Locus 6529

Sequence ID	3L_DroMel_CAF1
Location	17,278,187 – 17,278,387
Length	200
Max. P	0.956170

overview

Window 1

Location	17,278,187 – 17,278,307
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.83
Mean single sequence MFE	-28.86
Consensus MFE	-28.70
Energy contribution	-28.70
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.07
Structure conservation index	0.99
SVM decision value	-0.04
SVM RNA-class probability	0.514983
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17278187 120 - 23771897
CAUUAAAAGGGCUUCGGCGCGGGGCUCGUAAAAAAGGAGAUGCCUAAUAAAAAUGCCACAGCACGUACGUCAACCUGCAGGCAUUAGUCCUACUUACCGCUCUCACACACAAGCACACAU
........(.((....)).)(((((..((((...(((((((((((........(((....))).(((.(....).))))))))))..))))..)))).)))))................. ( -29.10)
>DroSec_CAF1 161853 120 - 1
CAUUAAAAGGGCUUCGGCGCGGGGCUCGUAAAAAAGGAGAUGCCUAAUAAAAAUGCCACAGCACGUACGUCAACCUGCAGGCAUUAGUCCUACUUACCGCUCACACACACAUACACACAU
........(.((....)).).((((..((((...(((((((((((........(((....))).(((.(....).))))))))))..))))..)))).)))).................. ( -28.80)
>DroSim_CAF1 156910 120 - 1
CAUUAAAAGGGCUUCGGCGCGGGGCUCGUAAAAAAGGAGAUGCCUAAUAAAAAUGCCGCAGCACGUACGUCAACCUGCAGGCAUUAGUCCUACUUACCGCUCACACACACAUACACACAU
........(.((....)).).((((..((((...(((((((((((........(((....))).(((.(....).))))))))))..))))..)))).)))).................. ( -28.80)
>DroEre_CAF1 164914 120 - 1
CAUUAAAAGGGCUUCGGCGCGGGGCUCGUAAAAAAGGAGAUGCCUAAUAAAAAUGCCACAGCACGUACGUCAACCUGCAGGCAUUAGUCCUACUUACCGCUCACACACACAUACUCACUU
........(.((....)).).((((..((((...(((((((((((........(((....))).(((.(....).))))))))))..))))..)))).)))).................. ( -28.80)
>DroYak_CAF1 169787 120 - 1
CAUUAAAAGGGCUUCGGCGCGGGGCUCGUAAAAAAGGAGAUGCCUAAUAAAAAUGCCACAGCACGUACGUCAACCUGCAGGCAUUAGUCCUACUUACCGCUCACACACACAUACUCACAU
........(.((....)).).((((..((((...(((((((((((........(((....))).(((.(....).))))))))))..))))..)))).)))).................. ( -28.80)
>consensus
CAUUAAAAGGGCUUCGGCGCGGGGCUCGUAAAAAAGGAGAUGCCUAAUAAAAAUGCCACAGCACGUACGUCAACCUGCAGGCAUUAGUCCUACUUACCGCUCACACACACAUACACACAU
........(.((....)).).((((..((((...(((((((((((........(((....))).(((.(....).))))))))))..))))..)))).)))).................. (-28.70 = -28.70 +  -0.00)

alignment

secondary structure

dotplot

Window 2

Location	17,278,267 – 17,278,387
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.83
Mean single sequence MFE	-45.42
Consensus MFE	-43.64
Energy contribution	-43.60
Covariance contribution	-0.04
Combinations/Pair	1.03
Mean z-score	-1.64
Structure conservation index	0.96
SVM decision value	1.46
SVM RNA-class probability	0.956170
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17278267 120 - 23771897
GGGGGACUGUUGCUUUUAUGGGCCAUGAAACGUUCCCCCUCUUAGCUUUUACAUCCAGUGGAGUCUGGCGCCGCCUUCGACAUUAAAAGGGCUUCGGCGCGGGGCUCGUAAAAAAGGAGA
((((((.((((((((....)))).....)))).))))))((((...((((((..(....)((((((.((((((((((..........)))))...))))).))))))))))))...)))) ( -45.30)
>DroSec_CAF1 161933 120 - 1
GGGGGACUGUUGCUUUUAUGGGCCAUGAAACGUUCCCCCUCUUAGCUUUUACAUCCAGUGGAGUCUGGCGCCGCCUUCGACAUUAAAAGGGCUUCGGCGCGGGGCUCGUAAAAAAGGAGA
((((((.((((((((....)))).....)))).))))))((((...((((((..(....)((((((.((((((((((..........)))))...))))).))))))))))))...)))) ( -45.30)
>DroSim_CAF1 156990 120 - 1
GGGGGACUGUUGCUUUUAUGGGCCAUGAAACGUUCCCCCUCUUAGCUUUUACAUCCAGUGGAGUCUGGCGCCGCCUUCGACAUUAAAAGGGCUUCGGCGCGGGGCUCGUAAAAAAGGAGA
((((((.((((((((....)))).....)))).))))))((((...((((((..(....)((((((.((((((((((..........)))))...))))).))))))))))))...)))) ( -45.30)
>DroEre_CAF1 164994 120 - 1
GGGGGACUGUUGCUUUUAUGGCCCAUGAAACGUUCCCCCUCUUAGCUUUCACAUCCAGUGGAGUCUGGCGCCGCCUUCGACAUUAAAAGGGCUUCGGCGCGGGGCUCGUAAAAAAGGAGA
(((((((.((((((.....)))......))))))))))(((((......(((.....)))((((((.((((((((((..........)))))...))))).)))))).......))))). ( -45.00)
>DroYak_CAF1 169867 120 - 1
GGGGGACUGUUGCUUUUAUGGGCCAUGAAACGUUCCCCCUCUUGGCUUUCACAUCCAGUGGAGUCUGGCGCCGCCUUCGACAUUAAAAGGGCUUCGGCGCGGGGCUCGUAAAAAAGGAGA
(((((((.(((((((....)))).....))))))))))(((((.((...(((.....)))((((((.((((((((((..........)))))...))))).)))))))).....))))). ( -46.20)
>consensus
GGGGGACUGUUGCUUUUAUGGGCCAUGAAACGUUCCCCCUCUUAGCUUUUACAUCCAGUGGAGUCUGGCGCCGCCUUCGACAUUAAAAGGGCUUCGGCGCGGGGCUCGUAAAAAAGGAGA
(((((((.(((((((....)))).....))))))))))(((((......(((.....)))((((((.((((((((((..........)))))...))))).)))))).......))))). (-43.64 = -43.60 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:07 2006