Locus 5821

Sequence ID X_DroMel_CAF1
Location 15,068,037 – 15,068,146
Length 109
Max. P 0.621372
window9447

overview

Window 7

Location 15,068,037 – 15,068,146
Length 109
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 84.73
Mean single sequence MFE -45.74
Consensus MFE -33.82
Energy contribution -35.97
Covariance contribution 2.14
Combinations/Pair 1.19
Mean z-score -2.22
Structure conservation index 0.74
SVM decision value 0.18
SVM RNA-class probability 0.621372
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15068037 109 - 22224390
GGUUGGCUUGUAAAUAU----CCAAGUUGCCAUCACUCGGUGUCGGCUGCUAAAAUUGUAAACUGGCAGCCUGGGGAUACGUUGACGCCGACGUCGGCGG-------CUGGCGUUGGCAC
.((..((.(((.....(----(((....(.((((....)))).)((((((((...........)))))))))))).))).))..))(((((((((((...-------))))))))))).. ( -42.90)
>DroSec_CAF1 29277 109 - 1
GGUUGGCUUGGAAAUAU----CCAAGUUGCCAUCACUCGGUGUCGGCUGCUAAAAUUGUAAACUGGCAGCCUGGGGAUACGUUGACGCCGACGUCGGCGG-------CUGGCGUUGGCAC
(((.((((((((....)----))))))))))........(((((((((((((...........))))))))....)))))......(((((((((((...-------))))))))))).. ( -46.10)
>DroAna_CAF1 21107 103 - 1
---------CGAAAAACCCCGCCAACUUGCCAGCCCUGUCGGCCGGCUGC-AAAAUUGUAAACUGGCAGCCUGGGGAUAAGUUGACGCCAACGCUGGCGA-------CUGGCGUUGGCAC
---------.......(((((((.((...........)).))).((((((-..............)))))).))))..........((((((((..(...-------)..)))))))).. ( -41.44)
>DroSim_CAF1 15621 109 - 1
GGUUGGCUUGGAAAUAU----CCAAGUUGCCAUCACUCGGUGUCGGCUGCUAAAAUUGUAAACUGGCAGCCUGGGGAUACGUUGACGCCGACGUCGGCGG-------CUGGCGUUGGCAC
(((.((((((((....)----))))))))))........(((((((((((((...........))))))))....)))))......(((((((((((...-------))))))))))).. ( -46.10)
>DroEre_CAF1 20178 116 - 1
GGGCUGCUUGAAAACAU----CCAACUUGCCAUCACUCGGUGUCGGCUGCCAAAAUUGUAAACUGGCAGCCUGGGGAUACGUUGACGCCGACGUCGGCGGCUGGCGGCUGGCGUUGGCAC
.(((...(((.......----.)))...)))........(((((((((((((...........))))))))....)))))......((((((((((((.(....).)))))))))))).. ( -49.10)
>DroYak_CAF1 22575 109 - 1
GGUUGGCUUGGAAAAAU----CCAGGCUGCCUUCACUCGAUGUGGGCUGCUAAAAUUUUAGACUGGCAGCCUGGGGAUACGAUGACGCCGACGUCGGCGG-------CUGGCGUUGGCAC
(((.((((((((....)----)))))))))).(((.(((.(.((((((((((...........)))))))))).)....)))))).(((((((((((...-------))))))))))).. ( -48.80)
>consensus
GGUUGGCUUGGAAAUAU____CCAAGUUGCCAUCACUCGGUGUCGGCUGCUAAAAUUGUAAACUGGCAGCCUGGGGAUACGUUGACGCCGACGUCGGCGG_______CUGGCGUUGGCAC
((.((((((((..........))))))))))(((.((((.....((((((((...........)))))))))))))))........(((((((((((..........))))))))))).. (-33.82 = -35.97 +   2.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:11 2006