Locus 4139

Sequence ID 2R_DroMel_CAF1
Location 13,601,271 – 13,601,363
Length 92
Max. P 0.720307
window6664

overview

Window 4

Location 13,601,271 – 13,601,363
Length 92
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 90.10
Mean single sequence MFE -27.70
Consensus MFE -25.78
Energy contribution -26.28
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.21
Structure conservation index 0.93
SVM decision value 0.40
SVM RNA-class probability 0.720307
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13601271 92 + 20766785
-------------------GGCAAAAAGUGAGCUACGUGCAGAUGCCUCACCUGUGAUAGAGGUGAUUAACAGGAUUUGCAGCCGGCAGAGCAACCAAUCUGCUACUUUUA
-------------------(((....((....))...(((((((.((((((((.......))))))......))))))))))))((((((........))))))....... ( -28.00)
>DroSec_CAF1 148981 92 + 1
-------------------GGCAAAAAGUGAGCUACGUGCAGAUGCCUCACCUGUGAUAGAGGUGAUUAACAGGAUUUGCAGCCGGCAGAGCAACCAAUCUGCUACUUUUA
-------------------(((....((....))...(((((((.((((((((.......))))))......))))))))))))((((((........))))))....... ( -28.00)
>DroSim_CAF1 147366 92 + 1
-------------------GGCAAAAAGUGAGCUACGUGCAGAUGCCUCACCUGUGAUAGAGGUGAUUAACAGGAUUUGCAGCCGGCAGAGCAACCAAUCUGCUACUUUUG
-------------------(((....((....))...(((((((.((((((((.......))))))......))))))))))))((((((........))))))....... ( -28.00)
>DroEre_CAF1 144334 92 + 1
-------------------GGCAAAAAGUGAGCUACGUGCAGAUGCCUCACCUGUGAUAGAGGUGAUUAACAGGAUUUGCAGCCGGCAGAGCUACCAAUCUGCUACUUUUG
-------------------(((....((....))...(((((((.((((((((.......))))))......))))))))))))((((((........))))))....... ( -28.00)
>DroYak_CAF1 148705 92 + 1
-------------------GGCAAAAAGUGAGCUACGUGCAGAUGCCUCACCUGUGAUAGAGGUGAUUAACAGGAUUUGCAGCCGGCAGAGCAACCAAUCUGCUUCUUUUA
-------------------(((....((....))...(((((((.((((((((.......))))))......))))))))))))((((((........))))))....... ( -27.40)
>DroAna_CAF1 141118 111 + 1
UCAGCUUUUCUAUGGCCCCGGCAAAAAGUGAGCUACGUGCAGAUGCCGCACCUGUGAUAGAGGUGAUUAACAGGAUUUGCAGCCAGCAUAGCAACCAAUCUGCCACUCGUU
..(((((.......((....)).......)))))..((((((((...((.(((((..............)))))...(((.....)))..)).....))))).)))..... ( -26.78)
>consensus
___________________GGCAAAAAGUGAGCUACGUGCAGAUGCCUCACCUGUGAUAGAGGUGAUUAACAGGAUUUGCAGCCGGCAGAGCAACCAAUCUGCUACUUUUA
...................(((....((....))...(((((((.((((((((.......))))))......))))))))))))((((((........))))))....... (-25.78 = -26.28 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:45 2006