Locus 5847

Sequence ID 3L_DroMel_CAF1
Location 15,767,868 – 15,767,985
Length 117
Max. P 0.591652
window9327

overview

Window 7

Location 15,767,868 – 15,767,985
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.05
Mean single sequence MFE -36.64
Consensus MFE -25.83
Energy contribution -25.71
Covariance contribution -0.12
Combinations/Pair 1.07
Mean z-score -2.02
Structure conservation index 0.70
SVM decision value 0.12
SVM RNA-class probability 0.591652
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15767868 117 + 23771897
AGGC---GGCAGCUGCUCCGCUCCAGCUCCAGCUCCAGCUCCUGACCAAUUAAUAUUUCUCUUGGCGUAAUCAUGAGCUGGAAAAUUUAUAGUUCCGUGGAAGCGCCGGCCAACAUUGUU
.(((---(((.(((..(((((....((....))((((((((.(((((((............)))).....))).))))))))..............))))))))))).)))......... ( -38.60)
>DroSec_CAF1 19479 111 + 1
AGGC---GGCAGCUGCUCCGCUCCAGC------UCCAGCUCCUGACCAAUUAAUAUUUCUCUUGGCGUAAUCAUGAGCUGAAAAAUUUAUAGUUCUGUGGAAGCGCCGGCCAACAUUGUU
.(((---(((((..(((..((....))------...)))..))).))...............((((((..((((((((((.........)))))).))))..)))))))))......... ( -31.80)
>DroSim_CAF1 21054 114 + 1
AGGCGGCGGCAGCUGCUCCGCUCCAGC------UCCAGCUCCUGACCAAUUAAUAUUUCUCUUGGCGUAAUCAUGAGCUGGAAAAUUUAUAGUUCCGUGGAAGCGCCGGCCAACAUUGUU
.((((((((.(((......))))).((------((((((((.(((((((............)))).....))).))))))))..........(((....)))))))).)))......... ( -36.90)
>DroEre_CAF1 19763 105 + 1
AGGC---GGCAGCUGCUCCGCUGC------------AGCUCCUGACCAAUUAAUAUUUCUCUUGGCGUAAUCAUGAGCUGGAAAAUUUAUAGUUCCGUGGAAGCGCCGGCCAACAUUGUU
.(((---((.((((((......))------------))))))....................((((((..((((((((((.........))))).)))))..)))))))))......... ( -35.20)
>DroAna_CAF1 15873 109 + 1
AGGC---GGCAGCAGCU--GCUCCUGC------UGCGGCUCCUGCCCAAUUAAUAUUUCUUUUGGCGUAAUCAUGAGCUGGAAAAUUUAUAGUUACGUGGAAGCGCCGCCCAACCUUGUU
.(((---(((((.((((--((......------.)))))).))))).................(((((..((((((((((.........))))).)))))..)))))))).......... ( -40.70)
>consensus
AGGC___GGCAGCUGCUCCGCUCCAGC______UCCAGCUCCUGACCAAUUAAUAUUUCUCUUGGCGUAAUCAUGAGCUGGAAAAUUUAUAGUUCCGUGGAAGCGCCGGCCAACAUUGUU
.(((...(((((..(((...................)))..))).))...............((((((..((((((((((.........))))).)))))..)))))))))......... (-25.83 = -25.71 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:01 2006