Locus 5186

Sequence ID 3R_DroMel_CAF1
Location 13,590,907 – 13,591,001
Length 94
Max. P 0.500000
window8468

overview

Window 8

Location 13,590,907 – 13,591,001
Length 94
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 83.73
Mean single sequence MFE -20.72
Consensus MFE -14.00
Energy contribution -14.20
Covariance contribution 0.20
Combinations/Pair 1.11
Mean z-score -1.61
Structure conservation index 0.68
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13590907 94 - 27905053
AUUAACCCA--------AUAAAACCAACUAGCCUUCCAUAGAAGAAUAAUAUUUCUUCCUGUGCGCAAAUGGAACUUGUCGAGUUCCGGGAAUGCCACAGAC
.........--------.......................((((((......))))))(((((.(((..((((((((...))))))))....)))))))).. ( -24.40)
>DroSec_CAF1 39937 94 - 1
AUUUACCCA--------AUAAAAUCAAGUAGCCUUCCCUAUAACAAACAUAUUUCUUCCUGUGUGCAAAUGGAACUUGUCGAGUUCCGGGAAUGCGACAGAC
.........--------..........((.((.(((((.........(((((........))))).....(((((((...)))))))))))).)).)).... ( -21.80)
>DroSim_CAF1 32103 94 - 1
AUUUACCCA--------AUAAAACCAACUAGCCUUCCAUAUAACAAACAUAUUUCUUCCUGUGCGCAAAUGGAACUUGUCGAGUUCCGGGAAUGCGACAGAC
.........--------.........................................((((.((((..((((((((...))))))))....)))))))).. ( -18.40)
>DroEre_CAF1 30836 102 - 1
AUUUUCCCUAUGUAAUGAUAGAACCAACUAGCCUGCCAUGCAAUAAACAUAUUUUUUCCUGUGAGCAAAUGGCACUCGUCGAGUUCCGGGAAUGCGACAGAC
...((((((((......)))(((((.((.((..((((((.......(((..........)))......)))))))).)).).)))).))))).......... ( -17.62)
>DroYak_CAF1 31003 101 - 1
AAUUUCCCCAUAUAAUAAUAAAACC-ACUCGCCUUUCAUAAAAUAAACAUAGUUCUUCCUGUGAGCAAAUGGAACUCGUCGAGUUCCGGGAAUGCGACAGAC
.........................-..((((.((((..........(((((......)))))......((((((((...)))))))))))).))))..... ( -21.40)
>consensus
AUUUACCCA________AUAAAACCAACUAGCCUUCCAUAUAACAAACAUAUUUCUUCCUGUGAGCAAAUGGAACUUGUCGAGUUCCGGGAAUGCGACAGAC
..............................((.((((..........((((........))))......((((((((...)))))))))))).))....... (-14.00 = -14.20 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:36 2006