Locus 5954

Sequence ID 3R_DroMel_CAF1
Location 15,711,570 – 15,711,660
Length 90
Max. P 0.993059
window9713 window9714

overview

Window 3

Location 15,711,570 – 15,711,660
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 91.44
Mean single sequence MFE -22.06
Consensus MFE -20.56
Energy contribution -20.12
Covariance contribution -0.44
Combinations/Pair 1.22
Mean z-score -1.52
Structure conservation index 0.93
SVM decision value 1.47
SVM RNA-class probability 0.957219
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15711570 90 + 27905053
GGUUAAGUUCUCCCAUGCUGACUCAUGUCUUUUCAACUUUGAGUUCGAAAAGGCGUUGUCUGUGUGUCCAGUUUUAACGAUUGCAUGUUA
.((((((......(((((.(((..(((((((((((((.....))).)))))))))).))).)))))......))))))............ ( -23.80)
>DroSec_CAF1 7681 90 + 1
GGUUAAGUUCUCCCAUGCUGACUCGUGUCUUUUCAACUUUGAGUUCGAAAAGACGUUGUCUGUGUGUUCAGUUUUAACGAUUGCAUGUUA
.((((((......(((((.(((...((((((((((((.....))).)))))))))..))).)))))......))))))............ ( -23.20)
>DroSim_CAF1 8000 90 + 1
GGUUAAGUUUUCCCAUGCUGACUCAUGUCUUUUCAACUUUGAGUUCGAAAAGGCGUUGUCUGUGUGUCCAGUUUUAACGAUUGCAUGUUA
.((((((......(((((.(((..(((((((((((((.....))).)))))))))).))).)))))......))))))............ ( -23.80)
>DroEre_CAF1 7855 90 + 1
GGUAAAAUUCUCCCAUGCUGACCCAUGUCCUUCGAACUUUGAGUUCGAAAAGACGUCGUCUGUGUGUCCAGUUUUUACGAUUGCAUGUUA
.((((((......(((((.(((..(((((.(((((((.....)))))))..))))).))).)))))......))))))............ ( -23.40)
>DroYak_CAF1 8595 90 + 1
GGUAAAAUUCUCCUAUGCUGACUCAUGUCCUUUAAACUUCGAGUUCGAAAAGACAUUGUCUGUGUGUCCAGUUUUUACAAUUGCAUGUUA
.((((((......(((((.(((..(((((.((..(((.....)))..))..))))).))).)))))......))))))............ ( -16.10)
>consensus
GGUUAAGUUCUCCCAUGCUGACUCAUGUCUUUUCAACUUUGAGUUCGAAAAGACGUUGUCUGUGUGUCCAGUUUUAACGAUUGCAUGUUA
.((((((......(((((.(((..(((((((((((((.....))).)))))))))).))).)))))......))))))............ (-20.56 = -20.12 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 15,711,570 – 15,711,660
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 91.44
Mean single sequence MFE -20.24
Consensus MFE -17.54
Energy contribution -17.66
Covariance contribution 0.12
Combinations/Pair 1.23
Mean z-score -2.08
Structure conservation index 0.87
SVM decision value 2.37
SVM RNA-class probability 0.993059
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15711570 90 - 27905053
UAACAUGCAAUCGUUAAAACUGGACACACAGACAACGCCUUUUCGAACUCAAAGUUGAAAAGACAUGAGUCAGCAUGGGAGAACUUAACC
...(((((..((((.....(((......))).....(.((((((.(((.....))))))))).)))))....)))))............. ( -17.50)
>DroSec_CAF1 7681 90 - 1
UAACAUGCAAUCGUUAAAACUGAACACACAGACAACGUCUUUUCGAACUCAAAGUUGAAAAGACACGAGUCAGCAUGGGAGAACUUAACC
...(((((..((((.....(((......))).....((((((((.(((.....)))))))))))))))....)))))............. ( -23.00)
>DroSim_CAF1 8000 90 - 1
UAACAUGCAAUCGUUAAAACUGGACACACAGACAACGCCUUUUCGAACUCAAAGUUGAAAAGACAUGAGUCAGCAUGGGAAAACUUAACC
...(((((..((((.....(((......))).....(.((((((.(((.....))))))))).)))))....)))))............. ( -17.50)
>DroEre_CAF1 7855 90 - 1
UAACAUGCAAUCGUAAAAACUGGACACACAGACGACGUCUUUUCGAACUCAAAGUUCGAAGGACAUGGGUCAGCAUGGGAGAAUUUUACC
...(((((..((((.....(((......))))))).((((((.(((((.....)))))))))))........)))))............. ( -24.60)
>DroYak_CAF1 8595 90 - 1
UAACAUGCAAUUGUAAAAACUGGACACACAGACAAUGUCUUUUCGAACUCGAAGUUUAAAGGACAUGAGUCAGCAUAGGAGAAUUUUACC
....((((............((......))(((.(((((((((.((((.....)))))))))))))..))).)))).............. ( -18.60)
>consensus
UAACAUGCAAUCGUUAAAACUGGACACACAGACAACGUCUUUUCGAACUCAAAGUUGAAAAGACAUGAGUCAGCAUGGGAGAACUUAACC
...(((((..((((.....(((......))).....((((((((((........))))))))))))))....)))))............. (-17.54 = -17.66 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:49 2006