Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 145 of 253
Found at i:46456888 original size:21 final size:21
Alignment explanation
Indices: 46456864--46456904 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
46456854 ATTCAACCGT
*
46456864 GTACAACAATACATGGGCGTG
1 GTACAACAACACATGGGCGTG
* *
46456885 GTACCATAACACATGGGCGT
1 GTACAACAACACATGGGCGT
46456905 AGGAGAAGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
GTACAACAACACATGGGCGTG
Found at i:46458840 original size:6 final size:6
Alignment explanation
Indices: 46458829--46458910 Score: 69
Period size: 6 Copynumber: 13.7 Consensus size: 6
46458819 AATCCTCCTA
* * *
46458829 TTTTAT TTTTAT TGTTA- -TTTAT TCTTAT TTTTAT TTTTAT TTTATTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT
* ** *
46458876 ATTTTAT TCTTAT TTTCCT TTTGAT TTTTAT TTTT
1 -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
46458911 CAATTTTCTT
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
4 3 0.05
6 49 0.83
7 4 0.07
8 3 0.05
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:46458851 original size:10 final size:9
Alignment explanation
Indices: 46458836--46458883 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
46458826 CTATTTTATT
46458836 TTTATTGTTA
1 TTTATT-TTA
46458846 TTTATTCTTA
1 TTTATT-TTA
46458856 TTT-TTATT-
1 TTTATT-TTA
46458864 TTTATTTTA
1 TTTATTTTA
46458873 TTTATTTTA
1 TTTATTTTA
46458882 TT
1 TT
46458884 CTTATTTTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 5 0.15
9 17 0.50
10 12 0.35
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:46458851 original size:16 final size:15
Alignment explanation
Indices: 46458830--46458890 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 15
46458820 ATCCTCCTAT
46458830 TTTATTTTTATTGTTA
1 TTTATTTTTATT-TTA
*
46458846 TTTATTCTTA--TT-
1 TTTATTTTTATTTTA
46458858 TTTATTTTTATTTTA
1 TTTATTTTTATTTTA
46458873 TTTA-TTTTATTCTTA
1 TTTATTTTTATT-TTA
46458888 TTT
1 TTT
46458891 TCCTTTTGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
12 9 0.23
13 2 0.05
14 9 0.23
15 10 0.26
16 9 0.23
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTATTTTTATTTTA
Found at i:46458857 original size:27 final size:25
Alignment explanation
Indices: 46458827--46458891 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 25
46458817 TGAATCCTCC
46458827 TATTTTATTTTTATTGTTATTTATTCT
1 TATTTTATTTTTATT-TTATTTATT-T
46458854 TATTTTTATTTTTATTTTATTTATTT
1 TA-TTTTATTTTTATTTTATTTATTT
46458880 TATTCTTATTTT
1 TATT-TTATTTT
46458892 CCTTTTGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
25 2 0.06
26 10 0.28
27 11 0.31
28 13 0.36
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (25 bp):
TATTTTATTTTTATTTTATTTATTT
Found at i:46458887 original size:32 final size:34
Alignment explanation
Indices: 46458829--46458925 Score: 103
Period size: 32 Copynumber: 2.9 Consensus size: 34
46458819 AATCCTCCTA
46458829 TTTTATTTTTATTGTTATTTATTCTTATTTTTAT
1 TTTTATTTTTATTGTTATTTATTCTTATTTTTAT
**
46458863 TTTTA-TTTTA-T-TTATTTTATTCTTATTTTCCT
1 TTTTATTTTTATTGTTA-TTTATTCTTATTTTTAT
* * *
46458895 TTTGATTTTTATTTTTCAATT-TTCTTATTTT
1 TTTTATTTTTATTGTT-ATTTATTCTTATTTT
46458926 GAAAGACATA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
31 3 0.06
32 20 0.37
33 10 0.19
34 16 0.30
35 4 0.07
36 1 0.02
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.75
Consensus pattern (34 bp):
TTTTATTTTTATTGTTATTTATTCTTATTTTTAT
Found at i:46459926 original size:12 final size:12
Alignment explanation
Indices: 46459909--46459935 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46459899 AATCCTCTTA
46459909 CTTAATTTGACC
1 CTTAATTTGACC
46459921 CTTAATTTGACC
1 CTTAATTTGACC
46459933 CTT
1 CTT
46459936 TTTATCAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.26, G:0.07, T:0.44
Consensus pattern (12 bp):
CTTAATTTGACC
Found at i:46461293 original size:14 final size:14
Alignment explanation
Indices: 46461276--46461306 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
46461266 ATAAGTAAAT
46461276 TAAATATTATATTA
1 TAAATATTATATTA
*
46461290 TAAATGTTATATTA
1 TAAATATTATATTA
46461304 TAA
1 TAA
46461307 TATAAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
TAAATATTATATTA
Found at i:46471431 original size:42 final size:42
Alignment explanation
Indices: 46471374--46471483 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
46471364 ACCGAGGCTA
* * **
46471374 TGTGAAAGACGATAGCTGGGATATGAAATCGATATGAGATTT
1 TGTGTAAGACCATAGCTGGGATATGAAATCGATATGAGATCC
* **
46471416 TGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCC
1 TGTGTAAGACCATAGCTGGGATA-TGAAATCGATATGAGATCC
** *
46471459 CATGTAAGACCATAACTGGGATATG
1 TGTGTAAGACCATAGCTGGGATATG
46471484 GCATTGGTGT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 22 0.39
43 34 0.61
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (42 bp):
TGTGTAAGACCATAGCTGGGATATGAAATCGATATGAGATCC
Found at i:46478111 original size:42 final size:41
Alignment explanation
Indices: 46478052--46478183 Score: 149
Period size: 42 Copynumber: 3.1 Consensus size: 41
46478042 ACATTAGGGT
*
46478052 ATATGGCATC-ATTATGAGACTTCATGTAAGACCATATCTTGG
1 ATATGGCATCGA-TATGAGA-TTCATGTAAGACCATATCTAGG
* * *
46478094 ATATGGCATCGATATGAGATTTCGTGTAAGACCATAGCTGGG
1 ATATGGCATCGATATGAGA-TTCATGTAAGACCATATCTAGG
* * *
46478136 CTATTGGCATCGATACGAGATCCCATGTAAGACCATATCTAGG
1 ATA-TGGCATCGATATGAGAT-TCATGTAAGACCATATCTAGG
46478179 ATATG
1 ATATG
46478184 ACATTGTTGT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 41 0.54
43 35 0.46
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (41 bp):
ATATGGCATCGATATGAGATTCATGTAAGACCATATCTAGG
Found at i:46479982 original size:42 final size:42
Alignment explanation
Indices: 46479935--46480031 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
46479925 CCGAGGCTAT
*
46479935 GTGTAAGACCATATCTGGGATATGACATC-ATTATGAGATTTC
1 GTGTAAGACCATATCCGGGATATGACATCGA-TATGAGATTTC
* *
46479977 GTGTAAGACCATATCCGGGATATGGCATCGATATGAGATTTT
1 GTGTAAGACCATATCCGGGATATGACATCGATATGAGATTTC
46480019 GTGTAAGACCATA
1 GTGTAAGACCATA
46480032 GATGGGCTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
42 50 0.98
43 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATATCCGGGATATGACATCGATATGAGATTTC
Found at i:46484434 original size:48 final size:48
Alignment explanation
Indices: 46484322--46484642 Score: 227
Period size: 48 Copynumber: 6.7 Consensus size: 48
46484312 GATATGTATA
* ** * *
46484322 CCAGTGTAAGACCATGAT-TGGGATATGGCATCGGCCACGATATGAGGG
1 CCAGTGTAAGACCATG-TCTGGGACATGGCATCGGTAATGATATGAGAG
* * *
46484370 CCAGTGTAAGACCATGTTTGGAACATGACATCGGTAATG-TAATGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAATGAT-ATGAGAG
** * * * *
46484418 CCAGTGTAAGACCATGTCTGTTACATGGCATCGGTATTGATTTGTGCG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAATGATATGAGAG
* **** *
46484466 CTAGTGTAAGACCATGTCTGGGACATGGCATCAACCAT-ATTATAAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAATGA-TATGAGAG
* * * * * * * *
46484514 CTAGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGACGAAAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAATGATATGAGAG
* * * * ** * *
46484562 CTAGTGTAAGACCATGCCAGGGACATGGCATTGG-CCTCGACATGTGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAAT-GATATGAGAG
* * *
46484610 CCAGTATAAGACCATGTTTGGAACATGGCATCG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
46484643 AAAATTCACC
Statistics
Matches: 214, Mismatches: 53, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
47 4 0.02
48 208 0.97
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAATGATATGAGAG
Found at i:46488451 original size:46 final size:46
Alignment explanation
Indices: 46488401--46488576 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
46488391 TGGTTGAGCA
46488401 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
46488447 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
46488492 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
46488540 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46488577 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46488535 original size:93 final size:93
Alignment explanation
Indices: 46488398--46488569 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
46488388 GGATGGTTGA
* *
46488398 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46488463 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
*
46488491 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
46488556 TGAGTCCGAGTTCG
66 TGAGTCCAAGTTCG
46488570 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:46490930 original size:22 final size:22
Alignment explanation
Indices: 46490874--46490930 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
46490864 TACAGGGGTC
*
46490874 ACACGCCCGGGTGGTCCAAGGG
1 ACACGCCCGTGTGGTCCAAGGG
* *
46490896 ACGCGCCCATGTGGTCCAAGGG
1 ACACGCCCGTGTGGTCCAAGGG
46490918 ACACGCCCGTGTG
1 ACACGCCCGTGTG
46490931 ACCTTGGGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.18, C:0.33, G:0.37, T:0.12
Consensus pattern (22 bp):
ACACGCCCGTGTGGTCCAAGGG
Found at i:46492218 original size:48 final size:46
Alignment explanation
Indices: 46492100--46492220 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 46
46492090 TGATGTGTGT
*
46492100 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACCGTAAGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACCGTAACAGA
*
46492146 TCTAGTGTAAGACATGTCTGGGACATGCATC-GTCTTCA-CGATATACA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-C--CACCG-TA-ACAGA
*
46492194 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
46492221 GCGTTGGCTT
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
45 1 0.02
46 31 0.47
47 2 0.03
48 30 0.45
49 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACCGTAACAGA
Found at i:46499036 original size:16 final size:17
Alignment explanation
Indices: 46499012--46499046 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
46499002 TCCTACTGCT
*
46499012 AGCAGTTAAAAAT-CAA
1 AGCAATTAAAAATCCAA
46499028 AGCAATTAAAAATCCAA
1 AGCAATTAAAAATCCAA
46499045 AG
1 AG
46499047 ATAAAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.57, C:0.14, G:0.11, T:0.17
Consensus pattern (17 bp):
AGCAATTAAAAATCCAA
Found at i:46499054 original size:13 final size:13
Alignment explanation
Indices: 46499036--46499060 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46499026 AAAGCAATTA
46499036 AAAATCCAAAGAT
1 AAAATCCAAAGAT
46499049 AAAATCCAAAGA
1 AAAATCCAAAGA
46499061 GGCCTTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.08, T:0.12
Consensus pattern (13 bp):
AAAATCCAAAGAT
Found at i:46499779 original size:27 final size:27
Alignment explanation
Indices: 46499723--46499784 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
46499713 TATACATCAC
*
46499723 ATAAGGGCAAAACAGTCATCTTACTAT
1 ATAAGGGCAAAACAGTCATCTTACCAT
* * *
46499750 ATAAGGGCAAAATAGTCATTTTACCCT
1 ATAAGGGCAAAACAGTCATCTTACCAT
46499777 ATATAGGG
1 ATA-AGGG
46499785 GGTCTTGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (27 bp):
ATAAGGGCAAAACAGTCATCTTACCAT
Found at i:46504595 original size:55 final size:55
Alignment explanation
Indices: 46504488--46504604 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 55
46504478 TATGTAGGCC
* ** * *
46504488 CACGCCCATGTTAATTTAACAGGTTCAGCCACGGTTTCTTGGCACGGGCGTGTTG
1 CACGCCCATGTTAATTTAACAGGTTCAGCCACGGGTTCAAGGCACGGACGTGTCG
* * *
46504543 CATGCCCATGTTAATTTGACAGGTTCAGCCACGGGTTCAAGGCACGTACGTGTCG
1 CACGCCCATGTTAATTTAACAGGTTCAGCCACGGGTTCAAGGCACGGACGTGTCG
46504598 CACGCCC
1 CACGCCC
46504605 GTGCTATTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (55 bp):
CACGCCCATGTTAATTTAACAGGTTCAGCCACGGGTTCAAGGCACGGACGTGTCG
Found at i:46514471 original size:16 final size:17
Alignment explanation
Indices: 46514447--46514481 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
46514437 TCCTACTGCT
*
46514447 AGCAGTTAAAAAT-CAA
1 AGCAATTAAAAATCCAA
46514463 AGCAATTAAAAATCCAA
1 AGCAATTAAAAATCCAA
46514480 AG
1 AG
46514482 ATAAAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.57, C:0.14, G:0.11, T:0.17
Consensus pattern (17 bp):
AGCAATTAAAAATCCAA
Found at i:46514489 original size:13 final size:13
Alignment explanation
Indices: 46514471--46514495 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46514461 AAAGCAATTA
46514471 AAAATCCAAAGAT
1 AAAATCCAAAGAT
46514484 AAAATCCAAAGA
1 AAAATCCAAAGA
46514496 GGCCTTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.08, T:0.12
Consensus pattern (13 bp):
AAAATCCAAAGAT
Found at i:46515214 original size:27 final size:27
Alignment explanation
Indices: 46515158--46515219 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
46515148 TATACATCAC
*
46515158 ATAAGGGCAAAACAGTCATCTTACTAT
1 ATAAGGGCAAAACAGTCATCTTACCAT
* * *
46515185 ATAAGGGCAAAATAGTCATTTTACCCT
1 ATAAGGGCAAAACAGTCATCTTACCAT
46515212 ATATAGGG
1 ATA-AGGG
46515220 GGTCTTGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (27 bp):
ATAAGGGCAAAACAGTCATCTTACCAT
Found at i:46520028 original size:55 final size:55
Alignment explanation
Indices: 46519921--46520037 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 55
46519911 TATGTAGGCC
* ** * *
46519921 CACGCCCATGTTAATTTAACAGGTTCAGCCACGGTTTCTTGGCACGGGCGTGTTG
1 CACGCCCATGTTAATTTAACAGGTTCAGCCACGGGTTCAAGGCACGGACGTGTCG
* * *
46519976 CATGCCCATGTTAATTTGACAGGTTCAGCCACGGGTTCAAGGCACGTACGTGTCG
1 CACGCCCATGTTAATTTAACAGGTTCAGCCACGGGTTCAAGGCACGGACGTGTCG
46520031 CACGCCC
1 CACGCCC
46520038 GTGCTATTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (55 bp):
CACGCCCATGTTAATTTAACAGGTTCAGCCACGGGTTCAAGGCACGGACGTGTCG
Found at i:46531617 original size:42 final size:42
Alignment explanation
Indices: 46531571--46531676 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
46531561 AGATTTCGTG
* * *
46531571 TAAGACCATGTCTAGGACATGGCGTCGAAATGAGAAT-TCATA
1 TAAGACCATGTCTGGGACATGGCATCGAAATGA-AATCGCATA
* * ** *
46531613 TAAGACCATATCTGGGATATGGCATCGATGTGAAATCGCATG
1 TAAGACCATGTCTGGGACATGGCATCGAAATGAAATCGCATA
46531655 TAAGACCATGTCTGGGACATGG
1 TAAGACCATGTCTGGGACATGG
46531677 ATTGGCATCT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 3 0.06
42 50 0.94
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATGGCATCGAAATGAAATCGCATA
Found at i:46536126 original size:20 final size:20
Alignment explanation
Indices: 46536103--46536210 Score: 65
Period size: 20 Copynumber: 5.3 Consensus size: 20
46536093 AGGTGCTATT
46536103 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
* * *
46536123 CAGGGGCA-CATATGTACAATT
1 CAGGGGTACCA-AAGTACAA-A
* * * *
46536144 TAAGGGTATCGAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
** * * *
46536164 CAGGGGTACGTATGTGCAATT
1 CAGGGGTACCAAAGTACAA-A
*
46536185 TAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
46536205 CAGGGG
1 CAGGGG
46536211 CACGTATATG
Statistics
Matches: 60, Mismatches: 24, Indels: 8
0.65 0.26 0.09
Matches are distributed among these distances:
19 2 0.03
20 31 0.52
21 26 0.43
22 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.19
Consensus pattern (20 bp):
CAGGGGTACCAAAGTACAAA
Found at i:46536151 original size:41 final size:41
Alignment explanation
Indices: 46536081--46536476 Score: 418
Period size: 41 Copynumber: 9.7 Consensus size: 41
46536071 TCGGAGTGTT
* * * *
46536081 AACA-GGGCACGTAGGTGCTATTCAGGGGTACCAAAGTACA
1 AACAGGGGCACGTATGTGCAATTTAGGGGTACCGAAGTACA
* * * *
46536121 AACAGGGGCACATATGTACAATTTAAGGGTATCGAAGTACA
1 AACAGGGGCACGTATGTGCAATTTAGGGGTACCGAAGTACA
* *
46536162 AACAGGGGTACGTATGTGCAATTTAGGGGTACCAAAGTACA
1 AACAGGGGCACGTATGTGCAATTTAGGGGTACCGAAGTACA
* * *
46536203 AACAGGGGCACGTATATGCAATTTAGGGGTACCGAATTATA
1 AACAGGGGCACGTATGTGCAATTTAGGGGTACCGAAGTACA
* * * *
46536244 AATAGGGGTACGTATGTGCCATCTAGGGGTACCGAAGTACA
1 AACAGGGGCACGTATGTGCAATTTAGGGGTACCGAAGTACA
* * * *
46536285 AACAGGGGCATGTATGTGTAATTCAGGGGTACCGAAGTGCA
1 AACAGGGGCACGTATGTGCAATTTAGGGGTACCGAAGTACA
* * * * * * *
46536326 AACAGGGGAACATATGTGAAATTCA-AGGTATCGAAGTATA
1 AACAGGGGCACGTATGTGCAATTTAGGGGTACCGAAGTACA
* * * *
46536366 AACAAGGGCACGTATGTGTAATTCAAGGGTACCGAAGTACA
1 AACAGGGGCACGTATGTGCAATTTAGGGGTACCGAAGTACA
* * *
46536407 AATAGGGGCACGTATGTGCAATTTTGGAGGTACTGAAGTACA
1 AACAGGGGCACGTATGTGCAATTTAGG-GGTACCGAAGTACA
* * * *
46536449 AACAAGGCCATGTATGTGTAATTTAGGG
1 AACAGGGGCACGTATGTGCAATTTAGGG
46536477 AATAATTAAG
Statistics
Matches: 291, Mismatches: 62, Indels: 5
0.81 0.17 0.01
Matches are distributed among these distances:
40 36 0.12
41 221 0.76
42 34 0.12
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (41 bp):
AACAGGGGCACGTATGTGCAATTTAGGGGTACCGAAGTACA
Found at i:46536189 original size:21 final size:21
Alignment explanation
Indices: 46536165--46536275 Score: 66
Period size: 21 Copynumber: 5.4 Consensus size: 21
46536155 AAGTACAAAC
*
46536165 AGGGGTACGTATGTGCAATTT
1 AGGGGTACGTATGTGCAATAT
** * * *
46536186 AGGGGTACCAAAGTACAA-AC
1 AGGGGTACGTATGTGCAATAT
* * *
46536206 AGGGGCACGTATATGCAATTT
1 AGGGGTACGTATGTGCAATAT
* **
46536227 AGGGGTACCGAAT-TATAA-AT
1 AGGGGTA-CGTATGTGCAATAT
* *
46536247 AGGGGTACGTATGTGCCATCT
1 AGGGGTACGTATGTGCAATAT
46536268 AGGGGTAC
1 AGGGGTAC
46536276 CGAAGTACAA
Statistics
Matches: 62, Mismatches: 24, Indels: 8
0.66 0.26 0.09
Matches are distributed among these distances:
19 4 0.06
20 22 0.35
21 32 0.52
22 4 0.06
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (21 bp):
AGGGGTACGTATGTGCAATAT
Found at i:46536333 original size:20 final size:20
Alignment explanation
Indices: 46536268--46536333 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
46536258 TGTGCCATCT
*
46536268 AGGGGTACCGAAGTACAAAC
1 AGGGGTACCGAAGTGCAAAC
* * * * *
46536288 AGGGGCA-TGTATGTGTAATTC
1 AGGGGTACCG-AAGTGCAA-AC
46536309 AGGGGTACCGAAGTGCAAAC
1 AGGGGTACCGAAGTGCAAAC
46536329 AGGGG
1 AGGGG
46536334 AACATATGTG
Statistics
Matches: 32, Mismatches: 11, Indels: 6
0.65 0.22 0.12
Matches are distributed among these distances:
19 1 0.03
20 17 0.53
21 13 0.41
22 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.36, T:0.17
Consensus pattern (20 bp):
AGGGGTACCGAAGTGCAAAC
Found at i:46537476 original size:14 final size:15
Alignment explanation
Indices: 46537457--46537486 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46537447 TCCACTATAT
46537457 TATTAA-AAATAACA
1 TATTAATAAATAACA
46537471 TATTAATAAATAACA
1 TATTAATAAATAACA
46537486 T
1 T
46537487 GAAAATGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
TATTAATAAATAACA
Found at i:46540696 original size:42 final size:41
Alignment explanation
Indices: 46540649--46540761 Score: 111
Period size: 43 Copynumber: 2.7 Consensus size: 41
46540639 TACCATACCT
***
46540649 ATGCCACATCCCAGATATGGTCTTACA-TGGGATCTCATATCG
1 ATGCCA-ATCCCAGATATGGTCTTACACAAAG-TCTCATATCG
* * *
46540691 ATGCCAATAGCCCAGCTATGATCTTACACAAAGTCTCGTATCG
1 ATGCCAAT--CCCAGATATGGTCTTACACAAAGTCTCATATCG
*
46540734 ATTCCATATCCCAGATATGGTCTTACAC
1 ATGCCA-ATCCCAGATATGGTCTTACAC
46540762 GTAATCTCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.03
42 23 0.40
43 30 0.52
44 3 0.05
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (41 bp):
ATGCCAATCCCAGATATGGTCTTACACAAAGTCTCATATCG
Found at i:46540733 original size:43 final size:42
Alignment explanation
Indices: 46540681--46540761 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
46540671 TTACATGGGA
*
46540681 TCTCATATCGATGCCAATAGCCCAGCTATGATCTTACACAAAG
1 TCTCATATCGATGCC-ATAGCCCAGATATGATCTTACACAAAG
* * * *
46540724 TCTCGTATCGATTCCATATCCCAGATATGGTCTTACAC
1 TCTCATATCGATGCCATAGCCCAGATATGATCTTACAC
46540762 GTAATCTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 20 0.61
43 13 0.39
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (42 bp):
TCTCATATCGATGCCATAGCCCAGATATGATCTTACACAAAG
Found at i:46546159 original size:40 final size:40
Alignment explanation
Indices: 46546099--46546242 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
46546089 TATTCGAATG
*
46546099 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCTTTTATGCTAGTGACT
* * * * *
46546139 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCTTTTATGCTAG-TGACT
*
46546179 ATATCCGGGCTAAGACCCGAAGG-TATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCT-TTTATGCTAGTGACT
*
46546219 ATATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
46546243 CTTGTGCGAG
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
39 2 0.02
40 83 0.95
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTTATGCTAGTGACT
Found at i:46546232 original size:80 final size:79
Alignment explanation
Indices: 46546099--46546278 Score: 240
Period size: 80 Copynumber: 2.3 Consensus size: 79
46546089 TATTCGAATG
* * * *
46546099 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCTTTTATGCTAGTGACCATATCCGGACTAAGACCCAAAGGC-
* *
46546164 TTTGTGCGAGTTGCT
65 CTTGTGCGAGTGGCT
*
46546179 ATATCCGGGCTAAGACCCGAAGG-TATTTATGCTAGTGACCATATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCT-TTTATGCTAGTGACCATATCCGGACTAAGACCCAAAGGC
*
46546243 CTTGTGCGAGTGGTT
65 CTTGTGCGAGTGGCT
46546258 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
46546279 ATACTTTGGG
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
77 1 0.01
78 13 0.14
79 19 0.21
80 57 0.63
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTTATGCTAGTGACCATATCCGGACTAAGACCCAAAGGCC
TTGTGCGAGTGGCT
Found at i:46548547 original size:40 final size:40
Alignment explanation
Indices: 46548488--46548679 Score: 296
Period size: 40 Copynumber: 4.8 Consensus size: 40
46548478 CATTTGAATG
* * *
46548488 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
46548528 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
46548568 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
46548608 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
46548648 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
46548680 TTGTGGTTAT
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 139 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:46556202 original size:19 final size:19
Alignment explanation
Indices: 46556178--46556216 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
46556168 CTAATGTCTA
46556178 ATGTATATATGGGCTAAGT
1 ATGTATATATGGGCTAAGT
46556197 ATGTATATATGGGCTAAGT
1 ATGTATATATGGGCTAAGT
46556216 A
1 A
46556217 CCTTGAGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (19 bp):
ATGTATATATGGGCTAAGT
Found at i:46556936 original size:119 final size:120
Alignment explanation
Indices: 46556723--46556953 Score: 315
Period size: 119 Copynumber: 1.9 Consensus size: 120
46556713 CATTTGAATG
* * * *
46556723 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
* * * * *
46556788 TTTATGCTAGTGATTTTATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGAT
66 TTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
*
46556842 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
* *
46556906 ATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
65 ATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGCAATTGTGC
46556954 TTGTGGTTAT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
119 77 0.79
120 20 0.21
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
Found at i:46556952 original size:40 final size:40
Alignment explanation
Indices: 46556723--46556953 Score: 315
Period size: 40 Copynumber: 5.8 Consensus size: 40
46556713 CATTTGAATG
* * *
46556723 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * * *
46556763 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
46556803 TTATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
46556842 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
46556882 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
46556922 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
46556954 TTGTGGTTAT
Statistics
Matches: 180, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 32 0.18
40 148 0.82
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:46556981 original size:119 final size:119
Alignment explanation
Indices: 46556723--46556982 Score: 303
Period size: 119 Copynumber: 2.2 Consensus size: 119
46556713 CATTTGAATG
* * * *
46556723 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAATCCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
* * * * * *
46556788 TTTATGCTAGTGATTTTATCCGGGCTAAGACCGAAGGCATTTGTGCGAGTTGAT
66 TTTATGCGAGTGACTATACCCGGGCTAAGACCGAAGGCAATTGTGCGAGTGGAT
*
46556842 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAA-ATCCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGG
* * ** *
46556905 CATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
64 CATTTATGCGAG-TGACTATACCCGGGCTAAGA-CCGAAGGCAATTGTGCGAGTGGAT
*
46556962 ATATCC-GGCTAAATTCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
46556983 AAACTTGGGT
Statistics
Matches: 119, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
118 1 0.01
119 88 0.74
120 30 0.25
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (119 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTATGCGAGTGACTATACCCGGGCTAAGACCGAAGGCAATTGTGCGAGTGGAT
Found at i:46564924 original size:119 final size:119
Alignment explanation
Indices: 46564729--46564943 Score: 315
Period size: 119 Copynumber: 1.8 Consensus size: 119
46564719 GGTTCTTCAG
* * * * *
46564729 TTTGTGCCCAATACCACAATCCCCGCACTTGACTCTTCATCGCTCTCTTCATTTCCTTCTCTAGC
1 TTTGTGCCCAATACCACAATCCCCACACTTGACTCTCCATCACTCTCTTCATTCCCTCCTCTAGC
*
46564794 CATGCTCAGTCTTCTAGTTGAGTTCGCCAATAGGATGAAATTTCTATTCCTTAT
66 CATCCTCAGTCTTCTAGTTGAGTTCGCCAATAGGATGAAATTTCTATTCCTTAT
* *
46564848 TTTGTGCCCAATACCACACTCCCCACGCTTGAC-CATCCATCACTCTCTTCATTCCCTCCTCTAG
1 TTTGTGCCCAATACCACAATCCCCACACTTGACTC-TCCATCACTCTCTTCATTCCCTCCTCTAG
* * *
46564912 CCATCCTTAGTCTTTTGGTTGAGTTCGCCAAT
65 CCATCCTCAGTCTTCTAGTTGAGTTCGCCAAT
46564944 GTTGCTAACC
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
118 1 0.01
119 83 0.99
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.35
Consensus pattern (119 bp):
TTTGTGCCCAATACCACAATCCCCACACTTGACTCTCCATCACTCTCTTCATTCCCTCCTCTAGC
CATCCTCAGTCTTCTAGTTGAGTTCGCCAATAGGATGAAATTTCTATTCCTTAT
Found at i:46567562 original size:27 final size:27
Alignment explanation
Indices: 46567522--46567580 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
46567512 AACATATCAA
*
46567522 GAAAGAAAAGCCTTTGTAGTGAAATAT
1 GAAAGAAAAGCCTTTGTAGCGAAATAT
*
46567549 GAAAGAAGAA-CCTTTGTAGCGTAATAT
1 GAAAGAA-AAGCCTTTGTAGCGAAATAT
46567576 GAAAG
1 GAAAG
46567581 GAACGTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTAGCGAAATAT
Found at i:46573184 original size:42 final size:43
Alignment explanation
Indices: 46573081--46573232 Score: 125
Period size: 43 Copynumber: 3.5 Consensus size: 43
46573071 ATATGTGTTA
* **
46573081 TCGTGTAAGACCACGTCTAGGA-TGTTGGCATCGACT-TAT-GATT
1 TCGTGTAAGACCATGTCTAGGACAATT-GCATCGA-TAT-TGGATT
*
46573124 TACGTGTAAGACCATGTCTAGGAC-ATTGATATC-ATATTGGATT
1 T-CGTGTAAGACCATGTCTAGGACAATTG-CATCGATATTGGATT
* * *
46573167 TCGTGTAAGACCCTGTCTGGGACAATTGCATCGATATTTGATT
1 TCGTGTAAGACCATGTCTAGGACAATTGCATCGATATTGGATT
* * * *
46573210 ACATGTAAGACCACGTCTGGGAC
1 TCGTGTAAGACCATGTCTAGGAC
46573233 GTTGGCATTG
Statistics
Matches: 91, Mismatches: 11, Indels: 14
0.78 0.09 0.12
Matches are distributed among these distances:
42 25 0.27
43 41 0.45
44 25 0.27
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTAGGACAATTGCATCGATATTGGATT
Found at i:46575101 original size:6 final size:6
Alignment explanation
Indices: 46575090--46575181 Score: 184
Period size: 6 Copynumber: 15.3 Consensus size: 6
46575080 TTGAATGTTA
46575090 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46575138 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TA
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TA
46575182 AGTTTCAGTG
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 86 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
TATGTG
Found at i:46583718 original size:48 final size:46
Alignment explanation
Indices: 46583602--46583815 Score: 211
Period size: 48 Copynumber: 4.6 Consensus size: 46
46583592 TGATATGTGT
* * *
46583602 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGCATGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG-AT-ATAA
* * * * *
46583648 GCCAGTGTATGGCATGTTTGGGACATGCATTGGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATA--TAA
** * *
46583696 GCTAGTGTAAGACATGTCTGGGACATGCAT-GGTATTGAGATGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT-ATAA
*
46583741 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT--AA
*
46583789 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
46583816 GCGTCAGCAT
Statistics
Matches: 137, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
45 33 0.24
46 39 0.28
47 10 0.07
48 55 0.40
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAA
Found at i:46583776 original size:93 final size:93
Alignment explanation
Indices: 46583602--46583815 Score: 279
Period size: 93 Copynumber: 2.3 Consensus size: 93
46583592 TGATATGTGT
* * *
46583602 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCCAGTGTATGGCATGTTT
1 GCTAGTGTAAGACATGTCTGGGACATGCAT-AGCCACAGCATGAGAGCCAGTGTAAGACATGTCT
* **
46583667 GGGACATGCATTGGCCTCGAGATATTTAA
65 GGGACATGCATCGGCCTCGAGATATACAA
** * *
46583696 GCTAGTGTAAGACATGTCTGGGACATGCAT-GGTATTGAG-ATGAGAGCTAGTGTAAGACATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATAGCCA--CAGCATGAGAGCCAGTGTAAGACATGTC
*
46583759 TGGGACATGCATCGGCCTCGTGATATACAA
64 TGGGACATGCATCGGCCTCGAGATATACAA
*
46583789 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
46583816 GCGTCAGCAT
Statistics
Matches: 106, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
92 2 0.02
93 72 0.68
94 32 0.30
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATAGCCACAGCATGAGAGCCAGTGTAAGACATGTCTG
GGACATGCATCGGCCTCGAGATATACAA
Found at i:46583895 original size:49 final size:49
Alignment explanation
Indices: 46583733--46583960 Score: 186
Period size: 49 Copynumber: 4.8 Consensus size: 49
46583723 CATGGTATTG
* * **
46583733 AGATGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG-T
1 AGATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGAT
* * * * * *
46583780 -GATATACAAGCTAGTGTAAGACCTGTCTGGGACATGGCGTCAGCAT-G-T
1 AGAT-GA-GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGAT
* * * * *
46583828 -G--GTGTGTCAGTGTAAGACCTGTCTAGGATATGGCATCAACAC-CGAT
1 AGATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAAC-CTCGAT
** *
46583874 AGATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGCT
1 AGATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGAT
*
46583923 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
1 AGATGAGAGCCAGTGTAAGACC-TGTCTGGGACATGGC
46583961 GTCGGCATCT
Statistics
Matches: 144, Mismatches: 26, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
44 29 0.20
45 1 0.01
46 4 0.03
47 2 0.01
48 30 0.21
49 63 0.44
50 15 0.10
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (49 bp):
AGATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGAT
Found at i:46584910 original size:13 final size:13
Alignment explanation
Indices: 46584892--46584925 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
46584882 TGGCCATGGG
46584892 CGTGTGCCTTGGC
1 CGTGTGCCTTGGC
46584905 CGTGTGCCTTGGC
1 CGTGTGCCTTGGC
46584918 CGTGTGCC
1 CGTGTGCC
46584926 CTTTATTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.00, C:0.32, G:0.38, T:0.29
Consensus pattern (13 bp):
CGTGTGCCTTGGC
Found at i:46587144 original size:42 final size:42
Alignment explanation
Indices: 46587029--46587147 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 42
46587019 ATCTGAGATA
*
46587029 TCGTGTAAGACCATGTCTGGGACACAGGCCTCGATTGAGATTC
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATT-AGATTC
* * **
46587072 ACGTATAAGACCATGTCTGGGACATTGGCATCGTATCT-GATT-
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCG-AT-TAGATTC
* * *
46587114 TCGTGTAAGACCTTGTCTGAGACAGAGGCATCGA
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGA
46587148 CATTGAATTA
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
41 1 0.02
42 27 0.43
43 32 0.51
44 2 0.03
45 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTAGATTC
Found at i:46596433 original size:2 final size:2
Alignment explanation
Indices: 46596426--46596464 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
46596416 TTGTATTATA
*
46596426 TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG T- TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
46596465 ATAAATGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:46601940 original size:35 final size:35
Alignment explanation
Indices: 46601900--46601975 Score: 143
Period size: 35 Copynumber: 2.1 Consensus size: 35
46601890 ACATCCTACA
46601900 CTTCTTTTTAACATTTTATAGCTGATAGATAAACC
1 CTTCTTTTTAACATTTTATAGCTGATAGATAAACC
46601935 CTTCTTTTTAACATTTTATAGCTGATAGATAAACC
1 CTTCTTTTTAACATTTTATAGCTGATAGATAAACC
46601970 CATTCT
1 C-TTCT
46601976 AATATCAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 36 0.90
36 4 0.10
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.43
Consensus pattern (35 bp):
CTTCTTTTTAACATTTTATAGCTGATAGATAAACC
Found at i:46605694 original size:80 final size:80
Alignment explanation
Indices: 46605561--46605816 Score: 367
Period size: 80 Copynumber: 3.2 Consensus size: 80
46605551 GATGATAACG
* *
46605561 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
46605626 CGAGTTACTA-ATTCC
66 CGAGTTACTATA-TCC
* * *
46605641 GGGCTAAGTCCCGAAGGCATTTTTGCGAGTTACTAATTTCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
46605706 CGAGTTACTATATCC
66 CGAGTTACTATATCC
** *
46605721 GGGCTAAGTCCCGAAGGCATTTGTGCAAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGT
46605785 GCGAG-TAGCTATATCC
65 GCGAGTTA-CTATATCC
* *
46605801 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
46605817 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
79 18 0.11
80 142 0.88
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTACTATATCC
Found at i:46605802 original size:40 final size:40
Alignment explanation
Indices: 46605561--46605790 Score: 356
Period size: 40 Copynumber: 5.8 Consensus size: 40
46605551 GATGATAACG
* *
46605561 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
46605601 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
46605641 GGGCTAAGTCCCGAAGGCATTTTTGCGAGTTACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
46605681 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
* **
46605721 GGGCTAAGTCCCGAAGGCATTTGTGCAAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
46605761 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
46605791 AGCTATATCC
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 2 0.01
40 174 0.99
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:46610678 original size:17 final size:17
Alignment explanation
Indices: 46610639--46610680 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
46610629 ACTCTAATAC
46610639 ATATATGAAATAAATTAA
1 ATATAT-AAATAAATTAA
46610657 ATATATAAA-AAATTATA
1 ATATATAAATAAATTA-A
46610674 ATATATA
1 ATATATA
46610681 TTGGTATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.26
17 11 0.48
18 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
ATATATAAATAAATTAA
Found at i:46610919 original size:16 final size:16
Alignment explanation
Indices: 46610898--46610935 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
46610888 TAAGGTGGAA
46610898 AGAAAATTGAAAAGAT
1 AGAAAATTGAAAAGAT
**
46610914 AGAAAATTGAAGGGAT
1 AGAAAATTGAAAAGAT
46610930 AGAAAA
1 AGAAAA
46610936 ATAAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.16
Consensus pattern (16 bp):
AGAAAATTGAAAAGAT
Found at i:46611129 original size:15 final size:15
Alignment explanation
Indices: 46611109--46611158 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
46611099 TAAACTCGTC
46611109 TCTTATTTTCTTTCA
1 TCTTATTTTCTTTCA
* *
46611124 TCTTATCATT-TGTC-
1 TCTTAT-TTTCTTTCA
46611138 TCTTATTTTCTTTCA
1 TCTTATTTTCTTTCA
46611153 TCTTAT
1 TCTTAT
46611159 CATTTGTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
15 15 0.54
16 2 0.07
ACGTcount: A:0.14, C:0.20, G:0.02, T:0.64
Consensus pattern (15 bp):
TCTTATTTTCTTTCA
Found at i:46611139 original size:29 final size:29
Alignment explanation
Indices: 46611106--46611165 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
46611096 ATATAAACTC
46611106 GTCTCTTATTTTCTTTCATCTTATCATTT
1 GTCTCTTATTTTCTTTCATCTTATCATTT
46611135 GTCTCTTATTTTCTTTCATCTTATCATTT
1 GTCTCTTATTTTCTTTCATCTTATCATTT
46611164 GT
1 GT
46611166 TTTGGAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.13, C:0.20, G:0.05, T:0.62
Consensus pattern (29 bp):
GTCTCTTATTTTCTTTCATCTTATCATTT
Found at i:46612268 original size:23 final size:23
Alignment explanation
Indices: 46612238--46612283 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
46612228 TCAAAAGCCA
46612238 AATCATAAATTAAACCTAATTTG
1 AATCATAAATTAAACCTAATTTG
*
46612261 AATCATAATTTAAACCTAATTTG
1 AATCATAAATTAAACCTAATTTG
46612284 TGGACATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.37
Consensus pattern (23 bp):
AATCATAAATTAAACCTAATTTG
Found at i:46613365 original size:3 final size:3
Alignment explanation
Indices: 46613357--46613386 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
46613347 AGACAAAATA
46613357 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
46613387 CGGCCTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:46619020 original size:15 final size:16
Alignment explanation
Indices: 46618988--46619034 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
46618978 GTAAGGTAAA
46618988 TATAATTAATAAAT-AT
1 TATAATTAA-AAATAAT
46619004 TA-AATTAAAAATAAT
1 TATAATTAAAAATAAT
*
46619019 TATATTTTAAAAATAA
1 TATA-ATTAAAAATAA
46619035 AATAATATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 4 0.15
15 10 0.37
16 3 0.11
17 10 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATAATTAAAAATAAT
Found at i:46619482 original size:27 final size:29
Alignment explanation
Indices: 46619426--46619480 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
46619416 CTAAAATAAA
* *
46619426 TTTATTTTTTTAATGTGTATAATTGAAAT
1 TTTATTTTTTAAATGTATATAATTGAAAT
46619455 TTTA-TTTTTAAATGTATATAATTGAA
1 TTTATTTTTTAAATGTATATAATTGAA
46619481 TTAAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (29 bp):
TTTATTTTTTAAATGTATATAATTGAAAT
Found at i:46619812 original size:27 final size:29
Alignment explanation
Indices: 46619772--46619826 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
46619762 AATAGATAAT
*
46619772 ATTTATATTATAATTAAAATATT-TTTAA
1 ATTTATAATATAATTAAAATATTATTTAA
*
46619800 ATTTATAAT-TAATTATAATATTATTTA
1 ATTTATAATATAATTAAAATATTATTTA
46619827 TCTGTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
ATTTATAATATAATTAAAATATTATTTAA
Found at i:46620273 original size:27 final size:25
Alignment explanation
Indices: 46620242--46620291 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
46620232 ATAAAGTGGT
*
46620242 ATAAAATAAATAGACAGAGAGTAAAGA
1 ATAAAA-AAAAAGA-AGAGAGTAAAGA
*
46620269 ATAAAAAAAAATAAGAGAGTAAA
1 ATAAAAAAAAAGAAGAGAGTAAA
46620292 AGAGAGACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 5 0.24
27 6 0.29
ACGTcount: A:0.68, C:0.02, G:0.16, T:0.14
Consensus pattern (25 bp):
ATAAAAAAAAAGAAGAGAGTAAAGA
Found at i:46626910 original size:22 final size:21
Alignment explanation
Indices: 46626885--46626937 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
46626875 ATTTGTGACA
46626885 TTTTGTATTTG-GCTTAGAGTGG
1 TTTTGTATTTGCGCTTA-A-TGG
*
46626907 TTTTGT-TTTGCGTTTAATGG
1 TTTTGTATTTGCGCTTAATGG
46626927 TTTTGCTATTT
1 TTTTG-TATTT
46626938 TTTTGTGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 8 0.30
21 6 0.22
22 13 0.48
ACGTcount: A:0.11, C:0.06, G:0.25, T:0.58
Consensus pattern (21 bp):
TTTTGTATTTGCGCTTAATGG
Found at i:46631115 original size:17 final size:14
Alignment explanation
Indices: 46631084--46631134 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 14
46631074 AAATATTAAA
46631084 TTATTTATATAATT
1 TTATTTATATAATT
46631098 TTA-TTATAT-ATT
1 TTATTTATATAATT
* *
46631110 ATATTTTTATAATT
1 TTATTTATATAATT
46631124 TGTATTT-TATA
1 T-TATTTATATA
46631135 TTCTTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 5 0.16
13 11 0.35
14 10 0.32
15 5 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
TTATTTATATAATT
Found at i:46631129 original size:27 final size:26
Alignment explanation
Indices: 46631085--46631136 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
46631075 AATATTAAAT
46631085 TATTTATATAATTTTATTATATATTA
1 TATTTATATAATTTTATTATATATTA
* *
46631111 TATTTTTATAATTTGTATTTTATATT
1 TATTTATATAATTT-TATTATATATT
46631137 CTTTTTAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TATTTATATAATTTTATTATATATTA
Found at i:46640386 original size:23 final size:22
Alignment explanation
Indices: 46640335--46640386 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
46640325 CCTCGTCTTT
*
46640335 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
46640357 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
46640380 TTCTTTT
1 TTCTTTT
46640387 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:46640395 original size:12 final size:12
Alignment explanation
Indices: 46640344--46640398 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
46640334 TTTCTTTTGT
46640344 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
46640357 -TCATTTTC-TC
1 TTCTTTTTCAAC
46640367 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
46640380 TTCTTTTTCAAT
1 TTCTTTTTCAAC
46640392 TTCTTTT
1 TTCTTTT
46640399 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:46645739 original size:52 final size:52
Alignment explanation
Indices: 46645663--46645793 Score: 208
Period size: 52 Copynumber: 2.5 Consensus size: 52
46645653 TCCATCTTAT
* *
46645663 TTTCGATTTGTCAAGGATTATATCTTATTTTTGTTTTCTTCTATTTTTCATA
1 TTTCAATTTGTCAAGGATTATATCTTATTTTCGTTTTCTTCTATTTTTCATA
* *
46645715 TTTCAATTTATCAAGGATTATATCTTATTTTCGTTTTCTTCTATTTTTCATC
1 TTTCAATTTGTCAAGGATTATATCTTATTTTCGTTTTCTTCTATTTTTCATA
* *
46645767 TTTCAATTTGTCAATGATTATTTCTTA
1 TTTCAATTTGTCAAGGATTATATCTTA
46645794 GATGGTTGAT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.58
Consensus pattern (52 bp):
TTTCAATTTGTCAAGGATTATATCTTATTTTCGTTTTCTTCTATTTTTCATA
Found at i:46647849 original size:28 final size:27
Alignment explanation
Indices: 46647799--46647851 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
46647789 AGACTCCATT
46647799 TTATTAGGATAATTAATATTAAGATAA
1 TTATTAGGATAATTAATATTAAGATAA
* *
46647826 TTATTAGGATTATTTAATTTTAAGAT
1 TTATTAGGA-TAATTAATATTAAGAT
46647852 TTTATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (27 bp):
TTATTAGGATAATTAATATTAAGATAA
Found at i:46647856 original size:27 final size:26
Alignment explanation
Indices: 46647796--46647857 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
46647786 ATAAGACTCC
46647796 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
46647822 ATAATTATTAGGATTATTTAATTTTAAG
1 AT-TTTATTAGGA-TAATTAATATTAAG
46647850 ATTTTATT
1 ATTTTATT
46647858 TTAATTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.47
28 14 0.47
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:46647880 original size:20 final size:20
Alignment explanation
Indices: 46647852--46647899 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
46647842 ATTTTAAGAT
*
46647852 TTTAT-TTTAATT-ATCTTTA
1 TTTATCTTTAATTAAT-TGTA
46647871 TTTATCTTTAATTAATTGTA
1 TTTATCTTTAATTAATTGTA
46647891 TTTATCTTT
1 TTTATCTTT
46647900 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 19 0.73
21 2 0.08
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATCTTTAATTAATTGTA
Found at i:46653246 original size:27 final size:26
Alignment explanation
Indices: 46653186--46653247 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
46653176 ATAAGACTCC
46653186 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
46653212 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
46653240 ATTTTATT
1 ATTTTATT
46653248 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:46654022 original size:18 final size:18
Alignment explanation
Indices: 46653999--46654040 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
46653989 TCTCCATCTC
*
46653999 AATTTCCGTCATTT-ATTT
1 AATTT-CGTAATTTAATTT
46654017 AATTTCGTAATTTCAATTT
1 AATTTCGTAATTT-AATTT
46654036 AATTT
1 AATTT
46654041 AAATACTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.33
18 5 0.24
19 9 0.43
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.55
Consensus pattern (18 bp):
AATTTCGTAATTTAATTT
Found at i:46660071 original size:23 final size:23
Alignment explanation
Indices: 46660041--46660088 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
46660031 AAATCAAAGA
46660041 AAAATGACTAGGGACTTGAAATT
1 AAAATGACTAGGGACTTGAAATT
46660064 AAAATGACTAGGGACTTGAAATT
1 AAAATGACTAGGGACTTGAAATT
46660087 AA
1 AA
46660089 GGTCAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (23 bp):
AAAATGACTAGGGACTTGAAATT
Found at i:46660665 original size:16 final size:16
Alignment explanation
Indices: 46660639--46660677 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 16
46660629 TATTATTTTA
46660639 AAAATTTTAAAATATAT
1 AAAA-TTTAAAATATAT
46660656 AAAATTTAAAATATAT
1 AAAATTTAAAATATAT
46660672 ATAAAT
1 A-AAAT
46660678 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTTAAAATATAT
Found at i:46660671 original size:18 final size:17
Alignment explanation
Indices: 46660639--46660676 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
46660629 TATTATTTTA
*
46660639 AAAATTTTAAAATATAT
1 AAAATTTAAAAATATAT
46660656 AAAATTTAAAATATATAT
1 AAAATTTAAAA-ATATAT
46660674 AAA
1 AAA
46660677 TAATAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATTTAAAAATATAT
Found at i:46660683 original size:18 final size:16
Alignment explanation
Indices: 46660646--46660684 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
46660636 TTAAAAATTT
*
46660646 TAAAATATATAAAATT
1 TAAAATATATAAAATA
46660662 TAAAATATATATAAATAA
1 TAAAATATATA-AAAT-A
46660680 TAAAA
1 TAAAA
46660685 AAATGTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAATATATAAAATA
Found at i:46665547 original size:14 final size:14
Alignment explanation
Indices: 46665530--46665563 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
46665520 ATGGTTTTCA
46665530 GAAAATGATTTCTG
1 GAAAATGATTTCTG
46665544 GAAAATGATTTCTG
1 GAAAATGATTTCTG
46665558 GAAAAT
1 GAAAAT
46665564 AACTTACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (14 bp):
GAAAATGATTTCTG
Found at i:46666376 original size:20 final size:20
Alignment explanation
Indices: 46666351--46666414 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
46666341 TTAAAATAAA
46666351 ATTAAAATATTAAATAATTT
1 ATTAAAATATTAAATAATTT
* *
46666371 ATTAAAATA-AAAAAAATTAT
1 ATTAAAATATTAAATAATT-T
* *
46666391 ATT-AATTATATCAATAATTT
1 ATTAAAATAT-TAAATAATTT
46666411 ATTA
1 ATTA
46666415 TATGATTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
19 11 0.32
20 17 0.50
21 6 0.18
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTAAAATATTAAATAATTT
Found at i:46671519 original size:12 final size:12
Alignment explanation
Indices: 46671502--46671533 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
46671492 TGTAATTGTC
46671502 CACACGGGTAGA
1 CACACGGGTAGA
46671514 CACACGGGTAGA
1 CACACGGGTAGA
46671526 CACACGGG
1 CACACGGG
46671534 CGTGTGTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.28, G:0.34, T:0.06
Consensus pattern (12 bp):
CACACGGGTAGA
Found at i:46675830 original size:14 final size:15
Alignment explanation
Indices: 46675796--46675840 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
46675786 ATTAATCTCC
46675796 AATTATAATAAATAT
1 AATTATAATAAATAT
*
46675811 GA-TATAATAAATA-
1 AATTATAATAAATAT
46675824 AATTATAATAAAATAT
1 AATTATAAT-AAATAT
46675840 A
1 A
46675841 CCTGAGATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.04
14 17 0.68
15 6 0.24
16 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
AATTATAATAAATAT
Found at i:46679714 original size:59 final size:58
Alignment explanation
Indices: 46679615--46679771 Score: 169
Period size: 59 Copynumber: 2.7 Consensus size: 58
46679605 GTGTTCCTTA
* * * * *
46679615 TTTTTT-AGATTTTATAGTTTCCCCCCCATTTTTTAGATTTTATAGTTTTTCCCTTT-T
1 TTTTTTAAGATTTTATAGTTTCTCCCCTATTTTTTAAATTTTA-AGATTTTCACTTTAT
* * * * *
46679672 TTCTTTTCAGATTTTATAGTTTTTCCCCTATTTTTGAAATTTTACGATTTTGACTTTAT
1 TT-TTTTAAGATTTTATAGTTTCTCCCCTATTTTTTAAATTTTAAGATTTTCACTTTAT
*
46679731 TTTTTTAAGA-TTTATAG-TTGTCCCCTATTTTTTAAATTTTA
1 TTTTTTAAGATTTTATAGTTTCTCCCCTATTTTTTAAATTTTA
46679772 CAATTTTGTC
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
56 22 0.26
57 9 0.11
58 20 0.24
59 34 0.40
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.59
Consensus pattern (58 bp):
TTTTTTAAGATTTTATAGTTTCTCCCCTATTTTTTAAATTTTAAGATTTTCACTTTAT
Found at i:46679715 original size:28 final size:28
Alignment explanation
Indices: 46679613--46679799 Score: 121
Period size: 28 Copynumber: 6.6 Consensus size: 28
46679603 GTGTGTTCCT
**
46679613 TATTTTTTAGATTTTATAGTTTCCCCCC
1 TATTTTTTAGATTTTATAGTTTTTCCCC
* *
46679641 CATTTTTTAGATTTTATAGTTTTTCCCTT
1 TATTTTTTAGATTTTATAGTTTTTCCC-C
*
46679670 TTTTCTTTTCAGATTTTATAGTTTTTCCCC
1 TATT-TTTT-AGATTTTATAGTTTTTCCCC
* * * ** **
46679700 TATTTTTGAAATTTTA-CGATTTTGACTT
1 TATTTTTTAGATTTTATAG-TTTTTCCCC
*
46679728 TATTTTTTTAAGA-TTTATAG-TTGTCCCC
1 TA-TTTTTT-AGATTTTATAGTTTTTCCCC
* * *
46679756 TATTTTTTAAATTTTACAATTTTGTCCCC
1 TATTTTTTAGATTTTATAGTTTT-TCCCC
* *
46679785 TGTTTTCTAG-TTTTA
1 TATTTTTTAGATTTTA
46679800 CAGTATTGAC
Statistics
Matches: 119, Mismatches: 30, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
26 2 0.02
27 12 0.10
28 50 0.42
29 26 0.22
30 10 0.08
31 19 0.16
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.58
Consensus pattern (28 bp):
TATTTTTTAGATTTTATAGTTTTTCCCC
Found at i:46688511 original size:47 final size:47
Alignment explanation
Indices: 46688391--46688527 Score: 125
Period size: 45 Copynumber: 3.0 Consensus size: 47
46688381 GAATTGACGG
* * * * * *
46688391 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTA-AG-
1 TTAAGGATCCCATGTAAGACCATATTAAGACATGGCATCGGCATTGA
** * *
46688436 GCAAGGATCCCGTGTAAGACCATGTTAAGACATGGCATCGGCATTGA
1 TTAAGGATCCCATGTAAGACCATATTAAGACATGGCATCGGCATTGA
* * ** *
46688483 TTAAGGATTCCATGTAAGGCCATATTAAGATGTGGCATTGGCATT
1 TTAAGGATCCCATGTAAGACCATATTAAGACATGGCATCGGCATT
46688528 AAGACAAGGA
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
45 36 0.49
46 1 0.01
47 36 0.49
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (47 bp):
TTAAGGATCCCATGTAAGACCATATTAAGACATGGCATCGGCATTGA
Found at i:46688586 original size:47 final size:47
Alignment explanation
Indices: 46688527--46688648 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
46688517 GCATTGGCAT
*
46688527 TAAGACAAGGATACCATGTACGAACATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGAACATGTTTGGAACATGGCATTTGG
*
46688574 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGAACATGTTTGGAACATGGCATTTGG
* * * *
46688621 AAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGAACATG
46688649 CCAAGGCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGAACATGTTTGGAACATGGCATTTGG
Found at i:46688756 original size:55 final size:55
Alignment explanation
Indices: 46688627--46689073 Score: 278
Period size: 54 Copynumber: 8.6 Consensus size: 55
46688617 TTGGAAAGAT
* * * * *
46688627 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGA
* *
46688681 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGG-A
* * *
46688737 AAGG-TCCCATGTAAGACCATGTCAAGACATGGCATCG--GCA-TTAAT-TAAGG-
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATG-AGTTACTATAAGGA
* ** ** *
46688787 -A--CT-CCATGTAAGACCACATCAAGATGTGGCA-T--TG-G-CAC--TAA-GA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGA
* ***
46688830 CAAGGATACCAT-CAAGACCATGTTTGGAACATGGCATT--TG-G------TAA-GA
1 -AAGGATACCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTACTATAAGGA
* * * * *
46688876 TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGGT
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGA
* * *
46688931 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTAATGAGTTACTATAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGA
* * * * *
46688986 AA-AAGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-C-ATAAGGA
1 AAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGA
** *
46689039 AAGGATACCACATAAGACCATGTCAAGACAAGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
46689074 ATGGTAAGTT
Statistics
Matches: 309, Mismatches: 57, Indels: 55
0.73 0.14 0.13
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 1 0.00
45 1 0.00
46 25 0.08
47 44 0.14
48 12 0.04
49 6 0.02
52 5 0.02
53 38 0.12
54 88 0.28
55 81 0.26
56 4 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.22
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGA
Found at i:46690977 original size:6 final size:6
Alignment explanation
Indices: 46690966--46690992 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
46690956 TAGGTTTCCA
46690966 AAATGG AAATGG AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAA
46690993 ATGAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:46690998 original size:12 final size:13
Alignment explanation
Indices: 46690965--46691005 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
46690955 ATAGGTTTCC
46690965 AAAATGGAAATGG
1 AAAATGGAAATGG
46690978 -AAATGGAAATGG
1 AAAATGGAAATGG
* *
46690990 AAAATGAAAATAG
1 AAAATGGAAATGG
46691003 AAA
1 AAA
46691006 CTTGCAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (13 bp):
AAAATGGAAATGG
Found at i:46705014 original size:71 final size:71
Alignment explanation
Indices: 46704921--46705067 Score: 260
Period size: 71 Copynumber: 2.1 Consensus size: 71
46704911 CACTTTTCCT
*
46704921 TCTTATGGTAGCCCACATTATCCATTATTTTCTCATTTCTACCATACATTTACATCTTTTACAAA
1 TCTTATGGTAGCCCACATTATCCATTATTTTCTCATTTCTACCACACATTTACATCTTTTACAAA
46704986 ATATTC
66 ATATTC
*
46704992 TCTTGTGGTAGCCCACATTATCCATTATTTTCTCATTTCTACCACACATTTACATCTTTTACAAA
1 TCTTATGGTAGCCCACATTATCCATTATTTTCTCATTTCTACCACACATTTACATCTTTTACAAA
*
46705057 ATAGTC
66 ATATTC
46705063 -CTTAT
1 TCTTAT
46705068 AAGAGTTTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
70 4 0.06
71 68 0.94
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.43
Consensus pattern (71 bp):
TCTTATGGTAGCCCACATTATCCATTATTTTCTCATTTCTACCACACATTTACATCTTTTACAAA
ATATTC
Found at i:46705638 original size:13 final size:13
Alignment explanation
Indices: 46705603--46705638 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
46705593 TGAAGTAATC
*
46705603 TCACACGGGCGTG
1 TCACACGGGTGTG
46705616 TCACACGGGTGTG
1 TCACACGGGTGTG
46705629 TCACACGGGT
1 TCACACGGGT
46705639 ATTCGCACGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.28, G:0.36, T:0.19
Consensus pattern (13 bp):
TCACACGGGTGTG
Found at i:46712264 original size:14 final size:13
Alignment explanation
Indices: 46712244--46712275 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
46712234 AATATTTAAC
46712244 TTGTTCTTAATTA
1 TTGTTCTTAATTA
46712257 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
46712271 TTGTT
1 TTGTT
46712276 TTGATATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:46716161 original size:94 final size:94
Alignment explanation
Indices: 46716000--46716355 Score: 369
Period size: 94 Copynumber: 3.8 Consensus size: 94
46715990 TTTGTGCGCC
* **
46716000 AGTGTAAGACATGTCTGGGACATGCTTTGGCC--ACATCATGAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACAT-ATGAGAGCCAGTGTAAGACCATGTCT
* *
46716063 GGGACATGGCATCGGCATCCAGACGAGGGCT
65 GGGACATGGCATCGGCATCAAGA-GAGTGCT
* * *
46716094 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAC-TATGATAGCTAGTGTAAGACCATGTTTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACATATGAGAGCCAGTGTAAGACCATGTCTG
* *
46716158 GGACATGGCATCGGCA-CAGAGATTAGTGCC
66 GGACATGGCATCGGCATCA-AGA-GAGTGCT
* * *
46716188 AGTGTAAGACATGTCTGGGACATGCATTAGCC-T-CGATA-GAGATAGCCAGTGTAATA-CATTT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAC-ATATGAG--AGCCAGTGTAAGACCATGT
* * *
46716249 CCGGGAC--GCACATCGGC-T-AAGAGTTGTGCT
63 CTGGGACATG-GCATCGGCATCAAGAG-AGTGCT
*
46716279 AGTGTAAGACATGTCTGGGACATGCATCAG-CATGCGTATATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAC--ATATGAGAGCCAGTGTAAGACCATGTC
46716343 TGGGACATGGCAT
64 TGGGACATGGCAT
46716356 TGGTAATATA
Statistics
Matches: 217, Mismatches: 28, Indels: 34
0.78 0.10 0.12
Matches are distributed among these distances:
90 1 0.00
91 37 0.17
92 16 0.07
93 24 0.11
94 124 0.57
95 13 0.06
96 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACATATGAGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCATCAAGAGAGTGCT
Found at i:46716196 original size:48 final size:47
Alignment explanation
Indices: 46715997--46716355 Score: 226
Period size: 47 Copynumber: 7.7 Consensus size: 47
46715987 TGATTTGTGC
* * * *
46715997 GCCAGTGTAAGACATGTCTGGGACAT-GCTTTGGC-CACATCATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCACACA-GATGAGT
* *
46716043 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-CAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCA-CACAGATGAGT
* * * *
46716091 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGC-CATACTATGA-T
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCACACA-GATGAGT
* * * *
46716136 AGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGAGATTAGT
1 -GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCACACAGATGAGT
** *
46716185 GCCAGTGTAAGACATGTCTGGGACAT-GCATTAGC-CTC-GATAGAGAT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCACACAGAT-GAG-T
* * * * * *
46716231 AGCCAGTGTAATACATTTCCGGGAC--GCACATCGGC-TA-AGA-GTTGT
1 -GCCAGTGTAAGACATGTCTGGGACATG-GCATCGGCACACAGATG-AGT
* * ** * *
46716276 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCATGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCA--CACAGATGAGT
46716324 GCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCAT
46716356 TGGTAATATA
Statistics
Matches: 242, Mismatches: 44, Indels: 50
0.72 0.13 0.15
Matches are distributed among these distances:
44 30 0.12
45 6 0.02
46 42 0.17
47 82 0.34
48 56 0.23
49 21 0.09
50 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCACACAGATGAGT
Found at i:46734205 original size:23 final size:22
Alignment explanation
Indices: 46734175--46734226 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
46734165 GCTACTGAAA
46734175 CTCTCCTTTCT-TTTTCTCTTTT
1 CTCTCCTTTCTATTTTC-CTTTT
*
46734197 CTCTACCTTTTTATTTTCCTTTT
1 CTCT-CCTTTCTATTTTCCTTTT
46734220 -TC-CCTTT
1 CTCTCCTTT
46734227 GCCGAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.19
22 6 0.22
23 11 0.41
24 5 0.19
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (22 bp):
CTCTCCTTTCTATTTTCCTTTT
Found at i:46741316 original size:10 final size:10
Alignment explanation
Indices: 46741301--46741334 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
46741291 ATGTTGAATT
*
46741301 AAATGAAAAG
1 AAATGAATAG
46741311 AAATGAATAG
1 AAATGAATAG
46741321 AAATGAATAG
1 AAATGAATAG
46741331 AAAT
1 AAAT
46741335 AGAGAAATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (10 bp):
AAATGAATAG
Found at i:46741401 original size:12 final size:13
Alignment explanation
Indices: 46741384--46741418 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
46741374 GATTTTCTCC
46741384 AAAATGAAAATA-
1 AAAATGAAAATAG
46741396 AAAATGAAAATAG
1 AAAATGAAAATAG
46741409 AGAAATGAAA
1 A-AAATGAAA
46741419 TTATTTGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 1 0.05
14 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAATGAAAATAG
Found at i:46741431 original size:63 final size:65
Alignment explanation
Indices: 46741339--46741469 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 65
46741329 AGAAATAGAG
* *
46741339 AAATGGAGAAATAGAAAACATTTGAAAATGATTATGATTTTCTCCAAAATGAAAAT-AAAAATGA
1 AAATAGAGAAATAGAAAACATTTGAAAATGAATATGATTTTCTCCAAAATGAAAATGAAAAATGA
** * *
46741403 AAATAGAGAAAT-GAAATTATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAATGAAAAATGA
1 AAATAGAGAAATAGAAAACATTTGAAAATGAATATGATTTTCTCCAAAATGAAAATGAAAAATGA
46741467 AAA
1 AAA
46741470 AAACTTGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 38 0.63
64 22 0.37
ACGTcount: A:0.53, C:0.05, G:0.15, T:0.27
Consensus pattern (65 bp):
AAATAGAGAAATAGAAAACATTTGAAAATGAATATGATTTTCTCCAAAATGAAAATGAAAAATGA
Found at i:46743066 original size:22 final size:21
Alignment explanation
Indices: 46743022--46743071 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
46743012 GAATATTAAG
* *
46743022 AAATATATATATGTTTATTTT
1 AAATTTATATATGTTTATATT
46743043 AATATTTATATAT-TTTATAATT
1 AA-ATTTATATATGTTTAT-ATT
46743065 AAATTTA
1 AAATTTA
46743072 AATAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
AAATTTATATATGTTTATATT
Found at i:46749019 original size:40 final size:40
Alignment explanation
Indices: 46748843--46749065 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
46748833 TCCTCGTTCA
* * * * *
46748843 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
46748882 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
46748922 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
46748962 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
46749002 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
46749042 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
46749066 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:46756926 original size:40 final size:40
Alignment explanation
Indices: 46756750--46756972 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
46756740 TCCTCGTTCA
* * * * *
46756750 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
46756789 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
46756829 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
46756869 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
46756909 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
46756949 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
46756973 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:46764184 original size:87 final size:87
Alignment explanation
Indices: 46764038--46764212 Score: 332
Period size: 87 Copynumber: 2.0 Consensus size: 87
46764028 ACAAACAAGG
*
46764038 AATCAAGCATATATGTACAACCCAATCAACCATTCTTTAAGTTAAAACATACATCATTCATGCCA
1 AATCAAGCATATATGTACAACCCAATCAACCATTCTTTAAGCTAAAACATACATCATTCATGCCA
46764103 TAATATTATCAATAATTTACAT
66 TAATATTATCAATAATTTACAT
46764125 AATCAAGCATATATGTACAACCCAATCAACCATTCTTTAAGCTAAAACATACATCATTCATGCCA
1 AATCAAGCATATATGTACAACCCAATCAACCATTCTTTAAGCTAAAACATACATCATTCATGCCA
*
46764190 TAATATTATCAATCATTTACAT
66 TAATATTATCAATAATTTACAT
46764212 A
1 A
46764213 CTTATAAACC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31
Consensus pattern (87 bp):
AATCAAGCATATATGTACAACCCAATCAACCATTCTTTAAGCTAAAACATACATCATTCATGCCA
TAATATTATCAATAATTTACAT
Found at i:46764992 original size:30 final size:29
Alignment explanation
Indices: 46764949--46765012 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
46764939 CAAGTAACCG
46764949 AAGCTAGTTAAATCACACACTTAGTGCCA
1 AAGCTAGTTAAATCACACACTTAGTGCCA
*
46764978 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCACACACTTAGTGCCA
46765008 AAGCT
1 AAGCT
46765013 TCCGATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCACACACTTAGTGCCA
Found at i:46776412 original size:21 final size:22
Alignment explanation
Indices: 46776388--46776432 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
46776378 TATGCATTAA
46776388 ATTGAATGTGAATT-TTA-ATAG
1 ATTGAAT-TGAATTATTATATAG
*
46776409 ATTGAATTTAATTATTATATAG
1 ATTGAATTGAATTATTATATAG
46776431 AT
1 AT
46776433 AGAGAACCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 10 0.48
22 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (22 bp):
ATTGAATTGAATTATTATATAG
Found at i:46777276 original size:9 final size:9
Alignment explanation
Indices: 46777262--46777291 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
46777252 AAGTTATGAA
46777262 CTTCCTAAG
1 CTTCCTAAG
*
46777271 CTTCCTAAT
1 CTTCCTAAG
46777280 CTTCCTAAG
1 CTTCCTAAG
46777289 CTT
1 CTT
46777292 ACTAGTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (9 bp):
CTTCCTAAG
Found at i:46779650 original size:99 final size:99
Alignment explanation
Indices: 46779479--46779677 Score: 398
Period size: 99 Copynumber: 2.0 Consensus size: 99
46779469 ATAATAAAGA
46779479 TAATGTATTATTTATATACAAACTTACATACTTTCTCATTTCCATGTCGAATTAATATTGAACAT
1 TAATGTATTATTTATATACAAACTTACATACTTTCTCATTTCCATGTCGAATTAATATTGAACAT
46779544 TTAAATCATCATAATTATACTTACTTTCAACACC
66 TTAAATCATCATAATTATACTTACTTTCAACACC
46779578 TAATGTATTATTTATATACAAACTTACATACTTTCTCATTTCCATGTCGAATTAATATTGAACAT
1 TAATGTATTATTTATATACAAACTTACATACTTTCTCATTTCCATGTCGAATTAATATTGAACAT
46779643 TTAAATCATCATAATTATACTTACTTTCAACACC
66 TTAAATCATCATAATTATACTTACTTTCAACACC
46779677 T
1 T
46779678 CGGCAATCAT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (99 bp):
TAATGTATTATTTATATACAAACTTACATACTTTCTCATTTCCATGTCGAATTAATATTGAACAT
TTAAATCATCATAATTATACTTACTTTCAACACC
Found at i:46781244 original size:21 final size:19
Alignment explanation
Indices: 46781220--46781258 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
46781210 AAAAGGAAAA
46781220 AAATGGAGAATAAATATATGG
1 AAAT-GAGAAT-AATATATGG
*
46781241 AAATGTGAATAATATATG
1 AAATGAGAATAATATATG
46781259 AGCTTAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 5 0.29
21 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (19 bp):
AAATGAGAATAATATATGG
Found at i:46786180 original size:41 final size:40
Alignment explanation
Indices: 46786134--46786222 Score: 124
Period size: 41 Copynumber: 2.2 Consensus size: 40
46786124 TGGAGCTAAC
* * *
46786134 AGAAAAACGCTACAATAGGTAAAGCAGTAGTGGTGTTTATG
1 AGAAAAACGCCACAAAAAGTAAAGCAGTAGTGGTG-TTATG
* *
46786175 AGAAAAACGCCACAAAAAGTCAAGCATTAGTGGTGTTATG
1 AGAAAAACGCCACAAAAAGTAAAGCAGTAGTGGTGTTATG
46786215 AGAAAAAC
1 AGAAAAAC
46786223 ATTGCAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 13 0.30
41 30 0.70
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (40 bp):
AGAAAAACGCCACAAAAAGTAAAGCAGTAGTGGTGTTATG
Found at i:46786231 original size:40 final size:40
Alignment explanation
Indices: 46786155--46786261 Score: 110
Period size: 40 Copynumber: 2.6 Consensus size: 40
46786145 ACAATAGGTA
* *
46786155 AAGCAGTAGTGGTGTTTATGAGAAAAACGCCACAAAAAG-TC
1 AAGCATTAGTGGTG-TTATGAGAAAAACACCAC-AAAAGTTC
***
46786196 AAGCATTAGTGGTGTTATGAGAAAAACATTGCAAAAGTTC
1 AAGCATTAGTGGTGTTATGAGAAAAACACCACAAAAGTTC
**
46786236 AAGCATTAGCT-ACGTTATGAGAAAAA
1 AAGCATTAG-TGGTGTTATGAGAAAAA
46786262 GGCCGCAAAG
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
39 5 0.09
40 38 0.67
41 14 0.25
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.23
Consensus pattern (40 bp):
AAGCATTAGTGGTGTTATGAGAAAAACACCACAAAAGTTC
Found at i:46786608 original size:20 final size:20
Alignment explanation
Indices: 46786583--46786622 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
46786573 GGGAAAAATG
46786583 AATGATAAGAAAGTTTTATT
1 AATGATAAGAAAGTTTTATT
*
46786603 AATGATAAGCAAGTTTTATT
1 AATGATAAGAAAGTTTTATT
46786623 TCATTTCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (20 bp):
AATGATAAGAAAGTTTTATT
Found at i:46786727 original size:25 final size:24
Alignment explanation
Indices: 46786692--46786738 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
46786682 TATTAACCCA
46786692 ATTTTTTTATTTCATTTAACAATT
1 ATTTTTTTATTTCATTTAACAATT
*
46786716 ATTTTTATTATTTCATTTGACAA
1 ATTTTT-TTATTTCATTTAACAA
46786739 AATCCTATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTTTTATTTCATTTAACAATT
Found at i:46787567 original size:22 final size:22
Alignment explanation
Indices: 46787542--46787585 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
46787532 TGTGCTGCTG
*
46787542 TTTGCAATTTTTGGATT-ATTTA
1 TTTGCAAATTTT-GATTAATTTA
*
46787564 TTTGTAAATTTTGATTAATTTA
1 TTTGCAAATTTTGATTAATTTA
46787586 ATTATATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.59
Consensus pattern (22 bp):
TTTGCAAATTTTGATTAATTTA
Found at i:46792842 original size:72 final size:71
Alignment explanation
Indices: 46792641--46792844 Score: 209
Period size: 71 Copynumber: 2.8 Consensus size: 71
46792631 TAATTATGTG
* *
46792641 TTTTTAAAAAGGTTAATTTAGTTCAATTTATT-AAGTTTTGATATTAAGAGAAACCGTTTATCTA
1 TTTTT-AAAAGGTTAATTTAGTTCAATTTATTGAA-TTTTGATATTAAGTGAAACCATTTATCTA
*
46792705 GTTATACA
64 ATTATACA
* * ** * * *
46792713 TTTTTAGAAGCTTAATTTAGTTTGATTTATTGAAATTTGATATTAAGT-AAAGACATTTGT-TCA
1 TTTTTAAAAGGTTAATTTAGTTCAATTTATTGAATTTTGATATTAAGTGAAA-CCATTTATCT-A
*
46792776 ATTTTGA-A
64 ATTAT-ACA
* *
46792784 TTTTTAAAGAGGTTAATTTAGTTCAACTTATTGAATTTTGATATTAAGTGGAACCATTTAT
1 TTTTTAAA-AGGTTAATTTAGTTCAATTTATTGAATTTTGATATTAAGTGAAACCATTTAT
46792845 TCTGTTATAT
Statistics
Matches: 106, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
70 4 0.04
71 51 0.48
72 49 0.46
73 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (71 bp):
TTTTTAAAAGGTTAATTTAGTTCAATTTATTGAATTTTGATATTAAGTGAAACCATTTATCTAAT
TATACA
Found at i:46793237 original size:19 final size:18
Alignment explanation
Indices: 46793215--46793258 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
46793205 TTTATTATTT
46793215 ATTTTAGTTTTGATTTTAA
1 ATTTTA-TTTTGATTTTAA
*
46793234 ATTTTTATTTTTATTTTAA
1 A-TTTTATTTTGATTTTAA
*
46793253 AATTTA
1 ATTTTA
46793259 AGATAACTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
ATTTTATTTTGATTTTAA
Found at i:46793257 original size:20 final size:20
Alignment explanation
Indices: 46793216--46793253 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
46793206 TTATTATTTA
46793216 TTTTAGTTTTGATTTTAAAT
1 TTTTAGTTTTGATTTTAAAT
*
46793236 TTTTA-TTTTTATTTTAAA
1 TTTTAGTTTTGATTTTAAA
46793254 ATTTAAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTAGTTTTGATTTTAAAT
Found at i:46793366 original size:35 final size:35
Alignment explanation
Indices: 46793296--46793366 Score: 83
Period size: 35 Copynumber: 2.0 Consensus size: 35
46793286 TTTAATTATG
*
46793296 TTATTAATTTATTATTTTGAATTCTAAATTTAAAT
1 TTATTAATTTATTATTTTGAATTCTAAATTAAAAT
* *
46793331 TTATTAATTT-TTATATTT-AGTTTTAAAGTTAAAAT
1 TTATTAATTTATTAT-TTTGAATTCTAAA-TTAAAAT
46793366 T
1 T
46793367 GTCATAGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
34 11 0.35
35 20 0.65
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (35 bp):
TTATTAATTTATTATTTTGAATTCTAAATTAAAAT
Found at i:46793843 original size:35 final size:35
Alignment explanation
Indices: 46793795--46793861 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
46793785 AAATTTAAAG
*
46793795 ATGATAATCATAACTTACATAAATAATTAAAGTTT
1 ATGATAATCATAACTTACATAAACAATTAAAGTTT
* * *
46793830 ATGATTATGATAACTTACATAAACATTTAAAG
1 ATGATAATCATAACTTACATAAACAATTAAAG
46793862 AATAAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (35 bp):
ATGATAATCATAACTTACATAAACAATTAAAGTTT
Found at i:46794013 original size:47 final size:48
Alignment explanation
Indices: 46793941--46794033 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 48
46793931 TTACATATGT
* *
46793941 AACACTCCAAACCTGGCCTAGACGTTATGACCGAATCTGGTGATGTGA
1 AACACTCCAAACCCGGCCTAAACGTTATGACCGAATCTGGTGATGTGA
46793989 AACAC-CCAAACCCGGCCTAAACGTTATGACCGAATCTGGTGATGT
1 AACACTCCAAACCCGGCCTAAACGTTATGACCGAATCTGGTGATGT
46794034 CACATGGAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
47 38 0.88
48 5 0.12
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (48 bp):
AACACTCCAAACCCGGCCTAAACGTTATGACCGAATCTGGTGATGTGA
Found at i:46796272 original size:21 final size:19
Alignment explanation
Indices: 46796233--46796279 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
46796223 ACTAAAGGAA
46796233 TAAACTTTCTCCTCAGAATC
1 TAAAC-TTCTCCTCAGAATC
*
46796253 TTAACTTCTCGCTCTAGAATC
1 TAAACTTCTC-CTC-AGAATC
46796274 TAAACT
1 TAAACT
46796280 GGCTCCTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 7 0.30
21 11 0.48
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (19 bp):
TAAACTTCTCCTCAGAATC
Found at i:46796288 original size:21 final size:20
Alignment explanation
Indices: 46796241--46796288 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
46796231 AATAAACTTT
* *
46796241 CTCCTC-AGAATCTTAACTT
1 CTCCTCTAGAATCTAAACTG
46796260 CTCGCTCTAGAATCTAAACTGG
1 CTC-CTCTAGAATCTAAACT-G
46796282 CTCCTCT
1 CTCCTCT
46796289 TCAAAAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
21 15 0.62
22 3 0.12
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.33
Consensus pattern (20 bp):
CTCCTCTAGAATCTAAACTG
Found at i:46815886 original size:25 final size:25
Alignment explanation
Indices: 46815858--46815906 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
46815848 TTATAATATG
* * *
46815858 AAAAATGACTATTTTGCCCCTAGGT
1 AAAAATGACCATTATACCCCTAGGT
46815883 AAAAATGACCATTATACCCCTAGG
1 AAAAATGACCATTATACCCCTAGG
46815907 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAAATGACCATTATACCCCTAGGT
Done.