Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 158 of 318
Found at i:49835647 original size:23 final size:23
Alignment explanation
Indices: 49835617--49835661 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
49835607 AGAACTTTTA
*
49835617 ATCAGGAAACTCACAAATAGCCT
1 ATCAGGAAACTCACAAAGAGCCT
*
49835640 ATCAGGAAGCTCACAAAGAGCC
1 ATCAGGAAACTCACAAAGAGCC
49835662 ATGTAATAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.27, G:0.18, T:0.13
Consensus pattern (23 bp):
ATCAGGAAACTCACAAAGAGCCT
Found at i:49836265 original size:21 final size:21
Alignment explanation
Indices: 49836239--49836284 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
49836229 TATACGAGTA
*
49836239 AATTTA-ACATCAATTTAATAC
1 AATTTATAC-TCAATTCAATAC
*
49836260 AATTTATACTCAATTCAATCC
1 AATTTATACTCAATTCAATAC
49836281 AATT
1 AATT
49836285 CACATTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTTATACTCAATTCAATAC
Found at i:49841428 original size:47 final size:47
Alignment explanation
Indices: 49841314--49841466 Score: 155
Period size: 48 Copynumber: 3.2 Consensus size: 47
49841304 TGATATGTGT
* * * * *
49841314 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGATATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACA-TAAA
* * *
49841362 GTTAGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGACA-AAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACATAA-A
* * * * *
49841409 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCTTCGCGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACATA-AA
49841457 GCTAGTGTAA
1 GCTAGTGTAA
49841467 AACCTGCCTA
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
46 1 0.01
47 36 0.42
48 48 0.56
49 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACATAAA
Found at i:49842847 original size:30 final size:30
Alignment explanation
Indices: 49842811--49842878 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
49842801 TGATAGGTTT
49842811 TAAATATTTATAATTAATCATTCTTGAAAC
1 TAAATATTTATAATTAATCATTCTTGAAAC
49842841 TAAATATTTATAATTAATCATTCTTGAAAC
1 TAAATATTTATAATTAATCATTCTTGAAAC
*
49842871 TAACTATT
1 TAAATATT
49842879 ATCGCGATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (30 bp):
TAAATATTTATAATTAATCATTCTTGAAAC
Found at i:49853809 original size:93 final size:93
Alignment explanation
Indices: 49853677--49853848 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
49853667 CGCCCATAAG
* *
49853677 CGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCATCCAAAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCAAAAGTGAACTCGGACTCAACTCA
49853742 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCT
* * *
49853770 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCAAAAGTGAACTCGGACTCAACTC
49853834 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
49853849 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCAAAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:49853838 original size:46 final size:46
Alignment explanation
Indices: 49853670--49853845 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
49853660 TGTAACCCGC
* * * *
49853670 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCAT
* * * *
49853716 CCAAAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
49853766 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
49853809 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
49853846 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
45 2 0.02
46 59 0.55
47 29 0.27
49 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:49853864 original size:46 final size:46
Alignment explanation
Indices: 49853721--49853864 Score: 131
Period size: 46 Copynumber: 3.1 Consensus size: 46
49853711 CGCATCCAAA
49853721 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CT
* * * *
49853770 --CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
49853814 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
49853860 AGTGA
1 AGTGA
49853865 CATGTCACTT
Statistics
Matches: 77, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
44 8 0.10
45 1 0.01
46 33 0.43
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:49856275 original size:30 final size:30
Alignment explanation
Indices: 49856232--49856319 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
49856222 AAAGATAACA
49856232 AGAAAACC-GAATAAAGAAATCCAAGATAG
1 AGAAAACCAGAATAAAGAAATCCAAGATAG
*
49856261 AGAAACCCAGAATAAAGAAATCC-AGAATAG
1 AGAAAACCAGAATAAAGAAATCCAAG-ATAG
* * * *
49856291 AGAGATCCAGGATAAAGAAACCCAAGATA
1 AGAAAACCAGAATAAAGAAATCCAAGATA
49856320 CGATACTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
29 9 0.18
30 40 0.78
31 2 0.04
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AGAAAACCAGAATAAAGAAATCCAAGATAG
Found at i:49856279 original size:15 final size:15
Alignment explanation
Indices: 49856231--49856310 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
49856221 CAAAGATAAC
*
49856231 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
49856245 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
49856260 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
49856275 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* * *
49856290 GAGAGATCCAGGATA
1 AAGAAATCCAGAATA
49856305 AAGAAA
1 AAGAAA
49856311 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.19, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:49856319 original size:15 final size:15
Alignment explanation
Indices: 49856242--49856319 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
49856232 AGAAAACCGA
49856242 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
49856257 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
49856271 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* * *
49856286 AATAGAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
49856302 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
49856317 ATA
1 ATA
49856320 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 4 0.08
15 43 0.86
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:49859377 original size:93 final size:93
Alignment explanation
Indices: 49859265--49859436 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
49859255 CGCCCATAAG
* *
49859265 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49859330 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCT
* *
49859358 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49859423 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
49859437 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:49859433 original size:46 final size:46
Alignment explanation
Indices: 49859258--49859433 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
49859248 TGTAACCCGC
* * * *
49859258 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
49859304 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
49859354 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
49859397 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
49859434 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 63 0.57
47 29 0.26
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:49859452 original size:46 final size:46
Alignment explanation
Indices: 49859266--49859452 Score: 140
Period size: 46 Copynumber: 4.0 Consensus size: 46
49859256 GCCCATAAGC
* ** * *
49859266 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
*
49859312 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CTAGT
* * *
49859359 GAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCTAGT
49859405 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
49859451 GA
1 GA
49859453 CATGTCACTT
Statistics
Matches: 112, Mismatches: 12, Indels: 34
0.71 0.08 0.22
Matches are distributed among these distances:
44 8 0.07
45 2 0.02
46 61 0.54
47 31 0.28
49 3 0.03
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:49861859 original size:30 final size:30
Alignment explanation
Indices: 49861816--49861903 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
49861806 AAAGATAACA
49861816 AGAAAACC-GAATAAAGAAATCCAAGATAG
1 AGAAAACCAGAATAAAGAAATCCAAGATAG
*
49861845 AGAAACCCAGAATAAAGAAATCC-AGAATAG
1 AGAAAACCAGAATAAAGAAATCCAAG-ATAG
* * * *
49861875 AGAGATCCAGGATAAAGAAACCCAAGATA
1 AGAAAACCAGAATAAAGAAATCCAAGATA
49861904 CGATACTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
29 9 0.18
30 40 0.78
31 2 0.04
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AGAAAACCAGAATAAAGAAATCCAAGATAG
Found at i:49861863 original size:15 final size:15
Alignment explanation
Indices: 49861815--49861894 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
49861805 CAAAGATAAC
*
49861815 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
49861829 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
49861844 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
49861859 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* * *
49861874 GAGAGATCCAGGATA
1 AAGAAATCCAGAATA
49861889 AAGAAA
1 AAGAAA
49861895 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.19, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:49861903 original size:15 final size:15
Alignment explanation
Indices: 49861826--49861903 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
49861816 AGAAAACCGA
49861826 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
49861841 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
49861855 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* * *
49861870 AATAGAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
49861886 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
49861901 ATA
1 ATA
49861904 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 4 0.08
15 43 0.86
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:49864961 original size:93 final size:93
Alignment explanation
Indices: 49864849--49865020 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
49864839 CGCCCATAAG
* *
49864849 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49864914 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCT
* *
49864942 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49865007 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
49865021 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:49865017 original size:46 final size:46
Alignment explanation
Indices: 49864842--49865017 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
49864832 TGTAACCCGC
* * * *
49864842 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
49864888 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
49864938 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
49864981 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
49865018 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 63 0.57
47 29 0.26
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:49865036 original size:46 final size:46
Alignment explanation
Indices: 49864850--49865036 Score: 140
Period size: 46 Copynumber: 4.0 Consensus size: 46
49864840 GCCCATAAGC
* ** * *
49864850 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
*
49864896 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CTAGT
* * *
49864943 GAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCTAGT
49864989 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
49865035 GA
1 GA
49865037 CATGTCACTT
Statistics
Matches: 112, Mismatches: 12, Indels: 34
0.71 0.08 0.22
Matches are distributed among these distances:
44 8 0.07
45 2 0.02
46 61 0.54
47 31 0.28
49 3 0.03
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:49872400 original size:46 final size:48
Alignment explanation
Indices: 49872329--49872495 Score: 157
Period size: 46 Copynumber: 3.6 Consensus size: 48
49872319 TATGTGTGCT
* *
49872329 AGTGTAAGACATGTTTGGGACATGCATCAGCCAC-A-ACA-TGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCACGAGACATTGA-AGCC
* ** * * *
49872375 AGTGTAAGACATGTCTAGGATATGCATTGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCACGAGACATTGAAGCC
* * *
49872423 AGTGTAAGACATGTCTAGGACATGCATCAG-CATTGAGACA-AG-AGCT
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCA-CGAGACATTGAAGCC
* *
49872469 AATGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTAGGACATGCAT
49872496 GGATCATAAA
Statistics
Matches: 98, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
46 56 0.57
47 2 0.02
48 38 0.39
49 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCCACGAGACATTGAAGCC
Found at i:49872860 original size:11 final size:10
Alignment explanation
Indices: 49872834--49872867 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
49872824 GGAGAGCACC
*
49872834 AAGAGTCAAA
1 AAGAGCCAAA
49872844 AAGAGCCAAA
1 AAGAGCCAAA
49872854 AACGAGCCAAA
1 AA-GAGCCAAA
49872865 AAG
1 AAG
49872868 GGACAAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.18, G:0.21, T:0.03
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:49874846 original size:94 final size:92
Alignment explanation
Indices: 49874720--49874890 Score: 261
Period size: 94 Copynumber: 1.8 Consensus size: 92
49874710 TTTGTGTGCC
* * *
49874720 AGTGTAAGACATGTCTGGGACATGCATTAGCCACATTATGATAGCAAATGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCAAATGTAAGA-CATGTCTGG
49874785 GACATGGCATCAGCATTAAGACGAGGGCT
65 GACAT-GCATCAGCATTAAGACGAGGGCT
* * * *
49874814 AGTGTAAGACATGTCTGGGACATGTATCAGCCATAGTATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCAAATGTAAGACATGTCTGGG
49874879 ACATGCATCAGC
66 ACATGCATCAGC
49874891 CTCGAGATTT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 8 0.11
93 14 0.20
94 48 0.69
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCAAATGTAAGACATGTCTGGG
ACATGCATCAGCATTAAGACGAGGGCT
Found at i:49874866 original size:46 final size:45
Alignment explanation
Indices: 49874717--49874977 Score: 233
Period size: 46 Copynumber: 5.7 Consensus size: 45
49874707 AGATTTGTGT
* * * *
49874717 GCCAGTGTAAGACATGTCTGGGACATGCATTAGCCACATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATA-GATGAGA
* * * *
49874763 GCAAATGTAAGACCATGTCTGGGACATGGCATCAG-CATTAAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-T-AGATGAGA
* *
49874811 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCATAGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATAG-ATGAGA
***
49874857 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCC-TCGAGATTTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--AGATGAGA
* * * * * *
49874903 GCCAGTGTCAGACATGTCTTGGACATGCGTCGGCTAT-GA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATAGATGA-GA
*
49874947 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
49874978 TGCACGGTCA
Statistics
Matches: 174, Mismatches: 31, Indels: 22
0.77 0.14 0.10
Matches are distributed among these distances:
44 29 0.17
45 3 0.02
46 87 0.50
47 35 0.20
48 19 0.11
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATAGATGAGA
Found at i:49874999 original size:136 final size:140
Alignment explanation
Indices: 49874714--49875014 Score: 321
Period size: 136 Copynumber: 2.2 Consensus size: 140
49874704 ATGAGATTTG
* *
49874714 TGTGCCAGTGTAAGACATGTCTGGGACATGCATTAGCCACATTATGATAGCAAATGTAAGACCAT
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGATAGCAAATGTAAGACCAT
*
49874779 GTCTGGGACATGGCATCAGCATTAAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGTATCAG
66 GTCTGGGACATGGCATCAGCA-TAAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAG
* *
49874844 CCATAGTATGA
130 CCACAGTATCA
* * ** * * *
49874855 -GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATTTTAGCCAGTGTCAGA-CA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGATAGCAAATGTAAGACCA
* * * * * *
49874917 TGTCTTGGACAT-GCGTCGGC-TATGA-GATGTGCTAGTGTAAGACATGTCTGGGACATGCATCT
65 TGTCTGGGACATGGCATCAGCATAAGACGA-GGGCTAGTGTAAGACATGTCTGGGACATGCATCA
*
49874979 G-CACGGTCA-CA
129 GCCACAGT-ATCA
* *
49874990 TGTGTCAGTGTAAGACCTGTCTGGG
1 TGTGCCAGTGTAAGACATGTCTGGG
49875015 GCACGTCATC
Statistics
Matches: 134, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
135 7 0.05
136 58 0.43
138 6 0.04
139 13 0.10
140 49 0.37
141 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (140 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGATAGCAAATGTAAGACCAT
GTCTGGGACATGGCATCAGCATAAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
CACAGTATCA
Found at i:49879825 original size:16 final size:16
Alignment explanation
Indices: 49879799--49879836 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
49879789 AAGAGCTCAT
49879799 TTATGTCATGTTGTATG
1 TTAT-TCATGTTGTATG
49879816 TTATTCATGTTGTATG
1 TTATTCATGTTGTATG
49879832 TTATT
1 TTATT
49879837 GGATAAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.18, C:0.05, G:0.18, T:0.58
Consensus pattern (16 bp):
TTATTCATGTTGTATG
Found at i:49889954 original size:47 final size:47
Alignment explanation
Indices: 49889898--49890344 Score: 714
Period size: 47 Copynumber: 9.5 Consensus size: 47
49889888 ATTCAGCCAA
*
49889898 GAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
49889945 GAAAGTGTATATGTGTGATAAGGCCTAATAGCTGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
49889992 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
49890039 GAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
49890088 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
49890135 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
49890182 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
49890229 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
49890276 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
49890323 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
49890345 TCCCGAAGGG
Statistics
Matches: 374, Mismatches: 24, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 328 0.88
49 46 0.12
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:49890221 original size:190 final size:188
Alignment explanation
Indices: 49889898--49890344 Score: 732
Period size: 190 Copynumber: 2.4 Consensus size: 188
49889888 ATTCAGCCAA
* *
49889898 GAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
49889963 TAAGGCCTAATAGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
66 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGAT
49890028 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
131 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
49890088 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
49890153 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGAT
66 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGAT
*
49890218 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
131 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * * * * * * * *
49890276 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
49890341 TAAG
66 TAAG
49890345 TCCCGAAGGG
Statistics
Matches: 239, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
188 97 0.41
190 142 0.59
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (188 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:49890519 original size:37 final size:37
Alignment explanation
Indices: 49890463--49890541 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
49890453 CCGAGCTCTA
* * *
49890463 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
49890500 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
49890537 AAGAC
1 AAGAC
49890542 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:49895762 original size:48 final size:48
Alignment explanation
Indices: 49895631--49895964 Score: 310
Period size: 48 Copynumber: 6.9 Consensus size: 48
49895621 AAAAGGGTAA
*** * * *
49895631 AATGCCGATGCCATGTCCTGGACATGGTTTTACAATGGCTCTCATACATC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATA-A-C
** *
49895681 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* * * * * **
49895729 AATGCCAATGCCATGTTCCAAACATGGTTTTACATTGGCTCGCATATT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* *
49895777 GAGGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* * * * ** **
49895825 AATGCCGACGCCATCTTCCAAACATGGTCTTGCACTGGCTTGCATATT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* * * * * * *
49895873 GAGGCCGATGCCATATCCCAGACACGGTCTTACATTGACTCACATAAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
** *
49895921 AATGTTGATGCCAAT-TTCCAAACATGGTCTTACACTGGCTCACA
1 AATGCCGATGCC-ATGTCCCAAACATGGTCTTACACTGGCTCACA
49895965 CATAACCCTA
Statistics
Matches: 224, Mismatches: 59, Indels: 4
0.78 0.21 0.01
Matches are distributed among these distances:
48 182 0.81
49 3 0.01
50 39 0.17
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
Found at i:49895814 original size:96 final size:95
Alignment explanation
Indices: 49895631--49895961 Score: 412
Period size: 96 Copynumber: 3.4 Consensus size: 95
49895621 AAAAGGGTAA
* ** * * * *
49895631 AATGCCGATGCCATGTCCTGGACATGGTTTTACAATGGCTCTCATACATCG-GTGCCGATGCCAT
1 AATGCCGATGCCATTTCC-AAACATGGTCTTACACTGGCTCGCAT--ATTGAG-GCCGATGCCAT
49895695 GTCCCAGACATGGTCTTACACTGGCTCACATAAC
62 GTCCCAGACATGGTCTTACACTGGCTCACATAAC
* * *
49895729 AATGCCAATGCCATGTTCCAAACATGGTTTTACATTGGCTCGCATATTGAGGCCGATGCCATGTC
1 AATGCCGATGCCAT-TTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCCGATGCCATGTC
*
49895794 CCAAACATGGTCTTACACTGGCTCACATAAC
65 CCAGACATGGTCTTACACTGGCTCACATAAC
* * * *
49895825 AATGCCGACGCCATCTTCCAAACATGGTCTTGCACTGGCTTGCATATTGAGGCCGATGCCATATC
1 AATGCCGATGCCAT-TTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCCGATGCCATGTC
* * *
49895890 CCAGACACGGTCTTACATTGACTCACATAAC
65 CCAGACATGGTCTTACACTGGCTCACATAAC
**
49895921 AATGTTGATGCCAATTTCCAAACATGGTCTTACACTGGCTC
1 AATGCCGATGCC-ATTTCCAAACATGGTCTTACACTGGCTC
49895962 ACACATAACC
Statistics
Matches: 205, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
96 164 0.80
97 3 0.01
98 35 0.17
99 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (95 bp):
AATGCCGATGCCATTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCCGATGCCATGTCC
CAGACATGGTCTTACACTGGCTCACATAAC
Found at i:49904966 original size:2 final size:2
Alignment explanation
Indices: 49904959--49904984 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49904949 CTCCAATACA
49904959 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
49904985 CCTACCCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49905368 original size:18 final size:18
Alignment explanation
Indices: 49905347--49905399 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 18
49905337 GGGCCCATGA
*
49905347 GCCCATTGGGCCCAAATG
1 GCCCATTCGGCCCAAATG
49905365 GCCCATTTCGGCCCAAATG
1 GCCCA-TTCGGCCCAAATG
49905384 GCCCATTTCGGCCCAA
1 GCCCA-TTCGGCCCAA
49905400 CGTGGCCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 5 0.15
19 28 0.85
ACGTcount: A:0.21, C:0.38, G:0.23, T:0.19
Consensus pattern (18 bp):
GCCCATTCGGCCCAAATG
Found at i:49905416 original size:20 final size:19
Alignment explanation
Indices: 49905355--49905399 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
49905345 GAGCCCATTG
49905355 GGCCCAAATGGCCCATTTC
1 GGCCCAAATGGCCCATTTC
49905374 GGCCCAAATGGCCCATTTC
1 GGCCCAAATGGCCCATTTC
49905393 GGCCCAA
1 GGCCCAA
49905400 CGTGGCCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.38, G:0.22, T:0.18
Consensus pattern (19 bp):
GGCCCAAATGGCCCATTTC
Found at i:49920593 original size:28 final size:29
Alignment explanation
Indices: 49920553--49920663 Score: 113
Period size: 28 Copynumber: 3.9 Consensus size: 29
49920543 CATGACTATA
*
49920553 AATGTGATCTGGGCCTAGT-GGCCATATG
1 AATGTGATCTGGGCCTAATGGGCCATATG
*
49920581 AATGTGATTTGGGCCTAATGGGCCATATG
1 AATGTGATCTGGGCCTAATGGGCCATATG
* * *
49920610 AATGTGA-ATAGGCTTAATGGGCCATATG
1 AATGTGATCTGGGCCTAATGGGCCATATG
* * *
49920638 CAA-GAGAT-TGGGCCTAGTGGGTCATA
1 -AATGTGATCTGGGCCTAATGGGCCATA
49920664 AATAGGTATG
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 52 0.74
29 18 0.26
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (29 bp):
AATGTGATCTGGGCCTAATGGGCCATATG
Found at i:49923376 original size:26 final size:27
Alignment explanation
Indices: 49923345--49923400 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
49923335 ACCTTGGAAG
* *
49923345 AAAGTTCTTTGGCTTGGCTGTAAA-GA
1 AAAGTTCTTCGGCTTGGCCGTAAAGGA
49923371 AAAGTTCTTCGGCTTGGCCGTAAAGGA
1 AAAGTTCTTCGGCTTGGCCGTAAAGGA
49923398 AAA
1 AAA
49923401 CTGAGTCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (27 bp):
AAAGTTCTTCGGCTTGGCCGTAAAGGA
Found at i:49924341 original size:12 final size:12
Alignment explanation
Indices: 49924324--49924348 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49924314 TACACACCGG
49924324 TGTGCTAGGCCA
1 TGTGCTAGGCCA
49924336 TGTGCTAGGCCA
1 TGTGCTAGGCCA
49924348 T
1 T
49924349 ACCAAACTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (12 bp):
TGTGCTAGGCCA
Found at i:49925537 original size:48 final size:45
Alignment explanation
Indices: 49925480--49925617 Score: 116
Period size: 48 Copynumber: 2.9 Consensus size: 45
49925470 AATATATCTT
*
49925480 GCACTCGAAGTGCTAATATCTTAGCCAGTAGCCAAATCAATGAAGCTC
1 GCACCCGAAGTGCTAATATCTT-GCC-GTAGCCAAATCAATGAA-CTC
* * * * *
49925528 GTACCCGAAGTGCGACTATCATGACCCGAAGCCAAATCAAAAT-AACTC
1 GCACCCGAAGTGCTAATATCTTG--CCGTAGCCAAATC--AATGAACTC
* *
49925576 GCACCCAAAGTGCTAATATCATGGGCCGTAGCCAAATCAATG
1 GCACCCGAAGTGCTAATATC-T-TGCCGTAGCCAAATCAATG
49925618 TATCCTCTAA
Statistics
Matches: 70, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
46 3 0.04
47 1 0.01
48 58 0.83
49 4 0.06
50 4 0.06
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.20
Consensus pattern (45 bp):
GCACCCGAAGTGCTAATATCTTGCCGTAGCCAAATCAATGAACTC
Found at i:49930530 original size:25 final size:25
Alignment explanation
Indices: 49930501--49930550 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
49930491 ACTTATCCAG
49930501 GCTAAACAGGAAACTCATAAGAGTT
1 GCTAAACAGGAAACTCATAAGAGTT
*
49930526 GCTAAACAGGACACTCATAAGAGTT
1 GCTAAACAGGAAACTCATAAGAGTT
49930551 ATACTCAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (25 bp):
GCTAAACAGGAAACTCATAAGAGTT
Found at i:49932855 original size:64 final size:64
Alignment explanation
Indices: 49932754--49932883 Score: 242
Period size: 64 Copynumber: 2.0 Consensus size: 64
49932744 CTTTGTTAGT
*
49932754 TTGATTTTAATACATTCTGATTGATTGATATAGACACTGTTTAAAAGATTCGCAAGGTTAATTC
1 TTGATTTTAATACATTCTGATTGATTGATATAGACACTGTTTAAAAGATTCGCAAGATTAATTC
*
49932818 TTGATTTTAATACATTCTGATTGATTGATATAGACACTTTTTAAAAGATTCGCAAGATTAATTC
1 TTGATTTTAATACATTCTGATTGATTGATATAGACACTGTTTAAAAGATTCGCAAGATTAATTC
49932882 TT
1 TT
49932884 ACCTCATTGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (64 bp):
TTGATTTTAATACATTCTGATTGATTGATATAGACACTGTTTAAAAGATTCGCAAGATTAATTC
Found at i:49935264 original size:40 final size:40
Alignment explanation
Indices: 49935209--49935398 Score: 319
Period size: 40 Copynumber: 4.8 Consensus size: 40
49935199 GATGATAACG
* *
49935209 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
49935249 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
49935289 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
**
49935329 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
49935369 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
49935399 AGCTATATCC
Statistics
Matches: 142, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.01
40 140 0.99
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:49935405 original size:40 final size:39
Alignment explanation
Indices: 49935209--49935424 Score: 303
Period size: 40 Copynumber: 5.4 Consensus size: 39
49935199 GATGATAACG
*
49935209 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATTCC
49935249 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATTCC
49935289 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATTCC
*
49935329 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTAAT-TCC
*
49935369 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAT-TCC
* *
49935409 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
49935425 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
39 19 0.11
40 145 0.87
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATTCC
Found at i:49938891 original size:27 final size:27
Alignment explanation
Indices: 49938860--49938911 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
49938850 CATCTAATAT
*
49938860 TGATTCTG-TATTGGGCTTAGGCCCACC
1 TGATTCTGTTAATGGGC-TAGGCCCACC
49938887 TGATTCTGTTAATGGGCTAGGCCCA
1 TGATTCTGTTAATGGGCTAGGCCCA
49938912 ACTGTTACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.17, C:0.23, G:0.27, T:0.33
Consensus pattern (27 bp):
TGATTCTGTTAATGGGCTAGGCCCACC
Found at i:49940734 original size:42 final size:43
Alignment explanation
Indices: 49940685--49940787 Score: 109
Period size: 44 Copynumber: 2.4 Consensus size: 43
49940675 TCCCATACAG
* * * *
49940685 GGTCTTACATGAAATCAGATA-TGATGTCGATGTCCAAGACAT
1 GGTCTTACATGAAATCAGAAATTGATGCCAACGTCCAAGACAT
* * * **
49940727 GGTCTTACACGTAAAACAGAAATTGATGCCAACGTCCCAGATGT
1 GGTCTTACATG-AAATCAGAAATTGATGCCAACGTCCAAGACAT
49940771 GGTCTTACATGAAATCA
1 GGTCTTACATGAAATCA
49940788 CATAACGCAA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
42 10 0.21
43 13 0.27
44 25 0.52
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGAAATCAGAAATTGATGCCAACGTCCAAGACAT
Found at i:49944658 original size:41 final size:40
Alignment explanation
Indices: 49944533--49944675 Score: 189
Period size: 40 Copynumber: 3.5 Consensus size: 40
49944523 AATCAAGCAT
* * * * *
49944533 CTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
49944573 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
* * *
49944613 CTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAATGC
49944654 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
49944676 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 57 0.63
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
Found at i:49945906 original size:38 final size:38
Alignment explanation
Indices: 49945864--49945939 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
49945854 CAAGAACTCC
49945864 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
49945902 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
49945940 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:49956735 original size:21 final size:21
Alignment explanation
Indices: 49956711--49956754 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
49956701 AAAAATGTGA
*
49956711 AAGATGCTTTATAGGTTCCTG
1 AAGATGCTTTACAGGTTCCTG
49956732 AAGATGCTTTACAGGTTCCTG
1 AAGATGCTTTACAGGTTCCTG
49956753 AA
1 AA
49956755 TGGAAGGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (21 bp):
AAGATGCTTTACAGGTTCCTG
Found at i:49966634 original size:47 final size:47
Alignment explanation
Indices: 49966575--49967016 Score: 681
Period size: 47 Copynumber: 9.4 Consensus size: 47
49966565 CAGCCAAGAC
* *
49966575 AGTGTATATATGTGATAAGGCATAATAGCCGATGTAATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
49966622 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
49966669 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
49966716 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
49966763 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAG
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
49966810 AGTGTATATATGTGATAAGGCCTAA-AGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATA-GCCGATGTGATGAATGTGAA
*
49966857 AGTGTATATATGTAATAAGGCCTAA-AGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATA-GCCGATGTGATGAATGTGAA
*
49966904 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * * *
49966951 AGTGTATATATATGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
49966998 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
49967017 TCCCGAAGGG
Statistics
Matches: 369, Mismatches: 24, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 368 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:49967191 original size:37 final size:37
Alignment explanation
Indices: 49967135--49967213 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
49967125 CCGAGCTCTA
* * *
49967135 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAAATACGTGTGGAG-ATTATGTCCGGGT
*
49967172 AAGACCCGATAAATTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAAATACGTGTGGAGATTATGTCCGGGT
49967209 AAGAC
1 AAGAC
49967214 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAAATACGTGTGGAGATTATGTCCGGGT
Found at i:49971448 original size:22 final size:22
Alignment explanation
Indices: 49971408--49971449 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
49971398 GTGAAAATGA
* *
49971408 CACAGAGCCATATTTAGGTTGG
1 CACAGAGCCATAATCAGGTTGG
49971430 CACAGAGCCATAATCAGGTT
1 CACAGAGCCATAATCAGGTT
49971450 AAGCAGCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (22 bp):
CACAGAGCCATAATCAGGTTGG
Found at i:49971856 original size:27 final size:27
Alignment explanation
Indices: 49971801--49971862 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
49971791 TAAAACAATT
* * *
49971801 ATTTTACCCTACAGGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATTTAGATA
49971828 ATTTTACACTACAAGGGTATTTCAG-TA
1 ATTTTACACTACAAGGGTATTT-AGATA
49971855 ATTTTACA
1 ATTTTACA
49971863 AACTGGAGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTAGATA
Found at i:49971877 original size:27 final size:26
Alignment explanation
Indices: 49971843--49971917 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 26
49971833 ACACTACAAG
49971843 GGTATTTCAGTAATTTTACAAACTGGA
1 GGTATTTCA-TAATTTTACAAACTGGA
* *
49971870 GGTGTTTCTATAATTTTACAAACTGGG
1 GGTATTTC-ATAATTTTACAAACTGGA
49971897 GGTATTTCAATAATTTTACAA
1 GGTATTTC-ATAATTTTACAA
49971918 TCCGATGGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 42 0.98
28 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (26 bp):
GGTATTTCATAATTTTACAAACTGGA
Found at i:49971927 original size:27 final size:27
Alignment explanation
Indices: 49971815--49972038 Score: 101
Period size: 27 Copynumber: 8.3 Consensus size: 27
49971805 TACCCTACAG
** * *
49971815 GGGTATTTTGATAATTTTACACTA-CAA
1 GGGTATTTCAATAATTTTACA-AACCGA
* *
49971842 GGGTATTTCAGTAATTTTACAAACTG-
1 GGGTATTTCAATAATTTTACAAACCGA
* * * *
49971868 GAGGTGTTTCTATAATTTTACAAACTGG
1 G-GGTATTTCAATAATTTTACAAACCGA
*
49971896 GGGTATTTCAATAATTTTACAATCCGA
1 GGGTATTTCAATAATTTTACAAACCGA
* *** ** *
49971923 TGGTATTTTGGTAATTTTACAAAATGT
1 GGGTATTTCAATAATTTTACAAACCGA
* * * ** *
49971950 GGGTATTTTAGTAGTTTTACAAGTCAA
1 GGGTATTTCAATAATTTTACAAACCGA
* * ** * * *
49971977 GAGTGTTTTGATAATTTCACAAATCGG
1 GGGTATTTCAATAATTTTACAAACCGA
* * * *
49972004 GGGTATTTCAGTAATTTCACAAATCAA
1 GGGTATTTCAATAATTTTACAAACCGA
49972031 GGGTATTT
1 GGGTATTT
49972039 TGGTAATTTC
Statistics
Matches: 148, Mismatches: 46, Indels: 6
0.74 0.23 0.03
Matches are distributed among these distances:
26 2 0.01
27 145 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAATAATTTTACAAACCGA
Found at i:49971938 original size:54 final size:54
Alignment explanation
Indices: 49971815--49972112 Score: 232
Period size: 54 Copynumber: 5.5 Consensus size: 54
49971805 TACCCTACAG
* ** * * *
49971815 GGGTATTTTGATAATTTTACACTAC-AAGGGTATTTCAGTAATTTTACAAACTGGA
1 GGGTATTTTGATAATTTTACA-AACTGGGGGTATTTCAGTAATTTCAC-AAGTCGA
* * *
49971870 GGTGT-TTCT-ATAATTTTACAAACTGGGGGTATTTCAATAATTTTACAA-TCCGA
1 GG-GTATTTTGATAATTTTACAAACTGGGGGTATTTCAGTAATTTCACAAGT-CGA
* * * * * * * *
49971923 TGGTATTTTGGTAATTTTACAAAATGTGGGTATTTTAGTAGTTTTACAAGTCAA
1 GGGTATTTTGATAATTTTACAAACTGGGGGTATTTCAGTAATTTCACAAGTCGA
* * * * *
49971977 GAGTGTTTTGATAATTTCACAAA-TCGGGGGTATTTCAGTAATTTCACAAATCAA
1 GGGTATTTTGATAATTTTACAAACT-GGGGGTATTTCAGTAATTTCACAAGTCGA
* * * ** *
49972031 GGGTATTTTGGTAATTTCA-AAAGTCAGGGTATTTCGGTAATTTCACAAGTC-A
1 GGGTATTTTGATAATTTTACAAACTGGGGGTATTTCAGTAATTTCACAAGTCGA
*
49972083 GGGGTATTTTGATAAGTTTACAAACTGGGG
1 -GGGTATTTTGATAATTTTACAAACTGGGG
49972113 TTCTTAACGA
Statistics
Matches: 195, Mismatches: 38, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
52 4 0.02
53 53 0.27
54 130 0.67
55 6 0.03
56 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
GGGTATTTTGATAATTTTACAAACTGGGGGTATTTCAGTAATTTCACAAGTCGA
Found at i:49971968 original size:81 final size:81
Alignment explanation
Indices: 49971814--49971971 Score: 185
Period size: 81 Copynumber: 2.0 Consensus size: 81
49971804 TTACCCTACA
** * * *
49971814 GGGGTATTTTGATAATTTTACACTACAAGGGTATTTCAGTAATTTTACAAACTGGAGGTGTTTCT
1 GGGGTATTTCAATAATTTTACAATACAAGGGTATTTCAGTAATTTTACAAAATGGAGGTATTTCT
49971879 ATAATTTTACAAACTG
66 ATAATTTTACAAACTG
* * * **
49971895 GGGGTATTTCAATAATTTTACAATCCGATGGTATTTTGGTAATTTTACAAAATGTG-GGTATTT-
1 GGGGTATTTCAATAATTTTACAATACAAGGGTATTTCAGTAATTTTACAAAATG-GAGGTATTTC
*
49971958 TAGTAGTTTTACAA
65 TA-TAATTTTACAA
49971972 GTCAAGAGTG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
GGGGTATTTCAATAATTTTACAATACAAGGGTATTTCAGTAATTTTACAAAATGGAGGTATTTCT
ATAATTTTACAAACTG
Found at i:49972044 original size:27 final size:27
Alignment explanation
Indices: 49971924--49972106 Score: 149
Period size: 27 Copynumber: 6.8 Consensus size: 27
49971914 ACAATCCGAT
* **
49971924 GGTATTTTGGTAATTTTACAAAAT-GTG
1 GGTATTTTGGTAATTTCAC-AAATCAAG
* * * *
49971951 GGTATTTTAGTAGTTTTACAAGTCAAG
1 GGTATTTTGGTAATTTCACAAATCAAG
* * * **
49971978 AGTGTTTTGATAATTTCACAAATCGGG
1 GGTATTTTGGTAATTTCACAAATCAAG
**
49972005 GGTATTTCAGTAATTTCACAAATCAAG
1 GGTATTTTGGTAATTTCACAAATCAAG
49972032 GGTATTTTGGTAATTTCA-AAAGTC-AG
1 GGTATTTTGGTAATTTCACAAA-TCAAG
* * *
49972058 GGTATTTCGGTAATTTCACAAGTCAGG
1 GGTATTTTGGTAATTTCACAAATCAAG
*
49972085 GGTATTTTGATAAGTTT-ACAAA
1 GGTATTTTGGTAA-TTTCACAAA
49972107 CTGGGGTTCT
Statistics
Matches: 122, Mismatches: 29, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
26 27 0.22
27 92 0.75
28 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTATTTTGGTAATTTCACAAATCAAG
Found at i:49972069 original size:26 final size:26
Alignment explanation
Indices: 49972004--49972091 Score: 115
Period size: 26 Copynumber: 3.3 Consensus size: 26
49971994 CACAAATCGG
*
49972004 GGGTATTTCAGTAATTTCACAAA-TCAA
1 GGGTATTTCGGTAATTTCA-AAAGTC-A
*
49972031 GGGTATTTTGGTAATTTCAAAAGTCA
1 GGGTATTTCGGTAATTTCAAAAGTCA
*
49972057 GGGTATTTCGGTAATTTCACAAGTCA
1 GGGTATTTCGGTAATTTCAAAAGTCA
49972083 GGGGTATTT
1 -GGGTATTT
49972092 TGATAAGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
26 28 0.51
27 27 0.49
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTCAAAAGTCA
Found at i:49975500 original size:40 final size:39
Alignment explanation
Indices: 49975445--49975756 Score: 446
Period size: 40 Copynumber: 7.9 Consensus size: 39
49975435 GGATATAACT
* * *
49975445 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT-TAGTA
*
49975485 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
49975525 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
* *
49975565 ATTCGCACAAATGCCTTCGGGACTTATCCCGGTTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
*
49975605 ACTCGCACAAATGCCTTC-GGACTTAGCCCGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTAGTA
*
49975643 ATTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTCAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTT-AGTA
*
49975683 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
* ** *
49975723 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGGTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
49975757 ATCATCCAAA
Statistics
Matches: 249, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
38 24 0.10
39 28 0.11
40 192 0.77
41 5 0.02
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTAGTA
Found at i:49994856 original size:42 final size:41
Alignment explanation
Indices: 49994771--49994921 Score: 169
Period size: 42 Copynumber: 3.6 Consensus size: 41
49994761 AGACTAAATC
* * * *
49994771 TAAGACCATATCCAGGATAT-GCATCAATATGAGACTACGTG
1 TAAGACCATAT-CTGGATATGGCATCGATATGAGATTACATG
*
49994812 TAAGACCATATCTGGTATATGGCATCGATATGAGATTTCATG
1 TAAGACCATATCTGG-ATATGGCATCGATATGAGATTACATG
* * **
49994854 TAAGACCATAGCTAGGCTATTGGCATCGATACAAGATTACATG
1 TAAGACCATATCT-GGATA-TGGCATCGATATGAGATTACATG
49994897 TAAGACCATATCTGAGATATGGCAT
1 TAAGACCATATCTG-GATATGGCAT
49994922 TGGTAGGGTA
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
40 3 0.03
41 15 0.16
42 38 0.41
43 37 0.40
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (41 bp):
TAAGACCATATCTGGATATGGCATCGATATGAGATTACATG
Found at i:49994891 original size:43 final size:42
Alignment explanation
Indices: 49994810--49994921 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 42
49994800 TGAGACTACG
* ** *
49994810 TGTAAGACCATATCTGGTATATGGCATCGATATGAGATTTCA
1 TGTAAGACCATAGCTGGTATATGGCATCGATACAAGATTACA
49994852 TGTAAGACCATAGCTAGGCTAT-TGGCATCGATACAAGATTACA
1 TGTAAGACCATAGCT-GG-TATATGGCATCGATACAAGATTACA
*
49994895 TGTAAGACCATATCTGAG-ATATGGCAT
1 TGTAAGACCATAGCTG-GTATATGGCAT
49994922 TGGTAGGGTA
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
41 2 0.03
42 21 0.34
43 35 0.57
44 3 0.05
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGTATATGGCATCGATACAAGATTACA
Found at i:49996885 original size:40 final size:40
Alignment explanation
Indices: 49996825--49997046 Score: 374
Period size: 40 Copynumber: 5.6 Consensus size: 40
49996815 CAAGCTCAAT
* * * * *
49996825 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
49996865 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCAC-AA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
49996904 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
* *
49996944 TGCCTTCGGGTCTTAGCCCGTATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
49996984 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
49997024 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
49997047 GTATTCAAAT
Statistics
Matches: 173, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 39 0.23
40 134 0.77
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:49996935 original size:79 final size:80
Alignment explanation
Indices: 49996825--49997046 Score: 374
Period size: 79 Copynumber: 2.8 Consensus size: 80
49996815 CAAGCTCAAT
* * * * *
49996825 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
*
49996890 ATCAACTTGCAC-AA
66 ATCAACTCGCACAAA
*
49996904 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGTATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
49996969 ATCAACTCGCACAAA
66 ATCAACTCGCACAAA
49996984 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
49997047 GTATTCAAAT
Statistics
Matches: 134, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
79 70 0.52
80 64 0.48
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (80 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
ATCAACTCGCACAAA
Found at i:49997013 original size:119 final size:120
Alignment explanation
Indices: 49996825--49997046 Score: 392
Period size: 119 Copynumber: 1.9 Consensus size: 120
49996815 CAAGCTCAAT
* *
49996825 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
49996890 ATCAACTTGCAC-AATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
66 ATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
* * *
49996944 TGCCTTCGGGTCTTAGCCCGTATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
49997009 ATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
66 ATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
49997047 GTATTCAAAT
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
119 72 0.74
120 25 0.26
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (120 bp):
TGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
ATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:50005281 original size:40 final size:40
Alignment explanation
Indices: 50005221--50005443 Score: 374
Period size: 40 Copynumber: 5.6 Consensus size: 40
50005211 CAAGCTCAAT
* * * * *
50005221 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
50005261 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
50005301 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
* *
50005341 TGCCTTCGGGTCTTAGCCCGTATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
50005381 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
50005421 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
50005444 GTATTCAAAT
Statistics
Matches: 172, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:50009648 original size:29 final size:28
Alignment explanation
Indices: 50009594--50009683 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 28
50009584 TGAGCATGAC
50009594 TATAAATGTGAATTGGGCCTAATGGGCCA
1 TATAAATGTG-ATTGGGCCTAATGGGCCA
* * *
50009623 TATAAATGTGATTCAGGCATATTGGGCCA
1 TATAAATGTGATT-GGGCCTAATGGGCCA
* *
50009652 TATAAATGTAATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAATGGGCCA
50009680 TATA
1 TATA
50009684 CAGGTATGTG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 19 0.36
29 34 0.64
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:50011993 original size:18 final size:17
Alignment explanation
Indices: 50011970--50012003 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
50011960 TGGCTCATTA
50011970 CAGTAACAGTAAACAGTG
1 CAGTAACAGT-AACAGTG
50011988 CAGTAACAGTAACAGT
1 CAGTAACAGTAACAGT
50012004 ACAGATATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (17 bp):
CAGTAACAGTAACAGTG
Found at i:50012375 original size:27 final size:27
Alignment explanation
Indices: 50012345--50012492 Score: 159
Period size: 27 Copynumber: 5.8 Consensus size: 27
50012335 CATCACATAG
** *
50012345 GGGCAAAACAATCAGCTCACCATATAA
1 GGGCAAAACAATCATTTTACCATATAA
*
50012372 GGGCAAAACAGTCATTTTACCATATAA
1 GGGCAAAACAATCATTTTACCATATAA
* * *
50012399 GGACAAAACAATCATTTTGCCACATAA
1 GGGCAAAACAATCATTTTACCATATAA
*
50012426 GGGCAAAATAATCA---T----T-TAA
1 GGGCAAAACAATCATTTTACCATATAA
*
50012445 GGGCAAAACAGTCATTTTACCATATAA
1 GGGCAAAACAATCATTTTACCATATAA
50012472 GGGCAAAACAATCATTTTACC
1 GGGCAAAACAATCATTTTACC
50012493 GATTAGGGTC
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
19 15 0.15
22 1 0.01
24 1 0.01
26 1 0.01
27 81 0.82
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (27 bp):
GGGCAAAACAATCATTTTACCATATAA
Found at i:50012459 original size:19 final size:19
Alignment explanation
Indices: 50012423--50012461 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
50012413 TTTTGCCACA
*
50012423 TAAGGGCAAAATAATCATT
1 TAAGGGCAAAACAATCATT
*
50012442 TAAGGGCAAAACAGTCATT
1 TAAGGGCAAAACAATCATT
50012461 T
1 T
50012462 TACCATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (19 bp):
TAAGGGCAAAACAATCATT
Found at i:50012472 original size:46 final size:46
Alignment explanation
Indices: 50012396--50012488 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
50012386 TTTTACCATA
* *
50012396 TAAGGACAAAACAATCATTTTGCCACATAAGGGCAAAATAATCATT
1 TAAGGACAAAACAATCATTTTACCACATAAGGGCAAAACAATCATT
* * *
50012442 TAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAATCATT
1 TAAGGACAAAACAATCATTTTACCACATAAGGGCAAAACAATCATT
50012488 T
1 T
50012489 TACCGATTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (46 bp):
TAAGGACAAAACAATCATTTTACCACATAAGGGCAAAACAATCATT
Found at i:50013166 original size:15 final size:15
Alignment explanation
Indices: 50013136--50013168 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
50013126 GCTAACCCAA
50013136 AAAGTGAAAGAGAAG
1 AAAGTGAAAGAGAAG
50013151 AAAGTCGAAAGA-AAG
1 AAAGT-GAAAGAGAAG
50013166 AAA
1 AAA
50013169 TAAGGGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.64, C:0.03, G:0.27, T:0.06
Consensus pattern (15 bp):
AAAGTGAAAGAGAAG
Found at i:50019826 original size:27 final size:29
Alignment explanation
Indices: 50019763--50019830 Score: 97
Period size: 28 Copynumber: 2.4 Consensus size: 29
50019753 GCTGTCTTGT
*
50019763 ACACTAAGTGCC-TTACTTAATATCTCGC
1 ACACTAAGTGCCATTACTCAATATCTCGC
*
50019791 ACACCAAGTGCCATT-CTCAATAT-TCGC
1 ACACTAAGTGCCATTACTCAATATCTCGC
50019818 ACACTAAGTGCCA
1 ACACTAAGTGCCA
50019831 CACACACACA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.44
28 18 0.50
29 2 0.06
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (29 bp):
ACACTAAGTGCCATTACTCAATATCTCGC
Found at i:50019836 original size:2 final size:2
Alignment explanation
Indices: 50019829--50019872 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
50019819 CACTAAGTGC
50019829 CA CA CA CA CA CA CA CA 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
50019871 CA
1 CA
50019873 TATATATAGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:50025120 original size:37 final size:37
Alignment explanation
Indices: 50025070--50025148 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
50025060 TTATTACGAA
* *
50025070 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
50025107 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
50025144 GTCTT
1 GTCTT
50025149 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:50025345 original size:47 final size:47
Alignment explanation
Indices: 50025267--50025708 Score: 713
Period size: 47 Copynumber: 9.4 Consensus size: 47
50025257 CCCTTCGGGA
* * * * * *
50025267 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50025314 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50025361 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50025408 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
50025455 CTTATCACACATATACACTTTCATATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
50025502 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50025549 CTTATCACATATATACACGTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50025596 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50025643 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50025690 CTTATCACATATATACACT
1 CTTATCACATATATACACT
50025709 ATCTTGCCTG
Statistics
Matches: 371, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 371 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50029355 original size:40 final size:40
Alignment explanation
Indices: 50029244--50029357 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 40
50029234 CGAATACACG
* * * * * *
50029244 TCACCAGCATGATTGCTCTTCGTGATTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
50029284 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
50029324 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCG
50029358 AATTTAGTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:50029385 original size:40 final size:39
Alignment explanation
Indices: 50029335--50029436 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 39
50029325 CGCTAGCATG
* *
50029335 AATGCTCTTCGGGACTTAGCCCGAATTTAGTAAC-TCGCACC
1 AATGC-CTTC-GGACTTAGCCCGAATATAGTAACTTAGCA-C
* * *
50029376 AATGCCTTCGGATCTTAGTCCGAATATGGTCACTTAGCAC
1 AATGCCTTCGGA-CTTAGCCCGAATATAGTAACTTAGCAC
*
50029416 AAAGCCTTCAGGACTTAGCCC
1 AATGCCTTC-GGACTTAGCCC
50029437 AGACATCATT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
39 3 0.06
40 36 0.71
41 12 0.24
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGACTTAGCCCGAATATAGTAACTTAGCAC
Found at i:50029786 original size:29 final size:29
Alignment explanation
Indices: 50029747--50029825 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
50029737 CTTAATAATC
*
50029747 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
50029777 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
50029806 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
50029826 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:50029868 original size:43 final size:43
Alignment explanation
Indices: 50029807--50029909 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
50029797 TGCATTTCAA
50029807 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
50029850 GCCCGCACACTCAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
50029893 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
50029910 TGAAAACCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.26, C:0.37, G:0.16, T:0.21
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:50031825 original size:37 final size:37
Alignment explanation
Indices: 50031775--50031853 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
50031765 TTATTACGAA
* *
50031775 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
50031812 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
50031849 GTCTT
1 GTCTT
50031854 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:50032050 original size:47 final size:47
Alignment explanation
Indices: 50031972--50032328 Score: 282
Period size: 47 Copynumber: 7.4 Consensus size: 47
50031962 CCCTTCGGGA
* * * * * * *
50031972 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
50032019 CCTGTCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50032066 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** * *
50032113 CTTATCACGCATATACACTTTCACATTCATCACATCGGCTATTAGTC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
50032160 ACTTATCATCATAGGCCT-TATCACATATATACACGTTCA-CATTCATC--ACA-TCGGC
1 -CTTATCA-CATA----TATA-CAC-T-T-T-CACATTCATCA--CATCGGCCATTAGGC
* * *
50032215 TATTAGGC-CTATCAATATACACGTTCACATTCATCACATC-GCCATTA-G-
1 -CTTA-TCAC-AT--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50032263 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50032310 CTTATCACATATATACACT
1 CTTATCACATATATACACT
50032329 ATCTTGGCTG
Statistics
Matches: 247, Mismatches: 38, Indels: 50
0.74 0.11 0.15
Matches are distributed among these distances:
44 25 0.10
45 7 0.03
46 3 0.01
47 144 0.58
48 11 0.04
49 12 0.05
50 4 0.02
51 1 0.00
52 2 0.01
53 8 0.03
54 4 0.02
55 9 0.04
56 5 0.02
57 8 0.03
58 4 0.02
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50032188 original size:110 final size:106
Alignment explanation
Indices: 50032061--50032255 Score: 327
Period size: 110 Copynumber: 1.8 Consensus size: 106
50032051 CATCGACCAT
* *
50032061 TAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACGCATA
1 TAGGCCTTATCACATATATACACGTTCACATTCATCACATCGGCTATTAGGCC-TATCA---ATA
*
50032126 TACACTTTCACATTCATCACATCGGCTATTAGTCACTTATCATCA
62 TACACGTTCACATTCATCACATCGGCTATTAGTCACTTATCATCA
50032171 TAGGCCTTATCACATATATACACGTTCACATTCATCACATCGGCTATTAGGCCTATCAATATACA
1 TAGGCCTTATCACATATATACACGTTCACATTCATCACATCGGCTATTAGGCCTATCAATATACA
50032236 CGTTCACATTCATCACATCG
66 CGTTCACATTCATCACATCG
50032256 CCATTAGCTT
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
106 26 0.32
109 5 0.06
110 51 0.62
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.33
Consensus pattern (106 bp):
TAGGCCTTATCACATATATACACGTTCACATTCATCACATCGGCTATTAGGCCTATCAATATACA
CGTTCACATTCATCACATCGGCTATTAGTCACTTATCATCA
Found at i:50032236 original size:43 final size:44
Alignment explanation
Indices: 50032171--50032322 Score: 202
Period size: 43 Copynumber: 3.4 Consensus size: 44
50032161 CTTATCATCA
*
50032171 TAGGCCTTATCACATATATACACGTTCACATTCATCACATCGGCTAT
1 TAGGCC-TATCAC--ATATACACGTTCACATTCATCACATCGGCCAT
50032218 TAGGCCTATCA-ATATACACGTTCACATTCATCACATC-GCCAT
1 TAGGCCTATCACATATACACGTTCACATTCATCACATCGGCCAT
* *
50032260 TA-GCTTATCACACATATACACTTTCACATTCATCACATCGGCCAT
1 TAGGCCTAT--CACATATACACGTTCACATTCATCACATCGGCCAT
50032305 TAGGCCTTATCACATATA
1 TAGGCC-TATCACATATA
50032323 TACACTATCT
Statistics
Matches: 95, Mismatches: 4, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
41 5 0.05
42 6 0.06
43 28 0.29
44 25 0.26
45 15 0.16
46 7 0.07
47 9 0.09
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (44 bp):
TAGGCCTATCACATATACACGTTCACATTCATCACATCGGCCAT
Found at i:50035043 original size:42 final size:43
Alignment explanation
Indices: 50034997--50035107 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 43
50034987 TCTCACATCG
* * * *
50034997 ATGCCATGTCCCAGACATTGTCTTATACGAAATCACATATC-A
1 ATGCCATATCCCAGACATAGTCTTACACGAAATCACATACCGA
** ** *
50035039 ATGCCGCATCCCAGACACGGTCTTACACGAAATCTCATACCGA
1 ATGCCATATCCCAGACATAGTCTTACACGAAATCACATACCGA
*
50035082 A-GCCATATCCCAGATATAGTCTTACA
1 ATGCCATATCCCAGACATAGTCTTACA
50035108 TGTAATCTTA
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
42 53 0.96
43 2 0.04
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (43 bp):
ATGCCATATCCCAGACATAGTCTTACACGAAATCACATACCGA
Found at i:50035256 original size:37 final size:37
Alignment explanation
Indices: 50035168--50035306 Score: 160
Period size: 37 Copynumber: 3.8 Consensus size: 37
50035158 GATCTCATAT
50035168 CGATGCCAT-GTCCCAGAC-ATGGTCTTACACGT-ATCA
1 CGATGCCATAG-CCCAG-CTATGGTCTTACACGTCATCA
* * **
50035204 CAATGCCATAACCCAGCTATGGTCTTACTTGTCATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTCATCA
* *
50035241 CGATGTCATAGCCCAGCTATGGTCTTACACG-CTATTA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTC-ATCA
*
50035278 CGATGCCATAGCCCAACTATGGTCTTACA
1 CGATGCCATAGCCCAGCTATGGTCTTACA
50035307 GCTACTCACA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
35 1 0.01
36 26 0.30
37 60 0.69
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (37 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGTCATCA
Found at i:50037919 original size:27 final size:29
Alignment explanation
Indices: 50037854--50037923 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
50037844 TCGCTGTCTT
*
50037854 GCACACTAAGTGCC-TTACTTAATATCTC
1 GCACACTAAGTGCCATTACTCAATATCTC
*
50037882 GCACACCAAGTGCCATT-CTCAATAT-TC
1 GCACACTAAGTGCCATTACTCAATATCTC
50037909 GCACACTAAGTGCCA
1 GCACACTAAGTGCCA
50037924 CACACACACA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.42
28 20 0.53
29 2 0.05
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.26
Consensus pattern (29 bp):
GCACACTAAGTGCCATTACTCAATATCTC
Found at i:50043573 original size:42 final size:43
Alignment explanation
Indices: 50043464--50043617 Score: 136
Period size: 42 Copynumber: 3.6 Consensus size: 43
50043454 CTCGTACAAC
* * * *
50043464 GCCAACGTACCAGACGTGGTCTTACATGTAATCAAATATCGAT
1 GCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCGAT
* * * *
50043507 GCCACTGTCCCA-AAAGGGTCTTACATGAAATCATATA-CGAT
1 GCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCGAT
* *
50043548 GCCAATGTCCCAGACATGGTTTTACACAT-AACTCACAA-ATCGAT
1 GCCAATGTCCCAGACATGGTCTT--ACATGAAATCA-AATATCGAT
** *
50043592 GCCAACATCCCAGACGTGGTCTTACA
1 GCCAATGTCCCAGACATGGTCTTACA
50043618 CTATAACACG
Statistics
Matches: 88, Mismatches: 18, Indels: 11
0.75 0.15 0.09
Matches are distributed among these distances:
41 15 0.17
42 30 0.34
43 15 0.17
44 28 0.32
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCGAT
Found at i:50045200 original size:30 final size:32
Alignment explanation
Indices: 50045139--50045203 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 32
50045129 TTCAATCTCA
50045139 ACATATACTGGGCCGAAGCCTCTTCATAATTC
1 ACATATACTGGGCCGAAGCCTCTTCATAATTC
*
50045171 ACAT-TACTGGGCCGAAGCCT-TTTATAATTC
1 ACATATACTGGGCCGAAGCCTCTTCATAATTC
50045201 ACA
1 ACA
50045204 ACTCATATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 12 0.38
31 16 0.50
32 4 0.12
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (32 bp):
ACATATACTGGGCCGAAGCCTCTTCATAATTC
Found at i:50045478 original size:25 final size:25
Alignment explanation
Indices: 50045450--50045519 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
50045440 CTCTTTTAAT
50045450 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
50045475 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
50045500 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
50045520 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:50051599 original size:27 final size:27
Alignment explanation
Indices: 50051542--50051603 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
50051532 CATACATATC
* * * **
50051542 ATAGAGGTATATTAGTCATTTTACCTT
1 ATAGGGGTATAATAGTCATTTCACCAA
*
50051569 ATAGGGGTATAATAGTCATTTCATCAA
1 ATAGGGGTATAATAGTCATTTCACCAA
50051596 ATAGGGGT
1 ATAGGGGT
50051604 TTAGGTATAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
ATAGGGGTATAATAGTCATTTCACCAA
Found at i:50054874 original size:21 final size:19
Alignment explanation
Indices: 50054841--50054883 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
50054831 AATTGACTAC
*
50054841 TTGATGACTTTCGACTTTCT
1 TTGATGAATTTCG-CTTTCT
*
50054861 TTGATCGAATTTCGTTTTCT
1 TTGAT-GAATTTCGCTTTCT
50054881 TTG
1 TTG
50054884 GTTCTTGATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.53
Consensus pattern (19 bp):
TTGATGAATTTCGCTTTCT
Found at i:50056505 original size:27 final size:26
Alignment explanation
Indices: 50056457--50056516 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
50056447 GCGAAGCTGC
*
50056457 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
50056484 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
50056510 CAGATAT
1 CAGATAT
50056517 ATATACGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:50056603 original size:27 final size:26
Alignment explanation
Indices: 50056555--50056606 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
50056545 GCGAGGCTGC
*
50056555 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
50056581 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
50056607 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:50064193 original size:24 final size:23
Alignment explanation
Indices: 50064165--50064212 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
50064155 ACCTTTGCTC
50064165 TTTTAGCATGAACTTGTCTTACCT
1 TTTTAGCAT-AACTTGTCTTACCT
*
50064189 TTTTAGTATAACTTGTCTTACCT
1 TTTTAGCATAACTTGTCTTACCT
50064212 T
1 T
50064213 CCTTACCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (23 bp):
TTTTAGCATAACTTGTCTTACCT
Found at i:50064421 original size:55 final size:53
Alignment explanation
Indices: 50064280--50064481 Score: 214
Period size: 55 Copynumber: 3.8 Consensus size: 53
50064270 ACACGGGTAG
* ** * *
50064280 CTTACCATTGCCATGAATTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
50064329 CTTACCATTGCCATGTCTCGACATGGTCTTACGTGGTATCCTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCC-T-TAGAAA
* *
50064384 CTTATCAATGCCATGTCTTGACATGGTTTTACATGGTATCCTTGCCTTAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
50064437 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGTTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
50064482 AAACCCTAAT
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
49 39 0.30
53 6 0.05
54 9 0.07
55 75 0.58
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:50064676 original size:39 final size:39
Alignment explanation
Indices: 50064631--50064707 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
50064621 ACAGCATTAA
50064631 CATAAAATAATAGCATATTGCATTTATTTACCGCAAACC
1 CATAAAATAATAGCATATTGCATTTATTTACCGCAAACC
50064670 CATAAAATAATAGCATATTGCATTTATTTACCGCAAAC
1 CATAAAATAATAGCATATTGCATTTATTTACCGCAAAC
50064708 TTACTTCGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (39 bp):
CATAAAATAATAGCATATTGCATTTATTTACCGCAAACC
Found at i:50066824 original size:42 final size:42
Alignment explanation
Indices: 50066759--50066914 Score: 140
Period size: 42 Copynumber: 3.7 Consensus size: 42
50066749 GGCTCGTACA
50066759 ATGCCAACGTCCCAGACGTGGTCTTACATGTATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTATCAAATATCG
***
50066801 ATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACA-TGTATCAAATATCG
* * * * * * *
50066843 ATGGCGATGTCCTAAACATGGTCTTACATGTAAATCATAA-GTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT--ATCA-AATATCG
50066887 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
50066915 CTAAAACGCA
Statistics
Matches: 87, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
41 2 0.02
42 45 0.52
43 14 0.16
44 26 0.30
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTATCAAATATCG
Found at i:50075692 original size:28 final size:28
Alignment explanation
Indices: 50075650--50075790 Score: 138
Period size: 28 Copynumber: 5.0 Consensus size: 28
50075640 AATGTCATTG
* * *
50075650 CATACTCGATGTCTCGAACACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
*
50075678 CATACTCTATATCTCGCACACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
* *
50075706 TATTCTCAATATCTCGCACACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
** * * * * *
50075734 CATTTTCAATGTTTCACACATTAAGTTC
1 CATACTCAATATCTCGCACACTAAGTGC
* * *
50075762 TATACTCGATATCTCGCACCCTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
50075790 C
1 C
50075791 GTACATAGCT
Statistics
Matches: 89, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 89 1.00
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (28 bp):
CATACTCAATATCTCGCACACTAAGTGC
Found at i:50075729 original size:56 final size:56
Alignment explanation
Indices: 50075651--50075790 Score: 154
Period size: 56 Copynumber: 2.5 Consensus size: 56
50075641 ATGTCATTGC
* * * * *
50075651 ATACTCGATGTCTCGAACACTAAGTGCCATACTCTATATCTCGCACACTAAGTGCT
1 ATACTCAATATCTCGCACACTAAGTGCCATACTCAATATCTCACACACTAAGTGCT
* ** * * * *
50075707 ATTCTCAATATCTCGCACACTAAGTGCCATTTTCAATGTTTCACACATTAAGTTCT
1 ATACTCAATATCTCGCACACTAAGTGCCATACTCAATATCTCACACACTAAGTGCT
* *
50075763 ATACTCGATATCTCGCACCCTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
50075791 GTACATAGCT
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (56 bp):
ATACTCAATATCTCGCACACTAAGTGCCATACTCAATATCTCACACACTAAGTGCT
Found at i:50075946 original size:18 final size:18
Alignment explanation
Indices: 50075923--50075959 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
50075913 TAGACAATTT
50075923 ATACGATATCAAAGTGTA
1 ATACGATATCAAAGTGTA
50075941 ATACGATATCAAAGTGTA
1 ATACGATATCAAAGTGTA
50075959 A
1 A
50075960 CACCCCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (18 bp):
ATACGATATCAAAGTGTA
Found at i:50077521 original size:27 final size:27
Alignment explanation
Indices: 50077491--50077633 Score: 198
Period size: 27 Copynumber: 5.3 Consensus size: 27
50077481 GCTAAATCGA
* * *
50077491 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
50077518 TAATTCTACCCTAC-AGGGTTATTTCGG
1 TAATTCTACCCTACAAGGG-TATTTCGG
* *
50077545 TATTTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCGG
* *
50077572 TAATTCTATCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
*
50077599 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
50077626 TAATTCTA
1 TAATTCTA
50077634 TAACTTATCC
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
26 4 0.04
27 96 0.92
28 4 0.04
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGG
Found at i:50077535 original size:54 final size:54
Alignment explanation
Indices: 50077470--50077633 Score: 204
Period size: 54 Copynumber: 3.0 Consensus size: 54
50077460 ATAGTCATTT
* ** * * *
50077470 TACCCTCCAGGGCTAAATCGATAATTTTACCCCACAAGGGTATCTCGGTAATTC
1 TACCCTACAGGGCTATTTCGGTAATTTTACCCTACAAGGGTATTTCGGTAATTC
* *
50077524 TACCCTACAGGGTTATTTCGGT-ATTTCTACCCTACAAGGGTATTTCAGTAATTC
1 TACCCTACAGGGCTATTTCGGTAATTT-TACCCTACAAGGGTATTTCGGTAATTC
* * * *
50077578 TATCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGCTATTTCGGTAATTTTACCCTACAAGGGTATTTCGGTAATTC
50077632 TA
1 TA
50077634 TAACTTATCC
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
53 4 0.04
54 88 0.93
55 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (54 bp):
TACCCTACAGGGCTATTTCGGTAATTTTACCCTACAAGGGTATTTCGGTAATTC
Found at i:50081155 original size:39 final size:39
Alignment explanation
Indices: 50081112--50081321 Score: 325
Period size: 39 Copynumber: 5.3 Consensus size: 39
50081102 GGACTAAGAT
50081112 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
50081151 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
50081190 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
50081229 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* *
50081269 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
50081309 CCGAAGGCATTTG
1 CCGAAGGCATTTG
50081322 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 114 0.71
40 46 0.29
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:50081335 original size:40 final size:39
Alignment explanation
Indices: 50081061--50081321 Score: 245
Period size: 39 Copynumber: 6.6 Consensus size: 39
50081051 TGAATGATGT
* * * *
50081061 CCGGGCTAAGTCCTGAAGGC--TTGTGCTAAGTGACAATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
50081100 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
*
50081140 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-A
*
50081179 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-A
50081218 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
50081256 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
50081297 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
50081322 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 11, Indels: 19
0.87 0.05 0.08
Matches are distributed among these distances:
39 129 0.64
40 62 0.31
41 10 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:50089175 original size:39 final size:40
Alignment explanation
Indices: 50089080--50089302 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
50089070 TTGAATGATG
*
50089080 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
50089118 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
50089159 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
50089198 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
50089237 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
50089276 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
50089303 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:50089266 original size:79 final size:81
Alignment explanation
Indices: 50089080--50089302 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
50089070 TTGAATGATG
* * *
50089080 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
50089142 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
50089159 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
50089220 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
50089237 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
50089301 TG
66 TG
50089303 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:50089324 original size:79 final size:79
Alignment explanation
Indices: 50089080--50089335 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
50089070 TTGAATGATG
* * * *
50089080 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
50089141 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
50089159 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
50089223 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
50089237 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
50089300 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
50089317 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
50089336 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:50095909 original size:48 final size:48
Alignment explanation
Indices: 50095844--50096220 Score: 682
Period size: 48 Copynumber: 7.9 Consensus size: 48
50095834 TAGATATGTG
*
50095844 TGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
50095892 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
50095940 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
50095988 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
50096036 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
50096084 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
50096132 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
50096180 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
50096221 GTGTGTATAT
Statistics
Matches: 319, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 319 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:50096415 original size:37 final size:37
Alignment explanation
Indices: 50096365--50096463 Score: 162
Period size: 37 Copynumber: 2.7 Consensus size: 37
50096355 ATATATTCCA
50096365 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
** *
50096402 GGTAAGACCCGATGACTACGCATGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
*
50096439 GGTAAGACCCGATAACTACGTGTGG
1 GGTAAGACCCGATGACTACGTGTGG
50096464 GGACTATTCG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
Found at i:50107831 original size:11 final size:10
Alignment explanation
Indices: 50107809--50107849 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
50107799 AAATGATGAT
50107809 GAAAAA-AAA
1 GAAAAAGAAA
50107818 GAAAAGAGAAA
1 GAAAA-AGAAA
50107829 GAAAAAGAAA
1 GAAAAAGAAA
*
50107839 AAAAAAGAAA
1 GAAAAAGAAA
50107849 G
1 G
50107850 GCTCTCATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 5 0.18
10 15 0.54
11 8 0.29
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:50109161 original size:40 final size:40
Alignment explanation
Indices: 50109106--50109323 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
50109096 TGGATGATAA
* * *
50109106 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
50109146 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50109186 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50109226 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
50109266 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
50109306 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
50109324 TACTTGGCTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50112927 original size:31 final size:31
Alignment explanation
Indices: 50112884--50112998 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
50112874 TTAGTCTTGA
*
50112884 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
50112914 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
50112945 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
50112976 CATATCACTGGGCTGAATCCTTT
1 CATATCACTGGGCCGAAGCCTTT
50112999 ACTATAAACG
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.06
31 76 0.94
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:50113081 original size:42 final size:42
Alignment explanation
Indices: 50113022--50113113 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
50113012 TGGCCCTTAG
*
50113022 GCCCATTTCAATATCACATGTAATGTCAATGGATGGATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGGATGCAA
*
50113064 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGGATGCAA
50113106 GCCCATTT
1 GCCCATTT
50113114 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGGATGCAA
Found at i:50113289 original size:25 final size:25
Alignment explanation
Indices: 50113261--50113330 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
50113251 CTCTTTTAAT
50113261 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
50113286 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
50113311 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
50113331 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:50113383 original size:16 final size:16
Alignment explanation
Indices: 50113362--50113394 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
50113352 ACCCATATCC
*
50113362 CATGCAATATGTCATG
1 CATGCAAAATGTCATG
50113378 CATGCAAAATGTCATG
1 CATGCAAAATGTCATG
50113394 C
1 C
50113395 CCATATTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (16 bp):
CATGCAAAATGTCATG
Found at i:50114206 original size:26 final size:26
Alignment explanation
Indices: 50114141--50114241 Score: 78
Period size: 27 Copynumber: 3.7 Consensus size: 26
50114131 GGCATATTTA
50114141 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACC-TACAAGGGTATTACGG
* *
50114168 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTA-CCTACAAGGG-TATTACGG
* * ***
50114195 TCTTTTTACCTATTAAGGGTATTTTAG
1 TCATTTTACCTA-CAAGGGTATTACGG
*
50114222 TCATTTCATCCTACAAGGGT
1 TCATTTTA-CCTACAAGGGT
50114242 GTTTTGGTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
26 5 0.09
27 45 0.79
28 7 0.12
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.38
Consensus pattern (26 bp):
TCATTTTACCTACAAGGGTATTACGG
Found at i:50114288 original size:27 final size:27
Alignment explanation
Indices: 50114235--50114442 Score: 116
Period size: 27 Copynumber: 7.7 Consensus size: 27
50114225 TTTCATCCTA
* * * * *
50114235 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* *
50114262 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* *** * *
50114289 CAATGGTATTTCTAAAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTATAAA-C
* * *
50114318 C-A-GGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAC
* * * *
50114343 TAGGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAC
** * *
50114370 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
*
50114397 C-AGTGGTATTTCGGTAATTTTACAAAC
1 CAAG-GGTATTTCGGTAATTTTATAAAC
* * *
50114424 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTCGGTAATT
50114443 CTATCCTACA
Statistics
Matches: 141, Mismatches: 34, Indels: 12
0.75 0.18 0.06
Matches are distributed among these distances:
25 1 0.01
26 9 0.06
27 121 0.86
28 9 0.06
29 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAC
Found at i:50114458 original size:81 final size:81
Alignment explanation
Indices: 50114320--50114472 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
50114310 TAGAAAGTCA
* ** * * ** *
50114320 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTATAAATTGAGGGTATTTCGGT
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATAAACAGAGGGTATTTCAGT
50114385 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
**
50114401 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTACAG-GGGTATTTCAG
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTAT-AAACAGAGGGTATTTCAG
50114465 TAATTTCA
65 TAATTTCA
50114473 TAATCGAGGG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 59 0.97
82 2 0.03
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATAAACAGAGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:50114482 original size:27 final size:27
Alignment explanation
Indices: 50114344--50114482 Score: 95
Period size: 27 Copynumber: 5.1 Consensus size: 27
50114334 TTTGTAAATT
* * *
50114344 AGGGGTATTTTGGTAATTTTATAAATTG
1 AGGGGTATTTCGGTAATTTCAT-AATCG
* * *
50114372 A-GGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTCGGTAATTTCATAATCG
* * * * *
50114398 AGTGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTCGGTAATTTCATAATCG
* **
50114425 AGGGGTATTTTGGTAA-TTCTATCCTAC-
1 AGGGGTATTTCGGTAATTTC-ATAAT-CG
*
50114452 AGGGGTATTTCAGTAATTTCATAATCG
1 AGGGGTATTTCGGTAATTTCATAATCG
50114479 AGGG
1 AGGG
50114483 TAAAACGATA
Statistics
Matches: 86, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
26 6 0.07
27 75 0.87
28 5 0.06
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTCATAATCG
Found at i:50114590 original size:81 final size:81
Alignment explanation
Indices: 50114462--50114671 Score: 266
Period size: 81 Copynumber: 2.6 Consensus size: 81
50114452 AGGGGTATTT
* * * * *
50114462 CAGTAATTTC-AT-AATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGTAAAACGGTAATTT
1 CAGTAA-TTCGATAAATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACAGTAATTT
50114524 TGTAAATCGAGGGTAAAA
64 TGTAAATCGAGGGTAAAA
**
50114542 TGGTAATTCTG-TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTT
1 CAGTAATTC-GATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTT
* *
50114606 GTAAATCGGGGGTGAAA
65 GTAAATCGAGGGTAAAA
* *
50114623 CAGTAATTCGATAAATCGAGGGTAAAATGGTAATTCTACAAATCAAGGG
1 CAGTAATTCGATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
50114672 CATTTTAGTA
Statistics
Matches: 112, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
79 3 0.03
80 6 0.05
81 102 0.91
82 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (81 bp):
CAGTAATTCGATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTG
TAAATCGAGGGTAAAA
Found at i:50114666 original size:27 final size:27
Alignment explanation
Indices: 50114474--50114659 Score: 232
Period size: 27 Copynumber: 6.9 Consensus size: 27
50114464 GTAATTTCAT
* *
50114474 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
50114501 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
50114528 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
50114555 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
50114582 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
50114609 AATCGGGGGTGAAACAGTAATTC-GATA
1 AATCGAGGGTAAAACGGTAATTCTG-TA
*
50114636 AATCGAGGGTAAAATGGTAATTCT
1 AATCGAGGGTAAAACGGTAATTCT
50114660 ACAAATCAAG
Statistics
Matches: 140, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
26 2 0.01
27 137 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:50116563 original size:32 final size:32
Alignment explanation
Indices: 50116517--50116582 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
50116507 TTTAGATAAG
50116517 TTTGTGGTTATGTTTATTGATGACATTTTGAT
1 TTTGTGGTTATGTTTATTGATGACATTTTGAT
*
50116549 TTTGTGGTTGTGTTTATTGATGACATTTTGAT
1 TTTGTGGTTATGTTTATTGATGACATTTTGAT
50116581 TT
1 TT
50116583 ACTCCTGAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.17, C:0.03, G:0.23, T:0.58
Consensus pattern (32 bp):
TTTGTGGTTATGTTTATTGATGACATTTTGAT
Done.