Locus 2634

Sequence ID 2R_DroMel_CAF1
Location 9,303,048 – 9,303,164
Length 116
Max. P 0.573456
window4342

overview

Window 2

Location 9,303,048 – 9,303,164
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 67.55
Mean single sequence MFE -22.38
Consensus MFE -12.62
Energy contribution -13.71
Covariance contribution 1.09
Combinations/Pair 1.37
Mean z-score -1.25
Structure conservation index 0.56
SVM decision value 0.08
SVM RNA-class probability 0.573456
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9303048 116 + 20766785
AGAUUCACUUACAGAAAAACAAAAAGUAC----ACAUGUGCAACAGGACACUAUGAGUUGUCUGUUAAUUGAAGGCUAUUUAUUUGCAAAAAGGAGCCUUACUCAUUAACUCAUCGAAAU
...(((...................((((----....))))....(((((........)))))((((((..((((((.(((........)))..))))))....)))))).....))).. ( -19.50)
>DroSec_CAF1 187844 118 + 1
AGGUUCACUUCCAGAA-AACAAAACGUACAUACAUAUGUGGAACAGGACACUAUGAGGUGUCUGUUAAUUGAAGGCUAUUUAUUUGCAA-AAGAAGCCUUACUCAUUAACUCAUCGAAAU
...(((..((((....-.((.....))((((....))))))))..(((((((....)))))))((((((..((((((.(((........-))).))))))....)))))).....))).. ( -23.20)
>DroSim_CAF1 173929 118 + 1
AGGUUCACUUCCAGAA-AACAAAAAGUACAUACAUAUGUGCAACAGGACACCAUGAGGUGUCUGUUAAUUGAAGGCUAUUUAUUUGCAA-AAGAAGCCUUACUCAUUAACUCAUCGAAAU
.((.......))....-........((((((....))))))....(((((((....)))))))((((((..((((((.(((........-))).))))))....)))))).......... ( -28.00)
>DroEre_CAF1 173519 92 + 1
AGGUUUACUUCCACAAAAACG---------------------------CACUGCGAAGUCUUUGUUACUUGAAGGCUAUUUGUUUGUAA-AAGGAGCCUUACUCGUUAACUCAUUGAAUU
((((((.(((..(((((..((---------------------------(...))).((((((((.....)))))))).....)))))..-)))))))))..................... ( -17.60)
>DroYak_CAF1 172310 109 + 1
AGGUUUACUUCCACGAAAGUGAAGA----------AUGUGCAACAGGACACUGAAAAGUGUCUGUUAAUUGAAGGCUAUUUAUUUGUAA-AAGGAGCCUUACUCAUUAACUCAUUGAAUU
..((((((((((((....)))..))----------).))).))).(((((((....)))))))((((((..((((((.((((....)))-)...))))))....)))))).......... ( -30.30)
>DroPer_CAF1 152881 91 + 1
AGA---ACUUCCAUUACAAUC----------------------CAAGCUAUAGAGAAACGCCAGUUAAGUGGAGGCUCUCCGACACGAG-AAUGAGCCUUUGACAUUGACUCCCCCA---
...---...............----------------------...................((((((.(..((((((((((...)).)-)..))))))..)...))))))......--- ( -15.70)
>consensus
AGGUUCACUUCCAGAAAAACAAAAA__________AUGUGCAACAGGACACUAUGAAGUGUCUGUUAAUUGAAGGCUAUUUAUUUGCAA_AAGGAGCCUUACUCAUUAACUCAUCGAAAU
.............................................(((((((....)))))))((((((..((((((.................))))))....)))))).......... (-12.62 = -13.71 +   1.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:04 2006