Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016480.1 Corchorus capsularis cultivar CVL-1 contig16501, 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: 4032
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34


Found at i:1264 original size:41 final size:42

Alignment explanation


    Indices: 1206--1348  Score: 161
    Period size: 41  Copynumber: 3.5  Consensus size: 42

       1196 CTTGTGTTAC

                                                      
       1206 ATGTGTTT-AGGGACTTTGATATAGATGCCTCTGTGTTATAA
          1 ATGTGTTTGAGGGACTTTGATATAGATGCCTCTGTGTTATAA

                 *              * *         *           
       1247 ATGTGCTTGAGGG-CTTTGAGAGAGAGTTGCCCCTGTGTTATAA
          1 ATGTGTTTGAGGGACTTTGATATAGA--TGCCTCTGTGTTATAA

            *                *                       * 
       1290 TTGTGTTTG-GGGACTTCGATATTA-ATGCCTCTGTGTTATGA
          1 ATGTGTTTGAGGGACTTTGATA-TAGATGCCTCTGTGTTATAA

                               
       1331 ATGTGTTTGA-GGACTTTG
          1 ATGTGTTTGAGGGACTTTG

       1349 GTTATTAGGT


Statistics
Matches: 83,  Mismatches: 13, Indels: 12
        0.77            0.12        0.11

Matches are distributed among these distances:
  41   46  0.55
  42    7  0.08
  43   29  0.35
  44    1  0.01

ACGTcount: A:0.20, C:0.11, G:0.29, T:0.40


Consensus pattern (42 bp):   
ATGTGTTTGAGGGACTTTGATATAGATGCCTCTGTGTTATAA

Found at i:1896 original size:2 final size:2

Alignment explanation


    Indices: 1889--1923  Score: 52
    Period size: 2  Copynumber: 17.5  Consensus size: 2

       1879 AATACTGTGC

                                             *     *            
       1889 AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

       1924 GTTATAGTTG


Statistics
Matches: 29,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
   2   29  1.00

ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49


Consensus pattern (2 bp):   
AT

Done.