Locus 4514

Sequence ID 2R_DroMel_CAF1
Location 14,812,208 – 14,812,328
Length 120
Max. P 0.799586
window7232 window7233

overview

Window 2

Location 14,812,208 – 14,812,328
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.50
Mean single sequence MFE -22.05
Consensus MFE -17.93
Energy contribution -17.33
Covariance contribution -0.60
Combinations/Pair 1.22
Mean z-score -1.60
Structure conservation index 0.81
SVM decision value 0.61
SVM RNA-class probability 0.799586
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14812208 120 + 20766785
CGCCAUCGCCGCUAAUUUAGUGGCUUAUAUUUGAAUGAAUUAUACAUUUCUUGUAUAGAUUUUGUCUCGCUGACAUGGUUUUGCUUCGGUUUAUUAUUUGUUUUUAUUUAUUUUGUUAGU
.......(((((((...))))))).......(((((((((((((((.....)))))))....((((.....))))((((...((....))..))))......)))))))).......... ( -23.20)
>DroSec_CAF1 14049 114 + 1
CGCCAUCGCCGCUAAUUUAGUGGCUUAUAUUUUAAUGAAUUAUACAUUUCUUGUAUAGAUUUUGUCUCGCUGACAUGGUUUUG------UUUAUUAUUUGUUUUUAUUUAUUUUGUUAGU
.......(((((((...)))))))........((((((((((((((.....))))))(((..((((.....))))..)))..)------)))))))........................ ( -21.70)
>DroSim_CAF1 8311 120 + 1
CGCCAUCGCCGCUAAUUUAGUGGCUUAUAUUUUAAUGAAUUAUACAUUUCUUGUAUAGAUUUUGUCGCGCUGACAUGGUUUUGCUUCGGUUUAUUAUUUGUUUUUAUUUAUUUUGUUAGU
.((....(((((((...)))))))...............(((((((.....)))))))........))(((((((..((...((....))...................))..))))))) ( -22.95)
>DroEre_CAF1 6901 119 + 1
CGCCAUCGCCGCCUAUUUAGUGGGUUAUAUUUUAAUAAAUUAUACGUU-UUUGUAUAGAUUUUGUGUCUCUGACAUGGUUUUGCUUCGCUUUAUUAUUUGUUUUUAUUUAUUUUGUCAGA
(((.(((...((((((...))))))...............((((((..-..)))))))))...)))..(((((((..((........((..........))........))..))))))) ( -17.09)
>DroYak_CAF1 8204 120 + 1
CGCCAUCGCCGCCAAUUGGGUGGCUUAUAUUUUAAUGAAUUAUACAUUUUUUGUAUAGAUUUCGUGUCGCUGACAUGGUUUUGCUUCGCUUUAUUAUUUGUUUUUAUUUAUUUUGUCAGA
.......((((((.....))))))..........((((((((((((.....)))))))..)))))....((((((..((........((..........))........))..)))))). ( -25.29)
>consensus
CGCCAUCGCCGCUAAUUUAGUGGCUUAUAUUUUAAUGAAUUAUACAUUUCUUGUAUAGAUUUUGUCUCGCUGACAUGGUUUUGCUUCGCUUUAUUAUUUGUUUUUAUUUAUUUUGUUAGU
.......((((((.....))))))..........((((((((((((.....)))))))..)))))...(((((((..((..............................))..))))))) (-17.93 = -17.33 +  -0.60)

alignment

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secondary structure

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dotplot

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Window 3

Location 14,812,208 – 14,812,328
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.50
Mean single sequence MFE -14.98
Consensus MFE -11.56
Energy contribution -11.56
Covariance contribution -0.00
Combinations/Pair 1.13
Mean z-score -1.51
Structure conservation index 0.77
SVM decision value 0.03
SVM RNA-class probability 0.548298
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14812208 120 - 20766785
ACUAACAAAAUAAAUAAAAACAAAUAAUAAACCGAAGCAAAACCAUGUCAGCGAGACAAAAUCUAUACAAGAAAUGUAUAAUUCAUUCAAAUAUAAGCCACUAAAUUAGCGGCGAUGGCG
....................................((.......((((.....))))..(((((((((.....))))))................(((.(((...))).)))))).)). ( -15.80)
>DroSec_CAF1 14049 114 - 1
ACUAACAAAAUAAAUAAAAACAAAUAAUAAA------CAAAACCAUGUCAGCGAGACAAAAUCUAUACAAGAAAUGUAUAAUUCAUUAAAAUAUAAGCCACUAAAUUAGCGGCGAUGGCG
...............................------.....((.((((.....))))..(((((((((.....))))))................(((.(((...))).)))))))).. ( -14.70)
>DroSim_CAF1 8311 120 - 1
ACUAACAAAAUAAAUAAAAACAAAUAAUAAACCGAAGCAAAACCAUGUCAGCGCGACAAAAUCUAUACAAGAAAUGUAUAAUUCAUUAAAAUAUAAGCCACUAAAUUAGCGGCGAUGGCG
....................................((.......((((.....))))..(((((((((.....))))))................(((.(((...))).)))))).)). ( -15.80)
>DroEre_CAF1 6901 119 - 1
UCUGACAAAAUAAAUAAAAACAAAUAAUAAAGCGAAGCAAAACCAUGUCAGAGACACAAAAUCUAUACAAA-AACGUAUAAUUUAUUAAAAUAUAACCCACUAAAUAGGCGGCGAUGGCG
(((((((......................................)))))))........((((((((...-...))))).................((.((.....)).)).))).... ( -10.66)
>DroYak_CAF1 8204 120 - 1
UCUGACAAAAUAAAUAAAAACAAAUAAUAAAGCGAAGCAAAACCAUGUCAGCGACACGAAAUCUAUACAAAAAAUGUAUAAUUCAUUAAAAUAUAAGCCACCCAAUUGGCGGCGAUGGCG
.((((((......................................)))))).....((..(((((((((.....))))))................(((.((.....)).))))))..)) ( -17.96)
>consensus
ACUAACAAAAUAAAUAAAAACAAAUAAUAAACCGAAGCAAAACCAUGUCAGCGAGACAAAAUCUAUACAAGAAAUGUAUAAUUCAUUAAAAUAUAAGCCACUAAAUUAGCGGCGAUGGCG
..............................................((((.............((((((.....))))))................(((.((.....)).)))..)))). (-11.56 = -11.56 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:51 2006