Locus 213

Sequence ID	2L_DroMel_CAF1
Location	619,149 – 619,251
Length	102
Max. P	0.655980

overview

Window 8

Location	619,149 – 619,251
Length	102
Sequences	3
Columns	108
Reading direction	forward
Mean pairwise identity	94.44
Mean single sequence MFE	-19.26
Consensus MFE	-16.74
Energy contribution	-17.41
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-1.80
Structure conservation index	0.87
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 619149 102 + 22407834
UCCGCCAGCAACUGGCGACAG---CAAAUGGCAACCCACAACACCAACUGGCAACCGGCAAUAGCAACUGCAACCUGAAACAGCAAC---AACAUUUCAAUAUCGUGA
...((((....(((....)))---....))))....(((...........(((....((....))...)))....(((((.......---....))))).....))). ( -18.90)
>DroSec_CAF1 8362 108 + 1
UCCGCCAGCAACUGGCGACAGCAGCAACUGGCAACCCACAACACCAACUUGCAACCAGCAAUAGCAACUGCAACCUGAAACAGCAACAACAACAUUUCAAUAUCGUGA
...((((((..(((....)))..))...))))....(((.........(((((....((....))...)))))..(((((..............))))).....))). ( -19.44)
>DroSim_CAF1 7547 108 + 1
UCCGCCAGCAACUGGCGACAGCAGCAACUGGCAACCCACAACACCAACUUGCAACCAGCAAUAGCAACUGCAACCUGAAACAGCAACAACAACAUUUCAAUAUCGUGA
...((((((..(((....)))..))...))))....(((.........(((((....((....))...)))))..(((((..............))))).....))). ( -19.44)
>consensus
UCCGCCAGCAACUGGCGACAGCAGCAACUGGCAACCCACAACACCAACUUGCAACCAGCAAUAGCAACUGCAACCUGAAACAGCAACAACAACAUUUCAAUAUCGUGA
...(((((...(((....)))......)))))....(((.........(((((....((....))...)))))..(((((..............))))).....))). (-16.74 = -17.41 +   0.67)

alignment

secondary structure

dotplot

Window 9

Location	619,149 – 619,251
Length	102
Sequences	3
Columns	108
Reading direction	reverse
Mean pairwise identity	94.44
Mean single sequence MFE	-34.60
Consensus MFE	-30.73
Energy contribution	-31.73
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-1.93
Structure conservation index	0.89
SVM decision value	0.26
SVM RNA-class probability	0.655980
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 619149 102 - 22407834
UCACGAUAUUGAAAUGUU---GUUGCUGUUUCAGGUUGCAGUUGCUAUUGCCGGUUGCCAGUUGGUGUUGUGGGUUGCCAUUUG---CUGUCGCCAGUUGCUGGCGGA
...((...(((((((((.---...)).)))))))...(((((....))))))).(((((((((((((..(..(((....)))..---)...)))))...)))))))). ( -29.00)
>DroSec_CAF1 8362 108 - 1
UCACGAUAUUGAAAUGUUGUUGUUGCUGUUUCAGGUUGCAGUUGCUAUUGCUGGUUGCAAGUUGGUGUUGUGGGUUGCCAGUUGCUGCUGUCGCCAGUUGCUGGCGGA
(((((((((..(.........((.(((((........))))).))..((((.....)))).)..))))))))).((((((((.(((((....).)))).)))))))). ( -37.40)
>DroSim_CAF1 7547 108 - 1
UCACGAUAUUGAAAUGUUGUUGUUGCUGUUUCAGGUUGCAGUUGCUAUUGCUGGUUGCAAGUUGGUGUUGUGGGUUGCCAGUUGCUGCUGUCGCCAGUUGCUGGCGGA
(((((((((..(.........((.(((((........))))).))..((((.....)))).)..))))))))).((((((((.(((((....).)))).)))))))). ( -37.40)
>consensus
UCACGAUAUUGAAAUGUUGUUGUUGCUGUUUCAGGUUGCAGUUGCUAUUGCUGGUUGCAAGUUGGUGUUGUGGGUUGCCAGUUGCUGCUGUCGCCAGUUGCUGGCGGA
(((((((((..(.........((.(((((........))))).))..((((.....)))).)..))))))))).((((((((....((((....)))).)))))))). (-30.73 = -31.73 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:29:50 2006