Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009417.1 Corchorus capsularis cultivar CVL-1 contig09438, 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: 7894
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31


Found at i:1086 original size:19 final size:18

Alignment explanation


    Indices: 1053--1088  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       1043 TTGAAATGAT

                              
       1053 TCTTCAATAATCTTCAAA
          1 TCTTCAATAATCTTCAAA

                     *        
       1071 TCTTCAAATTATCTTCAA
          1 TCTTC-AATAATCTTCAA

       1089 GAAATCTTCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42


Consensus pattern (18 bp):   
TCTTCAATAATCTTCAAA

Found at i:1401 original size:14 final size:15

Alignment explanation


    Indices: 1384--1412  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

       1374 TTTAAGTTAA

                           
       1384 TCAAAA-ATCAATTT
          1 TCAAAAGATCAATTT

                           
       1398 TCAAAAGATCAATTT
          1 TCAAAAGATCAATTT

       1413 GAATTCACAC


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  14    6  0.43
  15    8  0.57

ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34


Consensus pattern (15 bp):   
TCAAAAGATCAATTT

Found at i:2405 original size:16 final size:16

Alignment explanation


    Indices: 2386--2419  Score: 68
    Period size: 16  Copynumber: 2.1  Consensus size: 16

       2376 ATGACTCAAT

                            
       2386 TATCAAATAATAACCC
          1 TATCAAATAATAACCC

                            
       2402 TATCAAATAATAACCC
          1 TATCAAATAATAACCC

              
       2418 TA
          1 TA

       2420 AGTATTCACC


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   18  1.00

ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26


Consensus pattern (16 bp):   
TATCAAATAATAACCC
Done.