Locus 5109

Sequence ID 3R_DroMel_CAF1
Location 13,453,276 – 13,453,381
Length 105
Max. P 0.524084
window8331

overview

Window 1

Location 13,453,276 – 13,453,381
Length 105
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 81.14
Mean single sequence MFE -40.87
Consensus MFE -30.65
Energy contribution -30.29
Covariance contribution -0.36
Combinations/Pair 1.26
Mean z-score -1.16
Structure conservation index 0.75
SVM decision value -0.02
SVM RNA-class probability 0.524084
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13453276 105 - 27905053
CUGAGCAGCUGCAGCGGCAGCUGCGUGUCCAGAUGGCUAAGGAGGUAGUUGCGGUCCUCGCGACGGCCCAGCUGCCGGUACAGCGGCAGCUCUGCGGAUGAGCAA
....((.((((.(.(((((((((....(((..........)))(((.((((((.....)))))).)))))))))))).).)))).)).((((.......)))).. ( -48.50)
>DroPse_CAF1 8342 105 - 1
CUGAGCAACUGCAGCGGUAGCUGGGUGUCCAGAUGGCUGAGUAUAUAGUUACGGUCCUCGCGCCGUCCCAGUUGCUGGUACAGUGGCAGCUCUAGAGACAGACAA
((((((.((((.(.(((((((((((.......(((((((((.((.........)).)))).)))))))))))))))).).))))....)))).)).......... ( -36.81)
>DroSim_CAF1 3404 105 - 1
CUGAGCAACUGCAGCGGCAGCUGCGUGUCCAGAUGGCUAAGAAGGUAGUUGCGGUCCUCGCGACGGCCCAGCUGCCGGUACAGCGGCAACUCUGCGGAUGAGCAA
.((..((.(((((((((((((((...(((.....)))......(((.((((((.....)))))).)))))))))))).......(....).)))))).))..)). ( -43.50)
>DroEre_CAF1 1 89 - 1
CUGAGCAGCUGCAGCGGCAGCUGCGUGUCCAGGUGGCUGAGGAGGUAGUUGCGGUCCUCGCGACGACCCAGCUGCCGGUACAGCGGCAA----------------
(((.((((((((....)))))))).....)))((.((((....((((((((.((((........))))))))))))....)))).))..---------------- ( -45.40)
>DroYak_CAF1 1 89 - 1
CUGAGCAGCUGCAGUGGCAUCUGCGUGUCCAGAUGGCUAAGGAGGUAGUUGCGGUCCUCGCGACGUCCCAGCUGCCGGUACAGCGGCAA----------------
....((.((((.(.(((((((((......)))))((((..(((....((((((.....)))))).))).)))))))).).)))).))..---------------- ( -34.50)
>DroPer_CAF1 4961 105 - 1
CUGAGCAACUGCAGCGGUAGCUGGGUGUCCAGAUGGCUGAGUAUAUAGUUACGGUCCUCGCGCCGUCCCAGUUGCUGGUAUAGCGGCAGCUCUAGAGACAGACAA
((((((..(((((.(((((((((((.......(((((((((.((.........)).)))).)))))))))))))))).)...))))..)))).)).......... ( -36.51)
>consensus
CUGAGCAACUGCAGCGGCAGCUGCGUGUCCAGAUGGCUAAGGAGGUAGUUGCGGUCCUCGCGACGUCCCAGCUGCCGGUACAGCGGCAACUCU___GA____CAA
....((.((((.(.(((((((((.(((((..((.((((..............)))).))..)))).).))))))))).).)))).)).................. (-30.65 = -30.29 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:26 2006