Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 20 of 276
Found at i:6175392 original size:81 final size:80
Alignment explanation
Indices: 6175223--6175392 Score: 175
Period size: 81 Copynumber: 2.1 Consensus size: 80
6175213 AAGGGCAAAA
* **
6175223 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTA
1 TGGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCAAATAGGGGTATTTTAGTAATTCTA
*
6175288 ACCTACAAGGGTATTT
66 AAC-ACAAGGGTATTT
* * * * *
6175304 CGATAATTCTACCCTACAAGGGTATTTCGGTAATT-T-CACAAATCAGGGGTATTTTGGTAATTT
1 TGGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTAC-CAAAT-AGGGGTATTTTAGTAA--T
* *
6175367 TGTAAAC-CAATGGTATTT
62 TCTAAACACAAGGGTATTT
6175385 TGGTAATT
1 TGGTAATT
6175393 TTACAAATCG
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
79 1 0.01
80 4 0.06
81 61 0.85
83 6 0.08
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (80 bp):
TGGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCAAATAGGGGTATTTTAGTAATTCTA
AACACAAGGGTATTT
Found at i:6175434 original size:26 final size:26
Alignment explanation
Indices: 6175378--6175499 Score: 124
Period size: 26 Copynumber: 4.6 Consensus size: 26
6175368 GTAAACCAAT
**
6175378 GGTATTTTGGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTAC-AATCGAG
*
6175405 GGTATTTCAGTAATTTTACAATCGAA
1 GGTATTTCAGTAATTTTACAATCGAG
* *
6175431 GGTATTTCAGTAACTTTATA-AACCGGG
1 GGTATTTCAGTAA-TTT-TACAATCGAG
*
6175458 GGTACTTTGA-TAATTTTACAA-CGAGG
1 GGTA-TTTCAGTAATTTTACAATCGA-G
6175484 GGTATTTCAGTAATTT
1 GGTATTTCAGTAATTT
6175500 GGTAAACTAA
Statistics
Matches: 80, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
25 8 0.10
26 35 0.44
27 31 0.39
28 6 0.08
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (26 bp):
GGTATTTCAGTAATTTTACAATCGAG
Found at i:6181567 original size:21 final size:20
Alignment explanation
Indices: 6181534--6181572 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
6181524 TCATAATGGA
*
6181534 CACATGGGCGTGTTGCCCTTC
1 CACACGGGCGTG-TGCCCTTC
*
6181555 CACACGGGTGTGTGCCCT
1 CACACGGGCGTGTGCCCT
6181573 GCTTCAAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.26
Consensus pattern (20 bp):
CACACGGGCGTGTGCCCTTC
Found at i:6183153 original size:27 final size:27
Alignment explanation
Indices: 6183123--6183237 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 27
6183113 AGGGCAAAAT
* * *
6183123 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
6183150 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
6183177 AGTAATTCTAACCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
6183204 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
6183231 GGTAATT
1 GGTAATT
6183238 TCACAAATCA
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:6183252 original size:27 final size:27
Alignment explanation
Indices: 6183222--6183398 Score: 123
Period size: 27 Copynumber: 6.6 Consensus size: 27
6183212 TACCCTACAA
*
6183222 GGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTCGGTAATTTTACAAATCAG
* ** * *
6183249 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTACAAATCAG
* *
6183276 TGGTATTTTGGTAATTTTACAAATC-G
1 GGGTATTTCGGTAATTTTACAAATCAG
*
6183302 AGGGTATTTCAGTAATTTTAC-AATC-G
1 -GGGTATTTCGGTAATTTTACAAATCAG
* * * * * *
6183328 AAGGTATTTCAGTAACTTTATAAACCGG
1 -GGGTATTTCGGTAATTTTACAAATCAG
*
6183356 GGGTACTTT-GATAATTTTAC-AA-CGAG
1 GGGTA-TTTCGGTAATTTTACAAATC-AG
*
6183382 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
6183399 GGTAAACTAA
Statistics
Matches: 118, Mismatches: 26, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
25 4 0.03
26 37 0.31
27 73 0.62
28 4 0.03
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCAG
Found at i:6183264 original size:54 final size:54
Alignment explanation
Indices: 6183137--6183264 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
6183127 ATTTTACCCC
* * * * **
6183137 ACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTAACCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACAA
* * *
6183191 ACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGGTAATT-TCACAA
1 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACAA
* *
6183244 ATCAGGGGTATTTTGGTAATT
1 A-CAAGGGTATTTCGGTAATT
6183265 TTGTAAACCA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 4 0.07
54 57 0.93
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (54 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACAA
Found at i:6183291 original size:81 final size:80
Alignment explanation
Indices: 6183122--6183291 Score: 175
Period size: 81 Copynumber: 2.1 Consensus size: 80
6183112 AAGGGCAAAA
* **
6183122 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTA
1 TGGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCAAATAGGGGTATTTTAGTAATTCTA
*
6183187 ACCTACAAGGGTATTT
66 AAC-ACAAGGGTATTT
* * * * *
6183203 CGATAATTCTACCCTACAAGGGTATTTCGGTAATT-T-CACAAATCAGGGGTATTTTGGTAATTT
1 TGGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTAC-CAAAT-AGGGGTATTTTAGTAA--T
* *
6183266 TGTAAAC-CAATGGTATTT
62 TCTAAACACAAGGGTATTT
6183284 TGGTAATT
1 TGGTAATT
6183292 TTACAAATCG
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
79 1 0.01
80 4 0.06
81 61 0.85
83 6 0.08
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (80 bp):
TGGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCAAATAGGGGTATTTTAGTAATTCTA
AACACAAGGGTATTT
Found at i:6183333 original size:26 final size:26
Alignment explanation
Indices: 6183277--6183398 Score: 124
Period size: 26 Copynumber: 4.6 Consensus size: 26
6183267 GTAAACCAAT
**
6183277 GGTATTTTGGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTAC-AATCGAG
*
6183304 GGTATTTCAGTAATTTTACAATCGAA
1 GGTATTTCAGTAATTTTACAATCGAG
* *
6183330 GGTATTTCAGTAACTTTATA-AACCGGG
1 GGTATTTCAGTAA-TTT-TACAATCGAG
*
6183357 GGTACTTTGA-TAATTTTACAA-CGAGG
1 GGTA-TTTCAGTAATTTTACAATCGA-G
6183383 GGTATTTCAGTAATTT
1 GGTATTTCAGTAATTT
6183399 GGTAAACTAA
Statistics
Matches: 80, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
25 8 0.10
26 35 0.44
27 31 0.39
28 6 0.08
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (26 bp):
GGTATTTCAGTAATTTTACAATCGAG
Found at i:6189844 original size:28 final size:27
Alignment explanation
Indices: 6189787--6189938 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
6189777 TAAATTGTGC
* *
6189787 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
6189814 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
6189842 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
6189869 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
6189897 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
6189924 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
6189939 GACTTAATAA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:6189852 original size:55 final size:55
Alignment explanation
Indices: 6189787--6189938 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
6189777 TAAATTGTGC
* *
6189787 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
6189842 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
6189897 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
6189939 GACTTAATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:6197965 original size:40 final size:40
Alignment explanation
Indices: 6197869--6198036 Score: 221
Period size: 40 Copynumber: 4.2 Consensus size: 40
6197859 CTCGTTCAAG
* * * *
6197869 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
*
6197908 TGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
*
6197948 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
1 TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
* * * * *
6197988 TGCCTTCGGGACTTAACCCAGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
*
6198028 GGCCTTCGG
1 TGCCTTCGG
6198037 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 32 0.28
40 84 0.72
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
Found at i:6198049 original size:40 final size:40
Alignment explanation
Indices: 6197870--6198082 Score: 180
Period size: 40 Copynumber: 5.3 Consensus size: 40
6197860 TCGTTCAAGT
* * * * * * *
6197870 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AAT
1 GCCTTCGGGACTTAACCCAGATTTAATAACTCGCACAAAG
* * * * *
6197909 GCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAAT
1 GCCTTCGGGACTTAACCCAGATTTAATAACTCGCACAAAG
* * *
6197949 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAAT
1 GCCTTCGGGACTTAACCCAGATTTAATAACTCGCACAAAG
* *
6197989 GCCTTCGGGACTTAACCCAGATTTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCAGATTTAATAACTCGCACAAAG
** * * * *
6198029 GCCTTC-GGATCTTAGTCCAGATATATTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAACCCAGATTTAATAAC-TCGCACAAAG
6198069 GCCTTCGGGACTTA
1 GCCTTCGGGACTTA
6198083 GCCCGGACAG
Statistics
Matches: 151, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 34 0.23
40 106 0.70
41 11 0.07
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCAGATTTAATAACTCGCACAAAG
Found at i:6205966 original size:40 final size:40
Alignment explanation
Indices: 6205772--6206036 Score: 261
Period size: 40 Copynumber: 6.7 Consensus size: 40
6205762 GCTCCTCGTT
* * * * *
6205772 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
* * *
6205812 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
* * *
6205851 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
*
6205891 CGAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
* * * *
6205931 CAAAGGCCTTCGGGGCTTAACCCGTAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCG-GATTTAATATCTCGCA
** * * *
6205971 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAAT-ATC-TCGCA
*
6206012 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
6206037 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
39 40 0.20
40 142 0.72
41 16 0.08
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
Found at i:6208976 original size:12 final size:12
Alignment explanation
Indices: 6208959--6208991 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
6208949 CATTAGCACA
6208959 ACATGTTTTATG
1 ACATGTTTTATG
6208971 ACATGTTTTATG
1 ACATGTTTTATG
6208983 ACATGTTTT
1 ACATGTTTT
6208992 GCCCATCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (12 bp):
ACATGTTTTATG
Found at i:6217515 original size:46 final size:46
Alignment explanation
Indices: 6217371--6217869 Score: 211
Period size: 46 Copynumber: 10.8 Consensus size: 46
6217361 TAGCATGTTT
* *
6217371 ATGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTC-
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCTTCTCA
* ** * * * *
6217416 ATAGCCGATGCATGTCCCTGACATGTCTTACTTTGGC-TTTTGTCTCG
1 AT-GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCT-TCTCA
* *
6217463 AGGTCGATGCATGTCCCAGACATGTCTTACACTAGCACTCTTCTCA
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCTTCTCA
* * * * * * *
6217509 ATGTCGATGCCATCTCCCACATATGGTCTTACACTAACAAATCTTAT--
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCTTCTCA
* * * * * * * *
6217556 A-GCTGATGCATGTCCCTGACATGTCTTAC-TTTGGATTTTGTCTCG
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCT-TCTCA
* * * * * * *
6217601 AGGCCGATGTATATCCTAAACGTGTCTTTCACTAGCACT-TGTCTCA
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCT-TCTCA
* * * * *
6217647 ATCCCGATGCCATGTCTCACACATGGTCTTACACT-G-ACACATCTC-
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCTTCTCA
* * * ** ** *
6217692 ATAGCCGATACATGTCCCTGACATGTCTTACTCCGGCTTTCGTCTCA
1 AT-GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCTTCTCA
* * * * * *
6217739 AGGCTGATGGATGTCCCGGACATGTCTTTACACTAGAACTCATCTCA
1 ATGCCGATGCATGTCCCAGACATGTC-TTACACTAGCACTCTTCTCA
* * *
6217786 ATGACGATGCCATGTCCCAAACATGGTCTTACACTTG--CTC-TCAT-A
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCTTC-TCA
*
6217831 ATGTGGCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 A--T-GCCGATGCATGTCCCAGACATGTCTTACACTAGC
6217870 TCACACAAGT
Statistics
Matches: 331, Mismatches: 94, Indels: 56
0.69 0.20 0.12
Matches are distributed among these distances:
42 3 0.01
43 3 0.01
44 23 0.07
45 45 0.14
46 141 0.43
47 62 0.19
48 45 0.14
49 9 0.03
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (46 bp):
ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCTTCTCA
Found at i:6217627 original size:138 final size:138
Alignment explanation
Indices: 6217375--6217820 Score: 597
Period size: 138 Copynumber: 3.2 Consensus size: 138
6217365 ATGTTTATGC
*
6217375 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCTGACAT
1 CGATGCCATGTCCCACACATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCTGACAT
*
6217440 GTCTTACTTTGGCTTTTGTCTCGAGGTCGATGCATGTCCCAGACATGTCTTACACTAGCACTCTT
66 GTCTTACTTTGGCTTTTGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCTT
*
6217505 CTCAATGT
131 CTCAATGA
* * * * * *
6217513 CGATGCCATCTCCCACATATGGTCTTACACTAACAAATCTTATAGCTGATGCATGTCCCTGACAT
1 CGATGCCATGTCCCACACATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCTGACAT
* * * * * * *
6217578 GTCTTACTTTGGATTTTGTCTCGAGGCCGATGTATATCCTAAACGTGTCTTTCACTAGCACT-TG
66 GTCTTACTTTGGCTTTTGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCT-
**
6217642 TCTCAATCC
130 TCTCAATGA
* *
6217651 CGATGCCATGTCTCACACATGGTCTTACACTGACACATCTCATAGCCGATACATGTCCCTGACAT
1 CGATGCCATGTCCCACACATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCTGACAT
** * * * * * * *
6217716 GTCTTACTCCGGCTTTCGTCTCAAGGCTGATGGATGTCCCGGACATGTCTTTACACTAGAACTCA
66 GTCTTACTTTGGCTTTTGTCTCGAGGCCGATGCATGTCCCAGACATGTC-TTACACTAGCACTCT
6217781 TCTCAATGA
130 TCTCAATGA
*
6217790 CGATGCCATGTCCCAAACATGGTCTTACACT
1 CGATGCCATGTCCCACACATGGTCTTACACT
6217821 TGCTCTCATA
Statistics
Matches: 261, Mismatches: 44, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
137 1 0.00
138 213 0.82
139 47 0.18
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (138 bp):
CGATGCCATGTCCCACACATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCTGACAT
GTCTTACTTTGGCTTTTGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCTT
CTCAATGA
Found at i:6226173 original size:29 final size:29
Alignment explanation
Indices: 6226131--6226231 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
6226121 CATGAAATTG
6226131 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
6226160 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* * *
6226189 GCACTAAGTGTGCGAGTTC-GATTATATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
6226217 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
6226232 ACTTACTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTCAAATTGTATA
Found at i:6228481 original size:46 final size:43
Alignment explanation
Indices: 6228391--6228506 Score: 128
Period size: 46 Copynumber: 2.5 Consensus size: 43
6228381 GTGTCAATGT
6228391 CATGTCCCAGACATGGTCTTACACTCACACATCTTGTAGCCGATG
1 CATGTCCC-GACAT-GTCTTACACTCACACATCTTGTAGCCGATG
*
6228436 CATGTCCCTGACATGTCTTACAC-CAACTTTCATCTTG-AGGCCGATG
1 CATGTCCC-GACATGTCTTACACTC-AC--ACATCTTGTA-GCCGATG
6228482 CATGTCCCGAACATGTCTTTACACT
1 CATGTCCCG-ACATGTC-TTACACT
6228507 AGCACTCATC
Statistics
Matches: 62, Mismatches: 2, Indels: 11
0.83 0.03 0.15
Matches are distributed among these distances:
43 1 0.02
44 11 0.18
45 15 0.24
46 29 0.47
47 6 0.10
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.29
Consensus pattern (43 bp):
CATGTCCCGACATGTCTTACACTCACACATCTTGTAGCCGATG
Found at i:6229573 original size:13 final size:13
Alignment explanation
Indices: 6229551--6229583 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6229541 AATGGTTTGT
6229551 TTAT-TAAACTAA
1 TTATCTAAACTAA
6229563 TTATCTAAACTAA
1 TTATCTAAACTAA
*
6229576 TTAACTAA
1 TTATCTAA
6229584 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:6232510 original size:6 final size:6
Alignment explanation
Indices: 6232496--6232553 Score: 70
Period size: 6 Copynumber: 10.3 Consensus size: 6
6232486 AATAAATTTG
*
6232496 AAATTA AAATAA AAATAA AAATAA AAATAA AAAT-A AAAT-- AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
6232541 AAA-AA GAATAA AA
1 AAATAA AAATAA AA
6232554 GATAGGAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
4 4 0.09
5 9 0.20
6 33 0.72
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:6232521 original size:11 final size:11
Alignment explanation
Indices: 6232476--6232553 Score: 63
Period size: 12 Copynumber: 6.8 Consensus size: 11
6232466 TATGTCTTTC
6232476 AAAATAAAATA
1 AAAATAAAATA
* *
6232487 ATAAATTTGAAATT
1 A-AAA--TAAAATA
6232501 AAAATAAAAATA
1 AAAAT-AAAATA
6232513 AAAATAAAAATA
1 AAAAT-AAAATA
6232525 AAAATAAAAT-
1 AAAATAAAATA
6232535 -AAATAAAA-A
1 AAAATAAAATA
6232544 AAGAATAAAA
1 AA-AATAAAA
6232554 GATAGGAGGA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
9 8 0.14
10 1 0.02
11 14 0.25
12 24 0.43
13 3 0.05
14 6 0.11
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:6238683 original size:27 final size:27
Alignment explanation
Indices: 6238653--6238706 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
6238643 TTAAGAGTAT
6238653 AATTAGGCCATGTTAAATACTATTTAA
1 AATTAGGCCATGTTAAATACTATTTAA
6238680 AATTAGGCCATGTTAAATACTATTTAA
1 AATTAGGCCATGTTAAATACTATTTAA
6238707 GTCTATAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (27 bp):
AATTAGGCCATGTTAAATACTATTTAA
Found at i:6244984 original size:40 final size:40
Alignment explanation
Indices: 6244886--6245148 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
6244876 TCCTCGTTCA
* * * * *
6244886 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
6244925 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
6244965 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
6245005 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
6245045 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
6245085 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
6245125 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
6245149 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:6245157 original size:41 final size:41
Alignment explanation
Indices: 6245080--6245157 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
6245070 TTAGTATCTC
* * *
6245080 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
6245121 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
6245158 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:6252924 original size:40 final size:40
Alignment explanation
Indices: 6252875--6253098 Score: 296
Period size: 40 Copynumber: 5.6 Consensus size: 40
6252865 TAGCTCACAC
6252875 AATGCCTTCGGGACTTAACCCGGATTTAACGACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACGACTCGCACG
6252915 AATGCCTTCGGGACTTAACCCGGATTTAACGACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACGACTCGCACG
6252955 AATGCCTTCGGGACTTAACCCGGATTTAACGACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACGACTCGCACG
*
6252995 AATGCCTTCGGGACTTAACCCGGATTT-A-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACG-A-CTCGCACG
* * * * *
6253035 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACGAC-TCGCACG
* *
6253075 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
6253099 CAGCATTCAA
Statistics
Matches: 167, Mismatches: 9, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
38 1 0.01
39 5 0.03
40 152 0.91
41 9 0.05
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACGACTCGCACG
Found at i:6252972 original size:80 final size:80
Alignment explanation
Indices: 6252836--6253098 Score: 304
Period size: 80 Copynumber: 3.3 Consensus size: 80
6252826 TCCTCGTTCA
* ** * * * *
6252836 AATGCCTTTGGGACAGAGCCCGGTTTTAGTAGCTCACAC-AATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGAT
6252900 TTAACGACTCGCACG
66 TTAACGACTCGCACG
*
6252915 AATGCCTTCGGGACTTAACCCGGATTTAACG-A-CTCGCACGAATGCCTTCGGGACTTAACCCGG
1 AATGCCTTCGGGACTTAACCCGGATTT-A-GTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
6252978 ATTTAACGACTCGCACG
64 ATTTAACGACTCGCACG
* *
6252995 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* * *
6253059 TATATTC-ACTTAGCAC-
65 TTTA-ACGAC-TCGCACG
* *
6253075 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
6253099 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
78 1 0.01
79 33 0.20
80 121 0.75
81 7 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAACGACTCGCACG
Found at i:6258367 original size:26 final size:26
Alignment explanation
Indices: 6258338--6258391 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
6258328 GATCAACAAG
6258338 TATGACAAATTCTTTCAACTCAAGAA
1 TATGACAAATTCTTTCAACTCAAGAA
6258364 TATGACAAATTCTTTCAACTCAAGAA
1 TATGACAAATTCTTTCAACTCAAGAA
6258390 TA
1 TA
6258392 CCCACAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (26 bp):
TATGACAAATTCTTTCAACTCAAGAA
Found at i:6266030 original size:39 final size:39
Alignment explanation
Indices: 6266012--6266118 Score: 178
Period size: 39 Copynumber: 2.7 Consensus size: 39
6266002 GCACTTAGTT
*
6266012 TGCGGACTTTAAGTCCGGATATATTTCCAGCATAAAGCC
1 TGCGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCC
* *
6266051 TGCGGACTTCAGGTCCGGATATATTTCTAGCATAAAGCC
1 TGCGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCC
*
6266090 TGCGGACTTCAAGTCCGGATATTTTTCCA
1 TGCGGACTTCAAGTCCGGATATATTTCCA
6266119 ATACCATGCA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 62 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (39 bp):
TGCGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCC
Found at i:6273777 original size:21 final size:22
Alignment explanation
Indices: 6273737--6273777 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6273727 TTCTAAATAA
* *
6273737 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
6273759 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
6273778 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:6274583 original size:17 final size:18
Alignment explanation
Indices: 6274549--6274586 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
6274539 CAATTAACCC
6274549 CTCAATTAAGATAATTTT
1 CTCAATTAAGATAATTTT
*
6274567 CTCAATTAATA-AATTTT
1 CTCAATTAAGATAATTTT
6274584 CTC
1 CTC
6274587 GACATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.45
Consensus pattern (18 bp):
CTCAATTAAGATAATTTT
Found at i:6275821 original size:26 final size:23
Alignment explanation
Indices: 6275775--6275819 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
6275765 TAGTGATAGG
6275775 GCATCTGGTGGTTGTTTTTCTTA
1 GCATCTGGTGGTTGTTTTTCTTA
6275798 GCATCTGGTGGTTGTTTTTCTT
1 GCATCTGGTGGTTGTTTTTCTT
6275820 CTCTTGGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.07, C:0.13, G:0.27, T:0.53
Consensus pattern (23 bp):
GCATCTGGTGGTTGTTTTTCTTA
Found at i:6280919 original size:30 final size:30
Alignment explanation
Indices: 6280883--6280952 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
6280873 AGAATCTATA
*
6280883 AATACAGACAAGGTAAATTCTAACTTAGTG
1 AATACAGACAAGGTAAATCCTAACTTAGTG
6280913 AATACAGACAAGGTAAATCCTAACTTAGTG
1 AATACAGACAAGGTAAATCCTAACTTAGTG
*
6280943 AATTCAGACA
1 AATACAGACA
6280953 CTTTAACATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (30 bp):
AATACAGACAAGGTAAATCCTAACTTAGTG
Found at i:6297841 original size:68 final size:64
Alignment explanation
Indices: 6297750--6297971 Score: 205
Period size: 67 Copynumber: 3.4 Consensus size: 64
6297740 AAATACGGGA
* * *
6297750 TGTATACCATGTGTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCGCATGAGTGATACT
6297815 ATG
62 ATG
* * * * * *
6297818 TGTACACCATGTAG-ACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGG
1 TGTACACCATGT-GTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGAGTGATACTA--
6297882 TG
63 TG
* * ** * * *
6297884 AAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATAAGTGATACTATG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGAGTGATACTATG
*
6297948 TGTACAACATGTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
6297972 CAAAATTATG
Statistics
Matches: 125, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
63 19 0.15
64 25 0.20
65 2 0.02
66 22 0.18
67 29 0.23
68 27 0.22
69 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.23
Consensus pattern (64 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGAGTGATACTATG
Found at i:6299248 original size:47 final size:47
Alignment explanation
Indices: 6299179--6299400 Score: 208
Period size: 47 Copynumber: 4.8 Consensus size: 47
6299169 GGTGCCAATG
**
6299179 CCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAATTCGAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGCCGAT
* *
6299225 ACCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGCCGAT
1 -CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AAGCCGAT
* * * *
6299273 GCATGTCCCAAACAT-GTCTTACA-TAGGCTTA-CGTCTCAAGGCCGAT
1 CCATGTCCCAGACATGGTCTTACACT-GGCTCATCATCTCAA-GCCGAT
* * * **
6299319 GCATGTCCCAGACAT-GTCTTACACTAGCTC-TCATCTTAATGATGAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA-GCCGAT
*
6299365 GCCATGTCCCAGACATGGTCTTATACTGGCTC-TCAT
1 -CCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
6299401 AATGTGGCAG
Statistics
Matches: 146, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.01
46 59 0.40
47 63 0.43
48 22 0.15
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGCCGAT
Found at i:6299418 original size:47 final size:46
Alignment explanation
Indices: 6299316--6299441 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 46
6299306 TCTCAAGGCC
**
6299316 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTTAATGAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAATGAT
* * *
6299362 GATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAAT-GTGGCA-
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATAAT-G-AT
*
6299410 GATGCATGTCCCAGACATATCTTACACTAGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCT
6299442 AGGAATAACC
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
46 15 0.22
47 29 0.43
48 23 0.34
49 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAATGAT
Found at i:6299433 original size:140 final size:140
Alignment explanation
Indices: 6299180--6299435 Score: 349
Period size: 140 Copynumber: 1.8 Consensus size: 140
6299170 GTGCCAATGC
*
6299180 CATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAATTCGATACCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAATTCGATACCATGTCCCAGACATGGTC
* * *
6299245 TTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAAACATGTCTTACATAGGCTTACGTCTC
66 TTACACTGACTATCATATCGTAGCAGATGCATGTCCCAAACATATCTTACATAGGCTTACGTCTC
6299310 AAGGCCGATG
131 AAGGCCGATG
* *
6299320 CATGTCCCAGACAT-GTCTTACACTAGCTC-TCATCTTAATGAT-GATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAAT--TCGATACCATGTCCCAGACATG
* * * * *
6299382 GTCTTATACTGGCTCTCATAAT-GTGGCAGATGCATGTCCCAGACATATCTTACA
63 GTCTTACACTGACTATCAT-ATCGTAGCAGATGCATGTCCCAAACATATCTTACA
6299436 CTAGCTAGGA
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
138 1 0.01
139 21 0.21
140 77 0.76
141 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAATTCGATACCATGTCCCAGACATGGTC
TTACACTGACTATCATATCGTAGCAGATGCATGTCCCAAACATATCTTACATAGGCTTACGTCTC
AAGGCCGATG
Found at i:6301359 original size:15 final size:15
Alignment explanation
Indices: 6301339--6301368 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6301329 CCATAGATAG
6301339 TTCATTAACTTTAAC
1 TTCATTAACTTTAAC
6301354 TTCATTAACTTTAAC
1 TTCATTAACTTTAAC
6301369 ATTTGTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (15 bp):
TTCATTAACTTTAAC
Found at i:6302634 original size:23 final size:23
Alignment explanation
Indices: 6302604--6302664 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
6302594 TGCATTTCAG
*
6302604 TATCAAAATCAGTTTGGTAACAA
1 TATCAAAATCAGTTCGGTAACAA
**
6302627 TATCAAAATCAGTTCGGTAACCG
1 TATCAAAATCAGTTCGGTAACAA
*
6302650 TATCAAAGTCAGTTC
1 TATCAAAATCAGTTC
6302665 AGTTATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (23 bp):
TATCAAAATCAGTTCGGTAACAA
Found at i:6303262 original size:45 final size:45
Alignment explanation
Indices: 6303198--6303293 Score: 174
Period size: 45 Copynumber: 2.1 Consensus size: 45
6303188 GCTTTGAAAG
6303198 ATCAATATTTCAAACCTGAAAAGAATACACTTACTCTTTACCAAT
1 ATCAATATTTCAAACCTGAAAAGAATACACTTACTCTTTACCAAT
* *
6303243 ATCAATATTTCAAACCTGAAAAGAATACACTTGCTCTTTACTAAT
1 ATCAATATTTCAAACCTGAAAAGAATACACTTACTCTTTACCAAT
6303288 ATCAAT
1 ATCAAT
6303294 CGATTCTAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (45 bp):
ATCAATATTTCAAACCTGAAAAGAATACACTTACTCTTTACCAAT
Found at i:6309225 original size:19 final size:19
Alignment explanation
Indices: 6309201--6309238 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6309191 TGAGAAAACC
6309201 TACACTCGAAATTTAGAGT
1 TACACTCGAAATTTAGAGT
* *
6309220 TACACTTGGAATTTAGAGT
1 TACACTCGAAATTTAGAGT
6309239 AGGGGTTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (19 bp):
TACACTCGAAATTTAGAGT
Found at i:6317489 original size:24 final size:24
Alignment explanation
Indices: 6317462--6317507 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6317452 TTTCTCCTAA
*
6317462 ATTTT-AATTTTATTTAATTATTTG
1 ATTTTCAA-TTTATTGAATTATTTG
6317486 ATTTTCAATTTATTGAATTATT
1 ATTTTCAATTTATTGAATTATT
6317508 AATGCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (24 bp):
ATTTTCAATTTATTGAATTATTTG
Found at i:6318035 original size:43 final size:43
Alignment explanation
Indices: 6317987--6318081 Score: 190
Period size: 43 Copynumber: 2.2 Consensus size: 43
6317977 AATTCTCGAG
6317987 GAACTTACAATTCTAGGTTCTAAGTGGAATGTGTCAAAGCATA
1 GAACTTACAATTCTAGGTTCTAAGTGGAATGTGTCAAAGCATA
6318030 GAACTTACAATTCTAGGTTCTAAGTGGAATGTGTCAAAGCATA
1 GAACTTACAATTCTAGGTTCTAAGTGGAATGTGTCAAAGCATA
6318073 GAACTTACA
1 GAACTTACA
6318082 CTTGTCGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (43 bp):
GAACTTACAATTCTAGGTTCTAAGTGGAATGTGTCAAAGCATA
Found at i:6325569 original size:40 final size:40
Alignment explanation
Indices: 6325495--6325636 Score: 234
Period size: 40 Copynumber: 3.6 Consensus size: 40
6325485 AACCCAAGTA
* *
6325495 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
6325534 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
6325574 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
6325614 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
6325637 CATTCGAATA
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 12 0.12
40 82 0.85
41 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:6326942 original size:319 final size:319
Alignment explanation
Indices: 6326363--6326999 Score: 1265
Period size: 319 Copynumber: 2.0 Consensus size: 319
6326353 TTCAAATCAA
6326363 ACTCTTAACAAGAATGCACAATGCCGAACCCTTAGATGATTAAACATCTAATTTAGACAATTTTA
1 ACTCTTAACAAGAATGCACAATGCCGAACCCTTAGATGATTAAACATCTAATTTAGACAATTTTA
6326428 GAACAACTAAACGGCACTTGTTCACAACATTAAACAACTACATGTTCGGCTAGAACATGGTACTT
66 GAACAACTAAACGGCACTTGTTCACAACATTAAACAACTACATGTTCGGCTAGAACATGGTACTT
6326493 AACTACATCGATTTTAAGCATAATAATTACTCAAACCTAATCAAATTCACATTCGGTCTTGGTAC
131 AACTACATCGATTTTAAGCATAATAATTACTCAAACCTAATCAAATTCACATTCGGTCTTGGTAC
6326558 CTAATAAGGTAGCCGATTCCTTTCCCTTAGCACCTAATGCTCACATATGATTATTTGTATAGTTC
196 CTAATAAGGTAGCCGATTCCTTTCCCTTAGCACCTAATGCTCACATATGATTATTTGTATAGTTC
*
6326623 AAACACTCATCTACCCTTGTTCATCTAAATTTAACAAGAAACAAAAACCTTTTTTCTCG
261 AAACACTCATCTACCCTTGTTCATCTAAATTTAACAAGAAACAAAAACCTTATTTCTCG
6326682 ACTCTTAACAAGAATGCACAATGCCGAACCCTTAGATGATTAAACATCTAATTTAGACAATTTTA
1 ACTCTTAACAAGAATGCACAATGCCGAACCCTTAGATGATTAAACATCTAATTTAGACAATTTTA
6326747 GAACAACTAAACGGCACTTGTTCACAACATTAAACAACTACATGTTCGGCTAGAACATGGTACTT
66 GAACAACTAAACGGCACTTGTTCACAACATTAAACAACTACATGTTCGGCTAGAACATGGTACTT
6326812 AACTACATCGATTTTAAGCATAATAATTACTCAAACCTAATCAAATTCACATTCGGTCTTGGTAC
131 AACTACATCGATTTTAAGCATAATAATTACTCAAACCTAATCAAATTCACATTCGGTCTTGGTAC
6326877 CTAATAAGGTAGCCGATTCCTTTCCCTTAGCACCTAATGCTCACATATGATTATTTGTATAGTTC
196 CTAATAAGGTAGCCGATTCCTTTCCCTTAGCACCTAATGCTCACATATGATTATTTGTATAGTTC
6326942 AAACACTCATCTACCCTTGTTCATCTAAATTTAACAAGAAACAAAAACCTTATTTCTC
261 AAACACTCATCTACCCTTGTTCATCTAAATTTAACAAGAAACAAAAACCTTATTTCTC
6327000 CATAGCTACA
Statistics
Matches: 317, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
319 317 1.00
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.31
Consensus pattern (319 bp):
ACTCTTAACAAGAATGCACAATGCCGAACCCTTAGATGATTAAACATCTAATTTAGACAATTTTA
GAACAACTAAACGGCACTTGTTCACAACATTAAACAACTACATGTTCGGCTAGAACATGGTACTT
AACTACATCGATTTTAAGCATAATAATTACTCAAACCTAATCAAATTCACATTCGGTCTTGGTAC
CTAATAAGGTAGCCGATTCCTTTCCCTTAGCACCTAATGCTCACATATGATTATTTGTATAGTTC
AAACACTCATCTACCCTTGTTCATCTAAATTTAACAAGAAACAAAAACCTTATTTCTCG
Found at i:6334789 original size:40 final size:40
Alignment explanation
Indices: 6334713--6334816 Score: 167
Period size: 40 Copynumber: 2.6 Consensus size: 40
6334703 CAAACCCAAG
* *
6334713 TGCCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAA
6334752 TGCCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAA
6334792 TGCCTTCGGGACTTAGCCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATAT
6334817 CATTCGAATA
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
39 15 0.25
40 43 0.70
41 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAA
Found at i:6337572 original size:100 final size:100
Alignment explanation
Indices: 6337399--6337599 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
6337389 CAAAAAGCAA
6337399 GAGTAAACTGGCTTAAATAGGGGAATAGAAACACTATATTTTTCCATAATTTTACGTCCAGCGAT
1 GAGTAAACTGGCTTAAATAGGGGAATAGAAACACTATATTTTTCCATAATTTTACGTCCAGCGAT
6337464 GAAGTAGTTGATGACATGATGACATGATTAGGATT
66 GAAGTAGTTGATGACATGATGACATGATTAGGATT
6337499 GAGTAAACTGGCTTAAATAGGGGAATAGAAACACTATATTTTTCCATAATTTTACGTCCAGCGAT
1 GAGTAAACTGGCTTAAATAGGGGAATAGAAACACTATATTTTTCCATAATTTTACGTCCAGCGAT
6337564 GAAGTAGTTGATGACATGATGACATGATTAGGATT
66 GAAGTAGTTGATGACATGATGACATGATTAGGATT
6337599 G
1 G
6337600 TTTACTAGTC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (100 bp):
GAGTAAACTGGCTTAAATAGGGGAATAGAAACACTATATTTTTCCATAATTTTACGTCCAGCGAT
GAAGTAGTTGATGACATGATGACATGATTAGGATT
Found at i:6357436 original size:39 final size:40
Alignment explanation
Indices: 6357391--6357575 Score: 187
Period size: 40 Copynumber: 4.7 Consensus size: 40
6357381 GCTCCTCGTT
* * * *
6357391 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
**
6357431 C-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
6357470 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
6357510 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
6357551 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
6357576 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 36 0.30
40 75 0.61
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:6357584 original size:41 final size:41
Alignment explanation
Indices: 6357507--6357584 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
6357497 TTAGTATCTC
* * *
6357507 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
6357548 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
6357585 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:6361109 original size:37 final size:37
Alignment explanation
Indices: 6361059--6361137 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
6361049 TTATTACGAA
* * *
6361059 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
6361096 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
6361133 GTCTT
1 GTCTT
6361138 TAGAGCTCGG
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:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:6361330 original size:49 final size:49
Alignment explanation
Indices: 6361258--6361642 Score: 577
Period size: 49 Copynumber: 8.0 Consensus size: 49
6361248 CTTCGGGACT
* * * * * *
6361258 TATCACAT-T-TATACACTTTCACATCCGTCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
6361305 TGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
6361354 TATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGG-CC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
6361402 TCATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTTGGCCT
1 T-ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
6361450 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
6361499 TATCACATATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
6361548 TATCTC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
6361595 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
6361643 TTACTATCAT
Statistics
Matches: 306, Mismatches: 24, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
47 91 0.30
48 6 0.02
49 209 0.68
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:6361428 original size:96 final size:97
Alignment explanation
Indices: 6361256--6361645 Score: 576
Period size: 96 Copynumber: 4.0 Consensus size: 97
6361246 CCCTTCGGGA
* * * * * * *
6361256 CTTATCACAT-T-TATACACTTTCACATCCGTCACGTTGGCCACTCGGCCCTGTCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATAT
*
6361319 ACACTTCCACATTCATCACATCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
6361352 CCTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGG-CCTCATCAC-GTATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCT-ATCACAATATAT
*
6361415 ACACTTTCACATTCATCACATCGGCCATTTGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
6361448 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATAT
*
6361513 ACTCTTTCACATTCATCACATCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
6361546 CTTATCTC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATAT
6361609 ACACTTTCACATTCATCACATCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
6361642 CTTA
1 CTTA
6361646 CTATCATTTC
Statistics
Matches: 269, Mismatches: 19, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
96 187 0.70
97 7 0.03
98 75 0.28
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (97 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATA
CACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:6361522 original size:145 final size:145
Alignment explanation
Indices: 6361259--6361642 Score: 624
Period size: 145 Copynumber: 2.6 Consensus size: 145
6361249 TTCGGGACTT
* * * * * * * *
6361259 ATCACATTTATACACTTTCACATCCGTCACGTTGGCCACTCGGCCCTGTCACATATATATACACT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACT
*
6361324 TCCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACAC
66 TTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACAC
6361389 CGGCCATTAGGCCTC
131 CGGCCATTAGGCCTC
* * *
6361404 ATCACGTATATACACTTTCACATTCATCACATCGGCCATTTGGCCTTATCACATATATATACACT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACT
* *
6361469 TTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACTCTTTCACATTCATCACAT
66 TTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACAC
*
6361534 CGGCCATTAGGCCTT
131 CGGCCATTAGGCCTC
*
6361549 ATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACT
6361614 TTCACATTCATCACATCGGCCATTAGGCC
66 TTCACATTCATCACATCGGCCATTAGGCC
6361643 TTACTATCAT
Statistics
Matches: 221, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
145 221 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (145 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACAC
CGGCCATTAGGCCTC
Found at i:6366097 original size:9 final size:9
Alignment explanation
Indices: 6366083--6366115 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
6366073 TTCTTATATT
6366083 TTTTTTTAC
1 TTTTTTTAC
6366092 TTTTTTTA-
1 TTTTTTTAC
6366100 TTTTTTTAC
1 TTTTTTTAC
6366109 TTTTTTT
1 TTTTTTT
6366116 CTTATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:6366105 original size:17 final size:17
Alignment explanation
Indices: 6366083--6366115 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6366073 TTCTTATATT
6366083 TTTTTTTACTTTTTTTA
1 TTTTTTTACTTTTTTTA
6366100 TTTTTTTACTTTTTTT
1 TTTTTTTACTTTTTTT
6366116 CTTATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTACTTTTTTTA
Found at i:6366200 original size:36 final size:36
Alignment explanation
Indices: 6366131--6366204 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
6366121 ATTTTGTCTC
*
6366131 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
6366168 TTTCTTA-ATTTATTTTGCTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
6366204 T
1 T
6366205 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:6366209 original size:18 final size:17
Alignment explanation
Indices: 6366158--6366205 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
6366148 TTTTTTAAGT
*
6366158 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
* *
6366176 TTTATTTTGCTTATTTAA
1 TTTATATT-ATTATTTAA
6366194 TTTATATTATTA
1 TTTATATTATTA
6366206 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:6366263 original size:21 final size:22
Alignment explanation
Indices: 6366221--6366280 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
6366211 AAAAAAAAAT
* *
6366221 TAATATATATTTAAAATGTTTTA
1 TAATATTTTTTTAAAA-GTTTTA
6366244 TAATATTTTTTTAAAA-TTTTA
1 TAATATTTTTTTAAAAGTTTTA
*
6366265 -ATTATTATTTTTAAAA
1 TAATATT-TTTTTAAAA
6366281 ATATTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 5 0.15
21 14 0.42
23 14 0.42
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TAATATTTTTTTAAAAGTTTTA
Found at i:6366273 original size:23 final size:23
Alignment explanation
Indices: 6366221--6366280 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
6366211 AAAAAAAAAT
* * *
6366221 TAATATATATTTAAAATGTTTTA
1 TAATATTTTTTTAAAATGTTTAA
6366244 TAATATTTTTTTAAAAT-TTTAA
1 TAATATTTTTTTAAAATGTTTAA
6366266 T--TATTATTTTTAAAA
1 TAATATT-TTTTTAAAA
6366281 ATATTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.12
21 9 0.27
22 5 0.15
23 15 0.45
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TAATATTTTTTTAAAATGTTTAA
Found at i:6366562 original size:18 final size:16
Alignment explanation
Indices: 6366539--6366579 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
6366529 GTGACTATTA
6366539 ATAAATTTAAATATAAAT
1 ATAAATTTAAA-A-AAAT
6366557 ATAAATTTAAAAAAAT
1 ATAAATTTAAAAAAAT
6366573 ATTAAAT
1 A-TAAAT
6366580 ATTATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 6 0.27
18 11 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAAATTTAAAAAAAT
Found at i:6366580 original size:23 final size:22
Alignment explanation
Indices: 6366547--6366603 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
6366537 TAATAAATTT
6366547 AAATA-TAAATATAAATTTAAAA
1 AAATATTAAATATAAATTT-AAA
* * *
6366569 AAATATTAAATAT-TATTTTAT
1 AAATATTAAATATAAATTTAAA
6366590 AAATATTAAATATA
1 AAATATTAAATATA
6366604 TTTTTTTGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 14 0.47
22 9 0.30
23 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATATTAAATATAAATTTAAA
Found at i:6366610 original size:23 final size:21
Alignment explanation
Indices: 6366569--6366607 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6366559 AAATTTAAAA
6366569 AAATATTAAATATTATTTTAT
1 AAATATTAAATATTATTTTAT
6366590 AAATATTAAATA-TATTTT
1 AAATATTAAATATTATTTT
6366608 TTTGACTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATATTAAATATTATTTTAT
Found at i:6366982 original size:21 final size:21
Alignment explanation
Indices: 6366943--6366986 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6366933 ATTTAAAATG
6366943 TTTTATAATATATTTTTTACAA
1 TTTTATAATATATTTTTTA-AA
6366965 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATAT-TTTTTAAA
6366985 TT
1 TT
6366987 CTTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTATAATATATTTTTTAAA
Found at i:6367109 original size:18 final size:18
Alignment explanation
Indices: 6367086--6367124 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
6367076 GTGATTATTA
*
6367086 ATAAATTTAAATATAAAT
1 ATAAATTTAAAAATAAAT
*
6367104 ATAAATTTAAAAATATAT
1 ATAAATTTAAAAATAAAT
6367122 ATA
1 ATA
6367125 TTAAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAATTTAAAAATAAAT
Found at i:6371599 original size:30 final size:30
Alignment explanation
Indices: 6371563--6371622 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
6371553 ACTGCCTATA
*
6371563 TCCGGGTGATATGAACTTGAACCACCCATT
1 TCCGGGTGATATGAACTCGAACCACCCATT
6371593 TCCGGGTGATATGAACTCGAACCACCCATT
1 TCCGGGTGATATGAACTCGAACCACCCATT
6371623 AAGACCTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (30 bp):
TCCGGGTGATATGAACTCGAACCACCCATT
Found at i:6376293 original size:59 final size:58
Alignment explanation
Indices: 6376227--6376397 Score: 180
Period size: 59 Copynumber: 2.9 Consensus size: 58
6376217 ACTTGGAATG
* * *
6376227 CTCGCTTACAAGATTTTCAAAATCTTGTGGTTCACTGATTTACAATCACAACCGTTTA
1 CTCGCTTACAAGATTTTCAGAATCTTGTAGTTCGCTGATTTACAATCACAACCGTTTA
* * * * * * * *
6376285 CTTCGCTTATAAAATTTTCAGAATCTCGCATTTCGTTGATTTACGATCACAACTGTTTA
1 C-TCGCTTACAAGATTTTCAGAATCTTGTAGTTCGCTGATTTACAATCACAACCGTTTA
* * * * *
6376344 CTCTGGTTACAAGATTTTTAGAATATTATAGTTTGCTGATTTACAATCACAACC
1 CTC-GCTTACAAGATTTTCAGAATCTTGTAGTTCGCTGATTTACAATCACAACC
6376398 ATTTTCCACA
Statistics
Matches: 87, Mismatches: 24, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
58 3 0.03
59 84 0.97
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (58 bp):
CTCGCTTACAAGATTTTCAGAATCTTGTAGTTCGCTGATTTACAATCACAACCGTTTA
Found at i:6376942 original size:14 final size:13
Alignment explanation
Indices: 6376907--6376945 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
6376897 GTATATTCAT
6376907 TTTTATTTTATTA
1 TTTTATTTTATTA
*
6376920 TTCCTATTTTATTA
1 TT-TTATTTTATTA
*
6376934 TTTTAATTTATT
1 TTTTATTTTATT
6376946 CTTATTGAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:6391180 original size:49 final size:49
Alignment explanation
Indices: 6391127--6391221 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
6391117 GTGATGTGAA
6391127 TGTATATATATGTGATAAGGCCTAATGGCCAATGTAATGAGTGTGAAAG
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTAATGAGTGTGAAAG
*
6391176 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAGTGTGA
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTAATGAGTGTGA
6391222 TAAGGCCTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.32
Consensus pattern (49 bp):
TGTATATATATGTGATAAGGCCTAATGGCCAATGTAATGAGTGTGAAAG
Found at i:6391221 original size:80 final size:80
Alignment explanation
Indices: 6391136--6391301 Score: 305
Period size: 80 Copynumber: 2.1 Consensus size: 80
6391126 ATGTATATAT
6391136 ATGTGATAAGGCCTAATGGCCAATGTAATGAGTGTGAAAGTGTATATATATGTGATAAGGCCTAA
1 ATGTGATAAGGCCTAATGGCCAATGTAATGAGTGTGAAAGTGTATATATATGTGATAAGGCCTAA
6391201 TGGCCAATGTGATGA
66 TGGCCAATGTGATGA
* *
6391216 GTGTGATAAGGCCTAATGGCCAATGTGATGAGTGTGAAAGTGTATATATATGTGATAAGGCCTAA
1 ATGTGATAAGGCCTAATGGCCAATGTAATGAGTGTGAAAGTGTATATATATGTGATAAGGCCTAA
*
6391281 TGGCCGATGTGATGA
66 TGGCCAATGTGATGA
6391296 ATGTGA
1 ATGTGA
6391302 AAGTGTATAT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (80 bp):
ATGTGATAAGGCCTAATGGCCAATGTAATGAGTGTGAAAGTGTATATATATGTGATAAGGCCTAA
TGGCCAATGTGATGA
Found at i:6391224 original size:31 final size:31
Alignment explanation
Indices: 6391186--6391252 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
6391176 TGTATATATA
6391186 TGTGATAAGGCCTAATGGCCAATGTGATGAG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAG
6391217 TGTGATAAGGCCTAATGGCCAATGTGATGAG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAG
6391248 TGTGA
1 TGTGA
6391253 AAGTGTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (31 bp):
TGTGATAAGGCCTAATGGCCAATGTGATGAG
Found at i:6391334 original size:47 final size:47
Alignment explanation
Indices: 6391217--6391399 Score: 312
Period size: 47 Copynumber: 3.9 Consensus size: 47
6391207 ATGTGATGAG
* * *
6391217 TGTGATAAGGCCTAATGGCCAATGTGATGAGTGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATA
*
6391266 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
6391313 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
6391360 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
6391400 TAAGCTTACA
Statistics
Matches: 131, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
47 92 0.70
49 39 0.30
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:6394936 original size:46 final size:44
Alignment explanation
Indices: 6394858--6394973 Score: 117
Period size: 46 Copynumber: 2.6 Consensus size: 44
6394848 GTGCTGCTGC
*
6394858 CATGTCCCAGACATGGTCTTACACTAACACATCTC-ATAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAACACATCTCGA-AGCCAATG
* ** *
6394903 CATGTCCCAGACATGTCTTACATTGGCTTACATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAAC--ACATCTCGAAGCCAATG
* **
6394949 TATGTCCCAGGTATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
6394974 GCTCTTGTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
44 10 0.17
45 14 0.24
46 33 0.57
47 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAACACATCTCGAAGCCAATG
Found at i:6398888 original size:6 final size:6
Alignment explanation
Indices: 6398877--6398909 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
6398867 AGGTTTCCAA
*
6398877 AAATGG AAATGG AAATGG AAATGA AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAA
6398910 CGATCCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.27, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:6399113 original size:25 final size:26
Alignment explanation
Indices: 6399059--6399117 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
6399049 ATATTTTCTC
* * * *
6399059 AAAATTTTACCAGGGGCAAAATTGTT
1 AAAATTTTACCAAGGGAAAAATTATG
6399085 AAAATTTTA-CAAGGGAAAAATTATG
1 AAAATTTTACCAAGGGAAAAATTATG
6399110 AAAATTTT
1 AAAATTTT
6399118 GCTGGGGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (26 bp):
AAAATTTTACCAAGGGAAAAATTATG
Found at i:6400958 original size:18 final size:18
Alignment explanation
Indices: 6400935--6400971 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6400925 TAGGTTTCCA
*
6400935 AAAATTGAAATGGAAATG
1 AAAATTAAAATGGAAATG
6400953 AAAATTAAAATGGAAATG
1 AAAATTAAAATGGAAATG
6400971 A
1 A
6400972 TCCATTCGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (18 bp):
AAAATTAAAATGGAAATG
Found at i:6413271 original size:18 final size:18
Alignment explanation
Indices: 6413231--6413277 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
6413221 CCCTTAATGT
* *
6413231 ACAAAGAGAGATATATTG
1 ACAAAGATAGATATATTA
6413249 ACAAAGATAGATATA-TA
1 ACAAAGATAGATATATTA
6413266 ATCAAAAGATAG
1 A-C-AAAGATAG
6413278 GGAGAGAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.08
18 15 0.60
19 8 0.32
ACGTcount: A:0.55, C:0.06, G:0.17, T:0.21
Consensus pattern (18 bp):
ACAAAGATAGATATATTA
Found at i:6417410 original size:40 final size:40
Alignment explanation
Indices: 6417350--6417498 Score: 133
Period size: 40 Copynumber: 3.7 Consensus size: 40
6417340 CAAACTCTGT
*
6417350 GGGACTTTAAGCCCGGAT--ATAGTACCAGCACTAAGCCTGC
1 GGGAC-TTAA-CCCGGATACATATTACCAGCACTAAGCCTGC
* * * *
6417390 GGGACTTAACCCGGATATATATATTACTAGCACGAAACCTGC
1 GGGACTTAACCCGG--ATACATATTACCAGCACTAAGCCTGC
* * * *
6417432 GAGATTTAACCCGAATACATATTACCAGCA-TGAAGCCTAC
1 GGGACTTAACCCGGATACATATTACCAGCACT-AAGCCTGC
* *
6417472 GGGATTTAACCTGGATACATATTACCA
1 GGGACTTAACCCGGATACATATTACCA
6417499 TATATTGACT
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
38 5 0.06
39 4 0.04
40 51 0.57
42 29 0.33
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (40 bp):
GGGACTTAACCCGGATACATATTACCAGCACTAAGCCTGC
Found at i:6417431 original size:42 final size:42
Alignment explanation
Indices: 6417366--6417493 Score: 143
Period size: 42 Copynumber: 3.1 Consensus size: 42
6417356 TTAAGCCCGG
* * *
6417366 ATATAGTACCAGCACTAAGCCTGCGGGACTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
* * *
6417408 ATATATTACTAGCACGAAACCTGCGAGATTTAACCC-GA-AT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
* * * * *
6417448 ACATATTACCAGCATGAAGCCTACGGGATTTAACCTGGATAC
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
6417490 ATAT
1 ATAT
6417494 TACCATATAT
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
40 31 0.45
41 4 0.06
42 34 0.49
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:6418683 original size:40 final size:40
Alignment explanation
Indices: 6418623--6418771 Score: 133
Period size: 40 Copynumber: 3.7 Consensus size: 40
6418613 CAAACTCTGT
*
6418623 GGGACTTTAAGCCCGGAT--ATAGTACCAGCACTAAGCCTGC
1 GGGAC-TTAA-CCCGGATACATATTACCAGCACTAAGCCTGC
* * * *
6418663 GGGACTTAACCCGGATATATATATTACTAGCACGAAACCTGC
1 GGGACTTAACCCGG--ATACATATTACCAGCACTAAGCCTGC
* * * *
6418705 GAGATTTAACCCGAATACATATTACCAGCA-TGAAGCCTAC
1 GGGACTTAACCCGGATACATATTACCAGCACT-AAGCCTGC
* *
6418745 GGGATTTAACCTGGATACATATTACCA
1 GGGACTTAACCCGGATACATATTACCA
6418772 TATATTGACT
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
38 5 0.06
39 4 0.04
40 51 0.57
42 29 0.33
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (40 bp):
GGGACTTAACCCGGATACATATTACCAGCACTAAGCCTGC
Found at i:6418704 original size:42 final size:42
Alignment explanation
Indices: 6418639--6418766 Score: 143
Period size: 42 Copynumber: 3.1 Consensus size: 42
6418629 TTAAGCCCGG
* * *
6418639 ATATAGTACCAGCACTAAGCCTGCGGGACTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
* * *
6418681 ATATATTACTAGCACGAAACCTGCGAGATTTAACCC-GA-AT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
* * * * *
6418721 ACATATTACCAGCATGAAGCCTACGGGATTTAACCTGGATAC
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
6418763 ATAT
1 ATAT
6418767 TACCATATAT
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
40 31 0.45
41 4 0.06
42 34 0.49
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:6432922 original size:37 final size:37
Alignment explanation
Indices: 6432864--6432966 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
6432854 CGAATAGTCC
* * *
6432864 CCACACATAGTTATCGAGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
6432901 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
6432938 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
6432967 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:6433193 original size:48 final size:48
Alignment explanation
Indices: 6433139--6433408 Score: 468
Period size: 48 Copynumber: 5.6 Consensus size: 48
6433129 GCCGAATCAC
*
6433139 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
6433187 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
6433235 TAGCCATTCGGCTCTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
6433283 TAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
6433331 TAGCCATTCGGCTTTACCACAGATACATATCTCATACATATTTCACGT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
6433379 TAGCCATTCGGCTTTACCACACATATATAT
1 TAGCCATTCGGCTTTACCACATATACATAT
6433409 ATTTATCTTG
Statistics
Matches: 212, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 212 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:6436602 original size:93 final size:93
Alignment explanation
Indices: 6436487--6436657 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
6436477 GCCCATAAGT
* *
6436487 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACCCAA
6436552 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
6436580 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACCCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACCCAA
6436645 CGAGTTCGGATGC
66 CGAGTTCGGATGC
6436658 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACCCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:6436654 original size:46 final size:46
Alignment explanation
Indices: 6436479--6436654 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
6436469 TGTAACCCGC
* *
6436479 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
6436525 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
6436575 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
6436618 CCATAAGTGAACTCGGACTCAACCCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
6436655 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:6441741 original size:37 final size:37
Alignment explanation
Indices: 6441691--6441769 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
6441681 TTATTATGAA
* * *
6441691 GTCTTACCCGGACATAATCTCCACAAGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACAAGAAGTCATCGG
* *
6441728 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACAAGAAGTCATCGG
6441765 GTCTT
1 GTCTT
6441770 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACAAGAAGTCATCGG
Found at i:6442011 original size:47 final size:47
Alignment explanation
Indices: 6441888--6442128 Score: 358
Period size: 47 Copynumber: 5.1 Consensus size: 47
6441878 CCCTTCGGGA
* * * * * *
6441888 CTTATCACATTTATACACTTTCACA-TCTGTCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTC-ATCACATCGGCCATTAGGC
* * *
6441935 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6441984 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6442031 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6442078 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6442125 CTTA
1 CTTA
6442129 CTATCATTTC
Statistics
Matches: 178, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
47 141 0.79
49 35 0.20
50 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:6445824 original size:26 final size:26
Alignment explanation
Indices: 6445788--6445837 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
6445778 CTGGGACTCA
6445788 GGTTTAACAAACCTCAAGTTCCCTCG
1 GGTTTAACAAACCTCAAGTTCCCTCG
* *
6445814 GGTTTAACAAATCTCGAGTTCCCT
1 GGTTTAACAAACCTCAAGTTCCCT
6445838 ACACTGGCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (26 bp):
GGTTTAACAAACCTCAAGTTCCCTCG
Found at i:6448374 original size:93 final size:93
Alignment explanation
Indices: 6448259--6448429 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
6448249 GCCCATAAGT
* *
6448259 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
6448324 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
6448352 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
6448417 CGAGTTCGGATGC
66 CGAGTTCGGATGC
6448430 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:6448426 original size:46 final size:46
Alignment explanation
Indices: 6448251--6448426 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
6448241 TGTAACCCGC
* * *
6448251 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
6448297 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
6448347 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
6448390 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
6448427 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.58
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:6451550 original size:29 final size:29
Alignment explanation
Indices: 6451498--6451627 Score: 122
Period size: 29 Copynumber: 4.6 Consensus size: 29
6451488 TGATTTCGCA
* * *
6451498 CACACATAGCG-CTCGATTATAGAACTCG
1 CACACATAGTGCCTCAATTAAAGAACTCG
* *
6451526 TACACATAGTGCCTCAATTAAAGAACCCG
1 CACACATAGTGCCTCAATTAAAGAACTCG
* *
6451555 CACACATAGTGCCTCAATTACCA-ATCTCG
1 CACACATAGTGCCTCAATTA-AAGAACTCG
* * * *
6451584 CACACATAGCG-CTCGATTGAAGAACTTG
1 CACACATAGTGCCTCAATTAAAGAACTCG
*
6451612 CACACACAGTGCCTCA
1 CACACATAGTGCCTCA
6451628 TAATTCCAGC
Statistics
Matches: 80, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
27 1 0.01
28 28 0.35
29 50 0.62
30 1 0.01
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (29 bp):
CACACATAGTGCCTCAATTAAAGAACTCG
Found at i:6451705 original size:40 final size:40
Alignment explanation
Indices: 6451633--6451829 Score: 290
Period size: 40 Copynumber: 5.0 Consensus size: 40
6451623 CCTCATAATT
*
6451633 CCAGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCA
* *
6451672 CTAGCACGAATGCTCTTTGGGACTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
* *
6451712 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
* * *
6451752 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
*
6451792 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
6451830 AACTCTCAAT
Statistics
Matches: 144, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 14 0.10
40 130 0.90
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
Found at i:6453157 original size:37 final size:37
Alignment explanation
Indices: 6453104--6453203 Score: 173
Period size: 37 Copynumber: 2.7 Consensus size: 37
6453094 CGAATAGTCC
* *
6453104 CCACACGTAGTTATCGGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
6453141 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
6453178 CCACACGTAGTCATCGGGTCTTACCC
1 CCACACGTAGTCATCGGGTCTTACCC
6453204 AGAATATATT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:6453433 original size:48 final size:48
Alignment explanation
Indices: 6453379--6453742 Score: 597
Period size: 48 Copynumber: 7.6 Consensus size: 48
6453369 GCCGAATCAC
6453379 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
6453427 TAGCCATTCGGCTTTACCACATATATATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
6453475 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
6453523 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
6453571 TAGCCATTCGGCTTTACCACATATACATATCTCATAGATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * *
6453619 TAGCCATTCGGCTTGACCACACATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
6453667 TAGCCATTCGGCTTTACCAC--ATACATATCTTATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
6453713 TAGCCATTCGGCTTTACCACACATATATAT
1 TAGCCATTCGGCTTTACCACATATACATAT
6453743 ATTTATCTTG
Statistics
Matches: 299, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 44 0.15
48 255 0.85
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.34
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:6456430 original size:25 final size:27
Alignment explanation
Indices: 6456393--6456445 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
6456383 TCAAACGTGC
6456393 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
6456419 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
6456445 A
1 A
6456446 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:6456598 original size:27 final size:27
Alignment explanation
Indices: 6456566--6456624 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
6456556 TACCGAATTG
6456566 GGCCCGTTGGCCCATCATTCCAATTTT
1 GGCCCGTTGGCCCATCATTCCAATTTT
**
6456593 GGCCCGTTGGCCCATCATTCTGATTTT
1 GGCCCGTTGGCCCATCATTCCAATTTT
6456620 GGCCC
1 GGCCC
6456625 ATTAAGCCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.12, C:0.34, G:0.22, T:0.32
Consensus pattern (27 bp):
GGCCCGTTGGCCCATCATTCCAATTTT
Found at i:6457984 original size:26 final size:26
Alignment explanation
Indices: 6457954--6458009 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
6457944 TGAAATGCCC
6457954 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6457980 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6458006 ATCA
1 ATCA
6458010 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6465972 original size:44 final size:43
Alignment explanation
Indices: 6465865--6465992 Score: 143
Period size: 42 Copynumber: 3.0 Consensus size: 43
6465855 GCAATTCAGT
* * *
6465865 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAA--TCAG
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACGAAATCTCAA
* *
6465906 ATACAATGCCTATGTCCCAGACATGGTCTTACACGTAAATCTCAA
1 AT-CGATGCCTATGTCCCAGACACGGTCTTACACG-AAATCTCAA
* * * *
6465951 ATCGAGGCCTGTGTCCCAGACACAGTCTTACACGATATCTCA
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACGAAATCTCA
6465993 GATCAATGTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.03
42 29 0.40
43 10 0.14
44 27 0.37
45 5 0.07
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
ATCGATGCCTATGTCCCAGACACGGTCTTACACGAAATCTCAA
Found at i:6465982 original size:86 final size:85
Alignment explanation
Indices: 6465822--6465985 Score: 204
Period size: 86 Copynumber: 1.9 Consensus size: 85
6465812 TCATAAACGG
* * * * * *
6465822 TACAATGCCGACGTCCCGGACGTGGTCTTACATGCAATTCAGTATCGATGCCTCTGTCCCAGACA
1 TACAATGCCGACGTCCCAGACATGGTCTTACACGAAATTCAGAATCGAGGCCTCTGTCCCAGACA
**
6465887 GGGTCTTACACGAAATCAGA
66 CAGTCTTACACGAAATCAGA
* * *
6465907 TACAATGCCTATGTCCCAGACATGGTCTTACACGTAAATCTCA-AATCGAGGCCTGTGTCCCAGA
1 TACAATGCCGACGTCCCAGACATGGTCTTACACG-AAAT-TCAGAATCGAGGCCTCTGTCCCAGA
6465971 CACAGTCTTACACGA
64 CACAGTCTTACACGA
6465986 TATCTCAGAT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 29 0.44
86 34 0.52
87 3 0.05
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (85 bp):
TACAATGCCGACGTCCCAGACATGGTCTTACACGAAATTCAGAATCGAGGCCTCTGTCCCAGACA
CAGTCTTACACGAAATCAGA
Found at i:6468114 original size:27 final size:27
Alignment explanation
Indices: 6468083--6468251 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
6468073 TAAGTTGTAC
6468083 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
6468110 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6468136 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
6468164 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
6468192 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6468219 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
6468246 AGCACT
1 AGCACT
6468252 GAGCATGGGG
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
27 98 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:6468197 original size:82 final size:81
Alignment explanation
Indices: 6468084--6468239 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
6468074 AAGTTGTACA
* *
6468084 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
6468148 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
6468165 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
6468230 TGCGAGTTGA
65 TGCGAATTGA
6468240 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:6475229 original size:48 final size:47
Alignment explanation
Indices: 6475153--6475243 Score: 137
Period size: 48 Copynumber: 1.9 Consensus size: 47
6475143 TTATTTGCAA
** *
6475153 TTATGTGGCCGTTATTGGCAATTATGTGGTGGCTTGTCTACAATGTG
1 TTATGTGGCCGTTATCAGCAATTATGTGGTGGCTTGTCCACAATGTG
*
6475200 TTATGTTGCCGTTTATCAGCAATTATGTGGTGGCTTGTCCACAA
1 TTATGTGGCCG-TTATCAGCAATTATGTGGTGGCTTGTCCACAA
6475244 ATGGTGTGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 10 0.26
48 29 0.74
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.40
Consensus pattern (47 bp):
TTATGTGGCCGTTATCAGCAATTATGTGGTGGCTTGTCCACAATGTG
Found at i:6479845 original size:17 final size:17
Alignment explanation
Indices: 6479820--6479853 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6479810 TTACTCTATT
*
6479820 GGATGTAAAAATTCTGA
1 GGATATAAAAATTCTGA
6479837 GGATATAAAAATTCTGA
1 GGATATAAAAATTCTGA
6479854 CTTTCAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (17 bp):
GGATATAAAAATTCTGA
Found at i:6482638 original size:49 final size:50
Alignment explanation
Indices: 6482398--6482643 Score: 253
Period size: 49 Copynumber: 4.9 Consensus size: 50
6482388 ATCTATTGTG
* * * *
6482398 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGAT-TTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
6482447 TGGTCGCATGTGTAGTACTAAGGGCAGGCTACTATGTGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * **
6482498 CGATCACGTGTGTAGAACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
6482548 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
6482598 -GGTCGCATGTTTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
6482644 GCTTTGGCTA
Statistics
Matches: 160, Mismatches: 35, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
49 77 0.48
50 44 0.28
51 39 0.24
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:6486121 original size:20 final size:20
Alignment explanation
Indices: 6486098--6486149 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
6486088 GCGTAGTCTC
*
6486098 ACACACCCGTGTGGCTTGGG
1 ACACACCCGTGTGGCTGGGG
* *
6486118 ACACGCCCGTATGGCTGGGG
1 ACACACCCGTGTGGCTGGGG
*
6486138 ACACACCTGTGT
1 ACACACCCGTGT
6486150 CCTTAGCCCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (20 bp):
ACACACCCGTGTGGCTGGGG
Found at i:6487456 original size:90 final size:90
Alignment explanation
Indices: 6487295--6487469 Score: 208
Period size: 90 Copynumber: 1.9 Consensus size: 90
6487285 ACACAGTAAG
** * * * * *
6487295 ATGCCAATGCCATATCCCATCTATGGTCTTACACGATGTCTCATATTGATGCCATGTCCCAGACA
1 ATGCCAATGCCATATCCCAGATATGGTCTTACACGAGGTCACATATCGAGGCCATATCCCAGACA
*
6487360 TAGTCTTACAAAAAATCACATATTT
66 TAGTCTTACAAAAAACCACATATTT
* * * *
6487385 ATGCTAATGCCATATCCTAGATATGGTCTTACATG-GGATCACATATCGAGGCCATATCCCAGAT
1 ATGCCAATGCCATATCCCAGATATGGTCTTACACGAGG-TCACATATCGAGGCCATATCCCAGAC
* *
6487449 ATGGTCTTACACAAAACCACA
65 ATAGTCTTACAAAAAACCACA
6487470 CATAACCCCA
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
89 1 0.01
90 69 0.99
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (90 bp):
ATGCCAATGCCATATCCCAGATATGGTCTTACACGAGGTCACATATCGAGGCCATATCCCAGACA
TAGTCTTACAAAAAACCACATATTT
Found at i:6503318 original size:42 final size:42
Alignment explanation
Indices: 6503237--6503324 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
6503227 TAAGATGCCA
* * ** *
6503237 ATGCCATATCCCAGCTATGGTCTTACACGATGTCTCATATTG
1 ATGCCATATCCCAGCTATAGTCTTACAAGAAATCACATATTG
* *
6503279 ATGCCATGTCCCAGAC-ATAGTCTTACAAGAAATCACATATTT
1 ATGCCATATCCCAG-CTATAGTCTTACAAGAAATCACATATTG
6503321 ATGC
1 ATGC
6503325 TAATGCTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGCTATAGTCTTACAAGAAATCACATATTG
Found at i:6506276 original size:11 final size:11
Alignment explanation
Indices: 6506240--6506295 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
6506230 CATGGTATGT
6506240 ATGATATGCAC
1 ATGATATGCAC
* *
6506251 ATGACATG--T
1 ATGATATGCAC
6506260 ATGATATGCAC
1 ATGATATGCAC
*
6506271 ATGATATG--T
1 ATGATATGCAC
6506280 ATGATATGCAC
1 ATGATATGCAC
6506291 ATGAT
1 ATGAT
6506296 GTAATCACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:6506295 original size:20 final size:20
Alignment explanation
Indices: 6506229--6506295 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
6506219 ATTTTGATAA
*
6506229 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
6506249 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
6506269 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
6506289 ACATGAT
1 ACATGAT
6506296 GTAATCACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:6506376 original size:23 final size:23
Alignment explanation
Indices: 6506346--6506486 Score: 248
Period size: 23 Copynumber: 6.1 Consensus size: 23
6506336 AGGAAGAGTG
6506346 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
6506369 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
6506392 GAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
6506415 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
6506437 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
6506460 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
6506484 AAA
1 AAA
6506487 AGAGGCTAGC
Statistics
Matches: 113, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
22 22 0.19
23 69 0.61
24 22 0.19
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:6506503 original size:25 final size:23
Alignment explanation
Indices: 6506346--6506507 Score: 183
Period size: 23 Copynumber: 6.9 Consensus size: 23
6506336 AGGAAGAGTG
6506346 AAAGGGCTTATGCCCCAGTTATT-
1 AAAGGGCTTA-GCCCCAGTTATTA
6506369 AAAGGGCTTATGCCCCAGTTATT-
1 AAAGGGCTTA-GCCCCAGTTATTA
*
6506392 GAAGGGCTTATGCCCCAGTTATT-
1 AAAGGGCTTA-GCCCCAGTTATTA
6506415 AAAGGGCTTATG-CCCAGTTATT-
1 AAAGGGCTTA-GCCCCAGTTATTA
6506437 AAAGGGCTTATGCCCCAGTTATTA
1 AAAGGGCTTA-GCCCCAGTTATTA
*
6506461 AAAGGGCTTTTGCCCCAGTTATTA
1 AAAGGGC-TTAGCCCCAGTTATTA
6506485 AAAGAGGC-TAGCCCTCCAGTTAT
1 AAAG-GGCTTAG-CC-CCAGTTAT
6506508 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
22 22 0.17
23 68 0.53
24 26 0.20
25 13 0.10
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTAGCCCCAGTTATTA
Found at i:6506736 original size:31 final size:31
Alignment explanation
Indices: 6506701--6506764 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
6506691 CATTTACAGT
6506701 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
6506732 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
6506763 AA
1 AA
6506765 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:6522312 original size:47 final size:47
Alignment explanation
Indices: 6522261--6523207 Score: 1741
Period size: 47 Copynumber: 20.1 Consensus size: 47
6522251 TTAGGATTTT
* *
6522261 ATGTGATGGATGTGAACATGCGTATGTGTGGTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
6522308 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
6522359 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
6522406 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6522453 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6522500 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6522547 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6522594 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6522641 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6522688 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6522735 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6522782 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6522829 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6522876 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6522923 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6522970 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6523017 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6523064 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
6523111 ATGTGATGAATGTGAACATGCGTATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
6523158 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
6523205 ATG
1 ATG
6523208 CGAAACGTGT
Statistics
Matches: 877, Mismatches: 19, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
47 833 0.95
49 2 0.00
51 42 0.05
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:6523270 original size:46 final size:46
Alignment explanation
Indices: 6523181--6523271 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
6523171 GAACATGAAT
* * * *
6523181 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
6523227 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
6523272 TGTTTATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:6523526 original size:37 final size:37
Alignment explanation
Indices: 6523418--6523526 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
6523408 GGAAATATAT
*
6523418 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
6523455 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
6523492 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
6523527 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:6525087 original size:40 final size:40
Alignment explanation
Indices: 6524804--6525075 Score: 409
Period size: 40 Copynumber: 6.8 Consensus size: 40
6524794 GAGAATTGAG
* *
6524804 AGTGATATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
6524844 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
6524884 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
6524924 AGTGATATATCTGGGCTAAGTCTCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
6524964 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* ** *
6525004 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
6525044 GGTGTTATATCCGGGCTAGGTCCCGAGGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCA
6525076 ATCATGCTGG
Statistics
Matches: 209, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 209 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:6527322 original size:51 final size:51
Alignment explanation
Indices: 6527262--6527361 Score: 191
Period size: 51 Copynumber: 2.0 Consensus size: 51
6527252 GAGAAAGTAA
6527262 ACGAATAGCCGTGGATATCTAGTCGTCGACCACTTCCGAGGTAAGTTTTCG
1 ACGAATAGCCGTGGATATCTAGTCGTCGACCACTTCCGAGGTAAGTTTTCG
*
6527313 ACGAATAGCCGTGGATATCTAGTCGTCGACCACTTCCGGGGTAAGTTTT
1 ACGAATAGCCGTGGATATCTAGTCGTCGACCACTTCCGAGGTAAGTTTT
6527362 AAGTGATTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (51 bp):
ACGAATAGCCGTGGATATCTAGTCGTCGACCACTTCCGAGGTAAGTTTTCG
Found at i:6528297 original size:49 final size:47
Alignment explanation
Indices: 6528231--6528440 Score: 296
Period size: 47 Copynumber: 4.4 Consensus size: 47
6528221 ATTGATGTAC
* * *
6528231 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
6528278 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
6528327 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
6528374 AAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
6528421 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
6528441 TCCCGAAGGG
Statistics
Matches: 148, Mismatches: 11, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
46 1 0.01
47 105 0.71
49 41 0.28
50 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:6528439 original size:94 final size:94
Alignment explanation
Indices: 6528231--6528440 Score: 296
Period size: 96 Copynumber: 2.2 Consensus size: 94
6528221 ATTGATGTAC
* * *
6528231 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAAAGTATATATATGCGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATAT-CGTGA
6528296 TAAGGCCGAATGGCCAATGTGATGAATGTG
65 TAAGGCCGAATGGCCAATGTGATGAATGTG
* * * *
6528326 AACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT-GTGA
1 AA-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATCGTGA
* *
6528390 TAAGGCCGAATGGCCGATGTGATGGATGTGG
65 TAAGGCCGAATGGCCAATGTGATGAATGT-G
*
6528421 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
6528441 TCCCGAAGGG
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
94 45 0.45
95 5 0.05
96 50 0.50
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (94 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATCGTGAT
AAGGCCGAATGGCCAATGTGATGAATGTG
Found at i:6535740 original size:19 final size:19
Alignment explanation
Indices: 6535716--6535759 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
6535706 CCTAAGGTAT
*
6535716 ATCAATATTCACAAATTTA
1 ATCAATAGTCACAAATTTA
6535735 ATCAATTAGTCACAAATTTA
1 ATCAA-TAGTCACAAATTTA
6535755 A-CAAT
1 ATCAAT
6535760 TTATCATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 8 0.35
20 14 0.61
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (19 bp):
ATCAATAGTCACAAATTTA
Found at i:6535879 original size:7 final size:7
Alignment explanation
Indices: 6535867--6535892 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6535857 TATTAGTCTA
6535867 AAAATTG
1 AAAATTG
6535874 AAAATTG
1 AAAATTG
6535881 AAAATTG
1 AAAATTG
6535888 AAAAT
1 AAAAT
6535893 CATTCACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (7 bp):
AAAATTG
Found at i:6540555 original size:141 final size:141
Alignment explanation
Indices: 6540399--6540677 Score: 415
Period size: 144 Copynumber: 2.0 Consensus size: 141
6540389 TAATTAAATT
**
6540399 ATAAAAAAATTAAATTAAACTAAAACTAATCTTTTTTTACATCCTCTCTTCT-AGC-TTCTTTCT
1 ATAAAAAAATTAAATTAAACTAAAACTAATCTTTTTTTACATCAACTCTTCTCA-CATTCTTTCT
* *
6540462 TCTCTTTTAATGT-A-TTTTTTTAATTGTTAAATAA-TTTTTCTTTACAATCCTCTTATGTTTGT
65 TCTCTTTT-A-GTAACTTTTTTTAATTGTTAAATAACTCTTT-TTTACAATCCTCTTATATTTGT
6540524 TTTTCTTTTGTTATA
127 TTTTCTTTTGTTATA
*
6540539 ATAAAAAAATTTAAATTAAATTAAAACTAATCTTTTTTTACATCAACTCTTCTCACTATTCTTTC
1 ATAAAAAAA-TTAAATTAAACTAAAACTAATCTTTTTTTACATCAACTCTTCTCAC-ATTCTTTC
6540604 TTCTCTTTTAGTAACTTTTTTTTAATTGTTAAATAACTCTTTTTTACAATCCTCTTATATTTGTT
64 TTCTCTTTTAGTAAC-TTTTTTTAATTGTTAAATAACTCTTTTTTACAATCCTCTTATATTTGTT
6540669 TTTCTTTTG
128 TTTCTTTTG
6540678 CTACTTAGCT
Statistics
Matches: 126, Mismatches: 5, Indels: 12
0.88 0.03 0.08
Matches are distributed among these distances:
140 9 0.07
141 43 0.34
142 3 0.02
143 16 0.13
144 51 0.40
145 4 0.03
ACGTcount: A:0.29, C:0.15, G:0.04, T:0.53
Consensus pattern (141 bp):
ATAAAAAAATTAAATTAAACTAAAACTAATCTTTTTTTACATCAACTCTTCTCACATTCTTTCTT
CTCTTTTAGTAACTTTTTTTAATTGTTAAATAACTCTTTTTTACAATCCTCTTATATTTGTTTTT
CTTTTGTTATA
Done.