Locus 608

Sequence ID 3R_DroMel_CAF1
Location 2,257,778 – 2,257,885
Length 107
Max. P 0.875124
window964 window965

overview

Window 4

Location 2,257,778 – 2,257,885
Length 107
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 88.22
Mean single sequence MFE -31.70
Consensus MFE -25.02
Energy contribution -26.30
Covariance contribution 1.28
Combinations/Pair 1.13
Mean z-score -1.56
Structure conservation index 0.79
SVM decision value 0.23
SVM RNA-class probability 0.643595
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2257778 107 + 27905053
UGGUGAUGGCUUUUCCAACUCAACCACCCGCAAAGGAUGUAAAAGUCGGGUCGAAAUGACUUUUGGUUGGGUCUGGGCCCAAUUCCAUCACCUCCUUGUUCAACUUU
.((((((((..((((((((((((((..((.....))....((((((((........)))))))))))))))).))))...))..))))))))............... ( -36.80)
>DroSec_CAF1 48777 107 + 1
UGGUGAUGGUUUUUCCGACCCAACCACCCGCAAAGAAUGGAAAAGUCGGGUCGAAAUGACUUAUGGUUGGGUCUGAGCCCAAUUCUAGCACCUCCUCGUUCAACUUU
.((((.(((..((((.((((((((((.(((.......)))..((((((........)))))).)))))))))).))....))..))).))))............... ( -31.70)
>DroSim_CAF1 46900 107 + 1
UGAUGAUGGUUUUUCCGACCCAACCACCCGCAAAGAAUGGAAAAGUCGGGUCGAAAUGACUUAUGGUUGGGUCUGGGCCCAAUUCUAGCACCUCCUCGUUCAACUUU
.((.((.(((....((((((((((((.(((.......)))..((((((........)))))).)))))))))).))((.........))))))).)).......... ( -30.10)
>DroEre_CAF1 47080 107 + 1
CGCUGAUGGCUUUUCCAACCCAACCACCCGCAAAGGAUGGAAAAGCUGGGUCGAAGCGACUUUUGGUUGGGUCUGGCCGCCAUUCUAUCACCACCUCGUUCAACUUU
....((((((....((((((((((((((.((.............)).))((((...))))...))))))))).)))..))))))....................... ( -30.82)
>DroYak_CAF1 44002 107 + 1
UGGAGAUGGCUUUUCCAACCCAACCACCCGCACAGGAUGGAUAAAUCGAGUCGAAAAGACUUUUGCUUGGGUCUGGGUCCAAUUCUAUCACCACCUCGUUCAACUUU
(((.(((((..(((((((((((((((.((.....)).))).......(((((.....)))))....)))))).))))...))..))))).))).............. ( -29.10)
>consensus
UGGUGAUGGCUUUUCCAACCCAACCACCCGCAAAGGAUGGAAAAGUCGGGUCGAAAUGACUUUUGGUUGGGUCUGGGCCCAAUUCUAUCACCUCCUCGUUCAACUUU
.((((((((..(((((((((((((((.(((.......))).......(((((.....))))).))))))))).))))...))..))))))))............... (-25.02 = -26.30 +   1.28) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 2,257,778 – 2,257,885
Length 107
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 88.22
Mean single sequence MFE -35.46
Consensus MFE -27.06
Energy contribution -26.82
Covariance contribution -0.24
Combinations/Pair 1.27
Mean z-score -2.04
Structure conservation index 0.76
SVM decision value 0.89
SVM RNA-class probability 0.875124
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2257778 107 - 27905053
AAAGUUGAACAAGGAGGUGAUGGAAUUGGGCCCAGACCCAACCAAAAGUCAUUUCGACCCGACUUUUACAUCCUUUGCGGGUGGUUGAGUUGGAAAAGCCAUCACCA
...............((((((((..(((((......)))))......(((.....)))(((((((...(((((.....)))))...))))))).....)))))))). ( -38.00)
>DroSec_CAF1 48777 107 - 1
AAAGUUGAACGAGGAGGUGCUAGAAUUGGGCUCAGACCCAACCAUAAGUCAUUUCGACCCGACUUUUCCAUUCUUUGCGGGUGGUUGGGUCGGAAAAACCAUCACCA
............((.((((......(((((......)))))......((..(((((((((((((.(((((.....)).))).)))))))))))))..)))))).)). ( -34.10)
>DroSim_CAF1 46900 107 - 1
AAAGUUGAACGAGGAGGUGCUAGAAUUGGGCCCAGACCCAACCAUAAGUCAUUUCGACCCGACUUUUCCAUUCUUUGCGGGUGGUUGGGUCGGAAAAACCAUCAUCA
..........((.(((((.......(((((......)))))..........(((((((((((((.(((((.....)).))).)))))))))))))..))).)).)). ( -33.30)
>DroEre_CAF1 47080 107 - 1
AAAGUUGAACGAGGUGGUGAUAGAAUGGCGGCCAGACCCAACCAAAAGUCGCUUCGACCCAGCUUUUCCAUCCUUUGCGGGUGGUUGGGUUGGAAAAGCCAUCAGCG
...(((((.((((((((........(((.(......))))........))))))))..(((((((..((((((.....))))))..)))))))........))))). ( -37.09)
>DroYak_CAF1 44002 107 - 1
AAAGUUGAACGAGGUGGUGAUAGAAUUGGACCCAGACCCAAGCAAAAGUCUUUUCGACUCGAUUUAUCCAUCCUGUGCGGGUGGUUGGGUUGGAAAAGCCAUCUCCA
..........(((((((((((....((((........))))......)))((((((((((((.....((((((.....)))))))))))))))))).)))))))).. ( -34.80)
>consensus
AAAGUUGAACGAGGAGGUGAUAGAAUUGGGCCCAGACCCAACCAAAAGUCAUUUCGACCCGACUUUUCCAUCCUUUGCGGGUGGUUGGGUUGGAAAAGCCAUCACCA
............((.((((......(((((......)))))......((..((((((((((((.....(((((.....)))))))))))))))))..)))))).)). (-27.06 = -26.82 +  -0.24) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:17 2006