Locus 5700

Sequence ID X_DroMel_CAF1
Location 14,750,824 – 14,750,944
Length 120
Max. P 0.538446
window9253

overview

Window 3

Location 14,750,824 – 14,750,944
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.72
Mean single sequence MFE -44.37
Consensus MFE -29.47
Energy contribution -29.58
Covariance contribution 0.11
Combinations/Pair 1.26
Mean z-score -1.35
Structure conservation index 0.66
SVM decision value 0.01
SVM RNA-class probability 0.538446
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14750824 120 - 22224390
GUGGGCACUUGUCGCAUGGCUCCAAGAAAGGGAGUGGAUUCCCAGGAGAAUGGAGGCGUGGUGGACGAAAGAUUGAGGGUUCAUGGGGUCAAGGGUCUUCGUGUGGUGGAUGCCAGCAUU
((.((((.(..((((((((((((.......)))))(((((((((......))).(((.(.((((((............)))))).).)))..)))))).)))))))..).)))).))... ( -43.50)
>DroSec_CAF1 29886 120 - 1
GUGGGCACUUGCCGCAUGGCUCCAAGGAAGGAGGUGGACUCCCAGGAGGACGGAGGCGUGGUGGACGAGAGAUUAAGGGUUCAUGGGGUCAAGGGUCUUCGUGUGGUGGAUGCCAGCAUU
((.((((.(..((((((((((((......))))..((((((((....)).....(((.(.((((((............)))))).).)))..))))))))))))))..).)))).))... ( -46.50)
>DroSim_CAF1 4009 120 - 1
GUGGGCACUUGUCGCAUGGCUCCAAGGAAGGAGGUGGAUUCCGAGGAGGACGGAGGCGUGGUGGACGAAAGAUUAAGGGUUCAUGGGGUCAAGGGUCUUCGUGUGGUGGAUGCCAGCAUU
((.((((.(..((((((((((((..((((.........))))..))))(((...(((.(.((((((............)))))).).)))....))).))))))))..).)))).))... ( -42.30)
>DroEre_CAF1 3073 120 - 1
GUGGGCACUUGUCGCAUGGCUCCGAGGAAGGAGGCGCAUGCCCAGCAGGAUGGCGGCGUGGUGGACGAAAGAUUGAGGGUGCAUGGCGUCAAGGGUCUUCGGGUGGUGGAUGCCAGCAUU
((.((((....((.(((.((.(((((((..((.((.(((((((..(((..(..((..........))..)..)))..)).))))))).)).....))))))))).))))))))).))... ( -45.60)
>DroYak_CAF1 3588 120 - 1
GUGGGCACUUGUCGCAUGGCUCCGAGGAAGGAGGGAAAUUCUGGGGAGGAUGGAGGCGUGGUGGACGAAAGAUUGCGAGUUCACGGAGUCAAGGGUCUUCGUGUGGUGGAUGCCAGCAUU
((.((((.(..((((((..((((..((((.........))))..))))...((((((...(..(.(....).)..)((.((....)).))....))))))))))))..).)))).))... ( -40.20)
>DroPer_CAF1 4054 105 - 1
GUCGGCUCCUGUCGCAUGGCUGCG------GCCGGGGAUCC---------GCGGGGCGUCGUCGAUGAGCGGCUGAGGGUGCACGGGGUGCGAGGCCUGCGCGUGGUGGACGCCAGCAUC
...((((((.((((((....))))------)).))))..))---------((..((((((..(.(((.((((((.....(((((...))))).)))).)).))).)..)))))).))... ( -48.10)
>consensus
GUGGGCACUUGUCGCAUGGCUCCAAGGAAGGAGGUGGAUUCCCAGGAGGAUGGAGGCGUGGUGGACGAAAGAUUGAGGGUUCAUGGGGUCAAGGGUCUUCGUGUGGUGGAUGCCAGCAUU
((.((((.(..(((((((((((.................(((.........)))(((.(.((((((............)))))).).)))..)))))...))))))..).)))).))... (-29.47 = -29.58 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:19 2006