Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 215 of 318
Found at i:67705314 original size:27 final size:26
Alignment explanation
Indices: 67705277--67705390 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 26
67705267 AACATGGCTG
* * *
67705277 CCAGAGCAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
67705303 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
67705330 CCAGAACAGATATTTGTGGCATAGTCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
*
67705357 CCAGAAACAGATAATTGTGGCATAGCCA
1 CCAG-AACAGAT-ATTGTGGCAGAGCCA
67705385 CCAGAA
1 CCAGAA
67705391 TGCTTCCACC
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 12 0.15
27 41 0.53
28 24 0.31
29 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:67705367 original size:54 final size:54
Alignment explanation
Indices: 67705277--67705390 Score: 167
Period size: 54 Copynumber: 2.1 Consensus size: 54
67705267 AACATGGCTG
* *
67705277 CCAGAGCAGATATTGTGACAGAGTCACCAGATACAGAT-ATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGTCACCAGAAACAGATAATTGTGGCAGAGCCA
* * *
67705330 CCAGAACAGATATTTGTGGCATAGTCACCAGAAACAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGTCACCAGAAACAGATAATTGTGGCAGAGCCA
67705385 CCAGAA
1 CCAGAA
67705391 TGCTTCCACC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 11 0.20
54 23 0.43
55 20 0.37
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATATTGTGACAGAGTCACCAGAAACAGATAATTGTGGCAGAGCCA
Found at i:67707842 original size:40 final size:40
Alignment explanation
Indices: 67707757--67707907 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
67707747 AATTGAATGA
* * * **
67707757 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTT
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
67707797 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
67707838 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
67707877 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
67707908 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 77 0.85
41 5 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:67707921 original size:40 final size:40
Alignment explanation
Indices: 67707797--67707923 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
67707787 CTGGAAATTT
* * * * *
67707797 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
67707837 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
67707877 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
67707917 TATCCGG
1 TATCCGG
67707924 TTATGTTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:67712822 original size:27 final size:26
Alignment explanation
Indices: 67712786--67712900 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
67712776 AGCATGGCTG
* *
67712786 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
67712812 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
67712839 CCAGAACCGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
67712866 TCAGAAACAGATAATTGTGGCATAGCCA
1 CCAG-AACAGAT-ATTGTGGCAGAGCCA
67712894 CCAGAAC
1 CCAGAAC
67712901 GCTTCCTCGA
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.14
27 43 0.55
28 23 0.29
29 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:67713064 original size:27 final size:28
Alignment explanation
Indices: 67713004--67713067 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
67712994 AAATTAACCC
* *
67713004 TAGGGGTATAATGGTAGTTTTGCATACT
1 TAGGGGTATAATGGTAATTGTGCATACT
67713032 TAGGGGTATAATGGTAATTGT-CATACT
1 TAGGGGTATAATGGTAATTGTGCATACT
67713059 TAGGGGTAT
1 TAGGGGTAT
67713068 TTTAGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.27, C:0.06, G:0.30, T:0.38
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTGTGCATACT
Found at i:67715081 original size:3 final size:3
Alignment explanation
Indices: 67715073--67715105 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
67715063 AAACATATGA
67715073 AAT AAT AAT AAT AAT AA- AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
67715106 TCCAAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:67715094 original size:17 final size:17
Alignment explanation
Indices: 67715072--67715105 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
67715062 TAAACATATG
67715072 AAATAATAATAATAATA
1 AAATAATAATAATAATA
67715089 AAATAATAATAATAATA
1 AAATAATAATAATAATA
67715106 TCCAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATAATAATAATAATA
Found at i:67715095 original size:14 final size:14
Alignment explanation
Indices: 67715076--67715103 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67715066 CATATGAAAT
67715076 AATAATAATAATAA
1 AATAATAATAATAA
67715090 AATAATAATAATAA
1 AATAATAATAATAA
67715104 TATCCAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:67717148 original size:80 final size:80
Alignment explanation
Indices: 67717064--67717212 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
67717054 TATGGTAACC
* * * *
67717064 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
67717128 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
67717144 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
67717209 CCGG
66 CCGG
67717213 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:67717154 original size:40 final size:38
Alignment explanation
Indices: 67717105--67717212 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
67717095 ATCACGATTT
*
67717105 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
67717145 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
67717185 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
67717213 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:67725265 original size:80 final size:80
Alignment explanation
Indices: 67725181--67725329 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
67725171 TATGGTAACC
* * * *
67725181 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
67725245 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
67725261 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
67725326 CCGG
66 CCGG
67725330 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:67725271 original size:40 final size:38
Alignment explanation
Indices: 67725222--67725329 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
67725212 ATCACGATTT
*
67725222 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
67725262 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
67725302 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
67725330 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:67732563 original size:34 final size:34
Alignment explanation
Indices: 67732500--67732586 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
67732490 ATACTGTACT
* *
67732500 GAAATGGGCTAAGGCTCAGACTGCCACTGTTATG
1 GAAATGGGCTAAGGCCCAGACTGACACTGTTATG
* * *
67732534 GAAATGGGCTCAGGCCCAGATTGATACTGTTACTG
1 GAAATGGGCTAAGGCCCAGACTGACACTGTTA-TG
* *
67732569 AAAAAGGGGCTAAGGCCC
1 -GAAATGGGCTAAGGCCC
67732587 TAACTGGAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 27 0.63
35 2 0.05
36 14 0.33
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.21
Consensus pattern (34 bp):
GAAATGGGCTAAGGCCCAGACTGACACTGTTATG
Found at i:67735868 original size:15 final size:15
Alignment explanation
Indices: 67735848--67735882 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
67735838 TATGATATTG
*
67735848 TATCTTGTATTTCTA
1 TATCTTCTATTTCTA
*
67735863 TATCTTCTATTTCTT
1 TATCTTCTATTTCTA
67735878 TATCT
1 TATCT
67735883 AGGATTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.03, T:0.63
Consensus pattern (15 bp):
TATCTTCTATTTCTA
Found at i:67735909 original size:15 final size:15
Alignment explanation
Indices: 67735873--67735913 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
67735863 TATCTTCTAT
* * *
67735873 TTCTTTATCTAGGAT
1 TTCTTTGTCTTGGAC
67735888 TTCTTTGTCTTGGAC
1 TTCTTTGTCTTGGAC
67735903 TTCTTTGTCTT
1 TTCTTTGTCTT
67735914 TGTTTTCATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.10, C:0.17, G:0.15, T:0.59
Consensus pattern (15 bp):
TTCTTTGTCTTGGAC
Found at i:67736285 original size:18 final size:18
Alignment explanation
Indices: 67736264--67736298 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67736254 GAGGCATTAA
67736264 CAAACAAAAACACATTTT
1 CAAACAAAAACACATTTT
**
67736282 CAAACAACCACACATTT
1 CAAACAAAAACACATTT
67736299 ATATAAGTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (18 bp):
CAAACAAAAACACATTTT
Found at i:67745326 original size:46 final size:46
Alignment explanation
Indices: 67745258--67745424 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 46
67745248 ATGTAACCGC
* * * *
67745258 CCATAAGCGAACTCGAAGTCAACTC-ACTGAGTTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAAC-GAGCTCGGACGTTCGCAT
* * *
67745304 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCG---GAC--GTTCGCAT
* *
67745354 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
67745397 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGCGAACTCGGACTCAACTCAAC
67745425 AAGTTTGGAT
Statistics
Matches: 98, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 48 0.49
47 29 0.30
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:67753876 original size:27 final size:28
Alignment explanation
Indices: 67753835--67753940 Score: 137
Period size: 27 Copynumber: 3.9 Consensus size: 28
67753825 CTGCCAGAAT
* * *
67753835 AGATA-TTGTGACAGAGTCACTAGATAC
1 AGATATTTGTGGCAGAGCCACCAGATAC
* *
67753862 AGATA-TTATGGCAGAGCCACCAGAAAC
1 AGATATTTGTGGCAGAGCCACCAGATAC
*
67753889 AGATATTTGTGGCAGACCCACCAGAT-C
1 AGATATTTGTGGCAGAGCCACCAGATAC
67753916 AGATATTTGTGGCAGAGCCACCAGA
1 AGATATTTGTGGCAGAGCCACCAGA
67753941 ATGCTTCCTC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 52 0.75
28 17 0.25
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (28 bp):
AGATATTTGTGGCAGAGCCACCAGATAC
Found at i:67761452 original size:68 final size:67
Alignment explanation
Indices: 67761380--67761529 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
67761370 CATCATGTGT
* * * *
67761380 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
67761442 ATGTAG
62 ATGTAG
** * *
67761448 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
67761513 AG
66 AG
67761515 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
67761530 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:67761485 original size:64 final size:64
Alignment explanation
Indices: 67761404--67761587 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
67761394 AGACATTATG
* *
67761404 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
67761468 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
67761533 AA
63 AA
* * * *
67761535 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
67761588 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:67762677 original size:2 final size:2
Alignment explanation
Indices: 67762670--67762706 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
67762660 TCATGACATG
67762670 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
67762707 GACTAGTCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:67766847 original size:93 final size:93
Alignment explanation
Indices: 67766739--67766909 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
67766729 GCCCCTAAGT
* *
67766739 GAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67766804 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
67766832 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67766897 CGAGTTCGGATGC
66 CGAGTTCGGATGC
67766910 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:67766906 original size:46 final size:46
Alignment explanation
Indices: 67766734--67766906 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
67766724 AACCCGCCCC
* * *
67766734 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
67766780 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
67766828 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
67766873 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
67766907 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 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 60 0.56
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:67769874 original size:23 final size:24
Alignment explanation
Indices: 67769848--67769893 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
67769838 CTTCGCTGTC
*
67769848 TCAA-ATTCAAGTCTTTTGTGACA
1 TCAAGATTCAAGACTTTTGTGACA
*
67769871 TCAAGTATTTAAGACTTTTGTGA
1 TCAAG-ATTCAAGACTTTTGTGA
67769894 TCGGTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
25 15 0.79
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (24 bp):
TCAAGATTCAAGACTTTTGTGACA
Found at i:67779503 original size:27 final size:28
Alignment explanation
Indices: 67779446--67779515 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
67779436 AAATTTGTAC
**
67779446 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
67779474 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
67779501 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
67779516 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:67779524 original size:27 final size:27
Alignment explanation
Indices: 67779446--67779527 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
67779436 AAATTTGTAC
* *
67779446 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
67779474 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
67779501 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
67779528 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:67782513 original size:40 final size:40
Alignment explanation
Indices: 67782468--67782635 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
67782458 CGGAATATAA
67782468 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
67782508 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
67782548 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
67782588 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
67782628 CCGGATAT
1 CCGGATAT
67782636 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:67782618 original size:80 final size:80
Alignment explanation
Indices: 67782484--67782633 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
67782474 ATAATCACGT
*
67782484 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
67782548 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
67782564 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
67782627 CCCGGAT
64 CCCGGAT
67782634 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:67794841 original size:40 final size:39
Alignment explanation
Indices: 67794673--67794843 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
67794663 AGAAATTGAA
* *
67794673 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
67794713 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
67794753 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
67794793 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
67794833 TGATATCCGGG
1 TGATATCCGGG
67794844 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:67806177 original size:91 final size:91
Alignment explanation
Indices: 67806022--67806197 Score: 334
Period size: 91 Copynumber: 1.9 Consensus size: 91
67806012 TCCTATTTTT
* *
67806022 AGTAATTTTGATATTTTTGAAACCGGGATAGTCTAATCTATTTATTTGAGGGATTAATTTGAAAA
1 AGTAATTTTGATATTTTTGAAACCGGGATAGTCTAATCTATCTATTTGAAGGATTAATTTGAAAA
67806087 GTTATCAAGGTATGAAAAATAGGTCA
66 GTTATCAAGGTATGAAAAATAGGTCA
67806113 AGTAATTTTGATATTTTTGAAACCGGGATAGTCTAATCTATCTATTTGAAGGATTAATTTGAAAA
1 AGTAATTTTGATATTTTTGAAACCGGGATAGTCTAATCTATCTATTTGAAGGATTAATTTGAAAA
67806178 GTTATCAAGGTATGAAAAAT
66 GTTATCAAGGTATGAAAAAT
67806198 GCGTCATGGA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 83 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.38
Consensus pattern (91 bp):
AGTAATTTTGATATTTTTGAAACCGGGATAGTCTAATCTATCTATTTGAAGGATTAATTTGAAAA
GTTATCAAGGTATGAAAAATAGGTCA
Found at i:67807236 original size:2 final size:2
Alignment explanation
Indices: 67807229--67807259 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
67807219 AGTCATATTC
67807229 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67807260 AAACATAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:67809997 original size:19 final size:19
Alignment explanation
Indices: 67809959--67809997 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
67809949 AACGGACATA
**
67809959 AAAATCTTGACATGGCATG
1 AAAATCTTGACATGAAATG
*
67809978 AAAATCTTGAGATGAAATG
1 AAAATCTTGACATGAAATG
67809997 A
1 A
67809998 TAATAACTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.26
Consensus pattern (19 bp):
AAAATCTTGACATGAAATG
Found at i:67817559 original size:46 final size:46
Alignment explanation
Indices: 67817509--67817681 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
67817499 TGGTTGAGCA
67817509 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
67817555 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
67817600 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
67817648 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
67817682 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:67817665 original size:93 final size:93
Alignment explanation
Indices: 67817506--67817676 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
67817496 GGATGGTTGA
* * *
67817506 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
67817571 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
67817599 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
67817664 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
67817677 ACTTAGGGGC
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:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:67819619 original size:15 final size:17
Alignment explanation
Indices: 67819581--67819620 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
67819571 TTATGGATTG
*
67819581 ATTTGAATGAATGTGAA
1 ATTTGAATGAATGTCAA
67819598 A-TTGAAT-AAT-TCAA
1 ATTTGAATGAATGTCAA
67819612 ATTTGAATG
1 ATTTGAATG
67819621 TATTTAGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
14 4 0.20
15 9 0.45
16 6 0.30
17 1 0.05
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (17 bp):
ATTTGAATGAATGTCAA
Found at i:67820012 original size:42 final size:41
Alignment explanation
Indices: 67819904--67820016 Score: 120
Period size: 44 Copynumber: 2.7 Consensus size: 41
67819894 TTCAGATATG
* **
67819904 TGATTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATCGATT
1 TGATTTCGTGTAAGACC-CTGTCTGGGACATCAGCATCGATT
* *
67819945 TGAGATTTACGTGTAAGACCATGTCTGGGACATCAGTATCGTATT
1 T--GATTT-CGTGTAAGACCCTGTCTGGGACATCAGCATCG-ATT
*
67819990 TGATTTCATGTAAGACCCTGTCTGGGA
1 TGATTTCGTGTAAGACCCTGTCTGGGA
67820017 TAGATGCATC
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.02
42 19 0.32
43 10 0.17
44 26 0.43
45 4 0.07
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACATCAGCATCGATT
Found at i:67823927 original size:18 final size:18
Alignment explanation
Indices: 67823904--67823938 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
67823894 GAGTTAAATG
67823904 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
*
67823922 AATCGATTTATTCGAGT
1 AATCGAGTTATTCGAGT
67823939 CAACTCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:67826259 original size:46 final size:45
Alignment explanation
Indices: 67826206--67826381 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 45
67826196 TATTTGGGCA
*
67826206 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACG
* * *
67826252 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAC---G
* * *
67826297 CATCC-AAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGAGAACA
1 --TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACG
* **
67826345 CCCGAACTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
67826382 GCGAGTAACA
Statistics
Matches: 104, Mismatches: 15, Indels: 22
0.74 0.11 0.16
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 59 0.57
47 26 0.25
48 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACG
Found at i:67826312 original size:93 final size:93
Alignment explanation
Indices: 67826202--67826372 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
67826192 CAGATATTTG
* **
67826202 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACACCCGAACTCGTTGAG
67826267 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
67826295 GGCATCC-AAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGAGAACACCCGAACTCGTTGA
1 GGCATCCGAA-CTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACACCCGAACTCGTTGA
67826359 GTTGAGTCCGAGTT
65 GTTGAGTCCGAGTT
67826373 TGCTTATGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:67828689 original size:40 final size:39
Alignment explanation
Indices: 67828643--67828788 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 39
67828633 GACGACAAAC
*
67828643 CAGCTATGTGTGGCACTTAGTGTGCGATTCGACATAGCTT
1 CAGCTATGTATGGCACTTAGTGTGCGATTCGA-ATAGCTT
* * * *
67828683 CGGCTATATATGGCACTTAGTGTGCAATTTAGAATAGCTT
1 CAGCTATGTATGGCACTTAGTGTGCGA-TTCGAATAGCTT
* * *
67828723 CAGCTATCTATGGCACCTAGTGTGCAAGA-CCGAGATAGCTT
1 CAGCTATGTATGGCACTTAGTGTGC--GATTCGA-ATAGCTT
*
67828764 CAGCTATGTATATGCACTTAGTGTG
1 CAGCTATGTAT-GGCACTTAGTGTG
67828789 TGAGACATCG
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 54 0.62
41 21 0.24
42 12 0.14
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (39 bp):
CAGCTATGTATGGCACTTAGTGTGCGATTCGAATAGCTT
Found at i:67828915 original size:63 final size:63
Alignment explanation
Indices: 67828816--67828945 Score: 260
Period size: 63 Copynumber: 2.1 Consensus size: 63
67828806 GACATGTTTG
67828816 GTATGTTTGAATCAAGTGTAGGTATGTATAAATATATGGTTTATGTTGTAAGTTCATGTAAAA
1 GTATGTTTGAATCAAGTGTAGGTATGTATAAATATATGGTTTATGTTGTAAGTTCATGTAAAA
67828879 GTATGTTTGAATCAAGTGTAGGTATGTATAAATATATGGTTTATGTTGTAAGTTCATGTAAAA
1 GTATGTTTGAATCAAGTGTAGGTATGTATAAATATATGGTTTATGTTGTAAGTTCATGTAAAA
67828942 GTAT
1 GTAT
67828946 TTGAGTCCAC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.33, C:0.03, G:0.22, T:0.42
Consensus pattern (63 bp):
GTATGTTTGAATCAAGTGTAGGTATGTATAAATATATGGTTTATGTTGTAAGTTCATGTAAAA
Found at i:67830672 original size:29 final size:29
Alignment explanation
Indices: 67830611--67830699 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 29
67830601 ACATACATGT
* * *
67830611 ATATGACCCACTAGGCCC-AATCTCATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
67830639 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
67830668 GTATGGCCCATTAGGCCCAAATCACATAC
1 ATATGGCCCATTAGGCCCAAATCACATTC
67830697 ATA
1 ATA
67830700 GTCATGCTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
28 16 0.30
29 38 0.70
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.24
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:67834188 original size:46 final size:46
Alignment explanation
Indices: 67834121--67834212 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
67834111 GATGAGAGAT
67834121 ACTGCTATGAGATCTGAGGCACGAGCACCTACCTGAGCTTATGCTA
1 ACTGCTATGAGATCTGAGGCACGAGCACCTACCTGAGCTTATGCTA
67834167 ACTGCTATGAGATCTGAGGCACGAGCACCTACCTGAGCTTATGCTA
1 ACTGCTATGAGATCTGAGGCACGAGCACCTACCTGAGCTTATGCTA
67834213 TTCGTGCACG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (46 bp):
ACTGCTATGAGATCTGAGGCACGAGCACCTACCTGAGCTTATGCTA
Found at i:67834422 original size:19 final size:20
Alignment explanation
Indices: 67834380--67834425 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
67834370 GTTTTTTATT
*
67834380 AAAGTATGTTCTAGTTAGGC
1 AAAGTATGTTCTAGTTAGAC
67834400 -AAGTATGTTCTAGTT-GAC
1 AAAGTATGTTCTAGTTAGAC
67834418 AAAGTATG
1 AAAGTATG
67834426 CAAGAACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 2 0.08
19 22 0.92
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.35
Consensus pattern (20 bp):
AAAGTATGTTCTAGTTAGAC
Found at i:67836610 original size:27 final size:27
Alignment explanation
Indices: 67836482--67836611 Score: 154
Period size: 27 Copynumber: 4.9 Consensus size: 27
67836472 TACCAAAGTA
* **
67836482 ACCC-CGATTTACATAATTACCGTTTT
1 ACCCTCGATTTACAGAATTACTATTTT
* * **
67836508 ACCCTCAATTTATAGAATTACCGTTTT
1 ACCCTCGATTTACAGAATTACTATTTT
*
67836535 ACCCTCGATTTATAGAATTACTATTTT
1 ACCCTCGATTTACAGAATTACTATTTT
*
67836562 ACCCTTGATTTACAGAATTACTATTTT
1 ACCCTCGATTTACAGAATTACTATTTT
* *
67836589 ACCATCGATTTACAAAATTACTA
1 ACCCTCGATTTACAGAATTACTA
67836612 AAATACCCTT
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 4 0.04
27 88 0.96
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
ACCCTCGATTTACAGAATTACTATTTT
Found at i:67836610 original size:54 final size:54
Alignment explanation
Indices: 67836486--67836638 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
67836476 AAAGTAACCC
* ** ** * * *
67836486 CGATTTACATAATTACCGTTTTACCCTCAATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCATTTTACCAT
* * *
67836540 CGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCAT
1 CGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCATTTTACCAT
*** * *
67836594 CGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 CGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCA
67836639 AATACCCTCG
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.39
Consensus pattern (54 bp):
CGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCATTTTACCAT
Found at i:67836618 original size:27 final size:27
Alignment explanation
Indices: 67836534--67836890 Score: 140
Period size: 27 Copynumber: 13.2 Consensus size: 27
67836524 ATTACCGTTT
* * ***
67836534 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
67836561 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
*
67836588 TACCATCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * *
67836615 TACCCTTGGTTTACAAAATTAC-CAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * *
67836641 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-CAAAATTACTAAAA
* * ** *
67836668 TACCCT-GGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
67836694 TACCC-CTAGTTTGTAAAATTACAAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** *
67836721 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* *** **
67836748 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTACAAAATTACTAAAA
* ** *
67836775 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
67836802 TA-CCTCTGATTTACAAAATTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
* *
67836829 TACCCTTGACTTT-CTAAAAAGTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
67836858 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
67836885 TACCCT
1 TACCCT
67836891 TGGTTTGTAG
Statistics
Matches: 266, Mismatches: 47, Indels: 34
0.77 0.14 0.10
Matches are distributed among these distances:
25 2 0.01
26 43 0.16
27 191 0.72
28 11 0.04
29 19 0.07
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:67836658 original size:26 final size:27
Alignment explanation
Indices: 67836588--67836834 Score: 193
Period size: 27 Copynumber: 9.2 Consensus size: 27
67836578 ATTACTATTT
* ** *
67836588 TACCATCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
67836615 TACCCTTGGTTTACAAAATTACC-AAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
67836641 TACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * *
67836668 TACCCT-GGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
67836694 TACCC-CTAGTTTGTAAAATTACAAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
*
67836721 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* * *
67836748 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
*
67836775 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
67836802 TA-CCTCTGATTTACAAAATTA-CAGAAA
1 TACCCTC-GATTTGTAAAATTACCA-AAA
67836829 TACCCT
1 TACCCT
67836835 TGACTTTCTA
Statistics
Matches: 180, Mismatches: 31, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
26 49 0.27
27 127 0.71
28 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:67836792 original size:81 final size:80
Alignment explanation
Indices: 67836653--67836805 Score: 218
Period size: 81 Copynumber: 1.9 Consensus size: 80
67836643 CCCTCGATCA
* * *
67836653 GTAAAATTACCAAAATACCCTGGTCTGTAAAATTGCTAAAATACCCCTAGTTTGTAAAATTACAA
1 GTAAAATTACCAAAATACCCTGGTCTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACAA
67836718 AAATACCCCTAGTTT
66 AAATACCCCTAGTTT
* * *
67836733 GTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTAC
1 GTAAAATTACCAAAATACC-CTGGTCTGTAAAATTACCAAAATACCCCT-AATTTGTAAAATTAC
*
67836797 CAAAATACC
64 AAAAATACC
67836806 TCTGATTTAC
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
80 23 0.36
81 41 0.64
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (80 bp):
GTAAAATTACCAAAATACCCTGGTCTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACAA
AAATACCCCTAGTTT
Found at i:67836820 original size:81 final size:80
Alignment explanation
Indices: 67836655--67836834 Score: 213
Period size: 81 Copynumber: 2.2 Consensus size: 80
67836645 CTCGATCAGT
* * *
67836655 AAAATTACCAAAATACCCTGGTCTGTAAAATTGCTAAAATACCCCTAGTTTGTAAAATTACAAAA
1 AAAATTACCAAAATACCCTGGTCTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACAAAA
**
67836720 ATACCCCTAGTTTGT
66 ATACCCCTAGTTTAC
* * * *
67836735 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCA
1 AAAATTACCAAAATACC-CTGGTCTGTAAAATTACCAAAATACCCCT-AATTTGTAAAATTACAA
*
67836799 AAATACCTCT-GATTTAC
64 AAATACCCCTAG-TTTAC
67836816 AAAATTA-CAGAAATACCCT
1 AAAATTACCA-AAATACCCT
67836835 TGACTTTCTA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
80 26 0.30
81 60 0.70
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTGGTCTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACAAAA
ATACCCCTAGTTTAC
Found at i:67836893 original size:27 final size:27
Alignment explanation
Indices: 67836597--67836919 Score: 192
Period size: 27 Copynumber: 12.0 Consensus size: 27
67836587 TTACCATCGA
* *
67836597 TTTACAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
67836624 TTTACAAAATTACC-AAATACCC-TCG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
67836649 ATCAGTAAAATTACCAAAATACCC-TGG
1 TTTA-TAAAATTACCAAAATACCCTTGG
* * * * * *
67836676 TCTGTAAAATTGCTAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCTTGG
* * * *
67836703 TTTGTAAAATTACAAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCTTGG
*
67836730 TTTGTAAAATTACCAAAATACCAC-TGG
1 TTTATAAAATTACCAAAATACC-CTTGG
* * * ***
67836757 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTATAAAATTACCAAAATACCCTTGG
* *
67836784 TTTGTAAAATTACCAAAATA-CCTCTGA
1 TTTATAAAATTACCAAAATACCCT-TGG
* *
67836811 TTTACAAAATTA-CAGAAATACCCTTGAC
1 TTTATAAAATTACCA-AAATACCCTTG-G
* * * *
67836839 TTTCTAAAAAGTA-TAGAAATACCATTGG
1 TTTAT-AAAATTACCA-AAATACCCTTGG
* **
67836867 TTTACAAAATTACTGAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* * * *
67836894 TTTGTAGATTTACCAAAACACCCTTG
1 TTTATAAAATTACCAAAATACCCTTG
67836920 TAGGGTGAAA
Statistics
Matches: 237, Mismatches: 48, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
25 4 0.02
26 40 0.17
27 164 0.69
28 11 0.05
29 18 0.08
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCTTGG
Found at i:67837908 original size:24 final size:25
Alignment explanation
Indices: 67837822--67837915 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
67837812 AGGAAGTGCT
*
67837822 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
67837847 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
67837872 AAAAGGGCCTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
67837896 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
67837916 ATTAAAAGAC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
24 19 0.29
25 46 0.71
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:67838169 original size:31 final size:31
Alignment explanation
Indices: 67838125--67838274 Score: 246
Period size: 31 Copynumber: 4.8 Consensus size: 31
67838115 GGGCCATACC
*
67838125 ATTTACTGTAAAGGCTTCGGCCCAGTGATATG
1 ATTTA-TGAAAAGGCTTCGGCCCAGTGATATG
*
67838157 ATTTATGAAAAGGCTTCGGCCCAGAGATATG
1 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
*
67838188 ATTTATGATAAGGCTTCGGCCCAGTGATATG
1 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
*
67838219 ATTTATGATAAGGCTTCGGCCCAGTGATATG
1 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
*
67838250 AGTTATGAAAAGGCTTCGGCCCAGT
1 ATTTATGAAAAGGCTTCGGCCCAGT
67838275 AACCGTTAAA
Statistics
Matches: 112, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 107 0.96
32 5 0.04
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (31 bp):
ATTTATGAAAAGGCTTCGGCCCAGTGATATG
Found at i:67838335 original size:93 final size:92
Alignment explanation
Indices: 67838135--67838314 Score: 237
Period size: 93 Copynumber: 2.0 Consensus size: 92
67838125 ATTTACTGTA
* * * *
67838135 AAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGAGATATGATTTATGATAAG
1 AAGGCTTCGGCCCAGTGATATGAGTTATGAAAAGGCTTCGGCCCAGAGATACGATTAACGATAAG
*
67838200 GCTTCGGCCCAGTGATATGATTTATGAT
66 GCTTCGGCCCAGTGATATGA-TTAAGAT
*
67838228 AAGGCTTCGGCCCAGTGATATGAGTTATGAAAAGGCTTCGGCCCAGTA-A-CCG-TTAAACGA-A
1 AAGGCTTCGGCCCAGTGATATGAGTTATGAAAAGGCTTCGGCCCAG-AGATACGATT-AACGATA
67838289 AGGCTTCGGCCCAGT-ATATG-TTAAGA
64 AGGCTTCGGCCCAGTGATATGATTAAGA
67838315 CTAAATAGGG
Statistics
Matches: 79, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
88 5 0.06
90 5 0.06
91 18 0.23
92 4 0.05
93 46 0.58
94 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (92 bp):
AAGGCTTCGGCCCAGTGATATGAGTTATGAAAAGGCTTCGGCCCAGAGATACGATTAACGATAAG
GCTTCGGCCCAGTGATATGATTAAGAT
Found at i:67841677 original size:42 final size:40
Alignment explanation
Indices: 67841590--67841690 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
67841580 GACAAATTAT
* * *
67841590 CTATATGTGGCACTTAATGTGCGATTCGACATAGCTTTGG
1 CTATATATGGCACTTAATGTGCCATTCGACATAGCTTCGG
* *
67841630 CTATATATGGCACTTAGTGTGCCATTCGGA-TTAGCTTCGG
1 CTATATATGGCACTTAATGTGCCATTC-GACATAGCTTCGG
*
67841670 CTATATATGACACTTAATGTG
1 CTATATATGGCACTTAATGTG
67841691 GAAGACTGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
40 51 0.96
41 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (40 bp):
CTATATATGGCACTTAATGTGCCATTCGACATAGCTTCGG
Found at i:67849564 original size:68 final size:67
Alignment explanation
Indices: 67849492--67849641 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
67849482 CATCATGTGT
* * * *
67849492 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
67849554 ATGTAG
62 ATGTAG
** * *
67849560 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
67849625 AG
66 AG
67849627 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
67849642 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:67849597 original size:64 final size:64
Alignment explanation
Indices: 67849516--67849699 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
67849506 AGACATTATG
* *
67849516 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
67849580 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
67849645 AA
63 AA
* * * *
67849647 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
67849700 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:67850793 original size:2 final size:2
Alignment explanation
Indices: 67850786--67850824 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
67850776 TCATGACATG
67850786 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
67850825 GACTAGTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:67863447 original size:43 final size:42
Alignment explanation
Indices: 67863385--67863505 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
67863375 ATGGTACTAT
67863385 TCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
1 TCGGG-CTTCGAGCCTAGCAGGCTATAATGCCGGTGA-TTAATA
*
67863429 TCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGATTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGATTAATA
** * * *
67863471 TTAGGCTTC-AGGCATAGCAGGC-GTAATGCCAGTGA
1 TCGGGCTTCGA-GCCTAGCAGGCTATAATGCCGGTGA
67863506 ATGAGTTCAG
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
41 11 0.16
42 23 0.33
43 30 0.43
44 5 0.07
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (42 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGATTAATA
Found at i:67864587 original size:27 final size:27
Alignment explanation
Indices: 67864554--67864672 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
67864544 TGGATAAGTA
**
67864554 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * **
67864581 ATAGAATTACCAAAATACCATTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
67864608 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
67864635 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
67864662 GTAAAATTACC
1 GTAGAATTACC
67864673 ATTTTGCCCC
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:67864683 original size:54 final size:54
Alignment explanation
Indices: 67864565--67864668 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
67864555 TAGAATTATT
67864565 GAAATACCCCTGTAGGATAGAATTACCAAAATACCATTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGATAGAATTACCAAAATACCATTGTAGGGTAGAAATACC
* * * * *
67864619 GAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCCTGTAGGATAGAATTACCAAAATACCATTGTAGGGTAGAAAT
67864669 TACCATTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.09
54 41 0.91
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (54 bp):
GAAATACCCCTGTAGGATAGAATTACCAAAATACCATTGTAGGGTAGAAATACC
Found at i:67865368 original size:27 final size:26
Alignment explanation
Indices: 67865324--67865375 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
67865314 CTCGCTACAA
*
67865324 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
67865351 TCTGGTGACTTCGTCACAATATCTA
1 TCTGGTGACCTCGCCACAATATCTA
67865376 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:67865415 original size:2 final size:2
Alignment explanation
Indices: 67865408--67865455 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
67865398 GCTTCGCCAC
67865408 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67865450 AT AT AT
1 AT AT AT
67865456 CTGTTCTAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67865504 original size:27 final size:26
Alignment explanation
Indices: 67865452--67865511 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
67865442 ATATATATAT
67865452 ATATCTGTTCTAGTGGCCTAGCCACA
1 ATATCTGTTCTAGTGGCCTAGCCACA
* * * *
67865478 ATATCTGTATCTGGTGGCTTCGTCACA
1 ATATCTGT-TCTAGTGGCCTAGCCACA
67865505 ATATCTG
1 ATATCTG
67865512 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTAGTGGCCTAGCCACA
Found at i:67868038 original size:27 final size:28
Alignment explanation
Indices: 67867982--67868050 Score: 122
Period size: 27 Copynumber: 2.5 Consensus size: 28
67867972 AAATTTGTAC
*
67867982 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCAAGTTTGATTATAT
67868010 AGCACTAAGTGTGCAAG-TTGATTATAT
1 AGCACTAAGTGTGCAAGTTTGATTATAT
67868037 AGCACTAAGTGTGC
1 AGCACTAAGTGTGC
67868051 GGACTCACTA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCAAGTTTGATTATAT
Found at i:67871988 original size:23 final size:23
Alignment explanation
Indices: 67871934--67872052 Score: 211
Period size: 23 Copynumber: 5.1 Consensus size: 23
67871924 CCTAGCCTCT
*
67871934 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
67871957 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
67871981 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
67872004 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
67872027 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
67872050 TTT
1 TTT
67872053 TCCACTTCCT
Statistics
Matches: 92, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
23 70 0.76
24 22 0.24
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:67872135 original size:20 final size:20
Alignment explanation
Indices: 67872112--67872169 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
67872102 CATCACGTGG
67872112 ATATCATACATATCATGTGC
1 ATATCATACATATCATGTGC
*
67872132 ATATCATACATGTCATGTGC
1 ATATCATACATATCATGTGC
*
67872152 ATATCATACATACCATGT
1 ATATCATACATATCATGT
67872170 TTATCAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATATCATACATATCATGTGC
Found at i:67879206 original size:31 final size:31
Alignment explanation
Indices: 67879165--67879228 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
67879155 CCTTTTCGTA
*
67879165 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
67879196 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
67879227 TT
1 TT
67879229 ACTGTAAACG
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:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:67879497 original size:23 final size:23
Alignment explanation
Indices: 67879443--67879561 Score: 184
Period size: 23 Copynumber: 5.1 Consensus size: 23
67879433 CCTAGCCTCT
*
67879443 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
67879466 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
67879490 TTTAATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
67879513 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
67879536 TTCAATAACTGAGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
67879559 TTT
1 TTT
67879562 TCCACTTCCT
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
23 65 0.75
24 22 0.25
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:67879640 original size:20 final size:20
Alignment explanation
Indices: 67879612--67879678 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
67879602 TTATGATTAC
*
67879612 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
67879632 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
67879652 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
67879672 ACCATGT
1 ATCATGT
67879679 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:67881833 original size:2 final size:2
Alignment explanation
Indices: 67881826--67881861 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
67881816 GAGTGCAAAC
67881826 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67881862 CACATGCGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67884188 original size:14 final size:15
Alignment explanation
Indices: 67884171--67884199 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
67884161 TCATGAAAAT
67884171 TTCACACAT-ACAAA
1 TTCACACATAACAAA
67884185 TTCACACATAACAAA
1 TTCACACATAACAAA
67884200 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
TTCACACATAACAAA
Found at i:67887309 original size:24 final size:24
Alignment explanation
Indices: 67887282--67887370 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 24
67887272 GCCGCGTTTC
*
67887282 CTCGCACACATAGTGCTATATAAT
1 CTCGCACACATAGTGCCATATAAT
* * *
67887306 CTCGCACACATAGTACCATGTAGTT
1 CTCGCACACATAGTGCCATATA-AT
* * ** *
67887331 TTTGCACACATAGTGCCGCATAAC
1 CTCGCACACATAGTGCCATATAAT
67887355 CTCGCACACATAGTGC
1 CTCGCACACATAGTGC
67887371 TGAAATTTCT
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 33 0.66
25 17 0.34
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (24 bp):
CTCGCACACATAGTGCCATATAAT
Found at i:67887897 original size:28 final size:28
Alignment explanation
Indices: 67887865--67887923 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
67887855 ATTCACTATA
67887865 TTAGAACTCATTTTCTAACTAATTTAAC
1 TTAGAACTCATTTTCTAACTAATTTAAC
67887893 TTAGAACTCATTTTCTAACTAATTTAAC
1 TTAGAACTCATTTTCTAACTAATTTAAC
67887921 TTA
1 TTA
67887924 CTCCAAAGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (28 bp):
TTAGAACTCATTTTCTAACTAATTTAAC
Found at i:67890193 original size:35 final size:36
Alignment explanation
Indices: 67890144--67890307 Score: 210
Period size: 35 Copynumber: 4.6 Consensus size: 36
67890134 AAAATTGAGC
* * *
67890144 TATA-TGAACCTTGTATAATCGGTCATATGTGATGA
1 TATATTGAACTTTGTATATTCGGCCATATGTGATGA
*
67890179 TATATTGAA-TTTGTATATTCGGCCATATGTGATGG
1 TATATTGAACTTTGTATATTCGGCCATATGTGATGA
* *
67890214 TATATTGAA-TTTGTATATTTGGCTATATGTGATGA
1 TATATTGAACTTTGTATATTCGGCCATATGTGATGA
* *
67890249 TATATTGAATTTTGTATAATT-AGCCATATGTGATGA
1 TATATTGAACTTTGTAT-ATTCGGCCATATGTGATGA
*
67890285 TATATTGAACCTTGTATATTCGG
1 TATATTGAACTTTGTATATTCGG
67890308 TCTTATAGGT
Statistics
Matches: 113, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
35 70 0.62
36 40 0.35
37 3 0.03
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (36 bp):
TATATTGAACTTTGTATATTCGGCCATATGTGATGA
Found at i:67890335 original size:50 final size:50
Alignment explanation
Indices: 67890281--67890377 Score: 133
Period size: 50 Copynumber: 1.9 Consensus size: 50
67890271 GCCATATGTG
* * * *
67890281 ATGATATATTGAACCTT-GTATATTCGGTCTTATAGGTATGTACTTATAAA
1 ATGATATAATGAA-CTTGGTATATCCGGTCATATAGGTAAGTACTTATAAA
*
67890331 ATGATATAATGAACTTGGTATATCCGGTCATATAGGTAAGTATTTAT
1 ATGATATAATGAACTTGGTATATCCGGTCATATAGGTAAGTACTTAT
67890378 GTGGTGTTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
49 3 0.07
50 38 0.93
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (50 bp):
ATGATATAATGAACTTGGTATATCCGGTCATATAGGTAAGTACTTATAAA
Found at i:67900276 original size:41 final size:41
Alignment explanation
Indices: 67900228--67900322 Score: 158
Period size: 41 Copynumber: 2.4 Consensus size: 41
67900218 TATTAAAGGA
*
67900228 TAAATAAGTAAAATATGTTAAATGTTAACATATATTATATT
1 TAAATAAGTAAAATATGTTAAATATTAACATATATTATATT
67900269 TAAATAAGTAAAATATGTTAAATATTAACATATATTATATT
1 TAAATAAGTAAAATATGTTAAATATTAACATATATTATATT
*
67900310 AAAAT-A-TAAAATA
1 TAAATAAGTAAAATA
67900323 AAATTATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
39 7 0.13
40 1 0.02
41 44 0.85
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (41 bp):
TAAATAAGTAAAATATGTTAAATATTAACATATATTATATT
Found at i:67901477 original size:35 final size:36
Alignment explanation
Indices: 67901428--67901591 Score: 217
Period size: 35 Copynumber: 4.6 Consensus size: 36
67901418 AAAACTGAGC
* * *
67901428 TATA-TGAACCTTGTATAATCGGTCATATGTGATGA
1 TATATTGAACTTTGTATATTCGGCCATATGTGATGA
* *
67901463 TATATTGAA-TTTGTATATTTGGCCATATGTGATGG
1 TATATTGAACTTTGTATATTCGGCCATATGTGATGA
*
67901498 TATATTGAA-TTTGTATATTCGGCTATATGTGATGA
1 TATATTGAACTTTGTATATTCGGCCATATGTGATGA
* * *
67901533 TATATTGAATTTTGTATAATCAGCCATATGTGATGA
1 TATATTGAACTTTGTATATTCGGCCATATGTGATGA
*
67901569 TATATTGAACCTTGTATATTCGG
1 TATATTGAACTTTGTATATTCGG
67901592 TCTTATAGGT
Statistics
Matches: 112, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
35 66 0.59
36 46 0.41
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (36 bp):
TATATTGAACTTTGTATATTCGGCCATATGTGATGA
Found at i:67901541 original size:70 final size:72
Alignment explanation
Indices: 67901428--67901593 Score: 241
Period size: 70 Copynumber: 2.3 Consensus size: 72
67901418 AAAACTGAGC
* * **
67901428 TATA-TGAACCTTGTATAATCGGTCATATGTGATGATATATTGAA-TTTGTATATTTGGCCATAT
1 TATATTGAACCTTGTATATTCGGTCATATGTGATGATATATTGAATTTTGTATAATCAGCCATAT
*
67901491 GTGATGG
66 GTGATGA
*
67901498 TATATTGAA-TTTGTATATTCGG-CTATATGTGATGATATATTGAATTTTGTATAATCAGCCATA
1 TATATTGAACCTTGTATATTCGGTC-ATATGTGATGATATATTGAATTTTGTATAATCAGCCATA
67901561 TGTGATGA
65 TGTGATGA
67901569 TATATTGAACCTTGTATATTCGGTC
1 TATATTGAACCTTGTATATTCGGTC
67901594 TTATAGGTAT
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
69 1 0.01
70 35 0.42
71 35 0.42
72 12 0.14
73 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (72 bp):
TATATTGAACCTTGTATATTCGGTCATATGTGATGATATATTGAATTTTGTATAATCAGCCATAT
GTGATGA
Found at i:67901619 original size:50 final size:50
Alignment explanation
Indices: 67901565--67901662 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
67901555 GCCATATGTG
* * * *
67901565 ATGATATATTGAACCTT-GTATATTCGGTCTTATAGGTATGTACTTATGAA
1 ATGATATAATGAA-CTTGGTATATCCGGTCATATAGGTAAGTACTTATGAA
*
67901615 ATGATATAATGAACTTGGTATATCCGGTCATATAGGTAAGTATTTATG
1 ATGATATAATGAACTTGGTATATCCGGTCATATAGGTAAGTACTTATG
67901663 TGGTGTTCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 3 0.07
50 39 0.93
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (50 bp):
ATGATATAATGAACTTGGTATATCCGGTCATATAGGTAAGTACTTATGAA
Found at i:67907854 original size:46 final size:44
Alignment explanation
Indices: 67907800--67907974 Score: 210
Period size: 46 Copynumber: 3.9 Consensus size: 44
67907790 ATATTTGGGC
67907800 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
67907844 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGA
67907892 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * *
67907936 ACACCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 A-TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
67907975 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 36 0.32
46 64 0.58
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:67910905 original size:15 final size:15
Alignment explanation
Indices: 67910866--67910943 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
67910856 GTATCTTGGG
*
67910866 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
67910881 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
67910896 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
67910910 TTTC-TCA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
67910924 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
67910938 TTTCTT
1 TTTCTT
67910944 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
12 2 0.04
13 2 0.04
14 20 0.39
15 25 0.49
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:67916469 original size:40 final size:39
Alignment explanation
Indices: 67916378--67916479 Score: 127
Period size: 40 Copynumber: 2.5 Consensus size: 39
67916368 ATCACGATTT
*
67916378 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
67916418 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
67916458 GCACAATTGCCTTCGGGTCTTA
1 GCACAA-TGCCTTCGGGTCTTA
67916480 ACCGGTTATA
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 51 0.91
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:67918737 original size:40 final size:40
Alignment explanation
Indices: 67918688--67918879 Score: 312
Period size: 40 Copynumber: 4.8 Consensus size: 40
67918678 CCAGCATGAT
* * *
67918688 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
67918728 TGCTCTTCGGGACTTAGTCCGGTTGCATTACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
67918768 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
67918808 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
67918848 TGCTCTTCGGAACTTAGTCCGGATACATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
67918880 CTCAATTCTC
Statistics
Matches: 141, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:67921174 original size:49 final size:49
Alignment explanation
Indices: 67921001--67921350 Score: 486
Period size: 49 Copynumber: 7.3 Consensus size: 49
67920991 CCCTTCGGGA
* * * * * *
67921001 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
67921048 CCTATCAC--AT-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
67921094 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67921141 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
67921190 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
67921239 CTTATCACATATATATACACTTTCGCATT-ATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
67921287 CTTATCTC--ATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67921334 CTTATCACATATATATA
1 CTTATCACATATATATA
67921351 TCTCATACAT
Statistics
Matches: 276, Mismatches: 20, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
46 59 0.21
47 72 0.26
48 26 0.09
49 119 0.43
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:67925210 original size:40 final size:40
Alignment explanation
Indices: 67925161--67925391 Score: 383
Period size: 40 Copynumber: 5.8 Consensus size: 40
67925151 CCAGCATGAT
* * *
67925161 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
67925201 TGCTCTTCGGGACTTAGTCCGGTTGCATTACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
67925241 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
67925281 TGCTCTTC-GAACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
67925320 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
67925360 TGCTCTTCGGAACTTAGTCCGGATACATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
67925392 CTCAATTCTC
Statistics
Matches: 179, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 38 0.21
40 141 0.79
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:67925314 original size:119 final size:120
Alignment explanation
Indices: 67925161--67925391 Score: 383
Period size: 119 Copynumber: 1.9 Consensus size: 120
67925151 CCAGCATGAT
* * * *
67925161 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGTTG
1 TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
*
67925226 CATTACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
67925281 TGCTCTTC-GAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
67925345 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACT
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACT
67925392 CTCAATTCTC
Statistics
Matches: 103, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
119 95 0.92
120 8 0.08
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (120 bp):
TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:67927683 original size:49 final size:49
Alignment explanation
Indices: 67927510--67927860 Score: 477
Period size: 49 Copynumber: 7.3 Consensus size: 49
67927500 CCCTTCGGGA
* * * * * *
67927510 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
67927557 CCTATCAC--AT-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
67927603 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67927650 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
67927699 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
67927748 CTTATCACATATATACACACTTTCGCATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
67927797 CTTATCTC--ATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67927844 CTTATCACATATATATA
1 CTTATCACATATATATA
67927861 TCTCATACAT
Statistics
Matches: 276, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
46 42 0.15
47 88 0.32
49 146 0.53
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:67927860 original size:98 final size:94
Alignment explanation
Indices: 67927510--67927858 Score: 484
Period size: 96 Copynumber: 3.7 Consensus size: 94
67927500 CCCTTCGGGA
* * * * * * * *
67927510 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGCCCTATCACAT-TATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
67927574 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
67927603 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
67927668 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
67927699 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--
* *
67927764 ACACTTTCGCATTTATCACATCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
67927797 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
67927859 TATCTCATAC
Statistics
Matches: 231, Mismatches: 18, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
93 46 0.20
94 1 0.00
95 2 0.01
96 98 0.42
98 84 0.36
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:67930566 original size:27 final size:26
Alignment explanation
Indices: 67930518--67930577 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
67930508 GCGAGGCTGC
*
67930518 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
67930545 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
67930571 CAGATAT
1 CAGATAT
67930578 ATATATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:67930943 original size:8 final size:8
Alignment explanation
Indices: 67930930--67930969 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
67930920 TACCAAAGTG
67930930 GGCCCGTT
1 GGCCCGTT
67930938 GGCCCGTT
1 GGCCCGTT
*
67930946 GGCCTGTT
1 GGCCCGTT
**
67930954 GGCCTATT
1 GGCCCGTT
67930962 GGCCCGTT
1 GGCCCGTT
67930970 TTCGGCCCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.03, C:0.33, G:0.35, T:0.30
Consensus pattern (8 bp):
GGCCCGTT
Found at i:67931407 original size:27 final size:27
Alignment explanation
Indices: 67931345--67931517 Score: 202
Period size: 27 Copynumber: 6.4 Consensus size: 27
67931335 GGGGCAAAAT
* * * * *
67931345 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
67931372 GGTAATTCTACCCCACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
67931399 GATATTTCTAACCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
67931426 GGCAATTCTATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
67931453 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
67931480 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
67931507 GGTAATTCTAC
1 GGTAATTCTAC
67931518 AACTTATCCA
Statistics
Matches: 125, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:67946462 original size:2 final size:2
Alignment explanation
Indices: 67946457--67946481 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
67946447 TATATATATA
67946457 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
67946482 ATATTCGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:67946676 original size:56 final size:56
Alignment explanation
Indices: 67946589--67946794 Score: 299
Period size: 56 Copynumber: 3.7 Consensus size: 56
67946579 ATGTATATGA
* * ***
67946589 GGCATCGACATGTGAATT-CGATATATGTGTGC-ATGAAAGACCACGTTTTATACCCC
1 GGCATCGATATGTG-ATTCCGATATATGTGTGCGA-GTAAGACCACGTTTTATACGTT
* *
67946645 AGCATCGATATGTGATTCCGATATATATGTGCGAGTAAGACCACGTTTTATACGTT
1 GGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
67946701 GGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
1 GGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
* *
67946757 GGCATCGATATGTGATTCCAATATATGTGTGCAAGTAA
1 GGCATCGATATGTGATTCCGATATATGTGTGCGAGTAA
67946795 AACCCTATCT
Statistics
Matches: 137, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
55 3 0.02
56 133 0.97
57 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (56 bp):
GGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
Found at i:67946816 original size:56 final size:56
Alignment explanation
Indices: 67946589--67946829 Score: 193
Period size: 56 Copynumber: 4.3 Consensus size: 56
67946579 ATGTATATGA
* * * * * ***
67946589 GGCATCGACATGTGAATT-CGATATATGTGTGCATG-AAAGACCACGTTTTATACCCC
1 GGCATCGATATGTG-ATTCCAATATATGTGTGCAAGTAAA-ACCACGTTTGAGACAAT
* * * * * * * **
67946645 AGCATCGATATGTGATTCCGATATATATGTGCGAGTAAGACCACGTTTTATACGTT
1 GGCATCGATATGTGATTCCAATATATGTGTGCAAGTAAAACCACGTTTGAGACAAT
* * * * * **
67946701 GGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
1 GGCATCGATATGTGATTCCAATATATGTGTGCAAGTAAAACCACGTTTGAGACAAT
*
67946757 GGCATCGATATGTGATTCCAATATATGTGTGCAAGTAAAACC-C-TATCTGGGACAAT
1 GGCATCGATATGTGATTCCAATATATGTGTGCAAGTAAAACCACGT-T-TGAGACAAT
67946813 GGCATCGATATGTGATT
1 GGCATCGATATGTGATT
67946830 ACATGTAGGA
Statistics
Matches: 162, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
54 1 0.01
55 5 0.03
56 154 0.95
57 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (56 bp):
GGCATCGATATGTGATTCCAATATATGTGTGCAAGTAAAACCACGTTTGAGACAAT
Found at i:67946816 original size:112 final size:111
Alignment explanation
Indices: 67946589--67946829 Score: 281
Period size: 112 Copynumber: 2.2 Consensus size: 111
67946579 ATGTATATGA
*
67946589 GGCATCGACATGTGAATTCGATATATGTGTGCATGAAAGACCACGTTTTATACCCCAGCATCGAT
1 GGCATCGATATGTG-ATTCGATATATGTGTGCATGAAAGACCACGTTTTATACCCCAGCATCGAT
* * * * * **
67946654 ATGTGATTCCGATATATATGTGCGAGTAAGACCACGTTTTATACGTT
65 ATGTGATTCCAATATATATGTGCAAGTAAAACCACGTTTGAGACAAT
* ****
67946701 GGCATCGATATGTGATTCCGATATATGTGTGCGA-GTAAGACCACGTTTTATACGTTGGCATCGA
1 GGCATCGATATGTGATT-CGATATATGTGTGC-ATGAAAGACCACGTTTTATACCCCAGCATCGA
* *
67946765 TATGTGATTCCAATATATGTGTGCAAGTAAAACC-C-TATCTGGGACAAT
64 TATGTGATTCCAATATATATGTGCAAGTAAAACCACGT-T-TGAGACAAT
67946813 GGCATCGATATGTGATT
1 GGCATCGATATGTGATT
67946830 ACATGTAGGA
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
110 1 0.01
111 5 0.05
112 103 0.94
113 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (111 bp):
GGCATCGATATGTGATTCGATATATGTGTGCATGAAAGACCACGTTTTATACCCCAGCATCGATA
TGTGATTCCAATATATATGTGCAAGTAAAACCACGTTTGAGACAAT
Found at i:67949982 original size:30 final size:28
Alignment explanation
Indices: 67949917--67949989 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
67949907 TATAGTGAAT
*
67949917 CCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
67949945 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA--TCAAAC
*
67949975 CCGCACACTCAGTGC
1 CCGCACACTTAGTGC
67949990 CAATCTTGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 19 0.51
30 18 0.49
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:67954364 original size:47 final size:47
Alignment explanation
Indices: 67954309--67954497 Score: 315
Period size: 47 Copynumber: 4.0 Consensus size: 47
67954299 TTGAATTTAG
67954309 AGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTTA
**
67954356 AGCTTGTTAAATTTATTCTTAATATTTCCGGACAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTTA
* *
67954403 AGCTTGTTAAATTTGTTCTTAATATTTCCAGACAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTTA
* * *
67954450 AGCTTGTTAAATTTGCTCTTATTATTTCCGGATAAGTTACTTCGTTA
1 AGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTTA
67954497 A
1 A
67954498 AGAAAATTTT
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (47 bp):
AGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTTA
Found at i:67955363 original size:45 final size:45
Alignment explanation
Indices: 67955299--67955505 Score: 285
Period size: 45 Copynumber: 4.6 Consensus size: 45
67955289 TATCGTACAG
* *
67955299 TACTATTCTGCCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
**
67955344 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGGTGGTGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
* * *
67955389 TACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
* * *
67955434 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
*
67955479 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGC
67955506 GAAATACCGA
Statistics
Matches: 147, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
43 16 0.11
44 4 0.03
45 126 0.86
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
Found at i:67959348 original size:34 final size:34
Alignment explanation
Indices: 67959310--67959410 Score: 117
Period size: 34 Copynumber: 3.1 Consensus size: 34
67959300 CCAAATTGAT
67959310 ACTGATACTGTAATGGGCTAAGGCCCTATCTGGA
1 ACTGATACTGTAATGGGCTAAGGCCCTATCTGGA
* * *
67959344 ACTG--A----AATGGGCTTAGGCCCAAACT-GA
1 ACTGATACTGTAATGGGCTAAGGCCCTATCTGGA
67959371 TACTGATACTGTAATGGGCTAAGGCCCTATCTGGA
1 -ACTGATACTGTAATGGGCTAAGGCCCTATCTGGA
67959406 ACTGA
1 ACTGA
67959411 AATGGGCTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
27 2 0.04
28 21 0.40
30 1 0.02
32 1 0.02
34 26 0.49
35 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (34 bp):
ACTGATACTGTAATGGGCTAAGGCCCTATCTGGA
Found at i:67959356 original size:28 final size:28
Alignment explanation
Indices: 67959316--67959425 Score: 114
Period size: 28 Copynumber: 3.7 Consensus size: 28
67959306 TGATACTGAT
*
67959316 ACTGTAATGGGCTAAGGCCCTATCTGGA
1 ACTGAAATGGGCTAAGGCCCTATCTGGA
*
67959344 ACTGAAATGGGCTTAGGCCCAAACTGATACT-GA
1 ACTGAAATGGGCTAAGG-CC---CT-AT-CTGGA
*
67959377 TACTGTAATGGGCTAAGGCCCTATCTGGA
1 -ACTGAAATGGGCTAAGGCCCTATCTGGA
*
67959406 ACTGAAATGGGCTTAGGCCC
1 ACTGAAATGGGCTAAGGCCC
67959426 AGACTGTACT
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
28 35 0.51
29 6 0.09
30 2 0.03
32 2 0.03
33 6 0.09
34 17 0.25
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (28 bp):
ACTGAAATGGGCTAAGGCCCTATCTGGA
Found at i:67959378 original size:62 final size:62
Alignment explanation
Indices: 67959281--67959435 Score: 267
Period size: 62 Copynumber: 2.5 Consensus size: 62
67959271 ACTGTTACTT
* * *
67959281 AACTGAAATGGGCTCAGACCCAAATTGATACTGATACTGTAATGGGCTAAGGCCCTATCTGG
1 AACTGAAATGGGCTTAGGCCCAAACTGATACTGATACTGTAATGGGCTAAGGCCCTATCTGG
67959343 AACTGAAATGGGCTTAGGCCCAAACTGATACTGATACTGTAATGGGCTAAGGCCCTATCTGG
1 AACTGAAATGGGCTTAGGCCCAAACTGATACTGATACTGTAATGGGCTAAGGCCCTATCTGG
*
67959405 AACTGAAATGGGCTTAGGCCCAGACTG-TACT
1 AACTGAAATGGGCTTAGGCCCAAACTGATACT
67959436 TACTCACTGT
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
61 4 0.04
62 85 0.96
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (62 bp):
AACTGAAATGGGCTTAGGCCCAAACTGATACTGATACTGTAATGGGCTAAGGCCCTATCTGG
Found at i:67968456 original size:27 final size:27
Alignment explanation
Indices: 67968425--67968494 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
67968415 AAACTTGTAC
67968425 AGCACTAAGTGTGCG-GTTTGATCATAT
1 AGCACTAAGTGTGCGAG-TTGATCATAT
*
67968452 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATCATAT
67968479 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
67968495 CTCACTATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATCATAT
Found at i:67974690 original size:27 final size:28
Alignment explanation
Indices: 67974634--67974703 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
67974624 AAACTTGTAC
67974634 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
67974662 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
67974689 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
67974704 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:67974714 original size:27 final size:27
Alignment explanation
Indices: 67974634--67974715 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
67974624 AAACTTGTAC
* *
67974634 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
67974662 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
67974689 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
67974716 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:67982723 original size:46 final size:47
Alignment explanation
Indices: 67982670--67982931 Score: 157
Period size: 49 Copynumber: 5.5 Consensus size: 47
67982660 TATGTGTGCT
*
67982670 AGTGTAAGACATGTCTGGGACATGCATCGGCCAT-ATTATGAGAGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATCATTATGAAAGGC
* * * *
67982716 AGTGTAAGAAATGTTTGAGACATGCATCGG-CAT--TGA-GACAAGAGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATCATTATGA-AAG-GC
* * * *
67982761 TAGTGTGAGACATGTTTGGGACATGCATCAGCC-TCGAGATAT-ACAA-GC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCATC-A-TTATGA-AAGGC
* * * * * *
67982809 TTGTGTAAGACCTGTCTGGGACATGGCATC-GACATCGATAGATGAGAGCC
1 -AGTGTAAGACATGTCTGGGACAT-GCATCGGCCATC-AT-TATGAAAGGC
* *
67982859 AGTGTAAGACATGTCTGGGACACGACATCGGCC-TCGATGTATGAAAGTC
1 AGTGTAAGACATGTCTGGGACATG-CATCGGCCATC-AT-TATGAAAGGC
* * *
67982908 AGTGTAAGACCTATCCGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
67982932 GCATTTTATC
Statistics
Matches: 168, Mismatches: 32, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
43 2 0.01
44 4 0.02
45 5 0.03
46 54 0.32
47 1 0.01
48 25 0.15
49 68 0.40
50 9 0.05
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATCATTATGAAAGGC
Found at i:67982869 original size:97 final size:98
Alignment explanation
Indices: 67982756--67982935 Score: 233
Period size: 98 Copynumber: 1.8 Consensus size: 98
67982746 CATTGAGACA
* * * * *
67982756 AGAGCTAGTGTGAGACATGTTTGGGACATG-CATCAGCCTCGA-GATAT-ACAAG-CTTGTGTAA
1 AGAGCCAGTGTAAGACATGTCTGGGACACGACATCAGCCTCGATG-TATGA-AAGTC-AGTGTAA
* *
67982817 GACCTGTCTGGGACATGGCATCGACATCGATAGATG
63 GACCTATCCGGGACATGGCATCGACATCGATAGATG
*
67982853 AGAGCCAGTGTAAGACATGTCTGGGACACGACATCGGCCTCGATGTATGAAAGTCAGTGTAAGAC
1 AGAGCCAGTGTAAGACATGTCTGGGACACGACATCAGCCTCGATGTATGAAAGTCAGTGTAAGAC
67982918 CTATCCGGGACATGGCAT
66 CTATCCGGGACATGGCAT
67982936 TTTATCCCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
97 26 0.37
98 42 0.59
99 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (98 bp):
AGAGCCAGTGTAAGACATGTCTGGGACACGACATCAGCCTCGATGTATGAAAGTCAGTGTAAGAC
CTATCCGGGACATGGCATCGACATCGATAGATG
Found at i:67984638 original size:12 final size:12
Alignment explanation
Indices: 67984621--67984646 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
67984611 GGTTTGGCAT
67984621 GGCCTAGCACAC
1 GGCCTAGCACAC
67984633 GGCCTAGCACAC
1 GGCCTAGCACAC
67984645 GG
1 GG
67984647 GCATGTGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:67986997 original size:23 final size:23
Alignment explanation
Indices: 67986980--67987033 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
67986970 CAGCTTGTTG
*
67986980 GAGCTTACTGTTTCAGCTCGTCA
1 GAGCTTACCGTTTCAGCTCGTCA
67987003 GAGCTTACCGTTTCAGCTCAGT-A
1 GAGCTTACCGTTTCAGCTC-GTCA
67987026 GAGCTTAC
1 GAGCTTAC
67987034 TGTCCATCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 27 0.93
24 2 0.07
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.31
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCGTCA
Found at i:67989941 original size:55 final size:53
Alignment explanation
Indices: 67989816--67990213 Score: 323
Period size: 55 Copynumber: 7.5 Consensus size: 53
67989806 AATTTACCAT
* * * *
67989816 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATATAACTCATCAA
* *
67989869 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAATAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTAT-ATAACTCATCAA
* * * * * * *
67989924 TGCCATGTCTTGACATGGTCTTACACGATTTCCTTGCCTTATAGAACTTATCTA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATATAACTCATCAA
* * * * *
67989978 TTCCATGCCTTGGCATGGTCTTACATGATA---T-CCTTATCTTAC-CA--AA
1 TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATATAACTCATCAA
** * * * *
67990024 TGCCATGTTCC-AAACATGGTCTTACATGGTATCATTGTCTTATGAT--GTCACCAA
1 TGCCATG--CCTTGACATGGTCTTACATGGTA-CCTTGCCTTAT-ATAACTCATCAA
* * *
67990078 TTCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATA-TAACTCATCAA
* * * * *
67990133 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATATAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATATAACTCATCAA
*
67990187 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
67990214 ATATCCTTAT
Statistics
Matches: 271, Mismatches: 53, Indels: 41
0.74 0.15 0.11
Matches are distributed among these distances:
46 7 0.03
47 16 0.06
48 3 0.01
49 8 0.03
50 1 0.00
51 1 0.00
52 13 0.05
53 62 0.23
54 75 0.28
55 81 0.30
56 4 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATATAACTCATCAA
Found at i:67990012 original size:54 final size:54
Alignment explanation
Indices: 67989816--67990221 Score: 352
Period size: 54 Copynumber: 7.6 Consensus size: 54
67989806 AATTTACCAT
* * * *
67989816 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* ** *
67989869 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAATAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTAT-AGAACTCATCAA
* * * * *
67989924 TGCCATGTCTTGACATGGTCTTACACGATTTCCTTGCCTTATAGAACTTATCTA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* * **
67989978 TTCCATGCCTTGGCATGGTCTTACATGATATCCTTATC-T-T---AC-CA--AA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
** * * * ** *
67990024 TGCCATGTTCC-AAACATGGTCTTACATGGTATCATTGTCTTAT-GATGTCACCAA
1 TGCCATG--CCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* * **
67990078 TTCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAA
* * * * *
67990133 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATATAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
*
67990187 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTT
67990222 ATCTTAGTTC
Statistics
Matches: 280, Mismatches: 55, Indels: 35
0.76 0.15 0.09
Matches are distributed among these distances:
46 7 0.03
47 22 0.08
48 4 0.01
49 3 0.01
52 8 0.03
53 60 0.21
54 90 0.32
55 82 0.29
56 4 0.01
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:67990084 original size:100 final size:104
Alignment explanation
Indices: 67989828--67990223 Score: 374
Period size: 109 Copynumber: 3.8 Consensus size: 104
67989818 CCATGTCTTG
* *
67989828 ACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATTCCATGCCTTGGCATGGTCTTAC
* ***
67989893 ATGGGACCTTTGCCTTATAATAACTCATCAATGCCATGTCTTG
66 AT--GA-CTATGCCTTATAATAACTCA-CAATGCCATGTCCAA
* * * * * *
67989936 ACATGGTCTTACACGATTTCCTTGCCTTATAGAACTTATCTATTCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATTCCATGCCTTGGCATGGTCTTA
* *
67990001 CATGA-TAT-CCTTAT-CTTAC-CA-AATGCCATGTTCCAA
65 CATGACTATGCCTTATAATAACTCACAATGCCATG-TCCAA
* * **
67990037 ACATGGTCTTACATGGTATCATTGTCTTATGATGTCACCAATTCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATTCCATGCCTTGGCATGGTCTTAC
* * ***
67990102 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTG
66 AT--GA-CTATGCCTTATAATAACTCA-CAATGCCATGTCCAA
* * * * * * *
67990145 ACATGGTCTTACATGATTTCCTTACCTTATATAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATTCCATGCCTTGGCATGGTCTTA
67990210 CATGA-TAT-CCTTAT
65 CATGACTATGCCTTAT
67990224 CTTAGTTCCA
Statistics
Matches: 234, Mismatches: 42, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
100 41 0.18
101 27 0.12
102 4 0.02
103 3 0.01
104 14 0.06
105 10 0.04
106 3 0.01
107 6 0.03
108 53 0.23
109 73 0.31
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (104 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATTCCATGCCTTGGCATGGTCTTAC
ATGACTATGCCTTATAATAACTCACAATGCCATGTCCAA
Found at i:67990195 original size:209 final size:209
Alignment explanation
Indices: 67989828--67990227 Score: 692
Period size: 209 Copynumber: 1.9 Consensus size: 209
67989818 CCATGTCTTG
* *
67989828 ACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCATTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
67989893 ATGGGACCTTTGCCTTATAATAACTCATCAATGCCATGTCTTGACATGGTCTTACACGATTTCCT
66 ATGGGACCTTTGCCTTATAATAACTCATCAATGCCATGTCTTGACATGGTCTTACACGATTTCCT
* * *
67989958 TGCCTTATAGAACTTATCTATTCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
131 TACCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
67990023 ATGCCATGTTCCAA
196 ATGCCATGTTCCAA
* ** *
67990037 ACATGGTCTTACATGGTATCATTGTCTTATGATGTCACCAATTCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCATTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
* *
67990102 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCT
66 ATGGGACCTTTGCCTTATAATAACTCATCAATGCCATGTCTTGACATGGTCTTACACGATTTCCT
*
67990167 TACCTTATATAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTA
131 TACCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTA
67990228 GTTCCAATGC
Statistics
Matches: 179, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
209 179 1.00
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (209 bp):
ACATGGTCTTACATGGTATCATTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
ATGGGACCTTTGCCTTATAATAACTCATCAATGCCATGTCTTGACATGGTCTTACACGATTTCCT
TACCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
ATGCCATGTTCCAA
Found at i:67995746 original size:47 final size:47
Alignment explanation
Indices: 67995674--67996160 Score: 776
Period size: 47 Copynumber: 10.3 Consensus size: 47
67995664 CCCTTCGGGA
* * * * *
67995674 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
67995721 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
67995768 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
67995815 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
67995864 CTTATCACATATATGCACTTTCACATTCATCACATTGCCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
67995911 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
67995958 CTTATCACATATATGCACTTTCACATTCATCACATGGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
67996005 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
67996052 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
67996099 CTTATCACATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
67996146 CTTATCACATATATA
1 CTTATCACATATATA
67996161 TATCCCACAC
Statistics
Matches: 406, Mismatches: 32, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 361 0.89
49 45 0.11
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:67995752 original size:25 final size:25
Alignment explanation
Indices: 67995724--67995802 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
67995714 ACTCGGCCCT
*
67995724 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
67995749 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
67995771 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
67995796 ATCACAT
1 ATCACAT
67995803 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:67996061 original size:22 final size:22
Alignment explanation
Indices: 67996033--67996155 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
67996023 TTTCACATTC
67996033 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
67996055 ATCACATATATACATTTTC-ACATT
1 ATCACAT-TGGCCA--TTCGGCCTT
* *
67996079 CATCACATCGGCCATTAGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
67996102 ATCACATATATGCACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
67996126 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
67996149 ATCACAT
1 ATCACAT
67996156 ATATATATCC
Statistics
Matches: 69, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 27 0.39
23 11 0.16
24 11 0.16
25 20 0.29
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:67996083 original size:25 final size:24
Alignment explanation
Indices: 67996008--67996086 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 24
67995998 ATTCGGCCTT
67996008 ATCACATATATACACTTTCACATTC
1 ATCACATATATACA-TTTCACATTC
*** * *
67996033 ATCACAT-TGGCCA-TTCGGCCTT-
1 ATCACATATATACATTTC-ACATTC
67996055 ATCACATATATACATTTTCACATTC
1 ATCACATATATACA-TTTCACATTC
67996080 ATCACAT
1 ATCACAT
67996087 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 10 0.26
23 6 0.15
24 6 0.15
25 17 0.44
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (24 bp):
ATCACATATATACATTTCACATTC
Found at i:67999346 original size:20 final size:20
Alignment explanation
Indices: 67999321--67999359 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
67999311 TATTATGACT
67999321 TAGAAATACTTGAATTTATG
1 TAGAAATACTTGAATTTATG
67999341 TAGAAATACTTGAATTTAT
1 TAGAAATACTTGAATTTAT
67999360 TACAATAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (20 bp):
TAGAAATACTTGAATTTATG
Found at i:68002299 original size:29 final size:28
Alignment explanation
Indices: 68002267--68002321 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
68002257 GCGAGATAAA
68002267 CTGATTTGGCTTT-GAGCCATGCATATCCG
1 CTGATTTGGCTTTAG-GCCATG-ATATCCG
68002296 CTGATTTGGCTTTAGGCCATGATATC
1 CTGATTTGGCTTTAGGCCATGATATC
68002322 AGAATTTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 5 0.20
29 19 0.76
30 1 0.04
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (28 bp):
CTGATTTGGCTTTAGGCCATGATATCCG
Done.