Locus 2272

Sequence ID 3R_DroMel_CAF1
Location 6,454,082 – 6,454,193
Length 111
Max. P 0.812329
window3679

overview

Window 9

Location 6,454,082 – 6,454,193
Length 111
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 77.28
Mean single sequence MFE -28.67
Consensus MFE -17.55
Energy contribution -19.68
Covariance contribution 2.13
Combinations/Pair 1.32
Mean z-score -1.93
Structure conservation index 0.61
SVM decision value 0.65
SVM RNA-class probability 0.812329
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6454082 111 + 27905053
UGUACGUGUUUCCAUGGGUUUGGGUGAACUACACUCAGAGAAGAUGGAAUGUGUUACACUAAAUAUAUUCAAUUUAUAACUUCCAUGGUUUUGUUA-UAAAAUAGCAUUUAA
...........(((((((((((((((.....))))))))..((((.(((((((((......))))))))).))))......)))))))...(((((-(...))))))..... ( -27.00)
>DroSec_CAF1 217921 111 + 1
UGUACGUUUUUCCAUGGGUUUGGGUGAAGUGCACUCAGAGAAGAUGGAAAGUAUAACGCUAAAUAUAUUCUAUCUAGAACUUCCAUGGUUUUGUUA-UAAAACUCCAUUAAA
.....(((((.(((((((((((((((.....))))))))..((((((((.((((........)))).))))))))......)))))))........-.)))))......... ( -28.30)
>DroSim_CAF1 243968 111 + 1
UGUACGUGUUUUCAUGGGUUUGGGUGAAGUGCACUCAGAGAAGAUGUAAAGUGUUACACUAAAUAUUUCCUAUUUAAAACUUCCAUGGUUUUGUUA-UAAAACGCCAUUAAA
.....(((((((.(((((((((((((.....))))))))..((((((..((((...))))..))))))))))).(((((((.....)))))))...-.)))))))....... ( -23.40)
>DroEre_CAF1 229532 106 + 1
UGGACGUGCAUCCACGGGUUUGGCUGCACUGCACUCAGCGAAGAUGGGAGUGGUAACUC--AGCAUC----GGAUACAACUUUCAUGGUUGUGUCAAAAAAAUCGCCUUUUA
.....(((((.(((......))).)))))........((((.((((.((((....))))--..))))----.(((((((((.....))))))))).......))))...... ( -36.00)
>consensus
UGUACGUGUUUCCAUGGGUUUGGGUGAACUGCACUCAGAGAAGAUGGAAAGUGUAACACUAAAUAUAUUCUAUUUAAAACUUCCAUGGUUUUGUUA_UAAAACACCAUUAAA
...........(((((((((((((((.....))))))))..(((((((((((((........)))))))))))))......)))))))........................ (-17.55 = -19.68 +   2.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:21 2006