Locus 626

Sequence ID X_DroMel_CAF1
Location 1,732,514 – 1,732,627
Length 113
Max. P 0.617852
window1011

overview

Window 1

Location 1,732,514 – 1,732,627
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.06
Mean single sequence MFE -22.82
Consensus MFE -22.04
Energy contribution -21.88
Covariance contribution -0.16
Combinations/Pair 1.03
Mean z-score -1.06
Structure conservation index 0.97
SVM decision value 0.17
SVM RNA-class probability 0.617852
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1732514 113 - 22224390
GCUCAUAUCGCUUUUAUU-------UGUUAAAUUGCGUGUCUAAGUGUAUAUAUCAAUAAUUCUUGUAUGUUAUGUAUAUGAACUGUUAUGUACAUAUGCAAGGCAUGUAACACGUUUCG
((..(((((((((..((.-------(((......))).))..))))).))))..........((((((...(((((((((((....)))))))))))))))))))............... ( -22.90)
>DroSec_CAF1 3733 113 - 1
GCUCAUAUCGCUUUUAUU-------UGUUAAAUUGCGUGUCUAAGUAUAUAUAUCAAUAAUUCUUGUAUGUUAUGUAUAUGAACUGUUAUGUACAUAUGCAAGGCAUGUAACACGUUUCG
((.......)).......-------.......((((((((((....(((((((...........)))))))..((((((((.((......)).))))))))))))))))))......... ( -22.70)
>DroSim_CAF1 4287 113 - 1
GCUCAUAUCGCUUUUAUU-------UGUUAAAUUGCGUGUCUAAGUAUAUAUAUCAAUAAUUCUUGUAUGUUAUGUAUAUGAACUGUUAUGUACAUAUGCAAGGCAUGUAACACGUUUCG
((.......)).......-------.......((((((((((....(((((((...........)))))))..((((((((.((......)).))))))))))))))))))......... ( -22.70)
>DroEre_CAF1 3879 120 - 1
GCUCAUAUCGCUUUUAUUUGUUAUUUGUUAAAUUGCGUGUCUAAGUGUAUAUAUUAAUAAUUCUUGUAUGUUAUGUAUAUGAACUGUUAUGUACAUAUGCAAGGCAUGUAACAUGUUUUG
....(((((((((..((.(((.(((.....))).))).))..))))).))))..........((((((...(((((((((((....)))))))))))))))))(((((...))))).... ( -22.90)
>DroYak_CAF1 3967 120 - 1
GCUCAUAUCGCUUUUAUUUGUUAUUUGUUAAAUUGCGUGUCUAAGUGUAUAUAUCAAUAAUUUUUGUAUGUUAUGUAUAUGAACUGUUAUGUACAUAUGCAAGGCAUGUAACAUGGUUCG
((.......)).....................((((((((((......(((((.(((......))))))))..((((((((.((......)).))))))))))))))))))......... ( -22.90)
>consensus
GCUCAUAUCGCUUUUAUU_______UGUUAAAUUGCGUGUCUAAGUGUAUAUAUCAAUAAUUCUUGUAUGUUAUGUAUAUGAACUGUUAUGUACAUAUGCAAGGCAUGUAACACGUUUCG
((.......)).....................((((((((((......(((((.(((......))))))))..((((((((.((......)).))))))))))))))))))......... (-22.04 = -21.88 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:43 2006