Locus 5065

Sequence ID	3L_DroMel_CAF1
Location	13,883,070 – 13,883,178
Length	108
Max. P	0.883498

overview

Window 7

Location	13,883,070 – 13,883,178
Length	108
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	94.66
Mean single sequence MFE	-25.16
Consensus MFE	-21.02
Energy contribution	-20.54
Covariance contribution	-0.48
Combinations/Pair	1.18
Mean z-score	-1.44
Structure conservation index	0.84
SVM decision value	0.31
SVM RNA-class probability	0.682421
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13883070 108 + 23771897
UGUCAGUUACAUGCGACUGCAUCCGACGCAGUCAACUUGACAACAUUUGCUGCUCCCUCGGUGCACAUAAAAAAAAAUGAAGGGAAUUAUGAUCAAAUUUAAUUGCAU
((.((((((.....((((((.......))))))...((((((..((((.((((.((...)).)).(((........))).)).))))..)).))))...)))))))). ( -21.40)
>DroSec_CAF1 49833 106 + 1
UGUCAGUUACAUGUGACUGCAUCCGACGCAGUCAACUUGACAACAUUUGCUGCUCCCUCGGUGCACAUAAA--AAAAUGAAGGGAAUUAUGAUCAAAUUUAAUUGCAU
((.((((((....(((((((.......)))))))..((((((..((((.((((.((...)).)).(((...--...))).)).))))..)).))))...)))))))). ( -22.20)
>DroSim_CAF1 35619 106 + 1
UGUCAGUUACAUGUGACUGCAUCCGACGCAGUCAACAUGACAACAUUUGCUGCUCCCUCGAUGCACAUAAA--AAAAUUAAGGGAAUUAUGAUCAAAUUUAAUUGCAU
((.(((((((((((((((((.......)))))).)))))..............(((((..((.........--...))..)))))..............)))))))). ( -26.70)
>DroEre_CAF1 51722 106 + 1
UGUCAGUUACAUGUGACUGCAUCCGACGCAGUCAACUUGACAACAUUUGCUGCUCCCUCGGUGCACAUGAA--AAAAUUGGGGGAAUUAUGAUCAAAUUUAAUUGCAG
((((((.......(((((((.......)))))))..)))))).......(((((((((((((.........--...)))))))))....(((......)))...)))) ( -28.40)
>DroYak_CAF1 46721 106 + 1
UGUCAGUUACAUGUGACUGCAUCCGACGCAGUCGACUUGACAACAUUUGCUGCUCCCUCGGUGCACAUAAA--AAAAUUGGGGGAAUUAUGACCAAAUUUAAUUGCAC
.((((((((....(((((((.......)))))))...))))............(((((((((.........--...)))))))))....))))............... ( -27.10)
>consensus
UGUCAGUUACAUGUGACUGCAUCCGACGCAGUCAACUUGACAACAUUUGCUGCUCCCUCGGUGCACAUAAA__AAAAUUAAGGGAAUUAUGAUCAAAUUUAAUUGCAU
.((((((((....(((((((.......)))))))...))))............(((((..((..............))..)))))....))))............... (-21.02 = -20.54 +  -0.48)

alignment

secondary structure

dotplot

Window 8

Location	13,883,070 – 13,883,178
Length	108
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	94.66
Mean single sequence MFE	-26.89
Consensus MFE	-24.99
Energy contribution	-25.39
Covariance contribution	0.40
Combinations/Pair	1.07
Mean z-score	-1.32
Structure conservation index	0.93
SVM decision value	0.93
SVM RNA-class probability	0.883498
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13883070 108 - 23771897
AUGCAAUUAAAUUUGAUCAUAAUUCCCUUCAUUUUUUUUUAUGUGCACCGAGGGAGCAGCAAAUGUUGUCAAGUUGACUGCGUCGGAUGCAGUCGCAUGUAACUGACA
((((.....(((((((......((((((((((..........)))....)))))))((((....)))))))))))((((((((...)))))))))))).......... ( -28.40)
>DroSec_CAF1 49833 106 - 1
AUGCAAUUAAAUUUGAUCAUAAUUCCCUUCAUUUU--UUUAUGUGCACCGAGGGAGCAGCAAAUGUUGUCAAGUUGACUGCGUCGGAUGCAGUCACAUGUAACUGACA
..(((....(((((((......((((((((((...--.....)))....)))))))((((....)))))))))))...)))(((((.((((......)))).))))). ( -28.60)
>DroSim_CAF1 35619 106 - 1
AUGCAAUUAAAUUUGAUCAUAAUUCCCUUAAUUUU--UUUAUGUGCAUCGAGGGAGCAGCAAAUGUUGUCAUGUUGACUGCGUCGGAUGCAGUCACAUGUAACUGACA
.(((.((((....)))).....((((((..((.(.--.......).))..))))))..)))...((((.(((((.((((((((...)))))))))))))))))..... ( -27.10)
>DroEre_CAF1 51722 106 - 1
CUGCAAUUAAAUUUGAUCAUAAUUCCCCCAAUUUU--UUCAUGUGCACCGAGGGAGCAGCAAAUGUUGUCAAGUUGACUGCGUCGGAUGCAGUCACAUGUAACUGACA
..(((....(((((((......(((((.(......--............).)))))((((....)))))))))))...)))(((((.((((......)))).))))). ( -24.67)
>DroYak_CAF1 46721 106 - 1
GUGCAAUUAAAUUUGGUCAUAAUUCCCCCAAUUUU--UUUAUGUGCACCGAGGGAGCAGCAAAUGUUGUCAAGUCGACUGCGUCGGAUGCAGUCACAUGUAACUGACA
(((((..((((.((((...........))))....--))))..)))))(((..((.((((....))))))...))).....(((((.((((......)))).))))). ( -25.70)
>consensus
AUGCAAUUAAAUUUGAUCAUAAUUCCCUUAAUUUU__UUUAUGUGCACCGAGGGAGCAGCAAAUGUUGUCAAGUUGACUGCGUCGGAUGCAGUCACAUGUAACUGACA
..(((....(((((((......(((((((....................)))))))((((....)))))))))))...)))(((((.((((......)))).))))). (-24.99 = -25.39 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:08 2006