Locus 3398

Sequence ID 2L_DroMel_CAF1
Location 9,837,339 – 9,837,430
Length 91
Max. P 0.568014
window5378

overview

Window 8

Location 9,837,339 – 9,837,430
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 86.82
Mean single sequence MFE -15.40
Consensus MFE -12.21
Energy contribution -12.17
Covariance contribution -0.04
Combinations/Pair 1.17
Mean z-score -1.50
Structure conservation index 0.79
SVM decision value 0.07
SVM RNA-class probability 0.568014
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9837339 91 + 22407834
UUGCUGACAGCUCGAAAUUCCUAGAAAAUUCGCAAACUAAUAUUCUGGAAUUUAUGACCUGUCCUCGAUAUUCUAGUUUAUUAUUGCCCAU
(((..(((((.((((((((((.((((.(((........))).))))))))))).))).)))))..)))....................... ( -18.50)
>DroSec_CAF1 45891 90 + 1
UUGCUGACAGCUCGAAAUUCCUACA-AAUUCCCAAACUAAUAUCCUGGAAUUUAUGACCUGUCUUCGAUAUUCUAGUUUAUUAAUGCCCGU
(((..(((((.((((((((((....-....................))))))).))).)))))..)))....................... ( -15.56)
>DroSim_CAF1 48992 90 + 1
UUGCUGACAGCUCGAAAUUCCUACA-AAUUCCCAAACUAAUAUCCUGGAAUUUAUGACCUGUCUUCGAUAUUCUAGUUUAUUAAUGCCCGU
(((..(((((.((((((((((....-....................))))))).))).)))))..)))....................... ( -15.56)
>DroEre_CAF1 48628 88 + 1
UUGCUGACAGCUCCAAAUUCCUGCA-AAUUCCC-AGAUAAUAUUCUGCAAUUUAUGGCCUGUCCUUAAUAUUUAAGUUUAUGAUUGC-CUU
..((.(((((..(((((((......-))))..(-(((......)))).......))).)))))((((.....)))).........))-... ( -10.10)
>DroYak_CAF1 48008 89 + 1
UUGCUGACAGCUCUAAAUUCCUAUA-AAUUCCA-AGCUAAUAUUCUGGAAUUUAUGGCCUGUCCUCAAUACUUUAGUUUAUGAUUGCACUU
.(((.(((((((.((((((((....-.......-............)))))))).)).))))).(((..((....))...)))..)))... ( -17.30)
>consensus
UUGCUGACAGCUCGAAAUUCCUACA_AAUUCCCAAACUAAUAUUCUGGAAUUUAUGACCUGUCCUCGAUAUUCUAGUUUAUUAUUGCCCGU
(((..(((((.((((((((((.........................))))))).))).)))))..)))....................... (-12.21 = -12.17 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:31 2006