Locus 100

Sequence ID 2L_DroMel_CAF1
Location 316,317 – 316,413
Length 96
Max. P 0.599717
window146

overview

Window 6

Location 316,317 – 316,413
Length 96
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 81.57
Mean single sequence MFE -22.39
Consensus MFE -15.42
Energy contribution -14.66
Covariance contribution -0.76
Combinations/Pair 1.21
Mean z-score -1.64
Structure conservation index 0.69
SVM decision value 0.13
SVM RNA-class probability 0.599717
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 316317 96 + 22407834
AAGUAAAAAGGAGGA-------------ACGCAAUGGAACAGCUGUGAGGCGAGCGUAGCAUGGAAAUGAGGAA-------AAUCGAGCAGCGUCUCUUCCAUUUUUCAUUUUACU
.(((((((.((((..-------------....(((((((..(((((....(((...(..(((....)))..)..-------..))).))))).....))))))))))).))))))) ( -24.40)
>DroSec_CAF1 20556 91 + 1
AAGUAAAAAGAGAGA-------------AAGAAAUGGAACAGCUGUGAGGCGAG-----AAUGGAAAUGAGGAA-------AAUCGAGCAGCGUCUUCUCCAUUUUUCAUUUUACU
.(((((((.((((((-------------..((...(((...(((((....(((.-----...............-------..))).))))).)))..))..)))))).))))))) ( -21.07)
>DroSim_CAF1 22346 91 + 1
AAGUAAAAAGAAAGA-------------AAGAAAUGGAACAGCUGUGGGGCGAG-----AAUGGAAAUGAGGAA-------AAUCGAGCAGCGUCUUCUCCAUUUUUCAUUUUACU
.(((((((.((((((-------------..((...(((...(((((....(((.-----...............-------..))).))))).)))..))..)))))).))))))) ( -20.97)
>DroEre_CAF1 21837 109 + 1
AAGUCAAAAGAAGGAAAGCAAAGAAGGAAAGCAAUGGAAGAGCUGUGAGACGAGAGUAGCAUGGAAAUGAGGAA-------AAUCGAGCAGCGUCUCCCCCAUUUUUCAUUUCACU
......................((((((((..(((((.((((((((....(((...(..(((....)))..)..-------..))).))))).)))...))))))))).))))... ( -22.20)
>DroYak_CAF1 22384 106 + 1
AAGUAAAAAGAAGGAACGU---------AAGAAAUGGAAGAGCUGUGAGACGAGCGUAGCAUGGAAAUGAGGAAAAUGGAAAAUCGAGCAGCGUCUCC-CCAUUUUUCAUUUUACU
.(((((((.((((((.(..---------..)...(((.((((((((..(((.(...(..(((....)))..)....).)....))..))))).)))..-))))))))).))))))) ( -23.30)
>consensus
AAGUAAAAAGAAGGA_____________AAGAAAUGGAACAGCUGUGAGGCGAG_GUAGCAUGGAAAUGAGGAA_______AAUCGAGCAGCGUCUCCUCCAUUUUUCAUUUUACU
.(((((((.((((((....................(((...(((((....(((..............................))).)))))...)))....)))))).))))))) (-15.42 = -14.66 +  -0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:25:42 2006