Locus 3056

Sequence ID 2R_DroMel_CAF1
Location 10,520,269 – 10,520,380
Length 111
Max. P 0.606766
window5033

overview

Window 3

Location 10,520,269 – 10,520,380
Length 111
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 83.69
Mean single sequence MFE -28.84
Consensus MFE -18.76
Energy contribution -18.96
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.84
Structure conservation index 0.65
SVM decision value 0.15
SVM RNA-class probability 0.606766
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10520269 111 + 20766785
CCACUACAUACAUGGUUGUUCCUCCUCCUGCUUUUUACACCUGCUGGCUACUAAUAUACACAUAAGUGUGUCUGCACACGUGGCCAGUGCGACGUGAACA-----ACUGCCAUGCA--
..........(((((((((((..(.((..((...........(((((((((...(((....))).(((((....)))))))))))))))))).).)))))-----...))))))..-- ( -31.00)
>DroSec_CAF1 21204 93 + 1
------------------UGCCUCAUCCUCCUUUUUACACCUCCUGACUACUAAUAUACACAUAAGUGUGUCUGCACACGUGGCCAGUGCGACGUGAACA-----ACUGCCAUGCA--
------------------.((............................................(((((....)))))(((((.(((............-----)))))))))).-- ( -16.40)
>DroSim_CAF1 16412 107 + 1
CCACUAC----AUGGUUGUGCCUCAUCCUCCUUUUUACACCUGCUGGCUACUAAUAUACACAUAAGUGUGUCUGCACACGUGGCCAGUGCGACGUGAACA-----ACUGCCAUGCA--
......(----(((((.((.......................(((((((((...(((....))).(((((....)))))))))))))).....(....).-----)).))))))..-- ( -29.60)
>DroEre_CAF1 23744 109 + 1
CCACUGC----AUG-UUGUGCCAGC---UCCUU-UCACACCUCCUGGCUACUAAUAUACACAUAAGUGUGUCUGAACACGUGGCCAGUGCGACGUGAACAGCGCGACUGCCAUGCACA
....(((----(((-..((((..((---(...(-((((..(.(((((((((....((((((....))))))........)))))))).).)..))))).))))).))...)))))).. ( -33.40)
>DroYak_CAF1 21481 104 + 1
CCACUGC----AUGGCUGUGGCAGC---UCCUUUUUACACCUCCUGGCUACUAAUAUACACAUAAGUGUGUCUGAACACGUGGCCAGUGCGACGUGAACA-----ACUGCCAUGCA--
.....((----(((((.((((....---.))......(((.((((((((((....((((((....))))))........))))))))...)).)))....-----)).))))))).-- ( -33.80)
>consensus
CCACUAC____AUGGUUGUGCCUCCUCCUCCUUUUUACACCUCCUGGCUACUAAUAUACACAUAAGUGUGUCUGCACACGUGGCCAGUGCGACGUGAACA_____ACUGCCAUGCA__
............................................((((.......((((((....)))))).....(((((.((....)).)))))............))))...... (-18.76 = -18.96 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:12 2006