Locus 1689

Sequence ID X_DroMel_CAF1
Location 4,712,455 – 4,712,551
Length 96
Max. P 0.901179
window2777

overview

Window 7

Location 4,712,455 – 4,712,551
Length 96
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.53
Mean single sequence MFE -28.04
Consensus MFE -17.68
Energy contribution -17.36
Covariance contribution -0.32
Combinations/Pair 1.12
Mean z-score -2.10
Structure conservation index 0.63
SVM decision value 1.02
SVM RNA-class probability 0.901179
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4712455 96 + 22224390
CC--------------UUAACC-------CAUACCCAG-GGCAC--AGGGCUGGCUGGCUUUUAUGCCCGCAGAUUUGGGUUAAAAGUAGCCUCCCUUGUGUAUUUAAUAGUAUUCCACA
..--------------....((-------(.......)-))(((--((((..(((((.((((((.(((((......))))))))))))))))..)))))))................... ( -32.70)
>DroSec_CAF1 5607 89 + 1
CC--------------UUAACC-------CAUACCCUA-G---------CCGGGCUGGCUUUUAUGCCCGCAGAUUUGGGUUAAAAGUAGCCUCCCUUGUGUAUUUAAUAGUAUUCCACA
..--------------......-------.((((.(.(-(---------..((((((.((((((.(((((......)))))))))))))))))..)).).))))................ ( -21.90)
>DroEre_CAF1 6552 108 + 1
CCUUAACCCUUAACCCUUAACC-------CAUAC-CA--GGCCC--GUAGCUGGCUGGCUUUUAUGCCCGCAGCUAUGGGUUAAAAGUAGCCUCCCUUGUGUAUUUAAUAGUAUUCCAGG
......................-------.....-..--(((((--(((((((.(.(((......))).)))))))))))))............(((.(.(((((....))))).).))) ( -29.80)
>DroYak_CAF1 6404 95 + 1
CC--------------UUAGCC-------CAUACACG--GGCCC--AUGGCUGGCUGGCUUUUAUGCCCGCAGAUUUGGGUUAAAAGUAGCCUCCCUUGUGUAUUUAAUAGUAUUCCAGA
..--------------...(((-------(......)--))).(--(.((..(((((.((((((.(((((......))))))))))))))))..)).))..................... ( -28.70)
>DroAna_CAF1 5934 106 + 1
CC--------------UUCGCCGCCACUCCACAGCCACUGCCCCUUAAGGCUGGCUGACUUUUAUGCCCGCAGAUUUGGGUUAAAAGUAGCUUCCCUUGUGUAUUUAAUAGUAUUCCAGA
..--------------......((.......((((((..(((......)))))))))(((((((.(((((......)))))))))))).))....((.(.(((((....))))).).)). ( -27.10)
>consensus
CC______________UUAACC_______CAUACCCA__GGCCC__AUGGCUGGCUGGCUUUUAUGCCCGCAGAUUUGGGUUAAAAGUAGCCUCCCUUGUGUAUUUAAUAGUAUUCCAGA
....................................................((((.(((((((.(((((......))))))))))))))))............................ (-17.68 = -17.36 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:43 2006