Locus 6469

Sequence ID 3R_DroMel_CAF1
Location 17,020,130 – 17,020,221
Length 91
Max. P 0.890046
window10534

overview

Window 4

Location 17,020,130 – 17,020,221
Length 91
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 69.78
Mean single sequence MFE -23.56
Consensus MFE -2.96
Energy contribution -3.40
Covariance contribution 0.44
Combinations/Pair 1.56
Mean z-score -2.16
Structure conservation index 0.13
SVM decision value 0.96
SVM RNA-class probability 0.890046
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17020130 91 + 27905053
GUGCGCGCUU---G-GC---AUUUUCCUGCCAGCCAG----GCUGGAUUUUUCAUUUAGCC-UGACAUUUCCA------UUUUCCAUUCAC--UGUCCUCCCGACAGUCUG
......(((.---(-((---(......)))))))(((----(((((((.....))))))))-)).........------..........((--((((.....))))))... ( -27.60)
>DroPse_CAF1 40799 107 + 1
GUGCGUGUCU---GCGCAUUAUUUUCCGGACUGGCUGUCAGUCCUUCUCCUUCAUUAUGUUCUGACAUUAACAUUUUCAUUUUUCAUUCCUGACGCUUUCCCGACGA-CUG
((((((....---)))))).......(((...(((.(((((...............(((((........)))))...............))))))))...)))....-... ( -21.51)
>DroEre_CAF1 39091 99 + 1
GUGCGCGGUU---G-GC---AUUUUCCUGCCAGCCAGCCAUGCAGGCUUUUUCAUUAAGCU-UGACAUUUCCAU-UCCAUUUUCCAUUCAC--UGUCCUCCCGGCAA-CUG
(((.((((((---(-((---(......)))))))).)).((((((((((.......)))))-)).)))......-.............)))--((((.....)))).-... ( -27.30)
>DroYak_CAF1 40528 95 + 1
GUGCGCGGUU---G-GC---AUUUUCCUGCCAGCCAG----GCAGGCUUUUUCAUUAAGCU-UGACAUUUCCAU-UCCAUUUUCCAUUCAC--UGUCCUCCCUACAA-CUG
(((...((((---(-((---(......)))))))).(----.(((((((.......)))))-)).)........-.............)))--..............-... ( -23.20)
>DroAna_CAF1 42636 89 + 1
GUGCCUAGAAGAAU-GA---AUUUUCCUGCCGG---------CAGGC--UUUCAUUACGCU-UGACAUUAACAUUUUCAUUUUUCACUC-----GUCGUCCCGACAA-CUG
.......(((((((-((---(............---------(((((--.........)))-))...........))))))))))....-----((((...))))..-... ( -18.20)
>consensus
GUGCGCGGUU___G_GC___AUUUUCCUGCCAGCCAG____GCAGGCUUUUUCAUUAAGCU_UGACAUUUCCAU_UCCAUUUUCCAUUCAC__UGUCCUCCCGACAA_CUG
.........................(((((...........)))))...............................................((((.....))))..... ( -2.96 =  -3.40 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:12 2006