Locus 4128

Sequence ID 3R_DroMel_CAF1
Location 11,255,723 – 11,255,827
Length 104
Max. P 0.659448
window6615

overview

Window 5

Location 11,255,723 – 11,255,827
Length 104
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 83.70
Mean single sequence MFE -26.45
Consensus MFE -16.97
Energy contribution -17.17
Covariance contribution 0.20
Combinations/Pair 1.18
Mean z-score -1.96
Structure conservation index 0.64
SVM decision value 0.26
SVM RNA-class probability 0.659448
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11255723 104 + 27905053
CCGUUGCUUUGGGAAAUUUUUGUUUAACUUUUCGUGUACA------UAU----GUUUGUACAUGUGUUUGUAUGCAGCACGGUCUUUACUUUAGCUGAU-UUUCCAGCUGCAGAA
...((((.((((((((((...(((.......(((((((((------(((----((....)))))))).((....))))))))..........))).)))-)))))))..)))).. ( -26.93)
>DroSec_CAF1 14650 101 + 1
CCGUUGCUUUGGGAAAUUUUUGUUUAACUUUUCGUAUACA------U------A--UGUACAUGUGUUUGUAUGCAGCACGGUCUUUACUUUAGCUGAUAUUUCCAGCUGCAGAA
((((.(((...(((((.((......)).)))))(((((((------.------(--..(....)..).))))))))))))))......((.((((((.......)))))).)).. ( -24.50)
>DroSim_CAF1 15907 103 + 1
CCGUUGCUUUGGGAAAUUUUUGUUUAACUUUUCGUGUACA------UAC----A--UGUACAUGUGUUUGUAUGGAGCACGGUCUUUACUUUGGCUGAUUUUUCCAUCUGCAGAA
...((((..(((((((....(((((.((....((((((((------...----.--)))))))).....))...)))))(((((........)))))..)))))))...)))).. ( -28.00)
>DroEre_CAF1 15273 112 + 1
CCGUUGCCUUGGGAAAUUUUUGUUUAACUUUUCAUGUACUAGUACAUACGAGUA--GGUACGUGUGUUUGUAUGCAACUUGGUCUUUACUUUGGCUGAU-UUUCCAGCUGCAGAA
...((((.((((((((((.((((.((......((((((((..(((......)))--))))))))......)).))))...((((........)))))))-)))))))..)))).. ( -26.90)
>DroYak_CAF1 15326 110 + 1
CCGUUGCUUUGGGAAAAUUUUGUUUAACUUUUCAUGUACUCGUACU--CGUGCA--UGCAUGUGUAUUUGUAUGCAGCUUGGUCUUUACUUUGCCUGAU-UUUCCAGCUGCAGAA
...((((....((((((((................((((..((((.--((((..--..)))).))))..))))...((..(((....)))..))..)))-)))))....)))).. ( -25.90)
>consensus
CCGUUGCUUUGGGAAAUUUUUGUUUAACUUUUCGUGUACA______UAC____A__UGUACAUGUGUUUGUAUGCAGCACGGUCUUUACUUUGGCUGAU_UUUCCAGCUGCAGAA
...((((..((((((....((((.((......(((((((..................)))))))......)).))))..(((((........)))))...))))))...)))).. (-16.97 = -17.17 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:55 2006