Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 8 of 173
Found at i:2139491 original size:20 final size:20
Alignment explanation
Indices: 2139466--2139505 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2139456 CCTCTACAAG
2139466 CAGTTTTATAAACCAATATA
1 CAGTTTTATAAACCAATATA
2139486 CAGTTTTATAAACCAATATA
1 CAGTTTTATAAACCAATATA
2139506 GTTTTATGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (20 bp):
CAGTTTTATAAACCAATATA
Found at i:2139510 original size:18 final size:19
Alignment explanation
Indices: 2139467--2139512 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
2139457 CTCTACAAGC
2139467 AGTTTTATAAACCAATATA
1 AGTTTTATAAACCAATATA
2139486 CAGTTTTATAAACCAATAT-
1 -AGTTTTATAAACCAATATA
2139505 AGTTTTAT
1 AGTTTTAT
2139513 GACTACTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 8 0.31
20 18 0.69
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (19 bp):
AGTTTTATAAACCAATATA
Found at i:2145628 original size:21 final size:18
Alignment explanation
Indices: 2145604--2145651 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 18
2145594 AATCCCCATT
*
2145604 TTCATCATCATCCTCCCTCCC
1 TTCATCATCATCAT--CT-CC
2145625 TTCATCATCATCATCTCC
1 TTCATCATCATCATCTCC
2145643 TTCATCATC
1 TTCATCATC
2145652 CGTGTAATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 11 0.42
19 2 0.08
21 13 0.50
ACGTcount: A:0.19, C:0.44, G:0.00, T:0.38
Consensus pattern (18 bp):
TTCATCATCATCATCTCC
Found at i:2145629 original size:18 final size:18
Alignment explanation
Indices: 2145608--2145652 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
2145598 CCCATTTTCA
*
2145608 TCATCATCCTC-CCTCCCT
1 TCATCATCCTCATCT-CCT
*
2145626 TCATCATCATCATCTCCT
1 TCATCATCCTCATCTCCT
2145644 TCATCATCC
1 TCATCATCC
2145653 GTGTAATCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.18, C:0.47, G:0.00, T:0.36
Consensus pattern (18 bp):
TCATCATCCTCATCTCCT
Found at i:2156401 original size:24 final size:24
Alignment explanation
Indices: 2156360--2156445 Score: 66
Period size: 25 Copynumber: 3.5 Consensus size: 24
2156350 GTCGCAACTA
* * *
2156360 ATCGGGATGCTTCGAAGAGCTAT-T
1 ATCGGGAAGC-TCGAAGAACCATAT
2156384 ATCGGGAAGCTCGCAAGAACCATAT
1 ATCGGGAAGCTCG-AAGAACCATAT
* **
2156409 AACGGGAAGCTCGAGAGGGCCATAT
1 ATCGGGAAGCTCGA-AGAACCATAT
* *
2156434 ATCAGGATGCTC
1 ATCGGGAAGCTC
2156446 ATGAGAGCTA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 3 0.06
24 17 0.34
25 30 0.60
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (24 bp):
ATCGGGAAGCTCGAAGAACCATAT
Found at i:2161563 original size:15 final size:13
Alignment explanation
Indices: 2161514--2161565 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
2161504 TATTAACTTA
* *
2161514 TATTCTTAAAATA
1 TATTTTTAAAATT
2161527 TATTTTTAAAATT
1 TATTTTTAAAATT
2161540 TATACTTTTACTAAATT
1 TAT--TTTTA--AAATT
2161557 TATTTTTAA
1 TATTTTTAA
2161566 GCTAAATAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 15 0.45
15 10 0.30
17 8 0.24
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTTTAAAATT
Found at i:2167976 original size:16 final size:18
Alignment explanation
Indices: 2167948--2167982 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2167938 AATATTATTT
2167948 ATTAAATTAA-TTTCTCA
1 ATTAAATTAATTTTCTCA
2167965 ATTAAA-TAATTTTCTCA
1 ATTAAATTAATTTTCTCA
2167982 A
1 A
2167983 CCAATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAAATTAATTTTCTCA
Found at i:2178794 original size:17 final size:18
Alignment explanation
Indices: 2178762--2178800 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
2178752 TAAGTTAGAA
* *
2178762 ATATATATATAAACAATT
1 ATATATATAAAAACAAAT
2178780 ATATA-ATAAAAACAAAT
1 ATATATATAAAAACAAAT
2178797 ATAT
1 ATAT
2178801 CTAATTCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
ATATATATAAAAACAAAT
Found at i:2178896 original size:17 final size:17
Alignment explanation
Indices: 2178841--2178893 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
2178831 ACATAAGAAT
*
2178841 AATAATATTAATA-CATA
1 AATAATAATAATAGC-TA
2178858 TAATAATAATAATAGCTA
1 -AATAATAATAATAGCTA
*
2178876 AATAATAA-AATTGCTA
1 AATAATAATAATAGCTA
2178892 AA
1 AA
2178894 ATACGGACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 9 0.28
17 8 0.25
18 14 0.44
19 1 0.03
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.32
Consensus pattern (17 bp):
AATAATAATAATAGCTA
Found at i:2180121 original size:3 final size:3
Alignment explanation
Indices: 2180113--2180144 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2180103 TGGGCTGTAC
2180113 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2180145 ATCTTTCCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2184060 original size:7 final size:7
Alignment explanation
Indices: 2184040--2184073 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
2184030 ACGTAACAAC
2184040 AGAAAAA
1 AGAAAAA
*
2184047 A-AGAAA
1 AGAAAAA
2184053 AGAAAAA
1 AGAAAAA
2184060 AGAAAAA
1 AGAAAAA
2184067 AGAAAAA
1 AGAAAAA
2184074 CACAACAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:2184083 original size:3 final size:3
Alignment explanation
Indices: 2184075--2184117 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
2184065 AAAGAAAAAC
2184075 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
2184118 TTCGATCATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:2193073 original size:21 final size:20
Alignment explanation
Indices: 2193047--2193086 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2193037 ACAAAAAAAG
2193047 AAAAAAAGATTTAAGTACCT
1 AAAAAAAGATTTAAGTACCT
2193067 AAAAAAAGATTTAAGTACCT
1 AAAAAAAGATTTAAGTACCT
2193087 TGGATGTCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (20 bp):
AAAAAAAGATTTAAGTACCT
Found at i:2202334 original size:23 final size:23
Alignment explanation
Indices: 2202273--2202334 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
2202263 CAACAGGCGA
*
2202273 CGACATCACAACGAGAAGGCTTC
1 CGACATCACAACGAGGAGGCTTC
** * * * *
2202296 TAACGTCACGATGAGGAGGTTTC
1 CGACATCACAACGAGGAGGCTTC
2202319 CGACATCACAACGAGG
1 CGACATCACAACGAGG
2202335 GCGAATATGA
Statistics
Matches: 27, Mismatches: 12, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.26, G:0.26, T:0.16
Consensus pattern (23 bp):
CGACATCACAACGAGGAGGCTTC
Found at i:2203899 original size:20 final size:20
Alignment explanation
Indices: 2203874--2203932 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
2203864 CTAAAATTAA
2203874 AAAAATTATAAAATTATTTT
1 AAAAATTATAAAATTATTTT
2203894 AAAAATTA-AAAATTATTTT
1 AAAAATTATAAAATTATTTT
*
2203913 AAAACA-TATAAAAATATTTT
1 AAAA-ATTATAAAATTATTTT
2203933 TATATATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 17 0.47
20 19 0.53
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATTATAAAATTATTTT
Found at i:2211734 original size:21 final size:21
Alignment explanation
Indices: 2211710--2211753 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
2211700 TTAATTGATA
2211710 CCTAAATTTGTATTCCGTCAT
1 CCTAAATTTGTATTCCGTCAT
2211731 CCTAAATTTGTATTCCGTCAT
1 CCTAAATTTGTATTCCGTCAT
2211752 CC
1 CC
2211754 AAGTTGTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.27, G:0.09, T:0.41
Consensus pattern (21 bp):
CCTAAATTTGTATTCCGTCAT
Found at i:2213223 original size:21 final size:21
Alignment explanation
Indices: 2213181--2213229 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
2213171 ATTATTTTCA
2213181 TTACTATTATTATTACATTAT
1 TTACTATTATTATTACATTAT
2213202 TTACTATTATTATTATCA-TAT
1 TTACTATTATTATTA-CATTAT
*
2213223 TTTCTAT
1 TTACTAT
2213230 ACATATACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (21 bp):
TTACTATTATTATTACATTAT
Found at i:2213444 original size:9 final size:8
Alignment explanation
Indices: 2213430--2213462 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
2213420 ATTTTTAACT
2213430 TTTATATA
1 TTTATATA
2213438 CTTTATAT-
1 -TTTATATA
2213446 TTTATATA
1 TTTATATA
2213454 TTTATATA
1 TTTATATA
2213462 T
1 T
2213463 ACTTATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.30
8 9 0.39
9 7 0.30
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTATATA
Found at i:2228987 original size:30 final size:30
Alignment explanation
Indices: 2228951--2229015 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
2228941 TGGCAAAAAA
2228951 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
* *
2228981 TTCTCAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
2229011 CTCTC
1 CTCTC
2229016 TTTAATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.29, G:0.03, T:0.40
Consensus pattern (30 bp):
CTCTCAAATTTCTCCCTAAATTTCTCAAAG
Found at i:2229015 original size:21 final size:21
Alignment explanation
Indices: 2228981--2229020 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2228971 TTTCTCAAAG
**
2228981 TTCTCAAATTTCTCCTTAAAT
1 TTCTCAAAGCTCTCCTTAAAT
*
2229002 TTCTCAAAGCTCTCTTTAA
1 TTCTCAAAGCTCTCCTTAA
2229021 TTAATTATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.45
Consensus pattern (21 bp):
TTCTCAAAGCTCTCCTTAAAT
Found at i:2229239 original size:15 final size:16
Alignment explanation
Indices: 2229205--2229236 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
2229195 TTTTCTTATG
2229205 TTATTTTAATTAATTT
1 TTATTTTAATTAATTT
2229221 TTATTTT-A-TAATTT
1 TTATTTTAATTAATTT
2229235 TT
1 TT
2229237 TATAACAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTATTTTAATTAATTT
Found at i:2230174 original size:7 final size:7
Alignment explanation
Indices: 2230162--2230193 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
2230152 AGTTGTTTCA
2230162 TATTTAG
1 TATTTAG
2230169 TATTTAG
1 TATTTAG
2230176 TATTTAG
1 TATTTAG
2230183 TATTTAG
1 TATTTAG
2230190 TATT
1 TATT
2230194 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:2231242 original size:58 final size:59
Alignment explanation
Indices: 2231135--2231246 Score: 131
Period size: 58 Copynumber: 1.9 Consensus size: 59
2231125 CAAACTTTTA
****
2231135 TTATATTGTTTCATTTAATAAAATAAAAGTTATTTTTAATATTTTAATAGTAAATTATTT
1 TTATATTGTTTCATTTAATAAAATAAAAGTTATTTTTAATAAGGCAATAG-AAATTATTT
* *
2231195 TTATATT-TTT-ATTTAATAAAATAGAA-TTTTTTTTGAATAAGGCAATAGAAAT
1 TTATATTGTTTCATTTAATAAAATAAAAGTTATTTTT-AATAAGGCAATAGAAAT
2231247 AATGTAACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
57 11 0.24
58 24 0.53
59 3 0.07
60 7 0.16
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (59 bp):
TTATATTGTTTCATTTAATAAAATAAAAGTTATTTTTAATAAGGCAATAGAAATTATTT
Found at i:2234439 original size:126 final size:126
Alignment explanation
Indices: 2234214--2234734 Score: 812
Period size: 126 Copynumber: 4.1 Consensus size: 126
2234204 GGCCAAACAT
* * * *
2234214 GAACTACTGCAGAAAAATAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTACTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCATCAATTTTGCTGACAGTGCATC
*
2234279 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
*
2234340 GAACTACTGTAGAAAAAGAACGTCCACGTGAGAGCTTTTTTCATCAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCATCAATTTTGCTGACAGTGCATC
* *** * * *
2234405 CTACTTGAATTGTTTTTGACACTATTTGTTCAGAACCGTATTCTGAAAATTATTTTTTCAG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
* *
2234466 GAACTACTGTAGAAAAAGAGCATCCATGT-AGGAGCTTTTTTCATCAATTTTGCTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGA-GAGCTTTTTTCATCAATTTTGCTGACAGTGCAT
* *
2234530 CCTGCTTGAA-CTATTTTTGACACTATTTGTTTAAAACTGTCTTCTCAAAATTATTTTTTCAG
65 CCTGCTTGAAGC-ATTTTTGACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
* *
2234592 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCATCAATTTTGCTGACAGTGCATC
* * *
2234657 CGGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACTATCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
2234718 GAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
2234735 AATCCTTATT
Statistics
Matches: 357, Mismatches: 34, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
125 1 0.00
126 355 0.99
127 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCATCAATTTTGCTGACAGTGCATC
CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
Found at i:2234863 original size:38 final size:38
Alignment explanation
Indices: 2234811--2234896 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
2234801 AAGTAAACCC
* ** *
2234811 TAATTCAATTAATTT-TCTTAAAAACTCTAAGCCCTTATT
1 TAATT-AATTAATTTAT-TTAAAAACCCTAAAACCTAATT
*
2234850 TAATTAATTAATTTATTTAAAACCCCTAAAACCTAATT
1 TAATTAATTAATTTATTTAAAAACCCTAAAACCTAATT
2234888 TAATTAATT
1 TAATTAATT
2234897 TAAAAAAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 35 0.85
39 6 0.15
ACGTcount: A:0.41, C:0.15, G:0.01, T:0.43
Consensus pattern (38 bp):
TAATTAATTAATTTATTTAAAAACCCTAAAACCTAATT
Found at i:2235023 original size:14 final size:15
Alignment explanation
Indices: 2234992--2235028 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
2234982 TTAGTTTAAC
2234992 AAAACCCTAAACCTA
1 AAAACCCTAAACCTA
* *
2235007 AAAACCCTAAATCAA
1 AAAACCCTAAACCTA
2235022 AAAACCC
1 AAAACCC
2235029 CAGGGACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.57, C:0.32, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAACCCTAAACCTA
Found at i:2237313 original size:85 final size:84
Alignment explanation
Indices: 2237207--2237361 Score: 229
Period size: 85 Copynumber: 1.8 Consensus size: 84
2237197 AAGCTGCCTA
* * *
2237207 TGTTGGAAAATCGGTTTGAAAAGAGTGAAAATAAGCAGAAAGAAATTTTTAAATTTTTCAATGAA
1 TGTTGGAAAATCGATTTGAAAAGAGTGAAAATAAGCAGAAAGAAA-ATTTAAAATTTTCAATGAA
2237272 ACCAACTAGTTGTGATAATG
65 ACCAACTAGTTGTGATAATG
* * * **
2237292 TGTTGGAAAATCGATTTGAAAATAGTGAAAATAAGCATAATGAAAATTTAAAATTTTCTTTGAAA
1 TGTTGGAAAATCGATTTGAAAAGAGTGAAAATAAGCAGAAAGAAAATTTAAAATTTTCAATGAAA
2237357 CCAAC
66 CCAAC
2237362 CGGATATGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
84 21 0.34
85 41 0.66
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (84 bp):
TGTTGGAAAATCGATTTGAAAAGAGTGAAAATAAGCAGAAAGAAAATTTAAAATTTTCAATGAAA
CCAACTAGTTGTGATAATG
Found at i:2241098 original size:22 final size:22
Alignment explanation
Indices: 2241063--2241114 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
2241053 CTTTTTTAAC
*
2241063 TAATAATTAT-AAAT-TAAATT
1 TAATAATTTTCAAATATAAATT
*
2241083 ATAATTATTTTCAAATATAAATT
1 -TAATAATTTTCAAATATAAATT
2241106 TAATAATTT
1 TAATAATTT
2241115 AATAAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 8 0.31
22 12 0.46
23 6 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATAATTTTCAAATATAAATT
Found at i:2245495 original size:104 final size:104
Alignment explanation
Indices: 2245315--2245513 Score: 319
Period size: 104 Copynumber: 1.9 Consensus size: 104
2245305 ATCGAGCTCG
* * * *
2245315 TAAGAATAAAATAGGAAGATTAATAGCGTTAGTGTAAAAATATCTTAAAGATTGATTAAGTAATT
1 TAAGAATAAAATAGGAAGATGAATAGAGTTAGTGTAAAAATATATTAAAGATAGATTAAGTAATT
* *
2245380 TAACCGGGAAAATTGTTAATTAAAGCTCAGGGACTCTAA
66 TAACCGAGAAAATCGTTAATTAAAGCTCAGGGACTCTAA
*
2245419 TAAGAATAAAATAGGAAGATGAATAGAGTTAGTGTAATAATATATTAAAGATCAG-TTAAGTAAT
1 TAAGAATAAAATAGGAAGATGAATAGAGTTAGTGTAAAAATATATTAAAGAT-AGATTAAGTAAT
2245483 TTAACCGAGAAAATCGTTAATTAAAGCTCAG
65 TTAACCGAGAAAATCGTTAATTAAAGCTCAG
2245514 AGGCTAAATT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
104 86 0.99
105 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (104 bp):
TAAGAATAAAATAGGAAGATGAATAGAGTTAGTGTAAAAATATATTAAAGATAGATTAAGTAATT
TAACCGAGAAAATCGTTAATTAAAGCTCAGGGACTCTAA
Found at i:2246543 original size:18 final size:17
Alignment explanation
Indices: 2246510--2246602 Score: 51
Period size: 20 Copynumber: 4.9 Consensus size: 17
2246500 AACCCAATCA
*
2246510 TAAAAATTACAAATAATT
1 TAAAAA-TAAAAATAATT
2246528 TAATAAATAAAAATAAAATT
1 TAA-AAATAAAAAT--AATT
* * *
2246548 CTAAAACTAAAACTAAAAT
1 -TAAAAATAAAAAT-AATT
*
2246567 TAAAATCTAAACAAATAATT
1 TAAAA-AT-AA-AAATAATT
2246587 TAATAAATAAAAATAA
1 TAA-AAATAAAAATAA
2246603 AATTCAAAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
18 20 0.33
19 11 0.18
20 21 0.35
21 8 0.13
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAAATAAAAATAATT
Found at i:2246558 original size:20 final size:19
Alignment explanation
Indices: 2246524--2246606 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 19
2246514 AATTACAAAT
*
2246524 AATTTAATAAATAAAAATAA
1 AATTTAA-AACTAAAAATAA
*
2246544 AATTCTAAAACTAAAACTAA
1 AATT-TAAAACTAAAAATAA
*
2246564 AA-TTAAAATCTAAACAA-AT
1 AATTTAAAA-CTAAA-AATAA
*
2246583 AATTTAATAAATAAAAATAA
1 AATTTAA-AACTAAAAATAA
2246603 AATT
1 AATT
2246607 CAAAGACCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
18 5 0.10
19 11 0.22
20 30 0.59
21 5 0.10
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (19 bp):
AATTTAAAACTAAAAATAA
Found at i:2246565 original size:12 final size:13
Alignment explanation
Indices: 2246535--2246577 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
2246525 ATTTAATAAA
*
2246535 TAAAAATAAAATTC
1 TAAAACTAAAA-TC
2246549 TAAAACTAAAA-C
1 TAAAACTAAAATC
*
2246561 TAAAATTAAAATC
1 TAAAACTAAAATC
2246574 TAAA
1 TAAA
2246578 CAAATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 11 0.42
13 5 0.19
14 10 0.38
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAACTAAAATC
Found at i:2254374 original size:15 final size:15
Alignment explanation
Indices: 2254354--2254405 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
2254344 CCGCCTATAT
2254354 TTAATTTTTTTAAAA
1 TTAATTTTTTTAAAA
2254369 TTAATTTTTATTTAAAA
1 TTAA-TTTT-TTTAAAA
*
2254386 AT-ATTTTTTTAAAA
1 TTAATTTTTTTAAAA
2254400 TATAAT
1 T-TAAT
2254406 ACAATAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 7 0.23
15 9 0.29
16 7 0.23
17 8 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAATTTTTTTAAAA
Found at i:2254391 original size:16 final size:16
Alignment explanation
Indices: 2254358--2254405 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
2254348 CTATATTTAA
*
2254358 TTTTTTTAAAATTAAT
1 TTTTTTTAAAAATAAT
2254374 TTTTATTTAAAAAT-A-
1 TTTT-TTTAAAAATAAT
2254389 TTTTTTTAAAATATAAT
1 TTTTTTTAAAA-ATAAT
2254406 ACAATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
16 6 0.22
17 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTTTAAAAATAAT
Found at i:2261753 original size:12 final size:12
Alignment explanation
Indices: 2261732--2261770 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
2261722 AATTGAATTG
*
2261732 AATTTTATTTCT
1 AATTTAATTTCT
2261744 AATTTAATTTCT
1 AATTTAATTTCT
2261756 AA-TTAATTT-T
1 AATTTAATTTCT
2261766 AATTT
1 AATTT
2261771 TATATGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 3 0.12
11 9 0.36
12 13 0.52
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (12 bp):
AATTTAATTTCT
Found at i:2263428 original size:17 final size:17
Alignment explanation
Indices: 2263406--2263444 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2263396 TGGTAGATGG
*
2263406 ATAAAATTTAAA-AATAT
1 ATAAAAATTAAACAA-AT
2263423 ATAAAAATTAAACAAAT
1 ATAAAAATTAAACAAAT
2263440 ATAAA
1 ATAAA
2263445 TTTTGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
ATAAAAATTAAACAAAT
Found at i:2267421 original size:12 final size:12
Alignment explanation
Indices: 2267381--2267424 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 12
2267371 CCATTTTCTA
2267381 AATAAAATA-TT
1 AATAAAATATTT
2267392 AAT-AAATATTT
1 AATAAAATATTT
2267403 AAGTAAAATATTT
1 AA-TAAAATATTT
*
2267416 TATAAAATA
1 AATAAAATA
2267425 ATTTTTAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 5 0.17
11 7 0.24
12 8 0.28
13 9 0.31
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (12 bp):
AATAAAATATTT
Found at i:2269825 original size:13 final size:13
Alignment explanation
Indices: 2269807--2269834 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2269797 ACCCGTATGT
2269807 GACACTTATATCA
1 GACACTTATATCA
2269820 GACACTTATATCA
1 GACACTTATATCA
2269833 GA
1 GA
2269835 GTCCAAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (13 bp):
GACACTTATATCA
Found at i:2278258 original size:167 final size:166
Alignment explanation
Indices: 2277983--2278322 Score: 644
Period size: 167 Copynumber: 2.0 Consensus size: 166
2277973 GACAAACTCG
*
2277983 ACCACCATCAGAAGCAATGTAAACACACCGCTGATCAATATTTTTGATCTCAAGCATCAGTAAAA
1 ACCACCATCAGAAGCAATGTAAACACACCGCTGATCAATATATTTGATCTCAAGCATCAGTAAAA
2278048 ATTTAAAATAAAAGAAAAAAAATACAGTACACAGGAGCAATGAAAACCACTAGTCCCATCTGCAC
66 ATTTAAAATAAAAGAAAAAAAATACAGTACACAGGAGCAATGAAAACCACTAGTCCCATCTGCAC
2278113 TCTAGTCTAATTTCAACATGATCATAGAAAACGAAT
131 TCTAGTCTAATTTCAACATGATCATAGAAAACGAAT
*
2278149 ACCACCATCAGAAGCAATGTAAACACACCGCTGATCAATATATTTGAATCTCAAGGATCAGTAAA
1 ACCACCATCAGAAGCAATGTAAACACACCGCTGATCAATATATTTG-ATCTCAAGCATCAGTAAA
2278214 AATTTAAAATAAAAGAAAAAAAATACAGTACACAGGAGCAATGAAAACCACTAGTCCCATCTGCA
65 AATTTAAAATAAAAGAAAAAAAATACAGTACACAGGAGCAATGAAAACCACTAGTCCCATCTGCA
2278279 CTCTAGTCTAATTTCAACATGATCATAGAAAACGAAT
130 CTCTAGTCTAATTTCAACATGATCATAGAAAACGAAT
*
2278316 ACAACCA
1 ACCACCA
2278323 AATATGGAGA
Statistics
Matches: 170, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
166 45 0.26
167 125 0.74
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.21
Consensus pattern (166 bp):
ACCACCATCAGAAGCAATGTAAACACACCGCTGATCAATATATTTGATCTCAAGCATCAGTAAAA
ATTTAAAATAAAAGAAAAAAAATACAGTACACAGGAGCAATGAAAACCACTAGTCCCATCTGCAC
TCTAGTCTAATTTCAACATGATCATAGAAAACGAAT
Found at i:2278478 original size:123 final size:123
Alignment explanation
Indices: 2278254--2278498 Score: 339
Period size: 123 Copynumber: 2.0 Consensus size: 123
2278244 CACAGGAGCA
* * *
2278254 ATGAAAACCACTAGTCCCATCTGCACTCTAGTCTAATTTCAACATGATCATAGAAAACGAATACA
1 ATGAAAACCACTAGTCACATCTGCACTCTAGTCCAATTTCAACATGATCATAGAAAACAAATACA
**** * * *
2278319 ACCAAATATGGAGACAGCAATGTGCTGGTTCAAAAGGGATTATATTAGGACATGCACG
66 ACCAAATATGGAGACAGCAAACAACTGGTTCAAAAGGGATTAGAATAGAACATGCACG
* *
2278377 ATGAAAACCACTAGTTACATCTGCACTCTAGTCCAATTTCAACATGATCATAGAAAACAAATAGA
1 ATGAAAACCACTAGTCACATCTGCACTCTAGTCCAATTTCAACATGATCATAGAAAACAAATACA
* **
2278442 ACCAGATATGGAGACAGCAACACAACT-GTTTGAAAGGGATTAGAATAGAACATGCAC
66 ACCAAATATGGAGACAGCAA-ACAACTGGTTCAAAAGGGATTAGAATAGAACATGCAC
2278499 TCAGTGGGAT
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 104 0.98
124 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.22
Consensus pattern (123 bp):
ATGAAAACCACTAGTCACATCTGCACTCTAGTCCAATTTCAACATGATCATAGAAAACAAATACA
ACCAAATATGGAGACAGCAAACAACTGGTTCAAAAGGGATTAGAATAGAACATGCACG
Found at i:2279519 original size:48 final size:48
Alignment explanation
Indices: 2279430--2279523 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
2279420 TTTCTTGGCT
* * *
2279430 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
2279478 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
2279524 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:2282033 original size:48 final size:48
Alignment explanation
Indices: 2281944--2282037 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
2281934 TTTCTTGGCT
* * *
2281944 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
2281992 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
2282038 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:2289409 original size:5 final size:5
Alignment explanation
Indices: 2289399--2289425 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2289389 AATGAGCATG
2289399 AATAT AATAT AATAT AATAT AATAT AA
1 AATAT AATAT AATAT AATAT AATAT AA
2289426 AGGCCTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:2295112 original size:22 final size:23
Alignment explanation
Indices: 2295064--2295126 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
2295054 TACCTCTTTT
2295064 TTTTA-ATTTATTAAATAATATA
1 TTTTATATTTATTAAATAATATA
*
2295086 TTTTATATTT-TTAAA-AATATG
1 TTTTATATTTATTAAATAATATA
* *
2295107 TATT-TATTAATTAAATAATA
1 TTTTATATTTATTAAATAATA
2295127 ATTAGTCTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 4 0.11
21 13 0.37
22 14 0.40
23 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TTTTATATTTATTAAATAATATA
Found at i:2296213 original size:15 final size:15
Alignment explanation
Indices: 2296163--2296214 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
2296153 CCAGAACAGG
* *
2296163 ATAGAGCAGAACAGA
1 ATAGAGCAAAACTGA
*
2296178 GTAGAGCAAAACTGA
1 ATAGAGCAAAACTGA
*
2296193 ACAGAGCAAAA-TGGA
1 ATAGAGCAAAACT-GA
2296208 ATAGAGC
1 ATAGAGC
2296215 TACGCAAAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
14 1 0.03
15 29 0.97
ACGTcount: A:0.50, C:0.13, G:0.27, T:0.10
Consensus pattern (15 bp):
ATAGAGCAAAACTGA
Found at i:2297123 original size:14 final size:13
Alignment explanation
Indices: 2297088--2297126 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
2297078 TAAAAATCGT
*
2297088 AAAAATTATAAAC
1 AAAAATTATAAAA
*
2297101 AAAATTTATAAAA
1 AAAAATTATAAAA
2297114 AAAAAGTTATAAA
1 AAAAA-TTATAAA
2297127 TTTTTTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (13 bp):
AAAAATTATAAAA
Found at i:2298498 original size:14 final size:14
Alignment explanation
Indices: 2298479--2298516 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
2298469 ATTCAGTAAC
2298479 ATTATTATTAATCT
1 ATTATTATTAATCT
*
2298493 ATTATTATTAATTT
1 ATTATTATTAATCT
2298507 ATTATTATTA
1 ATTATTATTA
2298517 TCACCGCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTATTATTAATCT
Found at i:2298501 original size:17 final size:17
Alignment explanation
Indices: 2298479--2298517 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2298469 ATTCAGTAAC
2298479 ATTATT-ATTAATCTATT
1 ATTATTAATTAAT-TATT
*
2298496 ATTATTAATTTATTATT
1 ATTATTAATTAATTATT
2298513 ATTAT
1 ATTAT
2298518 CACCGCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATTAATTAATTATT
Found at i:2298609 original size:22 final size:23
Alignment explanation
Indices: 2298584--2298631 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
2298574 TTAATTGCCA
2298584 TTAT-TTACTTATATAA-ATTATT
1 TTATGTTA-TTATATAATATTATT
*
2298606 TTATGTTATTATGTAATATTATT
1 TTATGTTATTATATAATATTATT
2298629 TTA
1 TTA
2298632 GGTTTTAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (23 bp):
TTATGTTATTATATAATATTATT
Found at i:2299267 original size:18 final size:17
Alignment explanation
Indices: 2299240--2299274 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2299230 GATTATTGCT
2299240 CTTATGTGTATTGTATTG
1 CTTATGTGTATT-TATTG
*
2299258 CTTATTTGTATTTATTG
1 CTTATGTGTATTTATTG
2299275 ATTCTTTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.17, C:0.06, G:0.17, T:0.60
Consensus pattern (17 bp):
CTTATGTGTATTTATTG
Found at i:2299282 original size:17 final size:18
Alignment explanation
Indices: 2299241--2299283 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
2299231 ATTATTGCTC
* *
2299241 TTATGTGTATTGTATTGC
1 TTATTTGTATTGTATTGA
2299259 TTATTTGTATT-TATTGA
1 TTATTTGTATTGTATTGA
*
2299276 TTCTTTGT
1 TTATTTGT
2299284 CGCTCATTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.16, C:0.05, G:0.16, T:0.63
Consensus pattern (18 bp):
TTATTTGTATTGTATTGA
Found at i:2305158 original size:9 final size:9
Alignment explanation
Indices: 2305126--2305163 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
2305116 AAATATGACA
*
2305126 TAAATATAT
1 TAAAAATAT
2305135 TAAAAATAAT
1 TAAAAAT-AT
2305145 T-AAAATAT
1 TAAAAATAT
2305153 TAAAAATAT
1 TAAAAATAT
2305162 TA
1 TA
2305164 CATTAATTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 3 0.12
9 20 0.77
10 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAAAAATAT
Found at i:2307068 original size:20 final size:20
Alignment explanation
Indices: 2307016--2307068 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
2307006 AATGAGTTTC
* **
2307016 TTTTTTTTATAAATTTTGAA
1 TTTTTTTCATAAAAATTGAA
* * *
2307036 TATTATTCTTAAAAATTGAA
1 TTTTTTTCATAAAAATTGAA
2307056 TTTTTTTCATAAA
1 TTTTTTTCATAAA
2307069 TATTTTAAAA
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTTTTTCATAAAAATTGAA
Found at i:2307468 original size:11 final size:11
Alignment explanation
Indices: 2307452--2307477 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2307442 ATGTTTAAAA
2307452 TTATTCATAAT
1 TTATTCATAAT
2307463 TTATTCATAAT
1 TTATTCATAAT
2307474 TTAT
1 TTAT
2307478 AAATAGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (11 bp):
TTATTCATAAT
Found at i:2311498 original size:23 final size:23
Alignment explanation
Indices: 2311472--2311550 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
2311462 TAAAACACTG
*
2311472 AATATAACACGCACAAGGTGCTA
1 AATATAACACGCACAAGGCGCTA
*
2311495 AATATAACACGCATATA-GCGCTA
1 AATATAACACGCACA-AGGCGCTA
* * *
2311518 AATGTAACATGCACAAGGGGCT-
1 AATATAACACGCACAAGGCGCTA
*
2311540 GATATAACACG
1 AATATAACACG
2311551 TGTAAAGCAC
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
22 9 0.20
23 35 0.78
24 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (23 bp):
AATATAACACGCACAAGGCGCTA
Found at i:2311526 original size:46 final size:45
Alignment explanation
Indices: 2311449--2311550 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 45
2311439 CAATCACACC
* * *
2311449 AATATAACATGCATAAAACACTGAATATAACACGCACAAGGTGCT
1 AATATAACACGCATAAAACACTAAATATAACACGCACAAGGGGCT
* * * * *
2311494 AAATATAACACGCATATAGCGCTAAATGTAACATGCACAAGGGGCT
1 -AATATAACACGCATAAAACACTAAATATAACACGCACAAGGGGCT
*
2311540 GATATAACACG
1 AATATAACACG
2311551 TGTAAAGCAC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 10 0.21
46 37 0.79
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (45 bp):
AATATAACACGCATAAAACACTAAATATAACACGCACAAGGGGCT
Found at i:2314958 original size:22 final size:20
Alignment explanation
Indices: 2314918--2314956 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2314908 TTAATACCAC
*
2314918 AATATATTAAATATATTTAA
1 AATATATAAAATATATTTAA
2314938 AATATATAATAATATATTT
1 AATATATAA-AATATATTT
2314957 TATCCATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATATAAAATATATTTAA
Found at i:2315704 original size:39 final size:41
Alignment explanation
Indices: 2315661--2315747 Score: 103
Period size: 39 Copynumber: 2.2 Consensus size: 41
2315651 ATTAAAATAA
2315661 TTTAAATTA-AGTATTTATAA-TTTTTAAT-AATTTTTAAA-T
1 TTTAAATTATAGTATTTATAAGTTTTT--TGAATTTTTAAATT
* *
2315700 TTTAAA-AATAGTTTTTATAAGTTTTTTGAATTTTTAAATT
1 TTTAAATTATAGTATTTATAAGTTTTTTGAATTTTTAAATT
2315740 TTTAAATT
1 TTTAAATT
2315748 TTAAAAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
38 2 0.05
39 26 0.65
40 12 0.30
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (41 bp):
TTTAAATTATAGTATTTATAAGTTTTTTGAATTTTTAAATT
Found at i:2325432 original size:3 final size:3
Alignment explanation
Indices: 2325424--2325459 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2325414 TTAAATTAAC
2325424 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2325460 TGCTGCCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2339757 original size:27 final size:27
Alignment explanation
Indices: 2339655--2339765 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
2339645 AACATGTCAG
* * * *
2339655 GAAAGAATAGCTTTTGTGGTTATCTTT
1 GAAAGAATAACCTTTGTGGTGAACTTT
*
2339682 GAAAGAATAACCTTTGTGGTGAATTTT
1 GAAAGAATAACCTTTGTGGTGAACTTT
*
2339709 GAAAGAATAACCTTTATGGTGAACTTT
1 GAAAGAATAACCTTTGTGGTGAACTTT
* * * *
2339736 AAAAGAATAACCATTGTAGTGAACTCT
1 GAAAGAATAACCTTTGTGGTGAACTTT
2339763 GAA
1 GAA
2339766 TGGACATGCT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (27 bp):
GAAAGAATAACCTTTGTGGTGAACTTT
Found at i:2348979 original size:171 final size:171
Alignment explanation
Indices: 2348694--2349029 Score: 564
Period size: 171 Copynumber: 2.0 Consensus size: 171
2348684 AGGGGGAACA
*
2348694 TATTTGCTTCTCCAAAGAATTACCCAAAACTCAATCCCATGATCCTGTCCCACCTTCACATGATG
1 TATTTGCTGCTCCAAAGAATTACCCAAAACTCAATCCCATGATCCTGTCCCACCTTCACATGATG
* * * *
2348759 AGATGGATCAGTTACAGGAACGTAATTGTAGTAGCTCCTTTTCTCCTGCTTCTCTAGATCCTCCA
66 AGATGGATCAGTTACAGGAACATAATTGTAGCAGCTCCCTTTCTCCTGCTTCTCTAGATCCTACA
* *
2348824 TCCTCAGGTCAGAAGTTCGTATCTCCCATGGCAAAAGTTTG
131 TCCTCAGGTCAAAAGTTCGTATCTCCCATAGCAAAAGTTTG
* *
2348865 TATTTGCTGCTCCAAAGAATTACCCAAAACTCAATCCCATGATCCTGTGCCACCTTCACATGTTG
1 TATTTGCTGCTCCAAAGAATTACCCAAAACTCAATCCCATGATCCTGTCCCACCTTCACATGATG
* *
2348930 AGATGGATCAGTTACGGGATCATAATTGTAGCAGCTCCCTTTCTCCTGCTTCTCTAGATCCTACA
66 AGATGGATCAGTTACAGGAACATAATTGTAGCAGCTCCCTTTCTCCTGCTTCTCTAGATCCTACA
*
2348995 TCCTCAGGTCAAAAGTTTGTATCTCCCATAGCAAA
131 TCCTCAGGTCAAAAGTTCGTATCTCCCATAGCAAA
2349030 GGAAAATCAT
Statistics
Matches: 153, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
171 153 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (171 bp):
TATTTGCTGCTCCAAAGAATTACCCAAAACTCAATCCCATGATCCTGTCCCACCTTCACATGATG
AGATGGATCAGTTACAGGAACATAATTGTAGCAGCTCCCTTTCTCCTGCTTCTCTAGATCCTACA
TCCTCAGGTCAAAAGTTCGTATCTCCCATAGCAAAAGTTTG
Found at i:2360029 original size:48 final size:48
Alignment explanation
Indices: 2359967--2360075 Score: 200
Period size: 48 Copynumber: 2.3 Consensus size: 48
2359957 GAAAAAGGAA
**
2359967 AATGAAAGAAAAGAAAGAAAGAAAGAAAAATGCCCTCCTCTTTCATAG
1 AATGAAAGGGAAGAAAGAAAGAAAGAAAAATGCCCTCCTCTTTCATAG
2360015 AATGAAAGGGAAGAAAGAAAGAAAGAAAAATGCCCTCCTCTTTCATAG
1 AATGAAAGGGAAGAAAGAAAGAAAGAAAAATGCCCTCCTCTTTCATAG
2360063 AATGAAAGGGAAG
1 AATGAAAGGGAAG
2360076 GGAAAGAATC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.50, C:0.13, G:0.21, T:0.16
Consensus pattern (48 bp):
AATGAAAGGGAAGAAAGAAAGAAAGAAAAATGCCCTCCTCTTTCATAG
Found at i:2361016 original size:29 final size:29
Alignment explanation
Indices: 2360974--2361029 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
2360964 ATTTATGGAG
2360974 TTAGATGAAATAGAAACGTCATGTTCTAC
1 TTAGATGAAATAGAAACGTCATGTTCTAC
2361003 TTAGATGAAATAGAAACGTCATGTTCT
1 TTAGATGAAATAGAAACGTCATGTTCT
2361030 CCTACTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (29 bp):
TTAGATGAAATAGAAACGTCATGTTCTAC
Found at i:2361995 original size:41 final size:39
Alignment explanation
Indices: 2361949--2362038 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 39
2361939 AAATAGACTT
*
2361949 TTAGCGGCGTTT-GGATAAAAAATGCAGCTAAAAATCGAGCA
1 TTAGCGGCGTTTACG-T-AAAAA-GCAGCTAAAAATCGAGCA
* * *
2361990 TTAGCGGCACTTTACGTAAAAAGCCGCTAAAGATCGAGCA
1 TTAGCGGC-GTTTACGTAAAAAGCAGCTAAAAATCGAGCA
2362030 TTAGCGGCG
1 TTAGCGGCG
2362039 CTTCCAGGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
40 24 0.57
41 13 0.31
42 4 0.10
43 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (39 bp):
TTAGCGGCGTTTACGTAAAAAGCAGCTAAAAATCGAGCA
Found at i:2362056 original size:40 final size:40
Alignment explanation
Indices: 2361966--2362102 Score: 116
Period size: 40 Copynumber: 3.4 Consensus size: 40
2361956 CGTTTGGATA
* * *
2361966 AAAAATGCAGCTAAAAATCGAGCATTAGCGGCACTTTACGT
1 AAAAA-GCCGCTAAAAATCGAGCATTAGCGGCACTTCACGG
* *
2362007 AAAAAGCCGCTAAAGATCGAGCATTAGCGGCGCTTC-CAGG
1 AAAAAGCCGCTAAAAATCGAGCATTAGCGGCACTTCAC-GG
** * * * **
2362047 AAAGCGCCGCGAAAAAT-GAGCATTAGCGGTATTTCTTGG
1 AAAAAGCCGCTAAAAATCGAGCATTAGCGGCACTTCACGG
*
2362086 AAAAATGCCGCAAAAAA
1 AAAAA-GCCGCTAAAAA
2362103 CCTAAGCCCA
Statistics
Matches: 77, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
39 21 0.27
40 51 0.66
41 5 0.06
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.18
Consensus pattern (40 bp):
AAAAAGCCGCTAAAAATCGAGCATTAGCGGCACTTCACGG
Found at i:2362567 original size:41 final size:41
Alignment explanation
Indices: 2362140--2362566 Score: 494
Period size: 41 Copynumber: 10.4 Consensus size: 41
2362130 CCTTTCGAGG
* *
2362140 CTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATACTCGGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
* *
2362181 CTTTCGTGGCGTTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAATGCTCGGGT
* * * * *
2362223 TTTTAGCGGCGTTTTTGAAAAAGTGTCACTAATGCTCGGCT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
* *
2362264 CTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTCAGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
* * *
2362305 ATTTAGCGGCGTTTTTGAAAAAGCGTCGCTAATGCTCGTGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
* * ** * ** * *
2362346 CTTGAGCGACACTTTTGAAAAAGTGTTGCTAATGCTTGGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
** *
2362387 CTTTAGCGGCACTTTTGAAAAAGAGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
* * * *
2362428 CTTTAACGGCATTTTTGAAGAAGCGCCGCTAATGCTCAGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
* * *
2362469 TTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCGTGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
* * * **
2362510 CTTTAGCGGCATTTTTAAAAAAGCGCCTCTAATGCTCATGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
*
2362551 CTTTAGCGTCGTTTTT
1 CTTTAGCGGCGTTTTT
2362567 ATAAAAAAAC
Statistics
Matches: 331, Mismatches: 54, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
41 294 0.89
42 37 0.11
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
Found at i:2364470 original size:19 final size:19
Alignment explanation
Indices: 2364446--2364484 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2364436 TGTGGCTAGT
2364446 CGGGATGCATTGGCAAAGA
1 CGGGATGCATTGGCAAAGA
2364465 CGGGATGCATTGGCAAAGA
1 CGGGATGCATTGGCAAAGA
2364484 C
1 C
2364485 AGTTTATGCT
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:0.31, C:0.18, G:0.36, T:0.15
Consensus pattern (19 bp):
CGGGATGCATTGGCAAAGA
Found at i:2365473 original size:16 final size:16
Alignment explanation
Indices: 2365452--2365489 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
2365442 GGAATGGAGA
2365452 CGTAATGAAATAGAGG
1 CGTAATGAAATAGAGG
*
2365468 CGTAATGGAATAGAGG
1 CGTAATGAAATAGAGG
2365484 CGTAAT
1 CGTAAT
2365490 AGATAATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.39, C:0.08, G:0.32, T:0.21
Consensus pattern (16 bp):
CGTAATGAAATAGAGG
Found at i:2365567 original size:38 final size:41
Alignment explanation
Indices: 2365471--2365580 Score: 118
Period size: 46 Copynumber: 2.6 Consensus size: 41
2365461 ATAGAGGCGT
*
2365471 AATGGAATAGAGGCGTAATAGATAATTCTTTTGTTTGGTTG
1 AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTG
*
2365512 AATGGAATGAAATAGAGGCGTAAT-GGT-ATTCTTGTGTTT-GTTG
1 AAT-G---G-AATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTG
*
2365555 AATGGAATAGAGGTGTAATAGCATAA
1 AATGGAATAGAGGCGTAATAG-ATAA
2365581 GGAAAAAAAC
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
38 13 0.23
39 2 0.04
40 1 0.02
41 4 0.07
42 2 0.04
43 7 0.12
44 11 0.19
45 3 0.05
46 14 0.25
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.35
Consensus pattern (41 bp):
AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTG
Found at i:2365894 original size:103 final size:102
Alignment explanation
Indices: 2365702--2365942 Score: 401
Period size: 103 Copynumber: 2.4 Consensus size: 102
2365692 TTAATCATAT
* * * *
2365702 TTTAACATAATTATTATTAAATATAATTTAATAAAATTCTTCATATTAAATATTCTTATATGAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATTCGTAATATTAAATATTCTTAAATGAAT
*
2365767 TTAATAAAATCATAATATATAATACTATAAAATATAA
66 TTAATAAAATCATAAAATATAATACTATAAAATATAA
*
2365804 TTTAAAATAATTATTATCAAATATAATTTAATAAAATTCGTAATATTTAAATATTCTTAAATGAA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATTCGTAATA-TTAAATATTCTTAAATGAA
*
2365869 TTTACTAAAATCATAAAATATAATACTATAAAATATAA
65 TTTAATAAAATCATAAAATATAATACTATAAAATATAA
*
2365907 TTTAAAAGAATTATTATTAAATATAATTTAATAAAA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAA
2365943 ATATATAATT
Statistics
Matches: 129, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
102 41 0.32
103 88 0.68
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (102 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATTCGTAATATTAAATATTCTTAAATGAAT
TTAATAAAATCATAAAATATAATACTATAAAATATAA
Found at i:2365933 original size:26 final size:25
Alignment explanation
Indices: 2365899--2365985 Score: 76
Period size: 26 Copynumber: 3.5 Consensus size: 25
2365889 TAATACTATA
2365899 AAATATAATTTAAAAGAATTATTATT
1 AAATATAATTTAAAA-AATTATTATT
*
2365925 AAATATAATTTAATAAAAATA-TA-T
1 AAATATAATTTAA-AAAATTATTATT
*
2365949 -AATTTAA--TAAAATAATTATTATT
1 AAATATAATTTAAAA-AATTATTATT
2365972 AAAAATATAATTTA
1 --AAATATAATTTA
2365986 GTAAAAATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
20 2 0.04
21 7 0.15
22 2 0.04
23 7 0.15
24 1 0.02
25 2 0.04
26 23 0.48
27 2 0.04
28 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (25 bp):
AAATATAATTTAAAAAATTATTATT
Found at i:2365950 original size:18 final size:18
Alignment explanation
Indices: 2365927--2366009 Score: 104
Period size: 18 Copynumber: 4.9 Consensus size: 18
2365917 TTATTATTAA
2365927 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
2365945 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
* *
2365962 A-ATTA-TT-ATTAAAA-
1 ATATAATTTAATAAAAAT
*
2365976 ATATAATTTAGTAAAAAT
1 ATATAATTTAATAAAAAT
2365994 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
2366010 TTCTTAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.05
15 9 0.16
16 5 0.09
17 11 0.20
18 27 0.49
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:2365992 original size:49 final size:47
Alignment explanation
Indices: 2365909--2366026 Score: 173
Period size: 49 Copynumber: 2.5 Consensus size: 47
2365899 AAATATAATT
*
2365909 TAAAAGAATTATTATTAAATATAATTTAATAAAAATATATAATTTAA
1 TAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAA
*
2365956 TAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAA
1 TAAAATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAA
** *
2366005 TAAAATTCTTAATATTAAATAT
1 TAAAATAATTATTATTAAATAT
2366027 TCTTAAATGA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
47 21 0.33
49 43 0.67
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.42
Consensus pattern (47 bp):
TAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAA
Found at i:2366044 original size:169 final size:171
Alignment explanation
Indices: 2365824--2366132 Score: 559
Period size: 169 Copynumber: 1.8 Consensus size: 171
2365814 TTATTATCAA
2365824 ATATAATTTAATAAAATTCGTAATATTTAAATATTCTTAAATGAATTTACTAAAATCATAAAATA
1 ATATAATTTAATAAAATTCGTAATATTTAAATATTCTTAAATGAATTTACTAAAATCATAAAATA
2365889 TAATACTATAAAATATAATTTAAAAGAATTATTATT-AAATATAATTTAATAAAAATATATAATT
66 TAATACTATAAAATATAATTTAAAAGAATTATTATTAAAATATAATTTAATAAAAATATATAATT
2365953 TAATAAAATAATTATTATTAAAAATATAATTTAGTAAAAAT
131 TAATAAAATAATTATTATTAAAAATATAATTTAGTAAAAAT
* *
2365994 ATATAATTTAATAAAATTCTTAATA-TTAAATATTCTTAAATGAATTTACTAAAATCATAATATA
1 ATATAATTTAATAAAATTCGTAATATTTAAATATTCTTAAATGAATTTACTAAAATCATAAAATA
* *
2366058 TAATACTATAAAATATAATTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAAT
66 TAATACTATAAAATATAATTTAAAAGAATTATTATT-AAAATATAATTTAATAAAAATATATAAT
2366123 TTAATAAAAT
130 TTAATAAAAT
2366133 TCTTAATATT
Statistics
Matches: 133, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
169 73 0.55
170 24 0.18
171 36 0.27
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (171 bp):
ATATAATTTAATAAAATTCGTAATATTTAAATATTCTTAAATGAATTTACTAAAATCATAAAATA
TAATACTATAAAATATAATTTAAAAGAATTATTATTAAAATATAATTTAATAAAAATATATAATT
TAATAAAATAATTATTATTAAAAATATAATTTAGTAAAAAT
Found at i:2366082 original size:122 final size:122
Alignment explanation
Indices: 2365956--2366447 Score: 868
Period size: 122 Copynumber: 4.1 Consensus size: 122
2365946 TATAATTTAA
2365956 TAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATT
1 TAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATT
2366021 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATT
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATT
2366078 TAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATT
1 TAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATT
2366143 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATT
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATT
2366200 TAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATT
1 TAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATT
*
2366265 AAATATACTT--A-GAATTTACTAAAATCATAATATATAATACTATAAAATATAATT
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATT
* * * * *
2366319 TAAATTAATTATT-TT-TAAATATAATCTAATAAAAATATATCATTTAATAAAATTCTTAATATT
1 TAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATT
* * *
2366382 AAATATTCTCATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAATT
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATT
2366439 TAAAATAAT
1 TAAAATAAT
2366448 AAAATTTGAA
Statistics
Matches: 357, Mismatches: 10, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
117 52 0.15
118 2 0.01
119 56 0.16
120 51 0.14
122 196 0.55
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (122 bp):
TAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATT
Found at i:2366099 original size:28 final size:28
Alignment explanation
Indices: 2366067--2366229 Score: 84
Period size: 28 Copynumber: 5.5 Consensus size: 28
2366057 ATAATACTAT
2366067 AAAATATAATTTAAAATAATTATTATTA
1 AAAATATAATTTAAAATAATTATTATTA
*
2366095 AAAATATAATTTAGTAAA-AATATATAATTTA
1 AAAATATAATTTA--AAATAAT-TATTA-TTA
* * *
2366126 ATAAA-AT--TCTTAATATTAAATATTCTTA
1 A-AAATATAAT-TTAA-AATAATTATTATTA
* * * *
2366154 AATGAAT-TTACTAAAATCATAATATATAATACTA
1 AA--AATATAATTTAAA--ATAAT-TAT--TATTA
2366188 TAAAATATAATTTAAAATAATTATTATTA
1 -AAAATATAATTTAAAATAATTATTATTA
2366217 AAAATATAATTTA
1 AAAATATAATTTA
2366230 GTAAAAATAT
Statistics
Matches: 100, Mismatches: 15, Indels: 40
0.65 0.10 0.26
Matches are distributed among these distances:
27 1 0.01
28 31 0.31
29 16 0.16
30 15 0.15
31 12 0.12
32 11 0.11
33 3 0.03
34 9 0.09
35 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (28 bp):
AAAATATAATTTAAAATAATTATTATTA
Found at i:2366113 original size:15 final size:16
Alignment explanation
Indices: 2366067--2366131 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 16
2366057 ATAATACTAT
2366067 AAAATATAATTTAA-A
1 AAAATATAATTTAATA
* *
2366082 ATAAT-T-A-TTATTA
1 AAAATATAATTTAATA
*
2366095 AAAATATAATTTAGTAA
1 AAAATATAATTTAAT-A
2366112 AAATATATAATTTAATA
1 AAA-ATATAATTTAATA
2366129 AAA
1 AAA
2366132 TTCTTAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 2 0.05
15 5 0.13
16 4 0.10
17 8 0.21
18 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:2366119 original size:18 final size:17
Alignment explanation
Indices: 2366094--2366131 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
2366084 AATTATTATT
*
2366094 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
2366111 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
2366129 AAA
1 AAA
2366132 TTCTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:2366235 original size:15 final size:16
Alignment explanation
Indices: 2366189--2366253 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 16
2366179 ATAATACTAT
2366189 AAAATATAATTTAA-A
1 AAAATATAATTTAATA
* *
2366204 ATAAT-T-A-TTATTA
1 AAAATATAATTTAATA
*
2366217 AAAATATAATTTAGTAA
1 AAAATATAATTTAAT-A
2366234 AAATATATAATTTAATA
1 AAA-ATATAATTTAATA
2366251 AAA
1 AAA
2366254 TTCTTAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 2 0.05
15 5 0.13
16 4 0.10
17 8 0.21
18 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:2366241 original size:18 final size:17
Alignment explanation
Indices: 2366216--2366253 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
2366206 AATTATTATT
*
2366216 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
2366233 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
2366251 AAA
1 AAA
2366254 TTCTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:2366416 original size:239 final size:243
Alignment explanation
Indices: 2365956--2366447 Score: 866
Period size: 239 Copynumber: 2.0 Consensus size: 243
2365946 TATAATTTAA
2365956 TAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATT
1 TAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATT
*
2366021 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAA
66 AAATATACTT-AATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAA
* *
2366086 TTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
130 TTATTATTAAAAATATAATCTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
* *
2366151 TTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATT
195 TCAAATAAATTTACTAAAATCATAATATATAATACTATAAAATATAATT
2366200 TAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATT
1 TAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATT
*
2366265 AAATATACTT-A-GAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAATTAAT
66 AAATATACTTAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAAT
* *
2366328 TATT-TT-TAAATATAATCTAATAAAAATATATCATTTAATAAAATTCTTAATATTAAATATTCT
131 TATTATTAAAAATATAATCTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCT
*
2366391 CATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAATT
196 CAAATAAATTTACTAAAATCATAATATATAATACTATAAAATATAATT
2366439 TAAAATAAT
1 TAAAATAAT
2366448 AAAATTTGAA
Statistics
Matches: 239, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
239 107 0.45
240 2 0.01
241 55 0.23
242 1 0.00
244 74 0.31
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (243 bp):
TAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATACTTAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAAT
TATTATTAAAAATATAATCTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCT
CAAATAAATTTACTAAAATCATAATATATAATACTATAAAATATAATT
Found at i:2366492 original size:20 final size:20
Alignment explanation
Indices: 2366445--2366483 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2366435 AATTTAAAAT
*
2366445 AATAAAATTTGAATCGATTA
1 AATAATATTTGAATCGATTA
* *
2366465 AATGATATTTGAATTGATT
1 AATAATATTTGAATCGATT
2366484 TGATAATATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (20 bp):
AATAATATTTGAATCGATTA
Found at i:2366713 original size:13 final size:13
Alignment explanation
Indices: 2366695--2366722 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2366685 TCATGTTTTT
2366695 ATTGAATTGCTAA
1 ATTGAATTGCTAA
2366708 ATTGAATTGCTAA
1 ATTGAATTGCTAA
2366721 AT
1 AT
2366723 GAGATAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGAATTGCTAA
Found at i:2369727 original size:5 final size:5
Alignment explanation
Indices: 2369717--2369742 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2369707 TCGATTTTAC
2369717 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
2369743 ACAGGGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:2369797 original size:14 final size:14
Alignment explanation
Indices: 2369778--2369805 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2369768 AGCAGAAATC
2369778 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
2369792 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
2369806 GAAATGTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (14 bp):
TGGAGAAAAGAAAA
Found at i:2369803 original size:19 final size:18
Alignment explanation
Indices: 2369781--2369825 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
2369771 AGAAATCTGG
2369781 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
2369800 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
2369817 AGAAAAGAA
1 AGAAAAGAA
2369826 GCGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:2370145 original size:23 final size:23
Alignment explanation
Indices: 2370119--2370515 Score: 252
Period size: 23 Copynumber: 17.5 Consensus size: 23
2370109 TAAATATTGT
2370119 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
*
2370142 AAATTGAAGTATTT-AGTTGCTAG-
1 AAATTGAAGTGTTTAAG-TGCT-GC
*
2370165 AAATTG-AGATGTTTTA-TCGCTG-
1 AAATTGAAG-TGTTTAAGT-GCTGC
* * * * *
2370187 TAATT-AAGGTGTATAAATGTTGT
1 AAATTGAA-GTGTTTAAGTGCTGC
*
2370210 TAATTGATA-TGTTTAAGTGCTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
*
2370233 AAATTTAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
*
2370256 AAATTGAAGTGTTTAAGTGCTGA
1 AAATTGAAGTGTTTAAGTGCTGC
* *
2370279 AAATTG-AGATGTTTTA-TCGTTG-
1 AAATTGAAG-TGTTTAAGT-GCTGC
* * * * * *
2370301 TAATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
* *
2370324 TAATTGATA-AGTTTAAGTGCTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
*
2370347 AAATTTAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
* *
2370370 AAATTGAAGTGTTTAAGTGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
*
2370393 AAATTG-AGATGTTTTA-TCGCTG-
1 AAATTGAAG-TGTTTAAGT-GCTGC
* ** * * *
2370415 TAATTGAAGTGTAAAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
*
2370438 TAATTGATA-TGTTTAAGTGCTG-
1 AAATTGA-AGTGTTTAAGTGCTGC
* * *
2370460 AAATTTAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGC
2370483 AAATTGAAGTG-TTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
*
2370505 AAATTTAAGTG
1 AAATTGAAGTG
2370516 CTGCAAATTG
Statistics
Matches: 297, Mismatches: 50, Indels: 55
0.74 0.12 0.14
Matches are distributed among these distances:
21 1 0.00
22 89 0.30
23 202 0.68
24 4 0.01
25 1 0.00
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.40
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAGTGCTGC
Found at i:2370269 original size:91 final size:89
Alignment explanation
Indices: 2370109--2370766 Score: 351
Period size: 91 Copynumber: 7.3 Consensus size: 89
2370099 TCTAAGCGTT
* *
2370109 TAAATATTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTT-AGTTGCTAG-AAATTG-
1 TAAATGTTGTAAATTGAA-TGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-TGCT-GCAAATTGA
* *
2370171 AGATGTTTTA-TCGCTGTAATTAAGGTGTA
63 AG-TGTTTAAGT-GCTGAAATTAA-GTGTA
* *
2370200 TAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAATTGAAG
1 TAAATGTTGTAAATTGA-ATGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAG
*
2370265 TGTTTAAGTGCTGAAAATTGAGATGT-
65 TGTTTAAGTGCTG-AAATTAAG-TGTA
** * * * * ** * *
2370291 TTTATCGTTGT-AATTGAGGTGTATAAATGTTGTTAATTGATA-AGTTTAAGTGCTGCAAATTTA
1 TAAAT-GTTGTAAATTGA-ATGTTTAAGTGCTGCAAATTGA-AGTGTTTAAGTGCTGCAAATTGA
*
2370354 AGTGTTTAAGTGCTGCAAATTGAAGTGTT
63 AGTGTTTAAGTGCTG-AAATT-AAGTGTA
* * * ** * * **
2370383 TAAGTGTTGTAAATTGAGATGTTTTA-TCGCTG-TAATTGAAGTGTAAAAATGTTGTTAATTGAT
1 TAAATGTTGTAAATTGA-ATGTTTAAGT-GCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA-
*
2370446 A-TGTTTAAGTGCTGAAATTTAAGTGTT
63 AGTGTTTAAGTGCTGAAA-TTAAGTGTA
*
2370473 TAAATGCTGTAAATTGAA-GTGTTAAGTGCTGC--A---AA---TTTAAGTGCTGCAAATTG-AG
1 TAAATGTTGTAAATTGAATGT-TTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAG
** *
2370528 ATGTATT-A-TCGCTTTAATTGATGTGTA
65 -TGT-TTAAGT-GCTGAAATT-AAGTGTA
* * * * * *
2370555 TAAATGTTGTTATTTGATATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTAAAG
1 TAAATGTTGTAAATTGA-ATGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAG
*
2370620 TGTTTAAGTGCTGCAAATTGAAGTGTT
65 TGTTTAAGTGCTG-AAATT-AAGTGTA
* * * * * * * * **
2370647 TAAGTGCTGCAAATTGAGATGTCTT-A-TCGCTG-TAATTGATGTGTATAAATGTTGTTAATTGA
1 TAAATGTTGTAAATTGA-ATGT-TTAAGT-GCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
* * *
2370709 TA-TGTTAAAGTGTTGCAAATTGAAGTGTT
63 -AGTGTTTAAGTGCTG-AAATT-AAGTGTA
* *
2370738 TAAATGCTGTAAATTGAAGTGTTAAAGTG
1 TAAATGTTGTAAATTGAA-TGTTTAAGTG
2370767 TTACTTTCCA
Statistics
Matches: 445, Mismatches: 78, Indels: 88
0.73 0.13 0.14
Matches are distributed among these distances:
80 1 0.00
81 3 0.01
82 40 0.09
83 13 0.03
84 2 0.00
85 3 0.01
88 5 0.01
89 8 0.02
90 32 0.07
91 261 0.59
92 76 0.17
93 1 0.00
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (89 bp):
TAAATGTTGTAAATTGAATGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGT
GTTTAAGTGCTGAAATTAAGTGTA
Found at i:2370311 original size:114 final size:114
Alignment explanation
Indices: 2370119--2370509 Score: 628
Period size: 114 Copynumber: 3.4 Consensus size: 114
2370109 TAAATATTGT
* *
2370119 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTT-AGTTGCT-AGAAATTGAGATGTTTTAT
1 AAATTTAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-TGCTGA-AAATTGAGATGTTTTAT
*
2370182 CGCTGTAATTAAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGC
64 CGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGC
2370233 AAATTTAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGAAAATTGAGATGTTTTATCG
1 AAATTTAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGAAAATTGAGATGTTTTATCG
* *
2370298 TTGTAATTGAGGTGTATAAATGTTGTTAATTGATAAGTTTAAGTGCTGC
66 CTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGC
* *
2370347 AAATTTAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGTTGTAAATTGAGATGTTTTATCG
1 AAATTTAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGAAAATTGAGATGTTTTATCG
* *
2370412 CTGTAATTGAAGTGTAAAAATGTTGTTAATTGATATGTTTAAGTGCTG-
66 CTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGC
* * *
2370460 AAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAGTGCTGCAAATT
1 AAATTTAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGAAAATT
2370510 TAAGTGCTGC
Statistics
Matches: 260, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
112 14 0.05
113 32 0.12
114 211 0.81
115 3 0.01
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.40
Consensus pattern (114 bp):
AAATTTAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGAAAATTGAGATGTTTTATCG
CTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGC
Found at i:2370436 original size:45 final size:45
Alignment explanation
Indices: 2370106--2370754 Score: 385
Period size: 46 Copynumber: 14.4 Consensus size: 45
2370096 TTTTCTAAGC
**
2370106 GTTTAAATATTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGT
1 GTTTAAATGCTGTAAATTGAGA-TGTTTAAGTGCTG-AAATTGAAGT
* ** * *
2370152 ATTTAGTTGCTAG-AAATTGAGATGTTTTA-TCGCTGTAATT-AAGGT
1 GTTTAAATGCT-GTAAATTGAGATGTTTAAGT-GCTGAAATTGAA-GT
* * * * *
2370197 GTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGT
1 GTTTAAATGCTGTAAATTGAGATGTTTAAGTGCTG-AAATTGAAGT
* *
2370243 GTTTAAGTGCTGCAAATTGA-AGTGTTTAAGTGCTGAAAATTG-AGAT
1 GTTTAAATGCTGTAAATTGAGA-TGTTTAAGTGCTG-AAATTGAAG-T
* * * * * * * *
2370289 GTTT-TATCGTTGT-AATTGAGGTGTATAAATGTTGTTAATTGATA-A
1 GTTTAAAT-GCTGTAAATTGAGATGTTTAAGTGCTG-AAATTGA-AGT
* * *
2370334 GTTTAAGTGCTGCAAATTTA-AGTGTTTAAGTGCTGCAAATTGAAGT
1 GTTTAAATGCTGTAAATTGAGA-TGTTTAAGTGCTG-AAATTGAAGT
* * * *
2370380 GTTTAAGTGTTGTAAATTGAGATGTTTTA-TCGCTGTAATTGAAGT
1 GTTTAAATGCTGTAAATTGAGATGTTTAAGT-GCTGAAATTGAAGT
** * * * *
2370425 GTAAAAATGTTGTTAATTGATATGTTTAAGTGCTGAAATTTAAGT
1 GTTTAAATGCTGTAAATTGAGATGTTTAAGTGCTGAAATTGAAGT
*
2370470 GTTTAAATGCTGTAAATTGA-A-GTGTTAAGTGCTG-CA---AA--
1 GTTTAAATGCTGTAAATTGAGATGT-TTAAGTGCTGAAATTGAAGT
* * ** *
2370508 -TTTAAGTGCTGCAAATTGAGATGTATT-A-TCGCTTTAATTGATGT
1 GTTTAAATGCTGTAAATTGAGATGT-TTAAGT-GCTGAAATTGAAGT
* * * * * *
2370552 GTATAAATGTTGTTATTTGATATGTTAAAGTGCTGCAAATTGAAGT
1 GTTTAAATGCTGTAAATTGAGATGTTTAAGTGCTG-AAATTGAAGT
*
2370598 GTTTAAATGCTGTAAATT-AAAGTGTTTAAGTGCTGCAAATTGAAGT
1 GTTTAAATGCTGTAAATTGAGA-TGTTTAAGTGCTG-AAATTGAAGT
* * * *
2370644 GTTTAAGTGCTGCAAATTGAGATGTCTT-A-TCGCTGTAATTGATGT
1 GTTTAAATGCTGTAAATTGAGATGT-TTAAGT-GCTGAAATTGAAGT
* * * * * *
2370689 GTATAAATGTTGTTAATTGATATGTTAAAGTGTTGCAAATTGAAGT
1 GTTTAAATGCTGTAAATTGAGATGTTTAAGTGCTG-AAATTGAAGT
2370735 GTTTAAATGCTGTAAATTGA
1 GTTTAAATGCTGTAAATTGA
2370755 AGTGTTAAAG
Statistics
Matches: 456, Mismatches: 105, Indels: 84
0.71 0.16 0.13
Matches are distributed among these distances:
37 18 0.04
38 5 0.01
39 5 0.01
40 2 0.00
42 1 0.00
43 3 0.01
44 16 0.04
45 179 0.39
46 217 0.48
47 10 0.02
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (45 bp):
GTTTAAATGCTGTAAATTGAGATGTTTAAGTGCTGAAATTGAAGT
Found at i:2370442 original size:137 final size:137
Alignment explanation
Indices: 2370200--2370766 Score: 648
Period size: 137 Copynumber: 4.2 Consensus size: 137
2370190 TTAAGGTGTA
* * *
2370200 TAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAATTGA-
1 TAAATGCTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAG
* * ** ** *
2370263 AGTGTTTAAGT-GCTGAAAATTG-AGATGT-TTTATCGTTG-TAATTGAGGTGTATAAA-TGTTG
65 A-TGTTTTA-TCGCTG-TAATTGAAG-TGTATAAAT-GTTGTTAATTGATATGT-TAAAGTGCTG
**
2370323 TTAATTGATA-AGTT
124 CAAATTGA-AGAGTT
* * * * *
2370337 TAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGTTGTAAATTGAGA
1 TAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGA
* * *
2370402 TGTTTTATCGCTGTAATTGAAGTGTAAAAATGTTGTTAATTGATATGTTTAAGTGCTG-AAATTT
66 TGTTTTATCGCTGTAATTGAAGTGTATAAATGTTGTTAATTGATATGTTAAAGTGCTGCAAATTG
*
2370466 AAGTGTT
131 AAGAGTT
2370473 TAAATGCTGTAAATTGAAGTG-TTAAGTGCTGC--A---AA---TTTAAGTGCTGCAAATTGAGA
1 TAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGA
* * * *
2370529 TGTATTATCGCTTTAATTGATGTGTATAAATGTTGTTATTTGATATGTTAAAGTGCTGCAAATTG
66 TGTTTTATCGCTGTAATTGAAGTGTATAAATGTTGTTAATTGATATGTTAAAGTGCTGCAAATTG
*
2370594 AAGTGTT
131 AAGAGTT
*
2370601 TAAATGCTGTAAATTAAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGA
1 TAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGA
* * *
2370666 TGTCTTATCGCTGTAATTGATGTGTATAAATGTTGTTAATTGATATGTTAAAGTGTTGCAAATTG
66 TGTTTTATCGCTGTAATTGAAGTGTATAAATGTTGTTAATTGATATGTTAAAGTGCTGCAAATTG
*
2370731 AAGTGTT
131 AAGAGTT
*
2370738 TAAATGCTGTAAATTGAAGTGTTAAAGTG
1 TAAATGCTGTAAATTGAAGTGTTTAAGTG
2370767 TTACTTTCCA
Statistics
Matches: 373, Mismatches: 39, Indels: 36
0.83 0.09 0.08
Matches are distributed among these distances:
127 71 0.19
128 32 0.09
129 11 0.03
130 2 0.01
131 1 0.00
133 1 0.00
134 2 0.01
135 12 0.03
136 43 0.12
137 197 0.53
138 1 0.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (137 bp):
TAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGA
TGTTTTATCGCTGTAATTGAAGTGTATAAATGTTGTTAATTGATATGTTAAAGTGCTGCAAATTG
AAGAGTT
Found at i:2370451 original size:68 final size:68
Alignment explanation
Indices: 2370242--2370768 Score: 357
Period size: 68 Copynumber: 7.9 Consensus size: 68
2370232 CAAATTTAAG
* * **
2370242 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGAAAATTG-AGATGT-TTTATCGTTG-TAA
1 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTATAAAT-GTTGTTAA
*
2370304 TTGAGG
64 TTGA-A
* * * ** * * * * * * * **
2370310 TGTATAAATGTTGTTAATTGATA-AGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAAT
1 TGTTTAAGTGCTGCAAATTGA-AGTGTTTAAATGCTGTAAATTGAAGTGTATAAATGTTGTTAAT
2370374 TGAA
65 TGAA
* * * *
2370378 GTGTTTAAGTGTTGTAAATTG-AGATGTTT-TATCGCTGT-AATTGAAGTGTAAAAATGTTGTTA
1 -TGTTTAAGTGCTGCAAATTGAAG-TGTTTAAAT-GCTGTAAATTGAAGTGTATAAATGTTGTTA
2370440 ATTGATA
63 ATTGA-A
* * * *
2370447 TGTTTAAGTGCTG-AAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGT-TAAGTGCTG--CA--
1 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTATAAATGTTGTTAATT
2370506 -AA
66 GAA
* *
2370508 --TTTAAGTGCTGCAAATTG-AGATGTATT--ATCGCT-TTAATTGATGTGTATAAATGTTGTTA
1 TGTTTAAGTGCTGCAAATTGAAG-TGT-TTAAAT-GCTGTAAATTGAAGTGTATAAATGTTGTTA
*
2370567 TTTGATA
63 ATTGA-A
* * * * * **
2370574 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTAAAGTGTTTAAGTGCTGCAAATT
1 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTATAAATGTTGTTAATT
2370639 GAA
66 GAA
*
2370642 GTGTTTAAGTGCTGCAAATTG-AGATGTCTT--ATCGCTGT-AATTGATGTGTATAAATGTTGTT
1 -TGTTTAAGTGCTGCAAATTGAAG-TGT-TTAAAT-GCTGTAAATTGAAGTGTATAAATGTTGTT
2370703 AATTGATA
62 AATTGA-A
* *
2370711 TGTTAAAGTGTTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT-TAAAGTGTT
1 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTATAAA-TGTT
2370769 ACTTTCCATT
Statistics
Matches: 357, Mismatches: 63, Indels: 77
0.72 0.13 0.15
Matches are distributed among these distances:
59 26 0.07
60 18 0.05
61 3 0.01
62 1 0.00
65 2 0.01
66 1 0.00
67 26 0.07
68 169 0.47
69 109 0.31
70 2 0.01
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (68 bp):
TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTATAAATGTTGTTAATT
GAA
Found at i:2370514 original size:15 final size:15
Alignment explanation
Indices: 2370494--2370524 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2370484 AATTGAAGTG
2370494 TTAAGTGCTGCAAAT
1 TTAAGTGCTGCAAAT
2370509 TTAAGTGCTGCAAAT
1 TTAAGTGCTGCAAAT
2370524 T
1 T
2370525 GAGATGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (15 bp):
TTAAGTGCTGCAAAT
Found at i:2370594 original size:23 final size:23
Alignment explanation
Indices: 2370574--2370766 Score: 159
Period size: 23 Copynumber: 8.4 Consensus size: 23
2370564 TTATTTGATA
2370574 TGTTAAAGTGCTGCAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAG
* *
2370597 TGTTTAAA-TGCTGTAAATTAAAG
1 TG-TTAAAGTGCTGCAAATTGAAG
*
2370620 TGTTTAAGTGCTGCAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAG
*
2370643 TGTTTAAGTGCTGCAAATTG-AG
1 TGTTAAAGTGCTGCAAATTGAAG
* * *
2370665 ATGTCT-TA-TCGCTG-TAATTGATG
1 -TGT-TAAAGT-GCTGCAAATTGAAG
* **
2370688 TGTATAAA-TGTTGTTAATTGATA-
1 TGT-TAAAGTGCTGCAAATTGA-AG
*
2370711 TGTTAAAGTGTTGCAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAG
*
2370734 TGTTTAAA-TGCTGTAAATTGAAG
1 TG-TTAAAGTGCTGCAAATTGAAG
2370757 TGTTAAAGTG
1 TGTTAAAGTG
2370767 TTACTTTCCA
Statistics
Matches: 141, Mismatches: 16, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
22 29 0.21
23 101 0.72
24 11 0.08
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (23 bp):
TGTTAAAGTGCTGCAAATTGAAG
Found at i:2371732 original size:43 final size:42
Alignment explanation
Indices: 2371676--2371906 Score: 300
Period size: 43 Copynumber: 5.4 Consensus size: 42
2371666 TTTTTGTGAC
* * **
2371676 CTTTAGTGGCGTTTTTGGAGAAAGCGCCGCTAAAGGTCTTATT
1 CTTTAGCGGCGTTTGTGG-GAAAGCGCCGCTAAAGGTCTTGGT
* * *
2371719 CTTTAGCAGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCTTGTT
1 CTTTAGCGGCGTTTGT-GGGAAAGCGCCGCTAAAGGTCTTGGT
* * *
2371762 CTTTAGCGGTGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGT
1 CTTTAGCGGCGTTTGTGG-GAAAGCGCCGCTAAAGGTCTTGGT
*
2371805 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGT
1 CTTTAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCTTGGT
*
2371848 CTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCTTGGT
1 CTTTAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCTTGGT
2371891 CTTTAGCGGCGCTTTG
1 CTTTAGCGGCG-TTTG
2371907 CTAAAAGCCT
Statistics
Matches: 170, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
42 2 0.01
43 162 0.95
44 6 0.04
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.31
Consensus pattern (42 bp):
CTTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCTTGGT
Found at i:2376249 original size:8 final size:9
Alignment explanation
Indices: 2376223--2376248 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2376213 TGTAAATCTC
2376223 ATTTTTTTT
1 ATTTTTTTT
2376232 ATTTTTTTT
1 ATTTTTTTT
2376241 ATTTTTTT
1 ATTTTTTT
2376249 AATCCCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:2380591 original size:57 final size:56
Alignment explanation
Indices: 2380503--2380776 Score: 282
Period size: 57 Copynumber: 4.9 Consensus size: 56
2380493 CTAAACCATA
* * *
2380503 TAAACCTTCAACACCTTCACTACCTTGACTGCCACCAACCTCAACACCCTTCCCACC
1 TAAACCTTCAACACCCTCACCACCTTGACTGCCAACAACCTCAACACCC-TCCCACC
* * * *
2380560 TAAACCTTCACCACTCTCACCACCTTGACTGCCACCAACCTCAGCACCCTTCCCACC
1 TAAACCTTCAACACCCTCACCACCTTGACTGCCAACAACCTCAACACCC-TCCCACC
* * * * **
2380617 TAAATCTTCAACACCCTCACCACATTTACTGCTAACAAAATCAACA-CC-CCCACC
1 TAAACCTTCAACACCCTCACCACCTTGACTGCCAACAACCTCAACACCCTCCCACC
* * * * * **
2380671 TAAACCTTCACCACCCTCACCACCTTCACTACCAGCAACCTGAAACACCCTCCCTATT
1 TAAACCTTCAACACCCTCACCACCTTGACTGCCAACAACCT-CAACACCCTCCC-ACC
* * * *
2380729 TAAACCTTTAACACCCTCACCACCTTTACTGCTAATAACCTCAACACC
1 TAAACCTTCAACACCCTCACCACCTTGACTGCCAACAACCTCAACACC
2380777 TTCTTTACCA
Statistics
Matches: 178, Mismatches: 35, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
54 38 0.21
55 4 0.02
56 4 0.02
57 97 0.54
58 35 0.20
ACGTcount: A:0.30, C:0.45, G:0.03, T:0.21
Consensus pattern (56 bp):
TAAACCTTCAACACCCTCACCACCTTGACTGCCAACAACCTCAACACCCTCCCACC
Found at i:2380710 original size:111 final size:112
Alignment explanation
Indices: 2380503--2380763 Score: 301
Period size: 111 Copynumber: 2.3 Consensus size: 112
2380493 CTAAACCATA
* * * * * * **
2380503 TAAACCTTCAACACCTTCACTACCTTGACTGCCACCAACCTCAACACCCTTCCCACCTAAACCTT
1 TAAACCTTCAACACCCTCACCACATTTACTGCTAACAAAATCAACA-CC--CCCACCTAAACCTT
* * * * *
2380568 CACCACTCTCACCACCTTGACTGCCACCAACCT-CAGCACCCTTCCC-ACC
63 CACCACCCTCACCACCTTCACTACCACCAACCTGAAACACCC-TCCCTACC
*
2380617 TAAATCTTCAACACCCTCACCACATTTACTGCTAACAAAATCAACACCCCCACCTAAACCTTCAC
1 TAAACCTTCAACACCCTCACCACATTTACTGCTAACAAAATCAACACCCCCACCTAAACCTTCAC
* **
2380682 CACCCTCACCACCTTCACTACCAGCAACCTGAAACACCCTCCCTATT
66 CACCCTCACCACCTTCACTACCACCAACCTGAAACACCCTCCCTACC
* *
2380729 TAAACCTTTAACACCCTCACCACCTTTACTGCTAA
1 TAAACCTTCAACACCCTCACCACATTTACTGCTAA
2380764 TAACCTCAAC
Statistics
Matches: 125, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
111 47 0.38
112 39 0.31
113 2 0.02
114 37 0.30
ACGTcount: A:0.30, C:0.45, G:0.03, T:0.21
Consensus pattern (112 bp):
TAAACCTTCAACACCCTCACCACATTTACTGCTAACAAAATCAACACCCCCACCTAAACCTTCAC
CACCCTCACCACCTTCACTACCACCAACCTGAAACACCCTCCCTACC
Found at i:2381682 original size:29 final size:29
Alignment explanation
Indices: 2381628--2381784 Score: 120
Period size: 29 Copynumber: 5.4 Consensus size: 29
2381618 AATTAGTAGT
** * *
2381628 AAAACCCTAAACCAATGTCTCAAAAATCG
1 AAAACCCTAAACCAAAATCCCCAAAATCG
** * *
2381657 AAAACAATAAACAAAAATCCCCAAAATTAG
1 AAAACCCTAAACCAAAATCCCCAAAA-TCG
* * *
2381687 AATACCCCAAACGAAAATCCCCAAAATC-
1 AAAACCCTAAACCAAAATCCCCAAAATCG
* *
2381715 AAAACCCCTAACCCAAAATCCCCAAATTCG
1 AAAA-CCCTAAACCAAAATCCCCAAAATCG
* * * *
2381745 ACAA-CCTAAACCAAAATCTCCAAACTCA
1 AAAACCCTAAACCAAAATCCCCAAAATCG
*
2381773 AAAACCTTAAAC
1 AAAACCCTAAAC
2381785 ATTAACCAAA
Statistics
Matches: 98, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
28 26 0.27
29 46 0.47
30 26 0.27
ACGTcount: A:0.52, C:0.31, G:0.03, T:0.14
Consensus pattern (29 bp):
AAAACCCTAAACCAAAATCCCCAAAATCG
Found at i:2381704 original size:30 final size:29
Alignment explanation
Indices: 2381664--2381785 Score: 97
Period size: 28 Copynumber: 4.2 Consensus size: 29
2381654 TCGAAAACAA
*
2381664 TAAACAAAAATCCCCAAAATTAGAATACCCC
1 TAAACAAAAATCCCCAAAATCA-AA-ACCCC
*
2381695 -AAACGAAAATCCCCAAAATCAAAACCCC
1 TAAACAAAAATCCCCAAAATCAAAACCCC
* * * *
2381723 TAACCCAAAATCCCCAAATTCGACAA--CC
1 TAAACAAAAATCCCCAAAATC-AAAACCCC
* * * * *
2381751 TAAACCAAAATCTCCAAACTCAAAAACCT
1 TAAACAAAAATCCCCAAAATCAAAACCCC
2381780 TAAACA
1 TAAACA
2381786 TTAACCAAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
27 3 0.04
28 25 0.33
29 25 0.33
30 22 0.29
ACGTcount: A:0.51, C:0.33, G:0.02, T:0.14
Consensus pattern (29 bp):
TAAACAAAAATCCCCAAAATCAAAACCCC
Found at i:2381737 original size:15 final size:15
Alignment explanation
Indices: 2381665--2381740 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
2381655 CGAAAACAAT
*
2381665 AAACAAAAATCCCCA
1 AAACCAAAATCCCCA
** *
2381680 AAATTAGAATACCCC-
1 AAACCAAAAT-CCCCA
*
2381695 AAACGAAAATCCCCA
1 AAACCAAAATCCCCA
* *
2381710 AAATCAAAA-CCCCT
1 AAACCAAAATCCCCA
*
2381724 AACCCAAAATCCCCA
1 AAACCAAAATCCCCA
2381739 AA
1 AA
2381741 TTCGACAACC
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
14 15 0.33
15 27 0.59
16 4 0.09
ACGTcount: A:0.53, C:0.34, G:0.03, T:0.11
Consensus pattern (15 bp):
AAACCAAAATCCCCA
Found at i:2381947 original size:2 final size:2
Alignment explanation
Indices: 2381940--2382001 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
2381930 TCACTATATG
2381940 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2381982 CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT
2382002 TATTAACTAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2382426 original size:8 final size:9
Alignment explanation
Indices: 2382412--2382509 Score: 51
Period size: 9 Copynumber: 10.7 Consensus size: 9
2382402 TTTATTTTGC
2382412 AATTTTTAT
1 AATTTTTAT
*
2382421 AATTTTTGT
1 AATTTTTAT
2382430 AATTTTATAT
1 AATTTT-TAT
*
2382440 AGA-TTTCAT
1 A-ATTTTTAT
*
2382449 ATATTTTAAT
1 A-ATTTTTAT
2382459 AATTTTCTAT
1 AATTTT-TAT
* *
2382469 TATTGTTA-
1 AATTTTTAT
2382477 AATTATTT-T
1 AATT-TTTAT
*
2382486 AAATTTTACT
1 AATTTTTA-T
*
2382496 ATTTTTTAT
1 AATTTTTAT
2382505 -ATTTT
1 AATTTT
2382510 AAAAAGATAT
Statistics
Matches: 67, Mismatches: 14, Indels: 17
0.68 0.14 0.17
Matches are distributed among these distances:
8 10 0.15
9 31 0.46
10 25 0.37
11 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
AATTTTTAT
Found at i:2382433 original size:18 final size:20
Alignment explanation
Indices: 2382406--2382445 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
2382396 TTCTTTTTTA
2382406 TTTTGCAATTTT-TATA-AT
1 TTTTGCAATTTTATATAGAT
*
2382424 TTTTGTAATTTTATATAGAT
1 TTTTGCAATTTTATATAGAT
2382444 TT
1 TT
2382446 CATATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 4 0.21
20 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (20 bp):
TTTTGCAATTTTATATAGAT
Found at i:2383528 original size:19 final size:20
Alignment explanation
Indices: 2383474--2383533 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 20
2383464 CTTGAACCCT
*
2383474 AAATCTCGAACCC-AAATCC
1 AAATCTTGAACCCTAAATCC
* * *
2383493 AAATTTTGAATCTTAAATCC
1 AAATCTTGAACCCTAAATCC
*
2383513 AAA-CTTGAACCCTAAACCC
1 AAATCTTGAACCCTAAATCC
2383532 AA
1 AA
2383534 GTTAATGGTT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 23 0.72
20 9 0.28
ACGTcount: A:0.43, C:0.28, G:0.05, T:0.23
Consensus pattern (20 bp):
AAATCTTGAACCCTAAATCC
Found at i:2384078 original size:14 final size:15
Alignment explanation
Indices: 2384059--2384087 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2384049 AAATATTTTA
2384059 TATTAATA-AATGAT
1 TATTAATAGAATGAT
2384073 TATTAATAGAATGAT
1 TATTAATAGAATGAT
2384088 AAAAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (15 bp):
TATTAATAGAATGAT
Found at i:2384406 original size:29 final size:29
Alignment explanation
Indices: 2384364--2384421 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
2384354 TTCTTAGATA
*
2384364 CATTTCTTATATTAGCTTAAAACCCAATC
1 CATTTATTATATTAGCTTAAAACCCAATC
2384393 CATTTATTATATTAGCTTAAAACCCAATC
1 CATTTATTATATTAGCTTAAAACCCAATC
2384422 TTTTTTTCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.38
Consensus pattern (29 bp):
CATTTATTATATTAGCTTAAAACCCAATC
Found at i:2393285 original size:127 final size:129
Alignment explanation
Indices: 2393042--2393297 Score: 435
Period size: 127 Copynumber: 2.0 Consensus size: 129
2393032 ATGGTAACTT
*
2393042 GAATTTAACTTAATAATTTGGAATTCTAACACATGGGTAAGACATGCTAGTTTGAGATGATTATG
1 GAATTTAACTTAATAATTTGGAATTCTAACACATGGGTAAGACATGCTAGTTTGAGAGGATTATG
*
2393107 AATTAAAAAAAAATCCAAGGAAAATACACATATTTACCTTATCAATTTGTTGGCCGAATGTGAA
66 AATTAAAAAAAAATCCAAGGAAAATACACATATTTACCTTATCAAATTGTTGGCCGAATGTGAA
2393171 GAATTTAACTTAATAATTTGGAATTCTAACACAT-GGTAAGACATGCTAGTTTGAGAGGATTATG
1 GAATTTAACTTAATAATTTGGAATTCTAACACATGGGTAAGACATGCTAGTTTGAGAGGATTATG
* * * * *
2393235 AATT-CACAAAACTCCAAGGAAGATACACATATTTACTTTATCAAATTGTTGGCCGAATGTGAA
66 AATTAAAAAAAAATCCAAGGAAAATACACATATTTACCTTATCAAATTGTTGGCCGAATGTGAA
2393298 TAAGAAAGCT
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
127 53 0.44
128 33 0.28
129 34 0.28
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (129 bp):
GAATTTAACTTAATAATTTGGAATTCTAACACATGGGTAAGACATGCTAGTTTGAGAGGATTATG
AATTAAAAAAAAATCCAAGGAAAATACACATATTTACCTTATCAAATTGTTGGCCGAATGTGAA
Found at i:2395017 original size:34 final size:34
Alignment explanation
Indices: 2394911--2395019 Score: 86
Period size: 34 Copynumber: 3.2 Consensus size: 34
2394901 TATGCAACTC
* *
2394911 AAGAAGGTTGAAAGCTTTGAAAAGATAAGTGCTT
1 AAGAAGGTTGAAAGCTTTGAAAAGCTAAGTGCAT
* *
2394945 AAGAA-GAT-AATGTACTTT-AAGAAGTACCTAA--GCA-
1 AAGAAGGTTGAAAG--CTTTGAA-AAG---CTAAGTGCAT
2394979 AAGAAGGTTGAAAGCTTTGAAAAGCTAAGTGCAT
1 AAGAAGGTTGAAAGCTTTGAAAAGCTAAGTGCAT
2395013 AAGAAGG
1 AAGAAGG
2395020 CAAAGTACTT
Statistics
Matches: 57, Mismatches: 6, Indels: 24
0.66 0.07 0.28
Matches are distributed among these distances:
31 4 0.07
32 3 0.05
33 7 0.12
34 31 0.54
35 6 0.11
36 3 0.05
37 3 0.05
ACGTcount: A:0.44, C:0.08, G:0.25, T:0.23
Consensus pattern (34 bp):
AAGAAGGTTGAAAGCTTTGAAAAGCTAAGTGCAT
Found at i:2395054 original size:68 final size:67
Alignment explanation
Indices: 2394745--2395074 Score: 228
Period size: 68 Copynumber: 4.9 Consensus size: 67
2394735 GTGCTTGTGG
* * * * * ***
2394745 AGGCAAGGTACTTTAAAAAGTATGGAAAC-AAAGAAGGTTGAAAGTTTTGAAAAGCTAAAACCCT
1 AGGCAAAGTACTTTAAGAAGTAT-GCAACTGAAGAAGGTTGAAAGCTTTGAAAAGCT-AAGTGCT
*
2394809 AATA
64 AAGA
* * *
2394813 AGGCGAAA-TACTTTAAGAAGT-TCACAACTTG-ATAAGGTTGAGAA-CTTTGAAAAGTTAAGTG
1 AGGC-AAAGTACTTTAAGAAGTAT-GCAAC-TGAAGAAGGTTGA-AAGCTTTGAAAAGCTAAGTG
2394874 TCTGAA-A
62 -CT-AAGA
* * * * *
2394881 AGGTAAAGTACTTCAAGAAATATGCAACTCAAGAAGGTTGAAAGCTTTGAAAAGATAAGTGCTTA
1 AGGCAAAGTACTTTAAGAAGTATGCAACTGAAGAAGGTTGAAAGCTTTGAAAAGCTAAGTGC-TA
2394946 AGA
65 AGA
** * * *
2394949 AGATAATGTACTTTAAGAAGTA-CCTAAGC-AAAGAAGGTTGAAAGCTTTGAAAAGCTAAGTGCA
1 AGGCAAAGTACTTTAAGAAGTATGC-AA-CTGAAGAAGGTTGAAAGCTTTGAAAAGCTAAGTGC-
2395012 TAAGA
63 TAAGA
* ** * **
2395017 AGGCAAAGTACTTTAATAAGTATGTGACTTGAA-AAGGTGGAAAATTTTGAAAAGCTAA
1 AGGCAAAGTACTTTAAGAAGTATGCAAC-TGAAGAAGGTTGAAAGCTTTGAAAAGCTAA
2395075 TTTCCTAATA
Statistics
Matches: 207, Mismatches: 38, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
67 17 0.08
68 180 0.87
69 10 0.05
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.25
Consensus pattern (67 bp):
AGGCAAAGTACTTTAAGAAGTATGCAACTGAAGAAGGTTGAAAGCTTTGAAAAGCTAAGTGCTAA
GA
Found at i:2397121 original size:21 final size:21
Alignment explanation
Indices: 2397092--2397213 Score: 136
Period size: 21 Copynumber: 5.8 Consensus size: 21
2397082 AGCTTTGGCT
2397092 GAAACCGAGGCGAAGCCAGCC
1 GAAACCGAGGCGAAGCCAGCC
* * *
2397113 GAATCCGAGGTGCAGCCAGCC
1 GAAACCGAGGCGAAGCCAGCC
*
2397134 GAAACCGAGGCGAATCCAGCC
1 GAAACCGAGGCGAAGCCAGCC
* *
2397155 GAAACCAAGGTGAAGCCAGCC
1 GAAACCGAGGCGAAGCCAGCC
* * * *
2397176 GAAACTGAGGCGAAACCAACA
1 GAAACCGAGGCGAAGCCAGCC
* *
2397197 GAACCCGAGGCAAAGCC
1 GAAACCGAGGCGAAGCC
2397214 CACGGAAGCT
Statistics
Matches: 81, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 81 1.00
ACGTcount: A:0.35, C:0.31, G:0.30, T:0.04
Consensus pattern (21 bp):
GAAACCGAGGCGAAGCCAGCC
Found at i:2397153 original size:42 final size:42
Alignment explanation
Indices: 2397092--2397189 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
2397082 AGCTTTGGCT
* * *
2397092 GAAACCGAGGCGAAGCCAGCCGAATCCGAGGTGCAGCCAGCC
1 GAAACCGAGGCGAAGCCAGCCGAAACCAAGGTGAAGCCAGCC
*
2397134 GAAACCGAGGCGAATCCAGCCGAAACCAAGGTGAAGCCAGCC
1 GAAACCGAGGCGAAGCCAGCCGAAACCAAGGTGAAGCCAGCC
*
2397176 GAAACTGAGGCGAA
1 GAAACCGAGGCGAA
2397190 ACCAACAGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.34, C:0.30, G:0.32, T:0.05
Consensus pattern (42 bp):
GAAACCGAGGCGAAGCCAGCCGAAACCAAGGTGAAGCCAGCC
Found at i:2398208 original size:4 final size:4
Alignment explanation
Indices: 2398199--2398230 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
2398189 AAAAAATGTA
2398199 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
2398231 GAAGGGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:2402502 original size:26 final size:27
Alignment explanation
Indices: 2402467--2402534 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
2402457 ATTTTTACTT
* *
2402467 CCCCTCAAAAGTTTTATTTC-TCCCAAA
1 CCCC-CAAAACTTTTACTTCTTCCCAAA
* *
2402494 TCCCCAAAACTTTTACTTCTTCCTAAA
1 CCCCCAAAACTTTTACTTCTTCCCAAA
2402521 CCCCCAAAACTTTT
1 CCCCCAAAACTTTT
2402535 TTTTTTCGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 13 0.37
27 22 0.63
ACGTcount: A:0.29, C:0.35, G:0.01, T:0.34
Consensus pattern (27 bp):
CCCCCAAAACTTTTACTTCTTCCCAAA
Found at i:2408912 original size:18 final size:18
Alignment explanation
Indices: 2408886--2408933 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
2408876 TTTGGTCATA
*
2408886 TGTTGGTATGTATGTTTC
1 TGTTTGTATGTATGTTTC
2408904 TGTTTGTATGTATGTTTC
1 TGTTTGTATGTATGTTTC
2408922 TGTTTGTATGTA
1 TGTTTGTATGTA
2408934 CCATACACTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.12, C:0.04, G:0.25, T:0.58
Consensus pattern (18 bp):
TGTTTGTATGTATGTTTC
Found at i:2426408 original size:205 final size:205
Alignment explanation
Indices: 2426056--2426472 Score: 753
Period size: 205 Copynumber: 2.0 Consensus size: 205
2426046 TCGTGTTTTT
*
2426056 TTTAAAACAAAGTCGGTGCACCATATAGGGCTTTAGATGGTCTAGTGAACCCAGCATCTAAGAGC
1 TTTAAAACAAAGTCGGTGCACCATATAGGGCTTTAGATGGTCTAGTGAACCCAACATCTAAGAGC
2426121 TCCTTCAATTGTTTCACAATTCTTAAATTTTGGTGGTGACATTCAACATGGGGAATTGACTGGCA
66 TCCTTCAATTGTTTCACAATTCTTAAATTTTGGTGGTGACATTCAACATGGGGAATTGACTGGCA
* *
2426186 ATTCAACATTGGGCATTTGTGATCCACCACCCTCTTAGAAGGTAACTTCTTAGGCAGCTCGGCAA
131 ATTCAACATTGGGCATTTGTGATCCACCACCCTCTTAGAAGGTAACTTCTAAGGCAGCTCAGCAA
*
2426251 GCATCATATC
196 GCATCACATC
2426261 TTTAAAACAAAGTCGGTGCACCATATAGGGCTTTAGATGGTCTAGTGAACCCAACATCTAAGAGC
1 TTTAAAACAAAGTCGGTGCACCATATAGGGCTTTAGATGGTCTAGTGAACCCAACATCTAAGAGC
*
2426326 TCCTTCAATTGTTTCACAATTCTTCAATTTTGGTGGTGACATTCAACATGGGGAATTGACTGGCA
66 TCCTTCAATTGTTTCACAATTCTTAAATTTTGGTGGTGACATTCAACATGGGGAATTGACTGGCA
* * *
2426391 ATTCAACATTGGGCATTTGTGATCCTCCACCCTCTTAGAAGGTAACTTCTAAGGTAGCTTAGCAA
131 ATTCAACATTGGGCATTTGTGATCCACCACCCTCTTAGAAGGTAACTTCTAAGGCAGCTCAGCAA
2426456 GCATCACATC
196 GCATCACATC
*
2426466 TTGAAAA
1 TTTAAAA
2426473 GATTGTAACA
Statistics
Matches: 203, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
205 203 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (205 bp):
TTTAAAACAAAGTCGGTGCACCATATAGGGCTTTAGATGGTCTAGTGAACCCAACATCTAAGAGC
TCCTTCAATTGTTTCACAATTCTTAAATTTTGGTGGTGACATTCAACATGGGGAATTGACTGGCA
ATTCAACATTGGGCATTTGTGATCCACCACCCTCTTAGAAGGTAACTTCTAAGGCAGCTCAGCAA
GCATCACATC
Found at i:2428752 original size:36 final size:36
Alignment explanation
Indices: 2428712--2428866 Score: 204
Period size: 36 Copynumber: 4.3 Consensus size: 36
2428702 CAAATCAAGA
* *
2428712 AAAACACACTAGATGCTCACACAAGTCAATCCCTCC
1 AAAACACACTAGATGCTCACACGAGCCAATCCCTCC
* *
2428748 AAAACACACCAGATGCTCACACGAGCCAATCTCTCC
1 AAAACACACTAGATGCTCACACGAGCCAATCCCTCC
* * * *
2428784 AAAACACACCAAATGCTCACATGTGCCAATCCCTCC
1 AAAACACACTAGATGCTCACACGAGCCAATCCCTCC
* *
2428820 AAAACACA-TCAGATGTTCACACGAGTCAATCCCTCC
1 AAAACACACT-AGATGCTCACACGAGCCAATCCCTCC
2428856 AAAACACACTA
1 AAAACACACTA
2428867 AACAAAGAGT
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
36 102 0.99
37 1 0.01
ACGTcount: A:0.39, C:0.36, G:0.09, T:0.16
Consensus pattern (36 bp):
AAAACACACTAGATGCTCACACGAGCCAATCCCTCC
Found at i:2429308 original size:23 final size:23
Alignment explanation
Indices: 2429274--2429317 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
2429264 TATTTCCATC
2429274 TATTTTATAA-TTAATACCTTTT
1 TATTTTATAATTTAATACCTTTT
* *
2429296 TATTTTTTGAATTTATTACCTT
1 TATTTTAT-AATTTAATACCTT
2429318 AAACTTTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 2 0.11
24 9 0.50
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTTTATAATTTAATACCTTTT
Found at i:2432790 original size:30 final size:30
Alignment explanation
Indices: 2432744--2432867 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
2432734 TTTTATTATG
* *
2432744 CCAATATCTCGATACCCATATATTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
2432775 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
2432805 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
2432835 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
2432865 CCA
1 CCA
2432868 TAAATATGGA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 80 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:2432829 original size:15 final size:15
Alignment explanation
Indices: 2432754--2432861 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
2432744 CCAATATCTC
2432754 GATACCCATATATTT
1 GATACCCATATATTT
**
2432769 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
2432784 GATACCCATATCTTT
1 GATACCCATATATTT
**
2432799 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
2432814 GATACCCATATCTTT
1 GATACCCATATATTT
** *
2432829 GACTTTCTAT-TATTT
1 GA-TACCCATATATTT
*
2432844 GATACCCATATCTTT
1 GATACCCATATATTT
2432859 GAT
1 GAT
2432862 TTTCCATAAA
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
14 12 0.18
15 44 0.65
16 12 0.18
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Done.