Locus 9305

Sequence ID 3R_DroMel_CAF1
Location 24,776,328 – 24,776,448
Length 120
Max. P 0.772051
window14874

overview

Window 4

Location 24,776,328 – 24,776,448
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.17
Mean single sequence MFE -23.88
Consensus MFE -23.12
Energy contribution -22.40
Covariance contribution -0.72
Combinations/Pair 1.12
Mean z-score -1.28
Structure conservation index 0.97
SVM decision value 0.53
SVM RNA-class probability 0.772051
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24776328 120 + 27905053
UUGAUGCUGUGAAAAUUUGCUAAAAUAACUGCAGACACAAACACGCACGCGAAUCGACACAUACUUGGGCAAAAGCAAUUAAACUGCUAAAACCACAUUUUGUGCGAGAAAUAAUUGCGA
....((((((.....(((((..........))))).....))).)))(((((.(((.((((....(((.....((((.......))))....))).....))))))).......))))). ( -25.30)
>DroSec_CAF1 7498 120 + 1
UUGAUGCUGUGAAAAUUUGCUAAAAUAACUGCAGACACAAACACGCGCGCGAAUCGACACAUACUUGGGCAAAAGUAAUUAAACUGCUAAAACCACAUUUUGUGCGAGAAAUAAUUGCGA
.....(((((.....(((((..........))))).....))).)).(((((.(((.((((....(((.....((((.......))))....))).....))))))).......))))). ( -22.30)
>DroSim_CAF1 2896 120 + 1
UUGAUGCUGUGAAAAUUUGCUAAAAUAACUGCAGACACAAACACGCACGCGAAUCGACACAUACUUGGGCAAAAGCAAUUAAACUGCUAAAACCACAUUUUGUGCGAGAAAUAAUUGCGA
....((((((.....(((((..........))))).....))).)))(((((.(((.((((....(((.....((((.......))))....))).....))))))).......))))). ( -25.30)
>DroEre_CAF1 16411 120 + 1
UUGAUGCUGUGAAAAUUUGCUAAAAUAACUACAGACACAACCACGCACGCGAAUCGACACAUACUUGGGCAAAAGCAAUUAAACUGCUAAAACCACAUUUUGUGCGAGAAAUAAUUGCGA
(((.(((((((...((((....))))...))))).)))))...((((......(((.((((....(((.....((((.......))))....))).....)))))))........)))). ( -23.44)
>DroYak_CAF1 7985 120 + 1
UUGAUGCUGUGAAAAUUUGCUAAAAUAACUACGGACACAAACACGCACGCGAAUCGACACAUACUUGGGCAAAAGCAAUUAAACUGCUAAAACCACAUUUUGUGCGAGAAAUAAUUGCGA
(((.(((((((...((((....))))...))))).)))))...((((......(((.((((....(((.....((((.......))))....))).....)))))))........)))). ( -23.04)
>consensus
UUGAUGCUGUGAAAAUUUGCUAAAAUAACUGCAGACACAAACACGCACGCGAAUCGACACAUACUUGGGCAAAAGCAAUUAAACUGCUAAAACCACAUUUUGUGCGAGAAAUAAUUGCGA
(((.(((((((...((((....))))...))))).)))))...((((......(((.((((....(((.....((((.......))))....))).....)))))))........)))). (-23.12 = -22.40 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:31:07 2006