Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001653.1 Corchorus olitorius cultivar O-4 contig01653, 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: 1921
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34


Found at i:1375 original size:19 final size:19

Alignment explanation


    Indices: 1339--1375  Score: 56
    Period size: 19  Copynumber: 1.9  Consensus size: 19

       1329 TGTATCTGTA

                        **     
       1339 ACCGTTTCATCATTGTTTG
          1 ACCGTTTCATCACCGTTTG

                              
       1358 ACCGTTTCATCACCGTTT
          1 ACCGTTTCATCACCGTTT

       1376 TGGATCCAAA


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  19   16  1.00

ACGTcount: A:0.16, C:0.27, G:0.14, T:0.43


Consensus pattern (19 bp):   
ACCGTTTCATCACCGTTTG

Found at i:1451 original size:21 final size:21

Alignment explanation


    Indices: 1426--1489  Score: 71
    Period size: 21  Copynumber: 3.1  Consensus size: 21

       1416 GTTGATCTAA

                                 
       1426 TAATCTCATCTGTACAGTACC
          1 TAATCTCATCTGTACAGTACC

                        *         
       1447 TAATCT-ATTCTATACAGTA--
          1 TAATCTCA-TCTGTACAGTACC

                     *        *  
       1466 TAATCTCATATGTACAGTTCC
          1 TAATCTCATCTGTACAGTACC

               
       1487 TAA
          1 TAA

       1490 ACAGTGTCAA


Statistics
Matches: 35,  Mismatches: 4, Indels: 8
        0.74            0.09        0.17

Matches are distributed among these distances:
  19   14  0.40
  20    2  0.06
  21   19  0.54

ACGTcount: A:0.33, C:0.22, G:0.08, T:0.38


Consensus pattern (21 bp):   
TAATCTCATCTGTACAGTACC
Done.