Locus 273

Sequence ID	X_DroMel_CAF1
Location	916,517 – 916,659
Length	142
Max. P	0.973303

overview

Window 7

Location	916,517 – 916,628
Length	111
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.01
Mean single sequence MFE	-31.12
Consensus MFE	-23.74
Energy contribution	-24.18
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-1.51
Structure conservation index	0.76
SVM decision value	-0.02
SVM RNA-class probability	0.525813
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 916517 111 + 22224390
AAAUUCAAAUUAAAAUUUUGCGAAAACACUUCUUUC---CCAGCUGCAC------CAGUGUGUGCAUGCCCGCAGGGUAAGCAGCUGGCAGCGCUUUUGAAACAGUGUGCACACAUCUCU
..................(((...............---((((((((((------(..((((.(....).)))).)))..))))))))..(((((........))))))))......... ( -28.40)
>DroSec_CAF1 7994 111 + 1
AAAUUCAAAUUAAAAUUUUGCGAAAACACUUUUUUC---CCAGCUGCAC------CAGUGUGUGCAUGCCCGCAGGAUAAGCAGCUGGCAGCGCUUUUGAAACAGUGUGCACACAUCUCU
...((((((..........(((((((.....)))))---((((((((.(------(.(((.((....)).))).))....))))))))....)).))))))...(((....)))...... ( -26.10)
>DroSim_CAF1 8160 111 + 1
AAAUUCAAAUUAAAAUUUUGCGAAAACACUUCUUUC---CCAGCUGCAC------CAGUGUGUGCAUGCCCGCAGGGUAAGCAGCUGGCAGCGCUUUUGAAACAGUGUGCACACAUCUCU
..................(((...............---((((((((((------(..((((.(....).)))).)))..))))))))..(((((........))))))))......... ( -28.40)
>DroEre_CAF1 9237 111 + 1
AAAUUCAAAUUAAAAUUCUGCAAAAACACUGCUCUC---CCAGCUGCAC------CAGUGUGUGCACGCCCGCAGGGUAAGCAGCUGGCAGCGCUUUCGAAACAGUGUGCACACAUCUCU
..................(((....(((((((.((.---((((((((..------..(((....)))((((...))))..)))))))).)).)).........))))))))......... ( -31.70)
>DroYak_CAF1 8561 120 + 1
AAAUUCAAAUUAAAGUUGUGCAAAAACACAGCUCGCUCCGCAGCUGCACUGCGUCCAGUGUGUGCAUGUCCGCAGGCUAAGCAGCUGGCAGCGCUUUGGAAACAGUGUGCACACAUCUCU
.............(((((((......))))))).((....(((((((.(((((..((.((....))))..))))).....))))))))).((((.(((....))).)))).......... ( -41.00)
>consensus
AAAUUCAAAUUAAAAUUUUGCGAAAACACUUCUUUC___CCAGCUGCAC______CAGUGUGUGCAUGCCCGCAGGGUAAGCAGCUGGCAGCGCUUUUGAAACAGUGUGCACACAUCUCU
..................(((..................((((((((..........(((....)))((((...))))..))))))))..(((((........))))))))......... (-23.74 = -24.18 +   0.44)

alignment

secondary structure

dotplot

Window 8

Location	916,554 – 916,659
Length	105
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	93.58
Mean single sequence MFE	-37.62
Consensus MFE	-34.14
Energy contribution	-33.58
Covariance contribution	-0.56
Combinations/Pair	1.10
Mean z-score	-1.61
Structure conservation index	0.91
SVM decision value	1.71
SVM RNA-class probability	0.973303
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 916554 105 - 22224390
UGCCCUGCGGGGUCAAAUAAUUACUAUGCCUAGAGAUGUGUGCACACUGUUUCAAAAGCGCUGCCAGCUGCUUACCCUGCGGGCAUGCACACACUG------GUGCAGCUG
(((((.(((((((...................((((((((....))).)))))..((((((.....)).))))))))))))))))(((((......------))))).... ( -38.90)
>DroSec_CAF1 8031 105 - 1
UGCCCUGCGGGGUCAAAUAAUUACUAUGCCUAGAGAUGUGUGCACACUGUUUCAAAAGCGCUGCCAGCUGCUUAUCCUGCGGGCAUGCACACACUG------GUGCAGCUG
(((((.(((((((...................((((((((....))).)))))..((((((.....)).))))))))))))))))(((((......------))))).... ( -36.30)
>DroSim_CAF1 8197 105 - 1
UGCCCUGCGGGGUCAAAUAAUUACUAUGCCUAGAGAUGUGUGCACACUGUUUCAAAAGCGCUGCCAGCUGCUUACCCUGCGGGCAUGCACACACUG------GUGCAGCUG
(((((.(((((((...................((((((((....))).)))))..((((((.....)).))))))))))))))))(((((......------))))).... ( -38.90)
>DroEre_CAF1 9274 105 - 1
UGCCCUGCGGCGCCAAAUAAUUACUAUGCCUAGAGAUGUGUGCACACUGUUUCGAAAGCGCUGCCAGCUGCUUACCCUGCGGGCGUGCACACACUG------GUGCAGCUG
......((.((((((........(((....)))...(((((((((.((((...(.((((((.....)).)))).)...))))..))))))))).))------)))).)).. ( -37.90)
>DroYak_CAF1 8601 111 - 1
CGUCCUGCGGGCACAAAUAAUUACUAUGCCUAGAGAUGUGUGCACACUGUUUCCAAAGCGCUGCCAGCUGCUUAGCCUGCGGACAUGCACACACUGGACGCAGUGCAGCUG
.(..(((((((((.............))))...((.((((((((..((((...(.((((((.....)).)))).)...))))...))))))))))...)))))..)..... ( -36.12)
>consensus
UGCCCUGCGGGGUCAAAUAAUUACUAUGCCUAGAGAUGUGUGCACACUGUUUCAAAAGCGCUGCCAGCUGCUUACCCUGCGGGCAUGCACACACUG______GUGCAGCUG
.((((.((((((....................((((((((....))).)))))..((((((.....)).)))).)))))))))).(((((............))))).... (-34.14 = -33.58 +  -0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:35 2006