Locus 3180

Sequence ID 2R_DroMel_CAF1
Location 10,867,633 – 10,867,738
Length 105
Max. P 0.521700
window5233

overview

Window 3

Location 10,867,633 – 10,867,738
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.19
Mean single sequence MFE -27.24
Consensus MFE -22.80
Energy contribution -23.44
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -1.32
Structure conservation index 0.84
SVM decision value -0.02
SVM RNA-class probability 0.521700
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10867633 105 + 20766785
-AGCUGGCAUCAUGUGGCAGUAGUUUUGGCAACAUAAAUUAGGCCACG------GGCAUCAUUUGUUACAA-------CCGGACACAUUAGAACU-UUGCUAAUACGAUACAAAUGAUAA
-.....((....((((((..((((((((....)).)))))).))))))------.))(((((((((.....-------.((.....(((((....-...))))).))..))))))))).. ( -26.30)
>DroSec_CAF1 8160 105 + 1
-AGCUGGCAUCAUGUGGCAGUAGUUUUGGCAACAUAAAUUAGGCCACG------GGCAUCAUUUGUUAGAA-------CCGGACACAUUAGAACU-UUGCUAAUACGAUACAAAUGAUAA
-.....((....((((((..((((((((....)).)))))).))))))------.))(((((((((..(..-------..(....)(((((....-...))))).)...))))))))).. ( -26.90)
>DroSim_CAF1 8520 105 + 1
-AGCUGGCAUCAUGUGGCAGUAGUUUUGGCAACAUAAAUUAGGCCACG------GGCAUCAUUUGUUAGAA-------CCGGACACAUUAGAACU-UUGCUAAUACGAUACAAAUGAUAA
-.....((....((((((..((((((((....)).)))))).))))))------.))(((((((((..(..-------..(....)(((((....-...))))).)...))))))))).. ( -26.90)
>DroEre_CAF1 9497 105 + 1
-AGCUGGCAUCAUGUGGCAGCAGUUUUGGCAACAUAAAUUAGGCCACG------GGCAUCAUUUGUUACAA-------GCGGACACAUUAGAACU-UUGCUAAUACGAUACAGAUGAUAA
-.....((....((((((...(((((((....)).)))))..))))))------.))(((((((((....(-------(((((...........)-)))))........))))))))).. ( -26.40)
>DroAna_CAF1 20988 118 + 1
CGGCUGGCAUCAUAUGGCCG--GUUUUGGCAACACAAAUUAGGCCACGGACAUGGGCAUCAUUUGUUAGGAGGAGGAGUUGGACACAUUAGAACUUUUGCUAAUACGAUCCAAACGAUAA
((..(((.(((...(((((.--..((((......))))...))))).................((((((.(((((....((....))......))))).)))))).))))))..)).... ( -29.70)
>consensus
_AGCUGGCAUCAUGUGGCAGUAGUUUUGGCAACAUAAAUUAGGCCACG______GGCAUCAUUUGUUAGAA_______CCGGACACAUUAGAACU_UUGCUAAUACGAUACAAAUGAUAA
..(((.......((((((...(((((((....)).)))))..))))))......)))(((((((((..............(....)(((((........))))).....))))))))).. (-22.80 = -23.44 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:22 2006