Locus 2057

Sequence ID 2R_DroMel_CAF1
Location 7,730,298 – 7,730,392
Length 94
Max. P 0.669661
window3411 window3412

overview

Window 1

Location 7,730,298 – 7,730,392
Length 94
Sequences 3
Columns 94
Reading direction forward
Mean pairwise identity 83.40
Mean single sequence MFE -23.77
Consensus MFE -16.62
Energy contribution -16.52
Covariance contribution -0.11
Combinations/Pair 1.11
Mean z-score -1.84
Structure conservation index 0.70
SVM decision value 0.15
SVM RNA-class probability 0.605269
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7730298 94 + 20766785
AUUUAAGGUGACACACGGUUGCUAUGUCUGCACUUGACGCUUUGGUCCGUUGAUGCGCACACUUAUGUACAUACAUAUGUAUGUGUGCAAUAUA
......((..((.....))..))......(((.(..(((........)))..))))((((((....((((((....))))))))))))...... ( -24.50)
>DroSec_CAF1 20216 77 + 1
AUUUAAGG-GACACACGGUUGCCAUGUCUGCACUUGACGCGUUGGUCCUUUGAUGCGCAUAC----------------AUAUGUGUGCAAUAUA
..((((((-(((..(((((((...((....))..)))).)))..)))))))))((((((((.----------------...))))))))..... ( -23.40)
>DroSim_CAF1 18582 77 + 1
AUUUAAGG-GACACACGGUUGCCAUGUCUGCACUUGACGCGUUGGUCCUUUGAUGCGCAUAC----------------AUAUGUGUGCAAUAUA
..((((((-(((..(((((((...((....))..)))).)))..)))))))))((((((((.----------------...))))))))..... ( -23.40)
>consensus
AUUUAAGG_GACACACGGUUGCCAUGUCUGCACUUGACGCGUUGGUCCUUUGAUGCGCAUAC________________AUAUGUGUGCAAUAUA
......((.(((.....))).))..(((.......)))((((..(....)..))))((((((....................))))))...... (-16.62 = -16.52 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 7,730,298 – 7,730,392
Length 94
Sequences 3
Columns 94
Reading direction reverse
Mean pairwise identity 83.40
Mean single sequence MFE -19.73
Consensus MFE -16.57
Energy contribution -17.63
Covariance contribution 1.06
Combinations/Pair 1.04
Mean z-score -1.56
Structure conservation index 0.84
SVM decision value 0.29
SVM RNA-class probability 0.669661
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7730298 94 - 20766785
UAUAUUGCACACAUACAUAUGUAUGUACAUAAGUGUGCGCAUCAACGGACCAAAGCGUCAAGUGCAGACAUAGCAACCGUGUGUCACCUUAAAU
.....(((((.(((((.(((((....))))).)))))..........(((......)))..)))))((((((.......))))))......... ( -22.80)
>DroSec_CAF1 20216 77 - 1
UAUAUUGCACACAUAU----------------GUAUGCGCAUCAAAGGACCAACGCGUCAAGUGCAGACAUGGCAACCGUGUGUC-CCUUAAAU
......((((((..((----------------((.(((((.......(((......)))..))))).))))(....).)))))).-........ ( -18.20)
>DroSim_CAF1 18582 77 - 1
UAUAUUGCACACAUAU----------------GUAUGCGCAUCAAAGGACCAACGCGUCAAGUGCAGACAUGGCAACCGUGUGUC-CCUUAAAU
......((((((..((----------------((.(((((.......(((......)))..))))).))))(....).)))))).-........ ( -18.20)
>consensus
UAUAUUGCACACAUAU________________GUAUGCGCAUCAAAGGACCAACGCGUCAAGUGCAGACAUGGCAACCGUGUGUC_CCUUAAAU
....((((((.((((((((((......))))))))))..........(((......)))..))))))((((((...))))))............ (-16.57 = -17.63 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:11 2006