Locus 4788

Sequence ID X_DroMel_CAF1
Location 12,445,796 – 12,445,910
Length 114
Max. P 0.904147
window7836

overview

Window 6

Location 12,445,796 – 12,445,910
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.16
Mean single sequence MFE -24.04
Consensus MFE -13.21
Energy contribution -14.21
Covariance contribution 1.00
Combinations/Pair 1.16
Mean z-score -2.82
Structure conservation index 0.55
SVM decision value 1.03
SVM RNA-class probability 0.904147
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12445796 114 - 22224390
UAAUUAACGCACUAUUUGUGUUGCAAUGAAAUCAACGUAACAGC------AAAACCAUAAAACAUGCGAGCACAACAACACAAAAUAACAUGAGUACAGCGAACAGCUGUUUCAGCGACA
.......(((....(((((((((...((....))..((....((------(.............)))....))..)))))))))......((((.(((((.....))))))))))))... ( -25.12)
>DroSec_CAF1 9951 109 - 1
-----GUUGCACUAUAUGUGUUGCAAUAAAAUCAACGUAACAGC------AACACCACAAAACAUGCGAGCACAACAACACAAAAUAACAUGUGUACAGCAAACAGCUGUUUCAGCAACA
-----(((((.......(((((((..................))------)))))............(((.......(((((........)))))(((((.....)))))))).))))). ( -25.57)
>DroSim_CAF1 12710 114 - 1
UGAUUAACGCACUAUAUGUUUUGCAAUGAAAUCAACGUAACAGC------AACACCACAAAACAUGCGAGCACAACAACACAAGAUAACAUGUGUACAGCAAACAGCUGUUUCAGCAACA
.......((((.....(((((((...((....))..((....))------.......))))))))))).((......(((((........)))))(((((.....)))))....)).... ( -20.40)
>DroEre_CAF1 8808 117 - 1
UCGCAAACGCAG--UUUGUUUUGCACUGAAAUCAACGUAACAGUAACUGUAAACCCACAAGAUAUGCGAGCACAACAACACAAAAUAACAUGUGGUCAGCGAACAUCUGACGCAGCGUC-
.(((...((((.--((((((((((((((............))))....)))))...)))))...)))).((.......((((........))))(((((.......))))))).)))..- ( -25.70)
>DroYak_CAF1 11945 114 - 1
UGAUAAACGCACUAUUUGCUUUGCAAUGAAAUCAACGUAACAGC------AAAACCACAAAACAUGCGAGCACAACAACACAAAAUAACAUGUGGACAGCUAACAGCUGAUGCAGCGCCA
.......(((....((((((((((..((....))..)))).)))------)))...........((((..........((((........))))..((((.....)))).)))))))... ( -23.40)
>consensus
UGAUAAACGCACUAUUUGUUUUGCAAUGAAAUCAACGUAACAGC______AAAACCACAAAACAUGCGAGCACAACAACACAAAAUAACAUGUGUACAGCAAACAGCUGUUUCAGCGACA
.......(((......((((.(((..((....)).((((.........................)))).))).)))).............((((.(((((.....))))))))))))... (-13.21 = -14.21 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:09 2006