Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019879.1 Corchorus olitorius cultivar O-4 contig19912, 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: 2497
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29


Found at i:388 original size:10 final size:10

Alignment explanation


    Indices: 373--397  Score: 50
    Period size: 10  Copynumber: 2.5  Consensus size: 10

        363 GTAGAAATTT

                      
        373 TTTTTTTATA
          1 TTTTTTTATA

                      
        383 TTTTTTTATA
          1 TTTTTTTATA

                 
        393 TTTTT
          1 TTTTT

        398 GAAATATTTT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   15  1.00

ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84


Consensus pattern (10 bp):   
TTTTTTTATA

Found at i:1447 original size:21 final size:21

Alignment explanation


    Indices: 1421--1462  Score: 75
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       1411 GCATCTTAGG

                                 
       1421 CAACTCCGATGAGCTTGAAAC
          1 CAACTCCGATGAGCTTGAAAC

                  *              
       1442 CAACTCTGATGAGCTTGAAAC
          1 CAACTCCGATGAGCTTGAAAC

       1463 TTCTTCCTTA


Statistics
Matches: 20,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  21   20  1.00

ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21


Consensus pattern (21 bp):   
CAACTCCGATGAGCTTGAAAC

Found at i:1669 original size:83 final size:83

Alignment explanation


    Indices: 1492--1655  Score: 310
    Period size: 83  Copynumber: 2.0  Consensus size: 83

       1482 AGCTTCTCCA

                                                                             
       1492 AGCCTCCTTGCCGCATATGCACATCCTCTCCATGATCTCCATTGGGCTCTTCAAGACCATGATGA
          1 AGCCTCCTTGCCGCATATGCACATCCTCTCCATGATCTCCATTGGGCTCTTCAAGACCATGATGA

                              
       1557 GTCCTTGGCGCATCACCG
         66 GTCCTTGGCGCATCACCG

                                                        *       *            
       1575 AGCCTCCTTGCCGCATATGCACATCCTCTCCATGATCTCCATTGTGCTCTTCTAGACCATGATGA
          1 AGCCTCCTTGCCGCATATGCACATCCTCTCCATGATCTCCATTGGGCTCTTCAAGACCATGATGA

                            
       1640 GTCCTTGGCGCATCAC
         66 GTCCTTGGCGCATCAC

       1656 TTTTAGCTCT


Statistics
Matches: 79,  Mismatches: 2, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  83   79  1.00

ACGTcount: A:0.19, C:0.35, G:0.18, T:0.28


Consensus pattern (83 bp):   
AGCCTCCTTGCCGCATATGCACATCCTCTCCATGATCTCCATTGGGCTCTTCAAGACCATGATGA
GTCCTTGGCGCATCACCG
Done.