Locus 4953

Sequence ID 2R_DroMel_CAF1
Location 16,155,460 – 16,155,576
Length 116
Max. P 0.500000
window7934

overview

Window 4

Location 16,155,460 – 16,155,576
Length 116
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 76.17
Mean single sequence MFE -29.61
Consensus MFE -15.83
Energy contribution -15.42
Covariance contribution -0.41
Combinations/Pair 1.33
Mean z-score -1.59
Structure conservation index 0.53
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16155460 116 - 20766785
GUGGCAUCGCUGGCAAAGUUUAAGAAGCUGCCUAACACUAA---CAGCUUUACAGAAGUUUUUUCCCCGAACGACGCCAACUGUUAGCGGGAAAUAUUCCUUCAUCCUGCAGAUGCCAA
.(((((((((.((..........(((((((...........---)))))))...((((...(((((((.((((........)))).).)))))).....))))..)).)).))))))). ( -35.20)
>DroSec_CAF1 44424 115 - 1
GUGGCAUCGCUGGCAAAGCUUUACAAGCUUCCUAACACUAA---CAGCUUAGCAGAAUUU-UUUCCCUGAACGACGCCAACUGUUAGCGGGAAAUAUUCCUUCACCCUGCAGAUGCUAC
((((((((((.((....(((....(((((............---.)))))))).((((..-((((((..((((........))))...)))))).))))......)).)).)))))))) ( -30.92)
>DroSim_CAF1 44627 116 - 1
GUGGCAUCGCUGGCAAAGCUUUACAAGCUUCCUAACACUAA---CAGCUUAGCAGAAUUUUUUUCCCUGAACGACGCCCACUGUUAGCGGGAAAUAUUCCUUCAUCCUGCAAAUGCUAA
.((((((.((.((....(((....(((((............---.)))))))).((((...((((((..((((........))))...)))))).))))......)).))..)))))). ( -24.92)
>DroEre_CAF1 46190 116 - 1
GUGGCAGCGCUGGCAAAGCUAUCGAAGCUUUCUAACACUAC---GAACUUGGGCGAAUUUUUUUCCCCUAACGACGCCAACUGUUAGCGGGAAAUAUUCCUUCAUCCUGCCGAUGCCAA
.(((((....((((((((((.....))))))..........---.....((((.((((...((((((((((((........)))))).)))))).)))).))))....)))).))))). ( -35.30)
>DroYak_CAF1 45469 116 - 1
GUGGCAACGCUGAUAAAGCCAACAAAGCUGUCUAACACUAG---CAGCUUGUGCAAAGUUUUUUCCAUUAACGACGCCAAUUGUUAGCGGGAAAUAUUCUUUUAUCCUGCCGAUGUCAA
.(((((.(((.((((((((..((((.((((.(((....)))---))))))))))..(((.((((((.(((((((......))))))).)))))).)))..))))))..).)).))))). ( -31.40)
>DroAna_CAF1 45624 97 - 1
GUGGCAGCACUACAAAAGCUUAAUAAGCUUUCUAACACUAAUUGCAGCCAAAGGAAAUAU-CU--------CGACGCCGGAUGUUAGCGGGAA----UCCUUCG---------UGUCAA
.((((.(((.....((((((.....))))))...........))).))))..........-..--------.(((((.((((..........)----)))...)---------)))).. ( -19.89)
>consensus
GUGGCAUCGCUGGCAAAGCUUAACAAGCUUCCUAACACUAA___CAGCUUAGCAGAAUUUUUUUCCCUGAACGACGCCAACUGUUAGCGGGAAAUAUUCCUUCAUCCUGCAGAUGCCAA
.(((((.((((((((.((((.....))))...........................................(....)...))))))))(((.....))).............))))). (-15.83 = -15.42 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:03 2006