Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013258.1 Kokia drynarioides strain JFW-HI SEQ_128278, 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: 134096
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Warning! 50 characters in sequence are not A, C, G, or T
Found at i:30510 original size:69 final size:69
Alignment explanation
Indices: 30395--30530 Score: 227
Period size: 69 Copynumber: 2.0 Consensus size: 69
30385 ATTGGAGGTC
* *
30395 CCATATTATTTGAATTTGGTGTGAGATCACCTAAATTTCTAAAGAGTGGTGATTCTGTGTCTTGG
1 CCATATTATTTGAATTTGGTGTGAGATCACCCAAATTTCTAAAGAGTAGTGATTCTGTGTCTTGG
30460 ATGG
66 ATGG
* * *
30464 CCATATTATTTGAATTTGGTGTGGGATCACCCAAATTTCTATAGAGTAGTGATTTTGTGTCTTGG
1 CCATATTATTTGAATTTGGTGTGAGATCACCCAAATTTCTAAAGAGTAGTGATTCTGTGTCTTGG
30529 AT
66 AT
30531 AAATCATTGA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (69 bp):
CCATATTATTTGAATTTGGTGTGAGATCACCCAAATTTCTAAAGAGTAGTGATTCTGTGTCTTGG
ATGG
Found at i:40472 original size:25 final size:25
Alignment explanation
Indices: 40438--40488 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
40428 TGCAACAAAC
40438 ACCAATGTTACTTCTCAAAGTTTCA
1 ACCAATGTTACTTCTCAAAGTTTCA
40463 ACCAATGTTACTTCTCAAAGTTTCA
1 ACCAATGTTACTTCTCAAAGTTTCA
40488 A
1 A
40489 ATCTCAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (25 bp):
ACCAATGTTACTTCTCAAAGTTTCA
Found at i:45503 original size:21 final size:21
Alignment explanation
Indices: 45475--45554 Score: 117
Period size: 21 Copynumber: 3.9 Consensus size: 21
45465 ATAGTACAGA
45475 TCTT-TACCGATACAAGTGAC
1 TCTTCTACCGATACAAGTGAC
**
45495 AGTTCTACCGATACAAGTGAC
1 TCTTCTACCGATACAAGTGAC
*
45516 TCTTCTACCGATATAAGTGAC
1 TCTTCTACCGATACAAGTGAC
*
45537 TCTTCTACCGAAACAAGT
1 TCTTCTACCGATACAAGT
45555 CTTACTTCTA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
20 2 0.04
21 50 0.96
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (21 bp):
TCTTCTACCGATACAAGTGAC
Found at i:45563 original size:42 final size:41
Alignment explanation
Indices: 45475--45571 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 41
45465 ATAGTACAGA
* *
45475 TCTT-TACCGATACAAGTGACAGTTCTACCGATACAAGTGAC
1 TCTTCTACCGATACAAGTGACACTTCTACCGAAACAAGT-AC
* *
45516 TCTTCTACCGATATAAGTGACTCTTCTACCGAAACAAGT-C
1 TCTTCTACCGATACAAGTGACACTTCTACCGAAACAAGTAC
*
45556 TTACTTCTACCCATAC
1 -T-CTTCTACCGATAC
45572 TAAAAACTCC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
40 1 0.02
41 5 0.11
42 41 0.87
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (41 bp):
TCTTCTACCGATACAAGTGACACTTCTACCGAAACAAGTAC
Found at i:46292 original size:18 final size:19
Alignment explanation
Indices: 46259--46294 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
46249 TGCGATCCAA
*
46259 TATTGCTCTTACGAGCCAG
1 TATTGCTCTAACGAGCCAG
46278 TATTGCTC-AACGAGCCA
1 TATTGCTCTAACGAGCCA
46295 ATATGATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (19 bp):
TATTGCTCTAACGAGCCAG
Found at i:53693 original size:17 final size:16
Alignment explanation
Indices: 53665--53696 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
53655 AAGTTTCCTT
53665 TTTCTATTGTTATCTA
1 TTTCTATTGTTATCTA
53681 TTTCTAGTTGTTATCT
1 TTTCTA-TTGTTATCT
53697 GCTTTGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.62
Consensus pattern (16 bp):
TTTCTATTGTTATCTA
Found at i:53856 original size:31 final size:33
Alignment explanation
Indices: 53815--53876 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
53805 ATTTTAAAAT
*
53815 AAATTAAAAACA-TTTTTCTAAATAA-TAAAACA
1 AAATTAAAAACACTTTTT-TAAAAAATTAAAACA
53847 AAATT-AAAACACTTTTTTAAAAAATTAAAA
1 AAATTAAAAACACTTTTTTAAAAAATTAAAA
53877 TAGATTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (33 bp):
AAATTAAAAACACTTTTTTAAAAAATTAAAACA
Found at i:53902 original size:24 final size:25
Alignment explanation
Indices: 53866--53912 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
53856 CACTTTTTTA
*
53866 AAAAATTAAAATAGATTTCATAAGT
1 AAAAATTAAAATAGATCTCATAAGT
*
53891 AAAAATT-TAATAGATCTCATAA
1 AAAAATTAAAATAGATCTCATAA
53913 ATAATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (25 bp):
AAAAATTAAAATAGATCTCATAAGT
Found at i:59241 original size:32 final size:31
Alignment explanation
Indices: 59205--59293 Score: 115
Period size: 32 Copynumber: 2.8 Consensus size: 31
59195 GCACTTATAT
* **
59205 TTAATGAATGTATTAGAGTAGATGCATTTAGC
1 TTAATTAATGTATTAGAAAAGATG-ATTTAGC
59237 TTAATTAATGTATTTAGAAAAGATGATTTAGC
1 TTAATTAATGTA-TTAGAAAAGATGATTTAGC
*
59269 TTAATTAACGTATTTAGAAAAGATG
1 TTAATTAATGTA-TTAGAAAAGATG
59294 TATCTAGTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 42 0.81
33 10 0.19
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.38
Consensus pattern (31 bp):
TTAATTAATGTATTAGAAAAGATGATTTAGC
Found at i:59253 original size:18 final size:18
Alignment explanation
Indices: 59230--59285 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
59220 GAGTAGATGC
59230 ATTTAGCTTAATTAATGT
1 ATTTAGCTTAATTAATGT
*
59248 ATTTAG---AA-AAGATG-
1 ATTTAGCTTAATTA-ATGT
*
59262 ATTTAGCTTAATTAACGT
1 ATTTAGCTTAATTAATGT
59280 ATTTAG
1 ATTTAG
59286 AAAAGATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
14 7 0.24
15 5 0.17
17 4 0.14
18 13 0.45
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (18 bp):
ATTTAGCTTAATTAATGT
Found at i:59615 original size:32 final size:31
Alignment explanation
Indices: 59579--59667 Score: 115
Period size: 32 Copynumber: 2.8 Consensus size: 31
59569 GCACTTATAT
* **
59579 TTAATGAATGTATTAGAGTAGATGCATTTAGC
1 TTAATTAATGTATTAGAAAAGATG-ATTTAGC
59611 TTAATTAATGTATTTAGAAAAGATGATTTAGC
1 TTAATTAATGTA-TTAGAAAAGATGATTTAGC
*
59643 TTAATTAACGTATTTAGAAAAGATG
1 TTAATTAATGTA-TTAGAAAAGATG
59668 TATCTAGTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 42 0.81
33 10 0.19
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.38
Consensus pattern (31 bp):
TTAATTAATGTATTAGAAAAGATGATTTAGC
Found at i:59627 original size:18 final size:18
Alignment explanation
Indices: 59604--59659 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
59594 GAGTAGATGC
59604 ATTTAGCTTAATTAATGT
1 ATTTAGCTTAATTAATGT
*
59622 ATTTAG---AA-AAGATG-
1 ATTTAGCTTAATTA-ATGT
*
59636 ATTTAGCTTAATTAACGT
1 ATTTAGCTTAATTAATGT
59654 ATTTAG
1 ATTTAG
59660 AAAAGATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
14 7 0.24
15 5 0.17
17 4 0.14
18 13 0.45
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (18 bp):
ATTTAGCTTAATTAATGT
Found at i:65146 original size:50 final size:50
Alignment explanation
Indices: 65074--65175 Score: 168
Period size: 50 Copynumber: 2.0 Consensus size: 50
65064 CCATCAATCT
*
65074 AAAAATAACAGTTTTCACCACCGCTAAAACATCACCACCAAGCTCCATCC
1 AAAAATAACAGCTTTCACCACCGCTAAAACATCACCACCAAGCTCCATCC
* * *
65124 AAAAATAACAGCTTTCATCACCGCTGAAACGTCACCACCAAGCTCCATCC
1 AAAAATAACAGCTTTCACCACCGCTAAAACATCACCACCAAGCTCCATCC
65174 AA
1 AA
65176 TTAGTTACTT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.39, C:0.35, G:0.08, T:0.18
Consensus pattern (50 bp):
AAAAATAACAGCTTTCACCACCGCTAAAACATCACCACCAAGCTCCATCC
Found at i:67326 original size:54 final size:54
Alignment explanation
Indices: 67262--67370 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
67252 GTTTATGATG
* *
67262 TTTTAGGGTCTAAGTATTCAACTAAAGACCGTATATTCTCGTGCCTCTTGAGAA
1 TTTTAGGGTCTAAGTATGCAACTAAAGACCGTATATTCCCGTGCCTCTTGAGAA
* *
67316 TTTTAGGGTCTAAGTATGCAACTGAAGACTGTATATTCCCGTGCCTCTTGAGAA
1 TTTTAGGGTCTAAGTATGCAACTAAAGACCGTATATTCCCGTGCCTCTTGAGAA
67370 T
1 T
67371 AAGAATTCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (54 bp):
TTTTAGGGTCTAAGTATGCAACTAAAGACCGTATATTCCCGTGCCTCTTGAGAA
Found at i:71796 original size:37 final size:37
Alignment explanation
Indices: 71755--71838 Score: 132
Period size: 37 Copynumber: 2.3 Consensus size: 37
71745 TCACAATTTA
*
71755 ATATTTATATAATCTATATAATGAGATAATTGTTAAC
1 ATATTCATATAATCTATATAATGAGATAATTGTTAAC
** *
71792 ATATTCATATTTTGTATATAATGAGATAATTGTTAAC
1 ATATTCATATAATCTATATAATGAGATAATTGTTAAC
71829 ATATTCATAT
1 ATATTCATAT
71839 TTTGAATACA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.45
Consensus pattern (37 bp):
ATATTCATATAATCTATATAATGAGATAATTGTTAAC
Found at i:71839 original size:37 final size:37
Alignment explanation
Indices: 71769--71842 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
71759 TTATATAATC
71769 TATATAATGAGATAATTGTTAACATATTCATATTTTG
1 TATATAATGAGATAATTGTTAACATATTCATATTTTG
71806 TATATAATGAGATAATTGTTAACATATTCATATTTTG
1 TATATAATGAGATAATTGTTAACATATTCATATTTTG
71843 AATACAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (37 bp):
TATATAATGAGATAATTGTTAACATATTCATATTTTG
Found at i:71856 original size:37 final size:37
Alignment explanation
Indices: 71778--71856 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
71768 CTATATAATG
* * **
71778 AGATAATTGTTAACATATTCATATTTTGTATATAATG
1 AGATAATTGTTAACATATTCATATTTTGAATACAACA
71815 AGATAATTGTTAACATATTCATATTTTGAATACAACA
1 AGATAATTGTTAACATATTCATATTTTGAATACAACA
71852 AGATA
1 AGATA
71857 TATGAATACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.41
Consensus pattern (37 bp):
AGATAATTGTTAACATATTCATATTTTGAATACAACA
Found at i:72582 original size:24 final size:24
Alignment explanation
Indices: 72555--72601 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
72545 ACATTTATAG
*
72555 TGTATGATTTTATGCATCATCATA
1 TGTATGATTTTACGCATCATCATA
72579 TGTATGATTTTACGCATCATCAT
1 TGTATGATTTTACGCATCATCAT
72602 TTATTAGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.45
Consensus pattern (24 bp):
TGTATGATTTTACGCATCATCATA
Found at i:81491 original size:16 final size:16
Alignment explanation
Indices: 81465--81502 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
81455 ATTTGTTTGT
81465 TTTTCTTTATTTACT-TA
1 TTTT-TTTATTTA-TATA
81482 TTTTTTTATTTATATA
1 TTTTTTTATTTATATA
81498 TTTTT
1 TTTTT
81503 GTCTCTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 15 0.75
17 4 0.20
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTTATTTATATA
Found at i:82643 original size:6 final size:6
Alignment explanation
Indices: 82625--82661 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
82615 TGCAAATGAA
*
82625 TCATTT CTCATTT TCATTT TCATTT TCATTT CCATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT
82662 ATATTTTGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.62
Consensus pattern (6 bp):
TCATTT
Found at i:86287 original size:19 final size:19
Alignment explanation
Indices: 86260--86299 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
86250 TTTGATTGAT
*
86260 TTTAGTTAAACATAATTAA
1 TTTACTTAAACATAATTAA
*
86279 TTTACTTAATCATAATTAA
1 TTTACTTAAACATAATTAA
86298 TT
1 TT
86300 AAGCCTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.47
Consensus pattern (19 bp):
TTTACTTAAACATAATTAA
Found at i:87476 original size:53 final size:53
Alignment explanation
Indices: 87418--87526 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
87408 GTTTTATCCC
*
87418 TTCTTTCTAAGTATACTCTTTTCTTCCTAGTTTGATATTGTAACAACTCATTT
1 TTCTTTCTAAGTATACTCTTTTCTTCCTAGTTTGATATTGTAACAACCCATTT
* *
87471 TTCTTTCTAAGTATACTCTTTTCTTCCTGGTTTGATATTGTAACAACCCGTTT
1 TTCTTTCTAAGTATACTCTTTTCTTCCTAGTTTGATATTGTAACAACCCATTT
87524 TTC
1 TTC
87527 AGTGGTGTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.20, C:0.20, G:0.09, T:0.50
Consensus pattern (53 bp):
TTCTTTCTAAGTATACTCTTTTCTTCCTAGTTTGATATTGTAACAACCCATTT
Found at i:88674 original size:27 final size:27
Alignment explanation
Indices: 88643--88797 Score: 184
Period size: 27 Copynumber: 5.7 Consensus size: 27
88633 AAGGTCTATG
* *
88643 GAATGACCAATATTCCGTATCTGGCTC
1 GAATGAGCAATATTCTGTATCTGGCTC
*
88670 GAATGAGCAATATTTTGTATCTGGCTC
1 GAATGAGCAATATTCTGTATCTGGCTC
* ** *
88697 AAATGATAAATATTCTATATCTGGCTC
1 GAATGAGCAATATTCTGTATCTGGCTC
* *
88724 GAATGAGTAATATTCTGTATCTAGCTC
1 GAATGAGCAATATTCTGTATCTGGCTC
* *
88751 GAATGAGCAATATTATGTATCTTGCTC
1 GAATGAGCAATATTCTGTATCTGGCTC
* **
88778 AAATGAGTGATATTCTGTAT
1 GAATGAGCAATATTCTGTAT
88798 TTGACATGAA
Statistics
Matches: 108, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (27 bp):
GAATGAGCAATATTCTGTATCTGGCTC
Found at i:91627 original size:14 final size:15
Alignment explanation
Indices: 91602--91630 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
91592 ACTCACCACA
91602 TATATACATATATAT
1 TATATACATATATAT
91617 TATAT-CATATATAT
1 TATATACATATATAT
91631 CTTTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (15 bp):
TATATACATATATAT
Found at i:91758 original size:20 final size:20
Alignment explanation
Indices: 91735--91781 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
91725 TTATAAAATT
91735 TAAAAAATT-AAAATA-ATA
1 TAAAAAATTGAAAATATATA
* *
91753 TATAAAAATTGAAAATTTTTA
1 TA-AAAAATTGAAAATATATA
91774 TAAAAAAT
1 TAAAAAAT
91782 AATTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 2 0.08
19 7 0.29
20 11 0.46
21 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAAAAATTGAAAATATATA
Found at i:91877 original size:17 final size:16
Alignment explanation
Indices: 91851--91885 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
91841 TCAAAAAAAT
91851 ATTTTAATATTTTTATA
1 ATTTTAATATTTTT-TA
*
91868 ATTTTTATATTTTTTA
1 ATTTTAATATTTTTTA
91884 AT
1 AT
91886 AATATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTAATATTTTTTA
Found at i:96002 original size:23 final size:22
Alignment explanation
Indices: 95959--96002 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
95949 AGTTTCTCCA
*
95959 TATAATTAATATTAATGTTTTT
1 TATAATTAATATTAATATTTTT
* *
95981 TATAATATTATATTTATATTTT
1 TATAAT-TAATATTAATATTTT
96003 AATAAATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TATAATTAATATTAATATTTTT
Found at i:105205 original size:22 final size:22
Alignment explanation
Indices: 105172--105218 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
105162 ACTTTCATAA
105172 TTAGCTTAATTAA-TCACTTAT
1 TTAGCTTAATTAACTCACTTAT
105193 TTAGCTTTAATTAATCTCACTTAT
1 TTAGC-TTAATTAA-CTCACTTAT
105217 TT
1 TT
105219 TTAATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.22
22 8 0.35
24 10 0.43
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (22 bp):
TTAGCTTAATTAACTCACTTAT
Done.