Locus 5569

Sequence ID 2R_DroMel_CAF1
Location 17,792,401 – 17,792,491
Length 90
Max. P 0.822724
window8924

overview

Window 4

Location 17,792,401 – 17,792,491
Length 90
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 78.87
Mean single sequence MFE -45.15
Consensus MFE -26.66
Energy contribution -27.88
Covariance contribution 1.23
Combinations/Pair 1.30
Mean z-score -1.96
Structure conservation index 0.59
SVM decision value 0.69
SVM RNA-class probability 0.822724
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17792401 90 + 20766785
UCAAGCGGCCGCCGGACAUCCGCAU---CACCAUGCUGCCGCUGCAGCGGCAGCUGCCGGAAUCCAACCCAACGCCCUCAUGGGCGGCGGCGG
.......(((((((((..((((((.---......((((((((....)))))))))).)))).)))........((((....)))))))))).. ( -48.31)
>DroVir_CAF1 89626 93 + 1
CCAGGCGGCCGCUGCCCAUCCGCAUGCCCAUCAUGCCGCUGCCGCUGCUGCCGCCGCUGGGCUCCAGCCGAAUACGUUAAUGGGCGGCGCCGG
.....((((.(((((((((..(((((.....))))).((.((.((....)).)).))..(((....)))..........))))))))))))). ( -40.70)
>DroGri_CAF1 82883 93 + 1
UCAGGCAGCAGCUGGCCAUUCGCAUGCCCAUCAUGCGGCAGCUGCUGCGGCCGCCGCUGGCCUGCAGCCGAAUGCGCUGAUGGGCGGAGCGGG
...(((........)))..((((.(((((((((.(((.((...((((((((((....))))).)))))....))))))))))))))..)))). ( -48.60)
>DroEre_CAF1 61705 90 + 1
UCAAGCGGCCGCCGGACAUCCGCAU---CACCAUGCUGCGGCUGCUGCGGCAGCUGCCGGCAUCCAGCCGAACGCCCUGAUGGGCGGCGGCGG
...(((((((((.((....))((((---....)))).)))))))))......(((((((((.....)))....((((....)))))))))).. ( -48.50)
>DroYak_CAF1 64426 90 + 1
CCAAGCUGCCGCCGGACAUCCGCAU---CACCAUGCAGCGGCUGCAGCGGCCGCUGCCGGCAUCCAACCCAACGCCCUGAUGGGCGGCGGCGG
....(((((((((((....)).(((---((....((((((((((...)))))))))).(((............))).)))))))))))))).. ( -49.50)
>DroAna_CAF1 67316 90 + 1
CCAAGCAGCGGCAGGACAUCCACAU---CAUCAUGCCGCAGCCGCAGCUGCCGCGGCCGGAAUUCAGCCCAACGCCUUGAUGGGCGGUGGUGG
(((.((.((((((.((........)---)....)))))).(((((.......))))).........))(((.(((((....))))).)))))) ( -35.30)
>consensus
CCAAGCGGCCGCCGGACAUCCGCAU___CACCAUGCCGCAGCUGCAGCGGCCGCUGCCGGCAUCCAGCCCAACGCCCUGAUGGGCGGCGGCGG
....(((((.((.((....))((((.......)))).)).))))).....((((((((((.......))....((((....)))))))))))) (-26.66 = -27.88 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:52 2006