Locus 1330

Sequence ID 3L_DroMel_CAF1
Location 3,858,674 – 3,858,778
Length 104
Max. P 0.805092
window2073

overview

Window 3

Location 3,858,674 – 3,858,778
Length 104
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 68.83
Mean single sequence MFE -20.79
Consensus MFE -12.16
Energy contribution -11.54
Covariance contribution -0.62
Combinations/Pair 1.28
Mean z-score -1.52
Structure conservation index 0.59
SVM decision value 0.63
SVM RNA-class probability 0.805092
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3858674 104 - 23771897
GAAUAUUUACCGUAGUUGCUACAGAAUAAGGAUACUUAACUUACCAUUAGUUAGUGUCCCUAGAAUUGUGCAACUUCAUAA------------UAGUUUUCCCAUUAAUGAAGCUU
...........(.((((((.((((..((.(((((((.((((.......))))))))))).))...)))))))))).)....------------.((((((.........)))))). ( -23.20)
>DroSec_CAF1 57902 100 - 1
GAAUAUUUUCUGUAGUUGUUAUAAAACAUGGAUAAUUAACUAACUA-GAGGAAGUGUCCCUGGAGUUGUACAACUUCAUAA------------UAGUUUUCCCAUUAAUGA---CU
..(((((((((.(((((((((...............)))).)))))-.)))))))))...(((((((....)))))))...------------..................---.. ( -19.76)
>DroSim_CAF1 58517 100 - 1
CAAUAUUUUCUGUAGUUGUUAUAAAACAUGGGUACUUAACUUACAA-GAGAAAGUGUCCCUGGAGUUGCACAACUUCAUAA------------UAGUUUUCCCAUUAAUGA---CU
.............(((..(((.(((((..((((((((..(((....-))).))))).)))(((((((....)))))))...------------..))))).....)))..)---)) ( -19.90)
>DroYak_CAF1 60209 102 - 1
----------AGUAGUUGUUUCUAACAAAAGAUACUUAACUUGCCA-UAGGUAAUGUCUAUGGGGUUGUACAACUCUAUAACCAAAAGAGUAAAAGAUUAUUUAUUAAUGA---CG
----------....((..(((((......)))(((((......(((-((((.....)))))))(((((((......)))))))....)))))..............))..)---). ( -20.30)
>consensus
GAAUAUUUUCUGUAGUUGUUACAAAACAAGGAUACUUAACUUACCA_GAGGAAGUGUCCCUGGAGUUGUACAACUUCAUAA____________UAGUUUUCCCAUUAAUGA___CU
...........(.((((((.......((.(((((((...((.......))..))))))).)).......)))))).)....................................... (-12.16 = -11.54 +  -0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:53 2006