Locus 800

Sequence ID 3R_DroMel_CAF1
Location 2,721,411 – 2,721,531
Length 120
Max. P 0.618973
window1274

overview

Window 4

Location 2,721,411 – 2,721,531
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 90.96
Mean single sequence MFE -31.15
Consensus MFE -25.32
Energy contribution -25.52
Covariance contribution 0.20
Combinations/Pair 1.12
Mean z-score -2.10
Structure conservation index 0.81
SVM decision value 0.17
SVM RNA-class probability 0.618973
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2721411 120 - 27905053
UGAGCCAGCCAGGAGCUCAUACAAAUUGAAAUUUCAUUGUUGGCGUAAUCGCCAGCGAUUUGUAAUCGCGAAAUUCAGUGAAUGUGCUCACGUUUAUGUCACAGAAUCACAUGAAUAAUA
............((((.(((....((((((.((((.....(((((....)))))(((((.....)))))))))))))))..))).))))..((((((((.........)))))))).... ( -33.80)
>DroSec_CAF1 31719 117 - 1
UGAGCCAGCCAGGAGCUCAAACAAAUUGAAAUUUCAUUGUUGGCGUAAUCGCCAGCGAUUUGUAAUCGCGAAAUUCAGUGAAUGUGCUCAAGUUUAUGUCACAGAAUCACAUAAAU---A
(((((.(((.....)))...(((.((((((.((((.....(((((....)))))(((((.....)))))))))))))))...)))))))).((((((((.........))))))))---. ( -33.00)
>DroSim_CAF1 32843 117 - 1
UGAGCCAGCCAGGAGCUCAAACAAAUUGAAAUUUCAUUGUUGGCGUAAUCGCCAGCGAUUUGUAAUCGCGAAAUUCAGUGAAUGUGCUCACGUUUAUGUCACAGAAUCACAUGAAU---A
(((((.(((.....)))...(((.((((((.((((.....(((((....)))))(((((.....)))))))))))))))...)))))))).((((((((.........))))))))---. ( -32.80)
>DroEre_CAF1 32955 117 - 1
UGAGCCAGCCAGGAGCUCAAACAAAUUGAAAUUUCAUUGUUGGCGUAAUCGCCAGCCAUUUGUAAUCGCAAAACUCAGUGAAUGUGCUCACGUUUAUGUCACAGAAUCACAUAAAU---A
(((((((..((.(((.((((.....)))).........(((((((....)))))))..(((((....))))).)))..))..)).))))).((((((((.........))))))))---. ( -29.20)
>DroYak_CAF1 32766 117 - 1
UGAGCCAGUCAGGAGCUCAAACAAAUUGAAAUUUCAUUGUUGGCGUAAUCGCCAGCCAUUUGUAAUCGCGAAAUUCAGUGAAUGUGCUCACGCUUAUGUCACAGAAUAACAUGAAU---A
((((((......).))))).(((((((((....)))..(((((((....))))))).))))))..(((.(..((((.((((....((....)).....)))).))))..).)))..---. ( -27.90)
>DroAna_CAF1 31144 114 - 1
UG--GCAGUCAGGAGCACAAACAAAUUGAAUUCGCAUUGUUGGCAUAAUCGCCGGCCAUUUGUAAUCGAGU-AUUCAGUGAAUGUGCUCACGUUUUUGUCACAAAAUCAUAUGUAC---G
((--((((...((((((((.....(((((((.......((((((......)))))).(((((....)))))-)))))))...))))))).)....))))))...............---. ( -30.20)
>consensus
UGAGCCAGCCAGGAGCUCAAACAAAUUGAAAUUUCAUUGUUGGCGUAAUCGCCAGCCAUUUGUAAUCGCGAAAUUCAGUGAAUGUGCUCACGUUUAUGUCACAGAAUCACAUGAAU___A
............((((.((.((((((((......))..(((((((....))))))).))))))..((((........)))).)).))))..((((((((.........)))))))).... (-25.32 = -25.52 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:27 2006