Locus 8755

Sequence ID 3R_DroMel_CAF1
Location 23,369,617 – 23,369,708
Length 91
Max. P 0.994607
window14061 window14062

overview

Window 1

Location 23,369,617 – 23,369,708
Length 91
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 75.83
Mean single sequence MFE -18.40
Consensus MFE -13.85
Energy contribution -13.96
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -1.14
Structure conservation index 0.75
SVM decision value 0.00
SVM RNA-class probability 0.535989
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23369617 91 + 27905053
AGAUGGUAUUUUCUUCUCUUAAUCAAAAGAAAAUAAAGGUGCAUUUUAGCUUUUCUCCAAGUUAAGUGUUUUGUACUUACAAAUGCACACU-----------------------------
......(((((((((...........)))))))))...(((((.((((((((......))))))))...(((((....))))))))))...----------------------------- ( -17.10)
>DroSec_CAF1 30001 120 + 1
AGUAGUUAUUUUUUCCUUUUAAUCAAAAGAAAAUAAAGGUGCAUUUUAGCUUUUCACCAAGUUAAGUGUUUUGUACUUACAAAUGCACUGUCUAAAUAUGUGUUUAGAUGAUGUAAAAUG
.(((.(((((((...(((((....)))))))))))).((((((.((((((((......)))))))).....)))))))))...((((..((((((((....))))))))..))))..... ( -23.50)
>DroSim_CAF1 31624 91 + 1
AGAUGGUAUUUUCACCUCUUAAUCAAAAGAAAAUAAAGGUGCAUUUUAGCUAUUCACCAAGUUAAGUGUUUUGUACUUACAAAUGCACACU-----------------------------
(((.(((......))))))...................(((((.(((((((........)))))))...(((((....))))))))))...----------------------------- ( -14.60)
>consensus
AGAUGGUAUUUUCUCCUCUUAAUCAAAAGAAAAUAAAGGUGCAUUUUAGCUUUUCACCAAGUUAAGUGUUUUGUACUUACAAAUGCACACU_____________________________
......(((((((...............)))))))...(((((.((((((((......))))))))...(((((....))))))))))................................ (-13.85 = -13.96 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 23,369,617 – 23,369,708
Length 91
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 75.83
Mean single sequence MFE -19.07
Consensus MFE -15.59
Energy contribution -15.60
Covariance contribution 0.01
Combinations/Pair 1.12
Mean z-score -1.93
Structure conservation index 0.82
SVM decision value 2.49
SVM RNA-class probability 0.994607
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23369617 91 - 27905053
-----------------------------AGUGUGCAUUUGUAAGUACAAAACACUUAACUUGGAGAAAAGCUAAAAUGCACCUUUAUUUUCUUUUGAUUAAGAGAAGAAAAUACCAUCU
-----------------------------((.((((((((.(((((.......))))).(((......)))...)))))))))).(((((((((((.......)))))))))))...... ( -18.50)
>DroSec_CAF1 30001 120 - 1
CAUUUUACAUCAUCUAAACACAUAUUUAGACAGUGCAUUUGUAAGUACAAAACACUUAACUUGGUGAAAAGCUAAAAUGCACCUUUAUUUUCUUUUGAUUAAAAGGAAAAAAUAACUACU
............((((((......))))))..((((((((...(((......((((......))))....))).)))))))).....(((((((((.....))))))))).......... ( -21.50)
>DroSim_CAF1 31624 91 - 1
-----------------------------AGUGUGCAUUUGUAAGUACAAAACACUUAACUUGGUGAAUAGCUAAAAUGCACCUUUAUUUUCUUUUGAUUAAGAGGUGAAAAUACCAUCU
-----------------------------(((((...(((((....)))))))))).....(((((....((......))((((((....((....))...)))))).....)))))... ( -17.20)
>consensus
_____________________________AGUGUGCAUUUGUAAGUACAAAACACUUAACUUGGUGAAAAGCUAAAAUGCACCUUUAUUUUCUUUUGAUUAAGAGGAGAAAAUACCAUCU
................................((((((((...(((......((((......))))....))).)))))))).....(((((((((....)))))))))........... (-15.59 = -15.60 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:57 2006