Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013177.1 Corchorus olitorius cultivar O-4 contig13210, 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: 11799
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33


Found at i:295 original size:15 final size:17

Alignment explanation


    Indices: 265--304  Score: 57
    Period size: 15  Copynumber: 2.5  Consensus size: 17

        255 AACGAATTAA

                             
        265 TTAAATAAATATAAATT
          1 TTAAATAAATATAAATT

                             
        282 TTAAATAAA-A-AAATT
          1 TTAAATAAATATAAATT

             *      
        297 TCAAATAA
          1 TTAAATAA

        305 TTTTGGGAAG


Statistics
Matches: 22,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  15   12  0.55
  16    1  0.05
  17    9  0.41

ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35


Consensus pattern (17 bp):   
TTAAATAAATATAAATT

Found at i:1827 original size:13 final size:13

Alignment explanation


    Indices: 1809--1834  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

       1799 GCTGCTTCAG

                         
       1809 GACATTTCTACCT
          1 GACATTTCTACCT

                         
       1822 GACATTTCTACCT
          1 GACATTTCTACCT

       1835 TGACTGTGAT


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38


Consensus pattern (13 bp):   
GACATTTCTACCT

Found at i:6277 original size:14 final size:16

Alignment explanation


    Indices: 6255--6287  Score: 52
    Period size: 15  Copynumber: 2.2  Consensus size: 16

       6245 CCTAGCATTT

                            
       6255 TCTGCCATGA-CATAA
          1 TCTGCCATGAGCATAA

                            
       6270 TCTG-CATGAGCATAA
          1 TCTGCCATGAGCATAA

               
       6285 TCT
          1 TCT

       6288 TGTCTGTATT


Statistics
Matches: 17,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  14    5  0.29
  15   12  0.71

ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30


Consensus pattern (16 bp):   
TCTGCCATGAGCATAA

Done.