Locus 6451

Sequence ID	3L_DroMel_CAF1
Location	17,228,551 – 17,228,738
Length	187
Max. P	0.805521

overview

Window 3

Location	17,228,551 – 17,228,658
Length	107
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.40
Mean single sequence MFE	-24.68
Consensus MFE	-23.70
Energy contribution	-23.70
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.18
Structure conservation index	0.96
SVM decision value	0.63
SVM RNA-class probability	0.805521
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17228551 107 - 23771897
AGUUUAAAAGUCAUCAUCGUGGCAUCGGCAUUGCCAAUGACUUGUCAAACACCCCGUGCGCCAUAUGCCCGCCUCCACGCCGAAACUUCAGUUUCCGGA-UAUUUCUC------------
.((((..(((((((.....(((((.......))))))))))))...)))).....(((.((.....)).))).......(((((((....)))).))).-........------------ ( -24.00)
>DroSec_CAF1 111975 107 - 1
AGUUUAAAAGUCAUCAUCGUGGCAUCGGCAUUGCCAAUGACUUGCCAAACACCCCGUGCGCCAUAUGCCCGCCUCCACGCCGAAACUUCAGUUUCCGGA-UAUUUCUC------------
.((((..(((((((.....(((((.......))))))))))))...)))).....(((.((.....)).))).......(((((((....)))).))).-........------------ ( -24.00)
>DroSim_CAF1 105697 119 - 1
AGUUUAAAAGUCAUCAUCGUGGCAUCGGCAUUGCCAAUGACUUGCCAAACACCCCGUGCGCCAUAUGCCCGCCUCCACGCCGAAACUUCAGUUUCCGGA-UAUUUCUCCGACUCCAACUC
.((((..(((((((.....(((((.......))))))))))))...)))).....(((.((.....)).))).........(((((....)))))((((-......)))).......... ( -26.30)
>DroEre_CAF1 115800 108 - 1
AGUUUAAAAGUCAUCAUCGUGGCAUCGGCAUUGCCAAUGACUUGCCAAACACCCCGUGCGCCAUAUGCCCGCCUCCACUCCGAAACUUCAGUUUCCGGAACAUUUCUC------------
.((((..(((((((.....(((((.......))))))))))))...)))).....(((.((.....)).)))......((((((((....)))).)))).........------------ ( -25.50)
>DroYak_CAF1 118700 107 - 1
AGUUUAAAAGUCAUCAUCGUGGCAUCGGCACUGCCAAUGACUUGCCAAACACCCCGUGCGCCAUAUGCCCGCCUCCACUCCGAAACUUCAGUUUCCGGC-UAUUUCUC------------
.......(((((((.....(((((.......))))))))))))(((.........(((.((.....)).))).........(((((....))))).)))-........------------ ( -23.60)
>consensus
AGUUUAAAAGUCAUCAUCGUGGCAUCGGCAUUGCCAAUGACUUGCCAAACACCCCGUGCGCCAUAUGCCCGCCUCCACGCCGAAACUUCAGUUUCCGGA_UAUUUCUC____________
.((((..(((((((.....(((((.......))))))))))))...))))...(((((.((.....)).))).........(((((....))))).))...................... (-23.70 = -23.70 +  -0.00)

alignment

secondary structure

dotplot

Window 4

Location	17,228,618 – 17,228,738
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	99.33
Mean single sequence MFE	-24.98
Consensus MFE	-24.42
Energy contribution	-24.42
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.23
Structure conservation index	0.98
SVM decision value	0.06
SVM RNA-class probability	0.565042
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17228618 120 - 23771897
CGCCAAUGACGCUAAACUUUUUUAUUAUGUAUUUGGCGCUUUUAUUAUUCAUCUAUCAUCGCUGUUAUAGUUUAAUAGAAAGUUUAAAAGUCAUCAUCGUGGCAUCGGCAUUGCCAAUGA
.(((((((((..((((((((((.((((((....(((((.....................))))).)))))).....))))))))))...))))).....))))...(((...)))..... ( -24.70)
>DroSec_CAF1 112042 120 - 1
CGCCAAUGACGCUAAACUUUUUUAUUAUGUAUUUGGCGCUUUUAUUAUUCAUCUAUCAUCGCUGUUAUAGUUUAAUAGAAAGUUUAAAAGUCAUCAUCGUGGCAUCGGCAUUGCCAAUGA
.(((((((((..((((((((((.((((((....(((((.....................))))).)))))).....))))))))))...))))).....))))...(((...)))..... ( -24.70)
>DroSim_CAF1 105776 120 - 1
CGCCAAUGACGCUAAACUUUUUUAUUAUGUAUUUGGCGCUUUUAUUAUUCAUCUAUCAUCGCUGUUAUAGUUUAAUAGAAAGUUUAAAAGUCAUCAUCGUGGCAUCGGCAUUGCCAAUGA
.(((((((((..((((((((((.((((((....(((((.....................))))).)))))).....))))))))))...))))).....))))...(((...)))..... ( -24.70)
>DroEre_CAF1 115868 120 - 1
CGCCAAUGACGCUAAACUUUUUUAUUAUGUAUUUGGCGCUUUUAUUAUUCAUCUAUCAUCGCUGUUAUAGUUUAAUAGAAAGUUUAAAAGUCAUCAUCGUGGCAUCGGCAUUGCCAAUGA
.(((((((((..((((((((((.((((((....(((((.....................))))).)))))).....))))))))))...))))).....))))...(((...)))..... ( -24.70)
>DroYak_CAF1 118767 120 - 1
CGCCAAUGACGCUAAACUUUUUUAUUAUGUAUUUGGCGCUUUUAUUAUUCAUCUAUCAUCGCUGCUAUAGUUUAAUAGAAAGUUUAAAAGUCAUCAUCGUGGCAUCGGCACUGCCAAUGA
.(((((((((..((((((((((.((((......((((((.....................)).)))).....))))))))))))))...))))).....))))...(((...)))..... ( -26.10)
>consensus
CGCCAAUGACGCUAAACUUUUUUAUUAUGUAUUUGGCGCUUUUAUUAUUCAUCUAUCAUCGCUGUUAUAGUUUAAUAGAAAGUUUAAAAGUCAUCAUCGUGGCAUCGGCAUUGCCAAUGA
.(((((((((..((((((((((.((((((....(((((.....................))))).)))))).....))))))))))...))))).....))))...(((...)))..... (-24.42 = -24.42 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:18 2006