Locus 3338

Sequence ID 2R_DroMel_CAF1
Location 11,344,025 – 11,344,123
Length 98
Max. P 0.608027
window5461

overview

Window 1

Location 11,344,025 – 11,344,123
Length 98
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 73.32
Mean single sequence MFE -26.22
Consensus MFE -7.68
Energy contribution -12.48
Covariance contribution 4.80
Combinations/Pair 1.21
Mean z-score -1.71
Structure conservation index 0.29
SVM decision value 0.15
SVM RNA-class probability 0.608027
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11344025 98 + 20766785
GAGGGGAAGUCGCAUUGGAAGGGGUAGUUUCACGGACUAUAGCUGGUAAAAUGCCCUUACUAUCCAUAAAAUAUCCCUUUAAAACCAUAAAGGACAAA
(((((((.((.....(((((((((((.(((..(((.(....))))..))).)))))))....))))....)).)))))))....((.....))..... ( -24.60)
>DroSec_CAF1 2143 98 + 1
GAGGGGGAGUCGCAUUGGAUGGGGUAGUUUCACGGACUCUAUCUGGAGAAAUGUCCUUACUGUCCAUGCAAUAUCCCUUCAAAACCAUAUAGAACAAA
(((((((.((.((((.((((((((..(((((.((((.....))))..)))))..))...)))))))))).)).))))))).................. ( -30.70)
>DroSim_CAF1 2103 98 + 1
GAGGGGGAGUCGCAUUGGAUGGGGUAGUUUCACGGACUCUAGCUGGAGAAAUGCCCUUACUGUCCAUGCAAUAUCCCUUCAAAACCAUAUACACCAAA
(((((((.((.((((.((((((((((.(((..(((.(....))))..))).))))))....)))))))).)).))))))).................. ( -33.10)
>DroEre_CAF1 4409 85 + 1
GAGGGGUAAUCGCACUGGAAGGGGUCGUUUCACGGACUCCAAGUGCUGAAAUGCCCUUACUGCCUAU-------------GAAAUCAUAUAGGACACA
.(((((((.(((((((....((((((........)))))).))))).))..)))))))..(((((((-------------(......)))))).)).. ( -29.90)
>DroYak_CAF1 2125 77 + 1
GAAGGGGAAUCGCAUUGGAAGGGGUCGCUUCACGGACUGAAAGUGGUGAAAUGCCCAU--------C-------------GAUAUCAUAUAGGACAAC
.............(((((...(((.((.(((((.(.(.....)).))))).))))).)--------)-------------)))............... ( -12.80)
>consensus
GAGGGGGAGUCGCAUUGGAAGGGGUAGUUUCACGGACUCUAACUGGUGAAAUGCCCUUACUGUCCAU__AAUAUCCCUU_AAAACCAUAUAGGACAAA
(((((((........(((((((((((.(((..(((.......)))..))).)))))))....)))).......))))))).................. ( -7.68 = -12.48 +   4.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:06 2006