Locus 4603

Sequence ID 3L_DroMel_CAF1
Location 13,140,664 – 13,140,784
Length 120
Max. P 0.661225
window7218

overview

Window 8

Location 13,140,664 – 13,140,784
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.17
Mean single sequence MFE -26.30
Consensus MFE -22.54
Energy contribution -22.46
Covariance contribution -0.08
Combinations/Pair 1.12
Mean z-score -1.44
Structure conservation index 0.86
SVM decision value 0.27
SVM RNA-class probability 0.661225
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13140664 120 + 23771897
CGAAUACCAACUUCUGCUCCUGCUCCAGUUUUGGGGCGCCCAGUUCCACAUCCACUAUGUACAUCCCCACCAUAUCUACAUCCAUAUCCAUUCAUGCAGGGCGCCCGGCAACCGUGUUUU
.((((((.((((...((....))...))))...((((((((......((((.....))))......................(((........)))..)))))))).......)))))). ( -26.40)
>DroSec_CAF1 128327 118 + 1
CGAAUACCAACUUCUGCUCCUGCUCCAGUUUUGGGGCGCCCAGUUCCACAUCCACUAUGUACAUC--CACCAUAUCUACAUCCAUAUCCAUUCAUGCAGGGCGCCCGGCAACCGUGUUUU
.((((((.((((...((....))...))))...((((((((.((............(((((.((.--......)).)))))..............)).)))))))).......)))))). ( -26.57)
>DroSim_CAF1 128265 118 + 1
CGAAUACCAACUUCUGCUCCUGCUCCAGUUUUGGGGCGCCCAGUUCCACAUCCACUAUGUACAUC--CACCAUAUCUACAUCCAUAUCCAUUCAUGCAGGGCGCCCGGCAACCGUGUUUU
.((((((.((((...((....))...))))...((((((((.((............(((((.((.--......)).)))))..............)).)))))))).......)))))). ( -26.57)
>DroEre_CAF1 125192 113 + 1
GGAGCACCAACUUCUACUCCUGCUCCAGUUUUGGGGCGUCCAGUUCCACAGCCACCGUAUCU-------ACAUACGUACAUCCAUAUCCAUUCAUGCAGGGCGCCCGGCAACCGUGUUUU
((((((..............)))))).(((.(.((((((((.((......))...(((((..-------..)))))......................)))))))).).)))........ ( -29.84)
>DroYak_CAF1 129639 105 + 1
GGAAUACCAACUUCUACUCCUGCUCCAGUUUUGGGGCGCCCAGUUCCACAUCCACCAUAUCC-------AC--------AACCAUAUCCAUUCAUGCAGGGCGCCCGGCAACCGUGUUUU
.((((((..........................((((((((.((..................-------..--------................)).))))))))(....).)))))). ( -22.12)
>consensus
CGAAUACCAACUUCUGCUCCUGCUCCAGUUUUGGGGCGCCCAGUUCCACAUCCACUAUGUACAUC__CACCAUAUCUACAUCCAUAUCCAUUCAUGCAGGGCGCCCGGCAACCGUGUUUU
.((((((.((((...((....))...))))...((((((((.(.....).................................(((........)))..)))))))).......)))))). (-22.54 = -22.46 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:09 2006