Locus 622

Sequence ID 3R_DroMel_CAF1
Location 2,294,251 – 2,294,359
Length 108
Max. P 0.574093
window992

overview

Window 2

Location 2,294,251 – 2,294,359
Length 108
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 81.58
Mean single sequence MFE -27.38
Consensus MFE -18.01
Energy contribution -17.38
Covariance contribution -0.63
Combinations/Pair 1.31
Mean z-score -1.66
Structure conservation index 0.66
SVM decision value 0.08
SVM RNA-class probability 0.574093
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2294251 108 - 27905053
CGGACCGCCUAUG--AACGGUC-------UGUAUAUUUAUCCGCUGCUCGGAUAUAUGUGUGCGACGUGGCCUUCUAUUAAUAUC---UCCCCACACUUUCACUUGGCUGCAGCUUUCCC
.((((((......--..)))))-------)((((((.((((((.....))))))...))))))...(..(((.............---.................)))..)......... ( -27.51)
>DroSec_CAF1 30475 108 - 1
CGGACCGCCUAUG--AACGGUC-------UGUAUAUUUAUCCGCUGCUCGGAUAUAUGUGUGCGACGUGGCCUUCUAUUAAUAUC---UCCUCACACUUUCACUUGGCUACAGCUUUCCC
.((((((......--..)))))-------)((((((.((((((.....))))))...))))))...((((((.............---.................))))))......... ( -28.41)
>DroSim_CAF1 32095 108 - 1
CGGACCGCCUAUG--AACGGUC-------UGUAUAUUUAUCCGCUGCUCGGAUAUAUGUGUGCGACGUGGCCUUCUAUUAAUAUC---UCCUCACACUUUCACUUGGCUACAGCUUUCCC
.((((((......--..)))))-------)((((((.((((((.....))))))...))))))...((((((.............---.................))))))......... ( -28.41)
>DroAna_CAF1 30074 120 - 1
CGGUCUGUAUCUGCUACUUGUCGGAUAAAUAUAUAUAUAUACACUAUAUAUGUAUGUGGUUGCGGCGUGGUCUUCUAUAAAUAUAUCCUCCUUACACUUUCACUUGGCUACAGUUUUCCC
.((.(((((...((((...((((.(...(((((((((((((...)))))))))))))...).))))((((....))))..........................)))))))))....)). ( -25.20)
>consensus
CGGACCGCCUAUG__AACGGUC_______UGUAUAUUUAUCCGCUGCUCGGAUAUAUGUGUGCGACGUGGCCUUCUAUUAAUAUC___UCCUCACACUUUCACUUGGCUACAGCUUUCCC
.(((..((...........(((........((((((.((((((.....))))))...)))))))))((((((.................................)))))).))..))). (-18.01 = -17.38 +  -0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:44 2006