Locus 5200

Sequence ID X_DroMel_CAF1
Location 13,591,166 – 13,591,285
Length 119
Max. P 0.584611
window8432

overview

Window 2

Location 13,591,166 – 13,591,285
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.05
Mean single sequence MFE -35.90
Consensus MFE -24.83
Energy contribution -25.33
Covariance contribution 0.50
Combinations/Pair 1.19
Mean z-score -1.18
Structure conservation index 0.69
SVM decision value 0.10
SVM RNA-class probability 0.584611
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13591166 119 - 22224390
GGCGAGGAUUAGGCGCUGCUUGAGGAAGUUGCUGCCGCGGUAAAUCAGGCAAUUGCCCUCCUGGGCAAUGGGCGGCAUUUUAUAGGCUCUAAACGCACCAAUAAAUCAAAG-AAUUUAGC
((.(.(..(((((.(((...(((((....(((((((((..........)).(((((((....))))))).))))))))))))..)))))))).).).))............-........ ( -34.50)
>DroSim_CAF1 7873 119 - 1
GGCGAGGAUUAGGCGCUGCUUGAGGAAGUUGCUGCCGCGGUAAAUCAGGCAAUUGCCCUCCUGGGCAAUGGGCGGCAUCUUUUAGGCUCCAAAUGCUUCAAUUAAUCAAGA-AAUUUAGC
...(((((((.((.(((....(((((...(((((((((..........)).(((((((....))))))).))))))))))))..))).)).))).))))............-........ ( -39.30)
>DroEre_CAF1 6901 119 - 1
GGCGAGGAUUAGGCGCUGCUUGAGGAAGUUGCUGCCGCGGUAAAUGAGGCAAUUGCCCUCCUGGGCAAUGGGCGGCAUCUUAGAGGCUUCAAAUGCUCCUAUUAUUCAAGA-AAUUCAAC
...(((...((((.((...(((((((((.(((((((((..........)).(((((((....))))))).))))))).))).....))))))..)).))))...)))....-........ ( -41.10)
>DroYak_CAF1 6534 119 - 1
GGCGAGGAUUAGGCGCUGCUUGAGAAAGUUGCUGCCGCGGUAAAUGAGGCAAUUGCCCUCCUGGGCAAUGGGCGGCAUCUUAGAGGCUCUAAAUGCUCUAAAUAAUAAAGC-AAUUUUAC
...(((.(((.((.(((..((((((....(((((((((..........)).(((((((....))))))).))))))))))))).))).)).))).))).............-........ ( -39.90)
>DroMoj_CAF1 12498 114 - 1
GGAUAGCACAAGGCGCUGCUUCAGGAAAUUGCUGCCGCGAUAUAUUAGGCAAUUGCCUUCCUGUGCAAUUGGCGGCAUAAUUUCUUAUUAUAUUUAUAAACAC----AA-A-AAAGAAAC
(((((((.......)))).)))(((((((((.((((((.(((((..((((....))))...))))....).))))))))))))))).................----..-.-........ ( -28.60)
>DroAna_CAF1 14627 120 - 1
GGAGAGGAUCAGGCGCUGUUUGAGGAAGUUACUGCCGCGGUAAAUCAGGCAAUUGCCCUCCUGGGCAACGGGCGGCAUUGUCAGGUCAAUAAAUGCUUCCAAAAGUGAAAAAAAAUAAGC
.....(((...(((((((((((..........((((...........)))).((((((....))))))))))))))((((......))))....)))))).................... ( -32.00)
>consensus
GGCGAGGAUUAGGCGCUGCUUGAGGAAGUUGCUGCCGCGGUAAAUCAGGCAAUUGCCCUCCUGGGCAAUGGGCGGCAUCUUAUAGGCUCUAAAUGCUCCAAAUAAUCAAGA_AAUUUAAC
.((.....((((((...))))))..(((.(((((((((..........)).(((((((....))))))).))))))).)))....))................................. (-24.83 = -25.33 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:09 2006