Locus 4399

Sequence ID 3L_DroMel_CAF1
Location 12,879,866 – 12,879,970
Length 104
Max. P 0.654963
window6822

overview

Window 2

Location 12,879,866 – 12,879,970
Length 104
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 75.74
Mean single sequence MFE -26.25
Consensus MFE -16.09
Energy contribution -16.90
Covariance contribution 0.81
Combinations/Pair 1.21
Mean z-score -1.72
Structure conservation index 0.61
SVM decision value 0.25
SVM RNA-class probability 0.654963
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12879866 104 + 23771897
CUUUUAAUCGUGCUUCGGGUUAAGUAAG------------UUAAAUAAUGGCGUCUUGGGUCGACCAUGAUGCGGAUUGCGAUUCACAACUGUGGCAUUAAAGAUUAAAAA----AUAAA
.(((((((((((((.(((..........------------..........(((((.(((.....))).)))))((((....))))....))).)))))....)))))))).----..... ( -25.50)
>DroSec_CAF1 6789 104 + 1
CUUUUAAUCGUGCUUCGGGUUAAGUAAG------------CUAAAUAAUGGCGACUUGGGUCGACCUUGAUGUGAAUUUCGAUUCAUAUCUGUGGCAUUAAAGAUUAAAAA----AAAAA
.(((((((((((((((((.((((((..(------------(((.....)))).)))))).))))....(((((((((....)))))))))...)))))....)))))))).----..... ( -29.70)
>DroSim_CAF1 4348 115 + 1
CUUUUAAUCGUGCUUUGGGUUAAGUAAAUAUUAAAGGGGUCUAAAUAAUGGCGUCUUGGGUCGACCUUGAUGGGAAUUGCGAUUCAUAUCUGUGGCAUUAAAGAUUAAAA-----AAAAA
.(((((((((((((.(((((.............((((.(((........))).))))((((((.(((....))).....))))))..))))).)))))....))))))))-----..... ( -25.90)
>DroYak_CAF1 6221 95 + 1
CUUUUAAUCGUGCCUCGGGUUAAGUAAG------------UCAAAUCAUGGCC-CU------------GAUGCGAUUUGCGAUUCUUAUCUGUGGCAUAAAAGACUGAAGAUGAAAAGGG
(((((.((((((((.(((((...(((((------------((..((((.....-.)------------)))..))))))).......))))).)))))...........))).))))).. ( -23.90)
>consensus
CUUUUAAUCGUGCUUCGGGUUAAGUAAG____________CUAAAUAAUGGCGUCUUGGGUCGACCUUGAUGCGAAUUGCGAUUCAUAUCUGUGGCAUUAAAGAUUAAAAA____AAAAA
.(((((((((((((.(((((..............................(((((..((.....))..)))))((((....))))..))))).)))))....)))))))).......... (-16.09 = -16.90 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:42 2006