Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga06g02130.F3
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: 1761
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Found at i:1568 original size:783 final size:784
Alignment explanation
Indices: 62--1609 Score: 2724
Period size: 783 Copynumber: 2.0 Consensus size: 784
52 AAATCGAGAG
*
62 AAAAAAATGGGGCTTGAAGAAAATCTCAAATCAATGAACATCAACGAAGAAGAGAACAAGAACCC
1 AAAAAAATGGGGCTTGAAGAAAATCTCAAATCAATGAACATCAACGAAGAAGAAAACAAGAACCC
127 TAACCCTAACACTAAAGATGAAGAAGATGGTGAACTTGAAGAAGGGGAGATCGCAGGTGAAGAAG
66 TAACCCTAACACTAAAGATGAAGAAGATGGTGAACTTGAAGAAGGGGAGATCGCAGGTGAAGAAG
*
192 ATGATACGACGTCGTCTTCGTTAAAGAAAGGTGTCGTCGAACAGCCTCACCCGTTGGAGCATTCA
131 ATGATACGACGTCGTCTTCGTTAAAGAAAGGTGTCGTCGAACAGCCTCAACCGTTGGAGCATTCA
* * * *
257 TGGACCTTTTGGTTTGATAACGCTTCTGCTAAATCAAAACAAGCTCCTTGGGGTAGTTCTATGCG
196 TGGACCTTTTGGTTTGATAACGCCTCTGCTAAATCAAAAAAAGCTACTTGGGGTAGTTCTAGGCG
*
322 CGCTATTTACACTTTCTCCACCATCGAACAATTCTGGAGTCTATACAATAACATACGTCATCCAA
261 CCCTATTTACACTTTCTCCACCATCGAACAATTCTGGAGTCTATACAATAACATACGTCATCCAA
387 GCAAATTGGCTGTGGGAGAGGACTTCCATTGTTTCAAAGATAAAATCGAGCCCAAGTGGGAAGAC
326 GCAAATTGGCTGTGGGAGAGGACTTCCATTGTTTCAAAGATAAAATCGAGCCCAAGTGGGAAGAC
* * *
452 CCTGTCTGTGCTAACGGAGGCAAGTGGACTGTAGTTTTCCAAAAGGGGAAATCAGATACGTCTTG
391 CCTGTCTGTGCTAACGGAGGCAAGTGGACTGTAATTTTCAAAAAGGGGAAATCAGATACGGCTTG
* *
517 GTTGTACACGTTGCTGGCTTTGATAGGGGAACAGTTTGAGTACGGTGATGAAATATGCGGAGCAG
456 GTTGTACACGTTGCTGGCTTTGATAGGGGAACAGTTTGAGTACAGCGATGAAATATGCGGAGCAG
* *
582 TTGTCAATGTGAGAGGCAAGCAGGACAGAATAGCATTGTGGACCAAGAATGCTGCCAATGAAACT
521 TTGTCAATGTGAGAGCCAAGCAGGAAAGAATAGCATTGTGGACCAAGAATGCTGCCAATGAAACT
*
647 GCGCAGATGAGCATCGGGAAACAGTGGAAAGAGTTACTTGATTACAACGACACTATCGGCTTCAT
586 GCGCAGATGAGCATCGGGAAACAGTGGAAAGAGTTACTTGATTACAACAACACTATCGGCTTCAT
* *
712 ATTTCATGATGATGCAAAGAAGCTCGACAGATCTGCCAAGAATCGCTACACAGTATGACTTTCTG
651 ATTTCATGATGATGCAAAGAAGCTCAACAGAGCTGCCAAGAATCGCTACACAGTATGACTTTCTG
*
777 TAGAGTTCTTCTCTACTGGACAGCATGCGTGGCACAATCAGGACTCTCTGATAAACATGCCCTTT
716 TAGAGTTCTTCTCTACCGGACAGCATGCGTGGCACAATCAGGACTCTCTGATAAACATGCCCTTT
842 ACTT
781 ACTT
* *
846 AAAAAATTGGGG-TTGAAGAAAATCTCAAATCAATGAACATCAGCGAAGAAGAAAACAAGAACCC
1 AAAAAAATGGGGCTTGAAGAAAATCTCAAATCAATGAACATCAACGAAGAAGAAAACAAGAACCC
* *
910 TAACCCTAACACTAAAGATGAAGAAGATGGTGAACTTGAAGAATGGGAGATCGCAGGTGAAGGAG
66 TAACCCTAACACTAAAGATGAAGAAGATGGTGAACTTGAAGAAGGGGAGATCGCAGGTGAAGAAG
*
975 ATGATACGGCGTCGTCTTCGTTAAAGAAAGGTGTCGTCGAACAGCCTCAACCGTTGGAGCATTCA
131 ATGATACGACGTCGTCTTCGTTAAAGAAAGGTGTCGTCGAACAGCCTCAACCGTTGGAGCATTCA
*
1040 TGGACCTTTTGGTTTGATGAC-CCTCGTGCTAAATCAAAAAAAGCTACTTGGGGTAGTTCTAGGC
196 TGGACCTTTTGGTTTGATAACGCCTC-TGCTAAATCAAAAAAAGCTACTTGGGGTAGTTCTAGGC
* * *
1104 TCCCTATTTACACTTTCTCCACCATTGAACAATTCTGGAGTCTTTACAATAACATA-GATCATCC
260 GCCCTATTTACACTTTCTCCACCATCGAACAATTCTGGAGTCTATACAATAACATACG-TCATCC
* *
1168 AAGCAAATTGGCTGTGGGAGCGGACTTCCATTGTTTCAAATATAAAATCGAGCCCAAGTGGGAAG
324 AAGCAAATTGGCTGTGGGAGAGGACTTCCATTGTTTCAAAGATAAAATCGAGCCCAAGTGGGAAG
*
1233 ACCCTGTCTGTGCTAACGGAGGCAAGTGGACTGTAATTTTCAAAAAGGGGAAATCAGATATGGCT
389 ACCCTGTCTGTGCTAACGGAGGCAAGTGGACTGTAATTTTCAAAAAGGGGAAATCAGATACGGCT
* *
1298 TGGTTGTACACGTTGCTGGCTTTGATAGGGGAAGAGTTTGAGTACAGCGATGAAATCTGCGGAGC
454 TGGTTGTACACGTTGCTGGCTTTGATAGGGGAACAGTTTGAGTACAGCGATGAAATATGCGGAGC
*
1363 AGTTGTCAGTGTGAGAGCCAAGCAGGAAAGAATAGCATTGTGGACCAAGAATGCTGCCAATGAAA
519 AGTTGTCAATGTGAGAGCCAAGCAGGAAAGAATAGCATTGTGGACCAAGAATGCTGCCAATGAAA
1428 CTGCGCAGATGAGCATCGGGAAACAGTGGAAAGAGTTACTTGATTACAACAACACTATCGGCTTC
584 CTGCGCAGATGAGCATCGGGAAACAGTGGAAAGAGTTACTTGATTACAACAACACTATCGGCTTC
*
1493 ATATTTCATGATGATGCAAAGAAGCTCAACAGAGGTGCCAAGAATCGCTACACAGTATGACTTTC
649 ATATTTCATGATGATGCAAAGAAGCTCAACAGAGCTGCCAAGAATCGCTACACAGTATGACTTTC
** *
1558 TGTAGAGTTCTTCTCTACCGGATGGCATGCGTGGCACAATCGGGACTCTCTG
714 TGTAGAGTTCTTCTCTACCGGACAGCATGCGTGGCACAATCAGGACTCTCTG
1610 TATGCTTCCT
Statistics
Matches: 725, Mismatches: 37, Indels: 5
0.95 0.05 0.01
Matches are distributed among these distances:
782 4 0.01
783 710 0.98
784 11 0.02
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (784 bp):
AAAAAAATGGGGCTTGAAGAAAATCTCAAATCAATGAACATCAACGAAGAAGAAAACAAGAACCC
TAACCCTAACACTAAAGATGAAGAAGATGGTGAACTTGAAGAAGGGGAGATCGCAGGTGAAGAAG
ATGATACGACGTCGTCTTCGTTAAAGAAAGGTGTCGTCGAACAGCCTCAACCGTTGGAGCATTCA
TGGACCTTTTGGTTTGATAACGCCTCTGCTAAATCAAAAAAAGCTACTTGGGGTAGTTCTAGGCG
CCCTATTTACACTTTCTCCACCATCGAACAATTCTGGAGTCTATACAATAACATACGTCATCCAA
GCAAATTGGCTGTGGGAGAGGACTTCCATTGTTTCAAAGATAAAATCGAGCCCAAGTGGGAAGAC
CCTGTCTGTGCTAACGGAGGCAAGTGGACTGTAATTTTCAAAAAGGGGAAATCAGATACGGCTTG
GTTGTACACGTTGCTGGCTTTGATAGGGGAACAGTTTGAGTACAGCGATGAAATATGCGGAGCAG
TTGTCAATGTGAGAGCCAAGCAGGAAAGAATAGCATTGTGGACCAAGAATGCTGCCAATGAAACT
GCGCAGATGAGCATCGGGAAACAGTGGAAAGAGTTACTTGATTACAACAACACTATCGGCTTCAT
ATTTCATGATGATGCAAAGAAGCTCAACAGAGCTGCCAAGAATCGCTACACAGTATGACTTTCTG
TAGAGTTCTTCTCTACCGGACAGCATGCGTGGCACAATCAGGACTCTCTGATAAACATGCCCTTT
ACTT
Done.