Locus 5622

Sequence ID 3L_DroMel_CAF1
Location 15,427,351 – 15,427,441
Length 90
Max. P 0.876435
window8881

overview

Window 1

Location 15,427,351 – 15,427,441
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 75.08
Mean single sequence MFE -13.42
Consensus MFE -0.90
Energy contribution -1.66
Covariance contribution 0.76
Combinations/Pair 1.20
Mean z-score -1.76
Structure conservation index 0.07
SVM decision value 0.89
SVM RNA-class probability 0.876435
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15427351 90 + 23771897
AAACAAAAAGUACAAAAAACCUCUUCUACUAAUAAGGAUCAUCGCUAAUUCCUAAACAAAAUUUUUGUAAUUCUAGCUUUACAAAAUGGU
..................(((.............((((...........)))).........((((((((........)))))))).))) (  -9.70)
>DroSec_CAF1 156327 90 + 1
AAACAAAAAGUAAAAAAUACCUUAUCUCCUAAUAAGGAUCAUCGGGAAUGCCUGAAAAAGGUGUAUAUAAUUCAAGCUAUACAAAAUGGU
................(((((((...((((....))))...(((((....)))))..)))))))...........(((((.....))))) ( -17.10)
>DroSim_CAF1 160361 90 + 1
AAACAAAAAGUAAAAAAUACCUUAUCUACUAAUAAGGAUCAUCGGGAAUGCCUGAAAAAGAUGUAUGUAAUUCAAGCUUUACAAAAUGGU
..(((..............((((((......))))))....(((((....)))))......))).(((((........)))))....... ( -14.00)
>DroEre_CAF1 157134 81 + 1
AAACAA--------AAAAU-CUAUGCUGCUAAUAAGGAUGUUCAGGAAUGCCUGAACCACUUUAGAGUAAUCCCUGCUAUACAAAAUGGC
......--------.....-......((((...(((...(((((((....)))))))..)))...))))......(((((.....))))) ( -17.40)
>DroYak_CAF1 162149 88 + 1
AAACAAAUAGUACAAAAAA-CUAUUCUACUAAUAAGGGUCUUCAAGAAUGCCUUAACCACU-UAGAAUAAUCCUAACUCUUCAAAAUGGU
.....((((((.......)-))))).......(((((.((.....))...)))))((((.(-(.(((............))).)).)))) (  -8.90)
>consensus
AAACAAAAAGUAAAAAAAACCUAUUCUACUAAUAAGGAUCAUCGGGAAUGCCUGAACAACAUUUAUGUAAUUCAAGCUAUACAAAAUGGU
.........................................(((((....)))))................................... ( -0.90 =  -1.66 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:49 2006