Locus 1329

Sequence ID 3R_DroMel_CAF1
Location 3,904,866 – 3,904,965
Length 99
Max. P 0.635385
window2174

overview

Window 4

Location 3,904,866 – 3,904,965
Length 99
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 85.02
Mean single sequence MFE -20.58
Consensus MFE -16.74
Energy contribution -16.93
Covariance contribution 0.20
Combinations/Pair 1.06
Mean z-score -1.78
Structure conservation index 0.81
SVM decision value 0.21
SVM RNA-class probability 0.635385
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3904866 99 + 27905053
CGCC---------UUACCCCGCAUCCUUUUUGGUCC----UGUCAGGCAUUCAGGCAAACACAUUGCUUACAUAUUUCAUUUUCUGAGCGCACGCCAAGAAUGCCAACAACU
....---------.......(((.((.....))...----)))..(((((((((((((.....))))))...............((.((....)))).)))))))....... ( -20.00)
>DroSec_CAF1 28066 99 + 1
CGCC---------CUCCCCCGCAUCCUUUUGGGUCC----UGUCAGGCAUUCAGGCAAACACAUUGCUUACAUAUUUCAUUUUCUGAGCGCACGCCAAGAAUGCCAACAACU
.(((---------(................))))..----.....(((((((((((((.....))))))...............((.((....)))).)))))))....... ( -22.49)
>DroSim_CAF1 28469 99 + 1
CGCC---------UCCCCCCGCAUCCUUUUGGGUCC----UGUCAGGCAUUCAGGCAAACACAUUGCUUACAUAUUUCAUUUUCUGAGCGCACGCCAAGAAUGCCAACAACU
....---------....((((........))))...----.....(((((((((((((.....))))))...............((.((....)))).)))))))....... ( -22.00)
>DroEre_CAF1 28038 97 + 1
ACG----------CCCGCCCACAUCCUU-UGGCUCC----UGUCAGGCAUUCAGGCAAACACAUUGCUUACAUAUUUCAUUUUCUGAGCGCACGCCAAGAAUGCCAACAACU
...----------...............-((((...----.))))(((((((((((((.....))))))...............((.((....)))).)))))))....... ( -21.50)
>DroYak_CAF1 29756 107 + 1
CCCCGAAUCCCAACCACCCCACAUCCCU-UGGCUUC----UGUCAGGCAUUCAGGCAAACACAUUGCUUACAUAUUUCAUUUUCUGAGCGCACGCCAAGAAUGCCAACAACU
............................-((((...----.))))(((((((((((((.....))))))...............((.((....)))).)))))))....... ( -21.50)
>DroAna_CAF1 29117 109 + 1
CGCU--CUUCAAACUUUCUGCCAUCCUU-UGGGCCCCCUUUUUCAGCCAUUCAAGCAAACACAUUGCUUACAUAUUUCACUUUCGGAGCGCACGCCAAGAAUGCCAACAACU
((((--((...........(((......-..)))..................((((((.....))))))...............))))))...................... ( -16.00)
>consensus
CGCC_________CCCCCCCGCAUCCUU_UGGGUCC____UGUCAGGCAUUCAGGCAAACACAUUGCUUACAUAUUUCAUUUUCUGAGCGCACGCCAAGAAUGCCAACAACU
.............................................(((((((((((((.....))))))...............((.((....)))).)))))))....... (-16.74 = -16.93 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:54 2006