Locus 3040

Sequence ID 3R_DroMel_CAF1
Location 8,087,329 – 8,087,446
Length 117
Max. P 0.705141
window4914

overview

Window 4

Location 8,087,329 – 8,087,446
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.75
Mean single sequence MFE -26.86
Consensus MFE -23.50
Energy contribution -23.86
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -1.31
Structure conservation index 0.88
SVM decision value 0.36
SVM RNA-class probability 0.705141
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8087329 117 - 27905053
UCAAGCCAAAUAAAGGGCAGUCCUUAAACAGCAUUCGACUGUCCCAGAUCGAGAUAGCCCUGUCCGCUGCAGAUAUACAAACAAAUAAAUCAUAUCAGAGGUAAAGGGAUCUCCGA---C
..............((((((((..............))))))))....(((((((..((((..((.(((..(((.((........)).)))....))).))...)))))))).)))---. ( -26.84)
>DroSec_CAF1 12246 117 - 1
UCAAGCCAAAUAAAGGGCAGUCCUUAAACAGCAUUCGACUGUCCCAGAUCGAGAUAACCCUGUCCGCUGCAGAUAUACAAACAAAUAAAUCAUAUCAGAGGUAGAGGGAUCUCCGA---C
..............((((((((..............))))))))....(((((((..((((.(((.(((..(((.((........)).)))....))).)).).)))))))).)))---. ( -27.04)
>DroSim_CAF1 11082 117 - 1
UCAAGCCAAAUAAAGGGCAGUCCUUAAACAGCAUUCGACUGUCCCAGAUCGAGAUAACCCUGUCCGCUGCAGAUAUACAAACAAAUAAAUCAUAUCAGAGGCAAAGGGAUCUCCGA---C
..............((((((((..............))))))))....(((((((..((((....(((...(((((...............)))))...)))..)))))))).)))---. ( -26.40)
>DroEre_CAF1 14026 120 - 1
UCAAGCCAAAGAAAGGGCAGUCCUUAAACAGCAUUCGACUGUCCCAGAUCGAGAUAGCCCCGUCCGCUGCAGAUAUACAAACAAAUAAAUCAUAUCAGAGGUAAAGGGAUCCUCCAUGCC
...(((....((..((((.((......))....((((((((...))).)))))...))))..)).)))((((((((...............))))).((((.........))))..))). ( -23.26)
>DroYak_CAF1 7384 117 - 1
UCAAGCCAAAUAAAGGGCAGUCCUUAAACAGCAUUCGACUGUCCCAGAUCGAGAUAGCCCUGUCCGCUGCAGAUAUACAAAUAAAUAAAUCAUAUCAGGGGUAAAGGGAUCCUCGA---G
..............((((((((..............))))))))....(((((....((((..((.(((..(((.((........)).)))....))).))...))))...)))))---. ( -30.74)
>consensus
UCAAGCCAAAUAAAGGGCAGUCCUUAAACAGCAUUCGACUGUCCCAGAUCGAGAUAGCCCUGUCCGCUGCAGAUAUACAAACAAAUAAAUCAUAUCAGAGGUAAAGGGAUCUCCGA___C
..............((((((((..............))))))))......(((((..((((..((.(((..(((.((........)).)))....))).))...)))))))))....... (-23.50 = -23.86 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:13 2006