Locus 4154

Sequence ID 2R_DroMel_CAF1
Location 13,664,858 – 13,664,972
Length 114
Max. P 0.868616
window6682

overview

Window 2

Location 13,664,858 – 13,664,972
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.98
Mean single sequence MFE -54.05
Consensus MFE -33.98
Energy contribution -33.26
Covariance contribution -0.72
Combinations/Pair 1.34
Mean z-score -1.72
Structure conservation index 0.63
SVM decision value 0.86
SVM RNA-class probability 0.868616
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13664858 114 + 20766785
CCAGUUGCGGGCACUUACCGACCUCCGCAUCGAGAUACUGUCGCCAGGUGACUGUGGGAGGCGGCGGGGCCUGCAGCGAGCUGCGACGCGGCAGCUCCGGCAGUG------AGAUGCCAU
...(((((((((.((..(((.(((((((..((......))..))(((....)))..))))))))..)))))))))))(((((((......))))))).((((...------...)))).. ( -61.90)
>DroVir_CAF1 23376 120 + 1
CCAGUGGCGGGCAUUUACCCACGGGCGCAUUUAUAUACUCCGACCAGGUGAUCGUUGUGGUGGGCGGCGGCUGCAGCGAGCUGCGACGCGGCAGCUCUGGCAAUGUUAGGGUACUGCCAG
....((((((.....(((((.((((.(.((....)).))))).(((((...((((((..((.(....).))..))))))(((((......))))))))))........))))))))))). ( -46.40)
>DroEre_CAF1 22735 114 + 1
CUAACUGUGGGCACUUACCGACCUCCGCAUCGAGAUACUGCCUCCAGGUGACUGUGGGAGGUGGCGGAGCCUGCAGCGAGCUGCGGCGCGGUAGCUCCGGCAGCG------AGAUGCCAU
....(((..(((.((..((.((((((.((..(((.......)))(((....))))))))))))).)).)))..))).(((((((......))))))).((((...------...)))).. ( -50.20)
>DroYak_CAF1 21825 114 + 1
CCAGUUGUGGGCACUUACCGACCUCCGCAUCGAGAUACUGCCGCCAGGUAACUGUGGGAGGUGGCGGAGCCUGCAGAGAGCUGCGGCGCGGCAGUUCCGGCAGUG------AGAUGCCAU
......((.((......)).))....(((((....(((((((.((((....))).)((((.((.((..(((.((((....))))))).)).)).)))))))))))------.)))))... ( -46.50)
>DroMoj_CAF1 23574 120 + 1
CCAGCUGUGGGCAUUUGCCCACGGGCGCUUCAAUAUACUGCGACCAGGUGACCGUCGUGGUAGGCGGCGGUGGCAGCGAGCUGCGACGCGGCAGCUCUGGCAAUGUUAGAUUGCUGCCAU
....((((((((....)))))))).((((.(....(((..((((..(....).))))..))).).))))(((((((((((((((......)))))((((((...)))))))))))))))) ( -62.50)
>DroAna_CAF1 21140 114 + 1
CGAGUUGCGGGCACUUGCCAACCUCGGCAUCGAGGUACUGACGCCAGGUGACCGUGGUGGCUGGCGGUGCCUGCAGCGAACUGCGUCGUGGCAGCUCUGGUAGGG------UGAUACCAU
...((((((((((((.((((((((((....)))))).....((((((....)..)))))..))))))))))))))))((.((((......)))).))(((((...------...))))). ( -56.80)
>consensus
CCAGUUGCGGGCACUUACCGACCUCCGCAUCGAGAUACUGCCGCCAGGUGACCGUGGGAGGUGGCGGAGCCUGCAGCGAGCUGCGACGCGGCAGCUCCGGCAGUG______AGAUGCCAU
...(((((((((..(((((...........................)))))((((........)))).)))))))))(((((((......))))))).((((............)))).. (-33.98 = -33.26 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:02 2006