Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000417.1 Hibiscus syriacus cultivar Beakdansim tig00000764_pilon, whole genome shotgun sequence
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: 2005044
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 9
Found at i:441948 original size:2 final size:2
Alignment explanation
Indices: 441943--441974 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
441933 TGTGTATTTG
441943 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
441975 GTTTGAGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:445102 original size:20 final size:20
Alignment explanation
Indices: 445079--445116 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
445069 CACATGTTAA
445079 AGAATGCATCGATGCACTAT
1 AGAATGCATCGATGCACTAT
*
445099 AGAATTCATCGATGCACT
1 AGAATGCATCGATGCACT
445117 TCAAGGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATGCACTAT
Found at i:445778 original size:23 final size:24
Alignment explanation
Indices: 445745--445793 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
445735 CGGGACATAC
*
445745 AGTGGTCCTTTGGGAC-ATTTCAT
1 AGTGGTCCTTTGGGACAAATTCAT
*
445768 AGTGGTTCTTTGGGACAAATTCAT
1 AGTGGTCCTTTGGGACAAATTCAT
445792 AG
1 AG
445794 CCCCTAGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (24 bp):
AGTGGTCCTTTGGGACAAATTCAT
Found at i:449252 original size:20 final size:20
Alignment explanation
Indices: 449229--449266 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
449219 CACATGTTAA
449229 AGAATGCATCGATGCACTAT
1 AGAATGCATCGATGCACTAT
*
449249 AGAATTCATCGATGCACT
1 AGAATGCATCGATGCACT
449267 TCAAGGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATGCACTAT
Found at i:449928 original size:23 final size:24
Alignment explanation
Indices: 449895--449943 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
449885 CGGGACATAC
*
449895 AGTGGTCCTTTGGGAC-ATTTCAT
1 AGTGGTCCTTTGGGACAAATTCAT
*
449918 AGTGGTTCTTTGGGACAAATTCAT
1 AGTGGTCCTTTGGGACAAATTCAT
449942 AG
1 AG
449944 CCCCTAGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (24 bp):
AGTGGTCCTTTGGGACAAATTCAT
Found at i:453383 original size:24 final size:20
Alignment explanation
Indices: 453356--453413 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
453346 GCATGGGTAG
453356 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
453380 TGCATCAATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
453400 TTCATCGATGCACT
1 TGCATCGATGCACT
453414 TCAAGGGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:458416 original size:24 final size:24
Alignment explanation
Indices: 458372--458418 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
458362 AGAAACATAA
* *
458372 CCAAAACCAGATCAAGAACAAAAT
1 CCAAAACCAAAACAAGAACAAAAT
458396 CCAAAACCAAAACAA-ACACAAAA
1 CCAAAACCAAAACAAGA-ACAAAA
458419 CACCTAGCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.64, C:0.28, G:0.04, T:0.04
Consensus pattern (24 bp):
CCAAAACCAAAACAAGAACAAAAT
Found at i:473955 original size:29 final size:29
Alignment explanation
Indices: 473870--473957 Score: 115
Period size: 28 Copynumber: 3.0 Consensus size: 29
473860 TAGACGTCAT
473870 TAAAATGATTATTTTATAACTTTTAATAG
1 TAAAATGATTATTTTATAACTTTTAATAG
* * * *
473899 -AAAATGATGAGTTTATAACATATGAATAG
1 TAAAATGATTATTTTATAAC-TTTTAATAG
*
473928 TTAAATGATTATTTTATAACTTTTAATAG
1 TAAAATGATTATTTTATAACTTTTAATAG
473957 T
1 T
473958 CGAAGAACTC
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
28 17 0.35
29 15 0.31
30 16 0.33
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.44
Consensus pattern (29 bp):
TAAAATGATTATTTTATAACTTTTAATAG
Found at i:474448 original size:2 final size:2
Alignment explanation
Indices: 474441--474513 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
474431 TATTATTCTT
474441 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
474483 TA TA TA 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 TA TA TA T
474514 CCAATAACAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:474797 original size:60 final size:59
Alignment explanation
Indices: 474732--474899 Score: 160
Period size: 60 Copynumber: 2.8 Consensus size: 59
474722 GTCACCTTTT
* * * *
474732 TAAATTGTTCCTTAAATTTTTAAATATTCTAATTTCATCCTTAAACTATGA-CTATCATTC
1 TAAATTGATCCTTAAAATTTTGAACATTCTAATTTCATCC-TAAACTATGATCT-TCATTC
* ** * * * *
474792 TAAATTAATCCTCGAACTTTTGAACATTTTAATTTCATCCCCAGACTATGATCTTCATTC
1 TAAATTGATCCTTAAAATTTTGAACATTCTAATTTCAT-CCTAAACTATGATCTTCATTC
* *
474852 TAAATTGCT-CTTCAAACATTGTGAACATTCTAATTTCATCCTAAACTA
1 TAAATTGATCCTT-AAA-ATTTTGAACATTCTAATTTCATCCTAAACTA
474900 CATGTATATG
Statistics
Matches: 85, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
59 2 0.02
60 60 0.71
61 23 0.27
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (59 bp):
TAAATTGATCCTTAAAATTTTGAACATTCTAATTTCATCCTAAACTATGATCTTCATTC
Found at i:474892 original size:61 final size:60
Alignment explanation
Indices: 474757--474892 Score: 166
Period size: 60 Copynumber: 2.2 Consensus size: 60
474747 ATTTTTAAAT
** * *
474757 ATTCTAATTTCATCCTTAAACTATGACTATCATTCTAAATTAATCCTCGAACTTTTGAAC
1 ATTCTAATTTCATCCCCAAACTATGACTATCATTCTAAATTAATCCTCAAACTTGTGAAC
* * ** *
474817 ATTTTAATTTCATCCCCAGACTATGATCT-TCATTCTAAATTGCTCTTCAAACATTGTGAAC
1 ATTCTAATTTCATCCCCAAACTATGA-CTATCATTCTAAATTAATCCTCAAAC-TTGTGAAC
474878 ATTCTAATTTCATCC
1 ATTCTAATTTCATCC
474893 TAAACTACAT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
60 41 0.64
61 23 0.36
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (60 bp):
ATTCTAATTTCATCCCCAAACTATGACTATCATTCTAAATTAATCCTCAAACTTGTGAAC
Found at i:475192 original size:121 final size:122
Alignment explanation
Indices: 475044--475295 Score: 365
Period size: 121 Copynumber: 2.1 Consensus size: 122
475034 AATTGGAGTA
* *
475044 TTCAAAAGTTTGGGGATCAATTAAGAAAAAGGGTTATAATTTAGGGATGAAATTAGAATGTTCAA
1 TTCAAAAGTTTGGGGATCAATTAAGAAAAAGGGTCATAATTTAGGGATGAAATTAGAATATTCAA
*
475109 AATGTTTGAA-GAGC-AATTTAAAATGA-AGATCATAGTCTGGGGATGAAATTA-AA-ATG
66 AA-GTTT-AATGA-CTAATTTAAAATGAGAG-TCATAGTCTGAGGATGAAATTAGAATATG
475165 TTCAAAAGTTTGGGGATCAATTAAGAAAAAGGGTCATAATTTAGGGATGAAATTAGAATATTCAA
1 TTCAAAAGTTTGGGGATCAATTAAGAAAAAGGGTCATAATTTAGGGATGAAATTAGAATATTCAA
* * *
475230 AAGTTTAATGACTAATTTAGAATGAGAGTCGTAGTTTGAGGATGAAATTAGAATATG
66 AAGTTTAATGACTAATTTAAAATGAGAGTCATAGTCTGAGGATGAAATTAGAATATG
475287 -T-AAAAGTTT
1 TTCAAAAGTTT
475296 AAGGACTAAT
Statistics
Matches: 120, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
119 3 0.03
120 44 0.37
121 70 0.58
122 3 0.03
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.31
Consensus pattern (122 bp):
TTCAAAAGTTTGGGGATCAATTAAGAAAAAGGGTCATAATTTAGGGATGAAATTAGAATATTCAA
AAGTTTAATGACTAATTTAAAATGAGAGTCATAGTCTGAGGATGAAATTAGAATATG
Found at i:475212 original size:60 final size:60
Alignment explanation
Indices: 475044--475235 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
475034 AATTGGAGTA
*
475044 TTCAAAAGTTTGGGGATCAATTAAGAAAAAGGGTTATAATTTAGGGATGAAATTAGAATG
1 TTCAAAAGTTTGGGGATCAATTAAGAAAAAGGGTCATAATTTAGGGATGAAATTAGAATG
** * * * * * * *
475104 TTCAAAATGTTTGAAGAGCAATTTAA-AATGAA-GATCATAGTCTGGGGATGAAATTAAAATG
1 TTCAAAA-GTTTGGGGATCAA-TTAAGAA-AAAGGGTCATAATTTAGGGATGAAATTAGAATG
*
475165 TTCAAAAGTTTGGGGATCAATTAAGAAAAAGGGTCATAATTTAGGGATGAAATTAGAATA
1 TTCAAAAGTTTGGGGATCAATTAAGAAAAAGGGTCATAATTTAGGGATGAAATTAGAATG
475225 TTCAAAAGTTT
1 TTCAAAAGTTT
475236 AATGACTAAT
Statistics
Matches: 107, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
59 6 0.06
60 53 0.50
61 42 0.39
62 6 0.06
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.30
Consensus pattern (60 bp):
TTCAAAAGTTTGGGGATCAATTAAGAAAAAGGGTCATAATTTAGGGATGAAATTAGAATG
Found at i:475273 original size:60 final size:60
Alignment explanation
Indices: 475088--475327 Score: 208
Period size: 60 Copynumber: 4.0 Consensus size: 60
475078 TATAATTTAG
* * *
475088 GGATGAAATTAGAATGTTCAAAATGTTTGAA-GAGC-AATTTAAAATGA-AGATCATAGTCTGG
1 GGATGAAATTAGAATATTCAAAA-GTTT-AAGGA-CTAATTTAAAATGAGAG-TCATAGTTTGA
* * ** ** * *
475149 GGATGAAATTAAAATGTTCAAAAGTTTGGGGA-TCAA-TTAAGAAAAAGGGTCATAATTT-A
1 GGATGAAATTAGAATATTCAAAAGTTTAAGGACT-AATTTAA-AATGAGAGTCATAGTTTGA
* * *
475208 GGGATGAAATTAGAATATTCAAAAGTTTAATGACTAATTTAGAATGAGAGTCGTAGTTTGA
1 -GGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAATGAGAGTCATAGTTTGA
*
475269 GGATGAAATTAGAATATGT-AAAAGTTTAAGGACTAATTTAAAATGA-AGATGATAGTTTG
1 GGATGAAATTAGAATAT-TCAAAAGTTTAAGGACTAATTTAAAATGAGAG-TCATAGTTTG
475328 GGGACATATG
Statistics
Matches: 144, Mismatches: 24, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
59 6 0.04
60 109 0.76
61 29 0.20
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.31
Consensus pattern (60 bp):
GGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAATGAGAGTCATAGTTTGA
Found at i:475300 original size:29 final size:29
Alignment explanation
Indices: 475204--475300 Score: 72
Period size: 29 Copynumber: 3.3 Consensus size: 29
475194 AGGGTCATAA
*
475204 TTTAGGGATGAAATTAGAATAT-TCAAAAG
1 TTTAAGGATGAAATTAGAATATGT-AAAAG
* * * ***
475233 TTTAATGACT-AATTTAGAATGAGAGTCGTAG
1 TTTAAGGA-TGAAATTAGAAT-A-TGTAAAAG
*
475264 TTTGAGGATGAAATTAGAATATGTAAAAG
1 TTTAAGGATGAAATTAGAATATGTAAAAG
475293 TTTAAGGA
1 TTTAAGGA
475301 CTAATTTAAA
Statistics
Matches: 48, Mismatches: 15, Indels: 10
0.66 0.21 0.14
Matches are distributed among these distances:
29 26 0.54
30 4 0.08
31 17 0.35
32 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (29 bp):
TTTAAGGATGAAATTAGAATATGTAAAAG
Found at i:476452 original size:23 final size:23
Alignment explanation
Indices: 476422--476494 Score: 137
Period size: 23 Copynumber: 3.2 Consensus size: 23
476412 ATACTTTACA
476422 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
476445 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
476468 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
476491 ATAT
1 ATAT
476495 TTTTATTTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:476949 original size:23 final size:23
Alignment explanation
Indices: 476914--476986 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
476904 ATACTTTACA
* *
476914 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
476937 ATATAAACGCTACATATTACATT
1 ATATAAACGCTACCTATTACATT
*
476960 ATATAAACGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
476983 ATAT
1 ATAT
476987 TTTTACATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:477438 original size:23 final size:23
Alignment explanation
Indices: 477403--477475 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
477393 ATACTTTACA
*
477403 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
477426 ATATAAACGCTACCTATTATATT
1 ATATAAGCGCTACCTATTACATT
*
477449 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
477472 ATAT
1 ATAT
477476 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:477645 original size:489 final size:489
Alignment explanation
Indices: 476037--478380 Score: 4007
Period size: 489 Copynumber: 4.8 Consensus size: 489
476027 TGTCTGTATT
*
476037 TTTTTATAAAAAAGATCGATAC-TTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTCATAG
1 TTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAG
476100 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAATTATTTGAT
66 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAAATTATTTGAT
476165 TGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
130 TGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
476230 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAAA
195 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAAA
* * * *
476295 TAAATCATTAGATACATATATTTATTAAATTGATATTTTAAAACTCTCTCAAAAGATAACCTTAA
260 TAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAA
* * *
476360 ATTAATGTTTTCCACAGTGAAATAAGTATGAACACTTCTATAAAAAGGATAGATACTTTACAATA
325 ATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATA
* * *
476425 TAAGCGCTACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTATTACAT
390 TAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAACGCTACCTATTACAT
** * * *
476490 CATATTTTTATTTGA-TATATTGTAAAGTAAT-TATCC
455 CATATTTTTACCT-ATTATATTG-AAAGT-GTCCATAC
* *
476526 TTTTTATAAAAAGGATCGATATTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATA
1 TTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATA
*
476591 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGAT
65 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGAT
* *
476656 TGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATGATAA
130 TGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
* * *
476721 TAAATATGTAATATATATATTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAA
195 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAAA
* *
476786 TAAATCATTAGACACATATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
260 TAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAA
* * *
476851 ATTAATATTTTCCTA-AGTGAAAAAAAGTATGGACACTATTATAAAAATGATAGATACTTTACAA
325 ATTAATGTTTTCC-ACAGTG-AAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAA
*
476915 TATAAGCACTACCTATTACATTATATAAACGCTACATATTACATTATATAAACGCTACCTATTAC
388 TATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAACGCTACCTATTAC
*
476980 ATCATATTTTTACATATTATATTGAAAGTGTCCATAC
453 ATCATATTTTTACCTATTATATTGAAAGTGTCCATAC
*
477017 TTTTTATAAAAAAAATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAG
1 TTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAG
* *
477082 TATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATT
66 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATT
* *
477147 GTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAAT
131 GTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
*
477212 AAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACATAAAAAAT
196 AAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAAAT
** * * *
477277 AAATCATTAGACGCCTATATTTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
261 AAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAAA
* * *
477342 TTAATGTTTTCCAAAGTTAAAAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATAT
326 TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATAT
* *
477407 AAGCACTACCTATTACATTATATAAACGCTACCTATTATATTATATAAGCGCTACCTATTACATC
391 AAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAACGCTACCTATTACATC
477472 ATATTTTTACCTATTATATTGAAAGTGTCCATAC
456 ATATTTTTACCTATTATATTGAAAGTGTCCATAC
* * *
477506 TTTTTATAAAAATGATCGGTACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAACAG
1 TTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAG
*
477571 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTGCACAAAAAATTATTTGATT
66 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATT
*
477636 GTTTTGATATTTTATAAAATAATATTTCGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
131 GTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
*
477701 AAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAATATAAAAAAT
196 AAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAAAT
*
477766 AAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACATTAAA
261 AAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAAA
477831 TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATAT
326 TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATAT
*
477896 AAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAACGCTATCTATTACATC
391 AAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAACGCTACCTATTACATC
477961 ATATTTTTACCTATTATATTGAAAGTGTCCATAC
456 ATATTTTTACCTATTATATTGAAAGTGTCCATAC
* *
477995 TTTTTATAAAAAGGATCGATACTTTTTTTTTAAAAGTTATGTAATTTATCTTTCAATTTTTTTAA
1 TTTTTATAAAAAAGATCGATAC--TTTTTTT-AAAGTTATGTAATTTATGTTTCAATTTTTTTAA
478060 TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAATTATTTG
63 TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTG
*
478124 ATTGTTTTGATATTTTATAAAATAATATTTATAATTTAAATTTAACAATATTAACCAAAGATAAT
128 ATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAAT
478189 AATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAA
193 AATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAA
478254 AATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTT
258 AATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTT
* * *
478319 AAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAATGATAGATATTTTA
323 AAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTA
478381 TGCTTATATA
Statistics
Matches: 1758, Mismatches: 86, Indels: 20
0.94 0.05 0.01
Matches are distributed among these distances:
489 645 0.37
490 309 0.18
491 543 0.31
492 261 0.15
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (489 bp):
TTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAG
TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATT
GTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
AAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAAAT
AAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAAA
TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATAT
AAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAACGCTACCTATTACATC
ATATTTTTACCTATTATATTGAAAGTGTCCATAC
Found at i:477927 original size:23 final size:23
Alignment explanation
Indices: 477892--477964 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
477882 ATACTTTACA
* *
477892 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
477915 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
477938 ATATAAACGCTATCTATTACATC
1 ATATAAACGCTACCTATTACATT
477961 ATAT
1 ATAT
477965 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:478033 original size:981 final size:981
Alignment explanation
Indices: 476037--478380 Score: 4051
Period size: 981 Copynumber: 2.4 Consensus size: 981
476027 TGTCTGTATT
*
476037 TTTTTATAAAAAAGATCGATAC-TTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTCATAG
1 TTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAG
476100 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAATTATTTGAT
66 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAAATTATTTGAT
*
476165 TGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
130 TGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAA
476230 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAAA
195 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAAA
* * *
476295 TAAATCATTAGATACATATATTTATTAAATTGATATTTTAAAACTCTCTCAAAAGATAACCTTAA
260 TAAATCATTAGATACATATATTTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAA
* *
476360 ATTAATGTTTTCCACAGTGAAATAAGTATGAACACTTCTATAAAAAGGATAGATACTTTACAATA
325 ATTAATGTTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATA
* *
476425 TAAGCGCTACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTATTACAT
390 TAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACAT
** * * *
476490 CATATTTTTATTTGATATATTGTAAAGTAATTATCCTTTTTATAAAAAGGATCGATATTTTTTTT
455 CATATTTTTACCTGATATATTGTAAAGTAATCATACTTTTTATAAAAAGGATCGATACTTTTTTT
*
476555 AAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTA
520 AAAGTTATGTAATTTATGTTTCAATTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTA
*
476620 ATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTA
585 ATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTA
*
476685 GAATTTAAATTTAACAATATTAACCAAAGATGATAATAAATATGTAATATATATATTTATTGTTT
650 GAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATATTTATTGTTT
*
476750 TTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACACATATAATTACTAAA
715 TTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTAGACACATATAATTACTAAA
*
476815 TTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCTAAGTGAAAAAAAGTA
780 TTAATATCTTAAAACTCACTCAAAAGATAACATTAAATTAATATTTTCCTAAGTGAAAAAAAGTA
*
476880 TGGACACTATTATAAAAATGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAAC
845 TGGACACTATTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAAC
476945 GCTACATATTACATTATATAAACGCTACCTATTACATCATATTTTTACATATTATATTGAAAGTG
910 GCTACATATTACATTATATAAACGCTACCTATTACATCATATTTTTACATATTATATTGAAAGTG
477010 TCCATAC
975 TCCATAC
*
477017 TTTTTATAAAAAAAATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAG
1 TTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAG
* *
477082 TATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATT
66 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATT
*
477147 GTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAAT
131 GTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAAT
*
477212 AAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACATAAAAAAT
196 AAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAAAT
** * *
477277 AAATCATTAGACGCCTATATTTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
261 AAATCATTAGATACATATATTTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAAA
* *
477342 TTAATGTTTTCCAAAGTTAAAAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATAT
326 TTAATGTTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATAT
*
477407 AAGCACTACCTATTACATTATATAAACGCTACCTATTATATTATATAAGCGCTACCTATTACATC
391 AAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATC
* * *
477472 ATATTTTTACCT-ATTATATTG-AAAGT-GTCCATACTTTTTATAAAAATGATCGGTACTTTTTT
456 ATATTTTTACCTGA-TATATTGTAAAGTAAT-CATACTTTTTATAAAAAGGATCGATACTTTTTT
477534 TAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATT
519 TAAAGTTATGTAATTTATGTTTCAATTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATT
* *
477598 AATTTAATAATTTTATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTT
584 AATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTT
* *
477663 CGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTT
649 AGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATATTTATTGTT
* * *
477728 TTTAATTTAATGATAATATATACCGTAATATAAAAAATAAATCATTAGATACATATAATTACTAA
714 TTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTAGACACATATAATTACTAA
* *
477793 ATTGATATCTTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTTCC-ACAGTG-AAAAAAG
779 ATTAATATCTTAAAACTCACTCAAAAGATAACATTAAATTAATATTTTCCTA-AGTGAAAAAAAG
*
477856 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
843 TATGGACACTATTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
* * *
477921 ACGCTACCTATTACATTATATAAACGCTATCTATTACATCATATTTTTACCTATTATATTGAAAG
908 ACGCTACATATTACATTATATAAACGCTACCTATTACATCATATTTTTACATATTATATTGAAAG
477986 TGTCCATAC
973 TGTCCATAC
* *
477995 TTTTTATAAAAAGGATCGATACTTTTTTTTTAAAAGTTATGTAATTTATCTTTCAATTTTTTTAA
1 TTTTTATAAAAAAGATCGATAC--TTTTTTT-AAAGTTATGTAATTTATGTTTCAATTTTTTTAA
478060 TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAATTATTTG
63 TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTG
478124 ATTGTTTTGATATTTTATAAAATAATATTTA-TAATTTAAATTTAACAATATTAACCAAAGATAA
128 ATTGTTTTGATATTTTATAAAATAATATTTAGT-ATTTAAATTTAACAATATTAACCAAAGATAA
478188 TAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAA
192 TAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAA
*
478253 AAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCT
257 AAATAAATCATTAGATACATATATTTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCT
* * * *
478318 TAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAATGATAGATATTTTA
322 TAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTA
478381 TGCTTATATA
Statistics
Matches: 1289, Mismatches: 66, Indels: 18
0.94 0.05 0.01
Matches are distributed among these distances:
978 162 0.13
979 276 0.21
980 341 0.26
981 453 0.35
982 57 0.04
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (981 bp):
TTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAG
TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATT
GTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAAT
AAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAAAT
AAATCATTAGATACATATATTTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAAA
TTAATGTTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATAT
AAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATC
ATATTTTTACCTGATATATTGTAAAGTAATCATACTTTTTATAAAAAGGATCGATACTTTTTTTA
AAGTTATGTAATTTATGTTTCAATTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAA
TTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAG
AATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATATTTATTGTTTT
TAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTAGACACATATAATTACTAAAT
TAATATCTTAAAACTCACTCAAAAGATAACATTAAATTAATATTTTCCTAAGTGAAAAAAAGTAT
GGACACTATTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACG
CTACATATTACATTATATAAACGCTACCTATTACATCATATTTTTACATATTATATTGAAAGTGT
CCATAC
Found at i:478963 original size:260 final size:259
Alignment explanation
Indices: 478612--479388 Score: 1291
Period size: 260 Copynumber: 3.0 Consensus size: 259
478602 CTTTTTATAA
**
478612 AAGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTAATATTTCATTCTGGACAAAAATATCG
1 AAGTATCGACACTTTATGCTTGCACCTCGTT-GGTTTTAATATTTCATTCTGGACAAAAATATCG
*
478677 ACACAAACTAAAAAAGTGTCGATACATGATTTAGACCTATTCTCTCATAAAACTGGTACAATTAT
65 ACACAAACTAAAAAAGTGTCGATACATGATTTAGACCTATTCTCTCATAAAACTGGTATAATTAT
*
478742 ACAGGTTTCATTGACCATTTACCTATTACATTATACTTATGGGTTTCGATATTTTAGGGATCGAT
130 AC-GGTTTCATTGACCATTTACCTATTACATTATACTTATGGGTTTCGATGTTTTAGGGATCGAT
478807 ATTTTTTTAATAAATGTATCGACACTTTTTAAGGGTACACCTTTTTTGGCATTCATTCTAGACCG
194 ATTTTTTTAATAAATGTATCGACACTTTTTAAGGGTACACCTTTTTTGGCATTCATTCTAGACCG
478872 T
259 T
*
478873 AAGTATCGACATTTTATGCTTGCACCTCGTTGGTTTTAATATTTCATTCTGGACAAAAATATCGA
1 AAGTATCGACACTTTATGCTTGCACCTCGTTGGTTTTAATATTTCATTCTGGACAAAAATATCGA
478938 CACAAACTAAAAAAGTGTCGATACATGATTTAGACCTATTCTCTCATAAAACCT-GTATAATTAT
66 CACAAACTAAAAAAGTGTCGATACATGATTTAGACCTATTCTCTCATAAAA-CTGGTATAATTAT
*
479002 ACCGATTTCATTGACCATTTACCTATTACATTATACTTATGGGTTTCGATGTTTTAGGGATCGAT
130 A-CGGTTTCATTGACCATTTACCTATTACATTATACTTATGGGTTTCGATGTTTTAGGGATCGAT
479067 ATTTTTTTAATAAATGTATCGACACTTTTTAAGGGTACACCTTTTTTGGCATTCATTCTAGACCG
194 ATTTTTTTAATAAATGTATCGACACTTTTTAAGGGTACACCTTTTTTGGCATTCATTCTAGACCG
479132 T
259 T
*
479133 AAGTATCGACACTTTATGCTTGCACCTCGTTGGTTTTAATATTTTATTCTGGACAAAAATATCGA
1 AAGTATCGACACTTTATGCTTGCACCTCGTTGGTTTTAATATTTCATTCTGGACAAAAATATCGA
* *
479198 CAAAAACTAAAAAAGTGTCGATACATGATTTAGACCTATTCTCTCATAAAACCGGTATAATTATA
66 CACAAACTAAAAAAGTGTCGATACATGATTTAGACCTATTCTCTCATAAAACTGGTATAATTATA
*
479263 TCGGTTTCATTG-----------A--ACATTATACTTATGGGTTTTGATGTTTTAGGGATCGATA
131 -CGGTTTCATTGACCATTTACCTATTACATTATACTTATGGGTTTCGATGTTTTAGGGATCGATA
*
479315 CTTTTTTAATAAATGTATCGACAC--TTTAAGGGTACACC-TTTTTGGCATTCATTCTAGACCGT
195 TTTTTTTAATAAATGTATCGACACTTTTTAAGGGTACACCTTTTTTGGCATTCATTCTAGACCGT
479377 AAGTATCGACAC
1 AAGTATCGACAC
479389 AACTTTAACA
Statistics
Matches: 499, Mismatches: 14, Indels: 23
0.93 0.03 0.04
Matches are distributed among these distances:
244 36 0.07
245 14 0.03
247 61 0.12
249 1 0.00
259 1 0.00
260 353 0.71
261 33 0.07
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (259 bp):
AAGTATCGACACTTTATGCTTGCACCTCGTTGGTTTTAATATTTCATTCTGGACAAAAATATCGA
CACAAACTAAAAAAGTGTCGATACATGATTTAGACCTATTCTCTCATAAAACTGGTATAATTATA
CGGTTTCATTGACCATTTACCTATTACATTATACTTATGGGTTTCGATGTTTTAGGGATCGATAT
TTTTTTAATAAATGTATCGACACTTTTTAAGGGTACACCTTTTTTGGCATTCATTCTAGACCGT
Found at i:482485 original size:120 final size:120
Alignment explanation
Indices: 482272--482518 Score: 422
Period size: 120 Copynumber: 2.1 Consensus size: 120
482262 TTTTTCTTCC
*
482272 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* *
482337 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACAATATA
66 AATAAAACCGATATACTTATACCAGTTATATTACAAAATTATCTAGTACAATATA
*
482392 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* * * *
482457 CATAAAACCGATATATTTATACCAGTTATATTACAAAATTATCTATTACATTATA
66 AATAAAACCGATATACTTATACCAGTTATATTACAAAATTATCTAGTACAATATA
482512 ATTCTGG
1 ATTCTGG
482519 GTTCCGATGT
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
AATAAAACCGATATACTTATACCAGTTATATTACAAAATTATCTAGTACAATATA
Found at i:482654 original size:303 final size:303
Alignment explanation
Indices: 482107--482701 Score: 1082
Period size: 303 Copynumber: 2.0 Consensus size: 303
482097 TTAAAATTAG
* *
482107 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGATATATTT
* *
482172 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTTTGGGTTCCGATGTGTAAATGTCGA
66 ATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
482237 CACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
482302 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
482367 TTACAAAATTATCTAGTACAATATAATTCTGGACATAAAGTAC
261 TTACAAAATTATCTAGTACAATATAATTCTGGACATAAAGTAC
482410 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGATATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGATATATTT
482475 ATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
* *
482540 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACTGACACAATATT
131 CACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
* * *
482605 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
* * *
482670 TTATAAAATTATCTATTACATTATAATTCTGG
261 TTACAAAATTATCTAGTACAATATAATTCTGG
482702 GTTTCGATGT
Statistics
Matches: 280, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
303 280 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (303 bp):
CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGATATATTT
ATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
TTACAAAATTATCTAGTACAATATAATTCTGGACATAAAGTAC
Found at i:482700 original size:183 final size:183
Alignment explanation
Indices: 482392--483707 Score: 2295
Period size: 183 Copynumber: 7.2 Consensus size: 183
482382 GTACAATATA
*
482392 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
482457 CATAAAACCGATATATTTATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
482522 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
*
482575 ATTCTGGACATAAAGTACTGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
482640 CATAAAACCGGTATATTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
* * *
482705 TCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACATATTTTTCTTTC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
* * *
482758 ATTCTGAAGATAAAGTACCGACACAATATTAAAAAGTATCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
482823 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
482888 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
482941 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
483006 CATAAAATCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
* * *
483071 CTGATGTGTAAATGTCGAAACTTTTTGACAAGGTATCGACACATTTTTCTTCT
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
483124 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
483189 CATAAAACCGGTATATTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTTTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
483254 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
*
483307 ATTCTGGACATAATGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
483372 CATAAAACCGGTATATTTATATCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
*
483437 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGATACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
*
483490 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCTATATAGGTTGTA-A--T-TT-GCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
** * *
483550 CATAAAACTAGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
* * *
483615 CCGATGTTTTTTCAA--TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCC
131 CCGATG---TGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
*
483669 ATTCTGAACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
483708 GAAAACTTTG
Statistics
Matches: 1084, Mismatches: 46, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
178 69 0.06
179 77 0.07
180 1 0.00
181 4 0.00
182 1 0.00
183 932 0.86
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (183 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:487024 original size:18 final size:18
Alignment explanation
Indices: 487001--487061 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
486991 TCTCATTCAT
*
487001 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
487019 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
487038 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
487057 AATTA
1 AATTA
487062 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:487037 original size:19 final size:19
Alignment explanation
Indices: 487013--487061 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
487003 TTATATTCAC
487013 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
487032 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
487051 ATACAAAATTA
1 ATACAAAATTA
487062 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:488887 original size:33 final size:33
Alignment explanation
Indices: 488850--488915 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
488840 CATCTTAATA
*
488850 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
488883 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
488916 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:488974 original size:21 final size:21
Alignment explanation
Indices: 488949--489013 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
488939 CCCCTTATGC
* *
488949 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
488970 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
488991 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
489012 CT
1 CT
489014 TGATTGCCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:491296 original size:20 final size:19
Alignment explanation
Indices: 491241--491287 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
491231 TCTGGTATCG
491241 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
491260 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
491281 TTTTACC
1 TTTTACC
491288 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:491468 original size:20 final size:19
Alignment explanation
Indices: 491422--491468 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
491412 TCCGGTAACG
491422 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
491441 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
491462 TTTTACC
1 TTTTACC
491469 TGGTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:491512 original size:181 final size:182
Alignment explanation
Indices: 491208--491680 Score: 723
Period size: 181 Copynumber: 2.6 Consensus size: 182
491198 CATACTTACG
* *
491208 AAAGTATCGACACTTTCAATATATCTGGTATCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
491273 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACACATTAT
* *
491338 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTTTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
491389 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
491454 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACACATTAT
** *
491519 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * **
491571 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * * * *
491636 TGTCATAGTTTTACCTGTTATATCTTTTTGAATCGACACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTT
491681 AATTTGGATC
Statistics
Matches: 266, Mismatches: 25, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
181 169 0.64
182 97 0.36
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:492120 original size:6 final size:6
Alignment explanation
Indices: 492109--492157 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
492099 TGCTTTATTT
492109 GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA
1 GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA
492157 G
1 G
492158 ACACCAAGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.51, T:0.16
Consensus pattern (6 bp):
GTGAGA
Found at i:492834 original size:194 final size:195
Alignment explanation
Indices: 492545--492942 Score: 593
Period size: 195 Copynumber: 2.0 Consensus size: 195
492535 ATTCATATAT
* * * *
492545 TCGGTTCGGGTCGGGTGAAACTTTATTTTGATAAGGTCGGGTCGGGTTTTTATAAGTGTAATATT
1 TCGGGTCGGGTCAGATGAAACTTTATTTTGATAAGGTCGGGTCGAGTTTTTATAAGTGTAATATT
* * * *
492610 CGGGTCGGTTGGGTTCGGGTTTAGGGTGAAAAAAACCGAACC-GACCCAAAATATATATAATTCA
66 CGGGTCGGTCGAGTTCGGGTTTAAGGTGAAAAAAACCGAACCGGACCCAAAATATATAAAATTCA
*
492674 GGTCGGGTCGGATTAAGTCACTATTTTTATTAAATAAAAATATTTTTTTATTATTTCGGGTCGGG
131 GGTCGGGTCGGATTAAGTCACTATTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGG
* ** *
492739 TCGGGTCGGGTCAGATGAAACTTTATTTTGTTCGGGTCGGGTCGAGTTTTT-TAAGTGTGATATT
1 TCGGGTCGGGTCAGATGAAACTTTATTTTGATAAGGTCGGGTCGAGTTTTTATAAGTGTAATATT
* * *
492803 CGGGTCGGGTCGAGTTCGGGTTTAAGGTGAAAAAAACCGGACCGGTCCGAAAATATATAAAATTC
66 CGGGTC-GGTCGAGTTCGGGTTTAAGGTGAAAAAAACCGAACCGGACCCAAAATATATAAAATTC
* * *
492868 GGGTTGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGG
130 AGGTCGGGTCGGATTAAGTCACTATTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGG
492933 G
195 G
*
492934 TCAGGTCGG
1 TCGGGTCGG
492943 ATTTCTAATT
Statistics
Matches: 182, Mismatches: 20, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
193 18 0.10
194 76 0.42
195 88 0.48
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (195 bp):
TCGGGTCGGGTCAGATGAAACTTTATTTTGATAAGGTCGGGTCGAGTTTTTATAAGTGTAATATT
CGGGTCGGTCGAGTTCGGGTTTAAGGTGAAAAAAACCGAACCGGACCCAAAATATATAAAATTCA
GGTCGGGTCGGATTAAGTCACTATTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGG
Found at i:496232 original size:23 final size:23
Alignment explanation
Indices: 496206--496250 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
496196 CACCACAGCT
*
496206 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
496229 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
496251 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:496499 original size:149 final size:149
Alignment explanation
Indices: 496229--496533 Score: 601
Period size: 149 Copynumber: 2.0 Consensus size: 149
496219 CGAAGTGCCC
*
496229 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
496294 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
496359 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
496378 CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
496443 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
496508 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
496527 CGTAGAC
1 CGTAGAC
496534 CCTCGACTCT
Statistics
Matches: 155, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 155 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (149 bp):
CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCTAAGAACCG
Found at i:496889 original size:18 final size:19
Alignment explanation
Indices: 496852--496889 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
496842 ATTTCCTATC
*
496852 ATTCTTATACCATCACATA
1 ATTCTTATAACATCACATA
*
496871 ATTCTTTTAACAT-ACATA
1 ATTCTTATAACATCACATA
496889 A
1 A
496890 CATATCATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTCTTATAACATCACATA
Found at i:496959 original size:16 final size:16
Alignment explanation
Indices: 496914--496960 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
496904 TATAATAGAA
*
496914 ATACTTATAAGTCATAT
1 ATACTTAT-AGTCACAT
*
496931 A-ACTTAAAG-CACAT
1 ATACTTATAGTCACAT
496945 ATACTTATAGTCACAT
1 ATACTTATAGTCACAT
496961 TGCTTATATC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 5 0.20
15 9 0.36
16 10 0.40
17 1 0.04
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (16 bp):
ATACTTATAGTCACAT
Found at i:498047 original size:21 final size:21
Alignment explanation
Indices: 498017--498061 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
498007 TCTTGTTCGT
498017 TTGAAGGGGTATCAGA-TCCCC
1 TTGAAGGGGTA-CAGATTCCCC
* *
498038 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACAGATTCCCC
498059 TTG
1 TTG
498062 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (21 bp):
TTGAAGGGGTACAGATTCCCC
Found at i:501315 original size:23 final size:23
Alignment explanation
Indices: 501289--501333 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
501279 CACCACAGCT
*
501289 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
501312 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
501334 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:501582 original size:149 final size:149
Alignment explanation
Indices: 501312--501765 Score: 872
Period size: 149 Copynumber: 3.0 Consensus size: 149
501302 CGAAGTGCCC
* * *
501312 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAATGACCACATAGAATTCTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
501377 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
501442 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
501461 CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
501526 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
*
501591 CATATGTCCCTAAGAACTG
131 CATATGTCCCTAAGAACCG
501610 CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
501675 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
501740 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
501759 CGTAGAC
1 CGTAGAC
501766 CCTCGACTCT
Statistics
Matches: 300, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 300 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (149 bp):
CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCTAAGAACCG
Found at i:501911 original size:30 final size:30
Alignment explanation
Indices: 501869--501925 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
501859 TGTAATTCAC
*
501869 TTTCACATATCACTTA-TCACATAGTTTCT
1 TTTCACATATCACATAGTCACATAGTTTCT
* *
501898 TTTCATATGATCACATAGTCACGTAGTT
1 TTTCACAT-ATCACATAGTCACATAGTT
501926 CACTTACACG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 7 0.30
30 7 0.30
31 9 0.39
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (30 bp):
TTTCACATATCACATAGTCACATAGTTTCT
Found at i:503360 original size:21 final size:21
Alignment explanation
Indices: 503336--503380 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
503326 TCTTGTTCGT
* *
503336 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
503357 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
503378 TTG
1 TTG
503381 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:504451 original size:100 final size:101
Alignment explanation
Indices: 504186--504559 Score: 380
Period size: 101 Copynumber: 3.7 Consensus size: 101
504176 CAAAACAGGT
* ** *
504186 TTATATGTTTCAAACCATTTT-TATTATTAAAAATATAAG-CAAAATCAAGTTTATAAGC-ATAA
1 TTATATGTTTGAAACC-TTTTATATTATGCAAAA-ATAAGACAAAA-CATGTTTATAA-CTATAA
* *
504248 CATTATAGGTAACACCTTTTTTAATTATCAGTCGTTTACG-
62 CATTATAGGTAACACCTTTTTTAATTATCAATCG-TTAAGA
* * * * * **
504288 TTACATGTTTGAAACCTTTTATATTATGAAAAAATAATACAAAATAGGTTTATATGTATAACATT
1 TTATATGTTTGAAACCTTTTATATTATGCAAAAATAAGACAAAACATGTTTATAACTATAACATT
** * * *
504353 ATAGGTTTCACTTTTTTTAATTCTCAACCGTTAAGA
66 ATAGGTAACACCTTTTTTAATTATCAATCGTTAAGA
*** * *
504389 TTATATGTTTGAATTGTTTT-TATTACGCAAACATAAGACAAAACATGTTTATAACTATAACATT
1 TTATATGTTTGAAACCTTTTATATTATGCAAAAATAAGACAAAACATGTTTATAACTATAACATT
* * * * * *
504453 ATAGGTAACGCGTTTTTCAATTATCAATTGTTTACA
66 ATAGGTAACACCTTTTTTAATTATCAATCGTTAAGA
* *
504489 TTATATGTTTGAAACCTTTTATATTATGCAAAAATAAGATAAAACATGTTTATAACTCTAACATT
1 TTATATGTTTGAAACCTTTTATATTATGCAAAAATAAGACAAAACATGTTTATAACTATAACATT
*
504554 GTAGGT
66 ATAGGT
504560 TGCGTCTTTT
Statistics
Matches: 222, Mismatches: 45, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
100 83 0.37
101 109 0.49
102 30 0.14
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (101 bp):
TTATATGTTTGAAACCTTTTATATTATGCAAAAATAAGACAAAACATGTTTATAACTATAACATT
ATAGGTAACACCTTTTTTAATTATCAATCGTTAAGA
Found at i:507152 original size:187 final size:184
Alignment explanation
Indices: 506602--507154 Score: 574
Period size: 187 Copynumber: 3.0 Consensus size: 184
506592 ACCGTTTTTA
** * *
506602 AAAAAATTATTAACATTAAATATCACAACCTATTTCTTAGTGAATCATGACATTATTTGGCACAA
1 AAAAAA-TATTAACATTTCATATTACAACCTATTTCTTAGTGAAACATGACATTATTTGGCACAA
* * *
506667 CCATATTTATTATACATATTCATAACATTTTCATCTTTTAACTTATTTTCTTATCGTGGGAAAAT
65 -CGTATTTATTATATATATTCATAACATTTTCAT-TTTTAACTTATTTTCTTATCGTGAG-AAAT
* * *
506732 CCAAGGCTCCT-TCA-CATTAAACTCTGATAACATTTTAGGCGCAACCCATTTTATTATT
127 CCAAAGCT-CTATCAGC-TTAAACTCTGATAACATTTTAGACGCAACCTATTTTATTATT
* * ** ** * * * * *
506790 -AAAAATAGTAATATTTCATATTGTAATATGTTTTCTTAGTGAACCATGACATTCTTAGGCGCAA
1 AAAAAATATTAACATTTCATATTACAACCT-ATTTCTTAGTGAAACATGACATTATTTGGCACAA
* *
506854 CAGTATTTCTTATATATATTCATAACATTTTTCGTTTTTAACTTATTTTCTTATCGTGAGTAAAT
65 C-GTATTTATTATATATATTCATAACA-TTTTCATTTTTAACTTATTTTCTTATCGTGAG-AAAT
* * * *
506919 CCAAAGCTCCATCAGCTTAATCTCTGATAACATTTTAAATGCAACCTATTTTATTATT
127 CCAAAGCTCTATCAGCTTAAACTCTGATAACATTTTAGACGCAACCTATTTTATTATT
* * * *
506977 AAAAAATATTAAGATTTCATATTACAACCTCCTTTCTTAGTGAAACATGATATTTTTTGGCACAA
1 AAAAAATATTAACATTTCATATTACAACCT-ATTTCTTAGTGAAACATGACATTATTTGGCACAA
* * * *
507042 TCGT-TTTATTATATATGTTCATAATATTTTCAATTTTTAACTTATTTTCTTATAGTAAGAAATT
65 -CGTATTTATTATATATATTCATAACATTTTC-ATTTTTAACTTATTTTCTTATCGTGAGAAA-T
** * * * * *
507106 AAAAAGATTTATCAGCTCAAACTCTAATAACATTTTCGACGCAACCTAT
127 CCAAAGCTCTATCAGCTTAAACTCTGATAACATTTTAGACGCAACCTAT
507155 AATGTTAATA
Statistics
Matches: 299, Mismatches: 57, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
186 25 0.08
187 213 0.71
188 60 0.20
189 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.41
Consensus pattern (184 bp):
AAAAAATATTAACATTTCATATTACAACCTATTTCTTAGTGAAACATGACATTATTTGGCACAAC
GTATTTATTATATATATTCATAACATTTTCATTTTTAACTTATTTTCTTATCGTGAGAAATCCAA
AGCTCTATCAGCTTAAACTCTGATAACATTTTAGACGCAACCTATTTTATTATT
Found at i:510936 original size:14 final size:14
Alignment explanation
Indices: 510917--510945 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
510907 TATACATTCA
510917 ATCAATTTAATTTT
1 ATCAATTTAATTTT
510931 ATCAATTTAATTTT
1 ATCAATTTAATTTT
510945 A
1 A
510946 AATTTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
ATCAATTTAATTTT
Found at i:511745 original size:33 final size:33
Alignment explanation
Indices: 511707--511770 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
511697 ATGTAACTTA
511707 TTTTATCAATATATGATGATAATGATATGTATT
1 TTTTATCAATATATGATGATAATGATATGTATT
* *
511740 TTTTATTAATATATGATGATGATGATATGTA
1 TTTTATCAATATATGATGATAATGATATGTA
511771 ATGTTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (33 bp):
TTTTATCAATATATGATGATAATGATATGTATT
Found at i:519886 original size:23 final size:23
Alignment explanation
Indices: 519835--519907 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 23
519825 TATTAATTTT
* *
519835 TAAAAAAAATATG-ATAA-TAAA
1 TAAAAATAATATGAAAAATTAAA
519856 TAAAAATAATATGAAAAATTAAA
1 TAAAAATAATATGAAAAATTAAA
* * * *
519879 TAACAATAATATTAGAAATGAAA
1 TAAAAATAATATGAAAAATTAAA
519902 TAAAAA
1 TAAAAA
519908 CAATTCAATA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.28
22 3 0.07
23 28 0.65
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.25
Consensus pattern (23 bp):
TAAAAATAATATGAAAAATTAAA
Found at i:524886 original size:17 final size:17
Alignment explanation
Indices: 524864--524896 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
524854 ATCAATCATC
524864 ATCATCAAATCACCATT
1 ATCATCAAATCACCATT
*
524881 ATCATCCAATCACCAT
1 ATCATCAAATCACCAT
524897 CAAAACTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.27
Consensus pattern (17 bp):
ATCATCAAATCACCATT
Found at i:529781 original size:9 final size:9
Alignment explanation
Indices: 529769--529803 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
529759 TAATATTTTG
529769 TATTTAATT
1 TATTTAATT
529778 TATTTAA-T
1 TATTTAATT
529786 TATTTTAATT
1 TA-TTTAATT
529796 TATTTAAT
1 TATTTAAT
529804 ATTTTACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 3 0.12
9 18 0.75
10 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TATTTAATT
Found at i:529794 original size:18 final size:17
Alignment explanation
Indices: 529771--529809 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
529761 ATATTTTGTA
529771 TTTAATTTATTTAATTAT
1 TTTAATTTATTTAA-TAT
529789 TTTAATTTATTTAATAT
1 TTTAATTTATTTAATAT
529806 TTTA
1 TTTA
529810 CTTATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTAATTTATTTAATAT
Found at i:533263 original size:22 final size:22
Alignment explanation
Indices: 533238--533284 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
533228 CATTGATTCA
533238 AACGTTCGAGGAAGTAGTTCGT
1 AACGTTCGAGGAAGTAGTTCGT
533260 AACGTTCGAGGAAGTAGTTCGT
1 AACGTTCGAGGAAGTAGTTCGT
533282 AAC
1 AAC
533285 CTGGTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (22 bp):
AACGTTCGAGGAAGTAGTTCGT
Found at i:535903 original size:51 final size:49
Alignment explanation
Indices: 535801--535916 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 49
535791 AGACGTGGTA
* **
535801 CCTGCACCGCGCCT-TATATAATTATATCAGTTAAAGGTATGGCGCGACC
1 CCTGCCCCGCG-CTATATATAATTATATCAGTTAAAGGTAAAGCGCGACC
* * *
535850 CCTGCCCCGCGTTATATATAATTATGTCATGATTAAAGGTAAAGCGCGGCC
1 CCTGCCCCGCGCTATATATAATTATATCA-G-TTAAAGGTAAAGCGCGACC
535901 CCTGCCCCGCGCTATA
1 CCTGCCCCGCGCTATA
535917 CCCCTACGTG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
48 1 0.02
49 24 0.42
50 1 0.02
51 31 0.54
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (49 bp):
CCTGCCCCGCGCTATATATAATTATATCAGTTAAAGGTAAAGCGCGACC
Found at i:536351 original size:24 final size:24
Alignment explanation
Indices: 536290--536351 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 24
536280 TGTTCTTTTA
536290 TTTAT-TGTTCAT-AAACATGTTCG
1 TTTATATGTTC-TCAAACATGTTCG
* *
536313 TTTA-ATGTT-TGCAAACGTGTTTG
1 TTTATATGTTCT-CAAACATGTTCG
536336 TTTATATGTTCTCAAA
1 TTTATATGTTCTCAAA
536352 TTTATTCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
21 1 0.03
23 21 0.66
24 9 0.28
25 1 0.03
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (24 bp):
TTTATATGTTCTCAAACATGTTCG
Found at i:536648 original size:32 final size:32
Alignment explanation
Indices: 536607--536671 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
536597 ATGAACGAGT
*
536607 TTGTTCGTGAATATAAACGAACTGAAAGTACC
1 TTGTTCGTGAAAATAAACGAACTGAAAGTACC
*
536639 TTGTTCGTGAAAATAAACGAACTGAACGTACC
1 TTGTTCGTGAAAATAAACGAACTGAAAGTACC
536671 T
1 T
536672 CTATTCGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (32 bp):
TTGTTCGTGAAAATAAACGAACTGAAAGTACC
Found at i:546067 original size:53 final size:53
Alignment explanation
Indices: 546001--546277 Score: 419
Period size: 53 Copynumber: 5.2 Consensus size: 53
545991 GAACTCGAAT
* *
546001 AATCTTTAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATCCAC
1 AATCTTCATCAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATCCAC
* *
546054 AATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCATCAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CAC
* * *
546109 AATCTTCAACAATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCCAC
1 AATCTTCATCAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATCCAC
* *
546162 AATCTTCATCAATCGTGTCTGCCCCCTATTTTTTCAGAGAGTATAAGACCCAC
1 AATCTTCATCAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATCCAC
* *
546215 AATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCATCAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CAC
546270 AATCTTCA
1 AATCTTCA
546278 ACAAATGGGT
Statistics
Matches: 204, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
53 143 0.70
54 4 0.02
55 57 0.28
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (53 bp):
AATCTTCATCAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATCCAC
Found at i:546120 original size:108 final size:108
Alignment explanation
Indices: 545993--546277 Score: 448
Period size: 108 Copynumber: 2.6 Consensus size: 108
545983 GGAGTATGGA
* *
545993 ACTCGAATAATCTTTAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATCCACAATC
1 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATCCACAATC
546058 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
66 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
546101 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCCACAATC
1 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATCCACAATC
* *
546166 TTCATCAATCGTGTCTGCCCCCTATTTTTTCAGAGAGTATAAG
66 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * *
546209 AC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA
1 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CACAA
546272 TCTTCA
64 TCTTCA
546278 ACAAATGGGT
Statistics
Matches: 163, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
106 47 0.29
107 2 0.01
108 114 0.70
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (108 bp):
ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATCCACAATC
TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
Found at i:546297 original size:108 final size:109
Alignment explanation
Indices: 545993--546334 Score: 441
Period size: 108 Copynumber: 3.2 Consensus size: 109
545983 GGAGTATGGA
* *
545993 ACTCGAATAATCTTTAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TCCACAAT
1 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCCACAAT
546057 CTTCATCAATCGCG-TCTGCCCCCTATTTCTTCAGAGAGTATAAG
66 CTTCATCAAT-GCGTTCTGCCCCCTATTTCTTCAGAGAGTATAAG
*
546101 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGAC-CCACAAT
1 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCCACAAT
*
546165 CTTCATCAAT-CGTGTCTGCCCCCTATTTTTTCAGAGAGTATAAG
66 CTTCATCAATGCGT-TCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * *
546209 AC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA
1 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTC-CACAA
* * * *
546272 TCTTCAACAAATGGGTTC-GCTCCCTATTTC-TCTAGGGAGTAT-AG
65 TCTTCATC-AATGCGTTCTGCCCCCTATTTCTTC-AGAGAGTATAAG
*
546316 AACTCGAACATCTCTTCAA
1 -ACTCGAACA-ATCTTCAA
546335 ACGGGTTCGC
Statistics
Matches: 205, Mismatches: 17, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
106 50 0.24
107 6 0.03
108 132 0.64
109 6 0.03
110 5 0.02
111 6 0.03
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (109 bp):
ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCCACAAT
CTTCATCAATGCGTTCTGCCCCCTATTTCTTCAGAGAGTATAAG
Found at i:546404 original size:51 final size:51
Alignment explanation
Indices: 546243--547031 Score: 909
Period size: 51 Copynumber: 15.3 Consensus size: 51
546233 CTGCCCCCTA
* * * * *
546243 TTTCTTCAGAGAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTA
1 TTTCTTTAGGGAGTATAGA-ACTCGAAC-ATCTT---CAAACGGGTTCGCTCCTTC
*
546298 TTTCTCTAGGGAGTATAGAACTCGAACATCTCTTCAAACGGGTTCGCTCCTTC
1 TTTCTTTAGGGAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCTCCTTC
* *
546351 TTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGTTCCTTC
1 TTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTC
* *
546402 TTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTC
1 TTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTC
*
546453 TTTCTTTAGGGAGTATAGAACTCGAACATCTCTTC--ACGGGTTCGCTCCCTC
1 TTTCTTTAGGGAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCTCCTTC
* *
546504 TTTCTCTAGGGAGTATGGAACTCGAACATCTTC-AACTGGGTTCGCTCCCTT-
1 TTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCT-CCTTC
* * * ** *
546555 TTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCATTC
1 TTTCTTTAGGGAGTATAGAACTC--GAA-CATCTTCAAACGGGTTCGCTCCTTC
* **
546609 TCTCTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTC
1 TTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTC
* * * *
546660 TTTCTTTAAGGAGTATAGAACTCGAACATATTCAAATGGGTTCGCTCCCTC
1 TTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTC
* *
546711 TTTCTTTAGGGAGTATAGAACTCGGACATCTCTTC--ACGGGTTCGCTCCCTC
1 TTTCTTTAGGGAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCTCCTTC
* *
546762 TTTCTCTAGGGAGTATGGAACTCGAACATCTTC-AACTGGGTTCGCTCCTTC
1 TTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCTCCTTC
* *
546813 TTTCTTTAAGGAGTATGGAACTC-AGACATCTCTTCAAACGGGTTCGCTCCTTC
1 TTTCTTTAGGGAGTATAGAACTCGA-ACA--TCTTCAAACGGGTTCGCTCCTTC
* * *
546866 TTTCTTTAAGGAGTATGGAACTCGAACATCTTTAAACGGGTTCGCT-C--C
1 TTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTC
* * * *
546914 TTTCTTTAAGGAGTATAGAACTCGCATATCTTCACACGGGTTCGCTCCTTC
1 TTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTC
* * * * *
546965 TTTCTCTAGGGAGTATGGAACTCGGACATCTTCAAACAGGTTCGCTCCCTC
1 TTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTC
*
547016 TTTCTCTAGGGAGTAT
1 TTTCTTTAGGGAGTAT
547032 GGGACTCAAA
Statistics
Matches: 649, Mismatches: 60, Indels: 54
0.85 0.08 0.07
Matches are distributed among these distances:
48 42 0.06
49 11 0.02
50 6 0.01
51 416 0.64
52 5 0.01
53 101 0.16
54 39 0.06
55 24 0.04
56 5 0.01
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (51 bp):
TTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTC
Found at i:546629 original size:258 final size:256
Alignment explanation
Indices: 546262--547038 Score: 1179
Period size: 258 Copynumber: 3.0 Consensus size: 256
546252 AGAGTATAAG
* *
546262 ACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTATTTC-TCTAGGGAGTATAGAACTCGAACA
1 ACTCGAAC-ATCTTCAAC---TGGGTTCGCTCCCTTTTTCTTC-AGGGAGTATAGAACTCAAACA
546326 TCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGG
61 TCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGG
546391 TTCGTTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTT
126 TTCG-TCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTT
*
546456 CTTTAGGGAGTATAGAACTCGAACATCTCTTCACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATG
190 CTTTAGGGAGTATAGAACTCGGACATCTCTTCACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATG
546521 GA
255 GA
*
546523 ACTCGAACATCTTCAACTGGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAAAATCTTC
1 ACTCGAACATCTTCAACTGGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAACATC-TC
** * * *
546588 TTCTTACGGGTTCGCTCATTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTCG
65 TTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCG
* *
546653 CTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATATTCAAATGGGTTCGCTCCCTCTTTCTTT
130 -TCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTT
546718 AGGGAGTATAGAACTCGGACATCTCTTCACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
194 AGGGAGTATAGAACTCGGACATCTCTTCACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
* * * *
546781 ACTCGAACATCTTCAACTGGGTTCGCT-CCTTCTTTCTTTAAGGAGTATGGAACTCAGACATCTC
1 ACTCGAACATCTTCAACTGGGTTCGCTCCCTT-TTTCTTCAGGGAGTATAGAACTCAAACATCTC
* *
546845 TTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTTAAACGGGTTCG
65 TTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCG
* * * * * *
546910 --CTCCTTTCTTTAAGGAGTATAGAACTCGCATATCTTCACACGGGTTCGCTCCTTCTTTCTCTA
130 TCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTA
* * *
546973 GGGAGTATGGAACTCGGACA--TCTTCAAACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGG
195 GGGAGTATAGAACTCGGACATCTCTTC--ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
547035 ACTC
1 ACTC
547039 AAATAATCTT
Statistics
Matches: 476, Mismatches: 35, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
252 5 0.01
254 111 0.23
257 103 0.22
258 240 0.50
260 9 0.02
261 8 0.02
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (256 bp):
ACTCGAACATCTTCAACTGGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAACATCTCT
TCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGT
CCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTAG
GGAGTATAGAACTCGGACATCTCTTCACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
Found at i:547493 original size:36 final size:35
Alignment explanation
Indices: 547438--547505 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
547428 AAAATGGATC
**
547438 TGCTTCACTACTTTTGGTGAAGACTTAAGATGCTT
1 TGCTTCACTACTTCCGGTGAAGACTTAAGATGCTT
* *
547473 TGCTTCACTACTCTCCGGTGAAGGCTTAGGATG
1 TGCTTCACTACT-TCCGGTGAAGACTTAAGATG
547506 GTTTTTCTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 12 0.43
36 16 0.57
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (35 bp):
TGCTTCACTACTTCCGGTGAAGACTTAAGATGCTT
Found at i:548906 original size:125 final size:125
Alignment explanation
Indices: 548684--548936 Score: 364
Period size: 125 Copynumber: 2.0 Consensus size: 125
548674 ACTAATGTCG
* * * *
548684 CAACATTATTTTATTCTGGTACGGGCCTTCAAAATGCCTCAATATCTCAAATTATAAGGCTCATT
1 CAACATTATCTCATACTGGTACGGGCCTTCAAAATGCCTCAATACCTCAAATTATAAGGCTCATT
** * *
548749 CTCAATGCCTTCTTGGTCTGAATCTTGTCATTTCATCATGATGTGGGTTCAGTCGCGCCC
66 CTCAATGCCTTCTTGGTCTGAATCTTGTCATTTCAAAATGATGGGGGTTCAATCGCGCCC
* *
548809 CAACATTATCTCATACTGGTACGGGCCTTCAAAATGCC-CCATCACCTCAAATTGTAAGGCTCAT
1 CAACATTATCTCATACTGGTACGGGCCTTCAAAATGCCTCAAT-ACCTCAAATTATAAGGCTCAT
** * *
548873 TCTTGATGCCTTCTTTGTCTGAATCTTGTCATTTCAAAATGATGGGGGTTCAATCGTGCCC
65 TCTCAATGCCTTCTTGGTCTGAATCTTGTCATTTCAAAATGATGGGGGTTCAATCGCGCCC
548934 CAA
1 CAA
548937 TGTGGGTATT
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
124 3 0.03
125 110 0.97
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (125 bp):
CAACATTATCTCATACTGGTACGGGCCTTCAAAATGCCTCAATACCTCAAATTATAAGGCTCATT
CTCAATGCCTTCTTGGTCTGAATCTTGTCATTTCAAAATGATGGGGGTTCAATCGCGCCC
Found at i:552876 original size:21 final size:21
Alignment explanation
Indices: 552836--552932 Score: 108
Period size: 21 Copynumber: 4.6 Consensus size: 21
552826 CCATGCGATG
* * *
552836 TGGTCTTCTCATTTTCATGAA
1 TGGTCTTCTCGTCTTGATGAA
*
552857 GGGTCTTCTCGTCTTGATGAA
1 TGGTCTTCTCGTCTTGATGAA
552878 TGG-CATTCTCGTCTTGATGAA
1 TGGTC-TTCTCGTCTTGATGAA
*
552899 T-GACATTCTCGTCTTGATGAA
1 TGGTC-TTCTCGTCTTGATGAA
*
552920 TGCTCTTCTCGTC
1 TGGTCTTCTCGTC
552933 CTTGGTACGA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
20 2 0.03
21 63 0.95
22 1 0.02
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (21 bp):
TGGTCTTCTCGTCTTGATGAA
Found at i:554981 original size:10 final size:9
Alignment explanation
Indices: 554969--555016 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 9
554959 TTATTACCAC
554969 ATATTATAT
1 ATATTATAT
554978 CATA-TATAT
1 -ATATTATAT
554987 ATATATATAT
1 ATAT-TATAT
554997 ATATATATAT
1 ATAT-TATAT
555007 ATATTA-AT
1 ATATTATAT
555015 AT
1 AT
555017 GAAATGCATA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
8 7 0.19
9 7 0.19
10 22 0.61
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (9 bp):
ATATTATAT
Found at i:554986 original size:2 final size:2
Alignment explanation
Indices: 554969--555010 Score: 68
Period size: 2 Copynumber: 21.0 Consensus size: 2
554959 TTATTACCAC
554969 AT AT -T AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
555011 TAATATGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 35 0.92
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:557912 original size:23 final size:22
Alignment explanation
Indices: 557874--557918 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
557864 TAACATAAGC
557874 TATATGATATGAGATAGATGAT
1 TATATGATATGAGATAGATGAT
* *
557896 TATATGTATATGTGATATATGAT
1 TATATG-ATATGAGATAGATGAT
557919 ATGTGGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (22 bp):
TATATGATATGAGATAGATGAT
Found at i:560846 original size:66 final size:66
Alignment explanation
Indices: 560763--560893 Score: 210
Period size: 66 Copynumber: 2.0 Consensus size: 66
560753 TTCAAAGACA
* * *
560763 TCTTTCAACCACCAACTTGAGGGGGA-GTGTTAGTTGGGTTATTTTCATTTGTAATTATAAGTTT
1 TCTTTCAACCACCAACTTGA-GGGGATGTGTTAGCTGGATTATTTTCATTTGTAATTAGAAGTTT
560827 GG
65 GG
*
560829 TCTTTCAACCACTAACTTGAGGGGATGTGTTAGCTGGATTATTTTCATTTGTAATTAGAAGTTTG
1 TCTTTCAACCACCAACTTGAGGGGATGTGTTAGCTGGATTATTTTCATTTGTAATTAGAAGTTTG
560894 TTAGAAGTAG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 5 0.08
66 55 0.92
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (66 bp):
TCTTTCAACCACCAACTTGAGGGGATGTGTTAGCTGGATTATTTTCATTTGTAATTAGAAGTTTG
G
Found at i:561258 original size:25 final size:25
Alignment explanation
Indices: 561214--561265 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 25
561204 AAAATATATA
561214 TTTAAAAATTATTTGATTTA-ATTTT
1 TTTAAAAATTATTT-ATTTATATTTT
561239 TTTAAAATATATATTT-TTTATATTTT
1 TTTAAAA-AT-TATTTATTTATATTTT
561265 T
1 T
561266 ATCAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 11 0.46
26 8 0.33
27 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTAAAAATTATTTATTTATATTTT
Found at i:574990 original size:47 final size:47
Alignment explanation
Indices: 574932--575026 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 47
574922 CATAATCATT
* *
574932 ATCTTTCCATAAAATATATTTGATGGTATCTAAAACCCTCACTTTTA
1 ATCTTTCCATAAAAGATAGTTGATGGTATCTAAAACCCTCACTTTTA
* ** ***
574979 ATCTTTTCATAAGGGATAGTTGATGGTATCTAACGTCCTCACTTTTA
1 ATCTTTCCATAAAAGATAGTTGATGGTATCTAAAACCCTCACTTTTA
575026 A
1 A
575027 ATTTCAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.40
Consensus pattern (47 bp):
ATCTTTCCATAAAAGATAGTTGATGGTATCTAAAACCCTCACTTTTA
Found at i:575727 original size:17 final size:17
Alignment explanation
Indices: 575705--575740 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
575695 TTAACATCAT
575705 TAATAAAAGACTTAAAC
1 TAATAAAAGACTTAAAC
* *
575722 TAATAAAATACTTGAAC
1 TAATAAAAGACTTAAAC
575739 TA
1 TA
575741 TACCATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.28
Consensus pattern (17 bp):
TAATAAAAGACTTAAAC
Found at i:575879 original size:60 final size:59
Alignment explanation
Indices: 575736--575909 Score: 167
Period size: 60 Copynumber: 2.9 Consensus size: 59
575726 AAAATACTTG
* *
575736 AACTATAC-CATTTTTTTTACTTTAAGTAACTAAAATATTTTTCGGTCAAAATAAGTCCTTA
1 AACTATACTCA-TTTTTTT-CTTTAAGTAACT-AAATATTTTTTGGTCAAAATAAGTCCCTA
** ** *
575797 AACTATTA-T-ATATAATCACTTTAAGTATCTAAATTATTTTTTGGTCAAAATAAGTCCCTA
1 AACTA-TACTCAT-TTTTTTCTTTAAGTAACTAAA-TATTTTTTGGTCAAAATAAGTCCCTA
* *
575857 AACTATACTCATTTTTTTCTTTAAG-ACCCTAAGATATTTTTTGGTAAAAATAA
1 AACTATACTCATTTTTTTCTTTAAGTA-ACTAA-ATATTTTTTGGTCAAAATAA
575910 TTTTCTAACG
Statistics
Matches: 92, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
59 6 0.07
60 73 0.79
61 11 0.12
62 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.43
Consensus pattern (59 bp):
AACTATACTCATTTTTTTCTTTAAGTAACTAAATATTTTTTGGTCAAAATAAGTCCCTA
Found at i:587103 original size:15 final size:16
Alignment explanation
Indices: 587083--587115 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
587073 ACCCACCTTA
587083 TTTTTC-TTCTTCTTT
1 TTTTTCTTTCTTCTTT
*
587098 TTTTTCTTTTTTCTTT
1 TTTTTCTTTCTTCTTT
587114 TT
1 TT
587116 GCTATTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTCTTTCTTCTTT
Found at i:596453 original size:3 final size:3
Alignment explanation
Indices: 596445--596470 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
596435 TAGTAAAATA
596445 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
596471 AAATGATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:596494 original size:22 final size:22
Alignment explanation
Indices: 596466--596518 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
596456 TAATAATAAT
* *
596466 AATAAAAATGATGGAAGAATGA
1 AATAAAAATGATGAAAAAATGA
596488 AATAAAAATGATGAAAAAATGA
1 AATAAAAATGATGAAAAAATGA
*
596510 AAGAAAAAT
1 AATAAAAAT
596519 TAAAAGACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (22 bp):
AATAAAAATGATGAAAAAATGA
Found at i:598059 original size:23 final size:23
Alignment explanation
Indices: 598032--598077 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
598022 TGTGAACCAC
*
598032 TAAACTAAT-TTAATATAAGAAAA
1 TAAACTAATATT-ATATAACAAAA
*
598055 TAAACTCATATTATATAACAAAA
1 TAAACTAATATTATATAACAAAA
598078 AAAAAACCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (23 bp):
TAAACTAATATTATATAACAAAA
Found at i:604291 original size:15 final size:15
Alignment explanation
Indices: 604271--604301 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
604261 ACAGTAATTA
604271 TTATGAAGTTATTGC
1 TTATGAAGTTATTGC
604286 TTATGAAGTTATTGC
1 TTATGAAGTTATTGC
604301 T
1 T
604302 ATAAGGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.48
Consensus pattern (15 bp):
TTATGAAGTTATTGC
Found at i:606018 original size:19 final size:20
Alignment explanation
Indices: 605979--606018 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
605969 TAAGTGTTAA
*
605979 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
605999 TGAATTTTAA-ATTATATAT
1 TGAATTTTAAGATTATATAT
606018 T
1 T
606019 AGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:606270 original size:35 final size:35
Alignment explanation
Indices: 606211--606317 Score: 187
Period size: 35 Copynumber: 3.0 Consensus size: 35
606201 ATTGCCCAGA
606211 GGGAACAGATTCCCCCCCCAGGGGGTACCGATTCCCC
1 GGGAACAGATT--CCCCCCAGGGGGTACCGATTCCCC
606248 GGGAACAGATTCCCCCCAGGGGGTACCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTACCGATTCCCC
*
606283 AGGAACAGATTCCCCCCAGGGGGTACCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTACCGATTCCCC
606318 CCCATGTTTT
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
35 58 0.84
37 11 0.16
ACGTcount: A:0.21, C:0.38, G:0.27, T:0.14
Consensus pattern (35 bp):
GGGAACAGATTCCCCCCAGGGGGTACCGATTCCCC
Found at i:606301 original size:17 final size:17
Alignment explanation
Indices: 606244--606302 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
606234 GGTACCGATT
*
606244 CCCCGGGAACAGATTCC
1 CCCCAGGAACAGATTCC
* *
606261 CCCCAGGGGGTACCGATT--
1 CCCCA---GGAACAGATTCC
606279 CCCCAGGAACAGATTCC
1 CCCCAGGAACAGATTCC
606296 CCCCAGG
1 CCCCAGG
606303 GGGTACCGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
15 8 0.25
17 11 0.34
18 5 0.16
20 8 0.25
ACGTcount: A:0.22, C:0.41, G:0.25, T:0.12
Consensus pattern (17 bp):
CCCCAGGAACAGATTCC
Found at i:607642 original size:19 final size:20
Alignment explanation
Indices: 607618--607665 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
607608 AACGATTTTC
607618 TTTTGAAAACAAAAAT-AAA
1 TTTTGAAAACAAAAATGAAA
* *
607637 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
607657 TTTTGAAAA
1 TTTTGAAAA
607666 ATGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:608972 original size:23 final size:23
Alignment explanation
Indices: 608946--609020 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
608936 AATACACTGA
*
608946 AGTGCCGCGTAGAAATGCACCGT
1 AGTGCCGCATAGAAATGCACCGT
* * *
608969 AGTGCCACATAGAATTGCACCGA
1 AGTGCCGCATAGAAATGCACCGT
*
608992 AGTGTCGCATA-AGAATGCACCGT
1 AGTGCCGCATAGA-AATGCACCGT
609015 AGTGCC
1 AGTGCC
609021 ATATAATGTC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 1 0.02
23 41 0.98
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.19
Consensus pattern (23 bp):
AGTGCCGCATAGAAATGCACCGT
Found at i:609296 original size:7 final size:7
Alignment explanation
Indices: 609284--609312 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
609274 TGTCATATCA
609284 ATCACAT
1 ATCACAT
609291 ATCACAT
1 ATCACAT
609298 ATCACAT
1 ATCACAT
609305 AT-ACAT
1 ATCACAT
609311 AT
1 AT
609313 AAACACATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (7 bp):
ATCACAT
Found at i:609699 original size:22 final size:21
Alignment explanation
Indices: 609648--609700 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
609638 TGTACTCCTT
609648 TTCCTATAATTAATACATTAA
1 TTCCTATAATTAATACATTAA
* * **
609669 TGCCATATAATTTATATTTCTAA
1 TTCC-TATAATTAATACAT-TAA
609692 TTCCTATAA
1 TTCCTATAA
609701 CACCCTCACA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 3 0.12
22 16 0.64
23 6 0.24
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.45
Consensus pattern (21 bp):
TTCCTATAATTAATACATTAA
Found at i:610380 original size:24 final size:24
Alignment explanation
Indices: 610334--610391 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
610324 CCAGATCCTA
* *
610334 TTCAGGATAATATGCATGATGATG
1 TTCAGGATGATATGCACGATGATG
* *
610358 TTCAGGATGATATGCACGGTGATT
1 TTCAGGATGATATGCACGATGATG
*
610382 TTCATGATGA
1 TTCAGGATGA
610392 CCAACAACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.34
Consensus pattern (24 bp):
TTCAGGATGATATGCACGATGATG
Found at i:615166 original size:39 final size:40
Alignment explanation
Indices: 615122--615199 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 40
615112 CATTTTTAGG
*
615122 TTTCTGCCGCTCT-TTTTTTCCTTCACTTTTTCTCAAAAA
1 TTTCTGCAGCTCTATTTTTTCCTTCACTTTTTCTCAAAAA
*
615161 TTTCTGCAGCTCTCATTTTTTCCTTCATTTTTTCTCAAA
1 TTTCTGCAGCTCT-ATTTTTTCCTTCACTTTTTCTCAAA
615200 GTTTTCTCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 12 0.34
41 23 0.66
ACGTcount: A:0.15, C:0.27, G:0.05, T:0.53
Consensus pattern (40 bp):
TTTCTGCAGCTCTATTTTTTCCTTCACTTTTTCTCAAAAA
Found at i:616949 original size:31 final size:31
Alignment explanation
Indices: 616907--616965 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
616897 AATTTAAAAG
* *
616907 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
616938 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
616966 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:617044 original size:54 final size:54
Alignment explanation
Indices: 616980--617118 Score: 242
Period size: 54 Copynumber: 2.6 Consensus size: 54
616970 ACAACTACAA
* * *
616980 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAGTCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAAGCAATCCATAC
*
617034 TAATAAATTATATAAAATAAATCAATCCATATTTTAAAATAAAGCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAAGCAATCCATAC
617088 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
617119 CAACTACAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAAGCAATCCATAC
Found at i:617052 original size:32 final size:31
Alignment explanation
Indices: 617013--618138 Score: 694
Period size: 32 Copynumber: 39.4 Consensus size: 31
617003 AATCTATATT
*
617013 TTAAAATAAATCAGTCCATACTAATAAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
617044 TATAAAATAAATCAAT-C---C--AT--ATT-
1 T-TAAAATAAATCAATCCATACTAATAAATTA
*
617067 TTAAAATAAAGCAATCCATACTAATAAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
*
617098 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 -TTAAAATAAATCAATCCATACTAA-TAAATTA
* *
617128 -T--AATAAATCAATCCATAAT-TTAAA--A
1 TTAAAATAAATCAATCCATACTAATAAATTA
* * **
617153 -T-AAATCAATCAATTCATA-TTTTAAA--A
1 TTAAAATAAATCAATCCATACTAATAAATTA
* *
617179 -T-AAATTAATCAATCCATACAAATAAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
* *
617208 TTTAAAATAAAGCAATTCATACTAATAAATTA
1 -TTAAAATAAATCAATCCATACTAATAAATTA
617240 TTTAAAATAAATCAAT-C---C--AT--ATT-
1 -TTAAAATAAATCAATCCATACTAATAAATTA
617263 TTAAAATAAATCAATCCATACTAATAAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
617294 TTTAAAATAAATCAATCCATAC-AACT--A-TA
1 -TTAAAATAAATCAATCCATACTAA-TAAATTA
* **
617323 --ATAATAAATCAATCCATA-TTTTAAA--A
1 TTAAAATAAATCAATCCATACTAATAAATTA
* *
617349 -T-AAATCAATCAATCCATACAAATAAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
*
617378 TTTAAAATAAATCAATCTATACTAATAAATTA
1 -TTAAAATAAATCAATCCATACTAATAAATTA
* *
617410 TTTAAAATAAATCAATTCATAC-AACTACA--A
1 -TTAAAATAAATCAATCCATACTAA-TAAATTA
**
617440 -T--AATAAATCAATCCATA-TTTTAAA--A
1 TTAAAATAAATCAATCCATACTAATAAATTA
* *
617465 -T-AAATCAATCAATCCATACAAATAAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
*
617494 TTTAAAATCAATCAATCCATACTAATAAATTA
1 -TTAAAATAAATCAATCCATACTAATAAATTA
617526 TTTAAAATAAATCAAT-C---C--AT--ATT-
1 -TTAAAATAAATCAATCCATACTAATAAATTA
* *
617549 TTAAAATAAATCAATTCATTCTAATAAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
*
617580 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 -TTAAAATAAATCAATCCATACTAA-TAAATTA
* **
617610 -T--AATAAATCAATCCATATTTTTAAA--A
1 TTAAAATAAATCAATCCATACTAATAAATTA
* *
617636 -T-AAATCAATCAATCCATACAAATAAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
617665 TTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTAAAATAAATCAATCCATACTAATAAATTA
*
617697 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 -TTAAAATAAATCAATCCATACTAA-TAAATTA
**
617727 -T--AATAAATCAATCCATA-TTTTAAA--A
1 TTAAAATAAATCAATCCATACTAATAAATTA
* * *
617752 -T-AAATCAATCAATCTATACAAATAAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
617781 TTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTAAAATAAATCAATCCATACTAATAAATTA
* * *
617813 TTTAAAATAAAACAATACATAC-AACTACA--A
1 -TTAAAATAAATCAATCCATACTAA-TAAATTA
**
617843 -T--AATAAATCAATCCATA-TTTTAAA--A
1 TTAAAATAAATCAATCCATACTAATAAATTA
* *
617868 -T-AAATCAATCAATCCATACAAATAAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
*
617897 TTTAAAATAAATCAATTCATACTAATAAATTA
1 -TTAAAATAAATCAATCCATACTAATAAATTA
617929 TTTAAAATAAATCAAT-C---C--AT--ATT-
1 -TTAAAATAAATCAATCCATACTAATAAATTA
*
617952 TTAAAATAAATCAATTCATACTAATAAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
* *
617983 TTTAAAATAAATCAATACATAC-AACTACA--A
1 -TTAAAATAAATCAATCCATACTAA-TAAATTA
618013 -T--AATAAATCAATCC--A-T-AT----T-
1 TTAAAATAAATCAATCCATACTAATAAATTA
618032 TTAAAATAAATCAATCCATACTAATAAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
618063 TTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTAAAATAAATCAATCCATACTAATAAATTA
*
618095 TTTAAAATAAATTAATCCATACTAATAAATTA
1 -TTAAAATAAATCAATCCATACTAATAAATTA
618127 TTTAAAATAAAT
1 -TTAAAATAAAT
618139 TATTTTAAAA
Statistics
Matches: 894, Mismatches: 88, Indels: 225
0.74 0.07 0.19
Matches are distributed among these distances:
20 1 0.00
22 72 0.08
23 6 0.01
24 14 0.02
25 23 0.03
26 221 0.25
27 40 0.04
28 18 0.02
29 8 0.01
30 20 0.02
31 25 0.03
32 446 0.50
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (31 bp):
TTAAAATAAATCAATCCATACTAATAAATTA
Found at i:617095 original size:22 final size:22
Alignment explanation
Indices: 617045--617094 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
617035 AATAAATTAT
* *
617045 ATAAAATAAATCAATCCATATT
1 ATAAAATAAAGCAATCCATATA
*
617067 TTAAAATAAAGCAATCCATACTA
1 ATAAAATAAAGCAATCCATA-TA
617090 ATAAA
1 ATAAA
617095 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (22 bp):
ATAAAATAAAGCAATCCATATA
Found at i:617196 original size:26 final size:26
Alignment explanation
Indices: 616994--617765 Score: 122
Period size: 26 Copynumber: 27.5 Consensus size: 26
616984 AAATTATTTA
* * *
616994 AAATAAATCAATCTATATTTTAAAAT
1 AAATCAATCAATCCATAATTTAAAAT
* * * * *
617020 AAATCAGTCCATACTAATAAATT-ATAT
1 AAATCAATCAAT-C-CATAATTTAAAAT
* *
617047 AAAATAAATCAATCCATATTTTAAAAT
1 -AAATCAATCAATCCATAATTTAAAAT
* * * * **
617074 AAAGCAATCCATACTAATAAATT-ATTT
1 AAATCAATCAAT-C-CATAATTTAAAAT
* ** *
617101 AAAATAAATCAATCCATACAACTACAAT
1 -AAATCAATCAATCCATA-ATTTAAAAT
*
617129 -AATAAATCAATCCATAATTTAAAAT
1 AAATCAATCAATCCATAATTTAAAAT
* *
617154 AAATCAATCAATTCATATTTTAAAAT
1 AAATCAATCAATCCATAATTTAAAAT
* **
617180 AAATTAATCAATCCATACAAATAAATTATTT
1 AAATCAATCAATCCATA-ATTTAAA--A--T
* * * * *
617211 AAAATAAAGCAATTCATACTAATAAATTATTT
1 -AAATCAATCAATCCATAAT-TTAAA--A--T
* *
617243 AAAATAAATCAATCCATATTTTAAAAT
1 -AAATCAATCAATCCATAATTTAAAAT
* * * **
617270 AAATCAATCCATACTAATAAATT-ATTT
1 AAATCAATCAAT-C-CATAATTTAAAAT
* ** *
617297 AAAATAAATCAATCCATACAACTATAAT
1 -AAATCAATCAATCCATA-ATTTAAAAT
* *
617325 -AATAAATCAATCCATATTTTAAAAT
1 AAATCAATCAATCCATAATTTAAAAT
**
617350 AAATCAATCAATCCATACAAATAAATTATTT
1 AAATCAATCAATCCATA-ATTTAAA--A--T
* * * *
617381 AAAATAAATCAATCTATACTAATAAATTATTT
1 -AAATCAATCAATCCATAAT-TTAAA--A--T
* * ** *
617413 AAAATAAATCAATTCATACAACTACAAT
1 -AAATCAATCAATCCATA-ATTTAAAAT
* *
617441 -AATAAATCAATCCATATTTTAAAAT
1 AAATCAATCAATCCATAATTTAAAAT
**
617466 AAATCAATCAATCCATACAAATAAATTATTT
1 AAATCAATCAATCCATA-ATTTAAA--A--T
* *
617497 AAAATCAATCAATCCATACTAATAAATTATTT
1 -AAATCAATCAATCCATAAT-TTAAA--A--T
* *
617529 AAAATAAATCAATCCATATTTTAAAAT
1 -AAATCAATCAATCCATAATTTAAAAT
* * * **
617556 AAATCAATTCATTCTAATAAATT-ATTT
1 AAATCAA-TCAATC-CATAATTTAAAAT
* ** *
617583 AAAATAAATCAATCCATACAACTACAAT
1 -AAATCAATCAATCCATA-ATTTAAAAT
* *
617611 -AATAAATCAATCCATATTTTTAAAAT
1 AAATCAATCAATCCATA-ATTTAAAAT
**
617637 AAATCAATCAATCCATACAAATAAATTATTT
1 AAATCAATCAATCCATA-ATTTAAA--A--T
* * *
617668 AAAATAAATCAATCCATACTAATAAATTATTT
1 -AAATCAATCAATCCATAAT-TTAAA--A--T
* ** *
617700 AAAATAAATCAATCCATACAACTACAAT
1 -AAATCAATCAATCCATA-ATTTAAAAT
* *
617728 -AATAAATCAATCCATATTTTAAAAT
1 AAATCAATCAATCCATAATTTAAAAT
617753 AAATCAATCAATC
1 AAATCAATCAATC
617766 TATACAAATA
Statistics
Matches: 561, Mismatches: 132, Indels: 106
0.70 0.17 0.13
Matches are distributed among these distances:
25 21 0.04
26 210 0.37
27 70 0.12
28 59 0.11
29 6 0.01
30 2 0.00
31 12 0.02
32 181 0.32
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (26 bp):
AAATCAATCAATCCATAATTTAAAAT
Found at i:617266 original size:22 final size:22
Alignment explanation
Indices: 617240--617282 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
617230 TAATAAATTA
617240 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
617262 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
617283 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:617266 original size:54 final size:55
Alignment explanation
Indices: 617208--618115 Score: 529
Period size: 58 Copynumber: 16.0 Consensus size: 55
617198 AAATAAATTA
* *
617208 TTTAAAATAAAGCAATTCATACTAATAAATTATTTAAAATAAATCAATCCAT-AT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAAT
*
617262 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT--AAT
* ** * ** * * * *
617319 TATAATAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCAATCCATACAAATAAATT
1 TTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C-CAT-AA-T
* * *
617377 ATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATTCATACAAC
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT--AAT
** ** * ** * * * *
617435 TACAATAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCAATCCATACAAATAAATT
1 TTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C-CAT-AA-T
*
617493 ATTTAAAATCAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT-AT
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAAT
* * *
617548 TTTAAAATAAATCAATTCATTCTAATAAATTATTTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT--AAT
** * ** * ** * * * *
617605 TACAATAATAAATCAATCCATATTTTTAAAATAAAT-CAATCAATCCATACAAATAAATT
1 TTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C-CAT-AA-T
*
617664 ATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAAC
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT--AAT
** ** * ** * * * *
617722 TACAATAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCAATCTATACAAATAAATT
1 TTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C-CAT-AA-T
* * *
617780 ATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAACAATACATACAAC
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT--AAT
** ** * ** * * * *
617838 TACAATAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCAATCCATACAAATAAATT
1 TTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C-CAT-AA-T
*
617896 ATTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCAT-AT
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAAT
* * *
617951 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATACATACAAC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT--AAT
** ** * * *
618008 TACAATAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACTAATAAATT
1 TTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C-CAT-AA-T
*
618062 ATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATTAATCCATA
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
618116 CTAATAAATT
Statistics
Matches: 631, Mismatches: 166, Indels: 111
0.69 0.18 0.12
Matches are distributed among these distances:
52 10 0.02
53 3 0.00
54 168 0.27
55 11 0.02
56 37 0.06
57 80 0.13
58 184 0.29
59 82 0.13
60 56 0.09
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (55 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAAT
Found at i:617291 original size:22 final size:22
Alignment explanation
Indices: 617242--617290 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
617232 ATAAATTATT
**
617242 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
617264 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
617287 TAAA
1 TAAA
617291 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:617387 original size:14 final size:14
Alignment explanation
Indices: 617368--617421 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
617358 CAATCCATAC
617368 AAATAAATTATTTA
1 AAATAAATTATTTA
*
617382 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
617399 CTAATAAATTATTTA
1 -AAATAAATTATTTA
617414 AAATAAAT
1 AAATAAAT
617422 CAATTCATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:617577 original size:22 final size:22
Alignment explanation
Indices: 617529--617577 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
617519 TAAATTATTT
* *
617529 AAAATAAATCAATCCATATTTT
1 AAAATAAATCAATCCATATCTA
*
617551 AAAATAAATCAATTCAT-TCTA
1 AAAATAAATCAATCCATATCTA
617572 ATAAAT
1 A-AAAT
617578 TATTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAATAAATCAATCCATATCTA
Found at i:617705 original size:171 final size:170
Alignment explanation
Indices: 617378--617717 Score: 628
Period size: 171 Copynumber: 2.0 Consensus size: 170
617368 AAATAAATTA
*
617378 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAA
1 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
617443 TAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATCAATCA
66 TAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCA
617508 ATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
131 ATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
*
617548 TTTAAAATAAATCAAT-TCATTCTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATA
1 TTTAAAATAAATCAATCT-ATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATA
617612 ATAAATCAATCCATATTTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAAT
65 ATAAATCAATCCATA-TTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAAT
617677 CAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
129 CAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
617718 CAACTACAAT
Statistics
Matches: 165, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
169 1 0.01
170 75 0.45
171 89 0.54
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (170 bp):
TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCA
ATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:617708 original size:403 final size:398
Alignment explanation
Indices: 617262--618116 Score: 1566
Period size: 403 Copynumber: 2.1 Consensus size: 398
617252 CAATCCATAT
*
617262 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTATAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
617327 TAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCA
66 TAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCA
* * *
617392 ATCTATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATA
131 ATCCATACTAATAAATTATTTAAAATAAAACAATACATACAACTACAATAATAAATCAATCCATA
*
617457 TTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATCAATCAATCCATACTAATAA
196 TTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAA
*
617522 ATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATTCTAATAAATTATTTAAAA
261 ATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAA
*
617587 TAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTTAAAATAAATCAATCAATCCA
326 TAAATCAATACATACAACTACAATAATAAATCAATCCATA-TTTTAAAAT--A--AATCAATCCA
617652 TACAAATAAATTA
386 TACAAATAAATTA
617665 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
617730 TAAATCAATCCATATTTTAAAATAAATCAATCAATCTATACAAATAAATTATTTAAAATAAATCA
66 TAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCA
617795 ATCCATACTAATAAATTATTTAAAATAAAACAATACATACAACTACAATAATAAATCAATCCATA
131 ATCCATACTAATAAATTATTTAAAATAAAACAATACATACAACTACAATAATAAATCAATCCATA
*
617860 TTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCAATTCATACTAATAA
196 TTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAA
617925 ATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAA
261 ATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAA
*
617990 TAAATCAATACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTA
326 TAAATCAATACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAA
618055 ATAAATTA
391 ATAAATTA
*
618063 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATTAATCCATAC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
618117 TAATAAATTA
Statistics
Matches: 441, Mismatches: 11, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
398 75 0.17
400 1 0.00
402 9 0.02
403 356 0.81
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (398 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCA
ATCCATACTAATAAATTATTTAAAATAAAACAATACATACAACTACAATAATAAATCAATCCATA
TTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAA
ATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAA
TAAATCAATACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAA
ATAAATTA
Found at i:617871 original size:80 final size:80
Alignment explanation
Indices: 617781--618084 Score: 448
Period size: 80 Copynumber: 3.7 Consensus size: 80
617771 AAATAAATTA
*
617781 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAACAATACATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATACAACTACAATAA
617846 TAAATCAATCCATAT
66 TAAATCAATCCATAT
* * *
617861 TTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCAATTCATACTAA-TAA
1 TTTAAAAT--A--AATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATAC-AACTAC
617925 ATTATTTAAAATAAATCAATCCATAT
61 A--A--T--AATAAATCAATCCATAT
*
617951 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATACATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATACAACTACAATAA
618016 TAAATCAATCCATAT
66 TAAATCAATCCATAT
*
618031 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATAC
618085 TAATAAATTA
Statistics
Matches: 202, Mismatches: 10, Indels: 24
0.86 0.04 0.10
Matches are distributed among these distances:
80 77 0.38
82 2 0.01
84 46 0.23
85 4 0.02
86 46 0.23
88 2 0.01
90 25 0.12
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.33
Consensus pattern (80 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATACAACTACAATAA
TAAATCAATCCATAT
Found at i:617906 original size:14 final size:14
Alignment explanation
Indices: 617887--617940 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
617877 CAATCCATAC
617887 AAATAAATTATTTA
1 AAATAAATTATTTA
*
617901 AAATAAATCAATTCATA
1 AAATAAAT-TATT--TA
*
617918 CTAATAAATTATTTA
1 -AAATAAATTATTTA
617933 AAATAAAT
1 AAATAAAT
617941 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 5 0.16
17 5 0.16
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:617955 original size:22 final size:22
Alignment explanation
Indices: 617929--617971 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
617919 TAATAAATTA
617929 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
617951 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
617972 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:617980 original size:22 final size:22
Alignment explanation
Indices: 617931--617979 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
617921 ATAAATTATT
**
617931 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
617953 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
617976 TAAA
1 TAAA
617980 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:618060 original size:22 final size:22
Alignment explanation
Indices: 617985--618059 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
617975 ATAAATTATT
* *
617985 TAAAATAAATCAATACATACAA
1 TAAAATAAATCAATCCATATAA
**
618007 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
618033 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
618056 TAAA
1 TAAA
618060 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 16 0.38
23 8 0.19
25 3 0.07
26 15 0.36
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:618067 original size:112 final size:111
Alignment explanation
Indices: 617951--618162 Score: 306
Period size: 112 Copynumber: 1.9 Consensus size: 111
617941 CAATCCATAT
*
617951 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATACATAC-AACTACAA-T
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATACTAA-TA-AATT
*
618014 A-AT-AAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
64 ATATAAAATAAAT---TATTTTAAAATAAATCAATCCATACTAATAAATTA
* *
618063 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATTAATCCATACTAATAAATTAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATACTAATAAATTAT
*
618128 TTAAAATAAATTATTTTAAAATAAATCAATCCATA
66 ATAAAATAAATTATTTTAAAATAAATCAATCCATA
618163 TTTTATAATA
Statistics
Matches: 91, Mismatches: 5, Indels: 9
0.87 0.05 0.09
Matches are distributed among these distances:
111 26 0.29
112 55 0.60
113 3 0.03
114 7 0.08
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (111 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATACTAATAAATTAT
ATAAAATAAATTATTTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:618123 original size:18 final size:18
Alignment explanation
Indices: 618036--618126 Score: 72
Period size: 18 Copynumber: 5.5 Consensus size: 18
618026 CATATTTTAA
*
618036 AATAAATCAATCCATACT
1 AATAAATTAATCCATACT
* *
618054 AATAAATT-AT--TTA-A
1 AATAAATTAATCCATACT
*
618068 AATAAATCAATCCATACT
1 AATAAATTAATCCATACT
* *
618086 AATAAATT-AT--TTA-A
1 AATAAATTAATCCATACT
618100 AATAAATTAATCCATACT
1 AATAAATTAATCCATACT
618118 AATAAATTA
1 AATAAATTA
618127 TTTAAAATAA
Statistics
Matches: 54, Mismatches: 11, Indels: 16
0.67 0.14 0.20
Matches are distributed among these distances:
14 15 0.28
15 8 0.15
17 8 0.15
18 23 0.43
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (18 bp):
AATAAATTAATCCATACT
Found at i:618147 original size:15 final size:15
Alignment explanation
Indices: 618086--618273 Score: 133
Period size: 15 Copynumber: 12.5 Consensus size: 15
618076 AATCCATACT
618086 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
** *
618100 AATAAATTAATCCATACT
1 AATAAATT-AT-TTTA-A
618118 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
618132 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
618147 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
618169 AATAATTTATTTTAA
1 AATAAATTATTTTAA
* *
618184 AATAATTTATTTTAT
1 AATAAATTATTTTAA
* *
618199 AAT-ATTTTTTTTAA
1 AATAAATTATTTTAA
618213 AAT--A--A--TTAA
1 AATAAATTATTTTAA
*
618222 AATAAATTATTTTAT
1 AATAAATTATTTTAA
618237 AATAAATTATTTTAA
1 AATAAATTATTTTAA
618252 AATAAATTATTTTAA
1 AATAAATTATTTTAA
618267 AATAAAT
1 AATAAAT
618274 AACCTTATTA
Statistics
Matches: 140, Mismatches: 16, Indels: 35
0.73 0.08 0.18
Matches are distributed among these distances:
9 7 0.05
11 1 0.01
13 1 0.01
14 29 0.21
15 74 0.53
17 4 0.03
18 10 0.07
19 3 0.02
20 1 0.01
22 10 0.07
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:618225 original size:38 final size:39
Alignment explanation
Indices: 618180--618256 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 39
618170 ATAATTTATT
* * *
618180 TTAAAATAATTTATTTTATAAT-ATTTTTTTTAAAATAA
1 TTAAAATAAATTATTTTATAATAAATTATTTTAAAATAA
618218 TTAAAATAAATTATTTTATAATAAATTATTTTAAAATAA
1 TTAAAATAAATTATTTTATAATAAATTATTTTAAAATAA
618257 ATTATTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 21 0.60
39 14 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (39 bp):
TTAAAATAAATTATTTTATAATAAATTATTTTAAAATAA
Found at i:618241 original size:53 final size:54
Alignment explanation
Indices: 618118--618271 Score: 163
Period size: 53 Copynumber: 2.9 Consensus size: 54
618108 AATCCATACT
* * ** * * *
618118 AATAAATTA-TTTAAAATAAATTATTTTAAAATAAATCA-ATCCATAT-TTTAT
1 AATAAATTATTTTAAAATAAATTATTTTAAAATAAATTATTTTAAAATAATTAA
* * * * *
618169 AATAATTTATTTTAAAATAATTTATTTTATAAT-ATTTTTTTTAAAATAATTAA
1 AATAAATTATTTTAAAATAAATTATTTTAAAATAAATTATTTTAAAATAATTAA
*
618222 AATAAATTATTTTATAATAAATTATTTTAAAATAAATTATTTTAAAATAA
1 AATAAATTATTTTAAAATAAATTATTTTAAAATAAATTATTTTAAAATAA
618272 ATAACCTTAT
Statistics
Matches: 81, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
51 10 0.12
52 25 0.31
53 32 0.40
54 14 0.17
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (54 bp):
AATAAATTATTTTAAAATAAATTATTTTAAAATAAATTATTTTAAAATAATTAA
Found at i:618774 original size:43 final size:43
Alignment explanation
Indices: 618727--618856 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 43
618717 TAATTATCGT
* **
618727 CGTTTATAAGAAAAACGCCGCTGTAGGGCTTGACCTTTAGTTG
1 CGTTTATAAGAAAAACGCCGCTGTAGAGCTTGACCTTTAGCGG
* *
618770 CGTTTGA-AA-AATAAACGCCGCTGTAGAACTTGACCTTTTGCGG
1 CGTTT-ATAAGAA-AAACGCCGCTGTAGAGCTTGACCTTTAGCGG
* * * * * *
618813 CATTTGTAAGAAAAATGCGGCTATAGAGCTTGACCTTTTGCGG
1 CGTTTATAAGAAAAACGCCGCTGTAGAGCTTGACCTTTAGCGG
618856 C
1 C
618857 ATTTTCTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 2 0.03
43 67 0.93
44 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
CGTTTATAAGAAAAACGCCGCTGTAGAGCTTGACCTTTAGCGG
Found at i:620575 original size:2 final size:2
Alignment explanation
Indices: 620568--620662 Score: 190
Period size: 2 Copynumber: 47.5 Consensus size: 2
620558 CATGTATGTG
620568 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
620610 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
620652 TA TA TA TA TA T
1 TA TA TA TA TA T
620663 CGATTAAAAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 93 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:621839 original size:21 final size:20
Alignment explanation
Indices: 621753--621910 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
621743 AAATGACCAA
**
621753 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
621772 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
621792 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
621812 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
621833 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
621854 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
621874 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
621895 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
621911 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:621903 original size:20 final size:20
Alignment explanation
Indices: 621878--622188 Score: 79
Period size: 20 Copynumber: 15.5 Consensus size: 20
621868 GATTTTCAAT
* *
621878 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
621898 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
621918 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
621938 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
621958 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
621978 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
621998 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
622018 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
622039 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
622059 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
622079 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
622099 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
622119 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
622139 AATCGCAACGATAATC-CGTA
1 AATCGCAACGCGAA-CACATA
* *
622159 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
622179 AATCGCAACG
1 AATCGCAACG
622189 ATAATCCGTA
Statistics
Matches: 244, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
19 3 0.01
20 224 0.92
21 16 0.07
22 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:621923 original size:40 final size:40
Alignment explanation
Indices: 621878--622227 Score: 429
Period size: 40 Copynumber: 8.7 Consensus size: 40
621868 GATTTTCAAT
* ** * * *
621878 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATC-CGTA
*
621918 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
** *
621958 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
* * * *
621998 TATCGCAACGCGTATCCGTAAATCGCAACG-ATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCGT-A
*
622039 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
*
622079 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
*
622119 AATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCGTA
*
622159 AATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCGTA
* * * *
622199 AATCGCAACGAGAATCTGTAAATCACAAC
1 AATCGCAACGCGTATCCGTAAATCGCAAC
622228 ACTGAAATTT
Statistics
Matches: 275, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.01
40 236 0.86
41 36 0.13
42 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
Found at i:621961 original size:60 final size:59
Alignment explanation
Indices: 621897--622227 Score: 403
Period size: 60 Copynumber: 5.5 Consensus size: 59
621887 GCGAATATGA
*
621897 AAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAAC-CGTAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
*** * * *
621957 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCG-AACCGTAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
** * *
622017 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAA-CCGT-AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
* * *
622078 AAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCG-AACCGTAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
** *
622138 AAATCGCAACGATAATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGAT-AATCCGT
1 AAATCGCAACGCGAA-CCGTAAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCGT
* * *
622198 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGCGAA-CCGTAAATCGCAAC
622228 ACTGAAATTT
Statistics
Matches: 233, Mismatches: 32, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
59 2 0.01
60 179 0.77
61 51 0.22
62 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (59 bp):
AAATCGCAACGCGAACCGTAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
Found at i:622195 original size:20 final size:19
Alignment explanation
Indices: 621916--622227 Score: 363
Period size: 20 Copynumber: 15.6 Consensus size: 19
621906 CGCGAACACA
621916 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
621936 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
**
621956 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACG-GTATCCG
*
621976 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
621996 TATATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
* * *
622016 TAAATCGCAACGATAATACA
1 TAAATCGCAACGGT-ATCCG
622036 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACG-GTATCCG
622057 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
622077 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
622097 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-GTATCCG
622117 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
622137 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
622157 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
622177 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
622197 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
622217 TAAATCACAAC
1 TAAATCGCAAC
622228 ACTGAAATTT
Statistics
Matches: 258, Mismatches: 27, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
19 3 0.01
20 238 0.92
21 16 0.06
22 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (19 bp):
TAAATCGCAACGGTATCCG
Found at i:622943 original size:24 final size:24
Alignment explanation
Indices: 622904--622950 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
622894 AAATTTGGTC
622904 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
622928 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
622951 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:623142 original size:12 final size:12
Alignment explanation
Indices: 623125--623149 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
623115 ATATAATCCT
623125 GAAGAAGAAAAA
1 GAAGAAGAAAAA
623137 GAAGAAGAAAAA
1 GAAGAAGAAAAA
623149 G
1 G
623150 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:625455 original size:19 final size:19
Alignment explanation
Indices: 625433--625706 Score: 345
Period size: 19 Copynumber: 15.4 Consensus size: 19
625423 CGGAAAATAC
*
625433 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
625452 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
625466 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
625486 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
625500 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
625519 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
625538 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
625552 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
625571 CATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
625590 AATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAA
625609 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
625628 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
625647 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
625661 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
625680 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
625699 AATCGCAA
1 AATCGCAA
625707 CGAGATAATC
Statistics
Matches: 224, Mismatches: 10, Indels: 42
0.81 0.04 0.15
Matches are distributed among these distances:
14 40 0.18
15 2 0.01
16 11 0.05
17 10 0.04
18 3 0.01
19 145 0.65
20 13 0.06
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:625485 original size:34 final size:33
Alignment explanation
Indices: 625433--625728 Score: 160
Period size: 33 Copynumber: 8.5 Consensus size: 33
625423 CGGAAAATAC
*
625433 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAA
* *
625466 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCCCAACGAGAA
*
625500 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--CG--A-GAA
* * * * *
625538 AATCGCAACGAGAGAATCG-CAATGCGAA--ATGAA
1 AATCGCAATGCGA-AAT-GAAAATCCCAACGA-GAA
* * *
625571 CATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAAAATCCCAA--CG--A-GAA
*
625609 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--CG--A-GAA
*
625647 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--CG--A-GAA
* *
625680 AATCGCAATGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAA
625713 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
625729 TATAAACGCA
Statistics
Matches: 221, Mismatches: 21, Indels: 42
0.78 0.07 0.15
Matches are distributed among these distances:
31 1 0.00
32 8 0.04
33 86 0.39
34 30 0.14
35 9 0.04
36 8 0.04
37 1 0.00
38 69 0.31
39 8 0.04
40 1 0.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAA
Found at i:625634 original size:109 final size:105
Alignment explanation
Indices: 625461--625728 Score: 450
Period size: 109 Copynumber: 2.5 Consensus size: 105
625451 AAATCCCAAC
625461 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGA-GAATCGCAATGCGAAATGAAAATCGC
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAATGAAAATCGC
*
625525 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
65 AATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
* *
625566 ATGAACATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGAAAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAGAT-G-AATCGCAATGCGAAATGAAAAT
625631 CGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
62 CGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
625675 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAT-AATCGCAATGCGAAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAAT
625729 TATAAACGCA
Statistics
Matches: 153, Mismatches: 5, Indels: 11
0.91 0.03 0.07
Matches are distributed among these distances:
104 32 0.21
105 15 0.10
106 4 0.03
107 5 0.03
108 1 0.01
109 96 0.63
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (105 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
Found at i:625744 original size:52 final size:52
Alignment explanation
Indices: 625461--625728 Score: 446
Period size: 52 Copynumber: 5.0 Consensus size: 52
625451 AAATCCCAAC
625461 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
625514 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
625566 ATGAACATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAGA--G-AATCGCAATGCGAA
*
625623 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
625675 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
625727 AT
1 AT
625729 TATAAACGCA
Statistics
Matches: 205, Mismatches: 5, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
52 133 0.65
53 17 0.08
54 4 0.02
55 5 0.02
56 1 0.00
57 45 0.22
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Done.