Locus 3796

Sequence ID 3L_DroMel_CAF1
Location 10,956,433 – 10,956,547
Length 114
Max. P 0.799555
window5918

overview

Window 8

Location 10,956,433 – 10,956,547
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 73.61
Mean single sequence MFE -47.12
Consensus MFE -18.49
Energy contribution -19.38
Covariance contribution 0.89
Combinations/Pair 1.15
Mean z-score -2.11
Structure conservation index 0.39
SVM decision value 0.61
SVM RNA-class probability 0.799555
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10956433 114 + 23771897
CCGUUAGGCGCUCUCCGUCUUGACAACCAGUGGCAUGGGUCCACCCAGGGUUAGGCCCGGCUGG------GACUUCUGCAGCAGUUCCUCCUGCAGUAGACUCAUCGGAUUCAUGGGUAG
((((((((((.....)).)))))).........(((((((((.(((((((.....)))...)))------)...(((((.((((......)))).)))))......)))))))))))... ( -40.70)
>DroVir_CAF1 80735 96 + 1
CCGUUAGGCGCUCUCCGUCUUUACCACAAUCGGCAUGGGUCCGCCCAGGCCGA------GCGGC------GAUUUUUGCAGCAGUUCCUCCUGCUGCAGCAGCAUUGG------------
(((....((((((.((((...........(((((.((((....)))).)))))------)))).------))....((((((((......)))))))))).))..)))------------ ( -38.90)
>DroPse_CAF1 92813 117 + 1
CUGUUAGGCGCUCUCCGUCUUUACCACCAUGGGCAUGGGGCCGCCGAGGCUCAGUCCUGCCUGGGCGGAUGACUUUUGCAGGAGCUCCUCCUGCAGGAGACUCAU---GUUCAUGGGCGA
..((.(((((.....)))))..))..(((((((((((((.(((((.((((........)))).)))))....((((((((((((...)))))))))))).)))))---)))))))).... ( -62.70)
>DroMoj_CAF1 89597 96 + 1
CCGUUAGGCACUCUCCGUCUUUACCACAAUGGGCAUGGGUCCGCCCAUGCCGA------GGGGA------GACUUCUGCAGCAGCUCCUCCUGCUGCAGCAGCAGUGG------------
(((....((.((((((((.......))....((((((((....))))))))..------)))))------)....(((((((((......)))))))))..))..)))------------ ( -43.60)
>DroAna_CAF1 83203 114 + 1
CCGUUAGGCGCUCUCCGUCUUCACCACAAUGGGCAUGGGUCCUCCCAGGCUCAGGCCCGGCUGG------GACUUCUGCAUCAGCUCCUCCUGCAGCAGGCUCAUGGGGUUCAUGGGCAG
..((((((((.....)))))...(((...(((((.((((((......)))))).)))))..)))------)))..((((..(((......)))..))))(((((((.....))))))).. ( -40.90)
>DroPer_CAF1 80438 117 + 1
CUGUUAGGCGCUCUCCGUCUUUACCACCAUGGGCAUGGGGCCGCCGAGGCUCAGUCCUGCCUGGGCGGAUGACUUUUGCAGCAGCUCCUCCUGCAGGAGACUCAU---GUUCAUGGGCGA
..((.(((((.....)))))..))..(((((((((((((.(((((.((((........)))).)))))....(((((((((.((...)).))))))))).)))))---)))))))).... ( -55.90)
>consensus
CCGUUAGGCGCUCUCCGUCUUUACCACAAUGGGCAUGGGUCCGCCCAGGCUCAG_CC_GGCUGG______GACUUCUGCAGCAGCUCCUCCUGCAGCAGACUCAU_GGGUUCAUGGGC__
..((.(((((.....)))))..)).....(((((.((((....)))).)))))...................((.((((((.((...)).)))))).))..................... (-18.49 = -19.38 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:51 2006