Locus 5835

Sequence ID 2L_DroMel_CAF1
Location 16,555,188 – 16,555,279
Length 91
Max. P 0.639493
window9258

overview

Window 8

Location 16,555,188 – 16,555,279
Length 91
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 61.76
Mean single sequence MFE -30.00
Consensus MFE -12.84
Energy contribution -13.04
Covariance contribution 0.20
Combinations/Pair 1.43
Mean z-score -1.70
Structure conservation index 0.43
SVM decision value 0.22
SVM RNA-class probability 0.639493
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16555188 91 + 22407834
CAACAGCAGCCAAUCUGCGCUCAACAUGGAGGCUUGCCGCAUAUUCAU---------------------GGCGCCCAACUGCUGCCCGUGCAGUUGAUAGCCCUGCCACCGA
.....((((.....))))........(((.(((..((((........)---------------------)))((.(((((((.......)))))))...))...))).))). ( -27.60)
>DroVir_CAF1 7656 95 + 1
-----------GCAUUGCAGCCAACACGGUGGCAUGCCACACAUUCAUGUGCAGUCCAGC------AAUGGUCCACAAUUGUUGCCCGUGCAAUUGAUUACCUUGACGCCGA
-----------(((((((.((((......)))).(((.(((......)))))).....))------)))(((...(((((((.......)))))))...))).....))... ( -24.40)
>DroSim_CAF1 9626 91 + 1
CAGCAGCAGCCACUCUGCGCUCAACAUGGAGGCUUGCCGCAUAUUCAU---------------------GGCGCCCAACUGCUGCCCGUGCAGUUGAUAGCCCUGCCACCGA
.(((.((((.....))))))).....(((.(((..((((........)---------------------)))((.(((((((.......)))))))...))...))).))). ( -29.70)
>DroWil_CAF1 12103 109 + 1
CAACAUCAGCAACAUUGUGCUCAACAUGCUGGUGUACCGCACAUUCAUUUACCCUCAAGUUCUGGAAACGGAACUCAAUUGCUGCCAGUGCAAUUGAUUACCUUAUCG---G
..(((((((((....(((.....)))))))))))).(((...................((((((....))))))((((((((.......)))))))).........))---) ( -34.40)
>DroMoj_CAF1 4077 104 + 1
--ACAGCAAGCGCAUUGCAGCCAGCACAGCGGCAUGCCGCACAUACAUCUGCAAUCGAGC------AAUGGCCCCCAGUUGUUGCCGGUGCAAUUAAUUACGCUGACACCAA
--...((((.....)))).(.((((...((((....)))).........((((.(((.((------((..((.....))..))))))))))).........)))).)..... ( -33.90)
>consensus
CAACAGCAGCCACAUUGCGCUCAACAUGGAGGCAUGCCGCACAUUCAU_U_C__UC_AG_______AA_GGCCCCCAAUUGCUGCCCGUGCAAUUGAUUACCCUGACACCGA
............................((((....)))).............................(((...(((((((.......)))))))...))).......... (-12.84 = -13.04 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:09 2006