Locus 3715

Sequence ID	X_DroMel_CAF1
Location	9,900,484 – 9,900,585
Length	101
Max. P	0.947343

overview

Window 7

Location	9,900,484 – 9,900,585
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	95.42
Mean single sequence MFE	-27.40
Consensus MFE	-23.60
Energy contribution	-23.36
Covariance contribution	-0.24
Combinations/Pair	1.12
Mean z-score	-1.75
Structure conservation index	0.86
SVM decision value	1.37
SVM RNA-class probability	0.947343
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9900484 101 + 22224390
GUGUCCACCAGGCGUGGAACACCAACCAGGACAGCAAGGACUACCAGUAAGGAUGAGUCUGCUUACUCUGGACACCUGGAAUGGCAACUACCAAACAACAA
.((((..(((((.((((....))..(((((..((((..((((.((.....))...))))))))...))))))).)))))...))))............... ( -29.00)
>DroSec_CAF1 4776 100 + 1
GUGUCCACCAGGUGUGGAACACCAACCAGGACAGCAAGGACUACCAGUAAGGAUGAGUCUGCUUACUCUGGACAC-UGGAAAGGCAACUACCAACCAAAAA
(((((((((.(((.(((....)))))).))..((((..((((.((.....))...)))))))).....)))))))-(((..((....)).)))........ ( -30.10)
>DroSim_CAF1 4800 100 + 1
GUGUCCACCAGGCGUGGAACACCAACCAGGACAGCAAGGACUACCAGUAAGGAUGAGUCUGUUUACUCUGGACAC-UGGAAUGGCAACUACCAACCAAAAA
(((((((((.((..(((....))).)).)).......(((((.((.....))...)))))........)))))))-(((..(((......))).))).... ( -26.50)
>DroEre_CAF1 4718 100 + 1
GUGUCCACCAGACGUGGAACACCAACCAGGACAACAAGGACUACCAGUAAGGAUGAGUCUGCUUACUCUGGACAC-CGGAAUGGCAACUACCAACCAACAA
((((((((.....)))).))))......((.......(((((.((.....))...)))))(((...(((((...)-))))..))).....))......... ( -24.90)
>DroYak_CAF1 4850 100 + 1
GUGUCCACCAGGCGUGGAACACCAACCAGGACAGCAAGGACUACCAGUAAGGAUGAGUUUGCUUACUCUGGACAC-UGGAAUGGCAAUUACCAACCAACAA
(((((((((.((..(((....))).)).))..((((..((((.((.....))...)))))))).....)))))))-(((..(((......))).))).... ( -26.50)
>consensus
GUGUCCACCAGGCGUGGAACACCAACCAGGACAGCAAGGACUACCAGUAAGGAUGAGUCUGCUUACUCUGGACAC_UGGAAUGGCAACUACCAACCAACAA
((((((((.....)))).))))...(((((..((((..((((.((.....))...))))))))...)))))......((...(....)..))......... (-23.60 = -23.36 +  -0.24)

alignment

secondary structure

dotplot

Window 8

Location	9,900,484 – 9,900,585
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	95.42
Mean single sequence MFE	-31.34
Consensus MFE	-28.08
Energy contribution	-28.04
Covariance contribution	-0.04
Combinations/Pair	1.12
Mean z-score	-1.25
Structure conservation index	0.90
SVM decision value	0.33
SVM RNA-class probability	0.690230
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9900484 101 - 22224390
UUGUUGUUUGGUAGUUGCCAUUCCAGGUGUCCAGAGUAAGCAGACUCAUCCUUACUGGUAGUCCUUGCUGUCCUGGUUGGUGUUCCACGCCUGGUGGACAC
.((((...((((....))))..((((((((((((((((((..((((...((.....)).))))))))))...))))..((....))))))))))..)))). ( -32.70)
>DroSec_CAF1 4776 100 - 1
UUUUUGGUUGGUAGUUGCCUUUCCA-GUGUCCAGAGUAAGCAGACUCAUCCUUACUGGUAGUCCUUGCUGUCCUGGUUGGUGUUCCACACCUGGUGGACAC
....(((..(((....)))...)))-(((((((.((((((..((((...((.....)).))))))))))..((.((((((....))).))).))))))))) ( -33.70)
>DroSim_CAF1 4800 100 - 1
UUUUUGGUUGGUAGUUGCCAUUCCA-GUGUCCAGAGUAAACAGACUCAUCCUUACUGGUAGUCCUUGCUGUCCUGGUUGGUGUUCCACGCCUGGUGGACAC
....(((.((((....))))..)))-(((((((.(((((...((((...((.....)).)))).)))))..((.((((((....))).))).))))))))) ( -32.00)
>DroEre_CAF1 4718 100 - 1
UUGUUGGUUGGUAGUUGCCAUUCCG-GUGUCCAGAGUAAGCAGACUCAUCCUUACUGGUAGUCCUUGUUGUCCUGGUUGGUGUUCCACGUCUGGUGGACAC
...((((.((((....))))..)))-)...((((..(((.((((((...((.....)).))))..)))))..))))...((((.((((.....)))))))) ( -26.60)
>DroYak_CAF1 4850 100 - 1
UUGUUGGUUGGUAAUUGCCAUUCCA-GUGUCCAGAGUAAGCAAACUCAUCCUUACUGGUAGUCCUUGCUGUCCUGGUUGGUGUUCCACGCCUGGUGGACAC
....(((.((((....))))..)))-(((((((.((((((...(((...((.....)).))).))))))..((.((((((....))).))).))))))))) ( -31.70)
>consensus
UUGUUGGUUGGUAGUUGCCAUUCCA_GUGUCCAGAGUAAGCAGACUCAUCCUUACUGGUAGUCCUUGCUGUCCUGGUUGGUGUUCCACGCCUGGUGGACAC
....(((..(((....)))...))).(((((((.((((((..((((...((.....)).))))))))))..((.((((((....))).))).))))))))) (-28.08 = -28.04 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:24 2006