Locus 3937

Sequence ID X_DroMel_CAF1
Location 10,493,663 – 10,493,759
Length 96
Max. P 0.500000
window6469

overview

Window 9

Location 10,493,663 – 10,493,759
Length 96
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 79.07
Mean single sequence MFE -23.73
Consensus MFE -11.35
Energy contribution -12.43
Covariance contribution 1.08
Combinations/Pair 1.11
Mean z-score -1.88
Structure conservation index 0.48
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10493663 96 - 22224390
UGGAGCAGUCU-----CGUCUAAUGGAGCUCC----ACUGCUCCCACUCCUGCAUUCUAAUCCCUGCGACGCUUCCCAC--CCAACGAUUUCCGAUUUCGGAUU-------UCC
.(((((.(((.-----........(((((...----...))))).......(((..........)))))))))))....--.....((..((((....))))..-------)). ( -26.30)
>DroSec_CAF1 24863 96 - 1
UGCAGCAGUCU-----CGUCUAAUGGAGCUCC----UCUACUCCCACUCCUGCAUCCUAGUCCCUGCGACGCUUCCCAC--CCUACGAUAUCCGAUUUCGGAUU-------UCC
(((((.(((..-----........((((....----....)))).))).))))).....(((.....))).........--.....((.(((((....))))).-------)). ( -19.50)
>DroSim_CAF1 25353 96 - 1
UGCAGCAGUCU-----CGUCUAAUGGAGCUCC----UCUACUCCCACUUCUGCAUCCUGGUCCCUGCGACGCUUCCCAC--CCUACGAUUUCCGAUUUCGGAUU-------UCC
(((((.(((..-----........((((....----....)))).))).))))).....(((.....))).........--.....((..((((....))))..-------)). ( -19.10)
>DroEre_CAF1 26459 102 - 1
UGGAGCGGUCC-----CGUCUAAUGGAG------CUACUGCUACUGCUCCUGCUUCCUUAUCCCUCCGACGCUUCCCCCCUCCUACGAUUUCCGGCUUCGGAUUGCC-AUGUCC
.((((((((.(-----(((...))))((------(....)))))))))))..............(((((.(((....................))).))))).....-...... ( -25.05)
>DroYak_CAF1 26704 112 - 1
UGGAGCAGUCUCGUCUCGUCUAACGGAGCACCAGCUCCCGCUCCCGCUCCUGCUUCCUAAUCCCUCCGAAGCUUCCCAC--CCUACGAUUUCCGAUUUUGGAUUUCGAAUUUCC
.(((((((.(.......).))...(((((....))))).......))))).(((((...........))))).......--....(((..((((....))))..)))....... ( -28.70)
>consensus
UGGAGCAGUCU_____CGUCUAAUGGAGCUCC____ACUGCUCCCACUCCUGCAUCCUAAUCCCUGCGACGCUUCCCAC__CCUACGAUUUCCGAUUUCGGAUU_______UCC
.(((((.(((..............((((..................)))).(((..........)))))))))))...............((((....))))............ (-11.35 = -12.43 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:16 2006