Locus 3431

Sequence ID 2R_DroMel_CAF1
Location 11,584,982 – 11,585,094
Length 112
Max. P 0.919082
window5599

overview

Window 9

Location 11,584,982 – 11,585,094
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.54
Mean single sequence MFE -27.16
Consensus MFE -24.12
Energy contribution -24.00
Covariance contribution -0.12
Combinations/Pair 1.08
Mean z-score -1.84
Structure conservation index 0.89
SVM decision value 1.13
SVM RNA-class probability 0.919082
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11584982 112 - 20766785
GGUACUCACGUUAUUGCCACCGCUUUUAUCGUAUUAAAUAAUAAAUGCCAGCCCGCUUAUCGCACCACCAAAGGAAGCGGAAGUGGGCUGCCCC---AA-----AAAAAAAAAGAGAUGA
((((..........)))).......((((((((((........)))))((((((((((.((((.((......))..))))))))))))))....---..-----...........))))) ( -30.20)
>DroSec_CAF1 18562 106 - 1
-GUACUCACGUUAUUGCCAACGCUUUUAUCGUAUUAAAUAAUAAAUGCCAGCCCGCUUAUCGCACCUCCGAAGGAAGCGGAAGUGGGCUGCCCC---AA-----AAAAAAAUAGA-----
-.........(((((......((.(((((..(.....)..))))).))((((((((((.((((.(((....)))..))))))))))))))....---..-----.....))))).----- ( -27.20)
>DroSim_CAF1 21389 105 - 1
-GUACUCACGUUAUUGCCAACGCUUUUAUCGUAUUAAAUAAUAAAUGCCAGCCCGCUUAUCGCACCUCCGAAGGAAGCGGAAGUGGGCUGCCCC---AA-----AA-AAAAUAGA-----
-.........(((((......((.(((((..(.....)..))))).))((((((((((.((((.(((....)))..))))))))))))))....---..-----..-..))))).----- ( -27.20)
>DroEre_CAF1 19455 96 - 1
-GUACUCACGUUAUUGCCACCGCUUUUAUCGUAUUAAAUAAUAAAUGCGAGCCCGCUUAUCGCGCCUCCGAAGGAAGCGGAAGUGGGUUGUCC---AGA--------------------A
-..((((((((....))..(((((((..(((((((........)))))(((..(((.....))).))).))..)))))))..)))))).....---...--------------------. ( -26.90)
>DroYak_CAF1 19375 113 - 1
-GUACUCACGUUAUUGCCACCGCUUUUAUCGUAUUAAAUAAUAAAUGCCAGCCCGCUUAUCGCACCUACGAAGGAAGCGGAAGUGAGCUGCCCCCCAAAAACAAAA-AAAAUAA-----C
-((((((((((....))..(((((((..(((((.............(....)..((.....))...)))))..)))))))..))))).)))...............-.......-----. ( -24.30)
>consensus
_GUACUCACGUUAUUGCCACCGCUUUUAUCGUAUUAAAUAAUAAAUGCCAGCCCGCUUAUCGCACCUCCGAAGGAAGCGGAAGUGGGCUGCCCC___AA_____AA_AAAAUAGA_____
.......(((.((..((....))...)).)))..............((.(((((((((.((((.((......))..)))))))))))))))............................. (-24.12 = -24.00 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:20 2006