Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007409.1 Kokia drynarioides strain JFW-HI SEQ_122028, 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: 3743
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32


Found at i:3092 original size:25 final size:25

Alignment explanation


    Indices: 3028--3092  Score: 87
    Period size: 25  Copynumber: 2.6  Consensus size: 25

       3018 GTTACAAAAT

                                      
       3028 TAGAG-TTCATGATTTAGGGTTTATA
          1 TAGAGTTTCA-GATTTAGGGTTTATA

             *        *              
       3053 TTGAGTTTCAAATTTAGGGTTTATA
          1 TAGAGTTTCAGATTTAGGGTTTATA

                    *      
       3078 TAGAGTTTTAGATTT
          1 TAGAGTTTCAGATTT

       3093 TAGAATTAGA


Statistics
Matches: 34,  Mismatches: 5, Indels: 2
        0.83            0.12        0.05

Matches are distributed among these distances:
  25   30  0.88
  26    4  0.12

ACGTcount: A:0.28, C:0.03, G:0.22, T:0.48


Consensus pattern (25 bp):   
TAGAGTTTCAGATTTAGGGTTTATA

Found at i:3577 original size:174 final size:175

Alignment explanation


    Indices: 3272--3741  Score: 692
    Period size: 175  Copynumber: 2.7  Consensus size: 175

       3262 ACAATATAAC

                *                                          *         *       
       3272 AATTTCTAACATAGTAAGAAGCAAACATGATAATATAACAAGCCACTGAATAATTAACCAATTTC
          1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATAACAAGCCACTAAATAATTAATCAATTTC

                                  *                *           *    *        
       3337 ACCACATCTTCATAAAACATTCCATGTCAATAAAATGTCTGCATACCAATCTCTTCGCAAACAAA
         66 ACCACATCTTCATAAAACATTCTATGTCAATAAAATGTCAGCATACCAATCGCTTCACAAACAAA

                                                *  *      
       3402 TGTTCAAAAA-AAAACATCGCCACCCA-CGAAGTGGTCAGGAAACA
        131 TGTTCAAAAAGAAAACATCGCCACCCAGC-AAGTGGCCAAGAAACA

                                     *         *                 *      *    
       3446 AATTCCTAACATAGTAAGAAGCAAATATGATAATACAACAAGCCACTAAATAACTAATCATTTTC
          1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATAACAAGCCACTAAATAATTAATCAATTTC

                         *         *             *   *                **     
       3511 ACCACATCTTCATGAAACATTCTGTGTCAATAAAATGCCAGTATACCAATCGCTTCACGGACAAA
         66 ACCACATCTTCATAAAACATTCTATGTCAATAAAATGTCAGCATACCAATCGCTTCACAAACAAA

                              *                          
       3576 TGTTCAAAAAGAAAACATTGCCACCCAGCAAGTGGCCAAGAAACA
        131 TGTTCAAAAAGAAAACATCGCCACCCAGCAAGTGGCCAAGAAACA

                                                *    *                       
       3621 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
          1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATAACAAGCCACTAAATAATTAATCAATTTC

                      *            *               *                
       3686 ACCACATCTTTATAAAACATTCTCTGTCAATAAAATGTCGGCATACCAATCGCTTC
         66 ACCACATCTTCATAAAACATTCTATGTCAATAAAATGTCAGCATACCAATCGCTTC

       3742 GC


Statistics
Matches: 262,  Mismatches: 32, Indels: 3
        0.88            0.11        0.01

Matches are distributed among these distances:
 174  123  0.47
 175  138  0.53
 176    1  0.00

ACGTcount: A:0.43, C:0.23, G:0.10, T:0.24


Consensus pattern (175 bp):   
AATTCCTAACATAGTAAGAAGCAAACATGATAATATAACAAGCCACTAAATAATTAATCAATTTC
ACCACATCTTCATAAAACATTCTATGTCAATAAAATGTCAGCATACCAATCGCTTCACAAACAAA
TGTTCAAAAAGAAAACATCGCCACCCAGCAAGTGGCCAAGAAACA

Done.