Locus 6322

Sequence ID	2L_DroMel_CAF1
Location	17,618,989 – 17,619,129
Length	140
Max. P	0.987335

overview

Window 7

Location	17,618,989 – 17,619,089
Length	100
Sequences	4
Columns	100
Reading direction	reverse
Mean pairwise identity	86.39
Mean single sequence MFE	-28.83
Consensus MFE	-24.27
Energy contribution	-24.03
Covariance contribution	-0.25
Combinations/Pair	1.16
Mean z-score	-2.65
Structure conservation index	0.84
SVM decision value	2.08
SVM RNA-class probability	0.987335
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17618989 100 - 22407834
UUUUUUGUGCGUCAGAUUUUGUCUGUUGCGCGAUGUUUGCAUUGUGCAAUAUUCGGGGGAUUUUGAUGGUGUUCCGAUAACAAUAAUCAGAAUUGUUGGC
..........(((((.(((((..((((((((((((....))))))))))))..)))))(((((((((..((((.....))))...))))))))).))))) ( -30.30)
>DroSec_CAF1 14374 96 - 1
UGUG----GUGUCUGAUUUGUUCUGUUGCGCGAUGUUUGCAUUGUGCAAUAUUCGGGGGAUUUUGAUGGUGUUUCGAUAACAAUGAUCGGAAUUGUUGGC
.(..----((.(((((((((((.((((((((((((....)))))))))))).(((..(.(((.....))).)..))).))))..)))))))))..).... ( -29.60)
>DroSim_CAF1 4573 96 - 1
UGUG----GUGUCUGAUUUGUUCUGUUGCGCGAUGUUUGCAUUGUGCAAUAUUCGGGGGAUUUUGAUGGUGUUUCGAUAACAAUAAUCAGAAUUGUUGGC
.(..----((.(((((((((((.((((((((((((....)))))))))))).(((..(.(((.....))).)..))).))))..)))))))))..).... ( -29.90)
>DroEre_CAF1 2819 92 - 1
UGUU----GCGUCAGUUUUGGUCGGUUGCGCGAUG----CAUUGUGCAACAUUCGGUGGAUAUUGAUGGCGUUCCGAUAACAAUAAUCAGGAUUGUUGAC
.(..----((((((..........(((((((((..----..)))))))))..(((((....)))))))))))..).....(((((((....))))))).. ( -25.50)
>consensus
UGUG____GCGUCAGAUUUGGUCUGUUGCGCGAUGUUUGCAUUGUGCAAUAUUCGGGGGAUUUUGAUGGUGUUCCGAUAACAAUAAUCAGAAUUGUUGGC
.........(((((((.((.(((((((((((((((....))))))))))))...))).)).)))))))............(((((((....))))))).. (-24.27 = -24.03 +  -0.25)

alignment

secondary structure

dotplot

Window 8

Location	17,619,018 – 17,619,129
Length	111
Sequences	4
Columns	111
Reading direction	reverse
Mean pairwise identity	88.38
Mean single sequence MFE	-27.52
Consensus MFE	-23.15
Energy contribution	-23.40
Covariance contribution	0.25
Combinations/Pair	1.15
Mean z-score	-1.81
Structure conservation index	0.84
SVM decision value	0.76
SVM RNA-class probability	0.844166
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17619018 111 - 22407834
UGUGAGCUGGCUAAUUGGCAUUGAAUUUCAUACAAUUUUUUUUUUUGUGCGUCAGAUUUUGUCUGUUGCGCGAUGUUUGCAUUGUGCAAUAUUCGGGGGAUUUUGAUGGUG
.....((..(....)..))...........(((((.........)))))(((((((.(((.((((((((((((((....))))))))))))...)).))).)))))))... ( -29.20)
>DroSec_CAF1 14403 107 - 1
UGUGAGCUGGCUAAUUGGCAUUGAAUUUCAUACAAUUUUUUGUG----GUGUCUGAUUUGUUCUGUUGCGCGAUGUUUGCAUUGUGCAAUAUUCGGGGGAUUUUGAUGGUG
.....((..(....)..))((..((.(((.(((((....)))))----...(((((.......((((((((((((....)))))))))))).)))))))).))..)).... ( -26.80)
>DroSim_CAF1 4602 107 - 1
UGUGAGCUGGCUAAUUGGCAUUGAAUUUCAUACAAUUUUUUGUG----GUGUCUGAUUUGUUCUGUUGCGCGAUGUUUGCAUUGUGCAAUAUUCGGGGGAUUUUGAUGGUG
.....((..(....)..))((..((.(((.(((((....)))))----...(((((.......((((((((((((....)))))))))))).)))))))).))..)).... ( -26.80)
>DroEre_CAF1 2848 103 - 1
UUUGAACUGGCUAAUUGGCAUUGAAUUUCAUUUAAUUUUUUGUU----GCGUCAGUUUUGGUCGGUUGCGCGAUG----CAUUGUGCAACAUUCGGUGGAUAUUGAUGGCG
...((((((((....(((((..(((((......)))))..))))----).))))))))..(((((((((((((..----..)))))))))..(((((....))))))))). ( -27.30)
>consensus
UGUGAGCUGGCUAAUUGGCAUUGAAUUUCAUACAAUUUUUUGUG____GCGUCAGAUUUGGUCUGUUGCGCGAUGUUUGCAUUGUGCAAUAUUCGGGGGAUUUUGAUGGUG
((((((...(((....))).......)))))).................(((((((.((.(((((((((((((((....))))))))))))...))).)).)))))))... (-23.15 = -23.40 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:19 2006