Locus 1899

Sequence ID	3R_DroMel_CAF1
Location	5,424,688 – 5,424,796
Length	108
Max. P	0.588703

overview

Window 6

Location	5,424,688 – 5,424,796
Length	108
Sequences	4
Columns	115
Reading direction	reverse
Mean pairwise identity	85.01
Mean single sequence MFE	-18.83
Consensus MFE	-12.27
Energy contribution	-12.65
Covariance contribution	0.38
Combinations/Pair	1.13
Mean z-score	-1.71
Structure conservation index	0.65
SVM decision value	0.11
SVM RNA-class probability	0.588703
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5424688 108 - 27905053
GAAACCAA---AGAAAAAAGGCUUAAACCAGCUGAGAUUUAUAUUUGGGCAACAAAUAUUUCAGGAAUUCCACGUAAAUCUCACAAAU----CUCACUGCUCACUCAACGCCCAA
........---........(((.......((((((((((((((((((.....)))))))....((....)).............))))----))))..)))........)))... ( -19.26)
>DroSec_CAF1 11335 111 - 1
GAAACCAA---AGAAA-AAGGCUUAAACCAGCUGAGAUUUAUAUUUGGGCUACAAAUAUUUCAGGAAUUCCACGUAAAUCUCACAAAUCUAUCUCACUGCUCACUCAACGCCCAA
........---(((..-..((((......))))((((((((((((((.....)))))......((....))..))))))))).....)))......................... ( -17.80)
>DroEre_CAF1 11794 108 - 1
GAAACCAAAAAAAAAAAAAGACCUAAACCAGCUGAGAUUUAUAUUUGGGCUAGAAAUAUUUCAGGAAUUCCACGUAAAGCUCAAAAACC-------CACCUCACUCAGCGCCCAU
..............................((((((.......((((((((.(((....))).((....))......))))))))....-------.......))))))...... ( -18.67)
>DroYak_CAF1 12147 108 - 1
GAAACCAACAAAGAAAAAAGGCUUAAACCAGCUGAGAUUUAUAUUUGGGCUACAAGUAUUUCAGGAAUUCCACGUAAAUGUGAAAAACA-------CAUCUCACUCGGCGCCCAU
...................(((........((((((....(((((((.....)))))))....((....))......(((((.....))-------)))....)))))))))... ( -19.60)
>consensus
GAAACCAA___AGAAAAAAGGCUUAAACCAGCUGAGAUUUAUAUUUGGGCUACAAAUAUUUCAGGAAUUCCACGUAAAUCUCAAAAACC_______CAGCUCACUCAACGCCCAA
..............................((((((....(((((((.....)))))))....((....))................................))))))...... (-12.27 = -12.65 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:22 2006