Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020629.1 Corchorus olitorius cultivar O-4 contig20662, 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: 1832
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35


Found at i:1143 original size:10 final size:10

Alignment explanation


    Indices: 1124--1178  Score: 67
    Period size: 10  Copynumber: 5.3  Consensus size: 10

       1114 TACATTGGCT

                 *    
       1124 TTTTTTTTTG
          1 TTTTTGTTTG

                      
       1134 TTTTTGTTTG
          1 TTTTTGTTTG

                      
       1144 TTTTTGTTT-
          1 TTTTTGTTTG

                       
       1153 TTTTTGTTTTG
          1 TTTTTG-TTTG

                        
       1164 TTTTTTTGTTTG
          1 --TTTTTGTTTG

               
       1176 TTT
          1 TTT

       1179 ATCTTGCATG


Statistics
Matches: 40,  Mismatches: 1, Indels: 8
        0.82            0.02        0.16

Matches are distributed among these distances:
   9    6  0.15
  10   24  0.60
  12    4  0.10
  13    6  0.15

ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85


Consensus pattern (10 bp):   
TTTTTGTTTG

Found at i:1377 original size:33 final size:33

Alignment explanation


    Indices: 1335--1402  Score: 127
    Period size: 33  Copynumber: 2.1  Consensus size: 33

       1325 TTTTTCTCGA

                         *                   
       1335 GTTCTAAGTTCTGCTTTTCCTTATGTGATACAT
          1 GTTCTAAGTTCTGATTTTCCTTATGTGATACAT

                                             
       1368 GTTCTAAGTTCTGATTTTCCTTATGTGATACAT
          1 GTTCTAAGTTCTGATTTTCCTTATGTGATACAT

              
       1401 GT
          1 GT

       1403 CAAACCTGCA


Statistics
Matches: 34,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  33   34  1.00

ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49


Consensus pattern (33 bp):   
GTTCTAAGTTCTGATTTTCCTTATGTGATACAT
Done.