Locus 7142

Sequence ID X_DroMel_CAF1
Location 17,928,798 – 17,928,891
Length 93
Max. P 0.776370
window11664

overview

Window 4

Location 17,928,798 – 17,928,891
Length 93
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 73.50
Mean single sequence MFE -21.50
Consensus MFE -9.46
Energy contribution -11.94
Covariance contribution 2.48
Combinations/Pair 1.26
Mean z-score -1.87
Structure conservation index 0.44
SVM decision value 0.54
SVM RNA-class probability 0.776370
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17928798 93 + 22224390
GCUAAGGAGUAUGGCUUCCAUUGAGAAGCUGCACUUUAUAUAGGGAUUUACUACAGUUUAUCUAAUUGU-AU---CUUAUAUUCAUAUAUUUUCAUA-------------
.....(((((..((((((......))))))..)))))((((((((......(((((((.....))))))-))---)))))))...............------------- ( -19.00)
>DroSec_CAF1 5312 104 + 1
GCUAAGGAGUAUGGCUUCCAUUGAGAAGCUGUACUUCGUAU--GGAUUUACUAGAGUUGGUCCUAUUGU-AU---CUUAUAUUCAUAUAUUUUGCAGUGAAAACCCACUU
.....(((((((((((((......)))))))))))))(((.--.....)))..((((.(((..((((((-(.---..((((....))))...)))))))...))).)))) ( -29.70)
>DroSim_CAF1 4466 104 + 1
GCUAAGGAGUAUGGCUUCCAUUGAAAAGCUGUACUUCAUAU--GGAUUUACUAGAGUUGGUCCUAUUGU-AU---CUUAUAUUCAUAUAUUUUGCAGUGAAAAACCUCUU
.....((((((((((((........))))))))))))....--((((..((....))..))))((((((-(.---..((((....))))...)))))))........... ( -25.60)
>DroEre_CAF1 5270 103 + 1
ACUAAAGACUUCGACUUCCAUUGAGAACCUGUAUUUCAUAC--UGAUUUACUAGAGUUUGUCUCGUUGU-AC---GUUAUAUUCAUACUUUUUUCAAUGAAA-GCCAUUU
............(.(((.(((((((((...((((...(((.--((((.(((..(((.....)))...))-).---)))))))..))))..))))))))).))-).).... ( -18.60)
>DroYak_CAF1 5160 94 + 1
ACUAAAGAGUACGACUUCUAUUGAGAAACUCUAUUUCAUAU--UGAAUUACUAGAGUUUGGCUCAUUGUCAUGUUAUUAUAUUCAUAAUUUU-UCAA-------------
......(((((.(((......((((.(((((((.(((....--.)))....)))))))...)))).......)))....)))))........-....------------- ( -14.62)
>consensus
GCUAAGGAGUAUGGCUUCCAUUGAGAAGCUGUACUUCAUAU__GGAUUUACUAGAGUUUGUCUCAUUGU_AU___CUUAUAUUCAUAUAUUUUGCAAUGAAA__CC__UU
.....(((((((((((((......)))))))))))))......((((..((....))..))))............................................... ( -9.46 = -11.94 +   2.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:09 2006