Locus 2050

Sequence ID	2R_DroMel_CAF1
Location	7,720,012 – 7,720,114
Length	102
Max. P	0.712491

overview

Window 6

Location	7,720,012 – 7,720,114
Length	102
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	82.42
Mean single sequence MFE	-23.94
Consensus MFE	-17.18
Energy contribution	-18.07
Covariance contribution	0.89
Combinations/Pair	1.05
Mean z-score	-1.87
Structure conservation index	0.72
SVM decision value	0.38
SVM RNA-class probability	0.712491
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7720012 102 + 20766785
AGGCAGAUUGACAGAUUGUGCGGAAAUUAGCUAAAG-AAUGCAAAGUCAAUUUCCGCUUUUGUCAAUUAUCCAAAGAACUUAAUA-GGCAUAAUAAUGUUAUUG
.((..((((((((((....(((((((((..((....-.......))..))))))))).))))))))))..)).............-(((((....))))).... ( -28.00)
>DroPse_CAF1 6201 103 + 1
UGGAAAACUGACAGCUUGAACGGAAAUUAGCUUAGGAAACGUAAAGUCAAUUUCCGGC-UUGUCAAUUAUACAACAGCCUUAUUUCGGAUUGAUUAUGCUAAUG
(((.....(((((((.....((((((((..(((.(....)...)))..))))))))))-.))))).........(((((.......)).)))......)))... ( -22.20)
>DroSim_CAF1 7526 102 + 1
AGGCAAAGUGACAGAUUGUGCGGAAAUUAGCUAAAG-AAUGCAAAGUCAAUUUCCGCUUUUGUCAAUUAUCCAAAGAACUUAAUA-GGCAUAAUAAUGUUAUUG
.((.....(((((((....(((((((((..((....-.......))..))))))))).))))))).....)).............-(((((....))))).... ( -25.10)
>DroEre_CAF1 3887 102 + 1
CGGCAAAGUGACAGAUUGUGCGGAAAUUAUCCAAAG-AAUGCAAAGUCAAUUUCCGCUUUUGUCAAAUAUCCAAAGAACUUUAUU-GGCAUAAUAAUGUUAUUG
.((.....(((((((....(((((((((..(.....-........)..))))))))).))))))).....))............(-(((((....))))))... ( -22.12)
>DroYak_CAF1 3690 102 + 1
CGGCAAAGUGACAGAUUGUGCGGAAAUUAGCCAGAG-AAUGCAAAGUCAAUUUCCGCUUUUGUCAAUUAUCCUAAGAACUUUAUU-GGCAUAAUAAUGUUAUUG
.((((...(((((((....(((((((((..(.....-........)..))))))))).)))))))(((((.((((........))-)).)))))..)))).... ( -24.02)
>DroPer_CAF1 5711 103 + 1
UGGAAAACUGACAGCUUGAACGGAAAUUAGCUUAGGAAACGUAAAGUCAAUUUCCGGC-UUGUCAAUUAUACAACAGCCUUAUUUCGGAUUGAUUAUGCUAAUG
(((.....(((((((.....((((((((..(((.(....)...)))..))))))))))-.))))).........(((((.......)).)))......)))... ( -22.20)
>consensus
AGGCAAAGUGACAGAUUGUGCGGAAAUUAGCUAAAG_AAUGCAAAGUCAAUUUCCGCUUUUGUCAAUUAUCCAAAGAACUUAAUU_GGCAUAAUAAUGUUAUUG
.((.....(((((((....(((((((((..((..(....)....))..))))))))).))))))).....))................................ (-17.18 = -18.07 +   0.89)

alignment

secondary structure

dotplot

Window 7

Location	7,720,012 – 7,720,114
Length	102
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	82.42
Mean single sequence MFE	-19.92
Consensus MFE	-14.92
Energy contribution	-15.37
Covariance contribution	0.44
Combinations/Pair	1.05
Mean z-score	-1.36
Structure conservation index	0.75
SVM decision value	0.01
SVM RNA-class probability	0.540790
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7720012 102 - 20766785
CAAUAACAUUAUUAUGCC-UAUUAAGUUCUUUGGAUAAUUGACAAAAGCGGAAAUUGACUUUGCAUU-CUUUAGCUAAUUUCCGCACAAUCUGUCAAUCUGCCU
..................-.............((...(((((((...((((((((((.((.......-....)).))))))))))......)))))))...)). ( -20.60)
>DroPse_CAF1 6201 103 - 1
CAUUAGCAUAAUCAAUCCGAAAUAAGGCUGUUGUAUAAUUGACAA-GCCGGAAAUUGACUUUACGUUUCCUAAGCUAAUUUCCGUUCAAGCUGUCAGUUUUCCA
((.((((....((.....))......)))).))...((((((((.-(((((((((((.(((..........))).))))))))).....))))))))))..... ( -21.00)
>DroSim_CAF1 7526 102 - 1
CAAUAACAUUAUUAUGCC-UAUUAAGUUCUUUGGAUAAUUGACAAAAGCGGAAAUUGACUUUGCAUU-CUUUAGCUAAUUUCCGCACAAUCUGUCACUUUGCCU
..................-.............((.....(((((...((((((((((.((.......-....)).))))))))))......))))).....)). ( -18.10)
>DroEre_CAF1 3887 102 - 1
CAAUAACAUUAUUAUGCC-AAUAAAGUUCUUUGGAUAUUUGACAAAAGCGGAAAUUGACUUUGCAUU-CUUUGGAUAAUUUCCGCACAAUCUGUCACUUUGCCG
....(((.(((((.....-))))).)))....((.....(((((...((((((((((.((.......-....)).))))))))))......))))).....)). ( -19.30)
>DroYak_CAF1 3690 102 - 1
CAAUAACAUUAUUAUGCC-AAUAAAGUUCUUAGGAUAAUUGACAAAAGCGGAAAUUGACUUUGCAUU-CUCUGGCUAAUUUCCGCACAAUCUGUCACUUUGCCG
....(((.(((((.....-))))).)))....((.....(((((...((((((((((.((.......-....)).))))))))))......))))).....)). ( -19.50)
>DroPer_CAF1 5711 103 - 1
CAUUAGCAUAAUCAAUCCGAAAUAAGGCUGUUGUAUAAUUGACAA-GCCGGAAAUUGACUUUACGUUUCCUAAGCUAAUUUCCGUUCAAGCUGUCAGUUUUCCA
((.((((....((.....))......)))).))...((((((((.-(((((((((((.(((..........))).))))))))).....))))))))))..... ( -21.00)
>consensus
CAAUAACAUUAUUAUGCC_AAUUAAGUUCUUUGGAUAAUUGACAAAAGCGGAAAUUGACUUUGCAUU_CUUUAGCUAAUUUCCGCACAAUCUGUCACUUUGCCA
................................((.....(((((...((((((((((.((............)).))))))))))......))))).....)). (-14.92 = -15.37 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:57 2006