Locus 1831

Sequence ID 3R_DroMel_CAF1
Location 5,237,995 – 5,238,113
Length 118
Max. P 0.633561
window3012

overview

Window 2

Location 5,237,995 – 5,238,113
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.40
Mean single sequence MFE -26.85
Consensus MFE -15.39
Energy contribution -18.47
Covariance contribution 3.08
Combinations/Pair 1.07
Mean z-score -1.84
Structure conservation index 0.57
SVM decision value 0.21
SVM RNA-class probability 0.633561
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5237995 118 - 27905053
AUCGUGACAUUACAGCUUUUUAGCUGU--ACAGAGUUAACAGAUACCGCCAAGUGGCAACGCCAUCAAAUUCUGUUGCUUCUGUUGUGAUAAACUAACGGUAAAAUCACAAUCCUUUAUU
..........(((((((....))))))--)(((((.(((((((.........(((....)))........))))))).)))))(((((((...(....).....)))))))......... ( -31.53)
>DroSec_CAF1 11763 119 - 1
AU-UUGGCAUUACAGCGCAUAAGCUGUUAAAAAAGUUAACAGAUACCUCCAAGUGGCAACGCCAUCCAACUCUGUUGAUUCUGUUGUGAUAAACUAACGGUAAAAUCACAAUCUUGUAUU
..-...(((..(((((......)))))......((((((((((.........(((....)))........))))))))))..((((((((...(....).....))))))))..)))... ( -26.63)
>DroSim_CAF1 11827 120 - 1
AUCUUGGUAUUACAGCGCAUAAGCUGUUAACAAAGUUAACAGAUACCUCCAAGUGGCAACGCCAUCCAACUCUGUUGCUUCUGUUGUGAUAAACUAACGGUAAAAACACAUUCUUGUAUA
((((((((((((((((.......((((((((...)))))))).........((.(((((((...........))))))).))))))))))..))))).)))......(((....)))... ( -26.50)
>DroEre_CAF1 14034 118 - 1
AUCAUGGCAUUAUAGCAUUAAAGCUGUUAACAGAGCUAACAGUUACCGCCAAGUGGCAACUCCAUCGAACUCUGUUGCGUUUGUUGUGAGGAACUAACGGUAAUAUCACAAUC-UU-UUU
....((((...(((((......))))).......))))...(((((((((....)))..(((((.(((((.(....).))))).)).)))........)))))).........-..-... ( -27.60)
>DroYak_CAF1 11817 105 - 1
AUCUUGGUAAUAUAGCAUUUAAGCUGUUAACAGAAUUA-------------AGUGGCAACGCCAUUAAACUCUGUUGC-UUCGUUGUGAUGAACUAACGGUAAUAUCUCAAUCCCU-UUU
.....((....(((((......)))))(((((((.((.-------------((((((...)))))).)).))))))).-...((((.((((..(....)....)))).)))).)).-... ( -22.00)
>consensus
AUCUUGGCAUUACAGCAUUUAAGCUGUUAACAGAGUUAACAGAUACCGCCAAGUGGCAACGCCAUCAAACUCUGUUGCUUCUGUUGUGAUAAACUAACGGUAAAAUCACAAUCCUUUAUU
...........(((((......))))).(((((((.(((((((.........(((....)))........))))))).)))))))(((((...(....).....)))))........... (-15.39 = -18.47 +   3.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:34 2006