Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, whole genome shotgun sequence
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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 44 of 138
Found at i:9539173 original size:10 final size:10
Alignment explanation
Indices: 9539158--9539188 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9539148 GAAGACTAAA
9539158 AGAAAAAAAG
1 AGAAAAAAAG
9539168 AGAAAAAAAG
1 AGAAAAAAAG
*
9539178 AGAGAAAAAG
1 AGAAAAAAAG
9539188 A
1 A
9539189 AGAAGAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAG
Found at i:9539205 original size:19 final size:19
Alignment explanation
Indices: 9539182--9539224 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
9539172 AAAAAGAGAG
*
9539182 AAAAAGAAGAAGAAGAAATGA
1 AAAAAGAA-AA-ATGAAATGA
*
9539203 AAAATGAAAAATGAAATGA
1 AAAAAGAAAAATGAAATGA
9539222 AAA
1 AAA
9539225 TAAATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 2 0.10
21 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (19 bp):
AAAAAGAAAAATGAAATGA
Found at i:9539243 original size:17 final size:16
Alignment explanation
Indices: 9539203--9539263 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 16
9539193 GAAGAAATGA
9539203 AAAATGAAAAATGAA-AT
1 AAAAT-AAAAAT-AATAT
9539220 GAAAATAAATGAA-AATAT
1 -AAAATAAA--AATAATAT
9539238 AAAATATAAAATAATAT
1 AAAATA-AAAATAATAT
9539255 AAAATAAAA
1 AAAATAAAA
9539264 TTGCATTGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.13
17 22 0.58
18 9 0.24
19 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (16 bp):
AAAATAAAAATAATAT
Found at i:9539256 original size:29 final size:29
Alignment explanation
Indices: 9539197--9539257 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
9539187 GAAGAAGAAG
*
9539197 AAATGAAAAATGAAAAATGAAATGAAAAT
1 AAATGAAAAATGAAAAATAAAATGAAAAT
*
9539226 AAATGAAAATAT-AAAATATAAAAT-AATAT
1 AAATGAAAA-ATGAAAA-ATAAAATGAAAAT
9539255 AAA
1 AAA
9539258 ATAAAATTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.21
Consensus pattern (29 bp):
AAATGAAAAATGAAAAATAAAATGAAAAT
Found at i:9541826 original size:44 final size:46
Alignment explanation
Indices: 9541714--9541842 Score: 127
Period size: 44 Copynumber: 2.8 Consensus size: 46
9541704 ATTGTATTTG
* * * * *
9541714 TGTAAAAAGCATTTGTATCATTGTGATAAAATATTTACATTTGCATCTT
1 TGTATAAAGCATGTGCATCA-TG-GAAAAAAAATTTACATTTGCA-CTT
* * * * *
9541763 TGTGTAGAGCCTTTGCATCAT-GAAAAAGAATTTACATTTGCA-TT
1 TGTATAAAGCATGTGCATCATGGAAAAAAAATTTACATTTGCACTT
9541807 TGTATAAAGCATGTGCATCATGGAAAAAAAATTTAC
1 TGTATAAAGCATGTGCATCATGGAAAAAAAATTTAC
9541843 TAGTAAAGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
44 19 0.29
45 13 0.20
46 18 0.27
48 1 0.02
49 15 0.23
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (46 bp):
TGTATAAAGCATGTGCATCATGGAAAAAAAATTTACATTTGCACTT
Found at i:9542319 original size:75 final size:75
Alignment explanation
Indices: 9542209--9542349 Score: 180
Period size: 75 Copynumber: 1.9 Consensus size: 75
9542199 TGTTTAAGAA
* *
9542209 ATGATATATGGAATATAAGAAGGACAAGAAGAGTTTTCCTT-AAGA-AAAGCAAATGTTGAAAAT
1 ATGATATATGGAATATAAGAAGGACAAGAAAAG-TTTCCTTGAA-ATAAAGCAAATGCTGAAAAT
9542272 TTTAAGAGATAT
64 TTTAAGAGATAT
* * * *
9542284 ATGATATCTGGAATATAAGAATGACCAA-AAAAGTTTCCTTGAAATGAAGCAAATGCTGATAATT
1 ATGATATATGGAATATAAGAAGGA-CAAGAAAAGTTTCCTTGAAATAAAGCAAATGCTGAAAATT
9542348 TT
65 TT
9542350 TTAAAGAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
74 8 0.14
75 46 0.81
76 3 0.05
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (75 bp):
ATGATATATGGAATATAAGAAGGACAAGAAAAGTTTCCTTGAAATAAAGCAAATGCTGAAAATTT
TAAGAGATAT
Found at i:9542940 original size:159 final size:157
Alignment explanation
Indices: 9542609--9542940 Score: 380
Period size: 159 Copynumber: 2.1 Consensus size: 157
9542599 TTAAGAATAC
* * * * * * *
9542609 TAAGCCCATAGCACCAGTTTAGAGTTTTAAGTCTATGGCATATGTTAAGAATTTTAAGCTTGGCA
1 TAAGCCCATAGCACCAGATTAGAGTTTTAAATCCATAGCACATGTTAAGAATTTTAACCATGGCA
* * ** *
9542674 TCAAATGAAGTTTTAAGTCCATAACACTAGTTAAGTCTAAAGCCAATGACACTAGTTGAGAGTTT
66 CCAAATGAAGTTTTAAGTCCATAACACCAGTTAAGTCTAAAGCCAATGACACTAAATGAAAGTTT
* * * *
9542739 TAAACTAATGGCACTAGTTGAAATCCT
131 TAAACCAAAGGCACCAATTGAAATCCT
* * * * *
9542766 TAAGTCGATACCACCAGATTAGAGTTTTAAATCCATAGCACCTTTTAAGAATTTTAAACCCATGG
1 TAAGCCCATAGCACCAGATTAGAGTTTTAAATCCATAGCACATGTTAAGAATTTT-AA-CCATGG
* * *
9542831 CACCAAATGAAGTTTTAAG-CCTATAACACCAGTTAAGTCTTAAGCCTATGGCACTAAATGAAAG
64 CACCAAATGAAGTTTTAAGTCC-ATAACACCAGTTAAGTCTAAAGCCAATGACACTAAATGAAAG
*
9542895 TTTTAAGCCAAAGGCACCAATTGAGAAT-CT
128 TTTTAAACCAAAGGCACCAATTGA-AATCCT
*
9542925 TAAGCCCATGGCACCA
1 TAAGCCCATAGCACCA
9542941 AATGAGATTG
Statistics
Matches: 142, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
157 45 0.32
158 4 0.03
159 90 0.63
160 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (157 bp):
TAAGCCCATAGCACCAGATTAGAGTTTTAAATCCATAGCACATGTTAAGAATTTTAACCATGGCA
CCAAATGAAGTTTTAAGTCCATAACACCAGTTAAGTCTAAAGCCAATGACACTAAATGAAAGTTT
TAAACCAAAGGCACCAATTGAAATCCT
Found at i:9542944 original size:54 final size:54
Alignment explanation
Indices: 9542813--9543199 Score: 225
Period size: 54 Copynumber: 7.3 Consensus size: 54
9542803 GCACCTTTTA
* * ** *
9542813 AGAATTTTAAACCCATGGCACCAAATG-AAGTTTTAAGCCTATAACACCAGTT-
1 AGAATTTTAAGCCCATGGCACCAAATGAAAGTTTTAAGCCAATGGCACCAATTG
* * * * *
9542865 A-AGTCTTAAGCCTATGGCACTAAATGAAAGTTTTAAGCCAAAGGCACCAATTG
1 AGAATTTTAAGCCCATGGCACCAAATGAAAGTTTTAAGCCAATGGCACCAATTG
* * * *
9542918 AGAATCTTAAGCCCATGGCACCAAATGAGA-TTGTTAAGCCCATGGCACTAATTG
1 AGAATTTTAAGCCCATGGCACCAAATGAAAGTT-TTAAGCCAATGGCACCAATTG
* * * ** * * * * * * *
9542972 AGATTTTTAAACCTATGGCATTATATTAGAGTTTTGAGCCCATGGCATCTATTG
1 AGAATTTTAAGCCCATGGCACCAAATGAAAGTTTTAAGCCAATGGCACCAATTG
* **** * * ** *
9543026 AAAATTTTAAGCCCATGGCATTGGATG-AGGCTTTAAGCC-ATCACACCAGTT-
1 AGAATTTTAAGCCCATGGCACCAAATGAAAGTTTTAAGCCAATGGCACCAATTG
* * * * * ** * *
9543077 A-AGTTTTAAGCCTATGGCACCAATTGAGAGTTTTAAGCTAATGAAACTAGTTG
1 AGAATTTTAAGCCCATGGCACCAAATGAAAGTTTTAAGCCAATGGCACCAATTG
* ** * *
9543130 AGAATCTTAAGCCCATGGCACCGGATTAAAGTTTTAAGCC-ATGGCACCTATTG
1 AGAATTTTAAGCCCATGGCACCAAATGAAAGTTTTAAGCCAATGGCACCAATTG
* * *
9543183 AAAAATTTAAGCACATG
1 AGAATTTTAAGCCCATG
9543200 TTACAAGTTA
Statistics
Matches: 249, Mismatches: 77, Indels: 17
0.73 0.22 0.05
Matches are distributed among these distances:
50 18 0.07
51 29 0.12
52 37 0.15
53 33 0.13
54 130 0.52
55 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (54 bp):
AGAATTTTAAGCCCATGGCACCAAATGAAAGTTTTAAGCCAATGGCACCAATTG
Found at i:9542980 original size:159 final size:159
Alignment explanation
Indices: 9542653--9542991 Score: 348
Period size: 159 Copynumber: 2.1 Consensus size: 159
9542643 ATGGCATATG
* * * *
9542653 TTAAGAATTTT-AA-GCTTGGCATCAAATGAAGTTTTAAGTCCATAACACTAGTTAAGTCTAAAG
1 TTAAGAATTTTAAACCCATGGCACCAAATGAAGTTTTAAGTCCATAACACCAGTTAAGTCTAAAG
** * * * * * * *
9542716 CCAATGACACTAGTTGAGAGTTTTAAACTAATGGCACTAGTTGAAATCCTTAAGTCGATACCACC
66 CCAATGACACTAAATGAAAGTTTTAAACCAAAGGCACCAATTGAAATCCTTAAGCCCATACCACC
* * * *
9542781 AGATTAGAGTTTTAAATCCATAGCACCTT
131 AAATGAGAGTTTTAAACCCATAGCACCTA
*
9542810 TTAAGAATTTTAAACCCATGGCACCAAATGAAGTTTTAAG-CCTATAACACCAGTTAAGTCTTAA
1 TTAAGAATTTTAAACCCATGGCACCAAATGAAGTTTTAAGTCC-ATAACACCAGTTAAGTCTAAA
* * * **
9542874 GCCTATGGCACTAAATGAAAGTTTTAAGCCAAAGGCACCAATTGAGAAT-CTTAAGCCCATGGCA
65 GCCAATGACACTAAATGAAAGTTTTAAACCAAAGGCACCAATTGA-AATCCTTAAGCCCATACCA
* *
9542938 CCAAATGAGA-TTGTTAAGCCCATGGCA-CTAA
129 CCAAATGAGAGTT-TTAAACCCATAGCACCT-A
* * *
9542969 TTGAGATTTTTAAACCTATGGCA
1 TTAAGAATTTTAAACCCATGGCA
9542992 TTATATTAGA
Statistics
Matches: 148, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
157 11 0.07
158 8 0.05
159 126 0.85
160 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (159 bp):
TTAAGAATTTTAAACCCATGGCACCAAATGAAGTTTTAAGTCCATAACACCAGTTAAGTCTAAAG
CCAATGACACTAAATGAAAGTTTTAAACCAAAGGCACCAATTGAAATCCTTAAGCCCATACCACC
AAATGAGAGTTTTAAACCCATAGCACCTA
Found at i:9543112 original size:27 final size:27
Alignment explanation
Indices: 9542777--9543183 Score: 201
Period size: 27 Copynumber: 15.4 Consensus size: 27
9542767 AAGTCGATAC
** *
9542777 CACCAGATT-AGAGTTTTAAATCCATAG
1 CACCA-ATTGAGAGTTTTAAGCCCATGG
** * * *
9542804 CACCTTTTAAGAATTTTAAACCCATGG
1 CACCAATTGAGAGTTTTAAGCCCATGG
* * **
9542831 CACCAAATGA-AGTTTTAAGCCTATAA
1 CACCAATTGAGAGTTTTAAGCCCATGG
* * *
9542857 CACCAGTT-A-AGTCTTAAGCCTATGG
1 CACCAATTGAGAGTTTTAAGCCCATGG
* * * * *
9542882 CACTAAATGAAAGTTTTAAGCCAAAGG
1 CACCAATTGAGAGTTTTAAGCCCATGG
* *
9542909 CACCAATTGAGAATCTTAAGCCCATGG
1 CACCAATTGAGAGTTTTAAGCCCATGG
*
9542936 CACCAAATGAGA-TTGTTAAGCCCATGG
1 CACCAATTGAGAGTT-TTAAGCCCATGG
* * * *
9542963 CACTAATTGAGATTTTTAAACCTATGG
1 CACCAATTGAGAGTTTTAAGCCCATGG
** *
9542990 CATTATATT-AGAGTTTTGAGCCCATGG
1 CACCA-ATTGAGAGTTTTAAGCCCATGG
* * * *
9543017 CATCTATTGAAAATTTTAAGCCCATGG
1 CACCAATTGAGAGTTTTAAGCCCATGG
*** * **
9543044 CATTGGA-TGAG-GCTTTAAG-CCATCA
1 CA-CCAATTGAGAGTTTTAAGCCCATGG
* *
9543069 CACCAGTT-A-AGTTTTAAGCCTATGG
1 CACCAATTGAGAGTTTTAAGCCCATGG
** *
9543094 CACCAATTGAGAGTTTTAAGCTAATGA
1 CACCAATTGAGAGTTTTAAGCCCATGG
* * * * *
9543121 AACTAGTTGAGAATCTTAAGCCCATGG
1 CACCAATTGAGAGTTTTAAGCCCATGG
* *
9543148 CACCGGATT-AAAGTTTTAAG-CCATGG
1 CACC-AATTGAGAGTTTTAAGCCCATGG
*
9543174 CACCTATTGA
1 CACCAATTGA
9543184 AAAATTTAAG
Statistics
Matches: 282, Mismatches: 83, Indels: 31
0.71 0.21 0.08
Matches are distributed among these distances:
24 8 0.03
25 39 0.14
26 42 0.15
27 184 0.65
28 9 0.03
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (27 bp):
CACCAATTGAGAGTTTTAAGCCCATGG
Found at i:9543191 original size:26 final size:26
Alignment explanation
Indices: 9543136--9543199 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
9543126 GTTGAGAATC
**
9543136 TTAAGCCCATGGCACCGGATTAAAGTT
1 TTAAG-CCATGGCACCGGATTAAAAAT
*
9543163 TTAAGCCATGGCACC-TATTGAAAAAT
1 TTAAGCCATGGCACCGGATT-AAAAAT
9543189 TTAAGCACATG
1 TTAAGC-CATG
9543200 TTACAAGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 3 0.09
26 20 0.62
27 9 0.28
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (26 bp):
TTAAGCCATGGCACCGGATTAAAAAT
Found at i:9543474 original size:33 final size:33
Alignment explanation
Indices: 9543437--9543514 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
9543427 TCCTTTATGT
* * *
9543437 TTTTCTCAGTGTTAATATCCAAAGTCATCCATA
1 TTTTCTCAATGGTAATACCCAAAGTCATCCATA
* * *
9543470 TTTTCTTAATGGTGATACCCAAAGTCATCCGTA
1 TTTTCTCAATGGTAATACCCAAAGTCATCCATA
*
9543503 TTTT-TCGATGGT
1 TTTTCTCAATGGT
9543515 GATATTCGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
32 6 0.16
33 31 0.84
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (33 bp):
TTTTCTCAATGGTAATACCCAAAGTCATCCATA
Found at i:9544033 original size:9 final size:9
Alignment explanation
Indices: 9544021--9544094 Score: 57
Period size: 8 Copynumber: 8.7 Consensus size: 9
9544011 AAATTGTTGG
9544021 AAAAAATCA
1 AAAAAATCA
***
9544030 AAAAAAAGT
1 AAAAAATCA
*
9544039 AAAAAATCC
1 AAAAAATCA
9544048 AAAAAATCA
1 AAAAAATCA
9544057 AAAAAA-CA
1 AAAAAATCA
* *
9544065 ACAAAA-GA
1 AAAAAATCA
9544073 AAAAAAT-A
1 AAAAAATCA
*
9544081 AAGAAAT-A
1 AAAAAATCA
9544089 AAAAAA
1 AAAAAA
9544095 CCTTTTACAA
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
8 26 0.50
9 26 0.50
ACGTcount: A:0.80, C:0.08, G:0.04, T:0.08
Consensus pattern (9 bp):
AAAAAATCA
Found at i:9546941 original size:18 final size:18
Alignment explanation
Indices: 9546918--9546958 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
9546908 CTATTTTGCC
9546918 ATTTTGCTAACTACTACT
1 ATTTTGCTAACTACTACT
*
9546936 ATTTTGCTAACTGCTACT
1 ATTTTGCTAACTACTACT
9546954 ATTTT
1 ATTTT
9546959 TAAGATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.07, T:0.49
Consensus pattern (18 bp):
ATTTTGCTAACTACTACT
Found at i:9551064 original size:72 final size:74
Alignment explanation
Indices: 9550981--9551158 Score: 197
Period size: 73 Copynumber: 2.5 Consensus size: 74
9550971 TTTGAAAGAT
* *
9550981 AAACTATATTTTCAAAATTTTGAAATTTTAACAAT-GATCAC-ATTTTTAAGATAAGAAACATAA
1 AAACTTTATTTTCAAAATTTTGAAATTTTAACAATAGACCACGATTTTTAAGATAAGAAACATAA
9551044 TGGATATTG
66 TGGATATTG
** * * * *
9551053 AAACTTTATTTTTGAAATTCT-AGAATTTTAAC-ATAGACCTCGTTTTTTAAGATAAGAAACGTA
1 AAACTTTATTTTCAAAATTTTGA-AATTTTAACAATAGACCACGATTTTTAAGATAAGAAACATA
9551116 ATGGATATTG
65 ATGGATATTG
* * *
9551126 AAATTTTATTTTTGAAAA-TTTG-AGTTTTAACAA
1 AAACTTTA-TTTTCAAAATTTTGAAATTTTAACAA
9551159 AGATTGTGTT
Statistics
Matches: 87, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
71 3 0.03
72 38 0.44
73 39 0.45
74 7 0.08
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.40
Consensus pattern (74 bp):
AAACTTTATTTTCAAAATTTTGAAATTTTAACAATAGACCACGATTTTTAAGATAAGAAACATAA
TGGATATTG
Found at i:9552874 original size:14 final size:13
Alignment explanation
Indices: 9552837--9552877 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
9552827 ACAAAATATA
9552837 TACAAATATT-TT
1 TACAAATATTATT
9552849 T-CAAATATTTATT
1 TACAAATA-TTATT
9552862 TACAAAATATTATT
1 TAC-AAATATTATT
9552876 TA
1 TA
9552878 ATCTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.24
12 3 0.12
13 3 0.12
14 8 0.32
15 5 0.20
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (13 bp):
TACAAATATTATT
Found at i:9552907 original size:10 final size:10
Alignment explanation
Indices: 9552887--9552919 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
9552877 AATCTATATA
9552887 AATAA-TTTT
1 AATAATTTTT
9552896 AATAATTTTT
1 AATAATTTTT
9552906 AATAATTTATT
1 AATAATTT-TT
9552917 AAT
1 AAT
9552920 TTTATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.23
10 12 0.55
11 5 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
AATAATTTTT
Found at i:9552909 original size:19 final size:18
Alignment explanation
Indices: 9552887--9552922 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9552877 AATCTATATA
9552887 AATAATTTTAATAATTTTT
1 AATAA-TTTAATAATTTTT
*
9552906 AATAATTTATTAATTTT
1 AATAATTTAATAATTTT
9552923 ATAAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
AATAATTTAATAATTTTT
Found at i:9553714 original size:84 final size:84
Alignment explanation
Indices: 9553592--9553762 Score: 342
Period size: 84 Copynumber: 2.0 Consensus size: 84
9553582 CTATTAAACA
9553592 TATTATGATATGACGTAAAAACATATAAAAATAAAATAATATTATTTAAAACTTTTTAAATTTAG
1 TATTATGATATGACGTAAAAACATATAAAAATAAAATAATATTATTTAAAACTTTTTAAATTTAG
9553657 TAAAATATATTTTTATTTT
66 TAAAATATATTTTTATTTT
9553676 TATTATGATATGACGTAAAAACATATAAAAATAAAATAATATTATTTAAAACTTTTTAAATTTAG
1 TATTATGATATGACGTAAAAACATATAAAAATAAAATAATATTATTTAAAACTTTTTAAATTTAG
9553741 TAAAATATATTTTTATTTT
66 TAAAATATATTTTTATTTT
9553760 TAT
1 TAT
9553763 GTAAAAATAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (84 bp):
TATTATGATATGACGTAAAAACATATAAAAATAAAATAATATTATTTAAAACTTTTTAAATTTAG
TAAAATATATTTTTATTTT
Found at i:9556414 original size:33 final size:35
Alignment explanation
Indices: 9556357--9556424 Score: 104
Period size: 33 Copynumber: 2.0 Consensus size: 35
9556347 GATGCCATAT
*
9556357 ACCAACACTTTGTTGTTTCAGTATTTCCTTCGGAA
1 ACCAACACTTTGTTGTTTCAGTATTTCCATCGGAA
*
9556392 ACCAACTCTTTG-T-TTTCAGTATTTCCATCGGAA
1 ACCAACACTTTGTTGTTTCAGTATTTCCATCGGAA
9556425 GTCTGTATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 19 0.61
34 1 0.03
35 11 0.35
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.40
Consensus pattern (35 bp):
ACCAACACTTTGTTGTTTCAGTATTTCCATCGGAA
Found at i:9559635 original size:2 final size:2
Alignment explanation
Indices: 9559628--9559662 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9559618 AGGCATTTGG
9559628 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9559663 CTCGTTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9559820 original size:48 final size:47
Alignment explanation
Indices: 9559763--9559870 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 47
9559753 TAAATATTAA
* *
9559763 TAATTTAATTTTGATTTTGGTATAA-TAT-AAGTAAAA-TTTGATAATTTT
1 TAATATAATTTTGATTTT--AATAATTATCAA-TAAAATTTTGAT-ATTTT
* *
9559811 TTATATAATTTTGATTTTAATAATTTTCAATAAAATTTTGATATTTT
1 TAATATAATTTTGATTTTAATAATTATCAATAAAATTTTGATATTTT
9559858 TAATATAATTTTG
1 TAATATAATTTTG
9559871 GTACTTTCGA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
46 4 0.08
47 24 0.46
48 24 0.46
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (47 bp):
TAATATAATTTTGATTTTAATAATTATCAATAAAATTTTGATATTTT
Found at i:9559848 original size:21 final size:20
Alignment explanation
Indices: 9559824--9559869 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
9559814 TATAATTTTG
9559824 ATTTTAATAATTTTCAATAAA
1 ATTTTAAT-ATTTTCAATAAA
* * *
9559845 ATTTTGATATTTTTAATATA
1 ATTTTAATATTTTCAATAAA
9559865 ATTTT
1 ATTTT
9559870 GGTACTTTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTTAATATTTTCAATAAA
Found at i:9559862 original size:20 final size:20
Alignment explanation
Indices: 9559833--9559870 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9559823 GATTTTAATA
9559833 ATTTTCAATAAAATTTTGAT
1 ATTTTCAATAAAATTTTGAT
* *
9559853 ATTTTTAATATAATTTTG
1 ATTTTCAATAAAATTTTG
9559871 GTACTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTTTCAATAAAATTTTGAT
Found at i:9560358 original size:22 final size:22
Alignment explanation
Indices: 9560330--9560472 Score: 101
Period size: 22 Copynumber: 6.4 Consensus size: 22
9560320 TATATCTTAT
*
9560330 TAAATTATTAATGATTTGTTAC
1 TAAATTATTAATGATTTATTAC
** * *
9560352 TAAATTA-GCATCAATTTACTAC
1 TAAATTATTAAT-GATTTATTAC
* * *
9560374 TAATTTATAAATAATTTATTAC
1 TAAATTATTAATGATTTATTAC
** *
9560396 TAAGCTATAAATGATTTATCCTAAC
1 TAAATTATTAATGATTTAT--T-AC
* *
9560421 TAAATTGTTAATTATTTATTAC
1 TAAATTATTAATGATTTATTAC
*
9560443 TAAGTTATTAATGATTTATTA-
1 TAAATTATTAATGATTTATTAC
9560464 TAAAATTAT
1 T-AAATTAT
9560473 AACTAATTTC
Statistics
Matches: 94, Mismatches: 21, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
21 3 0.03
22 71 0.76
23 3 0.03
24 1 0.01
25 16 0.17
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.46
Consensus pattern (22 bp):
TAAATTATTAATGATTTATTAC
Found at i:9560461 original size:11 final size:11
Alignment explanation
Indices: 9560364--9560599 Score: 65
Period size: 11 Copynumber: 21.5 Consensus size: 11
9560354 AATTAGCATC
* *
9560364 AATTTACTACT
1 AATTTATTAAT
*
9560375 AATTTATAAAT
1 AATTTATTAAT
*
9560386 AATTTATTACT
1 AATTTATTAAT
** *
9560397 AAGCTATAAAT
1 AATTTATTAAT
*
9560408 GATTTATCCTAACT
1 AATTTAT--TAA-T
* *
9560422 AAATTGTTAAT
1 AATTTATTAAT
* *
9560433 TATTTATTACT
1 AATTTATTAAT
*
9560444 AAGTTATTAAT
1 AATTTATTAAT
*
9560455 GATTTATT-AT
1 AATTTATTAAT
*
9560465 AAAATTA-TAACT
1 -AATTTATTAA-T
* *
9560477 AATTT-CTAGT
1 AATTTATTAAT
* *
9560487 AATTTATCAGT
1 AATTTATTAAT
*
9560498 GATTTATT-AT
1 AATTTATTAAT
* *
9560508 AAAATTATCAAT
1 -AATTTATTAAT
*
9560520 AA-TTA--ACT
1 AATTTATTAAT
**
9560528 AATTTATTGTT
1 AATTTATTAAT
* ***
9560539 AAATTATCCTT
1 AATTTATTAAT
9560550 AATTTA-TAATT
1 AATTTATTAA-T
*
9560561 AAATTATTAAT
1 AATTTATTAAT
* *
9560572 GATTTATTACT
1 AATTTATTAAT
9560583 AATTTATTAAT
1 AATTTATTAAT
9560594 AATTTA
1 AATTTA
9560600 CTATTATGTT
Statistics
Matches: 157, Mismatches: 53, Indels: 30
0.65 0.22 0.12
Matches are distributed among these distances:
8 4 0.03
9 3 0.02
10 13 0.08
11 121 0.77
12 9 0.06
13 2 0.01
14 5 0.03
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (11 bp):
AATTTATTAAT
Found at i:9560611 original size:22 final size:23
Alignment explanation
Indices: 9560564--9560668 Score: 85
Period size: 22 Copynumber: 4.7 Consensus size: 23
9560554 TATAATTAAA
* * *
9560564 TTATTAATGATTTATTACTAAT-
1 TTATTAATAATTTACTACTTATG
9560586 TTATTAATAATTTACTA-TTATG
1 TTATTAATAATTTACTACTTATG
9560608 TTATT-ATACATTTACTA-TTATG
1 TTATTAATA-ATTTACTACTTATG
* * *
9560630 TTATCATTTATTTACTACTTA-G
1 TTATTAATAATTTACTACTTATG
* * *
9560652 TTTTTTATTATTTACTA
1 TTATTAATAATTTACTA
9560669 AAAATTATCC
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
21 6 0.09
22 59 0.86
23 4 0.06
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (23 bp):
TTATTAATAATTTACTACTTATG
Found at i:9560747 original size:21 final size:22
Alignment explanation
Indices: 9560723--9560764 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
9560713 AAAGTTTTAC
9560723 TAATTTA-TATTTAA-TTATTTG
1 TAATTTACTA-TTAAGTTATTTG
9560744 TAATTTACTATTAAGTTATTT
1 TAATTTACTATTAAGTTATTT
9560765 AACTATTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (22 bp):
TAATTTACTATTAAGTTATTTG
Found at i:9560764 original size:15 final size:16
Alignment explanation
Indices: 9560746--9560779 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
9560736 ATTATTTGTA
9560746 ATTT-ACTATTAAGTT
1 ATTTAACTATTAAGTT
9560761 ATTTAACTATTAAGTT
1 ATTTAACTATTAAGTT
9560777 ATT
1 ATT
9560780 GATGATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (16 bp):
ATTTAACTATTAAGTT
Found at i:9560885 original size:45 final size:44
Alignment explanation
Indices: 9560836--9560946 Score: 109
Period size: 45 Copynumber: 2.5 Consensus size: 44
9560826 AATAATTAAC
* **
9560836 TATTAATTTATCATTCATTTTATTACTAAA-TTATTTATGATTTAT
1 TATTAATTTATCATT-ATTTTATTACTAAACTAAAAT-TGATTTAT
*
9560881 TATTAAATTTATCAATTA-ATTATTACTAAACTAAAATTGATTTAT
1 TATT-AATTTATC-ATTATTTTATTACTAAACTAAAATTGATTTAT
* * *
9560926 TATTAAGTTATTATTAATTTA
1 TATTAATTTATCATTATTTTA
9560947 CTATTAAGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
43 4 0.07
44 9 0.16
45 27 0.49
46 12 0.22
47 3 0.05
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (44 bp):
TATTAATTTATCATTATTTTATTACTAAACTAAAATTGATTTAT
Found at i:9560938 original size:11 final size:11
Alignment explanation
Indices: 9560922--9560958 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
9560912 TAAAATTGAT
9560922 TTATTATTAAG
1 TTATTATTAAG
*
9560933 TTATTATTAAT
1 TTATTATTAAG
*
9560944 TTACTATTAAG
1 TTATTATTAAG
9560955 TTAT
1 TTAT
9560959 CAATAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (11 bp):
TTATTATTAAG
Found at i:9560965 original size:22 final size:22
Alignment explanation
Indices: 9560920--9560966 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
9560910 ACTAAAATTG
* * *
9560920 ATTTATTATTAAGTTATTATTA
1 ATTTACTATTAAGTTATCAATA
9560942 ATTTACTATTAAGTTATCAATA
1 ATTTACTATTAAGTTATCAATA
9560964 ATT
1 ATT
9560967 AATTACAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCAATA
Found at i:9561354 original size:44 final size:44
Alignment explanation
Indices: 9561254--9561859 Score: 159
Period size: 44 Copynumber: 13.7 Consensus size: 44
9561244 ATGTATAAAA
* * * *
9561254 AAATTATTAATGATTGA-TAATTACATTATCAATTATTTACTATT
1 AAATTATGAATGATTTACT-ATTAAATTATCAATAATTTACTATT
*
9561298 AAATTATTAATGATTTACTATTAAATTATCAATAATTTA-T-TT
1 AAATTATGAATGATTTACTATTAAATTATCAATAATTTACTATT
* * * *
9561340 ATAATTTATGAATGATTTATTATTAAGTTATTAATGAGTTT--TATT
1 A-AA-TTATGAATGATTTACTATTAAATTATCAAT-AATTTACTATT
* * * * ** * *
9561385 AAATTATTG-GTAATTTA-TCACTAAGTTATTGATGATTTATTA-T
1 AAATTA-TGAATGATTTACT-ATTAAATTATCAATAATTTACTATT
* *
9561428 AAATTTAT-AATTGATTTACTATTAATTTATCAATAATTCACTAAAAAGTT
1 AAA-TTATGAA-TGATTTACTATTAAATTATCAATAATTTACT----A-TT
* * * * *
9561478 ATTAATGATTAACTAATTTACTATTAAAGTATCAATGTAGTTTACTATT
1 A--AATTATGAA-TGATTTACTATTAAATTATCAA--TAATTTACTATT
** * * * * *
9561527 TCATTATGAGTGATTTATTACTAAATTATCAATGATTTACTGTT
1 AAATTATGAATGATTTACTATTAAATTATCAATAATTTACTATT
* * * * ** *
9561571 ATATTTTTATAT-ATTTATTATTATGTTAT-AATTGATTTACTACTT
1 AAATTATGA-ATGATTTACTATTAAATTATCAA-TAATTTACTA-TT
* * * * * * *
9561616 -AATTTTTAATTATTTGCTATAAAATTATC-ATGATTTACTACT
1 AAATTATGAATGATTTACTATTAAATTATCAATAATTTACTATT
** * * * * * * *
9561658 AAATTATCTATGATTTACTATCAAGTTATTATTTATTT-GTTTT
1 AAATTATGAATGATTTACTATTAAATTATCAATAATTTACTATT
* * * * * *
9561701 AAATTAT-ACATGACTTATTATTAAATTGTCACTAATTAATTATT
1 AAATTATGA-ATGATTTACTATTAAATTATCAATAATTTACTATT
* * * * * *
9561745 ATAGTAT-AGATGATTTACTATTAAGTTAT-ATTAATTTAATTTT
1 AAATTATGA-ATGATTTACTATTAAATTATCAATAATTTACTATT
* * ** * * * * *
9561788 AACTTTTTCATAATTAACTATTTAA-TATCAATTATTTACTACT
1 AAATTATGAATGATTTACTATTAAATTATCAATAATTTACTATT
* * * * *
9561831 AATTTATTATTAATTTACTATTAAGTTAT
1 AAATTATGAATGATTTACTATTAAATTAT
9561860 TTATTATTCA
Statistics
Matches: 411, Mismatches: 115, Indels: 72
0.69 0.19 0.12
Matches are distributed among these distances:
42 11 0.03
43 145 0.35
44 181 0.44
45 12 0.03
46 18 0.04
47 5 0.01
48 1 0.00
49 2 0.00
50 3 0.01
51 3 0.01
52 23 0.06
54 7 0.02
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.50
Consensus pattern (44 bp):
AAATTATGAATGATTTACTATTAAATTATCAATAATTTACTATT
Found at i:9561401 original size:87 final size:87
Alignment explanation
Indices: 9561294--9561457 Score: 190
Period size: 87 Copynumber: 1.9 Consensus size: 87
9561284 AATTATTTAC
* *
9561294 TATTAAATTATTAATGATTTA-CTATTAAATTATCAATAATTTATT-TATAATTTATGAA-TGAT
1 TATTAAATTATTAATAATTTATC-ACTAAATTATCAATAATTTATTATA-AATTTAT-AATTGAT
*
9561356 TTATTATTAAGTTATTAATGAGTTT
63 TTACTATTAAGTTATTAATGAGTTT
** * ** *
9561381 TATTAAATTATTGGTAATTTATCACTAAGTTATTGATGATTTATTATAAATTTATAATTGATTTA
1 TATTAAATTATTAATAATTTATCACTAAATTATCAATAATTTATTATAAATTTATAATTGATTTA
*
9561446 CTATTAATTTAT
66 CTATTAAGTTAT
9561458 CAATAATTCA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
86 2 0.03
87 59 0.92
88 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (87 bp):
TATTAAATTATTAATAATTTATCACTAAATTATCAATAATTTATTATAAATTTATAATTGATTTA
CTATTAAGTTATTAATGAGTTT
Found at i:9561420 original size:65 final size:65
Alignment explanation
Indices: 9561279--9561465 Score: 186
Period size: 66 Copynumber: 2.8 Consensus size: 65
9561269 GATAATTACA
* * * *
9561279 TTATCAATTATTTACTATTAAATTATTAATGATTTACTATTAAATTATCAATAATTTATTTATAA
1 TTATGAATGATTTATTATTAAATTATTAATGATTTA-TATTAAATTATCAATAATTTATTCATAA
*
9561344 T
65 G
* ***
9561345 TTATGAATGATTTATTATTAAGTTATTAATGAGTTT-TATTAAATTATTGGTAATTTA-TCACTA
1 TTATGAATGATTTATTATTAAATTATTAATGA-TTTATATTAAATTATCAATAATTTATTCA-TA
9561408 AG
64 AG
*
9561410 TTATTG-ATGATTTATTA-TAAATT-TATAATTGATTTACTATTAATTTATCAATAATT
1 TTA-TGAATGATTTATTATTAAATTAT-TAA-TGATTTA-TATTAAATTATCAATAATT
9561466 CACTAAAAAG
Statistics
Matches: 100, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
63 1 0.01
64 13 0.13
65 38 0.38
66 45 0.45
67 3 0.03
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (65 bp):
TTATGAATGATTTATTATTAAATTATTAATGATTTATATTAAATTATCAATAATTTATTCATAAG
Found at i:9561435 original size:22 final size:22
Alignment explanation
Indices: 9561254--9561457 Score: 155
Period size: 22 Copynumber: 9.3 Consensus size: 22
9561244 ATGTATAAAA
* *
9561254 AAATTATTAATGATTGATAATT
1 AAATTATTAATGATTTATTATT
* * * *
9561276 ACATTATCAATTATTTACTATT
1 AAATTATTAATGATTTATTATT
*
9561298 AAATTATTAATGATTTACTATT
1 AAATTATTAATGATTTATTATT
* *
9561320 AAATTATCAATAATTTATT-TAT
1 AAATTATTAATGATTTATTAT-T
* *
9561342 AATTTATGAATGATTTATTATT
1 AAATTATTAATGATTTATTATT
* *
9561364 AAGTTATTAATGAGTT-TTATT
1 AAATTATTAATGATTTATTATT
** * * *
9561385 AAATTATTGGTAATTTATCACT
1 AAATTATTAATGATTTATTATT
* *
9561407 AAGTTATTGATGATTTATTA-T
1 AAATTATTAATGATTTATTATT
*
9561428 AAATT-TATAATTGATTTACTATT
1 AAATTAT-TAA-TGATTTATTATT
*
9561451 AATTTAT
1 AAATTAT
9561458 CAATAATTCA
Statistics
Matches: 142, Mismatches: 33, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
20 1 0.01
21 24 0.17
22 110 0.77
23 6 0.04
24 1 0.01
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (22 bp):
AAATTATTAATGATTTATTATT
Found at i:9561661 original size:21 final size:22
Alignment explanation
Indices: 9561603--9561677 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
9561593 ATGTTATAAT
* *
9561603 TGATTTACTACTTAATT-TTTAA
1 TGATTTACTACTAAATTATCT-A
* *
9561625 TTATTTGCTA-TAAAATTATC-A
1 TGATTTACTACT-AAATTATCTA
9561646 TGATTTACTACTAAATTATCTA
1 TGATTTACTACTAAATTATCTA
9561668 TGATTTACTA
1 TGATTTACTA
9561678 TCAAGTTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 18 0.42
22 24 0.56
23 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (22 bp):
TGATTTACTACTAAATTATCTA
Found at i:9561694 original size:65 final size:65
Alignment explanation
Indices: 9561603--9561727 Score: 146
Period size: 65 Copynumber: 1.9 Consensus size: 65
9561593 ATGTTATAAT
* * *
9561603 TGATTTACTACTTAATTTTTAATTATTTGCTATAAAATTAT-CATGATTTACTACTAAATTATCT
1 TGATTTACTACTCAATTATTAATTATTTG-TATAAAATTATACATGACTTACTACTAAATTATCT
9561667 A
65 A
* * * * *
9561668 TGATTTACTA-TCAAGTTATTATTTATTTGTTTTAAATTATACATGACTTATTATTAAATT
1 TGATTTACTACTCAA-TTATTAATTATTTGTATAAAATTATACATGACTTACTACTAAATT
9561728 GTCACTAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
64 12 0.24
65 38 0.76
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (65 bp):
TGATTTACTACTCAATTATTAATTATTTGTATAAAATTATACATGACTTACTACTAAATTATCTA
Found at i:9561849 original size:22 final size:22
Alignment explanation
Indices: 9561818--9561875 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
9561808 TTTAATATCA
*
9561818 ATTATTTACTACTAATTTA-TT
1 ATTATTTACTACTAAGTTATTT
*
9561839 ATTAATTTACTATTAAGTTATTT
1 ATT-ATTTACTACTAAGTTATTT
*
9561862 ATTATTCACTACTA
1 ATTATTTACTACTA
9561876 TTAATTAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 23 0.74
23 5 0.16
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTATTTACTACTAAGTTATTT
Found at i:9561933 original size:14 final size:14
Alignment explanation
Indices: 9561916--9561954 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
9561906 TTACTATTAA
9561916 ATTATTACTAATTT
1 ATTATTACTAATTT
*
9561930 ATTATTA-TCATTT
1 ATTATTACTAATTT
9561943 ATTAATTACTAA
1 ATT-ATTACTAA
9561955 GTTGTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 8 0.38
14 11 0.52
15 2 0.10
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTATTACTAATTT
Found at i:9562072 original size:44 final size:43
Alignment explanation
Indices: 9562007--9562103 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 43
9561997 TAAGTTATTC
* * * *
9562007 TTGATTTAATATTATGTTATTATATATTTATAACTATATTATAA
1 TTGATTT-ATATTAAGGTATTACATATATATAACTATATTATAA
* * *
9562051 TTGATTTATCATTAAGGTATTACATATATATTATTATATTATTA
1 TTGATTTAT-ATTAAGGTATTACATATATATAACTATATTATAA
*
9562095 CTGATTTAT
1 TTGATTTAT
9562104 TAAAAAGTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 2 0.05
44 42 0.95
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (43 bp):
TTGATTTATATTAAGGTATTACATATATATAACTATATTATAA
Found at i:9562104 original size:22 final size:22
Alignment explanation
Indices: 9562008--9562105 Score: 58
Period size: 22 Copynumber: 4.5 Consensus size: 22
9561998 AAGTTATTCT
* *
9562008 TGATTTAATATTATGTTATTA-
1 TGATTTATTATTATATTATTAC
* * * * *
9562029 TATATTTATAACTATATTATAAT
1 T-GATTTATTATTATATTATTAC
* *
9562052 TGATTTATCATTA-AGGTATTAC
1 TGATTTATTATTATA-TTATTAC
*
9562074 AT-ATATATTATTATATTATTAC
1 -TGATTTATTATTATATTATTAC
9562096 TGATTTATTA
1 TGATTTATTA
9562106 AAAAGTTATC
Statistics
Matches: 55, Mismatches: 16, Indels: 11
0.67 0.20 0.13
Matches are distributed among these distances:
21 3 0.05
22 49 0.89
23 3 0.05
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (22 bp):
TGATTTATTATTATATTATTAC
Found at i:9562811 original size:25 final size:24
Alignment explanation
Indices: 9562766--9562813 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
9562756 TTAATTTACT
9562766 AAATAAAATTTATAAAAATTAAAC
1 AAATAAAATTTATAAAAATTAAAC
9562790 AAATAACAATTT-TAAAATATTAAA
1 AAATAA-AATTTATAAAA-ATTAAA
9562814 TTAACAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
AAATAAAATTTATAAAAATTAAAC
Found at i:9567443 original size:2 final size:2
Alignment explanation
Indices: 9567436--9567473 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
9567426 TTCACACTCT
9567436 TA TA TA TA TA TA TA TGA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA T
9567474 TTGAGTGTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9579201 original size:28 final size:29
Alignment explanation
Indices: 9579140--9579201 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
9579130 TTAGTATTTT
* *
9579140 TTTAAAATAAAAAATGTCACAATTTAAAA
1 TTTAAAAAAAAAAATGTCACAATATAAAA
*
9579169 -ATAAAAAAAAAAAT-T-ACAGATATAAAA
1 TTTAAAAAAAAAAATGTCACA-ATATAAAA
9579196 TTTAAA
1 TTTAAA
9579202 CCTTAAATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
26 3 0.11
27 8 0.30
28 16 0.59
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (29 bp):
TTTAAAAAAAAAAATGTCACAATATAAAA
Found at i:9583414 original size:23 final size:23
Alignment explanation
Indices: 9583382--9583434 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
9583372 ACCCCCTAAT
* *
9583382 AAATAAATAAACACA-TAAATAAA
1 AAATAAATAAAAAAATTAAA-AAA
*
9583405 AAATAGATAAAAAAATTAAAAAA
1 AAATAAATAAAAAAATTAAAAAA
9583428 AAATAAA
1 AAATAAA
9583435 ATGGCTCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (23 bp):
AAATAAATAAAAAAATTAAAAAA
Found at i:9584725 original size:14 final size:15
Alignment explanation
Indices: 9584700--9584759 Score: 61
Period size: 14 Copynumber: 4.0 Consensus size: 15
9584690 GCTTTGCAAG
9584700 GATTCACTAAAATTT
1 GATTCACTAAAATTT
9584715 GATTC-CTAAAATTTT
1 GATTCACTAAAA-TTT
* *
9584730 AACTTCACAAAAATTT
1 GA-TTCACTAAAATTT
*
9584746 GATTC-GTAAAATTT
1 GATTCACTAAAATTT
9584760 TAAATATGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 13 0.35
15 12 0.32
16 7 0.19
17 5 0.14
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
GATTCACTAAAATTT
Found at i:9584737 original size:31 final size:31
Alignment explanation
Indices: 9584702--9584762 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
9584692 TTTGCAAGGA
*
9584702 TTCACTAAAATTTGATTCCTAAAATTTTAAC
1 TTCACAAAAATTTGATTCCTAAAATTTTAAC
*
9584733 TTCACAAAAATTTGATTCGTAAAATTTTAA
1 TTCACAAAAATTTGATTCCTAAAATTTTAA
9584763 ATATGCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (31 bp):
TTCACAAAAATTTGATTCCTAAAATTTTAAC
Found at i:9584999 original size:21 final size:22
Alignment explanation
Indices: 9584974--9585027 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
9584964 AGTTTCACAT
*
9584974 CTCAAATATTCTAATTT-AAAA
1 CTCAAAAATTCTAATTTGAAAA
* * * *
9584995 TTCAAAGACTCTTATTTGAAAA
1 CTCAAAAATTCTAATTTGAAAA
9585017 CTCAAAAATTC
1 CTCAAAAATTC
9585028 AAAGATTCTC
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (22 bp):
CTCAAAAATTCTAATTTGAAAA
Found at i:9586087 original size:14 final size:14
Alignment explanation
Indices: 9586068--9586146 Score: 101
Period size: 14 Copynumber: 5.9 Consensus size: 14
9586058 ATTTTCTCTC
9586068 TTTTTCATTTTTTA
1 TTTTTCATTTTTTA
*
9586082 TTTTTCATTTTTCA
1 TTTTTCATTTTTTA
9586096 TTTTT-ATTTTTTA
1 TTTTTCATTTTTTA
*
9586109 TTTTTTATTTTTTA
1 TTTTTCATTTTTTA
* *
9586123 TTTTTCCTTTTAT-
1 TTTTTCATTTTTTA
9586136 TTTTTC-TTTTT
1 TTTTTCATTTTT
9586147 CACCTTTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
12 4 0.07
13 18 0.31
14 36 0.62
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCATTTTTTA
Found at i:9586112 original size:34 final size:33
Alignment explanation
Indices: 9586068--9586146 Score: 113
Period size: 34 Copynumber: 2.4 Consensus size: 33
9586058 ATTTTCTCTC
* *
9586068 TTTTTCATTTTTTATTTTTCATTTTTCATTTTTA
1 TTTTTTATTTTTTATTTTTCATTTTTC-CTTTTA
*
9586102 TTTTTTATTTTTTATTTTTTATTTTTCCTTTTA
1 TTTTTTATTTTTTATTTTTCATTTTTCCTTTTA
*
9586135 TTTTTTCTTTTT
1 TTTTTTATTTTT
9586147 CACCTTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 16 0.39
34 25 0.61
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (33 bp):
TTTTTTATTTTTTATTTTTCATTTTTCCTTTTA
Found at i:9586140 original size:7 final size:7
Alignment explanation
Indices: 9586068--9586127 Score: 86
Period size: 7 Copynumber: 8.7 Consensus size: 7
9586058 ATTTTCTCTC
*
9586068 TTTTTCA
1 TTTTTTA
9586075 TTTTTTA
1 TTTTTTA
*
9586082 TTTTTCA
1 TTTTTTA
*
9586089 TTTTTCA
1 TTTTTTA
9586096 -TTTTTA
1 TTTTTTA
9586102 TTTTTTA
1 TTTTTTA
9586109 TTTTTTA
1 TTTTTTA
9586116 TTTTTTA
1 TTTTTTA
9586123 TTTTT
1 TTTTT
9586128 CCTTTTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
6 5 0.10
7 44 0.90
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTA
Found at i:9589286 original size:129 final size:129
Alignment explanation
Indices: 9589056--9589312 Score: 460
Period size: 129 Copynumber: 2.0 Consensus size: 129
9589046 TTATGCTTTA
* *
9589056 TGCATGATATGTTGATGTATAAATGAAATGTACATTTTTATGGATGAAATCTAATATGAAAATAA
1 TGCATGATATGTTGATGCATAAATGAAATGTACATTTTCATGGATGAAATCTAATATGAAAATAA
* *
9589121 TACAGATGCATAATGACAATGAAAATGATGCATGAAAATGCACAAAGTCAAACAAATAAAATGG
66 TACAGATGCACAATGACAATGAAAATGATACATGAAAATGCACAAAGTCAAACAAATAAAATGG
* *
9589185 TGCATGATATGTTGATGCATAAATGAAATGTACATTTTCATGGATGAAATTTAATATGAAAATGA
1 TGCATGATATGTTGATGCATAAATGAAATGTACATTTTCATGGATGAAATCTAATATGAAAATAA
9589250 TACAGATGCACAATGACAATGAAAATGATACATGAAAATGCACAAAGTCAAACAAATAAAATG
66 TACAGATGCACAATGACAATGAAAATGATACATGAAAATGCACAAAGTCAAACAAATAAAATG
9589313 ATTAAATCAC
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 122 1.00
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.27
Consensus pattern (129 bp):
TGCATGATATGTTGATGCATAAATGAAATGTACATTTTCATGGATGAAATCTAATATGAAAATAA
TACAGATGCACAATGACAATGAAAATGATACATGAAAATGCACAAAGTCAAACAAATAAAATGG
Found at i:9590782 original size:19 final size:19
Alignment explanation
Indices: 9590745--9590781 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9590735 TAATTTCAAA
9590745 ATTTTTATTAATATTTTTT
1 ATTTTTATTAATATTTTTT
*
9590764 ATTTTTATT-TTATTTTTT
1 ATTTTTATTAATATTTTTT
9590782 TTTGTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
ATTTTTATTAATATTTTTT
Found at i:9590972 original size:200 final size:199
Alignment explanation
Indices: 9590602--9590969 Score: 430
Period size: 202 Copynumber: 1.8 Consensus size: 199
9590592 AAAAGAATAC
*
9590602 AATTACTTTTATTGAAATTTCATCTAAACTATTCCACCATTTGGGACAAATTTAAAAAATTTTCT
1 AATTACTTTTATTGAAATTTCATCTAAACTATTCCACCATTTGAGACAAATTTAAAAAATTTTCT
* * * * * * * * **
9590667 CCCTAGAGATTTCTTAGAAATTTACCATTTGAAATTTCTAAGAATCTCATCTTTGGGTAATTTGT
66 ACCTAGAAATTTCTTAAAAATTTACCATTTAAAATTTATAAGAATCTCATCATTAGATAATTAAT
* *
9590732 ATTTAATTTCAAAATTTTTATTAATATTTTTTATTTTTATTTTATTTTTTTTTGTTTGAAAATAA
131 ATTTAATTTAAAAATTTTTATT-ATATATTTTATTTTTATTTTATTTTTTTTTGTTTGAAAATAA
9590797 ATATT
195 ATATT
*
9590802 AATTA-TTGTTATTGAAACTTT-ATCTAAACTATTCTACCATTTGAGACAAATTTAGATAAAATT
1 AATTACTT-TTATTGAAA-TTTCATCTAAACTATTCCACCATTTGAGACAAATTTA-A-AAAATT
*
9590865 CTTC-ACCTAGAAATTT-TATAAAAATTTATCATTTAAAATTTTTATAAG-AT-TCATCATTAGA
62 -TTCTACCTAGAAATTTCT-TAAAAATTTACCATTTAAAA--TTTATAAGAATCTCATCATTAGA
9590926 TAATTAATATTT-ATTCTAAAAAATATTTTATT-T-TATTTTATTTT
123 TAATTAATATTTAATT-T-AAAAAT-TTTTATTATATATTTTATTTT
9590970 ATTCAAATTT
Statistics
Matches: 142, Mismatches: 15, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
199 2 0.01
200 45 0.32
201 18 0.13
202 53 0.37
203 10 0.07
204 14 0.10
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (199 bp):
AATTACTTTTATTGAAATTTCATCTAAACTATTCCACCATTTGAGACAAATTTAAAAAATTTTCT
ACCTAGAAATTTCTTAAAAATTTACCATTTAAAATTTATAAGAATCTCATCATTAGATAATTAAT
ATTTAATTTAAAAATTTTTATTATATATTTTATTTTTATTTTATTTTTTTTTGTTTGAAAATAAA
TATT
Found at i:9591013 original size:11 final size:11
Alignment explanation
Indices: 9590999--9591041 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
9590989 AAAATGCCTC
9590999 TAAAAAATAAA
1 TAAAAAATAAA
*
9591010 TAAACACATAAA
1 TAAA-AAATAAA
*
9591022 TAAAAAATAGA
1 TAAAAAATAAA
9591033 TAAAAAATA
1 TAAAAAATA
9591042 CAAAAAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (11 bp):
TAAAAAATAAA
Found at i:9594926 original size:2 final size:2
Alignment explanation
Indices: 9594919--9594956 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
9594909 GCAATGAAGG
*
9594919 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9594957 TTTCTTTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9597413 original size:15 final size:15
Alignment explanation
Indices: 9597387--9597424 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
9597377 TTCAATTAAT
9597387 TTTAAATT-AAATTA
1 TTTAAATTAAAATTA
9597401 TTTAAATTAAAATTA
1 TTTAAATTAAAATTA
*
9597416 ATTAAATTA
1 TTTAAATTA
9597425 TTTTATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAAATTAAAATTA
Found at i:9597692 original size:21 final size:21
Alignment explanation
Indices: 9597662--9597711 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
9597652 TATTTTTAGT
9597662 TTTATATT-AAATTTTAATTTAA
1 TTTA-ATTAAAATTTTAA-TTAA
*
9597684 TTTAATTAAAATTTTGATTAA
1 TTTAATTAAAATTTTAATTAA
*
9597705 TTCAATT
1 TTTAATT
9597712 TCATAATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTAATTAAAATTTTAATTAA
Found at i:9603166 original size:12 final size:11
Alignment explanation
Indices: 9603151--9603184 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
9603141 TAAGTTGTTG
9603151 TTATTATTATAA
1 TTATTATTAT-A
9603163 TTATTATTGATA
1 TTATTATT-ATA
9603175 TTATTATTAT
1 TTATTATTAT
9603185 CTTGAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
TTATTATTATA
Found at i:9612437 original size:10 final size:10
Alignment explanation
Indices: 9612409--9612457 Score: 68
Period size: 9 Copynumber: 5.2 Consensus size: 10
9612399 TCATATTAGC
9612409 TTTAAA-AAT
1 TTTAAATAAT
9612418 TTTAAA-AAT
1 TTTAAATAAT
9612427 TTTAAATAAT
1 TTTAAATAAT
*
9612437 TCTAAATAAT
1 TTTAAATAAT
9612447 TTT-AATAAT
1 TTTAAATAAT
9612456 TT
1 TT
9612458 GAATTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
9 23 0.62
10 14 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (10 bp):
TTTAAATAAT
Found at i:9612442 original size:19 final size:20
Alignment explanation
Indices: 9612409--9612456 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
9612399 TCATATTAGC
*
9612409 TTTAAA-AATTTTAAA-AAT
1 TTTAAATAATTCTAAATAAT
9612427 TTTAAATAATTCTAAATAAT
1 TTTAAATAATTCTAAATAAT
9612447 TTT-AATAATT
1 TTTAAATAATT
9612457 TGAATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 6 0.22
19 15 0.56
20 6 0.22
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTAAATAATTCTAAATAAT
Found at i:9612542 original size:8 final size:8
Alignment explanation
Indices: 9612531--9612560 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
9612521 TGAAAATTAA
9612531 AAAAATTC
1 AAAAATTC
9612539 AAAAATCTC
1 AAAAAT-TC
9612548 AAAAATTC
1 AAAAATTC
9612556 AAAAA
1 AAAAA
9612561 AAATCTAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (8 bp):
AAAAATTC
Found at i:9612542 original size:10 final size:10
Alignment explanation
Indices: 9612523--9612584 Score: 53
Period size: 9 Copynumber: 6.5 Consensus size: 10
9612513 AAAATATATG
9612523 AAAATT-AAA
1 AAAATTCAAA
9612532 AAAATTC--A
1 AAAATTCAAA
9612540 AAAATCTC--A
1 AAAAT-TCAAA
9612549 AAAATTCAAA
1 AAAATTCAAA
*
9612559 AAAAATCTAAA
1 AAAATTC-AAA
*
9612570 GAAATTCAAA
1 AAAATTCAAA
9612580 AAAAT
1 AAAAT
9612585 AAACTTATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
8 8 0.18
9 14 0.32
10 14 0.32
11 8 0.18
ACGTcount: A:0.68, C:0.10, G:0.02, T:0.21
Consensus pattern (10 bp):
AAAATTCAAA
Found at i:9612543 original size:17 final size:17
Alignment explanation
Indices: 9612530--9612581 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 17
9612520 ATGAAAATTA
9612530 AAAAAATTCAAAAATCT
1 AAAAAATTCAAAAATCT
*
9612547 CAAAAATTCAAAAAAAATCT
1 AAAAAATTC---AAAAATCT
9612567 AAAGAAATTCAAAAA
1 AAA-AAATTCAAAAA
9612582 AATAAACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 8 0.28
18 5 0.17
20 10 0.34
21 6 0.21
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAAAATTCAAAAATCT
Found at i:9612562 original size:20 final size:21
Alignment explanation
Indices: 9612539--9612583 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
9612529 AAAAAAATTC
*
9612539 AAAAATCTCAA-AAATTCAAA
1 AAAAATCTAAAGAAATTCAAA
9612559 AAAAATCTAAAGAAATTCAAA
1 AAAAATCTAAAGAAATTCAAA
9612580 AAAA
1 AAAA
9612584 TAAACTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.69, C:0.11, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAAATCTAAAGAAATTCAAA
Found at i:9612906 original size:19 final size:18
Alignment explanation
Indices: 9612866--9612908 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
9612856 TTTTAAAATT
*
9612866 TTTTAATTTTTTTGAAAT
1 TTTTAATTTTTTTGAAAA
9612884 TTTTAATTTTTTAAT-AAAA
1 TTTTAATTTTTT--TGAAAA
9612903 TTTTAA
1 TTTTAA
9612909 GATTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 9 0.41
20 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTAATTTTTTTGAAAA
Found at i:9612944 original size:28 final size:30
Alignment explanation
Indices: 9612880--9612952 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 30
9612870 AATTTTTTTG
* * *
9612880 AAATTTTTAATTTTTTAATAAAATTTTAAG
1 AAATTTTTAATTTTTCAATAAAATTTCAAA
**
9612910 ATTTTTTTAA-TTTTCAA-AAAATTTCAAA
1 AAATTTTTAATTTTTCAATAAAATTTCAAA
9612938 AAA-TTTTAGATTTTT
1 AAATTTTTA-ATTTTT
9612953 TATTTTCAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
27 5 0.15
28 11 0.32
29 10 0.29
30 8 0.24
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (30 bp):
AAATTTTTAATTTTTCAATAAAATTTCAAA
Found at i:9613161 original size:18 final size:17
Alignment explanation
Indices: 9613135--9613212 Score: 66
Period size: 19 Copynumber: 4.2 Consensus size: 17
9613125 GTTTTTAATT
9613135 TTTTATAATTTTTAAAAA
1 TTTT-TAATTTTTAAAAA
*
9613153 TATTTTAATTTTTAAGAA
1 T-TTTTAATTTTTAAAAA
*
9613171 TTTTTAAAAATTTTAAAAA
1 TTTTT--AATTTTTAAAAA
* *
9613190 TTTTAAAATTTTTTTAAAA
1 TTTT-TAA-TTTTTAAAAA
9613209 TTTT
1 TTTT
9613213 CGTTTAATGT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.08
18 16 0.33
19 29 0.59
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (17 bp):
TTTTTAATTTTTAAAAA
Found at i:9613172 original size:28 final size:26
Alignment explanation
Indices: 9613097--9613212 Score: 97
Period size: 28 Copynumber: 4.2 Consensus size: 26
9613087 TTCATAAATT
* * *
9613097 TTTTTAATTTTTAAAAGTATTTCACATAG
1 TTTTTAATTTTTAAAA-T-TTTTA-AAAA
*
9613126 TTTTTAATTTTTTATAATTTTTAAAAA
1 TTTTTAA-TTTTTAAAATTTTTAAAAA
9613153 TATTTTAATTTTTAAGAATTTTTAAAAA
1 T-TTTTAATTTTTAA-AATTTTTAAAAA
* * *
9613181 TTTTAAAAATTTTAAAATTTTTTTAAAA
1 TTTT-TAATTTTTAAAA-TTTTTAAAAA
9613209 TTTT
1 TTTT
9613213 CGTTTAATGT
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
27 14 0.19
28 44 0.59
29 8 0.11
30 8 0.11
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.57
Consensus pattern (26 bp):
TTTTTAATTTTTAAAATTTTTAAAAA
Found at i:9613174 original size:10 final size:9
Alignment explanation
Indices: 9613134--9613212 Score: 72
Period size: 9 Copynumber: 8.4 Consensus size: 9
9613124 AGTTTTTAAT
*
9613134 TTTTTATAA
1 TTTTTAAAA
9613143 TTTTTAAAAA
1 TTTTT-AAAA
9613153 TATTTT--AA
1 T-TTTTAAAA
9613161 TTTTTAAGAA
1 TTTTTAA-AA
9613171 TTTTTAAAA
1 TTTTTAAAA
*
9613180 ATTTTAAAA
1 TTTTTAAAA
*
9613189 ATTTTAAAA
1 TTTTTAAAA
9613198 TTTTTTTAAAA
1 --TTTTTAAAA
9613209 TTTT
1 TTTT
9613213 CGTTTAATGT
Statistics
Matches: 60, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
7 4 0.07
8 3 0.05
9 28 0.47
10 13 0.22
11 12 0.20
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:9624299 original size:89 final size:90
Alignment explanation
Indices: 9624157--9624326 Score: 272
Period size: 89 Copynumber: 1.9 Consensus size: 90
9624147 CAAATATCTC
*
9624157 TTTTTTTTAAAATATTTTTAAATAGAAAAAAAATCAAATTAAACTATAATTAACATAGAAACGTA
1 TTTTGTTTAAAATATTTTTAAAT--AAAAAAAATCAAATTAAACTATAATTAACATAGAAACGTA
*
9624222 CCATTAACATACCAATTATGATACATA
64 CCACTAACATACCAATTATGATACATA
*
9624249 TTTTGTTTAAAATA-TTTTAAAT-AAAAAAATCAAATTAAAACTATAGTTAACATAGAAACGTAC
1 TTTTGTTTAAAATATTTTTAAATAAAAAAAATCAAATT-AAACTATAATTAACATAGAAACGTAC
9624312 CACTAACATACCAAT
65 CACTAACATACCAAT
9624327 CATATAAAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
88 14 0.19
89 39 0.53
91 8 0.11
92 13 0.18
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.34
Consensus pattern (90 bp):
TTTTGTTTAAAATATTTTTAAATAAAAAAAATCAAATTAAACTATAATTAACATAGAAACGTACC
ACTAACATACCAATTATGATACATA
Found at i:9625041 original size:34 final size:34
Alignment explanation
Indices: 9625003--9625068 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
9624993 TTAAGAAAAA
* *
9625003 AATATAATTCTTGAAAAATTATTTTTAAAAATAT
1 AATATAATTCTCGAAAAATAATTTTTAAAAATAT
*
9625037 AATATAATTCTCGAAAAATAATTTTTGAAAAT
1 AATATAATTCTCGAAAAATAATTTTTAAAAAT
9625069 TATATTGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (34 bp):
AATATAATTCTCGAAAAATAATTTTTAAAAATAT
Found at i:9625066 original size:14 final size:15
Alignment explanation
Indices: 9625001--9625068 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 15
9624991 TTTTAAGAAA
*
9625001 AAAATATAATTCTTG
1 AAAATATAATTTTTG
* *
9625016 AAAA-ATTATTTTTA
1 AAAATATAATTTTTG
9625030 AAAATATAATATAATTCTCG
1 AAAATATAAT-T--TT-T-G
9625050 AAAA-ATAATTTTTG
1 AAAATATAATTTTTG
9625064 AAAAT
1 AAAAT
9625069 TATATTGCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
14 16 0.39
15 9 0.22
16 3 0.07
18 3 0.07
19 6 0.15
20 4 0.10
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (15 bp):
AAAATATAATTTTTG
Found at i:9629056 original size:29 final size:27
Alignment explanation
Indices: 9629014--9629070 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
9629004 ATCTACTCTG
* * *
9629014 AAATATAGAAAAGATAAAATGAGAAAA
1 AAATATATAAAAAAGAAAATGAGAAAA
*
9629041 AAATATATAAAAAAGAAAATGGGAAAA
1 AAATATATAAAAAAGAAAATGAGAAAA
9629068 AAA
1 AAA
9629071 GTTAATCGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (27 bp):
AAATATATAAAAAAGAAAATGAGAAAA
Found at i:9632876 original size:21 final size:22
Alignment explanation
Indices: 9632845--9632886 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
9632835 GATATGACAA
9632845 AAAAGATTTTTTAGAA-ATTTTC
1 AAAAGA-TTTTTAGAATATTTTC
9632867 AAAA-ATTTTTAGAATATTTT
1 AAAAGATTTTTAGAATATTTT
9632887 TTAATTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.47
21 6 0.32
22 4 0.21
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (22 bp):
AAAAGATTTTTAGAATATTTTC
Found at i:9634073 original size:18 final size:18
Alignment explanation
Indices: 9634035--9634075 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9634025 TTCCTAATTC
**
9634035 ATTTTTATTAATTTATTT
1 ATTTTTATTAATTTAAAT
*
9634053 ATTTTTGTTAATTTAAAT
1 ATTTTTATTAATTTAAAT
9634071 ATTTT
1 ATTTT
9634076 AATATTAGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
ATTTTTATTAATTTAAAT
Found at i:9636840 original size:21 final size:21
Alignment explanation
Indices: 9636815--9636855 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9636805 ATCAAATTGG
*
9636815 GGTTCAA-AAGCAAGATCTTAA
1 GGTTCAATAAG-AAAATCTTAA
9636836 GGTTCAATAAGAAAATCTTA
1 GGTTCAATAAGAAAATCTTA
9636856 GGATTCATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (21 bp):
GGTTCAATAAGAAAATCTTAA
Found at i:9638146 original size:26 final size:25
Alignment explanation
Indices: 9638110--9638176 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 25
9638100 CCTTGAATAT
*
9638110 TAATGATTTTAATAATAAATAATTTC
1 TAAT-ATTTTAATAATAAATAACTTC
9638136 -AATATACTTTAATAATAAATAACTTC
1 TAATAT--TTTAATAATAAATAACTTC
9638162 TAATATTTTAATAAT
1 TAATATTTTAATAAT
9638177 TATATTATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
24 2 0.05
25 12 0.32
26 18 0.49
27 5 0.14
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (25 bp):
TAATATTTTAATAATAAATAACTTC
Found at i:9638421 original size:29 final size:30
Alignment explanation
Indices: 9638368--9638427 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
9638358 AAATTACAGT
9638368 AAAATATTTAATATGATACTCAAATT-TAA
1 AAAATATTTAATATGATACTCAAATTATAA
* * * *
9638397 AAAATTTTTAATCTGATATTTAAATTATAA
1 AAAATATTTAATATGATACTCAAATTATAA
9638427 A
1 A
9638428 TCTAGTAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (30 bp):
AAAATATTTAATATGATACTCAAATTATAA
Found at i:9638542 original size:32 final size:29
Alignment explanation
Indices: 9638506--9638581 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
9638496 TATATTAAGA
*
9638506 AAATATTATATTAATTAACAAATTTATAATTT
1 AAATATTATATTAA--AA-AAATTTAAAATTT
* * *
9638538 AAATACTATAATAAAAATATTTAAAATTT
1 AAATATTATATTAAAAAAATTTAAAATTT
* *
9638567 ACATATTAAATTAAA
1 AAATATTATATTAAA
9638582 TATTTTATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
29 22 0.61
30 2 0.06
32 12 0.33
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (29 bp):
AAATATTATATTAAAAAAATTTAAAATTT
Found at i:9643378 original size:14 final size:13
Alignment explanation
Indices: 9643361--9643399 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
9643351 AGATTTTTAT
9643361 TTTTATTTTTTTGG
1 TTTTATTTTTTT-G
9643375 TTTTATTTATTTTG
1 TTTTATTT-TTTTG
9643389 TTTT-TTTTTTT
1 TTTTATTTTTTT
9643400 AATGCATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.17
13 3 0.12
14 13 0.54
15 4 0.17
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTTTG
Found at i:9643392 original size:20 final size:20
Alignment explanation
Indices: 9643355--9643392 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9643345 AATTTAAGAT
*
9643355 TTTTATTTTTATTTTTTTGG
1 TTTTATTTTTATTGTTTTGG
9643375 TTTTATTTATT-TTGTTTT
1 TTTTATTT-TTATTGTTTT
9643393 TTTTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.82
Consensus pattern (20 bp):
TTTTATTTTTATTGTTTTGG
Found at i:9648616 original size:22 final size:22
Alignment explanation
Indices: 9648591--9648639 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
9648581 TTTGCATATT
9648591 GTCAAGATAAATGATAAACAAA
1 GTCAAGATAAATGATAAACAAA
9648613 GTCAAGATAAATGATAAACAAA
1 GTCAAGATAAATGATAAACAAA
9648635 G-CAAG
1 GTCAAG
9648640 TCTGAGTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.57, C:0.10, G:0.16, T:0.16
Consensus pattern (22 bp):
GTCAAGATAAATGATAAACAAA
Found at i:9652635 original size:23 final size:23
Alignment explanation
Indices: 9652582--9652628 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
9652572 ATTTAACTTT
9652582 TATTTTAAATTACCAAAAAATAAA
1 TATTTTAAATTACC-AAAAATAAA
9652606 TATTTTAAATTACC-AAAATAAA
1 TATTTTAAATTACCAAAAATAAA
9652628 T
1 T
9652629 GCTTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 9 0.39
24 14 0.61
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (23 bp):
TATTTTAAATTACCAAAAATAAA
Found at i:9653575 original size:2 final size:2
Alignment explanation
Indices: 9653562--9653599 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
9653552 GTTTTGGCCC
* *
9653562 AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9653600 GTTTTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:9653769 original size:18 final size:17
Alignment explanation
Indices: 9653746--9653783 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
9653736 TTAGTTTTTT
*
9653746 ATTTTTTTAATTAAATAA
1 ATTTTTTTAA-AAAATAA
9653764 ATTTTTTTAAAAAATAA
1 ATTTTTTTAAAAAATAA
9653781 ATT
1 ATT
9653784 GCGGTAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTTTTAAAAAATAA
Found at i:9653996 original size:16 final size:16
Alignment explanation
Indices: 9653975--9654019 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
9653965 TATATTTGGT
* *
9653975 TATTTATTTAATTTTA
1 TATTTATATAAATTTA
9653991 TATTTATATAAATTTA
1 TATTTATATAAATTTA
*
9654007 TATTAATA-AAATT
1 TATTTATATAAATT
9654020 ATTACTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTTATATAAATTTA
Found at i:9656374 original size:11 final size:12
Alignment explanation
Indices: 9656345--9656377 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9656335 TTTTGATAAT
9656345 TTTTTCTTTTGC
1 TTTTTCTTTTGC
*
9656357 GTTTTCTTTTG-
1 TTTTTCTTTTGC
9656368 TTTTTCTTTT
1 TTTTTCTTTT
9656378 CTTGCAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (12 bp):
TTTTTCTTTTGC
Found at i:9663321 original size:28 final size:28
Alignment explanation
Indices: 9663286--9663351 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 28
9663276 ATTTAATTTT
* *
9663286 AAAT-TTATAT-ATGTATTATTTTAATA
1 AAATATTATATAATATATTAATTTAATA
* *
9663312 AAATTATTATTTAATATTTTAATTTAATA
1 AAA-TATTATATAATATATTAATTTAATA
9663341 AAATATTATAT
1 AAATATTATAT
9663352 TTATGTATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 3 0.09
27 1 0.03
28 12 0.38
29 16 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
AAATATTATATAATATATTAATTTAATA
Found at i:9663362 original size:28 final size:29
Alignment explanation
Indices: 9663293--9663380 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 29
9663283 TTTAAATTTA
*
9663293 TATATGTATTATTTTAATAAAATTATTAT-T
1 TATATGTA-TAATTTAATAAAA-TATTATAT
*
9663323 TAATAT-TTTAATTTAATAAAATATTATAT
1 T-ATATGTATAATTTAATAAAATATTATAT
* *
9663352 T-TATGTATAATTGAAATATAAT-TTATAT
1 TATATGTATAATT-TAATAAAATATTATAT
9663380 T
1 T
9663381 GAAAAATAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
27 3 0.06
28 19 0.39
29 21 0.43
30 2 0.04
31 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (29 bp):
TATATGTATAATTTAATAAAATATTATAT
Found at i:9663642 original size:26 final size:26
Alignment explanation
Indices: 9663591--9663643 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
9663581 TTTGACTCCC
* * *
9663591 TTTCTTTTGTTTTGTTTTTTTCTTTT
1 TTTCTTTAGTTTTCTTTTTATCTTTT
9663617 TTTCTTTGAGTTTTCTTTTTAT-TTTT
1 TTTCTTT-AGTTTTCTTTTTATCTTTT
9663643 T
1 T
9663644 AATTATCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.04, C:0.08, G:0.08, T:0.81
Consensus pattern (26 bp):
TTTCTTTAGTTTTCTTTTTATCTTTT
Found at i:9665270 original size:26 final size:26
Alignment explanation
Indices: 9665241--9665298 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
9665231 ATAAATTATC
**
9665241 AATTATAAATAATTAACGAGTTAAAT
1 AATTATAAATAATTAAAAAGTTAAAT
9665267 AATTATAAATAATTAAAAAGTTAAAT
1 AATTATAAATAATTAAAAAGTTAAAT
*
9665293 ATTTAT
1 AATTAT
9665299 TTGATCCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (26 bp):
AATTATAAATAATTAAAAAGTTAAAT
Found at i:9668636 original size:31 final size:31
Alignment explanation
Indices: 9668598--9668683 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 31
9668588 TAATGTTGTA
*
9668598 TATATTGAACATGTTATCT-AGTGGGATGTGT
1 TATATTGAACATGTTATCTCA-TGGGATATGT
* * *
9668629 TATATTGAATATTTTTTCTCATGGGATATGT
1 TATATTGAACATGTTATCTCATGGGATATGT
* *
9668660 TATATTGAACAGGTTATCTGATGG
1 TATATTGAACATGTTATCTCATGG
9668684 ATGTTTTATG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 44 0.98
32 1 0.02
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (31 bp):
TATATTGAACATGTTATCTCATGGGATATGT
Found at i:9669406 original size:25 final size:26
Alignment explanation
Indices: 9669377--9669428 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
9669367 TTAATATGGA
*
9669377 TAATATATAATCA-AAAATAATAAAG
1 TAATAAATAATCATAAAATAATAAAG
*
9669402 TAATAAATAATCATAAAATCATAAAG
1 TAATAAATAATCATAAAATAATAAAG
9669428 T
1 T
9669429 TTATGACTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.29
Consensus pattern (26 bp):
TAATAAATAATCATAAAATAATAAAG
Found at i:9670840 original size:30 final size:29
Alignment explanation
Indices: 9670774--9670841 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
9670764 TGTAATACTA
* * * *
9670774 ACAACAACAACATTAACAATATCAATAAC
1 ACAACAATAACATAAACAATACCAACAAC
*
9670803 ACAAACAATAACATAAACAATACCAACAATT
1 AC-AACAATAACATAAACAATACCAACAA-C
9670834 ACAACAAT
1 ACAACAAT
9670842 CAATTAATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 2 0.06
30 28 0.88
31 2 0.06
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (29 bp):
ACAACAATAACATAAACAATACCAACAAC
Found at i:9671163 original size:27 final size:27
Alignment explanation
Indices: 9671125--9671179 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
9671115 TTCTAAGACT
9671125 TAGCATCACCTCTCAAAGATAGTTGGA
1 TAGCATCACCTCTCAAAGATAGTTGGA
9671152 TAGCATCACCTCTCAAAGATAGTTGGA
1 TAGCATCACCTCTCAAAGATAGTTGGA
9671179 T
1 T
9671180 GCCTTCGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (27 bp):
TAGCATCACCTCTCAAAGATAGTTGGA
Found at i:9671560 original size:16 final size:16
Alignment explanation
Indices: 9671539--9671569 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9671529 AAATTTTATA
*
9671539 ATATTTTTTATATTTT
1 ATATTTATTATATTTT
9671555 ATATTTATTATATTT
1 ATATTTATTATATTT
9671570 GAAAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATATTTATTATATTTT
Found at i:9674304 original size:3 final size:3
Alignment explanation
Indices: 9674298--9674386 Score: 117
Period size: 3 Copynumber: 29.3 Consensus size: 3
9674288 ATTTTTTTAA
* *
9674298 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT TAT AAT AAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
9674346 AAT AAAT TAT GTAT AAT -AT AAT AAT AAT AAT AAT AAT AAT A
1 AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9674387 TAGTATTATA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
2 2 0.03
3 69 0.90
4 6 0.08
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:9674395 original size:40 final size:42
Alignment explanation
Indices: 9674307--9674388 Score: 71
Period size: 43 Copynumber: 2.0 Consensus size: 42
9674297 AAATAATAAT
*
9674307 AATAATAATAATAATAATAATAATAATTATA-ATAATACTAAT
1 AATAATAATAATAATAATACTAATAATTATATATAATA-TAAT
* * * *
9674349 AAATTATGTATAAT-ATAATAATAATAATAATA-ATAATATA
1 -AATAAT-AATAATAATAATACTAATAATTATATATAATATA
9674389 GTATTATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 2 0.06
43 28 0.80
44 5 0.14
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (42 bp):
AATAATAATAATAATAATACTAATAATTATATATAATATAAT
Found at i:9674700 original size:16 final size:16
Alignment explanation
Indices: 9674679--9674715 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
9674669 TGTTCAGTGA
9674679 GGTGATCTAATCAGAG
1 GGTGATCTAATCAGAG
9674695 GGTGATCTAATCAGAG
1 GGTGATCTAATCAGAG
9674711 GGTGA
1 GGTGA
9674716 AGACTTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.11, G:0.35, T:0.24
Consensus pattern (16 bp):
GGTGATCTAATCAGAG
Found at i:9675032 original size:19 final size:20
Alignment explanation
Indices: 9674989--9675033 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
9674979 TCACAAGATG
9674989 ATTTTATATAATTTACTTTT
1 ATTTTATATAATTTACTTTT
*
9675009 -TTTTTTATAATTTA-TTCTT
1 ATTTTATATAATTTACTT-TT
9675028 ATTTTA
1 ATTTTA
9675034 ATTTTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.10
19 15 0.71
20 4 0.19
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTATATAATTTACTTTT
Found at i:9685400 original size:96 final size:96
Alignment explanation
Indices: 9685228--9685418 Score: 267
Period size: 96 Copynumber: 2.0 Consensus size: 96
9685218 TAATTTTTAA
* * * ** * *
9685228 TGAGATTAACTTATATTAGGATCATCATAAAAAGTGAGTTTTTAGGCACCAATGAATAATGCTAA
1 TGAGATTAACTTATACTACGATCATCATAAAAAGTGAATTTTTAGGCACCAAAAAATAATACCAA
*
9685293 CTTATGTTTTTTAAAAGACATGTAATTATTG
66 CTCATGTTTTTTAAAAGACATGTAATTATTG
* *
9685324 TGAGATTAACTTATACTACGATCATCCTAAAATGTGAATTTTTAGGCACCAAAAAAATAATACCA
1 TGAGATTAACTTATACTACGATCATCATAAAAAGTGAATTTTTAGGCACC-AAAAAATAATACCA
*
9685389 CCTCATGTTTTTT-AAAGACATGTAATTATT
65 ACTCATGTTTTTTAAAAGACATGTAATTATT
9685419 ATTATATACT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
96 62 0.75
97 21 0.25
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (96 bp):
TGAGATTAACTTATACTACGATCATCATAAAAAGTGAATTTTTAGGCACCAAAAAATAATACCAA
CTCATGTTTTTTAAAAGACATGTAATTATTG
Found at i:9685715 original size:13 final size:13
Alignment explanation
Indices: 9685697--9685725 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9685687 TTCGCTTGAG
9685697 CTTGGCTATATTC
1 CTTGGCTATATTC
9685710 CTTGGCTATATTC
1 CTTGGCTATATTC
9685723 CTT
1 CTT
9685726 CAAGTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.24, G:0.14, T:0.48
Consensus pattern (13 bp):
CTTGGCTATATTC
Found at i:9690069 original size:15 final size:17
Alignment explanation
Indices: 9690048--9690085 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
9690038 ATGGGATTTC
*
9690048 TAAAAA-TCAATGATTG
1 TAAAAATTCAACGATTG
9690064 -AAAAATTCAACGATTG
1 TAAAAATTCAACGATTG
9690080 TAAAAA
1 TAAAAA
9690086 AAATTTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 5 0.26
16 9 0.47
17 5 0.26
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (17 bp):
TAAAAATTCAACGATTG
Found at i:9690424 original size:13 final size:13
Alignment explanation
Indices: 9690406--9690443 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
9690396 TTTCACCAAT
*
9690406 TAAATAATTAAAA
1 TAAATAAATAAAA
9690419 TAAATAAATAAAA
1 TAAATAAATAAAA
9690432 T-AATAAATAAAA
1 TAAATAAATAAAA
9690444 CACTTTTGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:9692179 original size:18 final size:18
Alignment explanation
Indices: 9692156--9692199 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
9692146 CAAATACACA
*
9692156 TTTAACATGTTTAATAAG
1 TTTAACATGTTTAAGAAG
*
9692174 TTTAACATGTTTAAGATG
1 TTTAACATGTTTAAGAAG
9692192 TTTAACAT
1 TTTAACAT
9692200 ATTTTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTAACATGTTTAAGAAG
Found at i:9692185 original size:9 final size:9
Alignment explanation
Indices: 9692156--9692199 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
9692146 CAAATACACA
9692156 TTTAACATG
1 TTTAACATG
* *
9692165 TTTAATAAG
1 TTTAACATG
9692174 TTTAACATG
1 TTTAACATG
*
9692183 TTTAAGATG
1 TTTAACATG
9692192 TTTAACAT
1 TTTAACAT
9692200 ATTTTTTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (9 bp):
TTTAACATG
Found at i:9694276 original size:3 final size:3
Alignment explanation
Indices: 9694268--9694311 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
9694258 CTGTTTCAAA
9694268 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
9694312 AAAAAGGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9702475 original size:2 final size:2
Alignment explanation
Indices: 9702468--9702493 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9702458 TTCTAGTTAT
9702468 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9702494 AAGGTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9703986 original size:21 final size:21
Alignment explanation
Indices: 9703952--9703996 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9703942 TATTTAGATA
* *
9703952 ATTTTTTATAAATATATATAT
1 ATTTTTTATAAATAAAAATAT
* *
9703973 ATTTTTTTTCAATAAAAATAT
1 ATTTTTTATAAATAAAAATAT
9703994 ATT
1 ATT
9703997 AATTTTAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTTTATAAATAAAAATAT
Found at i:9704063 original size:2 final size:2
Alignment explanation
Indices: 9704058--9704086 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9704048 ATACTAAATC
9704058 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9704087 GTAGAGTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9710117 original size:65 final size:65
Alignment explanation
Indices: 9709998--9710134 Score: 159
Period size: 66 Copynumber: 2.1 Consensus size: 65
9709988 AGAATGCCAT
* * * * * *
9709998 AAAAAGTGAAAAGTTTAAAGAGGATGATATGGTTTGGCATAAAAGATGTAGGTGTATAGAGACAT
1 AAAAAATGAAAAGTTTAAAGAAGATGATATAGTCTAGCATAAAAGATGTAGGTGTACAGAGA-AT
9710063 A
65 A
* * * * *
9710064 AAAAAATGATAAGTTTAAAGAAGATGATGTAG-CTAGCATAAAGGATGTGGGTGTACAGAGAATG
1 AAAAAATGAAAAGTTTAAAGAAGATGATATAGTCTAGCATAAAAGATGTAGGTGTACAGAGAATA
9710128 AAAAAAT
1 AAAAAAT
9710135 AAGATGTTCA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
64 9 0.15
65 24 0.40
66 27 0.45
ACGTcount: A:0.46, C:0.04, G:0.26, T:0.24
Consensus pattern (65 bp):
AAAAAATGAAAAGTTTAAAGAAGATGATATAGTCTAGCATAAAAGATGTAGGTGTACAGAGAATA
Found at i:9711900 original size:11 final size:11
Alignment explanation
Indices: 9711884--9711909 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9711874 GAATAATTTA
9711884 AAAAAAAAAAG
1 AAAAAAAAAAG
9711895 AAAAAAAAAAG
1 AAAAAAAAAAG
9711906 AAAA
1 AAAA
9711910 TAATGAAACT
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:9713161 original size:84 final size:84
Alignment explanation
Indices: 9713028--9713265 Score: 309
Period size: 84 Copynumber: 2.8 Consensus size: 84
9713018 AACCTCCGAA
* * *
9713028 CATAATCTCCAAGTCCTCTAAGTAGGATTCATAAGTCTTTCAAACTGAATCTATTTTAGAGTCGA
1 CATAATCTCCAAGTCCTCTGAGTAAGATTCATAAGTCTTTCAAGCTGAATCTATTTTAGAGTCGA
9713093 GATTTGTAAAACCTT-AAAG
66 GATTTGTAAAA-CTTCAAAG
* * * * *
9713112 CATAATCTCTAAGTCCTCTGAGCAAGATTCGTAAGTCTTTCAAGTTGAATCTATTTTAGAATCGA
1 CATAATCTCCAAGTCCTCTGAGTAAGATTCATAAGTCTTTCAAGCTGAATCTATTTTAGAGTCGA
* * *
9713177 AATTTGTAAGACTTCTAAG
66 GATTTGTAAAACTTCAAAG
* * * *
9713196 CATAATCTCCAAGTCCTCTGAGTAAGATTCATAAGTC-TTCTAAGCTGAATTTGTTTTATAGTCA
1 CATAATCTCCAAGTCCTCTGAGTAAGATTCATAAGTCTTTC-AAGCTGAATCTATTTTAGAGTCG
9713260 AGATTT
65 AGATTT
9713266 ATAAGTCCTT
Statistics
Matches: 131, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
83 6 0.05
84 125 0.95
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (84 bp):
CATAATCTCCAAGTCCTCTGAGTAAGATTCATAAGTCTTTCAAGCTGAATCTATTTTAGAGTCGA
GATTTGTAAAACTTCAAAG
Found at i:9713307 original size:84 final size:83
Alignment explanation
Indices: 9713028--9713307 Score: 303
Period size: 84 Copynumber: 3.3 Consensus size: 83
9713018 AACCTCCGAA
* * * * *
9713028 CATAATCTCCAAGTCCTCTAAGTAGGATTCATAAGTCTTTCAAACTGAATCTATTTTAGAGTCGA
1 CATAATCTCCAAGTCCTCTGAGCAAGATTCATAAGTCTTTCAAGCTGAATCTATTTTAGAGTCAA
* *
9713093 GATTTGTAAAACCTTAAAG
66 GATTTGT-AAGCCTTCAAG
* * * *
9713112 CATAATCTCTAAGTCCTCTGAGCAAGATTCGTAAGTCTTTCAAGTTGAATCTATTTTAGAATCGA
1 CATAATCTCCAAGTCCTCTGAGCAAGATTCATAAGTCTTTCAAGCTGAATCTATTTTAGAGTC-A
*
9713177 A-ATTTGTAAGACTTCTAAG
65 AGATTTGTAAGCCTTC-AAG
* * * *
9713196 CATAATCTCCAAGTCCTCTGAGTAAGATTCATAAGTC-TTCTAAGCTGAATTTGTTTTATAGTCA
1 CATAATCTCCAAGTCCTCTGAGCAAGATTCATAAGTCTTTC-AAGCTGAATCTATTTTAGAGTCA
* *
9713260 AGATTTATAAGTCCTTCAGG
65 AGATTTGTAAG-CCTTCAAG
* ** *
9713280 CATAATCACCAAAACCTCTGGGCAAGAT
1 CATAATCTCCAAGTCCTCTGAGCAAGAT
9713308 CTATAAAATC
Statistics
Matches: 163, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
83 10 0.06
84 148 0.91
85 5 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (83 bp):
CATAATCTCCAAGTCCTCTGAGCAAGATTCATAAGTCTTTCAAGCTGAATCTATTTTAGAGTCAA
GATTTGTAAGCCTTCAAG
Found at i:9713429 original size:52 final size:51
Alignment explanation
Indices: 9713346--9713462 Score: 164
Period size: 52 Copynumber: 2.3 Consensus size: 51
9713336 AACCTATGGG
* * *
9713346 TAAAATTTTTAAATTTGTTGAGCCTTTGCAT-AAAGGCACCCATTTCTTAATT
1 TAAAATTTTTAAAGTTATTGAGCATTTGCATAAAAGG--CCCATTTCTTAATT
*
9713398 TAAAGTTTTTAAAGTTATTGAGCATTTGCATAGAAAGGCCCATTTCTTAATT
1 TAAAATTTTTAAAGTTATTGAGCATTTGCATA-AAAGGCCCATTTCTTAATT
9713450 TAAAATTTTTAAA
1 TAAAATTTTTAAA
9713463 TCTCCGCTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
52 53 0.91
54 5 0.09
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (51 bp):
TAAAATTTTTAAAGTTATTGAGCATTTGCATAAAAGGCCCATTTCTTAATT
Found at i:9715369 original size:14 final size:14
Alignment explanation
Indices: 9715350--9715398 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
9715340 TTTTTTTGTA
9715350 TTATTTTATTTAAT
1 TTATTTTATTTAAT
* *
9715364 TTATTTGATTTAAA
1 TTATTTTATTTAAT
*
9715378 ATATTTTATTTAAT
1 TTATTTTATTTAAT
*
9715392 TAATTTT
1 TTATTTT
9715399 CTTAAAAGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
TTATTTTATTTAAT
Found at i:9715482 original size:3 final size:3
Alignment explanation
Indices: 9715474--9715509 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
9715464 ATTTATTTAT
9715474 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9715510 GAATTCTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9717338 original size:22 final size:22
Alignment explanation
Indices: 9717306--9717348 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9717296 AGGATGGGAG
*
9717306 TTTATAAGCTTTACTTATCCCA
1 TTTATAAGCTTTACGTATCCCA
*
9717328 TTTATAGGCTTTACGTATCCC
1 TTTATAAGCTTTACGTATCCC
9717349 TTCTTTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.44
Consensus pattern (22 bp):
TTTATAAGCTTTACGTATCCCA
Done.