Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold230
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: 2055625
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 14 of 14
Found at i:1982362 original size:3 final size:3
Alignment explanation
Indices: 1982354--1982380 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1982344 TACCAATACC
1982354 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1982381 GTTAATATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1983253 original size:11 final size:11
Alignment explanation
Indices: 1983233--1983263 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1983223 AGAGTGTGGT
1983233 ATAA-AATAAA
1 ATAATAATAAA
1983243 ATAATAATAAA
1 ATAATAATAAA
1983254 ATAATAATAA
1 ATAATAATAA
1983264 TAATTCTAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:1983397 original size:15 final size:15
Alignment explanation
Indices: 1983377--1983405 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1983367 TATCTATTAT
1983377 TTCTTCTTGTTCTTG
1 TTCTTCTTGTTCTTG
1983392 TTCTTCTTGTTCTT
1 TTCTTCTTGTTCTT
1983406 ATTATTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.21, G:0.10, T:0.69
Consensus pattern (15 bp):
TTCTTCTTGTTCTTG
Found at i:1983418 original size:3 final size:3
Alignment explanation
Indices: 1983412--1983445 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
1983402 TCTTATTATT
* *
1983412 ATC ATC ATC ATC ATC ATC ATT ATC ATC GTC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1983446 ATGTGTTCGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:1984199 original size:26 final size:26
Alignment explanation
Indices: 1984170--1984244 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
1984160 CTATTTCTGG
1984170 TTTTGAATAATAAAAATTGATTT-TGA
1 TTTTGAATAATAAAAATTG-TTTATGA
*
1984196 TTTTGAATAATAAAAATTGTTTATGG
1 TTTTGAATAATAAAAATTGTTTATGA
*
1984222 TTTTGAATAATAAAAACTGTTTA
1 TTTTGAATAATAAAAATTGTTTA
1984245 ATTAAGACAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 3 0.07
26 43 0.93
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.45
Consensus pattern (26 bp):
TTTTGAATAATAAAAATTGTTTATGA
Found at i:1984347 original size:25 final size:25
Alignment explanation
Indices: 1984319--1984370 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1984309 TGTCCAAGTA
1984319 GTAGTTTAAATTAAGTTTTTTTTTT
1 GTAGTTTAAATTAAGTTTTTTTTTT
1984344 GTAGTTTAAATTAAGTTTTTTTTTT
1 GTAGTTTAAATTAAGTTTTTTTTTT
1984369 GT
1 GT
1984371 TTGATTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.63
Consensus pattern (25 bp):
GTAGTTTAAATTAAGTTTTTTTTTT
Found at i:1990009 original size:36 final size:34
Alignment explanation
Indices: 1989951--1990033 Score: 94
Period size: 36 Copynumber: 2.4 Consensus size: 34
1989941 TGTGTATATA
* *
1989951 TATAATAAATAATTAAAATTATTAAAATTGCATT
1 TATATTAAATAATTAAAATTATTAAAATTACATT
* *
1989985 TATATTAAATAATATAATATTTATTAAAATTATATT
1 TATATTAAATAAT-TAA-AATTATTAAAATTACATT
**
1990021 TACGTTAAATAAT
1 TATATTAAATAAT
1990034 CATTAAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 12 0.29
35 3 0.07
36 26 0.63
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (34 bp):
TATATTAAATAATTAAAATTATTAAAATTACATT
Found at i:1990063 original size:17 final size:17
Alignment explanation
Indices: 1990038--1990074 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
1990028 AATAATCATT
1990038 AAAAAATTTT-AAATTA
1 AAAAAATTTTAAAATTA
1990054 AAAAATATTTTAAAATTA
1 AAAAA-ATTTTAAAATTA
1990072 AAA
1 AAA
1990075 TTATATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 5 0.26
18 9 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAAATTTTAAAATTA
Found at i:1990083 original size:18 final size:17
Alignment explanation
Indices: 1990035--1990074 Score: 57
Period size: 15 Copynumber: 2.4 Consensus size: 17
1990025 TTAAATAATC
1990035 ATTAAAAAAT-TTT-AA
1 ATTAAAAAATATTTAAA
1990050 ATTAAAAAATATTTTAAA
1 ATTAAAAAATA-TTTAAA
1990068 ATTAAAA
1 ATTAAAA
1990075 TTATATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.45
17 3 0.14
18 9 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTAAAAAATATTTAAA
Found at i:1991067 original size:2 final size:2
Alignment explanation
Indices: 1991060--1991103 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1991050 GTTATTCCTG
1991060 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1991102 GA
1 GA
1991104 AAGCAAAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1997720 original size:2 final size:2
Alignment explanation
Indices: 1997715--1997739 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1997705 TTTTAATGGA
1997715 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
1997740 ATGAAAGGTG
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:1998094 original size:2 final size:2
Alignment explanation
Indices: 1998087--1998114 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1998077 TCATGATGTG
1998087 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
1998115 AATTAATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2000236 original size:2 final size:2
Alignment explanation
Indices: 2000231--2000262 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2000221 AATATATTTT
2000231 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
2000263 GAAAGAGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2000643 original size:2 final size:2
Alignment explanation
Indices: 2000636--2000668 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2000626 TTAAAATAAT
*
2000636 TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2000669 ATATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:2001235 original size:3 final size:3
Alignment explanation
Indices: 2001227--2001251 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2001217 GCCAAAAACT
2001227 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
2001252 CTCAAGGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2003027 original size:14 final size:14
Alignment explanation
Indices: 2003005--2003037 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2002995 GTTTGGCGCA
*
2003005 TTAGGTAAAACATT
1 TTAGATAAAACATT
2003019 TTAGATAAAACATT
1 TTAGATAAAACATT
2003033 TTAGA
1 TTAGA
2003038 GCAGAGAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (14 bp):
TTAGATAAAACATT
Found at i:2013702 original size:3 final size:3
Alignment explanation
Indices: 2013694--2013726 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2013684 TTATGTATAT
2013694 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2013727 TGTCGGAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2014693 original size:2 final size:2
Alignment explanation
Indices: 2014686--2014710 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2014676 AGAATCTATT
2014686 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 T
2014711 TTAAATGAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2015152 original size:2 final size:2
Alignment explanation
Indices: 2015145--2015173 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2015135 TCATACATAC
2015145 AT AT 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 AT AT A
2015174 CAAAAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2016814 original size:25 final size:23
Alignment explanation
Indices: 2016776--2016822 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
2016766 TTTTTATATT
2016776 AATATTTATAATTAAATTTAAATAA
1 AATATTTATAATT--ATTTAAATAA
* *
2016801 AATATTTTTTATTATTTAAATA
1 AATATTTATAATTATTTAAATA
2016823 TTAAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
25 11 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATATTTATAATTATTTAAATAA
Found at i:2016832 original size:35 final size:39
Alignment explanation
Indices: 2016756--2016838 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 39
2016746 AAAAATAATA
*
2016756 TAAA-AAAATATTTTTATATTAATATTTATAATTAAATT
1 TAAATAAAATATTTTTATATTAATATTAATAATTAAATT
2016794 TAAATAAAATATTTTT-TATT-AT-TTAA-ATATTAAA-T
1 TAAATAAAATATTTTTATATTAATATTAATA-ATTAAATT
*
2016829 TAAATCAAAT
1 TAAATAAAAT
2016839 TATTCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
35 11 0.27
36 9 0.22
37 2 0.05
38 8 0.20
39 11 0.27
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (39 bp):
TAAATAAAATATTTTTATATTAATATTAATAATTAAATT
Found at i:2016850 original size:20 final size:21
Alignment explanation
Indices: 2016825--2016867 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
2016815 TTTAAATATT
**
2016825 AAATTAAATCAAAT-TATTCA
1 AAATTAAAAAAAATATATTCA
2016845 AAATTAAAAAAAATATATTCA
1 AAATTAAAAAAAATATATTCA
2016866 AA
1 AA
2016868 TTCAACTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATTAAAAAAAATATATTCA
Found at i:2016868 original size:20 final size:20
Alignment explanation
Indices: 2016820--2016869 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
2016810 TATTATTTAA
**
2016820 ATATT-AAATTAAATCAAAT
1 ATATTCAAATTAAAAAAAAT
2016839 -TATTCAAAATTAAAAAAAAT
1 ATATTC-AAATTAAAAAAAAT
2016859 ATATTCAAATT
1 ATATTCAAATT
2016870 CAACTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.15
20 17 0.65
21 5 0.19
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATTCAAATTAAAAAAAAT
Found at i:2020415 original size:29 final size:29
Alignment explanation
Indices: 2020382--2020439 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
2020372 GATTAAAATA
2020382 TAAATAAATTATTAAAATATTAATATTTT
1 TAAATAAATTATTAAAATATTAATATTTT
* * *
2020411 TAAATTAATTATTAAATTATTATTATTTT
1 TAAATAAATTATTAAAATATTAATATTTT
2020440 AATAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TAAATAAATTATTAAAATATTAATATTTT
Found at i:2023382 original size:10 final size:10
Alignment explanation
Indices: 2023364--2023393 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2023354 CCAGTATATA
*
2023364 AACATTCTGC
1 AACAATCTGC
2023374 AACAATCTGC
1 AACAATCTGC
2023384 AACAATCTGC
1 AACAATCTGC
2023394 CTATTACCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.30, G:0.10, T:0.23
Consensus pattern (10 bp):
AACAATCTGC
Found at i:2031869 original size:20 final size:21
Alignment explanation
Indices: 2031844--2031882 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2031834 AATAATTTGG
*
2031844 TAATTTTTATTTA-ATTTTAA
1 TAATTTATATTTATATTTTAA
2031864 TAATTTATATTTATATTTT
1 TAATTTATATTTATATTTT
2031883 TATAGAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TAATTTATATTTATATTTTAA
Found at i:2032257 original size:2 final size:2
Alignment explanation
Indices: 2032252--2032288 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2032242 AATGTACAGT
2032252 TA TA TA TA TA 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 TA TA TA TA TA T
2032289 GCCTGTGTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2033130 original size:6 final size:6
Alignment explanation
Indices: 2033119--2033149 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
2033109 TGTAATATTT
2033119 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG T
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG T
2033150 ACAATATGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:2034919 original size:14 final size:14
Alignment explanation
Indices: 2034900--2034926 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2034890 CTCGTTTTCA
2034900 AAAAACTAAAATTT
1 AAAAACTAAAATTT
2034914 AAAAACTAAAATT
1 AAAAACTAAAATT
2034927 ATATTATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAACTAAAATTT
Found at i:2034965 original size:17 final size:18
Alignment explanation
Indices: 2034945--2035020 Score: 72
Period size: 17 Copynumber: 4.4 Consensus size: 18
2034935 ATAAAATATT
2034945 AATTAAATTATATT-ATA
1 AATTAAATTATATTAATA
* *
2034962 AATTAAATAATATTAATTT
1 AATTAAATTATATTAA-TA
*
2034981 AATTAAA--ATATTAAAA
1 AATTAAATTATATTAATA
*
2034997 AATTAAATT-T-TTTATA
1 AATTAAATTATATTAATA
2035013 AATTAAAT
1 AATTAAAT
2035021 AATTAAATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
16 19 0.39
17 21 0.43
18 1 0.02
19 8 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTAAATTATATTAATA
Found at i:2034976 original size:27 final size:27
Alignment explanation
Indices: 2034922--2035023 Score: 97
Period size: 27 Copynumber: 3.9 Consensus size: 27
2034912 TTAAAAACTA
* * *
2034922 AAATTATATTAT-TATAAAATATTAATT
1 AAATTATATTATAAATTAAATAAT-ATT
2034949 AAATTATATTATAAATTAAATAATATT
1 AAATTATATTATAAATTAAATAATATT
* *
2034976 AATTTA-ATTAAAATATTAAA-AA-ATT
1 AAATTATATTATAA-ATTAAATAATATT
*
2035001 AAATT-TTTTATAAATTAAATAAT
1 AAATTATATTATAAATTAAATAAT
2035024 TAAATAATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
24 6 0.10
25 14 0.23
26 8 0.13
27 26 0.42
28 8 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AAATTATATTATAAATTAAATAATATT
Found at i:2036308 original size:5 final size:5
Alignment explanation
Indices: 2036298--2036338 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
2036288 ACTTGTATCT
*
2036298 TATTA TATTA TATTA TATTA TA-TA TGATTA AATTA -ATTA TA
1 TATTA TATTA TATTA TATTA TATTA T-ATTA TATTA TATTA TA
2036339 AGGAAGCTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
4 7 0.22
5 23 0.72
6 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (5 bp):
TATTA
Found at i:2042243 original size:3 final size:3
Alignment explanation
Indices: 2042235--2042262 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2042225 TAATTATATG
2042235 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2042263 ACTTTTGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2051926 original size:2 final size:2
Alignment explanation
Indices: 2051919--2051962 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
2051909 TCTTTATAAA
*
2051919 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2051961 AT
1 AT
2051963 CAATTCAGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Done.