Locus 5790

Sequence ID	X_DroMel_CAF1
Location	15,026,065 – 15,026,180
Length	115
Max. P	0.963194

overview

Window 6

Location	15,026,065 – 15,026,180
Length	115
Sequences	4
Columns	118
Reading direction	forward
Mean pairwise identity	84.89
Mean single sequence MFE	-25.68
Consensus MFE	-18.40
Energy contribution	-18.52
Covariance contribution	0.12
Combinations/Pair	1.19
Mean z-score	-2.61
Structure conservation index	0.72
SVM decision value	1.55
SVM RNA-class probability	0.963194
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15026065 115 + 22224390
AUUUGCGUGCAAAAACUAGAACAACAUUUUCACAAUGGUUUUAUCCCUAU---GUAUGCCAUUUUUGCUUUAUCAGUAUAAAGCAAUUGACUAAUUAAGCAGAUUGCAUGCAGGCCCC
.(((((((((((.....................((((((..(((......---))).))))))(((((((.((.(((...((....)).))).)).)))))))))))))))))).... ( -27.20)
>DroSec_CAF1 43588 113 + 1
AUUUGCAUGCAAAAGCUAGGACAACAUU-CCACAAUGGUUUUAUCCCUAU---GCAUGCUAUUUUUGCUUUUCCAUAAUAAAGCAAUUGACUAAUUAAGCAGAUUGCAUGCAG-CCUC
..((((((((((..((((((........-((.....)).......)))).---)).(((((((.(((((((........)))))))......)))..))))..))))))))))-.... ( -28.26)
>DroSim_CAF1 47086 113 + 1
AUUUGCAUGCAAAAGCUAGGACAACAUU-CCACAAUGGUUUUAUCCCUAU---GCAUGCUAUUUUUGCUUUCCCAGAAUAAAGCAAUUGACUAAUUAAGCAGAUUGCAUGCAG-CCCC
..((((((((((..((((((........-((.....)).......)))).---)).(((((((.(((((((........)))))))......)))..))))..))))))))))-.... ( -27.46)
>DroEre_CAF1 44535 116 + 1
AGUUGCUUGCAAAUACUAAA-CAACAUU-CCACAAAGAUUUUGCCCAUAUAGUGUACAUCCUUUUUUCUUUUCCCGAAUAAAGCAAUUGACUAAUUAAGCAGAUUGCAUGCAAGCCCC
....(((((((.((((((..-...((.(-(......))...))......))))))...........................((((((..((.....))..)))))).)))))))... ( -19.80)
>consensus
AUUUGCAUGCAAAAACUAGAACAACAUU_CCACAAUGGUUUUAUCCCUAU___GCAUGCCAUUUUUGCUUUUCCAGAAUAAAGCAAUUGACUAAUUAAGCAGAUUGCAUGCAG_CCCC
..((((((((((..(((................((((((..................)))))).(((((((........)))))))...........)))...))))))))))..... (-18.40 = -18.52 +   0.12)

alignment

secondary structure

dotplot

Window 7

Location	15,026,065 – 15,026,180
Length	115
Sequences	4
Columns	118
Reading direction	reverse
Mean pairwise identity	84.89
Mean single sequence MFE	-29.23
Consensus MFE	-22.27
Energy contribution	-22.90
Covariance contribution	0.63
Combinations/Pair	1.23
Mean z-score	-1.92
Structure conservation index	0.76
SVM decision value	0.75
SVM RNA-class probability	0.839483
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15026065 115 - 22224390
GGGGCCUGCAUGCAAUCUGCUUAAUUAGUCAAUUGCUUUAUACUGAUAAAGCAAAAAUGGCAUAC---AUAGGGAUAAAACCAUUGUGAAAAUGUUGUUCUAGUUUUUGCACGCAAAU
......(((.(((((...(((......((((.(((((((((....)))))))))...))))....---...(((((((...((((.....))))))))))))))..))))).)))... ( -27.30)
>DroSec_CAF1 43588 113 - 1
GAGG-CUGCAUGCAAUCUGCUUAAUUAGUCAAUUGCUUUAUUAUGGAAAAGCAAAAAUAGCAUGC---AUAGGGAUAAAACCAUUGUGG-AAUGUUGUCCUAGCUUUUGCAUGCAAAU
....-.(((((((((...(((...........(((((((........)))))))..(((((((.(---((((((......)).))))).-.)))))))...)))..)))))))))... ( -31.90)
>DroSim_CAF1 47086 113 - 1
GGGG-CUGCAUGCAAUCUGCUUAAUUAGUCAAUUGCUUUAUUCUGGGAAAGCAAAAAUAGCAUGC---AUAGGGAUAAAACCAUUGUGG-AAUGUUGUCCUAGCUUUUGCAUGCAAAU
....-.(((((((((...(((...........(((((((........)))))))..(((((((.(---((((((......)).))))).-.)))))))...)))..)))))))))... ( -32.00)
>DroEre_CAF1 44535 116 - 1
GGGGCUUGCAUGCAAUCUGCUUAAUUAGUCAAUUGCUUUAUUCGGGAAAAGAAAAAAGGAUGUACACUAUAUGGGCAAAAUCUUUGUGG-AAUGUUG-UUUAGUAUUUGCAAGCAACU
(..((((((((((....((((((..((((....(.((((.(((.......))).)))).).....))))..))))))...(((....))-)......-....)))..)))))))..). ( -25.70)
>consensus
GGGG_CUGCAUGCAAUCUGCUUAAUUAGUCAAUUGCUUUAUUCUGGAAAAGCAAAAAUAGCAUAC___AUAGGGAUAAAACCAUUGUGG_AAUGUUGUCCUAGCUUUUGCAUGCAAAU
......(((((((((...(((......(((..(((((((........)))))))....)))..........(((((((..((.....)).....))))))))))..)))))))))... (-22.27 = -22.90 +   0.63)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:27 2006