Locus 2870

Sequence ID 2R_DroMel_CAF1
Location 9,922,463 – 9,922,568
Length 105
Max. P 0.679627
window4745

overview

Window 5

Location 9,922,463 – 9,922,568
Length 105
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 79.02
Mean single sequence MFE -26.92
Consensus MFE -18.13
Energy contribution -17.47
Covariance contribution -0.66
Combinations/Pair 1.24
Mean z-score -1.37
Structure conservation index 0.67
SVM decision value 0.30
SVM RNA-class probability 0.679627
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9922463 105 + 20766785
AUAUUCAUAUGGAC--AUCCAGACAGACAUGCAGUCUGUGGGUGUCACGUUUCGCCAGCCA-AAACAUCCGCUGUGAGUGGCAUACGCACAGAAUACCGAG--C-AAAACA
.(((((..((((((--((((..((((((.....))))))))))))).)))...((..((((-..(((.....)))...))))....))...))))).....--.-...... ( -30.60)
>DroPse_CAF1 38877 106 + 1
AGACACAAACACACAGACUCAGAAGGACAAACAGUCUGUGAGUGUCACGUUUCGACAGUCA-AAACAUCCGCUGUGAGUGGCAUACGC--AAAAUACAAGG--CCAAUACA
.(((((.....((((((((.............)))))))).)))))....(((.(((((..-........))))))))((((......--..........)--)))..... ( -23.11)
>DroEre_CAF1 45985 103 + 1
CGGCUGAUAUGGAC--ACCCAGACAGACAUGCAGUCUGUGGGUGUCACGUUUCGCCAGCCA-AAACAUCCGCUGUGAGUGACAUACGC--AAAAUGCCGAG--C-AAAACA
((((.......(((--((((..((((((.....))))))))))))).(((.((((((((..-........))))...))))...))).--.....))))..--.-...... ( -34.80)
>DroYak_CAF1 41161 103 + 1
GGAUUCACAUGGAC--AUCUAGAGAGACACGCAGUCUGUGGGUGUCACGUUUCGCCAGGCC-AAACAUCCGCUGUGAGUGGCAUACGC--AAAAUACCGAG--C-AAAACA
(((((((((((((.--.........(((((.((.....)).)))))..((((.((...)).-)))).)))).))))))).((....))--......))...--.-...... ( -26.60)
>DroAna_CAF1 40730 104 + 1
GGAGUCAGACAAAC--AAACAGACGGACAC--GGUCUGCGAGUGUCACGUUUCGCCAGCCGAAAACAUCCGUUGUGAGUGGCAUACGC--AAAAUUCAAAUAAA-AAAAUA
.((((.........--....((((......--.))))(((.(((((((...((((.(((.((.....)).)))))))))))))).)))--...)))).......-...... ( -23.20)
>DroPer_CAF1 39933 106 + 1
AGACACAAACACACAGACACAGAAGGACAAACUGUCUGUGAGUGUCACGUUUCGACAGUCA-AAACAUCCGCUGUGAGUGGCAUACGC--AAAAUACAAGG--CCAAUACA
.(((((.....((((((((.............)))))))).)))))....(((.(((((..-........))))))))((((......--..........)--)))..... ( -23.21)
>consensus
AGACUCAAACAGAC__ACCCAGACAGACAAGCAGUCUGUGAGUGUCACGUUUCGCCAGCCA_AAACAUCCGCUGUGAGUGGCAUACGC__AAAAUACAAAG__C_AAAACA
........................((((.....))))(((.(((((((...(((.((((...........)))))))))))))).)))....................... (-18.13 = -17.47 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:36 2006