Locus 2402

Sequence ID 2R_DroMel_CAF1
Location 8,640,569 – 8,640,685
Length 116
Max. P 0.915812
window3976

overview

Window 6

Location 8,640,569 – 8,640,685
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 85.51
Mean single sequence MFE -29.57
Consensus MFE -21.91
Energy contribution -23.47
Covariance contribution 1.56
Combinations/Pair 1.08
Mean z-score -2.23
Structure conservation index 0.74
SVM decision value 1.10
SVM RNA-class probability 0.915812
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8640569 116 + 20766785
AACUACACAGAUGCCAAGGUGAGUGCAGAGUAUACUGCAUACUG----CAUCCGAAGAAAAUAACAUAUGUUAAAAUUCCAAAUCUAGUGCCUAGCUCAAUCCUGGUAUCUGUCGCUGGA
..((((((((((((((.(((((((((((......)))).....(----(((..((.(((..((((....))))...)))....))..))))...)))))..)))))))))))).).))). ( -33.20)
>DroSec_CAF1 20745 110 + 1
AACUACACAGAUGCCAUGGUGAGUGCACAGUAC------UACUG----CAUCAGAAGAAUAUAACAUAUGUAACACUUCCAAAUCUAGUGCAUAGGUCAAUCCUGGUAUCUGUCGAUGGA
..((((((((((((((.(((((((((((.(((.------...))----)....((((..((((.....))))...))))........))))))...)))..)))))))))))).).))). ( -29.10)
>DroSim_CAF1 24422 110 + 1
AACUACACAGAUGUCAUGGUGAGUGCACAGUAC------UACUG----CAUCCGAAGAAUAUAACAUAUGUUACACUUCCAAAUCUAGUGCCUAGCUCAAUCCUGGUAUCUGUCGAUGGA
..((((((((((..((.(((((((((((.(((.------...))----)....((((....((((....))))..))))........))))...)))))..))))..)))))).).))). ( -27.70)
>DroYak_CAF1 20716 114 + 1
AACUACACAGAUGCCAAGGUGAGUCCAUAGUAC------UACUACUACCAUCCGAAUAAAAUGACAUACGUUUCAUUUCCAAACCUAGUGCCUGGGUCAAUCGUGGUAUCUGUCGAUGGA
..((((((((((((((.((((.((...(((...------..)))..))))))(((...((((((........))))))....((((((...))))))...))))))))))))).).))). ( -28.30)
>consensus
AACUACACAGAUGCCAAGGUGAGUGCACAGUAC______UACUG____CAUCCGAAGAAAAUAACAUAUGUUACACUUCCAAAUCUAGUGCCUAGCUCAAUCCUGGUAUCUGUCGAUGGA
..((((((((((((((.(((((((((((((((.......))))..........((((....((((....))))..))))........))))...)))).))).)))))))))).).))). (-21.91 = -23.47 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:13 2006