Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001912.1 Corchorus olitorius cultivar O-4 contig01912, 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, 710

Length: 1184
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35


Found at i:263 original size:31 final size:31

Alignment explanation


    Indices: 228--289  Score: 106
    Period size: 31  Copynumber: 2.0  Consensus size: 31

        218 AAAGTTATTA

                       * *                 
        228 ATGAATATTGTGATTATTCATGAATCAAGAG
          1 ATGAATATTGTAAATATTCATGAATCAAGAG

                                           
        259 ATGAATATTGTAAATATTCATGAATCAAGAG
          1 ATGAATATTGTAAATATTCATGAATCAAGAG

        290 TTCTCTTCTG


Statistics
Matches: 29,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  31   29  1.00

ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34


Consensus pattern (31 bp):   
ATGAATATTGTAAATATTCATGAATCAAGAG

Found at i:1073 original size:70 final size:73

Alignment explanation


    Indices: 988--1124  Score: 235
    Period size: 74  Copynumber: 1.9  Consensus size: 73

        978 AATTAACATA

                                                                             
        988 ATATGCATGCACGTCAATTACGAATCA-CC-G-GAGCATATTATTTTTGCGTTCTACCACCTGCA
          1 ATATGCATGCACGTCAATTACGAATCACCCAGAGAGCATATTATTTTTGCGTTCTACCACCTGCA

                    
       1050 CATGATAT
         66 CATGATAT

                                                              *              
       1058 ATATGCATGCACGTCAATTACGAATCACCCGAGAGAGCATATTATTTTTGTGTTCTACCACCTGC
          1 ATATGCATGCACGTCAATTACGAATCACCC-AGAGAGCATATTATTTTTGCGTTCTACCACCTGC

              
       1123 AC
         65 AC

       1125 TTCTCACATC


Statistics
Matches: 62,  Mismatches: 1, Indels: 4
        0.93            0.01        0.06

Matches are distributed among these distances:
  70   27  0.44
  71    2  0.03
  73    1  0.02
  74   32  0.52

ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31


Consensus pattern (73 bp):   
ATATGCATGCACGTCAATTACGAATCACCCAGAGAGCATATTATTTTTGCGTTCTACCACCTGCA
CATGATAT

Found at i:1156 original size:2 final size:2

Alignment explanation


    Indices: 1149--1184  Score: 72
    Period size: 2  Copynumber: 18.0  Consensus size: 2

       1139 ATATCTTTGC

                                                                 
       1149 AT AT AT AT AT AT 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


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   34  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.