Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01003086.1 Corchorus olitorius cultivar O-4 contig03091, 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, 792

Length: 1321
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30


Found at i:1123 original size:18 final size:18

Alignment explanation


    Indices: 1100--1164  Score: 112
    Period size: 18  Copynumber: 3.6  Consensus size: 18

       1090 CGATCGATAT

                              
       1100 CGTCACTATCATCAATAG
          1 CGTCACTATCATCAATAG

                              
       1118 CGTCACTATCATCAATAG
          1 CGTCACTATCATCAATAG

                    *        *
       1136 CGTCACTAGCATCAATAT
          1 CGTCACTATCATCAATAG

                       
       1154 CGTCACTATCA
          1 CGTCACTATCA

       1165 CTATCATCCA


Statistics
Matches: 44,  Mismatches: 3, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  18   44  1.00

ACGTcount: A:0.32, C:0.29, G:0.11, T:0.28


Consensus pattern (18 bp):   
CGTCACTATCATCAATAG

Found at i:1163 original size:9 final size:9

Alignment explanation


    Indices: 1097--1163  Score: 53
    Period size: 9  Copynumber: 7.4  Consensus size: 9

       1087 TCACGATCGA

                     
       1097 TATCGTCAC
          1 TATCGTCAC

                *   *
       1106 TATCATCAA
          1 TATCGTCAC

              *      
       1115 TAGCGTCAC
          1 TATCGTCAC

                *   *
       1124 TATCATCAA
          1 TATCGTCAC

              *      
       1133 TAGCGTCAC
          1 TATCGTCAC

              * *   *
       1142 TAGCATCAA
          1 TATCGTCAC

                     
       1151 TATCGTCAC
          1 TATCGTCAC

                
       1160 TATC
          1 TATC

       1164 ACTATCATCC


Statistics
Matches: 42,  Mismatches: 16, Indels: 0
        0.72            0.28        0.00

Matches are distributed among these distances:
   9   42  1.00

ACGTcount: A:0.31, C:0.28, G:0.10, T:0.30


Consensus pattern (9 bp):   
TATCGTCAC
Done.