Locus 5379

Sequence ID	2L_DroMel_CAF1
Location	15,300,600 – 15,300,796
Length	196
Max. P	0.999468

overview

Window 7

Location	15,300,600 – 15,300,716
Length	116
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.63
Mean single sequence MFE	-36.35
Consensus MFE	-25.42
Energy contribution	-25.17
Covariance contribution	-0.25
Combinations/Pair	1.25
Mean z-score	-1.29
Structure conservation index	0.70
SVM decision value	-0.04
SVM RNA-class probability	0.513645
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15300600 116 + 22407834
AAGGCAAAGGAGCUGGAGUUUGGGCUCGGAGUAGGAGUUGAAGCUGAGCUGAGCAGAGCUGGAGCAGCAGGCCAGUGGGACAGUUGGCCAAAACCGGCCGUGGUCGCAGUGAAGUC----
..(((......(((..(((((..((((((..(((.........)))..)))))).)))))..))).....)))(.((.(((...(((((......)))))..))).)).)......---- ( -41.50)
>DroSec_CAF1 47552 112 + 1
AAGGCAAAGGAGCUGGAGUUUGGGCUCGGAGUAGGAGUAGGAGUUG----GAGCUGAGCUGGAGCAGCAGGCCAGUGGGACAGUUGGCCAAAACCGGCCGUGGUCGCAGUGAAGUC----
..(((.......(((..((((.(((((((..(..(........)..----)..))))))).))))..)))..((.((.(((...(((((......)))))..))).)).))..)))---- ( -37.60)
>DroSim_CAF1 48350 112 + 1
AAGGCAAAGGAGCUGGAGUUUGGGCCCGGAGUAGGAGUAGGAGUUG----GAGCUGAGCUGGAGCAGCAGGCCAGUGGGACAGUUGGCCAAAACCGGCCGUGGUCGCAGCGAAGUC----
...((......((((((((((.(((((............)).))).----)))))..((((...))))...)))))(.(((...(((((......)))))..))).).))......---- ( -36.50)
>DroEre_CAF1 51661 105 + 1
AAGGCAA-GGAGUUGGAGC-UGGGCUCGGAGUAGGAGUUGGAGCUG---------GAGCUGGAGCAGCAGGCCAGUGGGACAGUUGGCCAAAACCGGCCGUGGUCGUAGUGAAGUU----
..(((..-(..(((..(((-(.(((((.((.......)).))))).---------).)))..)))..)..)))(.((.(((...(((((......)))))..))).)).)......---- ( -33.50)
>DroYak_CAF1 50074 106 + 1
AAGGCAAUGGAGUUGGAGC-UGGGUUCGAGGUAGGAGUUGGUGCUG---------GAGCUGGAGCAGCAGGCCAGUGGGACAGUUGGCCAAAACCGGCCGUGGUCGUAGUGAAGUC----
..(((.(((........((-..(.(((......))).)..))((((---------(.((((...)))).((((((........))))))....)))))))).)))...........---- ( -32.30)
>DroAna_CAF1 52972 96 + 1
AAGGUAAAGGCACUGGAGUU-GGCUUU----------UUGAUGUAG---------GAGCUGGAGCAGCAGGCCAGUGGGACAGUUGGCCAAAACCGGCCCUGGCC----CGAAGCCUAAC
.((((...(((.((((..(.-.(((((----------(......))---------))))..)..)..))))))..((((.(((..((((......))))))).))----))..))))... ( -36.70)
>consensus
AAGGCAAAGGAGCUGGAGUUUGGGCUCGGAGUAGGAGUUGGAGCUG_________GAGCUGGAGCAGCAGGCCAGUGGGACAGUUGGCCAAAACCGGCCGUGGUCGCAGUGAAGUC____
..(((...((..((((.((((.(((((............................))))).))))....((((((........))))))....))))))...)))............... (-25.42 = -25.17 +  -0.25)

alignment

secondary structure

dotplot

Window 8

Location	15,300,680 – 15,300,796
Length	116
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	94.03
Mean single sequence MFE	-34.40
Consensus MFE	-33.85
Energy contribution	-33.47
Covariance contribution	-0.38
Combinations/Pair	1.16
Mean z-score	-1.89
Structure conservation index	0.98
SVM decision value	3.63
SVM RNA-class probability	0.999468
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15300680 116 + 22407834
CAGUUGGCCAAAACCGGCCGUGGUCGCAGUGAAGUC----GGGGCUCUCGCACAGGCCAGCGCUGUUGCAACAUGUCAAAAUAAAUCAAUUGAUUGAUCUUGUUUUAUUUAUGUCCAAUU
..(((((((.....((((....))))..(((((((.----...))).))))...)))))))((....)).(((((..((((((((((((....))))).)))))))...)))))...... ( -34.20)
>DroSec_CAF1 47628 116 + 1
CAGUUGGCCAAAACCGGCCGUGGUCGCAGUGAAGUC----GAGGCUCUCGCACAGGCCAGCGCUGUUGCAACAUGUCAAAAUAAAUCAAUUGAUUGAUCUUGUUUUAUUUAUGUCCAAUU
..(((((((.....((((....))))..(((((((.----...))).))))...)))))))((....)).(((((..((((((((((((....))))).)))))))...)))))...... ( -34.20)
>DroSim_CAF1 48426 116 + 1
CAGUUGGCCAAAACCGGCCGUGGUCGCAGCGAAGUC----GAGGCUCUCGCACAGGCCAGCGCUGUUGCAACAUGUCAAAAUAAAUCAAUUGAUUGAUCUUGUUUUAUUUAUGUCCAAUU
..(((((((.....((((....))))..(((((((.----...))).))))...)))))))((....)).(((((..((((((((((((....))))).)))))))...)))))...... ( -36.10)
>DroEre_CAF1 51730 115 + 1
CAGUUGGCCAAAACCGGCCGUGGUCGUAGUGAAGUU----G-GUCUCUCGCACAGGCCAGCGCUGUUGCAACAUGUCAAAAUAAAUCAAUUGAUUGAUCUUGUUUUAUUUAUGUCCAAUU
.....((((......)))).(((.(((((((..(((----(-((((.......))))))))((....))..)))...((((((((((((....))))).)))))))...)))).)))... ( -32.70)
>DroYak_CAF1 50144 116 + 1
CAGUUGGCCAAAACCGGCCGUGGUCGUAGUGAAGUC----GGGGCUCUCGCACAGGCUAGCGCUGUUGCAACAUGUCAAAAUAAAUCAAUUGAUUGAUCUUGUUUUAUUUAUGUCCAAUU
..(((((((.....((((....))))..(((((((.----...))).))))...)))))))((....)).(((((..((((((((((((....))))).)))))))...)))))...... ( -32.10)
>DroAna_CAF1 53032 116 + 1
CAGUUGGCCAAAACCGGCCCUGGCC----CGAAGCCUAACCAGGCUCUCGCACAGGCCAACGCUGUUGCAACAUGUCAAAAUAAAUCAAUUGAUUGAUCUUGUUUUAUUUAUGUCCAAUU
..(((((((......(((....)))----((((((((....))))).)))....)))))))((....)).(((((..((((((((((((....))))).)))))))...)))))...... ( -37.10)
>consensus
CAGUUGGCCAAAACCGGCCGUGGUCGCAGUGAAGUC____GAGGCUCUCGCACAGGCCAGCGCUGUUGCAACAUGUCAAAAUAAAUCAAUUGAUUGAUCUUGUUUUAUUUAUGUCCAAUU
..(((((((.....((((....))))..((((((((......)))).))))...)))))))((....)).(((((..((((((((((((....))))).)))))))...)))))...... (-33.85 = -33.47 +  -0.38)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:40 2006