Locus 73

Sequence ID	3L_DroMel_CAF1
Location	280,930 – 281,041
Length	111
Max. P	0.905278

overview

Window 4

Location	280,930 – 281,041
Length	111
Sequences	5
Columns	115
Reading direction	forward
Mean pairwise identity	91.12
Mean single sequence MFE	-33.16
Consensus MFE	-25.52
Energy contribution	-27.56
Covariance contribution	2.04
Combinations/Pair	1.03
Mean z-score	-1.93
Structure conservation index	0.77
SVM decision value	0.72
SVM RNA-class probability	0.832623
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 280930 111 + 23771897
UAGCUUCCUCUUUAAUGACUCAUCGUUAUCCUUCUUGAGUCAAAAUGCCGCACUUGAGUUCUUUU----GGAUAACGAGGAAGUCCGUAAUGUAAAGAGGCAGCUGAAAACGAGC
(((((.((((((((..(((((.(((((((((..((..((((........).)))..)).......----))))))))).).)))).......)))))))).)))))......... ( -36.80)
>DroSec_CAF1 53101 111 + 1
UAGCUUCCUCUUUAAUGACUCAUCGGUAUCCUUCUUGAGUCAAAAUGCCGCACUUGAGUUCUUUU----GGAAAACGAGGAAGUGCGGAAAGUAAAGAGGCAGCUGGAAACGAGC
.((((.((((((((.(((((((..((......)).))))))).....(((((((....(((((((----....)).))))))))))))....)))))))).))))(....).... ( -39.30)
>DroSim_CAF1 48890 111 + 1
UAGCUUCCUCUUUAAUGACUCAUCGUUAUCCUUCUUGAGUCAAAAUGCCGCACUUGAGUUCUUUU----GGAAAACGAGGAAGUCCGGAAAGUAAAGAGGCAGCUGGAAAGGAGC
(((((.((((((((..(((((.(((((.(((..((..((((........).)))..)).......----))).))))).).)))).......)))))))).)))))......... ( -32.70)
>DroEre_CAF1 52514 111 + 1
UAGCUUCCUCUUUAAUGACUCAUCGUUAUCCUUCUUGAGUCAAAAUGCCGCACUUGAGUUCUUUU----GGAUAGCGAGGAAGUCCGGAUAGAAAAAAGGCAGCUGAAAACGAGC
(((((.(((((.....(((((.(((((((((..((..((((........).)))..)).......----))))))))).).)))).....))).....)).)))))......... ( -29.10)
>DroYak_CAF1 49274 115 + 1
UAGCUUCCUCUUCAAUGACUCAGCGUUAUCCUUCUUGAGUGGAAAUGCCGCACUUGAGUUCUUUUUUUGGAAUAGCGAGGAAGUCCGGAAAGAAAAGUGGCAGCUGAAUACGAGG
(((((.(((((((...(((((..((((((((..((..(((((......).))))..))..........)).))))))..).))))..).)))).....)).)))))......... ( -27.90)
>consensus
UAGCUUCCUCUUUAAUGACUCAUCGUUAUCCUUCUUGAGUCAAAAUGCCGCACUUGAGUUCUUUU____GGAUAACGAGGAAGUCCGGAAAGUAAAGAGGCAGCUGAAAACGAGC
(((((.((((((((..(((((.(((((((((..((..(((...........)))..))...........))))))))).).)))).......)))))))).)))))......... (-25.52 = -27.56 +   2.04)

alignment

secondary structure

dotplot

Window 5

Location	280,930 – 281,041
Length	111
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	91.12
Mean single sequence MFE	-30.44
Consensus MFE	-23.80
Energy contribution	-24.68
Covariance contribution	0.88
Combinations/Pair	1.07
Mean z-score	-2.02
Structure conservation index	0.78
SVM decision value	1.04
SVM RNA-class probability	0.905278
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 280930 111 - 23771897
GCUCGUUUUCAGCUGCCUCUUUACAUUACGGACUUCCUCGUUAUCC----AAAAGAACUCAAGUGCGGCAUUUUGACUCAAGAAGGAUAACGAUGAGUCAUUAAAGAGGAAGCUA
..........((((.((((((((.......(((((..(((((((((----........(((((........)))))........))))))))).)))))..)))))))).)))). ( -33.59)
>DroSec_CAF1 53101 111 - 1
GCUCGUUUCCAGCUGCCUCUUUACUUUCCGCACUUCCUCGUUUUCC----AAAAGAACUCAAGUGCGGCAUUUUGACUCAAGAAGGAUACCGAUGAGUCAUUAAAGAGGAAGCUA
..........((((.((((((((....((((((((....(((((..----...)))))..)))))))).....(((((((....((...))..))))))).)))))))).)))). ( -37.00)
>DroSim_CAF1 48890 111 - 1
GCUCCUUUCCAGCUGCCUCUUUACUUUCCGGACUUCCUCGUUUUCC----AAAAGAACUCAAGUGCGGCAUUUUGACUCAAGAAGGAUAACGAUGAGUCAUUAAAGAGGAAGCUA
..........((((.((((((((....(((.((((....(((((..----...)))))..)))).))).....(((((((....(.....)..))))))).)))))))).)))). ( -31.70)
>DroEre_CAF1 52514 111 - 1
GCUCGUUUUCAGCUGCCUUUUUUCUAUCCGGACUUCCUCGCUAUCC----AAAAGAACUCAAGUGCGGCAUUUUGACUCAAGAAGGAUAACGAUGAGUCAUUAAAGAGGAAGCUA
..........((((.(((((((.....(((.((((.....((....----...)).....)))).))).....(((((((....(.....)..)))))))..))))))).)))). ( -26.10)
>DroYak_CAF1 49274 115 - 1
CCUCGUAUUCAGCUGCCACUUUUCUUUCCGGACUUCCUCGCUAUUCCAAAAAAAGAACUCAAGUGCGGCAUUUCCACUCAAGAAGGAUAACGCUGAGUCAUUGAAGAGGAAGCUA
((((..(((((((((((((((((((((..(((............)))....))))))...))))..))))..(((.........)))....))))))).......))))...... ( -23.80)
>consensus
GCUCGUUUUCAGCUGCCUCUUUACUUUCCGGACUUCCUCGUUAUCC____AAAAGAACUCAAGUGCGGCAUUUUGACUCAAGAAGGAUAACGAUGAGUCAUUAAAGAGGAAGCUA
..........((((.((((((((....(((.((((..((...............))....)))).))).....(((((((....(.....)..))))))).)))))))).)))). (-23.80 = -24.68 +   0.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:39 2006