Locus 6547

Sequence ID 3R_DroMel_CAF1
Location 17,252,708 – 17,252,818
Length 110
Max. P 0.829999
window10660

overview

Window 0

Location 17,252,708 – 17,252,818
Length 110
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 88.18
Mean single sequence MFE -30.14
Consensus MFE -23.70
Energy contribution -24.34
Covariance contribution 0.64
Combinations/Pair 1.09
Mean z-score -1.82
Structure conservation index 0.79
SVM decision value 0.71
SVM RNA-class probability 0.829999
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17252708 110 + 27905053
CCAAAUCACUGAGUUUUCCAUUCAUUCCCGCAUUCGUUAUGCCCUUCGUCCCU-----UUGGAUUUGGGCGAAGUCUCGAAUAUGUUCCAGCGAAGGGCUGAAUGCC-UCUUUGAU
....((((..(((................(((((((....(((((((((....-----.((((..((..(((....)))..))...)))))))))))))))))))))-))..)))) ( -32.79)
>DroSec_CAF1 49272 110 + 1
CCAAAUCACUGAGUUCUCUAUUCAUUCCCGCAUUCGUUAUGCCCUUCGUCCCU-----UUGGAUUUGGGCGAAGUCUCGAAUAUGUUCCAGUGAAGGGCUGAAUGCC-UCUUUGAU
.((((((((((.(..(..(((((......((((.....)))).(((((.(((.-----........))))))))....))))).)..))))))).((((.....)))-).)))).. ( -31.50)
>DroSim_CAF1 49854 110 + 1
CCAAAUCACUGAGUUCUCUAUUCAUUCCCGCAUUCGUUAUGCCCUUCGUCCCU-----UUGGAUUUGGGCGAAGUCUCGAAUAUGUUCCAGCGAAGGGCUGAAUGCC-UCUUUGAU
....((((.(((((.....))))).....(((((((....(((((((((....-----.((((..((..(((....)))..))...)))))))))))))))))))).-....)))) ( -33.20)
>DroEre_CAF1 51150 107 + 1
CCAAAUCACUGAGUUC--UAUUCACUCCCGAAUUCGUAAUGCCC-UCGUCCCUUGAAUUUGGA------UGAAGUCUCGAAUAUGUUCCAGCGAAGGGCUGAAUGGCUUCUUUGAU
....((((..(((..(--((((((..(((..(((((..((....-((((((.........)))------))).))..))))).(((....)))..))).))))))).)))..)))) ( -24.20)
>DroYak_CAF1 71955 116 + 1
CCAAAUCACUGAGUUCUCUAUUCACUCCCGAAUUCGUUAUGCCCUUCGUCCCCUGAAUUUGAAUUAAAGUGAAGUCUCGAAUAUGUUCCGGCGAAGGGCAGAAUGCCUUCUUUGAU
....((((.(((((.....))))).....(((..((((.(((((((((((..((..((((......))))..))....(((....))).))))))))))).))))..)))..)))) ( -29.00)
>consensus
CCAAAUCACUGAGUUCUCUAUUCAUUCCCGCAUUCGUUAUGCCCUUCGUCCCU_____UUGGAUUUGGGCGAAGUCUCGAAUAUGUUCCAGCGAAGGGCUGAAUGCC_UCUUUGAU
....((((.(((((.....))))).....(((((((....(((((((((..........((((......(((....))).......))))))))))))))))))))......)))) (-23.70 = -24.34 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:12 2006