Locus 4377

Sequence ID 2L_DroMel_CAF1
Location 12,607,598 – 12,607,707
Length 109
Max. P 0.505337
window6894

overview

Window 4

Location 12,607,598 – 12,607,707
Length 109
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 77.24
Mean single sequence MFE -29.67
Consensus MFE -16.74
Energy contribution -16.30
Covariance contribution -0.44
Combinations/Pair 1.19
Mean z-score -1.53
Structure conservation index 0.56
SVM decision value -0.06
SVM RNA-class probability 0.505337
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12607598 109 + 22407834
CAGACUUCUUAGGGCUGUUUUCCGGGCUC---AAUCUUAUGCAAAAUCACCUUAAGG-GA-AAUUUGCAUGGGAAAGUGUUUGUGCGGGUUCCUAAAUGGGACAUCUUUCAAGG
(((((..(((.(((((........)))))---..(((((((((((.(..((....))-..-).)))))))))))))).))))).....(((((.....)))))........... ( -31.70)
>DroPse_CAF1 233878 97 + 1
CAGACUUCUUAGGGUUGGUU-CGG-CCUCUGAAAUCUUAUGCAAAAUCAUCUUUAGGGGA-CAUUUGCAUGGGAGAGUGCCUGAGAAAGUGU--------------UUCCAUGG
...((((((((((.....((-(((-...))))).(((((((((((.((..(....)..))-..))))))))))).....)))))).))))..--------------........ ( -25.30)
>DroEre_CAF1 172654 109 + 1
CAGACUUCUUAGGGUUGUUUUCCA-GCUC---AAUCUUAUGCAAAAUCACCUUAAGG-GAAAAUUUGCAUGGGAAAGUGUUUGUGAGGGUUCCUAAAUGGGACAUCUUUCAAGG
(((((..(((.((((((.....))-))))---..(((((((((((.((.((....))-))...)))))))))))))).)))))((((((.((((....))))...))))))... ( -33.10)
>DroYak_CAF1 178712 108 + 1
CAGACUUCUUAGGGUUGUUUUCCA-GCUC---AAUCUUAUGCAAAAUCACCUUAAGG-GA-AAUUUGCAUGGGAAAGUGUUUGUGCGGGUUCCUAAAUGGGACAUCUUUCAAGG
(((((..(((.((((((.....))-))))---..(((((((((((.(..((....))-..-).)))))))))))))).))))).....(((((.....)))))........... ( -32.10)
>DroAna_CAF1 173323 101 + 1
CAGACUUCUUAGGGUUGUUUUCCA-UUUC---AAUCUUAUGCAAAAUCACCUUAAGG-AG-AAUUUGCAUGGGAAAGUGUUUGUGCGGAUG-------AGAACAUGCUUAGGGG
......(((((((..(((((((..-.(((---..(((((((((((.((.((....))-.)-).)))))))))))..((......))))).)-------))))))..))))))). ( -30.50)
>DroPer_CAF1 227382 97 + 1
CAGACUUCUUAGGGUUGGUU-CGG-CCUCUGAAAUCUUAUGCAAAAUCAUCUUUAGGGGA-CAUUUGCAUGGGAGAGUGCCUGAGAAAGUGU--------------UUCCAUGG
...((((((((((.....((-(((-...))))).(((((((((((.((..(....)..))-..))))))))))).....)))))).))))..--------------........ ( -25.30)
>consensus
CAGACUUCUUAGGGUUGUUUUCCA_GCUC___AAUCUUAUGCAAAAUCACCUUAAGG_GA_AAUUUGCAUGGGAAAGUGUUUGUGAGGGUGC______GGGACAUCUUUCAAGG
(((((..(((.(((............))).....(((((((((((.((.((....)).))...)))))))))))))).)))))............................... (-16.74 = -16.30 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:21 2006