Locus 3732

Sequence ID 2R_DroMel_CAF1
Location 12,343,475 – 12,343,575
Length 100
Max. P 0.940534
window6062

overview

Window 2

Location 12,343,475 – 12,343,575
Length 100
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.68
Mean single sequence MFE -18.03
Consensus MFE -8.00
Energy contribution -8.44
Covariance contribution 0.44
Combinations/Pair 1.09
Mean z-score -2.32
Structure conservation index 0.44
SVM decision value 1.31
SVM RNA-class probability 0.940534
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12343475 100 - 20766785
C-------------UUUUCGUGUUAUCUUCUUUUUUGA-CUCAUAUUGUA--AUUUCUUU---UUCGU-UCCCCCUUCUUCUUCUGGCGGGCUGUCCUCAAAAUGGACAUGCUCACUCAA
.-------------.....(.((((..........)))-).)........--........---.....-...............(((.(((((((((.......))))).)))).).)). ( -15.20)
>DroSec_CAF1 2858 98 - 1
C-------------UUUUUGUGUUAUCUUCUUUUUUGA-CUCAUAUUGUA--AUUUCUUU---UCCGU-UCCCCCUGC--CUUCUGGCAGGCUGUCCUCAAAAUGGACAUGCUCACUCAA
.-------------....((.((((..........)))-).))....(((--........---.....-....(((((--(....)))))).(((((.......))))))))........ ( -20.10)
>DroSim_CAF1 2855 98 - 1
C-------------UUUUCGUGUUAUCUUCUUUUUUGA-CUCAUAUUGUA--AUUUCUUU---UCCGU-UCCCCCUCC--CUUCUGGCAGGCUGUCCUCAAAAUGGACAUGCUCACUCAA
.-------------.....(((................-...........--........---.....-.....((.(--(....)).))(((((((.......))))).)).))).... ( -13.20)
>DroWil_CAF1 48002 115 - 1
CUUUGAUGUUUUUCUUUUCGAUUUACUU--UUCUUUGAUUUCAUUUUUUAUGAUCACUUUGGGUCUGCAUCGCUCUUCU-UCUUUGAUA-UGUGUCC-AAAAAUGGACAUGUUCACUCAA
....(((((...(((....((((.....--.....((....))........)))).....)))...)))))........-....(((.(-(((((((-(....))))))))))))..... ( -18.87)
>DroYak_CAF1 2943 98 - 1
C-------------AGUUUGUGUUAUUUUCUUUUUUGA-CUCAUAUUGUA--AUUUCUUU---UUCGU-UUCCCCUCC--CUUCUGGGAGGCUGUCCUCAAAAUGGACAUGCUCACUCAA
(-------------(((.((.((((..........)))-).)).))))..--........---.....-.....((((--(....)))))(((((((.......))))).))........ ( -22.80)
>consensus
C_____________UUUUCGUGUUAUCUUCUUUUUUGA_CUCAUAUUGUA__AUUUCUUU___UCCGU_UCCCCCUCC__CUUCUGGCAGGCUGUCCUCAAAAUGGACAUGCUCACUCAA
....................................................................................(((..((((((((.......))))).)))...))). ( -8.00 =  -8.44 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:59 2006