Locus 396

Sequence ID X_DroMel_CAF1
Location 1,170,586 – 1,170,701
Length 115
Max. P 0.852680
window599

overview

Window 9

Location 1,170,586 – 1,170,701
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.68
Mean single sequence MFE -35.80
Consensus MFE -20.28
Energy contribution -23.92
Covariance contribution 3.64
Combinations/Pair 1.11
Mean z-score -2.22
Structure conservation index 0.57
SVM decision value 0.79
SVM RNA-class probability 0.852680
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1170586 115 + 22224390
AUCUUUAACUCGCUAUGGCAUGGCCAAGUUUAAUGGCUUGGCUAUGUGCCAUUGCACAGGGCCU-----CCCCUUGACGCUCCUCAAUUCGCCAUUCGCCGCUUGGAAGCGGGGCUUUCA
...........((.((((((((((((((((....)))))))))..))))))).)).(((((...-----..)))))..(((((.......((.....)).(((....))))))))..... ( -41.50)
>DroSec_CAF1 6600 108 + 1
AUCUUUAACUCGCUAUGGCAUGGCCAAGUUUAAUGGCUUGGCUAUGUGCCAUUGCACAGGGCCU-----CCCCUUGACGCUCCUCGCUUCG-------CCGCUUUGAAGCGGGGCUUUCA
...........((.((((((((((((((((....)))))))))..))))))).)).(((((...-----..))))).....((((((((((-------......))))))))))...... ( -45.60)
>DroSim_CAF1 7038 105 + 1
AUCUUUAACUCGCUAUGGCAUGGCCAAGUUUAAUGGCUUGGCUAUGUGCCAUUGCACAG-GCCU-----CCUCUUGACGCUC-UCGAUUCG--------CGCUUCGAAGCGGGGCUUUCA
...........((.((((((((((((((((....)))))))))..))))))).))..((-((((-----(((.((((.((.(-.......)--------.)).)))))).)))))))... ( -40.50)
>DroEre_CAF1 5749 97 + 1
AUCUUUAACUCGC------AUGUCCAAGUUGAAUGG-----UUAUGUGCCAUUGCACAGGGUUU-----CCCCUUGAAGCUCCACGAUUCG-------CCGCCUUGUAGCGGGGCUUUCA
.............------..((((.....((((.(-----(..(((((....)))))((((((-----(.....))))).)))).)))).-------.(((......)))))))..... ( -25.10)
>DroYak_CAF1 8514 103 + 1
AUCUUUAACUCGCU-----GUGUCCAACUAUAAUGG-----UUAUGUGCCAUUGCACAGGGUUUCCUUUCCCCUUGAAGCUCCGCGAUUCG-------CCGCCUUGUGCCGGGGCUUUCA
..............-----..((((......(((((-----(.....))))))(((((((((...((((......))))....(((...))-------).)))))))))..))))..... ( -26.30)
>consensus
AUCUUUAACUCGCUAUGGCAUGGCCAAGUUUAAUGGCUUGGCUAUGUGCCAUUGCACAGGGCCU_____CCCCUUGACGCUCCUCGAUUCG_______CCGCUUUGAAGCGGGGCUUUCA
.................(((((((((((((....)))))))))))))(((...((.(((((..........)))))..))..................(((((....))))))))..... (-20.28 = -23.92 +   3.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:27 2006