Locus 8203

Sequence ID	3R_DroMel_CAF1
Location	22,030,564 – 22,030,705
Length	141
Max. P	0.643602

overview

Window 8

Location	22,030,564 – 22,030,679
Length	115
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	89.23
Mean single sequence MFE	-30.14
Consensus MFE	-23.30
Energy contribution	-24.62
Covariance contribution	1.32
Combinations/Pair	1.10
Mean z-score	-1.59
Structure conservation index	0.77
SVM decision value	0.23
SVM RNA-class probability	0.643602
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22030564 115 - 27905053
CCUGACGCUGCACAGUCGCCAGAAACAUUUUUGUCCGGCACAGGGCAAAAAUGUGCCCGCAGUGUGGUCAAAAGUCGAGAAAGCCAUU---UAGAAAAGGUAUUUGACACAAAAAAUU
....(((((((....((....)).((((((((((((......))))))))))))....)))))))........((((((...(((...---.......))).)))))).......... ( -33.40)
>DroSec_CAF1 28877 115 - 1
ACUGACACUGCACAGUCGCCUGAAAGAAUUUUGUCCGGCACAGGGCAAAAAUGUCCCCGCAGUGUGGUCAAAAGUCGAGAAAGCCAUU---UAGAAAAGGUAUUUGACACAACACAUU
(((.(((((((.(((....)))......((((((((......))))))))........)))))))))).....((((((...(((...---.......))).)))))).......... ( -29.80)
>DroSim_CAF1 21084 115 - 1
CCUGACACUGCACAGUCGCCUGAAACAAUUUUGUCCGGCACAGGGCAAAAAUGUCCCCGCAGUGUGGUCAAAAGUCGAGAAAGCCAUU---UAGAAAAGGUAUUUGACACAACAAAUU
....(((((((.(((....)))..(((.((((((((......)))))))).)))....)))))))........((((((...(((...---.......))).)))))).......... ( -31.20)
>DroEre_CAF1 22786 113 - 1
CCUGACACUGCACAGUUGACUGAAACAAUUUGGC-CGGUACAGAGCAAAAAUGUCCCC-CAGUGUGGUCAGAAGUCGAGAGAGCCAUU---UAGAAAAGGCAUUUGACACAACAAAUU
.(((((...((((.(((......)))....(((.-.((.(((.........))).)))-)))))).)))))..((((((...(((...---.......))).)))))).......... ( -25.40)
>DroYak_CAF1 30419 113 - 1
CCUGACACUGCACAGUCGACUGAAACAAUUUGGUGCGGCACAGAGCAAAAAUGUUCGC-CAGUGUGGUCAAAAGUCGA----GCCAUUCUAUGGAAAAGGUAUUUGACACAACAAAUU
....(((((((...((((((..((....))..)).))))...(((((....)))))).-)))))).((((((..((..----.((((...))))....))..)))))).......... ( -30.90)
>consensus
CCUGACACUGCACAGUCGCCUGAAACAAUUUUGUCCGGCACAGGGCAAAAAUGUCCCCGCAGUGUGGUCAAAAGUCGAGAAAGCCAUU___UAGAAAAGGUAUUUGACACAACAAAUU
....(((((((.(((....)))..(((.((((((((......)))))))).)))....)))))))........((((((...(((.............))).)))))).......... (-23.30 = -24.62 +   1.32)

alignment

secondary structure

dotplot

Window 9

Location	22,030,601 – 22,030,705
Length	104
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	91.72
Mean single sequence MFE	-34.37
Consensus MFE	-26.32
Energy contribution	-28.80
Covariance contribution	2.48
Combinations/Pair	1.03
Mean z-score	-1.58
Structure conservation index	0.77
SVM decision value	0.08
SVM RNA-class probability	0.571509
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22030601 104 + 27905053
UCGACUUUUGACCACACUGCGGGCACAUUUUUGCCCUGUGCCGGACAAAAAUGUUUCUGGCGACUGUGCAGCGUCAGGAUGGCCAAGGCGAAAGUUGAAAGCUU
((((((((((.((.......(((((......)))))((.((((((((....))))(((((((.((....))))))))).)))))).))))))))))))...... ( -39.10)
>DroSec_CAF1 28914 104 + 1
UCGACUUUUGACCACACUGCGGGGACAUUUUUGCCCUGUGCCGGACAAAAUUCUUUCAGGCGACUGUGCAGUGUCAGUAGGGCCAAGGCGAAAGUUGAAAGCAU
((((((((((.((.....((((((.((....))))))))(((.((((.........(((....))).....)))).....)))...))))))))))))...... ( -34.64)
>DroSim_CAF1 21121 104 + 1
UCGACUUUUGACCACACUGCGGGGACAUUUUUGCCCUGUGCCGGACAAAAUUGUUUCAGGCGACUGUGCAGUGUCAGGAUGGCCAAGGCGAAAGUUGAAAGCUU
((((((((((.(((((((((((..(((.(((((.((......)).))))).)))..)((....)).))))))))..((....))..))))))))))))...... ( -39.50)
>DroEre_CAF1 22823 102 + 1
UCGACUUCUGACCACACUG-GGGGACAUUUUUGCUCUGUACCG-GCCAAAUUGUUUCAGUCAACUGUGCAGUGUCAGGAUGGCCAAGGCGAAAGUUGAAAGCUU
(((((((.((.((......-((((.((....)))))).....(-((((.(((((..(((....))).))))).......)))))..)))).)))))))...... ( -27.60)
>DroYak_CAF1 30455 103 + 1
UCGACUUUUGACCACACUG-GCGAACAUUUUUGCUCUGUGCCGCACCAAAUUGUUUCAGUCGACUGUGCAGUGUCAGGAUGGCCAAGGCGAAAGUUGAAAGCUU
((((((((((.(((((..(-(((((....)))))).)))((((..((..(((((..(((....))).)))))....)).))))...))))))))))))...... ( -31.00)
>consensus
UCGACUUUUGACCACACUGCGGGGACAUUUUUGCCCUGUGCCGGACAAAAUUGUUUCAGGCGACUGUGCAGUGUCAGGAUGGCCAAGGCGAAAGUUGAAAGCUU
((((((((((.((((((((((((((((.(((((.((......)).))))).))))))((....)).))))))))..((....))..))))))))))))...... (-26.32 = -28.80 +   2.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:05:10 2006