Locus 194

Sequence ID 3R_DroMel_CAF1
Location 854,776 – 854,896
Length 120
Max. P 0.863577
window335 window336

overview

Window 5

Location 854,776 – 854,896
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.39
Mean single sequence MFE -37.75
Consensus MFE -30.04
Energy contribution -30.98
Covariance contribution 0.94
Combinations/Pair 1.19
Mean z-score -2.15
Structure conservation index 0.80
SVM decision value 0.84
SVM RNA-class probability 0.863577
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 854776 120 + 27905053
GGGUGUUUUGCUCCACGAUAUGGUGUGAACUUAUUGUGAAUGGCCAUUCAUCGCAGCAGUAGAGUUCGAAGCUCUCAAAAGCAUCGUAUGUGGUAAUUUACAAUGUGCAAAGUUUUUCAU
(((..(((((((((((......))).))...((((((((((.(((((....((..((...(((((.....))))).....))..))...))))).)))))))))).))))))...))).. ( -29.60)
>DroSec_CAF1 30062 120 + 1
GGUUGUUUUGCCGCACGAUGUGGUGUGAACUCAUUGUGAAUGGCCAUUCAUCGCAGCAGUAGAGUUCGAAGCUCUUAAGAGCUUCGUAUUCGGUAAUUUACAAUGUGCAAAGUUCCUCAU
((...(((((((((((......)))))....((((((((((.(((.......((....)).((((.((((((((....)))))))).))))))).)))))))))).))))))..)).... ( -42.90)
>DroSim_CAF1 29065 120 + 1
GGGUGUUUUGCCGCACGAUGUGGUGUGAACUCAUUGUGAAUGGCCAUUCAUCGCAGCAGUAGAGUUCGAAGCUCUUAAGAGCUUCGUAUUCGGUAAUUUACAAUGUGCAAAGUUCCUCAU
(((..(((((((((((......)))))....((((((((((.(((.......((....)).((((.((((((((....)))))))).))))))).)))))))))).))))))..)))... ( -45.20)
>DroEre_CAF1 30279 120 + 1
GGGUGUUUUGCUGCAAGAUGUGGUGUGAACUUAUUGCGAAUGGCCAUUCAUCGCAGCAGUAGAGUUUGAAGCGCUUAAGAGCUUCGUAUUCAGUAAUUUACAGUGUCCAAAGCUCCUCAU
(((.((((((((((.....(..(((......)))..)((((....))))...)))))....((((.((((((........)))))).)))).................))))).)))... ( -33.30)
>consensus
GGGUGUUUUGCCGCACGAUGUGGUGUGAACUCAUUGUGAAUGGCCAUUCAUCGCAGCAGUAGAGUUCGAAGCUCUUAAGAGCUUCGUAUUCGGUAAUUUACAAUGUGCAAAGUUCCUCAU
(((.((((((((((((......)))))....((((((((((.(((.......((....)).((((.((((((((....)))))))).))))))).)))))))))).))))))).)))... (-30.04 = -30.98 +   0.94)

alignment

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secondary structure

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dotplot

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Window 6

Location 854,776 – 854,896
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.39
Mean single sequence MFE -28.22
Consensus MFE -22.24
Energy contribution -22.93
Covariance contribution 0.69
Combinations/Pair 1.13
Mean z-score -1.55
Structure conservation index 0.79
SVM decision value 0.04
SVM RNA-class probability 0.551797
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 854776 120 - 27905053
AUGAAAAACUUUGCACAUUGUAAAUUACCACAUACGAUGCUUUUGAGAGCUUCGAACUCUACUGCUGCGAUGAAUGGCCAUUCACAAUAAGUUCACACCAUAUCGUGGAGCAAAACACCC
.........(((((..(((((.(((..((((((.((..((.....((((.......))))...))..)))))..)))..))).)))))...(((((........))))))))))...... ( -21.60)
>DroSec_CAF1 30062 120 - 1
AUGAGGAACUUUGCACAUUGUAAAUUACCGAAUACGAAGCUCUUAAGAGCUUCGAACUCUACUGCUGCGAUGAAUGGCCAUUCACAAUGAGUUCACACCACAUCGUGCGGCAAAACAACC
..(((....(((((.....)))))..........((((((((....))))))))..)))...((((((.((((.(((..((((.....)))).....)))..))))))))))........ ( -32.30)
>DroSim_CAF1 29065 120 - 1
AUGAGGAACUUUGCACAUUGUAAAUUACCGAAUACGAAGCUCUUAAGAGCUUCGAACUCUACUGCUGCGAUGAAUGGCCAUUCACAAUGAGUUCACACCACAUCGUGCGGCAAAACACCC
..(((....(((((.....)))))..........((((((((....))))))))..)))...((((((.((((.(((..((((.....)))).....)))..))))))))))........ ( -32.30)
>DroEre_CAF1 30279 120 - 1
AUGAGGAGCUUUGGACACUGUAAAUUACUGAAUACGAAGCUCUUAAGCGCUUCAAACUCUACUGCUGCGAUGAAUGGCCAUUCGCAAUAAGUUCACACCACAUCUUGCAGCAAAACACCC
...((((((((((......(((...)))......))))))))))..................(((((((((((((.((.....)).....))))).........))))))))........ ( -26.70)
>consensus
AUGAGGAACUUUGCACAUUGUAAAUUACCGAAUACGAAGCUCUUAAGAGCUUCGAACUCUACUGCUGCGAUGAAUGGCCAUUCACAAUAAGUUCACACCACAUCGUGCAGCAAAACACCC
..(((....(((((.....)))))..........((((((((....))))))))..)))...((((((((((..(((......((.....)).....)))))))..))))))........ (-22.24 = -22.93 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:58 2006