Locus 4660

Sequence ID X_DroMel_CAF1
Location 12,179,337 – 12,179,454
Length 117
Max. P 0.517595
window7647

overview

Window 7

Location 12,179,337 – 12,179,454
Length 117
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 87.36
Mean single sequence MFE -30.07
Consensus MFE -19.11
Energy contribution -21.18
Covariance contribution 2.06
Combinations/Pair 1.15
Mean z-score -1.85
Structure conservation index 0.64
SVM decision value -0.03
SVM RNA-class probability 0.517595
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12179337 117 - 22224390
UAACAAUAAUGAGGUGUACUUACAAAUGCAUCUCUGUCGCUGAGCUCGAGUGUCCCAUUCCAUUGAUUGUAAUGAUACACCUGGGAAAAUAGUUGAGAUUUGGCAACAUCAUUUUCU-
..........((((((((........))))))))(((.((..(((((((.(((((((...(((((....))))).......)))))...)).))))).))..)).))).........- ( -28.40)
>DroSec_CAF1 5876 116 - 1
UAACAAUAAUGAGGUGUACUUACAAAUGCAUCUCUGUCGCUGAGCUCGAGUGUCCCCUUCCAUUGAUUGUAAUGAUACACUGGGGAAAAUAGUUCAGAU-UAGCAACAUAAUGUUUC-
.((((.....((((((((........))))))))(((..(((((((......(((((...(((((....))))).......)))))....)))))))..-..)))......))))..- ( -28.40)
>DroSim_CAF1 8775 117 - 1
UAACAAUAAUGAGGUGUACUUACAAAUGCAUCUCUGUCGCUGAGCUCGAGUGUCCCCUUCCAUUGAUUGUAAUGAUACACUGGGGAAAAUAGUUGGGAUUUAGCAACAUAAUGUUUC-
.((((.....((((((((........))))))))(((.(((((((((((.(((((((...(((((....))))).......)))))...)).))))).)))))).)))...))))..- ( -32.00)
>DroEre_CAF1 6309 112 - 1
UAACAAUAAUGAGGUGUAUUUACAAAUGCAUCUCUGUCGCCGCGCUCGAGUGUCCCGUUCCACUGAUUGUAAUGAUACACUGGGCAAAAUAGCCCAG------CAGCUCCAUUUUAUU
..........((((((((((....))))))))))((..((.((.....(((((..((((.((.....)).))))..)))))((((......)))).)------).))..))....... ( -31.50)
>consensus
UAACAAUAAUGAGGUGUACUUACAAAUGCAUCUCUGUCGCUGAGCUCGAGUGUCCCCUUCCAUUGAUUGUAAUGAUACACUGGGGAAAAUAGUUCAGAU_UAGCAACAUAAUGUUUC_
..........((((((((........)))))))).((.(((((((((((.(((((((...(((((....))))).......)))))...)).))))).)))))).))........... (-19.11 = -21.18 +   2.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:20 2006