Locus 5154

Sequence ID 3R_DroMel_CAF1
Location 13,541,000 – 13,541,108
Length 108
Max. P 0.718863
window8416 window8417

overview

Window 6

Location 13,541,000 – 13,541,108
Length 108
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 93.67
Mean single sequence MFE -24.13
Consensus MFE -22.42
Energy contribution -22.53
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.79
Structure conservation index 0.93
SVM decision value 0.39
SVM RNA-class probability 0.718863
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13541000 108 + 27905053
GAGGUUGCCUUUAGGCACAAUGACACCAUUUCUGGUGCAACAACUAGAUCAUUUAAU---AUUCUUUUCGGAAAAUGGUUAUUUUGUUACAGAAUACACAACAUUUAUUGU
......(((....)))(((((((.((((((((((((......)))))).........---.((((....))))))))))(((((((...)))))))........))))))) ( -21.70)
>DroSec_CAF1 15819 110 + 1
AAGGUUGCCUUUAGGCACAAUGACACCAUUUCUGGUGCAACAACUAGAUCAUUUAAUAUUAUUCUUUUUGGAAAAUGGUUAUUGUGUUACAGAA-ACACAACAUUUAUUGU
......(((....)))(((((((.((((((((((((......)))))).............((((....))))))))))..(((((((.....)-))))))...))))))) ( -26.20)
>DroSim_CAF1 12773 110 + 1
AAGGUUGCCUUUAGGCACAAUGACACCAUUUCUGGUGCAACAACUAGAUGAUUUAAUACUAUUCUUUUCGGAAAAUGGUUAUUGUGUUAAAGAA-AUACAACAUUUAUUGU
...((((.((((((.(((((((..((((((((((((......)))))).............((((....)))))))))))))))))))))))..-...))))......... ( -24.50)
>consensus
AAGGUUGCCUUUAGGCACAAUGACACCAUUUCUGGUGCAACAACUAGAUCAUUUAAUA_UAUUCUUUUCGGAAAAUGGUUAUUGUGUUACAGAA_ACACAACAUUUAUUGU
......(((....)))(((((((.((((((((((((......)))))).............((((....))))))))))..((((((........))))))...))))))) (-22.42 = -22.53 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 13,541,000 – 13,541,108
Length 108
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 93.67
Mean single sequence MFE -22.72
Consensus MFE -19.93
Energy contribution -20.60
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.92
Structure conservation index 0.88
SVM decision value 0.20
SVM RNA-class probability 0.629566
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13541000 108 - 27905053
ACAAUAAAUGUUGUGUAUUCUGUAACAAAAUAACCAUUUUCCGAAAAGAAU---AUUAAAUGAUCUAGUUGUUGCACCAGAAAUGGUGUCAUUGUGCCUAAAGGCAACCUC
.((((((..((..((((((((.....(((((....)))))......)))))---))...)..))....))))))(((((....)))))......((((....))))..... ( -21.30)
>DroSec_CAF1 15819 110 - 1
ACAAUAAAUGUUGUGU-UUCUGUAACACAAUAACCAUUUUCCAAAAAGAAUAAUAUUAAAUGAUCUAGUUGUUGCACCAGAAAUGGUGUCAUUGUGCCUAAAGGCAACCUU
(((((...((((((((-(.....)))))))))..(((((..................))))).....))))).((((((....)))))).....((((....))))..... ( -25.67)
>DroSim_CAF1 12773 110 - 1
ACAAUAAAUGUUGUAU-UUCUUUAACACAAUAACCAUUUUCCGAAAAGAAUAGUAUUAAAUCAUCUAGUUGUUGCACCAGAAAUGGUGUCAUUGUGCCUAAAGGCAACCUU
.........(((((..-..(((((.((((((.((.(((((......))))).))...................((((((....)))))).))))))..))))))))))... ( -21.20)
>consensus
ACAAUAAAUGUUGUGU_UUCUGUAACACAAUAACCAUUUUCCGAAAAGAAUA_UAUUAAAUGAUCUAGUUGUUGCACCAGAAAUGGUGUCAUUGUGCCUAAAGGCAACCUU
(((((...((((((((........)))))))).........................................((((((....)))))).)))))(((....)))...... (-19.93 = -20.60 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:47 2006