Locus 10200

Sequence ID 3R_DroMel_CAF1
Location 27,366,451 – 27,366,554
Length 103
Max. P 0.977676
window16242

overview

Window 2

Location 27,366,451 – 27,366,554
Length 103
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 87.14
Mean single sequence MFE -28.77
Consensus MFE -25.72
Energy contribution -25.75
Covariance contribution 0.03
Combinations/Pair 1.05
Mean z-score -2.41
Structure conservation index 0.89
SVM decision value 1.80
SVM RNA-class probability 0.977676
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27366451 103 - 27905053
UCCAAGCGAAACGAUCCAUGUACAACU------ACAGAACCAAAUUGGGCGUAAUAUUAUGCCCAGGCUGGGUGAAAUAUGAGCUGAGAAAAUUUUAUUUCAGCUUUGU
((((.((...........((((....)------)))........(((((((((....)))))))))))))))........(((((((((........)))))))))... ( -28.50)
>DroGri_CAF1 51209 101 - 1
--------ACGUGUUCCAGGUCCAGCACCGUUGCCAGCGCCAAAUUGGGCGUAAUAUUAUGCCCAGCCUGGGUGAAAUAUGAGCUGAGAAAAUUUUAUUUCUGCUUUGU
--------.((((((.(((((.....)))....((((.((.....((((((((....)))))))))))))).)).))))))(((.((((........)))).))).... ( -28.90)
>DroSim_CAF1 76092 103 - 1
UCCAAGCGAAACGAUCCAAGUACAACU------ACAGAACCAAAUUGGGCGUAAUAUUAUGCCCAGGCUGGGUGAAAUAUGAGCUGAGAAAAUUUUAUUUCAGCUUUGU
((((.((............(((....)------)).........(((((((((....)))))))))))))))........(((((((((........)))))))))... ( -27.70)
>DroEre_CAF1 76470 103 - 1
UCCAAGCGAAACGAUCCAAGUACAACU------ACAAAACCAAAUUGGGCGUAAUAUUAUGCCUAGGCUGGGUGAAAUAUGAGCUGAGAAAAUUUUAUUUCAGCUUUGU
...........................------.((...(((..(((((((((....)))))))))..))).))......(((((((((........)))))))))... ( -25.50)
>DroYak_CAF1 69385 103 - 1
UUCAAGCGAAACGAUCCGAGUACAACU------ACAGAACCAAAUUGGGCGUAAUAUUAUGCCCAGGCUGGGUGAAAUAUGAGCUGAGAAAAUUUUAUUUCAGCUUUGU
((((...............(((....)------))....(((..(((((((((....)))))))))..))).))))....(((((((((........)))))))))... ( -28.70)
>DroAna_CAF1 81669 99 - 1
----ACCCAACCGAUCCAAGUACAAGU------ACGAAGCCAAAUUGGGCGUAAUAUUAUGCCCAGGCUGGGUGAAAUAUGAGCUGAGAAAAUUUUAUUUCAGCUUUGC
----((((...........(((....)------))..((((....((((((((....)))))))))))))))).......(((((((((........)))))))))... ( -33.30)
>consensus
UCCAAGCGAAACGAUCCAAGUACAACU______ACAGAACCAAAUUGGGCGUAAUAUUAUGCCCAGGCUGGGUGAAAUAUGAGCUGAGAAAAUUUUAUUUCAGCUUUGU
.......................................(((..(((((((((....)))))))))..))).........(((((((((........)))))))))... (-25.72 = -25.75 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:51:15 2006