Locus 8887

Sequence ID 3R_DroMel_CAF1
Location 23,841,317 – 23,841,414
Length 97
Max. P 0.692032
window14262

overview

Window 2

Location 23,841,317 – 23,841,414
Length 97
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 80.04
Mean single sequence MFE -31.66
Consensus MFE -10.95
Energy contribution -11.59
Covariance contribution 0.64
Combinations/Pair 1.06
Mean z-score -2.22
Structure conservation index 0.35
SVM decision value 0.33
SVM RNA-class probability 0.692032
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23841317 97 + 27905053
U-GCUGGCAAGUGGAAAGGG---GCG------GAAGUGAAGAGGCUGAUUCCUGAAUCCUGAUCCCAGCUCCUUGCUGCCAAUUAAAUUGGAUUAAAAAUUCCAUUU
.-..(((((.((...(((((---(((------((((.((..(((......)))...))))..)))..)))))))))))))).......((((........))))... ( -24.70)
>DroSec_CAF1 46897 84 + 1
UGGCUGGCAGGUGGAAAGGG---GCG------G--------------AUUCCUGAAUCCUGAUCCCUGCUCCUUGCUGCCAAUUAAAUUGGAUUAAAAAUUCCAUUU
((((.((((((.((..((((---(((------(--------------(((....))))).).)))))..)))))))))))).......((((........))))... ( -30.80)
>DroSim_CAF1 46403 95 + 1
UGGCUGGCAAGUGGAAAGGG---GCG------GAGGUGAAG---GUGAUUCCUGAAUCCUGAUCCCUGCUCCUUGCUGCCAAUUAAAUUGGAUUAAAAAUUCCAUUU
((((.((((((.((..((((---(((------(.(((..((---(.....)))..)))))).)))))..)))))))))))).......((((........))))... ( -35.70)
>DroEre_CAF1 50588 106 + 1
U-GCCGGAAAGCGGAAAGGGUGAGGGAGGGGGUUAAUGGGGAGCCGGAUUCCGGAAUCCUGAUCCCUGCUCCUUGCUGCCAAUUAAAUUGGAUUAAAAAUUCCAUUU
.-((......))((((..((..((((.(((((((...((((..((((...))))..)))))))))))..))))..)).(((((...)))))........)))).... ( -37.40)
>DroYak_CAF1 47713 106 + 1
U-GCCGGAAAGUGGAAUGAUUGGGUGGGGGUAAAAAUGGAGAGCCUGAUUCCGGAAUCCUGAUCCCUGCUCCUUGCUGCCAAUUAAAUUGGAUUAAAAAUUCCAUUU
.-......(((((((((....(((..(((((......(((...((.......))..)))..)))))..))).......(((((...))))).......))))))))) ( -29.70)
>consensus
U_GCUGGCAAGUGGAAAGGG___GCG______GAAAUGAAGAG_CUGAUUCCUGAAUCCUGAUCCCUGCUCCUUGCUGCCAAUUAAAUUGGAUUAAAAAUUCCAUUU
..((.((((((..(...(((...........................................)))..)..)))))))).........((((........))))... (-10.95 = -11.59 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:22:04 2006