Locus 1676

Sequence ID 3L_DroMel_CAF1
Location 4,899,563 – 4,899,655
Length 92
Max. P 0.660103
window2587

overview

Window 7

Location 4,899,563 – 4,899,655
Length 92
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 78.64
Mean single sequence MFE -16.12
Consensus MFE -11.29
Energy contribution -11.15
Covariance contribution -0.14
Combinations/Pair 1.31
Mean z-score -1.23
Structure conservation index 0.70
SVM decision value 0.27
SVM RNA-class probability 0.660103
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4899563 92 + 23771897
UUUAAUAUUGUAGUACCUAAUGUACUUAAAACCCAAAAA--CAGGUGCCGUUUUGAAGUACACCAACUUCCGGAACCUGAAGAAGGACGAACAU
.......(((((((((.....)))))......((.....--(((((.(((....(((((......)))))))).))))).....)))))).... ( -19.90)
>DroSec_CAF1 120750 88 + 1
UUUAAAG----AGAAUCUAAAGCACACAAACUCCAAAAA--CAGGUGCCGUUUUGAAGUACACCAACUUCCGGAACCUGAAGAAGGACGAACAU
.......----....................(((.....--(((((.(((....(((((......)))))))).))))).....)))....... ( -16.70)
>DroSim_CAF1 130707 83 + 1
UUUAAAA---------GUAAAACACCUAAACUCCAAAAA--CAGGUGCCGUUUUGAAGUACACCAACUUCCGGAACCUGAAGAAGGACGAACAU
.......---------...............(((.....--(((((.(((....(((((......)))))))).))))).....)))....... ( -16.70)
>DroEre_CAF1 122183 80 + 1
UUUAAAG---------GCAG--C-UCUCAACACCAAAAA--CAGGUGGCGCUUUGAAGUACGCCAGCUUCCGGAACCUGAAGAAGGACGAACAC
(((((((---------((.(--.-...)..((((.....--..)))))).)))))))((.((((..((((.(....).))))..)).)).)).. ( -19.40)
>DroYak_CAF1 123881 82 + 1
UUUAAAA---------CUAG--C-UGUAAACUCCAAAAAUAUAGGUGCCGUUUUGAAGUACACCAACUUCCGCAAUCUGAAGAAGGACGAACAC
(((((((---------(((.--(-((((...........))))).))..)))))))).....((..((((........))))..))........ ( -11.60)
>DroAna_CAF1 127921 80 + 1
UUUAUAG---------UCAU--U-UUUAUACAAAAAAAA--AAGGUGUCGUUUUGAAGUACACCAGCUUCCGGAAUCUGAAGAAGGACGAACAU
......(---------((..--.-...............--..((((((........).)))))..((((........))))...)))...... ( -12.40)
>consensus
UUUAAAA_________CUAA__C_CCUAAACUCCAAAAA__CAGGUGCCGUUUUGAAGUACACCAACUUCCGGAACCUGAAGAAGGACGAACAU
.........................................(((((.(((....(((((......)))))))).)))))............... (-11.29 = -11.15 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:25 2006