Locus 1925

Sequence ID 2L_DroMel_CAF1
Location 5,231,044 – 5,231,159
Length 115
Max. P 0.901626
window3113

overview

Window 3

Location 5,231,044 – 5,231,159
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.29
Mean single sequence MFE -31.72
Consensus MFE -21.44
Energy contribution -22.16
Covariance contribution 0.72
Combinations/Pair 1.07
Mean z-score -2.31
Structure conservation index 0.68
SVM decision value 1.02
SVM RNA-class probability 0.901626
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5231044 115 + 22407834
UAUAGCAAUAUUAUUUUAUAUGAUAUGCACAUACGGCCAAAUGAGCAAUACGUGCCAAUGUGCGUUGUCAUUGGCUCUCGACUUGCGAUUCGC-----GCGAUUCUCAUUGUGCGGCUAA
....(((.((((((.....)))))))))......((((......((((..((.(((((((........)))))))...))..)))).....((-----(((((....))))))))))).. ( -35.80)
>DroSec_CAF1 8392 97 + 1
UAUAGCAAUAUUAUUUGAUAUGAUAUGCACAUACGGCCAAAUGAGCAAUACGUGCCAAUGUGCGUUGUCAU------------------UCGC-----GCGAUUCUCAUUGUGCGGCUAA
..((((.............(((((((((((((..(((...((((....).)))))).))))))).))))))------------------.(((-----(((((....)))))))))))). ( -30.00)
>DroSim_CAF1 9319 97 + 1
UAUAGCAAUAUUAUUUGAUAUGAUAUGCACAUACGGCCAAAUGAGCAAUACGUGCCAAUGUGCGUUGUCAU------------------UCGC-----GCGAUUCUCAUUGUGCGGCUAA
..((((.............(((((((((((((..(((...((((....).)))))).))))))).))))))------------------.(((-----(((((....)))))))))))). ( -30.00)
>DroEre_CAF1 1181 113 + 1
UAUAGCAGUAUUAUUUUAUAUGAUAUGCACAUAUGGCCAAAUGAGCAAUACGUGCCAAUGUGCGUUGUCAUCGACUCUCGACUUGCGACUCUCGAU-------UCUCAUUGUGCGGCUAA
..((((.((((.........((((((((((((.((((...((((....).)))))))))))))).)))))((((...(((.....)))...)))).-------.......)))).)))). ( -29.60)
>DroYak_CAF1 10189 120 + 1
UAUAGCAAUAUUAUUUUAUACGAUAUGCACAUACGGCCAAAUGAGCAAUACGUGCCAAUGUGCGUUGUCAUGGGCUCUCAACGUGCGAUUCGCGAUUCGCGGUUCUUAUUGUGCGGCUAA
..((((.((((..(.....)..))))(((((.(..(((....((((....((((.((((....)))).)))).)))).......((((........)))))))..)...))))).)))). ( -33.20)
>consensus
UAUAGCAAUAUUAUUUUAUAUGAUAUGCACAUACGGCCAAAUGAGCAAUACGUGCCAAUGUGCGUUGUCAU_G_CUCUC_AC_UGCGA_UCGC_____GCGAUUCUCAUUGUGCGGCUAA
..((((.(((((((.....)))))))(((((.........((((.((..(((..(....)..)))))))))..................((((.....)))).......))))).)))). (-21.44 = -22.16 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:05 2006