Locus 319

Sequence ID 3R_DroMel_CAF1
Location 1,240,917 – 1,241,016
Length 99
Max. P 0.892406
window540

overview

Window 0

Location 1,240,917 – 1,241,016
Length 99
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 73.74
Mean single sequence MFE -27.14
Consensus MFE -13.50
Energy contribution -14.06
Covariance contribution 0.56
Combinations/Pair 1.36
Mean z-score -1.96
Structure conservation index 0.50
SVM decision value 0.97
SVM RNA-class probability 0.892406
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1240917 99 + 27905053
AGUAUUGCCUUUCGCGAGGGGAG--UUGGAGGGGAGGGGAAGGAUAAUGCCGCCGAUACAGC---------ACCAGCAAUGAAAAUCUCAUUAGCAUUAGGAUGUGAUAA-
..((((((...((....))((.(--(((....((.((.(........).)).))....))))---------.)).))))))...(((.((((........)))).)))..- ( -20.80)
>DroSim_CAF1 14927 90 + 1
AGUAUUGUGCUUCGCGAGGGGAG--C---------GGGGAAGGAUAAUGCCGCCGAUACAGC---------ACCAGCAAUGAAAAUCGCAUUAGCAUUAGGAUGUGAUAA-
.((((((..((((....)))).(--(---------((.(........).)))))))))).((---------....)).......((((((((........))))))))..- ( -23.90)
>DroEre_CAF1 15283 90 + 1
AGCAUUGCUCCUCGCAAGGGGAG--C---------GGGGAGGUGUAAUGACGCCGAUACAGA---------GCCAGCGAUGAAAAUCGCAUUAGCAUUAGGCUGUGAUAA-
....(((((((((....))))))--)---------))...(((((....)))))....((.(---------(((.(((((....)))))..((....)))))).))....- ( -37.90)
>DroYak_CAF1 21275 100 + 1
AGUAUUGCUCUUCGCAAGAGGAG--A---------GGGUAGGGGUGAAUCCGCUGAUACAGCAAUGCUGAUACCAGCAAUGAAAAUCGCAUUAGCAUUAGGAUGUGAUAAG
.(((((.((((((....))))))--.---------....((.((.....)).)))))))..((.(((((....))))).))...((((((((........))))))))... ( -32.20)
>DroAna_CAF1 15847 85 + 1
AUAAGUG-------ACAGGGGACGGC-------UAGGGAAAGG--GAUACCGCCAAUCCAGU---------GCCAGCAAUGAAAAUCGCAUUAGCAUUAGGAUGUGAUAA-
....((.-------...(....)(((-------...(((...(--(......))..)))...---------))).)).......((((((((........))))))))..- ( -20.90)
>consensus
AGUAUUGCUCUUCGCAAGGGGAG__C_________GGGGAAGGAUAAUGCCGCCGAUACAGC_________ACCAGCAAUGAAAAUCGCAUUAGCAUUAGGAUGUGAUAA_
..((((((.((((....))))...............((...((......)).)).....................))))))...((((((((........))))))))... (-13.50 = -14.06 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:21 2006