Locus 4177

Sequence ID 3L_DroMel_CAF1
Location 12,192,118 – 12,192,214
Length 96
Max. P 0.536706
window6481

overview

Window 1

Location 12,192,118 – 12,192,214
Length 96
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 78.79
Mean single sequence MFE -25.68
Consensus MFE -17.93
Energy contribution -17.97
Covariance contribution 0.03
Combinations/Pair 1.23
Mean z-score -1.08
Structure conservation index 0.70
SVM decision value 0.01
SVM RNA-class probability 0.536706
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12192118 96 + 23771897
-----UGUUC----------AAAUUUUCCGAUUUUUUCGCGUGCAUC-UAUAGGAUAUGUGCGA-GUAUCUGCAGGAAUAUCUAUGGGAGCACUCAAAGGCAUUGCAGAUAUU
-----.....----------................((((..(.(((-.....))).)..))))-((((((((((.....(((.((((....)))).)))..)))))))))). ( -22.90)
>DroSec_CAF1 6437 96 + 1
-----UGAAC----------AAAUUUCCCGAUUUUUUCUCGUGCAUU-CGUAGGAUAUGUGCGA-GUAUCUGCAGGAAUAUCUAUGGGAGCACUCAAAGGCAUUGCAGAUAUU
-----.(((.----------(((((....))))).)))(((..((((-(....)).)))..)))-((((((((((.....(((.((((....)))).)))..)))))))))). ( -25.80)
>DroSim_CAF1 6517 96 + 1
-----UGAAC----------AAAUUUUCCAAUUUUUUCGCGUGCAUU-CGUAGGAUAUGUGCGA-GUAUCUGCAGGAAUAUCUAUGGGAGCACUCAAAGGCAUUGCAGAUAUU
-----.(((.----------(((((....))))).))).((..((((-(....)).)))..))(-((((((((((.....(((.((((....)))).)))..))))))))))) ( -25.00)
>DroEre_CAF1 6639 106 + 1
-----CAAACAAUUCCGGUUAGAUAUUCCUAUUUUUUCGGGUGCAUU-CGUAGGACAUGUGCGC-GUAUCUGCAGGAAUAUCUAUGAGAGCACUCAAAGGCAUUGCAGAUAUU
-----.........((((..(((((....)))))..))))((((((.-.(.....)..))))))-((((((((((.....(((.((((....)))).)))..)))))))))). ( -30.50)
>DroYak_CAF1 6683 106 + 1
-----AAAGCAACUUUGGUUGGAUUUCCCCAUUUUUUCGCGUGCAUU-CGUAGGAUAUGUGCGA-GUAUCUGCAGGAAUAUCUAUGGGAGCACUCAAAGGCAUUGCAGAUAUU
-----...((((((((((.(((......))).........((((.((-(((((.((((.((((.-.....))))...))))))))))).))))))))))...))))....... ( -26.90)
>DroAna_CAF1 5357 103 + 1
UUUGUUGAAA----------AUAACGCUGAAUUUCGGCCUGUGCAUGGCGGAGGAUGUGUGCGAAAUAUUUCCAGGAAUAACUGUGCGAACACUCAAAGGCAUUGCAGAUAUU
..........----------.....((((.....))))(((((.(((.(.(((....((..((...(((((....)))))..))..))....)))...).))))))))..... ( -23.00)
>consensus
_____UGAAC__________AAAUUUCCCAAUUUUUUCGCGUGCAUU_CGUAGGAUAUGUGCGA_GUAUCUGCAGGAAUAUCUAUGGGAGCACUCAAAGGCAUUGCAGAUAUU
.......................................((..(((..........)))..))..((((((((((.....(((.((((....)))).)))..)))))))))). (-17.93 = -17.97 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:10 2006