Locus 1989

Sequence ID X_DroMel_CAF1
Location 5,463,661 – 5,463,758
Length 97
Max. P 0.800520
window3242

overview

Window 2

Location 5,463,661 – 5,463,758
Length 97
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 75.50
Mean single sequence MFE -23.40
Consensus MFE -17.57
Energy contribution -17.18
Covariance contribution -0.38
Combinations/Pair 1.33
Mean z-score -1.05
Structure conservation index 0.75
SVM decision value 0.62
SVM RNA-class probability 0.800520
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5463661 97 - 22224390
UGACUAACCAUC----CCCUUACCCAU-----UUACCCGCCCACGCACAGUGUACAAACUGCAGCUGGAGGCACCGGCUCCAUGUCCACUGCGCUGCCAGCGAACA
............----...........-----.....(((.((.((.(((((.(((...((.((((((.....)))))).))))).))))).))))...))).... ( -25.00)
>DroSec_CAF1 3472 97 - 1
UGACUAACCAUC----CCUUUACCCAU-----UUAACCGCCUCCGCACAGUGUACAAACUGCAGCUGGAGGCACCGGCUCCAUGUCCACUGCGCUGCCAGCGAACA
............----...........-----.....(((..(.((.(((((.(((...((.((((((.....)))))).))))).))))).)).)...))).... ( -24.60)
>DroSim_CAF1 3213 97 - 1
UGACUAACCAUC----CCCUUACCCAU-----UUACCCGCCCCCGUAUAGUGUACAAACUGCAGCUGGAGGCACCGGCUCCAUGUCCACUGCGCUGCCAGCGAACA
............----...........-----.....(((..(.(..(((((.(((...((.((((((.....)))))).))))).)))))..).)...))).... ( -21.00)
>DroEre_CAF1 2460 106 - 1
UGAUUCACCAUCAUCCCCCCUCCCCCUCCUCCUCCACCACCACCACACAGUGUACAAACUGCAGCUGGAGGCACCGGCUCCAUGUCCACUGCGCUGCCAGCGAACA
((((.....))))..................................(((((.(((...((.((((((.....)))))).))))).)))))(((.....))).... ( -20.60)
>DroYak_CAF1 2513 88 - 1
UGAUUAACCAUCAUCCCCCUUCCCC------------------CGCACAGUGUACAAGCUGCAGCUGGAGGCACCGGCUCCAUGUCCAUUGCGCUGCCAGCGAACA
((((.....))))............------------------(((.(((((((...((((.((((((.....)))))).)).))....)))))))...))).... ( -21.80)
>DroPer_CAF1 1444 88 - 1
UCUCUCUCUCUC-------UCUCUU--------GGCA---CUCUCUCUAGUGUACAAGAUCCAGCUGGAGGCCCCGGCCCCGUGUCCGAUGCGGUGCCAGCGCACC
............-------..((((--------((((---((......))))).)))))....(((((.(((....)))((((((...))))))..)))))..... ( -27.40)
>consensus
UGACUAACCAUC____CCCUUACCCAU_____UUACCCGCCCCCGCACAGUGUACAAACUGCAGCUGGAGGCACCGGCUCCAUGUCCACUGCGCUGCCAGCGAACA
............................................((.(((((.(((...((.((((((.....)))))).))))).))))).))............ (-17.57 = -17.18 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:39 2006