Locus 8123

Sequence ID 3L_DroMel_CAF1
Location 21,395,333 – 21,395,425
Length 92
Max. P 0.881689
window13272 window13273

overview

Window 2

Location 21,395,333 – 21,395,425
Length 92
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 96.20
Mean single sequence MFE -20.02
Consensus MFE -17.33
Energy contribution -17.20
Covariance contribution -0.13
Combinations/Pair 1.07
Mean z-score -2.41
Structure conservation index 0.87
SVM decision value 0.92
SVM RNA-class probability 0.881689
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21395333 92 + 23771897
GAUUUAUUUGUUAUUAAACGGAAGUCAUGAAAACGAAAUUGGAAAUUGUAAUUUCGAUUGGUAAUUUACCAAUUUUGUAUUAUUGUUUUCGC
......((((((.(((.((....))..))).))))))...((((((.(((((...((((((((...))))))))....))))).)))))).. ( -19.40)
>DroSec_CAF1 28043 92 + 1
GAUUUAUUUGUUAUUAAACGGAAGUCAUGAAAACGAAAUUGGAAAUUGUAAUUUCGAUUGGUAAUUUACCAAUUUUGUAUUAUUGUUUUCGC
......((((((.(((.((....))..))).))))))...((((((.(((((...((((((((...))))))))....))))).)))))).. ( -19.40)
>DroSim_CAF1 28145 89 + 1
GAUUUAUUUGUUAUUA-ACGGAAGUCAUGA-AACGAAAUUGGAAAUUGUAAUUUCGAUUGGUAAUUU-CCAAUUUUGUAUUAUUGUUUUCGC
................-.((((((..((((-.((((((((((((((((..(.......)..))))))-)))))))))).))))..)))))). ( -23.40)
>DroYak_CAF1 28954 91 + 1
GAUUUAUUUGUUAUUAAACGGAAGUCAUGAAAAUGAAAUUGGAAAUUGUAAUUUCAAUUGGUAAUU-ACCAAUUUCGUAUUAUUGUUUUCGC
......((((((....))))))..((((....))))....((((((.(((((...(((((((....-)))))))....))))).)))))).. ( -17.90)
>consensus
GAUUUAUUUGUUAUUAAACGGAAGUCAUGAAAACGAAAUUGGAAAUUGUAAUUUCGAUUGGUAAUUUACCAAUUUUGUAUUAUUGUUUUCGC
......((((((.(((.((....))..))).))))))...((((((.(((((...(((((((.....)))))))....))))).)))))).. (-17.33 = -17.20 +  -0.13)

alignment

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secondary structure

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dotplot

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Window 3

Location 21,395,333 – 21,395,425
Length 92
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 96.20
Mean single sequence MFE -12.32
Consensus MFE -9.95
Energy contribution -10.70
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.24
Structure conservation index 0.81
SVM decision value 0.15
SVM RNA-class probability 0.606107
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21395333 92 - 23771897
GCGAAAACAAUAAUACAAAAUUGGUAAAUUACCAAUCGAAAUUACAAUUUCCAAUUUCGUUUUCAUGACUUCCGUUUAAUAACAAAUAAAUC
..((((((...........(((((((...))))))).((((((.........)))))))))))).........(((....)))......... ( -13.70)
>DroSec_CAF1 28043 92 - 1
GCGAAAACAAUAAUACAAAAUUGGUAAAUUACCAAUCGAAAUUACAAUUUCCAAUUUCGUUUUCAUGACUUCCGUUUAAUAACAAAUAAAUC
..((((((...........(((((((...))))))).((((((.........)))))))))))).........(((....)))......... ( -13.70)
>DroSim_CAF1 28145 89 - 1
GCGAAAACAAUAAUACAAAAUUGG-AAAUUACCAAUCGAAAUUACAAUUUCCAAUUUCGUU-UCAUGACUUCCGU-UAAUAACAAAUAAAUC
.................(((((((-(((((...............)))))))))))).(((-...((((....))-))..)))......... ( -11.06)
>DroYak_CAF1 28954 91 - 1
GCGAAAACAAUAAUACGAAAUUGGU-AAUUACCAAUUGAAAUUACAAUUUCCAAUUUCAUUUUCAUGACUUCCGUUUAAUAACAAAUAAAUC
..(((((...........(((((((-....)))))))((((((.........)))))).))))).........(((....)))......... ( -10.80)
>consensus
GCGAAAACAAUAAUACAAAAUUGGUAAAUUACCAAUCGAAAUUACAAUUUCCAAUUUCGUUUUCAUGACUUCCGUUUAAUAACAAAUAAAUC
..((((((...........((((((.....)))))).((((((.........))))))))))))............................ ( -9.95 = -10.70 +   0.75)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:49 2006