Locus 2196

Sequence ID X_DroMel_CAF1
Location 5,948,522 – 5,948,620
Length 98
Max. P 0.822004
window3566

overview

Window 6

Location 5,948,522 – 5,948,620
Length 98
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 76.23
Mean single sequence MFE -31.65
Consensus MFE -21.10
Energy contribution -20.93
Covariance contribution -0.17
Combinations/Pair 1.06
Mean z-score -1.42
Structure conservation index 0.67
SVM decision value 0.68
SVM RNA-class probability 0.822004
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5948522 98 + 22224390
AUGCCGUGAAUCGCAAGCCCUCUAAUUACAUCCCUUCC-----AGGCCUACAAGAAAUGGGAGACCUUACAUGGGCGGGAGCAGCAGCUGCCCGGCCUGAACA
.(((........)))......................(-----(((((..........((....))......((((((.........)))))))))))).... ( -28.40)
>DroPse_CAF1 38361 90 + 1
CUGAUGUGA--------UCCUCCA-----UUCCUUUGCUUUGCAGGCCUACAAGAAGUGGGAAACACUGCAUGGCCGGGAGCUGCAGCUGCCCGGCCUCAAUA
......(((--------.......-----...........(((((.(((((.....))))).....))))).((((((((((....))).))))))))))... ( -33.70)
>DroSec_CAF1 36013 103 + 1
AUGCCAUGAAUCCCAAACCCUCUAAGUUCUUUCUUUCCUAUCUAGGCCUACAAGAAAUGGGAGACCUUACAUGGGCGGGAGCAGCAGCUGCCCGGCCUGAACA
..(((......((((...........(((((.....(((....))).....)))))..((....)).....)))).((((((....))).))))))....... ( -26.90)
>DroSim_CAF1 42141 103 + 1
AUGCUAUGAAUCCCAAACCCUCUAAGUUCUUCCUUUCCUUUGUAGGCCUACAAGAAAUGGGAGACCUUACAUGGGCGGGAGCAGCUGCUGCCCGGCCUGAACA
..((.............(((..((((.((((((((((..(((((....))))))))).)))))).))))...)))(((((((....))).))))))....... ( -31.90)
>DroEre_CAF1 35579 98 + 1
UGUCAACGAAUCCUAAACCCUCCGAGUUCUGCCCUUUC-----AGGCCUACAAGAAGUGGGAGACCCUACAUGGGCGGGAGCAGCUGCUGCCCGGCCUGAACA
.......(((..(..........)..)))......(((-----(((((........(((((....)))))..((((((.((...)).)))))))))))))).. ( -33.90)
>DroPer_CAF1 37919 90 + 1
CUGAUGUGA--------UCCUCCA-----UUCCUUCGCUUUGCAGGCCUACAAGAAGUGGGAGACACUGCAUGGCCGGGAGCUGCAGCUGCCCGGCCUCAAUA
.(((.((((--------.......-----.....))))..(((((.(((((.....))))).....))))).((((((((((....))).))))))))))... ( -35.10)
>consensus
AUGCUAUGAAUCCCAAACCCUCCAAGUUCUUCCUUUCCUUUG_AGGCCUACAAGAAAUGGGAGACCCUACAUGGGCGGGAGCAGCAGCUGCCCGGCCUGAACA
...........................................(((((..((.(.((.((....)))).).))...((((((....))).))))))))..... (-21.10 = -20.93 +  -0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:32 2006