Locus 1162

Sequence ID 3L_DroMel_CAF1
Location 3,357,702 – 3,357,819
Length 117
Max. P 0.830290
window1809

overview

Window 9

Location 3,357,702 – 3,357,819
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 90.43
Mean single sequence MFE -37.36
Consensus MFE -28.30
Energy contribution -30.70
Covariance contribution 2.40
Combinations/Pair 1.07
Mean z-score -2.00
Structure conservation index 0.76
SVM decision value 0.71
SVM RNA-class probability 0.830290
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3357702 117 + 23771897
GGCGUCAGAAGAGUGCGGCUAUAUGUCUGCAGGCCGCGACUAUCGGACCACUAUCGAUAGGCGGAUGCAGCUGAAAAAGGUAGCUAGAAAUAGCUGAAAAUGCACUGCAAUCGGUUA
.(.(((.((..(((((((((...((....)))))))).))).)).))))...((((((..((((.((((.((.....)).((((((....))))))....)))))))).)))))).. ( -38.80)
>DroSec_CAF1 24886 117 + 1
GGCGUCAGAAGAGUGCGGCUAUAUGUCUGCAGGCCGCGACUAUCGGACACCUAUCGAUAGACUGAUGCUGCUGACGAAGGUAUCUAGAAAUAGCUGAAAAUGCACUACAAUCGGUUA
((((((((.....(((((((...((....))))))))).(((((((.......))))))).))))))))(((((...(((((((((....)))......)))).))....))))).. ( -35.70)
>DroSim_CAF1 22575 117 + 1
GGCGUCAGAAGAGUGCGGCUAUAUGUCUGCAGGCCGCGACUAUCGGACACCUAUCGAUAGGCUGAUGCAGCUGACGAAGGUAGCUAGAAAUAGCUGGAAAUGCACAACAAUCGGUUA
.(((((((.....(((((((...((....))))))))).(((((((.......))))))).)))))))(((((((....)((((((....))))))..............)))))). ( -41.40)
>DroEre_CAF1 23451 116 + 1
GGCGUCAGAAGAGUGCGGCUAUAUGUCUGCAGGCCGCGACUAUCGGACAAGUAUCGAUAAGCUG-UGCAGCUAAAGAAAGUAGCUGGAAAUAGCUAGAAAUUCACUGCAAUCGGUUG
...(((.((..(((((((((...((....)))))))).))).)).)))....((((((.(((((-(.((((((.......))))))...)))))).(.....)......)))))).. ( -33.70)
>DroYak_CAF1 23436 116 + 1
GGCGUCAGAAGAGUGCGGCUAUAUGUCUGCAGGCCGCGACUAUCGGACCACUAUCGAUAAGCGGAUGCAGCUAAAGAAAAUAGCUAGAAAUAGCUA-AAAUACACCGCAAUCGGUUA
..........((.(((((((.((.(.(((((..((((...((((((.......)))))).)))).)))))))).))....((((((....))))))-.......))))).))..... ( -37.20)
>consensus
GGCGUCAGAAGAGUGCGGCUAUAUGUCUGCAGGCCGCGACUAUCGGACAACUAUCGAUAGGCUGAUGCAGCUGAAGAAGGUAGCUAGAAAUAGCUGAAAAUGCACUGCAAUCGGUUA
.(((((((.....(((((((...((....))))))))).(((((((.......))))))).)))))))............((((((....))))))..................... (-28.30 = -30.70 +   2.40) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:44 2006