Locus 9861

Sequence ID 3R_DroMel_CAF1
Location 26,301,559 – 26,301,657
Length 98
Max. P 0.696307
window15739

overview

Window 9

Location 26,301,559 – 26,301,657
Length 98
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 72.42
Mean single sequence MFE -19.62
Consensus MFE -3.06
Energy contribution -4.46
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -1.65
Structure conservation index 0.16
SVM decision value 0.34
SVM RNA-class probability 0.696307
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26301559 98 + 27905053
GUUC-------------UUUUGUUUCAUUU-CUUU---CUGACUGAAGCUAAGCUCUACUUUAUGGCUUGACGCUUUUACGUCAGAAAUAUGUGCAUAUUAAACUAAACUGUUUU
(((.-------------...(((..(((..-.(((---(((((.((((((((((.(........))))))..)))))...)))))))).))).))).....)))........... ( -21.10)
>DroSec_CAF1 28320 99 + 1
AUUC-------------UUUUGUUUAAUUUUUUUU---CUGAAUGAAGCUAAGCUCUACUUUAUGAGUUGACGCUUUUACGUCAGAAAUAUGUGCAUAUUAAACUAAACUGUUUU
....-------------....(((((((....(((---((((..(((((..(((((........)))))...)))))....))))))).........)))))))........... ( -21.22)
>DroSim_CAF1 28894 97 + 1
-UUC-------------UUUUGUUUAAUUU-UUUU---CUGAAUGAAGCUAAGCUCUACUUUAUGUCUUGACGCUCUUACGUCAGAAAUAUGUGCAUAUUAAACUAAACUGUUUU
-...-------------....(((((((..-.(((---((((...(((...(((((.((.....))...)).))))))...))))))).........)))))))........... ( -13.80)
>DroEre_CAF1 30625 97 + 1
AGCCGAACCGGGAUGCAUUUUGUUUUAACU-UUAU-------------UUG----CUACUUUAUGAGUGGACGCAUUUGCGUCAGAAAUAUGUGCAUAUUAAACUAAACUGUUUU
..(((...))).((((((..((((((....-....-------------...----.(((((...)))))(((((....))))).)))))).))))))...((((......)))). ( -20.40)
>DroYak_CAF1 29381 104 + 1
AGCACAA-CGGGCUACGUUUUGUUUCAACU-UUUUGAACCAAAUGAAGUUGAGCUCUACUUUAUGA---------CUUACGUCAGAAAUAUGUGCAUAUUAAACAAAACUCUUCU
.(((((.-.(((((((..((((.(((((..-..))))).))))....))..))))).......(((---------(....))))......))))).................... ( -21.60)
>consensus
AUUC_____________UUUUGUUUAAUUU_UUUU___CUGAAUGAAGCUAAGCUCUACUUUAUGACUUGACGCUUUUACGUCAGAAAUAUGUGCAUAUUAAACUAAACUGUUUU
........................................................(((..(((...((((((......))))))..))).)))..................... ( -3.06 =  -4.46 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:43:44 2006