Locus 3317

Sequence ID 2R_DroMel_CAF1
Location 11,303,006 – 11,303,100
Length 94
Max. P 0.796925
window5427 window5428

overview

Window 7

Location 11,303,006 – 11,303,100
Length 94
Sequences 4
Columns 94
Reading direction forward
Mean pairwise identity 92.55
Mean single sequence MFE -24.00
Consensus MFE -20.09
Energy contribution -20.28
Covariance contribution 0.19
Combinations/Pair 1.11
Mean z-score -1.84
Structure conservation index 0.84
SVM decision value 0.60
SVM RNA-class probability 0.796925
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11303006 94 + 20766785
GAUGCAGUCGCAUUCACACACAGCCAGAAAAUUGAUGGGCGAAAGGCGGAAAAAGCGUGAGAGUAAAACACAGUCUGACUGCAAUAAACGUGAC
..(((((((...(((((.....(((............))).....((.......))))))).((.....)).....)))))))........... ( -20.80)
>DroSec_CAF1 90292 94 + 1
GAUGCAGUCGCACUCACACACAGCCAGAAAAUUGAUGGGCGAAAGGCGGAAAAAGCGUGAGAGUAAAACACAGUCUGACUGCAAUAAACGUGAC
..(((((((...(((((.....(((............))).....((.......))))))).((.....)).....)))))))........... ( -23.30)
>DroSim_CAF1 93953 94 + 1
GAUGCAGUCGCACUCACACACAGCCAGAAAAUUGAUGGGCGAAAGGCGGAAAAAGCGUGAGAGUAAAACACAGUCUGACUGCAAUAAACGUGAC
..(((((((...(((((.....(((............))).....((.......))))))).((.....)).....)))))))........... ( -23.30)
>DroEre_CAF1 91466 86 + 1
GAUGCAGCCGCACUC--------CCAGAAAAUUGAUGGGGGAAAGGCGGAAAAAGCGUGAGAGUGAAACACAGUCUGGCUGCAAUAAGCGUGAC
.((((..((((.(((--------(((.........))))))....)))).....((((.(((.((.....)).))).)).)).....))))... ( -28.60)
>consensus
GAUGCAGUCGCACUCACACACAGCCAGAAAAUUGAUGGGCGAAAGGCGGAAAAAGCGUGAGAGUAAAACACAGUCUGACUGCAAUAAACGUGAC
..(((((((...(((((.....(((............))).....((.......))))))).((.....)).....)))))))........... (-20.09 = -20.28 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 11,303,006 – 11,303,100
Length 94
Sequences 4
Columns 94
Reading direction reverse
Mean pairwise identity 92.55
Mean single sequence MFE -23.56
Consensus MFE -19.42
Energy contribution -20.43
Covariance contribution 1.00
Combinations/Pair 1.16
Mean z-score -1.89
Structure conservation index 0.82
SVM decision value 0.59
SVM RNA-class probability 0.792919
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11303006 94 - 20766785
GUCACGUUUAUUGCAGUCAGACUGUGUUUUACUCUCACGCUUUUUCCGCCUUUCGCCCAUCAAUUUUCUGGCUGUGUGUGAAUGCGACUGCAUC
(((.(((((((((((((((((..(((.........)))((.......)).................)))))))))).))))))).)))...... ( -24.00)
>DroSec_CAF1 90292 94 - 1
GUCACGUUUAUUGCAGUCAGACUGUGUUUUACUCUCACGCUUUUUCCGCCUUUCGCCCAUCAAUUUUCUGGCUGUGUGUGAGUGCGACUGCAUC
...........(((((((((((...))))(((((.(((((.......(((...................))).))))).))))).))))))).. ( -23.61)
>DroSim_CAF1 93953 94 - 1
GUCACGUUUAUUGCAGUCAGACUGUGUUUUACUCUCACGCUUUUUCCGCCUUUCGCCCAUCAAUUUUCUGGCUGUGUGUGAGUGCGACUGCAUC
...........(((((((((((...))))(((((.(((((.......(((...................))).))))).))))).))))))).. ( -23.61)
>DroEre_CAF1 91466 86 - 1
GUCACGCUUAUUGCAGCCAGACUGUGUUUCACUCUCACGCUUUUUCCGCCUUUCCCCCAUCAAUUUUCUGG--------GAGUGCGGCUGCAUC
...........(((((((.((..(((...)))..))...........((..(((((.............))--------))).))))))))).. ( -23.02)
>consensus
GUCACGUUUAUUGCAGUCAGACUGUGUUUUACUCUCACGCUUUUUCCGCCUUUCGCCCAUCAAUUUUCUGGCUGUGUGUGAGUGCGACUGCAUC
(((.(((((((((((((((((..(((.........)))((.......)).................)))))))))).))))))).)))...... (-19.42 = -20.43 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:33 2006