Locus 1517

Sequence ID 3R_DroMel_CAF1
Location 4,327,148 – 4,327,264
Length 116
Max. P 0.594896
window2523

overview

Window 3

Location 4,327,148 – 4,327,264
Length 116
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 95.97
Mean single sequence MFE -21.54
Consensus MFE -21.50
Energy contribution -21.18
Covariance contribution -0.32
Combinations/Pair 1.06
Mean z-score -1.03
Structure conservation index 1.00
SVM decision value 0.12
SVM RNA-class probability 0.594896
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4327148 116 + 27905053
CAAAAUUAUUCCAUUUUAGUUCACUACUCGCAAAUAUUAUUAUAUUGUGGUCGUAAAUAAGAGACACUGCUGAUUCGAAUCGAAAUCGGGUUCAACUAUAAUUAAGUUGAUCCGAU
.............(((..((((((.((.((((((((....))).))))))).))......(((.((....)).)))))))..)))((((((.(((((.......))))))))))). ( -22.40)
>DroSec_CAF1 14492 113 + 1
CAAAAUGAUUCCAUUUUAGUUCACUACUCGCAAAUAUUAUUAUAUUGUGGUCGUAAAUAAGAGACAC---UGAUUCGAACCGAAAGCGGGUUCAACUAUAAUUAAGUUGAUCCGAU
.((((((....)))))).((((......((((((((....))).)))))(((..........)))..---......))))(....)(((((.(((((.......)))))))))).. ( -22.20)
>DroSim_CAF1 3547 113 + 1
CAAAAUGAUUCCAUUUUAGUUCACUACUCGCAAAUAUUAUUAUAUUGUGGUCGUAAAUAAGAGACAC---UGAUUCGAACCGAAAGCGGGUUCAACUAUAAUUAAGUUGAUCCGAU
.((((((....)))))).((((......((((((((....))).)))))(((..........)))..---......))))(....)(((((.(((((.......)))))))))).. ( -22.20)
>DroEre_CAF1 14609 113 + 1
CCAAAUUAUUCCAUUUUAGUUCACUACUCGCAAAUAUUAUUAUAUUGUGGUCGUACAUAAGAGACAC---UGAUUCGAACAGAAAACGGGUUCAACUAUAAUUAAGUUGAUCCGAU
.............((((.((((......((((((((....))).)))))(((..........)))..---......)))).)))).(((((.(((((.......)))))))))).. ( -21.50)
>DroYak_CAF1 6112 113 + 1
CAAAAUUAUUCCAUUUUAGUUCACUACUCGCAAAUAUUAUUAUAUUGUGGUCGUAAAUAAGAGACAC---UGAUUCGAACCGAAAACGGGUUCAACUAUAAUUAAGUUGAUUCGAU
.............(((..((((......((((((((....))).)))))(((..........)))..---......))))..))).(((((.(((((.......)))))))))).. ( -19.40)
>consensus
CAAAAUUAUUCCAUUUUAGUUCACUACUCGCAAAUAUUAUUAUAUUGUGGUCGUAAAUAAGAGACAC___UGAUUCGAACCGAAAACGGGUUCAACUAUAAUUAAGUUGAUCCGAU
.............(((..((((((.((.((((((((....))).))))))).))......(((.((....)).)))))))..))).(((((.(((((.......)))))))))).. (-21.50 = -21.18 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:38 2006