Locus 2170

Sequence ID 3R_DroMel_CAF1
Location 6,228,281 – 6,228,377
Length 96
Max. P 0.659090
window3533

overview

Window 3

Location 6,228,281 – 6,228,377
Length 96
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 80.68
Mean single sequence MFE -20.40
Consensus MFE -14.29
Energy contribution -14.35
Covariance contribution 0.06
Combinations/Pair 1.17
Mean z-score -1.43
Structure conservation index 0.70
SVM decision value 0.26
SVM RNA-class probability 0.659090
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6228281 96 + 27905053
-----AGCAAUAUAUUGUUCCUGAUAAAACAU-ACUUAUUACCCUU-UUUCCAGCUAUCGAAUAUAUUUUCGCCUGUUUAUCAUAAUGGGCGGAAGUUGGUUU
-----...((((...((((........)))).-...))))..((..-(((((.......(((......)))(((((((......))))))))))))..))... ( -18.80)
>DroSec_CAF1 1444 96 + 1
-----AGUAAUAUAUUGUUCCUGAUAAAAUAU-ACUUAUUACCCUU-UUUCCAGCUAUCGAAUAUAUCUUCGCCUGUUUAUCAUAAUGGGCGGAAGUUGGUUU
-----.((((((...((((........)))).-...))))))....-...((((((...((.....))((((((((((......))))))))))))))))... ( -20.60)
>DroSim_CAF1 3616 96 + 1
-----AGUAAUAUAUUGUUCCUGAUAAAAUAU-ACUUAUUACCCUU-UUUCCAGCUAUCGAAUAUAUCUUCGCCUGUUUAUCAUAAUGGGCGGAAGUUGGUUU
-----.((((((...((((........)))).-...))))))....-...((((((...((.....))((((((((((......))))))))))))))))... ( -20.60)
>DroEre_CAF1 1449 96 + 1
-----AAAAAUAUUUGGUUUCUGAUAAAACAU-ACUUAUUAACCUU-UUUCCAGCUAUCGAAUUUAUUUUCGCCUGUUUAUCAUAAUGGGCGGAAGUUGGAUU
-----..........(((...((((((.....-..)))))))))..-..(((((((.(((((......)))(((((((......))))))))).))))))).. ( -22.40)
>DroYak_CAF1 1507 98 + 1
-----AGUAAUACACUGUUCCUGAUAAAAAAAAGCUCAUUACCCUUUUUUCCAGCUAUCGAAUAUAUCUUCGACUCUUUAUCAUAAUGGGCGGAAGUUGGUUU
-----.........((((((.(((((((....((((................)))).(((((......)))))...)))))))....)))))).......... ( -14.59)
>DroAna_CAF1 4463 97 + 1
CCGUGAAUAGUAUUAGCUUCACUAGUAACUAA-AGGUAUGGGC-----UUCCAGUUACCGGAUGUACCUGCGCCUGUUCAUCAUAAUGGGCUGCAAUUGGAUU
(((((..(((((((((.....))))).)))).-...)))))..-----.(((((((...((.....)).(((((((((......))))))).))))))))).. ( -25.40)
>consensus
_____AGUAAUAUAUUGUUCCUGAUAAAAUAU_ACUUAUUACCCUU_UUUCCAGCUAUCGAAUAUAUCUUCGCCUGUUUAUCAUAAUGGGCGGAAGUUGGUUU
..................................................((((((...((.....))((((((((((......))))))))))))))))... (-14.29 = -14.35 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:02 2006