Locus 8239

Sequence ID X_DroMel_CAF1
Location 20,457,448 – 20,457,561
Length 113
Max. P 0.792652
window13534

overview

Window 4

Location 20,457,448 – 20,457,561
Length 113
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 79.69
Mean single sequence MFE -27.22
Consensus MFE -5.57
Energy contribution -8.09
Covariance contribution 2.52
Combinations/Pair 1.25
Mean z-score -2.21
Structure conservation index 0.20
SVM decision value 0.59
SVM RNA-class probability 0.792652
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20457448 113 + 22224390
CGCUGCAUUAACCUUCUGUGU---AGUGUAUAAUUUAUUUAGCAUUUGAAUU-CUGCUUUAAAAUUGUUAUCGCCGAAUUCGGGUGCUGCACACAAAGUGUGUGCAUAUUGAAAAUU
((((((((.........))))---))))............((((((((((((-(.((..(((.....)))..)).)))))))))))))((((((.....))))))............ ( -36.30)
>DroSec_CAF1 31194 115 + 1
CGCUGCAUUAACCUUCUGUGU-GCAAAGUAUAAUUUAUUUAGCAUUUGAAUU-CUGUUUUAAAAUUGUUAUCGCCGAAUUCGGGUGCUGCACACAAAGUGUGUUCCUAUUGAGAAUU
.(..((((....(((.(((((-((.(((((.....)))))((((((((((((-(.((..(((.....)))..)).))))))))))))))))))))))).))))..)........... ( -31.50)
>DroSim_CAF1 36049 115 + 1
CGCUGCAUUAACCUUCUGUGU-GCAAAGUAUAAUUUAUUUAGCAUUUGAAUU-CUGUUUUAAAAUUGUUAUCGCCGAAUCCGGGUGCUGCACACAAAGUGUGUUCAUAUUGAGAAUU
.(..((((....(((.(((((-((.(((((.....)))))((((((((.(((-(.((..(((.....)))..)).)))).)))))))))))))))))).)))).)............ ( -26.50)
>DroEre_CAF1 28721 114 + 1
CGCCGCAUUAACCUUUCGUGCA---GUGUAUCAAUUAUUUAGCAUUUGAAUUCCUGCUCUAAAAUUGCCACCGCCCAAUGCGGAUGCUACAUACAAAGUGUGUUCAUAUUCCAAAUU
..(((((((.((.....))((.---(((...(((((.(..((((..........))))..).))))).))).))..)))))))(((..((((((...)))))).))).......... ( -21.80)
>DroYak_CAF1 29473 97 + 1
CGCUGCAUUAACCUUCCGUGCAGUAGUGUAUAAAUGAAUUAGCAUUUGAAUUCCUGCUCUAAAAUUGUUAUC--------------------ACAAAGUGUGUUCAUAUGCUAAAUA
.(((((((.........)))))))..............(((((((.(((((....((.((....((((....--------------------)))))).))))))).)))))))... ( -20.00)
>consensus
CGCUGCAUUAACCUUCUGUGU_G_AGUGUAUAAUUUAUUUAGCAUUUGAAUU_CUGCUUUAAAAUUGUUAUCGCCGAAUUCGGGUGCUGCACACAAAGUGUGUUCAUAUUGAAAAUU
.((.((((.........)))).))................((((((((................................))))))))((((((...)))))).............. ( -5.57 =  -8.09 +   2.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:07 2006