Locus 1261

Sequence ID 3L_DroMel_CAF1
Location 3,652,213 – 3,652,316
Length 103
Max. P 0.904619
window1973

overview

Window 3

Location 3,652,213 – 3,652,316
Length 103
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 69.34
Mean single sequence MFE -19.20
Consensus MFE -10.48
Energy contribution -10.68
Covariance contribution 0.20
Combinations/Pair 1.17
Mean z-score -1.81
Structure conservation index 0.55
SVM decision value 1.04
SVM RNA-class probability 0.904619
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3652213 103 + 23771897
CGUUCUGUGUCAUGUCAUAGCGACACUUAGAGAAAAUACUCUGUUUUAUUAAAAAAAAAAAAGACUGUAAAACU-AGGUGAAAUACUUUCAGUUUGGCUAUACU
.............((.(((((.(.(((.((((....((((..(((((((.................))))))).-.)))).....)))).))).).))))))). ( -17.03)
>DroSec_CAF1 47316 103 + 1
CGUUCUCUGACAUGUCAUAGCGACACUCAAAGAAAAUACUCUGUUUUAUUUAAAA-AAAAAAGACUAUAAAACUUAGCUGGAAUACUUUCAGUUUCGCUAUACU
.............((.(((((((.(((.((((....((((..(((((((......-..........)))))))..)).)).....)))).))).))))))))). ( -17.59)
>DroSim_CAF1 42105 79 + 1
CGUUCUCUGACAUGUCAUAGCGACACUCAGAGAAA-------------------------AAGACUAUAAAACUAAGCUGAAAUACUUUCAGUUUAGCUGUACU
..((((((((..((((.....)))).)))))))).-------------------------............((((((((((.....))))))))))....... ( -24.30)
>DroEre_CAF1 41528 98 + 1
CGUUCUCUGACAUGUCAAAGUGGCACUCAGAGAAAAUACGCCGUGUUAUUCGCAA-----AAGACCAUA-AACUAGGUUGAAAUACUUUCAGUUUUGCUAUGCU
..((((((((..((((.....)))).))))))))(((((...)))))....((((-----((((((...-.....))))(((.....)))..))))))...... ( -22.30)
>DroYak_CAF1 27505 83 + 1
CGUUCUCUGACAUGUCGAAGUGGCACUCAGAGAAAAUACUACAUUUUAUUACUAA-----GAGUACAUA-AACUAGGUUACAUUACUUU---------------
..((((((((..((((.....)))).))))))))....(((...((((((((...-----..))).)))-)).))).............--------------- ( -14.80)
>consensus
CGUUCUCUGACAUGUCAUAGCGACACUCAGAGAAAAUACUCCGUUUUAUUAAAAA_____AAGACUAUAAAACUAAGCUGAAAUACUUUCAGUUU_GCUAUACU
..((((((((..((((.....)))).))))))))...................................................................... (-10.48 = -10.68 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:18 2006