Locus 1245

Sequence ID X_DroMel_CAF1
Location 3,709,449 – 3,709,566
Length 117
Max. P 0.555991
window2002

overview

Window 2

Location 3,709,449 – 3,709,566
Length 117
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 77.49
Mean single sequence MFE -46.63
Consensus MFE -29.83
Energy contribution -28.72
Covariance contribution -1.11
Combinations/Pair 1.41
Mean z-score -1.26
Structure conservation index 0.64
SVM decision value 0.04
SVM RNA-class probability 0.555991
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3709449 117 + 22224390
AU-GGGUGUGGCUCUGUAGGCAGCCUGCUCCAUUUUCAUCUCAAGACCCGCUGAGAGGAAAAAUCCUAAGGCUGCCAGAAGAAGGCCUAAGGUGAGCUUCUGCAGUGGUCGCCUUAUU
((-(((.((((((((((.((((((((......(((((.(((((........))))).)))))......))))))))(((((...(((...)))...))))))))).))))))))))). ( -47.00)
>DroPse_CAF1 1189 118 + 1
GUUGGGCAAUGCGCCACUGGCGGCCUGUUCCAUCUUCAUUUCAAGGGCAGCGGACAUGAAGAAGCCCAGGGCGGCCAGCAGCAGGCCGACAGUGAGCUUCUGGAGUGGCCGCCGCAGG
.((((((.....)))...(((((((...((((..(((((.((..........)).)))))(((((.((..((((((.......))))).)..)).)))))))))..))))))).))). ( -48.10)
>DroEre_CAF1 1049 117 + 1
GU-AGGCGUGCCUGUGUAGGCGGCCUGCUCCAUCUUCAUCUCAAGACCCGCUGAGAGGAAGAAUCCCAAGGCAGCCAGAAGAAGGCCUAUGGUGAGCUUCUGCAGAGGUCUCCUUAUU
..-(((.(.((((.(((.(((.((((......(((((.(((((........))))).)))))......)))).)))(((((...(((...)))...)))))))).))))).))).... ( -42.70)
>DroYak_CAF1 1049 117 + 1
GU-AGGCGUGGCUCUGUACGCGGCCUGCUCCAUCUUCAUUUCAAGACCCGCUGAGAGAAAGAAUCCCAAGGCAGCCAGAAGAAGGCCUAUGGUAAGCUUCUGCAGAGGUCUCCUUAUU
((-(((.(.(((((((...((.((((......((((..(((((........)))))..))))......)))).))((((((...(((...)))...)))))))))).))).)))))). ( -35.30)
>DroAna_CAF1 1166 117 + 1
AC-AGGGGCAGUGGCGAAGGCCGCCUGCUCCAUCUUCAUCUCCAGGGCGGCGGAGAAGAAGAAGCCCAGGGCGGCCAGCAGCAGGCCGAUGGUGAGCUUCUGCAGCGGUCGCCGGAUG
..-.(((((((((((....)))).))))))).(((((.(((((........))))).)))))...((..(((((((.((((.((((((....)).))))))))...)))))))))... ( -58.60)
>DroPer_CAF1 1189 118 + 1
GUUGGGCAAUGCGCCACUGGCGGCCUGUUCCAUCUUCAUUUCAAGGGCAGCGGACAUGAAGAAGCCCAGGGCGGCCAGCAGCAGGCCGACAGUGAGCUUCUGGAGUGGCCGCCGCAGG
.((((((.....)))...(((((((...((((..(((((.((..........)).)))))(((((.((..((((((.......))))).)..)).)))))))))..))))))).))). ( -48.10)
>consensus
GU_AGGCGUGGCGCCGUAGGCGGCCUGCUCCAUCUUCAUCUCAAGACCCGCGGAGAGGAAGAAGCCCAAGGCGGCCAGAAGAAGGCCGAUGGUGAGCUUCUGCAGUGGUCGCCGUAUG
..................(((.((((......(((((.(((((........))))).)))))......)))).))).((.((.(((((.(((.......)))...))))))).))... (-29.83 = -28.72 +  -1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:52 2006