Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017110.1 Corchorus olitorius cultivar O-4 contig17143, 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: 7918
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32


Found at i:283 original size:51 final size:52

Alignment explanation


    Indices: 182--283  Score: 120
    Period size: 51  Copynumber: 2.0  Consensus size: 52

        172 GTTCATCAAA

                                                     * **       
        182 TTCTCCTTGTTTAGATCTTGTCTCAGGACAAACAAACACTCTTTTAGTGTTT
          1 TTCTCCTTGTTTAGATCTTGTCTCAGGACAAACAAACACTCGTACAGTGTTT

                                     *     *                     
        234 TTCT-CTTGTTTCA-ATCTTGTCTCCGGACATACAAACACT-GTACACGTGTT
          1 TTCTCCTTGTTT-AGATCTTGTCTCAGGACAAACAAACACTCGTACA-GTGTT

        284 CTTCATTCAG


Statistics
Matches: 43,  Mismatches: 5, Indels: 5
        0.81            0.09        0.09

Matches are distributed among these distances:
  50    2  0.05
  51   36  0.84
  52    5  0.12

ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40


Consensus pattern (52 bp):   
TTCTCCTTGTTTAGATCTTGTCTCAGGACAAACAAACACTCGTACAGTGTTT

Found at i:1406 original size:13 final size:13

Alignment explanation


    Indices: 1388--1412  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

       1378 TGAAAATATA

                         
       1388 AACCAAACAAAAG
          1 AACCAAACAAAAG

                        
       1401 AACCAAACAAAA
          1 AACCAAACAAAA

       1413 ACACAACAGG


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.72, C:0.24, G:0.04, T:0.00


Consensus pattern (13 bp):   
AACCAAACAAAAG
Done.