Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005566.1 Hibiscus syriacus cultivar Beakdansim tig00012908_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: 61640
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:134 original size:32 final size:32
Alignment explanation
Indices: 98--160 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
88 AGATGATCGT
*
98 AGTTCATCTACAATTTATGAGAAATGATTATG
1 AGTTCATCTACAAGTTATGAGAAATGATTATG
* * *
130 AGTTCTTCTGCAAGTTATGAGAGATGATTAT
1 AGTTCATCTACAAGTTATGAGAAATGATTAT
161 AAGTACCTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (32 bp):
AGTTCATCTACAAGTTATGAGAAATGATTATG
Found at i:177 original size:32 final size:32
Alignment explanation
Indices: 112--189 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
102 CATCTACAAT
* * *
112 TTATGAGAAATGATTATGAGTTCTTCTGCAAG
1 TTATGAGAGATGATTATAAGTCCTTCTGCAAG
*
144 TTATGAGAGATGATTATAAGTACCTTC-GTAAG
1 TTATGAGAGATGATTATAAGT-CCTTCTGCAAG
* *
176 TTTTGATAGATGAT
1 TTATGAGAGATGAT
190 CATTATGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 35 0.90
33 4 0.10
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (32 bp):
TTATGAGAGATGATTATAAGTCCTTCTGCAAG
Found at i:2129 original size:22 final size:21
Alignment explanation
Indices: 2086--2144 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
2076 TGAAAAGTTT
*
2086 AAAATAGTAAAATAATAGAAA
1 AAAATATTAAAATAATAGAAA
*
2107 ATAAATATTAAGAATTATA-AAA
1 A-AAATATTAA-AATAATAGAAA
2129 AAAAGTATTCAAAATA
1 AAAA-TATT-AAAATA
2145 TTTAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 4 0.13
22 19 0.61
23 8 0.26
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (21 bp):
AAAATATTAAAATAATAGAAA
Found at i:2215 original size:21 final size:20
Alignment explanation
Indices: 2176--2224 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
2166 TTAAAAGTCA
2176 TAAAACAAAATATTAAAATAT
1 TAAAA-AAAATATTAAAATAT
*
2197 TAAAAAAATTATTACAAATAT
1 TAAAAAAAATATTA-AAATAT
2218 TAAAAAA
1 TAAAAAA
2225 CATAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAAAAAATATTAAAATAT
Found at i:10230 original size:3 final size:3
Alignment explanation
Indices: 10222--10265 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
10212 TTTGTCATGG
10222 TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10266 GTAGGTCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19872 original size:258 final size:257
Alignment explanation
Indices: 19402--20047 Score: 927
Period size: 258 Copynumber: 2.5 Consensus size: 257
19392 AGTTATTTGG
* *
19402 AAAAAATGAGAAAGCGATTTCCAAAGTCTCTCATTTAATATGTTCAAAAAAATGAAATTTTTGAA
1 AAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATGTTC-AGAAAATGAAATTTTTGAA
* * * *
19467 AAGTAAGAAAACAATTTCCAAAGTTTATTACCCAGTAAATTATTTCCAAAATTAATAAGTCCTTC
65 AAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTAGTAAGTCCTTC
* * *
19532 GAGCCATCAGTAAGCCTTTCGAAAATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAG
130 GAGCCATCAGTAAACCTTTAGAAAATGATGCTTAAATCCTTCGGGTAATCTGTAAGTCTTTCGAG
* * *
19597 CAAGAAGATACGTCCTTCGGGTCATCTATAAGACCTTCGAGCAAGATGTTTTCACATGACTTTT
195 CAAGAAGATAAGTCCTTCGGGACATCTATAAGACCTTCGAGCAAGATGTTTTCACATGA-ATTT
* *
19661 AAAAAATGTGAAAGCAATTTCCAAAGTTTCTCATTTAATATGTTCAGAAAATGAAATTTTTGAAA
1 AAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATGTTCAGAAAATGAAATTTTTGAAA
* * * * *
19726 AGTAATAAAGTGATTTCTAAAGTTTCTTACCCACTAAATTATTTCCAAAATTAGTAAGTCCTTTG
66 AGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTAGTAAGTCCTTCG
* ** *
19791 GGCCATCAGTAAACCTTTAGAGCATGATGCTTAAATCCTTCTGGTAATCTGTAAGTCTTTCGAGC
131 AGCCATCAGTAAACCTTTAGAAAATGATGCTTAAATCCTTCGGGTAATCTGTAAGTCTTTCGAGC
* * * *
19856 AA-AATTATAAGTCCTTCGGGACATCTATAAGACCTTCGGGCAGGATGTTTTCATATGAATTT
196 AAGAA-GATAAGTCCTTCGGGACATCTATAAGACCTTCGAGCAAGATGTTTTCACATGAATTT
* * * * *
19918 GAAAAATGAGAAAGTGATTTCCAAAGTTTCCCATTTAGTATTTTCAGAAAATGAAATTTTT-ATA
1 AAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATGTTCAGAAAATGAAATTTTTGA-A
* * *
19982 AAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTAGTAAGTCTTTC
65 AAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTAGTAAGTCCTTC
20047 G
130 G
20048 GTGTCACACC
Statistics
Matches: 343, Mismatches: 42, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
256 1 0.00
257 118 0.34
258 182 0.53
259 42 0.12
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (257 bp):
AAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATGTTCAGAAAATGAAATTTTTGAAA
AGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTAGTAAGTCCTTCG
AGCCATCAGTAAACCTTTAGAAAATGATGCTTAAATCCTTCGGGTAATCTGTAAGTCTTTCGAGC
AAGAAGATAAGTCCTTCGGGACATCTATAAGACCTTCGAGCAAGATGTTTTCACATGAATTT
Found at i:21423 original size:21 final size:21
Alignment explanation
Indices: 21398--21468 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
21388 GGCCATCAGC
21398 AAGTCTTTCGAGCATGATGAT
1 AAGTCTTTCGAGCATGATGAT
* *
21419 TAGTCATTC-AGTCAT-ATG-T
1 AAGTCTTTCGAG-CATGATGAT
21438 AAGTCTTTCGAGC-TAGATGAT
1 AAGTCTTTCGAGCAT-GATGAT
*
21459 AAGTCCTTCG
1 AAGTCTTTCG
21469 GGGCATCCGT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
18 1 0.03
19 9 0.22
20 10 0.25
21 20 0.50
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (21 bp):
AAGTCTTTCGAGCATGATGAT
Found at i:24385 original size:20 final size:20
Alignment explanation
Indices: 24362--24427 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
24352 TATAAACTAG
* *
24362 ATATAGAAACTATATAGTGT
1 ATATATAAACTATATAGTAT
* *
24382 ATATATAAAGTATATACAATAT
1 ATATATAAACTATAT--AGTAT
*
24404 ATATATAAACTATATAGTTT
1 ATATATAAACTATATAGTAT
24424 ATAT
1 ATAT
24428 TTATATTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 20 0.54
22 17 0.46
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (20 bp):
ATATATAAACTATATAGTAT
Found at i:24387 original size:22 final size:21
Alignment explanation
Indices: 24362--24427 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 21
24352 TATAAACTAG
*
24362 ATATAGAAACTATATAGTGTAT
1 ATATA-AAACTATATAGTATAT
* **
24384 ATAT-AAAGTATATACAATAT
1 ATATAAAACTATATAGTATAT
*
24404 ATATATAAACTATATAGTTTAT
1 ATATA-AAACTATATAGTATAT
24426 AT
1 AT
24428 TTATATTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
20 16 0.47
22 18 0.53
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (21 bp):
ATATAAAACTATATAGTATAT
Found at i:24396 original size:42 final size:42
Alignment explanation
Indices: 24340--24452 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
24330 AACAATTATA
*
24340 ATATATATATTATATAAACTAGATATAGAAACTATATAGTGT
1 ATATATATATTATATAAACTATATATAGAAACTATATAGTGT
* * * *
24382 ATATATAAAGTATATACAA-TATATATATAAACTATATAGTTT
1 ATATATATATTATATA-AACTATATATAGAAACTATATAGTGT
*
24424 ATATTTATATTATTATAAACTATATATAG
1 ATATATATATTA-TATAAACTATATATAG
24453 TATAAATAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 45 0.76
43 14 0.24
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (42 bp):
ATATATATATTATATAAACTATATATAGAAACTATATAGTGT
Found at i:24443 original size:30 final size:30
Alignment explanation
Indices: 24407--24721 Score: 86
Period size: 30 Copynumber: 10.4 Consensus size: 30
24397 ACAATATATA
24407 TATAAACTATATAGTTTATATTTATATTAT
1 TATAAACTATATAGTTTATATTTATATTAT
* ** * *
24437 TATAAACTATATA-TAGTATAAATAAACTA-
1 TATAAACTATATAGT-TTATATTTATATTAT
* * * * * *
24466 TATTAA-TATAAACTATATAATT-TATTAA
1 TATAAACTATATAGTTTATATTTATATTAT
** *
24494 TATAAGTTATATAGTTTATATATGA-ATTAT
1 TATAAACTATATAGTTTATAT-TTATATTAT
* ** *
24524 ATATAAACTATAAAACTTATATTTATA-CAT
1 -TATAAACTATATAGTTTATATTTATATTAT
* ** * *
24554 TATGAA-TA-ATTA-TAAATAATATATACTAT
1 TATAAACTATA-TAGTTTAT-ATTTATATTAT
* *
24583 GTATAAATTATATAG-TT-TATTAATA-TA-
1 -TATAAACTATATAGTTTATATTTATATTAT
*
24610 TATAAACTATATAGTTTATAAATTATA-TAT
1 TATAAACTATATAGTTTAT-ATTTATATTAT
* *
24640 ATATATA-TATATGGTTTAGGGTTAATTTATGGAATTAT
1 -TATAAACTATATAGTTTA----T-ATTTAT---ATTAT
* *
24678 ATATAAACTATATAGTTTATATATAATAGTA-
1 -TATAAACTATATAGTTTATAT-TTATATTAT
24709 TATAAACTATATA
1 TATAAACTATATA
24722 TAAACAATCT
Statistics
Matches: 207, Mismatches: 48, Indels: 60
0.66 0.15 0.19
Matches are distributed among these distances:
26 13 0.06
27 8 0.04
28 27 0.13
29 36 0.17
30 60 0.29
31 26 0.13
32 4 0.02
34 9 0.04
35 4 0.02
37 1 0.00
38 9 0.04
39 10 0.05
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (30 bp):
TATAAACTATATAGTTTATATTTATATTAT
Found at i:24463 original size:20 final size:19
Alignment explanation
Indices: 24438--24477 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
24428 TTATATTATT
*
24438 ATAAACTATATATAGTATAA
1 ATAAACTATAT-TAATATAA
24458 ATAAACTATATTAATATAA
1 ATAAACTATATTAATATAA
24477 A
1 A
24478 CTATATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (19 bp):
ATAAACTATATTAATATAA
Found at i:24478 original size:15 final size:15
Alignment explanation
Indices: 24429--24483 Score: 56
Period size: 15 Copynumber: 3.3 Consensus size: 15
24419 AGTTTATATT
*
24429 TATATTATTATAAAC
1 TATATTAATATAAAC
24444 TATATATAGTATAAATAAAC
1 TATAT-TA--AT--ATAAAC
24464 TATATTAATATAAAC
1 TATATTAATATAAAC
24479 TATAT
1 TATAT
24484 AATTTATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
15 16 0.47
16 2 0.06
17 2 0.06
18 1 0.03
19 2 0.06
20 11 0.32
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (15 bp):
TATATTAATATAAAC
Found at i:24494 original size:22 final size:22
Alignment explanation
Indices: 24466--24512 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
24456 AAATAAACTA
24466 TATTAATATAAACTATATAATT
1 TATTAATATAAACTATATAATT
** *
24488 TATTAATATAAGTTATATAGTT
1 TATTAATATAAACTATATAATT
24510 TAT
1 TAT
24513 ATATGAATTA
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:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
TATTAATATAAACTATATAATT
Found at i:24613 original size:26 final size:27
Alignment explanation
Indices: 24584--24650 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 27
24574 ATATACTATG
*
24584 TATAAATTATATAGTTTATTAA-TATA
1 TATAAATTATATAGTTTATAAATTATA
*
24610 TATAAACTATATAGTTTATAAATTATA
1 TATAAATTATATAGTTTATAAATTATA
*
24637 TATATATATATATA
1 TATAAAT-TATATA
24651 TGGTTTAGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 20 0.57
27 9 0.26
28 6 0.17
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (27 bp):
TATAAATTATATAGTTTATAAATTATA
Found at i:24640 original size:20 final size:19
Alignment explanation
Indices: 24541--24648 Score: 69
Period size: 20 Copynumber: 5.5 Consensus size: 19
24531 CTATAAAACT
*
24541 TATATTTATACATTATGA-A
1 TATATTTATAAATTAT-ATA
*
24560 TA-A-TTATAAATAATATA
1 TATATTTATAAATTATATA
*
24577 TACTATGTATAAATTATATA
1 TA-TATTTATAAATTATATA
* * * *
24597 GTTTATTAATATATATAAACTA
1 -TATATTTATAAAT-TATA-TA
24619 TATAGTTTATAAATTATATA
1 TATA-TTTATAAATTATATA
*
24639 TATATATATA
1 TATATTTATA
24649 TATGGTTTAG
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
16 1 0.01
17 12 0.18
18 1 0.01
19 8 0.12
20 26 0.39
21 10 0.15
22 9 0.13
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (19 bp):
TATATTTATAAATTATATA
Found at i:24803 original size:22 final size:22
Alignment explanation
Indices: 24778--24959 Score: 90
Period size: 22 Copynumber: 8.3 Consensus size: 22
24768 TATAGTTTAC
* *
24778 ATATGAACTATATGTATAAACT
1 ATATAAACTATATATATAAACT
24800 ATATAAACTATATATATAAACT
1 ATATAAACTATATATATAAACT
* *
24822 ATGTAAACTATATAATATATA-T
1 ATATAAACTATAT-ATATAAACT
* * * * * *
24844 AGTTTAGTAGTTTACATATGAACT
1 A-TATA-AACTATATATATAAACT
* * * *
24868 ATAT--AGTTTACATATGAACT
1 ATATAAACTATATATATAAACT
* *
24888 ATATATA-TAAACTATATAAACT
1 ATATAAACTATA-TATATAAACT
* *
24910 ATATATACTATATAGT-T-TAC-
1 ATATAAACTATATA-TATAAACT
24930 ATATAAACTATATGTATATAAACT
1 ATATAAACTATA--TATATAAACT
24954 ATATAA
1 ATATAA
24960 TATAGTTGAT
Statistics
Matches: 126, Mismatches: 20, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
20 31 0.25
21 5 0.04
22 56 0.44
23 22 0.17
24 12 0.10
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (22 bp):
ATATAAACTATATATATAAACT
Found at i:24876 original size:20 final size:20
Alignment explanation
Indices: 24851--24892 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
24841 TATAGTTTAG
24851 TAGTTTACATATGAACTATA
1 TAGTTTACATATGAACTATA
24871 TAGTTTACATATGAACTATA
1 TAGTTTACATATGAACTATA
24891 TA
1 TA
24893 TATAAACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
TAGTTTACATATGAACTATA
Found at i:24923 original size:20 final size:20
Alignment explanation
Indices: 24889--24942 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 20
24879 ATATGAACTA
*
24889 TATATATAAACTATATAAAC
1 TATATATAAACTATATAGAC
**
24909 TATATAT--ACTATATAGTT
1 TATATATAAACTATATAGAC
*
24927 TACATATAAACTATAT
1 TATATATAAACTATAT
24943 GTATATAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 14 0.50
20 14 0.50
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (20 bp):
TATATATAAACTATATAGAC
Found at i:24942 original size:9 final size:9
Alignment explanation
Indices: 24891--24923 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
24881 ATGAACTATA
24891 TATATAAAC
1 TATATAAAC
24900 TATATAAAC
1 TATATAAAC
*
24909 TATATATAC
1 TATATAAAC
24918 TATATA
1 TATATA
24924 GTTTACATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (9 bp):
TATATAAAC
Found at i:25015 original size:130 final size:135
Alignment explanation
Indices: 24875--25131 Score: 353
Period size: 137 Copynumber: 1.9 Consensus size: 135
24865 ACTATATAGT
* * *
24875 TTACATATGAACTATATATATAAACTATATAAACTA-TATATACTATATAGTTTACATATAAACT
1 TTACACATGAACTATATATATAAACTATATAAACTATTATATACTATATACTATACATATAAACT
24939 ATA-TGTATA-TA-A-ACTATATAATATAGTTGATATTTATATACTATATAATATATATAGCTTA
66 ATAGTGTATACTATATACTATATAATATAGTTGATATTTATATACTATATAATATATATAGCTTA
25000 CATTA
131 CATTA
*** * *
25005 TTACACATGAACTATATATATAAACTATATAGTTTATTTATATAGTATATACTATATATATAAAC
1 TTACACATGAACTATATATATAAACTATATAAACTA-TTATATACTATATACTATACATATAAAC
* * * *
25070 TATAGTTTATACTTATATATTATATACTATAGTTGATATTTATATACTATATATTATATATA
65 TATAGTGTATAC-TATATACTATATAATATAGTTGATATTTATATACTATATAATATATATA
25132 TAAAATATAT
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
130 32 0.30
132 27 0.25
133 5 0.05
135 2 0.02
136 1 0.01
137 41 0.38
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (135 bp):
TTACACATGAACTATATATATAAACTATATAAACTATTATATACTATATACTATACATATAAACT
ATAGTGTATACTATATACTATATAATATAGTTGATATTTATATACTATATAATATATATAGCTTA
CATTA
Found at i:25024 original size:2 final size:2
Alignment explanation
Indices: 25017--25156 Score: 67
Period size: 2 Copynumber: 67.0 Consensus size: 2
25007 ACACATGAAC
* * *
25017 TA TA TA TA TA AA CTA TA TA GTT TA TT TA TA TA GTA TA TA CTA TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA
* *
25061 TA TA TA AA CTA TA GTT TA TA CT- TA TA TA T- TA TA TA CTA TA GT-
1 TA TA TA TA -TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA -TA
* *
25103 TGA TA TT TA TA TA CTA TA TA T- TA TA TA TA TA -A AA TA TA TA TA
1 T-A TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25145 CTA TA TA -A TA TA
1 -TA TA TA TA TA TA
25157 GTTTACATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
1 6 0.06
2 84 0.79
3 17 0.16
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:25032 original size:13 final size:14
Alignment explanation
Indices: 25014--25073 Score: 63
Period size: 13 Copynumber: 4.5 Consensus size: 14
25004 ATTACACATG
25014 AACTATATA-TATA
1 AACTATATAGTATA
*
25027 AACTATATAGT-TT
1 AACTATATAGTATA
**
25040 ATTTATATAGTATA
1 AACTATATAGTATA
*
25054 TACTATATA-TATA
1 AACTATATAGTATA
25067 AACTATA
1 AACTATA
25074 GTTTATACTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
13 29 0.78
14 8 0.22
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (14 bp):
AACTATATAGTATA
Found at i:25066 original size:20 final size:20
Alignment explanation
Indices: 25015--25156 Score: 93
Period size: 20 Copynumber: 7.3 Consensus size: 20
25005 TTACACATGA
*
25015 ACTATATATATAAACTATAT
1 ACTATATATATATACTATAT
* * * *
25035 AGTTTATTTATATAGTATAT
1 ACTATATATATATACTATAT
*
25055 ACTATATATATAAACTATAGT
1 ACTATATATATATACTATA-T
* *
25076 -TTATACT-TATATATTATAT
1 ACTATA-TATATATACTATAT
*
25095 ACTATAGT-TGATAT-TTATAT
1 ACTATA-TAT-ATATACTATAT
25115 ACTATATAT-TATA-TATAT
1 ACTATATATATATACTATAT
*
25133 A--AAATATATATACTATAT
1 ACTATATATATATACTATAT
*
25151 AATATA
1 ACTATA
25157 GTTTACATAT
Statistics
Matches: 95, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
16 5 0.05
17 4 0.04
18 15 0.16
19 2 0.02
20 63 0.66
21 6 0.06
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (20 bp):
ACTATATATATATACTATAT
Found at i:25068 original size:40 final size:39
Alignment explanation
Indices: 25015--25100 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 39
25005 TTACACATGA
25015 ACTATATATATAAACTATATAGTTTAT-TTATATAGTATAT
1 ACTATATATATAAAC--TATAGTTTATATTATATAGTATAT
*
25055 ACTATATATATAAACTATAGTTTATACTTATATATTATAT
1 ACTATATATATAAACTATAGTTTATA-TTATATAGTATAT
25095 ACTATA
1 ACTATA
25101 GTTGATATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
38 10 0.23
40 33 0.77
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (39 bp):
ACTATATATATAAACTATAGTTTATATTATATAGTATAT
Found at i:25101 original size:27 final size:26
Alignment explanation
Indices: 25045--25127 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 26
25035 AGTTTATTTA
* *
25045 TATAGTATATAC-TATATATATAAAC
1 TATAGTTTATACTTATATATATATAC
25070 TATAGTTTATACTTATATATTATATAC
1 TATAGTTTATACTTATATA-TATATAC
* * *
25097 TATAGTTGATATTTATATACTATATAT
1 TATAGTTTATACTTATATA-TATATAC
25124 TATA
1 TATA
25128 TATATAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
25 11 0.22
26 6 0.12
27 33 0.66
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (26 bp):
TATAGTTTATACTTATATATATATAC
Found at i:25166 original size:27 final size:27
Alignment explanation
Indices: 25050--25188 Score: 94
Period size: 27 Copynumber: 5.2 Consensus size: 27
25040 ATTTATATAG
25050 TATATACTATATA-TATA-AACTATAGTT
1 TATATA-TATATACTATATAA-TATAGTT
* *
25077 TATACT-TATATATTATATACTATAGTT
1 TATA-TATATATACTATATAATATAGTT
* *
25104 GATATTTATATACTATATATTATATA-TAT
1 TATATATATATACTATATA--ATATAGT-T
* *
25133 AAAATATATATACTATATAATATAGTT
1 TATATATATATACTATATAATATAGTT
* *
25160 TACATAT-GA-ACTATAT-ATATAGTT
1 TATATATATATACTATATAATATAGTT
*
25184 GATAT
1 TATAT
25189 TTTTATAATT
Statistics
Matches: 92, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
24 11 0.12
25 7 0.08
26 8 0.09
27 41 0.45
28 4 0.04
29 21 0.23
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (27 bp):
TATATATATATACTATATAATATAGTT
Found at i:25386 original size:18 final size:16
Alignment explanation
Indices: 25330--25386 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 16
25320 ACATATGAAC
*
25330 TATATATAAAAACTATA
1 TATATATAAATA-TATA
*
25347 TATATATAAAGTATATGG
1 TATATATAAA-TATAT-A
25365 TATATATAAACTATATA
1 TATATATAAA-TATATA
25382 T-TATA
1 TATATA
25387 CAGTTCATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.12
17 14 0.41
18 16 0.47
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (16 bp):
TATATATAAATATATA
Found at i:25401 original size:33 final size:34
Alignment explanation
Indices: 25332--25438 Score: 116
Period size: 33 Copynumber: 3.2 Consensus size: 34
25322 ATATGAACTA
* * *
25332 TATATAAAAACTATATATATATAAAG-T-ATATGG
1 TATATATAAACTATATAT-TATACAGTTCATATAG
25365 TATATATAAACTATATATTATACAGTTCAT-TAG
1 TATATATAAACTATATATTATACAGTTCATATAG
*
25398 TATATATAAACTAGATATTATATC-GTTCATATA-
1 TATATATAAACTATATATTATA-CAGTTCATATAG
25431 TATTATAT
1 TA-TATAT
25439 CGTTCATTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
32 6 0.09
33 49 0.75
34 10 0.15
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.42
Consensus pattern (34 bp):
TATATATAAACTATATATTATACAGTTCATATAG
Found at i:25420 original size:51 final size:51
Alignment explanation
Indices: 25347--25482 Score: 168
Period size: 51 Copynumber: 2.7 Consensus size: 51
25337 AAAAACTATA
* *
25347 TATATATAAAGTATATGGTATATATAAACTATATATTATA-CAGTTCATTAG
1 TATATATAAACTATATAGTATATATAAACTATATATTATATC-GTTCATTAG
* * * **
25398 TATATATAAACTAGATATTATATCGTTCA-TATATATTATATCGTTCATTAG
1 TATATATAAACTATATAGTATAT-ATAAACTATATATTATATCGTTCATTAG
*
25449 TATATATAAACGATATAGTATATATAAACTATAT
1 TATATATAAACTATATAGTATATATAAACTATAT
25483 GATATATAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
50 2 0.03
51 64 0.93
52 3 0.04
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (51 bp):
TATATATAAACTATATAGTATATATAAACTATATATTATATCGTTCATTAG
Found at i:25465 original size:33 final size:32
Alignment explanation
Indices: 25427--25536 Score: 105
Period size: 33 Copynumber: 3.3 Consensus size: 32
25417 ATATCGTTCA
25427 TATATATTATATCGTTCATTAGTATATATAAAC
1 TATATATTATAT-GTTCATTAGTATATATAAAC
* * * **
25460 GATATAGTATATATAAACTATA-TGATATATAAAAC
1 TATATATTATATGTTCA-T-TAGT-ATATAT-AAAC
*
25495 TATATATTATATAGTTCATTAGTATATATAACC
1 TATATATTATAT-GTTCATTAGTATATATAAAC
25528 TATATATTA
1 TATATATTA
25537 ATTTCTTAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
32 2 0.03
33 24 0.40
34 16 0.27
35 16 0.27
36 2 0.03
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (32 bp):
TATATATTATATGTTCATTAGTATATATAAAC
Found at i:25469 original size:18 final size:18
Alignment explanation
Indices: 25446--25507 Score: 83
Period size: 18 Copynumber: 3.5 Consensus size: 18
25436 TATCGTTCAT
*
25446 TAGTATATATAAACGATA
1 TAGTATATATAAACTATA
25464 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
25482 T-G-ATATATAAAACTATA
1 TAGTATATAT-AAACTATA
*
25499 TATTATATA
1 TAGTATATA
25508 GTTCATTAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.15
17 10 0.26
18 18 0.46
19 5 0.13
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:25481 original size:16 final size:15
Alignment explanation
Indices: 25449--25507 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 15
25439 CGTTCATTAG
25449 TATATATAAACGATATA
1 TATATATAAAC--TATA
25466 GTATATATAAACTATA
1 -TATATATAAACTATA
25482 TGATATATAAAACTATA
1 T-ATATAT-AAACTATA
25499 TATTATATA
1 TA-TATATA
25508 GTTCATTAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.03
16 12 0.32
17 14 0.37
18 11 0.29
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (15 bp):
TATATATAAACTATA
Found at i:25747 original size:33 final size:33
Alignment explanation
Indices: 25710--25863 Score: 123
Period size: 33 Copynumber: 5.0 Consensus size: 33
25700 CATTAAATAA
* * *
25710 TATATAGTTCATTAGTGTATATGAACTATATAT
1 TATATAGTTCATTAGTATATATAAACTATATAG
25743 TATATAGTTCATTAGTATATATAAACTATATAG
1 TATATAGTTCATTAGTATATATAAACTATATAG
* * * *
25776 TATATA--T-A-AAATATACGATATA-TATATA-
1 TATATAGTTCATTAGTATA-TATAAACTATATAG
* *
25804 TATATA--T-A-TA-TATATAAAAACTATATAT
1 TATATAGTTCATTAGTATATATAAACTATATAG
* *
25832 TATAGAGTTCATTAGTATATATAACCTATATA
1 TATATAGTTCATTAGTATATATAAACTATATA
25864 TTAATTTGTT
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
26 3 0.03
27 10 0.10
28 14 0.14
29 11 0.11
30 6 0.06
31 2 0.02
32 2 0.02
33 51 0.52
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (33 bp):
TATATAGTTCATTAGTATATATAAACTATATAG
Found at i:25818 original size:18 final size:18
Alignment explanation
Indices: 25758--25835 Score: 79
Period size: 18 Copynumber: 4.2 Consensus size: 18
25748 AGTTCATTAG
25758 TATATATAAACTATATAGTA
1 TATATATAAA-TATATA-TA
*
25778 TATATA-AAATATACGATA
1 TATATATAAATATA-TATA
*
25796 TATATATATATATATATA
1 TATATATAAATATATATA
*
25814 TATATAAAAACTATATAT-
1 TATATATAAA-TATATATA
25832 TATA
1 TATA
25836 GAGTTCATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 27 0.54
19 17 0.34
20 6 0.12
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (18 bp):
TATATATAAATATATATA
Found at i:25831 original size:2 final size:2
Alignment explanation
Indices: 25758--25819 Score: 63
Period size: 2 Copynumber: 30.0 Consensus size: 2
25748 AGTTCATTAG
* * *
25758 TA TA TA TA AA CTA TA TA GTA TA TA TA -A AA TA TA CGA TA TA TA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA
25800 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
25820 AAAACTATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
1 1 0.02
2 46 0.90
3 4 0.08
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (2 bp):
TA
Found at i:25995 original size:59 final size:61
Alignment explanation
Indices: 25923--26057 Score: 202
Period size: 59 Copynumber: 2.2 Consensus size: 61
25913 TATAAGGATC
*
25923 AAATTGAACAAATTTTAAATATGAAGCTTAAATTAATAAATTACAACATTAA-ATTGGACT
1 AAATTGAACAAATTTTAAATATGAAGCTTAAAATAATAAATTACAACATTAATATTGGACT
** * * *
25983 AAATTG-ACAAATTTTAAATATGAAGCTTAAAATAATGGATTTCATCATTAATATTTGACT
1 AAATTGAACAAATTTTAAATATGAAGCTTAAAATAATAAATTACAACATTAATATTGGACT
26043 AAATTGAACAAATTT
1 AAATTGAACAAATTT
26058 AAAACTAGGA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
59 40 0.60
60 19 0.28
61 8 0.12
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (61 bp):
AAATTGAACAAATTTTAAATATGAAGCTTAAAATAATAAATTACAACATTAATATTGGACT
Found at i:26716 original size:6 final size:6
Alignment explanation
Indices: 26707--26807 Score: 62
Period size: 6 Copynumber: 16.7 Consensus size: 6
26697 CCCTAACTTG
* * * ** * *
26707 AACCCA AACCTA AACTCG AACCCA AACTTGA AA-CCA AACACA AGCCCA
1 AACCCA AACCCA AACCCA AACCCA AAC-CCA AACCCA AACCCA AACCCA
* * * *
26755 AACCTGA AA-CCA AACCCA AACCCAA AACCCA AACCTA AATCCA AATCCA
1 AACC-CA AACCCA AACCCA AACCC-A AACCCA AACCCA AACCCA AACCCA
26804 AACC
1 AACC
26808 TGAACCTAAA
Statistics
Matches: 70, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
5 6 0.09
6 52 0.74
7 12 0.17
ACGTcount: A:0.50, C:0.39, G:0.04, T:0.08
Consensus pattern (6 bp):
AACCCA
Found at i:26754 original size:24 final size:24
Alignment explanation
Indices: 26725--26811 Score: 88
Period size: 24 Copynumber: 3.6 Consensus size: 24
26715 CCTAAACTCG
*
26725 AACCCAAACTTGAAACCAAACACA
1 AACCCAAACCTGAAACCAAACACA
* *
26749 AGCCCAAACCTGAAACCAAACCCA
1 AACCCAAACCTGAAACCAAACACA
*
26773 AACCCAAAACC-CAAACCTAAATC-CA
1 AACCC-AAACCTGAAACC-AAA-CACA
*
26798 AATCCAAACCTGAA
1 AACCCAAACCTGAA
26812 CCTAAACCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
24 35 0.67
25 16 0.31
26 1 0.02
ACGTcount: A:0.51, C:0.37, G:0.05, T:0.08
Consensus pattern (24 bp):
AACCCAAACCTGAAACCAAACACA
Found at i:29544 original size:31 final size:31
Alignment explanation
Indices: 29500--29568 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
29490 AGATGTTTTC
* *
29500 TCTGATTTCTATTCTGATCTCATCTTTGATT
1 TCTGATATATATTCTGATCTCATCTTTGATT
*
29531 TCTGATATATATTCTGATCTCTTCTTTGATT
1 TCTGATATATATTCTGATCTCATCTTTGATT
*
29562 TATGATA
1 TCTGATA
29569 CATTTGTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.54
Consensus pattern (31 bp):
TCTGATATATATTCTGATCTCATCTTTGATT
Found at i:31799 original size:13 final size:13
Alignment explanation
Indices: 31758--31800 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
31748 TCTAGTCTAG
31758 TCACTGAGTCAAC
1 TCACTGAGTCAAC
* **
31771 TTGACTGAGTTTAC
1 -TCACTGAGTCAAC
31785 TCACTGAGTCAAC
1 TCACTGAGTCAAC
31798 TCA
1 TCA
31801 TTGACTTTTA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (13 bp):
TCACTGAGTCAAC
Found at i:34623 original size:53 final size:53
Alignment explanation
Indices: 34549--34664 Score: 126
Period size: 53 Copynumber: 2.2 Consensus size: 53
34539 ATTGTCTCTA
* * * *
34549 TTCATCCTCTTTAATCCCAAACCCT-AACCTAGACTCTTCATCTTCTATCTATG
1 TTCATCTTCTCTAACCCCAAA-CCTAAACCGAGACTCTTCATCTTCTATCTATG
* * * * * *
34602 TTCATCTTCTCTAACCCCAAACCTAAATCGAGCCTCTTTATCTTTTTTCTCTG
1 TTCATCTTCTCTAACCCCAAACCTAAACCGAGACTCTTCATCTTCTATCTATG
34655 TTCATCTTCT
1 TTCATCTTCT
34665 AACCCTAACT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
52 3 0.06
53 49 0.94
ACGTcount: A:0.22, C:0.33, G:0.04, T:0.41
Consensus pattern (53 bp):
TTCATCTTCTCTAACCCCAAACCTAAACCGAGACTCTTCATCTTCTATCTATG
Found at i:37463 original size:17 final size:17
Alignment explanation
Indices: 37411--37455 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
37401 AATGTTGAAA
37411 TGTTGGATGTTGTTGCC
1 TGTTGGATGTTGTTGCC
37428 TGTTGGATGTTGTTGCC
1 TGTTGGATGTTGTTGCC
*
37445 TGTTGGTTGTT
1 TGTTGGATGTT
37456 ATTTCCTGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.04, C:0.09, G:0.36, T:0.51
Consensus pattern (17 bp):
TGTTGGATGTTGTTGCC
Found at i:44476 original size:2 final size:2
Alignment explanation
Indices: 44469--44494 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44459 CATTTCTAAC
44469 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
44495 TAAATTTTAT
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):
AT
Found at i:46542 original size:25 final size:25
Alignment explanation
Indices: 46508--46557 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
46498 GGTAGATATA
46508 CATTAGGAGATTTATTTTTAAATTT
1 CATTAGGAGATTTATTTTTAAATTT
46533 CATTAGGAGATTTATTTTTAAATTT
1 CATTAGGAGATTTATTTTTAAATTT
46558 TAAAGTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.52
Consensus pattern (25 bp):
CATTAGGAGATTTATTTTTAAATTT
Found at i:53607 original size:24 final size:25
Alignment explanation
Indices: 53555--53607 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
53545 AGTAATTTCT
* * *
53555 TTTATTCTCTTTTCAAGTTTTCTTT
1 TTTATTCTATTTTCAAGTTTTATTA
*
53580 TTTATTTTATTTT-AAGTTTTATTA
1 TTTATTCTATTTTCAAGTTTTATTA
53604 TTTA
1 TTTA
53608 AAATGCTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTATTCTATTTTCAAGTTTTATTA
Found at i:58191 original size:13 final size:13
Alignment explanation
Indices: 58175--58224 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
58165 TTTATTACGT
58175 GCATTTATGACAC
1 GCATTTATGACAC
*
58188 GCATTTATGACTC
1 GCATTTATGACAC
* * *
58201 GAATTTATGGCGC
1 GCATTTATGACAC
*
58214 ACATTTATGAC
1 GCATTTATGAC
58225 TTACATTGCG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (13 bp):
GCATTTATGACAC
Done.