Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga03g01575.F1
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: 4476
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Found at i:2448 original size:798 final size:794
Alignment explanation
Indices: 873--2465 Score: 2880
Period size: 798 Copynumber: 2.0 Consensus size: 794
863 AAAACTAAAA
873 AGAGAAACAAATATGCCATCCACCATGATTCTAAAGAAAATGGTGCTTTAGTTGTTGAATCTGGG
1 AGAGAAACAAATATGCCATCCACCATGATTCTAAAGAAAATGGTGCTTTAGTTGTTGAATCTGGG
* *
938 AAAGATGCATTGGATTCAGGCCATGTGCTTGAGGAAAATTTGATTCATAATGGACAAAGTTTGGC
66 AAAGATGCATTGGATTCAGGCCATGTACTTGAAGAAAATTTGATTCATAATGGACAAAGTTTGGC
*
1003 TTTGAATGACGCAAATCTGGGAAACCAAATTCATGTGGATGAAGCCTCTCGGAGTTTGTCTTCTG
131 TTTGAATGACGCAAATCTGGGAAACCAAATTCATGTGGATGAAACCTCTCGGAGTTTGTCTTCTG
*
1068 ACAGAAATAAGAGGTCAACTGCTAGGAAAAGGATGGCCGATGGGGGAATAAACGTTCCAGGAGAA
196 ACAGAAATAAGAGGTCAACTGCTAGGAAAAAGATGGCCGATGGGGGAATAAACGTTCCAGGAGAA
*
1133 CATTCTGAATTGGAAACTAATAAACATAAAGATGTTGCTCACAAGGATCAGGAACATGAGTCAAA
261 CATTCTGAATTGGAAACTAATAAACATAAAGATGTTGCTCACAAGGACCAGGAACATGAGTCAAA
1198 GAAGATTCCTTTCAATCTCGGCCTGCATCAAAGAAAAAGCGCAAAGCCAAGAAGAAAGATGTTAA
326 GAAGATTCCTTTCAATCTCGGCCTGCATCAAAGAAAAAGCGCAAAGCCAAGAAGAAAGATGTTAA
* * * * *
1263 TGACAATTCTTTAATAGAAAATGTAGAACAAGCTATTGATCTCAATACAACCTCTGTGTGCACTT
391 TGACAATTCTTTAATAGAAAATGGAGAACAAGCTACTGATCTCAATACAACCACCGAGTGCACTT
1328 TAGGTCAGAAACTGGAAAATACGAGGGCTGTCGTAGACCCCTTGAATACTGAATCCGTAAAACAA
456 TAGGTCAGAAACTGGAAAATACGAGGGCTGTCGTAGACCCCTTGAATACTGAATCCGTAAAACAA
*
1393 AACCATTTGTTGACGGCCAATGCAAACGGTGGGAAGAAGAACAGGAAAAGGCAAAAATCAAATCC
521 AACCATTTGTCGACGGCCAATGCAAACGGTGGGAAGAAGAACAGGAAAAGGCAAAAATCAAATCC
* *
1458 TAGTCAAGGAGGTAGTGATGTCTCTTCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCTGTAG
586 TAGTCAAGGAGATAGTGAAGTCTCTTCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCTGTAG
1523 AAGCCATTAAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACATTCT
651 AAGCCATTAAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACATTCT
*
1588 GCAGGTGGAGAAATATCTGAAACTGGTCTGATCTCTTCAATGAAAATGCAGGAAGTTAGTGAAAC
716 GCAGGTGGAGAAATATCTGAAACTGGTCTGATCTCATCAATGAAAATGCAGGAAGTTAGTGAAAC
1653 AAATCAAGTGCCCC
781 AAATCAAGTGCCCC
1667 AGAGAAACAAATATGCCATCCACCATGATTCTAAAGAAAATGGTGCTTTAGTTGTTGAATCTGGG
1 AGAGAAACAAATATGCCATCCACCATGATTCTAAAGAAAATGGTGCTTTAGTTGTTGAATCTGGG
* * *
1732 AAAGATGCGTTGGATTCAGGCCGTGTACTTGAAGAAAATTTGATTCATAATGGACCAAGTTTGGC
66 AAAGATGCATTGGATTCAGGCCATGTACTTGAAGAAAATTTGATTCATAATGGACAAAGTTTGGC
* *
1797 TTTGAATGATGCAAATCTGGGAAGCCAAATTCATGTGGATGAAACCTCTCGGAGTTTGTCTTCTG
131 TTTGAATGACGCAAATCTGGGAAACCAAATTCATGTGGATGAAACCTCTCGGAGTTTGTCTTCTG
1862 ACAGAAATAAGAGGTCAACTGCTAGGAAAAAGATGGCCGATGGGGGAATAAACGTTCCAGGAGAA
196 ACAGAAATAAGAGGTCAACTGCTAGGAAAAAGATGGCCGATGGGGGAATAAACGTTCCAGGAGAA
1927 CATTCTGAATTGGAAACTAATAAACATAAAGATGTTGCTCACAAGGACCAGGAACATGAGTCAAA
261 CATTCTGAATTGGAAACTAATAAACATAAAGATGTTGCTCACAAGGACCAGGAACATGAGTC-AA
* *
1992 AGAAGATTCCTTTCAATCTCGGCCTGTATCAAAGAAAAAGCGCAAAGCCGAGAAGAAAGATGTTA
325 AGAAGATTCCTTTCAATCTCGGCCTGCATCAAAGAAAAAGCGCAAAGCCAAGAAGAAAGATGTTA
*
2057 ATGACAATTCTTTAATAGAAAATGGAGAACAAGCTACTGATCTCAATACTGTAACCACCGAGTGT
390 ATGACAATTCTTTAATAGAAAATGGAGAACAAGCTACTGATCTCAATAC---AACCACCGAGTGC
* * * *
2122 ACTTTAGGTCAGAAATTGGAAAATACGAGGGTTGTCGTAGATCCCTTGAATGCTGAATCCGTAAA
452 ACTTTAGGTCAGAAACTGGAAAATACGAGGGCTGTCGTAGACCCCTTGAATACTGAATCCGTAAA
*
2187 ACAAAACCATTTGTCGACGGCCAATGCAAGCGGTGGGAAGAAGAACAGGAAAAGGCAAAAATCAA
517 ACAAAACCATTTGTCGACGGCCAATGCAAACGGTGGGAAGAAGAACAGGAAAAGGCAAAAATCAA
*
2252 ATCCTAGTCAAGTAGATAGTGAAGTCTCTTCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCT
582 ATCCTAGTCAAGGAGATAGTGAAGTCTCTTCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCT
*
2317 GTAGAAGCCATTAAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACG
647 GTAGAAGCCATTAAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACA
*
2382 TTCTGCAGGTGGAGAAATATCTGAATCTGGTCTGATCTCATCAATGAAAATGCAGGAAGTTAGTG
712 TTCTGCAGGTGGAGAAATATCTGAAACTGGTCTGATCTCATCAATGAAAATGCAGGAAGTTAGTG
2447 AAACAAATCAAGTGCCCC
777 AAACAAATCAAGTGCCCC
2465 A
1 A
2466 CTTTGGGGGT
Statistics
Matches: 765, Mismatches: 30, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
794 312 0.41
795 112 0.15
798 341 0.45
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (794 bp):
AGAGAAACAAATATGCCATCCACCATGATTCTAAAGAAAATGGTGCTTTAGTTGTTGAATCTGGG
AAAGATGCATTGGATTCAGGCCATGTACTTGAAGAAAATTTGATTCATAATGGACAAAGTTTGGC
TTTGAATGACGCAAATCTGGGAAACCAAATTCATGTGGATGAAACCTCTCGGAGTTTGTCTTCTG
ACAGAAATAAGAGGTCAACTGCTAGGAAAAAGATGGCCGATGGGGGAATAAACGTTCCAGGAGAA
CATTCTGAATTGGAAACTAATAAACATAAAGATGTTGCTCACAAGGACCAGGAACATGAGTCAAA
GAAGATTCCTTTCAATCTCGGCCTGCATCAAAGAAAAAGCGCAAAGCCAAGAAGAAAGATGTTAA
TGACAATTCTTTAATAGAAAATGGAGAACAAGCTACTGATCTCAATACAACCACCGAGTGCACTT
TAGGTCAGAAACTGGAAAATACGAGGGCTGTCGTAGACCCCTTGAATACTGAATCCGTAAAACAA
AACCATTTGTCGACGGCCAATGCAAACGGTGGGAAGAAGAACAGGAAAAGGCAAAAATCAAATCC
TAGTCAAGGAGATAGTGAAGTCTCTTCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCTGTAG
AAGCCATTAAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACATTCT
GCAGGTGGAGAAATATCTGAAACTGGTCTGATCTCATCAATGAAAATGCAGGAAGTTAGTGAAAC
AAATCAAGTGCCCC
Done.