Locus 4348

Sequence ID 3R_DroMel_CAF1
Location 11,465,028 – 11,465,148
Length 120
Max. P 0.522530
window7113

overview

Window 3

Location 11,465,028 – 11,465,148
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 89.86
Mean single sequence MFE -42.95
Consensus MFE -33.53
Energy contribution -33.15
Covariance contribution -0.38
Combinations/Pair 1.13
Mean z-score -1.43
Structure conservation index 0.78
SVM decision value -0.02
SVM RNA-class probability 0.522530
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11465028 120 + 27905053
CGCAGCGAAAGUGCGCGGAAGUAAUAAAACAUGCGUGAGGCGCGGAGGCUGCAACUUUGCGACGCUUGUUGCACUCGCUAUUGCAAUUGUCUGGAAAGUGUUGCGACAUUGGUGGUGCAG
.(((.(....))))((....)).....((((.((((....(((((((.......))))))))))).))))((((.((((((((((((...((....)).)))))))...))))))))).. ( -43.80)
>DroSec_CAF1 198902 108 + 1
CGCAGCGAAAGUGCGCGGAAGUAAUAAAACAUGCGGGAGGCGCGAAGGCUGCAACUUUGCGAUGCUUGUUGCACUC------------GUCUGGAAAGUGUUGCGACAUUGGUGGCGCAG
..((((((..((((((....)).....((((.(((.....(((((((.......))))))).))).))))))))))------------).)))....((((..(.......)..)))).. ( -37.00)
>DroSim_CAF1 194059 120 + 1
CGCAGCGAAAGUGCGCGGAAGUAAUAAAACAUGCGGGAGGCGCGGAGGCUGCAACUUUGCGACGCUUGUUGCACUCGCUAUUGCAAUUGUCUGGAAAGUGUUGCGACAUUGGUGGUGCAG
.(((.(....))))((....)).....((((.(((.....(((((((.......))))))).))).))))((((.((((((((((((...((....)).)))))))...))))))))).. ( -43.90)
>DroYak_CAF1 191192 120 + 1
CGAAGCGAAAGUGCGCGGAAGUAAUAAAACAUGCGGGCGGCGCGGGGGCUGCAACUUCGCGACGCUUGUUGCACUCGCUGCUGCAAUUGUCUGGAAAGUGUUGCGACAUUGGCGGUGCCC
....(((...((.((((...((......)).)))).))..)))(((.(((((....((((((((((((((((((.....).))))))........))))))))))).....))))).))) ( -47.10)
>consensus
CGCAGCGAAAGUGCGCGGAAGUAAUAAAACAUGCGGGAGGCGCGGAGGCUGCAACUUUGCGACGCUUGUUGCACUCGCUAUUGCAAUUGUCUGGAAAGUGUUGCGACAUUGGUGGUGCAG
(((((((..(((((((....)).....((((.(((.....(((((((.......))))))).))).))))))))).((....))..............)))))))............... (-33.53 = -33.15 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:59 2006