Locus 2516

Sequence ID X_DroMel_CAF1
Location 6,685,720 – 6,685,828
Length 108
Max. P 0.968243
window4112

overview

Window 2

Location 6,685,720 – 6,685,828
Length 108
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 60.33
Mean single sequence MFE -26.10
Consensus MFE -12.30
Energy contribution -13.18
Covariance contribution 0.87
Combinations/Pair 1.24
Mean z-score -2.07
Structure conservation index 0.47
SVM decision value 1.62
SVM RNA-class probability 0.968243
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6685720 108 - 22224390
AUCCCGCCCCCUUUUGGGGUCAUAAAUUUAAAAAUAAGUAUGCUCGCA--UAAUG-GGCGCUUGUACUGCGAGCACUCAGUUUUUUUCACCCCGAAACGCUGACAGU-------GCUA
....(((((((....))))..............((((((..(((((..--...))-)))))))))...)))((((((((((...((((.....)))).)))))..))-------))). ( -30.80)
>DroSec_CAF1 15487 95 - 1
AUCCCACC-CCUUUUGGGGCCAUAAAUUUAAAAAUAAGUAUGCUCGCA--UAAUG-GGCGCUUGCACUGCAAGCACUCACUU-UUUUCUCCCCGAAA------------------CUA
........-..((((((((...................((((....))--)).((-((.((((((...)))))).))))...-......))))))))------------------... ( -24.80)
>DroYak_CAF1 15177 97 - 1
UUCCCACC-CCU-UUGGGGCCAUAAAUUUAAAAAUAAGUAUGCUCACA--UAAUG-GCCGCUUGUAGUGUGAGCACU---------UUUCCCCGAAACGCCGGCAGU-------GCUA
....(((.-(((-((((((......(((((....))))).((((((((--(.(..-(....)..).)))))))))..---------...))))))).....))..))-------)... ( -23.90)
>DroAna_CAF1 15975 101 - 1
GACUCGUU-UCU-UGCCGGCAAUCAGUCUAAAUAUAAA--CGCCUACAUUUAAUGAGGCGUUUGU----UGGGCAUU---------UUCUCUUGCUUUGUUCGGUUUGUUUUAGACUC
((.((...-.(.-.((((((((...........(((((--(((((.(((...)))))))))))))----..((((..---------......))))))).)))))..).....)).)) ( -24.90)
>consensus
AUCCCACC_CCU_UUGGGGCCAUAAAUUUAAAAAUAAGUAUGCUCACA__UAAUG_GGCGCUUGUACUGCGAGCACU_________UCUCCCCGAAACGCUGGCAGU_______GCUA
.............((((((......(((((....)))))..(((((((..(((........)))...)))))))...............))))))....................... (-12.30 = -13.18 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:41 2006