Locus 1803

Sequence ID 3R_DroMel_CAF1
Location 5,156,616 – 5,156,725
Length 109
Max. P 0.981848
window2971

overview

Window 1

Location 5,156,616 – 5,156,725
Length 109
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.45
Mean single sequence MFE -27.53
Consensus MFE -17.59
Energy contribution -17.23
Covariance contribution -0.36
Combinations/Pair 1.36
Mean z-score -2.20
Structure conservation index 0.64
SVM decision value 1.90
SVM RNA-class probability 0.981848
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5156616 109 - 27905053
UCAGCCAGUAUGUUGACUGGAUCAAGAAGAGCCAGAUCAUCUUGGCCUAGUC---AUCGCAUUAUCUGAGUGAAUAGUGUAUGGGCUAU-------GCGUGCAAUAAAUAAAAUUGAUA-
(((..(((.(((((((((((..(((((.((......)).)))))..))))))---)..))))...)))..)))....((((((......-------.))))))................- ( -30.20)
>DroSec_CAF1 30518 101 - 1
UCAGCCAGUAUAUCGACUGGAUCAAGAAGAGCCAGAUAAUCUUGGCCUAGUCAUCAUCGCAUUAUCUGUGUGAAUAGUGUAU------------------GCAAUAAAUAAAACUGAUA-
.....((((.....((((((..(((((..(......)..)))))..))))))......((((...((((....))))...))------------------))..........))))...- ( -26.20)
>DroSim_CAF1 30230 101 - 1
UCAGCCAGUAUAUCGACUGGAUCAAGAAGAGCCAGAUCAUCUUGGCCUAGUCAUCAUCGCAUUAUCUGUGUGAAUAGUGUAU------------------GCAAUAAAUAAAACUGAUA-
.....((((.....((((((..(((((.((......)).)))))..))))))......((((...((((....))))...))------------------))..........))))...- ( -29.20)
>DroEre_CAF1 29081 114 - 1
UCAGCCAGUAUAUCGACUGGAUCAGGAGGAACCAGAUAAUUUUGGCCUAGUC---AUCCCAUUAUCUUUGUGGACAGUGCAUUGGCUAUACCA--UACCUGCAAUAAAUAAUGCUGAUA-
(((((((((......))))...(((((((..(((((....))))))))((((---(...((((.(((....))).))))...)))))......--..))))...........)))))..- ( -29.20)
>DroYak_CAF1 28228 109 - 1
UCAGCCAGUACAUCGACUGGAUCAAGAAGAGCCAGAUCAUUUUGGCCUAGUC---AUCGCACUAUCAUUGUGAAUAGAGUAUGGCCUAU-------ACCUGCAAUAAAUAAAGCUGAUA-
(((((..((((.((((((((..(((((.((......)).)))))..))))))---.(((((.......)))))...)))))).((....-------....))..........)))))..- ( -28.80)
>DroAna_CAF1 52703 109 - 1
UCAGUCAGUACGUUGACUGGAUCAAGAAAAACCUUAUUAUUUUGGCUUAGUC---AUGGAAUUAUCUUUGAC--------GUUUUCAAAAUCAGUUAAAUGCAAUAAAUUAAAUUGAUAA
((((((((....)))))))).....(((((.((..........))....(((---(.(((....))).))))--------.)))))...(((((((.(((.......))).))))))).. ( -21.60)
>consensus
UCAGCCAGUAUAUCGACUGGAUCAAGAAGAGCCAGAUCAUCUUGGCCUAGUC___AUCGCAUUAUCUGUGUGAAUAGUGUAU_G_CUAU_______AC_UGCAAUAAAUAAAACUGAUA_
.....((((.....((((((..(((((.((......)).)))))..))))))....(((((.......))))).......................................)))).... (-17.59 = -17.23 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:56 2006