Locus 2109

Sequence ID	X_DroMel_CAF1
Location	5,725,692 – 5,725,840
Length	148
Max. P	0.997166

overview

Window 7

Location	5,725,692 – 5,725,800
Length	108
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	73.25
Mean single sequence MFE	-29.51
Consensus MFE	-18.14
Energy contribution	-19.95
Covariance contribution	1.81
Combinations/Pair	1.32
Mean z-score	-2.40
Structure conservation index	0.61
SVM decision value	2.81
SVM RNA-class probability	0.997166
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5725692 108 + 22224390
----------UUUCCAUUCAAAUCUUUUGCGCCUUCUCUCCUUGUCGCACAUUCAUACAUGCAAGCAGACGCGCACUUGUUUGCUCAUUUGUGU--GUGUGUGCGAGUCACGUUUAACGG
----------..................................((((((((.((((((....((((((((......))))))))....)))))--).))))))))....((.....)). ( -29.60)
>DroSec_CAF1 2892 108 + 1
----------UUUCCAUUCAAAUCUUUUGCGUCUUCUCUCCUUGUCGCACAUCCAUACAUGCAAGCAGACGCGCACUUGUUUGCUCAUAUGUGU--GUGUGCGCGAGUCACGUUUAACGG
----------...................(((........((((.((((((..((((((((..((((((((......))))))))..)))))))--))))))))))).........))). ( -31.83)
>DroEre_CAF1 7171 110 + 1
----------UUUCCAUUCAAAUCGUUCGUAUCUUUUCUCUUUGUCGCACAUACAGACACACAAACAAACGCACACUUGUUUGCUCAUGUGUGUGUGUGUGUGCGAGUCACGUUUAACGG
----------.............(((((((.......(.....)(((((((((((.(((((((..((((((......))))))....))))))).)))))))))))...)))...)))). ( -34.50)
>DroAna_CAF1 7026 109 + 1
UUGCUCCCCCUUUC---UCAAGCUGUUCGCUUCUUUGUUCCCUCUCACACACACGACCACACGUGCG--CACUCACUUGUUUCC----CUGUGC--CUGUGUGCGUGUCACGUUUAACGG
........((....---..((((.....))))....................(((...(((((..((--((..(((........----..))).--.))))..)))))..))).....)) ( -22.10)
>consensus
__________UUUCCAUUCAAAUCGUUCGCGUCUUCUCUCCUUGUCGCACAUACAUACACACAAGCAGACGCGCACUUGUUUGCUCAUAUGUGU__GUGUGUGCGAGUCACGUUUAACGG
........................................((((.(((((((..(((((((..((((((((......))))))))..)))))))..)))))))))))...((.....)). (-18.14 = -19.95 +   1.81)

alignment

secondary structure

dotplot

Window 8

Location	5,725,722 – 5,725,840
Length	118
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	77.73
Mean single sequence MFE	-37.95
Consensus MFE	-21.66
Energy contribution	-23.85
Covariance contribution	2.19
Combinations/Pair	1.32
Mean z-score	-2.16
Structure conservation index	0.57
SVM decision value	0.82
SVM RNA-class probability	0.859312
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5725722 118 + 22224390
CUUGUCGCACAUUCAUACAUGCAAGCAGACGCGCACUUGUUUGCUCAUUUGUGU--GUGUGUGCGAGUCACGUUUAACGGGUUCCUUCCGUGUGUUUGUUUACAGUGGGUAUUGGCUAAU
....((((((((.((((((....((((((((......))))))))....)))))--).)))))))).((((.....(((((.....)))))(((......))).))))............ ( -38.70)
>DroSec_CAF1 2922 118 + 1
CUUGUCGCACAUCCAUACAUGCAAGCAGACGCGCACUUGUUUGCUCAUAUGUGU--GUGUGCGCGAGUCACGUUUAACGGUUUCCUUCCAUGUGUUUGUUUACAGUGGGUAUUGGCUAAU
((((.((((((..((((((((..((((((((......))))))))..)))))))--)))))))))))...........((((....((((((((......)))).))))....))))... ( -39.10)
>DroEre_CAF1 7201 120 + 1
UUUGUCGCACAUACAGACACACAAACAAACGCACACUUGUUUGCUCAUGUGUGUGUGUGUGUGCGAGUCACGUUUAACGGUUUCCUUCCGUGUGUUUGCUUACAGUGGGUAUUGGCUAAC
....(((((((((((.(((((((..((((((......))))))....))))))).)))))))))))((((((.....)).......((((((((......)))).))))...)))).... ( -42.40)
>DroAna_CAF1 7063 103 + 1
CCUCUCACACACACGACCACACGUGCG--CACUCACUUGUUUCC----CUGUGC--CUGUGUGCGUGUCACGUUUAACGGG---CUUUCGCGGG------UACAGUGGGUAUUGCCUAAG
.........(.((((......)))).)--.(((((((.((..((----(((.((--((((..(((.....)))...)))))---)...)).)))------.))))))))).......... ( -31.60)
>consensus
CUUGUCGCACAUACAUACACACAAGCAGACGCGCACUUGUUUGCUCAUAUGUGU__GUGUGUGCGAGUCACGUUUAACGGGUUCCUUCCGUGUGUUUGUUUACAGUGGGUAUUGGCUAAU
((((.(((((((..(((((((..((((((((......))))))))..)))))))..)))))))))))...........((((....((((((((......)))).))))....))))... (-21.66 = -23.85 +   2.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:27 2006