Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001488.1 Kokia drynarioides strain JFW-HI SEQ_113024, 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: 7809
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35


Found at i:2905 original size:161 final size:163

Alignment explanation


    Indices: 2683--3102  Score: 469
    Period size: 161  Copynumber: 2.6  Consensus size: 163

       2673 AAGTTACTAT

                      *                             *   *         *          
       2683 TTTATCTTAGACCGAATAATTTATTATCATTTAACCAATGCAGACAAGCTTCATGTATTATAGTT
          1 TTTATCTTAGGCCGAATAATTTATTATCATTTAACCAATGGAGAAAAGCTTCATATATTATAGTT

                                        **  *            * *                 
       2748 TCTACAAATGAAACAATTGGCTTACTAGTGTTGC-TGATTGTAGCTTTATGCTACTAACACT-AA
         66 TCTACAAATGAAACAATTGGCTTACTAGACTTACTTGATTGTAGCCTCATGCTACTAACA-TGAA

                      *      *                  
       2811 TAATCGTAGGTAC-GGGTTGAATAA-ATTATTATT-
        130 -AATCGTA-GAACAGGGCTGAATAATATTATTATTG

                               *                            *                
       2844 TATT-TCTTAGGCCGAATAGTTTATTATCATTTAACCAATGGAGAAAAACTTCATATATTATA-T
          1 T-TTATCTTAGGCCGAATAATTTATTATCATTTAACCAATGGAGAAAAGCTTCATATATTATAGT

                           *  *                    *          *     *        
       2907 TTCCTACAAATGAAATAACTGGCTTACT-GACTTACTTGGTTGTAGCCTCGTGCTATTAACATGA
         65 TT-CTACAAATGAAACAATTGGCTTACTAGACTTACTTGATTGTAGCCTCATGCTACTAACATGA

             **                                    
       2971 AGGTCGTAGAACAATGGGCTGAATAAGTTATTATTATTG
        129 AAATCGTAGAAC-A-GGGCTGAATAA--TATTATTATTG

                               *   *               *                   *     
       3010 TTTATCTTAGGCCGAATAACTTAGTATCATTTAACCAATAGAGAAAAGCTTCATATATTGTAGTT
          1 TTTATCTTAGGCCGAATAATTTATTATCATTTAACCAATGGAGAAAAGCTTCATATATTATAGTT

                 *              *       
       3075 TCTACGAATGAAACAATTGGTTTACTAG
         66 TCTACAAATGAAACAATTGGCTTACTAG

       3103 CTCAATTGTT


Statistics
Matches: 215,  Mismatches: 30, Indels: 22
        0.81            0.11        0.08

Matches are distributed among these distances:
 159    3  0.01
 160   13  0.06
 161   98  0.46
 162   12  0.06
 165   11  0.05
 166   74  0.34
 167    4  0.02

ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37


Consensus pattern (163 bp):   
TTTATCTTAGGCCGAATAATTTATTATCATTTAACCAATGGAGAAAAGCTTCATATATTATAGTT
TCTACAAATGAAACAATTGGCTTACTAGACTTACTTGATTGTAGCCTCATGCTACTAACATGAAA
ATCGTAGAACAGGGCTGAATAATATTATTATTG

Found at i:4960 original size:7 final size:7

Alignment explanation


    Indices: 4948--4972  Score: 50
    Period size: 7  Copynumber: 3.6  Consensus size: 7

       4938 TATAATTAAA

                   
       4948 AAAAAAT
          1 AAAAAAT

                   
       4955 AAAAAAT
          1 AAAAAAT

                   
       4962 AAAAAAT
          1 AAAAAAT

                
       4969 AAAA
          1 AAAA

       4973 TGGATGACTC


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

Matches are distributed among these distances:
   7   18  1.00

ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12


Consensus pattern (7 bp):   
AAAAAAT
Done.