Locus 5888

Sequence ID 2L_DroMel_CAF1
Location 16,643,684 – 16,643,774
Length 90
Max. P 0.946662
window9344

overview

Window 4

Location 16,643,684 – 16,643,774
Length 90
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 78.12
Mean single sequence MFE -28.77
Consensus MFE -12.14
Energy contribution -13.03
Covariance contribution 0.89
Combinations/Pair 1.21
Mean z-score -2.91
Structure conservation index 0.42
SVM decision value 1.36
SVM RNA-class probability 0.946662
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16643684 90 + 22407834
GCCAAUAUUUGCCUGAC--GGG-G-------------------GAAAAGCAGACGACAGAGGCUGUGUGUUUGCCUCGUCAAAGAUAUUGGAAAUU-CAAAUAAAAUGGCA-AC
.(((((((((...((((--(((-(-------------------.(((.((((.(......).))))...))).)))))))).))))))))).....-..............-.. ( -30.00)
>DroSec_CAF1 98507 87 + 1
GCCAAUAUUUGCCUGAA--GGG-G-------------------GGAAAACAG---ACAGAGGCUGUGUGGUUGCCUCGUCAAAGAUAUUGGAAAUU-CAAAUAAAAUGGCA-GC
.(((((((((...(((.--(((-(-------------------.((...((.---((((...)))).)).)).)))).))).))))))))).....-..............-.. ( -24.60)
>DroSim_CAF1 100755 88 + 1
GCCAAUAUUUGCCUGAC--GGGGG-------------------GGAAAGCAG---ACAGAGGCUGUGUGUUUGCCUCGUCAAAGAUAUUGGAAAUU-CAAAUAAAAUGGCA-GC
.(((((((((...((((--((((.-------------------...(((((.---((((...)))).))))).)))))))).))))))))).....-..............-.. ( -30.30)
>DroEre_CAF1 99859 89 + 1
GCCAAUAUUUGCCUGGCAUGGG-C-------------------GGAAAGCAG---ACAGGGGCUAUGUGUUUGCCUCGUCAAAGAUAUUGAAAAUU-CAAAUAAAAUGCCA-GC
............(((((((.((-(-------------------((...((((---(((.(.....).))))))).))))).......((((....)-))).....))))))-). ( -25.00)
>DroYak_CAF1 97468 86 + 1
GCCAAUAUUUGCCUGAC---GG-G-------------------GGAAAGCGC---ACAGAGGCUGUGUGUUUGUCUCGUCAAAGAUAUUGGAAAUU-CAAAUAAAAUGGCA-GC
.(((((((((...((((---((-(-------------------(..((((((---((((...)))))))))).)))))))).))))))))).....-..............-.. ( -32.60)
>DroAna_CAF1 38943 109 + 1
ACCAAUAUUUGCAUGAC--GGGGGGCCAUGGGUGUCAAGGGCAGGGAAGCAU---GCAAGAGCUGUUGUUUCUACCCGUCAAUGUUAUUGAAAAUUUUAAAUAAAUAGACAAGC
..(((((...(((((((--(((..(((...(....)...)))..(((((((.---((....))...))))))).)))))).)))))))))........................ ( -30.10)
>consensus
GCCAAUAUUUGCCUGAC__GGG_G___________________GGAAAGCAG___ACAGAGGCUGUGUGUUUGCCUCGUCAAAGAUAUUGGAAAUU_CAAAUAAAAUGGCA_GC
.(((((((((...((((..........................(.....)........(((((.........))))))))).)))))))))....................... (-12.14 = -13.03 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:31 2006