Locus 2238

Sequence ID X_DroMel_CAF1
Location 6,048,102 – 6,048,204
Length 102
Max. P 0.653485
window3626

overview

Window 6

Location 6,048,102 – 6,048,204
Length 102
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 82.08
Mean single sequence MFE -26.09
Consensus MFE -16.04
Energy contribution -16.28
Covariance contribution 0.24
Combinations/Pair 1.26
Mean z-score -1.92
Structure conservation index 0.61
SVM decision value 0.25
SVM RNA-class probability 0.653485
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6048102 102 + 22224390
GCCUUAAAAAGCCAGAAAAUGG--------CCAGAUAGCCAGCUCAAGAUUGGUUGAAUCGCUAAUUUUCAAAGGU-UUUUUUUUAUGGGUUAUUCUGGCUUUGUUCUAUU
.......((((((((((...((--------(......)))((((((((((((((......))))))))..(((((.-...))))).)))))).))))))))))........ ( -26.90)
>DroSec_CAF1 60038 99 + 1
GCCUUAAAAAGUCAGAAAAAGG--------CCAAAUGACCAGCUCCAGAUUGGUUGAAUCGCUAAUUUCCAAAGGU-UU---UUUAUGGGUUAUUCUGGCUUUGUUCUAUU
.............((((.((((--------((((((((((....((((((((((......)))))))).....)).-..---......))))))).))))))).))))... ( -23.02)
>DroSim_CAF1 56042 99 + 1
GCCUUAAAAAGUCAGAAAAAGC--------CCAAAUGGCCAGCUCCAGAUUGGUUGAAUCGCUAAUUUCCAAAGGU-UU---UUUAUGGGUUAUUCUGGCUUUGUUCUAUU
.......((((((((((..(((--------(((...((((......((((((((......)))))))).....)))-).---....)))))).))))))))))........ ( -26.50)
>DroEre_CAF1 56209 93 + 1
-----UAAAAGCAAGAAAAUGG--------CCAGAUUGCCAGCACCAGCUCGGCUAAAUCGCUAAUUUUAAAGGG--GU---UUUAUGGGUUGUUCUGGCAUUGUUCUAUU
-----........((((....(--------(((((.((....)).(((((((...(((((.((........)).)--))---))..))))))).))))))....))))... ( -25.80)
>DroYak_CAF1 58090 108 + 1
GUACUAAAAAGCCAGUAAAAGGCUAGAAUGCCAGAUUGCCAGCACCAGAUUGGCUAAAUCGCUAAUUUCUAAAGGUCUU---UUUAUGGGUUAUUCUGGCUUUGUUCUAUU
.........((((.......))))(((((((((((..(((((.(((((((((((......)))))))).....))))).---......)))...))))))...)))))... ( -28.21)
>consensus
GCCUUAAAAAGCCAGAAAAAGG________CCAGAUGGCCAGCUCCAGAUUGGUUGAAUCGCUAAUUUCCAAAGGU_UU___UUUAUGGGUUAUUCUGGCUUUGUUCUAUU
.......((((((((.....(((......))).(((((((......((((((((......))))))))(.....).............)))))))))))))))........ (-16.04 = -16.28 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:29 2006