Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 151 of 182
Found at i:46392907 original size:16 final size:16
Alignment explanation
Indices: 46392838--46392901 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 16
46392828 TTATATAAGC
*
46392838 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
46392854 TATGTTATTTATGTAC
1 TATGTAAGTTATGTAT
46392870 TATGTAAGTTATGTGTAT
1 TATGTAAGTTA--TGTAT
46392888 TATGT-A-TTATGTAT
1 TATGTAAGTTATGTAT
46392902 GTTATGCATA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
14 5 0.13
16 24 0.62
17 1 0.03
18 9 0.23
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:46392940 original size:44 final size:44
Alignment explanation
Indices: 46392881--46393219 Score: 370
Period size: 44 Copynumber: 7.5 Consensus size: 44
46392871 ATGTAAGTTA
* *
46392881 TGTGTATTATGTATTATGTATGTTATGCATAATATTAATTAAGC
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
* *
46392925 TGTGTAATATGTATTATGTACGTTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
*
46392969 TGTGTATAATGTAAGAAATGTATTATGTATGTTATGTATAAAATTAATTAAG-
1 TGTG--T-AT-T-----ATGTATTATGTATGTTATGTATAATATTAATTAAGT
46393021 T-TG-----TGTATTATGTATGTTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
*
46393059 TGTGTATTATGTATTATGTATTATGTACGCTATATATAATATTAATTAAGT
1 TGTGTATTATGTATTATG---TATGT----TATGTATAATATTAATTAAGT
* * *
46393110 TGTGCATTATGTATTATGTACGCTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
46393154 TGTGTATTATGTATTATGTACT-TTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTA-TGTTATGTATAATATTAATTAAGT
46393198 TGTGTATTATGTAAGTTATGTA
1 TGTGTATTATGT-A-TTATGTA
46393220 AGAAATGTAT
Statistics
Matches: 253, Mismatches: 16, Indels: 50
0.79 0.05 0.16
Matches are distributed among these distances:
37 33 0.13
38 1 0.00
39 2 0.01
44 125 0.49
45 1 0.00
46 8 0.03
47 6 0.02
48 4 0.02
51 39 0.15
52 1 0.00
53 33 0.13
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (44 bp):
TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
Found at i:46392993 original size:53 final size:53
Alignment explanation
Indices: 46392933--46393034 Score: 177
Period size: 53 Copynumber: 1.9 Consensus size: 53
46392923 GCTGTGTAAT
*
46392933 ATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATAATGTAAGAA
1 ATGTATTATGTACGTTATGTATAAAATTAATTAAGTTGTGTATAATGTAAGAA
* *
46392986 ATGTATTATGTATGTTATGTATAAAATTAATTAAGTTGTGTATTATGTA
1 ATGTATTATGTACGTTATGTATAAAATTAATTAAGTTGTGTATAATGTA
46393035 TGTTATGTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.46
Consensus pattern (53 bp):
ATGTATTATGTACGTTATGTATAAAATTAATTAAGTTGTGTATAATGTAAGAA
Found at i:46392995 original size:88 final size:89
Alignment explanation
Indices: 46392903--46393250 Score: 311
Period size: 90 Copynumber: 3.9 Consensus size: 89
46392893 ATTATGTATG
* *
46392903 TTATGCATAATATTAATTAAGCTGTGTAATATGTATTATGTACGTTATGTATAATATTAATTAAG
1 TTATGTATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTATGTATAATATTAATTAAG
*
46392968 TTGTGTATAATGTAAGAAATGTA-
66 TTGTGTATAATGTAAGATATGTAC
** * * * * *
46392991 TTATGTATGTTATGT-ATAAAATTAAT-TAAGTTGTGTATTATGTATGTTATGTATAATATTAAT
1 TTATGTATAATAT-TAATTAAGTT-GTGTAA--TATGTATTATGTACGTTATGTATAATATTAAT
*
46393054 TAAGTTGTGTATTATGTATTATGTATTATGTAC
62 TAAGTTGTGTATAATGTA--A-G-A-TATGTAC
* * * * *
46393087 GCTATATATAATATTAATTAAGTTGTGCATTATGTATTATGTACGCTATGTATAATATTAATTAA
1 -TTATGTATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTATGTATAATATTAATTAA
* *
46393152 GTTGTGTATTATGT-A-TTATGTAC
65 GTTGTGTATAATGTAAGATATGTAC
* * **
46393175 TTTATGTATAATATTAATTAAGTTGTGTATTATGTAAGTTATGTAAGAAATGTAT--TA-T-A-T
1 -TTATGTATAATATTAATTAAGTTGTGTAATATGT-A-TTATGTACGTTATGTATAATATTAATT
46393235 AAGTTGTGTATAATGT
63 AAGTTGTGTATAATGT
46393251 TAGTTATCAA
Statistics
Matches: 213, Mismatches: 32, Indels: 33
0.77 0.12 0.12
Matches are distributed among these distances:
85 16 0.08
86 1 0.00
87 1 0.00
88 58 0.27
89 3 0.01
90 61 0.29
92 2 0.01
93 1 0.00
94 1 0.00
95 51 0.24
96 2 0.01
97 16 0.08
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (89 bp):
TTATGTATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTATGTATAATATTAATTAAG
TTGTGTATAATGTAAGATATGTAC
Found at i:46393037 original size:37 final size:37
Alignment explanation
Indices: 46392987--46393079 Score: 163
Period size: 37 Copynumber: 2.6 Consensus size: 37
46392977 ATGTAAGAAA
46392987 TGTATTATGTATGTTATGTATAAAATTAATTAAGTTG
1 TGTATTATGTATGTTATGTATAAAATTAATTAAGTTG
*
46393024 TGTATTATGTATGTTATGTATAATATTAATTAAGTTG
1 TGTATTATGTATGTTATGTATAAAATTAATTAAGTTG
46393061 TGTATTATGTA--TTATGTAT
1 TGTATTATGTATGTTATGTAT
46393080 TATGTACGCT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
35 8 0.15
37 47 0.85
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (37 bp):
TGTATTATGTATGTTATGTATAAAATTAATTAAGTTG
Found at i:46393043 original size:53 final size:53
Alignment explanation
Indices: 46392931--46393044 Score: 174
Period size: 53 Copynumber: 2.2 Consensus size: 53
46392921 AAGCTGTGTA
*
46392931 ATATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATAATGTAAG
1 ATATGTATTATGTACGTTATGTATAAAATTAATTAAGTTGTGTATAATGTAAG
* * * *
46392984 AAATGTATTATGTATGTTATGTATAAAATTAATTAAGTTGTGTATTATGTATG
1 ATATGTATTATGTACGTTATGTATAAAATTAATTAAGTTGTGTATAATGTAAG
*
46393037 TTATGTAT
1 ATATGTAT
46393045 AATATTAATT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (53 bp):
ATATGTATTATGTACGTTATGTATAAAATTAATTAAGTTGTGTATAATGTAAG
Found at i:46393064 original size:21 final size:21
Alignment explanation
Indices: 46393003--46393065 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
46392993 ATGTATGTTA
*
46393003 TGTATAAAATTAATTAAGTTG
1 TGTATAATATTAATTAAGTTG
*
46393024 TGTAT--TATGT-A-T--GTTA
1 TGTATAATAT-TAATTAAGTTG
46393040 TGTATAATATTAATTAAGTTG
1 TGTATAATATTAATTAAGTTG
46393061 TGTAT
1 TGTAT
46393066 TATGTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 14
0.65 0.06 0.29
Matches are distributed among these distances:
16 8 0.25
17 1 0.03
18 5 0.16
19 4 0.12
20 1 0.03
21 13 0.41
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (21 bp):
TGTATAATATTAATTAAGTTG
Found at i:46393073 original size:7 final size:7
Alignment explanation
Indices: 46393061--46393085 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46393051 AATTAAGTTG
46393061 TGTATTA
1 TGTATTA
46393068 TGTATTA
1 TGTATTA
46393075 TGTATTA
1 TGTATTA
46393082 TGTA
1 TGTA
46393086 CGCTATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
TGTATTA
Found at i:46393100 original size:185 final size:176
Alignment explanation
Indices: 46392883--46393219 Score: 487
Period size: 185 Copynumber: 1.9 Consensus size: 176
46392873 GTAAGTTATG
* * * * *
46392883 TGTATTATGTATTATGTATGTTATGCATAATATTAATTAAGCTGTGTAATATGTATTATGTACGT
1 TGTATTATGTATTATGTACGCTATACATAATATTAATTAAGCTGTGCAATATGTATTATGTACGC
46392948 TATGTATAATATTAATTAAGTTGTGTATAATGTAAGAAATGTATTATGTA-TGTTATGTATAAAA
66 TATGTATAATATTAATTAAGTTGTG--T-AT-T-----ATGTATTATGTACT-TTATGTATAAAA
*
46393012 TTAATTAAGTTGTGTATTATGTATGTTATGTATAATATTAATTAAGTTGTGTATTA
121 TTAATTAAGTTGTGTATTATGTAAGTTATGTATAATATTAATTAAGTTGTGTATTA
* * *
46393068 TGTATTATGTATTATGTACGCTATATATAATATTAATTAAGTTGTGCATTATGTATTATGTACGC
1 TGTATTATGTATTATGTACGCTATACATAATATTAATTAAGCTGTGCAATATGTATTATGTACGC
*
46393133 TATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACTTTATGTATAATATTAATTAAGT
66 TATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACTTTATGTATAAAATTAATTAAGT
46393198 TGTGTATTATGTAAGTTATGTA
131 TGTGTATTATGTAAGTTATGTA
46393220 AGAAATGTAT
Statistics
Matches: 141, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
176 54 0.38
177 1 0.01
181 1 0.01
182 2 0.01
183 1 0.01
185 82 0.58
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.48
Consensus pattern (176 bp):
TGTATTATGTATTATGTACGCTATACATAATATTAATTAAGCTGTGCAATATGTATTATGTACGC
TATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACTTTATGTATAAAATTAATTAAGT
TGTGTATTATGTAAGTTATGTATAATATTAATTAAGTTGTGTATTA
Found at i:46393218 original size:9 final size:9
Alignment explanation
Indices: 46393204--46393346 Score: 52
Period size: 9 Copynumber: 16.2 Consensus size: 9
46393194 AAGTTGTGTA
46393204 TTATGTAAG
1 TTATGTAAG
46393213 TTATGTAAG
1 TTATGTAAG
**
46393222 AAATGT-A-
1 TTATGTAAG
*
46393229 TTATATAAG
1 TTATGTAAG
*
46393238 TTGTGT-A-
1 TTATGTAAG
* *
46393245 TAATGTTAG
1 TTATGTAAG
**
46393254 TTATCAAAG
1 TTATGTAAG
46393263 TTATGTACTATG
1 TTATGTA--A-G
*
46393275 TAAT-TAA-
1 TTATGTAAG
*
46393282 TTATTTAAG
1 TTATGTAAG
*
46393291 TTGTGTAAG
1 TTATGTAAG
*
46393300 TTGTGT-A-
1 TTATGTAAG
46393307 TTATGTAAG
1 TTATGTAAG
*
46393316 TTAT-TATG
1 TTATGTAAG
46393324 TTATTATGTAAG
1 ---TTATGTAAG
46393336 TTATGTAAG
1 TTATGTAAG
46393345 TT
1 TT
46393347 TATATATGAT
Statistics
Matches: 97, Mismatches: 22, Indels: 30
0.65 0.15 0.20
Matches are distributed among these distances:
7 15 0.15
8 12 0.12
9 56 0.58
11 7 0.07
12 7 0.07
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:46393228 original size:25 final size:25
Alignment explanation
Indices: 46393200--46393345 Score: 92
Period size: 25 Copynumber: 5.9 Consensus size: 25
46393190 AATTAAGTTG
*
46393200 TGTATTATGTAAGTTATGTAAGAAA
1 TGTATTATGTAAGTTATGTAAGTAA
* *
46393225 TGTATTATATAAGTTGTGT-A-TAA
1 TGTATTATGTAAGTTATGTAAGTAA
**
46393248 TGTTAGTTATCAAAGTTATGTACTATGTAA
1 TG-TA-TTATGTAAGTTATGTA--A-GTAA
* * **
46393278 T-TAATTATTTAAGTTGTGTAAGTTG
1 TGT-ATTATGTAAGTTATGTAAGTAA
*
46393303 TGTATTATGTAAGTTAT-T-A-T-G
1 TGTATTATGTAAGTTATGTAAGTAA
46393324 T-TATTATGTAAGTTATGTAAGT
1 TGTATTATGTAAGTTATGTAAGT
46393346 TTATATATGA
Statistics
Matches: 96, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
20 15 0.16
21 3 0.03
22 2 0.02
23 6 0.06
24 4 0.04
25 44 0.46
26 2 0.02
28 15 0.16
29 1 0.01
30 4 0.04
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.47
Consensus pattern (25 bp):
TGTATTATGTAAGTTATGTAAGTAA
Found at i:46393301 original size:37 final size:36
Alignment explanation
Indices: 46393260--46393342 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 36
46393250 TTAGTTATCA
*
46393260 AAGTTATGTACTATGTAA-TTAATTAT-TTAAGTTGTGT
1 AAGTTATGTACTATGTAAGTT-ATTATGTT-A-TTATGT
* *
46393297 AAGTTGTGTATTATGTAAGTTATTATGTTATTATGT
1 AAGTTATGTACTATGTAAGTTATTATGTTATTATGT
46393333 AAGTTATGTA
1 AAGTTATGTA
46393343 AGTTTATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 14 0.35
37 22 0.55
38 4 0.10
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.49
Consensus pattern (36 bp):
AAGTTATGTACTATGTAAGTTATTATGTTATTATGT
Found at i:46393374 original size:33 final size:30
Alignment explanation
Indices: 46393307--46393379 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 30
46393297 AAGTTGTGTA
*
46393307 TTATGTAAG-TTATTATGTTATTATGTAAG
1 TTATGTAAGTTTATTATGTTATTATATAAG
*
46393336 TTATGTAAGTTTATATATGATTTTATATATAAG
1 TTATGTAAGTTTAT-TATG-TTAT-TATATAAG
46393369 TTATGTAAGTT
1 TTATGTAAGTT
46393380 ATGCAAGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 9 0.24
30 4 0.11
31 4 0.11
32 3 0.08
33 18 0.47
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (30 bp):
TTATGTAAGTTTATTATGTTATTATATAAG
Found at i:46393382 original size:42 final size:42
Alignment explanation
Indices: 46393327--46393407 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
46393317 TATTATGTTA
* * *
46393327 TTATGTAAGTTATGTAAGTTTATATATGATTTTATATATAAG
1 TTATGTAAGTTATGCAAGTTTATATATAAGTTTATATATAAG
46393369 TTATGTAAGTTATGCAAGTTTATATATAAGTTTATATAT
1 TTATGTAAGTTATGCAAGTTTATATATAAGTTTATATAT
46393408 GTGTAAATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (42 bp):
TTATGTAAGTTATGCAAGTTTATATATAAGTTTATATATAAG
Found at i:46394964 original size:84 final size:84
Alignment explanation
Indices: 46394870--46395116 Score: 404
Period size: 84 Copynumber: 2.9 Consensus size: 84
46394860 ACGGTGCGGC
* *
46394870 ATTGGCAAACAATAATTCACTCTTGCGGCGCTTTCCTAAAAAACGCCACTAGAAGATTTTATTCC
1 ATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTAGAAGATTTTATTCC
* *
46394935 AGTAGAGAAACGGCACTGT
66 AGTAGAGAAACGGCACCGA
*
46394954 ATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAATCGCCACTAGAAGATTTTATTCC
1 ATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTAGAAGATTTTATTCC
**
46395019 AGTAGAGAAACGGTGCCGA
66 AGTAGAGAAACGGCACCGA
* *
46395038 ATTGGAAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTATAAGATTTTATTCC
1 ATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTAGAAGATTTTATTCC
*
46395103 AGTACAGAAACGGC
66 AGTAGAGAAACGGC
46395117 GCCACTTTGG
Statistics
Matches: 151, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 151 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (84 bp):
ATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTAGAAGATTTTATTCC
AGTAGAGAAACGGCACCGA
Found at i:46395680 original size:89 final size:88
Alignment explanation
Indices: 46395577--46395835 Score: 362
Period size: 88 Copynumber: 2.9 Consensus size: 88
46395567 TATAAAGAAC
* * * *
46395577 TTATTTAATATATAAATTAAAAAGTACTAATTAGTCTAAATCTTAAACCCTAACACGACCTCAAA
1 TTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAAC-CGACCTCAAA
46395642 TCCCTAACCCCTAACCCCTAAACT
65 TCCCTAACCCCTAACCCCTAAACT
* *
46395666 TTATTTAATATATAAATTAAAAAATACTAATTAATCAAAACCCTAAAACCTAAACTCGACC-CAA
1 TTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCT-AAC-CGACCTCAA
46395730 ATCCCTAACCCCTAA-CCCTAAACT
64 ATCCCTAACCCCTAACCCCTAAACT
* * *
46395754 TTACTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCATAACCTAATCCT-AA
1 TTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAACC-GA-CCTCAA
*
46395818 ATCCCTAACCCTTAACCC
64 ATCCCTAACCCCTAACCC
46395836 TTAACCCCTA
Statistics
Matches: 152, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
86 1 0.01
87 4 0.03
88 74 0.49
89 65 0.43
90 8 0.05
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.28
Consensus pattern (88 bp):
TTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAACCGACCTCAAAT
CCCTAACCCCTAACCCCTAAACT
Found at i:46395840 original size:14 final size:14
Alignment explanation
Indices: 46395820--46395859 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
46395810 AATCCTAAAT
46395820 CCCTAACCCTTAAC
1 CCCTAACCCTTAAC
* *
46395834 CCTTAACCCCTAAC
1 CCCTAACCCTTAAC
*
46395848 CCCTAAACCTTA
1 CCCTAACCCTTA
46395860 TTTAATATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.47, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:46395845 original size:21 final size:21
Alignment explanation
Indices: 46395820--46395859 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46395810 AATCCTAAAT
* *
46395820 CCCTAACCCTTAACCCTTAAC
1 CCCTAACCCCTAAACCTTAAC
46395841 CCCTAACCCCTAAACCTTA
1 CCCTAACCCCTAAACCTTA
46395860 TTTAATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.47, G:0.00, T:0.23
Consensus pattern (21 bp):
CCCTAACCCCTAAACCTTAAC
Found at i:46395970 original size:12 final size:12
Alignment explanation
Indices: 46395953--46395978 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46395943 CTCTTAACAT
46395953 CTAACCCCTAAC
1 CTAACCCCTAAC
46395965 CTAACCCCTAAC
1 CTAACCCCTAAC
46395977 CT
1 CT
46395979 TTAACTCATA
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:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:46396038 original size:14 final size:15
Alignment explanation
Indices: 46396019--46396052 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
46396009 CTTAAACCAG
46396019 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
46396033 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
46396048 AATCC
1 AATCC
46396053 ATAAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:46396872 original size:114 final size:114
Alignment explanation
Indices: 46396616--46396984 Score: 515
Period size: 114 Copynumber: 3.2 Consensus size: 114
46396606 CTGAGCATTA
* * * * * *
46396616 GCGGCGCCTCCTCAAAAACGCCGCTAAAGCCTTGAGAATTAGCGACGCTTTATTAAAAACGTCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGC
* * * * *
46396681 TAAATCCCCAAAAGCTAAGAAACCA-CGTCGTTGAGCTTAGGTTCTTTT
66 TAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTT
*
46396729 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTTAAAAATGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGC
* *
46396794 TAAATCCCCGACAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTT
66 TAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTT
* *
46396843 GCGGCGCTTTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGACGCTTACTTAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGC
* * * * *
46396908 TAATTCCTCGAAATCTCAAAAAACAGTGTCGTTGGGCTTAGGTTTTTTT
66 TAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTT
* * *
46396957 ACGGCGCTTTCTTAAAAATGCCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
46396985 TTGCCGAAAG
Statistics
Matches: 227, Mismatches: 28, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
113 78 0.34
114 149 0.66
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGC
TAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTT
Found at i:46396971 original size:73 final size:72
Alignment explanation
Indices: 46396888--46397056 Score: 221
Period size: 73 Copynumber: 2.3 Consensus size: 72
46396878 GCATTAGCGA
* * *
46396888 CGCTTACTTAAAAACGCCGCTAATTCCTCGAAATCTCAAAAAACAGTGTCGTTGGGCTTAGGTTT
1 CGCTTTCTTAAAAACGCCGCTAATTCC-CGAAAGCTCAAAAAACAGCGTCGTTGGGCTTAGGTTT
46396953 TTTTACGG
65 TTTTACGG
* * * *
46396961 CGCTTTCTTAAAAATGCCGCTAAATTGCCGAAAGCTCAAAAAACGGCGTCGTTGGGTTTAGGTTT
1 CGCTTTCTTAAAAACGCCGCT-AATTCCCGAAAGCTCAAAAAACAGCGTCGTTGGGCTTAGGTTT
**
46397026 TTTTGTGG
65 TTTTACGG
* *
46397034 CGCTTTCCTATAAACGCCGCTAA
1 CGCTTTCTTAAAAACGCCGCTAA
46397057 AGCCCTGAGC
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
72 2 0.02
73 76 0.92
74 5 0.06
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (72 bp):
CGCTTTCTTAAAAACGCCGCTAATTCCCGAAAGCTCAAAAAACAGCGTCGTTGGGCTTAGGTTTT
TTTACGG
Found at i:46397151 original size:187 final size:187
Alignment explanation
Indices: 46396774--46397170 Score: 539
Period size: 187 Copynumber: 2.1 Consensus size: 187
46396764 GCATTAGCGA
* *
46396774 CGCTTTCTTAAAAATGCCGCTAAATCCCCGACAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
1 CGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTT
46396839 TTTTGCGGCGCTTTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGACGCTTACTTAAAAACG
66 TTTTGCGGCGCTTTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGACGCTTACTTAAAAACG
* * * * * *
46396904 CCGCTAATTCCTCGAAATCTCAAAAAACAGTGTCGTTGGGCTTAGGTTTTTTTACGG
131 CCGCTAAATCCCCGAAAGCTCAAAAAACAGCGTCATTGGGCTTAGGTTATTTTACGG
** *
46396961 CGCTTTCTTAAAAATGCCGCTAAATTGCCGAAAGCTCAAAAAACGGCGTCGTTGGGTTTAGGTTT
1 CGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTT
* * * *
46397026 TTTTGTGGCGCTTTC-CTATAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTCT-CTTAAAAA
66 TTTTGCGGCGCTTTCTC-AAAAACACCGCTAAAGCCCTGAGCATTAGCGACGCT-TACTT-AAAA
* * * * *
46397089 ACGCTGCTAAATCCCCGAACGCTGAAAAAACGGCGTCATTGGGCTTAGG-TATTTTGCGG
128 ACGCCGCTAAATCCCCGAAAGCTCAAAAAACAGCGTCATTGGGCTTAGGTTATTTTACGG
** *
46397148 CGCTTTCTGGAAAACGCCGCTAA
1 CGCTTTCTTAAAAATGCCGCTAA
46397171 TGCTTATTTT
Statistics
Matches: 184, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
186 1 0.01
187 138 0.75
188 45 0.24
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (187 bp):
CGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTT
TTTTGCGGCGCTTTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGACGCTTACTTAAAAACG
CCGCTAAATCCCCGAAAGCTCAAAAAACAGCGTCATTGGGCTTAGGTTATTTTACGG
Found at i:46397164 original size:114 final size:114
Alignment explanation
Indices: 46396958--46397170 Score: 279
Period size: 115 Copynumber: 1.9 Consensus size: 114
46396948 GGTTTTTTTA
* * ** * *
46396958 CGGCGCTTTCTTAAAAATGCCGCTAAATTGCCGAAAGCTCAAAAAACGGCGTCGTTGGGTTTAGG
1 CGGCGCTCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCATTGGGCTTAGG
* *
46397023 TTTTTTTGTGGCGCTTTCCTATAAACGCCGCTAAAGCCCTGAGCATTAG
66 TTATTTTGCGGCGCTTTCCTATAAACGCCGCTAAAGCCCTGAGCATTAG
* * *
46397072 CGGCGCTCTCTTAAAAAACGCTGCTAAATCCCCGAACGCTGAAAAAACGGCGTCATTGGGCTTAG
1 CGGCGCTCTCTT-AAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCATTGGGCTTAG
46397137 G-TATTTTGCGGCGCTTT-CTGGA-AAACGCCGCTAA
65 GTTATTTTGCGGCGCTTTCCT--ATAAACGCCGCTAA
46397171 TGCTTATTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
113 2 0.02
114 37 0.44
115 46 0.54
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (114 bp):
CGGCGCTCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCATTGGGCTTAGG
TTATTTTGCGGCGCTTTCCTATAAACGCCGCTAAAGCCCTGAGCATTAG
Found at i:46408433 original size:29 final size:30
Alignment explanation
Indices: 46408391--46408447 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
46408381 TATACCACAT
* * *
46408391 TCAAACTTGTATGTGTATAATTGCACAAAA
1 TCAAAATTGTATGTATAGAATTGCACAAAA
*
46408421 TCAAAATT-TATGTATCGAATTGCACAA
1 TCAAAATTGTATGTATAGAATTGCACAA
46408448 TAAATTAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (30 bp):
TCAAAATTGTATGTATAGAATTGCACAAAA
Found at i:46408545 original size:17 final size:17
Alignment explanation
Indices: 46408525--46408562 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
46408515 AAATTTAATT
*
46408525 ATAAATGTTTATGGATG
1 ATAAATGATTATGGATG
*
46408542 ATAAATGATTATGTATG
1 ATAAATGATTATGGATG
46408559 ATAA
1 ATAA
46408563 TAAATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (17 bp):
ATAAATGATTATGGATG
Found at i:46409208 original size:3 final size:3
Alignment explanation
Indices: 46409200--46409228 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
46409190 GGAACTTTAA
46409200 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46409229 AAGGCGAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:46411150 original size:20 final size:20
Alignment explanation
Indices: 46411126--46411182 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 20
46411116 AAAAATTCAA
46411126 AAAAATTATAAAAATTATTTT
1 AAAAATTATAAAAATTA-TTT
*
46411147 AAAAATTAT-TAAATTA-TT
1 AAAAATTATAAAAATTATTT
* *
46411165 AGAAAGTATAAAAATTAT
1 AAAAATTATAAAAATTAT
46411183 AAAAGCTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 9 0.30
19 6 0.20
20 6 0.20
21 9 0.30
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
AAAAATTATAAAAATTATTT
Found at i:46411158 original size:10 final size:9
Alignment explanation
Indices: 46411115--46411186 Score: 56
Period size: 9 Copynumber: 7.6 Consensus size: 9
46411105 TTTAAAAAAT
46411115 TAAAAATTCA
1 TAAAAATT-A
*
46411125 AAAAAATTA
1 TAAAAATTA
46411134 TAAAAATTA
1 TAAAAATTA
46411143 TTTTAAAAATTA
1 ---TAAAAATTA
*
46411155 T-TAAATTA
1 TAAAAATTA
* *
46411163 TTAGAAAGTA
1 -TAAAAATTA
46411173 TAAAAATTA
1 TAAAAATTA
46411182 TAAAA
1 TAAAA
46411187 GCTATTTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
8 6 0.12
9 23 0.46
10 12 0.24
12 9 0.18
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:46414250 original size:33 final size:32
Alignment explanation
Indices: 46414193--46414254 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
46414183 TAATTTTTTG
46414193 TTTTATATTTTTAAATTTATTTTAACAAAATA
1 TTTTATATTTTTAAATTTATTTTAACAAAATA
*
46414225 TTTTATAATTTTTGAATATTA-TTTAACAAA
1 TTTTAT-ATTTTTAAAT-TTATTTTAACAAA
46414255 GTTTCAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 6 0.22
33 18 0.67
34 3 0.11
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (32 bp):
TTTTATATTTTTAAATTTATTTTAACAAAATA
Found at i:46414679 original size:17 final size:18
Alignment explanation
Indices: 46414657--46414697 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
46414647 ACGTATTTAG
46414657 ATATATTTAAA-AAT-AGA
1 ATATATTTAAATAATGA-A
46414674 ATATA-TTAAATAATGAA
1 ATATATTTAAATAATGAA
46414691 ATATATT
1 ATATATT
46414698 ATTTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.24
17 14 0.67
18 2 0.10
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
ATATATTTAAATAATGAA
Found at i:46414728 original size:18 final size:18
Alignment explanation
Indices: 46414701--46414737 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
46414691 ATATATTATT
* *
46414701 TAAAATAATACATTAAAA
1 TAAAAAAATAAATTAAAA
46414719 TAAAAAAATAAATTAAAA
1 TAAAAAAATAAATTAAAA
46414737 T
1 T
46414738 TTGAGTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAAAATAAATTAAAA
Found at i:46432332 original size:33 final size:33
Alignment explanation
Indices: 46432290--46432356 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
46432280 GAAAGAAAAA
46432290 TCAGTGGTGTTTTAGTATAATTGAGTAATTCAT
1 TCAGTGGTGTTTTAGTATAATTGAGTAATTCAT
46432323 TCAGTGGTGTTTTAGTATAATTGAGTAATTCAT
1 TCAGTGGTGTTTTAGTATAATTGAGTAATTCAT
46432356 T
1 T
46432357 TTATTCATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.46
Consensus pattern (33 bp):
TCAGTGGTGTTTTAGTATAATTGAGTAATTCAT
Found at i:46432401 original size:12 final size:12
Alignment explanation
Indices: 46432384--46432408 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46432374 AGGCGGTGAC
46432384 CCTGTTACTTAA
1 CCTGTTACTTAA
46432396 CCTGTTACTTAA
1 CCTGTTACTTAA
46432408 C
1 C
46432409 ACAGAGGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (12 bp):
CCTGTTACTTAA
Found at i:46435111 original size:27 final size:27
Alignment explanation
Indices: 46435080--46435257 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
46435070 TAAATTGTAC
46435080 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
46435107 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46435133 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
46435161 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
46435189 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46435216 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
46435243 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46435258 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:46435194 original size:82 final size:81
Alignment explanation
Indices: 46435081--46435236 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
46435071 AAATTGTACA
* *
46435081 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
46435145 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
46435162 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
46435227 TGCGAGTTGA
65 TGCGAATTGA
46435237 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:46435248 original size:82 final size:81
Alignment explanation
Indices: 46435077--46435257 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
46435067 GATTAAATTG
* *
46435077 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
46435142 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
46435158 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
46435222 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
46435240 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
46435258 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:46436838 original size:29 final size:29
Alignment explanation
Indices: 46436797--46436932 Score: 146
Period size: 29 Copynumber: 4.6 Consensus size: 29
46436787 GGCTTCCACT
* *
46436797 TATAACATATTCCGCCACTAGGGCTTACA
1 TATAACAGATTCCGCCACTAGGGCTCACA
*
46436826 TATAATAGATTCCGCCACTAGGGCTCACA
1 TATAACAGATTCCGCCACTAGGGCTCACA
* * * *
46436855 TATAACATATTCAGCCACAAAGGCCTCCACA
1 TATAACAGATTCCGCCAC-TAGGGCT-CACA
** *
46436886 TATAACAGATTTTGCCACTAGGACTCACA
1 TATAACAGATTCCGCCACTAGGGCTCACA
* *
46436915 TATAACATATTCAGCCAC
1 TATAACAGATTCCGCCAC
46436933 AAACTATAAC
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
29 60 0.67
30 10 0.11
31 19 0.21
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (29 bp):
TATAACAGATTCCGCCACTAGGGCTCACA
Found at i:46436896 original size:60 final size:59
Alignment explanation
Indices: 46436797--46436935 Score: 190
Period size: 60 Copynumber: 2.4 Consensus size: 59
46436787 GGCTTCCACT
* * * * * *
46436797 TATAACATATTCCGCCAC-TAGGGCTTACATATAATAGATTCCGCCACTAGGGCTCACA
1 TATAACATATTCAGCCACAAAGGCCTCACATATAACAGATTCCGCCACTAGGACTCACA
**
46436855 TATAACATATTCAGCCACAAAGGCCTCCACATATAACAGATTTTGCCACTAGGACTCACA
1 TATAACATATTCAGCCACAAAGGCCT-CACATATAACAGATTCCGCCACTAGGACTCACA
46436915 TATAACATATTCAGCCACAAA
1 TATAACATATTCAGCCACAAA
46436936 CTATAACACC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 17 0.24
59 5 0.07
60 49 0.69
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.24
Consensus pattern (59 bp):
TATAACATATTCAGCCACAAAGGCCTCACATATAACAGATTCCGCCACTAGGACTCACA
Found at i:46447290 original size:33 final size:33
Alignment explanation
Indices: 46447251--46447320 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
46447241 TACATATTCA
* *
46447251 TCAAACACCACTTGAAAAGATTCTATATATATT
1 TCAAACACCACTTGAAAACATCCTATATATATT
46447284 TCAAACACCACTTGAAAACATCCTATATATATT
1 TCAAACACCACTTGAAAACATCCTATATATATT
46447317 TCAA
1 TCAA
46447321 CCACAAATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.31
Consensus pattern (33 bp):
TCAAACACCACTTGAAAACATCCTATATATATT
Found at i:46447642 original size:41 final size:41
Alignment explanation
Indices: 46447569--46447858 Score: 314
Period size: 41 Copynumber: 7.1 Consensus size: 41
46447559 GTCTAAACAA
* * * *
46447569 GGCACAAAAGTGC-ATTTAGGTGTACCGAAGTACAAATAGG
1 GGCACATATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
* * * *
46447609 GGCACATATGTGCAATTCAGGGGTACCGTAGTACAAAGAGT
1 GGCACATATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
*
46447650 GGCACATATGTGCAATTT-GGAGGTACCAAAGTACAAACAGG
1 GGCACATATGTGCAATTTAGG-GGTACCGAAGTACAAACAGG
* * * *
46447691 GGCACGTATGTGTAATTTAAGGGTACCAAAGTACAAACAGG
1 GGCACATATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
* * * * * *
46447732 GGCACGTATTTGCAATTCAGGGATACCAAACTACAAACAGG
1 GGCACATATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
* * * * *
46447773 AGCACATATGTGTAATTTAGGGGTACTGAAATACAAACAAG
1 GGCACATATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
* * *
46447814 GGCACATATGTGCAATTTAAGGGTATCGAAGTACAAACAAG
1 GGCACATATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
46447855 GGCA
1 GGCA
46447859 TGTTTGTGCA
Statistics
Matches: 210, Mismatches: 37, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
40 13 0.06
41 196 0.93
42 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (41 bp):
GGCACATATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
Found at i:46447808 original size:123 final size:123
Alignment explanation
Indices: 46447563--46447871 Score: 353
Period size: 123 Copynumber: 2.5 Consensus size: 123
46447553 ACCGGAGTCT
* * * * *
46447563 AAACAA-GGCACAAAAGTGC-ATTT-AGGTGTACCGAAGTACAAATAGGGGCACATATGTGCAAT
1 AAACAAGGGCACATATGTGCAATTTAAGG-GTACCGAAGTACAAACAGGGGCACGTATTTGCAAT
* ** * *
46447625 TCAGGGGTACCGTAGTACAAAGAGTGGCACATATGTGCAATTTGGAGGTACCAAAGTAC
65 TCAGGGATACCAAACTACAAACAGTGGCACATATGTGCAATTTGGAGGTACCAAAGTAC
* * * *
46447684 AAACAGGGGCACGTATGTGTAATTTAAGGGTACCAAAGTACAAACAGGGGCACGTATTTGCAATT
1 AAACAAGGGCACATATGTGCAATTTAAGGGTACCGAAGTACAAACAGGGGCACGTATTTGCAATT
* *
46447749 CAGGGATACCAAACTACAAACAG-GAGCACATATGTGTAATTTAGG-GGTACTGAAA-TAC
66 CAGGGATACCAAACTACAAACAGTG-GCACATATGTGCAATTT-GGAGGTAC-CAAAGTAC
* * *
46447807 AAACAAGGGCACATATGTGCAATTTAAGGGTATCGAAGTACAAACAAGGGCATGT-TTGTGCAAT
1 AAACAAGGGCACATATGTGCAATTTAAGGGTACCGAAGTACAAACAGGGGCACGTATT-TGCAAT
46447871 T
65 T
46447872 AAACAATAAT
Statistics
Matches: 158, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
121 5 0.03
122 12 0.08
123 133 0.84
124 8 0.05
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (123 bp):
AAACAAGGGCACATATGTGCAATTTAAGGGTACCGAAGTACAAACAGGGGCACGTATTTGCAATT
CAGGGATACCAAACTACAAACAGTGGCACATATGTGCAATTTGGAGGTACCAAAGTAC
Found at i:46448642 original size:24 final size:24
Alignment explanation
Indices: 46448610--46448657 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
46448600 GGAAGAAAAC
46448610 CAATTAGAAAGATGATACTATCTT
1 CAATTAGAAAGATGATACTATCTT
46448634 CAATTAGAAAGATGATACTATCTT
1 CAATTAGAAAGATGATACTATCTT
46448658 TACTTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
CAATTAGAAAGATGATACTATCTT
Found at i:46458653 original size:15 final size:16
Alignment explanation
Indices: 46458617--46458654 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
46458607 TTATATTGCA
46458617 TATATATATGTTAACT
1 TATATATATGTTAACT
*
46458633 TAATATATAT-TTAAGT
1 T-ATATATATGTTAACT
46458649 TATATA
1 TATATA
46458655 ATGATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 5 0.25
16 7 0.35
17 8 0.40
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (16 bp):
TATATATATGTTAACT
Found at i:46462368 original size:20 final size:21
Alignment explanation
Indices: 46462327--46462384 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
46462317 GGCCTGGCCC
46462327 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA-CAAAA
46462349 ATTTATTTTAAAAATA-AAAA
1 ATTTATTTTAAAAATACAAAA
**
46462369 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
46462385 TTTTAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 18 0.55
22 9 0.27
23 6 0.18
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTTATTTTAAAAATACAAAA
Found at i:46462386 original size:11 final size:11
Alignment explanation
Indices: 46462366--46462403 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
46462356 TTAAAAATAA
46462366 AAAAAGTATTTT
1 AAAAA-TATTTT
46462378 AAAAATATTTT
1 AAAAATATTTT
46462389 AAAAATATTTT
1 AAAAATATTTT
46462400 AAAA
1 AAAA
46462404 TTAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:46462409 original size:17 final size:17
Alignment explanation
Indices: 46462387--46462420 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46462377 TAAAAATATT
* *
46462387 TTAAAAATATTTTAAAA
1 TTAAAAAAAATTTAAAA
46462404 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATTTAAAA
46462421 AGTATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAAATTTAAAA
Found at i:46462414 original size:20 final size:20
Alignment explanation
Indices: 46462352--46462414 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
46462342 ACCAAAAATT
* *
46462352 TATTTTAAAAATAAAAAAAG
1 TATTTTAAAATTAAAAAAAA
***
46462372 TATTTTAAAAATATTTTAAAAA
1 TATTTT-AAAAT-TAAAAAAAA
46462394 TATTTTAAAATTAAAAAAAA
1 TATTTTAAAATTAAAAAAAA
46462414 T
1 T
46462415 TTAAAAAGTA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 13 0.39
21 9 0.27
22 11 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TATTTTAAAATTAAAAAAAA
Found at i:46462421 original size:29 final size:29
Alignment explanation
Indices: 46462378--46462440 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
46462368 AAAGTATTTT
* *
46462378 AAAAATATTTTAAAAATATTTTAAAATTA
1 AAAAAAATTTAAAAAATATTTTAAAATTA
*
46462407 AAAAAAATTTAAAAAGTATTTTAAAATTA
1 AAAAAAATTTAAAAAATATTTTAAAATTA
46462436 AAAAA
1 AAAAA
46462441 TAAAAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAAAAATTTAAAAAATATTTTAAAATTA
Found at i:46462427 original size:40 final size:41
Alignment explanation
Indices: 46462352--46462470 Score: 126
Period size: 42 Copynumber: 3.0 Consensus size: 41
46462342 ACCAAAAATT
46462352 TATTTTAAAAATAAAAAAAGTATTTTAAAAATATTTTAAAAA
1 TATTTTAAAAATAAAAAAAG-ATTTTAAAAATATTTTAAAAA
*
46462394 TATTTTAAAATTAAAAAAA-A-TTTAAAAAGTATTTT--AAA
1 TATTTTAAAAATAAAAAAAGATTTTAAAAA-TATTTTAAAAA
* *
46462432 -A-TTAAAAAATAAAAAAATTTATTTT-AAAATATTTTAAAA
1 TATTTTAAAAATAAAAAAA--GATTTTAAAAATATTTTAAAA
46462471 TTAAAAAAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 16
0.78 0.03 0.19
Matches are distributed among these distances:
36 14 0.21
37 1 0.01
38 9 0.13
39 13 0.19
40 12 0.18
42 18 0.27
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (41 bp):
TATTTTAAAAATAAAAAAAGATTTTAAAAATATTTTAAAAA
Found at i:46462448 original size:28 final size:27
Alignment explanation
Indices: 46462389--46462461 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 27
46462379 AAAATATTTT
46462389 AAAAATATTTTAAAATTAAAAAAAATTTA
1 AAAAATATTTTAAAATTAAAAAAAA--TA
*
46462418 AAAAGTATTTTAAAATTAAAAAATAA-A
1 AAAAATATTTTAAAATTAAAAAA-AATA
*
46462445 AAAATTTATTTTAAAAT
1 AAAA-ATATTTTAAAAT
46462462 ATTTTAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 5 0.12
28 11 0.28
29 22 0.55
30 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (27 bp):
AAAAATATTTTAAAATTAAAAAAAATA
Found at i:46462491 original size:39 final size:39
Alignment explanation
Indices: 46462358--46462493 Score: 122
Period size: 39 Copynumber: 3.5 Consensus size: 39
46462348 AATTTATTTT
* *
46462358 AAAAATAAAAAAA-GTATTTTAAAAA-TATTTTAAAAATATTTT
1 AAAAATAAAAAAATTTA-TTTAAAAAGTATTTT--AAA-A-TTA
*
46462400 AAAATTAAAAAAA---ATTTAAAAAGTATTTTAAAATTA
1 AAAAATAAAAAAATTTATTTAAAAAGTATTTTAAAATTA
*
46462436 AAAAATAAAAAAATTTATTTTAAAA-TATTTTAAAATTAA
1 AAAAATAAAAAAATTTATTTAAAAAGTATTTTAAAATT-A
* *
46462475 AAAAATAAATATATTTATT
1 AAAAATAAAAAAATTTATT
46462494 ATATCGGGCC
Statistics
Matches: 83, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
36 14 0.17
37 1 0.01
38 15 0.18
39 34 0.41
40 7 0.08
42 12 0.14
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (39 bp):
AAAAATAAAAAAATTTATTTAAAAAGTATTTTAAAATTA
Found at i:46465371 original size:27 final size:27
Alignment explanation
Indices: 46465305--46465389 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
46465295 GACCGAAATA
* * *
46465305 CCCTTGAAAGGTAAAATGAACGAAATA
1 CCCTTGTAAGGTAAAATGAACGTAATG
* * * *
46465332 CCCCTATATGGTAAAATGATCGTAATG
1 CCCTTGTAAGGTAAAATGAACGTAATG
* * *
46465359 CCCTTGTAGGGTAATATGACCGTAATG
1 CCCTTGTAAGGTAAAATGAACGTAATG
46465386 CCCT
1 CCCT
46465390 GGTGGGAATA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
CCCTTGTAAGGTAAAATGAACGTAATG
Found at i:46465481 original size:24 final size:24
Alignment explanation
Indices: 46465449--46465506 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
46465439 CTGTGGTTAA
46465449 ATGAATGATTTGTCTGTG-TTTGG
1 ATGAATGATTTGTCTGTGATTTGG
* *
46465472 TATGACTGATTTGTTTGTGATTTGG
1 -ATGAATGATTTGTCTGTGATTTGG
*
46465497 ATGATTGATT
1 ATGAATGATT
46465507 CTGAGCATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.19, C:0.03, G:0.28, T:0.50
Consensus pattern (24 bp):
ATGAATGATTTGTCTGTGATTTGG
Found at i:46465613 original size:27 final size:26
Alignment explanation
Indices: 46465570--46465639 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 26
46465560 ATAGAGGAAG
**
46465570 TACTG-TACTGGTGGCTTGGCCATAT-A
1 TACTGTTACTGGCAGCTTGG-C-TATGA
* *
46465596 TACTGTTACTGGCAGCTTTGCTGTGA
1 TACTGTTACTGGCAGCTTGGCTATGA
*
46465622 TACTGTTGCTGGCAGCTT
1 TACTGTTACTGGCAGCTT
46465640 TGCTGCGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 2 0.05
26 24 0.65
27 11 0.30
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTGGCTATGA
Found at i:46465624 original size:26 final size:26
Alignment explanation
Indices: 46465595--46465651 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
46465585 TTGGCCATAT
*
46465595 ATACTGTTACTGGCAGCTTTGCTGTG
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
46465621 ATACTGTTGCTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
46465647 ATACT
1 ATACT
46465652 ATTGATGGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:46465660 original size:26 final size:26
Alignment explanation
Indices: 46465605--46465660 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
46465595 ATACTGTTAC
* * *
46465605 TGGCAGCTTTGCTGTGATACTGTTGC
1 TGGCAGCTTTGCTGCGATACTATTGA
46465631 TGGCAGCTTTGCTGCGATACTATTGA
1 TGGCAGCTTTGCTGCGATACTATTGA
46465657 TGGC
1 TGGC
46465661 TTTGTGCCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.14, C:0.20, G:0.30, T:0.36
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCGATACTATTGA
Found at i:46465699 original size:32 final size:33
Alignment explanation
Indices: 46465654--46465841 Score: 242
Period size: 32 Copynumber: 5.8 Consensus size: 33
46465644 GCGATACTAT
*
46465654 TGATGGCTT-TGTGCCGATCATATTACCATTAC
1 TGATGGCTTGTGTGCCGATCATATTACTATTAC
* *
46465686 TGATGG-TTGTGTGCTGATCATATTACCATTAC
1 TGATGGCTTGTGTGCCGATCATATTACTATTAC
* * *
46465718 TGATGG-TTGTGTGCCTATTATATTACTACTAC
1 TGATGGCTTGTGTGCCGATCATATTACTATTAC
* *
46465750 TGATGGCTTTTGTGCCGATCATACTACTATTAC
1 TGATGGCTTGTGTGCCGATCATATTACTATTAC
* *
46465783 TAATGGC-TGTGTGCCGATCATATTACTACTAC
1 TGATGGCTTGTGTGCCGATCATATTACTATTAC
*
46465815 TGATGGCTT-TGTGCCAATCATATTACT
1 TGATGGCTTGTGTGCCGATCATATTACT
46465842 GTACTTGGGG
Statistics
Matches: 136, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
31 2 0.01
32 106 0.78
33 28 0.21
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (33 bp):
TGATGGCTTGTGTGCCGATCATATTACTATTAC
Found at i:46465794 original size:65 final size:65
Alignment explanation
Indices: 46465656--46465841 Score: 250
Period size: 65 Copynumber: 2.9 Consensus size: 65
46465646 GATACTATTG
* * * * * * *
46465656 ATGGCTTTGTGCCGATCATATTACCATTACTGATGG-TTGTGTGCTGATCATATTACCATTACTG
1 ATGGCTGTGTGCCGATCATATTACTACTACTGATGGCTTTTGTGCCGATCATATTACTATTACTA
* * * *
46465720 ATGGTTGTGTGCCTATTATATTACTACTACTGATGGCTTTTGTGCCGATCATACTACTATTACTA
1 ATGGCTGTGTGCCGATCATATTACTACTACTGATGGCTTTTGTGCCGATCATATTACTATTACTA
*
46465785 ATGGCTGTGTGCCGATCATATTACTACTACTGATGGC-TTTGTGCCAATCATATTACT
1 ATGGCTGTGTGCCGATCATATTACTACTACTGATGGCTTTTGTGCCGATCATATTACT
46465842 GTACTTGGGG
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
64 48 0.46
65 57 0.54
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (65 bp):
ATGGCTGTGTGCCGATCATATTACTACTACTGATGGCTTTTGTGCCGATCATATTACTATTACTA
Found at i:46465794 original size:97 final size:96
Alignment explanation
Indices: 46465648--46465841 Score: 273
Period size: 97 Copynumber: 2.0 Consensus size: 96
46465638 TTTGCTGCGA
* * * * *
46465648 TACTATTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGTTGTGTGCTGATCATATTACC
1 TACTACTGATGGCTTTGTGCCGATCATACTACCATTACTAATGGCTGTGTGCCGATCATATTACC
* * *
46465713 ATTACTGATGG-TTGTGTGCCTATTATATTAC
66 ACTACTGATGGCTT-TGTGCCAATCATATTAC
*
46465744 TACTACTGATGGCTTTTGTGCCGATCATACTACTATTACTAATGGCTGTGTGCCGATCATATTAC
1 TACTACTGATGGC-TTTGTGCCGATCATACTACCATTACTAATGGCTGTGTGCCGATCATATTAC
*
46465809 TACTACTGATGGCTTTGTGCCAATCATATTAC
65 CACTACTGATGGCTTTGTGCCAATCATATTAC
46465841 T
1 T
46465842 GTACTTGGGG
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
96 12 0.14
97 72 0.84
98 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (96 bp):
TACTACTGATGGCTTTGTGCCGATCATACTACCATTACTAATGGCTGTGTGCCGATCATATTACC
ACTACTGATGGCTTTGTGCCAATCATATTAC
Found at i:46479660 original size:23 final size:24
Alignment explanation
Indices: 46479607--46479660 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
46479597 GAAGTCTAAA
46479607 AAATAAAATAAAAACAAATAACAG
1 AAATAAAATAAAAACAAATAACAG
* ** *
46479631 AGA-AAAATAAAAGTAAA-AATAG
1 AAATAAAATAAAAACAAATAACAG
46479653 AAATAAAA
1 AAATAAAA
46479661 AATAAATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 6 0.25
23 16 0.67
24 2 0.08
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.13
Consensus pattern (24 bp):
AAATAAAATAAAAACAAATAACAG
Found at i:46493055 original size:28 final size:28
Alignment explanation
Indices: 46493004--46493085 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
46492994 CTGATACTGA
*
46493004 TTCTG-TAATGGGCTTAGG-TCCACCTGG
1 TTCTGTTAATGGGCTAAGGCT-CACCTGG
*
46493031 TTCTGTTAATGGTCTAAGGCTCACCTGG
1 TTCTGTTAATGGGCTAAGGCTCACCTGG
46493059 TTCTGTTAATGGGCTAAGGCTCACCTG
1 TTCTGTTAATGGGCTAAGGCTCACCTG
46493086 ATACTATGCC
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
27 5 0.10
28 44 0.88
29 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.27, T:0.34
Consensus pattern (28 bp):
TTCTGTTAATGGGCTAAGGCTCACCTGG
Found at i:46499162 original size:18 final size:18
Alignment explanation
Indices: 46499141--46499178 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
46499131 TTTATTTTTC
46499141 AATACTAATTTGACCCAA
1 AATACTAATTTGACCCAA
* *
46499159 AATACTTATTTTACCCAA
1 AATACTAATTTGACCCAA
46499177 AA
1 AA
46499179 ATTATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (18 bp):
AATACTAATTTGACCCAA
Found at i:46499668 original size:18 final size:18
Alignment explanation
Indices: 46499622--46499673 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
46499612 AAATGTAACA
*
46499622 ACTAAATTAA-AAAAATT
1 ACTAAATTAATAAAAATG
* **
46499639 ATTAAAAAAATAAAAATG
1 ACTAAATTAATAAAAATG
46499657 ACTAAATTAATAGAAAA
1 ACTAAATTAATA-AAAA
46499674 AAAAGTTTTC
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
17 7 0.27
18 15 0.58
19 4 0.15
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (18 bp):
ACTAAATTAATAAAAATG
Found at i:46505053 original size:61 final size:61
Alignment explanation
Indices: 46504978--46505117 Score: 210
Period size: 61 Copynumber: 2.3 Consensus size: 61
46504968 AAGAGAAGTA
** *
46504978 TACTAAATGTTAAGGAATGCCTTTGTGGTAAAACTCTGGACAGGAAAACATTTGTGGT-GAG
1 TACTAAATGTTAAGGAACACCTTTGGGGTAAAACTCTGGACAGGAAAACATTTGT-GTCGAG
* *
46505039 TACTAAATGTTAAGGAACACCTTTGGGGTAAAACTCTGGACAGGAAAGCCTTTGTGTCGAG
1 TACTAAATGTTAAGGAACACCTTTGGGGTAAAACTCTGGACAGGAAAACATTTGTGTCGAG
*
46505100 TATTAAATGTTAAGGAAC
1 TACTAAATGTTAAGGAAC
46505118 GTCTTTATGG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
60 2 0.03
61 70 0.97
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (61 bp):
TACTAAATGTTAAGGAACACCTTTGGGGTAAAACTCTGGACAGGAAAACATTTGTGTCGAG
Found at i:46506942 original size:7 final size:7
Alignment explanation
Indices: 46506872--46506941 Score: 86
Period size: 7 Copynumber: 10.0 Consensus size: 7
46506862 TAAAATTAAT
46506872 AATTGAG
1 AATTGAG
*
46506879 AATTGGG
1 AATTGAG
*
46506886 AATTTAG
1 AATTGAG
46506893 AATTGAG
1 AATTGAG
46506900 AATTGAG
1 AATTGAG
46506907 AATTGAG
1 AATTGAG
46506914 AATTGAG
1 AATTGAG
* *
46506921 GAGTGAG
1 AATTGAG
*
46506928 GATTGAG
1 AATTGAG
*
46506935 TATTGAG
1 AATTGAG
46506942 TTGAAAAGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 55 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (7 bp):
AATTGAG
Found at i:46517554 original size:18 final size:18
Alignment explanation
Indices: 46517528--46517589 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 18
46517518 TTATTATAAA
*
46517528 TTATGATAATTCCTATTT
1 TTATTATAATTCCTATTT
*
46517546 TTATTATAATT--TATATA
1 TTATTATAATTCCTAT-TT
*
46517563 TTGTTA-AATTCCTA-TT
1 TTATTATAATTCCTATTT
46517579 TTATTATAATT
1 TTATTATAATT
46517590 TACATACTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
16 13 0.37
17 10 0.29
18 12 0.34
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (18 bp):
TTATTATAATTCCTATTT
Found at i:46517603 original size:33 final size:34
Alignment explanation
Indices: 46517535--46517604 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
46517525 AAATTATGAT
* * *
46517535 AATTCCTATTTTTATTATAATTTATATATTGTTA
1 AATTCCTATTTTTATTATAATTTACATACTATTA
46517569 AATTCCTA-TTTTATTATAATTTACATACTATTA
1 AATTCCTATTTTTATTATAATTTACATACTATTA
46517602 AAT
1 AAT
46517605 AAATATATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 25 0.76
34 8 0.24
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.54
Consensus pattern (34 bp):
AATTCCTATTTTTATTATAATTTACATACTATTA
Found at i:46525066 original size:16 final size:15
Alignment explanation
Indices: 46525041--46525092 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
46525031 TTAAATTATT
46525041 ATTTAATATAAAATA
1 ATTTAATATAAAATA
**
46525056 ATTTAAATATAATTTA
1 ATTT-AATATAAAATA
*
46525072 TTTTTAATATAAATATA
1 -ATTTAATATAAA-ATA
46525089 ATTT
1 ATTT
46525093 TCAATTATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
15 4 0.14
16 19 0.68
17 5 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTAATATAAAATA
Found at i:46528676 original size:25 final size:25
Alignment explanation
Indices: 46528636--46528722 Score: 102
Period size: 25 Copynumber: 3.5 Consensus size: 25
46528626 ATTTATCTGG
*
46528636 AAAGCCTTTGTAGTGAATTCTCTAA
1 AAAGCCTTTGTGGTGAATTCTCTAA
* *
46528661 AAAGCCTCTGTGGTGAATTCTCTAG
1 AAAGCCTTTGTGGTGAATTCTCTAA
* ** *
46528686 AAATCCTTTGTGGCAAATCCTCTAA
1 AAAGCCTTTGTGGTGAATTCTCTAA
*
46528711 AAAGCCTATGTG
1 AAAGCCTTTGTG
46528723 ACTACCTCAT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (25 bp):
AAAGCCTTTGTGGTGAATTCTCTAA
Found at i:46534660 original size:20 final size:19
Alignment explanation
Indices: 46534635--46534760 Score: 81
Period size: 20 Copynumber: 6.3 Consensus size: 19
46534625 TTGTACGGGA
46534635 TTGCACTTCTGTGCCTCTGT
1 TTGCACTTC-GTGCCTCTGT
*
46534655 TTGCACTTTAGTGCCTCTGT
1 TTGCAC-TTCGTGCCTCTGT
** * *
46534675 TTATACTTCGATGTCTCTAT
1 TTGCACTTCG-TGCCTCTGT
* *
46534695 TTGCACTGCGGTGCCTCTGA
1 TTGCACTTC-GTGCCTCTGT
* * *
46534715 TTGCACAATCGTGCCTTTTT
1 TTGCAC-TTCGTGCCTCTGT
* *
46534735 TTACACATCAGTGCCTCTGT
1 TTGCACTTC-GTGCCTCTGT
46534755 TATGCA
1 T-TGCA
46534761 TTTATGATGC
Statistics
Matches: 79, Mismatches: 21, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
19 6 0.08
20 66 0.84
21 7 0.09
ACGTcount: A:0.14, C:0.26, G:0.18, T:0.41
Consensus pattern (19 bp):
TTGCACTTCGTGCCTCTGT
Found at i:46538997 original size:70 final size:70
Alignment explanation
Indices: 46538879--46539015 Score: 238
Period size: 70 Copynumber: 2.0 Consensus size: 70
46538869 CAAACATACT
*
46538879 TGATTAAATTTCATATCAAAACATTCCCTAAATGATCACTTTGCAAACATGCCAACACATACCAC
1 TGATTAAATTTCATATCAAAACATGCCCTAAATGATCACTTTGCAAACATGCCAACACATACCAC
46538944 TTTGG
66 TTTGG
* * *
46538949 TGATTAAATTTCATATCAAAACATGCCCTAAATGATCACTTTGTAAACATGCTAGCACATACCAC
1 TGATTAAATTTCATATCAAAACATGCCCTAAATGATCACTTTGCAAACATGCCAACACATACCAC
46539014 TT
66 TT
46539016 CGGCCATAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (70 bp):
TGATTAAATTTCATATCAAAACATGCCCTAAATGATCACTTTGCAAACATGCCAACACATACCAC
TTTGG
Found at i:46540513 original size:29 final size:29
Alignment explanation
Indices: 46540477--46540567 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 29
46540467 TTTTTAATCG
46540477 ATGGTCGAAACCATCCCTTTTCATATTCA
1 ATGGTCGAAACCATCCCTTTTCATATTCA
* * *
46540506 ATTGTCGAAGCCATCCCTTTTCATATTCG
1 ATGGTCGAAACCATCCCTTTTCATATTCA
**
46540535 ATGGTCGTCACCATCCCTTTTCATATTCA
1 ATGGTCGAAACCATCCCTTTTCATATTCA
46540564 ATGG
1 ATGG
46540568 GCGTCAATAC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.36
Consensus pattern (29 bp):
ATGGTCGAAACCATCCCTTTTCATATTCA
Found at i:46542644 original size:19 final size:19
Alignment explanation
Indices: 46542622--46542660 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
46542612 CACGGCCGTA
46542622 TGGAACCTCCAAGGCCATG
1 TGGAACCTCCAAGGCCATG
*
46542641 TGGAACCTCCAATGCCATG
1 TGGAACCTCCAAGGCCATG
46542660 T
1 T
46542661 AACTTTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (19 bp):
TGGAACCTCCAAGGCCATG
Found at i:46544775 original size:19 final size:19
Alignment explanation
Indices: 46544753--46544791 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
46544743 CACGGCCGTA
46544753 TGGAACCTCCAAGGCCATG
1 TGGAACCTCCAAGGCCATG
*
46544772 TGGAACCTCCAATGCCATG
1 TGGAACCTCCAAGGCCATG
46544791 T
1 T
46544792 AACTTTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (19 bp):
TGGAACCTCCAAGGCCATG
Found at i:46546987 original size:51 final size:51
Alignment explanation
Indices: 46546877--46546987 Score: 123
Period size: 51 Copynumber: 2.2 Consensus size: 51
46546867 AGGTTTGGTT
* * **
46546877 CACATAGTAGCCTGTACATAGTACTACACATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCATCCGATA
** * * * *
46546928 CATGTAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATTCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCATCCGATA
*
46546979 CGCATAGTA
1 CACATAGTA
46546988 CACATGCGAC
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCATCCGATA
Found at i:46549706 original size:20 final size:20
Alignment explanation
Indices: 46549637--46549706 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
46549627 ATAACAGAAG
*
46549637 CACCGAAGTGCTAAAAAGGG-
1 CACCGAAGTGC-AAACAGGGA
* *
46549657 CA-CAAATGTGCAAACAGGGG
1 CACCGAA-GTGCAAACAGGGA
* * *
46549677 CACTGTAGTGCGAACAGGGA
1 CACCGAAGTGCAAACAGGGA
46549697 CACCGAAGTG
1 CACCGAAGTG
46549707 TATTCAAAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 10 0.26
20 27 0.71
21 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.31, T:0.11
Consensus pattern (20 bp):
CACCGAAGTGCAAACAGGGA
Found at i:46549737 original size:20 final size:20
Alignment explanation
Indices: 46549714--46549751 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
46549704 GTGTATTCAA
* *
46549714 AGGCACCGAATTGCAAATAG
1 AGGCACCAAAGTGCAAATAG
46549734 AGGCACCAAAGTGCAAAT
1 AGGCACCAAAGTGCAAAT
46549752 CTAGTACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (20 bp):
AGGCACCAAAGTGCAAATAG
Found at i:46555010 original size:50 final size:50
Alignment explanation
Indices: 46554955--46555065 Score: 186
Period size: 50 Copynumber: 2.2 Consensus size: 50
46554945 GAGAAAGAAA
*
46554955 GAAAATTGAAGAGAAAAGAGGAGAGGAAGAGGGCGAACGGCTAGGGTAGG
1 GAAAATTGAAGAGAAAAGAGGAGAGGAAGAGGGCGAACGGCTAGGATAGG
* *
46555005 GAAAATTGAAGAGAAAAGAGGAGAGGAAGAGGGTGAATGGCTAGGATAGG
1 GAAAATTGAAGAGAAAAGAGGAGAGGAAGAGGGCGAACGGCTAGGATAGG
46555055 GAAAAATTGAA
1 G-AAAATTGAA
46555066 TTAAAGGCTG
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 48 0.84
51 9 0.16
ACGTcount: A:0.45, C:0.04, G:0.41, T:0.11
Consensus pattern (50 bp):
GAAAATTGAAGAGAAAAGAGGAGAGGAAGAGGGCGAACGGCTAGGATAGG
Found at i:46556017 original size:34 final size:34
Alignment explanation
Indices: 46555947--46556021 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
46555937 AATGCCAGTA
* ** *
46555947 ATCAGTAGGGCCTTTGCCCAATTTCAATAATAAT
1 ATCAGTAGGGCCTTGGCCCAATAACAATAACAAT
*
46555981 ATCAGTGGGGCCTTGGCCC-ATAACAATAACATAT
1 ATCAGTAGGGCCTTGGCCCAATAACAATAACA-AT
46556015 ATCAGTA
1 ATCAGTA
46556022 ATGTAGTGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 9 0.26
34 25 0.74
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (34 bp):
ATCAGTAGGGCCTTGGCCCAATAACAATAACAAT
Found at i:46556503 original size:27 final size:27
Alignment explanation
Indices: 46556481--46556870 Score: 442
Period size: 27 Copynumber: 14.4 Consensus size: 27
46556471 GAGGTATAAC
46556481 AGTCATTTTACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTT
* * *
46556508 GGTCATTTTAACCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTT
* *
46556535 AGTCATTTTATCCTATAGGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTT
* *
46556562 AGTCATTTTACCCTATAGAGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTT
* *
46556589 GGTCATTTTACCCTATAGGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTT
* * **
46556616 AGCCATTTTACCTTATAAGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTT
*
46556643 AGTCATTTTA-CCTGATGCGGGTATTTT
1 AGTCATTTTACCCT-ATGGGGGTATTTT
* *
46556670 AGTCATTTTACCCTATAGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTT
* * * * * *
46556697 AATCATTCTATCTTATGAGGGCATTTT
1 AGTCATTTTACCCTATGGGGGTATTTT
* *
46556724 AGTCATTTTACCCTATGAGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTT
*
46556751 GGTCATTTTACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTT
* * *
46556778 TGTCATTTTATCTTATGGGGGTA-TTT
1 AGTCATTTTACCCTATGGGGGTATTTT
* * *
46556804 CGATCATTTTACCCTGTGGAGGTATTTT
1 AG-TCATTTTACCCTATGGGGGTATTTT
* *
46556832 GGTCATTTTACCCTATGGAGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTT
*
46556859 GGTCATTTTACC
1 AGTCATTTTACC
46556871 TATTTTGGGG
Statistics
Matches: 310, Mismatches: 49, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
26 6 0.02
27 297 0.96
28 7 0.02
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.44
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTATTTT
Found at i:46568362 original size:2 final size:2
Alignment explanation
Indices: 46568355--46568401 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
46568345 TTTGAATAAA
*
46568355 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
46568397 TC TC T
1 TC TC T
46568402 TTTAAAACAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:46572338 original size:23 final size:22
Alignment explanation
Indices: 46572295--46572352 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
46572285 AAAGGGTATC
* *
46572295 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
46572316 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
46572339 TGCATATCATATCT
1 TACAAATCATATCT
46572353 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:46572368 original size:21 final size:21
Alignment explanation
Indices: 46572331--46572385 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
46572321 AATCATATCT
46572331 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
46572350 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
*
46572371 TCTAAGATTACATAT
1 TCTAAGATTGCATAT
46572386 CCTTGAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 11 0.33
21 22 0.67
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:46572998 original size:44 final size:44
Alignment explanation
Indices: 46572941--46573190 Score: 186
Period size: 44 Copynumber: 5.7 Consensus size: 44
46572931 ATGTGATCTA
* ** *
46572941 CTCCACTGTAACTTCAGATAGATAAGATCT-GTGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAGTGGCTTTAATCCG
* * * *
46572985 TTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTGGCTTTAATCCG
* * *** * * *
46573029 CTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAG-TGGCTTTAATCCG
** * *
46573074 C-CTCACTGCAACTTCA-GGAGGATAAGACTT-GATTAC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTAG-TGGCTTTAATCCG
* * * *
46573118 CTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTATTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTGGCTTTAATCCG
*
46573162 CTCCACTACAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
46573191 CGCCATCTTC
Statistics
Matches: 166, Mismatches: 31, Indels: 18
0.77 0.14 0.08
Matches are distributed among these distances:
43 5 0.03
44 125 0.75
45 34 0.20
46 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAGTGGCTTTAATCCG
Found at i:46573284 original size:50 final size:50
Alignment explanation
Indices: 46573230--46573386 Score: 154
Period size: 50 Copynumber: 3.1 Consensus size: 50
46573220 TCGGGGAAAC
* * * *
46573230 AAGATTCTCCATCGTGGCTTCAATCTGTTCCACTACACTGCCAGGGAAGT
1 AAGATTCGCCATTGTGGCTTCAATCTATTCCATTACACTGCCAGGGAAGT
* * * ** * * ** *
46573280 AAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTAGGGAAAT
1 AAGATTCGCCATTGTGGCTTCAATCTATTCCATTACACTGCCAGGGAAGT
* *
46573330 AAGATTCGCCATTGTAGCTTCAATCTATTCCATTACACCGCCAGAGG-AGT
1 AAGATTCGCCATTGTGGCTTCAATCTATTCCATTACACTGCCAG-GGAAGT
46573380 AAGATTC
1 AAGATTC
46573387 ACTGTCGTGG
Statistics
Matches: 81, Mismatches: 25, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
50 79 0.98
51 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (50 bp):
AAGATTCGCCATTGTGGCTTCAATCTATTCCATTACACTGCCAGGGAAGT
Found at i:46573350 original size:100 final size:100
Alignment explanation
Indices: 46573205--46573386 Score: 258
Period size: 100 Copynumber: 1.8 Consensus size: 100
46573195 ATCTTCAGTA
* * * * *
46573205 TTTTAAATTGCAATGTCGGGGAAACAAGATTCTCCATCGTGGCTTCAATCTGTTCCACTACACTG
1 TTTTAAATTGCAATGTCAGGGAAACAAGATTCGCCATCGTAGCTTCAATCTATTCCACTACACCG
46573270 CCAG-GGAAGTAAGATTCGCCGTTGCGGCTTCAATC
66 CCAGAGG-AGTAAGATTCGCCGTTGCGGCTTCAATC
* * * * *
46573305 TTTTTAATTGCAATGTTAGGGAAATAAGATTCGCCATTGTAGCTTCAATCTATTCCATTACACCG
1 TTTTAAATTGCAATGTCAGGGAAACAAGATTCGCCATCGTAGCTTCAATCTATTCCACTACACCG
46573370 CCAGAGGAGTAAGATTC
66 CCAGAGGAGTAAGATTC
46573387 ACTGTCGTGG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
100 69 0.97
101 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (100 bp):
TTTTAAATTGCAATGTCAGGGAAACAAGATTCGCCATCGTAGCTTCAATCTATTCCACTACACCG
CCAGAGGAGTAAGATTCGCCGTTGCGGCTTCAATC
Found at i:46573475 original size:45 final size:45
Alignment explanation
Indices: 46573425--46573566 Score: 178
Period size: 45 Copynumber: 3.2 Consensus size: 45
46573415 TAATGCTAAA
* ** *
46573425 GAGATAAGACTTTGTGATTTTCAACCTATTTTACTGCTGATCAGG
1 GAGATAGGACTTTGTGATTTTCAACCTATTCCACTGCTGACCAGG
**** *
46573470 GAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTGACCAGG
1 GAGATAGGACTTTGTGATTTTCAACCTATTCCACTGCTGACCAGG
* *
46573514 GAGATAGGACTTTGTGATTTTCAACCTATTCCACTGCTGACTAGA
1 GAGATAGGACTTTGTGATTTTCAACCTATTCCACTGCTGACCAGG
46573559 GAGATAGG
1 GAGATAGG
46573567 GCTGGGGTCA
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
44 36 0.45
45 44 0.55
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (45 bp):
GAGATAGGACTTTGTGATTTTCAACCTATTCCACTGCTGACCAGG
Found at i:46573694 original size:88 final size:88
Alignment explanation
Indices: 46573566--46574064 Score: 730
Period size: 88 Copynumber: 5.7 Consensus size: 88
46573556 AGAGAGATAG
* * * * * *
46573566 GGCTGGGGTCATCGATCTGTTTCACTGTCAGTGTAGGAAGGCTAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
46573631 TCCGCTGCAACTCAAGGAGGCAA
66 TCCGCTGCAACCCAAGGAGGCAA
* * *
46573654 GGCTAGTGTCTTCGATCTACTTCACTGTCGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
46573719 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAAGGAGGCAA
* * ** *
46573742 GGCTGGTGTCTTCGAACTACTTTGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
46573807 TCTGCTACAACCCAAGGAGGCAA
66 TCCGCTGCAACCCAAGGAGGCAA
* * *
46573830 GGCTGGTGTCTTCGATATGCTTCGCTGTCGGTGCAGGAAGGTAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
46573895 TCCGCTACAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAAGGAGGCAA
*
46573918 GGCTGGTGT-TTTGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTTAACCTG
1 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTTTAACCTG
* *
46573982 CTCCGCTGCAACCTAAAGAGGCAA
65 CTCCGCTGCAACCCAAGGAGGCAA
**
46574006 GGCTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
1 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
46574065 CTGATCTACT
Statistics
Matches: 370, Mismatches: 39, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
87 39 0.11
88 291 0.79
89 40 0.11
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAAGGAGGCAA
Found at i:46583122 original size:21 final size:21
Alignment explanation
Indices: 46583092--46583131 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46583082 AATCAATACG
*
46583092 TCACATCCAATGCATTAGGAC
1 TCACACCCAATGCATTAGGAC
*
46583113 TCACACCCAATGCGTTAGG
1 TCACACCCAATGCATTAGG
46583132 GCACGATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (21 bp):
TCACACCCAATGCATTAGGAC
Found at i:46583296 original size:242 final size:243
Alignment explanation
Indices: 46582870--46583354 Score: 857
Period size: 242 Copynumber: 2.0 Consensus size: 243
46582860 AAAGAAAATG
46582870 TCACACCCAATGCGTTAGGGCACGATATTTTATTTTTTTCAAGATAAGTTTGTCCAAAAGACTTG
1 TCACACCCAATGCGTTAGGGCACGATATTTTATTTTTTTCAAGATAAGTTTGTCCAAAAGACTTG
46582935 TGTGATAAAATTTAAAAGAATATTCAAGTGTTTAAGATTTATGACGAAACCGCAACCCAATACGT
66 TGTGATAAAATTTAAAAGAATATTCAAGTGTTTAAGATTTATGACGAAACCGCAACCCAATACGT
*
46583000 TAGGGCACAATTTCTCAACATCCCAAACATTAAATATTTCCTTTATTAATATATAT-TTTTTAAA
131 TAGGGCACAATTTCTCAACACCCCAAACATTAAATATTTCCTTTATTAATATATATATTTTTAAA
* *
46583064 AATATCTTTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGAC
196 AA-ATCATTGTCTCAAGAAATCAATACGTCACATCCAATGCATTAGGAC
* *
46583113 TCACACCCAATGCGTTAGGGCACGATATTTTA-TTTTTTCAAGATGAGTTTGTCCAAAAGATTTG
1 TCACACCCAATGCGTTAGGGCACGATATTTTATTTTTTTCAAGATAAGTTTGTCCAAAAGACTTG
* * *
46583177 TGTGATAAAATTTAAAATAATATTCAAGTGTTTAAGATTTATGACGAAACTGCAGCCCAATACGT
66 TGTGATAAAATTTAAAAGAATATTCAAGTGTTTAAGATTTATGACGAAACCGCAACCCAATACGT
*
46583242 TAGGGCACAATTTCTCAACACCCCAAACATTAAATATTTTCTTTATTAATATATATATTTTTAAA
131 TAGGGCACAATTTCTCAACACCCCAAACATTAAATATTTCCTTTATTAATATATATATTTTTAAA
*
46583307 AAATCATTGTCTCAAGAAATCAATACGTCACATCCAATGCGTTAGGAC
196 AAATCATTGTCTCAAGAAATCAATACGTCACATCCAATGCATTAGGAC
46583355 ACAACATATT
Statistics
Matches: 231, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
242 189 0.82
243 42 0.18
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (243 bp):
TCACACCCAATGCGTTAGGGCACGATATTTTATTTTTTTCAAGATAAGTTTGTCCAAAAGACTTG
TGTGATAAAATTTAAAAGAATATTCAAGTGTTTAAGATTTATGACGAAACCGCAACCCAATACGT
TAGGGCACAATTTCTCAACACCCCAAACATTAAATATTTCCTTTATTAATATATATATTTTTAAA
AAATCATTGTCTCAAGAAATCAATACGTCACATCCAATGCATTAGGAC
Found at i:46584607 original size:21 final size:21
Alignment explanation
Indices: 46584572--46584625 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
46584562 TCATATCTTT
46584572 TAAGATTGC--ATATCATATC
1 TAAGATTGCATATATCATATC
46584591 TAAGATTGCATATATCATATC
1 TAAGATTGCATATATCATATC
46584612 TAAGATT--ATATATC
1 TAAGATTGCATATATC
46584626 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.48
21 17 0.52
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (21 bp):
TAAGATTGCATATATCATATC
Found at i:46584622 original size:19 final size:19
Alignment explanation
Indices: 46584547--46584625 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 19
46584537 AAATTAAATC
*
46584547 TCTAAGATTATAAAATCATA
1 TCTAAGATTAT-ATATCATA
**
46584567 TCTTTTAAGATTGCATATCATA
1 TC---TAAGATTATATATCATA
46584589 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ATATATCATA
46584610 TCTAAGATTATATATC
1 TCTAAGATTATATATC
46584626 CTTGAAGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 14 0.29
20 2 0.04
21 17 0.35
22 9 0.18
23 7 0.14
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (19 bp):
TCTAAGATTATATATCATA
Found at i:46595015 original size:48 final size:48
Alignment explanation
Indices: 46594944--46595040 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
46594934 TATGAGTATG
46594944 TTTCTTGGATTATTATATAATAGTTACAACATTACTCATAGTGATAAC
1 TTTCTTGGATTATTATATAATAGTTACAACATTACTCATAGTGATAAC
46594992 TTTCTTGGATTATTATATAATAGTTACAACATTACTCATAGTGATAAC
1 TTTCTTGGATTATTATATAATAGTTACAACATTACTCATAGTGATAAC
46595040 T
1 T
46595041 ATGTATACGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (48 bp):
TTTCTTGGATTATTATATAATAGTTACAACATTACTCATAGTGATAAC
Found at i:46595181 original size:24 final size:23
Alignment explanation
Indices: 46595150--46595270 Score: 88
Period size: 24 Copynumber: 5.1 Consensus size: 23
46595140 AGACTGATGT
*
46595150 TGGGTATGCCACAATCTATGTAG
1 TGGGTATGCTACAATCTATGTAG
* *
46595173 TGGGATATGCTATAAAGACTGATGT--
1 TGGG-TATGCTA-CAA-TCT-ATGTAG
*
46595198 TGGGTATGCCACAATCTATGTAG
1 TGGGTATGCTACAATCTATGTAG
* *
46595221 TGGGATATGCTATAAAGACTGATGT--
1 TGGG-TATGCTA-CAA-TCT-ATGTAG
46595246 TGGGTATGCTACAATCTATGTAG
1 TGGGTATGCTACAATCTATGTAG
46595269 TG
1 TG
46595271 AGATATGATT
Statistics
Matches: 75, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
21 8 0.11
22 4 0.05
23 14 0.19
24 25 0.33
25 12 0.16
26 4 0.05
27 8 0.11
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.32
Consensus pattern (23 bp):
TGGGTATGCTACAATCTATGTAG
Found at i:46595205 original size:48 final size:48
Alignment explanation
Indices: 46595134--46595277 Score: 270
Period size: 48 Copynumber: 3.0 Consensus size: 48
46595124 AAAGGTTGTA
46595134 CTATAAAGACTGATGTTGGGTATGCCACAATCTATGTAGTGGGATATG
1 CTATAAAGACTGATGTTGGGTATGCCACAATCTATGTAGTGGGATATG
46595182 CTATAAAGACTGATGTTGGGTATGCCACAATCTATGTAGTGGGATATG
1 CTATAAAGACTGATGTTGGGTATGCCACAATCTATGTAGTGGGATATG
* *
46595230 CTATAAAGACTGATGTTGGGTATGCTACAATCTATGTAGTGAGATATG
1 CTATAAAGACTGATGTTGGGTATGCCACAATCTATGTAGTGGGATATG
46595278 ATTGATCAAG
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 94 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (48 bp):
CTATAAAGACTGATGTTGGGTATGCCACAATCTATGTAGTGGGATATG
Found at i:46599725 original size:20 final size:21
Alignment explanation
Indices: 46599685--46599729 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
46599675 AGTCCATAAA
46599685 ATCACATTTCATAATCTCAAT
1 ATCACATTTCATAATCTCAAT
46599706 ATCACATTTCATAA-CTCAAT
1 ATCACATTTCATAATCTCAAT
46599726 ATCA
1 ATCA
46599730 AATTCACTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (21 bp):
ATCACATTTCATAATCTCAAT
Found at i:46599742 original size:37 final size:36
Alignment explanation
Indices: 46599701--46599792 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 36
46599691 TTTCATAATC
*
46599701 TCAATATCACATTTCAT-AACTCAATATCAAATTCACT
1 TCAATATC-CA-TTAATCAACTCAATATCAAATTCACT
* *
46599738 TCAATTATCTATTAATCAACTCAGTATCAAATTCACT
1 TCAA-TATCCATTAATCAACTCAATATCAAATTCACT
*
46599775 TCAATTATCTATTAATCA
1 TCAA-TATCCATTAATCA
46599793 TTCATTAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
36 4 0.08
37 42 0.84
38 4 0.08
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.38
Consensus pattern (36 bp):
TCAATATCCATTAATCAACTCAATATCAAATTCACT
Found at i:46611901 original size:50 final size:53
Alignment explanation
Indices: 46611790--46611928 Score: 167
Period size: 56 Copynumber: 2.6 Consensus size: 53
46611780 ATTTGGGTAA
* * *
46611790 AGAGATCCCATGTAAGACCATGTTTGGGACATGGAATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGAATTAGCATCC-TGAGA--ATG
**
46611846 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCA-CC-GAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGAATTAGCATCCTGAGAATG
**
46611896 AGAGGTCCCCCGTAAGACCATGTCTGGGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATG
46611929 ACTTTGGCAT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
50 34 0.45
53 3 0.04
55 2 0.03
56 37 0.49
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (53 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGAATTAGCATCCTGAGAATG
Found at i:46622428 original size:28 final size:28
Alignment explanation
Indices: 46622338--46622409 Score: 135
Period size: 28 Copynumber: 2.6 Consensus size: 28
46622328 ATGATAGTAC
*
46622338 AGTGTGGGCCCTAGCCCGATACAGTAAT
1 AGTGTGGGCCTTAGCCCGATACAGTAAT
46622366 AGTGTGGGCCTTAGCCCGATACAGTAAT
1 AGTGTGGGCCTTAGCCCGATACAGTAAT
46622394 AGTGTGGGCCTTAGCC
1 AGTGTGGGCCTTAGCC
46622410 TATTACAGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCGATACAGTAAT
Found at i:46622843 original size:26 final size:26
Alignment explanation
Indices: 46622766--46622852 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
46622756 TTATAATAGA
* * *
46622766 CATTTTACCCTATGGGGGTATTTCAGC
1 CATTTTACCCT-TTGGGGTATTTCGGT
46622793 CATTTTACCCTTTGGGGGTATTTCGGT
1 CATTTTACCCTTT-GGGGTATTTCGGT
* *
46622820 CATTTCACCCTTTGGGGTATTTCGAT
1 CATTTTACCCTTTGGGGTATTTCGGT
46622846 CATTTTA
1 CATTTTA
46622853 TTGACCCCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 19 0.36
27 34 0.64
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.43
Consensus pattern (26 bp):
CATTTTACCCTTTGGGGTATTTCGGT
Found at i:46624587 original size:25 final size:24
Alignment explanation
Indices: 46624541--46624597 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
46624531 TCCTGTACAT
46624541 GTATGCTCATACGAGCTCTAAATCA
1 GTATGCTCATACGAGCTCTAAA-CA
** * *
46624566 GTATGCTTTTACGAGTTGTAAACA
1 GTATGCTCATACGAGCTCTAAACA
*
46624590 GTAAGCTC
1 GTATGCTC
46624598 CTTTGAGCTG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (24 bp):
GTATGCTCATACGAGCTCTAAACA
Found at i:46624630 original size:25 final size:26
Alignment explanation
Indices: 46624602--46624667 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 26
46624592 AAGCTCCTTT
*
46624602 GAGCTGAAAAAT-GGTAAGCTCATGC
1 GAGCTGAAAAATCGGTAAGCTCATAC
** *
46624627 GAGCTG-AGTATCGGTAAGCTCATAT
1 GAGCTGAAAAATCGGTAAGCTCATAC
46624652 GAGCTG--AAATCGGTAA
1 GAGCTGAAAAATCGGTAA
46624668 CCCTAATGAC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 11 0.32
25 23 0.68
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (26 bp):
GAGCTGAAAAATCGGTAAGCTCATAC
Found at i:46641540 original size:21 final size:21
Alignment explanation
Indices: 46641516--46641568 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
46641506 AGACCAAGAT
46641516 ACACGACCATGTA-ACTGAGGG
1 ACACGACC-TGTAGACTGAGGG
*
46641537 ACAC-ACCTGTATGGCTGAGGG
1 ACACGACCTGTA-GACTGAGGG
46641558 ACACG-CCTGTA
1 ACACGACCTGTA
46641569 TGATAGGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.14
20 3 0.11
21 21 0.75
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.17
Consensus pattern (21 bp):
ACACGACCTGTAGACTGAGGG
Found at i:46641569 original size:21 final size:21
Alignment explanation
Indices: 46641530--46641570 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
46641520 GACCATGTAA
46641530 CTGAGGGACACACCTGTATGG
1 CTGAGGGACACACCTGTATGG
*
46641551 CTGAGGGACACGCCTGTATG
1 CTGAGGGACACACCTGTATG
46641571 ATAGGGGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.34, T:0.20
Consensus pattern (21 bp):
CTGAGGGACACACCTGTATGG
Found at i:46647266 original size:29 final size:29
Alignment explanation
Indices: 46647224--46647281 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
46647214 AATACATGAA
46647224 GGGTTAGTCACAGAGAGGTTATGTCGAAT
1 GGGTTAGTCACAGAGAGGTTATGTCGAAT
46647253 GGGTTAGTCACAGAGAGGTTATGTCGAAT
1 GGGTTAGTCACAGAGAGGTTATGTCGAAT
46647282 CATGACTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.10, G:0.34, T:0.28
Consensus pattern (29 bp):
GGGTTAGTCACAGAGAGGTTATGTCGAAT
Found at i:46648512 original size:29 final size:29
Alignment explanation
Indices: 46648470--46648527 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
46648460 AATACATGAA
46648470 GGGTTAGTCACAGAGAGGTTATGTCGAAT
1 GGGTTAGTCACAGAGAGGTTATGTCGAAT
46648499 GGGTTAGTCACAGAGAGGTTATGTCGAAT
1 GGGTTAGTCACAGAGAGGTTATGTCGAAT
46648528 CATGACTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.10, G:0.34, T:0.28
Consensus pattern (29 bp):
GGGTTAGTCACAGAGAGGTTATGTCGAAT
Found at i:46651743 original size:16 final size:16
Alignment explanation
Indices: 46651722--46651765 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
46651712 ACTATTGAAG
46651722 CATATGGAACCTTACT
1 CATATGGAACCTTACT
**
46651738 CATAT-GCTCTCTTACT
1 CATATGGAAC-CTTACT
46651754 CATATGGAACCT
1 CATATGGAACCT
46651766 GATGTGGTCG
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
15 2 0.09
16 18 0.82
17 2 0.09
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.34
Consensus pattern (16 bp):
CATATGGAACCTTACT
Found at i:46657338 original size:26 final size:27
Alignment explanation
Indices: 46657303--46657353 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
46657293 ACCATAGCAC
46657303 AAATCAGTCATTTACCCTCGAGGGGCA
1 AAATCAGTCATTTACCCTCGAGGGGCA
* *
46657330 AAAT-AGTCATTTACCTTCTAGGGG
1 AAATCAGTCATTTACCCTCGAGGGG
46657354 AATTACGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCGAGGGGCA
Found at i:46660166 original size:48 final size:46
Alignment explanation
Indices: 46660060--46660174 Score: 135
Period size: 46 Copynumber: 2.4 Consensus size: 46
46660050 TCAAATTTGA
** *
46660060 AAAACTCTTTTAAATAATAATTTAATTTTTTTAATTATCTTTTTTT
1 AAAACTCTTTTAAATAATAATGAAATTTTTTTAATTATCTTTTTCT
*
46660106 AAAACTCTTTTAAATATTAATGAAATTCTGTTTTAATTAT-TATTTATCT
1 AAAACTCTTTTAAATAATAATGAAATT-T-TTTTAATTATCT-TTT-TCT
46660155 AAAACTC-TTTAAATTAATAA
1 AAAACTCTTTTAAA-TAATAA
46660175 CAATTATTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
46 24 0.41
47 2 0.03
48 19 0.32
49 14 0.24
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (46 bp):
AAAACTCTTTTAAATAATAATGAAATTTTTTTAATTATCTTTTTCT
Found at i:46660181 original size:33 final size:34
Alignment explanation
Indices: 46660144--46660209 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
46660134 TGTTTTAATT
46660144 ATTATTT-ATCTAAAACTC-TTTAAATTAATAACA
1 ATTATTTAATCTAAAACTCTTTTAAA-TAATAACA
46660177 ATTATTTAATCTAAAACTCTTTTAAATAATAAC
1 ATTATTTAATCTAAAACTCTTTTAAATAATAAC
46660210 TAAATTCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 7 0.23
34 18 0.58
35 6 0.19
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (34 bp):
ATTATTTAATCTAAAACTCTTTTAAATAATAACA
Found at i:46669880 original size:54 final size:54
Alignment explanation
Indices: 46669822--46670000 Score: 164
Period size: 56 Copynumber: 3.1 Consensus size: 54
46669812 AGTATTGTAT
46669822 ATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
* ** * * *
46669876 ATTATATATTTTTATTAAATT-ATATTTAATAATAATT-ATATTAAATTATATTTTATAGTATTG
1 ATTAT-GA-TTTTAGAAAATTCATA--TAAGAATATTTAATATT-AA-GA-ATTTTAT--TA---
46669939 TA
54 -A
46669941 TATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 -ATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
46669996 ATTAT
1 ATTAT
46670001 ATATTTTTAT
Statistics
Matches: 97, Mismatches: 12, Indels: 32
0.69 0.09 0.23
Matches are distributed among these distances:
54 10 0.10
55 5 0.05
56 15 0.15
57 11 0.11
58 1 0.01
59 9 0.09
61 9 0.09
62 1 0.01
63 11 0.11
64 15 0.15
65 5 0.05
66 5 0.05
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (54 bp):
ATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
Found at i:46669918 original size:120 final size:120
Alignment explanation
Indices: 46669705--46670040 Score: 636
Period size: 120 Copynumber: 2.8 Consensus size: 120
46669695 TTCTTTTTAC
** *
46669705 ATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAAATTATATATTTTTA
1 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
46669770 TTAAATTATATTTAATAATAATTATATTAAATTATATTTTATAGTATTGTATATT
66 TTAAATTATATTTAATAATAATTATATTAAATTATATTTTATAGTATTGTATATT
46669825 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
1 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
46669890 TTAAATTATATTTAATAATAATTATATTAAATTATATTTTATAGTATTGTATATT
66 TTAAATTATATTTAATAATAATTATATTAAATTATATTTTATAGTATTGTATATT
46669945 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
1 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
*
46670010 TTAAATTATATTTAATAATAATTATGTTAAA
66 TTAAATTATATTTAATAATAATTATATTAAA
46670041 ATATGATTAA
Statistics
Matches: 212, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 212 1.00
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (120 bp):
ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
TTAAATTATATTTAATAATAATTATATTAAATTATATTTTATAGTATTGTATATT
Found at i:46670280 original size:16 final size:16
Alignment explanation
Indices: 46670253--46670322 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
46670243 TTGATTTGCT
*
46670253 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
46670269 ATTACACATCTATTCC
1 ATTACACCTCTATTCC
*
46670285 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
46670301 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
46670317 AATACA
1 ATTACA
46670323 GCGAACTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.26, C:0.34, G:0.04, T:0.36
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:46670294 original size:32 final size:32
Alignment explanation
Indices: 46670253--46670317 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
46670243 TTGATTTGCT
46670253 ATTACGCCTCTATTCCATTACACATCTATTCC
1 ATTACGCCTCTATTCCATTACACATCTATTCC
* *
46670285 ATTACGCCTCTATTCCATTACGCCTCTATTCC
1 ATTACGCCTCTATTCCATTACACATCTATTCC
46670317 A
1 A
46670318 ATACAGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.35, G:0.05, T:0.37
Consensus pattern (32 bp):
ATTACGCCTCTATTCCATTACACATCTATTCC
Found at i:46671396 original size:26 final size:26
Alignment explanation
Indices: 46671365--46671445 Score: 78
Period size: 26 Copynumber: 3.1 Consensus size: 26
46671355 GTTTTAATAA
46671365 TAATTTAAATTCTATTTAATTATATT
1 TAATTTAAATTCTATTTAATTATATT
* * *
46671391 TAATTTAAAACTCT-TTTAAATA-ATGA
1 TAATTT-AAATTCTATTTAATTATAT-T
46671417 TAA-TTAAATTCTATTTCAATTATTATT
1 TAATTTAAATTCTATTT-AATTA-TATT
46671444 TA
1 TA
46671446 TCTAAAACTC
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
24 6 0.14
25 7 0.16
26 20 0.47
27 8 0.19
28 2 0.05
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.52
Consensus pattern (26 bp):
TAATTTAAATTCTATTTAATTATATT
Found at i:46671413 original size:49 final size:47
Alignment explanation
Indices: 46671348--46671489 Score: 178
Period size: 52 Copynumber: 2.9 Consensus size: 47
46671338 TTGAATTTTA
*
46671348 AAAACTCGTTTT-AATAATAATTTAAATTCTATTTAATTATATTTAATTT
1 AAAACTC-TTTTAAATAATAA-TTAAATTCTATTTAATTATATTT-ATCT
46671397 AAAACTCTTTTAAATAATGATAATTAAATTCTATTTCAATTATTATTTATCT
1 AAAACTCTTTTAAAT-A--ATAATTAAATTCTATTT-AATTA-TATTTATCT
* *
46671449 AAAACTCTTTTAAATAATAACTAAATTCTATTTACTTATAT
1 AAAACTCTTTTAAATAATAATTAAATTCTATTTAATTATAT
46671490 GATAAGGAAT
Statistics
Matches: 84, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
47 3 0.04
48 8 0.10
49 26 0.31
50 1 0.01
51 14 0.17
52 27 0.32
53 5 0.06
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.48
Consensus pattern (47 bp):
AAAACTCTTTTAAATAATAATTAAATTCTATTTAATTATATTTATCT
Found at i:46671452 original size:52 final size:50
Alignment explanation
Indices: 46671348--46671489 Score: 177
Period size: 49 Copynumber: 2.9 Consensus size: 50
46671338 TTGAATTTTA
* *
46671348 AAAACTCGTTTT-AATAATA-ATTTAAATTCTATTTAATTATATTTAATTT
1 AAAACTC-TTTTAAATAATATAATTAAATTCTATTTAATTATATTTAATCT
46671397 AAAACTCTTTTAAATAATGATAATTAAATTCTATTTCAATTATTATTT-ATCT
1 AAAACTCTTTTAAATAAT-ATAATTAAATTCTATTT-AATTA-TATTTAATCT
* *
46671449 AAAACTCTTTTAAAT-A-ATAACTAAATTCTATTTACTTATAT
1 AAAACTCTTTTAAATAATATAATTAAATTCTATTTAATTATAT
46671490 GATAAGGAAT
Statistics
Matches: 84, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
47 3 0.04
48 8 0.10
49 29 0.35
50 1 0.01
51 15 0.18
52 23 0.27
53 5 0.06
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.48
Consensus pattern (50 bp):
AAAACTCTTTTAAATAATATAATTAAATTCTATTTAATTATATTTAATCT
Found at i:46671553 original size:94 final size:95
Alignment explanation
Indices: 46671429--46671609 Score: 292
Period size: 94 Copynumber: 1.9 Consensus size: 95
46671419 ATTAAATTCT
* *
46671429 ATTTCAATTATTATTTATCTAAAACTCTTTTAAATAATAACTAAATTCTATTTACTTATATGATA
1 ATTTCAATTATTATTTATCTAAAACTCTTTTAAATAATAACTAAATTCTATCTACTCATATGATA
46671494 AGGAATATATCAAAT-CCTTTTGCTTTTGA
66 AGGAATATATCAAATCCCTTTTGCTTTTGA
* * * * *
46671523 ATTTTAATTATTCTTTATCTAAAACTCTTTTAAATAATAATTAAATTCTATCTCCTCATCTGATA
1 ATTTCAATTATTATTTATCTAAAACTCTTTTAAATAATAACTAAATTCTATCTACTCATATGATA
46671588 AGGAATATATCAAATCCCTTTT
66 AGGAATATATCAAATCCCTTTT
46671610 TTTATCTCGT
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
94 73 0.92
95 6 0.08
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.45
Consensus pattern (95 bp):
ATTTCAATTATTATTTATCTAAAACTCTTTTAAATAATAACTAAATTCTATCTACTCATATGATA
AGGAATATATCAAATCCCTTTTGCTTTTGA
Found at i:46677221 original size:28 final size:28
Alignment explanation
Indices: 46677179--46677301 Score: 160
Period size: 28 Copynumber: 4.4 Consensus size: 28
46677169 CTATTCAGTG
*
46677179 ACAGT-ACAGTGTGGGCCTTAGCCTAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
46677206 ACAGTGACAGTATGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
**
46677234 GTAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
46677262 ACAG-AATCAATGCGGGCCTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
46677290 ACAGTAACAGTG
1 ACAGTAACAGTG
46677302 CAATGCAATA
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
27 7 0.09
28 73 0.89
29 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Done.