Locus 3393

Sequence ID 3L_DroMel_CAF1
Location 9,956,063 – 9,956,165
Length 102
Max. P 0.850568
window5305

overview

Window 5

Location 9,956,063 – 9,956,165
Length 102
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 85.67
Mean single sequence MFE -28.38
Consensus MFE -22.89
Energy contribution -23.08
Covariance contribution 0.19
Combinations/Pair 1.05
Mean z-score -2.54
Structure conservation index 0.81
SVM decision value 0.79
SVM RNA-class probability 0.850568
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9956063 102 + 23771897
GUGCAAUUAGAUUUCCGCUAAAGCGGAUUUCGCGAUAUCGCGUGACUUGGGCCG---CCCAACAAUUCACAGUCAAA-AUACAUAGGAAGAA-AUUC----AAUGCACAUU
(((((....((..(((((....)))))..))(((....)))((((.(((((...---)))))....)))).......-........(((...-.)))----..)))))... ( -32.70)
>DroSec_CAF1 9091 101 + 1
GUGCAAUUAGAUUUCCGCUAAAGCGGAUUUCGCGAUAUCGCGUGACUUGGGCCG---C-CAACAAUUCACAGUCAAA-AUACAUGGAAAGAA-AUUC----AAUGCACAUU
(((((....((..(((((....)))))..))(((....)))((((.((((....---)-)))....)))).......-..............-....----..)))))... ( -28.80)
>DroSim_CAF1 15991 102 + 1
GUGCAAUUAGAUUUCCGCUAAAGCGGAUUUCGCGAUAUCGCGUGACUUGGGCCG---CCCAACAAUUCACAGUCAAA-AUACAUGGAAAGAA-AUUC----AAUGCACAUU
(((((....((..(((((....)))))..))(((....)))((((.(((((...---)))))....)))).......-..............-....----..)))))... ( -30.60)
>DroEre_CAF1 9098 106 + 1
GUGCAAUUAGAUUUCCGCUAAAGCGGAUUUCGCGAUAUCGCGUGACUUGGGCCG---CCCAGCAAUUCACAGUCAAA-AUACAUAGGACGAA-AUACUGGAAAUUCACAUU
(((.((((.((..(((((....)))))..))(((....)))((((.(((((...---)))))....)))).(((...-........)))...-........)))))))... ( -27.10)
>DroYak_CAF1 8804 107 + 1
GUGCAAUUAGAUUUCCGCUAAAGCGGAUUUCGCGAUAUCGCGUGACUUGGGCCG---CCCAACAAUUCACAGUCAAA-AUACAUAGAAAGAAAAAACUGAAAACUCUCAUU
......((((...(((((....)))))(((((((....)))((((.(((((...---)))))....)))).......-.......)))).......))))........... ( -24.20)
>DroAna_CAF1 10194 91 + 1
GUGCAAUUAGAUUUCCGCUAAAGCGGAUUUCGCGAUAUCGCGUGACUUGGGCCACCACCCCACCAUUCACAGUCACAUCUACAGAUACAGA--------------------
((((.....((..(((((....)))))..))(((....)))((((((((((.......))))........)))))).......).)))...-------------------- ( -26.90)
>consensus
GUGCAAUUAGAUUUCCGCUAAAGCGGAUUUCGCGAUAUCGCGUGACUUGGGCCG___CCCAACAAUUCACAGUCAAA_AUACAUAGAAAGAA_AUUC____AAUGCACAUU
(((......((..(((((....)))))..))(((....)))((((.(((((......)))))....)))).........)))............................. (-22.89 = -23.08 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:03 2006