Locus 1560

Sequence ID 2R_DroMel_CAF1
Location 5,895,718 – 5,895,824
Length 106
Max. P 0.873557
window2619

overview

Window 9

Location 5,895,718 – 5,895,824
Length 106
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 85.96
Mean single sequence MFE -29.41
Consensus MFE -25.31
Energy contribution -25.73
Covariance contribution 0.42
Combinations/Pair 1.10
Mean z-score -2.08
Structure conservation index 0.86
SVM decision value 0.88
SVM RNA-class probability 0.873557
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5895718 106 - 20766785
CCAACAGAAAAGGCCAACAUUAACGGCCACAACAAUUUGCUUUCACUGAAAUUGCCAAUUAGGCAAGAGGGCAGUUGCAAAUGCAGCAGGAGC--------------ACUGAAGGCCAAC
((..(((....((((.........)))).........((((((..((....(((((.....)))))..))...(((((....))))).)))))--------------))))..))..... ( -30.30)
>DroSec_CAF1 32083 106 - 1
CCAACAGAAUAGGCCACCAUUAACGGCCACAACAAUUUGCUUUCAUUGAAAUUGCCAAUUAGGCAAGAGGGCAGUUGCAAAUGCAGCAGGACC--------------ACUGAAGGCCAAC
...........((((..((.....((((.........(((((((.......(((((.....))))))))))))(((((....))))).)).))--------------..))..))))... ( -30.81)
>DroSim_CAF1 30849 106 - 1
CCAAGAGAAAAGGCCACCAUUAACGGCCACAACAAUUUGCUUUCACUGAAAUUGCCAAUUAGGCAGGAGGGCAGUUGCAAAUGCAGCAGGACC--------------ACUGAAGGCCAAC
...........((((..((.....((((.........(((((((.......(((((.....))))))))))))(((((....))))).)).))--------------..))..))))... ( -30.51)
>DroEre_CAF1 30150 106 - 1
CCAACAGAAACGGACACCGUUAACGGCCACGACAAUUUGCUUUCACUGAAAUUGCCAAUUAGGCAAGAGGGCAGUUGCAAAUGCAGCAGCACC--------------ACUGAAGGCCAAC
........(((((...)))))...((((.........(((((((.......(((((.....))))))))))))(((((....)))))......--------------......))))... ( -31.71)
>DroYak_CAF1 30230 106 - 1
CCAACAGAAACGGCAGCCAUUAACGGCCACGACAAUUUGCUUUCACUGAAAUUGCCAAUUAGGCAAGAGGGCAGUUGCAAAUGCAGCAGCAGC--------------ACUGAAGGCCAAC
..........((...(((......)))..)).......(((((((.((...(((((.....)))))....((.(((((....))))).))..)--------------).))))))).... ( -30.00)
>DroAna_CAF1 35602 112 - 1
GUAACAGAAA------ACAUUAACGACCACGACAAGUUGCUUUCACUGAAAUUGCCAAUUAGUC--GAGGGCAGCUGCAAAUGCAGCAGUACCUAGUACCAUCAGCAGCAGAAGGCCAUC
..........------..........((.((((.((((((.............).))))).)))--).))((.(((((....))))).((((...)))).....)).((.....)).... ( -23.12)
>consensus
CCAACAGAAAAGGCCACCAUUAACGGCCACAACAAUUUGCUUUCACUGAAAUUGCCAAUUAGGCAAGAGGGCAGUUGCAAAUGCAGCAGGACC______________ACUGAAGGCCAAC
........................((((.........(((((((.......(((((.....))))))))))))(((((....)))))..........................))))... (-25.31 = -25.73 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:32 2006