Locus 5291

Sequence ID	X_DroMel_CAF1
Location	13,853,515 – 13,853,660
Length	145
Max. P	0.931947

overview

Window 1

Location	13,853,515 – 13,853,635
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	99.50
Mean single sequence MFE	-35.00
Consensus MFE	-35.00
Energy contribution	-35.00
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.56
Structure conservation index	1.00
SVM decision value	1.22
SVM RNA-class probability	0.931947
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13853515 120 + 22224390
CUGCGUUACGCUCGUCACAUUUUAUUAGCCAGUUUGCAGGCUGCAGGACAUUGAACGUCUGUCUCCCUGCGCGAGUCCUUUGUGUCGCAAUAAAUAACACACACAUCAGUGUGUUAGUGU
.((((.(((((((((...........((((........))))((((((((.........)))...))))))))))).....))).)))).....((((((((......)))))))).... ( -35.00)
>DroSec_CAF1 1753 120 + 1
CUGCGUUACGCUCGUCACAUUUUAUUAGCCAGUUUGCAGGCUGCAGGACAUUGAACGUCUGUCUCCCUGCGCGAGUCCUUUGUGUCGCAAUAAAUAACACACACAUCAGUGUGUUAAUGU
.((((.(((((((((...........((((........))))((((((((.........)))...))))))))))).....))).)))).....((((((((......)))))))).... ( -35.00)
>DroSim_CAF1 6384 120 + 1
CUGCGUUACGCUCGUCACAUUUUAUUAGCCAGUUUGCAGGCUGCAGGACAUUGAACGUCUGUCUCCCUGCGCGAGUCCUUUGUGUCGCAAUAAAUAACACACACAUCAGUGUGUUAAUGU
.((((.(((((((((...........((((........))))((((((((.........)))...))))))))))).....))).)))).....((((((((......)))))))).... ( -35.00)
>DroEre_CAF1 1708 120 + 1
CUGCGUUACGCUCGUCACAUUUUAUUAGCCAGUUUGCAGGCUGCAGGACAUUGAACGUCUGUCUCCCUGCGCGAGUCCUUUGUGUCGCAAUAAAUAACACACACAUCAGUGUGUUAGUGU
.((((.(((((((((...........((((........))))((((((((.........)))...))))))))))).....))).)))).....((((((((......)))))))).... ( -35.00)
>DroYak_CAF1 3749 120 + 1
CUGCGUUACGCUCGUCACAUUUUAUUAGCCAGUUUGCAGGCUGCAGGACAUUGAACGUCUGUCUCCCUGCGCGAGUCCUUUGUGUCGCAAUAAAUAACACACACAUCAGUGUGUUAGUGU
.((((.(((((((((...........((((........))))((((((((.........)))...))))))))))).....))).)))).....((((((((......)))))))).... ( -35.00)
>consensus
CUGCGUUACGCUCGUCACAUUUUAUUAGCCAGUUUGCAGGCUGCAGGACAUUGAACGUCUGUCUCCCUGCGCGAGUCCUUUGUGUCGCAAUAAAUAACACACACAUCAGUGUGUUAGUGU
.((((.(((((((((...........((((........))))((((((((.........)))...))))))))))).....))).)))).....((((((((......)))))))).... (-35.00 = -35.00 +   0.00)

alignment

secondary structure

dotplot

Window 2

Location	13,853,515 – 13,853,635
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	99.50
Mean single sequence MFE	-34.92
Consensus MFE	-34.74
Energy contribution	-34.74
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.45
Structure conservation index	0.99
SVM decision value	0.84
SVM RNA-class probability	0.864565
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13853515 120 - 22224390
ACACUAACACACUGAUGUGUGUGUUAUUUAUUGCGACACAAAGGACUCGCGCAGGGAGACAGACGUUCAAUGUCCUGCAGCCUGCAAACUGGCUAAUAAAAUGUGACGAGCGUAACGCAG
.(((((((((((......))))))))((((((((((..........))))(((((....).(((((...)))))))))((((........))))))))))..)))....(((...))).. ( -35.00)
>DroSec_CAF1 1753 120 - 1
ACAUUAACACACUGAUGUGUGUGUUAUUUAUUGCGACACAAAGGACUCGCGCAGGGAGACAGACGUUCAAUGUCCUGCAGCCUGCAAACUGGCUAAUAAAAUGUGACGAGCGUAACGCAG
....((((((((......)))))))).....((((.((((.(((((..(((...(....)...))).....)))))..((((........)))).......))))((....))..)))). ( -34.80)
>DroSim_CAF1 6384 120 - 1
ACAUUAACACACUGAUGUGUGUGUUAUUUAUUGCGACACAAAGGACUCGCGCAGGGAGACAGACGUUCAAUGUCCUGCAGCCUGCAAACUGGCUAAUAAAAUGUGACGAGCGUAACGCAG
....((((((((......)))))))).....((((.((((.(((((..(((...(....)...))).....)))))..((((........)))).......))))((....))..)))). ( -34.80)
>DroEre_CAF1 1708 120 - 1
ACACUAACACACUGAUGUGUGUGUUAUUUAUUGCGACACAAAGGACUCGCGCAGGGAGACAGACGUUCAAUGUCCUGCAGCCUGCAAACUGGCUAAUAAAAUGUGACGAGCGUAACGCAG
.(((((((((((......))))))))((((((((((..........))))(((((....).(((((...)))))))))((((........))))))))))..)))....(((...))).. ( -35.00)
>DroYak_CAF1 3749 120 - 1
ACACUAACACACUGAUGUGUGUGUUAUUUAUUGCGACACAAAGGACUCGCGCAGGGAGACAGACGUUCAAUGUCCUGCAGCCUGCAAACUGGCUAAUAAAAUGUGACGAGCGUAACGCAG
.(((((((((((......))))))))((((((((((..........))))(((((....).(((((...)))))))))((((........))))))))))..)))....(((...))).. ( -35.00)
>consensus
ACACUAACACACUGAUGUGUGUGUUAUUUAUUGCGACACAAAGGACUCGCGCAGGGAGACAGACGUUCAAUGUCCUGCAGCCUGCAAACUGGCUAAUAAAAUGUGACGAGCGUAACGCAG
....((((((((......)))))))).....((((.((((.(((((..(((...(....)...))).....)))))..((((........)))).......))))((....))..)))). (-34.74 = -34.74 +  -0.00)

alignment

secondary structure

dotplot

Window 3

Location	13,853,555 – 13,853,660
Length	105
Sequences	3
Columns	107
Reading direction	reverse
Mean pairwise identity	95.61
Mean single sequence MFE	-27.73
Consensus MFE	-23.73
Energy contribution	-23.73
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.19
Structure conservation index	0.86
SVM decision value	0.29
SVM RNA-class probability	0.671478
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13853555 105 - 22224390
CACACAAACACUCGAACACACAC--ACACACUAACACACUGAUGUGUGUGUUAUUUAUUGCGACACAAAGGACUCGCGCAGGGAGACAGACGUUCAAUGUCCUGCAG
..............(((((((((--(((...........)).)))))))))).......((((..........))))(((((....).(((((...))))))))).. ( -26.70)
>DroSim_CAF1 6424 107 - 1
CACACAAACACUCGAACACACACACACACAUUAACACACUGAUGUGUGUGUUAUUUAUUGCGACACAAAGGACUCGCGCAGGGAGACAGACGUUCAAUGUCCUGCAG
.....................((((((((((((......))))))))))))........((((..........))))(((((....).(((((...))))))))).. ( -29.50)
>DroEre_CAF1 1748 101 - 1
CACACAAACACUCGAACACA------CACACUAACACACUGAUGUGUGUGUUAUUUAUUGCGACACAAAGGACUCGCGCAGGGAGACAGACGUUCAAUGUCCUGCAG
..............((((((------((((.((......)).)))))))))).......((((..........))))(((((....).(((((...))))))))).. ( -27.00)
>consensus
CACACAAACACUCGAACACACAC__ACACACUAACACACUGAUGUGUGUGUUAUUUAUUGCGACACAAAGGACUCGCGCAGGGAGACAGACGUUCAAUGUCCUGCAG
...............................((((((((......))))))))......((((..........))))(((((....).(((((...))))))))).. (-23.73 = -23.73 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:06 2006