Locus 6235

Sequence ID 3L_DroMel_CAF1
Location 16,587,914 – 16,588,021
Length 107
Max. P 0.539075
window10001

overview

Window 1

Location 16,587,914 – 16,588,021
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.72
Mean single sequence MFE -42.10
Consensus MFE -24.86
Energy contribution -27.09
Covariance contribution 2.23
Combinations/Pair 1.21
Mean z-score -1.72
Structure conservation index 0.59
SVM decision value 0.01
SVM RNA-class probability 0.539075
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16587914 107 + 23771897
GGUUGGACGAUUGGGUCU--ACAAAUUG-GGGCCCG-AUCACUUGCGCUUAAUGAAGUUACCCUCGGCAUCCAGCCAGAUGCCCUGA---UGUUGGUCGGGCGC------GUCCAUCCCC
((.(((((((((((((((--........-)))))))-)))....((((.................((((((......))))))((((---(....)))))))))------))))).)).. ( -46.50)
>DroPse_CAF1 7697 117 + 1
CCUUGGUUGGUUGGUUCUCUCCAGUGUCGUGUCCCGUGUCACUUUCGCUUGAUAAAGUUGCCCUCGGCAUCCAACCAGAUGGCCGGC---UGGUGCUCGUGCGCGUGCGCAUCCAUCCCC
...(((((((.(((......)))((((((.((..(.(((((........)))))..)..))...)))))))))))))(((((..(((---..((((....))))..)).)..)))))... ( -35.00)
>DroSec_CAF1 6530 107 + 1
GGUAGGAUGAUUGGGUCU--ACAAAUUG-GGGCCCG-AUCACUUGCGCUUGAUGAAGUUACCCUCGGCAUCCAGCCAGAUGCCCUGA---UGUUGGUCGGACGC------GUCCAUCCCC
.(((((.(((((((((((--........-)))))))-)))))))))....((((...........(((.....))).(((((.((((---(....)))))..))------)))))))... ( -39.50)
>DroEre_CAF1 6483 107 + 1
GGUUGGAUGAUUGGGUCU--ACAGACUG-GGGCCCG-AUCACUUGCGCUUGAUGAAGUUGCCCUCAGCAUCCAGCCAGAUUCCCUGA---UGUUGGUCGGGCGC------GUCCAUCCCC
((.(((((((((((((((--........-)))))))-)))....((((((((....((((....))))..((((((((.....))).---.)))))))))))))------))))).)).. ( -45.30)
>DroYak_CAF1 6630 107 + 1
GGUUGGAUGAUUGGGUCU--ACAGACUG-GGGCCCG-AUCACUUGCGCUUGAUGAAGUUACCCUCGGCAUCCAGCCAGAUGCCCUGA---UGUUGGUCGGGCGC------GUCCAUCCCC
((.(((((((((((((((--........-)))))))-)))....(((((((((.((((((.....((((((......)))))).)))---).)).)))))))))------))))).)).. ( -47.50)
>DroAna_CAF1 6312 99 + 1
GGUUGGAUGGUGGGGGCU--------------CAUC-AUCACUUGCGCUUGAUAAAAUUACCCUCGGCAUCCAGCCAGAUUCCCGGAUGGUGUUGAUCGGGCGC------CUCCAUCCCC
(((((((((.((((((..--------------....-((((........)))).......)))))).)))))))))........(((.((((((.....)))))------))))...... ( -38.82)
>consensus
GGUUGGAUGAUUGGGUCU__ACAGACUG_GGGCCCG_AUCACUUGCGCUUGAUGAAGUUACCCUCGGCAUCCAGCCAGAUGCCCUGA___UGUUGGUCGGGCGC______GUCCAUCCCC
((.((((((((((((((.............)))))).)))....(((((((((.((.........((((((......)))))).........)).)))))))))......))))).)).. (-24.86 = -27.09 +   2.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:23 2006