Locus 900

Sequence ID 2R_DroMel_CAF1
Location 4,046,838 – 4,046,939
Length 101
Max. P 0.932591
window1575

overview

Window 5

Location 4,046,838 – 4,046,939
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.88
Mean single sequence MFE -29.82
Consensus MFE -19.82
Energy contribution -21.12
Covariance contribution 1.30
Combinations/Pair 1.30
Mean z-score -1.93
Structure conservation index 0.66
SVM decision value 1.22
SVM RNA-class probability 0.932591
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4046838 101 + 20766785
------UAAAUUAUAGGGCUGCUGCCGAAUUGUUAGCAUGUAUGGCUAUAUAGGCCGUAUAAAUUCUAUUCCUAAUCCUC-------------GCAGGCAAUAAAUGGCGACAAACUACG
------.........((..((.(((((.(((((..((.(((((((((.....))))))))).....((....))......-------------))..)))))...))))).))..))... ( -23.40)
>DroSec_CAF1 29574 114 + 1
------GAAAUUAUAAGGCUGCUUCCAAAUUGUUAGCAUGUAUGGCUAUAUGGGCCGUAUAAAUUUUGUUCCUAAUCCUGGCCGACAAACCAGGCAGGCAAUAAAUGGCGACAAACUACG
------...........((((((..(.....)..))).(((((((((.....)))))))))...(((((((((...(((((........))))).))).)))))).)))........... ( -29.20)
>DroSim_CAF1 34245 114 + 1
------GAAAUUAUAAGGCUGCUGCCGAAUUGUUAGCAUGUAUGGCUAUAUGAGCCGUAUAAAUUUUGUUCCUAAUCCUGGCCGACAAACCAGGCAGGCAAUAAAUGGCGACAAACUACG
------..........(((....)))...(((((.((.(((((((((.....)))))))))...(((((((((...(((((........))))).))).))))))..)))))))...... ( -33.40)
>DroEre_CAF1 28933 100 + 1
UUGCUUAAAAUGAUUAGGCUGCUGCAGAAUUGCCAGAAUAUAUGGC-AUAUAAGCCGUAUAAAUUCUGUUC-------------------CAGGCCGGCAACAAAUGGCGACAAAACACG
(((((...........((((...((((((((.......((((((((-......))))))))))))))))..-------------------..))))(....)....)))))......... ( -28.81)
>DroYak_CAF1 32708 120 + 1
CCGAUUAAAAUUAUUAGGCUGCUGCGGAAUCGCUGGAAUAUAUGGCUAUAUAAGCCAUAUAAUUUCUGUUCCUAAUCCUGGCCGACACACCAGGCCGGCAAUAAAUGGCGACAAACUACG
..............(((..((.((((((((....(((((((((((((.....)))))))).))))).))))).....((((((.........)))))).........))).))..))).. ( -34.30)
>consensus
______AAAAUUAUAAGGCUGCUGCCGAAUUGUUAGCAUGUAUGGCUAUAUAAGCCGUAUAAAUUCUGUUCCUAAUCCUGGCCGACA_ACCAGGCAGGCAAUAAAUGGCGACAAACUACG
................(((....)))...((((((...(((((((((.....))))))))).....(((((((...(((((........))))).))).))))..))))))......... (-19.82 = -21.12 +   1.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:34 2006