Locus 1128

Sequence ID 3L_DroMel_CAF1
Location 3,293,026 – 3,293,140
Length 114
Max. P 0.536647
window1756

overview

Window 6

Location 3,293,026 – 3,293,140
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.31
Mean single sequence MFE -29.58
Consensus MFE -22.80
Energy contribution -23.16
Covariance contribution 0.36
Combinations/Pair 1.26
Mean z-score -1.50
Structure conservation index 0.77
SVM decision value 0.01
SVM RNA-class probability 0.536647
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3293026 114 + 23771897
AUGGGGAA-AUACUAUCCAUAGUAUAGUAUGGCAUUGUUUCAAGUGGAUGUCAGUUUCCCAU-----UUUGGUUGCUUGGCAAUAUUUGUUGGGCUUUUGGCCGAAAAUGCAAAUUGUUU
.(((((((-((((((....))))))....(((((((..........))))))).)))))))(-----((((((((((..(((.....)))..)))....))))))))............. ( -31.90)
>DroSec_CAF1 22661 115 + 1
AGGAGGAAAGUACUAUCCACGAUAUAGUAUGGCAUUGUUUCGAGUGGAUGUCAGUUUCCCAA-----UUUGGUUGCUUGGCAAUAUUUGUUGGGCUUUUGGCCGAAAAUGCAAAUUGUUU
..(.(((((.(..(((((((((.(((((.....))))).))..)))))))..).))))))..-----((((((((((..(((.....)))..)))....))))))).............. ( -30.00)
>DroSim_CAF1 23563 115 + 1
AUGGGGAAAAUACCAUCCACGAUAUAGUAUGGCAUUGUUUCGAGUGGAUGUCAGUUUCCCAA-----UUUGGUUGCUUGGCAAUAUUUGUUGGGCUUUUGGCCGAAAAUGCAAAUUGUUU
...((((((....(((((((((.(((((.....))))).))..)))))))....))))))..-----((((((((((..(((.....)))..)))....))))))).............. ( -35.10)
>DroEre_CAF1 24812 115 + 1
AUGGGG--AAUACUAUCUUCAAUAUAGUAUAGCAUUGUUUCGAGUGGAUGUCAGUUUUCUUU---UUUUGGGUUGCUUGGCAAUAUUUGUUGGGCUUUUGGGCGAAAAUGCAAAUUGUUU
.(((((--(......))))))..........(((((....((((((..(((((((..(((..---....)))..)).))))).))))))....(((....)))...)))))......... ( -22.70)
>DroYak_CAF1 25432 118 + 1
CUGGGA--AGUACUAUCUACUAUUUAGUAUAGCAUUGUUUCGAGUGGAUGUCAGUUUCCUUAUAUAUUUUGGUUGCCUGGCAAUAUUUGUUGGGUUCUUGGCCGAAAAUGCAAAUUGUUU
..((((--(.(..((((((((...((((.....)))).....))))))))..).))))).......(((((((((((..(((.....)))..)))....))))))))............. ( -28.20)
>consensus
AUGGGGAAAAUACUAUCCACAAUAUAGUAUGGCAUUGUUUCGAGUGGAUGUCAGUUUCCCAA_____UUUGGUUGCUUGGCAAUAUUUGUUGGGCUUUUGGCCGAAAAUGCAAAUUGUUU
..((((((.....(((((((...(((((.....))))).....)))))))....)))))).......((((((((((..(((.....)))..)))....))))))).............. (-22.80 = -23.16 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:51 2006