Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga01g01961.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: 5266
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Found at i:4624 original size:261 final size:252
Alignment explanation
Indices: 4160--4901 Score: 940
Period size: 246 Copynumber: 2.9 Consensus size: 252
4150 GGATCTATTG
* * *
4160 AAGATTCTGAACATAAATCCAAAAGATTAGCCAAAGCCGAAGCCAATGCTAGCCTATCAACTTCA
1 AAGATTCTGAACACAAATCCAAAAGATTAGCCGAAGCTGAAGCCAATGCTAGCCTATCAACTTCA
* * *
4225 GCAGGAGAAACTAACAGCTTGAATTACATAAAAAATGGTGAACAGATACAAAATATGTATCGACA
66 GCAGGAGAAACTAACAGCTTGAATAACATAAAAAATGGTGAACAGATACAAAATATGTCTCGTCA
* *
4290 AGAAGGTATCATGGGCACATCACAATCAATGGAAGATAAT-TGCATGGCCATTGATAGCATCCTA
131 AGAAGGTATCATGGACACATCACAATCAATGGAAGATAATCT-CAAGGCCATTGATAGCATCCTA
* *
4354 GATGTTGATAATGCTACAAAGGGTACATCTATCGACCATGAATTTGCTGCAAAAGCATCAAAGCC
195 GATGTTGATAACGCTACAAAGGGTACATCTATC-ACCATGAA-------C-AAAGCATCAAAACC
4419 AA
251 AA
*
4421 AAGATTCTGAACACAAATCCAAAAGATTAGCCGAAGTTGAAGCCAATGCTAGCCTATCAACTTCA
1 AAGATTCTGAACACAAATCCAAAAGATTAGCCGAAGCTGAAGCCAATGCTAGCCTATCAACTTCA
* * * * * * *
4486 GCAGGAGAAACTTACCGCTTGAATAACATTAGAATTGGTCAACAGATGCAAAATATGTCTCGTCA
66 GCAGGAGAAACTAACAGCTTGAATAACATAAAAAATGGTGAACAGATACAAAATATGTCTCGTCA
* * *
4551 AGAAGGTATCATGGACACGTCACAATCAATGGAAGATAATCTCAAGGCCCTTGATAGCATCCCAG
131 AGAAGGTATCATGGACACATCACAATCAATGGAAGATAATCTCAAGGCCATTGATAGCATCCTAG
*
4616 ATGTTGATAACGCTACAAAGGGTACATCTAT---C---AACAAAGCATCAAAACCAG
196 ATGTTGATAACGCTACAAAGGGTACATCTATCACCATGAACAAAGCATCAAAACCAA
* ** * * *
4667 AAGATTCTGAACACAAGTCCAAAATTTTAGCTGAAGCTGAAGCCAACGCTAGCTTATCAACTTCA
1 AAGATTCTGAACACAAATCCAAAAGATTAGCCGAAGCTGAAGCCAATGCTAGCCTATCAACTTCA
* * * * *
4732 GCAGGAGAAGCTAAGAGCTTGAGTAGCATAAAAAATGGTGAACAAATACAAAATATGTCTCGTCA
66 GCAGGAGAAACTAACAGCTTGAATAACATAAAAAATGGTGAACAGATACAAAATATGTCTCGTCA
* ** * ** * *
4797 ACAAGGTATCATGGATGCATCACCATCAGGGGAAGATAATCTCAAAGCCATTGATGGCATCCTAG
131 AGAAGGTATCATGGACACATCACAATCAATGGAAGATAATCTCAAGGCCATTGATAGCATCCTAG
* * *
4862 GTGTTAATACCGCTACAAAGGGTACATCTATCAACCATGA
196 ATGTTGATAACGCTACAAAGGGTACATCTATC-ACCATGA
4902 CACTGTGGTG
Statistics
Matches: 418, Mismatches: 55, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
246 207 0.50
247 1 0.00
250 1 0.00
253 1 0.00
254 2 0.00
257 1 0.00
261 204 0.49
262 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (252 bp):
AAGATTCTGAACACAAATCCAAAAGATTAGCCGAAGCTGAAGCCAATGCTAGCCTATCAACTTCA
GCAGGAGAAACTAACAGCTTGAATAACATAAAAAATGGTGAACAGATACAAAATATGTCTCGTCA
AGAAGGTATCATGGACACATCACAATCAATGGAAGATAATCTCAAGGCCATTGATAGCATCCTAG
ATGTTGATAACGCTACAAAGGGTACATCTATCACCATGAACAAAGCATCAAAACCAA
Done.