Locus 5406

Sequence ID	3R_DroMel_CAF1
Location	14,223,055 – 14,223,168
Length	113
Max. P	0.683719

overview

Window 1

Location	14,223,055 – 14,223,168
Length	113
Sequences	4
Columns	114
Reading direction	forward
Mean pairwise identity	76.72
Mean single sequence MFE	-38.52
Consensus MFE	-21.38
Energy contribution	-24.44
Covariance contribution	3.06
Combinations/Pair	1.04
Mean z-score	-1.97
Structure conservation index	0.55
SVM decision value	0.31
SVM RNA-class probability	0.683719
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14223055 113 + 27905053
GCUCCUUGGCUUUCACACGCGAGUUGUGGGUGAGCCUUAAUCACAUUUAUUCGAUGGUGAGUGGAGAAGGAGGUGCUGAGUGGGCGAG-GGAGCGGCGCCGAGAGAGCGAACGA
(((((((.((((.(((((....).))))(((..(((((..((.(((((((......)))))))..))..))))))))....)))).))-)))))..((((....).)))..... ( -41.80)
>DroEre_CAF1 86220 99 + 1
GCUCCUUGGCUGUCACACGCGAGUUGUGGGUGAGCCUUAAUCACAUUUAGUCGUGGGUGAGC-GAGGG----GAGCGGA----------GGAGCGGCGCCGAGAGAGCGAACGA
(((((((.(((.((((.(((.....))).)))).((((..((((............))))..-)))).----.))).))----------)))))..((((....).)))..... ( -38.30)
>DroYak_CAF1 95136 111 + 1
GCUCCUUGGCUGUCACACGCGAGUUGUGGGUGAGCCUUAAUCACAUUUAUUCGUGGGUGAGG-GAGAGGGAGGUGCGGAGUGGGCGUGGGGAGCG--GCCGAGAGAGCAAACGA
.((((((..((.((((.(((((((.....((((.......))))....))))))).)))).)-)..)))))).(((....(((.(((.....)))--.))).....)))..... ( -43.00)
>DroAna_CAF1 87800 95 + 1
GCUCC-UGGCUGACACACGCGAAUUGUGGGUGAGCCUUAAUCACAUUUAAUCGAA-GUGAGA-GAG--------GCAGA---GGAUAG-GGAGA--CGUACAGUCAGAGAAC--
..(((-((((((.(((.(((.....))).))).(((((..((((.(((....)))-))))..-)))--------))...---...((.-(....--).))))))))).))..-- ( -31.00)
>consensus
GCUCCUUGGCUGUCACACGCGAGUUGUGGGUGAGCCUUAAUCACAUUUAUUCGAGGGUGAGA_GAGAG____GUGCGGA___GGCGAG_GGAGCG_CGCCGAGAGAGCGAACGA
((((((((((..((((.(((((((.....((((.......))))....))))))).))))..............((................))...)))))).))))...... (-21.38 = -24.44 +   3.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:55 2006