Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01004323.1 Corchorus olitorius cultivar O-4 contig04336, 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, 807

Length: 1345
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29


Found at i:1216 original size:18 final size:18

Alignment explanation


    Indices: 1193--1257  Score: 112
    Period size: 18  Copynumber: 3.6  Consensus size: 18

       1183 CGATCGATAT

                              
       1193 CGTCACTATCATCAATAG
          1 CGTCACTATCATCAATAG

                              
       1211 CGTCACTATCATCAATAG
          1 CGTCACTATCATCAATAG

                    *        *
       1229 CGTCACTAGCATCAATAT
          1 CGTCACTATCATCAATAG

                       
       1247 CGTCACTATCA
          1 CGTCACTATCA

       1258 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:1256 original size:9 final size:9

Alignment explanation


    Indices: 1190--1256  Score: 53
    Period size: 9  Copynumber: 7.4  Consensus size: 9

       1180 TCACGATCGA

                     
       1190 TATCGTCAC
          1 TATCGTCAC

                *   *
       1199 TATCATCAA
          1 TATCGTCAC

              *      
       1208 TAGCGTCAC
          1 TATCGTCAC

                *   *
       1217 TATCATCAA
          1 TATCGTCAC

              *      
       1226 TAGCGTCAC
          1 TATCGTCAC

              * *   *
       1235 TAGCATCAA
          1 TATCGTCAC

                     
       1244 TATCGTCAC
          1 TATCGTCAC

                
       1253 TATC
          1 TATC

       1257 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.