Locus 649

Sequence ID	2L_DroMel_CAF1
Location	1,950,894 – 1,951,002
Length	108
Max. P	0.995248

overview

Window 9

Location	1,950,894 – 1,951,002
Length	108
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	74.14
Mean single sequence MFE	-51.00
Consensus MFE	-28.28
Energy contribution	-31.27
Covariance contribution	2.98
Combinations/Pair	1.16
Mean z-score	-2.68
Structure conservation index	0.55
SVM decision value	2.56
SVM RNA-class probability	0.995248
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1950894 108 + 22407834
CUCGCAGCGGCCGCCGCUGCCACAAACUGCAGUCAGUCGAUCAGCAGAUCGCUCCUGGAGGUGGCCAUCGAGGAUAUGGCCGUGGUGGUGG------------UGGUCACCGUGGAGCUG
....(((((((((((((..((((...((.(((..((.(((((....))))))).))).))..((((((.......))))))))))..))))------------))))).(....).)))) ( -55.10)
>DroEre_CAF1 2543 108 + 1
CUAGCAGCGGCCGCCGCCGCCACAAACUGCAGUCAGUCGAUCAGCAGGUCGCUCCUGGAGCUGGCCAUCGAGGAUAUGGCCGUGGUGGUGG------------UGGUCACCGUGGAGCUG
....(((((((((((((((((((...((.(((..((.(((((....))))))).))).))..((((((.......))))))))))))))))------------))))).(....).)))) ( -56.40)
>DroAna_CAF1 22682 105 + 1
CUUGCAGCGGCUGCCGCUGCCACAAAUUGCAGUCAGUCGAUCAACAGAUCGCUCCUGGAAUUG-CAAUUGCUG-----------GUGCUGGUACUGGUACUGGCGG---CCAUGGAACUC
.((.((..(((((((((.((((..((((((((((((.(((((....)))))...)))..))))-)))))..))-----------)))).((((....)))))))))---)).)).))... ( -41.50)
>consensus
CUAGCAGCGGCCGCCGCUGCCACAAACUGCAGUCAGUCGAUCAGCAGAUCGCUCCUGGAGCUGGCCAUCGAGGAUAUGGCCGUGGUGGUGG____________UGGUCACCGUGGAGCUG
.((((.(.(((((((((((((((...((.(((..((.(((((....))))))).))).))..((((((.......))))))))))))))))............))))).).))))..... (-28.28 = -31.27 +   2.98)

alignment

secondary structure

dotplot

Window 0

Location	1,950,894 – 1,951,002
Length	108
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	74.14
Mean single sequence MFE	-41.87
Consensus MFE	-29.29
Energy contribution	-32.26
Covariance contribution	2.98
Combinations/Pair	1.06
Mean z-score	-1.35
Structure conservation index	0.70
SVM decision value	0.49
SVM RNA-class probability	0.756509
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1950894 108 - 22407834
CAGCUCCACGGUGACCA------------CCACCACCACGGCCAUAUCCUCGAUGGCCACCUCCAGGAGCGAUCUGCUGAUCGACUGACUGCAGUUUGUGGCAGCGGCGGCCGCUGCGAG
..(((((..((((....------------.)))).....((((((.......)))))).......)))))((((....))))(((((....)))))....(((((((...)))))))... ( -46.10)
>DroEre_CAF1 2543 108 - 1
CAGCUCCACGGUGACCA------------CCACCACCACGGCCAUAUCCUCGAUGGCCAGCUCCAGGAGCGACCUGCUGAUCGACUGACUGCAGUUUGUGGCGGCGGCGGCCGCUGCUAG
..(((((..((((....------------.)))).....((((((.......)))))).......)))))...((((.(.((....))).))))...(..(((((....)))))..)... ( -44.30)
>DroAna_CAF1 22682 105 - 1
GAGUUCCAUGG---CCGCCAGUACCAGUACCAGCAC-----------CAGCAAUUG-CAAUUCCAGGAGCGAUCUGUUGAUCGACUGACUGCAAUUUGUGGCAGCGGCAGCCGCUGCAAG
........(((---..((..(((....)))..)).)-----------))(((((((-((....(((...(((((....))))).)))..))))).)))).(((((((...)))))))... ( -35.20)
>consensus
CAGCUCCACGGUGACCA____________CCACCACCACGGCCAUAUCCUCGAUGGCCAACUCCAGGAGCGAUCUGCUGAUCGACUGACUGCAGUUUGUGGCAGCGGCGGCCGCUGCAAG
..(((((..((((.................)))).....((((((.......)))))).......)))))((((....))))(((((....)))))....(((((((...)))))))... (-29.29 = -32.26 +   2.98)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:53 2006