Locus 1268

Sequence ID X_DroMel_CAF1
Location 3,789,248 – 3,789,366
Length 118
Max. P 0.544946
window2035

overview

Window 5

Location 3,789,248 – 3,789,366
Length 118
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 77.64
Mean single sequence MFE -19.27
Consensus MFE -13.89
Energy contribution -13.83
Covariance contribution -0.06
Combinations/Pair 1.23
Mean z-score -1.48
Structure conservation index 0.72
SVM decision value 0.02
SVM RNA-class probability 0.544946
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3789248 118 + 22224390
U--AUAUAAUAUUCAUAACGCUAGGAUUGAACAUCAGAAUAAUUUGAUAUCAGAUUAUUUUACAACUUUGUAUGUCCUUUAAAAGGGCGACUGUAUGCACAUAACAAAUGUACCACUACC
.--....................((......(((((((((((((((....))))))))).((((....))))((((((.....)))))).))).))).((((.....)))).))...... ( -19.00)
>DroSec_CAF1 38158 104 + 1
---------------UAACGCUAGGAUUGAACAUCAGAAUAAUUUGAUAUCAGAUUAU-UUACAACUUUGUAUGUCCUUCAAAAGGACGACUGUAUGCACAUAAGAAAUGUACUACUACC
---------------......(((.......(((((((((((((((....))))))))-)((((....))))((((((.....)))))).))).))).((((.....)))).)))..... ( -18.10)
>DroEre_CAF1 39088 115 + 1
UGUAUCUUACAUUCCUGAUUC-----UUGAACAUCAUAAUAAUUUGAUAUCAAAUUAUUUUACAACUUUGUAUGUCCUUCAAAAGGACGACUUUAUGUACAGAACAUAUGUAAUAAUACA
.((((.((((((...((.(((-----(.(.((((...(((((((((....)))))))))..........((.((((((.....))))))))...)))).))))))).))))))..)))). ( -22.70)
>DroYak_CAF1 39779 114 + 1
UA-AUCUUACAUUCUUGAUCC-----UUGAACACCGUAAUAAUUUGUUAUCGAAUCAUUUUACAACUUUGUAUGCCCUUUAAAAGGGCGACUUUAUGUACAUAACAUAUGUAAUAAUACA
..-...((((((...((....-----.((.(((..((((..(((((....)))))....))))......((.((((((.....))))))))....))).))...)).))))))....... ( -17.30)
>consensus
U__AUCUUACAUUC_UAACGC_____UUGAACAUCAGAAUAAUUUGAUAUCAAAUUAUUUUACAACUUUGUAUGUCCUUCAAAAGGACGACUGUAUGCACAUAACAAAUGUAAUAAUACA
..............................(((..(((((((((((....)))))))))))........((.((((((.....)))))))).................)))......... (-13.89 = -13.83 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:24 2006