Locus 6124

Sequence ID 3L_DroMel_CAF1
Location 16,220,173 – 16,220,293
Length 120
Max. P 0.507572
window9838

overview

Window 8

Location 16,220,173 – 16,220,293
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.50
Mean single sequence MFE -40.08
Consensus MFE -35.18
Energy contribution -38.18
Covariance contribution 3.00
Combinations/Pair 1.00
Mean z-score -1.39
Structure conservation index 0.88
SVM decision value -0.05
SVM RNA-class probability 0.507572
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16220173 120 + 23771897
GACAUGAUAUGCGCCAGUCAAAACUAUAAGGUCGAGUCCUUCGGCGACUUGAUUUUGAGGACUUUGCCUACAUCAUCGCGGCGGCAGCACAGGCUCUCUGUUCCCAGGGAACAGUGCUCC
.........((((((((((....((.(((((((((((((....).))))))))))))))))))..(((...........)))))).)))..(((...(((((((...))))))).))).. ( -40.60)
>DroSec_CAF1 39045 120 + 1
GACAUGAUAUGCGCCAGUCAAAACUAUAAGGUCGAGUCCUUCGGCGACUUGAUUUUGAGGACUUUGCCUACAUCAUCGAGGCGGCAGCACAGGCUCUCUGUUCCCAGGGAACAGUGCUCC
.........((((((((((....((.(((((((((((((....).))))))))))))))))))..((((.(......)))))))).)))..(((...(((((((...))))))).))).. ( -42.60)
>DroSim_CAF1 40679 120 + 1
GACAUGAUAUGCGCCAGUCAAAACUAUAAGGUCGAGUCCUUCGGCGACUUGAUUUUGAGGACUUUGCCUACAUCAUCGCGGCGGCAGCACAGGCUCUCUGUUCCCAGGGAACAGUGCUCC
.........((((((((((....((.(((((((((((((....).))))))))))))))))))..(((...........)))))).)))..(((...(((((((...))))))).))).. ( -40.60)
>DroEre_CAF1 38919 120 + 1
GACAUGAUAUGCGCCAGUCAAAACUAUAAGGUCGAGUCCUUCGGCGACUUGAUUUUGAGGACUUUGCCUACAUCAUCGCGGCAGCAGCACAGGCUCUCUGUUCCCAGGGAACAGUGCUCC
.........((((((...........(((((((((((((....).))))))))))))(((......)))..........))).)))((((.(..((((((....)))))).).))))... ( -38.40)
>DroYak_CAF1 76107 120 + 1
GAUAUGAUAUGCGCCAGUCAAAACUAUAAGGUCGAGUCCUUCGGCGACUUGAUUUUGAGGACUUUGCCUACAUCAUCGCGGCAGCAGCACAGGCUCUCUGUUCCCUGGGAACAGUGCUCC
....((...((((((...........(((((((((((((....).))))))))))))(((......)))..........))).))).))..(((...(((((((...))))))).))).. ( -38.20)
>consensus
GACAUGAUAUGCGCCAGUCAAAACUAUAAGGUCGAGUCCUUCGGCGACUUGAUUUUGAGGACUUUGCCUACAUCAUCGCGGCGGCAGCACAGGCUCUCUGUUCCCAGGGAACAGUGCUCC
....((...((((((...........(((((((((((((....).))))))))))))(((......)))..........))).))).))..(((...(((((((...))))))).))).. (-35.18 = -38.18 +   3.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:41 2006