Locus 1534

Sequence ID 3R_DroMel_CAF1
Location 4,380,191 – 4,380,299
Length 108
Max. P 0.607474
window2543

overview

Window 3

Location 4,380,191 – 4,380,299
Length 108
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 78.53
Mean single sequence MFE -15.62
Consensus MFE -8.88
Energy contribution -9.55
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.69
Structure conservation index 0.57
SVM decision value 0.15
SVM RNA-class probability 0.607474
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4380191 108 + 27905053
CUUUUUUUUUCAUUCCAUUUAGAAUCCAUACUUUUUUUCAAAUCAUUCGUAUAAUCCCCAUUUAGACACGCUGCGUGACCUUAUGCAGCACUUAAAAGUAAUUUCGAA
.....................(((....(((((((.............((.(((.......))).))..((((((((....))))))))....)))))))..)))... ( -16.40)
>DroPse_CAF1 65061 106 + 1
UGCUC-UUAUAUUCCUAUUGCUUUUCCAUCCCUGCUUUCAAGUCAAUCAUUUUACAGGCAUUUAGGCAGGGCGCCCGAACUUAUGCAGCACACAAAAGUGAUUGC-AA
.....-.......................((((((((....(((............)))....))))))))............((((((((......))).))))-). ( -21.80)
>DroSec_CAF1 67257 100 + 1
CUUU---UUUCAUUCCAUUUAGAAUCCAUACU----UUCAAAUCAUUCGUAUAAUCCCC-UUUAGACACGCUGCGUGACCUUAUGCAGCACUUAAAAGUAAUUUCGAA
....---..............(((....((((----((..........((.(((.....-.))).))..((((((((....)))))))).....))))))..)))... ( -16.10)
>DroSim_CAF1 57596 107 + 1
CUUUU-UUUUCAUUCCAUUUAGAAUACAUACUCUUUUUCAAAUCAUUCGUAUAAUCCCCAUUUAGACACGCUGCGUGACCUUAUGCAGCACUUAAAAGUAAUUUCGAA
.....-...............(((....((((................((.(((.......))).))..((((((((....)))))))).......))))..)))... ( -13.80)
>DroEre_CAF1 68631 106 + 1
CCCUU-UUUUAUUACCAUUUAGAAUCCAUCCU-UUUUUCAAAUCAAUCGUAUAAUCCCCAUUUAGACACGCUGCGUGACCUUAUGCAGCACUUAAAAGUAAUUUCGAA
.....-....(((((..(((((..........-...............((.(((.......))).))..((((((((....))))))))..))))).)))))...... ( -13.30)
>DroYak_CAF1 60506 90 + 1
CCAUU-UU----------------UCCAUCCU-UUUUUCAAAUCAAUCGCAUAAUCCCCAUUUAGACACGCUGCGUGACCUUAUGCAGCACUUAAAAGUAAUUUCGAA
.....-..----------------........-.............(((....................((((((((....))))))))(((....))).....))). ( -12.30)
>consensus
CUUUU_UUUUCAUUCCAUUUAGAAUCCAUACU_UUUUUCAAAUCAAUCGUAUAAUCCCCAUUUAGACACGCUGCGUGACCUUAUGCAGCACUUAAAAGUAAUUUCGAA
.....................................................................((((((((....))))))))................... ( -8.88 =  -9.55 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:58 2006