Locus 4276

Sequence ID 3R_DroMel_CAF1
Location 11,403,487 – 11,403,607
Length 120
Max. P 0.856538
window6946

overview

Window 6

Location 11,403,487 – 11,403,607
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.45
Mean single sequence MFE -39.70
Consensus MFE -27.86
Energy contribution -28.02
Covariance contribution 0.16
Combinations/Pair 1.10
Mean z-score -2.11
Structure conservation index 0.70
SVM decision value 0.81
SVM RNA-class probability 0.856538
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11403487 120 - 27905053
AGGACCUCGCAGGGUGGGAAAAGAGGAGGGCUCGGCCUUGCAGGGCACAAUGUGGUUGAUGAUAAGGAUUAACCACACAGAGUUGGUCUUAUCCCGGCCACAAAAAAAUAUGAGUGUGUG
...((..(((.((.(((((...((((..(((((.((((....))))....((((((((((.......))))))))))..)))))..)))).))))).)).((........)).))).)). ( -39.30)
>DroSec_CAF1 151134 119 - 1
AGGACCUCGCAGGGUGGGAAAAGAGGUGGACUCGGCCUUGCAGGGCACAAUGUGGUUGACGAUAAGGAUUAACCACACAGAGUUGGGCUUAUCCCGGCCACAAA-AAAUAUGAGCGGGUG
...(((.(((.((.(((((...(((.(.(((((.((((....))))....((((((((((......).)))))))))..))))).).))).))))).)).((..-.....)).)))))). ( -44.90)
>DroSim_CAF1 142609 118 - 1
AGGACCUCGCAGGGUGGGAAAAGAGGAGGACUCGGCCUUGCAGGGCACAAUGUGGUUGACGAUAAGGAUUAACCACACAGAGUUGGACUUAUCCCGGCCACAA--AAAUAUGAGCGGGUG
...(((.(((.((.(((((...(((...(((((.((((....))))....((((((((((......).)))))))))..)))))...))).))))).)).((.--.....)).)))))). ( -42.40)
>DroEre_CAF1 139232 108 - 1
AGGACCUCGCCGGGUGGGAAAAGGGCAGGACUCGGCCUUGCAGGGCACAAUGUGGUUGAGGAUAAGGAUUAGGCACGCGGAAAUGUGCUUAUCUCGGCCACAAA--AA-GG---------
.(..((..((.((((.((.............)).)))).))..))..)..(((((((((((........((((((((......)))))))))))))))))))..--..-..--------- ( -36.32)
>DroYak_CAF1 142329 109 - 1
AGGACCUCGCAGGGUGGGAAAGGCGCAGGGAUCGGCCUUGCAGGACACAAUGUGGUCGCUGAUAAGGAUUAACCACACGGAGUUGGGCUUAUCCGGUCAGCAAA--AAUAU---------
..((((..(((..((((......)((((((.....))))))....)))..)))))))((((((..((((...(((........)))....)))).))))))...--.....--------- ( -35.60)
>consensus
AGGACCUCGCAGGGUGGGAAAAGAGGAGGACUCGGCCUUGCAGGGCACAAUGUGGUUGACGAUAAGGAUUAACCACACAGAGUUGGGCUUAUCCCGGCCACAAA_AAAUAUGAG_G_GUG
....(((.(((((((.((.............)).))))))))))......((((((((..((((((......(((........))).)))))).)))))))).................. (-27.86 = -28.02 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:18 2006