Locus 4071

Sequence ID 2R_DroMel_CAF1
Location 13,444,478 – 13,444,575
Length 97
Max. P 0.500000
window6556

overview

Window 6

Location 13,444,478 – 13,444,575
Length 97
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 79.28
Mean single sequence MFE -38.28
Consensus MFE -20.34
Energy contribution -22.78
Covariance contribution 2.44
Combinations/Pair 1.04
Mean z-score -1.81
Structure conservation index 0.53
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13444478 97 - 20766785
GUCGGCAAUCCGCCAUUGGCGGCCAUCGCCAAUCGACGCUCCCCAG-UAGAUGUCGAUGUUGGCUA------UGGCCAUCGCAAGUCGCGGCUGACUUACUGAC----
((((((.....(((...)))((((((.(((((((((((.((.....-..)))))))))..)))).)------)))))..(((.....)))))))))........---- ( -41.60)
>DroSec_CAF1 8393 99 - 1
GUCCGCAAUCCGCCAUUGGCGGCCAUCGCCAAUCGACGCUCCCCAG-UCGACGC--AGCUUGGCUA------UGGCCAUCGCAAGUCGCGGCUGACUUACUGACUAGC
(((.((.....(((...)))((((((.((((((((((........)-))))...--...))))).)------)))))...))((((((....))))))...))).... ( -36.30)
>DroSim_CAF1 9043 99 - 1
GUCGGCAAUCCGCCAUUGGCGGCCAUCGCCAAUCGACGCUCCCCAG-UCGACGG--AGCUUGGCUA------UGGCCAUCGCAAGUCGCGGCUGACUUACUGACUAGC
((((((.....(((...)))((((((.(((((.....(((((....-.....))--)))))))).)------)))))..(((.....)))))))))............ ( -40.50)
>DroEre_CAF1 8486 87 - 1
GUCGGCAAUGCGCUAUUG---GCCAUCGCCAAUCGAGGGUCCCAGGAUGGACGG--AGGAUGGA-----CGGAG--------GAGUCGCGGCUGACUUACUGACU---
((((((...(((((.((.---((((((.((......))((((......))))..--..))))).-----).)).--------.)).))).)))))).........--- ( -30.50)
>DroYak_CAF1 8483 99 - 1
GUCGGCCAUCCGCUAUUG---GCCAUCGGCAAUCGACGGUCCCCAG-UCGACGU--AGUAUGGCUAUGGCUGUGGCCAUCGCAAGUCGCGGCUGACUUACUGACU---
(((((((.........((---((((.((((..(((((........)-))))(((--((.....)))))))))))))))..((.....))))))))).........--- ( -42.50)
>consensus
GUCGGCAAUCCGCCAUUGGCGGCCAUCGCCAAUCGACGCUCCCCAG_UCGACGG__AGCUUGGCUA______UGGCCAUCGCAAGUCGCGGCUGACUUACUGACU___
((((((....(((.(((((((.....)))))))................(((........((((((......))))))......))))))))))))............ (-20.34 = -22.78 +   2.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:02 2006