Locus 1389

Sequence ID 3L_DroMel_CAF1
Location 4,041,340 – 4,041,439
Length 99
Max. P 0.606089
window2159

overview

Window 9

Location 4,041,340 – 4,041,439
Length 99
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 78.87
Mean single sequence MFE -38.05
Consensus MFE -24.16
Energy contribution -23.67
Covariance contribution -0.49
Combinations/Pair 1.48
Mean z-score -1.42
Structure conservation index 0.63
SVM decision value 0.15
SVM RNA-class probability 0.606089
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4041340 99 - 23771897
GAGCUGUGAUUGUGGCUCAAUCUUGGCCGCUUGUUCGGGGGGCAAGUAAUUGAGCUUGCCUGCACCUGAGUCCUCGACGUCC-AGUAG----AGCUGGAGGCGG
((((..(....)..))))........(((((...(((((((((((((......))))))))...)))))(((...))).(((-((...----..)))))))))) ( -39.40)
>DroVir_CAF1 22810 102 - 1
CAGUUGCGUUUGUGGCUGUAUCUUGGCGGCCUGUUCGGGUGGCAAAUAGUUGAGCUUACCUACGCCUGAGCCCA-GAUUUGC-AGUGGCCAAAUUUGGUGGCUC
((((..(....)..)))).........((((.(((((((((......((.....))......)))))))))(((-(((((((-....).))))))))).)))). ( -34.70)
>DroSec_CAF1 20644 99 - 1
GAGCUGUGAUUGUGGCUCAAUCUUGGCCGCUUGUUCGGGUGGCAAGUAAUUUAGCUUGCCUGCGCCUGAGUCCUCGACGUCC-AGUAG----AGCUGGUGGCGG
((((..(....)..)))).......((((((.(((((((((((((((......)))))))...))))..(((...)))....-....)----))).)))))).. ( -38.80)
>DroEre_CAF1 24022 99 - 1
GAGCUGUGAUUGUGGCUCAAUCUUGGCCGCUUGUUCGGGGGGCAAGUAAUUCAGCUUGCCAGCGCCUGAAUCCUCGAUAUCC-AGUAG----AGCUGGUGGCGG
((((..(....)..))))........(((((.(((((((.(((((((......)))))))....))))))).........((-((...----..)))).))))) ( -37.70)
>DroYak_CAF1 21774 99 - 1
GAGCUGUGAUUGUGGCUCAAUCUUGGCCGCUUGUUCGGGUGGCAAGUAAUUCAGCUUGCCAGCGCCGGAAUCCUCGACGUCC-AGCAG----AGCUGGUGGUGG
((((..(....)..)))).......((((((.((((.(.((((((((......)))))))).)((.(((..........)))-.)).)----))).)))))).. ( -40.60)
>DroAna_CAF1 22570 96 - 1
GAGCUGUCCCUGGGGCUCAAUCUUUGCUGCCUGUUCUGGCGGCAGAUAAUUCAGCUUACCCACACCAGUGUCCAGGGAUUCCAAGGAG----AG----UGGCAG
..(((((((((((((((.(((.(((((((((......)))))))))..))).))))....(((....))).))))))))((....)).----..----.))).. ( -37.10)
>consensus
GAGCUGUGAUUGUGGCUCAAUCUUGGCCGCUUGUUCGGGUGGCAAGUAAUUCAGCUUGCCUGCGCCUGAGUCCUCGACGUCC_AGUAG____AGCUGGUGGCGG
((((..(....)..))))........(((((.(((((((.(((((((......)))))))....)))))))............(((.......)))...))))) (-24.16 = -23.67 +  -0.49)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:16 2006