Locus 1322

Sequence ID 3R_DroMel_CAF1
Location 3,894,773 – 3,894,875
Length 102
Max. P 0.508456
window2164

overview

Window 4

Location 3,894,773 – 3,894,875
Length 102
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 88.45
Mean single sequence MFE -20.25
Consensus MFE -15.72
Energy contribution -16.04
Covariance contribution 0.32
Combinations/Pair 1.12
Mean z-score -1.43
Structure conservation index 0.78
SVM decision value -0.05
SVM RNA-class probability 0.508456
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3894773 102 - 27905053
GCAGUCGAAUGAAGUGC-CACAACCUGAGUGCAGAUACC-CAAAAAA--AAAUGAUACAUGACGGCAUACAGCUGCUGUCGAAAUAAUAGUACUUCUUCUAUAAAC---
......(((.(((((((-......(((....))).....-.......--..........((((((((......))))))))........)))))))))).......--- ( -22.40)
>DroSec_CAF1 17977 100 - 1
GCAGUCGAAUGAAGUGC-CACAACCUGACUGCAGAUACA-CAAAAAA--AA--GAUACAUGACGGCAUACAGCUGCUGUCGAAAAAUUAGUACUUCUUGUAUAAAC---
(((((((..((......-..))...))))))).......-.......--..--......((((((((......))))))))........((((.....))))....--- ( -21.50)
>DroSim_CAF1 18166 100 - 1
GCAGUCGAAUGAAGUGC-CACAACCUGACUGCAGAUACA-CAAAAAA--AA--GAUACAUGACGGCAUACAGCUGCUGUCGAAAUAAUAGUACUUCUUAUAUAAAC---
..........(((((((-......(((....))).....-.......--..--......((((((((......))))))))........)))))))..........--- ( -20.50)
>DroEre_CAF1 16746 103 - 1
GCAGUCGAAUGAAGUGC-CACAACCU-ACUGCAGAUACA-CAAAAAA-UAA--GAUACAGAACGGCAUACAGCUGCUGUCGAAAUAUUAGUACUUCUGCUUCAAACAUU
(((((.(..((......-..))..).-))))).......-.......-...--((..((((((((((......))))))...............))))..))....... ( -16.06)
>DroYak_CAF1 18105 104 - 1
GCAGUCGCAUGAGGUGCCCACAACCUGACUGCAGAUACAACAAAAAAGAAA--GAUACAAAACUACAUACAGCUGUUGUCGAAAUAGUAGUACUUCUUUUCUAAAC---
((((((.....((((.......))))))))))...........((((((((--(........))...(((.((((((.....)))))).))).)))))))......--- ( -20.80)
>consensus
GCAGUCGAAUGAAGUGC_CACAACCUGACUGCAGAUACA_CAAAAAA__AA__GAUACAUGACGGCAUACAGCUGCUGUCGAAAUAAUAGUACUUCUUCUAUAAAC___
..........(((((((.......(((....)))..........................(((((((......))))))).........)))))))............. (-15.72 = -16.04 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:44 2006