Locus 9123

Sequence ID 3R_DroMel_CAF1
Location 24,359,394 – 24,359,510
Length 116
Max. P 0.510035
window14595

overview

Window 5

Location 24,359,394 – 24,359,510
Length 116
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 90.33
Mean single sequence MFE -25.58
Consensus MFE -18.16
Energy contribution -18.60
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.83
Structure conservation index 0.71
SVM decision value -0.05
SVM RNA-class probability 0.510035
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24359394 116 - 27905053
ACUAUAG-UAUAUAAAAUGAAUAUAUUUCUCGGAGUGUAUUGUAGUACGCAUUCUAUGC-CAGAAUGCACUUGUUGCGUGGAAGGCAUUUGAAAGCAAUUACACGAUCGUGAAUAUAU
(((((((-(((((.....(((.....))).....))))))))))))..((.(((.((((-(...(((((.....)))))....)))))..))).)).....(((....)))....... ( -30.00)
>DroSec_CAF1 181909 111 - 1
ACUAUAG-UAUAUAAAAUAAAUAUAUUUCUCCCAGUGCAU-----UACGCAUUCUAUGC-CAGAAUGCACUUGUUGCGUGGAAGGCAUUUGAAAGCAAUUACACGAUCGUGAAUAUAU
.......-............((((((((.....(((((((-----(..((((...))))-...)))))))).....((((....((........)).....)))).....)))))))) ( -22.00)
>DroSim_CAF1 189802 112 - 1
ACUAUAG-UAUAUAAAAUAAAUAUAUUUCUCCCAGUGCAU-----UACGCAUUCUAUGCCCAGAAUGCACUUGUUGCGUGGAAGGCAUUUGAAAGCAAUUACACGAUCGUGAAUAUAU
.......-............((((((((......(((...-----...((.(((.(((((....(((((.....)))))....)))))..))).)).....)))......)))))))) ( -21.30)
>DroEre_CAF1 193639 111 - 1
GCUAUCA-CAUAUAAAAUAAAUAUAUUUCUCCCAGUGUAC-----UAUGCAUUCUAUGC-CAGAAUGCACUUGUUGCAUGGAAGGCAUUUGAAAGCAAUUACACGAUCGUGAAUAUAU
....(((-((((((.......)))))........(((((.-----..(((.(((.((((-(...(((((.....)))))....)))))..))).)))..)))))....))))...... ( -26.40)
>DroYak_CAF1 187643 112 - 1
ACUAUCAAUAUGAAGAAUAAAUAUAUUUCUUCGAGUGUGC-----CACGCAUUCUAUGC-CACAAUGCACUUGUUGCGUGGAAGGCAUUUGAAAGCAAUUACACGAUCGUGAAUAUAU
....................(((((((..(((((((((.(-----((((((.....(((-......))).....)))))))...)))))))))........(((....)))))))))) ( -28.20)
>consensus
ACUAUAG_UAUAUAAAAUAAAUAUAUUUCUCCCAGUGUAU_____UACGCAUUCUAUGC_CAGAAUGCACUUGUUGCGUGGAAGGCAUUUGAAAGCAAUUACACGAUCGUGAAUAUAU
....................((((((((......(((((.........(((((((......)))))))....(((((.(.(((....))).)..))))))))))......)))))))) (-18.16 = -18.60 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:27:03 2006