Locus 6262

Sequence ID 3R_DroMel_CAF1
Location 16,331,426 – 16,331,614
Length 188
Max. P 0.997152
window10215 window10216

overview

Window 5

Location 16,331,426 – 16,331,545
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 93.87
Mean single sequence MFE -36.26
Consensus MFE -31.80
Energy contribution -31.96
Covariance contribution 0.16
Combinations/Pair 1.12
Mean z-score -1.38
Structure conservation index 0.88
SVM decision value 0.66
SVM RNA-class probability 0.815727
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16331426 119 + 27905053
UCAGCCUCAGCGAGGAGGUCAACAACAUAUUCAGCUUCCUGAUCCUGUGGAACUUUAUUGCCGCAUCGCUCGUGAUUUGCUUCGCUGGCUUUCAGAUUACAGCCUCAAAUGUGGAGGAC
....(((((((((((((((((.........((((....))))...(((((..........))))).......)))))).)))))))((((..........)))).........)))).. ( -31.10)
>DroSec_CAF1 34635 117 + 1
--AGCCUUAGCGAGGAGGUCAACAACAUAUUUAGUUUCUUGAUCCUGUGGAACUUUAUUGCCGCCUCGCUGGUGAUUUGCUUUGCAGGCUUUCAGAUUACAGCCUCCAAUGUGGAGGAC
--(((((((((((((.((.((.....(((...((((((..........)))))).))))))).))))))))(..(......)..))))))............(((((.....))))).. ( -36.20)
>DroSim_CAF1 36240 119 + 1
UCAGCCUCAGCGAGGAGGUCAACAACAUAUUUAGUUUCCUGAUCCUGUGGAACUUUAUUGCAGCCUCGCUGGUGAUUUGCUUUGCAGGCUUUCAGAUUACAGCCUCCAAUGUGGAGGAC
..(((((((((((((.(((((..(((.......)))...)))))(((..(.......)..)))))))))))(..(......)..))))))............(((((.....))))).. ( -38.00)
>DroEre_CAF1 32806 119 + 1
UCAGCCUUAGCGAGGAGGUUAACAACAUAUUUAGCUUCCUGAUCCUGUGGAACUUUAUUGCCGCUUCGCUGGUGAUUUGCUUCGCUGGCUUUCAGAUUACAGCCUCCAAUGUGGAGGAC
..((((..((((((((((((((........))))))))).......((((..........)))).)))))(((((......)))))))))............(((((.....))))).. ( -37.90)
>DroYak_CAF1 47842 119 + 1
UCAGCCUUAGCGAGGAGGUUAACAACAUAUUUAGCUUCCUGAUCCUCUGGAACUUUAUUGCCGCCUCGCUGGUGAUUUGCUUCGCUGGCUUUCAGAUAACAGCCUCCAAUGUGGAGGAC
..((((..(((((((.(((.........((..((.((((.(.....).))))))..)).))).)))))))(((((......)))))))))............(((((.....))))).. ( -38.10)
>consensus
UCAGCCUUAGCGAGGAGGUCAACAACAUAUUUAGCUUCCUGAUCCUGUGGAACUUUAUUGCCGCCUCGCUGGUGAUUUGCUUCGCUGGCUUUCAGAUUACAGCCUCCAAUGUGGAGGAC
..((((.((((((((.(((.........((..((.((((.........))))))..)).))).))))))))((((......)))).))))............(((((.....))))).. (-31.80 = -31.96 +   0.16)

alignment

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secondary structure

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dotplot

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Window 6

Location 16,331,505 – 16,331,614
Length 109
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 93.58
Mean single sequence MFE -30.17
Consensus MFE -29.60
Energy contribution -29.52
Covariance contribution -0.08
Combinations/Pair 1.12
Mean z-score -1.71
Structure conservation index 0.98
SVM decision value 2.81
SVM RNA-class probability 0.997152
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16331505 109 + 27905053
CUUCGCUGGCUUUCAGAUUACAGCCUCAAAUGUGGAGGACAUAGUGUUGUACUUCAUAUUUUUUUCAGCUUCGCUGGUUCAAGUCUUUGUGGUCUGUUACUACGGCGAU
..((((((.....((((((((((....((((((((((.(((......))).))))))))))...(((((...))))).........))))))))))......)))))). ( -35.50)
>DroSec_CAF1 34712 109 + 1
CUUUGCAGGCUUUCAGAUUACAGCCUCCAAUGUGGAGGACAUUGUUUUGUACUUCAUAUUUUUCUCAGCUUCGCUGGUUCAAGUCUUUGUGGUCUGUUACUACGGCGAU
..((((.......((((((((((.....(((((((((.(((......))).)))))))))....(((((...))))).........))))))))))........)))). ( -28.56)
>DroSim_CAF1 36319 109 + 1
CUUUGCAGGCUUUCAGAUUACAGCCUCCAAUGUGGAGGACAUAGUGUUGUACUUCAUAUUUUUCUCGGCCUCGCUGGUUCAAGUUUUUGUGGUCUGUUACUACGGCGAU
..((((.......((((((((((((...(((((((((.(((......))).)))))))))......)))...(((......)))...)))))))))........)))). ( -28.36)
>DroEre_CAF1 32885 109 + 1
CUUCGCUGGCUUUCAGAUUACAGCCUCCAAUGUGGAGGACAUUGUGUUGUACUUCAUAUUUUUCUCGGCCUCGCUGGUACAAGUUUUUGUGGUCUGUUACUAUGGCGAU
..((((((.....(((((((((((((((.....)))))........((((((.............((((...))))))))))....))))))))))......)))))). ( -32.11)
>DroYak_CAF1 47921 109 + 1
CUUCGCUGGCUUUCAGAUAACAGCCUCCAAUGUGGAGGACAUUGUGUUGUACUUCAUAUUUUUCUCGGCCUCGUUAGUUCAAGUUUUUGUGGUCUGUUACUAUGGCGAU
..((((((.....(((((.((((((...(((((((((.(((......))).)))))))))......)))...(......).......))).)))))......)))))). ( -26.30)
>consensus
CUUCGCUGGCUUUCAGAUUACAGCCUCCAAUGUGGAGGACAUUGUGUUGUACUUCAUAUUUUUCUCGGCCUCGCUGGUUCAAGUUUUUGUGGUCUGUUACUACGGCGAU
..((((((.....((((((((((.....(((((((((.(((......))).)))))))))....(((((...))))).........))))))))))......)))))). (-29.60 = -29.52 +  -0.08)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:04 2006