Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01002968.1 Kokia drynarioides strain JFW-HI SEQ_115442, 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: 80750
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 52 characters in sequence are not A, C, G, or T
Found at i:7133 original size:31 final size:31
Alignment explanation
Indices: 7097--7158 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
7087 ATGGTTATTG
7097 AACTATTCGAAAGTTTTCATTTAAGTCACTA
1 AACTATTCGAAAGTTTTCATTTAAGTCACTA
*
7128 AACTATTCGAAAGTTTTTATTTAAGTCACTA
1 AACTATTCGAAAGTTTTCATTTAAGTCACTA
7159 TTCCAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (31 bp):
AACTATTCGAAAGTTTTCATTTAAGTCACTA
Found at i:8463 original size:16 final size:16
Alignment explanation
Indices: 8439--8473 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8429 CCACTCGTTG
8439 AATTCAAAATACAGTT
1 AATTCAAAATACAGTT
* *
8455 AATTTAAAATAGAGTT
1 AATTCAAAATACAGTT
8471 AAT
1 AAT
8474 GTTTACGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (16 bp):
AATTCAAAATACAGTT
Found at i:9772 original size:22 final size:22
Alignment explanation
Indices: 9746--9792 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
9736 CCCACCCATA
9746 TTATTTT-TTATT-TTTTAAATAT
1 TTATTTTATT-TTATTTT-AATAT
9768 TTATTTTATTTTATTTTAATAT
1 TTATTTTATTTTATTTTAATAT
9790 TTA
1 TTA
9793 ATAATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (22 bp):
TTATTTTATTTTATTTTAATAT
Found at i:11167 original size:21 final size:22
Alignment explanation
Indices: 11105--11172 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 22
11095 CCATGTTGAA
* *
11105 ATATATTTCACATATGTAACAAT
1 ATATATTTCA-ATATTTAATAAT
* *
11128 ATATATTTGAAT-TTATAATTAT
1 ATATATTTCAATATT-TAATAAT
11150 -TATATTTCAATATTTAAT-AT
1 ATATATTTCAATATTTAATAAT
11170 ATA
1 ATA
11173 AGTCATATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 2 0.05
21 17 0.46
22 9 0.24
23 9 0.24
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (22 bp):
ATATATTTCAATATTTAATAAT
Found at i:31275 original size:22 final size:22
Alignment explanation
Indices: 31235--31276 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
31225 AATGACAATA
* * *
31235 AAATAGTAGTAATATAATGATG
1 AAATAGTAGAAAAACAATGATG
31257 AAATAGTAGAAAAACAATGA
1 AAATAGTAGAAAAACAATGA
31277 AAAAACAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.02, G:0.17, T:0.24
Consensus pattern (22 bp):
AAATAGTAGAAAAACAATGATG
Found at i:31919 original size:23 final size:23
Alignment explanation
Indices: 31893--31947 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
31883 TTAAAACAAT
*
31893 TATAATTATATATATAAACATTG
1 TATAATTATATATACAAACATTG
* * *
31916 TATAATAAGATATACAAGCATTG
1 TATAATTATATATACAAACATTG
*
31939 -ATAAATATA
1 TATAATTATA
31948 ATTTACTGAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.36
Consensus pattern (23 bp):
TATAATTATATATACAAACATTG
Found at i:33841 original size:7 final size:7
Alignment explanation
Indices: 33831--33863 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
33821 GAAGTTTTTT
33831 TTTTTAA
1 TTTTTAA
33838 TTTTTAA
1 TTTTTAA
33845 TTTTTAA
1 TTTTTAA
33852 TTTTTAA
1 TTTTTAA
33859 TTTTT
1 TTTTT
33864 TTACTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:34329 original size:4 final size:4
Alignment explanation
Indices: 34322--34353 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
34312 TATTCATATA
34322 TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
34354 AGGACCATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:38773 original size:12 final size:12
Alignment explanation
Indices: 38756--38781 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38746 AAGCAATCTC
38756 TTTTTTTTCTTT
1 TTTTTTTTCTTT
38768 TTTTTTTTCTTT
1 TTTTTTTTCTTT
38780 TT
1 TT
38782 AATGCTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:41315 original size:18 final size:19
Alignment explanation
Indices: 41276--41316 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
41266 ATTACAAAAC
*
41276 AAAATTCAAAATCATTTTT
1 AAAATTCAAAATCATTTAT
41295 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATCATTTAT
41313 AAAA
1 AAAA
41317 ATTCCATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATCATTTAT
Found at i:41939 original size:13 final size:13
Alignment explanation
Indices: 41921--41959 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
41911 AGTTTAGCAT
41921 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
41934 TGC-TTTGAAAAAG
1 TGCTTTTG-AAAAG
*
41947 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
41960 CTTGATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 4 0.17
13 15 0.65
14 4 0.17
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:42314 original size:20 final size:20
Alignment explanation
Indices: 42291--42332 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
42281 ACTTCTCAAG
42291 AAAAATGCTTTTGAAAAATA
1 AAAAATGCTTTTGAAAAATA
42311 AAAAATGCTTTTGAAAAATA
1 AAAAATGCTTTTGAAAAATA
42331 AA
1 AA
42333 TTTTTTTTTT
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:0.57, C:0.05, G:0.10, T:0.29
Consensus pattern (20 bp):
AAAAATGCTTTTGAAAAATA
Found at i:42880 original size:13 final size:13
Alignment explanation
Indices: 42862--42899 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
42852 ATAGTGTATT
42862 TAATTTTTATTTA
1 TAATTTTTATTTA
42875 TAATTTATTA-TTA
1 TAATTT-TTATTTA
*
42888 AAATTTTTATTT
1 TAATTTTTATTT
42900 TTTAAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 3 0.14
13 16 0.73
14 3 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TAATTTTTATTTA
Found at i:44361 original size:2 final size:2
Alignment explanation
Indices: 44354--44378 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44344 ATTTGCATAC
44354 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
44379 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44383 original size:2 final size:2
Alignment explanation
Indices: 44378--44411 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
44368 ATATATATAT
44378 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
44412 GGAATTGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47941 original size:18 final size:18
Alignment explanation
Indices: 47920--47961 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
47910 TAAATATTAA
*
47920 ATTTATATATGAATTTTG
1 ATTTATAAATGAATTTTG
47938 ATTTAATAAATGAATTTTG
1 ATTT-ATAAATGAATTTTG
47957 ATTTA
1 ATTTA
47962 GTGTAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (18 bp):
ATTTATAAATGAATTTTG
Found at i:48232 original size:31 final size:29
Alignment explanation
Indices: 48158--48238 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
48148 AAATTTAATC
*
48158 AAATCAAAATTTCATATATAAAATTACACA
1 AAATCAAAA-TTCATGTATAAAATTACACA
* *
48188 AAATCAAAGTTCATGTATAACATTACACA
1 AAATCAAAATTCATGTATAAAATTACACA
*
48217 TTAGATCAAAATTCATGTATAA
1 --AAATCAAAATTCATGTATAA
48239 TTTTGATGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 18 0.41
30 8 0.18
31 18 0.41
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.31
Consensus pattern (29 bp):
AAATCAAAATTCATGTATAAAATTACACA
Found at i:49525 original size:24 final size:23
Alignment explanation
Indices: 49474--49518 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
49464 CGATTTTTAA
* *
49474 TTAATTTTTAATAAAATTATATG
1 TTAATTTATAATAAAATTACATG
49497 TTAATTTAATAATAAAATTACA
1 TTAATTT-ATAATAAAATTACA
49519 CTTTAATCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TTAATTTATAATAAAATTACATG
Found at i:49663 original size:23 final size:23
Alignment explanation
Indices: 49637--49691 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
49627 GAATCTAAAT
49637 TTAAATAT-CTAAAAAGTAAAAG-A
1 TTAAAT-TCCTAAAAA-TAAAAGAA
49660 TTAAATTCCTAAAAATAAAAGAA
1 TTAAATTCCTAAAAATAAAAGAA
49683 TTAAATTCC
1 TTAAATTCC
49692 AAATTCTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.23
23 23 0.77
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.29
Consensus pattern (23 bp):
TTAAATTCCTAAAAATAAAAGAA
Found at i:53793 original size:24 final size:24
Alignment explanation
Indices: 53765--53832 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
53755 AATTTGACTT
*
53765 AAACAAATAAATAAAGTTTAATTG
1 AAACAAATAAACAAAGTTTAATTG
* **
53789 AAACAAATAAACAGAGTTTTGTTG
1 AAACAAATAAACAAAGTTTAATTG
* *
53813 AAACAATTAAACAAAATTTA
1 AAACAAATAAACAAAGTTTA
53833 TCTGAAAGAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.56, C:0.07, G:0.09, T:0.28
Consensus pattern (24 bp):
AAACAAATAAACAAAGTTTAATTG
Found at i:54097 original size:20 final size:19
Alignment explanation
Indices: 54068--54132 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
54058 AAAAAATAAA
54068 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTT-AAAAAT
* *
54088 TCAAACTAATTTTTAAAAT
1 TCAAAATAATTTTAAAAAT
*
54107 TC-AAATTATTTATAAAAAT
1 TCAAAATAATTT-TAAAAAT
*
54126 TCTAAAT
1 TCAAAAT
54133 TTTATATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 7 0.18
19 15 0.39
20 16 0.42
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (19 bp):
TCAAAATAATTTTAAAAAT
Found at i:54138 original size:18 final size:19
Alignment explanation
Indices: 54082--54133 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
54072 AATAATTTTC
*
54082 AAAAATTCAAACTAATTT-T
1 AAAAATTCAAA-TTATTTAT
*
54101 TAAAATTCAAATTATTTAT
1 AAAAATTCAAATTATTTAT
54120 AAAAATTCTAAATT
1 AAAAATTC-AAATT
54134 TTATATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.18
19 18 0.64
20 5 0.18
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTCAAATTATTTAT
Found at i:74863 original size:26 final size:26
Alignment explanation
Indices: 74821--74871 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
74811 GGGCTCACGG
74821 TTTGGGTCACAAATTGGG-TTAAGGC
1 TTTGGGTCACAAATTGGGTTTAAGGC
74846 TTTGGGTTCACAAATTGGGTTTAAGG
1 TTTGGG-TCACAAATTGGGTTTAAGG
74872 TTTAGACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 6 0.25
26 12 0.50
27 6 0.25
ACGTcount: A:0.24, C:0.10, G:0.31, T:0.35
Consensus pattern (26 bp):
TTTGGGTCACAAATTGGGTTTAAGGC
Found at i:76166 original size:9 final size:9
Alignment explanation
Indices: 76152--76185 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
76142 AATAAATATT
*
76152 ATTAATTTA
1 ATTAATTAA
76161 ATTAATTAA
1 ATTAATTAA
*
76170 ATTAACTAA
1 ATTAATTAA
76179 ATTAATT
1 ATTAATT
76186 TTCCGATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTAATTAA
Found at i:76467 original size:30 final size:30
Alignment explanation
Indices: 76431--76490 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
76421 TTTATTTGTG
76431 AATGCAAATCATTTCTCTAACTTCGTCATT
1 AATGCAAATCATTTCTCTAACTTCGTCATT
76461 AATGCAAATCATTTCTCTAACTTCGTCATT
1 AATGCAAATCATTTCTCTAACTTCGTCATT
76491 TCTATTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (30 bp):
AATGCAAATCATTTCTCTAACTTCGTCATT
Found at i:78763 original size:25 final size:25
Alignment explanation
Indices: 78735--78796 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
78725 ACCCTTATAA
*
78735 TTTTCATTTTATTTCAATTTGAT-CC
1 TTTTAATTTTATTTCAATTT-ATGCC
* * *
78760 TTTTTATTCTATTTTAATTTATGCC
1 TTTTAATTTTATTTCAATTTATGCC
78785 -TTTAATTTTATT
1 TTTTAATTTTATT
78797 GTAGTTTCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.21, C:0.11, G:0.03, T:0.65
Consensus pattern (25 bp):
TTTTAATTTTATTTCAATTTATGCC
Found at i:78817 original size:30 final size:29
Alignment explanation
Indices: 78721--78826 Score: 78
Period size: 30 Copynumber: 3.7 Consensus size: 29
78711 TATTTGCCTT
* *
78721 TTTAACCCTTATAATTTTCATTTTATTTCAA
1 TTTAATCCTT-TAATTTT-ATTCTATTTCAA
* *
78752 TTTGATCC--T--TTTTATTCTATTTTAA
1 TTTAATCCTTTAATTTTATTCTATTTCAA
*
78777 TTT-ATGCCTTTAATTTTATTGTAGTTTCAA
1 TTTAAT-CCTTTAATTTTATTCTA-TTTCAA
**
78807 TTTAATCCTTTTTTTTTATT
1 TTTAATCCTTTAATTTTATT
78827 TAGCCCTTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
24 2 0.03
25 15 0.25
26 4 0.07
27 1 0.02
28 1 0.02
29 9 0.15
30 20 0.33
31 8 0.13
ACGTcount: A:0.23, C:0.12, G:0.04, T:0.61
Consensus pattern (29 bp):
TTTAATCCTTTAATTTTATTCTATTTCAA
Found at i:78914 original size:9 final size:9
Alignment explanation
Indices: 78902--78966 Score: 57
Period size: 9 Copynumber: 7.4 Consensus size: 9
78892 CCTTTATGTG
*
78902 TTTTGTTTA
1 TTTTATTTA
78911 TTTT-TATTA
1 TTTTAT-TTA
78920 TATTTATTTA
1 T-TTTATTTA
78930 -TTTATTTA
1 TTTTATTTA
78938 TTTTATTTA
1 TTTTATTTA
**
78947 GATT-TTTA
1 TTTTATTTA
78955 TTTTATTT-
1 TTTTATTTA
78963 TTTT
1 TTTT
78967 CTATCATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
8 19 0.40
9 21 0.45
10 6 0.13
11 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (9 bp):
TTTTATTTA
Found at i:78929 original size:4 final size:4
Alignment explanation
Indices: 78913--78946 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
78903 TTTGTTTATT
78913 TTTA TTATA TTTA TTTA TTTA TTTA TTTTA TTTA
1 TTTA TT-TA TTTA TTTA TTTA TTTA -TTTA TTTA
78947 GATTTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:78935 original size:17 final size:17
Alignment explanation
Indices: 78902--78962 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
78892 CCTTTATGTG
* *
78902 TTTTGTTTATTTTTATTA
1 TTTTATTTATTTAT-TTA
78920 TATTTATTTATTTATTTA
1 T-TTTATTTATTTATTTA
*
78938 TTTTATTTAGATT-TTTA
1 TTTTATTTA-TTTATTTA
78955 TTTTATTT
1 TTTTATTT
78963 TTTTCTATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
17 20 0.53
18 7 0.18
19 11 0.29
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTATTTATTTATTTA
Found at i:78954 original size:21 final size:22
Alignment explanation
Indices: 78907--78963 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
78897 ATGTGTTTTG
* *
78907 TTTATTTTTATTATATTTATTTA
1 TTTA-TTTTATTTTATTTAATTA
78930 TTTA-TTTATTTTATTTAGATT-
1 TTTATTTTATTTTATTTA-ATTA
78951 TTTATTTTATTTT
1 TTTATTTTATTTT
78964 TTTCTATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 16 0.53
22 10 0.33
23 4 0.13
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTATTTTATTTTATTTAATTA
Found at i:79136 original size:15 final size:16
Alignment explanation
Indices: 79116--79159 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
79106 TTATTGTTGG
79116 TTTTTTATTATCATT-
1 TTTTTTATTATCATTA
79131 TTTTTTATTA-CATTA
1 TTTTTTATTATCATTA
* *
79146 TTATTTACTATCAT
1 TTTTTTATTATCAT
79160 ATTATGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.16
15 18 0.72
16 3 0.12
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTTATTATCATTA
Done.