Locus 1399

Sequence ID 2R_DroMel_CAF1
Location 5,412,555 – 5,412,665
Length 110
Max. P 0.861519
window2397

overview

Window 7

Location 5,412,555 – 5,412,665
Length 110
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 74.54
Mean single sequence MFE -26.95
Consensus MFE -19.05
Energy contribution -18.97
Covariance contribution -0.08
Combinations/Pair 1.21
Mean z-score -1.25
Structure conservation index 0.71
SVM decision value 0.83
SVM RNA-class probability 0.861519
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5412555 110 - 20766785
AGCGCAUUUAUCUGCUCAUCCGCCCUAAGAAGGGCAAGGAUCCUCAGGAGCGCAUCAAGGAUAUAUUCCAGAAUGUGGUAAGCAGGG-------UGGGAAUU-AUGGAAACUAUAAGA-
..(.(((...((((((..((((((((....))))).((....))..))).(((((...(((.....)))...)))))...)))))))-------)).)..((-(((....).))))..- ( -29.80)
>DroGri_CAF1 13403 110 - 1
AGCGCAUUUAUCUGCUGAUACGGCCCAAGAAGGGCAAGGAUCCACAGGAGCGCAUUAAGGAUAUAUUUCAGAAUGUGGUAAGCAGCC-------UGCGAAAA-GUUGA-AUAAUAAUAA
..((((.....((((((((...((((.....))))....)))......(.((((((..(((.....)))..)))))).).)))))..-------))))....-.....-.......... ( -26.30)
>DroWil_CAF1 6284 103 - 1
AACGUAUUUAUCUGCUCAUACGUCCAAAGAAGGGCAAGGAUCCGCAAGAGCGUAUCAAGGAUAUAUUCCAGAAUGUGGUAGGUUUAG-------UUGCA--------GAAUUAUGAAA-
...(((...((((((.((((.((((......))))...(((.(((....))).)))..(((.....)))....))))))))))....-------.))).--------...........- ( -24.30)
>DroMoj_CAF1 1866 100 - 1
AGCGCAUUUACUUGCUCAUACGCCCCAAGAAGGGCAAGGAUUCGCAGGAGCGCAUUAAGGAUAUAUUCCAGAAUGUGGUAAG-------------GCAAAA----UGA-CUAAUGAAA-
...(((......)))((((..((((......))))........((...(.((((((..(((.....)))..)))))).)...-------------))....----...-...))))..- ( -26.30)
>DroAna_CAF1 1477 90 - 1
AACGCAUUUAUCUGCUCAUUCGUCCGAAGAAGGGCAAGGAUCCGCAGGAGCGUAUCAAGGAUAUAUUCCAGAAUGUGGUAAUG--UG-------UUG-------------------CA-
((((((((.(((....(((((((((......))))...(((.(((....))).)))..(((.....))).))))).)))))))--))-------)).-------------------..- ( -28.20)
>DroPer_CAF1 1971 118 - 1
AACACAUUUAUCUGCUCAUUCGCCCCAAGAAGGGCAAGGAUCCACAGGAGCGCAUCAAGGAUAUAUUCCAGAACGUGGUAAGCAGUGGCAGCCUUGGAAAUUAAUGCGAAUUAUGAAA-
.................(((((((((.....)))(((((..((((....((..((((.(((.....)))......))))..)).))))...))))).........)))))).......- ( -26.80)
>consensus
AACGCAUUUAUCUGCUCAUACGCCCCAAGAAGGGCAAGGAUCCGCAGGAGCGCAUCAAGGAUAUAUUCCAGAAUGUGGUAAGCAGUG_______UGGAAA______GA_AUUAUGAAA_
..(((((((....((((....((((......))))..(....)....)))).......(((.....))).))))))).......................................... (-19.05 = -18.97 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:52 2006