Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01006372.1 Kokia drynarioides strain JFW-HI SEQ_120948, 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: 91575
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:7996 original size:47 final size:46
Alignment explanation
Indices: 7945--8034 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 46
7935 ATTAGTTGTG
7945 ATTTTTGA-TTTAGGGTTTATTTGATCTTGATTTGGATTTTGATTTTC
1 ATTTTT-ACTTTAGGGTTTATTTGATCTTGA-TTGGATTTTGATTTTC
* *
7992 ATTTTTACTTTAGGGTTTTTTTGATTTTGATTGGATTTTGATT
1 ATTTTTACTTTAGGGTTTATTTGATCTTGATTGGATTTTGATT
8035 GTTACTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
46 14 0.35
47 26 0.65
ACGTcount: A:0.17, C:0.03, G:0.19, T:0.61
Consensus pattern (46 bp):
ATTTTTACTTTAGGGTTTATTTGATCTTGATTGGATTTTGATTTTC
Found at i:8225 original size:30 final size:29
Alignment explanation
Indices: 8158--8225 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 29
8148 ACTGCTAATC
*
8158 AGTGATTGTTTTGTCACTTTTCAATAAAGTT
1 AGTGACTGTTTTGTCACTTTTC-A-AAAGTT
8189 AGTGACTGTTTTGTCACATTTTC-AAAGTT
1 AGTGACTGTTTTGTCAC-TTTTCAAAAGTT
8218 GAGTGACT
1 -AGTGACT
8226 ATTGTGTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
29 6 0.18
30 7 0.21
31 16 0.47
32 5 0.15
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (29 bp):
AGTGACTGTTTTGTCACTTTTCAAAAGTT
Found at i:12069 original size:20 final size:20
Alignment explanation
Indices: 12032--12070 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12022 ACAACTTGAT
*
12032 ATAAAATTTTGATATTTTAA
1 ATAAAATTTTAATATTTTAA
* *
12052 ATAAATTTTTAATTTTTTA
1 ATAAAATTTTAATATTTTA
12071 TCTTAATCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
ATAAAATTTTAATATTTTAA
Found at i:13750 original size:28 final size:30
Alignment explanation
Indices: 13698--13766 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 30
13688 AAAAATCAAC
* **
13698 AATTTAATTCATTTTGAAAGATTGATGATTA
1 AATTTAATT-ATTTTGAAAGATTGAAGACCA
*
13729 AATTTAATT-TTTTTAAA-ATTGAAGACCA
1 AATTTAATTATTTTGAAAGATTGAAGACCA
13757 AATTTAATTA
1 AATTTAATTA
13767 AAAAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 17 0.52
29 7 0.21
31 9 0.27
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (30 bp):
AATTTAATTATTTTGAAAGATTGAAGACCA
Found at i:19613 original size:16 final size:16
Alignment explanation
Indices: 19592--19624 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19582 AGGTGTCTAT
19592 ATCAATCTTCATTGTG
1 ATCAATCTTCATTGTG
19608 ATCAATCTTCATTGTG
1 ATCAATCTTCATTGTG
19624 A
1 A
19625 GTTCATAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (16 bp):
ATCAATCTTCATTGTG
Found at i:40341 original size:14 final size:15
Alignment explanation
Indices: 40317--40345 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
40307 CAAATCTGAT
40317 GTGTATAGTTTTGGA
1 GTGTATAGTTTTGGA
40332 GTGT-TAGTTTTGGA
1 GTGTATAGTTTTGGA
40346 AATCGTAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.48
Consensus pattern (15 bp):
GTGTATAGTTTTGGA
Found at i:45335 original size:2 final size:2
Alignment explanation
Indices: 45328--45354 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45318 AAGGAGCACC
45328 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 T
45355 CAGATTAGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:53339 original size:42 final size:43
Alignment explanation
Indices: 53271--53356 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
53261 ACAAGCCGTG
* * * *
53271 TGCATAGAACTGATAAGAGATGTTACA-AAACAGAACCATAGA
1 TGCACAGAACTGATAAAAAATGTTACAGAAAAAGAACCATAGA
*
53313 TGCACAGAACTGATAAAAAAAT-TTACAGAAAAAGAATCATAGA
1 TGCACAGAACTGAT-AAAAAATGTTACAGAAAAAGAACCATAGA
53356 T
1 T
53357 AATACCTCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
42 18 0.49
43 19 0.51
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (43 bp):
TGCACAGAACTGATAAAAAATGTTACAGAAAAAGAACCATAGA
Found at i:59955 original size:27 final size:26
Alignment explanation
Indices: 59917--59968 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
59907 TGAGTTTGAC
* *
59917 TTTTTTCTAATATGTTACTTATATTA
1 TTTTTTCCAATATGGTACTTATATTA
*
59943 TTTTTGTCCAATATGGTACTTCTATT
1 TTTTT-TCCAATATGGTACTTATATT
59969 TGACAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.58
Consensus pattern (26 bp):
TTTTTTCCAATATGGTACTTATATTA
Found at i:60968 original size:24 final size:24
Alignment explanation
Indices: 60940--60993 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
60930 ATATTAAATC
**
60940 AAAAAGTAAATTAATTTATTTTGTT
1 AAAAA-TAAATTAATTTATACTGTT
* *
60965 AAAAATATATTATTTTATACTGTT
1 AAAAATAAATTAATTTATACTGTT
60989 AAAAA
1 AAAAA
60994 CTAATATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (24 bp):
AAAAATAAATTAATTTATACTGTT
Found at i:61946 original size:25 final size:25
Alignment explanation
Indices: 61907--61963 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
61897 ATTAAATTCG
61907 ATTTAAATAATAAAAAATATTTTATT
1 ATTT-AATAATAAAAAATATTTTATT
* *
61933 ATTTAATTATAAAATATATTTTATT
1 ATTTAATAATAAAAAATATTTTATT
*
61958 TTTTAA
1 ATTTAA
61964 CATTTTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTTAATAATAAAAAATATTTTATT
Found at i:62656 original size:31 final size:30
Alignment explanation
Indices: 62621--62679 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
62611 TAAGTACTTA
*
62621 AACTTGACTTT-TTGATTCAAATTGATTCATG
1 AACTTGACTTTATAG-TTCAAATTG-TTCATG
62652 AACTTGACTTTATAGTTCAAATTGTTCA
1 AACTTGACTTTATAGTTCAAATTGTTCA
62680 AATAGCTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 20 0.77
32 2 0.08
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.44
Consensus pattern (30 bp):
AACTTGACTTTATAGTTCAAATTGTTCATG
Found at i:67440 original size:24 final size:24
Alignment explanation
Indices: 67413--67463 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
67403 AGAAATAATT
* *
67413 TTTTAATTAAACTTTGTTTATTTG
1 TTTTAATTAAACTCTATTTATTTG
67437 TTTTAATTAAACTCTATTTATTTG
1 TTTTAATTAAACTCTATTTATTTG
67461 TTT
1 TTT
67464 GAGTCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (24 bp):
TTTTAATTAAACTCTATTTATTTG
Found at i:67472 original size:24 final size:24
Alignment explanation
Indices: 67429--67475 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
67419 TTAAACTTTG
* *
67429 TTTATTTGTTTTAATTAAACTCTA
1 TTTATTTGTTTGAATCAAACTCTA
*
67453 TTTATTTGTTTGAGTCAAACTCT
1 TTTATTTGTTTGAATCAAACTCT
67476 TATTACTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.55
Consensus pattern (24 bp):
TTTATTTGTTTGAATCAAACTCTA
Found at i:69372 original size:24 final size:24
Alignment explanation
Indices: 69343--69393 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
69333 AGAAATAATC
*
69343 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
69367 TTTCAATTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
69391 TTT
1 TTT
69394 GAGTCAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTATTTG
Found at i:74290 original size:16 final size:16
Alignment explanation
Indices: 74269--74304 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
74259 TCCTATACAT
74269 TAAAATCTTTTTCAAG
1 TAAAATCTTTTTCAAG
74285 TAAAATCTTTTTCAAG
1 TAAAATCTTTTTCAAG
74301 TAAA
1 TAAA
74305 CATAGATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (16 bp):
TAAAATCTTTTTCAAG
Found at i:74681 original size:12 final size:12
Alignment explanation
Indices: 74664--74699 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
74654 GAGGAAGGGA
74664 TGGTGGTGGCCG
1 TGGTGGTGGCCG
74676 TGGTGGTAGG-CG
1 TGGTGGT-GGCCG
74688 TGGTGGTGGCCG
1 TGGTGGTGGCCG
74700 GTTTGGTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 18 0.82
13 2 0.09
ACGTcount: A:0.03, C:0.14, G:0.58, T:0.25
Consensus pattern (12 bp):
TGGTGGTGGCCG
Found at i:76916 original size:6 final size:6
Alignment explanation
Indices: 76905--76932 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
76895 ATTTCAAAGG
76905 GAAGAT GAAGAT GAAGAT GAAGAT GAAG
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAG
76933 TAATGGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.36, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:78088 original size:15 final size:16
Alignment explanation
Indices: 78068--78097 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
78058 AATTAAAGTG
78068 TAATTATA-ATTTTAA
1 TAATTATATATTTTAA
78083 TAATTATATATTTTA
1 TAATTATATATTTTA
78098 TATTAACTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TAATTATATATTTTAA
Found at i:79636 original size:81 final size:81
Alignment explanation
Indices: 79496--79651 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
79486 ATAAACGAGC
* * * * * *
79496 AAATTGATGAAATTTTTAATAGAATTAATTTGTTTTTTGATCTAACGTATAATAGTTAATAAAAT
1 AAATTAATGAAATTTTTAATAGAACTAATTTGTTTTTTCATATAACATATAAGAGTTAATAAAAT
79561 CAATTTTTAATAATAT
66 CAATTTTTAATAATAT
* *
79577 AAATTAATGAATTTTTTTATAGAACTAATTTGTTTTTTCATATAACATATAAG-GATTAATAAAA
1 AAATTAATGAAATTTTTAATAGAACTAATTTGTTTTTTCATATAACATATAAGAG-TTAATAAAA
79641 TCAATTTTTAA
65 TCAATTTTTAA
79652 CTGTAAAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (81 bp):
AAATTAATGAAATTTTTAATAGAACTAATTTGTTTTTTCATATAACATATAAGAGTTAATAAAAT
CAATTTTTAATAATAT
Found at i:79687 original size:81 final size:81
Alignment explanation
Indices: 79496--79688 Score: 223
Period size: 81 Copynumber: 2.4 Consensus size: 81
79486 ATAAACGAGC
* * * * *
79496 AAATTGATGAAATTTTTAATAGAATTAATTTGTTTTTTGATCTAACGTATAATAGTTAATAAAAT
1 AAATTGATGGAATTTTTAATAGAATTAATTTGTTTTTTCATATAACATATAAGAGTTAATAAAAT
*
79561 CAATTTTTAATAATAT
66 CAATTTTTAATAATAA
* * *
79577 AAATTAAT-GAATTTTTTTATAGAACTAATTTGTTTTTTCATATAACATATAAG-GATTAATAAA
1 AAATTGATGGAA-TTTTTAATAGAATTAATTTGTTTTTTCATATAACATATAAGAG-TTAATAAA
*
79640 ATCAATTTTTAACT-GTAA
64 ATCAATTTTTAA-TAATAA
*
79658 AAATTGATGGAATTCTTAATA-AATTTAATTT
1 AAATTGATGGAATTTTTAATAGAA-TTAATTT
79689 ACTTCTCGAT
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
80 5 0.05
81 84 0.90
82 4 0.04
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (81 bp):
AAATTGATGGAATTTTTAATAGAATTAATTTGTTTTTTCATATAACATATAAGAGTTAATAAAAT
CAATTTTTAATAATAA
Found at i:80909 original size:20 final size:20
Alignment explanation
Indices: 80886--80956 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
80876 AGCAAATGAT
80886 TTTAAAATTATTAAAATTAA
1 TTTAAAATTATTAAAATTAA
*
80906 TTTAAAATTATT--TATTAAAA
1 TTTAAAATTATTAAAATT--AA
* *
80926 TATAAAATTATTAAAATTAT
1 TTTAAAATTATTAAAATTAA
80946 TTTAAAATTAT
1 TTTAAAATTAT
80957 CATCATCATC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 3 0.07
20 36 0.86
22 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTAAAATTATTAAAATTAA
Found at i:80956 original size:11 final size:11
Alignment explanation
Indices: 80879--80956 Score: 64
Period size: 11 Copynumber: 7.6 Consensus size: 11
80869 TTACGTCAGC
*
80879 AAATGATTTTA
1 AAATTATTTTA
80890 AAATTA--TTA
1 AAATTATTTTA
*
80899 AAATTAATTTA
1 AAATTATTTTA
80910 AAATTATTTATTA
1 AAATTA-TT-TTA
80923 AAA-TA---TA
1 AAATTATTTTA
80930 AAATTA--TTA
1 AAATTATTTTA
80939 AAATTATTTTA
1 AAATTATTTTA
80950 AAATTAT
1 AAATTAT
80957 CATCATCATC
Statistics
Matches: 57, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
7 5 0.09
8 2 0.04
9 17 0.30
11 24 0.42
12 3 0.05
13 6 0.11
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:82072 original size:20 final size:19
Alignment explanation
Indices: 82049--82146 Score: 65
Period size: 20 Copynumber: 4.9 Consensus size: 19
82039 GATAATGATT
82049 ATAATTTTAAAATAATTGTA
1 ATAATTTTAAAATAATT-TA
** **
82069 ATAATTTTATATTCTAA-AAA
1 ATAATTTTA-A-AATAATTTA
* *
82089 ATAATTTTAAATTAATTTT
1 ATAATTTTAAAATAATTTA
82108 AT-ATTTTAAAAATTAATTTTA
1 ATAATTTT-AAAA-TAA-TTTA
*
82129 ATAATTTTAAAATCATTT
1 ATAATTTTAAAATAATTT
82147 GTTGACATGA
Statistics
Matches: 59, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
18 8 0.14
19 9 0.15
20 24 0.41
21 10 0.17
22 8 0.14
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (19 bp):
ATAATTTTAAAATAATTTA
Found at i:82089 original size:29 final size:29
Alignment explanation
Indices: 82057--82137 Score: 117
Period size: 31 Copynumber: 2.7 Consensus size: 29
82047 TTATAATTTT
*
82057 AAAATAATTGTAATAATTTTATATTCTAA
1 AAAATAATTTTAATAATTTTATATTCTAA
*
82086 AAAATAATTTTAAATTAATTTTATATTTTAA
1 AAAATAATTTT-AA-TAATTTTATATTCTAA
*
82117 AAATTAATTTTAATAATTTTA
1 AAAATAATTTTAATAATTTTA
82138 AAATCATTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
29 18 0.38
30 4 0.09
31 25 0.53
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (29 bp):
AAAATAATTTTAATAATTTTATATTCTAA
Found at i:89776 original size:20 final size:20
Alignment explanation
Indices: 89751--89799 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
89741 ACATATTTTA
*
89751 ATTTTAAAATTGTCAAATAT
1 ATTTTAAAATTGTCAAACAT
*
89771 ATTTT--AATTGTCAAGCAT
1 ATTTTAAAATTGTCAAACAT
*
89789 ATTTCAAAATT
1 ATTTTAAAATT
89800 TTTTAAAACG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 15 0.62
20 9 0.38
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (20 bp):
ATTTTAAAATTGTCAAACAT
Found at i:89947 original size:17 final size:16
Alignment explanation
Indices: 89927--89974 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 16
89917 TAAATATTAT
89927 ATAATAAATAATAAA-AA
1 ATAATAAA-AA-AAACAA
89944 ATAATATAAAAAAACAA
1 ATAATA-AAAAAAACAA
89961 ATAATAAACAAAAA
1 ATAATAAA-AAAAA
89975 GAAAAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.18
17 21 0.75
18 2 0.07
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAATAAAAAAAACAA
Found at i:89981 original size:27 final size:28
Alignment explanation
Indices: 89932--89988 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
89922 ATTATATAAT
* *
89932 AAATAATAAAAAATAATATAAAAAA-AC
1 AAATAATAAAAAATAAGAAAAAAAATAC
89959 AAATAATAAACAAA-AAGAAAAAAAATAC
1 AAATAATAAA-AAATAAGAAAAAAAATAC
89987 AA
1 AA
89989 CATTGAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (28 bp):
AAATAATAAAAAATAAGAAAAAAAATAC
Found at i:91475 original size:20 final size:21
Alignment explanation
Indices: 91434--91476 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
91424 TAATTTACTT
91434 TAATTTAATTTTGCTAGTTAG
1 TAATTTAATTTTGCTAGTTAG
* *
91455 TAATTTTATTTTG-TTGTTAG
1 TAATTTAATTTTGCTAGTTAG
91475 TA
1 TA
91477 GTAGGAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (21 bp):
TAATTTAATTTTGCTAGTTAG
Done.