Locus 3391

Sequence ID 2R_DroMel_CAF1
Location 11,456,978 – 11,457,070
Length 92
Max. P 0.891907
window5543

overview

Window 3

Location 11,456,978 – 11,457,070
Length 92
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 71.63
Mean single sequence MFE -17.01
Consensus MFE -9.39
Energy contribution -11.20
Covariance contribution 1.81
Combinations/Pair 1.14
Mean z-score -1.90
Structure conservation index 0.55
SVM decision value 0.97
SVM RNA-class probability 0.891907
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11456978 92 + 20766785
UAUAACUCAAACGAUCU-------UAACUGACUAAACACAUCUAGGAAUACUGAAUGAUGAAUGAAUGAAUAAGAAACGUAAUUCGUUUGUGUUCAGUA
..............(((-------((..((........))..))))).((((((((.(..(((((((..............)))))))..))))))))) ( -16.84)
>DroSec_CAF1 7063 69 + 1
UAUAACGCAAACGAUCU-------UAAC-----------------------UGAAUGAUGAAUGAAUGAAUAAGAAACCUUAUUCGUUUGUGUUCAGUA
.................-------..((-----------------------(((((.....(..((((((((((....))))))))))..)))))))). ( -17.40)
>DroSim_CAF1 7084 86 + 1
UAUAA------CGAUCU-------UAACUGACUAAACACAUCUAGGAAUACUGAAUGAUGAAUGAAUGAAUAAGAAACCUUAUUCGUUUGUGUUCAGUA
.....------...(((-------((..((........))..))))).((((((((.....(..((((((((((....))))))))))..))))))))) ( -20.30)
>DroYak_CAF1 7087 97 + 1
UAUAU--CUACCAAUAUGACUGACCAACUGACUAAACAGAACUAGGAAUAUUCAGUGAUUAAUGAAUGAAUAAGAAAGUUUAUUCGUUUGAGUGCCGUA
.....--.(((((..((.(((((((..(((......))).....)).....))))).)).(((((((((((......))))))))))))).)))..... ( -13.50)
>consensus
UAUAA__CAAACGAUCU_______UAACUGACUAAACACAUCUAGGAAUACUGAAUGAUGAAUGAAUGAAUAAGAAACCUUAUUCGUUUGUGUUCAGUA
................................................((((((((.....(((((((((((((....))))))))))))))))))))) ( -9.39 = -11.20 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:25 2006