Locus 3999

Sequence ID 3L_DroMel_CAF1
Location 11,651,918 – 11,652,023
Length 105
Max. P 0.596669
window6232

overview

Window 2

Location 11,651,918 – 11,652,023
Length 105
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 78.26
Mean single sequence MFE -23.95
Consensus MFE -12.27
Energy contribution -12.40
Covariance contribution 0.13
Combinations/Pair 1.35
Mean z-score -2.18
Structure conservation index 0.51
SVM decision value 0.13
SVM RNA-class probability 0.596669
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11651918 105 + 23771897
UUGCAUACUGCGAGGCGCACUUGCAGCAA-----AAAUAAAACUUAUAUUUGUGCUUCGAGAGCAGAAAUCAUUUUUAAAGUAAAUAACUAUUGCAUUUAGGCAAAAAGU
((((....(((((...((.((((.((((.-----(((((.......))))).)))).)))).))...............(((.....))).))))).....))))..... ( -21.30)
>DroSim_CAF1 27272 110 + 1
UUGCAUACUGCGAGGCGCACUUGCAGCUAUGGUAGAAAAAAACUUAUAUUUGUGCUUCGAAAGGAAAAAUAAAUUCUGAUGUAAAUAACUAUUGCAUUUAGGCAAAAAGU
...(((((((((((.....))))))).))))..........((((..((((((..(((....)))...))))))((((((((((.......))))).)))))....)))) ( -23.70)
>DroEre_CAF1 25559 103 + 1
UUGCAUACUGUGGGGCGCACUUGCAGCAA-----GAAA-AAACUU-CACUUUAACUCUGAUAGCAGAAAUUAUUUCCCAAGUAAAUUGCAAUUGCGCUUAAACACAAAAU
........((((.((((((.((((((...-----(((.-....))-)........((((....))))..................)))))).))))))....)))).... ( -23.20)
>DroYak_CAF1 27139 103 + 1
UUGCAUACUGUGAGGCGCACUUGCAGCAG-----GAAGGAAACUU-UAUUUAAACUUUGAAAGCAGAAAGCAUUUC-AAAGUAAAUAACAAUUGCGUUUAAGCACAAAGU
........((((.((((((.(((......-----((((....)))-)......(((((((((((.....)).))))-)))))......))).))))))....)))).... ( -27.60)
>consensus
UUGCAUACUGCGAGGCGCACUUGCAGCAA_____GAAAAAAACUU_UAUUUGAACUUCGAAAGCAGAAAUCAUUUCUAAAGUAAAUAACAAUUGCAUUUAAGCAAAAAGU
.((((..(((((((.....)))))))...........................(((((((((..........)))).)))))..........)))).............. (-12.27 = -12.40 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:04 2006