Locus 5765

Sequence ID 3R_DroMel_CAF1
Location 14,996,545 – 14,996,646
Length 101
Max. P 0.796550
window9449

overview

Window 9

Location 14,996,545 – 14,996,646
Length 101
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 68.56
Mean single sequence MFE -35.70
Consensus MFE -13.05
Energy contribution -13.47
Covariance contribution 0.42
Combinations/Pair 1.20
Mean z-score -1.93
Structure conservation index 0.37
SVM decision value 0.60
SVM RNA-class probability 0.796550
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14996545 101 + 27905053
GCAGCUGCUGUUCGUUCGGCUUAAGAAUGUG-ACAGUGGCGUAGUUUA------------GGGGGU--CAACCCUC-GCUAAAAAUUACCCGUCAGAGGAAGAAUCUUC--AUCGGAAU
...((..((((((((((.......))))).)-))))..))(((((((.------------(((((.--...)))))-.....)))))))(((...(((((....)))))--..)))... ( -36.50)
>DroSec_CAF1 4058 103 + 1
GCAGCUGCUGUUCGUUCGACUUAAGAAUGUG-ACAGUGGCGUUGCUUA------------GGGGGUCUCAACCCUC-GCUAAAAAGUACCUCUCAGACGAAGAAUCGUC--AUCGAAAU
((.((..((((((((((.......))))).)-))))..))........------------((((((....))))))-))................(((((....)))))--........ ( -34.40)
>DroSim_CAF1 2827 103 + 1
GCAGCUGCUGUUCGUUCGGCUUAAGAAUGUG-ACAGUGGCGUAGUUUA------------GGGGGUCUCAACCCUC-GCAAAAAGGUACCCCUCAAACGAAGAAUCUUC--AUCGAAAU
...((..((((((((((.......))))).)-))))..))...((((.------------.(((((....(((...-.......))))))))..))))((((...))))--........ ( -33.30)
>DroEre_CAF1 4095 107 + 1
GCAGCUGCUGUG----CGGCUUAAG-AUGUG-ACAGUGGCGUAGUUUGAGGGGCGAUUU-GGGGGU--CAACCCUC-GCUAAAAUGUGCCCGUCGAAUUC--UCUCCUCAAUUCGAAAU
...((..(((((----((.......-.))).-))))..))(.(((((((.((((.....-(((((.--...)))))-((......)))))).))))))))--................. ( -36.50)
>DroYak_CAF1 3172 108 + 1
GCAGCAGCUGCU----CGGCUUAAG-AUGUG-ACAGUGGCGUAGUUUGAGGGGCGAUUUAGGGGGU--CAACCCUC-GCUAAAAUGUGCCCGUCAGAUUC--CCUCCUCACGUCGAAAU
((((...)))).----........(-(((((-(..(.((.(.(((((((.(((((.(((((((((.--...))).)-.)))))...))))).))))))))--)).).)))))))..... ( -40.50)
>DroAna_CAF1 7034 89 + 1
GCAGCUGUCGCU---UGGGCUUGAGACAGAGUCCAGAGUCGUUGUCUCA-----------GGGGGU--AAGAUCUCAGCUGAGA-GUG-----------C--UUUCCCCUGCUCGAAAU
...((....))(---(((((.((((((((.(.(....).).))))))))-----------(((((.--(((.((((....))))-...-----------)--)).)))))))))))... ( -33.00)
>consensus
GCAGCUGCUGUU___UCGGCUUAAGAAUGUG_ACAGUGGCGUAGUUUA____________GGGGGU__CAACCCUC_GCUAAAAAGUACCCGUCAGACGA__AAUCCUC__AUCGAAAU
((.(((((((.......................)))))))....................((((((....)))))).))........................................ (-13.05 = -13.47 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:14 2006