Locus 26

Sequence ID 3R_DroMel_CAF1
Location 229,804 – 229,898
Length 94
Max. P 0.500000
window43

overview

Window 3

Location 229,804 – 229,898
Length 94
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 83.30
Mean single sequence MFE -29.90
Consensus MFE -20.82
Energy contribution -20.60
Covariance contribution -0.22
Combinations/Pair 1.22
Mean z-score -1.58
Structure conservation index 0.70
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 229804 94 + 27905053
U---CACAUCUGAUUACUGGGCGUGGAAACCGGUAUAUCAGCCGCGGUAUCA-----------------CUUUUAGUCCAGCGCCA-ACUAGCGUGAUAACACGCGUUCAUUACA
.---.....(((((((((((.........)))))).))))).((((.(((((-----------------(..(((((.........-))))).))))))...))))......... ( -25.60)
>DroSec_CAF1 24236 94 + 1
U---CACAUCUGAUUGCUGGGCGUGGAAACCGGUAUAUCAGCCGCGGUAUCA-----------------CCUUUAGUCCAGCGCCA-ACUGGCGUGAUAACACGCGUUCAUUACA
(---(((........((((((((.(....))((((((((......))))).)-----------------))....)))))))(((.-...))))))).................. ( -30.20)
>DroSim_CAF1 23910 94 + 1
U---CACAUCUGAUUGCUGGGCGUGGAAACCGGUAUAUCAGCCGCGGUAUCA-----------------CCUUUAGUCCAGCGCCA-ACUGGCGUGAUAACACGCGUUCAUUACA
(---(((........((((((((.(....))((((((((......))))).)-----------------))....)))))))(((.-...))))))).................. ( -30.20)
>DroEre_CAF1 27421 94 + 1
U---CCCAUCUGAUUGCUGGGCGUGAAAACCGGUAUAUCAGCCGCGGUAUCA-----------------CCUUUAGUCCAGCGCCA-ACUGGCGUGAUAACACGCUUUCGUUACA
.---...........(((((((((((...(((((......)))).)...)))-----------------).....)))))))...(-((.((((((....))))))...)))... ( -29.10)
>DroYak_CAF1 44024 94 + 1
U---CACAUCUGAUUGCUGGGCGUGAAAACCGGUGUAUCAGCCGCGGUAUCA-----------------CUAUUAGUCCAGCGCCA-ACUGGUGUGAUAACACGGGUUCAUUACA
.---...........(((((((((((...(((((......)))).)...)))-----------------).....)))))))...(-(((.((((....)))).))))....... ( -29.20)
>DroPer_CAF1 27361 115 + 1
UGCUAAUAUCUGAUUGUUGGGCGUGGAAACCGGUUUAUCAGCUCCAGUAUCAGCUGAGAAAUUUAUUCGCUUUCAGUCCAGCGUAAAACUGGCGUGAUAACAUGCCUCAGCUAUG
.....(((.((((..(((((((...((((.((((((.((((((........)))))).)))).....)).)))).)))))))........((((((....)))))))))).))). ( -35.10)
>consensus
U___CACAUCUGAUUGCUGGGCGUGGAAACCGGUAUAUCAGCCGCGGUAUCA_________________CCUUUAGUCCAGCGCCA_ACUGGCGUGAUAACACGCGUUCAUUACA
..............(((((((((.(....))(((......)))................................))))))))........(((((....))))).......... (-20.82 = -20.60 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:30:34 2006