Locus 4642

Sequence ID 3L_DroMel_CAF1
Location 13,180,801 – 13,180,910
Length 109
Max. P 0.507394
window7287

overview

Window 7

Location 13,180,801 – 13,180,910
Length 109
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 90.28
Mean single sequence MFE -36.36
Consensus MFE -27.90
Energy contribution -27.74
Covariance contribution -0.16
Combinations/Pair 1.08
Mean z-score -1.46
Structure conservation index 0.77
SVM decision value -0.05
SVM RNA-class probability 0.507394
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13180801 109 + 23771897
GUUGUUGCCGCAGGGACGCUUCACUGGCGAUCGCAGCAACAGGAAGGCAAAACGGGAAUCCUAGAAGAUCACGAACUUACAAAUACCCUGCGGAUCUACAGCUGAUCAA
(((((..((((((((..((((..(((((.......))..)))..))))....((.((.((......)))).))............))))))))....)))))....... ( -34.40)
>DroSec_CAF1 32214 109 + 1
GUUGUUGCCGCAGGGACGCUUCACUGGCGAUCGCAGCAACAGGAAAGGAGAACUGGAAUCCUAGGAGACCACGAACUUGCAAAUACCCUGCGGAUCUUCAGCUGUUCAA
((((...((((((((.((((.....))))......((((.((((.((.....))....)))).(....).......)))).....)))))))).....))))....... ( -34.70)
>DroSim_CAF1 30469 109 + 1
GUUGUUGCCGCAGGGACGCUUCACUGGCGAUCGCAGCAACAGGAAAGCAAAACUUGAAUCCUAGGAGAACACGAACUUGCAAAUACCCUGCGGAUCUUCAGCUGUUCAA
((((...((((((((.((((.....))))......((((.((((...((.....))..)))).(.....)......)))).....)))))))).....))))....... ( -32.20)
>DroEre_CAF1 35883 108 + 1
GUUGUUGCCGCAGGGACGCUUCACUGGCGAUCGCAGCUAC-GGAAAGGAGAACGCGAGUCCUGGGACACCACGAACUGGUAAGUACCCUGCGGCUCUUCAGCUGCUCAA
((((..(((((((((.((((.....)))).((((..((.(-.....).))...))))(((....)))((((.....)))).....)))))))))....))))....... ( -40.70)
>DroYak_CAF1 31434 109 + 1
GUUGUUGCCGCAGGGACGCUUCACUGGCGAUCGCAGCAACAGGAAAGGAGAUCGCGAGUCCUAGGAGACCACGAACUUGUAAAUACCCUGCGGCACUUCAGCUGUUCAA
((((.((((((((((.((((.....)))).........(((((..((((...(....))))).(....)......))))).....))))))))))...))))....... ( -39.80)
>consensus
GUUGUUGCCGCAGGGACGCUUCACUGGCGAUCGCAGCAACAGGAAAGGAGAACGCGAAUCCUAGGAGACCACGAACUUGCAAAUACCCUGCGGAUCUUCAGCUGUUCAA
((((...((((((((.((((.....))))......((((.((((..............)))).(.....)......)))).....)))))))).....))))....... (-27.90 = -27.74 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:15 2006