Locus 1177

Sequence ID X_DroMel_CAF1
Location 3,500,451 – 3,500,545
Length 94
Max. P 0.846534
window1885

overview

Window 5

Location 3,500,451 – 3,500,545
Length 94
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 65.84
Mean single sequence MFE -21.38
Consensus MFE -6.86
Energy contribution -6.82
Covariance contribution -0.04
Combinations/Pair 1.09
Mean z-score -2.19
Structure conservation index 0.32
SVM decision value 0.77
SVM RNA-class probability 0.846534
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3500451 94 + 22224390
UUGUG-------UGGAGCUACAUAAAUUGUUGGCUAAUUGCAAGUGGCUCCUUUGGCCAAGGGAAAAUAUGAAAAAA----UGAAAAAAAA-AAACAAAGUAUAUG
(((((-------((....))))))).((.((((((((..((.....))....)))))))).))..............----..........-.............. ( -16.50)
>DroPse_CAF1 10983 90 + 1
UUGUACCAGCCAGGGAGAAACAUAAAUUGCUAGCUAAUUGCAAGUGGCUCCU-UGGCCAAGCAGAAGUACGUACAUA------CAUAU---------GUACAUACC
((((....(((((((((...(((...((((.........))))))).)))))-))))...))))..(((.((((((.------...))---------)))).))). ( -29.40)
>DroSec_CAF1 9086 80 + 1
UUGUG-------GGGAGCUACAUAAAUUGUUGCCUAAUUGCAAGUGCCCCCUUGGCCCAAGGGAAAAUAU--A--------UAAAAAA---------AAAUGUUCG
.((((-------(....))))).......((((......)))).....((((((...)))))).......--.--------.......---------......... ( -14.70)
>DroYak_CAF1 6439 81 + 1
UUGUG-------CGGAGCUACAUAAAUUGUUGGCUAAUUGCAAGUGGCUCCUUUGGCCAAGAGAAAAUAUAAAAAAA----AAGAAAAAAAA--------------
(((.(-------(((((((((...(((((.....)))))....))))))))....))))).................----...........-------------- ( -15.40)
>DroPer_CAF1 11280 96 + 1
UUGUACCAGCCAGGGAGAAACAUAAAUUGCUAGCUAAUUGCAAGUGGCUCCU-UGGCCAAGCAGAAGUACGUACAUACUCGUACAUAC---------AUAUGUACG
.(((((..(((((((((...(((...((((.........))))))).)))))-))))...((....))..)))))....(((((((..---------..))))))) ( -30.90)
>consensus
UUGUG_______GGGAGCUACAUAAAUUGUUGGCUAAUUGCAAGUGGCUCCUUUGGCCAAGCGAAAAUAUGAAAAAA____UAAAAAA_________AAAUAUACG
.............((((...(((...((((.........))))))).))))....................................................... ( -6.86 =  -6.82 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:05 2006