Locus 2800

Sequence ID 2R_DroMel_CAF1
Location 9,751,537 – 9,751,643
Length 106
Max. P 0.825947
window4634

overview

Window 4

Location 9,751,537 – 9,751,643
Length 106
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 80.93
Mean single sequence MFE -20.31
Consensus MFE -13.52
Energy contribution -14.35
Covariance contribution 0.83
Combinations/Pair 1.11
Mean z-score -2.05
Structure conservation index 0.67
SVM decision value 0.70
SVM RNA-class probability 0.825947
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9751537 106 - 20766785
----------UACAGCCAAAUAACAAAUCCGAUGAAAAUCGCAAAUCUCACAGCCAAAAAAAUCGGAAACAGCACAACAAGGAUCAUGUUGAUAAGCAUUCCCACGCUGAGAGGCA
----------....(((............((((....))))......((.((((..........(....)..........(((..(((((....))))))))...)))).))))). ( -23.10)
>DroVir_CAF1 140 110 - 1
UUAUUACUUUUCAAGCCAAAU---AAGUCGGAGGAAACACGCAAAUCUCACACACAAAAGAAUAGGAAACAGCAU---AAGGAACAUGUUGAUAAACAUUCCCAAGCGGAAAAACA
.......(((((.........---........(....).(((......................(....).....---..(((..(((((....))))))))...))))))))... ( -15.90)
>DroGri_CAF1 569 103 - 1
CA----------UAGCCAAAU---AAAUCGGAGGAAACACGCAAAUCUCACACUCAAAAGAAUAGGAAGCAUCAUAGUAAGGACCAUGUUGAUAAACAUUCCCAAGCGGAAAAACA
..----------.........---...((...(....).(((.....((....((....))....)).............(((..(((((....))))))))...)))))...... ( -10.90)
>DroSim_CAF1 608 106 - 1
----------UUCAGCCAAAUAACAAAUCCGAUGAAAAUCGCAAAUCUCACAGCCAAAAAAAUCGGAAACAGCACAACAAGGAUCAUGUUGACAAGCAUUCCCACGCUGAGAGGCA
----------....(((............((((....))))......((.((((..........(....)..........(((..(((((....))))))))...)))).))))). ( -23.10)
>DroEre_CAF1 611 103 - 1
----------UUUAGCCAAAUAAUAAAUCCGAUGAAAAUCGCAAAUCUCACAGCCAAAAAAGUCGGAAACAGCAC---AAGGAUCAUGUUGACAAGCAUUCCCACGCUGAGAGGCA
----------....(((..........((((((.......((..........)).......))))))..((((..---..(((..(((((....))))))))...))))...))). ( -24.84)
>DroYak_CAF1 611 103 - 1
----------UUCAGCCAAAUAAUAAAUCCGAUGAAAAUCGCAAAUCUCACAGCCAAAAAAGUCGGAAACAGCAC---AAGGAUCAUGUGGACAAGCAUUCCCACGCUGAGAGGCA
----------....(((............((((....))))....((((............((((....)..(((---(.......))))))).(((........)))))))))). ( -24.00)
>consensus
__________UUCAGCCAAAUAA_AAAUCCGAUGAAAAUCGCAAAUCUCACAGCCAAAAAAAUCGGAAACAGCAC___AAGGAUCAUGUUGACAAGCAUUCCCACGCUGAGAGGCA
..............(((.............(((....))).....((((...............(....)..........(((..(((((....))))))))......))))))). (-13.52 = -14.35 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:48 2006