Locus 5539

Sequence ID 2R_DroMel_CAF1
Location 17,690,242 – 17,690,341
Length 99
Max. P 0.603131
window8888

overview

Window 8

Location 17,690,242 – 17,690,341
Length 99
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 83.41
Mean single sequence MFE -31.45
Consensus MFE -20.94
Energy contribution -20.90
Covariance contribution -0.04
Combinations/Pair 1.14
Mean z-score -1.77
Structure conservation index 0.67
SVM decision value 0.14
SVM RNA-class probability 0.603131
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17690242 99 + 20766785
GAUAAAUAUAAAAAGCCGGUUUGCAGCCGUUUUUGUUUGG--CGAACGAA--UCGAACUCGAUCGGGGAACGG----CGUCCUGGCUGCGAAUACGGAAACUUAUCU-
(((((..........(((((((((((((...((((.....--))))(((.--(((....))))))((((....----..)))))))))))))).)))....))))).- ( -29.74)
>DroSec_CAF1 7331 101 + 1
GAUAAAUGGAAAAAGCCGGUUUGCAGCCGUUUUUGUUUGG--CAAAUGAACGUCGAACUCGAUCGGGGAACGG----CGUUCUGGCUUUGAAUACGGAAACUUAUCU-
(((((......((((((((...((.(((((((((((((((--(........))))))).(....)))))))))----))).))))))))......(....)))))).- ( -32.90)
>DroSim_CAF1 4386 103 + 1
GAUAAAUGGAAAAAGCCGGUUUGCAGCCGUUUUUGAAUGAAACGAAUGAACGUCGAACUCGAUCGGGGAACGG----CGUUCCGGCUUUGAAUACGGAAACUUAUCU-
(((((......((((((((....((..((((((.....))))))..))(((((((..(((....)))...)))----))))))))))))......(....)))))).- ( -33.30)
>DroEre_CAF1 8138 96 + 1
----AAUGGA-AAAGCCGGUUUGCAGCCGAUUUUGUUUGG--CGAAU----GUCGAACUCGAUCGAAGAACGCCUGGCGUUCUGGCUUCGAAUACGGGAACUUUGCU-
----......-....((((((((.((((((((..((((((--(....----)))))))..))))..(((((((...))))))))))).))))).)))..........- ( -33.80)
>DroYak_CAF1 7361 97 + 1
GAUAAAUGGA-AAAGCCGGUUUGCAGCCGCUUUUGUUUGG--CGAAU----GUCGAACUCGAUCGCGGAACGC----CGUUCCGACUUCGAAUACGGGAACUUAACUC
..........-....((((((((((..((((.......))--))..)----).)))))((((...((((((..----.))))))...))))...)))........... ( -27.50)
>consensus
GAUAAAUGGAAAAAGCCGGUUUGCAGCCGUUUUUGUUUGG__CGAAUGAA_GUCGAACUCGAUCGGGGAACGG____CGUUCUGGCUUCGAAUACGGAAACUUAUCU_
...............((((((((.((((.......................((((....))))...((((((.....)))))))))).))))).)))........... (-20.94 = -20.90 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:16 2006