Locus 2444

Sequence ID	2R_DroMel_CAF1
Location	8,802,259 – 8,802,367
Length	108
Max. P	0.999671

overview

Window 1

Location	8,802,259 – 8,802,367
Length	108
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	91.34
Mean single sequence MFE	-29.76
Consensus MFE	-23.09
Energy contribution	-24.73
Covariance contribution	1.64
Combinations/Pair	1.04
Mean z-score	-2.27
Structure conservation index	0.78
SVM decision value	1.32
SVM RNA-class probability	0.941520
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8802259 108 + 20766785
UGUGCUUGGCAUUAAGUGCUUAUCUGAUUUGCCUUCUCGCCCACGAAAGACGAGACCAUAACCAAAACCAAAGGCAAUGGGAAAGGCAAUGGCAAAAGCAAAGCCAAG
....((((((......(((((...((..(((((((((((....(....).)))))((((..((.........))..))))...))))))...)).)))))..)))))) ( -31.10)
>DroSec_CAF1 46728 108 + 1
UGUGCUUGGCAUUAAGUGCUUAUCUGAUUUGCCUUCUCGCCCACGAGAGACGAGACCAUAACCAAAACCAAAGGCAAUGGGAAAGGCAAAGGCAAAAGCAAAGCCAAG
....((((((......(((((...((.((((((((((((....))))).......((((..((.........))..))))...)))))))..)).)))))..)))))) ( -31.50)
>DroSim_CAF1 47871 108 + 1
UGUGCUUGGCAUUAAGUGCUUAUCUGAUUUGCCUUCUCGCCCACGAGAGACGAGACCAUAACCAAAACCAAAGGCAAUGGGAGAGGCAAAGGCAAAAGCAAAGCCAAG
....((((((......(((((...((.((((((((((((....))))).......((((..((.........))..))))...)))))))..)).)))))..)))))) ( -31.60)
>DroEre_CAF1 49788 102 + 1
UGUGCUUGGCAUUAAGUGCUUAUCUGAUUUGCCUUCUCGCCCACGACAGACGAGACCAUAACCAAAAGCAAAGGCAA------AGGCAAUGGCGAAAGCAAAGCCAAG
....((((((......((((.......(((((((((((((........).)))))................))))))------)))))...((....))...)))))) ( -27.10)
>DroYak_CAF1 49528 96 + 1
UGUGCUUGGCAUUAAGUGCUUAUCUGAUUUGCCUUCUCGCCCACGACAGACGAGACCAUAACCCAAACCAAAGGCAA------AAGGA------AAAGCAAAGCCAAG
....((((((......(((((.(((..(((((((((((((........).)))))................))))))------).)))------.)))))..)))))) ( -27.49)
>consensus
UGUGCUUGGCAUUAAGUGCUUAUCUGAUUUGCCUUCUCGCCCACGACAGACGAGACCAUAACCAAAACCAAAGGCAAUGGGA_AGGCAAAGGCAAAAGCAAAGCCAAG
....((((((......(((((.(((...((((((((((((........).)))))................))))))..))).)))))...((....))...)))))) (-23.09 = -24.73 +   1.64)

alignment

secondary structure

dotplot

Window 2

Location	8,802,259 – 8,802,367
Length	108
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	91.34
Mean single sequence MFE	-36.14
Consensus MFE	-30.82
Energy contribution	-32.26
Covariance contribution	1.44
Combinations/Pair	1.03
Mean z-score	-3.16
Structure conservation index	0.85
SVM decision value	3.86
SVM RNA-class probability	0.999671
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8802259 108 - 20766785
CUUGGCUUUGCUUUUGCCAUUGCCUUUCCCAUUGCCUUUGGUUUUGGUUAUGGUCUCGUCUUUCGUGGGCGAGAAGGCAAAUCAGAUAAGCACUUAAUGCCAAGCACA
((((((..((((((((...((((((...((((.(((.........))).))))((((((((.....))))))))))))))..))))..))))......)))))).... ( -38.00)
>DroSec_CAF1 46728 108 - 1
CUUGGCUUUGCUUUUGCCUUUGCCUUUCCCAUUGCCUUUGGUUUUGGUUAUGGUCUCGUCUCUCGUGGGCGAGAAGGCAAAUCAGAUAAGCACUUAAUGCCAAGCACA
((((((..((((((((..(((((((...((((.(((.........))).))))((((((((.....))))))))))))))).))))..))))......)))))).... ( -38.10)
>DroSim_CAF1 47871 108 - 1
CUUGGCUUUGCUUUUGCCUUUGCCUCUCCCAUUGCCUUUGGUUUUGGUUAUGGUCUCGUCUCUCGUGGGCGAGAAGGCAAAUCAGAUAAGCACUUAAUGCCAAGCACA
((((((..((((((((..(((((((...((((.(((.........))).))))((((((((.....))))))))))))))).))))..))))......)))))).... ( -38.10)
>DroEre_CAF1 49788 102 - 1
CUUGGCUUUGCUUUCGCCAUUGCCU------UUGCCUUUGCUUUUGGUUAUGGUCUCGUCUGUCGUGGGCGAGAAGGCAAAUCAGAUAAGCACUUAAUGCCAAGCACA
((((((((((((((((((((.(((.------..((....))....))).))))).((((((.....))))))))))))))).....(((....)))..)))))).... ( -34.70)
>DroYak_CAF1 49528 96 - 1
CUUGGCUUUGCUUU------UCCUU------UUGCCUUUGGUUUGGGUUAUGGUCUCGUCUGUCGUGGGCGAGAAGGCAAAUCAGAUAAGCACUUAAUGCCAAGCACA
((((((..(((((.------((..(------((((((................((((((((.....)))))))))))))))...)).)))))......)))))).... ( -31.79)
>consensus
CUUGGCUUUGCUUUUGCCAUUGCCU_UCCCAUUGCCUUUGGUUUUGGUUAUGGUCUCGUCUCUCGUGGGCGAGAAGGCAAAUCAGAUAAGCACUUAAUGCCAAGCACA
((((((..(((((......((((((...((((.(((.........))).))))((((((((.....)))))))))))))).......)))))......)))))).... (-30.82 = -32.26 +   1.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:16 2006