Locus 1969

Sequence ID 2R_DroMel_CAF1
Location 7,434,566 – 7,434,656
Length 90
Max. P 0.746930
window3259

overview

Window 9

Location 7,434,566 – 7,434,656
Length 90
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 78.14
Mean single sequence MFE -15.65
Consensus MFE -10.56
Energy contribution -10.92
Covariance contribution 0.36
Combinations/Pair 1.09
Mean z-score -1.40
Structure conservation index 0.67
SVM decision value 0.46
SVM RNA-class probability 0.746930
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7434566 90 - 20766785
UUAGAGCUGUUAACGAAUCACUCUUAUUUUCAGUUGCCAACUACACACGCAGCUGGAAGGCAUUAAA-----AA-AGAAGUUAACUUUAACCG--AAC
........((((((............(((((((((((...........)))))))))))........-----..-....))))))........--... ( -17.07)
>DroSec_CAF1 50920 90 - 1
UUAAAGCUGGUAACGAAUCACUCUUAUUUUCAGUUGCCAACUACACACGCAGCUGGAAGGCAUUAAA-----AA-AAGAGUUAAUUUUAACCG--AAC
.......((((...((((.((((((.(((((((((((...........)))))))))))........-----..-))))))..))))..))))--... ( -18.10)
>DroSim_CAF1 42493 91 - 1
UUAAAGCUGGUAACGAAUCACUCUUAUUUUCAGUUGCCAACUACACACGCAGCUGGAAGGCAUUAAA-----AAAAAUACUUAAUUUUAACCG--AAC
((((.((((((.....)))........((((((((((...........))))))))))))).)))).-----.....................--... ( -14.50)
>DroEre_CAF1 50683 95 - 1
UUAAAGCUGGAAACGAAUCACUCUUAUUUUCAGUUGCCAACUACACACGCAGCUAGAAGGCACUAAGGCAUUAA-AAGAUUUCAUUUUAACCG--AAC
....(((((((((..(.......)..)))))))))(((..((((.......).)))..))).....((..((((-((.......)))))))).--... ( -14.60)
>DroYak_CAF1 49138 86 - 1
UUAGAGCUGAAAACGAAUCACUUUUAUUUUCAGUUGCCAACUACUCAGGCAGCUGAAAG--------GCAUUAA-AAGAA-UAAUUUUAACCG--AAC
.(((((.(((.......))).))))).(((((((((((.........)))))))))))(--------(..((((-((...-...)))))))).--... ( -19.70)
>DroAna_CAF1 49619 73 - 1
----------------AUCACUUUUAUUUUCAGUUGCCAACUACACACGCACCUGGAUGGAAUUAA---------AAGAAUUAAUUUGAACCCAAAAC
----------------....((((((.(((((....(((..............))).))))).)))---------)))......((((....)))).. (  -9.94)
>consensus
UUAAAGCUGGUAACGAAUCACUCUUAUUUUCAGUUGCCAACUACACACGCAGCUGGAAGGCAUUAAA_____AA_AAGAAUUAAUUUUAACCG__AAC
..........................(((((((((((...........)))))))))))....................................... (-10.56 = -10.92 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:43 2006