Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024456.1 Corchorus olitorius cultivar O-4 contig24489, 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: 2308
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31


Found at i:1138 original size:15 final size:15

Alignment explanation


    Indices: 1103--1171  Score: 59
    Period size: 15  Copynumber: 4.5  Consensus size: 15

       1093 AATCGAAAAC

                             
       1103 GACCC-AACCCAGAATT
          1 GACCCGAACCCA-AA-T

                           
       1119 GACCCGAACCCAAAT
          1 GACCCGAACCCAAAT

                     ****  *
       1134 GACCCGACATTTGAAC
          1 GACCCGA-ACCCAAAT

                           
       1150 GACCCGAACCCAAAT
          1 GACCCGAACCCAAAT

                   
       1165 GACCCGA
          1 GACCCGA

       1172 CATTTGAACG


Statistics
Matches: 41,  Mismatches: 10, Indels: 5
        0.73            0.18        0.09

Matches are distributed among these distances:
  15   18  0.44
  16   17  0.41
  17    6  0.15

ACGTcount: A:0.36, C:0.38, G:0.16, T:0.10


Consensus pattern (15 bp):   
GACCCGAACCCAAAT

Found at i:1154 original size:31 final size:31

Alignment explanation


    Indices: 1119--1193  Score: 150
    Period size: 31  Copynumber: 2.4  Consensus size: 31

       1109 ACCCAGAATT

                                           
       1119 GACCCGAACCCAAATGACCCGACATTTGAAC
          1 GACCCGAACCCAAATGACCCGACATTTGAAC

                                           
       1150 GACCCGAACCCAAATGACCCGACATTTGAAC
          1 GACCCGAACCCAAATGACCCGACATTTGAAC

                         
       1181 GACCCGAACCCAA
          1 GACCCGAACCCAA

       1194 CCCAACCCGA


Statistics
Matches: 44,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  31   44  1.00

ACGTcount: A:0.36, C:0.37, G:0.16, T:0.11


Consensus pattern (31 bp):   
GACCCGAACCCAAATGACCCGACATTTGAAC

Found at i:1155 original size:16 final size:16

Alignment explanation


    Indices: 1134--1187  Score: 56
    Period size: 16  Copynumber: 3.4  Consensus size: 16

       1124 GAACCCAAAT

                            
       1134 GACCCGACATTTGAAC
          1 GACCCGACATTTGAAC

                     ****  *
       1150 GACCCGA-ACCCAAAT
          1 GACCCGACATTTGAAC

                            
       1165 GACCCGACATTTGAAC
          1 GACCCGACATTTGAAC

                   
       1181 GACCCGA
          1 GACCCGA

       1188 ACCCAACCCA


Statistics
Matches: 27,  Mismatches: 10, Indels: 2
        0.69            0.26        0.05

Matches are distributed among these distances:
  15   10  0.37
  16   17  0.63

ACGTcount: A:0.33, C:0.35, G:0.19, T:0.13


Consensus pattern (16 bp):   
GACCCGACATTTGAAC
Done.