Locus 5047

Sequence ID 2R_DroMel_CAF1
Location 16,398,212 – 16,398,305
Length 93
Max. P 0.933509
window8065

overview

Window 5

Location 16,398,212 – 16,398,305
Length 93
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 77.56
Mean single sequence MFE -24.65
Consensus MFE -13.04
Energy contribution -15.02
Covariance contribution 1.97
Combinations/Pair 1.17
Mean z-score -2.34
Structure conservation index 0.53
SVM decision value 1.23
SVM RNA-class probability 0.933509
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16398212 93 + 20766785
GAGAAAUGCAAUCAAAAUUCGAUUAGCCC-CAAUGCAAAUAUUAUUUGCGGGGCUAGUU--GCA-----GUCGAUGGAAAUCGAAGGACAGGACAUGAGCG
.......((..........((((((((((-(...((((((...))))))))))))))))--)(.-----.(((((....)))))..)...........)). ( -30.40)
>DroSec_CAF1 67998 93 + 1
GAGAAAUGCAAUCAAAAUUCGAUUAGCCC-CAAUGAAAAUAUUAUUUGCGGGGCUAGUU--GCA-----GCCGAUGGAAAUCGAAGGACAGGAUAUGAGCG
.......((..........((((((((((-((((((.....)))))...))))))))))--)..-----..((((....))))...............)). ( -24.20)
>DroSim_CAF1 69859 93 + 1
GAGAAAUGCAAUCAAAAUUCGAUUAGCCC-CAAUGCAAAUAUUAUUUGCGGGGCUAGUU--GCA-----GCCGAUGGAAAUCGAAGGACAGGAUAUGAGCG
.......((..........((((((((((-(...((((((...))))))))))))))))--)..-----..((((....))))...............)). ( -27.90)
>DroEre_CAF1 73561 80 + 1
GAGAAAUGCAAUCAAAAUUCGAUUAGCCC-CAAUGCAAAUAUUAUUUGCGGGGCUAGUU--GCA-----ACGGAUGGAAAUCGAAGGA-------------
...........((......((((((((((-(...((((((...))))))))))))))))--)..-----...(((....)))))....------------- ( -23.80)
>DroYak_CAF1 73311 81 + 1
GAGAAAUGCAAUCAAAAUUCGAUUAGCCC-CAAUGCAAAUAUUAUUUGCGGGGCUAGUU--GCA----AACCGAUGGAGAUCGAAGGG-------------
..((..(.((.((......((((((((((-(...((((((...))))))))))))))))--)..----....)))).)..))......------------- ( -23.30)
>DroPer_CAF1 101427 97 + 1
GAAAAUUGCAAUCAAAAUUCGAUUAGUCUGCAGUGCAAAUGUUAUUCA----UCUAUUCAUCCUGCCAAAGAGACGGAGGACGGAGGACGGAGGACGGACG
....(((((((((.......))).....)))))).....((((.(((.----(((.(((.((((.((........)))))).)))))).))).)))).... ( -18.30)
>consensus
GAGAAAUGCAAUCAAAAUUCGAUUAGCCC_CAAUGCAAAUAUUAUUUGCGGGGCUAGUU__GCA_____ACCGAUGGAAAUCGAAGGACAGGA_AUGAGCG
...........((....((((((((((((....(((((((...)))))))))))))))).............(((....)))))).))............. (-13.04 = -15.02 +   1.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:07 2006