCCTA
* * *
517887 CTCTTTGAGGATAAAGGAGAAAAGGAAAATAAAGTGCGTCCTACT
195 CTCTTTGAGGA-CAAGGGGGAAAGGAAAATAAAGTGCGTCCTACT
517932 CTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTA-GAAGGTG
1 CTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTAGGAA-GTG
* *
517996 CCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCCTCCTGCTCTTTGAGGATAAAAGGGAAAAGAA
65 CCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAA
* *
518061 AGAAATGATA-TGTGTCCTGCTCTTTGAGGACAAAAGGGGAAAAGAAGGGAATGGAATGTGTCAT
130 AGAAATGA-AGTGTGTCCTGCTCTTTGAGGACAAAAGGGGAAAAGAAAGGAATGGAATGTGTCCT
** * * * *
518125 TTTCTTTGAAGACAAGGGGGAAAAGGAAAATAAAGTGTGTCTTGCT
194 ACTCTTTGAGGACAAGGGGG-AAAGGAAAATAAAGTGCGTCCTACT
* *
518171 CTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTACATCCTGCCCTTTGAGGACTAGGAAGTGC
1 CTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTAGGAAGTGC
* *
518236 CACCAACTTGTGTGGGCTTTAAAGGA-AAGGCGTCCGGC-CATTTGAGGACAAAAGGGAAAAGAA
66 CACCAACTTGTGTGGGCTTTGAAGGAGAAGGCGTCCTGCTC-TTTGAGGACAAAAGGGAAAAGAA
518299 AGAAATGAAGTGTGTCCTGCTCTTTGAGGAC
130 AGAAATGAAGTGTGTCCTGCTCTTTGAGGAC
518330 TAGGAGGTGC
Statistics
Matches: 570, Mismatches: 56, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
237 5 0.01
238 245 0.43
239 316 0.55
240 4 0.01
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.22
Consensus pattern (238 bp):
CTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTAGGAAGTGC
CACCAACTTGTGTGGGCTTTGAAGGAGAAGGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAA
GAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAAGGGGAAAAGAAAGGAATGGAATGTGTCCTAC
TCTTTGAGGACAAGGGGGAAAGGAAAATAAAGTGCGTCCTACT
Found at i:517981 original size:88 final size:88
Alignment explanation
Indices: 517820--517985 Score: 223
Period size: 88 Copynumber: 1.9 Consensus size: 88
517810 AAGGGAAAAG
* * *
517820 AAGGAAATGAAGTGCGTCCTGCATTTTGAGGACAAAAGAGGAAAAGAAAGGAATGGAATGTGTCC
1 AAGGAAATAAAGTGCGTCCTACATTTTGAGGACAAAAGAGGAAAAGAAAGGAATGGAATGCGTCC
*
517885 TACTCTTTGAGGATAAAGGAGAA
66 TACCCTTTGAGGATAAAGGAGAA
517908 AAGGAAAATAAAGTGCGTCCTAC-TCTTTGAGGACAAAAG-GGAAAAG-AAGGAAAT-GAAGTGC
1 AAGG-AAATAAAGTGCGTCCTACAT-TTTGAGGACAAAAGAGGAAAAGAAAGG-AATGGAA-TGC
*
517969 GTCCTGCCCTTTGAGGA
62 GTCCTACCCTTTGAGGA
517986 CTAGAAGGTG
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
87 7 0.10
88 32 0.46
89 30 0.43
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.20
Consensus pattern (88 bp):
AAGGAAATAAAGTGCGTCCTACATTTTGAGGACAAAAGAGGAAAAGAAAGGAATGGAATGCGTCC
TACCCTTTGAGGATAAAGGAGAA
Found at i:517982 original size:45 final size:45
Alignment explanation
Indices: 517796--518225 Score: 241
Period size: 45 Copynumber: 9.3 Consensus size: 45
517786 AGGTGACTTG
*
517796 CTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTG
1 CTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTA
*
517841 CAT-TTTGAGGACAAAAGAGGAAAAGAAAGG-AATGGAA-TGTGTCCTA
1 C-TCTTTGAGGACAAAAG-GGAAAAG-AAGGAAAT-GAAGTGCGTCCTA
* * *
517887 CTCTTTGAGGA-TAAAGGAGAAAAG--GAAAATAAAGTGCGTCCTA
1 CTCTTTGAGGACAAAAGG-GAAAAGAAGGAAATGAAGTGCGTCCTA
*
517930 CTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTG
1 CTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTA
* * * ** *** * * *
517975 CCCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCCTCCTG
1 CTCTTTGAGGAC-AAAAGG-G--A--AA----AGAAGGAAATG-A--AG--TGCGTCCTA
* * * *
518035 CTCTTTGAGGATAAAAGGGAAAAGAAAGAAATGATA-TGTGTCCTG
1 CTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGA-AGTGCGTCCTA
* * * *
518080 CTCTTTGAGGACAAAAGGGGAAAAGAAGGGAATGGAA-TGTGTCATT
1 CTCTTTGAGGACAAAA-GGGAAAAGAAGGAAAT-GAAGTGCGTCCTA
* * ** * * * * *
518126 TTCTTTGAAGACAAGGGGGAAAAG--GAAAATAAAGTGTGTCTTG
1 CTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTA
* * *
518169 CTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTACATCCTG
1 CTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTA
*
518214 CCCTTTGAGGAC
1 CTCTTTGAGGAC
518226 TAGGAAGTGC
Statistics
Matches: 295, Mismatches: 59, Indels: 62
0.71 0.14 0.15
Matches are distributed among these distances:
42 5 0.02
43 59 0.20
44 6 0.02
45 106 0.36
46 66 0.22
47 10 0.03
48 1 0.00
49 2 0.01
50 4 0.01
51 2 0.01
54 2 0.01
55 5 0.02
56 2 0.01
58 3 0.01
59 5 0.02
60 17 0.06
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (45 bp):
CTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTA
Found at i:517997 original size:477 final size:477
Alignment explanation
Indices: 517455--518329 Score: 1355
Period size: 477 Copynumber: 1.8 Consensus size: 477
517445 GCGTTTGGCC
* * *
517455 CTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGTGTCCTGCTCTTTGAGGACTAGGAGGTGC
1 CTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGCGTCCTGCCCTTTGAGGACTAGAAGGTGC
* *
517520 CACCAACTTGTGTGGGCTTTGAAAGG-GAAGGCGTCCTGCTCTTTGAGGACAAAAGGGAAAATAA
66 CACCAACTTGTGTGGGCTTTG-AAGGAGAAGGCCTCCTGCTCTTTGAGGACAAAAGGGAAAAGAA
* *
517584 GGAAATGA-AGTGTGTCCTACTCTTTGAGGACAAAAGGGGAAAAAAAGGGAATGGAAAGTGTCCT
130 AGAAATGATA-TGTGTCCTACTCTTTGAGGACAAAAGGGGAAAAAAAGGGAATGGAAAGTGTCAT
* * *
517648 GCTCTTTGAGGACAAGGGGG-AAAGGAAAATAAAGTGCATCCTACTCTTTGAGGATAATAGGGAA
194 GCTCTTTGAAGACAAGGGGGAAAAGGAAAATAAAGTGCATCCTACTCTTTGAGGACAAAAGGGAA
* * * *
517712 AATAAGGAAATAAAGTGCGTCATGCCCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGTCTT
259 AAGAAGGAAATAAAGTACATCATGCCCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTT
** * ** *
517777 TGCAGGAGAAGGTGACTTGCTC-TTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTG
324 TAAAGGA-AAGGCGACCGGC-CATTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGCGTCCTG
517841 CAT-TTTGAGGACAAAAGAGGAAAAGAAAGGAATGGAATGTGTCCTACTCTTTGAGGATAAAGGA
387 C-TCTTTGAGGACAAAAGAGGAAAAGAAAGGAATGGAATGTGTCCTACTCTTTGAGGATAAAGGA
517905 GAAAAGGAAAATAAAGTGCGTCCTACT
451 GAAAAGGAAAATAAAGTGCGTCCTACT
*
517932 CTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTAGAAGGTGC
1 CTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGCGTCCTGCCCTTTGAGGACTAGAAGGTGC
*
517997 CACCAACTTGTGTGGGCTTTGAAGGAGAAGGCCTCCTGCTCTTTGAGGATAAAAGGGAAAAGAAA
66 CACCAACTTGTGTGGGCTTTGAAGGAGAAGGCCTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAA
* * * **
518062 GAAATGATATGTGTCCTGCTCTTTGAGGACAAAAGGGGAAAAGAAGGGAATGGAATGTGTCATTT
131 GAAATGATATGTGTCCTACTCTTTGAGGACAAAAGGGGAAAAAAAGGGAATGGAAAGTGTCATGC
** * *
518127 TCTTTGAAGACAAGGGGGAAAAGGAAAATAAAGTGTGTCTTGCTCTTTGAGGACAAAAGGGAAAA
196 TCTTTGAAGACAAGGGGGAAAAGGAAAATAAAGTGCATCCTACTCTTTGAGGACAAAAGGGAAAA
* *
518192 GAAGGAAATGAAGTACATCCTGCCCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTA
261 GAAGGAAATAAAGTACATCATGCCCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTA
* *
518257 AAGGAAAGGCGTCCGGCCATTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGTGTCCTGCTCT
326 AAGGAAAGGCGACCGGCCATTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGCGTCCTGCTCT
518322 TTGAGGAC
391 TTGAGGAC
518330 TAGGAGGTGC
Statistics
Matches: 358, Mismatches: 35, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
476 6 0.02
477 249 0.70
478 103 0.29
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.22
Consensus pattern (477 bp):
CTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGCGTCCTGCCCTTTGAGGACTAGAAGGTGC
CACCAACTTGTGTGGGCTTTGAAGGAGAAGGCCTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAA
GAAATGATATGTGTCCTACTCTTTGAGGACAAAAGGGGAAAAAAAGGGAATGGAAAGTGTCATGC
TCTTTGAAGACAAGGGGGAAAAGGAAAATAAAGTGCATCCTACTCTTTGAGGACAAAAGGGAAAA
GAAGGAAATAAAGTACATCATGCCCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTA
AAGGAAAGGCGACCGGCCATTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGCGTCCTGCTCT
TTGAGGACAAAAGAGGAAAAGAAAGGAATGGAATGTGTCCTACTCTTTGAGGATAAAGGAGAAAA
GGAAAATAAAGTGCGTCCTACT
Found at i:518352 original size:104 final size:105
Alignment explanation
Indices: 518172--518375 Score: 338
Period size: 104 Copynumber: 2.0 Consensus size: 105
518162 TGTCTTGCTC
*
518172 TTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTACATCCTGCCCTTTGAGGACTAGGAAGTGCC
1 TTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTACATCCTGCCCTTTGAGGACTAGGAAGTGCC
518237 ACCAACTTGTGTGGGCTTTAAAGGA-AAGGCGTCCGGCCA
66 ACCAACTTGTGTGGGCTTTAAAGGAGAAGGCGTCCGGCCA
*** * *
518276 TTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGTGTCCTGCTCTTTGAGGACTAGGAGGTGCC
1 TTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTACATCCTGCCCTTTGAGGACTAGGAAGTGCC
*
518341 ACCATCTTGTGTGGGCTTTAAAGGAGAAGGCGTCC
66 ACCAACTTGTGTGGGCTTTAAAGGAGAAGGCGTCC
518376 TACTTTTTGA
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
104 83 0.90
105 9 0.10
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (105 bp):
TTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTACATCCTGCCCTTTGAGGACTAGGAAGTGCC
ACCAACTTGTGTGGGCTTTAAAGGAGAAGGCGTCCGGCCA
Found at i:518464 original size:62 final size:62
Alignment explanation
Indices: 518312--518579 Score: 355
Period size: 62 Copynumber: 4.4 Consensus size: 62
518302 AATGAAGTGT
* * * * * *
518312 GTCCTGCTCTTTGAGGACT-AGGAGGTGCCACCATCTTGTGTGGGCTTT--AAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTAAAG-GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGAC
* * * *
518372 GTCCTACTTTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGAC
1 GTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGAC
* **
518434 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGCAAAGAAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGAC
* *
518496 GTCATGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGAC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGAC
518558 GTCCTGCTCTTTGAGGACTAAA
1 GTCCTGCTCTTTGAGGACTAAA
518580 AAGGTGTCAT
Statistics
Matches: 183, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
60 41 0.22
61 2 0.01
62 140 0.77
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (62 bp):
GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGAC
Found at i:521066 original size:13 final size:13
Alignment explanation
Indices: 521048--521073 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
521038 TACATTTTTG
521048 TGTATCGATACAT
1 TGTATCGATACAT
521061 TGTATCGATACAT
1 TGTATCGATACAT
521074 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:521068 original size:31 final size:32
Alignment explanation
Indices: 521030--521091 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
521020 TACAAGCCAA
**
521030 TGTATCGATACATTTTTG-TGTATCGATACAT
1 TGTATCGATACATACTTGCTGTATCGATACAT
521061 TGTATCGATACATACTTGCTGTATCGATACA
1 TGTATCGATACATACTTGCTGTATCGATACA
521092 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATACTTGCTGTATCGATACAT
Found at i:523472 original size:21 final size:21
Alignment explanation
Indices: 523448--523494 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
523438 TTTGATGCTG
523448 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
523468 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
523489 ATTTTG
1 ATTTTG
523495 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:523635 original size:13 final size:13
Alignment explanation
Indices: 523617--523679 Score: 108
Period size: 13 Copynumber: 4.8 Consensus size: 13
523607 AATCACCCTA
*
523617 TATCGATACAGTG
1 TATCGATACAATG
523630 TATCGATACAATG
1 TATCGATACAATG
*
523643 TATCGATACAGTG
1 TATCGATACAATG
523656 TATCGATACAATG
1 TATCGATACAATG
523669 TATCGATACAA
1 TATCGATACAA
523680 AGAAAAATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:523653 original size:26 final size:26
Alignment explanation
Indices: 523617--523678 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
523607 AATCACCCTA
523617 TATCGATACAGTGTATCGATACAATG
1 TATCGATACAGTGTATCGATACAATG
523643 TATCGATACAGTGTATCGATACAATG
1 TATCGATACAGTGTATCGATACAATG
523669 TATCGATACA
1 TATCGATACA
523679 AAGAAAAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (26 bp):
TATCGATACAGTGTATCGATACAATG
Found at i:523690 original size:20 final size:20
Alignment explanation
Indices: 523665--523743 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
523655 GTATCGATAC
523665 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
523685 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
523710 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
523730 CATGTATCGATACA
1 AATGTATCGATACA
523744 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:525787 original size:15 final size:15
Alignment explanation
Indices: 525751--525788 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
525741 TTCATCAATT
* *
525751 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
525766 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
525781 TCATTTTG
1 TCATTTTG
525789 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:527621 original size:21 final size:21
Alignment explanation
Indices: 527592--527636 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
527582 AAGTTTTCAT
*
527592 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
527612 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
527634 TTT
1 TTT
527637 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:529843 original size:13 final size:13
Alignment explanation
Indices: 529825--529850 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
529815 CAATTTTTTG
529825 TGTATCGATACAT
1 TGTATCGATACAT
529838 TGTATCGATACAT
1 TGTATCGATACAT
529851 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:530882 original size:24 final size:26
Alignment explanation
Indices: 530855--530905 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
530845 TCAAAATTTT
*
530855 ATTCAT-CGA-GGATACTCCACCCCC
1 ATTCATCCGAGGGATACTCCAACCCC
*
530879 ATTCCTCCGAGGGGATACTCCAACCCC
1 ATTCATCCGA-GGGATACTCCAACCCC
530906 GTTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 5 0.23
25 3 0.14
27 14 0.64
ACGTcount: A:0.24, C:0.41, G:0.16, T:0.20
Consensus pattern (26 bp):
ATTCATCCGAGGGATACTCCAACCCC
Found at i:532040 original size:391 final size:391
Alignment explanation
Indices: 531311--532066 Score: 901
Period size: 391 Copynumber: 1.9 Consensus size: 391
531301 TTCTGTGTCG
* * * *
531311 GTATCTCTCCAGTGCCTGATACGTAATACCTAGTTTTCAAAATGAAATCCAGAGGTCATTTTATA
1 GTATCTCTCCAGTGCCTGACACGAAATACCTAGTTTTCAAAATAAAATCCAAAGGTCATTTTATA
531376 TCTTTATGTTTCCCATCTCTCTGAGACGCATATGAGATTAAAATTTTTATCAAGACCTGAATTTA
66 TCTTTATGTTTCCCATCTCTCTGAGACGCATATGAGATTAAAATTTTTATCAAGACCTGAATTTA
* * *
531441 TTTTTATATAAAATTCATGCATTAAAGGGGATTATATCGAAATAATGATAAATCAAAACTGAAGA
131 TTTTTATACAAAATTCATGCATTAAAGGGGATCATATCGAAATAATGATAAATCAAAACTCAAGA
** * *** * *
531506 AACCAATATTGAGTCAAAATATTCTAGCAAAGTGTTGATTTAAGACGTCGCGAGGAGGTTCGTAC
196 AACCAATATAAAGTCAAAATATGCTAGCAAAGTACCGATTTAAGACGTCGCAAGGAGGTTCATAC
* * * * *
531571 CTTTTTGCGCATAACCAACTCCCAGACCCAACCAACGAATCTTTGAATTACGTAGACCATGGGAT
261 CTTTTTGCGCATAACCAACTCCCAAACCCAACCAACGAATATCTAAATTACGTAGACCACGGGAT
* *
531636 CAATGTCTCGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATGAAGGCAATGTTCCGCATC
326 CAATATCTCGAGTTTCGTAACTCAAAACATAGGTTTCAATAGGCATGAAGGCAATGTTCCGCATC
531701 A
391 A
* * * * * * * *
531702 GTATCTCTCTAGTGCTTGACATGAAATATCTATTTTTCAAAGTAAAATCCAAAGGTCTTTTTATG
1 GTATCTCTCCAGTGCCTGACACGAAATACCTAGTTTTCAAAATAAAATCCAAAGGTCATTTTATA
* * * * *
531767 T-TTCTATGTTTCTCATCTCTCTGGGGCGCATATGAGATTAAAATTTTTATCAA-ACTTGGATTT
66 TCTT-TATGTTTCCCATCTCTCTGAGACGCATATGAGATTAAAATTTTTATCAAGACCTGAATTT
* ** * * *
531830 GTTTTTATACAAAATTCATGCATTCGAGGGGATCATATTGAAATAAT-ATCAAGTCGAAAC-CAA
130 ATTTTTATACAAAATTCATGCATTAAAGGGGATCATATCGAAATAATGAT-AAATCAAAACTCAA
* * * * * *
531893 TTAAACTAATGTAAAGTCAAAATATAGCTAGTAAGGTACCGATTTCAGACGTCGCAAGGAGGTTC
194 -GAAACCAATATAAAGTCAAAATAT-GCTAGCAAAGTACCGATTTAAGACGTCGCAAGGAGGTTC
* ** * ** *
531958 ATA-CTTCTTTGTGTGTAACCAACTCTCAAACCCAACCAGTGAATATCTAAATTACGTAGATCAC
257 ATACCTT-TTTGCGCATAACCAACTCCCAAACCCAACCAACGAATATCTAAATTACGTAGACCAC
** * * *
532022 GGGATTGATATTTCGAGTTTCGTAACTCAAAATATCGGTTTCAAT
321 GGGATCAATATCTCGAGTTTCGTAACTCAAAACATAGGTTTCAAT
532067 GGGCGTCCGA
Statistics
Matches: 301, Mismatches: 59, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
389 4 0.01
390 81 0.27
391 216 0.72
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (391 bp):
GTATCTCTCCAGTGCCTGACACGAAATACCTAGTTTTCAAAATAAAATCCAAAGGTCATTTTATA
TCTTTATGTTTCCCATCTCTCTGAGACGCATATGAGATTAAAATTTTTATCAAGACCTGAATTTA
TTTTTATACAAAATTCATGCATTAAAGGGGATCATATCGAAATAATGATAAATCAAAACTCAAGA
AACCAATATAAAGTCAAAATATGCTAGCAAAGTACCGATTTAAGACGTCGCAAGGAGGTTCATAC
CTTTTTGCGCATAACCAACTCCCAAACCCAACCAACGAATATCTAAATTACGTAGACCACGGGAT
CAATATCTCGAGTTTCGTAACTCAAAACATAGGTTTCAATAGGCATGAAGGCAATGTTCCGCATC
A
Found at i:537100 original size:828 final size:828
Alignment explanation
Indices: 535504--537151 Score: 3179
Period size: 828 Copynumber: 2.0 Consensus size: 828
535494 TCTCATGTAG
535504 TTGAAACCTAAATCTAAGTAATCTCCTTGTTCGAACACTAAGTTAGGTTACCTAATCATGATTTT
1 TTGAAACCTAAATCTAAGTAATCTCCTTGTTCGAACACTAAGTTAGGTTACCTAATCATGATTTT
*
535569 AAGTTCATTTCTTCAATTAATTATCAAATCATGTTTCAAAATCATCAAATTAAGCTAAAACCTAA
66 AAGTTCATTTATTCAATTAATTATCAAATCATGTTTCAAAATCATCAAATTAAGCTAAAACCTAA
535634 CTTGAATCAAGATCATAACATCAATACATCATAAATCCAAAGTGGTCGAATCATGGAGAACATGA
131 CTTGAATCAAGATCATAACATCAATACATCATAAATCCAAAGTGGTCGAATCATGGAGAACATGA
535699 AATAATGGTGGCCAAACATCATTTAAGCAAGATTCAAACATAAATCACGATGATGAGCTAAAAAT
196 AATAATGGTGGCCAAACATCATTTAAGCAAGATTCAAACATAAATCACGATGATGAGCTAAAAAT
* *
535764 TAAATAGATGAGAAATAAATTATATCAACTCCAAGCTTTTTTCCTCCATGACAATAAGAGAAAAT
261 TAAAGAGATGAGAAATAAATTATATCAACTCCAAGCTTTTCTCCTCCATGACAATAAGAGAAAAT
535829 GAGATAAAATGAAAACTATATGTAGAAAAATATCCAATATGTATATTATGTGTGTGTGATAGTAT
326 GAGATAAAATGAAAACTATATGTAGAAAAATATCCAATATGTATATTATGTGTGTGTGATAGTAT
535894 CCATTACTATTTATAGGCTCTAGGCTAGTGATTTAATTCTAAATCACCCGAGGGTGAAGTTAAAC
391 CCATTACTATTTATAGGCTCTAGGCTAGTGATTTAATTCTAAATCACCCGAGGGTGAAGTTAAAC
535959 TAATCATTAATATCCTAACAAACTTGATATGAAATGACTTTTATACCCTTAATGAATAGATGGGC
456 TAATCATTAATATCCTAACAAACTTGATATGAAATGACTTTTATACCCTTAATGAATAGATGGGC
* *
536024 ATAATTTTGCACATTAAACACATGGTGAATTTAGCTAAGGCATATTCCTAAACAAGTCTTCTATA
521 ATAATTTTGCACATTAAACACATGGTGAATTCAGCTAAGGCATATTCCTAAACAAGTCTTCTACA
536089 ATTTTTTGTAACATTCAATTAACCATGGTATGTTTATCTAAAAATATAATTGAATGTTCCATTGT
586 ATTTTTTGTAACATTCAATTAACCATGGTATGTTTATCTAAAAATATAATTGAATGTTCCATTGT
536154 ATAGTAAAAAATATGTCCTAATGACCTTTTGTTGAAAAATTTGGAATTTCTTATCCAGACCTCTT
651 ATAGTAAAAAATATGTCCTAATGACCTTTTGTTGAAAAATTTGGAATTTCTTATCCAGACCTCTT
536219 AAATTAAGCCTTTGGAAGTTCATGACATCTTAATTCCTAAGGTCCTTTCATGATGCAATCTCAAT
716 AAATTAAGCCTTTGGAAGTTCATGACATCTTAATTCCTAAGGTCCTTTCATGATGCAATCTCAAT
536284 TACACTTTCTTAACTTACAATCCATGTTCAATTTCATTCCTAATGTCT
781 TACACTTTCTTAACTTACAATCCATGTTCAATTTCATTCCTAATGTCT
*
536332 TTGAAACCTAAATCTAAGTAATCTCCTTGTTTGAACACTAAGTTAGGTTACCTAATCATGATTTT
1 TTGAAACCTAAATCTAAGTAATCTCCTTGTTCGAACACTAAGTTAGGTTACCTAATCATGATTTT
536397 AAGTTCATTTATTCAATTAATTATCAAATCATGTTTCAAAATCATCAAATTAAGCTAAAACCTAA
66 AAGTTCATTTATTCAATTAATTATCAAATCATGTTTCAAAATCATCAAATTAAGCTAAAACCTAA
536462 CTTGAATCAAGATCATAACATCAATACATCATAAATCCAAAGTGGTCGAATCATGGAGAACATGA
131 CTTGAATCAAGATCATAACATCAATACATCATAAATCCAAAGTGGTCGAATCATGGAGAACATGA
536527 AATAATGGTGGCCAAACATCATTTAAGCAAGATTCAAACATAAATCACGATGATGAGCTAAAAAT
196 AATAATGGTGGCCAAACATCATTTAAGCAAGATTCAAACATAAATCACGATGATGAGCTAAAAAT
*
536592 TAAAGAGATGAGAAATAAATTATATCTACTCCAAGCTTTTCTCCTCCATGACAATAAGAGAAAAT
261 TAAAGAGATGAGAAATAAATTATATCAACTCCAAGCTTTTCTCCTCCATGACAATAAGAGAAAAT
536657 GAGATAAAATGAAAACTATATGTAGAAAAATATCCAATATGTATATTATGTGTGTGTGATAGTAT
326 GAGATAAAATGAAAACTATATGTAGAAAAATATCCAATATGTATATTATGTGTGTGTGATAGTAT
536722 CCATTACTATTTATAGGCTCTAGGCTAGTGATTTAATTCTAAATCACCCGAGGGTGAAGTTAAAC
391 CCATTACTATTTATAGGCTCTAGGCTAGTGATTTAATTCTAAATCACCCGAGGGTGAAGTTAAAC
* *
536787 TAATCATTAATATCCTAACAAACTTGATGTGAAATGACTTTTGTACCCTTAATGAATAGATGGGC
456 TAATCATTAATATCCTAACAAACTTGATATGAAATGACTTTTATACCCTTAATGAATAGATGGGC
*
536852 ATAATTTTGCACATTAAACACATGGTGAATTCAGCTAAGGCATATTCCTAAACAAGTCTTGTACA
521 ATAATTTTGCACATTAAACACATGGTGAATTCAGCTAAGGCATATTCCTAAACAAGTCTTCTACA
*
536917 ATTTTTTGTAACATTCAATTAACCGTGGTATGTTTATCTAAAAATATAATTGAATGTTCCATTGT
586 ATTTTTTGTAACATTCAATTAACCATGGTATGTTTATCTAAAAATATAATTGAATGTTCCATTGT
*
536982 ATAGTAAAAAATATGTCCTAATGACCTTTTGTTGAAAAATTTGGAATTTCTTATCTAGACCTCTT
651 ATAGTAAAAAATATGTCCTAATGACCTTTTGTTGAAAAATTTGGAATTTCTTATCCAGACCTCTT
*
537047 AAATTAAGCCTTTGGAAGTTCATGACATCTTAATTCGTAAGGTCCTTTCATGATGCAATCTCAAT
716 AAATTAAGCCTTTGGAAGTTCATGACATCTTAATTCCTAAGGTCCTTTCATGATGCAATCTCAAT
537112 TACACTTTCTTAACTTACAATCCATGTTCAATTTCATTCC
781 TACACTTTCTTAACTTACAATCCATGTTCAATTTCATTCC
537152 CATGTAATCA
Statistics
Matches: 807, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
828 807 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (828 bp):
TTGAAACCTAAATCTAAGTAATCTCCTTGTTCGAACACTAAGTTAGGTTACCTAATCATGATTTT
AAGTTCATTTATTCAATTAATTATCAAATCATGTTTCAAAATCATCAAATTAAGCTAAAACCTAA
CTTGAATCAAGATCATAACATCAATACATCATAAATCCAAAGTGGTCGAATCATGGAGAACATGA
AATAATGGTGGCCAAACATCATTTAAGCAAGATTCAAACATAAATCACGATGATGAGCTAAAAAT
TAAAGAGATGAGAAATAAATTATATCAACTCCAAGCTTTTCTCCTCCATGACAATAAGAGAAAAT
GAGATAAAATGAAAACTATATGTAGAAAAATATCCAATATGTATATTATGTGTGTGTGATAGTAT
CCATTACTATTTATAGGCTCTAGGCTAGTGATTTAATTCTAAATCACCCGAGGGTGAAGTTAAAC
TAATCATTAATATCCTAACAAACTTGATATGAAATGACTTTTATACCCTTAATGAATAGATGGGC
ATAATTTTGCACATTAAACACATGGTGAATTCAGCTAAGGCATATTCCTAAACAAGTCTTCTACA
ATTTTTTGTAACATTCAATTAACCATGGTATGTTTATCTAAAAATATAATTGAATGTTCCATTGT
ATAGTAAAAAATATGTCCTAATGACCTTTTGTTGAAAAATTTGGAATTTCTTATCCAGACCTCTT
AAATTAAGCCTTTGGAAGTTCATGACATCTTAATTCCTAAGGTCCTTTCATGATGCAATCTCAAT
TACACTTTCTTAACTTACAATCCATGTTCAATTTCATTCCTAATGTCT
Found at i:537672 original size:19 final size:18
Alignment explanation
Indices: 537644--537682 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
537634 ACACTGGAAA
*
537644 TTCTTATTTATTTTTATT
1 TTCTTATTTATTATTATT
537662 TTCTATATTTATTATTATT
1 TTCT-TATTTATTATTATT
537681 TT
1 TT
537683 TGATTCATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTCTTATTTATTATTATT
Found at i:540031 original size:13 final size:13
Alignment explanation
Indices: 540013--540037 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
540003 CATTATGCTT
540013 TGTATCGATACAA
1 TGTATCGATACAA
540026 TGTATCGATACA
1 TGTATCGATACA
540038 TGTTCATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:540034 original size:33 final size:32
Alignment explanation
Indices: 539992--540056 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
539982 ACACACCCAG
*
539992 ATGTATCGATACAT-TATGCTTTGTATCGATACA
1 ATGTATCGATACATGT-T-CATTGTATCGATACA
540025 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCGATACATGTTCATTGTATCGATACA
540057 TGGACAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATGTTCATTGTATCGATACA
Found at i:540068 original size:20 final size:20
Alignment explanation
Indices: 540022--540078 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
540012 TTGTATCGAT
*
540022 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
*
540041 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
540060 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
540079 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.48
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:540229 original size:20 final size:20
Alignment explanation
Indices: 540180--540232 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
540170 TTCAAATGCA
*
540180 TGTATCAATACATTATGAAT
1 TGTATCGATACATTATGAAT
540200 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
*
540220 TGTATTGATACAT
1 TGTATCGATACAT
540233 AGCTATGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTATGAAT
Found at i:541765 original size:3 final size:3
Alignment explanation
Indices: 541750--541780 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
541740 AACCATCAAA
*
541750 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
541781 GTGACTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:546337 original size:21 final size:22
Alignment explanation
Indices: 546311--546360 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
546301 ATCAAATCTT
* *
546311 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
546332 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
546354 --TCAAAAT
1 CTTCAAAAT
546361 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:548710 original size:19 final size:20
Alignment explanation
Indices: 548686--548738 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
548676 ATCAATACGA
**
548686 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGGACAAT
548705 TGTATCGATACATGGACAAT
1 TGTATCGATACATGGACAAT
548725 TGTATCGATACATG
1 TGTATCGATACATG
548739 AAACTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGGACAAT
Found at i:548806 original size:13 final size:13
Alignment explanation
Indices: 548788--548812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
548778 TATGGCATAT
548788 TGTATCGATACAA
1 TGTATCGATACAA
548801 TGTATCGATACA
1 TGTATCGATACA
548813 TGATAAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:548810 original size:33 final size:33
Alignment explanation
Indices: 548768--548832 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
548758 TACCACTGTT
* * *
548768 TGTATCGATATATGGCATATTGTATCGATACAA
1 TGTATCGATACATGACAAATTGTATCGATACAA
*
548801 TGTATCGATACATGATAAATTGTATCGATACA
1 TGTATCGATACATGACAAATTGTATCGATACA
548833 TTGCTTCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGACAAATTGTATCGATACAA
Found at i:550357 original size:15 final size:15
Alignment explanation
Indices: 550337--550366 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
550327 TTTGTTATGT
550337 CAAAATAGAATAATG
1 CAAAATAGAATAATG
550352 CAAAATAGAATAATG
1 CAAAATAGAATAATG
550367 TAAGCATTAT
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:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (15 bp):
CAAAATAGAATAATG
Found at i:552166 original size:21 final size:21
Alignment explanation
Indices: 552140--552183 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
552130 TGATGAAAGA
552140 ATAAAGATGAA-GAAGAATTTG
1 ATAAAG-TGAAGGAAGAATTTG
* *
552161 ATAAAGTTAAGGAGGAATTTG
1 ATAAAGTGAAGGAAGAATTTG
552182 AT
1 AT
552184 GAAATTTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.48, C:0.00, G:0.25, T:0.27
Consensus pattern (21 bp):
ATAAAGTGAAGGAAGAATTTG
Found at i:556536 original size:13 final size:13
Alignment explanation
Indices: 556518--556569 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
556508 GGCTTCGTAG
556518 CGATACATTGTAT
1 CGATACATTGTAT
556531 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
556550 CGATACATTGTAT
1 CGATACATTGTAT
556563 CGATACA
1 CGATACA
556570 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 15 0.45
15 2 0.06
16 6 0.18
17 2 0.06
19 8 0.24
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:556550 original size:19 final size:19
Alignment explanation
Indices: 556526--556588 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
556516 AGCGATACAT
556526 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
556545 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
556558 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
556577 TGTATCGATACA
1 TGTATCGATACA
556589 GTTACTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:556559 original size:32 final size:32
Alignment explanation
Indices: 556518--556588 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
556508 GGCTTCGTAG
556518 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
556550 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
556582 CGATACA
1 CGATACA
556589 GTTACTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:561862 original size:20 final size:19
Alignment explanation
Indices: 561818--561870 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
561808 CATTCACATA
*
561818 ATGTATCGATACATTGTGC
1 ATGTATCGATACATTATGC
*
561837 ATTGTATTGATACATTATGAC
1 A-TGTATCGATACATTATG-C
*
561858 ATGTATCCATACA
1 ATGTATCGATACA
561871 AATGAGGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 25 0.89
21 2 0.07
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGTATCGATACATTATGC
Found at i:563028 original size:15 final size:15
Alignment explanation
Indices: 563008--563037 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
562998 CATGCATTTT
563008 AAAAGTGATTAAGTG
1 AAAAGTGATTAAGTG
563023 AAAAGTGATTAAGTG
1 AAAAGTGATTAAGTG
563038 TATTTCTTAC
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:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (15 bp):
AAAAGTGATTAAGTG
Found at i:566930 original size:46 final size:48
Alignment explanation
Indices: 566831--566994 Score: 140
Period size: 46 Copynumber: 3.5 Consensus size: 48
566821 TATAAAAAAA
* * * * * * *
566831 TTGTAACTTTATTTCATACAAAAGCTACTAGTTA-TTTGTTA-AAGGAT
1 TTGTAACTTTATTT-GTGCAAAAGTTACAAGCTATTTTGTGAGAAGAAT
* * *
566878 TTGTAACTTTATTTGTGCAAAA-TATATAA-CT-TTTTGTGAGGAGAGT
1 TTGTAACTTTATTTGTGCAAAAGT-TACAAGCTATTTTGTGAGAAGAAT
* * *
566924 TTGTAACTTGATCTGTGCAAAAGTTACAAGTTATTTTGTGAGAAGAAT
1 TTGTAACTTTATTTGTGCAAAAGTTACAAGCTATTTTGTGAGAAGAAT
* *
566972 TTGTATCTTTGTTTGTGCAAAAG
1 TTGTAACTTTATTTGTGCAAAAG
566995 CAACAAGTTA
Statistics
Matches: 91, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
45 7 0.08
46 36 0.40
47 16 0.18
48 32 0.35
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (48 bp):
TTGTAACTTTATTTGTGCAAAAGTTACAAGCTATTTTGTGAGAAGAAT
Found at i:566989 original size:48 final size:48
Alignment explanation
Indices: 566831--567004 Score: 142
Period size: 48 Copynumber: 3.7 Consensus size: 48
566821 TATAAAAAAA
* * * * * *
566831 TTGTAACTTTATTTCATACAAAAGCTACTAGTTA-TTTGTTA-AAGGAT
1 TTGTAACTTTGTTT-GTGCAAAAGCTACAAGTTATTTTGTGAGAAGAAT
* ** * * * *
566878 TTGTAACTTTATTTGTGCAAAATATATAA-CT-TTTTGTGAGGAGAGT
1 TTGTAACTTTGTTTGTGCAAAAGCTACAAGTTATTTTGTGAGAAGAAT
* *
566924 TTGTAAC-TTGATCTGTGCAAAAGTTACAAGTTATTTTGTGAGAAGAAT
1 TTGTAACTTTG-TTTGTGCAAAAGCTACAAGTTATTTTGTGAGAAGAAT
* *
566972 TTGTATCTTTGTTTGTGCAAAAGCAACAAGTTA
1 TTGTAACTTTGTTTGTGCAAAAGCTACAAGTTA
567005 AATTAGTGTT
Statistics
Matches: 98, Mismatches: 23, Indels: 11
0.74 0.17 0.08
Matches are distributed among these distances:
45 9 0.09
46 33 0.34
47 15 0.15
48 38 0.39
49 3 0.03
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (48 bp):
TTGTAACTTTGTTTGTGCAAAAGCTACAAGTTATTTTGTGAGAAGAAT
Found at i:567353 original size:21 final size:21
Alignment explanation
Indices: 567309--567362 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 21
567299 TTTTTACTCC
*
567309 TAAATA-AATAAAATAAATAT
1 TAAATATATTAAAATAAATAT
567329 TAAA-ATATTAAAA-AAATAT
1 TAAATATATTAAAATAAATAT
567348 AATAAATTATATTAA
1 --TAAA-TATATTAA
567363 TTAGAATCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 7 0.25
20 10 0.36
21 4 0.14
23 7 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATATATTAAAATAAATAT
Found at i:571644 original size:20 final size:20
Alignment explanation
Indices: 571621--571694 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
571611 ACAATTCAAA
571621 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
571641 GTATCGACACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
571662 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
571682 GTATCGATACATG
1 GTATCGATACATG
571695 AAAAAGATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:571665 original size:21 final size:21
Alignment explanation
Indices: 571639--571714 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
571629 ACATGTTGCA
*
571639 ATGTATCGACACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
571660 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
571680 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
571701 ATGTATCGATACAT
1 ATGTATCGATACAT
571715 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:571668 original size:41 final size:41
Alignment explanation
Indices: 571621--571714 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
571611 ACAATTCAAA
571621 GTATCGATACATGTTGCAATGTATCGACACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGACACATGAAAAAGAT
*
571662 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGACACATGAAAAAGAT
571703 GTATCGATACAT
1 GTATCGATACAT
571715 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGACACATGAAAAAGAT
Found at i:571771 original size:13 final size:13
Alignment explanation
Indices: 571753--571778 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
571743 TACAGCAAGT
571753 ATGTATCGATACA
1 ATGTATCGATACA
571766 ATGTATCGATACA
1 ATGTATCGATACA
571779 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:574025 original size:21 final size:21
Alignment explanation
Indices: 573992--574036 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
573982 TTGCAAGTTG
*
573992 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
574014 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
574034 AAA
1 AAA
574037 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:577964 original size:20 final size:20
Alignment explanation
Indices: 577885--577964 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
577875 AATGTCCAAA
*
577885 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
577905 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
577930 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
577950 TTGTATCGATACATT
1 ATGTATCGATACATT
577965 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:577968 original size:13 final size:13
Alignment explanation
Indices: 577950--577988 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
577940 ACATTTTTCT
577950 TTGTATCGATACA
1 TTGTATCGATACA
577963 TTGTATCGATACA
1 TTGTATCGATACA
*
577976 CTGTATCGATACA
1 TTGTATCGATACA
577989 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:580461 original size:20 final size:20
Alignment explanation
Indices: 580438--580511 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
580428 ACAATTCAAA
580438 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
580458 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
*
580479 GTATCGATTCATGTTGCAAT
1 GTATCGATACATGTTGCAAT
580499 GTATCGATACATG
1 GTATCGATACATG
580512 AAAAAGATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:580482 original size:21 final size:21
Alignment explanation
Indices: 580456--580531 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
580446 ACATGTTGCA
580456 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
* ****
580477 ATGTATCGATTCATGTTGCA-
1 ATGTATCGATACATGAAAAAG
580497 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
580518 ATGTATCGATACAT
1 ATGTATCGATACAT
580532 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:580492 original size:41 final size:41
Alignment explanation
Indices: 580438--580531 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
580428 ACAATTCAAA
580438 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
*
580479 GTATCGATTCATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
580520 GTATCGATACAT
1 GTATCGATACAT
580532 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:580588 original size:13 final size:13
Alignment explanation
Indices: 580570--580595 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
580560 TACAGCAAGT
580570 ATGTATCGATACA
1 ATGTATCGATACA
580583 ATGTATCGATACA
1 ATGTATCGATACA
580596 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:582354 original size:507 final size:507
Alignment explanation
Indices: 581401--582382 Score: 1964
Period size: 507 Copynumber: 1.9 Consensus size: 507
581391 AATAATGAAA
581401 TTTCATGCTTCAAAAGCTTTAAGTGGAAAATTTTCATGGTATAGCAAATTCTACGATTTAATCAC
1 TTTCATGCTTCAAAAGCTTTAAGTGGAAAATTTTCATGGTATAGCAAATTCTACGATTTAATCAC
581466 ACTAAAATATTTGAAAAATATTTCAAGTATTGGATTCTAAAAAAAAAATTTATTCTTTTAAAAAT
66 ACTAAAATATTTGAAAAATATTTCAAGTATTGGATTCTAAAAAAAAAATTTATTCTTTTAAAAAT
581531 GTAAATAAATTAATAAGTCTCATTTGTGAAAAAAAGATAATTAAAAATTTCAAGTTCACAAAAAG
131 GTAAATAAATTAATAAGTCTCATTTGTGAAAAAAAGATAATTAAAAATTTCAAGTTCACAAAAAG
581596 TTTATTAGAAATATCCTACATAAGAAAATTTTGCAATGGAAAGAAATATAAAATTCACAAAAATA
196 TTTATTAGAAATATCCTACATAAGAAAATTTTGCAATGGAAAGAAATATAAAATTCACAAAAATA
581661 AATTTAGATATGAAAATAATGAGTTCTAAAATTTTTAATTTGAAAATATAAATAATCTGAAAATC
261 AATTTAGATATGAAAATAATGAGTTCTAAAATTTTTAATTTGAAAATATAAATAATCTGAAAATC
581726 TTAAACTTAAAAAGAGTTTACAAAAATCTTTACAAAATAAAAAGTATTGTACTTTAACGAAAGAG
326 TTAAACTTAAAAAGAGTTTACAAAAATCTTTACAAAATAAAAAGTATTGTACTTTAACGAAAGAG
581791 AAAATTTTCAAAATAGATTGAAGTTTTAAAAAAGAACTAAGTAAATCTAATATATCTTTTTCAAA
391 AAAATTTTCAAAATAGATTGAAGTTTTAAAAAAGAACTAAGTAAATCTAATATATCTTTTTCAAA
581856 AGTATTTAGTGATTAAAGGCTTTAAGTGGAAAATTTCATGCTTGAAAAATAT
456 AGTATTTAGTGATTAAAGGCTTTAAGTGGAAAATTTCATGCTTGAAAAATAT
581908 TTTCATGCTTCAAAAGCTTTAAGTGGAAAATTTTCATGGTATAGCAAATTCTACGATTTAATCAC
1 TTTCATGCTTCAAAAGCTTTAAGTGGAAAATTTTCATGGTATAGCAAATTCTACGATTTAATCAC
581973 ACTAAAATATTTGAAAAATATTTCAAGTATTGGATTCTAAAAAAAAAATTTATTCTTTTAAAAAT
66 ACTAAAATATTTGAAAAATATTTCAAGTATTGGATTCTAAAAAAAAAATTTATTCTTTTAAAAAT
582038 GTAAATAAATTAATAAGTCTCATTTGTGAAAAAAAGATAATTAAAAATTTCAAGTTCACAAAAAG
131 GTAAATAAATTAATAAGTCTCATTTGTGAAAAAAAGATAATTAAAAATTTCAAGTTCACAAAAAG
582103 TTTATTAGAAATATCCTACATAAGAAAATTTTGCAATGGAAAGAAATATAAAATTCACAAAAATA
196 TTTATTAGAAATATCCTACATAAGAAAATTTTGCAATGGAAAGAAATATAAAATTCACAAAAATA
582168 AATTTAGATATGAAAATAATGAGTTCTAAAATTTTTAATTTGAAAATATAAATAATCTGAAAATC
261 AATTTAGATATGAAAATAATGAGTTCTAAAATTTTTAATTTGAAAATATAAATAATCTGAAAATC
582233 TTAAACTTAAAAAGAGTTTACAAAAATCTTTACAAAATAAAAAGTATTGTACTTTAACGAAAGAG
326 TTAAACTTAAAAAGAGTTTACAAAAATCTTTACAAAATAAAAAGTATTGTACTTTAACGAAAGAG
582298 AAAATTTTCAAAATAGATTGAAGTTTTAAAAAAGAACTAAGTAAATCTAATATATCTTTTTCAAA
391 AAAATTTTCAAAATAGATTGAAGTTTTAAAAAAGAACTAAGTAAATCTAATATATCTTTTTCAAA
582363 AGTATTTAGTGATTAAAGGC
456 AGTATTTAGTGATTAAAGGC
582383 CAAAACTCCA
Statistics
Matches: 475, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
507 475 1.00
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.34
Consensus pattern (507 bp):
TTTCATGCTTCAAAAGCTTTAAGTGGAAAATTTTCATGGTATAGCAAATTCTACGATTTAATCAC
ACTAAAATATTTGAAAAATATTTCAAGTATTGGATTCTAAAAAAAAAATTTATTCTTTTAAAAAT
GTAAATAAATTAATAAGTCTCATTTGTGAAAAAAAGATAATTAAAAATTTCAAGTTCACAAAAAG
TTTATTAGAAATATCCTACATAAGAAAATTTTGCAATGGAAAGAAATATAAAATTCACAAAAATA
AATTTAGATATGAAAATAATGAGTTCTAAAATTTTTAATTTGAAAATATAAATAATCTGAAAATC
TTAAACTTAAAAAGAGTTTACAAAAATCTTTACAAAATAAAAAGTATTGTACTTTAACGAAAGAG
AAAATTTTCAAAATAGATTGAAGTTTTAAAAAAGAACTAAGTAAATCTAATATATCTTTTTCAAA
AGTATTTAGTGATTAAAGGCTTTAAGTGGAAAATTTCATGCTTGAAAAATAT
Found at i:591044 original size:13 final size:13
Alignment explanation
Indices: 591026--591051 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
591016 CAATTTTTTG
591026 TGTATCGATACAT
1 TGTATCGATACAT
591039 TGTATCGATACAT
1 TGTATCGATACAT
591052 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.