Locus 3898

Sequence ID 3L_DroMel_CAF1
Location 11,286,415 – 11,286,523
Length 108
Max. P 0.518186
window6071

overview

Window 1

Location 11,286,415 – 11,286,523
Length 108
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 77.01
Mean single sequence MFE -25.82
Consensus MFE -13.66
Energy contribution -13.26
Covariance contribution -0.40
Combinations/Pair 1.22
Mean z-score -1.74
Structure conservation index 0.53
SVM decision value -0.03
SVM RNA-class probability 0.518186
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11286415 108 + 23771897
UUCGAAAAAUAUACAUUCUUA-----------AAUUCGAUUUUCCUCAGGUUGCCGUCAUUCCGCUGACUGCGAUUUUCAUGGCUAUUCAUAUGUUAAGCGAGUGGUAUUUCACACUAU
...(..((((((.(((((...-----------...............(((((((.((((......)))).))))))).....(((...(....)...))))))))))))))..)..... ( -18.10)
>DroSec_CAF1 10629 108 + 1
UUCGAAAAAUAUACAUUCUCG-----------AUUUCGAUUUUCCUCAGGUUGCCGUCAUUCCGCUGACUGCGAUUUUCAUGGCCAUUCAUAUGCUAAGUGAGUGGUAUUUCACACUAU
...((((......(((..(((-----------....)))........(((((((.((((......)))).)))))))..)))(((((((((.......))))))))).))))....... ( -24.70)
>DroSim_CAF1 13410 119 + 1
UUCGAAAAAUAUACGUUCUUAGAUCGUAAUACUUUUGGAUUUUCCUCAGGUUGCCGUCAUUCCGCUGACUGCGAUUUUCAUGGCCAUUCAUAUGUUAAGUGAGUGGUAUUUCACACUAU
...((((......(((....((((((((..((((..((.....))..))))....((((......))))))))))))..)))(((((((((.......))))))))).))))....... ( -27.60)
>DroEre_CAF1 10932 117 + 1
--AGUGUUCCAUACAUAGUUAUAUUGUACUACUUUUCAAACCUCCCCAGGUUGCAGUCAUUCCGCUGACUGCGAUCUUCAUGGUUAUUCAUGAGCUAACCGAAUGGUAUUUCACACUCU
--(((((....((((.........)))).((((.(((..........((((((((((((......))))))))))))((((((....)))))).......))).))))....))))).. ( -30.90)
>DroYak_CAF1 648 119 + 1
UAAAAAUACUAUACAUUGUUAUAUCGUAACACUGUACAAUUUUCCACAGGUUGCAGUCAUUCCGCUGACUGCGUUUUUCAUGGUUAUUCACGGGCUAACCAAGUGGUACUUCACACUGU
...........((((.((((((...)))))).)))).........((((...(((((((......)))))))........((((((.(.....).)))))).((((....)))).)))) ( -27.80)
>consensus
UUCGAAAAAUAUACAUUCUUA_AU_GUA__ACUUUUCGAUUUUCCUCAGGUUGCCGUCAUUCCGCUGACUGCGAUUUUCAUGGCUAUUCAUAUGCUAAGCGAGUGGUAUUUCACACUAU
...............................................(((((((.((((......)))).))))))).....(((((((...........)))))))............ (-13.66 = -13.26 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:30 2006