Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009599.1 Hibiscus syriacus cultivar Beakdansim tig00116979_pilon, 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: 125934
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:6511 original size:15 final size:15
Alignment explanation
Indices: 6491--6521 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6481 CCAATTTGTA
6491 TTATTCAGATTATGT
1 TTATTCAGATTATGT
6506 TTATTCAGATTATGT
1 TTATTCAGATTATGT
6521 T
1 T
6522 GATGATGGCA
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:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (15 bp):
TTATTCAGATTATGT
Found at i:8930 original size:26 final size:26
Alignment explanation
Indices: 8901--8961 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
8891 ATATTATTAA
*
8901 TAATTTATTTTTAAAAAATAAAATCT
1 TAATATATTTTTAAAAAATAAAATCT
8927 TAATATATTTTTAAAAAATAAAATCT
1 TAATATATTTTTAAAAAATAAAATCT
8953 TAATATATT
1 TAATATATT
8962 ATATTTTCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (26 bp):
TAATATATTTTTAAAAAATAAAATCT
Found at i:8965 original size:31 final size:30
Alignment explanation
Indices: 8897--8968 Score: 100
Period size: 26 Copynumber: 2.5 Consensus size: 30
8887 ATTAATATTA
8897 TTAATAATT-TATTTTTAAAAAATAAAATC
1 TTAATAATTATATTTTTAAAAAATAAAATC
8926 -T--TAA-TATATTTTTAAAAAATAAAATC
1 TTAATAATTATATTTTTAAAAAATAAAATC
8952 TTAATATATTATATTTT
1 TTAATA-ATTATATTTT
8969 CGAGCTGCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
25 1 0.03
26 23 0.62
27 1 0.03
28 1 0.03
29 2 0.05
30 1 0.03
31 8 0.22
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (30 bp):
TTAATAATTATATTTTTAAAAAATAAAATC
Found at i:16133 original size:2 final size:2
Alignment explanation
Indices: 16128--16178 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
16118 ACTTAAAAGT
16128 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
16170 TA TA TA TA T
1 TA TA TA TA T
16179 GTAATGCCCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17545 original size:59 final size:59
Alignment explanation
Indices: 17433--17782 Score: 421
Period size: 59 Copynumber: 6.0 Consensus size: 59
17423 GGTGATTACA
17433 ATAGGGCACTTAGTGTGCTAAAATGGTAA-GAAATCATACTAAGTGTATGAATTTCCAG
1 ATAGGGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAG
*
17491 ATAGAGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAG
1 ATAGGGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAG
* *
17550 ATAGGGAACTTAGTGTGCTAAAATGGTATGGAAATCATACTAAGTGTATGAATTTCCAG
1 ATAGGGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAG
* * * *
17609 ATAGGGCACTTCA-TGTGCTAACATGAG-ATGGAATTCATACTAAGTGTATGAATTTCCAT
1 ATAGGGCACTT-AGTGTGCTAAAATG-GTAAGGAAATCATACTAAGTGTATGAATTTCCAG
* * * *
17668 ATAGGGCA-TTTGTGTGGTAACA-GGAGAAGG-AATCCATACTAAGTGTATGAATTTCCAG
1 ATAGGGCACTTAGTGTGCTAAAATGG-TAAGGAAAT-CATACTAAGTGTATGAATTTCCAG
* * ** * *
17726 A-ATGGGCACCTT-GTATGATAAAATTATAA-GAAATTCATCCTAAGTGTATAAATTTCC
1 ATA-GGGCA-CTTAGTGTGCTAAAATGGTAAGGAAA-TCATACTAAGTGTATGAATTTCC
17783 GTATGGGAAA
Statistics
Matches: 258, Mismatches: 21, Indels: 25
0.85 0.07 0.08
Matches are distributed among these distances:
56 1 0.00
57 4 0.02
58 72 0.28
59 176 0.68
60 5 0.02
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (59 bp):
ATAGGGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAG
Found at i:17771 original size:176 final size:175
Alignment explanation
Indices: 17433--17782 Score: 419
Period size: 176 Copynumber: 2.0 Consensus size: 175
17423 GGTGATTACA
17433 ATAGGGCACTTAGTGTGCTAAAATGGTAAGAAATCATACTAAGTGTATGAATTTCCAGATAGAGC
1 ATAGGGCACTTAGTGTGCTAAAATGGTAAGAAATCATACTAAGTGTATGAATTTCCAGATAGAGC
*
17498 ACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGAACTTAG
66 ACTTAGTGTGCTAAAATGGGAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGAACTTAG
* * * *
17563 TGTGCTAAAATGGTATGGAAATCATACTAAGTGTATGAATTTCCAG
131 TATGATAAAAT-GTATAGAAATCATACTAAGTGTATAAATTTCCAG
* * * *
17609 ATAGGGCACTTCA-TGTGCTAACATGAG-ATGGAATTCATACTAAGTGTATGAATTTCCATATAG
1 ATAGGGCACTT-AGTGTGCTAAAATG-GTA-AGAAATCATACTAAGTGTATGAATTTCCAGATAG
* * * *
17672 GGCA-TTTGTGTGGTAACA-GGAGAAGG-AATCCATACTAAGTGTATGAATTTCCAGA-ATGGGC
63 AGCACTTAGTGTGCTAAAATGG-GAAGGAAAT-CATACTAAGTGTATGAATTTCCAGATA-GGG-
* *
17733 ACCTT-GTATGATAAAAT-TATAAGAAATTCATCCTAAGTGTATAAATTTCC
124 AACTTAGTATGATAAAATGTAT-AGAAA-TCATACTAAGTGTATAAATTTCC
17783 GTATGGGAAA
Statistics
Matches: 150, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
174 3 0.02
175 10 0.07
176 97 0.65
177 40 0.27
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (175 bp):
ATAGGGCACTTAGTGTGCTAAAATGGTAAGAAATCATACTAAGTGTATGAATTTCCAGATAGAGC
ACTTAGTGTGCTAAAATGGGAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGAACTTAG
TATGATAAAATGTATAGAAATCATACTAAGTGTATAAATTTCCAG
Found at i:18537 original size:68 final size:68
Alignment explanation
Indices: 18130--18518 Score: 602
Period size: 68 Copynumber: 5.8 Consensus size: 68
18120 AAAAGCTTAA
18130 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGT-CCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
18194 TTG
66 TTG
* * * * *
18197 AGGCCTAACTTTGCATTTGACA-AAATGTGTTAATTATGCCAGTTAAATGAAAGGCTAAGTTCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
18261 TTG
66 TTG
* *
18264 AGGCCTAACTGTGCATTTGACAGAAAGGTGTAAATTATGCCAGTTAGATGAAAGTCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
18329 TTG
66 TTG
* * *
18332 TGGCCTAATTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
18397 TTG
66 TTG
* * * * *
18400 AGGCCCAATTGTGCATTTGACAGAAAGGTGTTAATTATGCCAGTTAGATGAAAGGCTAGGTGTCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
18465 TTG
66 TTG
* * *
18468 AGGCCTAACTGTGTATTTGACAGAAAAGTGTCAATTATGCTAGTTAGATGA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGA
18519 GCGGTTAAGT
Statistics
Matches: 293, Mismatches: 27, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
66 35 0.12
67 48 0.16
68 210 0.72
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:18640 original size:79 final size:79
Alignment explanation
Indices: 18538--18822 Score: 372
Period size: 79 Copynumber: 3.6 Consensus size: 79
18528 TACCGTTGAG
* * * * * *
18538 AAAAAAATAATGTATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGTACATGAG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGTATATGGG
*
18603 TACATTGTCAGCGT
66 TACATTGTCAGCAT
*
18617 AAAAGAATAATGCATATGGGTGCATTATTGGTATGAAAAGATGCCATAGCTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGTATATGGG
**
18682 TACATTGTCAATAT
66 TACATTGTCAGCAT
* * * * * *
18696 AAAAGAGTAATGTATATGAGTGCATTATTGTCATGAAATGATGCCATAGCTGAAATATATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGTATATGGG
18761 TACATTGTCAGCAT
66 TACATTGTCAGCAT
* ** * * *
18775 AATAGAATAATGCATATATGTTCATTTTTGGCATGAAAAGATGTCATA
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAAGATGCCATA
18823 AATGAAATAT
Statistics
Matches: 177, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 177 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (79 bp):
AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGTATATGGG
TACATTGTCAGCAT
Found at i:18854 original size:45 final size:46
Alignment explanation
Indices: 18804--18921 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 46
18794 GTTCATTTTT
* * *
18804 GGCATGAAAAGATGTCATAAATGAAATATATAACGGTGTAT-AAAA
1 GGCATGAAAAGATGTCATAAATGAAAAATATAACAGTATATAAAAA
* * * *
18849 GGCATGAAATGATGTCGTAAATAAAAAATATAATAGTATATAAAAA
1 GGCATGAAAAGATGTCATAAATGAAAAATATAACAGTATATAAAAA
** * *
18895 GGCATGAATGGTTGCCATAAATGAAAA
1 GGCATGAAAAGATGTCATAAATGAAAA
18922 TGTATAATGA
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
45 34 0.58
46 25 0.42
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.25
Consensus pattern (46 bp):
GGCATGAAAAGATGTCATAAATGAAAAATATAACAGTATATAAAAA
Found at i:22881 original size:59 final size:59
Alignment explanation
Indices: 22818--23109 Score: 328
Period size: 59 Copynumber: 4.9 Consensus size: 59
22808 GTGATTACAA
22818 TAGGGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGT
1 TAGGGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGT
* *
22877 TAGGGCACTTACTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGA
1 TAGGGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGT
* ** * *
22936 TAGGCCACTTCA-TGTGCTAACTTGAG-ATGGAATTCATACTAAGTGTATGAATTTCCA-T
1 TAGGGCACTT-AGTGTGCTAAAATG-GTAAGGAAATCATACTAAGTGTATGAATTTCCAGT
* * * * *
22994 ATAGGGCACTTTGTGTGGTAACA-GGATAATGAATTCATACTAAGTGTATGAATTTCCAG-
1 -TAGGGCACTTAGTGTGCTAAAATGG-TAAGGAAATCATACTAAGTGTATGAATTTCCAGT
* * * *
23053 AATGGGCACCTT-GTATGCTAAAATGATAA-GAAATTCATCCTAAGTGTATGAATTTCC
1 TA-GGGCA-CTTAGTGTGCTAAAATGGTAAGGAAA-TCATACTAAGTGTATGAATTTCC
23110 GTATGGGAAA
Statistics
Matches: 201, Mismatches: 21, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
57 1 0.00
58 5 0.02
59 189 0.94
60 6 0.03
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (59 bp):
TAGGGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGT
Found at i:23867 original size:68 final size:68
Alignment explanation
Indices: 23459--23848 Score: 629
Period size: 68 Copynumber: 5.8 Consensus size: 68
23449 AAAAGCTTAA
*
23459 AGGCCTAACTGTGCATTTTACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGT-CCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
23523 TTG
66 TTG
* ** *
23526 AGGCCTAACTTTGCATTTGACAGAAATATGTCAATTATGCCAGTTAAATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
23591 TTG
66 TTG
* *
23594 AGGCCTAACTGTGCATTTGACAGAAAGGTGTAAATTATGCCAGTTAGATGAAAGTCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
23659 TTG
66 TTG
* * *
23662 CGGCCTAATTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
23727 TTG
66 TTG
* * * *
23730 AGGCCTAACTGTGCATTTGACAGAAAGGTGTTAATTATGCCAGTTAAATTAAAGGTTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
23795 TTG
66 TTG
* *
23798 AGGCCTAACTGTGTATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGA
23849 GCGGTTAAGT
Statistics
Matches: 294, Mismatches: 28, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
67 56 0.19
68 238 0.81
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:23963 original size:79 final size:79
Alignment explanation
Indices: 23868--24164 Score: 436
Period size: 79 Copynumber: 3.8 Consensus size: 79
23858 TACCGTTGAG
* * * * *
23868 AAAAAAATAATGCATATGCATGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGTATATGAG
1 AAAAGAATAATGCATATGGATGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGTATATGGG
* *
23933 TACATTGTCAGCGT
66 TACATTGTCAACAT
*
23947 AAAAGAATAATGCATATGG-TGCATTATTGGCATG-AAAGAATGACATAGCTGAAATGTATATGG
1 AAAAGAATAATGCATATGGATGCATTATTGGCATGAAAAG-ATGCCATAGCTGAAATGTATATGG
24010 GTACATTGTCAACAT
65 GTACATTGTCAACAT
* *
24025 AAAAGAATAATGCATATGGGTGCATAATTGGCATGAAAAGATGCCATAGCTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGATGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGTATATGGG
24090 TACATTGTCAACAT
66 TACATTGTCAACAT
* * * **
24104 AATAGAATAATTCATATGGATGCATTATTGGCATGAAAATATGCCATAAATGAAATGTATA
1 AAAAGAATAATGCATATGGATGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGTATA
24165 AAGGTGTATA
Statistics
Matches: 199, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
77 3 0.02
78 69 0.35
79 123 0.62
80 4 0.02
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (79 bp):
AAAAGAATAATGCATATGGATGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGTATATGGG
TACATTGTCAACAT
Found at i:24184 original size:45 final size:46
Alignment explanation
Indices: 24133--24249 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 46
24123 ATGCATTATT
* *
24133 GGCATGAAAATATGCCATAAATGAAATGTATAA-AGGTGTAT-AAAA
1 GGCATGAAAATATGCCATAAATGAAATATATAATA-GTATATAAAAA
* * *
24178 GGCATG-AAATGATGTCGTAAATAAAATATATAATAGTATATAAAAA
1 GGCATGAAAAT-ATGCCATAAATGAAATATATAATAGTATATAAAAA
**
24224 GGCATGAACGGT-TGCCATAAATGAAA
1 GGCATGAA-AATATGCCATAAATGAAA
24250 ATGCATAATG
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
44 4 0.07
45 29 0.51
46 22 0.39
47 1 0.02
48 1 0.02
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.25
Consensus pattern (46 bp):
GGCATGAAAATATGCCATAAATGAAATATATAATAGTATATAAAAA
Found at i:26433 original size:62 final size:62
Alignment explanation
Indices: 26336--29656 Score: 2599
Period size: 62 Copynumber: 54.0 Consensus size: 62
26326 AGAGATAAGA
* * * * *
26336 GAAGATTTTCATTTTAAAAATTTCACTAAAATTTTAAAAACTAGGAAGGAAAGAAATAAAAGA
1 GAAGATTTTAATTTT-AAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * * * * * *
26399 GAATATTTAAATTTTAAATTTTTATTAAAATTTTACAAACTAAGG-AGGGGAGAAAGAAGAGT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACT-AGGAAGGGAAGAAAGAAGAGT
* *
26461 GAAGATTTTAATTTTAAAATTTCACTAAAATTATAAAAACTAGGGAGGGAAGAAAGAAGAGT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * *
26523 GAAGGTTTTAATTTTAAAA--TCACTAAAATTTTAAAAATTAGG-AGTGG-AGAAAGAAGATT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAG-GGAAGAAAGAAGAGT
* * * *
26582 AAAG-GTTTAATTTTAAATTTTCACTAAAATTTTAAAAACTAAGG-AGGGAAGAAAGAAGAGG
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACT-AGGAAGGGAAGAAAGAAGAGT
* * * * * *
26643 GAA-AGTTTTAAATTCAAAGTTTCACTAAAATTTTAAAAATTAGGGAGGTAAGAAAGAAGAGT
1 GAAGA-TTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * *
26705 GAAGGTTTTAATTTTAAAATTTCACTAAAACTTTAAAAATTAGGGAA-GGAAGAAAG-AGTAGT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTA-GGAAGGGAAGAAAGAAG-AGT
* * *
26767 GAAGGTTTGAATTTTAAAA--TCACTAAAATTTTAAAAACTAAGG-AGGGAAGAAAGAAGAGG
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACT-AGGAAGGGAAGAAAGAAGAGT
* * * * *
26827 GAA-AGTTTTAAATTTAAAGTTTCACTAAAATTTTAAAAATTAGGGAGGTAAGAAAGAAGAGT
1 GAAGA-TTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * *
26889 GAAGGTTTTAATTTTAAAATTTCACTAAAACTTTAAAAACTAAGGAA-GAAAGAAAG-AGTAGT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACT-AGGAAGGGAAGAAAGAAG-AGT
* * * * * * * *
26951 GAAGGTTTGAATTTTAAAAATTTCACTAAAATTTAAAAAAAATAGGAAGGAAAGAAATAAAAGA
1 GAAGATTTTAATTTT-AAAATTTCACTAAAATTT-TAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * * * *
27015 GAAGATTTTAATTTTAAATTTTTATTAAAATTTTACAAACTAAGG-AGGGGAGAAAGAAGAGT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACT-AGGAAGGGAAGAAAGAAGAGT
*
27077 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGGAGGGAAGAAAGAAGAGT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * * * *
27139 GAAGGTTTTAATTTTAAAA--TCACTAAAATTTTAAAAATTAAG-AGTGG-AGGAAGAAGATT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAG-GGAAGAAAGAAGAGT
* * *
27198 AAAG-GTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAAGG-AGGGAAGAAAGAAGAGG
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACT-AGGAAGGGAAGAAAGAAGAGT
* * * *
27259 GACAG-TTTTAAATTTAAAGTTTCACTAAAACTTTAAAAACTAGGGAA-TGAAGAAAG-AGTAGT
1 GA-AGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTA-GGAAGGGAAGAAAGAAG-AGT
* ** ** * * *
27321 GAAGGTTTTAATTTTAATTTTTTTCTAAAATTTAAAAAAAAATTAGGGAGTGG-AGAAAGAAGA-
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTT---TAAAAACTAGGAAG-GGAAGAAAGAAGAG
27384 T
62 T
* * * *
27385 -TA-ATTGCTTAATTTTAAAATTTCATTAAAATTTTAAAAATTAAGG-AGGTAAGAAAGAAGAGT
1 GAAGATT--TTAATTTTAAAATTTCACTAAAATTTTAAAAACT-AGGAAGGGAAGAAAGAAGAGT
* * * * *
27447 GAGGGTTTTAATTTCAAAATTTCACTAAGATTTTAAAAACTAGGGAGGGAAGAAAGAAGAGT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * **
27509 GAAGGTTTTAATTTT-AAA-TTCACTAAAATTTTAAAAATTAGG-AGTGG-AGAAAGAAGACC
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAG-GGAAGAAAGAAGAGT
* * * * *
27568 AAAG-GTTTAATTATAAACTTTCACTAAAATTTTAAAAACTAAGG-AGGGAAGAAAGAAGAGG
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACT-AGGAAGGGAAGAAAGAAGAGT
* * * *
27629 GAA-AGTTTTAAATTTAAAGTTTCACTAAAATTTTAAAAATTAGGGAGGGAAGAAAGAAGAGT
1 GAAGA-TTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * ** * ** *
27691 AAAGGTTTTAATTTT-AAATTTTTCTAAAACTTTAAAAACTAGGGAA-TCAAGAAAG-AGTAGA
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTA-GGAAGGGAAGAAAGAAG-AGT
* * * *
27752 GAA-AGTTTTAATTTTAAAAATTTCACTAAAATTTAAAAAATTAGGGAGTGG-AGAAAGAAGATT
1 GAAGA-TTTTAATTTT-AAAATTTCACTAAAATTTTAAAAACTAGGAAG-GGAAGAAAGAAGAGT
* * * *
27815 AAAG-GTTTAATTTTAAAATTTCACTAAAATTTTAAAAATTAAGG-AGGGAAGAAATAAGAGT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACT-AGGAAGGGAAGAAAGAAGAGT
* * *
27876 GAGGGTTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGGAGGGAAGAAAGAA-AGT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * ** * * * *
27937 GAAGGTTTTAAATTTAATGTTTCACTAAAA-TTTAAAAA-TAGGGAGGG-AGGAAGAGGATT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * * * * **
27996 GAATATTTTAATTTTAAAATTTCACTATAATTTTAAAAACTAGGGAGGGAAGAGATAAGAAA
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * *
28058 GAAGATTTTAATTTTAAAATTTCACTAAAATTTAAAAAACTAAGG-AGGGAAGAAAAAAGATT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACT-AGGAAGGGAAGAAAGAAGAGT
* ** * * * * *
28120 GAAGGTTTTAATTTTAAAATTTTGCTAAAATTTTAAAAACT-TG--GGAAAGAGATAAGAGA
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * *
28179 GAAGATTTTAGA-TTTAAAATTTAACTAAAAGTTTT-AAAACTATGG-AGGGGAGAAAGAAGATT
1 GAAGATTTTA-ATTTTAAAATTTCACTAAAA-TTTTAAAAACTA-GGAAGGGAAGAAAGAAGAGT
* ** * * * * * *
28241 GAAGGTTTTAATTTTATTATTTCGCTAAAATTTTAAAAATTAGGGAGAG-AGCAAAGAGGATT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAG-AAAGAAGAGT
** * ** *
28303 GAAGATTTTAATTTTAAAATTTTTTCTAAAACTTTAAAAACTAGGGAA-TCAAGAAAG-AGTAGA
1 GAAGATTTTAATTTTAAAA-TTTCACTAAAATTTTAAAAACTA-GGAAGGGAAGAAAGAAG-AGT
* * * *
28366 GAA-AGTTTTAATTTTAAAAATTTCACTAAAATTTAAAAAATTAGGGAGTGG-AGAAAGAAGATT
1 GAAGA-TTTTAATTTT-AAAATTTCACTAAAATTTTAAAAACTAGGAAG-GGAAGAAAGAAGAGT
* * * *
28429 AAAG-GTTTAATTTTAAAATTTCACTAAAATTTTAAAAATTAAGG-AGGGAAGAAAGAAGGGT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACT-AGGAAGGGAAGAAAGAAGAGT
* * * * *
28490 GAGGGTTTTAATTTTAAAATTTCACTAAAATTTTAAAAATTAGGGAGGGAAGAAAGAA-AGG
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
** * ** * * * * *
28551 GAAGGCTTTAAATTTAATGTTTCACTAAAATTTTAAAAATTAGGGAGGGAGGAAAGAGGATT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * * * * **
28613 GAATATTTTAATTTTAAAATTTCACTATAATTTTAAAAACTAGGGAGGGAAGAGATAAGAAA
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* *
28675 GAAGATTTTAATTTTAAAATTTCACTAAAATTTAAAAAACTAAGG-A-GGAAGAAA-AAGATT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACT-AGGAAGGGAAGAAAGAAGAGT
* * * * * * *
28735 GAAGGTTTTAA-TTT-AAATTT-GCTAAAATTTTAAAAACT-TG--GGAAAGAGATAAGAGA
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * *
28791 GAAGATTTTAGA-TTTAAAATTTAACTAAAAGTTTT-AAAACTATGG-AGGGGAGAAAGAAGATT
1 GAAGATTTTA-ATTTTAAAATTTCACTAAAA-TTTTAAAAACTA-GGAAGGGAAGAAAGAAGAGT
* ** * * * * * * *
28853 GAAGGTTTTAATTTTATTATTTCGCTAAAATCTTAAAAATTAGGGAGGGAGGAAAGAGGATT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * * * * *
28915 GAAGATTTTAATTTTAAAATTTCACTATATTTTTAAAAACTAGGGAGGGAAGAGATAAGAGA
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * ** * * *
28977 GAAGAGTTTAATTTTAAAATTTGACTAAAATTCAAAACAAAATAAGG-AGGGGAGAAAAAAGA-T
1 GAAGATTTTAATTTTAAAATTTCACTAAAATT-TTAA-AAACT-AGGAAGGGAAGAAAGAAGAGT
* * * * * * * *
29040 GGAAGGTTATAATTTTAAATTTTTACAAAAATTTTAAAAACTAGGGAA-AG-AGATA-ATGA--
1 -GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTA-GGAAGGGAAGAAAGAAGAGT
* * * *
29099 GAAGGTTTTAGA-TTTGAAATTTAACTAAAAGTTTT-AAAACTATGG-AGGGAA-AAATGAA-AA
1 GAAGATTTTA-ATTTTAAAATTTCACTAAAA-TTTTAAAAACTA-GGAAGGGAAGAAA-GAAGAG
29159 T
62 T
* * * *
29160 TAGAGGTTTTAATTTTAAAATTTTAGTAAAATTACTAAAATTTTAAAAA-TCAGTG-AGGAAAGA
1 GA-AGATTTTAATTTTAAAA---T--T----TCACTAAAATTTTAAAAACT-AG-GAAGGGAAGA
* *
29223 AAAAAGAGG
54 AAGAAGAGT
* * * * * *
29232 GAAGATTTTAAATTTAAAGTTTCACTAAAATTTTAAAAATTAGTG-AGGGAGGAAAAAAGATT
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAG-GAAGGGAAGAAAGAAGAGT
* * * * * *
29294 GAAGATTTTAATTTTAAAATTTCACTATAATTTTAAAAAGTAGGGAGGGAAGAGATAAGAGA
1 GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * * *
29356 GAA-ATTTTAAATTTT-AAATTTTACTAAAATTTTAGAAACTAGGGAGGGAAGAAAGAAGATT
1 GAAGATTTT-AATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * * ** *
29417 GAAGGTTTTAATTTTAAAATTTAACTAAAAGTTTT-AAAACTAGGGAGGG-A-AAAGATTAGA
1 GAAGATTTTAATTTTAAAATTTCACTAAAA-TTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
* * * *
29477 GAA-A----AGA-TTTAAAATTTTACTAAAATTTTAGAAACTAGTG-AGGGGAGAAAGAAGATT
1 GAAGATTTTA-ATTTTAAAATTTCACTAAAATTTTAAAAACTAG-GAAGGGAAGAAAGAAGAGT
* * * * * * * * *
29534 AAAAGGTTTTAATTTTAAAAATTAACTAAAAGTTTT-AACACTA-GAGAGGAAAGAGATAAGAGA
1 -GAAGATTTTAATTTTAAAATTTCACTAAAA-TTTTAAAAACTAGGA-AGGGAAGAAAGAAGAGT
* * * * * *
29597 GACGGTTTTAGA-TTTAAAATTTAATTAAAATTTTTAAAACTA-GAGAGGGAAGAGAGAAGA
1 GAAGATTTTA-ATTTTAAAATTTCACTAAAATTTTAAAAACTAGGA-AGGGAAGAAAGAAGA
29657 TTTTAAAGTT
Statistics
Matches: 2645, Mismatches: 443, Indels: 341
0.77 0.13 0.10
Matches are distributed among these distances:
54 4 0.00
55 36 0.01
56 16 0.01
57 27 0.01
58 88 0.03
59 148 0.06
60 239 0.09
61 406 0.15
62 1287 0.49
63 208 0.08
64 115 0.04
65 19 0.01
66 4 0.00
67 1 0.00
68 1 0.00
70 6 0.00
71 35 0.01
72 5 0.00
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.30
Consensus pattern (62 bp):
GAAGATTTTAATTTTAAAATTTCACTAAAATTTTAAAAACTAGGAAGGGAAGAAAGAAGAGT
Found at i:29650 original size:55 final size:55
Alignment explanation
Indices: 29591--29699 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 55
29581 GGAAAGAGAT
* * * * *
29591 AAGAGAGACGGTTTTAGATTTAAAATTTAATTAAAATTTTTA-AAACTAGAGAGGG
1 AAGAGAGAAGATTTTAAAGTTAAAATTTAACTAAAA-TTTTAGAAACTAGAGAGGG
* * *
29646 AAGAGAGAAGATTTTAAAGTTAAACTTTTACTAAAATTTTAGAAACTAGGGAGG
1 AAGAGAGAAGATTTTAAAGTTAAAATTTAACTAAAATTTTAGAAACTAGAGAGG
29700 AGAGAAAGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
54 5 0.11
55 40 0.89
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (55 bp):
AAGAGAGAAGATTTTAAAGTTAAAATTTAACTAAAATTTTAGAAACTAGAGAGGG
Found at i:30587 original size:147 final size:148
Alignment explanation
Indices: 30309--30604 Score: 483
Period size: 147 Copynumber: 2.0 Consensus size: 148
30299 GGTTGTGTAT
30309 AATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCATAT
1 AATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCATAT
** *
30374 ACATATGCTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCACAGAATATAATATA
66 ACATATGCTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTCCAAAGAATATAATATA
30439 T-CCGAAGGACCCGCGTAG
131 TCCCGAAGGA-CCGCGTAG
*
30457 AATTGCACCG-AGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATCATAT
1 AATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCATAT
* *
30521 ACATATGCTAGGGATC-A-TATTGTGTCTCACCAGACTTTACACATGTTCCAAAGAATATATATA
66 ACATATGCTAGGGATCAAGTA-TGTGTCTCACAAGACTTCACACATGTTCCAAAGAATATA-ATA
30584 TATCCCGAAGGACCGCGTAG
129 TATCCCGAAGGACCGCGTAG
30604 A
1 A
30605 CCCTCGCTCT
Statistics
Matches: 139, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
145 2 0.01
146 35 0.25
147 84 0.60
148 18 0.13
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (148 bp):
AATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCATAT
ACATATGCTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTCCAAAGAATATAATATA
TCCCGAAGGACCGCGTAG
Found at i:31562 original size:46 final size:48
Alignment explanation
Indices: 31472--31566 Score: 176
Period size: 46 Copynumber: 2.0 Consensus size: 48
31462 AACTTTGGTA
31472 CAGGTGTCAGAATCGCGCATAAGACCTCAAATTCTGCCGTTTTCCCCT
1 CAGGTGTCAGAATCGCGCATAAGACCTCAAATTCTGCCGTTTTCCCCT
31520 CAGGTGTCAGAATCGCGCAT-A-ACCTCAAATTCTGCCGTTTTCCCCT
1 CAGGTGTCAGAATCGCGCATAAGACCTCAAATTCTGCCGTTTTCCCCT
31566 C
1 C
31567 CGAATCACTA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 26 0.55
47 1 0.02
48 20 0.43
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (48 bp):
CAGGTGTCAGAATCGCGCATAAGACCTCAAATTCTGCCGTTTTCCCCT
Found at i:31953 original size:18 final size:18
Alignment explanation
Indices: 31930--31964 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
31920 TCCCATCTAG
31930 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
31948 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
31965 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:32595 original size:63 final size:62
Alignment explanation
Indices: 32441--32602 Score: 184
Period size: 63 Copynumber: 2.6 Consensus size: 62
32431 TCTTTTAATG
* * *
32441 AAGGTATGCATCGATGCACTACACCATGCA-CGATGCATAAATCCTATTCGATGTTTGTATTA
1 AAGGCATGCATCGATGCACTACA-TATGCATCGATGCATAAATCCTATTCGATGTTTCTATTA
* * * *
32503 AGGGGATGCATCGATGCACTCCTTATGCATCGATGCAT-AATCCTATTCGATGTTTTCTATTTA
1 AAGGCATGCATCGATGCACTACATATGCATCGATGCATAAATCCTATTCGATG-TTTCTA-TTA
** * *
32566 AATTCATGCATCGATGCACTGCATGTGCATCGATGCA
1 AAGGCATGCATCGATGCACTACATATGCATCGATGCA
32603 CCTTAAACAA
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
61 19 0.23
62 32 0.38
63 33 0.39
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (62 bp):
AAGGCATGCATCGATGCACTACATATGCATCGATGCATAAATCCTATTCGATGTTTCTATTA
Found at i:35735 original size:23 final size:23
Alignment explanation
Indices: 35709--35753 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
35699 CACCACAGCT
*
35709 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
35732 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
35754 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:36434 original size:2 final size:2
Alignment explanation
Indices: 36427--36482 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
36417 TCTCTTAGAC
36427 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36469 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
36483 CACATGTTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36835 original size:17 final size:18
Alignment explanation
Indices: 36813--36846 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36803 TCCCATCTAG
36813 CTTATC-TATATGTTCAT
1 CTTATCATATATGTTCAT
*
36830 CTTATCATTTATGTTCA
1 CTTATCATATATGTTCA
36847 AATCTCCTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.53
Consensus pattern (18 bp):
CTTATCATATATGTTCAT
Found at i:37430 original size:64 final size:63
Alignment explanation
Indices: 37334--37492 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 63
37324 TAATGAAGGT
* *
37334 ATGCATCGATGCACTACC-ATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGGG
1 ATGCATCGATGCACT-CCTATGCATCGATGCATAAATCATATTCGATGTTTTCTATTTAAAT--G
*
37396 G
63 C
*
37397 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCATATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCATATTCGATGTTTTCTATTTAAATGC
* *
37461 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
37493 CCTTAAACAA
Statistics
Matches: 85, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
62 2 0.02
63 15 0.18
64 56 0.66
65 9 0.11
66 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCATATTCGATGTTTTCTATTTAAATGC
Found at i:40197 original size:5 final size:5
Alignment explanation
Indices: 40187--40211 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
40177 GGCAACAACT
40187 CAAAG CAAAG CAAAG CAAAG CAAAG
1 CAAAG CAAAG CAAAG CAAAG CAAAG
40212 GTGAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (5 bp):
CAAAG
Found at i:42240 original size:2 final size:2
Alignment explanation
Indices: 42233--42277 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
42223 TCTTATCTTT
42233 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
42275 TA T
1 TA T
42278 GAACAATAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:43190 original size:31 final size:31
Alignment explanation
Indices: 43119--43194 Score: 120
Period size: 30 Copynumber: 2.5 Consensus size: 31
43109 TTCAACATCC
* *
43119 AAGTGGCCAAAACTTAATAAAACGATAACGT
1 AAGTGACCAAAACTTAATAAAACAATAACGT
43150 AA-TGACCAAAACTTAATAAAACAATAACGT
1 AAGTGACCAAAACTTAATAAAACAATAACGT
43180 AAGTGACC-AAACTTA
1 AAGTGACCAAAACTTA
43195 TGTTTTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
30 35 0.83
31 7 0.17
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAACAATAACGT
Found at i:45433 original size:29 final size:29
Alignment explanation
Indices: 45391--45447 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
45381 AACACACCAT
45391 AATTATACATCGATAAACGATATAATTTA
1 AATTATACATCGATAAACGATATAATTTA
45420 AATTATACATCGATAAACGATATAATTT
1 AATTATACATCGATAAACGATATAATTT
45448 TAGATTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (29 bp):
AATTATACATCGATAAACGATATAATTTA
Found at i:45701 original size:22 final size:22
Alignment explanation
Indices: 45675--45717 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
45665 AAAAATAAAT
*
45675 AAATTAGATTATAACAT-TTTTA
1 AAATTA-AATATAACATGTTTTA
45697 AAATTAAATATAACATGTTTT
1 AAATTAAATATAACATGTTTT
45718 TTTTATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (22 bp):
AAATTAAATATAACATGTTTTA
Found at i:47421 original size:181 final size:182
Alignment explanation
Indices: 47047--47500 Score: 700
Period size: 181 Copynumber: 2.5 Consensus size: 182
47037 AATTTTCTAC
* * * * *
47047 TACCGATTTTTTCATTTCGAGACTGATTTTGTCATA-TTTTACCTGCTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATAGA
* * *
47111 TACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTGACACTATAACTTCTTCTCTTTTAAATTCAAAAAG
* *
47176 TGTCGATACTTATAATAAAGTATCGACAATTTCAACATATCTGGTAGCTCTT
131 TGTCGATACTTATAATAAAGTATCGACAATATCAACATATCTGGTAGCGCTT
*
47228 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATAGATAGA
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATAGA
*
47293 TACATTTTTATAAAGTATTGACACTTTATT-AGCACTATAACTTCTTCTCTTTTAAATTCAAAAA
66 TACATTTTTATAAAGTATCGACACTTTATTGA-CACTATAACTTCTTCTCTTTTAAATTCAAAAA
* *
47357 GTGTTGATACTTATAATAAAGTATCGACACTATCAACATAT-TGGTAGCGCTT
130 GTGTCGATACTTATAATAAAGTATCGACAATATCAACATATCTGGTAGCGCTT
* ** *
47409 TACCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCA-
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGAT-AG
47473 ATACATTTTTATAAAGTATCGACACTTT
65 ATACATTTTTATAAAGTATCGACACTTT
47501 CAATACATCC
Statistics
Matches: 250, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
181 128 0.51
182 122 0.49
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATAGA
TACATTTTTATAAAGTATCGACACTTTATTGACACTATAACTTCTTCTCTTTTAAATTCAAAAAG
TGTCGATACTTATAATAAAGTATCGACAATATCAACATATCTGGTAGCGCTT
Found at i:47568 original size:112 final size:112
Alignment explanation
Indices: 47372--47718 Score: 576
Period size: 109 Copynumber: 3.1 Consensus size: 112
47362 GATACTTATA
* * * *
47372 ATAAAGTATCGACACTATCAACATAT-TGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
47436 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
* * * *
47483 ATAAAGTATCGACACTTTCAATACATCCGGTAGCGTTTTATATGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
*
47548 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACA---TT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
47592 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
*
47657 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
47704 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
47719 AAACCGACAA
Statistics
Matches: 217, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
109 103 0.47
111 23 0.11
112 91 0.42
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
Found at i:50640 original size:18 final size:18
Alignment explanation
Indices: 50617--50651 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50607 AAAGAAAATA
*
50617 AAATTATAATAAAATTAT
1 AAATTATAAAAAAATTAT
50635 AAATTATAAAAAAATTA
1 AAATTATAAAAAAATTA
50652 AATATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTATAAAAAAATTAT
Found at i:50657 original size:15 final size:17
Alignment explanation
Indices: 50611--50654 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
50601 GTTTTAAAAG
*
50611 AAAATAAAATTATAATA
1 AAAATTAAATTATAATA
*
50628 AAATTATAAATTATAA-A
1 AAAAT-TAAATTATAATA
50645 AAAATTAAAT
1 AAAATTAAAT
50655 ATATTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 5 0.22
17 9 0.39
18 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTAAATTATAATA
Found at i:58654 original size:16 final size:16
Alignment explanation
Indices: 58630--58660 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58620 TTCTAAATTT
*
58630 TTTTTGAGTTCAAGTC
1 TTTTCGAGTTCAAGTC
58646 TTTTCGAGTTCAAGT
1 TTTTCGAGTTCAAGT
58661 TTCAATATTA
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:0.19, C:0.13, G:0.19, T:0.48
Consensus pattern (16 bp):
TTTTCGAGTTCAAGTC
Found at i:60477 original size:22 final size:23
Alignment explanation
Indices: 60437--60479 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
60427 ATATATATAT
*
60437 ATTTATTTATTTTTATATAATTG
1 ATTTATTTATTTTGATATAATTG
*
60460 ATTT-TTTATTTTGCTATAAT
1 ATTTATTTATTTTGATATAAT
60480 CAGATGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (23 bp):
ATTTATTTATTTTGATATAATTG
Found at i:64383 original size:20 final size:21
Alignment explanation
Indices: 64344--64384 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
64334 TTTGAATTTT
**
64344 TAAAAAATATTTTATTAAAAA
1 TAAAAAATATTTTAAAAAAAA
64365 TAAAAAA-ATTTTAAAAAAAA
1 TAAAAAATATTTTAAAAAAAA
64385 CTCAGCATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAAAATATTTTAAAAAAAA
Found at i:66077 original size:22 final size:22
Alignment explanation
Indices: 66052--66101 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
66042 AATATATTAA
66052 ATTATAAAATAGATAAA-AATAC
1 ATTATAAAATAGATAAATAAT-C
*
66074 ATTA-AAATTAGATAAATAATC
1 ATTATAAAATAGATAAATAATC
66095 A-TATAAA
1 ATTATAAA
66102 TTTTTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 2 0.08
21 16 0.64
22 7 0.28
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (22 bp):
ATTATAAAATAGATAAATAATC
Found at i:108579 original size:22 final size:23
Alignment explanation
Indices: 108543--108587 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
108533 CAACCAAACA
*
108543 GAAAATAAACTAAAAAATAAAAG
1 GAAAATAAACTAAAAAAAAAAAG
*
108566 GAAAA-AAAGTAAAAAAAAAAAG
1 GAAAATAAACTAAAAAAAAAAAG
108588 ATGTTACCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (23 bp):
GAAAATAAACTAAAAAAAAAAAG
Found at i:110797 original size:11 final size:12
Alignment explanation
Indices: 110757--110800 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
110747 TATTTAAACG
*
110757 GGTATTGGGCCA
1 GGTATTGGGTCA
*
110769 GGTATTGGGTCG
1 GGTATTGGGTCA
110781 GGTATTGGGTC-
1 GGTATTGGGTCA
110792 GGTATTGGG
1 GGTATTGGG
110801 CTGGGAATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.11, C:0.09, G:0.48, T:0.32
Consensus pattern (12 bp):
GGTATTGGGTCA
Found at i:110799 original size:23 final size:24
Alignment explanation
Indices: 110755--110800 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
110745 ATTATTTAAA
110755 CGGGTATTGGGCCAGGTATTGGGT
1 CGGGTATTGGGCCAGGTATTGGGT
*
110779 CGGGTATTGGGTC-GGTATTGGG
1 CGGGTATTGGGCCAGGTATTGGG
110801 CTGGGAATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.11, C:0.11, G:0.48, T:0.30
Consensus pattern (24 bp):
CGGGTATTGGGCCAGGTATTGGGT
Found at i:110867 original size:21 final size:21
Alignment explanation
Indices: 110819--110867 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
110809 CGGGCCGGGT
* *
110819 ATATATATATATTTAAATTAA
1 ATATATTTTTATTTAAATTAA
110840 ATATATTTTTATTTAAATTAA
1 ATATATTTTTATTTAAATTAA
*
110861 ATTTATT
1 ATATATT
110868 AATATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATATTTTTATTTAAATTAA
Found at i:110966 original size:13 final size:13
Alignment explanation
Indices: 110910--110953 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
110900 TTTAATATTT
*
110910 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
110922 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
*
110935 ATTGGGGCGGGTA
1 ATCGGGGCGGGTA
110948 ATCGGG
1 ATCGGG
110954 TAATCGGGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.14, C:0.14, G:0.52, T:0.20
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:113154 original size:31 final size:31
Alignment explanation
Indices: 113113--113207 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
113103 GAACCTCGGC
* *
113113 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* * **
113144 AATTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* *
113175 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
113206 AA
1 AA
113208 ACCCTCGACT
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
31 47 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:113366 original size:2 final size:2
Alignment explanation
Indices: 113359--113447 Score: 178
Period size: 2 Copynumber: 44.5 Consensus size: 2
113349 TCACATGTAT
113359 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
113401 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
113443 TA TA T
1 TA TA T
113448 GTATTCATGT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 87 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:114047 original size:64 final size:65
Alignment explanation
Indices: 113936--114084 Score: 196
Period size: 64 Copynumber: 2.3 Consensus size: 65
113926 TCTTTCAATG
* * * *
113936 AAGGTATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTT-TTTATTTTA
1 AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTT-
114000 A
65 A
* * *
114001 AAGG-ATGCATCGATGCATTAGC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTTTCTTTT
1 AAGGAATGCATCGATGCACTA-CTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTT
114064 A
65 A
114065 AAGGAATGCATCGATGCACT
1 AAGGAATGCATCGATGCACT
114085 TATGAATGTG
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
64 48 0.65
65 26 0.35
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (65 bp):
AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTTA
Found at i:117410 original size:31 final size:31
Alignment explanation
Indices: 117372--117466 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
117362 GAACCTCGGC
* *
117372 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
117403 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* * *
117434 TACTGTTCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
117465 AA
1 AA
117467 ACCCTCGACT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
31 48 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:118227 original size:63 final size:65
Alignment explanation
Indices: 118117--118264 Score: 187
Period size: 63 Copynumber: 2.3 Consensus size: 65
118107 TCTTTCAATG
* * * *
118117 AAGGTATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTT-TTAT-TTTA
1 AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTT-TCTTTA
118180 A
65 A
* * *
118181 AAGG-ATGCATCGATGCATTAGC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTTTCTTTT
1 AAGGAATGCATCGATGCACTA-CTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTCTTTA
118244 A
65 A
118245 AAGGAATGCATCGATGCACT
1 AAGGAATGCATCGATGCACT
118265 TATGAATGTG
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
63 44 0.60
64 15 0.21
65 14 0.19
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (65 bp):
AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTCTTTAA
Found at i:120084 original size:25 final size:26
Alignment explanation
Indices: 120047--120108 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
120037 TTTGATATAA
120047 TTATATTATTATATCAAA-ATACACT
1 TTATATTATTATATCAAAGATACACT
*
120072 TTATA-TATATATATTAAAGATACACT
1 TTATATTAT-TATATCAAAGATACACT
120098 TTAT-TTATTAT
1 TTATATTATTAT
120109 TAATCATACA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 3 0.09
25 16 0.48
26 14 0.42
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (26 bp):
TTATATTATTATATCAAAGATACACT
Found at i:120117 original size:23 final size:26
Alignment explanation
Indices: 120047--120118 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 26
120037 TTTGATATAA
*
120047 TTATAT-TATTATATCAAA-ATACACT
1 TTATATATA-TATATTAAACATACACT
*
120072 TTATATATATATATTAAAGATACACT
1 TTATATATATATATTAAACATACACT
*
120098 TTAT-T-TAT-TATTAATCATACA
1 TTATATATATATATTAAACATACA
120119 AGAATAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 11 0.26
24 3 0.07
25 15 0.36
26 13 0.31
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (26 bp):
TTATATATATATATTAAACATACACT
Done.