Locus 4786

Sequence ID X_DroMel_CAF1
Location 12,442,399 – 12,442,513
Length 114
Max. P 0.569664
window7834

overview

Window 4

Location 12,442,399 – 12,442,513
Length 114
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 73.30
Mean single sequence MFE -31.10
Consensus MFE -22.36
Energy contribution -23.03
Covariance contribution 0.67
Combinations/Pair 1.12
Mean z-score -0.78
Structure conservation index 0.72
SVM decision value 0.07
SVM RNA-class probability 0.569664
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12442399 114 - 22224390
AUUCCUAACUACACCGAUUAGUUUUGAAUUUCUUUAUAUCGGACUUACUGCGGUUGCGUUGCAUCUUGAACAUGUUCGACUGCAGCUUGGGCUGCGGUCCGCCGGGAACGGCCG
((((..(((((.......)))))..))))...........(((((....((((((..((((((..(((((....))))).))))))...)))))))))))((((....)))).. ( -36.10)
>DroSec_CAF1 6636 103 - 1
AUUCCUAACUAU----------GAUAAAUUUCGUAAUAUCG-ACUUACUGCGGUUGCGUUGCAUCUUGAACAUGUUCGACUGCAGCUUGGGCUGCGGUCCGCCGGGAACGGCCG
.........(((----------((......)))))......-....(((((((((..((((((..(((((....))))).))))))...)))))))))..((((....)))).. ( -32.70)
>DroSim_CAF1 9369 98 - 1
AUUCCUAACU---------------AAAUUUCGUAAUAUCG-ACUUACUGCGGUUGCGUUGCAUCUUGAACAUGUUCGACUGCAGCUUGGGCUGCGGUCCGCCGGGAACGGCCG
..........---------------.......(((((..((-(((......))))).))))).....(((....)))(((((((((....))))))))).((((....)))).. ( -32.30)
>DroEre_CAF1 5475 87 - 1
UUUCUCAACU-----------------------A---AUCG-ACUUACUUCGGUUGCGUUGCAUCUUGAACAUGUUCGACUGCAGCUUGGGCUGCGGUCCGCCGGGAGUGGCCG
.....(((((-----------------------(---((((-(......))))))).))))......(((....)))(((((((((....))))))))).((((....)))).. ( -29.60)
>DroYak_CAF1 8580 103 - 1
UUUCUUAACAACACUGAUGGG-------UUUUUA---GAGG-ACUUACUUCGGUUGCGUUGCAUCUUGAACAUGUUCGACUGCAGCUUGGGCUGCGGUCCGCCGGGAGCGGCCG
........(((((((((((((-------(((...---..))-)))))..)))))...))))......(((....)))(((((((((....))))))))).((((....)))).. ( -34.10)
>DroMoj_CAF1 8211 100 - 1
AUUGGCAACAACAUUGGCUAG----------CUG---CAAC-ACCUACUGCGAUUGCGUUUAAUUUUGAACAUGUUCGAUUGAAGCUUUGGCUGCGAGCCACCAGGCACCGUUG
.(((....)))...(((((.(----------(.(---(...-.......((....))((((....(((((....)))))...))))....)).)).)))))............. ( -21.80)
>consensus
AUUCCUAACUAC________________UUUCUU___AUCG_ACUUACUGCGGUUGCGUUGCAUCUUGAACAUGUUCGACUGCAGCUUGGGCUGCGGUCCGCCGGGAACGGCCG
..............................................(((((((((..((((((..(((((....))))).))))))...)))))))))..((((....)))).. (-22.36 = -23.03 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:07 2006