Locus 5025

Sequence ID 3R_DroMel_CAF1
Location 13,239,978 – 13,240,094
Length 116
Max. P 0.709850
window8211

overview

Window 1

Location 13,239,978 – 13,240,094
Length 116
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 84.20
Mean single sequence MFE -29.25
Consensus MFE -22.39
Energy contribution -22.95
Covariance contribution 0.56
Combinations/Pair 1.24
Mean z-score -1.68
Structure conservation index 0.77
SVM decision value 0.37
SVM RNA-class probability 0.709850
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13239978 116 + 27905053
UACAAGGGCGAAGUCCUAAACUUUGGUAACGAAUGUGAAAAACGGGCUCACACCUGUCGUACUGGCCAGAGUGAGUUAAACUACAUGUUUAGAUAUUACAGUUGACUUAUUUCCCU
....((((..(((((....((((((((.((((.(((((.........)))))....))))....))))))))...((((((.....))))))...........)))))....)))) ( -29.80)
>DroSec_CAF1 269529 116 + 1
UACAAGGGCAAAGUCCUACACUUUGGUAAUGAGUGUGAAAAACGGGCUCACACCUGUCGUAGUGGCCACAGUAAGUUAAACAUUAUGUUUAAAUAUGACAUUUGACUUAUUUCCCU
....((((....(((((((((...(((..(((((.((.....)).))))).))).)).)))).)))...(((((((((((..((((((....))))))..))))))))))).)))) ( -32.50)
>DroSim_CAF1 255000 116 + 1
UACAAGGGCAAAGUCCUACACUUUGGUAAUGAGUGUGAAAAACGGUCUCACACCUGUCGUAGUGGCCACAGUAAGUUAAACAUUAUGUUUAAAUAUUACAGUUGACUUAUUUCCCU
....((((..(((((.(((((((.......)))))))...(((((((.(((.......)).).))))...((((.((((((.....))))))...)))).))))))))....)))) ( -28.20)
>DroEre_CAF1 258325 115 + 1
UACAACGGAAAAGUCCUAAACUUUGGCAACGAGUGUGAAAAGCGAGCUUACACCUGUCGCACUGGCCAAAGUAAGUUAAAUUACGUGUUUUAGUAUUGCUGCUUACCUU-UUUUCU
......(((((((......((((((((....(((((((...(.(......).)...))))))).))))))))((((.....(((........))).....))))....)-)))))) ( -26.50)
>consensus
UACAAGGGCAAAGUCCUAAACUUUGGUAACGAGUGUGAAAAACGGGCUCACACCUGUCGUACUGGCCACAGUAAGUUAAACAACAUGUUUAAAUAUUACAGUUGACUUAUUUCCCU
....((((..(((((....((((((((.((((((((((.........))))))...))))....))))))))...((((((.....))))))...........)))))....)))) (-22.39 = -22.95 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:33 2006