Locus 5424

Sequence ID X_DroMel_CAF1
Location 14,152,100 – 14,152,223
Length 123
Max. P 0.982894
window8793 window8794

overview

Window 3

Location 14,152,100 – 14,152,202
Length 102
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.42
Mean single sequence MFE -28.87
Consensus MFE -8.68
Energy contribution -8.85
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -3.34
Structure conservation index 0.30
SVM decision value 1.65
SVM RNA-class probability 0.969655
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14152100 102 - 22224390
GC--UGCCUUUCAA-CUUAAGUGAAAUAAAAUACAAUUUAUUUGUAUAUUGUUUUG--CUGUUGACAAUUG--CG----CGACUGCAGAGC-------GCAACUUCUUCGCGAAACGCGA
..--......((((-(...((..((((((.((((((.....)))))).))))))..--)))))))...(((--((----(.........))-------)))).....(((((...))))) ( -29.50)
>DroPse_CAF1 71152 87 - 1
GC--UGCUUUUCCAACUUAAGUGAAAUAAAAUACAAUUUAUUUGUAUAUUGUUUUG--CUGUUGACAAUUG--UGCAGGCGGCUGCAG-----------CUCUA----------------
((--(((.....((((...((..((((((.((((((.....)))))).))))))..--)))))).......--.((.....)).))))-----------)....---------------- ( -24.60)
>DroEre_CAF1 52290 102 - 1
GC--UGCCUUUCAA-CUUAAGUGAAAUAAAAUACAAUUUAUUUGUAUAUUGUUUUG--CUGUUGACAAUUG--CG----CGACUACAGAGC-------GCAACUUCUUCGCGAGAGGCGC
((--.(((((((..-(...((..((((((.((((((.....)))))).))))))..--))...)....(((--((----(.........))-------)))).........))))))))) ( -34.00)
>DroWil_CAF1 43361 93 - 1
GCUAUGCCUUUCAA-CUUAAGUGAAAUAAAAUACAAUUUAUUUGUAUAUUGUUUUG--CUGUUGACAAUUC--CA----CGACUGCGAAAC-------GG-------UUGCGA----GGC
.....(((((((((-(...((..((((((.((((((.....)))))).))))))..--)))))))......--..----((((((.....)-------))-------))).))----))) ( -26.80)
>DroYak_CAF1 52698 102 - 1
GC--UGCCUUUCAA-CUUAAGUGAAAUAAAAUACAAUUUAUUUGUAUAUUGUUUUG--CUGUUGACAAUUG--CG----CGACUGCAGAGC-------GCAACUUCUUCGCGCGAGUGGC
((--..(...((((-(...((..((((((.((((((.....)))))).))))))..--)))))))...(((--((----(((.(((.....-------)))......)))))))))..)) ( -33.40)
>DroAna_CAF1 57395 97 - 1
GC--UGCCUUUCAA-CUUAAGUGAAAUAAAAUACAAUUUAUUUGUAUAUUGUUUUGUCCUGUUGACAAUUGUUCG----CGACUCUCGUACUGUUGCAGCAACA----------------
((--(((...((((-(....(..((((((.((((((.....)))))).))))))..)...))))).........(----((.....)))......)))))....---------------- ( -24.90)
>consensus
GC__UGCCUUUCAA_CUUAAGUGAAAUAAAAUACAAUUUAUUUGUAUAUUGUUUUG__CUGUUGACAAUUG__CG____CGACUGCAGAGC_______GCAACU___UCGCGA_____GC
..........((((.......((((((((.((((((.....)))))).)))))))).....))))....................................................... ( -8.68 =  -8.85 +   0.17)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,152,133 – 14,152,223
Length 90
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.54
Mean single sequence MFE -26.35
Consensus MFE -8.68
Energy contribution -8.85
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -3.40
Structure conservation index 0.33
SVM decision value 1.93
SVM RNA-class probability 0.982894
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14152133 90 - 22224390
C-----AGCGCGUGG--------------CUCCUUGCGAUGC--UGCCUUUCAA-CUUAAGUGAAAUAAAAUACAAUUUAUUUGUAUAUUGUUUUG--CUGUUGACAAUUG--CG----C
.-----.(((((..(--------------(((.....)).))--..)...((((-(...((..((((((.((((((.....)))))).))))))..--))))))).....)--))----) ( -28.00)
>DroPse_CAF1 71165 83 - 1
CUCG-----ACGU--------------------------GGC--UGCUUUUCCAACUUAAGUGAAAUAAAAUACAAUUUAUUUGUAUAUUGUUUUG--CUGUUGACAAUUG--UGCAGGC
....-----....--------------------------(.(--(((.....((((...((..((((((.((((((.....)))))).))))))..--))))))((....)--))))).) ( -20.70)
>DroEre_CAF1 52323 90 - 1
CUGC-----GCGUGG--------------CUCUUUGCGUUGC--UGCCUUUCAA-CUUAAGUGAAAUAAAAUACAAUUUAUUUGUAUAUUGUUUUG--CUGUUGACAAUUG--CG----C
..((-----(((..(--------------(..........))--..)...((((-(...((..((((((.((((((.....)))))).))))))..--))))))).....)--))----) ( -27.30)
>DroWil_CAF1 43383 106 - 1
CUGG-----ACGAGCUUCUUCUUCUUCUACUCCUUGGCGCGCUAUGCCUUUCAA-CUUAAGUGAAAUAAAAUACAAUUUAUUUGUAUAUUGUUUUG--CUGUUGACAAUUC--CA----C
.(((-----(.........................((((.....))))..((((-(...((..((((((.((((((.....)))))).))))))..--)))))))....))--))----. ( -23.90)
>DroYak_CAF1 52731 95 - 1
CUGCGCAGCGCGUGG--------------CUCCUUGCGAUGC--UGCCUUUCAA-CUUAAGUGAAAUAAAAUACAAUUUAUUUGUAUAUUGUUUUG--CUGUUGACAAUUG--CG----C
..(((((((((((.(--------------(.....)).))))--.))...((((-(...((..((((((.((((((.....)))))).))))))..--)))))))....))--))----) ( -33.80)
>DroAna_CAF1 57419 87 - 1
CUGC--AGC--CCGG--------------CU--------GGC--UGCCUUUCAA-CUUAAGUGAAAUAAAAUACAAUUUAUUUGUAUAUUGUUUUGUCCUGUUGACAAUUGUUCG----C
..((--(((--(...--------------..--------)))--)))...((((-(....(..((((((.((((((.....)))))).))))))..)...)))))..........----. ( -24.40)
>consensus
CUGC_____GCGUGG______________CUCCUUGCG_UGC__UGCCUUUCAA_CUUAAGUGAAAUAAAAUACAAUUUAUUUGUAUAUUGUUUUG__CUGUUGACAAUUG__CG____C
..................................................((((.......((((((((.((((((.....)))))).)))))))).....))))............... ( -8.68 =  -8.85 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:31 2006