Locus 6038

Sequence ID X_DroMel_CAF1
Location 15,503,546 – 15,503,645
Length 99
Max. P 0.643803
window9811

overview

Window 1

Location 15,503,546 – 15,503,645
Length 99
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 84.19
Mean single sequence MFE -33.66
Consensus MFE -21.04
Energy contribution -23.58
Covariance contribution 2.54
Combinations/Pair 1.07
Mean z-score -2.05
Structure conservation index 0.63
SVM decision value 0.23
SVM RNA-class probability 0.643803
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15503546 99 + 22224390
CGCUAAAGCUUCGCGAUUUUCUGGGCCUCCGGUUCGCUCCUGUUCGCCAUACCAACGCACUGCCCUCCAGCUGCGAUUUAGCCCAAGGUUCUGCCUCG--C---------
.((....))...((((.....(((((....(((..((........))...)))..(((((((.....))).)))).....))))).((.....)))))--)--------- ( -26.90)
>DroSec_CAF1 64041 108 + 1
CGCUAAAGCUUCGCGAUUUUCUGGGCCUCCGGUUCGGUCCUGUUCGCCAUGCCAUCGCACUGCCCUCCAGCUGCGAUUUAGCCCGAGGUUCUGCCUCG--AAUCGCGACU
.((....)).(((((((((...((((....(((..(((.......)))..)))(((((((((.....))).))))))...))))((((.....)))))--)))))))).. ( -42.60)
>DroSim_CAF1 76358 108 + 1
CGCUAAAGCUUCGCGAUUUUCUGGGCCUCCGGUUCGCUCCUGUUCGCCAGCCCAUCGCACUGCCCUCCAGCUGCGAUUUAGCCCGAGGUUCUGCCUCG--AAUCGCGAAU
.((....))((((((((((...((((....((((.((........)).)))).(((((((((.....))).))))))...))))((((.....)))))--))))))))). ( -42.80)
>DroEre_CAF1 65739 108 + 1
CGCUAAAGCUCCGCGAAUUUCUGGGCCUCCGCUUCGCUCCUGCUCGCCUUCCCAUCGCACUGCCCUCCAGCUGCGAUUUAGCCCAAGGUCCUGCCUCG--AAUCGCGAAU
.((....))..(((((..((((((((....((...((....))..))......(((((((((.....))).))))))...)))))(((.....))).)--)))))))... ( -31.20)
>DroYak_CAF1 70331 95 + 1
CGCUAAAGCUUCGCGAAUUUCUGGGC-----------UCCU----UCCUUCCCAUCGCACUGCCCUCCAGCUGCGAUUUAGCCCAAGGUCCUGCCUCGCAAAUCACGAGU
.((....))...((((.....(((((-----------(...----........(((((((((.....))).))))))..)))))).((.....))))))........... ( -24.82)
>consensus
CGCUAAAGCUUCGCGAUUUUCUGGGCCUCCGGUUCGCUCCUGUUCGCCAUCCCAUCGCACUGCCCUCCAGCUGCGAUUUAGCCCAAGGUUCUGCCUCG__AAUCGCGAAU
.((....)).((((((.....(((((....(((..((....))..))).....(((((((((.....))).))))))...)))))(((.....)))......)))))).. (-21.04 = -23.58 +   2.54)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:37 2006