Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016263.1 Corchorus olitorius cultivar O-4 contig16296, 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: 40468
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:63 original size:25 final size:24
Alignment explanation
Indices: 39--93 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
29 TGCCATATAT
39 TAAAGAAAAAAAGGAAGCACAATA
1 TAAAGAAAAAAAGGAAGCACAATA
* *
63 TCAAAG-AAGAAAGGGAGCACAATA
1 T-AAAGAAAAAAAGGAAGCACAATA
87 -AAAGAAA
1 TAAAGAAA
94 GTGGTAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.15
23 2 0.07
24 17 0.63
25 4 0.15
ACGTcount: A:0.64, C:0.09, G:0.20, T:0.07
Consensus pattern (24 bp):
TAAAGAAAAAAAGGAAGCACAATA
Found at i:156 original size:21 final size:21
Alignment explanation
Indices: 130--172 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
120 TGCATATTAG
130 ATTACCTATGAGAGTAAGTGA
1 ATTACCTATGAGAGTAAGTGA
151 ATTACCTATGAGAGTAAGTGA
1 ATTACCTATGAGAGTAAGTGA
172 A
1 A
173 ATGTAAGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (21 bp):
ATTACCTATGAGAGTAAGTGA
Found at i:1378 original size:2 final size:2
Alignment explanation
Indices: 1328--1360 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1318 GAATCCAAGT
*
1328 TA TA TA TA TA TA TA TA TG 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 T
1361 TTGAATTTAA
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:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2360 original size:2 final size:2
Alignment explanation
Indices: 2353--2381 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2343 GTGGTACATA
2353 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
2382 TTACTATTTC
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2427 original size:71 final size:71
Alignment explanation
Indices: 2311--2446 Score: 272
Period size: 71 Copynumber: 1.9 Consensus size: 71
2301 CTTTCATATT
2311 TTACTATTTCATTTCACAAAGATGAAGAACCTGTGGTACATAACACACACACACACACACACACA
1 TTACTATTTCATTTCACAAAGATGAAGAACCTGTGGTACATAACACACACACACACACACACACA
2376 CACACA
66 CACACA
2382 TTACTATTTCATTTCACAAAGATGAAGAACCTGTGGTACATAACACACACACACACACACACACA
1 TTACTATTTCATTTCACAAAGATGAAGAACCTGTGGTACATAACACACACACACACACACACACA
2447 TTTGTCACAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.42, C:0.29, G:0.09, T:0.21
Consensus pattern (71 bp):
TTACTATTTCATTTCACAAAGATGAAGAACCTGTGGTACATAACACACACACACACACACACACA
CACACA
Found at i:6705 original size:26 final size:26
Alignment explanation
Indices: 6676--6727 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
6666 TTTTCTCAAA
*
6676 CTATTTTCTTAATCTCTAGTTTAATT
1 CTATTTTATTAATCTCTAGTTTAATT
** *
6702 CTATTTTATTGTTTTCTAGTTTAATT
1 CTATTTTATTAATCTCTAGTTTAATT
6728 TGCCTATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (26 bp):
CTATTTTATTAATCTCTAGTTTAATT
Found at i:9559 original size:13 final size:11
Alignment explanation
Indices: 9441--9554 Score: 67
Period size: 11 Copynumber: 10.8 Consensus size: 11
9431 ATTATGCTAT
*
9441 TATATATCAAA
1 TATATATAAAA
* **
9452 TATATTTATGA
1 TATATATAAAA
9463 TATATATAAAA
1 TATATATAAAA
*
9474 TATAT-T-TAA
1 TATATATAAAA
* **
9483 T-TATTTATGA
1 TATATATAAAA
9493 TATATATAAAA
1 TATATATAAAA
* *
9504 TACATGT-AAA
1 TATATATAAAA
*
9514 -ATATATAAAT
1 TATATATAAAA
* **
9524 TATATTTATGA
1 TATATATAAAA
9535 TATATATAAAA
1 TATATATAAAA
9546 TATATATAA
1 TATATATAA
9555 CAAATTTTTT
Statistics
Matches: 74, Mismatches: 24, Indels: 10
0.69 0.22 0.09
Matches are distributed among these distances:
8 3 0.04
9 8 0.11
10 9 0.12
11 54 0.73
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (11 bp):
TATATATAAAA
Found at i:13010 original size:18 final size:19
Alignment explanation
Indices: 12982--13017 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
12972 AAATTTAATG
12982 AAATATAATATTAATTAAA
1 AAATATAATATTAATTAAA
13001 AAAT-TAATATTAATTAA
1 AAATATAATATTAATTAA
13018 TTAAGTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATATAATATTAATTAAA
Found at i:14320 original size:18 final size:21
Alignment explanation
Indices: 14270--14320 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
14260 TGAAAACATG
14270 AGAGCTTGGAGAGAACAGTCA
1 AGAGCTTGGAGAGAACAGTCA
*
14291 GGAGCTTGGAGAGAACA-TCA
1 AGAGCTTGGAGAGAACAGTCA
14311 AG-GC-TGGAGA
1 AGAGCTTGGAGA
14321 CCGGATCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 6 0.21
19 2 0.07
20 4 0.14
21 16 0.57
ACGTcount: A:0.35, C:0.14, G:0.37, T:0.14
Consensus pattern (21 bp):
AGAGCTTGGAGAGAACAGTCA
Found at i:16394 original size:79 final size:79
Alignment explanation
Indices: 16302--16461 Score: 320
Period size: 79 Copynumber: 2.0 Consensus size: 79
16292 GAGCAATGTT
16302 GAGATTTCTTTCTTTATTGTTGTTTATCAACGTGTGGAATGGTGGAAATTGACTGCAAAGGGAAG
1 GAGATTTCTTTCTTTATTGTTGTTTATCAACGTGTGGAATGGTGGAAATTGACTGCAAAGGGAAG
16367 ACTTTGGTTGTTGG
66 ACTTTGGTTGTTGG
16381 GAGATTTCTTTCTTTATTGTTGTTTATCAACGTGTGGAATGGTGGAAATTGACTGCAAAGGGAAG
1 GAGATTTCTTTCTTTATTGTTGTTTATCAACGTGTGGAATGGTGGAAATTGACTGCAAAGGGAAG
16446 ACTTTGGTTGTTGG
66 ACTTTGGTTGTTGG
16460 GA
1 GA
16462 TTTCAGTTGT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.23, C:0.09, G:0.29, T:0.39
Consensus pattern (79 bp):
GAGATTTCTTTCTTTATTGTTGTTTATCAACGTGTGGAATGGTGGAAATTGACTGCAAAGGGAAG
ACTTTGGTTGTTGG
Found at i:17688 original size:2 final size:2
Alignment explanation
Indices: 17681--17705 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17671 AGATAGTAAG
17681 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
17706 ATTAAGATTT
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:18938 original size:27 final size:27
Alignment explanation
Indices: 18896--18947 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
18886 CGTCAGGTGA
18896 GATAACTATGCAGGATGAAATTGGCCT
1 GATAACTATGCAGGATGAAATTGGCCT
* *
18923 GATAATTATGCGGGATGAAATTGGC
1 GATAACTATGCAGGATGAAATTGGC
18948 GAGGCGCAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (27 bp):
GATAACTATGCAGGATGAAATTGGCCT
Found at i:19805 original size:17 final size:17
Alignment explanation
Indices: 19783--19821 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
19773 TCGAAAGGAC
19783 TTATTCTCAATTTGATG
1 TTATTCTCAATTTGATG
19800 TTATTCTCAATTTGATG
1 TTATTCTCAATTTGATG
19817 TTATT
1 TTATT
19822 ATTAACAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (17 bp):
TTATTCTCAATTTGATG
Found at i:22711 original size:4 final size:4
Alignment explanation
Indices: 22702--22737 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
22692 TGATATCTAA
22702 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA- AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
22738 CATTTTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:22960 original size:21 final size:21
Alignment explanation
Indices: 22900--22976 Score: 117
Period size: 21 Copynumber: 3.9 Consensus size: 21
22890 CATGGCTTCC
22900 CCAACACTCGTAACCCAACTT
1 CCAACACTCGTAACCCAACTT
*
22921 CCAA-ACTC-AAACCC--CTT
1 CCAACACTCGTAACCCAACTT
22938 CCAACACTCGTAACCCAACTT
1 CCAACACTCGTAACCCAACTT
22959 CCAACACTCGTAACCCAA
1 CCAACACTCGTAACCCAA
22977 AGCCACATCT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.14
18 4 0.08
19 10 0.20
20 4 0.08
21 25 0.50
ACGTcount: A:0.35, C:0.44, G:0.04, T:0.17
Consensus pattern (21 bp):
CCAACACTCGTAACCCAACTT
Found at i:24534 original size:136 final size:136
Alignment explanation
Indices: 24290--24561 Score: 535
Period size: 136 Copynumber: 2.0 Consensus size: 136
24280 ATAATTATCC
24290 CAGAACAAACTGCTGCACCCCAAGAGGAATTCTAGTTTGAAGTTGGCTTGCACTCCCGGGCAGTA
1 CAGAACAAACTGCTGCACCCCAAGAGGAATTCTAGTTTGAAGTTGGCTTGCACTCCCGGGCAGTA
24355 TTTGTTCCATATGCAGGTCAAGAATACAAGGAAGCAAGCCTGGAGATAAGGAGGAAAACGTTCAT
66 TTTGTTCCATATGCAGGTCAAGAATACAAGGAAGCAAGCCTGGAGATAAGGAGGAAAACGTTCAT
24420 ACTTAT
131 ACTTAT
*
24426 CAGAACAAACTGCTGCACCCCAAGAGGAATTCTAGTTTGAAGTTGGCTTGCACTCCCGTGCAGTA
1 CAGAACAAACTGCTGCACCCCAAGAGGAATTCTAGTTTGAAGTTGGCTTGCACTCCCGGGCAGTA
24491 TTTGTTCCATATGCAGGTCAAGAATACAAGGAAGCAAGCCTGGAGATAAGGAGGAAAACGTTCAT
66 TTTGTTCCATATGCAGGTCAAGAATACAAGGAAGCAAGCCTGGAGATAAGGAGGAAAACGTTCAT
24556 ACTTAT
131 ACTTAT
24562 AAAAAATTGA
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 135 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (136 bp):
CAGAACAAACTGCTGCACCCCAAGAGGAATTCTAGTTTGAAGTTGGCTTGCACTCCCGGGCAGTA
TTTGTTCCATATGCAGGTCAAGAATACAAGGAAGCAAGCCTGGAGATAAGGAGGAAAACGTTCAT
ACTTAT
Found at i:26212 original size:2 final size:2
Alignment explanation
Indices: 26205--26239 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
26195 GGTCTTATTA
26205 AT AT AT 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 AT AT AT A
26240 ACACGATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:29672 original size:52 final size:52
Alignment explanation
Indices: 29593--29777 Score: 289
Period size: 52 Copynumber: 3.5 Consensus size: 52
29583 CAATTTAAAA
29593 ACTTTGAAAACTGAATGGGAACTTTCCCGACTTGAAAAAGAGCTAAATTGAAT
1 ACTTTGAAAACTG-ATGGGAACTTTCCCGACTTGAAAAAGAGCTAAATTGAAT
*
29646 ACTTTGAAAACTGATGGGAACTTTCCCGACTTGAAAAGGAGCTAAATTGAAT
1 ACTTTGAAAACTGATGGGAACTTTCCCGACTTGAAAAAGAGCTAAATTGAAT
* * * * *
29698 ACTTTGGAGACTGATGAGAAATTTCCCGACTTGAAAGAGAGCTAAATTGAAT
1 ACTTTGAAAACTGATGGGAACTTTCCCGACTTGAAAAAGAGCTAAATTGAAT
*
29750 GCTTTGAAAACTTGATGGGAACTTTCCC
1 ACTTTGAAAAC-TGATGGGAACTTTCCC
29778 TAAATTGAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 92 0.77
53 27 0.23
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (52 bp):
ACTTTGAAAACTGATGGGAACTTTCCCGACTTGAAAAAGAGCTAAATTGAAT
Found at i:29838 original size:23 final size:23
Alignment explanation
Indices: 29780--29828 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
29770 ACTTTCCCTA
*
29780 AATTGAAAACTTTGAAAAACTTG
1 AATTGAATACTTTGAAAAACTTG
29803 AATTGAATACTTTG-AAAACTTTG
1 AATTGAATACTTTGAAAAAC-TTG
29826 AAT
1 AAT
29829 GACATTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (23 bp):
AATTGAATACTTTGAAAAACTTG
Found at i:29863 original size:16 final size:15
Alignment explanation
Indices: 29839--29873 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
29829 GACATTCTTT
29839 TTTTGATTTTTTGAA
1 TTTTGATTTTTTGAA
*
29854 TTTTGAATTTTTTGGA
1 TTTTG-ATTTTTTGAA
29870 TTTT
1 TTTT
29874 TGAAAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (15 bp):
TTTTGATTTTTTGAA
Found at i:29865 original size:17 final size:17
Alignment explanation
Indices: 29839--29877 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
29829 GACATTCTTT
29839 TTTTG-ATTTTTT-GAA
1 TTTTGAATTTTTTGGAA
*
29854 TTTTGAATTTTTTGGAT
1 TTTTGAATTTTTTGGAA
29871 TTTTGAA
1 TTTTGAA
29878 AACTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 7 0.33
17 9 0.43
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (17 bp):
TTTTGAATTTTTTGGAA
Found at i:37004 original size:108 final size:107
Alignment explanation
Indices: 36882--37076 Score: 286
Period size: 108 Copynumber: 1.8 Consensus size: 107
36872 TATAATTTTT
* * *
36882 TTTTTCTAAAACCCT-ATGGTAAAGGGTATCAAAATTTTAGATTTACCTTTAAAAAAATAAAACA
1 TTTTTCTAAAACCCTAAT-ATAAAGGGTATCAAAATTTAAGATTTACCCTT--AAAAATAAAACA
36946 T-CTTATAATTGGGGCTAAACCTTATTTACAGGTGTTTAAACTTA
63 TACTTATAATTGGGGCTAAACCTTATTTACAGGTGTTTAAACTTA
* * * *
36990 TTTTTCTAAAACCCTAATATAATGGGTCTTAAAATTTAAGATTTACCCTTAAAAATAAAACATAT
1 TTTTTCTAAAACCCTAATATAAAGGGTATCAAAATTTAAGATTTACCCTTAAAAATAAAACATAC
37055 TTATAATTGGGGCTAAACCTTA
66 TTATAATTGGGGCTAAACCTTA
37077 ATTATTCTCA
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
106 13 0.17
107 22 0.28
108 41 0.53
109 2 0.03
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (107 bp):
TTTTTCTAAAACCCTAATATAAAGGGTATCAAAATTTAAGATTTACCCTTAAAAATAAAACATAC
TTATAATTGGGGCTAAACCTTATTTACAGGTGTTTAAACTTA
Found at i:38162 original size:11 final size:11
Alignment explanation
Indices: 38146--38199 Score: 73
Period size: 11 Copynumber: 5.4 Consensus size: 11
38136 AATAATAATT
38146 ATTATTTTATA
1 ATTATTTTATA
38157 ATTATTTTATA
1 ATTATTTTATA
38168 ATTA---T-T-
1 ATTATTTTATA
38174 ATTATTTTATA
1 ATTATTTTATA
38185 ATTATTTTATA
1 ATTATTTTATA
38196 ATTA
1 ATTA
38200 GTATTATTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
6 4 0.11
7 1 0.03
8 1 0.03
9 1 0.03
10 1 0.03
11 30 0.79
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTATTTTATA
Found at i:38162 original size:28 final size:28
Alignment explanation
Indices: 38137--38208 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
38127 TATTTATTGA
*
38137 ATAATAATTATTATTTTATAATTATTTT
1 ATAATTATTATTATTTTATAATTATTTT
38165 ATAATTATTATTATTTTATAATTATTTT
1 ATAATTATTATTATTTTATAATTATTTT
*
38193 ATAATTAGTATTATTT
1 ATAATTATTATTATTT
38209 CAGTAAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (28 bp):
ATAATTATTATTATTTTATAATTATTTT
Found at i:38187 original size:17 final size:17
Alignment explanation
Indices: 38152--38194 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
38142 AATTATTATT
*
38152 TTATAATTATTTTATAA
1 TTATTATTATTTTATAA
38169 TTATTATTATTTTATAA
1 TTATTATTATTTTATAA
38186 TTATT-TTAT
1 TTATTATTAT
38195 AATTAGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATTATTTTATAA
Found at i:40435 original size:2 final size:2
Alignment explanation
Indices: 40421--40460 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
40411 GGTATTTATC
* *
40421 TA TA TA T- TC TA TA TA TC 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 TA TA T
40461 GTATTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:40441 original size:8 final size:8
Alignment explanation
Indices: 40417--40460 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
40407 GTGAGGTATT
40417 TATCTATA
1 TATCTATA
40425 TATTCTATA
1 TA-TCTATA
40434 TATCTATA
1 TATCTATA
*
40442 TATATATA
1 TATCTATA
*
40450 TATATATA
1 TATCTATA
40458 TAT
1 TAT
40461 GTATTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
8 26 0.76
9 8 0.24
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (8 bp):
TATCTATA
Done.