Locus 7694

Sequence ID 3R_DroMel_CAF1
Location 20,658,311 – 20,658,430
Length 119
Max. P 0.769345
window12415

overview

Window 5

Location 20,658,311 – 20,658,430
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.64
Mean single sequence MFE -30.12
Consensus MFE -25.36
Energy contribution -26.36
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.49
Structure conservation index 0.84
SVM decision value 0.52
SVM RNA-class probability 0.769345
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20658311 119 + 27905053
GCCUGCAUUGAUUUUU-UUCGCGCAGAAGUAGGUACUCCAUUCCGGCGUUUUUCGGGUUUUUAUGGUCACCUCUAGAACUUUCACUUUUUGAUGUGCGUAAAUUUGCAUAUUUGUCGGAC
..((((..(((.....-.))).)))).....((....))..(((((((((((..((((..........))))..)))))...........((((((((......)))))))).)))))). ( -29.00)
>DroSec_CAF1 14750 118 + 1
GCCUGCAUUGAUUU-U-UUCGCUCAGGAGUUGGUACUCCAUUCCGGCGUUUUUGGGGUUUUUAUGGUCACCUCUAGAACUUUCACUUUUUGAUGUGCGUAAAUUUGCAUAUUUGUCGGUC
..............-.-........(((((....)))))...((((((((((.(((((..........))))).)))))...........((((((((......)))))))).))))).. ( -29.90)
>DroSim_CAF1 5612 118 + 1
GCCUGCAUUGAUUU-U-UUCGCUCAGGAGUAGGUACUCCAUUCCGGCGUUUUUGGGGUUUUUAUGGUCACCUCUAGAACUUUCACUUUUUGAUGUGCGUAAAUUUGCAUAUUUGUCGGUC
((((((.((((...-.-.....))))..))))))........((((((((((.(((((..........))))).)))))...........((((((((......)))))))).))))).. ( -31.60)
>DroEre_CAF1 5516 118 + 1
GCCUGCAUUGAUUUUU-UUUCCGCAGGAGUAGGUACUCCAUUCCGGCGUUUUCGGGUU-UUUAUGGUCACCUCUAGAACUUUCACUUUUUGAUGUGCGUAAAUUUGCAUAUUUGUCGGAC
.(((((...((.....-..)).)))))....((....))..(((((((((((.((((.-.........))).).)))))...........((((((((......)))))))).)))))). ( -28.80)
>DroYak_CAF1 5190 120 + 1
GCCUGCAUUGAUUUUUUUUUGCGCUGGAGUAGGUACUCCAUUCCGGCGUUUUCGGGUUUUUUAUGGUCACCUCUAGAACUUUCACUUUUUGAUGUGCGUAAAUUUGCAUAUUUGUCGGAC
.((.(((.(((.........((((((((((.((....))))))))))))....(((((((....((...))...))))))))))......((((((((......))))))))))).)).. ( -31.30)
>consensus
GCCUGCAUUGAUUUUU_UUCGCGCAGGAGUAGGUACUCCAUUCCGGCGUUUUUGGGGUUUUUAUGGUCACCUCUAGAACUUUCACUUUUUGAUGUGCGUAAAUUUGCAUAUUUGUCGGAC
((((((.(((.............)))..))))))........((((((((((.(((((..........))))).)))))...........((((((((......)))))))).))))).. (-25.36 = -26.36 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:20 2006