Locus 3949

Sequence ID	X_DroMel_CAF1
Location	10,509,061 – 10,509,172
Length	111
Max. P	0.995888

overview

Window 5

Location	10,509,061 – 10,509,172
Length	111
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	91.65
Mean single sequence MFE	-28.60
Consensus MFE	-23.14
Energy contribution	-23.62
Covariance contribution	0.48
Combinations/Pair	1.07
Mean z-score	-2.80
Structure conservation index	0.81
SVM decision value	2.63
SVM RNA-class probability	0.995888
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10509061 111 + 22224390
CAGCUUUUGUUGGCCAUUUGGCUGCAGUUUGCCUUUGUUUAACAGGCCUUUUGUUUC-AGUCUUUUUCAUUAUUUAAAUGCAAUUUUAGAUGCCAGAUGCCAACCACCCGCU
.(((....((((((.(((((((.((((...((((.(.....).))))...))))...-.............(((((((......)))))))))))))))))))).....))) ( -29.10)
>DroSec_CAF1 40431 111 + 1
CAGCUUUUGUUGGACAUUUGGCUGCAGUUUGCCUUUGUUUGACCGGCCUUUUGUUUC-AGGCUUUUUCAUUAUUUAAAUGCAAUUUUAUAUGCCAGAUGCCAACCACCCGCU
.(((....(((((.((((((((......((((.((((..(((..(((((........-)))))...))).....)))).))))........))))))))))))).....))) ( -31.84)
>DroSim_CAF1 43727 111 + 1
CAGCUUUUGUUGGACAUUUGGCUGCAGUUUGCCUUUGUUUGACCGGCCUUUUGUUUC-AGGCUUUUUCAUUAUUUAAAUGCAAUUUUAUAUGCCAGAUGCCAACCACCCGCU
.(((....(((((.((((((((......((((.((((..(((..(((((........-)))))...))).....)))).))))........))))))))))))).....))) ( -31.84)
>DroEre_CAF1 41243 111 + 1
CGGCUUUUGUUGGCCAUUUGGCUGCAGCUUGUCUUUGUUUGACCGGCCUUUUGUUUC-AGCCUUUUCCAUUAUUUAAAUGCAAUUUUAGAUGCCAGAUGCCAACCACCCGCU
(((.....((((((.(((((((....(((.(((.......))).)))..........-.............(((((((......))))))))))))))))))))...))).. ( -29.70)
>DroYak_CAF1 41986 106 + 1
CAGCUUUUGUUGGCCAUUUGGCUGCAUUUUGCUAUUGUUUGACCGGCCUUUUGUUUUAAGACUUUUUCAUUAUUUAAAUGCAAUUUUAGAUGCCAGUUGCCAACCA------
........((((((...((((((((((((....((....(((..((.(((.......))).))...)))..))..))))))).........)))))..))))))..------ ( -20.50)
>consensus
CAGCUUUUGUUGGCCAUUUGGCUGCAGUUUGCCUUUGUUUGACCGGCCUUUUGUUUC_AGGCUUUUUCAUUAUUUAAAUGCAAUUUUAGAUGCCAGAUGCCAACCACCCGCU
........(((((.((((((((.((((...(((...........)))...)))).................(((((((......))))))))))))))))))))........ (-23.14 = -23.62 +   0.48)

alignment

secondary structure

dotplot

Window 6

Location	10,509,061 – 10,509,172
Length	111
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	91.65
Mean single sequence MFE	-28.14
Consensus MFE	-19.44
Energy contribution	-19.84
Covariance contribution	0.40
Combinations/Pair	1.12
Mean z-score	-2.90
Structure conservation index	0.69
SVM decision value	0.37
SVM RNA-class probability	0.708347
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10509061 111 - 22224390
AGCGGGUGGUUGGCAUCUGGCAUCUAAAAUUGCAUUUAAAUAAUGAAAAAGACU-GAAACAAAAGGCCUGUUAAACAAAGGCAAACUGCAGCCAAAUGGCCAACAAAAGCUG
(((.....((((((((.((((...........((((.....)))).........-..........((((.........))))........)))).)).))))))....))). ( -26.80)
>DroSec_CAF1 40431 111 - 1
AGCGGGUGGUUGGCAUCUGGCAUAUAAAAUUGCAUUUAAAUAAUGAAAAAGCCU-GAAACAAAAGGCCGGUCAAACAAAGGCAAACUGCAGCCAAAUGUCCAACAAAAGCUG
(((.....((((((((.((((......................(((....((((-........))))...))).......((.....)).)))).))).)))))....))). ( -29.40)
>DroSim_CAF1 43727 111 - 1
AGCGGGUGGUUGGCAUCUGGCAUAUAAAAUUGCAUUUAAAUAAUGAAAAAGCCU-GAAACAAAAGGCCGGUCAAACAAAGGCAAACUGCAGCCAAAUGUCCAACAAAAGCUG
(((.....((((((((.((((......................(((....((((-........))))...))).......((.....)).)))).))).)))))....))). ( -29.40)
>DroEre_CAF1 41243 111 - 1
AGCGGGUGGUUGGCAUCUGGCAUCUAAAAUUGCAUUUAAAUAAUGGAAAAGGCU-GAAACAAAAGGCCGGUCAAACAAAGACAAGCUGCAGCCAAAUGGCCAACAAAAGCCG
....(((.((((((.....(((........))).................((((-(........(((..(((.......)))..))).))))).....))))))....))). ( -31.80)
>DroYak_CAF1 41986 106 - 1
------UGGUUGGCAACUGGCAUCUAAAAUUGCAUUUAAAUAAUGAAAAAGUCUUAAAACAAAAGGCCGGUCAAACAAUAGCAAAAUGCAGCCAAAUGGCCAACAAAAGCUG
------..((((((...((((......................(((....(((((.......)))))...))).......((.....)).))))....))))))........ ( -23.30)
>consensus
AGCGGGUGGUUGGCAUCUGGCAUCUAAAAUUGCAUUUAAAUAAUGAAAAAGCCU_GAAACAAAAGGCCGGUCAAACAAAGGCAAACUGCAGCCAAAUGGCCAACAAAAGCUG
....(((.((((((((.((((...........((((.....))))....................((..(((.......))).....)).)))).))).)))))....))). (-19.44 = -19.84 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:32 2006