Locus 1849

Sequence ID 3R_DroMel_CAF1
Location 5,313,899 – 5,314,016
Length 117
Max. P 0.975746
window3042

overview

Window 2

Location 5,313,899 – 5,314,016
Length 117
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 69.02
Mean single sequence MFE -20.84
Consensus MFE -5.75
Energy contribution -7.07
Covariance contribution 1.32
Combinations/Pair 1.28
Mean z-score -2.37
Structure conservation index 0.28
SVM decision value 1.76
SVM RNA-class probability 0.975746
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5313899 117 + 27905053
CUACUUUUAAGCAUCAAUAGGCUUAACAAAAUGCACGCAAACGUAACGCUGUAAUGCUUACAAUGCCUAUAUAAAUAUAUAUUCAAAAGUGG-AUGAAAACCAUUUUAGCUUAA-AAUA
....((((((((....((((((.........((....))...((((.((......))))))...))))))...............(((((((-.(....)))))))).))))))-)).. ( -25.80)
>DroSec_CAF1 18331 100 + 1
CUACUUUUAAGCAUCAAUAGGCUUAACAACAUGCACAUAAACG-----------------CGAUGCCUAUAUAAA-AUACAUUCAAAAGUGGGAUGAAAAGCAUUUUAGCUUAA-AAUA
....((((((((....((((((.........(((........)-----------------))..)))))).....-...(((((.......)))))............))))))-)).. ( -17.80)
>DroSim_CAF1 19413 100 + 1
CUACUUUUAAGCAUCAAUAGGCUUAACAACAUGCACAUAAACG-----------------CAAUGCCUGUAUAAA-AUACAUUCAAAAGUGGAAUGAAAAGCAUUUUAGCUUAA-AAUA
....((((((((....((((((.........(((........)-----------------))..)))))).....-...(((((.......)))))............))))))-)).. ( -19.00)
>DroEre_CAF1 18693 95 + 1
CUACUUUUAAGCAUCAAUAGGAUUAUC---GUG------------------UAAUGCUUCAAGGACCUACACCAA-AUAUAGUCUUAGGUG-AAUGGAAAGCGUUUAAGCUUAA-AAAA
....((((((((.....(((((((((.---(((------------------((...((....))...)))))...-..)))))))))..((-((((.....)))))).))))))-)).. ( -20.40)
>DroYak_CAF1 18638 104 + 1
CUACUUUUAAGGUUCAACGGGAUUGUG---AUGUACGCCAACG--------UAAUGCUUGAAACAACUGCAUAAA-GCAUAGUCUAAAG---GUUGAAAAGCAUUUAAGCUUAAUAAAA
............((((((.((((((((---...((((....))--------))((((...........))))...-.))))))))....---))))))((((......))))....... ( -21.20)
>consensus
CUACUUUUAAGCAUCAAUAGGCUUAACAA_AUGCACACAAACG________UAAUGCUU_CAAUGCCUAUAUAAA_AUAUAUUCAAAAGUGGAAUGAAAAGCAUUUUAGCUUAA_AAUA
......((((((.....(((((..........................................)))))....................(((((((.....)))))))))))))..... ( -5.75 =  -7.07 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:03 2006