Locus 6539

Sequence ID 2L_DroMel_CAF1
Location 18,416,094 – 18,416,213
Length 119
Max. P 0.529240
window10439

overview

Window 9

Location 18,416,094 – 18,416,213
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.09
Mean single sequence MFE -35.62
Consensus MFE -23.38
Energy contribution -23.43
Covariance contribution 0.06
Combinations/Pair 1.07
Mean z-score -1.40
Structure conservation index 0.66
SVM decision value -0.01
SVM RNA-class probability 0.529240
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18416094 119 - 22407834
UCCCGUCGGAGUCUGGAGGCCAUGCGGUCGGCAUAAUAAAUAAUGACCGGCAUUCCUUUGUUGUAAUUGAAAAUGUUGGUCAUUCCUAGAUGGCGCAGCUAUGGAGAUGGAGCC-GUAGU
...((((...((((((.((((....))))............(((((((((((((..((((.......))))))))))))))))).))))))))))..(((((((........))-))))) ( -35.40)
>DroGri_CAF1 305922 100 - 1
UUGGG-CUGCUGCUUGAGGCCAUGCGGUCGGCAUAAUAAAUAAUGACCGGCAUUCCUUUGUUGUAAUUGAAAAUGUUGGUCAUUCCGAGCCGG-GCAGCAGU------------------
....(-(((((((((..((((....))))(((.........(((((((((((((..((((.......)))))))))))))))))....)))))-))))))))------------------ ( -37.72)
>DroEre_CAF1 255178 119 - 1
UCCCUUCGGAGUCUGGAGGCCAUGCGGUCGGCAUAAUAAAUAAUGACCGGCAUUCCUUUGUUGUAAUUGAAAAUGUUGGUCAUUCCUAGAUGGGGCAGCUAUGGAGAUGGAGCC-GUAGU
.((((.....((((((.((((....))))............(((((((((((((..((((.......))))))))))))))))).))))))))))..(((((((........))-))))) ( -36.20)
>DroYak_CAF1 268712 119 - 1
UCCCUUCGGAGUCUGGAGGCCAUGCGGUCGGCAUAAUAAAUAAUGACCGGCAUUCCUUUGUUGUAAUUGAAAAUGUUGGUCAUUCCUAGAUGGCGCAGCUAUGGAGAUGGAGCC-GUAGU
......((..((((((.((((....))))............(((((((((((((..((((.......))))))))))))))))).))))))..))..(((((((........))-))))) ( -34.20)
>DroMoj_CAF1 400963 96 - 1
G---G-GCACUGCUGGAGGCCAUGCGGUCGGCAUAAUAAAUAAUGACCGGCAUUCCUUUGUUGUAAUUGAAAAUGUUGGUCAUUCCGAGC-GG-CUAGCAGU------------------
.---.-..((((((((..(((((((.....)))).......(((((((((((((..((((.......)))))))))))))))))..).))-..-))))))))------------------ ( -32.00)
>DroAna_CAF1 234903 112 - 1
--------GAGUCUGGAGGCCAUGCGGUCGGCAUAAUAAAUAAUGACCGGCAUUCCUUUGUUGUAAUUGAAAAUGUUGGUCAUUCCGAGAUGGGGCAGCCAUGGUGAUGGAGCCCCUAGA
--------..(((((((((((....)))).............((((((((((((..((((.......))))))))))))))))))).))))(((((..((((....)))).))))).... ( -38.20)
>consensus
UCCCG_CGGAGUCUGGAGGCCAUGCGGUCGGCAUAAUAAAUAAUGACCGGCAUUCCUUUGUUGUAAUUGAAAAUGUUGGUCAUUCCGAGAUGG_GCAGCUAUGGAGAUGGAGCC_GUAGU
..........((((((.((((....))))............(((((((((((((..((((.......))))))))))))))))).))))))............................. (-23.38 = -23.43 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:45 2006