Locus 1715

Sequence ID 3L_DroMel_CAF1
Location 4,989,727 – 4,989,836
Length 109
Max. P 0.646180
window2645

overview

Window 5

Location 4,989,727 – 4,989,836
Length 109
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.37
Mean single sequence MFE -34.47
Consensus MFE -20.51
Energy contribution -20.77
Covariance contribution 0.26
Combinations/Pair 1.32
Mean z-score -2.80
Structure conservation index 0.60
SVM decision value 0.23
SVM RNA-class probability 0.646180
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4989727 109 + 23771897
-GUCUGCGUUUGCCGUCUUCCGUUUUAACAAAUGUU-UUGUUAGCGCAGCGC-------UCUCAAGUUUUCCGCU-UGC-AAAAAUUAUGCGGAAACGGAAGCGACAAAAGGAAAACCAC
-.(((...((((.((.((((((((((..((....((-((((.((((.((.((-------(....))).)).))))-.))-))))....))..)))))))))))).)))).)))....... ( -34.20)
>DroPse_CAF1 268825 106 + 1
CGUUUGUCCUUCCUUCCUUCCGUUUGAGCAAAUGUU-UUGUUAGCGACGCGGCCUCUUCUCCAAAGACUUCCGUUGUGCGAAAAAUUAUGCGGAAACGGAAG-------------ACCAC
................(((((((((..((((((.((-((((..((((((.((..((((.....))))..)))))))))))))).))).)))..)))))))))-------------..... ( -30.80)
>DroSec_CAF1 210289 110 + 1
-GUCUGCGUUUGCCGUCUUCCGUUUCAACAAAUGUUUUUGUUAGCGCAGCGC-------UCUCAAGUUUUCCGCU-UGC-AAAAAUUAUGCGGAAACGGAAGCGACAAAAGGAAAACCAC
-.(((...((((.((.((((((((((..((...((((((((.((((.((.((-------(....))).)).))))-.))-))))))..))..)))))))))))).)))).)))....... ( -38.70)
>DroEre_CAF1 213706 108 + 1
-GUCUGCGU-UGCCGUCUUCCGUUUUAACAAAUGUU-UUGUUAGCGCAGCGC-------UCUCAAGUUUUCCGCU-CGC-AAAAAUUAUGCGGAAACGGAAGCGACAAAAGGAAAACCAC
-.(((...(-((.((.((((((((((..((....((-((((.((((.((.((-------(....))).)).))))-.))-))))....))..)))))))))))).)))..)))....... ( -33.70)
>DroYak_CAF1 218216 109 + 1
-GUCUGCGUUUGCCGUCUUCCGUUUUAACAAAUGUU-UUGUUAGCGCAGCGC-------UCUCAAGUUUUCCGCU-UGC-AAAAAUUAUGCGGAAACGGAAGCGACAAAAGGAAAACCAC
-.(((...((((.((.((((((((((..((....((-((((.((((.((.((-------(....))).)).))))-.))-))))....))..)))))))))))).)))).)))....... ( -34.20)
>DroAna_CAF1 221463 109 + 1
-CUAUAUGUUUUUCGUCUUCCGUUGUAGCAAAUGUU-UUGUUAGCGCGCUGC-------UCUCCAGCUUUCCGCU-UGC-AAAAAUUAUGCGGAAACGGAAGCGACAAAAGGAAAACCAC
-.......(((.(((.((((((((...(((....((-((((.((((.((((.-------....))))....))))-.))-))))....)))...))))))))))).))).((....)).. ( -35.20)
>consensus
_GUCUGCGUUUGCCGUCUUCCGUUUUAACAAAUGUU_UUGUUAGCGCAGCGC_______UCUCAAGUUUUCCGCU_UGC_AAAAAUUAUGCGGAAACGGAAGCGACAAAAGGAAAACCAC
......(((((.((((.((((((..((((((......))))))(((.((((....................)))).)))..........)))))))))))))))................ (-20.51 = -20.77 +   0.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:21 2006