Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011466.1 Corchorus olitorius cultivar O-4 contig11499, 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: 4063
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38


Found at i:3175 original size:21 final size:21

Alignment explanation


    Indices: 3149--3193  Score: 56
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       3139 CCTTATAATA

                            *     
       3149 TTATAACATTTCTTA-TAACCT
          1 TTATAAC-TTTCTTAGCAACCT

                      *          
       3170 TTATAACTTTTTTAGCAACCT
          1 TTATAACTTTCTTAGCAACCT

               
       3191 TTA
          1 TTA

       3194 AGAAGAACAT


Statistics
Matches: 21,  Mismatches: 2, Indels: 2
        0.84            0.08        0.08

Matches are distributed among these distances:
  20    6  0.29
  21   15  0.71

ACGTcount: A:0.31, C:0.18, G:0.02, T:0.49


Consensus pattern (21 bp):   
TTATAACTTTCTTAGCAACCT

Found at i:3983 original size:62 final size:62

Alignment explanation


    Indices: 3886--4009  Score: 214
    Period size: 62  Copynumber: 2.0  Consensus size: 62

       3876 GTTAGTAAGA

                           *                                *             
       3886 AGATATTGCATTAACTGTAAGTTAATCAATTAGGAGAAACTCATACATTGAAACAAATAATT
          1 AGATATTGCATTAACGGTAAGTTAATCAATTAGGAGAAACTCATACATCGAAACAAATAATT

                                                                           
       3948 AGATATTGCATTGAA-GGTAAGTTAATCAATTAGGAGAAACTCATACATCGAAACAAATAATT
          1 AGATATTGCATT-AACGGTAAGTTAATCAATTAGGAGAAACTCATACATCGAAACAAATAATT

       4010 CGCATATATA


Statistics
Matches: 59,  Mismatches: 2, Indels: 2
        0.94            0.03        0.03

Matches are distributed among these distances:
  62   57  0.97
  63    2  0.03

ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29


Consensus pattern (62 bp):   
AGATATTGCATTAACGGTAAGTTAATCAATTAGGAGAAACTCATACATCGAAACAAATAATT
Done.