Locus 1325

Sequence ID X_DroMel_CAF1
Location 3,959,082 – 3,959,186
Length 104
Max. P 0.500000
window2115

overview

Window 5

Location 3,959,082 – 3,959,186
Length 104
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 67.42
Mean single sequence MFE -25.53
Consensus MFE -6.46
Energy contribution -8.22
Covariance contribution 1.76
Combinations/Pair 1.32
Mean z-score -1.90
Structure conservation index 0.25
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3959082 104 - 22224390
UUGAUUUUGCUUACCGAUAGUUGGGAAACCAGCUCUUA--------------UUGAUUUUGGGGCUAAAAAUGUAAGCCAUGCAAAUGAAGUUAACGUUUAAAAACAAGUCAAUUCCU--
((((((((((...((((..(((((....)))))((...--------------..))..))))((((.........))))..)))))..........(((....)))..))))).....-- ( -23.00)
>DroSec_CAF1 9233 106 - 1
UCGACUUUGCUUAUCGAUAGUUGGGAAACCAGAUUUUA--------------UUGAUUUUGGGGCUAAAAAUGUAAGCCAUGCAAGCAAAGUUAACGUCUCAAUAUAAGUCAAGUCCUUA
..((((((((((((((((((((((....))))...)))--------------))))).....((((.........))))....))))))))))........................... ( -27.50)
>DroSim_CAF1 9434 88 - 1
UUGACUUUGCUUAUCGAUAGUUGGGAAACCAGAUC-----------------UUGAUUUUGGGGCUAAAAAUGUAAGCCAUGCAAGCAAAGUUAACGUUUCAAU---------------G
(((((((((((((((((...((((....))))...-----------------))))).....((((.........))))....)))))))))))).........---------------. ( -27.80)
>DroEre_CAF1 9467 116 - 1
UUGACUUU----AUCGAUAGUUAGGAAAACAAUUUUUAGAUGGCAGCGCUGAAAGAUUUUGGCGCUAAAAACUUCAUCCAUGCGGUUGAAAUUAAACUUCCAAAAUAAGUCAAGUGUAUG
(((((((.----......((((......................(((((..((....))..)))))......((((.((....)).))))....))))........)))))))....... ( -23.46)
>DroYak_CAF1 9373 120 - 1
UUGACUUUAUUUAUCGAUAGUUAGGAAACCAGUUUGUAGAUGGCAGCGCAGAAUUAUUUUGGCGCUAAAAAUUUUAGCAUUGCCGUUGAAUUUUAAAUUCCAAAAUAAGUCAAAUGUUUA
(((((((((((....))))....((((...........(((((((((.((((.....))))))(((((.....)))))..)))))))..........)))).....)))))))....... ( -25.90)
>consensus
UUGACUUUGCUUAUCGAUAGUUGGGAAACCAGAUUUUA______________UUGAUUUUGGGGCUAAAAAUGUAAGCCAUGCAAGUGAAGUUAACGUUUCAAAAUAAGUCAAGUCCUUA
(((((((((.........((((((....))))))............................((((.........)))).......)))))))))......................... ( -6.46 =  -8.22 +   1.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:35 2006