Locus 5220

Sequence ID 3R_DroMel_CAF1
Location 13,665,794 – 13,665,894
Length 100
Max. P 0.572709
window8517

overview

Window 7

Location 13,665,794 – 13,665,894
Length 100
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 87.20
Mean single sequence MFE -29.30
Consensus MFE -17.47
Energy contribution -17.71
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -2.81
Structure conservation index 0.60
SVM decision value 0.08
SVM RNA-class probability 0.572709
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13665794 100 + 27905053
ACUGUGUGGAAGUGUGUGUGUGCAUUUGAAAGUAGCACA----UGGGUGCCAAAACACAGAGAGGCGCACAGGGAUAUCAGGACAACACAUGCCAUUGAAGGCA
..(((((.((.((.(.(((((((.((((......((((.----...)))).......))))...))))))).).)).))......)))))((((......)))) ( -29.92)
>DroSec_CAF1 30937 98 + 1
ACUGUAAAUGUGUGUGUGUGUGCAUUUGAAAGGAGCACA----UGGGUGCCAAAAC--AGAGAGGCGCACAGGGAUAUCAGGACAACACAUGCCAUUGAAGGCA
..(((...(((((.(.(((((((.((((....(.((((.----...)))))....)--)))...))))))).).))).))..))).....((((......)))) ( -29.90)
>DroSim_CAF1 30961 96 + 1
ACUGUAAAUGUGUG--UGUGUGCAUUUGAAAGGAGCACA----UGGGUGCCAAAAC--AGAGAGGCACACAGGGAUAUCAGGACAACACAUGCCAUUGAAGGCA
.(((...((((.(.--(((((((.((((....(.((((.----...)))))....)--)))...))))))).).))))))).........((((......)))) ( -30.00)
>DroEre_CAF1 34809 88 + 1
ACUGU----------GUGUGUGCAUUUGAAAGGAGCACA----UUGGUGACAAAAC--AGAGAGGCGCACAGGGAUAUCAGGACAACACAUGCCAUUGAAGGCA
.((((----------((((((((.(((....))))))).----(((....)))...--......))))))))..................((((......)))) ( -27.50)
>DroYak_CAF1 31128 92 + 1
ACUGU----------GUGUGUGCAUUUGAAAGGAGCACAUACAUAGGUGCUAAAAC--AGAGAGGCGCACAGGGAUAUCAGGACAACACAUGCCAUUGAAGCCA
.((((----------((((((((.(((....)))))))))))))))(((((.....--.....)))))....((...(((((.((.....))))..)))..)). ( -29.20)
>consensus
ACUGU______GUG_GUGUGUGCAUUUGAAAGGAGCACA____UGGGUGCCAAAAC__AGAGAGGCGCACAGGGAUAUCAGGACAACACAUGCCAUUGAAGGCA
..(((...........(((((((.(((.......((((........))))........)))...)))))))...........))).....((((......)))) (-17.47 = -17.71 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:23 2006