Locus 4550

Sequence ID 3R_DroMel_CAF1
Location 12,051,472 – 12,051,574
Length 102
Max. P 0.724099
window7431

overview

Window 1

Location 12,051,472 – 12,051,574
Length 102
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 75.00
Mean single sequence MFE -40.17
Consensus MFE -21.50
Energy contribution -23.12
Covariance contribution 1.62
Combinations/Pair 1.21
Mean z-score -1.98
Structure conservation index 0.54
SVM decision value 0.41
SVM RNA-class probability 0.724099
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12051472 102 + 27905053
A------------GAGAGGGCGGAAGGCAUGGUACAUUGAAAGCAUUGUGG-GUCUGAGUU-----UUGGUAUUGGGAUUGGAGCCAUGGCUUUCGCCCGAUUGUGUCCCAGCCUGGUGG
.------------((..(((((((((.(((((((((.((....)).))).(-((((.(((.-----.....))).)))))...)))))).)))))))))..)).....(((......))) ( -35.90)
>DroSim_CAF1 22841 102 + 1
G------------GAGAGGGCGGAAGGCAUGGUACAUUGAAAGCAUUGUGG-GUCUGAGUU-----UUGGUAUUGGGAUUGGAGCCAUGGCUUUCGCCCGCUUGUGUCCCAGCCUGGUGG
.------------(((.(((((((((.(((((((((.((....)).))).(-((((.(((.-----.....))).)))))...)))))).))))))))).))).....(((......))) ( -38.00)
>DroYak_CAF1 22604 112 + 1
GGAGGGAG---CGGAGGGGGCGGAAGGCAUGGUACAUUGGGAGCAGUGUGGUGUCUGAGUU-----UUGGUAUUGGGAUUGGAGCCAUGGCUUUCGGCCGCUUGUGUCCCAGCCUGGUGG
((..((..---((.(((.(((.(((((((((((((((((....))))))...((((.(((.-----.....))).))))....))))).)))))).))).))).))..))..))...... ( -47.00)
>DroAna_CAF1 21415 109 + 1
GGCGGGAGUUCCUAAGGGGGAGGGAAGUAUGGA------GGAGCA---UGG-GACUGGGCUCGGGAUUGGGAUUGGGAUUGGGCUUGUGGCU-UCGCCCGUUUCUGUCCCAGCCUGGCGG
((((((....)))....((((.((((..((((.------((((((---..(-(.(..(.(((((........))))).)..).))..).)))-))..)))))))).)))).)))...... ( -39.80)
>consensus
G____________GAGAGGGCGGAAGGCAUGGUACAUUGAAAGCAUUGUGG_GUCUGAGUU_____UUGGUAUUGGGAUUGGAGCCAUGGCUUUCGCCCGCUUGUGUCCCAGCCUGGUGG
.............(((.(((((((((.(((((((((.((....)).)))...((((.(((...........))).))))....)))))).))))))))).)))....(((.....)).). (-21.50 = -23.12 +   1.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:05 2006