Locus 4778

Sequence ID 2L_DroMel_CAF1
Location 13,650,450 – 13,650,554
Length 104
Max. P 0.575738
window7560

overview

Window 0

Location 13,650,450 – 13,650,554
Length 104
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 73.46
Mean single sequence MFE -34.27
Consensus MFE -12.85
Energy contribution -14.60
Covariance contribution 1.75
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 0.37
SVM decision value 0.08
SVM RNA-class probability 0.575738
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13650450 104 + 22407834
AA-------AAAACACAGACG--CAGAGUGUAGCAUACAUUUUCGCGUUGGGCUUUUGUGUGCAGCUGCUUCCAGGGCAUUUUUUUUU-------UGUUUUUUCGUUUUGCAUUCGAAAU
((-------(((((((.((((--(((((((((...)))))))).))))).)(((((.(...((....))..).)))))..........-------)))))))).((((((....)))))) ( -22.10)
>DroPse_CAF1 18806 112 + 1
AAUGCCGCUUACACAUGG-CGAAAAAAGUGUAGCAUACUUUUUUGCGCGG-GCUUUUGUGUGCAGCUGCUGCU---GCAUUUCCCCGUCGCGUCGUGUGUU---UUUUUGCAUACGAAAU
.((((.....((((((((-(.((((((((((...))))))))))((((((-(.......(((((((....)))---))))...)))).)))))))))))).---.....))))....... ( -44.90)
>DroSim_CAF1 15677 101 + 1
AA-------AACACAUAGACG--CAGAGUGAAGCAUACAUUUUCGCGUUGGGCUUUUGUGUGCAGCUGCUUCCAGGGCAUUUUUUUUU----------UUUUUCGUUUUGCAUUCGAAAU
..-------...........(--((((((((((((((((.....((.....))...)))))))...((((.....)))).........----------...))))))))))......... ( -22.30)
>DroPer_CAF1 19179 113 + 1
AAUGCCGCUUACACAUGG-CGAAAAAAGUGUAGCAUACUUUUUUGCGCGGGGCUUUUGUGUGCAGCUGCUGCU---GCAUUUCCCCGUCGCGUCGUGUGUU---UUUUUGCAUACGAAAU
.((((.....((((((((-(.((((((((((...))))))))))((((((((.......(((((((....)))---))))..))))).)))))))))))).---.....))))....... ( -47.80)
>consensus
AA_______AACACAUAG_CG__AAAAGUGUAGCAUACAUUUUCGCGCGGGGCUUUUGUGUGCAGCUGCUGCC___GCAUUUCCCCGU_______UGUGUU___GUUUUGCAUACGAAAU
.........................((((((((((((((.....((.....))...)))))))...(((.......))).............................)))))))..... (-12.85 = -14.60 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:04 2006