Locus 5175

Sequence ID 3L_DroMel_CAF1
Location 14,245,930 – 14,246,020
Length 90
Max. P 0.996439
window8193 window8194

overview

Window 3

Location 14,245,930 – 14,246,020
Length 90
Sequences 6
Columns 90
Reading direction forward
Mean pairwise identity 91.56
Mean single sequence MFE -26.97
Consensus MFE -24.32
Energy contribution -24.10
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.51
Structure conservation index 0.90
SVM decision value 2.70
SVM RNA-class probability 0.996439
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14245930 90 + 23771897
UCUUCUGUUGUUUGCUGUCUGUUUUGCUGUUUUGCAUUGUUCUGUGAAGCGCUGCGCCAUUUUGCGAUGGCAAAAGGCAUCUUACAGAUA
...(((((....((((....((...((.((((..((......))..)))))).))((((((....))))))....))))....))))).. ( -27.10)
>DroPse_CAF1 72969 80 + 1
UUUG----------CUGUCUGUUUUGCUGUUUUGCAUUGUUCUGUGAAGCGCUGCGCCAUUUUGCGAUGGCAAAAGGCAUCUUACAGAUA
....----------.(((((((..((((((((..((......))..)))).....((((((....))))))....))))....))))))) ( -25.60)
>DroEre_CAF1 75758 90 + 1
UCUUCUGUUGUUUGCUGUCUGCUUUGCUGUUUUGCAUUGUUCUGUGAAGCGCUGCGCCAUUUUGCGAUGGCAAAAGGCAUCUUACAGAUA
...(((((....((((....((...((.((((..((......))..)))))).))((((((....))))))....))))....))))).. ( -28.70)
>DroYak_CAF1 79153 90 + 1
UCCUCUGUUGUUUGCUGUCUGCUUUGCUGUUUUGCAUUGUUCUGUGAAGCGCUGCGCCAUUUUGCGAUGGCAAAAGGCAUCUUACGGAUA
...(((((....((((....((...((.((((..((......))..)))))).))((((((....))))))....))))....))))).. ( -27.90)
>DroAna_CAF1 73554 90 + 1
UCCAUAGUUACUUGCUGUCUGUUUGGCUGUUUUGCAUUGUUCUGUGAAGCGCUGCGCCAUUUUGCGAUGGCAAAAGGCAUCUUACGGAUA
.....(((.....)))((((((..(((.((((..((......))..))))))...(((.((((((....)))))))))..)..)))))). ( -25.90)
>DroPer_CAF1 84612 90 + 1
UUUGCUGUUGUUUGCUGUCUGUUUUGCUGUUUUGCAUUGUUCUGUGAAGCGCUGCGCCAUUUUGCGAUGGCAAAAGGCAUCUUACAGAUA
...((........))(((((((..((((((((..((......))..)))).....((((((....))))))....))))....))))))) ( -26.60)
>consensus
UCUUCUGUUGUUUGCUGUCUGUUUUGCUGUUUUGCAUUGUUCUGUGAAGCGCUGCGCCAUUUUGCGAUGGCAAAAGGCAUCUUACAGAUA
...............((((((....((.((((..((......))..))))))...(((.((((((....)))))))))......)))))) (-24.32 = -24.10 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,245,930 – 14,246,020
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 91.56
Mean single sequence MFE -18.93
Consensus MFE -16.19
Energy contribution -16.30
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -1.93
Structure conservation index 0.86
SVM decision value 0.75
SVM RNA-class probability 0.841108
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14245930 90 - 23771897
UAUCUGUAAGAUGCCUUUUGCCAUCGCAAAAUGGCGCAGCGCUUCACAGAACAAUGCAAAACAGCAAAACAGACAGCAAACAACAGAAGA
..(((((.....(((((((((....)))))).)))((.(..((....))..)..(((......))).........)).....)))))... ( -19.00)
>DroPse_CAF1 72969 80 - 1
UAUCUGUAAGAUGCCUUUUGCCAUCGCAAAAUGGCGCAGCGCUUCACAGAACAAUGCAAAACAGCAAAACAGACAG----------CAAA
..((((((((.((((((((((....)))))).)))).....))).)))))....(((......)))..........----------.... ( -18.40)
>DroEre_CAF1 75758 90 - 1
UAUCUGUAAGAUGCCUUUUGCCAUCGCAAAAUGGCGCAGCGCUUCACAGAACAAUGCAAAACAGCAAAGCAGACAGCAAACAACAGAAGA
..(((((.....(((((((((....)))))).)))((..(((((..........(((......))))))).)...)).....)))))... ( -20.40)
>DroYak_CAF1 79153 90 - 1
UAUCCGUAAGAUGCCUUUUGCCAUCGCAAAAUGGCGCAGCGCUUCACAGAACAAUGCAAAACAGCAAAGCAGACAGCAAACAACAGAGGA
....(((....((((((((((....)))))).))))..)))((((.........(((......)))..((.....))........)))). ( -18.20)
>DroAna_CAF1 73554 90 - 1
UAUCCGUAAGAUGCCUUUUGCCAUCGCAAAAUGGCGCAGCGCUUCACAGAACAAUGCAAAACAGCCAAACAGACAGCAAGUAACUAUGGA
..((((((....(((((((((....)))))).)))(((..(.(((...))))..)))...........................)))))) ( -18.00)
>DroPer_CAF1 84612 90 - 1
UAUCUGUAAGAUGCCUUUUGCCAUCGCAAAAUGGCGCAGCGCUUCACAGAACAAUGCAAAACAGCAAAACAGACAGCAAACAACAGCAAA
..((((((((.((((((((((....)))))).)))).....))).)))))....(((......))).........((........))... ( -19.60)
>consensus
UAUCUGUAAGAUGCCUUUUGCCAUCGCAAAAUGGCGCAGCGCUUCACAGAACAAUGCAAAACAGCAAAACAGACAGCAAACAACAGAAGA
..(((((.....(((((((((....)))))).)))(((..(.(((...))))..)))...........)))))................. (-16.19 = -16.30 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:48 2006