Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 220 of 322
Found at i:72686067 original size:47 final size:47
Alignment explanation
Indices: 72684974--72686033 Score: 1807
Period size: 47 Copynumber: 22.6 Consensus size: 47
72684964 ATACATGAGC
* * * * * * *
72684974 TAAGGCCAAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
* ** * * * *
72685021 TAAGGCCAAATGGAAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
* * * *
72685068 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
* * * *
72685115 TAAGGCCGAATGGCCAACGTGGTGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685162 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685209 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685256 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685303 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685350 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685397 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685444 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685491 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685538 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685585 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685632 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685679 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685726 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685773 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
72685820 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
* * *
72685867 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
* * *
72685914 TAAGGCCGAATGGCCAATGTGAAGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
* * * *
72685961 TAAGGCCGAATGACCAATGTGATAAATGTGAACATGCATA-CATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATC-TGTGA
*
72686008 TAAGGCAGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
72686034 CGTGGATGTG
Statistics
Matches: 982, Mismatches: 30, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
47 982 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATCTGTGA
Found at i:72686100 original size:46 final size:46
Alignment explanation
Indices: 72686047--72686137 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
72686037 GGATGTGTAT
* * *
72686047 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGCGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATACGTATGAGATGG
* * * *
72686093 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATACGTATGAGATG
72686138 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.34, C:0.08, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATACGTATGAGATGG
Found at i:72691849 original size:33 final size:33
Alignment explanation
Indices: 72691807--72691873 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
72691797 TAACCATTCC
72691807 CATGGCCAATCCTTGTTAAGCATATCCACACCT
1 CATGGCCAATCCTTGTTAAGCATATCCACACCT
72691840 CATGGCCAATCCTTGTTAAGCATATCCACACCT
1 CATGGCCAATCCTTGTTAAGCATATCCACACCT
72691873 C
1 C
72691874 TCAATAACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.34, G:0.12, T:0.27
Consensus pattern (33 bp):
CATGGCCAATCCTTGTTAAGCATATCCACACCT
Found at i:72692525 original size:40 final size:40
Alignment explanation
Indices: 72692488--72692673 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
72692478 GCTACTCGTT
* *
72692488 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
72692528 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
72692568 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
72692608 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
72692649 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
72692674 CATCATTCAA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:72692614 original size:120 final size:119
Alignment explanation
Indices: 72692453--72692673 Score: 277
Period size: 120 Copynumber: 1.8 Consensus size: 119
72692443 CCAAATCACG
* ** *
72692453 TACCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGA-CATAGCCCGGTTAT
1 TACCTTCGGAACTTAACCGGATATAGCTACTCGCACAAATGCCTTC-GGATCATAGCCCGGATAT
*
72692517 AGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAA
65 AGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAA
* * * *
72692572 TACCTTCGGGACTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 TACCTTCGGAACTTAA-CCGGATATAGCT-ACTCGCACAAATGCCTTCGGATCATAGCCCGGATA
* * *
72692636 TGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 TAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
72692674 CATCATTCAA
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
119 18 0.21
120 60 0.70
121 8 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (119 bp):
TACCTTCGGAACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGATCATAGCCCGGATATA
GTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAA
Found at i:72706819 original size:43 final size:43
Alignment explanation
Indices: 72706771--72706873 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
72706761 TTGGTTTTCA
72706771 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
72706814 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
72706857 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
72706874 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:72706890 original size:29 final size:29
Alignment explanation
Indices: 72706855--72706928 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
72706845 GTTGTGAGAT
* *
72706855 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
72706884 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
72706913 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
72706929 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:72707362 original size:40 final size:40
Alignment explanation
Indices: 72707318--72707474 Score: 224
Period size: 40 Copynumber: 3.9 Consensus size: 40
72707308 GAGTTACTAA
* *
72707318 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGCTGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
72707358 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
72707398 ATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
72707438 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
72707475 CGTGTATTCG
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:72707376 original size:80 final size:80
Alignment explanation
Indices: 72707292--72707468 Score: 203
Period size: 80 Copynumber: 2.2 Consensus size: 80
72707282 GGACTAAGAT
** * * *
72707292 CCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGCT
1 CCGAAGAGCATTCATGCGAGTGA-TAAATCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGCGAT
* *
72707356 GTATCCGGGCTAAGTC
65 ATATCCGGGCTAAATC
* ** * * *
72707372 CCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATA
1 CCGAAGAGCATTCATGCGAGTGATAAATCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGCGATA
*
72707437 TATCCGTGCTAAATC
66 TATCCGGGCTAAATC
*
72707452 CCGAAGAGCAATCATGC
1 CCGAAGAGCATTCATGC
72707469 TGGTGACGTG
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 69 0.85
81 12 0.15
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
CCGAAGAGCATTCATGCGAGTGATAAATCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGCGATA
TATCCGGGCTAAATC
Found at i:72707454 original size:120 final size:120
Alignment explanation
Indices: 72707239--72707469 Score: 279
Period size: 120 Copynumber: 1.9 Consensus size: 120
72707229 TCGAATGATG
** * * *
72707239 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCTTCATGCTAAGTGACCATATCCGGACTAAGATCCAAAGGCATTC
* * *
72707304 GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGCTGTA
66 GTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGCTAGCGCTGTA
** * *
72707359 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAGTTCCAAAGAGCA
1 TCCGGGCTAAGTCCCGAAG-GC-TTCATGCTAAGTGACCATATCCGGACTAAGATCCAAAG-GCA
* * *
72707422 TTCGTGCTAGTGA-TATATCCGTGCTAAATCCCGAAGAGCAATCATGCT
63 TTCGTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGCT
72707470 GGTGACGTGT
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
120 67 0.72
121 20 0.22
122 6 0.06
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTCATGCTAAGTGACCATATCCGGACTAAGATCCAAAGGCATTC
GTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGCTAGCGCTGTA
Found at i:72710559 original size:47 final size:47
Alignment explanation
Indices: 72710493--72711090 Score: 1052
Period size: 47 Copynumber: 12.7 Consensus size: 47
72710483 GAAATGATAG
* *
72710493 TAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
72710540 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
72710587 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
72710634 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
72710681 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
72710728 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
72710775 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
72710822 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
72710869 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
72710916 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * *
72710963 CAGGGCCCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGG--CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
72711012 TAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
72711059 TAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAA
72711091 NNNNNNNNNN
Statistics
Matches: 532, Mismatches: 17, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 491 0.92
49 41 0.08
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:72713353 original size:26 final size:24
Alignment explanation
Indices: 72713323--72713372 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
72713313 AAATAAAAAA
*
72713323 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
72713349 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
72713373 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:72714229 original size:13 final size:13
Alignment explanation
Indices: 72714202--72714240 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
72714192 GGAGTAATCA
72714202 CACAC-GGCGTGT
1 CACACGGGCGTGT
*
72714214 CACACGGGCATGT
1 CACACGGGCGTGT
72714227 CACACGGGCGTGT
1 CACACGGGCGTGT
72714240 C
1 C
72714241 CCTGCCGAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.18, C:0.33, G:0.33, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:72717329 original size:30 final size:30
Alignment explanation
Indices: 72717263--72717334 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
72717253 ATACAAGGAT
* * *
72717263 GAATTTTTCATGTTAAATTATTGTTGTAAT
1 GAATTTTTCATGTTAAATGATTGTTATAAA
72717293 GAATTTTTCATGTTAAATGA-TGTTATACAA
1 GAATTTTTCATGTTAAATGATTGTTATA-AA
*
72717323 GGATTTTTCATG
1 GAATTTTTCATG
72717335 GGTTTGTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 6 0.16
30 31 0.84
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.49
Consensus pattern (30 bp):
GAATTTTTCATGTTAAATGATTGTTATAAA
Found at i:72717920 original size:25 final size:25
Alignment explanation
Indices: 72717883--72717983 Score: 132
Period size: 25 Copynumber: 4.0 Consensus size: 25
72717873 GCGGACACAC
*
72717883 TACAGCTCATATGAGCTTTCCGATT
1 TACAGCTCGTATGAGCTTTCCGATT
* * *
72717908 TACATCTTGTATGAGCTTTTCGATT
1 TACAGCTCGTATGAGCTTTCCGATT
*
72717933 TACAGCTCGTATGAGCTTCCCGATT
1 TACAGCTCGTATGAGCTTTCCGATT
*
72717958 TATAGCTCGTATGAGC-TTCACGATT
1 TACAGCTCGTATGAGCTTTC-CGATT
72717983 T
1 T
72717984 GTAGCTCATA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
24 2 0.03
25 63 0.97
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (25 bp):
TACAGCTCGTATGAGCTTTCCGATT
Found at i:72720857 original size:42 final size:42
Alignment explanation
Indices: 72720808--72720924 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 42
72720798 CAAATTGTGG
*
72720808 TATCGTGTAAGACCATGTCTGGGACATTGGCATC-GTATATGA
1 TATCGTGTAAGACCATGTCTGGGACA-TGGCATCAATATATGA
* * * * *
72720850 TTTCGTGTAAGACCCTGTCTAGGACAACGGCATCAATATTTGA
1 TATCGTGTAAGACCATGTCTGGGAC-ATGGCATCAATATATGA
* * * *
72720893 TAACATGTAAGACCATATCTGGGATATGGCAT
1 TATCGTGTAAGACCATGTCTGGGACATGGCAT
72720925 TGTACAAGCT
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
42 34 0.58
43 25 0.42
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (42 bp):
TATCGTGTAAGACCATGTCTGGGACATGGCATCAATATATGA
Found at i:72722853 original size:13 final size:13
Alignment explanation
Indices: 72722835--72722861 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
72722825 GCTCGACAGG
72722835 GACACGCCCGTGT
1 GACACGCCCGTGT
72722848 GACACGCCCGTGT
1 GACACGCCCGTGT
72722861 G
1 G
72722862 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:72725046 original size:55 final size:55
Alignment explanation
Indices: 72724957--72725074 Score: 157
Period size: 55 Copynumber: 2.1 Consensus size: 55
72724947 TGTAGCTCTG
* ***
72724957 CGCACGCCCGTGTTATTTTAACAGGTTCGCCCAC-GGTTGCTTGGCACGGGCGTGT
1 CGCACGCCCGTGTTAATTTAACAGGTTCGCCCACGGGTT-AAAGGCACGGGCGTGT
* * *
72725012 CGCACGCCCTTGTTAATTTGACAGGTTCGGCCACGGGTTAAAGGCACGGGCGTGT
1 CGCACGCCCGTGTTAATTTAACAGGTTCGCCCACGGGTTAAAGGCACGGGCGTGT
72725067 CGCACGCC
1 CGCACGCC
72725075 TGTGCTGTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 51 0.93
56 4 0.07
ACGTcount: A:0.15, C:0.30, G:0.31, T:0.24
Consensus pattern (55 bp):
CGCACGCCCGTGTTAATTTAACAGGTTCGCCCACGGGTTAAAGGCACGGGCGTGT
Found at i:72730362 original size:43 final size:43
Alignment explanation
Indices: 72730300--72730501 Score: 266
Period size: 43 Copynumber: 4.7 Consensus size: 43
72730290 TATGTGTTCT
* *
72730300 CGTGTAAGACTACGTCTGGGACGTTGGCATCAATATCTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTA
* * * *
72730343 CGTGTAAGACCATGCCTGGGATGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTA
*
72730386 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTA
*
72730429 CATGTAAGACC-CTGTCTGGGACAG-TGGCATCGAA-ATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC-AATATGTGATTA
* *
72730472 CATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
72730502 TGTACGATAT
Statistics
Matches: 142, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
42 2 0.01
43 137 0.96
44 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTA
Found at i:72730435 original size:86 final size:86
Alignment explanation
Indices: 72730300--72730501 Score: 298
Period size: 86 Copynumber: 2.3 Consensus size: 86
72730290 TATGTGTTCT
* *
72730300 CGTGTAAGACTACGTCTGGGACGTTGGCATCAATATCTGATTACGTGTAAGACCATGCCTGGGA-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCAATATCTGATTACATGTAAGACCATGCCTGGGAC
* *
72730364 TGTTGGCATCGATATGTGATTA
66 AG-TGGCATCGAAATGTGATTA
* * * *
72730386 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACATGTAAGACCCTGTCTGGGAC
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCAATATCTGATTACATGTAAGACCATGCCTGGGAC
72730451 AGTGGCATCGAAATGTGATTA
66 AGTGGCATCGAAATGTGATTA
* *
72730472 CATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
72730502 TGTACGATAT
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
86 104 0.99
87 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (86 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCAATATCTGATTACATGTAAGACCATGCCTGGGAC
AGTGGCATCGAAATGTGATTA
Found at i:72730571 original size:56 final size:56
Alignment explanation
Indices: 72730506--72730808 Score: 394
Period size: 56 Copynumber: 5.4 Consensus size: 56
72730496 TGGCATTGTA
*
72730506 CGATATGTGTGTGCGAGTAAGACCATGTTTAATACATTGGCATCGATATGTGATTC
1 CGATATGTGTGTGCGAGTAAGACCATGTTTAATACATTGGCATCAATATGTGATTC
* * * *
72730562 CGATATGTGTGTGTGAATAAGACCACGTTTAATACGTTGGCATCAATATGTGATTC
1 CGATATGTGTGTGCGAGTAAGACCATGTTTAATACATTGGCATCAATATGTGATTC
* * * * *
72730618 CGATATGTGTGTTCGAGTAAGATCACT-TTTAATACGTTGGTATCGATATGTGATTC
1 CGATATGTGTGTGCGAGTAAGACCA-TGTTTAATACATTGGCATCAATATGTGATTC
* *
72730674 TGATATGTGTGTGCGAATAAGACCATGTTTAATACATTGGCATCAATATGTGATT-
1 CGATATGTGTGTGCGAGTAAGACCATGTTTAATACATTGGCATCAATATGTGATTC
* * ** *
72730729 CGATATGTGTGTGTGAGTAAGATCACATTTAATACTTTGGCATCAATATGTGATTC
1 CGATATGTGTGTGCGAGTAAGACCATGTTTAATACATTGGCATCAATATGTGATTC
* * * *
72730785 TGATATGTGTTTACAAGTAAGACC
1 CGATATGTGTGTGCGAGTAAGACC
72730809 CTATCTGGGA
Statistics
Matches: 212, Mismatches: 32, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
55 49 0.23
56 163 0.77
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (56 bp):
CGATATGTGTGTGCGAGTAAGACCATGTTTAATACATTGGCATCAATATGTGATTC
Found at i:72730704 original size:112 final size:111
Alignment explanation
Indices: 72730506--72730794 Score: 438
Period size: 112 Copynumber: 2.6 Consensus size: 111
72730496 TGGCATTGTA
* * *
72730506 CGATATGTGTGTGCGAGTAAGACCA-TGTTTAATACATTGGCATCGATATGTGATTCCGATATGT
1 CGATATGTGTGTTCGAGTAAGATCACT-TTTAATACATTGGCATCGATATGTGATTCTGATATGT
* *
72730570 GTGTGTGAATAAGACCACGTTTAATACGTTGGCATCAATATGTGATT
65 GTGTGCGAATAAGACCACGTTTAATACATTGGCATCAATATGTGATT
* *
72730617 CCGATATGTGTGTTCGAGTAAGATCACTTTTAATACGTTGGTATCGATATGTGATTCTGATATGT
1 -CGATATGTGTGTTCGAGTAAGATCACTTTTAATACATTGGCATCGATATGTGATTCTGATATGT
*
72730682 GTGTGCGAATAAGACCATGTTTAATACATTGGCATCAATATGTGATT
65 GTGTGCGAATAAGACCACGTTTAATACATTGGCATCAATATGTGATT
* * *
72730729 CGATATGTGTGTGT-GAGTAAGATCACATTTAATACTTTGGCATCAATATGTGATTCTGATATGT
1 CGATATGTGTGT-TCGAGTAAGATCACTTTTAATACATTGGCATCGATATGTGATTCTGATATGT
72730793 GT
65 GT
72730795 TTACAAGTAA
Statistics
Matches: 163, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
111 60 0.37
112 102 0.63
113 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (111 bp):
CGATATGTGTGTTCGAGTAAGATCACTTTTAATACATTGGCATCGATATGTGATTCTGATATGTG
TGTGCGAATAAGACCACGTTTAATACATTGGCATCAATATGTGATT
Found at i:72734398 original size:53 final size:52
Alignment explanation
Indices: 72734318--72734480 Score: 196
Period size: 53 Copynumber: 3.2 Consensus size: 52
72734308 NNNNNNNNNN
72734318 CATTCATCACATTGGCCATTCGGCCTTATCACGCACACACATACGCATGTTCA
1 CATTCATCACATTGGCCATTCGGCCTTATCAC-CACACACATACGCATGTTCA
* * * *
72734371 CATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACG--GGTTCA
1 CATTCATCACATTGGCCATTCGGCCTTATCAC-CACACACATACGCATGTTCA
**
72734422 CATTCATCACATTGGCCATTCAACCTTAT-----CACACATACGCATGTTCA
1 CATTCATCACATTGGCCATTCGGCCTTATCACCACACACATACGCATGTTCA
*
72734469 CATCCATCACAT
1 CATTCATCACAT
72734481 AAAATCCTAA
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
45 7 0.07
47 16 0.17
51 32 0.33
53 41 0.43
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (52 bp):
CATTCATCACATTGGCCATTCGGCCTTATCACCACACACATACGCATGTTCA
Found at i:72734442 original size:51 final size:52
Alignment explanation
Indices: 72734318--72734459 Score: 205
Period size: 53 Copynumber: 2.7 Consensus size: 52
72734308 NNNNNNNNNN
* * *
72734318 CATTCATCACATTGGCCATTCGGCCTTATCACGCACACACATACGCATGTTCA
1 CATTCATCACATTGGCCATTCGGCCTTATCACACATACACATACG-AGGTTCA
* *
72734371 CATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACG-GGTTCA
1 CATTCATCACATTGGCCATTCGGCCTTATCACACATACACATACGAGGTTCA
**
72734422 CATTCATCACATTGGCCATTCAACCTTATCACACATAC
1 CATTCATCACATTGGCCATTCGGCCTTATCACACATAC
72734460 GCATGTTCAC
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 40 0.49
53 41 0.51
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (52 bp):
CATTCATCACATTGGCCATTCGGCCTTATCACACATACACATACGAGGTTCA
Found at i:72734792 original size:65 final size:65
Alignment explanation
Indices: 72734664--72734795 Score: 169
Period size: 66 Copynumber: 2.0 Consensus size: 65
72734654 GCAACTAAAA
* *
72734664 CAAGTTTATCAAGGTTTACAACATAATCTCAAATTCAGCACAAGCTGTTTTTCCTGAGAAATAGT
1 CAAGTTTATCAAGGTTTACAACAAAATCACAAATTCAGCACAAGCTGTTTTTCCTGAGAAATAGT
* * * * *
72734729 CAAGTTTTATCCATGTTTACAACAAAATCACATATTCA-CTACGAGCTG-TTTTCCTGAGCAATA
1 CAAG-TTTATCAAGGTTTACAACAAAATCACAAATTCAGC-ACAAGCTGTTTTTCCTGAGAAATA
72734792 GT
64 GT
72734794 CA
1 CA
72734796 CTAAATTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 23 0.40
66 35 0.60
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (65 bp):
CAAGTTTATCAAGGTTTACAACAAAATCACAAATTCAGCACAAGCTGTTTTTCCTGAGAAATAGT
Found at i:72736091 original size:42 final size:42
Alignment explanation
Indices: 72736044--72736130 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
72736034 AGAATATAAT
*
72736044 CTTTAATTATTTATAAGACTCGGTTTTGTGGTCCCGAAACCA
1 CTTTAATTATTTATAAGACTCGATTTTGTGGTCCCGAAACCA
72736086 CTTTAATTATTTATAAGACTCGATTTTGTGGTCCCGAAACCA
1 CTTTAATTATTTATAAGACTCGATTTTGTGGTCCCGAAACCA
72736128 CTT
1 CTT
72736131 CCCGACTAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (42 bp):
CTTTAATTATTTATAAGACTCGATTTTGTGGTCCCGAAACCA
Found at i:72736735 original size:120 final size:120
Alignment explanation
Indices: 72736522--72736753 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
72736512 TATAACCACA
*
72736522 AGCACAATTGCCTTCGGGTCTTAACCCGGGAATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTACCTTCGGGTCTTAACCCGGGAATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
* *
72736587 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
66 CCCGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
* *
72736642 AGCACAATTACCTTCGGGTCTTAACCCGGGTATAGCAACTCGTACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTACCTTCGGGTCTTAACCCGGGAATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
72736707 CCCGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA
66 CCCGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA
72736754 TCATTCAAAT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 107 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (120 bp):
AGCACAATTACCTTCGGGTCTTAACCCGGGAATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
CCCGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
Found at i:72736754 original size:40 final size:40
Alignment explanation
Indices: 72736523--72736754 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
72736513 ATAACCACAA
* *
72736523 GCACAATTGCCTTCGGGTCTTAACCCGGGA-ATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCC-GGATATAGCAACTC
*
72736563 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
72736603 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * *
72736643 GCACAATTACCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
72736683 GTACAAATGCCTTCGGGTCTTAGCCCCGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
72736723 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
72736755 CATTCAAATG
Statistics
Matches: 169, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 6 0.04
40 159 0.94
41 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:72744834 original size:40 final size:40
Alignment explanation
Indices: 72744789--72744980 Score: 278
Period size: 40 Copynumber: 4.8 Consensus size: 40
72744779 ATAACCACAA
* * * * *
72744789 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
72744829 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
72744869 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
72744909 GCACAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
72744949 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
72744981 CATTCAAATG
Statistics
Matches: 141, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 136 0.96
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:72744873 original size:80 final size:80
Alignment explanation
Indices: 72744760--72744980 Score: 284
Period size: 80 Copynumber: 2.8 Consensus size: 80
72744750 ACCCAAGTTT
* * * * * * * *
72744760 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
*
72744824 AACTTGCACAAATGC
66 AACTCGCACAAATGC
* * * *
72744839 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
72744903 CAACTCGCACAAATGC
65 CAACTCGCACAAATGC
* *
72744919 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
72744981 CATTCAAATG
Statistics
Matches: 121, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
79 12 0.10
80 105 0.87
81 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:72750824 original size:40 final size:40
Alignment explanation
Indices: 72750769--72750945 Score: 250
Period size: 40 Copynumber: 4.5 Consensus size: 40
72750759 CGGATGATAA
72750769 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
72750809 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
** * * *
72750849 CTAGGCTAAGACCCGGAGGCATTTGTGCAAGTTGCTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * *
72750889 CCGGGCTAGGACTCGAAGGCATTTGTACGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
72750929 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
72750946 ATACTTGGGT
Statistics
Matches: 120, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 1 0.01
39 11 0.09
40 108 0.90
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:72751214 original size:22 final size:22
Alignment explanation
Indices: 72751172--72751215 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
72751162 AAAATATGCA
* *
72751172 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
72751194 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
72751216 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:72753541 original size:16 final size:15
Alignment explanation
Indices: 72753517--72753546 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
72753507 AACTGTTTTA
72753517 TTACAAATTTCACTC
1 TTACAAATTTCACTC
72753532 TTACATAATTTCACT
1 TTACA-AATTTCACT
72753547 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:72767519 original size:40 final size:40
Alignment explanation
Indices: 72767459--72767556 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
72767449 CGGATGATAA
* *
72767459 CCGGACTAAGATC-CGAAGGCATTTGTGCTAG-TGACTATAT
1 CCGGGCTAAG-TCTCGAAGGCATTTGTGCGAGTTG-CTATAT
72767499 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTGCTATAT
*
72767539 CC-GGCTAAATCTCGAAGG
1 CCGGGCTAAGTCTCGAAGG
72767557 TACTTGGGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
39 17 0.32
40 34 0.64
41 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:72769019 original size:50 final size:49
Alignment explanation
Indices: 72768788--72769077 Score: 188
Period size: 50 Copynumber: 5.8 Consensus size: 49
72768778 GTAACTGAAG
* * * * * *
72768788 CTATCTAGTACTCATAGTAGCCTGCATTTAGTACTACACATGAGACCAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACTAA
** * * * *
72768837 -TAAT-TCAATACACGTAGTAGCCTGAAGTTAGTACTACACACGTGAGCTAA
1 CT-ATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CTAA
* * * *
72768887 CCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACACGATTGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACT-AA
* * * * * * *
72768937 GTTGTCGGGTACGCATAGTAGACTGCACTTAGTACTACACATGCCACCTAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CTAA
* * * * *
72768988 CTATCTGGTACACGTAGTAGTCTGTACTTAGTACTACACATGTGACCTAAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CT--AA
* *** *
72769040 CCATCTTCAACACATAGTAGCCTGCACATAGTACTACA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACA
72769078 TATGTGTTCT
Statistics
Matches: 187, Mismatches: 44, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
48 2 0.01
49 35 0.19
50 79 0.42
51 38 0.20
52 33 0.18
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (49 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACTAA
Found at i:72773533 original size:26 final size:26
Alignment explanation
Indices: 72773469--72773537 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
72773459 CATTCTGACC
* *
72773469 CACAACTGGTGTAAGTAGGCCCATTT
1 CACAACTTGTGTAAGCAGGCCCATTT
72773495 CACAACTTGTGTAAGCAGGCCCATTT
1 CACAACTTGTGTAAGCAGGCCCATTT
*
72773521 CACAGCTCT-TGTAAGCA
1 CACAACT-TGTGTAAGCA
72773538 ATGATGTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
26 38 0.97
27 1 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (26 bp):
CACAACTTGTGTAAGCAGGCCCATTT
Found at i:72779961 original size:23 final size:23
Alignment explanation
Indices: 72779909--72779955 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
72779899 GAGGGAAAGT
*
72779909 AAAAAAATTGAAGAGAAAAGGTA
1 AAAAAAATTGAAGAGAAAAGGGA
72779932 AAAAAAATTGAAGA-AAAAGGGA
1 AAAAAAATTGAAGAGAAAAGGGA
72779954 AA
1 AA
72779956 GCAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (23 bp):
AAAAAAATTGAAGAGAAAAGGGA
Found at i:72780502 original size:24 final size:23
Alignment explanation
Indices: 72780475--72780543 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
72780465 GATGTATCTA
72780475 AAAAGGATATTAATGAAAAGGTCG
1 AAAA-GATATTAATGAAAAGGTCG
* * *
72780499 AAAAAATATCAATGACAAGGTCG
1 AAAAGATATTAATGAAAAGGTCG
72780522 AAAATGATATTAATG-AAAGGTC
1 AAAA-GATATTAATGAAAAGGTC
72780544 CGTATCTCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 26 0.68
24 12 0.32
ACGTcount: A:0.51, C:0.07, G:0.20, T:0.22
Consensus pattern (23 bp):
AAAAGATATTAATGAAAAGGTCG
Found at i:72780504 original size:40 final size:39
Alignment explanation
Indices: 72780411--72780503 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 39
72780401 TGAATCCACA
* *
72780411 AAAAGGTTGAAAAGGATGTATCCGAAAAGGATATCAAATG
1 AAAAGG-TGAAAAAGATGTATCCAAAAAGGATATCAAATG
* *
72780451 AAAAGGATGAAAAAGATGTATCTAAAAAGGATAT-TAATG
1 AAAAGG-TGAAAAAGATGTATCCAAAAAGGATATCAAATG
72780490 AAAAGGTCGAAAAA
1 AAAAGGT-GAAAAA
72780504 ATATCAATGA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
38 1 0.02
39 16 0.34
40 30 0.64
ACGTcount: A:0.53, C:0.05, G:0.23, T:0.19
Consensus pattern (39 bp):
AAAAGGTGAAAAAGATGTATCCAAAAAGGATATCAAATG
Found at i:72796463 original size:22 final size:22
Alignment explanation
Indices: 72796421--72796464 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
72796411 ATGTTAAAAT
* *
72796421 TTTTAAAATTTTATTTCAATTA
1 TTTTAAAAATTTAATTCAATTA
72796443 TTTTAAATAATTTAATT-AATTA
1 TTTTAAA-AATTTAATTCAATTA
72796465 AATTTTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAAAAATTTAATTCAATTA
Found at i:72796469 original size:24 final size:24
Alignment explanation
Indices: 72796442--72796504 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
72796432 TATTTCAATT
72796442 ATTTTAAATAATTTAATTA-ATTAA
1 ATTTTAAA-AATTTAATTAGATTAA
* *
72796466 ATTTTATAAAAATATATTTAGATTAA
1 A-TTT-TAAAAATTTAATTAGATTAA
72796492 ATTTTAAAAATTT
1 ATTTTAAAAATTT
72796505 TATTTATAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 9 0.27
25 14 0.42
26 10 0.30
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
ATTTTAAAAATTTAATTAGATTAA
Found at i:72796490 original size:26 final size:25
Alignment explanation
Indices: 72796442--72796530 Score: 81
Period size: 26 Copynumber: 3.5 Consensus size: 25
72796432 TATTTCAATT
* * *
72796442 ATTTTAAATAATTTAATTA-ATTAA
1 ATTTTAAAAAATATATTTAGATTAA
72796466 ATTTTATAAAAATATATTTAGATTAA
1 ATTTTA-AAAAATATATTTAGATTAA
* * * **
72796492 ATTTTAAAAATTTTATTTATAGCAAA
1 ATTTTAAAAAATATATTTAGA-TTAA
72796518 ATTTTAAAAAATA
1 ATTTTAAAAAATA
72796531 AGAGATCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 6 0.12
25 22 0.42
26 24 0.46
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (25 bp):
ATTTTAAAAAATATATTTAGATTAA
Found at i:72798883 original size:34 final size:34
Alignment explanation
Indices: 72798840--72798909 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
72798830 AGAAATACCA
72798840 CATAGTACTTGATATATTGGAGAATCCTTCTCAT
1 CATAGTACTTGATATATTGGAGAATCCTTCTCAT
72798874 CATAGTACTTGATATATTGGAGAATCCTTCTCAT
1 CATAGTACTTGATATATTGGAGAATCCTTCTCAT
72798908 CA
1 CA
72798910 AGGGTAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (34 bp):
CATAGTACTTGATATATTGGAGAATCCTTCTCAT
Found at i:72800796 original size:43 final size:42
Alignment explanation
Indices: 72800739--72800887 Score: 129
Period size: 42 Copynumber: 3.5 Consensus size: 42
72800729 AATGCCGACA
* * ** * *
72800739 TCCCAGACTTGGTCTTACATGTAATTTAGTATCGATGCCTCTG
1 TCCCAGACATGGTCTTACACGTAATCAAATA-CGATGCCTATG
* * *
72800782 TCCCAGACAGGGTCTTACACGAAATCAAATACGATGCTTATG
1 TCCCAGACATGGTCTTACACGTAATCAAATACGATGCCTATG
* *
72800824 TCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGAGGCCTGTG
1 TCCCAGACATGGTCTTACACGT-AA--TCAAATACGATGCCTATG
* * *
72800868 TCCCAAACACGATCTTACAC
1 TCCCAGACATGGTCTTACAC
72800888 AATATCTCAG
Statistics
Matches: 86, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
42 29 0.34
43 26 0.30
44 25 0.29
45 6 0.07
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGTAATCAAATACGATGCCTATG
Found at i:72800884 original size:44 final size:41
Alignment explanation
Indices: 72800769--72800887 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 41
72800759 GTAATTTAGT
* *
72800769 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAATCAA
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACGAAATCAA
* *
72800810 ATACGATGCTTATGTCCCAGACATGGTCTTACACGTAAATCTCAA
1 AT-CGATGCCTATGTCCCAGACACGGTCTTACACG-AAA--TCAA
* * * *
72800855 ATCGAGGCCTGTGTCCCAAACACGATCTTACAC
1 ATCGATGCCTATGTCCCAGACACGGTCTTACAC
72800888 AATATCTCAG
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
41 2 0.03
42 29 0.45
43 3 0.05
44 25 0.38
45 6 0.09
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (41 bp):
ATCGATGCCTATGTCCCAGACACGGTCTTACACGAAATCAA
Found at i:72806311 original size:49 final size:48
Alignment explanation
Indices: 72806254--72806457 Score: 197
Period size: 49 Copynumber: 4.3 Consensus size: 48
72806244 GTAAGTTGCA
*
72806254 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCTAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATC-TCTAGGCC
* * * * * *
72806303 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTAT--CATCTCTAGGCC
** * * *
72806353 GACACCATGTCCTAGACATGGTATTACACTGAC-A-CATCTCGTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTC-TAGGCC
*
72806399 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-CATCTCTAGGCC
72806445 GATG-CATGTCCCA
1 GATGCCATGTCCCA
72806458 TGAACTATTC
Statistics
Matches: 125, Mismatches: 23, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
44 11 0.09
45 14 0.11
46 31 0.25
47 1 0.01
49 34 0.27
50 31 0.25
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCTAGGCC
Found at i:72806447 original size:46 final size:46
Alignment explanation
Indices: 72806254--72806457 Score: 189
Period size: 46 Copynumber: 4.3 Consensus size: 46
72806244 GTAAGTTGCA
* *
72806254 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCTAGGCT
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTA-CATC-TCGAGGCC
* * * * *
72806303 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCATGTC
1 GATG-CATGTCCCAGACATGGTCTTACACT-G-GCT-ACATCTCGAGGCC
** * * *
72806353 GACACCATGTCCTAGACATGGTATTACACTGAC-ACATCTCGTA-GCC
1 GA-TGCATGTCCCAGACATGGTCTTACACTGGCTACATCTCG-AGGCC
72806399 GATGCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGC-TACATCTCGAGGCC
72806445 GATGCATGTCCCA
1 GATGCATGTCCCA
72806458 TGAACTATTC
Statistics
Matches: 128, Mismatches: 19, Indels: 19
0.77 0.11 0.11
Matches are distributed among these distances:
44 11 0.09
45 14 0.11
46 34 0.27
47 1 0.01
48 1 0.01
49 31 0.24
50 30 0.23
51 5 0.04
52 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTACATCTCGAGGCC
Found at i:72806736 original size:46 final size:47
Alignment explanation
Indices: 72806561--72806738 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 47
72806551 TCATCATCTA
* * *
72806561 GGCCGATGCCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCGA
1 GGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATAAT-GT
* *
72806608 GGCTGATG-CATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAA--T
1 GGCCGATGCCATGTCCCAGACATGTCTTACACTAG--CTC-TCATAATGT
* * * *
72806655 -GACGTTGCCATGTTCCGGACATGGTCTTACACTAGCTCTCATAATGT
1 GGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGT
72806702 GGCCGATG-CATGTCCCAGACATGTCTTACACTAGCTC
1 GGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTC
72806739 ACGTACGTGA
Statistics
Matches: 106, Mismatches: 15, Indels: 21
0.75 0.11 0.15
Matches are distributed among these distances:
45 5 0.05
46 47 0.44
47 32 0.30
48 19 0.18
49 2 0.02
50 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (47 bp):
GGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGT
Found at i:72812770 original size:46 final size:46
Alignment explanation
Indices: 72812728--72812839 Score: 136
Period size: 46 Copynumber: 2.4 Consensus size: 46
72812718 TACATGTTCT
** *
72812728 AGACATGTCTTACACTGGTTTACGTCTCGAGGTCGATG-CATGTCCC
1 AGACATGTCTTACACTGGACT-CGTCTCAAGGTCGATGCCATGTCCC
* * *
72812774 AGGCATGTCTTACACTAGCACTCGTCTCAATGTCGATGCCATGTCCC
1 AGACATGTCTTACACT-GGACTCGTCTCAAGGTCGATGCCATGTCCC
72812821 AGACATGGTCTTACACTGG
1 AGACAT-GTCTTACACTGG
72812840 CTCACACCAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
46 29 0.53
47 16 0.29
48 10 0.18
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (46 bp):
AGACATGTCTTACACTGGACTCGTCTCAAGGTCGATGCCATGTCCC
Found at i:72820441 original size:42 final size:46
Alignment explanation
Indices: 72820335--72820500 Score: 130
Period size: 48 Copynumber: 3.6 Consensus size: 46
72820325 GGGTTATGTA
* *
72820335 TGATCCCATGTAAGACCAT-GTCTGGGACATGGCTTTGGCATCAATATG
1 TGATCCCATGTAAGACCATAGTCTGGG--AT-GCATTGGCATCGATATG
* ** * ** *
72820383 TAATTTCGTGCGAGACCATAG-CT-GG-T-TATTGGCATCGATATG
1 TGATCCCATGTAAGACCATAGTCTGGGATGCATTGGCATCGATATG
*
72820425 TGATCCCATGTCAGACCAT-GTCTGGGACATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATAGTCTGGG--AT-GCATTGGCATCGATATG
*
72820473 TGATCCCATGTAAGACCATA-TCTAGGAT
1 TGATCCCATGTAAGACCATAGTCTGGGAT
72820501 ATGGCATTGG
Statistics
Matches: 91, Mismatches: 18, Indels: 20
0.71 0.14 0.16
Matches are distributed among these distances:
41 1 0.01
42 28 0.31
43 2 0.02
44 1 0.01
46 3 0.03
47 2 0.02
48 53 0.58
49 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (46 bp):
TGATCCCATGTAAGACCATAGTCTGGGATGCATTGGCATCGATATG
Found at i:72820481 original size:48 final size:48
Alignment explanation
Indices: 72820410--72820513 Score: 172
Period size: 48 Copynumber: 2.2 Consensus size: 48
72820400 ATAGCTGGTT
*
72820410 ATTGGCATCGATATGTGATCCCATGTCAGACCATGTCTGGGACATGGC
1 ATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGC
* * *
72820458 ATTGGCATCGATATGTGATCCCATGTAAGACCATATCTAGGATATGGC
1 ATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGC
72820506 ATTGGCAT
1 ATTGGCAT
72820514 ACTACCATGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (48 bp):
ATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGC
Found at i:72820506 original size:90 final size:90
Alignment explanation
Indices: 72820335--72820507 Score: 231
Period size: 90 Copynumber: 1.9 Consensus size: 90
72820325 GGGTTATGTA
* ** * *
72820335 TGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCAATATGTAATTTCGTGCGAGACC
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGTAATCCCATGCAAGACC
*
72820400 ATAGCTGGTTATTGGCATCGATATG
66 ATAGCTGGATATTGGCATCGATATG
* * * *
72820425 TGATCCCATGTCAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACC
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGTAATCCCATGCAAGACC
*
72820490 ATATCTAGGATA-TGGCAT
66 ATAGCT-GGATATTGGCAT
72820508 TGGCATACTA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
90 67 0.94
91 4 0.06
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (90 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGTAATCCCATGCAAGACC
ATAGCTGGATATTGGCATCGATATG
Found at i:72832597 original size:2 final size:2
Alignment explanation
Indices: 72832590--72832637 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
72832580 CAAAACCCTT
72832590 CA CA CA CA CA C- CA -A CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
72832630 CA CA CA CA
1 CA CA CA CA
72832638 TATATATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:72855732 original size:21 final size:20
Alignment explanation
Indices: 72855703--72855746 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 20
72855693 TATGACCCCT
72855703 GTTTAGTGAAAAATTTTC-TAA
1 GTTTAGTG--AAATTTTCTTAA
*
72855724 GTTTTGTGAAATTTTCTTAA
1 GTTTAGTGAAATTTTCTTAA
72855744 GTT
1 GTT
72855747 CTTGGTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.38
20 6 0.29
21 7 0.33
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.50
Consensus pattern (20 bp):
GTTTAGTGAAATTTTCTTAA
Found at i:72856075 original size:20 final size:20
Alignment explanation
Indices: 72856052--72856149 Score: 85
Period size: 20 Copynumber: 4.9 Consensus size: 20
72856042 CAGAGTACAT
72856052 AAGTGCAATCAGGGGTACTG
1 AAGTGCAATCAGGGGTACTG
* *
72856072 AAGTACAATCAGGGGCAC-G
1 AAGTGCAATCAGGGGTACTG
*
72856091 AAAGTGCAATCATGGGTA-TCG
1 -AAGTGCAATCAGGGGTACT-G
* * *
72856112 AAGTACAAACAGGGGCACAT-
1 AAGTGCAATCAGGGGTAC-TG
*
72856132 AAGTGCAATTAGGGGTAC
1 AAGTGCAATCAGGGGTAC
72856150 CGGAGTACAA
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
19 1 0.02
20 57 0.95
21 1 0.02
22 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.17
Consensus pattern (20 bp):
AAGTGCAATCAGGGGTACTG
Found at i:72856096 original size:40 final size:40
Alignment explanation
Indices: 72856052--72856182 Score: 160
Period size: 40 Copynumber: 3.3 Consensus size: 40
72856042 CAGAGTACAT
72856052 AAGTGCAATCAGGGGTACTGAAGTACAATCAGGGGCACGA
1 AAGTGCAATCAGGGGTACTGAAGTACAATCAGGGGCACGA
* *
72856092 AAGTGCAATCATGGGTA-TCGAAGTACAAACAGGGGCAC-A
1 AAGTGCAATCAGGGGTACT-GAAGTACAATCAGGGGCACGA
* * * *
72856131 TAAGTGCAATTAGGGGTACCGGAGTACAAAT-AGGGGCACGT
1 -AAGTGCAATCAGGGGTACTGAAGTAC-AATCAGGGGCACGA
72856172 AAGTGCAATCA
1 AAGTGCAATCA
72856183 TTCAATAATT
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
39 2 0.03
40 73 0.95
41 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.17
Consensus pattern (40 bp):
AAGTGCAATCAGGGGTACTGAAGTACAATCAGGGGCACGA
Found at i:72864387 original size:28 final size:27
Alignment explanation
Indices: 72864330--72864478 Score: 226
Period size: 27 Copynumber: 5.4 Consensus size: 27
72864320 TAAATTGTGC
* *
72864330 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
72864357 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
72864385 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
72864412 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
72864440 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
72864467 AGCACTGAGTGT
1 AGCACTAAGTGT
72864479 ACGGACTTAA
Statistics
Matches: 115, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 63 0.55
28 52 0.45
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:72864395 original size:55 final size:55
Alignment explanation
Indices: 72864330--72864478 Score: 235
Period size: 55 Copynumber: 2.7 Consensus size: 55
72864320 TAAATTGTGC
* *
72864330 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
72864385 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
72864440 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGT
72864479 ACGGACTTAA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 87 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:72869155 original size:36 final size:36
Alignment explanation
Indices: 72869115--72869187 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
72869105 TGGGTCACAT
*
72869115 TCGTAAATGGATGTATTTTCTCACTTAGTATAGAAA
1 TCGTAAATGAATGTATTTTCTCACTTAGTATAGAAA
72869151 TCGTAAATGAATGTATTTTCTCACTTAGTATAGAAA
1 TCGTAAATGAATGTATTTTCTCACTTAGTATAGAAA
72869187 T
1 T
72869188 GACTTGAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (36 bp):
TCGTAAATGAATGTATTTTCTCACTTAGTATAGAAA
Found at i:72872422 original size:15 final size:15
Alignment explanation
Indices: 72872402--72872431 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
72872392 TTGATATACT
72872402 TTGGCAAGTTAGAGA
1 TTGGCAAGTTAGAGA
72872417 TTGGCAAGTTAGAGA
1 TTGGCAAGTTAGAGA
72872432 AGTTGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.27
Consensus pattern (15 bp):
TTGGCAAGTTAGAGA
Found at i:72881905 original size:43 final size:41
Alignment explanation
Indices: 72881820--72881935 Score: 101
Period size: 43 Copynumber: 2.8 Consensus size: 41
72881810 GTCTGAGACA
* * *
72881820 TCGTGTAAGACCGTGTCTGGGACATAGGCCTCGATTGAGATT
1 TCGTATAAGACCATGTCTGGGACATAGGCATCGATT-AGATT
*
72881862 TATGTATAAGACCATGTCTGGGACATCA-GCATCGTATCT-GATT
1 T-CGTATAAGACCATGTCTGGGACAT-AGGCATCG-AT-TAGATT
* * * *
72881905 TCGTGTAAGACCTTGTTTGGGACAGAGGCAT
1 TCGTATAAGACCATGTCTGGGACATAGGCAT
72881936 TGATATTGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
41 1 0.02
42 24 0.40
43 31 0.52
44 3 0.05
45 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (41 bp):
TCGTATAAGACCATGTCTGGGACATAGGCATCGATTAGATT
Found at i:72889837 original size:47 final size:47
Alignment explanation
Indices: 72889783--72889929 Score: 186
Period size: 47 Copynumber: 3.1 Consensus size: 47
72889773 TTAGGATTTT
** * *
72889783 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
72889830 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
72889877 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
72889924 ATGTGA
1 ATGTGA
72889930 AATATGCATG
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 84 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:72890058 original size:98 final size:96
Alignment explanation
Indices: 72889900--72890097 Score: 290
Period size: 98 Copynumber: 2.0 Consensus size: 96
72889890 GAACATGCAT
*
72889900 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATACATGAGATATGTATATGTGGTAAAGCCGA
* *
72889965 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAAAATGTAGGAGATATGC
* *
72889996 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATACATGAGATATGTATATGTGGTAAAGC
* * *
72890060 CGAATGGCTAGTGTGAAAAATGTAGGCGATGTGC
63 CGAATGGCTAATGTGAAAAATGTAGGAGATATGC
72890094 ATAT
1 ATAT
72890098 ATTGTGGCCG
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.29
97 2 0.02
98 62 0.68
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATACATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAAAATGTAGGAGATATGC
Found at i:72890075 original size:50 final size:48
Alignment explanation
Indices: 72889899--72890083 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
72889889 TGAACATGCA
*
72889899 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
72889947 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
72889995 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
* *
72890045 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAAAATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
72890084 GGCGATGTGC
Statistics
Matches: 124, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 78 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:72890337 original size:37 final size:37
Alignment explanation
Indices: 72890229--72890337 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
72890219 GCAAATATAT
* *
72890229 TCCGGGTAAGACCCGATGACTACGAGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
72890266 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
72890303 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
72890338 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:72892543 original size:78 final size:79
Alignment explanation
Indices: 72892430--72892623 Score: 230
Period size: 78 Copynumber: 2.5 Consensus size: 79
72892420 GCCTACGGGA
* * * * * *
72892430 CTTTAAGCCCGGATATAGTACCAGTACGAAA-CCTGCGGACCTTAAGTCCGAATATAGTACCAGT
1 CTTTAAGCCCGGATACAATTCCAGCAC-AAAGCCTGCGGACCTTAAGTCCGAATATAATACCAGC
72892494 ACGAAGCCTGCGGAT
65 ACGAAGCCTGCGGAT
* * * *
72892509 C-TTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGACCTTAAGTCGGGATATAATTCCAGCA
1 CTTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGACCTTAAGTCCGAATATAATACCAGCA
*
72892573 CGAAGCCTGCGGGT
66 CGAAGCCTGCGGAT
* * * *
72892587 CTTTAAGCCCGGATATAATTTCAGCATATAGCCTGCG
1 CTTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCG
72892624 AGTCTTTAAG
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
77 3 0.03
78 63 0.65
79 31 0.32
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.23
Consensus pattern (79 bp):
CTTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGACCTTAAGTCCGAATATAATACCAGCA
CGAAGCCTGCGGAT
Found at i:72892604 original size:40 final size:40
Alignment explanation
Indices: 72892418--72892641 Score: 197
Period size: 39 Copynumber: 5.7 Consensus size: 40
72892408 CACCAACACA
* * * *
72892418 AAGCCTACGGGACTTTAAGCCCGGATATAGTACCAGTACG
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* * * * * * *
72892458 AAACCTGC-GGACCTTAAGTCCGAATATAGTACCAGTACG
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* * *
72892497 AAGCCTGC-GGA-TCTTAAGTCCGGATACAATTCCAGCACA
1 AAGCCTGCGGGACT-TTAAGCCCGGATATAATTCCAGCACG
* * *
72892536 AAGCCTGC-GGACCTTAAGTCGGGATATAATTCCAGCACG
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* * *
72892575 AAGCCTGCGGGTCTTTAAGCCCGGATATAATTTCAGCA-T
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* *
72892614 ATAGCCTGCGAGTCTTTAAGCCCGGATA
1 A-AGCCTGCGGGACTTTAAGCCCGGATA
72892642 CACATCAAAT
Statistics
Matches: 156, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 101 0.65
40 55 0.35
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.22
Consensus pattern (40 bp):
AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
Found at i:72897455 original size:85 final size:84
Alignment explanation
Indices: 72897325--72897479 Score: 222
Period size: 85 Copynumber: 1.8 Consensus size: 84
72897315 TACCATACCA
* * * *
72897325 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAGCCCAGCTATAGTC
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATAGATGCC-ATAGCCCAGATATAGTC
72897390 TTACACGAAATCTCATATCG
65 TTACACGAAATCTCATATCG
* * *
72897410 ATGCCATATCCTAGATATGGTCTTACACG-AAGTCTCATATAGATGCCATATCCCAGATATGGTC
1 ATGCCATATCCCAGATATGGTCTTACACGTAA-TCTCATATAGATGCCATAGCCCAGATATAGTC
72897474 TTACAC
65 TTACAC
72897480 ATAGTCTTAG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
84 22 0.35
85 40 0.65
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (84 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATAGATGCCATAGCCCAGATATAGTCT
TACACGAAATCTCATATCG
Found at i:72897486 original size:42 final size:42
Alignment explanation
Indices: 72897325--72897479 Score: 220
Period size: 42 Copynumber: 3.7 Consensus size: 42
72897315 TACCATACCA
* * *
72897325 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
72897367 ATGCCAATAGCCCAGCTATAGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
72897410 ATGCCATATCCTAGATATGGTCTTACACGAAGTCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
72897452 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
72897480 ATAGTCTTAG
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 63 0.64
43 36 0.36
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:72902482 original size:47 final size:47
Alignment explanation
Indices: 72902373--72902484 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
72902363 ACAGTAATGC
72902373 AAATAAATTGCCACATAATAAAAATCATGGACAAGCCACCAAAATCTA
1 AAATAAATTGCCA-ATAATAAAAATCATGGACAAGCCACCAAAATCTA
* * ** * *
72902421 AAATATATTTCCAATAATCGAAATCATGGACAAGCCATCAAAGTCGT-
1 AAATAAATTGCCAATAATAAAAATCATGGACAAGCCACCAAAATC-TA
* *
72902468 AGATAAACTGCCAATAA
1 AAATAAATTGCCAATAA
72902485 CTTCCAACTT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
47 41 0.77
48 12 0.23
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (47 bp):
AAATAAATTGCCAATAATAAAAATCATGGACAAGCCACCAAAATCTA
Found at i:72912232 original size:15 final size:15
Alignment explanation
Indices: 72912194--72912223 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
72912184 ATCTCACCCC
72912194 AAATCAGATACAAAA
1 AAATCAGATACAAAA
*
72912209 AAATTAGATACAAAA
1 AAATCAGATACAAAA
72912224 TTATCAGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (15 bp):
AAATCAGATACAAAA
Found at i:72917444 original size:17 final size:17
Alignment explanation
Indices: 72917419--72917459 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
72917409 ATTTTTGTCC
*
72917419 AAAACTTAGAAATTGGG
1 AAAATTTAGAAATTGGG
72917436 AAAATTTAGAAATTGGG
1 AAAATTTAGAAATTGGG
72917453 AAAATTT
1 AAAATTT
72917460 CTCTTTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.49, C:0.02, G:0.20, T:0.29
Consensus pattern (17 bp):
AAAATTTAGAAATTGGG
Found at i:72929349 original size:47 final size:46
Alignment explanation
Indices: 72929243--72929554 Score: 190
Period size: 46 Copynumber: 6.6 Consensus size: 46
72929233 GTGCTAATGC
* * *
72929243 AAGACATGTCTGGGACATGCATTGGCCA-C-ATTATGAG-GCCAATGT
1 AAGACATGTCTGGGACATGCATCGG-CATCGA-GATGAGAGCCAGTGT
* * *
72929288 AAGACCATGCCTGGGACATGGCATCGGTATTGAGATGAGAGCCAGTGT
1 AAGA-CATGTCTGGGACAT-GCATCGGCATCGAGATGAGAGCCAGTGT
* *
72929336 AAGACATGTCTGGGACATGCATCGCCCTCGAGATGTA-AGCCAGTGT
1 AAGACATGTCTGGGACATGCATCGGCATCGAGATG-AGAGCCAGTGT
* * * *
72929382 AAGACATGTCTGGGACATGCATCGGC-TAC-AAAAG-GTGTCAGTGT
1 AAGACATGTCTGGGACATGCATCGGCAT-CGAGATGAGAGCCAGTGT
* * * *
72929426 AAGACAATGTTTGGGACATGGCATCGACA-CGGATATGTGAGAGCTAGTGT
1 AAGAC-ATGTCTGGGACAT-GCATCGGCATC-GAGA--TGAGAGCCAGTGT
* * * * ** * * *
72929476 AAGACCATGTTTGGGATATGGCATCAGCCTCGATTTTGATAGTCAGTTT
1 AAGA-CATGTCTGGGACAT-GCATCGGCATCGA-GATGAGAGCCAGTGT
*
72929525 AAGACCATGTCTGGGACATGGCATCAGCAT
1 AAGA-CATGTCTGGGACAT-GCATCGGCAT
72929555 TATACCCTAT
Statistics
Matches: 213, Mismatches: 35, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
44 12 0.06
45 21 0.10
46 69 0.32
47 27 0.13
48 12 0.06
49 37 0.17
50 32 0.15
51 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AAGACATGTCTGGGACATGCATCGGCATCGAGATGAGAGCCAGTGT
Found at i:72929546 original size:49 final size:51
Alignment explanation
Indices: 72929418--72929552 Score: 161
Period size: 49 Copynumber: 2.7 Consensus size: 51
72929408 TACAAAAGGT
* *
72929418 GTCAGTGTAAGACAATGTTTGGGACATGGCATC-GACACGGATATGTGAGA
1 GTCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCACGGATATGTGAGA
* * * *
72929468 G-CTAGTGTAAGACCATGTTTGGGATATGGCATCAGCCTC-GAT-TTTGATA
1 GTC-AGTGTAAGACCATGTTTGGGACATGGCATCAGCCACGGATATGTGAGA
* *
72929517 GTCAGTTTAAGACCATGTCTGGGACATGGCATCAGC
1 GTCAGTGTAAGACCATGTTTGGGACATGGCATCAGC
72929553 ATTATACCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
49 37 0.51
50 33 0.45
51 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (51 bp):
GTCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCACGGATATGTGAGA
Found at i:72941474 original size:81 final size:83
Alignment explanation
Indices: 72941355--72941517 Score: 276
Period size: 81 Copynumber: 2.0 Consensus size: 83
72941345 GGTTCGTCAG
*
72941355 CTATCGGACTCGGGAGTGTCGAAGTCGAAGTCGCCCACACTATCAAAG-CCCTT-TGGTACACTT
1 CTATCAGACTCGGGAGTGTCGAAGTCGAAGTCGCCCACACTATCAAAGCCCCTTCTGGTACACTT
72941418 TTGGTTGAACTTTGAAAC
66 TTGGTTGAACTTTGAAAC
* * *
72941436 CTATCAGACTCGGGATTGTCGAAGTTGAAGTCGTCCACACTATCAAAGCCCCTTCTGGTACACTT
1 CTATCAGACTCGGGAGTGTCGAAGTCGAAGTCGCCCACACTATCAAAGCCCCTTCTGGTACACTT
72941501 TTGGTTGAACTTTGAAA
66 TTGGTTGAACTTTGAAA
72941518 TGGCATGTAT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
81 44 0.58
82 5 0.07
83 27 0.36
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (83 bp):
CTATCAGACTCGGGAGTGTCGAAGTCGAAGTCGCCCACACTATCAAAGCCCCTTCTGGTACACTT
TTGGTTGAACTTTGAAAC
Found at i:72943948 original size:21 final size:21
Alignment explanation
Indices: 72943923--72943963 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
72943913 GTCATAATAG
72943923 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
72943944 CCACATGGGCGTGTTGCCCT
1 CCACACGGGCGTGTTGCCCT
72943964 GCTTCAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.37, G:0.29, T:0.24
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:72945404 original size:49 final size:48
Alignment explanation
Indices: 72945285--72945423 Score: 172
Period size: 51 Copynumber: 2.8 Consensus size: 48
72945275 TTGTGAGGTT
* *
72945285 GCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGAAAACTGTGATC
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGTGATC
* * * * *
72945336 ACATGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTC
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTG-TGATC
72945385 GCATGTGTAGTACTAAGTGCA-GCTACTATGCGTACCAGA
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
72945424 TAGCTTCGGC
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
48 21 0.28
49 23 0.30
50 2 0.03
51 30 0.39
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (48 bp):
GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGTGATC
Found at i:72955876 original size:47 final size:49
Alignment explanation
Indices: 72955802--72955931 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 49
72955792 AACCCGCCCC
*
72955802 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCA
* * *
72955850 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
*
72955895 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
72955932 TCAACCATCC
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 2 0.03
46 29 0.41
47 29 0.41
48 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
Found at i:72955947 original size:46 final size:45
Alignment explanation
Indices: 72955804--72955947 Score: 136
Period size: 46 Copynumber: 3.1 Consensus size: 45
72955794 CCCGCCCCTA
72955804 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * *
72955851 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
72955897 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
72955943 AGTGA
1 AGTGA
72955948 CATGTCACTT
Statistics
Matches: 79, Mismatches: 8, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 31 0.39
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:72961421 original size:40 final size:40
Alignment explanation
Indices: 72961366--72961568 Score: 284
Period size: 40 Copynumber: 5.1 Consensus size: 40
72961356 TGGATGATAA
* * *
72961366 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
72961406 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
72961446 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
72961486 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
72961526 CCGGGCTATGTCCCGAAGGAATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
72961566 CCG
1 CCG
72961569 ATTAAATCCC
Statistics
Matches: 150, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 3 0.02
40 147 0.98
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:72965746 original size:1 final size:1
Alignment explanation
Indices: 72965704--72965735 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
72965694 TCCCCACCGT
*
72965704 CCCCTCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
72965736 TTTTCCCCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.97, G:0.00, T:0.03
Consensus pattern (1 bp):
C
Found at i:72965751 original size:1 final size:1
Alignment explanation
Indices: 72965747--72965801 Score: 110
Period size: 1 Copynumber: 55.0 Consensus size: 1
72965737 TTTCCCCCCC
72965747 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
72965802 NNNNNNNNNN
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:72967268 original size:21 final size:20
Alignment explanation
Indices: 72967214--72967268 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
72967204 TTCCACATCA
*
72967214 ATTTAATATTAAAGAATAAT
1 ATTTAATATAAAAGAATAAT
**
72967234 ATTTTCTATCAAAAGAATAAT
1 ATTTAATAT-AAAAGAATAAT
72967255 ATTTAAATATAAAA
1 ATTT-AATATAAAA
72967269 TATTTTATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 7 0.25
21 18 0.64
22 3 0.11
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (20 bp):
ATTTAATATAAAAGAATAAT
Found at i:72970751 original size:24 final size:24
Alignment explanation
Indices: 72970723--72970770 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
72970713 GTCTAGGGCT
*
72970723 GTAAAACTATTTTCAAAGTTCCAA
1 GTAAAACTATTGTCAAAGTTCCAA
72970747 GTAAAACTATTGTCAAAGTTCCAA
1 GTAAAACTATTGTCAAAGTTCCAA
72970771 TACCTAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (24 bp):
GTAAAACTATTGTCAAAGTTCCAA
Found at i:72977962 original size:24 final size:24
Alignment explanation
Indices: 72977899--72977963 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
72977889 AATAATAGTA
*
72977899 AATGATAGAAAAAAATAATTAATT
1 AATGATAGAAAAAAATAAATAATT
* *
72977923 AATTATA-AAAACAAATAAATCATT
1 AATGATAGAAAA-AAATAAATAATT
* *
72977947 GATGATAGAATAAAATA
1 AATGATAGAAAAAAATA
72977964 GTAAATTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 4 0.12
24 26 0.79
25 3 0.09
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (24 bp):
AATGATAGAAAAAAATAAATAATT
Found at i:72978238 original size:20 final size:20
Alignment explanation
Indices: 72978213--72978252 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
72978203 CTAGTGAATG
*
72978213 TTAGTTGTCATATATTAGAA
1 TTAGTTATCATATATTAGAA
*
72978233 TTAGTTATTATATATTAGAA
1 TTAGTTATCATATATTAGAA
72978253 CAGGAGGGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (20 bp):
TTAGTTATCATATATTAGAA
Found at i:72983463 original size:82 final size:83
Alignment explanation
Indices: 72983310--72983475 Score: 262
Period size: 82 Copynumber: 2.0 Consensus size: 83
72983300 GTTAACGAAC
* *
72983310 ATGAAACAATGAACGGATACATGAAAGATACTCGGAACACCCTAAATAGTGTGCACAAGCACGAA
1 ATGAAACAATGAACGGATACATGAAAAATACTCGGAACACCCTAAATAGTGTGCACAAGCACCAA
** *
72983375 GTGAATAGCAGTACTCCA
66 CCGAATAGCAATACTCCA
* *
72983393 ATGAAACAATGACCGGATACATGAAAAATACTC-GAACACTCTAAATAGTGTGCACAAGCACCAA
1 ATGAAACAATGAACGGATACATGAAAAATACTCGGAACACCCTAAATAGTGTGCACAAGCACCAA
72983457 CCGAATAGCAATACTCCA
66 CCGAATAGCAATACTCCA
72983475 A
1 A
72983476 AGTAAGGTTG
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
82 45 0.59
83 31 0.41
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.17
Consensus pattern (83 bp):
ATGAAACAATGAACGGATACATGAAAAATACTCGGAACACCCTAAATAGTGTGCACAAGCACCAA
CCGAATAGCAATACTCCA
Found at i:72983636 original size:7 final size:7
Alignment explanation
Indices: 72983626--72983655 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
72983616 TTAATAAATA
72983626 ATATTAT
1 ATATTAT
72983633 ATATTAT
1 ATATTAT
72983640 ATATTAT
1 ATATTAT
72983647 ATATTAT
1 ATATTAT
72983654 AT
1 AT
72983656 GCATTAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATATTAT
Found at i:73007228 original size:26 final size:26
Alignment explanation
Indices: 73007198--73007253 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
73007188 TGAAATTCCC
73007198 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
73007224 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
73007250 ATCA
1 ATCA
73007254 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:73011584 original size:22 final size:22
Alignment explanation
Indices: 73011559--73011600 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
73011549 CATGATTCTA
73011559 AACTCT-AAATCATCAAGAAACT
1 AACTCTAAAAT-ATCAAGAAACT
*
73011581 AACTTTAAAATATCAAGAAA
1 AACTCTAAAATATCAAGAAA
73011601 TCAACAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.55, C:0.17, G:0.05, T:0.24
Consensus pattern (22 bp):
AACTCTAAAATATCAAGAAACT
Found at i:73019060 original size:40 final size:41
Alignment explanation
Indices: 73019012--73019147 Score: 147
Period size: 41 Copynumber: 3.4 Consensus size: 41
73019002 CACACTAGTG
* *
73019012 CACCCAGTGCCTTATCGGAT-AATTCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATAAATTCGAAGTAGTAAATTGA
* * *
73019052 CACTCAGTGTCTCATTGAATAAATTCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATAAATTCGAAGTAGTAAATTGA
* * ** *
73019093 CACCCAGTGTCTCATTGGTTAAATT-G-A--AGTAAATTGG
1 CACCCAGTGCCTCATCGAATAAATTCGAAGTAGTAAATTGA
73019130 CACCCAGTGCCTCATCGA
1 CACCCAGTGCCTCATCGA
73019148 CTCGAAGTCG
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
37 24 0.29
39 1 0.01
40 16 0.19
41 42 0.51
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (41 bp):
CACCCAGTGCCTCATCGAATAAATTCGAAGTAGTAAATTGA
Found at i:73019077 original size:41 final size:41
Alignment explanation
Indices: 73019032--73019144 Score: 153
Period size: 41 Copynumber: 2.9 Consensus size: 41
73019022 CTTATCGGAT
*
73019032 AATTCGAAGTAGTAAATTGACACTCAGTGTCTCATTGAATA
1 AATTCGAAGTAGTAAATTGACACCCAGTGTCTCATTGAATA
**
73019073 AATTCGAAGTAGTAAATTGACACCCAGTGTCTCATTGGTTA
1 AATTCGAAGTAGTAAATTGACACCCAGTGTCTCATTGAATA
* *
73019114 AATT-G-A--AGTAAATTGGCACCCAGTGCCTCAT
1 AATTCGAAGTAGTAAATTGACACCCAGTGTCTCAT
73019145 CGACTCGAAG
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
37 23 0.34
39 1 0.01
40 1 0.01
41 42 0.63
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (41 bp):
AATTCGAAGTAGTAAATTGACACCCAGTGTCTCATTGAATA
Found at i:73020072 original size:6 final size:6
Alignment explanation
Indices: 73020048--73020144 Score: 63
Period size: 6 Copynumber: 15.3 Consensus size: 6
73020038 AGGACATGGC
* * *
73020048 TTTCTT TCTTCTT TCTCTT TTTCTT TTTCTT TTTCTT TCTT-TCT TTCCTG
1 TTTCTT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT T-TTCT-T TTTCTT
* * *
73020098 TTTC-G TTTCGTT TTGCTTT GTTTCTT TTTCTA TTTCTT TTGTCTT TT
1 TTTCTT TTTC-TT TTTC-TT -TTTCTT TTTCTT TTTCTT TT-TCTT TT
73020145 ATTTATTTGT
Statistics
Matches: 72, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
5 5 0.07
6 40 0.56
7 24 0.33
8 3 0.04
ACGTcount: A:0.01, C:0.20, G:0.06, T:0.73
Consensus pattern (6 bp):
TTTCTT
Found at i:73020083 original size:31 final size:31
Alignment explanation
Indices: 73020048--73020144 Score: 90
Period size: 31 Copynumber: 3.1 Consensus size: 31
73020038 AGGACATGGC
*
73020048 TTTCTTTCTTCTTTCTCTTTTTCTTTTTCTT
1 TTTCTTTCTTCTTTCTCTATTTCTTTTTCTT
* *
73020079 TTTCTTTCTTTCTTTC-CTGTTTC-GTTTCGTT
1 TTTCTTTC-TTCTTTCTCTATTTCTTTTTC-TT
* * *
73020110 TTGCTTTGTTTCTTTTTCTATTTCTTTTGTCTT
1 TTTCTTT-CTTCTTTCTCTATTTCTTTT-TCTT
73020143 TT
1 TT
73020145 ATTTATTTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
30 4 0.08
31 28 0.53
32 13 0.25
33 6 0.11
34 2 0.04
ACGTcount: A:0.01, C:0.20, G:0.06, T:0.73
Consensus pattern (31 bp):
TTTCTTTCTTCTTTCTCTATTTCTTTTTCTT
Found at i:73021489 original size:4 final size:4
Alignment explanation
Indices: 73021473--73021603 Score: 122
Period size: 4 Copynumber: 32.2 Consensus size: 4
73021463 GGAATAACAG
* * * * *
73021473 ATAA ATGA ATAA ATAA ATTAAA ACAA ATAA GTAA ATAA ATGA AT-A ATAT
1 ATAA ATAA ATAA ATAA A-T-AA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* ** * *
73021522 ATAA ATAA ATAA GTAA ATAA ATAA GCAA ATGA ATAAA ATAAA ATGA AT-A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA AT-AA ATAA ATAA
73021571 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
73021604 AGGAAACAGT
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
3 6 0.06
4 86 0.83
5 9 0.09
6 3 0.03
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:73021530 original size:53 final size:53
Alignment explanation
Indices: 73021473--73021596 Score: 157
Period size: 53 Copynumber: 2.3 Consensus size: 53
73021463 GGAATAACAG
*
73021473 ATAAATGAATAAATAAATTAAAACAAAT-AAGT-AAAT-AAATGAATAATATATAA
1 ATAAAT-AATAAATAAATT-AAACAAATGAA-TAAAATAAAATGAATAATAAATAA
*
73021526 ATAAATAAGTAAATAAA-TAAGCAAATGAATAAAATAAAATGAATAATAAATAA
1 ATAAATAA-TAAATAAATTAAACAAATGAATAAAATAAAATGAATAATAAATAA
73021579 ATAAATAAATAAATAAAT
1 ATAAAT-AATAAATAAAT
73021597 AAATAAAAGG
Statistics
Matches: 63, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
51 8 0.13
52 9 0.14
53 44 0.70
54 2 0.03
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.25
Consensus pattern (53 bp):
ATAAATAATAAATAAATTAAACAAATGAATAAAATAAAATGAATAATAAATAA
Found at i:73023373 original size:44 final size:44
Alignment explanation
Indices: 73023263--73023381 Score: 130
Period size: 45 Copynumber: 2.7 Consensus size: 44
73023253 GATTTGTAAC
* * *
73023263 TTGTAACTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAAAT
1 TTGTAACTTTAATCTGCTCCACTACAACTTTAAGGAAATAAAAT
* * * * * *
73023307 TAGCTATCTTCAATCTGCTCCACTACTACTTTAAGGAGATAAGAT
1 TTG-TAACTTTAATCTGCTCCACTACAACTTTAAGGAAATAAAAT
* *
73023352 TTGTAGCTTTAATCTGCTCCACTGCAACTT
1 TTGTAACTTTAATCTGCTCCACTACAACTT
73023382 CAGGGAGGTA
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 25 0.42
45 35 0.58
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.36
Consensus pattern (44 bp):
TTGTAACTTTAATCTGCTCCACTACAACTTTAAGGAAATAAAAT
Found at i:73023394 original size:44 final size:44
Alignment explanation
Indices: 73023263--73023396 Score: 151
Period size: 44 Copynumber: 3.0 Consensus size: 44
73023253 GATTTGTAAC
* * *
73023263 TTGTAACTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAAAT
1 TTGTAACTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
* * * * * *
73023307 TAGCTATCTTCAATCTGCTCCACTACTACTTTAAGGAGATAAGAT
1 TTG-TAACTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
* * *
73023352 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGGTAAGAT
1 TTGTAACTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
73023396 T
1 T
73023397 CACCACGGTG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
44 37 0.51
45 35 0.49
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (44 bp):
TTGTAACTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
Found at i:73032676 original size:42 final size:41
Alignment explanation
Indices: 73032548--73032706 Score: 174
Period size: 42 Copynumber: 3.8 Consensus size: 41
73032538 CACACGGTAC
* **
73032548 CATACCAATGCCATATCCCAGATATGGTCTTACGTGAAATCT
1 CATACCGATGCCATATCCCAGATATGGTCTTAC-ACAAATCT
* * * * *
73032590 CGTATCGATGCCAATAGCCCAGCTATAGTCTTACACGAAATCT
1 CATACCGATGCC-ATATCCCAGATATGGTCTTACAC-AAATCT
* *
73032633 CATACCGATGCCATATCCAAGATATGGTCTTGCACAAAGTCT
1 CATACCGATGCCATATCCCAGATATGGTCTTACACAAA-TCT
* *
73032675 CATATCGATGTCATATCCCAGATATGGTCTTA
1 CATACCGATGCCATATCCCAGATATGGTCTTA
73032707 AACATTGTCT
Statistics
Matches: 95, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
41 3 0.03
42 58 0.61
43 34 0.36
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (41 bp):
CATACCGATGCCATATCCCAGATATGGTCTTACACAAATCT
Found at i:73032681 original size:85 final size:84
Alignment explanation
Indices: 73032548--73032706 Score: 203
Period size: 85 Copynumber: 1.9 Consensus size: 84
73032538 CACACGGTAC
* ** * *
73032548 CATACCAATGCCATATCCCAGATATGGTCTTACGTGAAATCTCGTATCGATGCCAATAGCCCAGC
1 CATACCAATGCCATATCCAAGATATGGTCTTACGACAAATCTCATATCGATGCC-ATAGCCCAGA
73032613 TATAGTCTTACACGAAATCT
65 TATAGTCTTACACGAAATCT
* * * *
73032633 CATACCGATGCCATATCCAAGATATGGTCTTGC-ACAAAGTCTCATATCGATGTCATATCCCAGA
1 CATACCAATGCCATATCCAAGATATGGTCTTACGACAAA-TCTCATATCGATGCCATAGCCCAGA
*
73032697 TATGGTCTTA
65 TATAGTCTTA
73032707 AACATTGTCT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
84 20 0.32
85 43 0.68
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (84 bp):
CATACCAATGCCATATCCAAGATATGGTCTTACGACAAATCTCATATCGATGCCATAGCCCAGAT
ATAGTCTTACACGAAATCT
Found at i:73036535 original size:28 final size:28
Alignment explanation
Indices: 73036495--73036559 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
73036485 ATGTACTAGA
*
73036495 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
73036523 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
73036551 ATACCCCTA
1 ATACCCCTA
73036560 GGGATAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:73036706 original size:28 final size:29
Alignment explanation
Indices: 73036665--73036727 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
73036655 AGGAAGCGTC
* *
73036665 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCCATGCCACAAAATATCTGTAT
*
73036693 CTGGTGGCCCTGCCACAAAATATCTGTAT
1 CTGGTGGCCATGCCACAAAATATCTGTAT
73036722 CTGGTG
1 CTGGTG
73036728 ACTCTGTCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 24 0.77
29 7 0.23
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCCATGCCACAAAATATCTGTAT
Found at i:73036738 original size:29 final size:28
Alignment explanation
Indices: 73036675--73036738 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
73036665 CTGGTGGCTA
* *
73036675 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACCC
*
73036703 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACCC
*
73036732 TGTCACA
1 TGCCACA
73036739 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACCC
Found at i:73043054 original size:49 final size:49
Alignment explanation
Indices: 73042998--73043231 Score: 288
Period size: 49 Copynumber: 4.7 Consensus size: 49
73042988 TATCTGGTAG
*
73042998 CATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACA
* ** * *
73043047 CATAGTAGCCTGCACTTAGTACTACACAAGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACA
* * * * *
73043097 CATAGTAGCTTGCACTTAGTTCTACACACGTGATCGAAGTTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACA
* * * *
73043148 CATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATTCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACA
* *
73043197 CGTAGTAGCCTGCACTTAGTACTACAAACGTGACC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC
73043232 TCACAATAGA
Statistics
Matches: 156, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 73 0.47
50 45 0.29
51 38 0.24
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACA
Found at i:73043171 original size:101 final size:98
Alignment explanation
Indices: 73042998--73043231 Score: 299
Period size: 101 Copynumber: 2.4 Consensus size: 98
73042988 TATCTGGTAG
*
73042998 CATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACATAGTAGCCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACT
*
73043063 TAGTACTACACAAGTGACCTAACCA-TCTGATACA
66 TAGTACTACACAAGCGACC-AACCATTC-GATACA
* * * * * *
73043097 CATAGTAGCTTGCACTTAGTTCTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCTTGCA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCA
* ** *
73043162 CTTAGTACTACACATGCGACCAATTATTCGGTACA
64 CTTAGTACTACACAAGCGACCAACCATTCGATACA
* *
73043197 CGTAGTAGCCTGCACTTAGTACTACAAACGTGACC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC
73043232 TCACAATAGA
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
99 31 0.27
100 40 0.35
101 44 0.38
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (98 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACT
TAGTACTACACAAGCGACCAACCATTCGATACA
Found at i:73047812 original size:46 final size:45
Alignment explanation
Indices: 73047723--73047985 Score: 191
Period size: 46 Copynumber: 5.7 Consensus size: 45
73047713 GCATATCTGT
* * *
73047723 GCCGATGCCATGTCCCAAACATGGTCTCACACT-GACACATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGACACGTCTCGTA
*
73047769 GCCGATGCATGTCCTAGACATGTCTTACACTAG-CTTACGTCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGAC--ACGTCTCGTA
*** * *
73047814 GGTTAAAGCATGTCCCAGACATGTCTTACACTAG-CACTTGTCTC-AA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGACAC--GTCTCGTA
* * * * *
73047860 TGTCAATGCCATGTCCCAGACATGGTCTCATACT-GACACATCTCGTA
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGACACGTCTCGTA
* *
73047907 GCCGATGCATGTCCCTGACATGTCTTACACTAGA-ATTCGTCTCAATA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGACA--CGTCTC-GTA
73047954 -CCGATGCCATGTCCCAGACATGATCTTACACT
1 GCCGATG-CATGTCCCAGACATG-TCTTACACT
73047986 GGCTCTCATA
Statistics
Matches: 176, Mismatches: 24, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
44 21 0.12
45 29 0.16
46 74 0.42
47 32 0.18
48 20 0.11
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGACACGTCTCGTA
Found at i:73047967 original size:47 final size:47
Alignment explanation
Indices: 73047822--73047985 Score: 160
Period size: 47 Copynumber: 3.5 Consensus size: 47
73047812 GAGGTTAAAG
* ** *
73047822 CATGTCCCAGACATGTCTTACACTAGCACTT-GTCTCAATGTCAATGC
1 CATGTCCCAGACATGTCTTACACTAG-AATTCGTCTCAATACCGATGC
* * * *
73047869 CATGTCCCAGACATGGTCTCATACT-GACA--CATCTC-GTAGCCGATG-
1 CATGTCCCAGACAT-GTCTTACACTAGA-ATTCGTCTCAATA-CCGATGC
*
73047914 CATGTCCCTGACATGTCTTACACTAGAATTCGTCTCAATACCGATGC
1 CATGTCCCAGACATGTCTTACACTAGAATTCGTCTCAATACCGATGC
73047961 CATGTCCCAGACATGATCTTACACT
1 CATGTCCCAGACATG-TCTTACACT
73047986 GGCTCTCATA
Statistics
Matches: 93, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
44 9 0.10
45 16 0.17
46 20 0.22
47 31 0.33
48 17 0.18
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGAATTCGTCTCAATACCGATGC
Found at i:73055623 original size:10 final size:10
Alignment explanation
Indices: 73055608--73055633 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
73055598 TTATACTTAA
73055608 TTTTGATTAT
1 TTTTGATTAT
73055618 TTTTGATTAT
1 TTTTGATTAT
73055628 TTTTGA
1 TTTTGA
73055634 CAGATTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (10 bp):
TTTTGATTAT
Found at i:73057646 original size:14 final size:14
Alignment explanation
Indices: 73057627--73057654 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
73057617 AGAATATTGT
73057627 GATATGGGCTTTAG
1 GATATGGGCTTTAG
73057641 GATATGGGCTTTAG
1 GATATGGGCTTTAG
73057655 AAAAACTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.36, T:0.36
Consensus pattern (14 bp):
GATATGGGCTTTAG
Found at i:73058494 original size:20 final size:19
Alignment explanation
Indices: 73058455--73058494 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
73058445 ACTTTACTAG
* *
73058455 AAAACAAATCTCTTTACAT
1 AAAACAAATATATTTACAT
73058474 AAAACAAATATATTATACAT
1 AAAACAAATATATT-TACAT
73058494 A
1 A
73058495 TACAGCTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAACAAATATATTTACAT
Found at i:73059704 original size:27 final size:27
Alignment explanation
Indices: 73059602--73059697 Score: 147
Period size: 27 Copynumber: 3.6 Consensus size: 27
73059592 CTAAATTGAA
73059602 AAAATGACTATTTTGCCCTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
*
73059629 AAAATGACTGTTTTGCCCTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
* * *
73059656 AAAATAACTATTTTTCCTTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
*
73059683 AAAATGACTGTTTTG
1 AAAATGACTATTTTG
73059698 TATTTATATA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (27 bp):
AAAATGACTATTTTGCCCTTATGTGGT
Found at i:73061577 original size:50 final size:50
Alignment explanation
Indices: 73061523--73061684 Score: 229
Period size: 50 Copynumber: 3.3 Consensus size: 50
73061513 CTAAGATAGG
* ** *
73061523 AGTTACATAATGCATGACACAATTTATGATGCAATCTTAACTAACATGAG
1 AGTTACATAATGCATGTCATTATTTATGATGCAATCTTAACTAACATGAA
* *
73061573 AGTTACATAATGCATGTCATTATGTATGATGCAA-CTTAACTAACATAAA
1 AGTTACATAATGCATGTCATTATTTATGATGCAATCTTAACTAACATGAA
* *
73061622 AGTTACATAATGCATGTCATTATTTATGATGC-ATACTTAAATAGCATGAA
1 AGTTACATAATGCATGTCATTATTTATGATGCAAT-CTTAACTAACATGAA
73061672 AGTTACATAATGC
1 AGTTACATAATGC
73061685 CCGACTTTAT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
48 1 0.01
49 44 0.44
50 55 0.55
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (50 bp):
AGTTACATAATGCATGTCATTATTTATGATGCAATCTTAACTAACATGAA
Found at i:73061612 original size:99 final size:101
Alignment explanation
Indices: 73061499--73061684 Score: 261
Period size: 99 Copynumber: 1.9 Consensus size: 101
73061489 TTCATTAAAA
* **
73061499 GATGCAAACTTTAACTAAGATAGGAGTTACATAATGCATGACACAATTTATGATGCA-ATCTTAA
1 GATGCAAACTTTAACTAACATAAAAGTTACATAATGCATGACACAATTTATGATGCATA-CTTAA
* *
73061563 CTAACATGAGAGTTACATAATGCATGTCATTATGTAT
65 ATAACATGAAAGTTACATAATGCATGTCATTATGTAT
* **
73061600 GATGC-AAC-TTAACTAACATAAAAGTTACATAATGCATGTCATTATTTATGATGCATACTTAAA
1 GATGCAAACTTTAACTAACATAAAAGTTACATAATGCATGACACAATTTATGATGCATACTTAAA
*
73061663 TAGCATGAAAGTTACATAATGC
66 TAACATGAAAGTTACATAATGC
73061685 CCGACTTTAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
99 66 0.88
100 4 0.05
101 5 0.07
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (101 bp):
GATGCAAACTTTAACTAACATAAAAGTTACATAATGCATGACACAATTTATGATGCATACTTAAA
TAACATGAAAGTTACATAATGCATGTCATTATGTAT
Found at i:73061630 original size:49 final size:49
Alignment explanation
Indices: 73061499--73061684 Score: 228
Period size: 50 Copynumber: 3.7 Consensus size: 49
73061489 TTCATTAAAA
* ** * **
73061499 GATGCAAACTTTAACTAAGATAGGAGTTACATAATGCATGACACAATTTAT
1 GATGC-AAC-TTAACTAACATAAAAGTTACATAATGCATGTCATTATTTAT
* * *
73061550 GATGCAATCTTAACTAACATGAGAGTTACATAATGCATGTCATTATGTAT
1 GATGCAA-CTTAACTAACATAAAAGTTACATAATGCATGTCATTATTTAT
73061600 GATGCAACTTAACTAACATAAAAGTTACATAATGCATGTCATTATTTAT
1 GATGCAACTTAACTAACATAAAAGTTACATAATGCATGTCATTATTTAT
* * *
73061649 GATGCATACTTAAATAGCATGAAAGTTACATAATGC
1 GATGCA-ACTTAACTAACATAAAAGTTACATAATGC
73061685 CCGACTTTAT
Statistics
Matches: 120, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
49 45 0.38
50 69 0.57
51 6 0.05
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (49 bp):
GATGCAACTTAACTAACATAAAAGTTACATAATGCATGTCATTATTTAT
Found at i:73063079 original size:25 final size:25
Alignment explanation
Indices: 73063021--73063073 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
73063011 ATGAACCCAT
73063021 GATGTATGTATAAGTGCAAACCAAG
1 GATGTATGTATAAGTGCAAACCAAG
73063046 GATGTATGTATAAGTGCAAACCAAG
1 GATGTATGTATAAGTGCAAACCAAG
73063071 GAT
1 GAT
73063074 TGATGTGTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.25
Consensus pattern (25 bp):
GATGTATGTATAAGTGCAAACCAAG
Found at i:73066424 original size:31 final size:31
Alignment explanation
Indices: 73066379--73066439 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
73066369 ATTGTATAAT
73066379 TTTCTCTTTAGTTTTAGACTTTAGTTTTTCC
1 TTTCTCTTTAGTTTTAGACTTTAGTTTTTCC
* * *
73066410 TTTCT-TTTAGGTTTTGGATTTTATTTTTTC
1 TTTCTCTTTA-GTTTTAGACTTTAGTTTTTC
73066440 ATTCTTGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.66
Consensus pattern (31 bp):
TTTCTCTTTAGTTTTAGACTTTAGTTTTTCC
Found at i:73066445 original size:30 final size:30
Alignment explanation
Indices: 73066380--73066445 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
73066370 TTGTATAATT
*
73066380 TTCTCTTTAGTTTTAGACTTTAGTTTTTCCT
1 TTCT-TTTAGTTTTAGACTTTAGTTTTTCCA
* * *
73066411 TTCTTTTAGGTTTTGGATTTTA-TTTTTTCA
1 TTCTTTTA-GTTTTAGACTTTAGTTTTTCCA
73066441 TTCTT
1 TTCTT
73066446 GTTATTTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.12, C:0.12, G:0.11, T:0.65
Consensus pattern (30 bp):
TTCTTTTAGTTTTAGACTTTAGTTTTTCCA
Found at i:73070803 original size:40 final size:39
Alignment explanation
Indices: 73070752--73070831 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 39
73070742 AAAAACCTCC
73070752 TTACCAACCGTACACTTTCACTACACATCTCAAATCCCT
1 TTACCAACCGTACACTTTCACTACACATCTCAAATCCCT
* *
73070791 TNTACCAGCCGTACACTTTCCCTACACATCTCAAATCCCT
1 T-TACCAACCGTACACTTTCACTACACATCTCAAATCCCT
73070831 T
1 T
73070832 ATTTTCCTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.03
40 37 0.97
ACGTcount: A:0.28, C:0.39, G:0.04, T:0.29
Consensus pattern (39 bp):
TTACCAACCGTACACTTTCACTACACATCTCAAATCCCT
Found at i:73083364 original size:10 final size:10
Alignment explanation
Indices: 73083349--73083397 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
73083339 ATTAGCATAT
73083349 TTAATTTTAA
1 TTAATTTTAA
73083359 TTAATTTGATAA
1 TTAATTT--TAA
* *
73083371 TAAATTTTGA
1 TTAATTTTAA
*
73083381 TTTATTTTAA
1 TTAATTTTAA
73083391 TTAATTT
1 TTAATTT
73083398 GATAATAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 22 0.71
12 9 0.29
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:73083389 original size:32 final size:33
Alignment explanation
Indices: 73083347--73083408 Score: 117
Period size: 32 Copynumber: 1.9 Consensus size: 33
73083337 TTATTAGCAT
73083347 ATTTAATTTTAATTAATTTGATAATAAATTTTG
1 ATTTAATTTTAATTAATTTGATAATAAATTTTG
73083380 ATTT-ATTTTAATTAATTTGATAATAAATT
1 ATTTAATTTTAATTAATTTGATAATAAATT
73083409 ATTAGCTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (33 bp):
ATTTAATTTTAATTAATTTGATAATAAATTTTG
Done.