Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01021951.1 Corchorus olitorius cultivar O-4 contig21984, 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: 58551
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Found at i:2633 original size:24 final size:23
Alignment explanation
Indices: 2597--2642 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
2587 TTGAGTATTC
* *
2597 TCATTATTCAATGCTATCTTGATT
1 TCATGATTAAATG-TATCTTGATT
*
2621 TCATGATTAAATGTCTCTTGAT
1 TCATGATTAAATGTATCTTGAT
2643 ATGTGTGTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (23 bp):
TCATGATTAAATGTATCTTGATT
Found at i:9406 original size:48 final size:48
Alignment explanation
Indices: 9332--9477 Score: 181
Period size: 49 Copynumber: 3.0 Consensus size: 48
9322 AGCGTGCCAA
* *
9332 TCAATTTTGTCAAAAAATTGATAAAAA-GTGCAATGAAAAGTAAATAT
1 TCAATTTTGTCAAAAAATTGAGAAAAAGGTGCAATGAAAAGTAAAGAT
* * *
9379 TCAATTTTGTCATAAAAATTGAGAAAAAGGTGCAAGGAAAATTAAAGGT
1 TCAATTTTGTCA-AAAAATTGAGAAAAAGGTGCAATGAAAAGTAAAGAT
*
9428 TCAATTTTGTTGC-AAAAATTGAGAAAAAGGTGC-ATGAAATGTAAAAGAT
1 TCAATTTTG-T-CAAAAAATTGAGAAAAAGGTGCAATGAAAAGT-AAAGAT
9477 T
1 T
9478 GCTTTGAGTG
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
47 12 0.14
48 20 0.24
49 51 0.60
50 1 0.01
51 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (48 bp):
TCAATTTTGTCAAAAAATTGAGAAAAAGGTGCAATGAAAAGTAAAGAT
Found at i:17696 original size:2 final size:2
Alignment explanation
Indices: 17689--17730 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
17679 CCTTGTACTC
*
17689 AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17731 CAACAGAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:17875 original size:12 final size:12
Alignment explanation
Indices: 17858--17883 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17848 GGCCACCGAA
17858 TCCTCTACAACT
1 TCCTCTACAACT
17870 TCCTCTACAACT
1 TCCTCTACAACT
17882 TC
1 TC
17884 TGCCACCGCA
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:0.23, C:0.42, G:0.00, T:0.35
Consensus pattern (12 bp):
TCCTCTACAACT
Found at i:22939 original size:29 final size:30
Alignment explanation
Indices: 22900--22958 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
22890 TATAAATAAT
* *
22900 ATAATATAATTAAATAA-TTATATTTATAC
1 ATAATAAAATTAAATAATTTATATGTATAC
*
22929 ATAATAAAATTGAATAATTTATATGTATAC
1 ATAATAAAATTAAATAATTTATATGTATAC
22959 GTTAATTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (30 bp):
ATAATAAAATTAAATAATTTATATGTATAC
Found at i:23083 original size:26 final size:25
Alignment explanation
Indices: 23062--23111 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
23052 TGTTTAAATT
*
23062 TTATTTT-TTATTAAAAAATTTAGTA
1 TTATTTTATT-TTAAAAAATTTAATA
23087 TTATTTTATTTTAAAAAA-TTAATA
1 TTATTTTATTTTAAAAAATTTAATA
23111 T
1 T
23112 GGGCGGCCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 15 0.65
26 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
TTATTTTATTTTAAAAAATTTAATA
Found at i:24323 original size:14 final size:14
Alignment explanation
Indices: 24304--24339 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
24294 AGTTTGTAGG
24304 TATATATACCTATA
1 TATATATACCTATA
24318 TATATATACCTATA
1 TATATATACCTATA
24332 TATATATA
1 TATATATA
24340 GTAATAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATATACCTATA
Found at i:25153 original size:31 final size:29
Alignment explanation
Indices: 25118--25190 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
25108 GCTAAATACC
* *
25118 CAAAAAAATCTCTTATATTTTGCTTTTGGGA
1 CAAAAAAATCCCTTATATTTT--TTTCGGGA
* *
25149 CAAAATAATCCCTTATGTTTTTTTCGGGA
1 CAAAAAAATCCCTTATATTTTTTTCGGGA
**
25178 CAAATTAATCCCT
1 CAAAAAAATCCCT
25191 CACGTTTCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 19 0.51
31 18 0.49
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.40
Consensus pattern (29 bp):
CAAAAAAATCCCTTATATTTTTTTCGGGA
Found at i:25197 original size:29 final size:28
Alignment explanation
Indices: 25141--25197 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
25131 TATATTTTGC
* *
25141 TTTTGGGACAAAATAATCCCTTATGTTT
1 TTTTGGGACAAAATAATCCCTCACGTTT
*
25169 TTTTCGGGACAAATTAATCCCTCACGTTT
1 TTTT-GGGACAAAATAATCCCTCACGTTT
25198 CAAAAATGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (28 bp):
TTTTGGGACAAAATAATCCCTCACGTTT
Found at i:25380 original size:31 final size:31
Alignment explanation
Indices: 25345--25404 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
25335 GACTAACTTG
25345 TCCCAAAAGAAAAACATAAGGGATTTTTTTA
1 TCCCAAAAGAAAAACATAAGGGATTTTTTTA
25376 TCCCAAAAGAAAAACATAAGGGATTTTTT
1 TCCCAAAAGAAAAACATAAGGGATTTTTT
25405 CAGTATTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.28
Consensus pattern (31 bp):
TCCCAAAAGAAAAACATAAGGGATTTTTTTA
Found at i:25909 original size:20 final size:20
Alignment explanation
Indices: 25881--25918 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25871 ATAAGTGGAT
* *
25881 ATTTTATAAATTTATATTCA
1 ATTTAATAAATCTATATTCA
25901 ATTTAATAAATCTATATT
1 ATTTAATAAATCTATATT
25919 ATATATAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTAATAAATCTATATTCA
Found at i:26362 original size:151 final size:149
Alignment explanation
Indices: 26087--26373 Score: 395
Period size: 151 Copynumber: 1.9 Consensus size: 149
26077 TCTTTTTACT
*
26087 ATTTTAATATTTTTCATTAAAAACTAGGATATATAAAATTTTTTAATATACAGTTTTATTCTACT
1 ATTTTAATATTTTTCATTAAAAACTAGGATATATAAAATTTTTTAATATACAGTTTTATTCTACA
* *
26152 AAAAATTCTATTTTCATTTAATTAAATTCAAAATTTTATAATTATTTTATTTTTACCATTTTAAT
66 AAAAACTCTATTTTCATTTAATTAAATTCAAAATTTTATAATTATTTTATTTTTACCATTTGAAT
26217 TTAAAAGTTTATTTCTACC
131 TTAAAAGTTTATTTCTACC
* * ** *
26236 ATTTTACTATTTTTCATTAAGAACGT-GGATATATTGAA-TTTTTAATATACTA-TTTTATTTTA
1 ATTTTAATATTTTTCATTAAAAAC-TAGGATATATAAAATTTTTTAATATAC-AGTTTTATTCTA
*
26298 CAAAAAAAAACTCTA-TTTCATTTAA-TACAATTCAATATTTTTATAATTATTTTATTTTTACCA
64 C---AAAAAACTCTATTTTCATTTAATTA-AATTCAA-AATTTTATAATTATTTTATTTTTACCA
26361 TTTGAATTTAAAA
124 TTTGAATTTAAAA
26374 AGGTGATTGT
Statistics
Matches: 122, Mismatches: 9, Indels: 12
0.85 0.06 0.08
Matches are distributed among these distances:
148 22 0.18
149 35 0.29
150 18 0.15
151 47 0.39
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (149 bp):
ATTTTAATATTTTTCATTAAAAACTAGGATATATAAAATTTTTTAATATACAGTTTTATTCTACA
AAAAACTCTATTTTCATTTAATTAAATTCAAAATTTTATAATTATTTTATTTTTACCATTTGAAT
TTAAAAGTTTATTTCTACC
Found at i:26788 original size:48 final size:48
Alignment explanation
Indices: 26733--26839 Score: 214
Period size: 48 Copynumber: 2.2 Consensus size: 48
26723 ATCGCTCAAA
26733 TGTCGGGTCATTTCAGTTTGGGTCAATTTTGGTTCGAGTCTTTTTCGG
1 TGTCGGGTCATTTCAGTTTGGGTCAATTTTGGTTCGAGTCTTTTTCGG
26781 TGTCGGGTCATTTCAGTTTGGGTCAATTTTGGTTCGAGTCTTTTTCGG
1 TGTCGGGTCATTTCAGTTTGGGTCAATTTTGGTTCGAGTCTTTTTCGG
26829 TGTCGGGTCAT
1 TGTCGGGTCAT
26840 ATGGTTAGGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.10, C:0.15, G:0.30, T:0.45
Consensus pattern (48 bp):
TGTCGGGTCATTTCAGTTTGGGTCAATTTTGGTTCGAGTCTTTTTCGG
Found at i:26809 original size:16 final size:15
Alignment explanation
Indices: 26735--26805 Score: 52
Period size: 16 Copynumber: 4.5 Consensus size: 15
26725 CGCTCAAATG
26735 TCGGGTCATTTCAGT
1 TCGGGTCATTTCAGT
* **
26750 TTGGGTCAATTTTGGT
1 TCGGGTC-ATTTCAGT
* * *
26766 TCGAGTCTTTTTCGGT
1 TCGGGTC-ATTTCAGT
26782 GTCGGGTCATTTCAGT
1 -TCGGGTCATTTCAGT
*
26798 TTGGGTCA
1 TCGGGTCA
26806 ATTTTGGTTC
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
15 13 0.31
16 23 0.55
17 6 0.14
ACGTcount: A:0.11, C:0.15, G:0.30, T:0.44
Consensus pattern (15 bp):
TCGGGTCATTTCAGT
Found at i:30287 original size:33 final size:33
Alignment explanation
Indices: 30245--30312 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
30235 TTGAACTAAG
*
30245 TAACTATTAATTTCACTTCTTTATGCAAAGTTC
1 TAACTATTAATTTCACTTCTTAATGCAAAGTTC
30278 TAACTATTAATTTCACTTCTTAATGCAAAGTTC
1 TAACTATTAATTTCACTTCTTAATGCAAAGTTC
30311 TA
1 TA
30313 TTTAATTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (33 bp):
TAACTATTAATTTCACTTCTTAATGCAAAGTTC
Found at i:31174 original size:109 final size:107
Alignment explanation
Indices: 30963--31177 Score: 371
Period size: 109 Copynumber: 2.0 Consensus size: 107
30953 TAGTCATTTT
30963 GGTGCTTGTATTTTTCTTTAAATCCAATAGTTCATTGCTCTTTGTATTGTTTGGTATGTGTGCTT
1 GGTGCTTGTATTTTTCTTTAAATCCAATAGTTCATTGCTCTTTGTATTGTTTGGTATGTGTGC-T
31028 ATTTAATAGGTTCAATTGAATAAACAACACAATTAATAATAATA
65 -TTTAATAGGTTCAATTGAATAAACAACACAATTAATAATAATA
*
31072 GGTGCTTGTATTTTTCTTTAAATCCAATAGTTTATTGCAT-TTTGTATTGTTTGGTATGTGTGC-
1 GGTGCTTGTATTTTTCTTTAAATCCAATAGTTCATTGC-TCTTTGTATTGTTTGGTATGTGTGCT
*
31135 TTTAATAGGTTCAATTGAATAAACCACACAATTAATAATAATA
65 TTTAATAGGTTCAATTGAATAAACAACACAATTAATAATAATA
31178 TATATAATAG
Statistics
Matches: 103, Mismatches: 2, Indels: 5
0.94 0.02 0.05
Matches are distributed among these distances:
106 42 0.41
109 60 0.58
110 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (107 bp):
GGTGCTTGTATTTTTCTTTAAATCCAATAGTTCATTGCTCTTTGTATTGTTTGGTATGTGTGCTT
TTAATAGGTTCAATTGAATAAACAACACAATTAATAATAATA
Found at i:31906 original size:12 final size:12
Alignment explanation
Indices: 31889--31923 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
31879 TCAAGATTCT
31889 TCTTCTTCTTCA
1 TCTTCTTCTTCA
*
31901 TCTTCTTCTGCA
1 TCTTCTTCTTCA
*
31913 TCTTCATCTTC
1 TCTTCTTCTTC
31924 CCCTGGTAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.34, G:0.03, T:0.54
Consensus pattern (12 bp):
TCTTCTTCTTCA
Found at i:35984 original size:37 final size:37
Alignment explanation
Indices: 35934--36010 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
35924 AAGGCTTTCC
*
35934 ACCATGGAGGCCTTCTTTGGCACCAATAGGTTTCAGA
1 ACCATGGAGGCCTTCTTTGACACCAATAGGTTTCAGA
35971 ACCATGGAGGCCTTCTTTGACACCAATAGGTTTCAGA
1 ACCATGGAGGCCTTCTTTGACACCAATAGGTTTCAGA
36008 ACC
1 ACC
36011 TCAGTTTTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (37 bp):
ACCATGGAGGCCTTCTTTGACACCAATAGGTTTCAGA
Found at i:43667 original size:15 final size:16
Alignment explanation
Indices: 43634--43673 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
43624 TTACTTTGCT
43634 TTGTTTTCTAGTATAA
1 TTGTTTTCTAGTATAA
*
43650 TTGTTTTCT-GTTTAA
1 TTGTTTTCTAGTATAA
*
43665 TTGCTTTCT
1 TTGTTTTCT
43674 TACAACCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.62
Consensus pattern (16 bp):
TTGTTTTCTAGTATAA
Found at i:50330 original size:17 final size:17
Alignment explanation
Indices: 50308--50343 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
50298 TGATTTGTAA
50308 AGTTTGTTACACCAGAT
1 AGTTTGTTACACCAGAT
* *
50325 AGTTTGTTATACTAGAT
1 AGTTTGTTACACCAGAT
50342 AG
1 AG
50344 CTCTTTGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (17 bp):
AGTTTGTTACACCAGAT
Found at i:50573 original size:17 final size:17
Alignment explanation
Indices: 50551--50584 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50541 ATACAAAAAG
50551 CTATCTAGTATAACAAA
1 CTATCTAGTATAACAAA
* *
50568 CTATCTGGTGTAACAAA
1 CTATCTAGTATAACAAA
50585 TTTTACAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (17 bp):
CTATCTAGTATAACAAA
Found at i:52684 original size:28 final size:27
Alignment explanation
Indices: 52636--52689 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
52626 TTTTTTACTT
52636 TTTTTAAAAAATTAATAATTAGTTATTA
1 TTTTTAAAAAATTAATAATTA-TTATTA
* *
52664 TTTTTAAAAAATTAGTTATTATTATT
1 TTTTTAAAAAATTAATAATTATTATT
52690 TTATATGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (27 bp):
TTTTTAAAAAATTAATAATTATTATTA
Found at i:55105 original size:52 final size:52
Alignment explanation
Indices: 55048--55178 Score: 174
Period size: 52 Copynumber: 2.5 Consensus size: 52
55038 TTTTTTAGGA
**
55048 TAATTTATAAA-ACATAAGAATTAAAATAATATGAACATTATAAATGACATAT
1 TAATTTATAAATACATAA-AACAAAAATAATATGAACATTATAAATGACATAT
* *
55100 TAATTTGTAAATATATAAAACAAAAATAATATGAACATTATAAATGACATAT
1 TAATTTATAAATACATAAAACAAAAATAATATGAACATTATAAATGACATAT
* * * *
55152 TAATATGTAAATATATAAAATAAAAAT
1 TAATTTATAAATACATAAAACAAAAAT
55179 TAATTTTTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
52 67 0.93
53 5 0.07
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (52 bp):
TAATTTATAAATACATAAAACAAAAATAATATGAACATTATAAATGACATAT
Found at i:55116 original size:27 final size:27
Alignment explanation
Indices: 55074--55170 Score: 98
Period size: 26 Copynumber: 3.7 Consensus size: 27
55064 AGAATTAAAA
55074 TAATATG-AACAT-TATAAATGACATAT
1 TAATATGTAA-ATATATAAATGACATAT
* * *
55100 TAATTTGTAAATATATAAA--ACAAAAA
1 TAATATGTAAATATATAAATGAC-ATAT
55126 TAATATG-AACAT-TATAAATGACATAT
1 TAATATGTAA-ATATATAAATGACATAT
55152 TAATATGTAAATATATAAA
1 TAATATGTAAATATATAAA
55171 ATAAAAATTA
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
25 10 0.18
26 29 0.51
27 18 0.32
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (27 bp):
TAATATGTAAATATATAAATGACATAT
Found at i:55144 original size:18 final size:18
Alignment explanation
Indices: 55067--55144 Score: 51
Period size: 15 Copynumber: 4.5 Consensus size: 18
55057 AAACATAAGA
55067 ATTA-AAATAATATGAAC
1 ATTATAAATAATATGAAC
*
55084 ATTATAAATGACATATTAA-
1 ATTATAAAT-A-ATATGAAC
* * *
55103 TTTGTAAAT-ATATAAAAC
1 ATTATAAATAATAT-GAAC
55121 A--A-AAATAATATGAAC
1 ATTATAAATAATATGAAC
55136 ATTATAAAT
1 ATTATAAAT
55145 GACATATTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 17
0.65 0.10 0.25
Matches are distributed among these distances:
15 8 0.18
16 8 0.18
17 7 0.16
18 8 0.18
19 8 0.18
20 6 0.13
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (18 bp):
ATTATAAATAATATGAAC
Found at i:55180 original size:27 final size:27
Alignment explanation
Indices: 55098--55182 Score: 88
Period size: 26 Copynumber: 3.2 Consensus size: 27
55088 TAAATGACAT
* *
55098 ATTAATTTGTAAATATATAAAACAAAA
1 ATTAATATGTAAATATATAAAATAAAA
* *
55125 A-TAATATG-AACAT-TAT-AAATGACAT
1 ATTAATATGTAA-ATATATAAAAT-AAAA
55150 ATTAATATGTAAATATATAAAATAAAA
1 ATTAATATGTAAATATATAAAATAAAA
55177 ATTAAT
1 ATTAAT
55183 TTTTATAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
24 3 0.07
25 8 0.17
26 17 0.37
27 14 0.30
28 4 0.09
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.34
Consensus pattern (27 bp):
ATTAATATGTAAATATATAAAATAAAA
Done.