Locus 2832

Sequence ID 2R_DroMel_CAF1
Location 9,830,670 – 9,830,777
Length 107
Max. P 0.568878
window4681

overview

Window 1

Location 9,830,670 – 9,830,777
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.31
Mean single sequence MFE -29.88
Consensus MFE -20.74
Energy contribution -21.30
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -1.54
Structure conservation index 0.69
SVM decision value 0.07
SVM RNA-class probability 0.568878
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9830670 107 + 20766785
AUGAACGAAGC----CCAAAAACCCAC-----GCACAGUGGUUUUGAUGUCUGGGAAUUUCGAUU-UUCGAUAUUCGGA---CCACUGCAGGUUCCUAAUUGAAUUAUGGGCCUGACCUC
.........((----(((.........-----...((((((((..((((((.(..(((....)))-..)))))))..))---))))))..(((((......))))).)))))........ ( -31.90)
>DroSec_CAF1 68225 107 + 1
AUGAACGAAGC----CCAAAAACCCAC-----GCACAGUGGUUUUGAUGUCUGGGAAUUUCGAUU-UUCGAUAUUCGGA---CCACUGCAGGUUCCUAAUUGAAUUAUGGGCCUGACCUC
.........((----(((.........-----...((((((((..((((((.(..(((....)))-..)))))))..))---))))))..(((((......))))).)))))........ ( -31.90)
>DroSim_CAF1 70050 111 + 1
AUGAACGAAGC----CCAAAAACCCAC-----GCACAGUGGUUUUGAUGUCUGGGAAUUUCGAUUUUUCGAUAUUCGGACGACCACUGCAGGUUCCUAAUUGAAUUAUGGGCCUGACCUC
.........((----(((.........-----...((((((((.....(((((((....((((....))))..)))))))))))))))..(((((......))))).)))))........ ( -31.00)
>DroEre_CAF1 73220 94 + 1
AUG----------------AAACCCAC-----GCACAGUGGUUUCAAAGUCUGGGAAU-UCGGUU-UUCGAUAUUCGGA---CCACUGCAGGUUCCUAAUUGAAUUAUGGGCCUGACCUC
.((----------------(((((.((-----.....)))))))))..(((((((...-(((...-..)))..))))))---).....(((((((.((((...)))).)))))))..... ( -27.30)
>DroYak_CAF1 70528 94 + 1
AUG----------------AAACCCAC-----GCACAGUGGUUUUGAAGUCUGGGAAU-UCGAAG-UUCGAUAUUCGGA---CCACUGCAGGUUCCUAAUUGAAUUAUGGGCCUGACCUC
..(----------------(((((.((-----.....))))))))...(((((((...-(((...-..)))..))))))---).....(((((((.((((...)))).)))))))..... ( -24.80)
>DroAna_CAF1 68022 98 + 1
A----CGAAACGCAACCAGAAACCCACGCAACGCACAGUGG-------GUCUGGGAAU-UCGAUU-UU------UGGGG---CCACUGCAGGUUCCUAAUUGAAUUAUGGGCCUGACCUC
.----......((..(((((..(((((..........))))-------)))))).(((-((((((-..------.((((---((......)))))).)))))))))....))........ ( -32.40)
>consensus
AUG__CGAAGC____CCAAAAACCCAC_____GCACAGUGGUUUUGAUGUCUGGGAAU_UCGAUU_UUCGAUAUUCGGA___CCACUGCAGGUUCCUAAUUGAAUUAUGGGCCUGACCUC
...................................((((((........((((((....((((....))))..))))))...))))))(((((((.((((...)))).)))))))..... (-20.74 = -21.30 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:34 2006