Locus 5439

Sequence ID 3R_DroMel_CAF1
Location 14,351,532 – 14,351,627
Length 95
Max. P 0.839951
window8847

overview

Window 7

Location 14,351,532 – 14,351,627
Length 95
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 77.52
Mean single sequence MFE -22.42
Consensus MFE -10.79
Energy contribution -13.57
Covariance contribution 2.78
Combinations/Pair 1.05
Mean z-score -2.25
Structure conservation index 0.48
SVM decision value 0.75
SVM RNA-class probability 0.839951
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14351532 95 + 27905053
GGUUUCAGGCAGCCAUCAUAAAAUGAUGCGCCCACAAAAUGCACAUCCA-CAUCCUGGCUAGGUGUAAAUCACGUAGCACUCUGACGCCUUUUACA
(((.(((((((((((((((...)))))).))........))).......-.......((((.(((.....))).))))...)))).)))....... ( -25.90)
>DroPse_CAF1 138410 89 + 1
GGUAUCAGGGAGCCAUCAUAAAAUGAUGCACCCACAAAAUUCA-------CAUCCUGGCUAGGUGUAAAUCACGUAGCACUCUGACGCCUUUUACA
((..((((((.((.(((((...)))))))..............-------.......((((.(((.....))).)))).))))))..))....... ( -26.80)
>DroGri_CAF1 132727 81 + 1
-GUCUCUCACA-UACUCGUAAAAUGAUGCAC-----AGAUGCACAUCC--------GCCUAGGUGUAAAUCACGUAGCACCCCAACGCCUUUUACA
-..........-.....((((((((.((((.-----...))))))...--------((.((.(((.....))).))))...........)))))). ( -13.00)
>DroMoj_CAF1 161826 74 + 1
--------GCA-UGCUCGUAAAAUGAUGCAC-----AGAUGCACAUUC--------GCCUAGGUGUAAAUCACGUAGCACUCCAACGCCUUUUACA
--------...-(((((((..((((.((((.-----...))))))))(--------((....)))......))).))))................. ( -13.40)
>DroAna_CAF1 121752 95 + 1
GGUAUCAGG-AGCCAUCAUAAAAUGAUGCGCCCACAAAAUGCACAUCCUGUAUCCUGGCUAGGUGUAAAUCACGUAGCACUCUGACGCCUUUUACA
((..(((((-.((((((((...)))))).)))).((..(((((.....)))))..))((((.(((.....))).))))....)))..))....... ( -28.60)
>DroPer_CAF1 142579 89 + 1
GGUAUCAGGGAGCCAUCAUAAAAUGAUGCACCCACAAAAUUCA-------CAUCCUGGCUAGGUGUAAAUCACGUAGCACUCUGACGCCUUUUACA
((..((((((.((.(((((...)))))))..............-------.......((((.(((.....))).)))).))))))..))....... ( -26.80)
>consensus
GGUAUCAGGCAGCCAUCAUAAAAUGAUGCACCCACAAAAUGCACAUCC__CAUCCUGGCUAGGUGUAAAUCACGUAGCACUCUGACGCCUUUUACA
(((.(((((....((((((...)))))).............................((((.(((.....))).))))..))))).)))....... (-10.79 = -13.57 +   2.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:40 2006